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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：Q9BYG3 New Search
25PDB entries
25Biological assembly
25chain/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
2AFF The solution structure of the Ki67FHA/hNIFK(226-269)3P complex Deposited 2005-07-25 Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric（2） Consistent with protein count
Chain B 226–269（44 aa） Fragment：residues 226-269
Non-standard monomer：Yes (specific site not provided by mmCIF) No recorded non-water small molecule SOLUTION NMR
NMR measurement conditions pH 7.4；293 K；Ionic strength (raw mmCIF value) 150 mM NaCl；Pressure ambient
NMR sample composition 0.9 mM Ki67 FHA U-15N,13C; 1 mM hNIFK(226-269)3P unlabeled 5 mM HEPES, 5 mM DTT, 1 mM EDTA, 150 mM NaCl, pH 7.4 | 93% H2O/7% D2O
NMR sample composition 0.9 mM Ki67 FHA U-15N,13C; 1 mM hNIFK(226-269)3P unlabeled 5 mM HEPES, 5 mM DTT, 1 mM EDTA, 150 mM NaCl, pH 7.4 | 100% D2O
NMR sample composition 1 mM Ki67 FHA unlabled; 0.9 mM hNIFK(226-269)3P U-15N,13C 5 mM HEPES, 5 mM DTT, 1 mM EDTA, 150 mM NaCl, pH 7.4 | 93% H2O/7% D2O
NMR sample composition 1 mM Ki67 FHA unlabled; 0.9 mM hNIFK(226-269)3P U-15N,13C 5 mM HEPES, 5 mM DTT, 1 mM EDTA, 150 mM NaCl, pH 7.4 | 100% D2O
Resolution not provided
8FKP Human nucleolar pre-60S ribosomal subunit (State A1) Deposited 2022-12-21 Assembly 1 Protein–RNA Heteromer；Protein × 44 PDB declaration: 47-meric（47） Consistent with all polymers
Chain SH 1–293（293 aa）
Not recorded MG MAGNESIUM ION × 54 ZN ZINC ION × 2 SF4 IRON/SULFUR CLUSTER × 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 2.85 Å
8FKQ Human nucleolar pre-60S ribosomal subunit (State A2) Deposited 2022-12-21 Assembly 1 Protein–RNA Heteromer；Protein × 40 PDB declaration: 43-meric（43） Consistent with all polymers
Chain SH 1–293（293 aa）
Not recorded MG MAGNESIUM ION × 51 ZN ZINC ION × 2 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
8FKR Human nucleolar pre-60S ribosomal subunit (State B1) Deposited 2022-12-21 Assembly 1 Protein–RNA Heteromer；Protein × 48 PDB declaration: 51-meric（51） Consistent with all polymers
Chain SH 1–293（293 aa）
Not recorded MG MAGNESIUM ION × 54 ZN ZINC ION × 2 SF4 IRON/SULFUR CLUSTER × 1 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 2.89 Å
8FKS Human nucleolar pre-60S ribosomal subunit (State B2) Deposited 2022-12-21 Assembly 1 Protein–RNA Heteromer；Protein × 44 PDB declaration: 47-meric（47） Consistent with all polymers
Chain SH 1–293（293 aa）
Not recorded MG MAGNESIUM ION × 61 ZN ZINC ION × 2 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 2.88 Å
8FKT Human nucleolar pre-60S ribosomal subunit (State C1) Deposited 2022-12-21 Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 53-meric（53） Consistent with all polymers
Chain SH 1–293（293 aa）
Not recorded MG MAGNESIUM ION × 64 ZN ZINC ION × 2 ADP ADENOSINE-5'-DIPHOSPHATE × 1 SF4 IRON/SULFUR CLUSTER × 1 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 2.81 Å
8FKU Human nucleolar pre-60S ribosomal subunit (State C2) Deposited 2022-12-21 Assembly 1 Protein–RNA Heteromer；Protein × 47 PDB declaration: 50-meric（50） Consistent with all polymers
Chain SH 1–293（293 aa）
Not recorded MG MAGNESIUM ION × 58 ZN ZINC ION × 2 ADP ADENOSINE-5'-DIPHOSPHATE × 1 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 2.82 Å
8FKV Human nucleolar pre-60S ribosomal subunit (State D1) Deposited 2022-12-21 Assembly 1 Protein–RNA Heteromer；Protein × 53 PDB declaration: 56-meric（56） Consistent with all polymers
Chain SH 1–293（293 aa）
Not recorded MG MAGNESIUM ION × 65 ZN ZINC ION × 2 ADP ADENOSINE-5'-DIPHOSPHATE × 1 SF4 IRON/SULFUR CLUSTER × 1 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 2.47 Å
8FKW Human nucleolar pre-60S ribosomal subunit (State D2) Deposited 2022-12-21 Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 53-meric（53） Consistent with all polymers
Chain SH 1–293（293 aa）
Not recorded MG MAGNESIUM ION × 59 ZN ZINC ION × 2 ADP ADENOSINE-5'-DIPHOSPHATE × 1 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 2.50 Å
8FKX Human nucleolar pre-60S ribosomal subunit (State E) Deposited 2022-12-21 Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 53-meric（53） Consistent with all polymers
Chain SH 1–293（293 aa）
Not recorded MG MAGNESIUM ION × 61 ZN ZINC ION × 2 ADP ADENOSINE-5'-DIPHOSPHATE × 1 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 2.59 Å
8FKY Human nucleolar pre-60S ribosomal subunit (State F) Deposited 2022-12-21 Assembly 1 Protein–RNA Heteromer；Protein × 56 PDB declaration: 59-meric（59） Consistent with all polymers
Chain SH 1–293（293 aa）
Not recorded MG MAGNESIUM ION × 70 ZN ZINC ION × 3 ADP ADENOSINE-5'-DIPHOSPHATE × 1 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 2.67 Å
8FKZ Human nucleolar pre-60S ribosomal subunit (State G) Deposited 2022-12-21 Assembly 1 Protein–RNA Heteromer；Protein × 48 PDB declaration: 51-meric（51） Consistent with all polymers
Chain SH 1–293（293 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 Assembly 1 Protein–RNA Heteromer；Protein × 61 PDB declaration: 65-meric（65） Consistent with all polymers
Chain SH 1–293（293 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 Assembly 1 Protein–RNA Heteromer；Protein × 60 PDB declaration: 63-meric（63） Consistent with all polymers
Chain SH 1–293（293 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
8FL6 Human nuclear pre-60S ribosomal subunit (State J1) Deposited 2022-12-21 Assembly 1 Protein–RNA Heteromer；Protein × 52 PDB declaration: 56-meric（56） Consistent with all polymers
Chain SH 1–293（293 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 Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 54-meric（54） Consistent with all polymers
Chain SH 1–293（293 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
8FLA Human nuclear pre-60S ribosomal subunit (State K1) Deposited 2022-12-21 Assembly 1 Protein–RNA Heteromer；Protein × 52 PDB declaration: 56-meric（56） Consistent with all polymers
Chain SH 1–293（293 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 Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 54-meric（54） Consistent with all polymers
Chain SH 1–293（293 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
8FLD Human nuclear pre-60S ribosomal subunit (State L1) Deposited 2022-12-21 Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 54-meric（54） Consistent with all polymers
Chain SH 1–293（293 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 Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 52-meric（52） Consistent with all polymers
Chain SH 1–293（293 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
8INE human nuclear pre-60S ribosomal particle - State G' Deposited 2023-03-09 Assembly 1 Protein–RNA Heteromer；Protein × 54 PDB declaration: 58-meric（58） Consistent with all polymers
Chain t 1–293（293 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 Assembly 1 Protein–RNA Heteromer；Protein × 57 PDB declaration: 61-meric（61） Consistent with all polymers
Chain t 1–293（293 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
8IPX human nuclear pre-60S ribosomal particle - State C' Deposited 2023-03-15 Assembly 1 Protein–RNA Heteromer；Protein × 54 PDB declaration: 58-meric（58） Consistent with all polymers
Chain t 1–293（293 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 Assembly 1 Protein–RNA Heteromer；Protein × 55 PDB declaration: 59-meric（59） Consistent with all polymers
Chain t 1–293（293 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
8IR3 human nuclear pre-60S ribosomal particle - State B' Deposited 2023-03-17 Assembly 1 Protein–RNA Heteromer；Protein × 55 PDB declaration: 59-meric（59） Consistent with all polymers
Chain t 1–293（293 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

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.