1ARZ

ESCHERICHIA COLI DIHYDRODIPICOLINATE REDUCTASE IN COMPLEX WITH NADH AND 2,6 PYRIDINE DICARBOXYLATE

Structural Biology Knowledgebase: 1ARZ SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.6 Å
  • R-Value Free: 0.297
  • R-Value Work: 0.214

Literature

Macromolecules
Sequence Display for 1ARZ

Classification: OXIDOREDUCTASE

Total Structure Weight: 117846.14

Macromolecule Entities
Molecule Chains Length Organism Details
DIHYDRODIPICOLINATE REDUCTASE A, B, C, D 273 Escherichia coli EC#: 1.17.1.8 IUBMB
Gene Name(s): dapB b0031 JW0029
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 4 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
NAI
Query on NAI

B, C, D 1,4-DIHYDRONICOTINAMIDE ADENINE DINUCLEOTIDE
NADH (Synonym)
C21 H29 N7 O14 P2
BOPGDPNILDQYTO-NNYOXOHSSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
PDC
Query on PDC

B, C, D PYRIDINE-2,6-DICARBOXYLIC ACID
DIPICOLINIC ACID (Synonym)
C7 H5 N O4
WJJMNDUMQPNECX-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
PO4
Query on PO4

A PHOSPHATE ION
O4 P
NBIIXXVUZAFLBC-UHFFFAOYSA-K
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
K
Query on K

B, D POTASSIUM ION
K
NPYPAHLBTDXSSS-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.6 Å
  • R-Value Free: 0.297
  • R-Value Work: 0.214
  • Space Group: P 21 21 21
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 137.60 α = 90.00
b = 123.80 β = 90.00
c = 66.60 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 1997-08-08
  • Released Date: 1998-10-14
  • Deposition author(s): Scapin, G., Reddy, S.G., Zheng, R., Blanchard, J.S.

Revision History

  • 2013-10-30
    Type: Non-polymer description | Details: change NAD to NAI to match NADH
  • 2011-07-13
    Type: Source and taxonomy | Details: Removed strain from scientific name
  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4