MolNFT v1 · #113718 · protein
Structure of a human 4E-T - DDX6 - CNOT1 complex
5ANR · CCR4-not transcription complex subunit 1: “Structure of a human 4E-T - DDX6 - CNOT1 complex”. X-ray diffraction, 4 pockets (best druggability 0.65). MolNFT v1 #113718 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 5ANR
- Type
- protein
- Length
- 628 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- CCR4-not transcription complex subunit 1; Probable ATP-dependent RNA helicase DDX6…
- EC
- 3.6.4.13
- UniProt
- A5YKK6, P26196, Q9NRA8
- Pockets
- 4 · best druggability 0.65
Structure
x-ray diffraction · 3 distinct chains · 50% helix, 11% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | CCR4-not transcription complex subunit 1 | protein | 245 | 67% helix, 0% strand | A5YKK6 |
| B | Probable ATP-dependent RNA helicase DDX6 (EC 3.6.4.13) | protein | 360 | 41% helix, 18% strand | P26196 |
| C | Eukaryotic translation initiation factor 4E transporter | protein | 23 | 17% helix, 0% strand | Q9NRA8 |
Pockets
4 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 553 | 0.65 | 0.76 | 62 | empty |
| 2 | 470 | 0.64 | 0.77 | 49 | empty |
| 3 | 182 | 0.43 | 0.73 | 30 | empty |
| 4 | 63 | 0.33 | 0.76 | 15 | empty |
Interfaces
3 interfaces between chains.
- A–B · 1168 Ų buried · 25 hydrogen bonds · protein-protein
- B–C · 1066 Ų buried · 16 hydrogen bonds · protein-protein
- A–C · 122 Ų buried · 1 hydrogen bond · protein-protein
Compared structures
- 5ANR · Structure of a human 4E-T - DDX6 - CNOT1 complex · the same entry in another collection · chain A against A, TM-score 1.00
- A5YKK6 · AlphaFold monomer V2.0 prediction for CCR4-not transcription complex subunit 1 (A5YKK6) · a predicted model of the same protein · chain A against A, TM-score 0.95
- P26196 · AlphaFold monomer V2.0 prediction for probable ATP-dependent RNA helicase DDX6 (P26196) · a predicted model of the same protein · chain B against A, TM-score 0.75
- Q9NRA8 · AlphaFold monomer V2.0 prediction for eukaryotic translation initiation factor 4E… · a predicted model of the same protein · chain C against A, TM-score 0.23
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 A5YKK6
- Every structure of UniProt P26196
- Every structure of UniProt Q9NRA8
- Elsewhere: RCSB PDB 5ANR · PDBe 5ANR · UniProt A5YKK6 · UniProt P26196 · UniProt Q9NRA8
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