MolNFT v1 · #88389 · protein
CNOT9-CNOT1 complex with bound tryptophan
4CT7 · CCR4-not transcription complex subunit 1: “CNOT9-CNOT1 complex with bound tryptophan”. X-ray diffraction, 1 ligand (TRP), 4 pockets (best druggability 0.59). MolNFT v1 #88389 on GenesisL1: 3D structure, binding sites and pockets in…
- PDB
- 4CT7
- Type
- protein
- Length
- 506 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- CCR4-not transcription complex subunit 1; Cell differentiation protein RCD1 homolog
- UniProt
- A5YKK6, Q92600
- Ligands
- TRP
- Pockets
- 4 · best druggability 0.59
Structure
x-ray diffraction · 2 distinct chains · 73% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | CCR4-not transcription complex subunit 1 | protein | 237 | 70% helix, 0% strand | A5YKK6 |
| B | Cell differentiation protein RCD1 homolog | protein | 269 | 75% helix, 0% strand | Q92600 |
Ligands and binding sites
- TRP · Tryptophan · ligand · chains B
- MES · 2-(N-morpholino)-ethanesulfonic acid · additive · chains B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
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 | 317 | 0.59 | 0.77 | 40 | empty |
| 2 | 286 | 0.56 | 0.76 | 29 | empty |
| 3 | 109 | 0.39 | 0.75 | 21 | empty |
| 4 | 53 | 0.35 | 0.79 | 13 | MES |
Interfaces
1 interface between chains.
- A–B · 1692 Ų buried · 13 hydrogen bonds · protein-protein
Compared structures
- 4CT7 · CNOT9-CNOT1 complex with bound tryptophan · the same entry in another collection · chain B against B, TM-score 1.00
- Q92600 · AlphaFold monomer V2.0 prediction for CCR4-not transcription complex subunit 9 (Q92600) · a predicted model of the same protein · chain B against A, TM-score 0.99
- 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
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 Q92600
- Elsewhere: RCSB PDB 4CT7 · PDBe 4CT7 · UniProt A5YKK6 · UniProt Q92600
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