Research workbench
Trimeric HIV-1 matrix protein
Analyse Trimeric HIV-1 matrix protein in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1HIW
- Type
- protein
- Length
- 658 residues
- Chains
- 6
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- HIV-1 matrix protein
- UniProt
- P12493
- Ligands
- SO4
- Pockets
- 5 · best druggability 0.73
Structure
x-ray diffraction · 6 distinct chains · 66% helix, 5% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | HIV-1 matrix protein | protein | 115 | 68% helix, 4% strand | P12493 |
| B | HIV-1 matrix protein | protein | 110 | 67% helix, 5% strand | P12493 |
| C | HIV-1 matrix protein | protein | 113 | 68% helix, 4% strand | P12493 |
| Q | HIV-1 matrix protein | protein | 105 | 64% helix, 5% strand | P12493 |
| R | HIV-1 matrix protein | protein | 112 | 65% helix, 4% strand | P12493 |
| S | HIV-1 matrix protein | protein | 103 | 61% helix, 5% strand | P12493 |
Ligands and binding sites
- SO4 · Sulfate ion · ion · 8 copies · chains A, R, B, C, Q, S
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
5 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 560 | 0.73 | 0.81 | 28 | empty |
| 2 | 649 | 0.72 | 0.79 | 35 | empty |
| 3 | 54 | 0.33 | 0.77 | 15 | empty |
| 4 | 51 | 0.28 | 0.74 | 11 | empty |
| 5 | 52 | 0.27 | 0.74 | 11 | empty |
Interfaces
7 interfaces between chains.
- A–R · 703 Ų buried · 10 hydrogen bonds · protein-protein
- Q–R · 368 Ų buried · 6 hydrogen bonds · protein-protein
- A–C · 338 Ų buried · 5 hydrogen bonds · protein-protein
- A–B · 322 Ų buried · 6 hydrogen bonds · protein-protein
- Q–S · 311 Ų buried · 5 hydrogen bonds · protein-protein
Compared structures
- 1HIW · Trimeric HIV-1 matrix 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 P12493
- Elsewhere: RCSB PDB 1HIW · PDBe 1HIW · UniProt P12493
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.