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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：Q9BYM8 New Search
11PDB entries
18Biological assembly
24chain/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
2CRC Solution structure of the zf-RanBP domain of the protein HBV associated factor Deposited 2005-05-20 Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric（1） Consistent with protein count
Chain A 184–222（39 aa） Fragment：zf-RanBP domain
Not recorded ZN ZINC ION × 1 SOLUTION NMR
NMR measurement conditions pH 7；298 K；Ionic strength (raw mmCIF value) 120mM；Pressure ambient
NMR sample composition 2.17mM 13C, 15N-labeled protein; 20mM d-Tris-HCl (pH7.0); 100mM NaCl; 1mM d-DTT; 0.02% NaN3, 0.05mM ZnCl2, 0.1mM NTA | 90% H2O/10% D2O
Resolution not provided
2LGY Ubiquitin-like domain from HOIL-1 Deposited 2011-08-03 Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric（1） Consistent with protein count
Chain A 51–139（89 aa） Fragment：sequence database residues 51-139
Not recorded No recorded non-water small molecule SOLUTION NMR
NMR measurement conditions pH 7；298 K；Ionic strength (raw mmCIF value) 61；Pressure ambient
NMR sample composition 10 mM potassium phosphate, 1 mM EDTA, 50 mM potassium chloride, 30 uM DSS, 0.2 mM [U-15N] HOIL-1 Ubl, 90% H2O/10% D2O | 90% H2O/10% D2O
NMR sample composition 10 mM potassium phosphate, 1 mM EDTA, 50 mM potassium chloride, 30 uM DSS, 0.2 mM [U-13C; U-15N] HOIL-1 Ubl, 90% H2O/10% D2O | 90% H2O/10% D2O
NMR sample composition 10 mM potassium phosphate, 1 mM EDTA, 50 mM potassium chloride, 30 uM DSS, 0.2 mM [U-13C; U-15N] HOIL-1 Ubl, 100% D2O | 100% D2O
Resolution not provided
4DBG Crystal structure of HOIL-1L-UBL complexed with a HOIP-UBA derivative Deposited 2012-01-15 Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric（2） Consistent with protein count
Chain A 37–137（101 aa） Fragment：Ub-like domain, residues 37-137
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.5；293 K；15%(w/v) PEG6000, 0.1M KCl, 0.1M HEPES-Na buffer, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 293.0K
Resolution 2.71 Å R-free 0.253
7V8E Crystal structure of IpaH1.4 LRR domain bound to HOIL-1L UBL domain. Deposited 2021-08-22 Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric（2） Consistent with protein count
Chain C 53–135（83 aa）
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions EVAPORATION；pH 8.5；289 K；0.2 M (NH4)2SO4, 0.1 M Tris-HCl (pH 8.5), and 25% (w/v) PEG3350
Resolution 1.90 Å R-free 0.246
7V8E Crystal structure of IpaH1.4 LRR domain bound to HOIL-1L UBL domain. Deposited 2021-08-22 Assembly 2 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric（2） Consistent with protein count
Chain D 53–135（83 aa）
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions EVAPORATION；pH 8.5；289 K；0.2 M (NH4)2SO4, 0.1 M Tris-HCl (pH 8.5), and 25% (w/v) PEG3350
Resolution 1.90 Å R-free 0.246
7YUI Crystal structure of HOIL-1L(195-423) in complex with the linear tetra-ubiquitin Deposited 2022-08-17 Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric（2） Consistent with protein count
Chain B 195–424（230 aa）
Not recorded ZN ZINC ION × 5 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；289 K；0.2 M Lithium chloride, 0.1 M Tris(pH 8), 20 %(w/v)PEG 8000
Resolution 2.60 Å R-free 0.258
7YUJ Crystal structure of HOIL-1L(365-510) Deposited 2022-08-17 Assembly 1 Protein homooligomer Homooligomer；Protein × 2 PDB declaration: dimeric（2） Consistent with protein count
Chain A 365–510（146 aa）
Chain B 365–510（146 aa）
Not recorded ZN ZINC ION × 10 PEG DI(HYDROXYETHYL)ETHER × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；289 K；22 % w/v Poly(acrylic acid sodium salt) 5,100, 100 mM HEPES(pH 7.5), 20 mM Magnesium chloride
Resolution 1.86 Å R-free 0.187
8BVL Crystal structure of the IBR-RING2 domain of HOIL-1 Deposited 2022-12-04 Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric（1） Consistent with protein count
Chain A 368–510（143 aa）
Not recorded ZN ZINC ION × 5 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 7；291 K；200 mM magnesium chloride hexahydrate 100mM Tris-HCl pH 7.0 10% PEG 8000
Resolution 2.24 Å R-free 0.296
8BVL Crystal structure of the IBR-RING2 domain of HOIL-1 Deposited 2022-12-04 Assembly 2 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric（1） Consistent with protein count
Chain B 368–510（143 aa）
Not recorded ZN ZINC ION × 5 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 7；291 K；200 mM magnesium chloride hexahydrate 100mM Tris-HCl pH 7.0 10% PEG 8000
Resolution 2.24 Å R-free 0.296
8EAZ HOIL-1/E2-Ub/Ub transthiolation complex Deposited 2022-08-30 Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric（4） Consistent with protein count
Chain A 232–510（279 aa）
Mutation：C460A ZN ZINC ION × 7 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 6.2；298 K；28% PEG smear broad, 0.2 M sodium chloride, 0.1 M sodium phosphate, pH 6.2
Resolution 3.08 Å R-free 0.266
8EAZ HOIL-1/E2-Ub/Ub transthiolation complex Deposited 2022-08-30 Assembly 2 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric（4） Consistent with protein count
Chain B 232–510（279 aa）
Mutation：C460A ZN ZINC ION × 7 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 6.2；298 K；28% PEG smear broad, 0.2 M sodium chloride, 0.1 M sodium phosphate, pH 6.2
Resolution 3.08 Å R-free 0.266
8K6Q Crystal structure of HOIL-1L LTM domain Deposited 2023-07-25 Assembly 1 Protein homooligomer Homooligomer；Protein × 2 PDB declaration: dimeric（2） Consistent with protein count
Chain B 1–51（51 aa） Fragment：LTM domain
Chain D 1–51（51 aa） Fragment：LTM domain
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；289.15 K；100 mM sodium acetate, 1 M di-ammonium hydrogen phosphate (pH 4.5).
Resolution 1.59 Å R-free 0.206
8K6Q Crystal structure of HOIL-1L LTM domain Deposited 2023-07-25 Assembly 2 Protein homooligomer Homooligomer；Protein × 2 PDB declaration: dimeric（2） Consistent with protein count
Chain A 1–51（51 aa） Fragment：LTM domain
Chain C 1–51（51 aa） Fragment：LTM domain
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；289.15 K；100 mM sodium acetate, 1 M di-ammonium hydrogen phosphate (pH 4.5).
Resolution 1.59 Å R-free 0.206
9EGV HOIL-1 RING2 domain bound to ubiquitin Deposited 2024-11-21 Assembly 1 Protein heterocomplex Heteromer；Protein × 3 PDB declaration: trimeric（3） Consistent with protein count
Chain A 425–510（86 aa）
Chain B 425–510（86 aa）
Mutation：C460A Mutation：C460A ZN ZINC ION × 6 CL CHLORIDE ION × 1 SO4 SULFATE ION × 3 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 6.2；293 K；0.01 M magnesium chloride hexahydrate, 0.05 M MES monohydrate pH 6.2, 1.8 M lithium sulfate monohydrate
Resolution 2.00 Å R-free 0.208
9EGV HOIL-1 RING2 domain bound to ubiquitin Deposited 2024-11-21 Assembly 2 Protein heterocomplex Heteromer；Protein × 3 PDB declaration: dimeric（2） Review required
Chain A 425–510（86 aa）
Chain B 425–510（86 aa）
Mutation：C460A Mutation：C460A ZN ZINC ION × 6 CL CHLORIDE ION × 1 SO4 SULFATE ION × 3 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 6.2；293 K；0.01 M magnesium chloride hexahydrate, 0.05 M MES monohydrate pH 6.2, 1.8 M lithium sulfate monohydrate
Resolution 2.00 Å R-free 0.208
9EGW HOIL-1 RING2 domain bound to ubiquitin-maltose (maltose not modelled) Deposited 2024-11-21 Assembly 1 Protein heterocomplex Heteromer；Protein × 3 PDB declaration: trimeric（3） Consistent with protein count
Chain A 425–510（86 aa）
Chain B 425–510（86 aa）
Mutation：C460A Mutation：C460A ZN ZINC ION × 6 CL CHLORIDE ION × 1 SO4 SULFATE ION × 3 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 6；293 K；0.02 M MgCl2, 0.05 M MES pH6 and 1.8 M LiSO4
Resolution 1.78 Å R-free 0.182
9EGW HOIL-1 RING2 domain bound to ubiquitin-maltose (maltose not modelled) Deposited 2024-11-21 Assembly 2 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric（2） Consistent with protein count
Chain A 425–510（86 aa）
Mutation：C460A ZN ZINC ION × 3 CL CHLORIDE ION × 1 SO4 SULFATE ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 6；293 K；0.02 M MgCl2, 0.05 M MES pH6 and 1.8 M LiSO4
Resolution 1.78 Å R-free 0.182
9EGW HOIL-1 RING2 domain bound to ubiquitin-maltose (maltose not modelled) Deposited 2024-11-21 Assembly 3 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric（1） Consistent with protein count
Chain B 425–510（86 aa）
Mutation：C460A ZN ZINC ION × 3 SO4 SULFATE ION × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 6；293 K；0.02 M MgCl2, 0.05 M MES pH6 and 1.8 M LiSO4
Resolution 1.78 Å R-free 0.182

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.