MolNFT v1 · #7786 · protein
Retinoblastoma pocket complexed with SV40 large T antigen
1GH6: “Retinoblastoma pocket complexed with SV40 large T antigen”. X-ray diffraction, 7 pockets (best druggability 0.52). MolNFT v1 #7786 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 1GH6
- Type
- protein
- Length
- 440 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Large T antigen; Retinoblastoma-associated protein
- EC
- 3.6.4.-
- UniProt
- P03070, P06400
- Pockets
- 7 · best druggability 0.52
Structure
x-ray diffraction · 2 distinct chains · 61% helix, 1% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Large T antigen (EC 3.6.4.-) | protein | 114 | 42% helix, 0% strand | P03070 |
| B | Retinoblastoma-associated protein | protein | 326 | 68% helix, 1% strand | P06400 |
Pockets
7 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 181 | 0.52 | 0.78 | 25 | empty |
| 2 | 227 | 0.50 | 0.75 | 26 | empty |
| 3 | 162 | 0.49 | 0.78 | 20 | empty |
| 4 | 90 | 0.35 | 0.74 | 19 | empty |
| 5 | 56 | 0.31 | 0.76 | 16 | empty |
Interfaces
1 interface between chains.
- A–B · 854 Ų buried · 10 hydrogen bonds · protein-protein
Compared structures
- 1GH6 · Retinoblastoma pocket complexed with SV40 large T antigen · the same entry in another collection · chain A against A, TM-score 1.00
- P06400 · AlphaFold monomer V2.0 prediction for retinoblastoma-associated protein (P06400) · a predicted model of the same protein · chain B against A, TM-score 0.96
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 P03070
- Every structure of UniProt P06400
- Elsewhere: RCSB PDB 1GH6 · PDBe 1GH6 · UniProt P03070 · UniProt P06400
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