MolNFT v1 · #72712 · protein
Crystal structure of the human CNOT6L nuclease domain
3NGQ · CCR4-not transcription complex subunit 6-like: “Crystal structure of the human CNOT6L nuclease domain”. X-ray diffraction, 2 ligands (1PS, MG), 3 pockets (best druggability 0.59). MolNFT v1 #72712 on GenesisL1: 3D structure, binding…
- PDB
- 3NGQ
- Type
- protein
- Length
- 335 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- CCR4-not transcription complex subunit 6-like
- EC
- 3.1.-.-
- UniProt
- Q96LI5
- Ligands
- 1PS, MG
- Pockets
- 3 · best druggability 0.59
Structure
x-ray diffraction · 1 distinct chain · 30% helix, 31% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | CCR4-not transcription complex subunit 6-like (EC 3.1.-.-) | protein | 335 | 30% helix, 31% strand | Q96LI5 |
Ligands and binding sites
- 1PS · 3-pyridinium-1-ylpropane-1-sulfonate · ligand · chains A
- MG · Magnesium ion · metal · 2 copies · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
3 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 366 | 0.59 | 0.76 | 44 | 1PS, MG |
| 2 | 173 | 0.55 | 0.80 | 25 | empty |
| 3 | 57 | 0.39 | 0.80 | 17 | empty |
Compared structures
- 3NGQ · Crystal structure of the human CNOT6L nuclease domain · the same entry in another collection · chain A against A, TM-score 1.00
- Q96LI5 · AlphaFold monomer V2.0 prediction for CCR4-not transcription complex subunit 6-like… · a predicted model of the same protein · chain A against A, TM-score 0.99
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 Q96LI5
- Elsewhere: RCSB PDB 3NGQ · PDBe 3NGQ · UniProt Q96LI5
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