MolNFT v1 · #15434 · protein
Structure of rb tumor suppressor bound to the transactivation domain of E2F-2
1N4M · Retinoblastoma pocket: “Structure of rb tumor suppressor bound to the transactivation domain of E2F-2”. X-ray diffraction, 13 pockets (best druggability 0.82). MolNFT v1 #15434 on GenesisL1: 3D structure, binding sites and pockets…
- PDB
- 1N4M
- Type
- protein
- Length
- 731 residues
- Chains
- 5
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Retinoblastoma pocket; Transcription factor E2F2
- UniProt
- Q14209
- Pockets
- 13 · best druggability 0.82
Structure
x-ray diffraction · 4 distinct chains · 65% helix, 2% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Retinoblastoma pocket | protein | 345 | 68% helix, 1% strand | — |
| B | Retinoblastoma pocket | protein | 338 | 67% helix, 2% strand | — |
| C, D | Transcription factor E2F2 | protein | 18 | 17% helix, 0% strand | Q14209 |
| E | Transcription factor E2F2 | protein | 12 | 0% helix, 0% strand | Q14209 |
Pockets
13 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1124 | 0.82 | 0.83 | 76 | empty |
| 2 | 90 | 0.57 | 0.86 | 19 | empty |
| 3 | 126 | 0.40 | 0.75 | 18 | empty |
| 4 | 68 | 0.38 | 0.78 | 15 | empty |
| 5 | 91 | 0.36 | 0.75 | 15 | empty |
Interfaces
4 interfaces between chains.
- A–C · 1210 Ų buried · 26 hydrogen bonds · protein-protein
- A–B · 1199 Ų buried · 22 hydrogen bonds · protein-protein
- B–D · 1151 Ų buried · 24 hydrogen bonds · protein-protein
- B–E · 548 Ų buried · 7 hydrogen bonds · protein-protein
Compared structures
- 1N4M · Structure of Rb tumor suppressor bound to the transactivation domain of E2F-2 · the same entry in another collection · chain C against C, TM-score 1.00
- Q14209 · AlphaFold monomer V2.0 prediction for transcription factor E2F2 (Q14209) · a predicted model of the same protein · chain C against A, TM-score 0.29
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 Q14209
- Elsewhere: RCSB PDB 1N4M · PDBe 1N4M · UniProt Q14209
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