4GLW

DNA ligase A in complex with inhibitor

Structural Biology Knowledgebase: 4GLW SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.0 Å
  • R-Value Free: 0.260
  • R-Value Work: 0.207

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 4GLW

Classification: LIGASE / LIGASE INHIBITOR

Total Structure Weight: 70127.70

Macromolecule Entities
Molecule Chains Length Organism Details
DNA ligase A, B 305 Streptococcus pneumoniae EC#: 6.5.1.2 IUBMB
Gene Name(s): ligA SPP_1122

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

B BETA-NICOTINAMIDE RIBOSE MONOPHOSPHATE
NICOTINAMIDE MONONUCLEOTIDE (Synonym)
C11 H16 N2 O8 P
DAYLJWODMCOQEW-TURQNECASA-O
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
0XT
Query on 0XT

A, B 7-methoxy-6-methylpteridine-2,4-diamine
C8 H10 N6 O
PBUUVJRZGWWXQU-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
SO4
Query on SO4

A, B SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
0XT N/A in BindingDB
Kd: 800 nM  BindingMOAD
Kd: 800 nM  PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.0 Å
  • R-Value Free: 0.260
  • R-Value Work: 0.207
  • Space Group: P 31
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 56.73 α = 90.00
b = 56.73 β = 90.00
c = 197.93 γ = 120.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2012-08-15
  • Released Date: 2012-10-10
  • Deposition author(s): Prade, L., Lange, R., Tidten-Luksch, N., Chambovey, A.

Revision History

  • 2012-10-31
    Type: Citation | Details: Citation update