1KQP

NH3-DEPENDENT NAD+ SYNTHETASE FROM BACILLUS SUBTILIS AT 1 A RESOLUTION

Structural Biology Knowledgebase: 1KQP SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.03 Å
  • R-Value Free: 0.135
  • R-Value Work: 0.106

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 1KQP

Classification: LIGASE

Total Structure Weight: 63701.95

Macromolecule Entities
Molecule Chains Length Organism Details
NH(3)-dependent NAD(+) synthetase A, B 271 Bacillus subtilis EC#: 6.3.1.5 IUBMB
Details: complexed with a reaction intermediate NAD-A, residue ADJ
Gene Name(s): nadE outB BSU03130
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

A, B NICOTINAMIDE-ADENINE-DINUCLEOTIDE-ADENYLATE INTERMEDIATE
NADP-A (Synonym)
C31 H44 N11 O21 P3
DBSVVYFUZBLHSN-JFLYKPBPSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
POP
Query on POP

A, B PYROPHOSPHATE 2-
H2 O7 P2
XPPKVPWEQAFLFU-UHFFFAOYSA-L
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
EDO
Query on EDO

A, B 1,2-ETHANEDIOL
ETHYLENE GLYCOL (Synonym)
C2 H6 O2
LYCAIKOWRPUZTN-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MG
Query on MG

A, B MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.03 Å
  • R-Value Free: 0.135
  • R-Value Work: 0.106
  • Space Group: P 1 21 1
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 52.28 α = 90.00
b = 84.79 β = 110.50
c = 59.64 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2002-01-07
  • Released Date: 2002-06-28
  • Deposition author(s): Symersky, J., Devedjiev, Y., Moore, K., Brouillette, C., DeLucas, L.

Revision History

  • 2011-08-03
    Type: Atom nomenclature | Details: --
  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4
  • 2011-07-13
    Type: Biological assembly | Details: Added software calculated values