60S ribosomal protein L8
OrganismNot specified
State in the Current Structure
| Assembly | Oligomeric State | Construct | Mutations and Modifications | Ligands, Ions and Associated Components | Method and Experimental Conditions | Structure Quality |
|---|---|---|---|---|---|---|
| 1 | Protein–RNA Heteromer Protein × 76 RNA 7 PDB declaration: 83-meric（83） Consistent with all polymer counts | Chain A； UniProt 2–249 | Not recorded | mRNA × 1 P-site tRNA × 1 Z-site tRNA × 1 28S rRNA × 1 5S rRNA × 1 5.8S rRNA × 1 60S ribosomal protein L3 × 1 （G1TL06） 60S ribosomal protein L4 × 1 （G1SVW5） 60S ribosomal protein L5 × 1 （G1SYJ6） 60S ribosomal protein L6 × 1 （G1SKF7） 60S ribosomal protein L7 × 1 60S ribosomal protein L7a × 1 60S ribosomal protein L9 × 1 （G1TX33） 60S ribosomal protein L10 × 1 （B7NZQ2） 60S ribosomal protein L11 × 1 （G1TUB8） 60S ribosomal protein L13 × 1 60S ribosomal protein L14 × 1 （U3KNW6） 60S ribosomal protein L15 × 1 （G1T0C1） 60S ribosomal protein L13a × 1 60S ribosomal protein L17 × 1 （G1SCJ6） 60S ribosomal protein L18 × 1 60S ribosomal protein L19 × 1 60S ribosomal protein L18a × 1 60S ribosomal protein L21 × 1 （G1SHQ2） 60S ribosomal protein L22 × 1 60S ribosomal protein L23 × 1 （G1T6D1） 60S ribosomal protein L24 × 1 （G1SE28） 60S ribosomal protein L23a × 1 60S ribosomal protein L26 × 1 （G1SQH0） 60S ribosomal protein L27 × 1 （G1TXF6） 60S ribosomal protein L27a × 1 （G1SNY0） 60S ribosomal protein L29 × 1 60S ribosomal protein L30 × 1 （G1TDL2） 60S ribosomal protein L31 × 1 （G1SHG0） 60S ribosomal protein L32 × 1 （G1U437） 60S ribosomal protein L35a × 1 （G1SF08） 60S ribosomal protein L34 × 1 60S ribosomal protein L35 × 1 （G1SIT5） 60S ribosomal protein L36 × 1 （G1TTQ5） 60S ribosomal protein L37 × 1 （U3KPD5） 60S ribosomal protein L38 × 1 60S ribosomal protein L39 × 1 （G1TTN1） 60S ribosomal protein L40 × 1 60S ribosomal protein L41 × 1 60S ribosomal protein L36a × 1 （G1T040） 60S ribosomal protein L37a × 1 （G1SY53） 60S ribosomal protein L28 × 1 （G1U7L1） 60S ribosomal protein L10a × 1 （G1SKZ8） 18S rRNA × 1 40S ribosomal protein SA × 1 40S ribosomal protein S3a × 1 （G1SS70） 40S ribosomal protein S2 × 1 40S ribosomal protein S3 × 1 40S ribosomal protein S4, X isoform × 1 40S ribosomal protein S5 × 1 （G1TFM5） 40S ribosomal protein S6 × 1 （G1TM55） 40S ribosomal protein S7 × 1 （G1SVB0） 40S ribosomal protein S8 × 1 40S ribosomal protein S9 × 1 （B7NZS8） 40S ribosomal protein S10 × 1 （G1TPV3） 40S ribosomal protein S11 × 1 （G1TRM4） 40S ribosomal protein S12 × 1 （G1SFR8） 40S ribosomal protein S13 × 1 （G1SP51） 40S ribosomal protein S14 × 1 40S ribosomal protein S15 × 1 （G1U0Q2） 40S ribosomal protein S16 × 1 40S ribosomal protein S17 × 1 （G1TU13） 40S ribosomal protein S18 × 1 （G1TPG3） 40S ribosomal protein S19 × 1 40S ribosomal protein S20 × 1 40S ribosomal protein S21 × 1 40S ribosomal protein S15a × 1 （G1TG89） 40S ribosomal protein S23 × 1 40S ribosomal protein S24 × 1 40S ribosomal protein S25 × 1 （G1TDB3） 40S ribosomal protein S26 × 1 40S ribosomal protein S27 × 1 40S ribosomal protein S28 × 1 （G1TIB4） 40S ribosomal protein S29 × 1 （G1U7M4） 40S ribosomal protein S30 × 1 （G1T8A2） 40S ribosomal protein S27a × 1 （G1SK22） Receptor of activated protein C kinase 1 × 1 （G1SJB4） MG MAGNESIUM ION × 297 ZN ZINC ION × 8 | ELECTRON MICROSCOPY cryo-EM buffer：pH 7.4 cryo-EM vitrification conditions：Cryogen ETHANE | Resolution 3.60 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 6MTB | Assembly / Oligomeric State | Construct | Mutations and Modifications | Ligands, Ions and Non-polymers | Method and Experimental Conditions | Structure Quality |
|---|---|---|---|---|---|---|---|
| 3JAG Structure of a mammalian ribosomal termination complex with ABCE1, eRF1(AAQ), and the UAA stop codon Deposited 2015-06-10 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 80 PDB declaration: 87-meric |
Chain A
2–245（244 aa）
|
Not recorded | MG MAGNESIUM ION × 195 ZN ZINC ION × 8 SF4 IRON/SULFUR CLUSTER × 2 ADP ADENOSINE-5'-DIPHOSPHATE × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
50 mM HEPES, 100 mM potassium acetate, 5 mM magnesium acetate, 1 mM DTT；pH 7.4；50 mM HEPES, 100 mM potassium acetate, 5 mM magnesium acetate, 1 mM DTT
cryo-EM vitrification conditions
After 30 second wait time, blot for 3 seconds before plunging；Cryogen ETHANE；After 30 second wait time, blot for 3 seconds before plunging into liquid ethane (FEI VITROBOT MARK III).
|
Resolution 3.65 Å |
| 3JAH Structure of a mammalian ribosomal termination complex with ABCE1, eRF1(AAQ), and the UAG stop codon Deposited 2015-06-10 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 80 PDB declaration: 87-meric |
Chain A
2–245（244 aa）
|
Not recorded | MG MAGNESIUM ION × 195 ZN ZINC ION × 8 SF4 IRON/SULFUR CLUSTER × 2 ADP ADENOSINE-5'-DIPHOSPHATE × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
50 mM HEPES, 100 mM potassium acetate, 5 mM magnesium acetate, 1 mM DTT；pH 7.4；50 mM HEPES, 100 mM potassium acetate, 5 mM magnesium acetate, 1 mM DTT
cryo-EM vitrification conditions
After 30 second wait time, blot for 3 seconds before plunging；Cryogen ETHANE；After 30 second wait time, blot for 3 seconds before plunging into liquid ethane (FEI VITROBOT MARK III).
|
Resolution 3.45 Å |
| 3JAI Structure of a mammalian ribosomal termination complex with ABCE1, eRF1(AAQ), and the UGA stop codon Deposited 2015-06-10 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 80 PDB declaration: 87-meric |
Chain A
2–245（244 aa）
|
Not recorded | MG MAGNESIUM ION × 195 ZN ZINC ION × 8 SF4 IRON/SULFUR CLUSTER × 2 ADP ADENOSINE-5'-DIPHOSPHATE × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
50 mM HEPES, 100 mM potassium acetate, 5 mM magnesium acetate, 1 mM DTT；pH 7.4；50 mM HEPES, 100 mM potassium acetate, 5 mM magnesium acetate, 1 mM DTT
cryo-EM vitrification conditions
After 30 second wait time, blot for 3 seconds before plunging；Cryogen ETHANE；After 30 second wait time, blot for 3 seconds before plunging into liquid ethane (FEI VITROBOT MARK III).
|
Resolution 3.65 Å |
| 4D5Y Cryo-EM structures of ribosomal 80S complexes with termination factors and cricket paralysis virus IRES reveal the IRES in the translocated state Deposited 2014-11-07 | Different construct 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 A
1–257（257 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
20 MM TRIS PH 7.5, 100 MM KCL, 1 MM DTT, 2.5 MM MGCL2, 0.5 MM GTP；pH 7.5；20 MM TRIS PH 7.5, 100 MM KCL, 1 MM DTT, 2.5 MM MGCL2, 0.5 MM GTP
cryo-EM vitrification conditions
Cryogen ETHANE；LIQUID ETHANE
|
Resolution 9.00 Å |
| 5LZS Structure of the mammalian ribosomal elongation complex with aminoacyl-tRNA, eEF1A, and didemnin B Deposited 2016-10-02 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 78 PDB declaration: 86-meric |
Chain A
1–257（257 aa）
|
Not recorded | MG MAGNESIUM ION × 276 ZN ZINC ION × 8 GDP GUANOSINE-5'-DIPHOSPHATE × 1 7C4 (2~{S})-~{N}-[(2~{R})-1-[[(3~{S},6~{S},8~{S},12~{S},13~{R},16~{S},17~{R},20~{S},23~{S})-13-[(2~{S})-butan-2-yl]-20-[(4-methoxyphenyl)methyl]-6,17,21-trimethyl-3-(2-methylpropyl)-12-oxidanyl-2,5,7,10,15,19,22-heptakis(oxidanylidene)-8-propan-2-yl-9,18-dioxa-1,4,14,21-tetrazabicyclo[21.3.0]hexacosan-16-yl]amino]-4-methyl-1-oxidanylidene-pentan-2-yl]-~{N}-methyl-1-[(2~{S})-2-oxidanylpropanoyl]pyrrolidine-2-carboxamide × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE；3 ul aliquots were applied to the grid and incubated for 30 s, before blotting for 3s to remove excess solution.
|
Resolution 3.31 Å |
| 5LZT Structure of the mammalian ribosomal termination complex with eRF1 and eRF3. Deposited 2016-10-02 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 80 PDB declaration: 87-meric |
Chain A
1–257（257 aa）
|
Not recorded | MG MAGNESIUM ION × 282 ZN ZINC ION × 8 GCP PHOSPHOMETHYLPHOSPHONIC ACID GUANYLATE ESTER × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE；3 ul aliquots were applied to the grid and incubated for 30 s, before blotting for 3s to remove excess solution.
|
Resolution 3.65 Å |
| 5LZU Structure of the mammalian ribosomal termination complex with accommodated eRF1 Deposited 2016-10-02 | Different construct 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 A
1–257（257 aa）
|
Not recorded | MG MAGNESIUM ION × 258 ZN ZINC ION × 8 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE；3 ul aliquots were applied to the grid and incubated for 30 s, before blotting for 3s to remove excess solution.
|
Resolution 3.75 Å |
| 5LZV Structure of the mammalian ribosomal termination complex with accommodated eRF1(AAQ) and ABCE1. Deposited 2016-10-02 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 80 PDB declaration: 87-meric |
Chain A
1–257（257 aa）
|
Not recorded | MG MAGNESIUM ION × 300 ZN ZINC ION × 8 SF4 IRON/SULFUR CLUSTER × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE；3 ul aliquots were applied to the grid and incubated for 30 s, before blotting for 3s to remove excess solution.
|
Resolution 3.35 Å |
| 5LZW Structure of the mammalian rescue complex with Pelota and Hbs1l assembled on a truncated mRNA. Deposited 2016-10-02 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 80 PDB declaration: 87-meric |
Chain A
1–257（257 aa）
|
Not recorded | MG MAGNESIUM ION × 281 ZN ZINC ION × 8 GCP PHOSPHOMETHYLPHOSPHONIC ACID GUANYLATE ESTER × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE；3 ul aliquots were applied to the grid and incubated for 30 s, before blotting for 3s to remove excess solution.
|
Resolution 3.53 Å |
| 5LZY Structure of the mammalian rescue complex with Pelota and Hbs1l assembled on a polyadenylated mRNA. Deposited 2016-10-02 | Different construct 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 A
1–257（257 aa）
|
Not recorded | MG MAGNESIUM ION × 236 ZN ZINC ION × 8 GCP PHOSPHOMETHYLPHOSPHONIC ACID GUANYLATE ESTER × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE；3 ul aliquots were applied to the grid and incubated for 30 s, before blotting for 3s to remove excess solution.
|
Resolution 3.99 Å |
| 5LZZ Structure of the mammalian rescue complex with Pelota and Hbs1l (combined) Deposited 2016-10-02 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 80 PDB declaration: 87-meric |
Chain A
1–257（257 aa）
|
Not recorded | MG MAGNESIUM ION × 264 ZN ZINC ION × 8 GCP PHOSPHOMETHYLPHOSPHONIC ACID GUANYLATE ESTER × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE；3 ul aliquots were applied to the grid and incubated for 30 s, before blotting for 3s to remove excess solution.
|
Resolution 3.47 Å |
| 6D90 Mammalian 80S ribosome with a double translocated CrPV-IRES, P-site tRNA and eRF1. Deposited 2018-04-27 | Different construct Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 79 PDB declaration: 85-meric |
Chain A
1–257（257 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.20 Å |
| 6D9J Mammalian 80S ribosome with a double translocated CrPV-IRES, P-sitetRNA and eRF1. Deposited 2018-04-30 | Different construct Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 79 PDB declaration: 85-meric |
Chain A
1–257（257 aa）
|
Not recorded | ZN ZINC ION × 4 MG MAGNESIUM ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.20 Å |
| 6FTG Subtomogram average of OST-containing ribosome-translocon complexes from canine rough microsomal membranes Deposited 2018-02-22 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 55 PDB declaration: 58-meric |
Chain A
2–245（244 aa）
|
Not recorded | MG MAGNESIUM ION × 159 ZN ZINC ION × 5 9UB [(2~{S},3~{R},4~{R},5~{S},6~{R})-3-acetamido-6-(hydroxymethyl)-4,5-bis(oxidanyl)oxan-2-yl]methyl-[oxidanyl-[(2~{Z},6~{Z},10~{Z})-3,7,11,15-tetramethylhexadeca-2,6,10,14-tetraenoxy]phosphoryl]oxy-phosphinic acid × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE-PROPANE；Blot 3 seconds before plunging.
|
Resolution 9.10 Å |
| 6FTI Cryo-EM Structure of the Mammalian Oligosaccharyltransferase Bound to Sec61 and the Programmed 80S Ribosome Deposited 2018-02-22 | Different construct Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 56 PDB declaration: 60-meric |
Chain A
2–245（244 aa）
|
Not recorded | MG MAGNESIUM ION × 159 ZN ZINC ION × 5 9UB [(2~{S},3~{R},4~{R},5~{S},6~{R})-3-acetamido-6-(hydroxymethyl)-4,5-bis(oxidanyl)oxan-2-yl]methyl-[oxidanyl-[(2~{Z},6~{Z},10~{Z})-3,7,11,15-tetramethylhexadeca-2,6,10,14-tetraenoxy]phosphoryl]oxy-phosphinic acid × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 4.20 Å |
| 6FTJ Cryo-EM Structure of the Mammalian Oligosaccharyltransferase Bound to Sec61 and the Non-programmed 80S Ribosome Deposited 2018-02-22 | Different construct Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 55 PDB declaration: 58-meric |
Chain A
2–245（244 aa）
|
Not recorded | MG MAGNESIUM ION × 159 ZN ZINC ION × 5 9UB [(2~{S},3~{R},4~{R},5~{S},6~{R})-3-acetamido-6-(hydroxymethyl)-4,5-bis(oxidanyl)oxan-2-yl]methyl-[oxidanyl-[(2~{Z},6~{Z},10~{Z})-3,7,11,15-tetramethylhexadeca-2,6,10,14-tetraenoxy]phosphoryl]oxy-phosphinic acid × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 4.70 Å |
| 6GZ3 tRNA translocation by the eukaryotic 80S ribosome and the impact of GTP hydrolysis, Translocation-intermediate-POST-1 (TI-POST-1) Deposited 2018-07-03 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions | Assembly 1 Protein–RNA Heteromer；Protein × 79 PDB declaration: 86-meric |
Chain AA
2–253（252 aa）
|
Not recorded | MG MAGNESIUM ION × 327 ZN ZINC ION × 5 GNP PHOSPHOAMINOPHOSPHONIC ACID-GUANYLATE ESTER × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.60 Å |
| 6HCF Structure of the rabbit 80S ribosome stalled on globin mRNA at the stop codon Deposited 2018-08-14 | Different construct Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 81 PDB declaration: 87-meric |
Chain A3
1–257（257 aa）
|
Not recorded | MG MAGNESIUM ION × 300 ZN ZINC ION × 8 SF4 IRON/SULFUR CLUSTER × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.90 Å |
| 6HCJ Structure of the rabbit 80S ribosome on globin mRNA in the rotated state with A/P and P/E tRNAs Deposited 2018-08-15 | Different construct Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 78 PDB declaration: 85-meric |
Chain A3
1–257（257 aa）
|
Not recorded | MG MAGNESIUM ION × 300 ZN ZINC ION × 8 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.80 Å |
| 6HCM Structure of the rabbit collided di-ribosome (stalled monosome) Deposited 2018-08-15 | Different construct Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 81 PDB declaration: 87-meric |
Chain A3
1–257（257 aa）
|
Not recorded | MG MAGNESIUM ION × 300 ZN ZINC ION × 8 SF4 IRON/SULFUR CLUSTER × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 6.80 Å |
| 6HCQ Structure of the rabbit collided di-ribosome (collided monosome) Deposited 2018-08-16 | Different construct Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 78 PDB declaration: 85-meric |
Chain A3
1–257（257 aa）
|
Not recorded | MG MAGNESIUM ION × 300 ZN ZINC ION × 8 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 6.50 Å |
| 6MTC Rabbit 80S ribosome with Z-site tRNA and IFRD2 (unrotated state) Deposited 2018-10-19 | Different oligomeric state Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 77 PDB declaration: 82-meric |
Chain A
2–249（248 aa）
|
Not recorded | MG MAGNESIUM ION × 297 ZN ZINC ION × 8 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.40 Å |
| 6MTD Rabbit 80S ribosome with eEF2 and SERBP1 (unrotated state with 40S head swivel) Deposited 2018-10-19 | Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 80 PDB declaration: 84-meric |
Chain A
2–249（248 aa）
|
Not recorded | MG MAGNESIUM ION × 297 ZN ZINC ION × 8 GDP GUANOSINE-5'-DIPHOSPHATE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.30 Å |
| 6MTE Rabbit 80S ribosome with eEF2 and SERBP1 (rotated state) Deposited 2018-10-19 | Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 79 PDB declaration: 83-meric |
Chain A
2–249（248 aa）
|
Not recorded | MG MAGNESIUM ION × 298 ZN ZINC ION × 8 GDP GUANOSINE-5'-DIPHOSPHATE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.40 Å |
| 6P5I Structure of a mammalian 80S ribosome in complex with the Israeli Acute Paralysis Virus IRES (Class 1) Deposited 2019-05-30 | Different construct 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 AA
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 force = 3s
Wait time = 15s
Drain time = 0s
Blot time = 2.5 to 3 s
|
Resolution 3.10 Å |
| 6P5J Structure of a mammalian 80S ribosome in complex with the Israeli Acute Paralysis Virus IRES (Class 2) Deposited 2019-05-30 | Different construct 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 AA
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 force = 3s
Wait time = 15s
Drain time = 0s
Blot time = 2.5 to 3 s
|
Resolution 3.10 Å |
| 6P5K Structure of a mammalian 80S ribosome in complex with the Israeli Acute Paralysis Virus IRES (Class 3) Deposited 2019-05-30 | Different construct 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 AA
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 force = 3s
Wait time = 15s
Drain time = 0s
Blot time = 2.5 to 3 s
|
Resolution 3.10 Å |
| 6P5N Structure of a mammalian 80S ribosome in complex with a single translocated Israeli Acute Paralysis Virus IRES and eRF1 Deposited 2019-05-30 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 77 PDB declaration: 82-meric |
Chain AA
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 force = 3s
Wait time = 15s
Drain time = 0s
Blot time = 2.5s
|
Resolution 3.20 Å |
| 6R5Q Structure of XBP1u-paused ribosome nascent chain complex (post-state) Deposited 2019-03-25 | 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 A
2–249（248 aa）
|
Not recorded | MG MAGNESIUM ION × 299 ZN ZINC ION × 6 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.00 Å |
| 6R6G Structure of XBP1u-paused ribosome nascent chain complex with SRP. Deposited 2019-03-27 | Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 84 PDB declaration: 92-meric |
Chain A
2–249（248 aa）
|
Not recorded | MG MAGNESIUM ION × 299 ZN ZINC ION × 5 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.70 Å |
| 6R6P Structure of XBP1u-paused ribosome nascent chain complex (rotated state) Deposited 2019-03-27 | Different construct 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 A
2–245（244 aa）
|
Not recorded | MG MAGNESIUM ION × 159 ZN ZINC ION × 5 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.10 Å |
| 6R7Q Structure of XBP1u-paused ribosome nascent chain complex with Sec61. Deposited 2019-03-29 | Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 81 PDB declaration: 88-meric |
Chain A
2–249（248 aa）
|
Not recorded | ZN ZINC ION × 6 MG MAGNESIUM ION × 299 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.90 Å |
| 6SGC Rabbit 80S ribosome stalled on a poly(A) tail Deposited 2019-08-03 | Different construct Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 79 PDB declaration: 86-meric |
Chain A2
1–257（257 aa）
|
Not recorded | MG MAGNESIUM ION × 275 ZN ZINC ION × 8 SPD SPERMIDINE × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.80 Å |
| 6T59 Structure of rabbit 80S ribosome translating beta-tubulin in complex with tetratricopeptide protein 5 and nascent chain-associated complex Deposited 2019-10-15 | Different construct Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 53-meric |
Chain A3
1–257（257 aa）
|
Not recorded | MG MAGNESIUM ION × 220 ZN ZINC ION × 5 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.11 Å |
| 6ZVK The Halastavi arva virus (HalV) intergenic region IRES promotes translation by the simplest possible initiation mechanism Deposited 2020-07-24 | Different construct 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 92
2–245（244 aa）
|
Not recorded | ZN ZINC ION × 6 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.49 Å |
| 7A01 The Halastavi arva virus intergenic region IRES promotes translation by the simplest possible initiation mechanism Deposited 2020-08-05 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions | Assembly 1 Protein–RNA Heteromer；Protein × 80 PDB declaration: 85-meric |
Chain 92
2–245（244 aa）
|
Not recorded | ZN ZINC ION × 6 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.60 Å |
| 7MDZ 80S rabbit ribosome stalled with benzamide-CHX Deposited 2021-04-06 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 75 PDB declaration: 81-meric |
Chain A
1–257（257 aa）
|
Not recorded | MG MAGNESIUM ION × 277 ZN ZINC ION × 8 Z2V N-[(1R,3S,4R,5S)-3-{(1R)-2-[(2R,4r,6S)-2,6-dihydroxypiperidin-4-yl]-1-hydroxyethyl}-4-hydroxy-1,5-dimethylcyclohexyl]benzamide × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE；3 sec blot
|
Resolution 3.20 Å |
| 7NWI Mammalian pre-termination 80S ribosome with Empty-A site bound by Blasticidin S Deposited 2021-03-16 | Different construct 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 A
2–245（244 aa）
|
Not recorded | MG MAGNESIUM ION × 210 ZN ZINC ION × 5 BLS BLASTICIDIN S × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4；50 mM HEPES pH 7.4
100 mM KOAc
5 mM Mg(Oac)2
1mM DTT
cryo-EM vitrification conditions
Cryogen ETHANE；30s sample incubation on grid followed by 1.1s blotting time.
|
Resolution 3.13 Å |
| 7QWQ Ternary complex of ribosome nascent chain with SRP and NAC Deposited 2022-01-25 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 48 PDB declaration: 52-meric |
Chain A
2–245（244 aa）
|
Not recorded | MG MAGNESIUM ION × 97 ZN ZINC ION × 5 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE-PROPANE
|
Resolution 2.83 Å |
| 7TM3 Structure of the rabbit 80S ribosome stalled on a 2-TMD Rhodopsin intermediate in complex with the multipass translocon Deposited 2022-01-19 | Different construct 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 A
1–257（257 aa）
|
Not recorded | MG MAGNESIUM ION × 220 ZN ZINC ION × 5 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5；50 mM HEPES-KOH, pH 7.5, 200 mM KOAc, 5 mM Mg(OAc)2, 0.25% digitonin, 50 mM biotin
cryo-EM vitrification conditions
Cryogen ETHANE；blot for 4 sec with Whatman filter papers at a blot force of -15 before plunging
|
Resolution 3.25 Å |
| 7TOR Mammalian 80S ribosome bound with the ALS/FTD-associated dipeptide repeat protein GR20 Deposited 2022-01-24 | 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 AL02
2–249（248 aa）
|
Not recorded | ZN ZINC ION × 6 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.90 Å |
| 7TUT Structure of the rabbit 80S ribosome stalled on a 4-TMD Rhodopsin intermediate in complex with the multipass translocon Deposited 2022-02-03 | Different construct 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 A
1–257（257 aa）
|
Not recorded | MG MAGNESIUM ION × 220 ZN ZINC ION × 5 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5；50 mM HEPES-KOH, pH 7.5, 200 mM potassium acetate, 5 mM magnesium acetate, 0.25% digitonin, 50 mM biotin
cryo-EM vitrification conditions
Cryogen ETHANE；Blot for 4 seconds with Whatman filter papers at a blot force of -15 before plunging.
|
Resolution 3.88 Å |
| 7UCJ Mammalian 80S translation initiation complex with mRNA and Harringtonine Deposited 2022-03-16 | 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 A
2–249（248 aa）
|
Not recorded | MG MAGNESIUM ION × 296 MQ6 Harringtonine × 1 ZN ZINC ION × 7 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.10 Å |
| 7UCK 80S translation initiation complex with ac4c(-1) mRNA and Harringtonine Deposited 2022-03-16 | 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 A
2–249（248 aa）
|
Not recorded | MG MAGNESIUM ION × 297 MQ6 Harringtonine × 1 ZN ZINC ION × 7 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.80 Å |
| 8B5L Cryo-EM structure of ribosome-Sec61-TRAP (TRanslocon Associated Protein) translocon complex Deposited 2022-09-23 | Different construct 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 A
1–257（257 aa）
|
Not recorded | MG MAGNESIUM ION × 178 ZN ZINC ION × 5 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.86 Å |
| 8B6C Cryo-EM structure of ribosome-Sec61 in complex with cyclotriazadisulfonamide derivative CK147 Deposited 2022-09-26 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 44 PDB declaration: 47-meric |
Chain A
1–257（257 aa）
|
Not recorded | MG MAGNESIUM ION × 178 ZN ZINC ION × 5 OWI 4-[[9-(cyclohexylmethyl)-3-methylidene-5-(4-methylphenyl)sulfonyl-1,5,9-triazacyclododec-1-yl]sulfonyl]-~{N},~{N}-dimethyl-aniline × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.79 Å |
| 8RJB Structure of the rabbit 80S ribosome stalled on a 2-TMD rhodopsin intermediate in complex with Sec61-RAMP4 Deposited 2023-12-20 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 47 PDB declaration: 51-meric |
Chain A
1–257（257 aa）
|
Not recorded | MG MAGNESIUM ION × 218 ZN ZINC ION × 5 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.69 Å |
| 8RJC Structure of the rabbit 80S ribosome stalled on a 2-TMD rhodopsin intermediate in complex with Sec61-TRAP, open conformation 1 Deposited 2023-12-20 | Different construct 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 A
1–257（257 aa）
|
Not recorded | MG MAGNESIUM ION × 218 ZN ZINC ION × 5 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.90 Å |
| 8RJD Structure of the rabbit 80S ribosome stalled on a 2-TMD rhodopsin intermediate in complex with Sec61-TRAP, open conformation 2 Deposited 2023-12-20 | Different construct 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 A
1–257（257 aa）
|
Not recorded | MG MAGNESIUM ION × 218 ZN ZINC ION × 5 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.79 Å |
| 8SCB Terminating ribosome with SRI-41315 Deposited 2023-04-05 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 80 PDB declaration: 87-meric |
Chain A
1–257（257 aa）
|
Not recorded | MG MAGNESIUM ION × 312 ZN ZINC ION × 8 ZVM (2S,4aS)-2-cyclobutyl-10-methyl-3-phenyl-2,10-dihydropyrimido[4,5-b]quinoline-4,5(3H,4aH)-dione × 1 SF4 IRON/SULFUR CLUSTER × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.50 Å |
| 8VFT Translating 80S rabbit ribosome stalled by emetine with eEF2 Deposited 2023-12-22 | Different construct 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 A
1–257（257 aa）
|
Not recorded | MG MAGNESIUM ION × 276 ZN ZINC ION × 8 GDP GUANOSINE-5'-DIPHOSPHATE × 1 34G emetine × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.30 Å |
| 8VVP Codon sampling state obtained from Anisomycin-treated mammalian ribosomes Deposited 2024-01-31 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 80 PDB declaration: 88-meric |
Chain A
1–257（257 aa）
|
Not recorded | MG MAGNESIUM ION × 260 ZN ZINC ION × 8 5GP GUANOSINE-5'-MONOPHOSPHATE × 1 ANM ANISOMYCIN × 1 SPD SPERMIDINE × 6 SPM SPERMINE × 2 K POTASSIUM ION × 1 GTP GUANOSINE-5'-TRIPHOSPHATE × 1 SER SERINE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
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
|
Resolution 2.90 Å |
| 8VVQ Codon sampling state of elongation inhibitor-treated mammalian ribosomes obtained from merged datasets Deposited 2024-01-31 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 80 PDB declaration: 88-meric |
Chain A
1–257（257 aa）
|
Not recorded | MG MAGNESIUM ION × 290 ZN ZINC ION × 8 5GP GUANOSINE-5'-MONOPHOSPHATE × 1 ANM ANISOMYCIN × 1 SPD SPERMIDINE × 1 K POTASSIUM ION × 1 GTP GUANOSINE-5'-TRIPHOSPHATE × 1 SER SERINE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
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
|
Resolution 2.70 Å |
| 8VVR Post-decoding/Post-hydrolysis state obtained from Anisomycin-treated mammalian ribosomes Deposited 2024-01-31 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 80 PDB declaration: 88-meric |
Chain A
1–257（257 aa）
|
Not recorded | MG MAGNESIUM ION × 204 ZN ZINC ION × 8 5GP GUANOSINE-5'-MONOPHOSPHATE × 1 ANM ANISOMYCIN × 1 SPD SPERMIDINE × 3 K POTASSIUM ION × 1 SER SERINE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
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
|
Resolution 3.10 Å |
| 8VVS Post-decoding post-hydrolysis state obtained from merged datasets of elongation inhibitor-treated mammalian ribosomes Deposited 2024-01-31 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 80 PDB declaration: 88-meric |
Chain A
1–257（257 aa）
|
Not recorded | MG MAGNESIUM ION × 236 ZN ZINC ION × 8 5GP GUANOSINE-5'-MONOPHOSPHATE × 1 ANM ANISOMYCIN × 1 SPD SPERMIDINE × 4 K POTASSIUM ION × 1 SER SERINE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
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
|
Resolution 3.10 Å |
| 8VVT Mammalian ribosomes bound to Anisomycin in the rotated conformation Deposited 2024-01-31 | Different construct 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 A
1–257（257 aa）
|
Not recorded | MG MAGNESIUM ION × 144 ANM ANISOMYCIN × 1 SPD SPERMIDINE × 1 ZN ZINC ION × 8 GDP GUANOSINE-5'-DIPHOSPHATE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
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
|
Resolution 2.90 Å |
| 8VVU Anisomycin-bound mammalian ribosome with partially accommodated A-site tRNA Deposited 2024-01-31 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 78 PDB declaration: 86-meric |
Chain A
1–257（257 aa）
|
Not recorded | MG MAGNESIUM ION × 102 ZN ZINC ION × 8 ANM ANISOMYCIN × 1 SPD SPERMIDINE × 1 SER SERINE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
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
|
Resolution 3.80 Å |
| 8VVV Mammalian ribosomes bound to Anisomycin in the nonrotated conformation Deposited 2024-01-31 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 79 PDB declaration: 83-meric |
Chain A
1–257（257 aa）
|
Not recorded | MG MAGNESIUM ION × 294 ZN ZINC ION × 8 GDP GUANOSINE-5'-DIPHOSPHATE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
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
|
Resolution 3.10 Å |
| 9BDL 80S ribosome with angiogenin Deposited 2024-04-12 | 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 AL02
2–249（248 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.80 Å |
| 9BDN 80S ribosome with angiogenin and tRNAAla Deposited 2024-04-12 | Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 77 PDB declaration: 85-meric |
Chain AL02
2–249（248 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.10 Å |
| 9BDP 80S ribosome bound with angiogenin and complex of eEF1A and Ala-tRNAAla Deposited 2024-04-12 | Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 78 PDB declaration: 86-meric |
Chain AL02
2–249（248 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.70 Å |
| 9F1B Mammalian ternary complex of a translating 80S ribosome, NAC and NatA/E Deposited 2024-04-18 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Insufficient information Heteromer；Protein × 83 PDB declaration: 89-meric |
Chain BA
1–257（257 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 420 ZN ZINC ION × 8 UNX UNKNOWN LIGAND × 306 IHP INOSITOL HEXAKISPHOSPHATE × 1 SPD SPERMIDINE × 30 SPM SPERMINE × 3 GTP GUANOSINE-5'-TRIPHOSPHATE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE-PROPANE
|
Resolution 3.01 Å |
| 9F1C Mammalian quaternary complex of a translating 80S ribosome, NAC, MetAP1 and NatA/E Deposited 2024-04-18 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Insufficient information Heteromer；Protein × 84 PDB declaration: 90-meric |
Chain BA
1–257（257 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | UNX UNKNOWN LIGAND × 277 MG MAGNESIUM ION × 420 GTP GUANOSINE-5'-TRIPHOSPHATE × 1 SPD SPERMIDINE × 30 SPM SPERMINE × 3 ZN ZINC ION × 8 IHP INOSITOL HEXAKISPHOSPHATE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE-PROPANE
|
Resolution 3.78 Å |
| 9F1D Mammalian quaternary complex of a translating 80S ribosome, NAC, MetAP1 and NatA/E-HYPK Deposited 2024-04-18 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 85 PDB declaration: 91-meric |
Chain BA
1–257（257 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | UNX UNKNOWN LIGAND × 295 SPD SPERMIDINE × 30 MG MAGNESIUM ION × 420 SPM SPERMINE × 3 GTP GUANOSINE-5'-TRIPHOSPHATE × 1 IHP INOSITOL HEXAKISPHOSPHATE × 1 ZN ZINC ION × 8 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE-PROPANE
|
Resolution 3.26 Å |
| 9MR4 NAC: Ribosome nascent chain complex(Oxa1L) Deposited 2025-01-06 | Different construct 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 A
1–257（257 aa）
|
Not recorded | ZN ZINC ION × 6 MG MAGNESIUM ION × 285 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.65 Å |
| 9NDP Structure of stalled ribosome and nascent chain in complex with NMT2 and NAC Deposited 2025-02-18 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Insufficient information Heteromer；Protein × 81 PDB declaration: 87-meric |
Chain A
1–257（257 aa）
|
Not recorded | MG MAGNESIUM ION × 296 ZN ZINC ION × 6 COA COENZYME A × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.7
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.82 Å |
| 9Q7Q ABCE1-eRF1-RNC-AMD1C Deposited 2025-08-25 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 80 PDB declaration: 86-meric |
Chain A
1–257（257 aa）
|
Not recorded | MG MAGNESIUM ION × 291 ZN ZINC ION × 6 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.86 Å |
| 9QQA Ternary complex of translating ribosome, NAC and NMT1 Deposited 2025-03-31 | 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 BA
1–257（257 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 407 UNX UNKNOWN LIGAND × 187 SPD SPERMIDINE × 30 SPM SPERMINE × 3 ZN ZINC ION × 8 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE-PROPANE
|
Resolution 2.80 Å |
| 9QQB Quaternary complex of a translating ribosome, NAC, NMT1, and NatA Deposited 2025-03-31 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 84 PDB declaration: 89-meric |
Chain BA
1–257（257 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | SPD SPERMIDINE × 30 SPM SPERMINE × 3 MG MAGNESIUM ION × 412 UNX UNKNOWN LIGAND × 168 ZN ZINC ION × 8 IHP INOSITOL HEXAKISPHOSPHATE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE-PROPANE
|
Resolution 3.43 Å |
| 9RHU Rabbit 80S ribosome in complex with eRF1-AAQ, stalled at the Stop codon in mutated F2A sequence Deposited 2025-06-10 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 81 PDB declaration: 88-meric |
Chain D3
1–257（257 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 367 ZN ZINC ION × 8 K POTASSIUM ION × 37 SPD SPERMIDINE × 2 GTP GUANOSINE-5'-TRIPHOSPHATE × 1 SF4 IRON/SULFUR CLUSTER × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.65 Å |
| 9YPG GTPBP1*GCP*Phe-tRNA*ribosome in the GTPase activation-like state, Structure III Deposited 2025-10-14 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 76 PDB declaration: 84-meric |
Chain A
1–257（257 aa）
|
Not recorded | SPD SPERMIDINE × 1 ZN ZINC ION × 6 GTP GUANOSINE-5'-TRIPHOSPHATE × 1 PHE PHENYLALANINE × 1 ATP ADENOSINE-5'-TRIPHOSPHATE × 2 MET METHIONINE × 1 K POTASSIUM ION × 1 GCP PHOSPHOMETHYLPHOSPHONIC ACID GUANYLATE ESTER × 1 MG MAGNESIUM ION × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.00 Å |
| 9YPO GTPBP1*GCP*Phe-tRNA*ribosome in the open state, Structure IIa Deposited 2025-10-14 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 76 PDB declaration: 84-meric |
Chain A
1–257（257 aa）
|
Not recorded | SPD SPERMIDINE × 1 ZN ZINC ION × 6 GTP GUANOSINE-5'-TRIPHOSPHATE × 1 PHE PHENYLALANINE × 1 ATP ADENOSINE-5'-TRIPHOSPHATE × 2 MET METHIONINE × 1 GCP PHOSPHOMETHYLPHOSPHONIC ACID GUANYLATE ESTER × 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 |
| 9YPS GTPBP1*GCP*Phe-tRNA*ribosome in the open state, Structure IIb Deposited 2025-10-14 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 76 PDB declaration: 84-meric |
Chain A
1–257（257 aa）
|
Not recorded | SPD SPERMIDINE × 1 ZN ZINC ION × 6 GTP GUANOSINE-5'-TRIPHOSPHATE × 1 PHE PHENYLALANINE × 1 ATP ADENOSINE-5'-TRIPHOSPHATE × 2 MET METHIONINE × 1 K POTASSIUM ION × 1 GCP PHOSPHOMETHYLPHOSPHONIC ACID GUANYLATE ESTER × 1 MG MAGNESIUM ION × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.00 Å |
| 9YPT GTPBP1*GCP*Phe-tRNA*ribosome in the open state, Structure IIc Deposited 2025-10-14 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 76 PDB declaration: 84-meric |
Chain A
1–257（257 aa）
|
Not recorded | SPD SPERMIDINE × 1 ZN ZINC ION × 6 GTP GUANOSINE-5'-TRIPHOSPHATE × 1 PHE PHENYLALANINE × 1 ATP ADENOSINE-5'-TRIPHOSPHATE × 2 MET METHIONINE × 1 GCP PHOSPHOMETHYLPHOSPHONIC ACID GUANYLATE ESTER × 1 MG MAGNESIUM ION × 1 K POTASSIUM ION × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.10 Å |
| 9YPV GTPBP1*GCP*Phe-tRNA*ribosome in the open state, Structure IId Deposited 2025-10-14 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 76 PDB declaration: 84-meric |
Chain A
1–257（257 aa）
|
Not recorded | SPD SPERMIDINE × 1 ZN ZINC ION × 6 GTP GUANOSINE-5'-TRIPHOSPHATE × 1 PHE PHENYLALANINE × 1 ATP ADENOSINE-5'-TRIPHOSPHATE × 2 MET METHIONINE × 1 K POTASSIUM ION × 1 GCP PHOSPHOMETHYLPHOSPHONIC ACID GUANYLATE ESTER × 1 MG MAGNESIUM ION × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.00 Å |
| 9YPW GTPBP1*GDP*Phe-tRNA*ribosome in the post-GTP hydrolysis state, Structure IV Deposited 2025-10-14 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 76 PDB declaration: 84-meric |
Chain A
1–257（257 aa）
|
Not recorded | SPD SPERMIDINE × 1 ZN ZINC ION × 6 GTP GUANOSINE-5'-TRIPHOSPHATE × 1 PHE PHENYLALANINE × 1 ATP ADENOSINE-5'-TRIPHOSPHATE × 2 MET METHIONINE × 1 K POTASSIUM ION × 1 GDP GUANOSINE-5'-DIPHOSPHATE × 1 MG MAGNESIUM ION × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.90 Å |
| 9YPY Ribosome with accommodated A-site tRNA, Structure V Deposited 2025-10-14 | Different construct 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 A
1–257（257 aa）
|
Not recorded | SPD SPERMIDINE × 1 ZN ZINC ION × 6 GTP GUANOSINE-5'-TRIPHOSPHATE × 1 PHE PHENYLALANINE × 1 ATP ADENOSINE-5'-TRIPHOSPHATE × 2 MET METHIONINE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.00 Å |
| 9YPZ Vacant ribosome with P-site tRNA, substate 1, Structure Ia Deposited 2025-10-14 | Different construct 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 A
1–257（257 aa）
|
Not recorded | SPD SPERMIDINE × 1 ZN ZINC ION × 6 ATP ADENOSINE-5'-TRIPHOSPHATE × 2 MET METHIONINE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.90 Å |
| 9YQ0 Vacant ribosome with P-site tRNA, substate 2, Structure Ib Deposited 2025-10-14 | Different construct 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 A
1–257（257 aa）
|
Not recorded | SPD SPERMIDINE × 1 ZN ZINC ION × 6 ATP ADENOSINE-5'-TRIPHOSPHATE × 2 MET METHIONINE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.90 Å |
| 9YQ1 Vacant ribosome with P-site tRNA, substate 3, Structure Ic Deposited 2025-10-14 | Different construct 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 A
1–257（257 aa）
|
Not recorded | SPD SPERMIDINE × 1 ZN ZINC ION × 6 ATP ADENOSINE-5'-TRIPHOSPHATE × 2 MET METHIONINE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.90 Å |
80 other PDB entries and 80 assemblies. Open the comparison page and filter oligomeric states
View Construct and Data Evidence
| UniProt name | G1TT27_RABIT |
| Isoform | — |
| PDB entities | 7 |
| Chains and sequence ranges | Author chain A； PDBConstruct 1–248； UniProt 2–249 |
