1JQV

The K213E mutant of Lactococcus lactis Dihydroorotate dehydrogenase A

Structural Biology Knowledgebase: 1JQV SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.1 Å
  • R-Value Free: 0.228
  • R-Value Work: 0.185

Literature

Macromolecules
Sequence Display for 1JQV

Classification: OXIDOREDUCTASE

Total Structure Weight: 69998.47

Macromolecule Entities
Molecule Chains Length Organism Details
Dihydroorotate dehydrogenase A A, B 311 Lactococcus lactis EC#: 1.3.98.1 IUBMB
Mutation: K213E
Gene Name(s): pyrDA llmg_0952
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

A, B FLAVIN MONONUCLEOTIDE
RIBOFLAVIN MONOPHOSPHATE (Synonym)
C17 H21 N4 O9 P
FVTCRASFADXXNN-SCRDCRAPSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
ORO
Query on ORO

A, B OROTIC ACID
C5 H4 N2 O4
PXQPEWDEAKTCGB-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
ACY
Query on ACY

A, B ACETIC ACID
C2 H4 O2
QTBSBXVTEAMEQO-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MG
Query on MG

A, B MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
ORO N/A in BindingDB
Kd: 117000 nM  BindingMOAD
N/A in PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.1 Å
  • R-Value Free: 0.228
  • R-Value Work: 0.185
  • Space Group: P 1 21 1
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 53.18 α = 90.00
b = 108.37 β = 103.74
c = 66.11 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2001-08-09
  • Released Date: 2003-09-09
  • Deposition author(s): Norager, S., Arent, S., Bjornberg, O., Ottosen, M., Lo Leggio, L., Jensen, K.F., Larsen, S.

Revision History

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