› 4if6

X-ray diffraction
2.25Å resolution

Structure of NAD-dependent protein deacetylase sirtuin-1 (closed state, 2.25 A)

Released:
DOI: 10.2210/pdb4if6/pdb
PDB entry 4if6 coloured by chain, front view.
PDB entry 4if6 coloured by chain, side view.
PDB entry 4if6 coloured by chain, top view.
Source organism: Homo sapiens
Entry authors: Davenport AM, Huber FM, Hoelz A

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-188452 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (2 distinct):
SirtT1 75 kDa fragment Chain: A
Molecule details ›
Chain: A
Length: 281 amino acids
Theoretical weight: 31.83 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: Q96EB6 (Residues: 234-510; Coverage: 37%)
Gene names: SIR2L1, SIRT1
Sequence domains: Sir2 family
Structure domains:
NAD-dependent protein deacetylase sirtuin-1 Chain: B
Molecule details ›
Chain: B
Length: 31 amino acids
Theoretical weight: 3.54 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: Q96EB6 (Residues: 641-665; Coverage: 3%)
Gene names: SIR2L1, SIRT1

Ligands and Environments

2 bound ligands:
Ligand ZN 1 x ZN
Ligand APR 1 x APR
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SSRL BEAMLINE BL12-2
Spacegroup: P3221
Unit cell:
a: 92.662Å b: 92.662Å c: 97.7Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.159 0.156 0.187
Expression system: Escherichia coli

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