MolNFT v1 · #65287 · protein
Crystal structure of the binary complex between HLA-A2 and hcmv nlv peptide
3GSO · HLA class I histocompatibility antigen, a-2 alpha chain: “Crystal structure of the binary complex between HLA-A2 and hcmv nlv peptide”. X-ray diffraction, 4 pockets (best druggability 0.69). MolNFT v1 #65287 on GenesisL1: 3D…
- PDB
- 3GSO
- Type
- protein
- Length
- 383 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- HLA class I histocompatibility antigen, a-2 alpha chain; Beta-2-microglobulin; Hcmv PP65…
- UniProt
- P01892, P61769
- Pockets
- 4 · best druggability 0.69
Structure
x-ray diffraction · 3 distinct chains · 19% helix, 42% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | HLA class I histocompatibility antigen, a-2 alpha chain | protein | 274 | 27% helix, 41% strand | P01892 |
| B | Beta-2-microglobulin | protein | 100 | 0% helix, 49% strand | P61769 |
| P | Hcmv PP65 fragment 495-503 (nlvpmvatv) | protein | 9 | 0% helix, 0% strand | — |
Pockets
4 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 664 | 0.69 | 0.77 | 56 | empty |
| 2 | 114 | 0.50 | 0.81 | 23 | empty |
| 3 | 139 | 0.44 | 0.76 | 26 | empty |
| 4 | 80 | 0.37 | 0.77 | 15 | empty |
Interfaces
2 interfaces between chains.
- A–B · 1336 Ų buried · 21 hydrogen bonds · protein-protein
- A–P · 797 Ų buried · 15 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 3 disulfide (disulfide).
Compared structures
- 3GSO · Crystal structure of the binary complex between HLA-A2 and HCMV NLV peptide · the same entry in another collection · chain A against A, TM-score 1.00
- P61769 · AlphaFold monomer V2.0 prediction for beta-2-microglobulin (P61769) · a predicted model of the same protein · chain B against A, TM-score 0.97
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 P01892
- Every structure of UniProt P61769
- Elsewhere: RCSB PDB 3GSO · PDBe 3GSO · UniProt P01892 · UniProt P61769
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