Research workbench
10MER crystal structure of chicken MHC class I haplotype B21
Analyse 10MER crystal structure of chicken MHC class I haplotype B21 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3BEW
- Type
- protein
- Length
- 760 residues
- Chains
- 6
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Major histocompatibility complex class I glycoprotein haplotype B21…
- UniProt
- Q95601, P21611, P09207
- Pockets
- 7 · best druggability 0.70
Structure
x-ray diffraction · 3 distinct chains · 21% helix, 39% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, D | Major histocompatibility complex class I glycoprotein haplotype B21 | protein | 271 | 28% helix, 38% strand | Q95601 |
| B, E | Beta-2-microglobulin | protein | 99 | 0% helix, 47% strand | P21611 |
| C, F | 10-mer from tubulin beta-6 chain | protein | 10 | 40% helix, 0% strand | P09207 |
Pockets
7 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 378 | 0.70 | 0.82 | 47 | empty |
| 2 | 378 | 0.70 | 0.82 | 45 | empty |
| 3 | 183 | 0.54 | 0.79 | 28 | empty |
| 4 | 137 | 0.39 | 0.73 | 23 | empty |
| 5 | 95 | 0.35 | 0.74 | 17 | empty |
Interfaces
6 interfaces between chains.
- D–E · 1656 Ų buried · 21 hydrogen bonds · protein-protein
- A–B · 1633 Ų buried · 20 hydrogen bonds · protein-protein
- D–F · 974 Ų buried · 13 hydrogen bonds · protein-protein
- A–C · 973 Ų buried · 19 hydrogen bonds · protein-protein
- A–E · 222 Ų buried · 0 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 6 disulfide (disulfide).
Compared structures
- 3BEW · 10mer Crystal Structure of chicken MHC class I haplotype B21 · the same entry in another collection · chain F against F, TM-score 1.00
- P21611 · AlphaFold monomer V2.0 prediction for beta-2-microglobulin (P21611) · a predicted model of the same protein · chain E against A, TM-score 0.96
- P09207 · AlphaFold monomer V2.0 prediction for tubulin beta-6 chain (P09207) · a predicted model of the same protein · chain C against A, TM-score 0.41
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 Q95601
- Every structure of UniProt P21611
- Every structure of UniProt P09207
- Elsewhere: RCSB PDB 3BEW · PDBe 3BEW · UniProt Q95601 · UniProt P21611 · UniProt P09207
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