› 3pki

X-ray diffraction
2.04Å resolution

Human SIRT6 crystal structure in complex with ADP ribose

Released:
DOI: 10.2210/pdb3pki/pdb
PDB entry 3pki coloured by chain, front view.
PDB entry 3pki coloured by chain, side view.
PDB entry 3pki coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Structure and biochemical functions of SIRT6.
Pan PW, Feldman JL, Devries MK, Dong A, Edwards AM, Denu JM
J Biol Chem 286 14575-87 (2011)
PMID: 21362626

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:
Cellular component:
Sequence domains:

Structure analysis Details

Assemblies composition:
monomeric (preferred)
homo trimer
Assembly name:
PDBe Complex ID:
PDB-CPX-185425 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
NAD-dependent protein deacylase sirtuin-6 Chains: A, B, C, D, E, F
Molecule details ›
Chains: A, B, C, D, E, F
Length: 355 amino acids
Theoretical weight: 39.11 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: Q8N6T7 (Residues: 2-355; Coverage: 100%)
Gene names: SIR2L6, SIRT6
Sequence domains: Sir2 family
Structure domains:

Ligands and Environments

4 bound ligands:
Ligand UNX 26 x UNX
Ligand ZN 6 x ZN
Ligand AR6 6 x AR6
Ligand SO4 23 x SO4
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 19-ID
Spacegroup: P1
Unit cell:
a: 77.367Å b: 90.2Å c: 90.18Å
α: 118.09° β: 91.39° γ: 115.8°
R-values:
R R work R free
0.184 0.183 0.213
Expression system: Escherichia coli

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Citations

66 review citations

NAD(+) Metabolism and the Control of Energy Homeostasis: A Balancing Act between Mitochondria and the Nucleus.
Cantó et al. (2015)
65 more

18 mentions without citation

Acylation of Biomolecules in Prokaryotes: a Widespread Strategy for the Control of Biological Function and Metabolic Stress.
Hentchel et al. (2015)
17 more