MolNFT v1 · #116575 · protein
HIV-1 rev ntd dimers with variable crossing angles
5DHZ · Anti-rev antibody Fab single-chain variable fragment, heavy…: “HIV-1 rev ntd dimers with variable crossing angles”. X-ray diffraction, 1 pocket (best druggability 0.36). MolNFT v1 #116575 on GenesisL1: 3D structure, binding sites…
- PDB
- 5DHZ
- Type
- protein
- Length
- 279 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Anti-rev antibody Fab single-chain variable fragment, heavy chain; Anti-rev antibody Fab…
- UniProt
- Q76PP8
- Pockets
- 1 · best druggability 0.36
Structure
x-ray diffraction · 3 distinct chains · 18% helix, 42% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| H | Anti-rev antibody Fab single-chain variable fragment, heavy chain | protein | 117 | 3% helix, 52% strand | — |
| L | Anti-rev antibody Fab single-chain variable fragment, light chain | protein | 110 | 3% helix, 51% strand | — |
| M | Protein rev | protein | 52 | 85% helix, 0% strand | Q76PP8 |
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 | 69 | 0.36 | 0.77 | 17 | empty |
Interfaces
3 interfaces between chains.
- H–L · 907 Ų buried · 8 hydrogen bonds · protein-protein
- H–M · 428 Ų buried · 5 hydrogen bonds · protein-protein
- L–M · 405 Ų buried · 12 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 2 disulfide (disulfide).
Compared structures
- 5DHZ · HIV-1 Rev NTD dimers with variable crossing angles · the same entry in another collection · chain H against H, 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 Q76PP8
- Elsewhere: RCSB PDB 5DHZ · PDBe 5DHZ · UniProt Q76PP8
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