MolNFT v1 · #109053 · protein
Structure of vhl-elob-eloc-CUL2
4WQO · Von hippel-lindau disease tumor suppressor: “Structure of vhl-elob-eloc-CUL2”. X-ray diffraction, 5 pockets (best druggability 0.59). MolNFT v1 #109053 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 4WQO
- Type
- protein
- Length
- 489 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Von hippel-lindau disease tumor suppressor; Transcription elongation factor B polypeptide…
- UniProt
- P40337, Q15370, Q15369, Q13617
- Pockets
- 5 · best druggability 0.59
Structure
x-ray diffraction · 4 distinct chains · 40% helix, 19% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Von hippel-lindau disease tumor suppressor | protein | 148 | 26% helix, 30% strand | P40337 |
| B | Transcription elongation factor B polypeptide 2 | protein | 104 | 17% helix, 32% strand | Q15370 |
| C | Transcription elongation factor B polypeptide 1 | protein | 96 | 43% helix, 14% strand | Q15369 |
| D | Cullin-2 | protein | 141 | 72% helix, 1% strand | Q13617 |
Pockets
5 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 212 | 0.59 | 0.81 | 49 | empty |
| 2 | 72 | 0.44 | 0.81 | 14 | empty |
| 3 | 93 | 0.42 | 0.78 | 23 | empty |
| 4 | 62 | 0.38 | 0.79 | 16 | empty |
| 5 | 52 | 0.27 | 0.75 | 19 | empty |
Interfaces
5 interfaces between chains.
- B–C · 1118 Ų buried · 12 hydrogen bonds · protein-protein
- A–C · 1025 Ų buried · 11 hydrogen bonds · protein-protein
- C–D · 998 Ų buried · 10 hydrogen bonds · protein-protein
- A–D · 353 Ų buried · 5 hydrogen bonds · protein-protein
- A–B · 194 Ų buried · 0 hydrogen bonds · protein-protein
Compared structures
- 4WQO · Structure of VHL-EloB-EloC-Cul2 · the same entry in another collection · chain A against A, 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 0.98
- Q13617 · AlphaFold monomer V2.0 prediction for cullin-2 (Q13617) · a predicted model of the same protein · chain D against A, TM-score 0.95
- Q15369 · AlphaFold monomer V2.0 prediction for elongin-C (Q15369) · a predicted model of the same protein · chain C against A, TM-score 0.95
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 P40337
- Every structure of UniProt Q15370
- Every structure of UniProt Q15369
- Every structure of UniProt Q13617
- Elsewhere: RCSB PDB 4WQO · PDBe 4WQO · UniProt P40337 · UniProt Q15370 · UniProt Q15369 · UniProt Q13617
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