5BTR

Crystal structure of SIRT1 in complex with resveratrol and an AMC-containing peptide


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.2 Å
  • R-Value Free: 0.252
  • R-Value Work: 0.207

Literature

Macromolecules
Sequence Display for 5BTR

Classification: HYDROLASE / SUBSTRATE

Total Structure Weight: 139759.39

Macromolecule Entities
Molecule Chains Length Organism Details
NAD-dependent protein deacetylase sirtuin-1 A, B, C 397 Homo sapiens EC#: 3.5.1 IUBMB
Fragment: UNP residues 143-512 and 641-665
Mutation: C253S, C268S, C501S, C502S
Gene Name(s): SIRT1 Gene View SIR2L1
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
AMC-containing peptide D, E, F 5 Synthetic construct

Small Molecules
Ligands 2 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
STL
Query on STL

A, B, C, D, E, F RESVERATROL
C14 H12 O3
LUKBXSAWLPMMSZ-OWOJBTEDSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
ZN
Query on ZN

A, B, C ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
STL EC50: 23600 - 46200 nM (98) BindingDB

N/A in BindingMoad
N/A in PDBbind
Modified Residues 2 Unique
ID Chains Type Formula 2D Diagram Parent
ACE
Query on ACE
D, E, F NON-POLYMER C2 H4 O --
FDL
Query on FDL
D, E, F L-PEPTIDE LINKING C18 H23 N3 O4 LYS

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.2 Å
  • R-Value Free: 0.252
  • R-Value Work: 0.207
  • Space Group: P 41

Unit Cell:

Length (Å) Angle (°)
a = 133.89 α = 90.00
b = 133.89 β = 90.00
c = 106.71 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2015-06-03
  • Released Date: 2015-07-08
  • Deposition author(s): Cao, D., Wang, M., Qiu, X., Liu, D., Jiang, H., Yang, N., Xu, R.M.

Revision History

  • 2016-12-28
    Type: Other