MolNFT v1 · #59483 · protein
The human non-classical major histocompatibility complex molecule HLA-E
3BZF · HLA class I histocompatibility antigen, alpha chain E: “The human non-classical major histocompatibility complex molecule HLA-E”. X-ray diffraction, 8 pockets (best druggability 0.69). MolNFT v1 #59483 on GenesisL1: 3D structure…
- PDB
- 3BZF
- Type
- protein
- Length
- 764 residues
- Chains
- 6
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- HLA class I histocompatibility antigen, alpha chain E; Beta-2-microglobulin; Leader…
- UniProt
- P13747, P61769, P10321
- Pockets
- 8 · best druggability 0.69
Structure
x-ray diffraction · 3 distinct chains · 18% helix, 41% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, C | HLA class I histocompatibility antigen, alpha chain E | protein | 276 | 25% helix, 39% strand | P13747 |
| B, D | Beta-2-microglobulin | protein | 97 | 0% helix, 48% strand | P61769 |
| P, Q | Leader peptide of HLA class I histocompatibility antigen, cw-7 alpha chain | protein | 9 | 0% helix, 0% strand | P10321 |
Pockets
8 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 720 | 0.69 | 0.77 | 74 | empty |
| 2 | 710 | 0.68 | 0.76 | 73 | empty |
| 3 | 81 | 0.44 | 0.80 | 24 | empty |
| 4 | 90 | 0.41 | 0.78 | 19 | empty |
| 5 | 61 | 0.38 | 0.80 | 16 | empty |
Interfaces
5 interfaces between chains.
- A–B · 1286 Ų buried · 25 hydrogen bonds · protein-protein
- C–D · 1271 Ų buried · 24 hydrogen bonds · protein-protein
- A–P · 887 Ų buried · 14 hydrogen bonds · protein-protein
- C–Q · 883 Ų buried · 13 hydrogen bonds · protein-protein
- A–C · 127 Ų buried · 3 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 6 disulfide (disulfide).
Compared structures
- 3BZF · The human non-classical major histocompatibility complex molecule HLA-E · the same entry in another collection · chain Q against Q, TM-score 1.00
- P61769 · AlphaFold monomer V2.0 prediction for beta-2-microglobulin (P61769) · a predicted model of the same protein · chain D against A, TM-score 0.98
- P13747 · AlphaFold monomer V2.0 prediction for HLA class I histocompatibility antigen, alpha chain… · a predicted model of the same protein · chain A against A, TM-score 0.95
- P10321 · AlphaFold monomer V2.0 prediction for HLA class I histocompatibility antigen, C alpha… · a predicted model of the same protein · chain P against A, TM-score 0.50
Analyse
- Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
- Every structure of UniProt P13747
- Every structure of UniProt P61769
- Every structure of UniProt P10321
- Elsewhere: RCSB PDB 3BZF · PDBe 3BZF · UniProt P13747 · UniProt P61769 · UniProt P10321
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