Ubiquitin,60S ribosomal protein L8,(E3-independent) E2 ubiquitin-conjugating enzyme fusion
Homo sapiens
State in the Current Structure
| Assembly | Oligomeric State | Construct | Mutations and Modifications | Ligands, Ions and Associated Components | Method and Experimental Conditions | Structure Quality |
|---|---|---|---|---|---|---|
| 1 | Insufficient information Heteromer Protein × 4 PDB declaration: tetrameric（4） Consistent with protein copy count | Chain A； UniProt 1–257 Chain D； UniProt 1–257 | Not recorded | Nucleosome assembly protein 1-like 1 × 2 （P55209） | ELECTRON MICROSCOPY cryo-EM buffer：pH 7.5 cryo-EM vitrification conditions：Cryogen ETHANE | Resolution 3.50 Å |
Other States of the Same Protein in the Database
Each row is a biological assembly of the same UniProt protein in another PDB entry. The “Difference from current entry” column identifies evidence-level differences; no tag means the currently parsed fields agree.
| Other PDB | Difference from Current Entry 7UN3 | Assembly / Oligomeric State | Construct | Mutations and Modifications | Ligands, Ions and Non-polymers | Method and Experimental Conditions | Structure Quality |
|---|---|---|---|---|---|---|---|
| 22TU Human 80S ribosome in complex with DHX29 Deposited 2026-01-22 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 77 PDB declaration: 83-meric |
Chain LA
1–257（257 aa）
|
Not recorded | MG MAGNESIUM ION × 191 ZN ZINC ION × 8 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.00 Å |
| 28LN XBP1u-stalled RPL4 RNC in complex with NAC Deposited 2026-02-05 | Different construct Different mutation/modification Different oligomeric state Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 80 PDB declaration: 86-meric |
Chain BA
1–257（257 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | No recorded non-water small molecule | ELECTRON MICROSCOPY mmCIF provides none of the parsed conditions | Resolution 2.70 Å |
| 4CCM 60S ribosomal protein L8 histidine hydroxylase (NO66) in complex with Mn(II), N-oxalylglycine (NOG) and 60S ribosomal protein L8 (RPL8 G220C) peptide fragment (complex-1) Deposited 2013-10-23 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 8 PDB declaration: octameric |
Chain C
205–239（35 aa）
Fragment：RESIDUES 205-239
Chain D
205–239（35 aa）
Fragment：RESIDUES 205-239
|
Mutation：YES Mutation：YES | MN MANGANESE (II) ION × 4 OGA N-OXALYLGLYCINE × 4 EDO 1,2-ETHANEDIOL × 6 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7.5；293 K；0.1M BIS-TRIS PROPANE PH 6.8, 0.25M MAGNESIUM FORMATE, 0.002M MNCL2, TEMPERATURE 293K VAPOR DIFFUSION, SITTING DROP
|
Resolution 2.51 Å R-free 0.236 |
| 4CCN 60S ribosomal protein L8 histidine hydroxylase (NO66 L299C/C300S) in complex with Mn(II), N-oxalylglycine (NOG) and 60S ribosomal protein L8 (RPL8 G220C) peptide fragment (complex-2) Deposited 2013-10-23 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 8 PDB declaration: octameric |
Chain C
205–239（35 aa）
Fragment：RESIDUES 205-239
Chain D
205–239（35 aa）
Fragment：RESIDUES 205-239
|
Mutation：YES Mutation：YES | MN MANGANESE (II) ION × 4 OGA N-OXALYLGLYCINE × 4 SO4 SULFATE ION × 4 EDO 1,2-ETHANEDIOL × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7.5；293 K；VAPOR DIFFUSION, SITTING DROP 0.1M BIS-TRIS PROPANE PH 7.4, 0.4M MAGNESIUM FORMATE, 0.002M MNCL2, TEMPERATURE 293K
|
Resolution 2.23 Å R-free 0.248 |
| 4CCO 60S ribosomal protein L8 histidine hydroxylase (NO66 S373C) in complex with Mn(II), N-oxalylglycine (NOG) and 60S ribosomal protein L8 (RPL8 G214C) peptide fragment (complex-3) Deposited 2013-10-23 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 8 PDB declaration: octameric |
Chain C
205–224（20 aa）
Fragment：RESIDUES 205-239
Chain D
205–224（20 aa）
Fragment：RESIDUES 205-239
|
Mutation：YES Mutation：YES | MN MANGANESE (II) ION × 4 OGA N-OXALYLGLYCINE × 4 EDO 1,2-ETHANEDIOL × 10 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7.5；293 K；VAPOR DIFFUSION, SITTING DROP 0.1M BIS-TRIS PROPANE PH 7.4, 0.36M MAGNESIUM FORMATE, 0.002M MNCL2, TEMPERATURE 293K
|
Resolution 2.30 Å R-free 0.225 |
| 4UG0 STRUCTURE OF THE HUMAN 80S RIBOSOME Deposited 2015-03-20 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 76 PDB declaration: 89-meric |
Chain LA
1–257（257 aa）
|
Not recorded | MG MAGNESIUM ION × 239 ZN ZINC ION × 6 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.60 Å |
| 4V6X Structure of the human 80S ribosome Deposited 2013-02-27 | Different construct Different mutation/modification Different oligomeric state Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 84 PDB declaration: 89-meric |
Chain CA
1–257（257 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE；Blot for 3 seconds using two pieces of filter paper, then plunge into liquid ethane (FEI VITROBOT MARK IV).
|
Resolution 5.00 Å |
| 5AJ0 Cryo electron microscopy of actively translating human polysomes (POST state). Deposited 2015-02-19 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions | Assembly 1 Protein–RNA Heteromer；Protein × 79 PDB declaration: 86-meric |
Chain AA
1–257（257 aa）
|
Not recorded | MG MAGNESIUM ION × 326 ZN ZINC ION × 5 |
ELECTRON MICROSCOPY
cryo-EM buffer
20 MM HEPES-KOH, PH 7.5, 100 MM KCL, 1.5 MM MGCL2, 0.5 MM SPERMIDINE, 0.04 MM SPERMINE, 1 MM DTT；pH 7.5；20 MM HEPES-KOH, PH 7.5, 100 MM KCL, 1.5 MM MGCL2, 0.5 MM SPERMIDINE, 0.04 MM SPERMINE, 1 MM DTT
cryo-EM vitrification conditions
Cryogen ETHANE；VITRIFICATION 1 -- CRYOGEN- ETHANE, HUMIDITY- 100, TEMPERATURE- 93, INSTRUMENT- FEI VITROBOT MARK II, METHOD- BLOT FOR 2-4 SECONDS BEFORE PLUNGING,
|
Resolution 3.50 Å |
| 5LKS Structure-function insights reveal the human ribosome as a cancer target for antibiotics Deposited 2016-07-23 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 76 PDB declaration: 80-meric |
Chain LA
1–257（257 aa）
|
Not recorded | 3HE 4-{(2R)-2-[(1S,3S,5S)-3,5-dimethyl-2-oxocyclohexyl]-2-hydroxyethyl}piperidine-2,6-dione × 1 MG MAGNESIUM ION × 224 ZN ZINC ION × 8 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.60 Å |
| 5T2C CryoEM structure of the human ribosome at 3.6 Angstrom resolution Deposited 2016-08-23 | Different construct Different mutation/modification Different oligomeric state Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 76 PDB declaration: 81-meric |
Chain D
1–257（257 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.60 Å |
| 6IP5 Cryo-EM structure of the CMV-stalled human 80S ribosome (Structure ii) Deposited 2018-11-02 | Different construct Different mutation/modification Different oligomeric state Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 77 PDB declaration: 84-meric |
Chain 1D
1–257（257 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.90 Å |
| 6IP6 Cryo-EM structure of the CMV-stalled human 80S ribosome with HCV IRES (Structure iii) Deposited 2018-11-02 | Different construct Different mutation/modification Different oligomeric state Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 76 PDB declaration: 83-meric |
Chain 1D
1–257（257 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 4.50 Å |
| 6IP8 Cryo-EM structure of the HCV IRES dependently initiated CMV-stalled 80S ribosome (Structure iv) Deposited 2018-11-02 | Different construct Different mutation/modification Different oligomeric state Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 77 PDB declaration: 84-meric |
Chain 1D
1–257（257 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.90 Å |
| 6LQM Cryo-EM structure of a pre-60S ribosomal subunit - state C Deposited 2020-01-14 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 45 PDB declaration: 48-meric |
Chain m
1–257（257 aa）
|
Not recorded | MG MAGNESIUM ION × 251 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.8
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.09 Å |
| 6LSR Cryo-EM structure of a pre-60S ribosomal subunit - state B Deposited 2020-01-20 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 45 PDB declaration: 48-meric |
Chain m
1–257（257 aa）
|
Not recorded | MG MAGNESIUM ION × 246 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.8
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.13 Å |
| 6LSS Cryo-EM structure of a pre-60S ribosomal subunit - state preA Deposited 2020-01-20 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 45 PDB declaration: 48-meric |
Chain m
1–257（257 aa）
|
Not recorded | MG MAGNESIUM ION × 250 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.8
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.23 Å |
| 6LU8 Cryo-EM structure of a human pre-60S ribosomal subunit - state A Deposited 2020-01-26 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 47 PDB declaration: 50-meric |
Chain m
1–257（257 aa）
|
Not recorded | MG MAGNESIUM ION × 247 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.8
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.13 Å |
| 6OLE Human ribosome nascent chain complex (CDH1-RNC) stalled by a drug-like molecule with AP and PE tRNAs Deposited 2019-04-16 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 76 PDB declaration: 83-meric |
Chain A
2–253（252 aa）
|
Not recorded | MG MAGNESIUM ION × 31 ZN ZINC ION × 6 MVM N-(3-chloropyridin-2-yl)-N-[(3R)-piperidin-3-yl]-4-(3H-[1,2,3]triazolo[4,5-b]pyridin-3-yl)benzamide × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.10 Å |
| 6OLF Human ribosome nascent chain complex (CDH1-RNC) stalled by a drug-like molecule with AA and PE tRNAs Deposited 2019-04-16 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 76 PDB declaration: 83-meric |
Chain A
2–253（252 aa）
|
Not recorded | ZN ZINC ION × 6 MG MAGNESIUM ION × 31 MVM N-(3-chloropyridin-2-yl)-N-[(3R)-piperidin-3-yl]-4-(3H-[1,2,3]triazolo[4,5-b]pyridin-3-yl)benzamide × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.90 Å |
| 6OLG Human ribosome nascent chain complex stalled by a drug-like small molecule (CDH1_RNC with PP tRNA) Deposited 2019-04-16 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 79 PDB declaration: 85-meric |
Chain AA
1–257（257 aa）
|
Not recorded | MG MAGNESIUM ION × 326 ZN ZINC ION × 5 MVM N-(3-chloropyridin-2-yl)-N-[(3R)-piperidin-3-yl]-4-(3H-[1,2,3]triazolo[4,5-b]pyridin-3-yl)benzamide × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.40 Å |
| 6OLI Structure of human ribosome nascent chain complex selectively stalled by a drug-like small molecule (USO1-RNC) Deposited 2019-04-16 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion | Assembly 1 Protein–RNA Heteromer；Protein × 76 PDB declaration: 83-meric |
Chain A
2–253（252 aa）
|
Not recorded | MG MAGNESIUM ION × 31 ZN ZINC ION × 6 MVM N-(3-chloropyridin-2-yl)-N-[(3R)-piperidin-3-yl]-4-(3H-[1,2,3]triazolo[4,5-b]pyridin-3-yl)benzamide × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.50 Å |
| 6OLZ Human ribosome nascent chain complex (PCSK9-RNC) stalled by a drug-like molecule with PP tRNA Deposited 2019-04-17 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 76 PDB declaration: 82-meric |
Chain AA
2–249（248 aa）
|
Not recorded | MG MAGNESIUM ION × 326 ZN ZINC ION × 5 MVM N-(3-chloropyridin-2-yl)-N-[(3R)-piperidin-3-yl]-4-(3H-[1,2,3]triazolo[4,5-b]pyridin-3-yl)benzamide × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.90 Å |
| 6OM0 Human ribosome nascent chain complex (PCSK9-RNC) stalled by a drug-like molecule with AP and PE tRNAs Deposited 2019-04-17 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 76 PDB declaration: 83-meric |
Chain A
2–253（252 aa）
|
Not recorded | MG MAGNESIUM ION × 31 ZN ZINC ION × 6 MVM N-(3-chloropyridin-2-yl)-N-[(3R)-piperidin-3-yl]-4-(3H-[1,2,3]triazolo[4,5-b]pyridin-3-yl)benzamide × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.10 Å |
| 6OM7 Human ribosome nascent chain complex (PCSK9-RNC) stalled by a drug-like small molecule with AA and PE tRNAs Deposited 2019-04-18 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 76 PDB declaration: 83-meric |
Chain A
2–253（252 aa）
|
Not recorded | ZN ZINC ION × 6 MG MAGNESIUM ION × 31 MVM N-(3-chloropyridin-2-yl)-N-[(3R)-piperidin-3-yl]-4-(3H-[1,2,3]triazolo[4,5-b]pyridin-3-yl)benzamide × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.70 Å |
| 6QZP High-resolution cryo-EM structure of the human 80S ribosome Deposited 2019-03-12 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 76 PDB declaration: 81-meric |
Chain LA
2–249（248 aa）
|
Not recorded | MG MAGNESIUM ION × 438 HMT (3beta)-O~3~-[(2R)-2,6-dihydroxy-2-(2-methoxy-2-oxoethyl)-6-methylheptanoyl]cephalotaxine × 1 ZN ZINC ION × 8 HYG HYGROMYCIN B × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.90 Å |
| 6W6L Cryo-EM structure of the human ribosome-TMCO1 translocon Deposited 2020-03-17 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 54-meric |
Chain A
1–257（257 aa）
|
Not recorded | MG MAGNESIUM ION × 28 ZN ZINC ION × 3 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE；Two filter papers were added to each arm, 2.5 microliters of sample were added to the grids, and 0.5 seconds of drain time was allowed before vitrification.
|
Resolution 3.84 Å |
| 6XA1 Structure of a drug-like compound stalled human translation termination complex Deposited 2020-06-03 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 77 PDB declaration: 83-meric |
Chain LA
2–249（248 aa）
|
Not recorded | MG MAGNESIUM ION × 190 MVM N-(3-chloropyridin-2-yl)-N-[(3R)-piperidin-3-yl]-4-(3H-[1,2,3]triazolo[4,5-b]pyridin-3-yl)benzamide × 1 ZN ZINC ION × 8 K POTASSIUM ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.80 Å |
| 6Y0G Structure of human ribosome in classical-PRE state Deposited 2020-02-07 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 76 PDB declaration: 83-meric |
Chain LA
1–257（257 aa）
|
Not recorded | MG MAGNESIUM ION × 72 3HE 4-{(2R)-2-[(1S,3S,5S)-3,5-dimethyl-2-oxocyclohexyl]-2-hydroxyethyl}piperidine-2,6-dione × 1 ZN ZINC ION × 7 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.20 Å |
| 6Y2L Structure of human ribosome in POST state Deposited 2020-02-16 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 74 PDB declaration: 80-meric |
Chain LA
1–257（257 aa）
|
Not recorded | MG MAGNESIUM ION × 193 3HE 4-{(2R)-2-[(1S,3S,5S)-3,5-dimethyl-2-oxocyclohexyl]-2-hydroxyethyl}piperidine-2,6-dione × 1 ZN ZINC ION × 7 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.00 Å |
| 6Y57 Structure of human ribosome in hybrid-PRE state Deposited 2020-02-25 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions | Assembly 1 Protein–RNA Heteromer；Protein × 75 PDB declaration: 82-meric |
Chain LA
1–257（257 aa）
|
Not recorded | MG MAGNESIUM ION × 160 ZN ZINC ION × 7 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.50 Å |
| 6Y6X Tetracenomycin X bound to the human ribosome Deposited 2020-02-27 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 43 PDB declaration: 46-meric |
Chain LA
2–249（248 aa）
|
Not recorded | MG MAGNESIUM ION × 229 OCW Tetracenomycin X × 1 ZN ZINC ION × 5 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.80 Å |
| 6Z6L Cryo-EM structure of human CCDC124 bound to 80S ribosomes Deposited 2020-05-28 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 78 PDB declaration: 83-meric |
Chain LA
1–257（257 aa）
|
Not recorded | MG MAGNESIUM ION × 256 ZN ZINC ION × 8 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.00 Å |
| 6Z6M Cryo-EM structure of human 80S ribosomes bound to EBP1, eEF2 and SERBP1 Deposited 2020-05-28 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 79 PDB declaration: 84-meric |
Chain LA
1–257（257 aa）
|
Not recorded | MG MAGNESIUM ION × 256 ZN ZINC ION × 8 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.10 Å |
| 6Z6N Cryo-EM structure of human EBP1-80S ribosomes (focus on EBP1) Deposited 2020-05-28 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 79 PDB declaration: 84-meric |
Chain LA
1–257（257 aa）
|
Not recorded | MG MAGNESIUM ION × 256 ZN ZINC ION × 8 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.90 Å |
| 6ZM7 SARS-CoV-2 Nsp1 bound to the human CCDC124-80S-EBP1 ribosome complex Deposited 2020-07-01 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 81 PDB declaration: 86-meric |
Chain LA
1–257（257 aa）
|
Not recorded | MG MAGNESIUM ION × 256 ZN ZINC ION × 8 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.70 Å |
| 6ZME SARS-CoV-2 Nsp1 bound to the human CCDC124-80S-eERF1 ribosome complex Deposited 2020-07-02 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 83 PDB declaration: 88-meric |
Chain LA
1–257（257 aa）
|
Not recorded | MG MAGNESIUM ION × 256 ZN ZINC ION × 8 SF4 IRON/SULFUR CLUSTER × 2 ADP ADENOSINE-5'-DIPHOSPHATE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.00 Å |
| 6ZMI SARS-CoV-2 Nsp1 bound to the human LYAR-80S ribosome complex Deposited 2020-07-02 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 81 PDB declaration: 86-meric |
Chain LA
1–257（257 aa）
|
Not recorded | MG MAGNESIUM ION × 256 ZN ZINC ION × 8 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.60 Å |
| 6ZMO SARS-CoV-2 Nsp1 bound to the human LYAR-80S-eEF1a ribosome complex Deposited 2020-07-03 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 82 PDB declaration: 88-meric |
Chain LA
1–257（257 aa）
|
Not recorded | MG MAGNESIUM ION × 256 ZN ZINC ION × 8 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.10 Å |
| 7BHP Cryo-EM structure of the human Ebp1 - 80S ribosome Deposited 2021-01-11 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 41 PDB declaration: 45-meric |
Chain LA
1–257（257 aa）
|
Not recorded | MG MAGNESIUM ION × 41 ZN ZINC ION × 4 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.30 Å |
| 7F5S human delta-METTL18 60S ribosome Deposited 2021-06-22 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 42 PDB declaration: 45-meric |
Chain LA
1–257（257 aa）
|
Not recorded | MG MAGNESIUM ION × 279 ZN ZINC ION × 5 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.72 Å |
| 7OW7 EIF6-bound large subunit of the human ribosome Deposited 2021-06-16 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 40 PDB declaration: 43-meric |
Chain D
1–257（257 aa）
|
Not recorded | MG MAGNESIUM ION × 223 ZN ZINC ION × 5 K POTASSIUM ION × 153 NA SODIUM ION × 4 BR BROMIDE ION × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.40 Å |
| 7XNX High resolution cry-EM structure of the human 80S ribosome from SNORD127+/+ Kasumi-1 cells Deposited 2022-04-30 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 76 PDB declaration: 81-meric |
Chain LA
1–257（257 aa）
|
Not recorded | MG MAGNESIUM ION × 421 K POTASSIUM ION × 12 ZN ZINC ION × 9 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.70 Å |
| 7XNY High resolution cry-EM structure of the human 80S ribosome from SNORD127+/- Kasumi-1 cells Deposited 2022-04-30 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 75 PDB declaration: 79-meric |
Chain LA
1–257（257 aa）
|
Not recorded | MG MAGNESIUM ION × 421 K POTASSIUM ION × 12 ZN ZINC ION × 9 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.50 Å |
| 8A3D Human mature large subunit of the ribosome with eIF6 and homoharringtonine bound Deposited 2022-06-08 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 42 PDB declaration: 45-meric |
Chain D
1–257（257 aa）
|
Not recorded | MG MAGNESIUM ION × 229 K POTASSIUM ION × 155 NA SODIUM ION × 2 HMT (3beta)-O~3~-[(2R)-2,6-dihydroxy-2-(2-methoxy-2-oxoethyl)-6-methylheptanoyl]cephalotaxine × 1 SPM SPERMINE × 1 EPE 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID × 1 ZN ZINC ION × 5 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE；30 seconds 'wait' time
|
Resolution 1.67 Å |
| 8FKZ Human nucleolar pre-60S ribosomal subunit (State G) Deposited 2022-12-21 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 48 PDB declaration: 51-meric |
Chain SF
1–257（257 aa）
|
Not recorded | MG MAGNESIUM ION × 64 ZN ZINC ION × 4 GDP GUANOSINE-5'-DIPHOSPHATE × 1 K POTASSIUM ION × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE；Four applications with manual blotting before last blotting with the vitrobot.
|
Resolution 3.04 Å |
| 8FL2 Human nuclear pre-60S ribosomal subunit (State I1) Deposited 2022-12-21 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 61 PDB declaration: 65-meric |
Chain SF
1–257（257 aa）
|
Not recorded | MG MAGNESIUM ION × 100 ZN ZINC ION × 5 GTP GUANOSINE-5'-TRIPHOSPHATE × 1 K POTASSIUM ION × 2 GDP GUANOSINE-5'-DIPHOSPHATE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE；Four applications with manual blotting before last blotting with the vitrobot.
|
Resolution 2.67 Å |
| 8FL3 Human nuclear pre-60S ribosomal subunit (State I2) Deposited 2022-12-21 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 60 PDB declaration: 63-meric |
Chain SF
1–257（257 aa）
|
Not recorded | MG MAGNESIUM ION × 100 ZN ZINC ION × 5 GTP GUANOSINE-5'-TRIPHOSPHATE × 1 K POTASSIUM ION × 2 GDP GUANOSINE-5'-DIPHOSPHATE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE；Four applications with manual blotting before last blotting with the vitrobot.
|
Resolution 2.53 Å |
| 8FL4 Human nuclear pre-60S ribosomal subunit (State I3) Deposited 2022-12-21 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 59 PDB declaration: 62-meric |
Chain SF
1–257（257 aa）
|
Not recorded | MG MAGNESIUM ION × 99 ZN ZINC ION × 5 GTP GUANOSINE-5'-TRIPHOSPHATE × 1 K POTASSIUM ION × 2 GDP GUANOSINE-5'-DIPHOSPHATE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE；Four applications with manual blotting before last blotting with the vitrobot.
|
Resolution 2.89 Å |
| 8FL6 Human nuclear pre-60S ribosomal subunit (State J1) Deposited 2022-12-21 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 52 PDB declaration: 56-meric |
Chain SF
1–257（257 aa）
|
Not recorded | MG MAGNESIUM ION × 88 ZN ZINC ION × 6 GDP GUANOSINE-5'-DIPHOSPHATE × 1 K POTASSIUM ION × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE；Four applications with manual blotting before last blotting with the vitrobot.
|
Resolution 2.62 Å |
| 8FL7 Human nuclear pre-60S ribosomal subunit (State J2) Deposited 2022-12-21 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 54-meric |
Chain SF
1–257（257 aa）
|
Not recorded | MG MAGNESIUM ION × 88 ZN ZINC ION × 6 GDP GUANOSINE-5'-DIPHOSPHATE × 1 K POTASSIUM ION × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE；Four applications with manual blotting before last blotting with the vitrobot.
|
Resolution 2.55 Å |
| 8FL9 Human nuclear pre-60S ribosomal subunit (State J3) Deposited 2022-12-21 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 47 PDB declaration: 50-meric |
Chain SF
1–257（257 aa）
|
Not recorded | MG MAGNESIUM ION × 88 ZN ZINC ION × 6 GDP GUANOSINE-5'-DIPHOSPHATE × 1 K POTASSIUM ION × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE；Four applications with manual blotting before last blotting with the vitrobot.
|
Resolution 2.75 Å |
| 8FLA Human nuclear pre-60S ribosomal subunit (State K1) Deposited 2022-12-21 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 52 PDB declaration: 56-meric |
Chain SF
1–257（257 aa）
|
Not recorded | MG MAGNESIUM ION × 88 ZN ZINC ION × 6 GDP GUANOSINE-5'-DIPHOSPHATE × 1 K POTASSIUM ION × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE；Four applications with manual blotting before last blotting with the vitrobot.
|
Resolution 2.63 Å |
| 8FLB Human nuclear pre-60S ribosomal subunit (State K2) Deposited 2022-12-21 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 54-meric |
Chain SF
1–257（257 aa）
|
Not recorded | MG MAGNESIUM ION × 88 ZN ZINC ION × 6 GDP GUANOSINE-5'-DIPHOSPHATE × 1 K POTASSIUM ION × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE；Four applications with manual blotting before last blotting with the vitrobot.
|
Resolution 2.55 Å |
| 8FLC Human nuclear pre-60S ribosomal subunit (State K3) Deposited 2022-12-21 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 47 PDB declaration: 50-meric |
Chain SF
1–257（257 aa）
|
Not recorded | MG MAGNESIUM ION × 88 ZN ZINC ION × 6 GDP GUANOSINE-5'-DIPHOSPHATE × 1 K POTASSIUM ION × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE；Four applications with manual blotting before last blotting with the vitrobot.
|
Resolution 2.76 Å |
| 8FLD Human nuclear pre-60S ribosomal subunit (State L1) Deposited 2022-12-21 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 54-meric |
Chain SF
1–257（257 aa）
|
Not recorded | MG MAGNESIUM ION × 87 ZN ZINC ION × 6 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE；Four applications with manual blotting before last blotting with the Vitrobot.
|
Resolution 2.58 Å |
| 8FLE Human nuclear pre-60S ribosomal subunit (State L2) Deposited 2022-12-21 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 52-meric |
Chain SF
1–257（257 aa）
|
Not recorded | MG MAGNESIUM ION × 87 ZN ZINC ION × 6 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE；Four applications with manual blotting before last blotting with the Vitrobot.
|
Resolution 2.48 Å |
| 8FLF Human nuclear pre-60S ribosomal subunit (State L3) Deposited 2022-12-21 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 45 PDB declaration: 48-meric |
Chain SF
1–257（257 aa）
|
Not recorded | MG MAGNESIUM ION × 87 ZN ZINC ION × 6 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE；Four applications with manual blotting before last blotting with the Vitrobot.
|
Resolution 2.65 Å |
| 8IDT human nuclear pre-60S ribosomal particle - State G Deposited 2023-02-14 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 48 PDB declaration: 51-meric |
Chain m
1–257（257 aa）
|
Not recorded | GDP GUANOSINE-5'-DIPHOSPHATE × 1 MG MAGNESIUM ION × 2 K POTASSIUM ION × 1 GTP GUANOSINE-5'-TRIPHOSPHATE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.80 Å |
| 8IDY human nuclear pre-60S ribosomal particle - State F Deposited 2023-02-14 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 54-meric |
Chain m
1–257（257 aa）
|
Not recorded | GDP GUANOSINE-5'-DIPHOSPHATE × 1 MG MAGNESIUM ION × 1 K POTASSIUM ION × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.00 Å |
| 8IE3 human nuclear pre-60S ribosomal particle - State E Deposited 2023-02-15 | Different construct Different mutation/modification Different oligomeric state Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 45 PDB declaration: 48-meric |
Chain m
1–257（257 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.30 Å |
| 8IFD Dibekacin-added human 80S ribosome Deposited 2023-02-17 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 76 PDB declaration: 80-meric |
Chain 1D
1–257（257 aa）
|
Not recorded | 84D Dibekacin × 24 MG MAGNESIUM ION × 397 ZN ZINC ION × 4 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.59 Å |
| 8IFE Arbekacin-added human 80S ribosome Deposited 2023-02-17 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 76 PDB declaration: 80-meric |
Chain 1D
1–257（257 aa）
|
Not recorded | 84G Arbekacin × 23 MG MAGNESIUM ION × 410 ZN ZINC ION × 6 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.57 Å |
| 8INE human nuclear pre-60S ribosomal particle - State G' Deposited 2023-03-09 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 54 PDB declaration: 58-meric |
Chain m
1–257（257 aa）
|
Not recorded | GDP GUANOSINE-5'-DIPHOSPHATE × 1 MG MAGNESIUM ION × 1 K POTASSIUM ION × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.20 Å |
| 8INF human nuclear pre-60S ribosomal particle - State F' Deposited 2023-03-09 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 57 PDB declaration: 61-meric |
Chain m
1–257（257 aa）
|
Not recorded | GDP GUANOSINE-5'-DIPHOSPHATE × 1 MG MAGNESIUM ION × 1 K POTASSIUM ION × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.00 Å |
| 8INK human nuclear pre-60S ribosomal particle - State D Deposited 2023-03-10 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 53-meric |
Chain m
1–257（257 aa）
|
Not recorded | GTP GUANOSINE-5'-TRIPHOSPHATE × 1 MG MAGNESIUM ION × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.20 Å |
| 8IPD human nuclear pre-60S ribosomal particle - State C Deposited 2023-03-14 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 52-meric |
Chain m
1–257（257 aa）
|
Not recorded | GTP GUANOSINE-5'-TRIPHOSPHATE × 1 MG MAGNESIUM ION × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.20 Å |
| 8IPX human nuclear pre-60S ribosomal particle - State C' Deposited 2023-03-15 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 54 PDB declaration: 58-meric |
Chain m
1–257（257 aa）
|
Not recorded | GTP GUANOSINE-5'-TRIPHOSPHATE × 1 MG MAGNESIUM ION × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 4.30 Å |
| 8IPY human nuclear pre-60S ribosomal particle - State D' Deposited 2023-03-15 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 55 PDB declaration: 59-meric |
Chain m
1–257（257 aa）
|
Not recorded | GTP GUANOSINE-5'-TRIPHOSPHATE × 1 MG MAGNESIUM ION × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.20 Å |
| 8IR1 human nuclear pre-60S ribosomal particle - State A Deposited 2023-03-17 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 53-meric |
Chain m
1–257（257 aa）
|
Not recorded | GTP GUANOSINE-5'-TRIPHOSPHATE × 1 MG MAGNESIUM ION × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.30 Å |
| 8IR3 human nuclear pre-60S ribosomal particle - State B' Deposited 2023-03-17 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion | Assembly 1 Protein–RNA Heteromer；Protein × 55 PDB declaration: 59-meric |
Chain m
1–257（257 aa）
|
Not recorded | GTP GUANOSINE-5'-TRIPHOSPHATE × 1 MG MAGNESIUM ION × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.50 Å |
| 8JDJ Structure of the Human cytoplasmic Ribosome with human tRNA Asp(Q34) and mRNA(GAU) Deposited 2023-05-14 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 73 PDB declaration: 80-meric |
Chain G
1–257（257 aa）
|
Not recorded | MG MAGNESIUM ION × 539 ZN ZINC ION × 6 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4；The Buffer pH was adjusted to 7.4 using KOH.
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.50 Å |
| 8JDK Structure of the Human cytoplasmic Ribosome with human tRNA Asp(ManQ34) and mRNA(GAU) Deposited 2023-05-14 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 73 PDB declaration: 80-meric |
Chain G
1–257（257 aa）
|
Not recorded | MG MAGNESIUM ION × 539 MAN alpha-D-mannopyranose × 2 ZN ZINC ION × 6 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4；The Buffer pH was adjusted to 7.4 using KOH.
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.26 Å |
| 8JDL Structure of the Human cytoplasmic Ribosome with human tRNA Tyr(GalQ34) and mRNA(UAU) (non-rotated state) Deposited 2023-05-14 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 73 PDB declaration: 79-meric |
Chain G
1–257（257 aa）
|
Not recorded | MG MAGNESIUM ION × 539 GAL beta-D-galactopyranose × 1 ZN ZINC ION × 6 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4；The Buffer pH was adjusted to 7.4 using KOH.
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.42 Å |
| 8JDM Structure of the Human cytoplasmic Ribosome with human tRNA Tyr(GalQ34) and mRNA(UAU) (rotated state) Deposited 2023-05-14 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 73 PDB declaration: 80-meric |
Chain G
1–257（257 aa）
|
Not recorded | GAL beta-D-galactopyranose × 2 MG MAGNESIUM ION × 520 ZN ZINC ION × 6 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4；The Buffer pH was adjusted to 7.4 using KOH.
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.67 Å |
| 8K2C Cryo-EM structure of the human 80S ribosome with Tigecycline Deposited 2023-07-12 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 81 PDB declaration: 86-meric |
Chain LA
1–257（257 aa）
|
Not recorded | MG MAGNESIUM ION × 259 T1C TIGECYCLINE × 9 ZN ZINC ION × 8 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.40 Å |
| 8OHD 60S ribosomal subunit bound to the E3-UFM1 complex - state 3 (native) Deposited 2023-03-21 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 47 PDB declaration: 50-meric |
Chain LA
1–257（257 aa）
|
Not recorded | MG MAGNESIUM ION × 220 ZN ZINC ION × 5 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.10 Å |
| 8OJ0 60S ribosomal subunit bound to the E3-UFM1 complex - state 2 (native) Deposited 2023-03-23 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 53-meric |
Chain LA
1–257（257 aa）
|
Not recorded | MG MAGNESIUM ION × 220 ZN ZINC ION × 5 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.30 Å |
| 8OJ5 60S ribosomal subunit bound to the E3-UFM1 complex - state 3 (in-vitro reconstitution) Deposited 2023-03-23 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 46 PDB declaration: 49-meric |
Chain LA
1–257（257 aa）
|
Not recorded | MG MAGNESIUM ION × 220 ZN ZINC ION × 5 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.90 Å |
| 8OJ8 60S ribosomal subunit bound to the E3-UFM1 complex - state 1 (native) Deposited 2023-03-24 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 47 PDB declaration: 50-meric |
Chain LA
1–257（257 aa）
|
Not recorded | MG MAGNESIUM ION × 220 ZN ZINC ION × 5 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.30 Å |
| 8QFD UFL1 E3 ligase bound 60S ribosome Deposited 2023-09-04 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 42 PDB declaration: 45-meric |
Chain A
1–257（257 aa）
|
Not recorded | MG MAGNESIUM ION × 161 ZN ZINC ION × 5 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5；25 mM HEPES pH 7.5, 50 mM KCl, 5 mM MgCl2, 2 mM DTT
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.20 Å |
| 8QOI Structure of the human 80S ribosome at 1.9 A resolution - the molecular role of chemical modifications and ions in RNA Deposited 2023-09-29 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 75 PDB declaration: 79-meric |
Chain LA
1–257（257 aa）
|
Not recorded | MG MAGNESIUM ION × 292 K POTASSIUM ION × 108 SPD SPERMIDINE × 2 ZN ZINC ION × 8 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6；Titan Krios sample is prepared with Sodium cacodylate buffer.
CryoARM 300 sample is prepared with Hepes buffer.
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 1.90 Å |
| 8QYX Human 60S ribosomal subunit Deposited 2023-10-26 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 41 PDB declaration: 44-meric |
Chain D2
1–257（257 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 186 PUT 1,4-DIAMINOBUTANE × 7 K POTASSIUM ION × 46 ZN ZINC ION × 5 SPD SPERMIDINE × 7 SPM SPERMINE × 5 ATP ADENOSINE-5'-TRIPHOSPHATE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 1.78 Å |
| 8RL2 Human pre-60S - State 5 Deposited 2024-01-02 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 52-meric |
Chain LA
1–257（257 aa）
|
Not recorded | ZN ZINC ION × 5 GTP GUANOSINE-5'-TRIPHOSPHATE × 1 MG MAGNESIUM ION × 2 GDP GUANOSINE-5'-DIPHOSPHATE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.84 Å |
| 8UKB In situ HHT and CHX treated human hibernating state without E-tRNA 80S ribosome Deposited 2023-10-12 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 80 PDB declaration: 84-meric |
Chain LA
2–249（248 aa）
|
Not recorded | MG MAGNESIUM ION × 255 HMT (3beta)-O~3~-[(2R)-2,6-dihydroxy-2-(2-methoxy-2-oxoethyl)-6-methylheptanoyl]cephalotaxine × 1 WV3 4-{(2R)-2-[(1R,3S,5S)-3,5-dimethyl-2-oxocyclohexyl]-2-hydroxyethyl}piperidine-2,6-dione × 1 ZN ZINC ION × 6 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.05 Å |
| 8XSX Cryo-EM structure of the human 80S ribosome with Tigecycline, E-tRNA, SERBP1 and eEF2 Deposited 2024-01-10 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 81 PDB declaration: 86-meric |
Chain LA
1–257（257 aa）
|
Not recorded | MG MAGNESIUM ION × 259 T1C TIGECYCLINE × 7 ZN ZINC ION × 8 ADP ADENOSINE-5'-DIPHOSPHATE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.40 Å |
| 8XSY Cryo-EM structure of the human 80S ribosome with Tigecycline, e-tRNA and CCDC124 (40S head Swivelled) Deposited 2024-01-10 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 81 PDB declaration: 86-meric |
Chain LA
1–257（257 aa）
|
Not recorded | MG MAGNESIUM ION × 255 T1C TIGECYCLINE × 8 ZN ZINC ION × 8 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.00 Å |
| 8XSZ Cryo-EM structure of the human 80S ribosome with Tigecycline, E-tRNA and P-tRNA Deposited 2024-01-10 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 79 PDB declaration: 86-meric |
Chain LA
1–257（257 aa）
|
Not recorded | MG MAGNESIUM ION × 248 T1C TIGECYCLINE × 5 ZN ZINC ION × 8 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.20 Å |
| 8Y0W dormant ribosome with eIF5A, eEF2 and SERBP1 Deposited 2024-01-23 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 77 PDB declaration: 81-meric |
Chain LA
1–257（257 aa）
|
Not recorded | MG MAGNESIUM ION × 226 ZN ZINC ION × 5 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5；50mM HEPES, pH7.5, 100mM KOAc, 5mM Mg(OAc)2, 1mM DTT
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.40 Å |
| 8Y0X Dormant ribosome with SERBP1 Deposited 2024-01-23 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 75 PDB declaration: 80-meric |
Chain LA
1–257（257 aa）
|
Not recorded | MG MAGNESIUM ION × 255 ZN ZINC ION × 7 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4；50mM HEPES, pH7.4, 100mM KoAc, 5mM Mg(OAc)2, 1mM DTT
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.30 Å |
| 8YOO Cryo-EM structure of the human 80S ribosome with 100 um Tigecycline Deposited 2024-03-13 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 77 PDB declaration: 81-meric |
Chain LA
1–257（257 aa）
|
Not recorded | MG MAGNESIUM ION × 257 T1C TIGECYCLINE × 6 ZN ZINC ION × 8 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.00 Å |
| 8YOP Cryo-EM structure of the human 80S ribosome with 4 um Tigecycline Deposited 2024-03-13 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 78 PDB declaration: 82-meric |
Chain LA
1–257（257 aa）
|
Not recorded | MG MAGNESIUM ION × 255 ZN ZINC ION × 8 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.20 Å |
| 9B0P In situ human Hibernating class1 80S ribosome Deposited 2024-03-12 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 80 PDB declaration: 85-meric |
Chain LA
2–249（248 aa）
|
Not recorded | MG MAGNESIUM ION × 255 ZN ZINC ION × 6 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.82 Å |
| 9B0Q In situ human top-back di-ribosome structure (Composite map) Deposited 2024-03-12 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 160 PDB declaration: 172-meric |
Chain LA
2–249（248 aa）
Chain lA
2–249（248 aa）
|
Not recorded | ZN ZINC ION × 12 MG MAGNESIUM ION × 510 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.20 Å |
| 9B0S In situ human top-top di-ribosome structure (Composite map) Deposited 2024-03-12 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 158 PDB declaration: 171-meric |
Chain LA
2–249（248 aa）
Chain lA
2–249（248 aa）
|
Not recorded | ZN ZINC ION × 12 MG MAGNESIUM ION × 510 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.80 Å |
| 9C3H Structure of the CNOT3-bound human 80S ribosome with tRNA-ARG in the P-site. Deposited 2024-06-01 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 77 PDB declaration: 83-meric |
Chain LD
1–257（257 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 326 K POTASSIUM ION × 94 B3P 2-[3-(2-HYDROXY-1,1-DIHYDROXYMETHYL-ETHYLAMINO)-PROPYLAMINO]-2-HYDROXYMETHYL-PROPANE-1,3-DIOL × 1 ZN ZINC ION × 8 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.00 Å |
| 9FQZ CRYO-EM STRUCTURE OF HCT15 POLYSOMES BOUND TO EEF2, EBP1, AND SERBP1 Deposited 2024-06-17 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 79 PDB declaration: 84-meric |
Chain LA
1–257（257 aa）
|
Not recorded | GDP GUANOSINE-5'-DIPHOSPHATE × 1 MG MAGNESIUM ION × 271 K POTASSIUM ION × 104 ZN ZINC ION × 8 PUT 1,4-DIAMINOBUTANE × 7 HYG HYGROMYCIN B × 1 SPD SPERMIDINE × 8 3HE 4-{(2R)-2-[(1S,3S,5S)-3,5-dimethyl-2-oxocyclohexyl]-2-hydroxyethyl}piperidine-2,6-dione × 1 ANM ANISOMYCIN × 1 NA SODIUM ION × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.85 Å |
| 9G8M human 80S ribosome bound by a SKI2-exosome complex Deposited 2024-07-23 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Insufficient information Heteromer；Protein × 87 PDB declaration: 92-meric |
Chain LA
1–257（257 aa）
|
Not recorded | MG MAGNESIUM ION × 232 ZN ZINC ION × 6 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE-PROPANE
|
Resolution 3.30 Å |
| 9GMO eIF6-bound pre-60S large ribosomal subunit incorporating mutant uL16 Deposited 2024-08-29 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 43 PDB declaration: 46-meric |
Chain D
1–257（257 aa）
|
Not recorded | MG MAGNESIUM ION × 227 K POTASSIUM ION × 155 NA SODIUM ION × 2 GTP GUANOSINE-5'-TRIPHOSPHATE × 1 EPE 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID × 1 ZN ZINC ION × 5 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE-PROPANE
|
Resolution 2.59 Å |
| 9GUL Structure of FLuc-XBP1u+ stalled human 60S ribosome nascent chain complex Deposited 2024-09-19 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 42 PDB declaration: 46-meric |
Chain LA
1–257（257 aa）
|
Not recorded | MG MAGNESIUM ION × 284 ZN ZINC ION × 4 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.20 Å |
| 9GY4 60S ribosomal subunit in complex with E3-UFM1 ligase and RQC machinery components NEMF and LTN1 (Composite map) Deposited 2024-10-01 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 55-meric |
Chain a
1–257（257 aa）
|
Not recorded | MG MAGNESIUM ION × 219 ZN ZINC ION × 5 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.00 Å |
| 9I14 CRYO-EM STRUCTURE OF HCT15 POLYSOMES IN HYBRID-PRE STATE Deposited 2025-01-15 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 75 PDB declaration: 82-meric |
Chain LA
1–257（257 aa）
|
Not recorded | K POTASSIUM ION × 40 MG MAGNESIUM ION × 267 NA SODIUM ION × 23 SPD SPERMIDINE × 1 PUT 1,4-DIAMINOBUTANE × 1 ZN ZINC ION × 7 HYG HYGROMYCIN B × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.34 Å |
| 9I2D NMT1-NAC bound human RNC with 10 amino acid ARF1-linker Deposited 2025-01-20 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 82 PDB declaration: 88-meric |
Chain LA
1–257（257 aa）
|
Not recorded | MG MAGNESIUM ION × 191 ZN ZINC ION × 8 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.19 Å |
| 9I2E NMT1-NAC bound human ribosome (combined translational states) Deposited 2025-01-20 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 81 PDB declaration: 86-meric |
Chain LA
1–257（257 aa）
|
Not recorded | MG MAGNESIUM ION × 256 ZN ZINC ION × 8 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.95 Å |
| 9KZU Cryo-EM structure of the HCV IRES-dependently initiated CMV-stalled 80S ribosome (non-rotated state) in complexed with eIF3 Deposited 2024-12-11 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 85 PDB declaration: 92-meric |
Chain LA
1–257（257 aa）
|
Not recorded | MG MAGNESIUM ION × 81 ZN ZINC ION × 7 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.00 Å |
| 9KZX Cryo-EM structure of the HCV IRES-dependently initiated CMV-stalled 80S ribosome (rotated state) in complexed with eIF3 Deposited 2024-12-11 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 85 PDB declaration: 93-meric |
Chain LA
1–257（257 aa）
|
Not recorded | MG MAGNESIUM ION × 66 ZN ZINC ION × 7 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.30 Å |
| 9M0P Cryo-EM structure of human 80S ribosome in complex with montanine Deposited 2025-02-25 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 73 PDB declaration: 78-meric |
Chain LA
1–257（257 aa）
|
Not recorded | MG MAGNESIUM ION × 291 ZN ZINC ION × 6 A1L8F (1S,13S,15S,16S)-16-methoxy-5,7-dioxa-12-azapentacyclo[10.6.1.02,10.04,8.013,18]nonadeca-2,4(8),9,17-tetraen-15-ol × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.78 Å |
| 9N9J Structure of a GRP94 folding intermediate engaged with a CCDC134- and FKBP11-bound secretory translocon Deposited 2025-02-10 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 65 PDB declaration: 70-meric |
Chain LA
1–257（257 aa）
|
Not recorded | ELU phosphono [(3~{R},6~{E},10~{E})-3,7,11,15-tetramethylhexadeca-6,10,14-trienyl] hydrogen phosphate × 1 MG MAGNESIUM ION × 226 ZN ZINC ION × 5 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4；HEPES buffer was adjusted to pH 7.4 with potassium hydroxide.
cryo-EM vitrification conditions
Cryogen ETHANE；Three microliters of affinity-purified RTCs were applied to the grid, incubated for 60 seconds, blotted for 7 seconds, drained for 0.5 seconds, and frozen in liquid nitrogen-cooled ethane.
|
Resolution 3.20 Å |
| 9O3V Human 80S ribosome stalled on MYC nascent chain Deposited 2025-04-07 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 76 PDB declaration: 82-meric |
Chain LA
1–257（257 aa）
|
Not recorded | MG MAGNESIUM ION × 352 K POTASSIUM ION × 165 SPD SPERMIDINE × 14 PUT 1,4-DIAMINOBUTANE × 7 TRS 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL × 2 ZN ZINC ION × 8 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5；20mM Tris, 100mM KOAc, 7.5mM MgOAc, 0.25mM Spermidine, 2mM DTT, 0.05% w/v b-OG
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.20 Å |
| 9O3W Human 80S ribosome bound to IDB-001 stalled on MYC nascent chain Deposited 2025-04-07 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 76 PDB declaration: 82-meric |
Chain LA
1–257（257 aa）
|
Not recorded | K POTASSIUM ION × 170 PUT 1,4-DIAMINOBUTANE × 7 SPD SPERMIDINE × 14 A1B75 (2R,3S,4S)-4-hydroxy-2-[(4-methoxyphenyl)methyl]pyrrolidin-3-yl {2-[(2S)-pyrrolidin-2-yl]ethyl}carbamate × 1 TRS 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL × 2 MG MAGNESIUM ION × 371 ZN ZINC ION × 8 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5；20mM Tris, 100mM KOAc, 7.5mM MgOAc, 0.25mM Spermidine, 2mM DTT, 0.05% w/v b-OG, 50uM IDB-001
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 1.90 Å |
| 9O3Y Human 80S ribosome bound to IDB-002 stalled on FPAK-containing nascent chain Deposited 2025-04-07 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 76 PDB declaration: 82-meric |
Chain LA
1–257（257 aa）
|
Not recorded | K POTASSIUM ION × 168 SPD SPERMIDINE × 14 PUT 1,4-DIAMINOBUTANE × 7 TRS 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL × 2 MG MAGNESIUM ION × 332 A1B76 (2R,3S,4S)-4-hydroxy-2-[(4-methoxyphenyl)methyl]pyrrolidin-3-yl [(3-fluorophenyl)methyl]carbamate × 1 ZN ZINC ION × 8 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5；20mM Tris, 100mM KOAc, 7.5mM MgOAc, 0.25mM Spermidine, 2mM DTT, 0.05% w/v b-OG, 50uM IDB-001
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.20 Å |
| 9P6Z In situ human P-Z state 80S ribosome Deposited 2025-06-20 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 78 PDB declaration: 84-meric |
Chain LA
2–249（248 aa）
|
Not recorded | MG MAGNESIUM ION × 219 SPM SPERMINE × 7 SPD SPERMIDINE × 10 ZN ZINC ION × 6 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.97 Å |
| 9P72 In situ human P-E state 80S ribosome Deposited 2025-06-20 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 78 PDB declaration: 84-meric |
Chain LA
2–249（248 aa）
|
Not recorded | MG MAGNESIUM ION × 219 SPM SPERMINE × 7 SPD SPERMIDINE × 10 ZN ZINC ION × 6 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.80 Å |
| 9P73 In situ human eEF2-A/P-P/E state 80S ribosome Deposited 2025-06-20 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 79 PDB declaration: 85-meric |
Chain LA
2–249（248 aa）
|
Not recorded | MG MAGNESIUM ION × 218 ZN ZINC ION × 6 SPM SPERMINE × 7 SPD SPERMIDINE × 10 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.66 Å |
| 9P76 In situ human eEF1A-A/T-P state 80S ribosome Deposited 2025-06-20 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 79 PDB declaration: 85-meric |
Chain LA
2–249（248 aa）
|
Not recorded | MG MAGNESIUM ION × 219 SPM SPERMINE × 7 SPD SPERMIDINE × 10 ZN ZINC ION × 6 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.83 Å |
| 9P78 In situ human Hibernating rotate 3 with E-site tRNA state 80S ribosome Deposited 2025-06-20 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 81 PDB declaration: 86-meric |
Chain LA
2–249（248 aa）
|
Not recorded | MG MAGNESIUM ION × 218 SPM SPERMINE × 7 SPD SPERMIDINE × 10 ZN ZINC ION × 6 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.90 Å |
| 9P79 In situ human Hibernating rotate3 with Z site tRNA state 80S ribosome Deposited 2025-06-20 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 81 PDB declaration: 86-meric |
Chain LA
2–249（248 aa）
|
Not recorded | MG MAGNESIUM ION × 218 SPM SPERMINE × 7 SPD SPERMIDINE × 10 ZN ZINC ION × 6 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.10 Å |
| 9P7A In situ human hibernating class2 80S ribosome Deposited 2025-06-20 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 81 PDB declaration: 86-meric |
Chain LA
2–249（248 aa）
|
Not recorded | MG MAGNESIUM ION × 218 SPM SPERMINE × 7 SPD SPERMIDINE × 10 ZN ZINC ION × 6 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.81 Å |
| 9P7C In situ human Hibernating class3 80S ribosome Deposited 2025-06-20 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 81 PDB declaration: 86-meric |
Chain LA
2–249（248 aa）
|
Not recorded | MG MAGNESIUM ION × 218 SPM SPERMINE × 7 SPD SPERMIDINE × 10 ZN ZINC ION × 6 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.78 Å |
| 9P7D In situ human Hibernating class4 80S ribosome Deposited 2025-06-20 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 81 PDB declaration: 86-meric |
Chain LA
2–249（248 aa）
|
Not recorded | MG MAGNESIUM ION × 218 SPM SPERMINE × 7 SPD SPERMIDINE × 10 ZN ZINC ION × 6 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.57 Å |
| 9P7E In situ human Hibernating class5 80S ribosome Deposited 2025-06-20 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 81 PDB declaration: 86-meric |
Chain LA
2–249（248 aa）
|
Not recorded | MG MAGNESIUM ION × 218 SPM SPERMINE × 7 SPD SPERMIDINE × 10 ZN ZINC ION × 6 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.59 Å |
| 9P7F In situ HHT and CHX treated A-P state 80S ribosome Deposited 2025-06-20 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 78 PDB declaration: 84-meric |
Chain LA
2–249（248 aa）
|
Not recorded | ZN ZINC ION × 6 MG MAGNESIUM ION × 219 SPM SPERMINE × 7 SPD SPERMIDINE × 10 3HE 4-{(2R)-2-[(1S,3S,5S)-3,5-dimethyl-2-oxocyclohexyl]-2-hydroxyethyl}piperidine-2,6-dione × 1 HMT (3beta)-O~3~-[(2R)-2,6-dihydroxy-2-(2-methoxy-2-oxoethyl)-6-methylheptanoyl]cephalotaxine × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.56 Å |
| 9P7G In situ HHT and CHX treated A-P-Z state 80S ribosome Deposited 2025-06-20 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 78 PDB declaration: 85-meric |
Chain LA
2–249（248 aa）
|
Not recorded | MG MAGNESIUM ION × 219 ZN ZINC ION × 6 SPM SPERMINE × 7 SPD SPERMIDINE × 10 3HE 4-{(2R)-2-[(1S,3S,5S)-3,5-dimethyl-2-oxocyclohexyl]-2-hydroxyethyl}piperidine-2,6-dione × 1 HMT (3beta)-O~3~-[(2R)-2,6-dihydroxy-2-(2-methoxy-2-oxoethyl)-6-methylheptanoyl]cephalotaxine × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.54 Å |
| 9P7H In situ HHT and CHX treated human eEF1A-A/T-P state 80S ribosome Deposited 2025-06-20 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 79 PDB declaration: 85-meric |
Chain LA
2–249（248 aa）
|
Not recorded | MG MAGNESIUM ION × 219 SPM SPERMINE × 7 SPD SPERMIDINE × 10 HMT (3beta)-O~3~-[(2R)-2,6-dihydroxy-2-(2-methoxy-2-oxoethyl)-6-methylheptanoyl]cephalotaxine × 1 3HE 4-{(2R)-2-[(1S,3S,5S)-3,5-dimethyl-2-oxocyclohexyl]-2-hydroxyethyl}piperidine-2,6-dione × 1 ZN ZINC ION × 6 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.68 Å |
| 9P7I In situ HHT and CHX treated human eEF1A-A/T-P-Z state 80S ribosome Deposited 2025-06-20 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 79 PDB declaration: 86-meric |
Chain LA
2–249（248 aa）
|
Not recorded | MG MAGNESIUM ION × 219 SPM SPERMINE × 7 SPD SPERMIDINE × 10 3HE 4-{(2R)-2-[(1S,3S,5S)-3,5-dimethyl-2-oxocyclohexyl]-2-hydroxyethyl}piperidine-2,6-dione × 1 HMT (3beta)-O~3~-[(2R)-2,6-dihydroxy-2-(2-methoxy-2-oxoethyl)-6-methylheptanoyl]cephalotaxine × 1 ZN ZINC ION × 6 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.69 Å |
| 9P7J In situ HHT and CHX treated human P state 80S ribosome Deposited 2025-06-20 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 78 PDB declaration: 83-meric |
Chain LA
2–249（248 aa）
|
Not recorded | MG MAGNESIUM ION × 219 SPM SPERMINE × 7 SPD SPERMIDINE × 10 HMT (3beta)-O~3~-[(2R)-2,6-dihydroxy-2-(2-methoxy-2-oxoethyl)-6-methylheptanoyl]cephalotaxine × 1 3HE 4-{(2R)-2-[(1S,3S,5S)-3,5-dimethyl-2-oxocyclohexyl]-2-hydroxyethyl}piperidine-2,6-dione × 1 ZN ZINC ION × 6 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.91 Å |
| 9P7K In situ human post eEF1A-A/T-P-E state 80S ribosome Deposited 2025-06-20 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 79 PDB declaration: 86-meric |
Chain LA
2–249（248 aa）
|
Not recorded | MG MAGNESIUM ION × 219 SPM SPERMINE × 7 SPD SPERMIDINE × 10 ZN ZINC ION × 6 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.80 Å |
| 9P7L In situ human Post-eEF1A-AT-P state 80S ribosome Deposited 2025-06-20 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 79 PDB declaration: 85-meric |
Chain LA
2–249（248 aa）
|
Not recorded | MG MAGNESIUM ION × 219 SPM SPERMINE × 7 SPD SPERMIDINE × 10 ZN ZINC ION × 6 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.92 Å |
| 9P7N In situ human Post-eEF1A-A/T-P-Z state 80S ribosome Deposited 2025-06-20 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 79 PDB declaration: 86-meric |
Chain LA
2–249（248 aa）
|
Not recorded | MG MAGNESIUM ION × 219 SPM SPERMINE × 7 SPD SPERMIDINE × 10 ZN ZINC ION × 6 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.83 Å |
| 9P7O In situ human AT-P-Z state ribosome Deposited 2025-06-20 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 79 PDB declaration: 86-meric |
Chain LA
2–249（248 aa）
|
Not recorded | MG MAGNESIUM ION × 219 SPM SPERMINE × 7 SPD SPERMIDINE × 10 ZN ZINC ION × 6 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.65 Å |
| 9P7W In situ human A-P state 80S ribosome Deposited 2025-06-22 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 78 PDB declaration: 84-meric |
Chain LA
2–249（248 aa）
|
Not recorded | MG MAGNESIUM ION × 219 ZN ZINC ION × 6 SPM SPERMINE × 7 SPD SPERMIDINE × 10 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.93 Å |
| 9P7X In situ human A-P-Z state 80S ribosome Deposited 2025-06-22 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 78 PDB declaration: 85-meric |
Chain LA
2–249（248 aa）
|
Not recorded | ZN ZINC ION × 6 MG MAGNESIUM ION × 219 SPM SPERMINE × 7 SPD SPERMIDINE × 10 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.83 Å |
| 9P7Y In situ human A-P-E state 80S ribosome Deposited 2025-06-22 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 78 PDB declaration: 85-meric |
Chain LA
2–249（248 aa）
|
Not recorded | MG MAGNESIUM ION × 219 ZN ZINC ION × 6 SPM SPERMINE × 7 SPD SPERMIDINE × 10 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.75 Å |
| 9P8B In situ human eEF1A-A/T-P-E state 80S ribosome Deposited 2025-06-22 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 79 PDB declaration: 86-meric |
Chain LA
2–249（248 aa）
|
Not recorded | MG MAGNESIUM ION × 219 SPM SPERMINE × 7 SPD SPERMIDINE × 10 ZN ZINC ION × 6 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.48 Å |
| 9P8C In situ human Hibernating class1 (rotate3) without E tRNA state 80S ribosome Deposited 2025-06-22 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 81 PDB declaration: 85-meric |
Chain LA
2–249（248 aa）
|
Not recorded | MG MAGNESIUM ION × 218 SPM SPERMINE × 7 SPD SPERMIDINE × 10 ZN ZINC ION × 6 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.11 Å |
| 9P8H In situ human A/P-P/E state 80S ribosome Deposited 2025-06-23 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 78 PDB declaration: 84-meric |
Chain LA
2–249（248 aa）
|
Not recorded | MG MAGNESIUM ION × 218 ZN ZINC ION × 6 SPM SPERMINE × 7 SPD SPERMIDINE × 10 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.98 Å |
| 9P8I In situ HHT and CHX treated human P-Z state 80S ribosome Deposited 2025-06-23 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 78 PDB declaration: 84-meric |
Chain LA
2–249（248 aa）
|
Not recorded | MG MAGNESIUM ION × 219 SPM SPERMINE × 7 SPD SPERMIDINE × 10 3HE 4-{(2R)-2-[(1S,3S,5S)-3,5-dimethyl-2-oxocyclohexyl]-2-hydroxyethyl}piperidine-2,6-dione × 1 HMT (3beta)-O~3~-[(2R)-2,6-dihydroxy-2-(2-methoxy-2-oxoethyl)-6-methylheptanoyl]cephalotaxine × 1 ZN ZINC ION × 6 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.89 Å |
| 9P9H In situ human unrotated hibernating with CCDC124 state 80S ribosome Deposited 2025-06-24 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 80 PDB declaration: 85-meric |
Chain LA
2–249（248 aa）
|
Not recorded | MG MAGNESIUM ION × 219 SPM SPERMINE × 7 SPD SPERMIDINE × 10 ZN ZINC ION × 6 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.84 Å |
| 9P9I In situ human unrotated hibernating without CCDC124 state 80S ribosome Deposited 2025-06-24 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 79 PDB declaration: 84-meric |
Chain LA
2–249（248 aa）
|
Not recorded | MG MAGNESIUM ION × 219 SPM SPERMINE × 7 SPD SPERMIDINE × 10 ZN ZINC ION × 6 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.77 Å |
| 9P9J In situ human 60S ribosome Deposited 2025-06-24 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 41 PDB declaration: 44-meric |
Chain LA
2–249（248 aa）
|
Not recorded | MG MAGNESIUM ION × 191 SPM SPERMINE × 7 SPD SPERMIDINE × 10 ZN ZINC ION × 5 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.87 Å |
| 9P9K In situ human 60S ribosome with EIF6 Deposited 2025-06-24 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 42 PDB declaration: 45-meric |
Chain LA
2–249（248 aa）
|
Not recorded | MG MAGNESIUM ION × 191 SPM SPERMINE × 7 SPD SPERMIDINE × 10 ZN ZINC ION × 5 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.96 Å |
| 9PA7 In situ human 80S consensus ribosome with EBP1 Deposited 2025-06-25 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 81 PDB declaration: 87-meric |
Chain LA
2–249（248 aa）
|
Not recorded | MG MAGNESIUM ION × 225 SPM SPERMINE × 8 SPD SPERMIDINE × 12 K POTASSIUM ION × 75 ZN ZINC ION × 7 PUT 1,4-DIAMINOBUTANE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.67 Å |
| 9PBE In situ human 80S ribosome (composite map) Deposited 2025-06-26 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 79 PDB declaration: 84-meric |
Chain LA
2–249（248 aa）
|
Not recorded | MG MAGNESIUM ION × 225 SPM SPERMINE × 8 SPD SPERMIDINE × 12 K POTASSIUM ION × 75 ZN ZINC ION × 7 PUT 1,4-DIAMINOBUTANE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.19 Å |
| 9PKG In situ human P state 80S ribosome Deposited 2025-07-14 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 78 PDB declaration: 83-meric |
Chain LA
2–249（248 aa）
|
Not recorded | MG MAGNESIUM ION × 219 SPM SPERMINE × 7 SPD SPERMIDINE × 10 ZN ZINC ION × 6 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.26 Å |
| 9QIW Human pre-60S - State 3 Deposited 2025-03-17 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 48 PDB declaration: 51-meric |
Chain LA
1–257（257 aa）
|
Not recorded | GTP GUANOSINE-5'-TRIPHOSPHATE × 1 GDP GUANOSINE-5'-DIPHOSPHATE × 1 MG MAGNESIUM ION × 1 ZN ZINC ION × 4 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.04 Å |
| 9QLO NMT1-NAC bound human RNC with full length ARF1 - State 1 Deposited 2025-03-21 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 82 PDB declaration: 88-meric |
Chain LA
1–257（257 aa）
|
Not recorded | MG MAGNESIUM ION × 191 G3D GUANOSINE-3'-MONOPHOSPHATE-5'-DIPHOSPHATE × 1 ZN ZINC ION × 8 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.47 Å |
| 9QLP NMT1-NAC bound human RNC with full length ARF1 - State 2 Deposited 2025-03-21 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 82 PDB declaration: 88-meric |
Chain LA
1–257（257 aa）
|
Not recorded | MG MAGNESIUM ION × 191 G3D GUANOSINE-3'-MONOPHOSPHATE-5'-DIPHOSPHATE × 1 ZN ZINC ION × 8 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.75 Å |
| 9QLQ NMT1-NAC bound human RNC with full length ARF1 - alternative State Deposited 2025-03-21 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 82 PDB declaration: 88-meric |
Chain LA
1–257（257 aa）
|
Not recorded | MG MAGNESIUM ION × 191 ZN ZINC ION × 8 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.57 Å |
| 9RPV Structure of the ZAK-bound human disome Deposited 2025-06-25 | Different mutation/modification Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 154 PDB declaration: 168-meric |
Chain LA
1–257（257 aa）
Chain MA
1–257（257 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 830 ZN ZINC ION × 7 ANM ANISOMYCIN × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.35 Å |
| 9RU7 WT-HEK 80S ribosome bound to Kozak mRNA (WT-Kozak) Deposited 2025-07-03 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 75 PDB declaration: 82-meric |
Chain LA
1–252（252 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | K POTASSIUM ION × 17 MG MAGNESIUM ION × 74 C CYTIDINE-5'-MONOPHOSPHATE × 2 NA SODIUM ION × 7 ZN ZINC ION × 5 HYG HYGROMYCIN B × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.00 Å |
| 9RU8 WT-HEK 80S ribosome bound to TISU mRNA (WT-TISU) Deposited 2025-07-03 | Different construct Different mutation/modification Different oligomeric state Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 73 PDB declaration: 80-meric |
Chain LA
1–257（257 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | No recorded non-water small molecule | ELECTRON MICROSCOPY mmCIF provides none of the parsed conditions | Resolution 3.00 Å |
| 9RU9 RPS26dC HEK mutant 80S ribosome bound to Kozak mRNA (RPS26dC-Kozak) Deposited 2025-07-03 | Different construct Different mutation/modification Different oligomeric state Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 75 PDB declaration: 82-meric |
Chain LA
1–257（257 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | No recorded non-water small molecule | ELECTRON MICROSCOPY mmCIF provides none of the parsed conditions | Resolution 2.97 Å |
| 9RUA RPS26dC HEK mutant 80S ribosome bound to TISU mRNA (RPS26dC-TISU) Deposited 2025-07-03 | Different construct Different mutation/modification Different oligomeric state Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 73 PDB declaration: 80-meric |
Chain LA
1–257（257 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | No recorded non-water small molecule | ELECTRON MICROSCOPY mmCIF provides none of the parsed conditions | Resolution 2.90 Å |
| 9RUC WT-HEK 80S ribosome bound to H2B mRNA (WT-H2B) Deposited 2025-07-03 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 73 PDB declaration: 80-meric |
Chain LA
1–254（254 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 223 K POTASSIUM ION × 51 NA SODIUM ION × 8 ZN ZINC ION × 6 HYG HYGROMYCIN B × 1 SPD SPERMIDINE × 3 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.50 Å |
| 9S3B NMT1-NAC bound human RNC with 58 amino acid ARF1-linker - State 1 Deposited 2025-07-24 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 82 PDB declaration: 88-meric |
Chain LA
1–257（257 aa）
|
Not recorded | MG MAGNESIUM ION × 191 ZN ZINC ION × 8 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.38 Å |
| 9S3C NMT1-NAC bound human RNC with 58 amino acid ARF1-linker - State 2 Deposited 2025-07-24 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 82 PDB declaration: 88-meric |
Chain LA
1–257（257 aa）
|
Not recorded | MG MAGNESIUM ION × 191 ZN ZINC ION × 8 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.42 Å |
| 9S3D NAC bound human RNC with 58 amino acid ARF1-linker Deposited 2025-07-24 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 81 PDB declaration: 87-meric |
Chain LA
1–257（257 aa）
|
Not recorded | MG MAGNESIUM ION × 191 ZN ZINC ION × 8 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.32 Å |
| 9SPF CRYO-EM STRUCTURE OF HUMAN 80S RIBOSOME WITH A/P/E-SITE TRNA AND MRNA CONTAINING N1-METHYLPSEUDOURIDINE Deposited 2025-09-17 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 75 PDB declaration: 83-meric |
Chain LA
1–257（257 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | K POTASSIUM ION × 151 MG MAGNESIUM ION × 225 NA SODIUM ION × 35 SPD SPERMIDINE × 19 PUT 1,4-DIAMINOBUTANE × 9 ZN ZINC ION × 7 HYG HYGROMYCIN B × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.40 Å |
| 9SPI CRYO-EM STRUCTURE OF HUMAN 80S RIBOSOME WITH A/P/E-SITE TRNA AND MRNA CONTAINING URIDINE Deposited 2025-09-17 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 75 PDB declaration: 83-meric |
Chain LA
1–257（257 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | PUT 1,4-DIAMINOBUTANE × 8 SPD SPERMIDINE × 18 MG MAGNESIUM ION × 195 K POTASSIUM ION × 75 ZN ZINC ION × 7 HYG HYGROMYCIN B × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.40 Å |
| 9SYR Human quaternary complex of a translating 80S ribosome, NAC, MetAP1 and NatD Deposited 2025-10-13 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Insufficient information Heteromer；Protein × 80 PDB declaration: 86-meric |
Chain La
1–257（257 aa）
|
Not recorded | ZN ZINC ION × 10 COA COENZYME A × 1 GTP GUANOSINE-5'-TRIPHOSPHATE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE-PROPANE
|
Resolution 3.55 Å |
159 other PDB entries and 159 assemblies. Open the comparison page and filter oligomeric states
View Construct and Data Evidence
| UniProt name | RL8_HUMAN |
| Isoform | — |
| PDB entities | 1 |
| Chains and sequence ranges | Author chain A； PDBConstruct 126–382； UniProt 1–257 Author chain D； PDBConstruct 126–382； UniProt 1–257 |
