Research workbench
Structure of the not module of the human CCR4-not complex (CNOT1-CNOT2-CNOT3)
Analyse Structure of the not module of the human CCR4-not complex (CNOT1-CNOT2-CNOT3) in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4C0D
- Type
- protein
- Length
- 845 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- CCR4-not transcription complex subunit 1; CCR4-not transcription complex subunit 2…
- UniProt
- A5YKK6, Q9NZN8, O75175
- Pockets
- 9 · best druggability 0.80
Structure
x-ray diffraction · 3 distinct chains · 54% helix, 7% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | CCR4-not transcription complex subunit 1 | protein | 512 | 70% helix, 0% strand | A5YKK6 |
| B | CCR4-not transcription complex subunit 2 | protein | 191 | 27% helix, 17% strand | Q9NZN8 |
| C | CCR4-not transcription complex subunit 3 | protein | 142 | 33% helix, 21% strand | O75175 |
Pockets
9 pockets found on a 1 Å grid, 6 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1086 | 0.80 | 0.81 | 95 | empty |
| 2 | 263 | 0.64 | 0.81 | 44 | empty |
| 3 | 302 | 0.57 | 0.77 | 36 | empty |
| 4 | 176 | 0.56 | 0.80 | 28 | empty |
| 5 | 259 | 0.53 | 0.75 | 28 | empty |
Interfaces
3 interfaces between chains.
- B–C · 3062 Ų buried · 44 hydrogen bonds · protein-protein
- A–B · 2559 Ų buried · 23 hydrogen bonds · protein-protein
- A–C · 1425 Ų buried · 15 hydrogen bonds · protein-protein
Compared structures
- 4C0D · Structure of the NOT module of the human CCR4-NOT complex (CNOT1-CNOT2-CNOT3) · the same entry in another collection · chain A against A, TM-score 1.00
- O75175 · AlphaFold monomer V2.0 prediction for CCR4-not transcription complex subunit 3 (O75175) · a predicted model of the same protein · chain C 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 0.98
- Q9NZN8 · AlphaFold monomer V2.0 prediction for CCR4-not transcription complex subunit 2 (Q9NZN8) · a predicted model of the same protein · chain B against A, TM-score 0.93
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 Q9NZN8
- Every structure of UniProt O75175
- Elsewhere: RCSB PDB 4C0D · PDBe 4C0D · UniProt A5YKK6 · UniProt Q9NZN8 · UniProt O75175
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