MolNFT v1 · #119374 · protein
Drosophila nanos nbr peptide bound to the not module of the human CCR4-not complex
5FU7 · CCR4-not transcription complex subunit 1: “Drosophila nanos nbr peptide bound to the not module of the human CCR4-not complex”. X-ray diffraction, 20 pockets (best druggability 0.84). MolNFT v1 #119374 on GenesisL1: 3D structure…
- PDB
- 5FU7
- Type
- protein
- Length
- 1,774 residues
- Chains
- 8
- 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, A0A0B4KGY5
- Pockets
- 20 · best druggability 0.84
Structure
x-ray diffraction · 6 distinct chains · 60% helix, 5% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | CCR4-not transcription complex subunit 1 | protein | 519 | 70% helix, 1% strand | A5YKK6 |
| B, F | CCR4-not transcription complex subunit 2 | protein | 191 | 25% helix, 15% strand | Q9NZN8 |
| C, G | CCR4-not transcription complex subunit 3 | protein | 148 | 34% helix, 22% strand | O75175 |
| D | Nanos, isoform B | protein | 33 | 64% helix, 6% strand | A0A0B4KGY5 |
| E | CCR4-not transcription complex subunit 1 | protein | 514 | 70% helix, 0% strand | A5YKK6 |
| H | Nanos, isoform B | protein | 30 | 57% helix, 7% strand | A0A0B4KGY5 |
Pockets
20 pockets found on a 1 Å grid, 9 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1055 | 0.84 | 0.85 | 97 | empty |
| 2 | 1032 | 0.83 | 0.84 | 94 | empty |
| 3 | 459 | 0.65 | 0.78 | 54 | empty |
| 4 | 245 | 0.65 | 0.82 | 29 | empty |
| 5 | 454 | 0.63 | 0.77 | 47 | empty |
Interfaces
19 interfaces between chains.
- B–C · 3143 Ų buried · 51 hydrogen bonds · protein-protein
- F–G · 3106 Ų buried · 49 hydrogen bonds · protein-protein
- A–B · 2746 Ų buried · 34 hydrogen bonds · protein-protein
- E–F · 2738 Ų buried · 35 hydrogen bonds · protein-protein
- A–C · 1640 Ų buried · 21 hydrogen bonds · protein-protein
Compared structures
- 5FU7 · drosophila nanos NBR peptide bound to the NOT module of the human CCR4-NOT complex · the same entry in another collection · chain H against H, 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 E 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
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
- Every structure of UniProt A0A0B4KGY5
- Elsewhere: RCSB PDB 5FU7 · PDBe 5FU7 · UniProt A5YKK6 · UniProt Q9NZN8 · UniProt O75175 · UniProt A0A0B4KGY5
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