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Crystal structure of the HIV-1 capsid protein C-terminal domain (146- 220) in complex with a camelid vhh.
Analyse Crystal structure of the HIV-1 capsid protein C-terminal domain (146- 220) in… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2XV6
- Type
- protein
- Length
- 370 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Capsid protein P24; Camelid vhh 9
- UniProt
- P12497
- Pockets
- 1 · best druggability 0.28
Structure
x-ray diffraction · 4 distinct chains · 27% helix, 32% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Capsid protein P24 | protein | 75 | 60% helix, 1% strand | P12497 |
| B | Camelid vhh 9 | protein | 114 | 5% helix, 51% strand | — |
| C | Capsid protein P24 | protein | 68 | 65% helix, 1% strand | P12497 |
| D | Camelid vhh 9 | protein | 113 | 5% helix, 50% strand | — |
Pockets
1 pocket found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 54 | 0.28 | 0.74 | 16 | empty |
Interfaces
3 interfaces between chains.
- A–B · 854 Ų buried · 10 hydrogen bonds · protein-protein
- C–D · 802 Ų buried · 10 hydrogen bonds · protein-protein
- B–D · 467 Ų buried · 4 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 2 disulfide (disulfide).
Compared structures
- 2XV6 · Crystal structure of the HIV-1 capsid protein C-terminal domain (146- 220) in complex… · 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 P12497
- Elsewhere: RCSB PDB 2XV6 · PDBe 2XV6 · UniProt P12497
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