MolNFT v1 · #111342 · protein + DNA
Structure of E2F8, an atypical member of E2F family of transcription factors
4YO2 · Transcription factor E2F8: “Structure of E2F8, an atypical member of E2F family of transcription factors”. X-ray diffraction, 7 pockets (best druggability 0.69). MolNFT v1 #111342 on GenesisL1: 3D structure, binding sites and…
- PDB
- 4YO2
- Type
- protein + DNA
- Length
- 216 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Transcription factor E2F8; DNA (5'-D(P*TP*TP*TP*TP*CP*CP*CP*GP*CP*CP*AP*AP*AP*AP*A)- 3')…
- UniProt
- A0AVK6
- Pockets
- 7 · best druggability 0.69
Structure
x-ray diffraction · 3 distinct chains · 49% helix, 4% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Transcription factor E2F8 | protein | 186 | 49% helix, 4% strand | A0AVK6 |
| C | DNA (5'-D(P*TP*TP*TP*TP*CP*CP*CP*GP*CP*CP*AP*AP*AP*AP*A)- 3') | dna | 15 | — | — |
| D | DNA (5'-D(P*TP*TP*TP*TP*TP*GP*GP*CP*GP*GP*GP*AP*AP*AP*A)- 3') | dna | 15 | — | — |
Pockets
7 pockets found on a 1 Å grid, 5 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 113 | 0.69 | 0.91 | 33 | empty |
| 2 | 368 | 0.68 | 0.81 | 37 | empty |
| 3 | 168 | 0.64 | 0.85 | 27 | empty |
| 4 | 206 | 0.62 | 0.82 | 39 | empty |
| 5 | 64 | 0.52 | 0.86 | 18 | empty |
Interfaces
3 interfaces between chains.
- A–D · 861 Ų buried · 24 hydrogen bonds · protein-nucleic
- A–C · 686 Ų buried · 11 hydrogen bonds · protein-nucleic
- C–D · 649 Ų buried · 53 hydrogen bonds · nucleic-nucleic
Compared structures
- 4YO2 · Structure of E2F8, an atypical member of E2F family of transcription factors · the same entry in another collection · chain A against A, TM-score 1.00
- A0AVK6 · AlphaFold monomer V2.0 prediction for transcription factor E2F8 (A0AVK6) · a predicted model of the same protein · chain A against A, TM-score 0.89
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 A0AVK6
- Elsewhere: RCSB PDB 4YO2 · PDBe 4YO2 · UniProt A0AVK6
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