Research workbench
HIV-1 vif socs-box and elongin bc solution structure
Analyse HIV-1 vif socs-box and elongin bc solution structure in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2MA9
- Type
- protein
- Length
- 241 residues
- Chains
- 3
- Method
- solution nmr
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Virion infectivity factor; Transcription elongation factor B polypeptide 2; Transcription…
- UniProt
- P12504, Q15370, Q15369
- Pockets
- 2 · best druggability 0.82
Structure
solution nmr · 3 distinct chains · 28% helix, 20% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Virion infectivity factor | protein | 32 | 16% helix, 13% strand | P12504 |
| B | Transcription elongation factor B polypeptide 2 | protein | 118 | 22% helix, 31% strand | Q15370 |
| C | Transcription elongation factor B polypeptide 1 | protein | 91 | 40% helix, 10% strand | Q15369 |
Pockets
2 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 937 | 0.82 | 0.83 | 95 | empty |
| 2 | 61 | 0.28 | 0.74 | 13 | empty |
Interfaces
3 interfaces between chains.
- B–C · 1050 Ų buried · 22 hydrogen bonds · protein-protein
- A–C · 1014 Ų buried · 17 hydrogen bonds · protein-protein
- A–B · 159 Ų buried · 0 hydrogen bonds · protein-protein
Compared structures
- 2MA9 · HIV-1 Vif SOCS-box and Elongin BC solution structure · the same entry in another collection · chain B against B, TM-score 1.00
- Q15370 · AlphaFold monomer V2.0 prediction for elongin-B (Q15370) · a predicted model of the same protein · chain B against A, TM-score 0.73
- Q15369 · AlphaFold monomer V2.0 prediction for elongin-C (Q15369) · a predicted model of the same protein · chain C against A, TM-score 0.67
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 P12504
- Every structure of UniProt Q15370
- Every structure of UniProt Q15369
- Elsewhere: RCSB PDB 2MA9 · PDBe 2MA9 · UniProt P12504 · UniProt Q15370 · UniProt Q15369
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