› 6l66

X-ray diffraction
2.17Å resolution

Sirtuin 2 protein with H3K18 myristoylated peptide and intact NAD molecule

Released:
DOI: 10.2210/pdb6l66/pdb
PDB entry 6l66 coloured by chain, front view.
PDB entry 6l66 coloured by chain, side view.
PDB entry 6l66 coloured by chain, top view.
Source organism: Homo sapiens
Entry author: Chen LF

Function and Biology Details

Reaction catalysed: 
(1a) [protein]-N(6)-acetyl-L-lysine + NAD(+) = [protein]-N(6)-(1,1-(5-adenosylyl-alpha-D-ribose-1,2-di-O-yl)ethyl)-L-lysine + nicotinamide
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-166998 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (2 distinct):
NAD-dependent protein deacetylase sirtuin-2 Chain: A
Molecule details ›
Chain: A
Length: 304 amino acids
Theoretical weight: 34.4 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli K-12
UniProt:
  • Canonical: Q8IXJ6 (Residues: 52-355; Coverage: 78%)
Gene names: SIR2L, SIR2L2, SIRT2
Sequence domains: Sir2 family
PRO-ARG-LYS-GLN-LEU-ALA Chain: C
Molecule details ›
Chain: C
Length: 6 amino acids
Theoretical weight: 714 Da
Source organism: Homo sapiens
Expression system: Not provided

Ligands and Environments

3 bound ligands:
Ligand ZN 1 x ZN
Ligand NAD 1 x NAD
Ligand 3LX 1 x 3LX
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SSRF BEAMLINE BL17U
Spacegroup: P21
Unit cell:
a: 37.48Å b: 78.044Å c: 56.236Å
α: 90° β: 97.62° γ: 90°
R-values:
R R work R free
0.177 0.174 0.234
Expression systems:
  • Escherichia coli K-12
  • Not provided

Quick links