Research workbench
The structure of the mature HIV-1 ca hexamer in intact virus particles
Analyse The structure of the mature HIV-1 ca hexamer in intact virus particles in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5MCX
- Type
- protein
- Length
- 5,304 residues
- Chains
- 24
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Capsid protein P24
- UniProt
- B6DRA0
- Pockets
- 20 · best druggability 0.42
Structure
electron microscopy · 1 distinct chain · 60% helix, 3% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C, D, E, F, I, J, K, U, V, W, Z, b, R, c, G, S, L, N, P, O, Q, Y | Capsid protein P24 | protein | 221 | 60% helix, 3% strand | B6DRA0 |
Pockets
20 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 178 | 0.42 | 0.74 | 29 | empty |
| 2 | 150 | 0.38 | 0.73 | 28 | empty |
| 3 | 171 | 0.38 | 0.72 | 46 | empty |
| 4 | 155 | 0.38 | 0.73 | 30 | empty |
| 5 | 147 | 0.37 | 0.73 | 42 | empty |
Interfaces
18 interfaces between chains.
- b–R · 125 Ų buried · 0 hydrogen bonds · protein-protein
- G–S · 125 Ų buried · 0 hydrogen bonds · protein-protein
- J–K · 124 Ų buried · 0 hydrogen bonds · protein-protein
- V–W · 124 Ų buried · 0 hydrogen bonds · protein-protein
- N–P · 124 Ų buried · 0 hydrogen bonds · protein-protein
Compared structures
- 5MCX · The structure of the mature HIV-1 CA hexamer in intact virus particles · the same entry in another collection · chain c against c, 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 B6DRA0
- Elsewhere: RCSB PDB 5MCX · PDBe 5MCX · UniProt B6DRA0
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