MolNFT v1 · #61130 · protein
Crystal structure of the HIV vif bc-box in complex with human elonginb and elonginc
3DCG · Transcription elongation factor B polypeptide 2: “Crystal structure of the HIV vif bc-box in complex with human elonginb and elonginc”. X-ray diffraction, 3 pockets (best druggability 0.78). MolNFT v1 #61130 on GenesisL1: 3D…
- PDB
- 3DCG
- Type
- protein
- Length
- 399 residues
- Chains
- 6
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Transcription elongation factor B polypeptide 2; Transcription elongation factor B…
- UniProt
- Q15370, Q15369, P12504
- Pockets
- 3 · best druggability 0.78
Structure
x-ray diffraction · 6 distinct chains · 32% helix, 25% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Transcription elongation factor B polypeptide 2 | protein | 99 | 15% helix, 38% strand | Q15370 |
| B | Transcription elongation factor B polypeptide 1 | protein | 84 | 45% helix, 15% strand | Q15369 |
| C | Transcription elongation factor B polypeptide 2 | protein | 97 | 15% helix, 37% strand | Q15370 |
| D | Transcription elongation factor B polypeptide 1 | protein | 86 | 48% helix, 15% strand | Q15369 |
| E | Virion infectivity factor | protein | 17 | 59% helix, 0% strand | P12504 |
| F | Virion infectivity factor | protein | 16 | 63% helix, 0% strand | P12504 |
Pockets
3 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 210 | 0.78 | 0.92 | 26 | empty |
| 2 | 336 | 0.71 | 0.84 | 52 | empty |
| 3 | 390 | 0.71 | 0.82 | 55 | empty |
Interfaces
7 interfaces between chains.
- A–C · 1186 Ų buried · 26 hydrogen bonds · protein-protein
- A–B · 1112 Ų buried · 17 hydrogen bonds · protein-protein
- C–D · 1055 Ų buried · 16 hydrogen bonds · protein-protein
- B–F · 745 Ų buried · 11 hydrogen bonds · protein-protein
- D–E · 710 Ų buried · 10 hydrogen bonds · protein-protein
Compared structures
- 3DCG · Crystal Structure of the HIV Vif BC-box in Complex with Human ElonginB and ElonginC · the same entry in another collection · chain F against F, TM-score 1.00
- Q15370 · AlphaFold monomer V2.0 prediction for elongin-B (Q15370) · a predicted model of the same protein · chain C against A, TM-score 0.98
- Q15369 · AlphaFold monomer V2.0 prediction for elongin-C (Q15369) · a predicted model of the same protein · chain B against A, TM-score 0.98
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 Q15370
- Every structure of UniProt Q15369
- Every structure of UniProt P12504
- Elsewhere: RCSB PDB 3DCG · PDBe 3DCG · UniProt Q15370 · UniProt Q15369 · UniProt P12504
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