Research workbench
Structure of E2F8, an atypical member of E2F family of transcription factors
Analyse Structure of E2F8, an atypical member of E2F family of transcription factors in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- 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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