› 3ngo

X-ray diffraction
2.2Å resolution

Crystal structure of the human CNOT6L nuclease domain in complex with poly(A) DNA

Released:
DOI: 10.2210/pdb3ngo/pdb
PDB entry 3ngo coloured by chain, front view.
PDB entry 3ngo coloured by chain, side view.
PDB entry 3ngo coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Crystal structure of the human CNOT6L nuclease domain reveals strict poly(A) substrate specificity.
Wang H, Morita M, Yang X, Suzuki T, Yang W, Wang J, Ito K, Wang Q, Zhao C, Bartlam M, Yamamoto T, Rao Z
EMBO J 29 2566-76 (2010)
PMID: 20628353

Function and Biology Details

Reaction catalysed: 
Exonucleolytic cleavage of poly(A) to 5'-AMP
Biochemical function:
Biological process:
  • not assigned
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
hetero dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-116617 (preferred)
Entry contents:
1 distinct polypeptide molecule
1 distinct DNA molecule
Macromolecules (2 distinct):
CCR4-NOT transcription complex subunit 6-like Chain: A
Molecule details ›
Chain: A
Length: 398 amino acids
Theoretical weight: 45.14 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: Q96LI5 (Residues: 158-555; Coverage: 72%)
Gene names: CCR4B, CNOT6L
Sequence domains: Endonuclease/Exonuclease/phosphatase family
Structure domains: Endonuclease/exonuclease/phosphatase
5'-D(*AP*AP*AP*A)-3' Chain: B
Molecule details ›
Chain: B
Length: 4 nucleotides
Theoretical weight: 1.21 KDa
Source organism: Homo sapiens
Expression system: Not provided

Ligands and Environments

1 bound ligand:
Ligand MG 2 x MG
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SSRF BEAMLINE BL17U
Spacegroup: P3221
Unit cell:
a: 77.373Å b: 77.373Å c: 167.177Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.217 0.215 0.263
Expression systems:
  • Escherichia coli
  • Not provided

Quick links

Citations

9 review citations

Ccr4-Not complex: the control freak of eukaryotic cells.
Miller et al. (2012)
8 more

13 mentions without citation

Heterogeneity and complexity within the nuclease module of the Ccr4-Not complex.
Winkler et al. (2013)
12 more