Research workbench
MHC class I H-2KD heavy chain in complex with beta-2MICROGLOBULIN and peptide derived from influenza nucleoprotein
Analyse MHC class I H-2KD heavy chain in complex with beta-2MICROGLOBULIN and peptide… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2FWO
- Type
- protein
- Length
- 383 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- H-2 class I histocompatibility antigen, K-D alpha chain; Beta-2-microglobulin; Tyqrtralv…
- UniProt
- P01902, P01887, Q701N7
- Pockets
- 5 · best druggability 0.67
Structure
x-ray diffraction · 3 distinct chains · 19% helix, 41% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | H-2 class I histocompatibility antigen, K-D alpha chain | protein | 275 | 27% helix, 39% strand | P01902 |
| B | Beta-2-microglobulin | protein | 99 | 0% helix, 49% strand | P01887 |
| P | Tyqrtralv peptide from nucleoprotein | protein | 9 | 0% helix, 0% strand | Q701N7 |
Pockets
5 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 589 | 0.67 | 0.77 | 55 | empty |
| 2 | 113 | 0.44 | 0.78 | 21 | empty |
| 3 | 69 | 0.40 | 0.80 | 22 | empty |
| 4 | 106 | 0.40 | 0.76 | 16 | empty |
| 5 | 73 | 0.37 | 0.77 | 18 | empty |
Interfaces
2 interfaces between chains.
- A–B · 1388 Ų buried · 26 hydrogen bonds · protein-protein
- A–P · 987 Ų buried · 24 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 3 disulfide (disulfide).
Compared structures
- 2FWO · MHC Class I H-2Kd heavy chain in complex with beta-2microglobulin and peptide derived… · the same entry in another collection · chain A against A, TM-score 1.00
- P01902 · AlphaFold monomer V2.0 prediction for H-2 class I histocompatibility antigen, K-D alpha… · a predicted model of the same protein · chain A against A, TM-score 0.99
- 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 P01902
- Every structure of UniProt P01887
- Every structure of UniProt Q701N7
- Elsewhere: RCSB PDB 2FWO · PDBe 2FWO · UniProt P01902 · UniProt P01887 · UniProt Q701N7
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