MolNFT v1 · #26000 · protein
Crystal structures of murine MHC class I H-2 db and kb molecules in complex with ctl epitopes from influenza a virus: implications for TCR repertoire selection and immunodominance
1WBZ · H-2 class I histocompatibility antigen, K-B alpha chain…: “Crystal structures of murine MHC class I H-2 db and kb molecules in complex with ctl epitopes from influenza…”. X-ray diffraction, 7 pockets (best druggability 0.63). MolNFT…
- PDB
- 1WBZ
- Type
- protein
- Length
- 765 residues
- Chains
- 6
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- H-2 class I histocompatibility antigen, K-B alpha chain precursor; Beta-2MICROGLOBULIN…
- UniProt
- P01901, P01887
- Pockets
- 7 · best druggability 0.63
Structure
x-ray diffraction · 4 distinct chains · 23% helix, 40% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | H-2 class I histocompatibility antigen, K-B alpha chain precursor | protein | 275 | 28% helix, 39% strand | P01901 |
| B, D | Beta-2MICROGLOBULIN | protein | 99 | 0% helix, 49% strand | P01887 |
| C | H-2 class I histocompatibility antigen, K-B alpha chain precursor | protein | 274 | 26% helix, 39% strand | P01901 |
| P, Q | Influenza a peptide | protein | 9 | 0% helix, 0% strand | — |
Pockets
7 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 618 | 0.63 | 0.74 | 53 | empty |
| 2 | 481 | 0.60 | 0.75 | 44 | empty |
| 3 | 154 | 0.53 | 0.80 | 32 | empty |
| 4 | 144 | 0.53 | 0.80 | 29 | empty |
| 5 | 65 | 0.43 | 0.81 | 18 | empty |
Interfaces
5 interfaces between chains.
- A–B · 1187 Ų buried · 20 hydrogen bonds · protein-protein
- C–D · 1164 Ų buried · 22 hydrogen bonds · protein-protein
- C–Q · 835 Ų buried · 21 hydrogen bonds · protein-protein
- A–P · 835 Ų buried · 21 hydrogen bonds · protein-protein
- A–C · 173 Ų buried · 0 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 6 disulfide (disulfide).
Compared structures
- 1WBZ · CRYSTAL STRUCTURES OF MURINE MHC CLASS I H-2 Db AND Kb MOLECULES IN COMPLEX WITH CTL… · the same entry in another collection · chain C against C, TM-score 1.00
- P01887 · AlphaFold monomer V2.0 prediction for beta-2-microglobulin (P01887) · a predicted model of the same protein · chain B against A, TM-score 0.99
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 P01901
- Every structure of UniProt P01887
- Elsewhere: RCSB PDB 1WBZ · PDBe 1WBZ · UniProt P01901 · UniProt P01887
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