› 5ol0

X-ray diffraction
1.99Å resolution

Structure of Leishmania infantum Silent Information Regulator 2 related protein 1 (LiSIR2rp1) in complex with acetylated p53 peptide

Released:
DOI: 10.2210/pdb5ol0/pdb
PDB entry 5ol0 coloured by chain, front view.
PDB entry 5ol0 coloured by chain, side view.
PDB entry 5ol0 coloured by chain, top view.
Source organisms:
Primary publication:
The crystal structure of the Leishmania infantum Silent Information Regulator 2 related protein 1: Implications to protein function and drug design.
Ronin C, Costa DM, Tavares J, Faria J, Ciesielski F, Ciapetti P, Smith TK, MacDougall J, Cordeiro-da-Silva A, Pemberton IK
PLoS One 13 e0193602 (2018)
PMID: 29543820

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-105665 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (2 distinct):
NAD-dependent protein deacetylase Chains: A, B
Molecule details ›
Chains: A, B
Length: 324 amino acids
Theoretical weight: 35.37 KDa
Source organism: Leishmania infantum
Expression system: Escherichia coli
UniProt:
  • Canonical: A0A6L0XH39 (Residues: 1-373; Coverage: 86%)
Gene names: LINJ_26_0200, SIR2, SIR2RP1, TbSIR2, TbSIR2RP1
Sequence domains: Sir2 family
Cellular tumor antigen p53 Chains: C, D
Molecule details ›
Chains: C, D
Length: 18 amino acids
Theoretical weight: 2.14 KDa
Source organism: Homo sapiens
Expression system: Not provided
UniProt:
  • Canonical: P04637 (Residues: 372-389; Coverage: 5%)
Gene names: P53, TP53

Ligands and Environments

1 bound ligand:
Ligand ZN 2 x ZN
1 modified residue:
Ligand ALY 2 x ALY

Experiments and Validation Details

Entry percentile scores
X-ray source: SOLEIL BEAMLINE PROXIMA 1
Spacegroup: P21
Unit cell:
a: 66.02Å b: 65.67Å c: 66.62Å
α: 90° β: 97.75° γ: 90°
R-values:
R R work R free
0.17 0.167 0.226
Expression systems:
  • Escherichia coli
  • Not provided

Quick links

Citations

2 review citations

Leishmania-Host Interactions-An Epigenetic Paradigm.
Afrin et al. (2019)
1 more

4 mentions without citation

The crystal structure of the Leishmania infantum Silent Information Regulator 2 related protein 1: Implications to protein function and drug design.
Ronin et al. (2018)
3 more