3BA8

Structural Basis for the Inhibition of Bacterial NAD+ Dependent DNA Ligase

Structural Biology Knowledgebase: 3BA8 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.9 Å
  • R-Value Free: 0.223
  • R-Value Work: 0.193

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 3BA8

Classification: LIGASE

Total Structure Weight: 38929.69

Macromolecule Entities
Molecule Chains Length Organism Details
DNA ligase A 332 Enterococcus faecalis EC#: 6.5.1.2 IUBMB
Fragment: Adenylation Domain
Gene Name(s): ligA EF_0722

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

A BETA-NICOTINAMIDE RIBOSE MONOPHOSPHATE
NICOTINAMIDE MONONUCLEOTIDE (Synonym)
C11 H16 N2 O8 P
DAYLJWODMCOQEW-TURQNECASA-O
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
3B8
Query on 3B8

A 2-amino-7-fluoro-5-oxo-5H-chromeno[2,3-b]pyridine- 3-carboxamide
2-Amino-6-fluoro-10-oxo-10H-9-oxa-1-aza-anthracene- 3-carboxylic acid amide (Synonym)
C13 H8 F N3 O3
GCHMLYYPYFXLQB-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
SO4
Query on SO4

A SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.9 Å
  • R-Value Free: 0.223
  • R-Value Work: 0.193
  • Space Group: C 1 2 1

Unit Cell:

Length (Å) Angle (°)
a = 90.50 α = 90.00
b = 86.29 β = 100.94
c = 56.61 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2007-11-07
  • Released Date: 2008-11-11
  • Deposition author(s): Pinko, C.

Revision History

  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4