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Protein Structures and Oligomeric States

Enter a protein name, UniProt accession or PDB ID. Name searches ask you to confirm the protein identity before related structures are queried.

Current Protein Identity：P23301 New Search
18PDB entries
20Biological assembly
20chain/assembly records
Main Difference Dimensions in This Set
Different construct Different mutation/modification Different assembly state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics

Difference tags compare only the current result set; every original PDB and assembly record remains separate.

Related-Structure Differences

Each row represents one biological assembly in one PDB entry; multiple monomers of the same protein are listed separately.

PDB Entry Assembly / Oligomeric State Construct Mutations and Modifications Ligands, Ions and Non-polymers Experimental Method Experimental Conditions Structure Quality
3ER0 Crystal structure of the full length eIF5A from Saccharomyces cerevisiae Deposited 2008-10-01 Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric（1） Consistent with protein count
Chain A 1–157（157 aa）
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6.5；291 K；0.1M MES, 30% PEG400, 0.1M MgCl2, 3% Glicerol, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 291K
Resolution 3.35 Å R-free 0.448
3ER0 Crystal structure of the full length eIF5A from Saccharomyces cerevisiae Deposited 2008-10-01 Assembly 2 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric（1） Consistent with protein count
Chain B 1–157（157 aa）
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6.5；291 K；0.1M MES, 30% PEG400, 0.1M MgCl2, 3% Glicerol, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 291K
Resolution 3.35 Å R-free 0.448
5DAT Complex of yeast 80S ribosome with hypusine-containing eIF5A Deposited 2015-08-20 Assembly 1 Protein–RNA Heteromer；Protein × 81 PDB declaration: 86-MERIC（86） Review required
Chain f 1–157（157 aa）
Non-standard monomer：Yes (specific site not provided by mmCIF) MG MAGNESIUM ION × 580 OHX osmium (III) hexammine × 601 ZN ZINC ION × 8 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7；277.15 K；Tris-acetate pH7.0, potassium thiocyanate, magnesium acetate, glycerol, spermidine, PEG 20000
Resolution 3.15 Å R-free 0.252
5DC3 Complex of yeast 80S ribosome with non-modified eIF5A Deposited 2015-08-23 Assembly 2 Protein–RNA Heteromer；Protein × 80 PDB declaration: 81-meric（81） Review required
Chain f 1–157（157 aa）
Not recorded ZN ZINC ION × 8 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7；277.15 K；Tris-acetate pH7.0, potassium thiocyanate, magnesium acetate, glycerol, spermidine, PEG 20000
Resolution 3.25 Å R-free 0.301
5DGE Coping with proline stalling: structural basis of hypusine-induced protein synthesis by the eukaryotic ribosome Deposited 2015-08-27 Assembly 1 Protein–RNA Heteromer；Protein × 155 PDB declaration: 165-meric（165） Consistent with all polymers
Chain f 1–157（157 aa）
Non-standard monomer：Yes (specific site not provided by mmCIF) MG MAGNESIUM ION × 1093 OHX osmium (III) hexammine × 1169 ZN ZINC ION × 16 SPS SPARSOMYCIN × 2 PRO PROLINE × 4 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7；277.15 K；Tris-acetate pH7.0, potassium thiocyanate, magnesium acetate, glycerol, spermidine, PEG 20000
Resolution 3.45 Å R-free 0.263
5DGF Complex of yeast 80S ribosome with hypusine-containing/non-modified eIF5A and/or a peptidyl-tRNA analog Deposited 2015-08-27 Assembly 2 Protein–RNA Heteromer；Protein × 80 PDB declaration: TRIMERIC（81） Review required
Chain f 1–157（157 aa）
Not recorded ZN ZINC ION × 8 SPS SPARSOMYCIN × 1 MG MAGNESIUM ION × 8 OHX osmium (III) hexammine × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7；277.15 K；Tris-acetate pH7.0, potassium thiocyanate, magnesium acetate, glycerol, spermidine, PEG 20000
Resolution 3.30 Å R-free 0.310
5GAK Yeast 60S ribosomal subunit with A-site tRNA, P-site tRNA and eIF-5A Deposited 2015-12-09 Assembly 1 Protein–RNA Heteromer；Protein × 44 PDB declaration: 49-meric（49） Consistent with all polymers
Chain q 1–157（157 aa）
Non-standard monomer：Yes (specific site not provided by mmCIF) 3HE 4-{(2R)-2-[(1S,3S,5S)-3,5-dimethyl-2-oxocyclohexyl]-2-hydroxyethyl}piperidine-2,6-dione × 1 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.5；Details can be retrieved from EMD-3227
Resolution 3.88 Å
5MC6 Cryo-EM structure of a native ribosome-Ski2-Ski3-Ski8 complex from S. cerevisiae Deposited 2016-11-09 Assembly 1 Protein–RNA Heteromer；Protein × 80 PDB declaration: 87-meric（87） Consistent with all polymers
Chain BT 1–157（157 aa）
Non-standard monomer：Yes (specific site not provided by mmCIF) No recorded non-water small molecule ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.80 Å
6Q84 Crystal structure of RanGTP-Pdr6-eIF5A export complex Deposited 2018-12-14 Assembly 1 Protein heterocomplex Heteromer；Protein × 3 PDB declaration: trimeric（3） Consistent with protein count
Chain C 16–157（142 aa）
Not recorded GTP GUANOSINE-5'-TRIPHOSPHATE × 1 MG MAGNESIUM ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 5.3；291 K；100 mM Sodium acetate pH 5.3 and 30% PEG 300
Resolution 3.70 Å R-free 0.247
6Q84 Crystal structure of RanGTP-Pdr6-eIF5A export complex Deposited 2018-12-14 Assembly 2 Protein heterocomplex Heteromer；Protein × 3 PDB declaration: trimeric（3） Consistent with protein count
Chain F 16–157（142 aa）
Not recorded GTP GUANOSINE-5'-TRIPHOSPHATE × 1 MG MAGNESIUM ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 5.3；291 K；100 mM Sodium acetate pH 5.3 and 30% PEG 300
Resolution 3.70 Å R-free 0.247
6TNU Yeast 80S ribosome in complex with eIF5A and decoding A-site and P-site tRNAs. Deposited 2019-12-10 Assembly 1 Protein–RNA Heteromer；Protein × 76 PDB declaration: 83-meric（83） Consistent with all polymers
Chain eI 4–157（154 aa）
Non-standard monomer：Yes (specific site not provided by mmCIF) ZN ZINC ION × 7 SPD SPERMIDINE × 1 3HE 4-{(2R)-2-[(1S,3S,5S)-3,5-dimethyl-2-oxocyclohexyl]-2-hydroxyethyl}piperidine-2,6-dione × 1 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.10 Å
7NRC Structure of the yeast Gcn1 bound to a leading stalled 80S ribosome with Rbg2, Gir2, A- and P-tRNA and eIF5A Deposited 2021-03-03 Assembly 1 Protein–RNA Heteromer；Protein × 79 PDB declaration: 86-meric（86） Consistent with all polymers
Chain Ls 4–157（154 aa）
Non-standard monomer：Yes (specific site not provided by mmCIF) No recorded non-water small molecule ELECTRON MICROSCOPY
cryo-EM buffer pH 7.5
cryo-EM vitrification conditions Cryogen ETHANE-PROPANE
Resolution 3.90 Å
8AAF Yeast RQC complex in state G Deposited 2022-07-01 Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 54-meric（54） Consistent with all polymers
Chain v 1–157（157 aa）
Non-standard monomer：Yes (specific site not provided by mmCIF) MG MAGNESIUM ION × 13 ZN ZINC ION × 7 SPD SPERMIDINE × 1 ELECTRON MICROSCOPY
cryo-EM buffer pH 6.8
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 2.50 Å
8AGT Yeast RQC complex in state F Deposited 2022-07-20 Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 54-meric（54） Consistent with all polymers
Chain v 1–157（157 aa）
Non-standard monomer：Yes (specific site not provided by mmCIF) MG MAGNESIUM ION × 13 ZN ZINC ION × 7 ELECTRON MICROSCOPY
cryo-EM buffer pH 6.8
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 2.60 Å
8AGU Yeast RQC complex in state E Deposited 2022-07-20 Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 53-meric（53） Consistent with all polymers
Chain v 1–157（157 aa）
Non-standard monomer：Yes (specific site not provided by mmCIF) MG MAGNESIUM ION × 13 ZN ZINC ION × 7 SPD SPERMIDINE × 1 ELECTRON MICROSCOPY
cryo-EM buffer pH 6.8
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 2.70 Å
8AGV Yeast RQC complex in state H Deposited 2022-07-20 Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 54-meric（54） Consistent with all polymers
Chain v 1–157（157 aa）
Non-standard monomer：Yes (specific site not provided by mmCIF) MG MAGNESIUM ION × 13 ZN ZINC ION × 7 ELECTRON MICROSCOPY
cryo-EM buffer pH 6.8
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 2.60 Å
8AGX Yeast RQC complex in state with the RING domain of Ltn1 in the IN position Deposited 2022-07-20 Assembly 1 Protein–RNA Heteromer；Protein × 48 PDB declaration: 52-meric（52） Review required
Chain v 1–157（157 aa）
Non-standard monomer：Yes (specific site not provided by mmCIF) MG MAGNESIUM ION × 13 ZN ZINC ION × 7 SPD SPERMIDINE × 1 ELECTRON MICROSCOPY
cryo-EM buffer pH 6.8
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 2.40 Å
8AGZ Yeast RQC complex in state with the RING domain of Ltn1 in the OUT position Deposited 2022-07-20 Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 54-meric（54） Consistent with all polymers
Chain v 1–157（157 aa）
Non-standard monomer：Yes (specific site not provided by mmCIF) MG MAGNESIUM ION × 13 ZN ZINC ION × 7 SPD SPERMIDINE × 1 ELECTRON MICROSCOPY
cryo-EM buffer pH 6.8
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 2.60 Å
8K2D Cryo-EM structure of the yeast 80S ribosome with tigecycline, eEF2, Stm1 and eIF5A Deposited 2023-07-12 Assembly 1 Protein–RNA Heteromer；Protein × 80 PDB declaration: 84-meric（84） Consistent with all polymers
Chain CE 1–157（157 aa）
Non-standard monomer：Yes (specific site not provided by mmCIF) ZN ZINC ION × 9 T1C TIGECYCLINE × 6 MG MAGNESIUM ION × 4 GDP GUANOSINE-5'-DIPHOSPHATE × 1 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.20 Å
8Y0U dormant ribosome with STM1 Deposited 2024-01-23 Assembly 1 Protein–RNA Heteromer；Protein × 73 PDB declaration: 77-meric（77） Consistent with all polymers
Chain 5 1–157（157 aa）
Not recorded MG MAGNESIUM ION × 281 ZN ZINC ION × 7 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4；50mM HEPES, pH7.5, 100mM KOAc, 5mM Mg(OAc)2, 1mM DTT
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.59 Å

This page presents structural evidence recorded in PDB/mmCIF.“No recorded non-water small molecule” does not prove that the experimental sample was ligand-free; experimental conditions belong to the PDB experiment, while ligands and copy counts are shown for each biological assembly.