4EFE

crystal structure of DNA ligase


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2 Å
  • R-Value Free: 0.254 
  • R-Value Work: 0.210 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

crystal structure of DNA ligase

Wang, T.Xu, W.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
SO4
Query on SO4

Download SDF File 
Download CCD File 
A
SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
 Ligand Interaction
0OV
Query on 0OV

Download SDF File 
Download CCD File 
A
[4-amino-2-{[(1S,2R)-2-methylcyclohexyl]oxy}-5-oxopyrido[2,3-d]pyrimidin-8(5H)-yl]acetonitrile
C16 H19 N5 O2
MZUFVSMPTFUMGZ-PWSUYJOCSA-N
 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 Å
  • R-Value Free: 0.254 
  • R-Value Work: 0.210 
  • Space Group: C 1 2 1
Unit Cell:
Length (Å)Angle (°)
a = 90.550α = 90.00
b = 86.530β = 101.02
c = 57.030γ = 90.00
Software Package:
Software NamePurpose
CNXrefinement
SCALEPACKdata scaling
CrystalCleardata collection
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
  • Version 1.1: 2013-05-01
    Type: Other
  • Version 1.2: 2017-11-15
    Type: Refinement description