Research workbench
Crystal structure human immunodeficiency virus-1 matrix protein mutant Q63R crystal form 1
Analyse Crystal structure human immunodeficiency virus-1 matrix protein mutant Q63R… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7JXR
- Type
- protein
- Length
- 635 residues
- Chains
- 6
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Matrix protein
- UniProt
- Q6E183
- Ligands
- SO4
- Pockets
- 9 · best druggability 0.76
Structure
x-ray diffraction · 4 distinct chains · 67% helix, 5% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, D | Matrix protein | protein | 104 | 66% helix, 5% strand | Q6E183 |
| B | Matrix protein | protein | 111 | 68% helix, 5% strand | Q6E183 |
| C | Matrix protein | protein | 106 | 67% helix, 5% strand | Q6E183 |
| E, F | Matrix protein | protein | 105 | 66% helix, 5% strand | Q6E183 |
Ligands and binding sites
- SO4 · Sulfate ion · ion · 14 copies · chains A, B, C, D, E, F
- P6G · Hexaethylene glycol · additive · 6 copies · chains A, B, C, D, E, F
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
9 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 464 | 0.76 | 0.85 | 35 | empty |
| 2 | 444 | 0.74 | 0.83 | 27 | empty |
| 3 | 201 | 0.51 | 0.77 | 19 | empty |
| 4 | 58 | 0.36 | 0.78 | 13 | empty |
| 5 | 72 | 0.31 | 0.74 | 13 | empty |
Interfaces
8 interfaces between chains.
- A–D · 369 Ų buried · 8 hydrogen bonds · protein-protein
- B–F · 366 Ų buried · 4 hydrogen bonds · protein-protein
- D–E · 363 Ų buried · 3 hydrogen bonds · protein-protein
- C–F · 362 Ų buried · 6 hydrogen bonds · protein-protein
- A–E · 361 Ų buried · 5 hydrogen bonds · protein-protein
Compared structures
- 7JXR · Crystal Structure Human Immunodeficiency Virus-1 Matrix protein Mutant Q63R Crystal Form 1 · 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 Q6E183
- Elsewhere: RCSB PDB 7JXR · PDBe 7JXR · UniProt Q6E183
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