4JT8

Crystal Structure of human SIRT3 with ELT inhibitor 28 [4-(4-{2-[(2,2-dimethylpropanoyl)amino]ethyl}piperidin-1-yl)thieno[3,2-d]pyrimidine-6-carboxamide[

Structural Biology Knowledgebase: 4JT8 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.26 Å
  • R-Value Free: 0.241
  • R-Value Work: 0.202

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 4JT8

Classification: HYDROLASE / HYDROLASE INHIBITOR

Total Structure Weight: 32067.47

Macromolecule Entities
Molecule Chains Length Organism Details
NAD-dependent protein deacetylase sirtuin-3, mitochondrial A 285 Homo sapiens EC#: 3.5.1 IUBMB
Fragment: UNP residues 118-399
Gene Name(s): SIRT3 Gene View SIR2L3
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 2 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
1NR
Query on 1NR

A 4-(4-{2-[(2,2-dimethylpropanoyl)amino]ethyl}piperidin- 1-yl)thieno[3,2-d]pyrimidine-6-carboxamide
C19 H27 N5 O2 S
NSPKBHVNVJWICU-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
ZN
Query on ZN

A ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
1NR IC50: 33 nM (98) BindingDB

IC50: 33 nM  BindingMOAD
IC50: 33 nM  PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.26 Å
  • R-Value Free: 0.241
  • R-Value Work: 0.202
  • Space Group: P 65
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 117.28 α = 90.00
b = 117.28 β = 90.00
c = 45.59 γ = 120.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2013-03-22
  • Released Date: 2013-04-24
  • Deposition author(s): Dai, H.

Revision History

  • 2013-07-03
    Type: Citation | Details: Citation update