MolNFT v1 · #119373 · protein
Not module of the human CCR4-not complex (crystallization mutant)
5FU6 · CCR4-not transcription complex subunit 1: “Not module of the human CCR4-not complex (crystallization mutant)”. X-ray diffraction, 20 pockets (best druggability 0.78). MolNFT v1 #119373 on GenesisL1: 3D structure, binding sites and…
- PDB
- 5FU6
- Type
- protein
- Length
- 1,710 residues
- Chains
- 6
- 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
- 20 · best druggability 0.78
Structure
x-ray diffraction · 5 distinct chains · 57% helix, 6% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | CCR4-not transcription complex subunit 1 | protein | 515 | 73% helix, 0% strand | A5YKK6 |
| B | CCR4-not transcription complex subunit 2 | protein | 192 | 24% helix, 16% strand | Q9NZN8 |
| C, F | CCR4-not transcription complex subunit 3 | protein | 148 | 36% helix, 21% strand | O75175 |
| D | CCR4-not transcription complex subunit 1 | protein | 516 | 72% helix, 0% strand | A5YKK6 |
| E | CCR4-not transcription complex subunit 2 | protein | 191 | 24% helix, 16% strand | Q9NZN8 |
Pockets
20 pockets found on a 1 Å grid, 13 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 851 | 0.78 | 0.81 | 69 | empty |
| 2 | 333 | 0.75 | 0.87 | 54 | empty |
| 3 | 757 | 0.75 | 0.80 | 61 | empty |
| 4 | 356 | 0.75 | 0.86 | 50 | empty |
| 5 | 519 | 0.69 | 0.79 | 62 | empty |
Interfaces
8 interfaces between chains.
- B–C · 3104 Ų buried · 51 hydrogen bonds · protein-protein
- E–F · 3090 Ų buried · 47 hydrogen bonds · protein-protein
- A–B · 2651 Ų buried · 31 hydrogen bonds · protein-protein
- D–E · 2586 Ų buried · 28 hydrogen bonds · protein-protein
- D–F · 1532 Ų buried · 18 hydrogen bonds · protein-protein
Compared structures
- 5FU6 · NOT module of the human CCR4-NOT complex (Crystallization mutant) · the same entry in another collection · chain F against F, 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 D against A, TM-score 0.97
- 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 0.97
- 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 0.95
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 Q9NZN8
- Every structure of UniProt O75175
- Elsewhere: RCSB PDB 5FU6 · PDBe 5FU6 · UniProt A5YKK6 · UniProt Q9NZN8 · UniProt O75175
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