4EEQ

Crystal structure of E. faecalis DNA ligase with inhibitor


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.1 Å
  • R-Value Free: 0.245 
  • R-Value Work: 0.184 

wwPDB Validation 3D Report Full Report


This is version 1.0 of the entry. See complete history

Literature

Design, Synthesis and Activity Evaluation of Potent NAD+ DNA Ligase Inhibitors as Potential Antibacterial Agents.

Wang, T.Charifson, P.Wei, Y.

To be published.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
DNA ligase
A
331Enterococcus faecalis (strain ATCC 700802 / V583)Mutation(s): 0 
Gene Names: ligA
EC: 6.5.1.2
Find proteins for Q837V6 (Enterococcus faecalis (strain ATCC 700802 / V583))
Go to UniProtKB:  Q837V6
Small Molecules
Ligands 3 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
0OX
Query on 0OX

Download SDF File 
Download CCD File 
A
4-amino-2-(cyclopentyloxy)pyrimidine-5-carboxamide
C10 H14 N4 O2
YTVJKSRJMDSHEP-UHFFFAOYSA-N
 Ligand Interaction
SO4
Query on SO4

Download SDF File 
Download CCD File 
A
SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
 Ligand Interaction
NMN
Query on NMN

Download SDF File 
Download CCD File 
A
BETA-NICOTINAMIDE RIBOSE MONOPHOSPHATE
NICOTINAMIDE MONONUCLEOTIDE
C11 H16 N2 O8 P
DAYLJWODMCOQEW-TURQNECASA-O
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.1 Å
  • R-Value Free: 0.245 
  • R-Value Work: 0.184 
  • Space Group: C 1 2 1
Unit Cell:
Length (Å)Angle (°)
a = 90.380α = 90.00
b = 86.460β = 101.05
c = 57.000γ = 90.00
Software Package:
Software NamePurpose
CNXrefinement
CrystalCleardata collection
AMoREphasing
SCALEPACKdata scaling
DENZOdata reduction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2013-04-03
    Type: Initial release