Research workbench
Crystal structure of hcp protein
Analyse Crystal structure of hcp protein in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6A2V
- Type
- protein
- Length
- 947 residues
- Chains
- 6
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Type VI secretion system tube protein hcp
- UniProt
- A0A2J0YLC6
- Pockets
- 6 · best druggability 0.69
Structure
x-ray diffraction · 5 distinct chains · 11% helix, 49% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Type VI secretion system tube protein hcp | protein | 168 | 10% helix, 45% strand | A0A2J0YLC6 |
| B | Type VI secretion system tube protein hcp | protein | 160 | 11% helix, 50% strand | A0A2J0YLC6 |
| C, D | Type VI secretion system tube protein hcp | protein | 162 | 10% helix, 49% strand | A0A2J0YLC6 |
| E | Type VI secretion system tube protein hcp | protein | 148 | 11% helix, 51% strand | A0A2J0YLC6 |
| F | Type VI secretion system tube protein hcp | protein | 147 | 12% helix, 52% strand | A0A2J0YLC6 |
Pockets
6 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 377 | 0.69 | 0.82 | 65 | empty |
| 2 | 231 | 0.59 | 0.80 | 49 | empty |
| 3 | 86 | 0.55 | 0.86 | 21 | empty |
| 4 | 70 | 0.49 | 0.84 | 17 | empty |
| 5 | 80 | 0.42 | 0.79 | 21 | empty |
Interfaces
6 interfaces between chains.
- A–B · 1696 Ų buried · 22 hydrogen bonds · protein-protein
- B–C · 1491 Ų buried · 22 hydrogen bonds · protein-protein
- A–F · 1485 Ų buried · 28 hydrogen bonds · protein-protein
- C–D · 1417 Ų buried · 18 hydrogen bonds · protein-protein
- D–E · 1308 Ų buried · 23 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 18 modified (engineered).
Compared structures
- 6A2V · Crystal structure of Hcp protein · the same entry in another collection · chain A against A, TM-score 1.00
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 A0A2J0YLC6
- Elsewhere: RCSB PDB 6A2V · PDBe 6A2V · UniProt A0A2J0YLC6
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