5KSW

DHODB-I74D mutant


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.47 Å
  • R-Value Free: 0.244 
  • R-Value Work: 0.176 

wwPDB Validation 3D Report Full Report


This is version 1.4 of the entry. See complete history

Literature

Isoleucine 74 Plays a Key Role in Controlling Electron Transfer Between Lactococcus lactis Dihydroorotate Dehydrogenase 1B Subunits

Pompeu, Y.A.Stewart, J.D.

To be published.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Dihydroorotate dehydrogenase
A, C
306Lactococcus lactis subsp. lactis (strain IL1403)Mutation(s): 1 
Gene Names: pyrDB (pydB)
EC: 1.3.1.14
Find proteins for Q9CFW8 (Lactococcus lactis subsp. lactis (strain IL1403))
Go to UniProtKB:  Q9CFW8
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Dihydroorotate dehydrogenase B (NAD(+)), electron transfer subunit
B, D
262Lactococcus lactis subsp. lactis (strain IL1403)Mutation(s): 0 
Gene Names: pyrK (pyrZ)
Find proteins for Q9CFW7 (Lactococcus lactis subsp. lactis (strain IL1403))
Go to UniProtKB:  Q9CFW7
Small Molecules
Ligands 5 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
FMN
Query on FMN

Download SDF File 
Download CCD File 
A, C
FLAVIN MONONUCLEOTIDE
RIBOFLAVIN MONOPHOSPHATE
C17 H21 N4 O9 P
FVTCRASFADXXNN-SCRDCRAPSA-N
 Ligand Interaction
CL
Query on CL

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Download CCD File 
A, B
CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
 Ligand Interaction
FAD
Query on FAD

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Download CCD File 
B, D
FLAVIN-ADENINE DINUCLEOTIDE
C27 H33 N9 O15 P2
VWWQXMAJTJZDQX-UYBVJOGSSA-N
 Ligand Interaction
EDO
Query on EDO

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Download CCD File 
A, C
1,2-ETHANEDIOL
ETHYLENE GLYCOL
C2 H6 O2
LYCAIKOWRPUZTN-UHFFFAOYSA-N
 Ligand Interaction
FES
Query on FES

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Download CCD File 
B, D
FE2/S2 (INORGANIC) CLUSTER
Fe2 S2
NIXDOXVAJZFRNF-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.47 Å
  • R-Value Free: 0.244 
  • R-Value Work: 0.176 
  • Space Group: C 2 2 21
Unit Cell:
Length (Å)Angle (°)
a = 79.990α = 90.00
b = 151.720β = 90.00
c = 214.310γ = 90.00
Software Package:
Software NamePurpose
PHASERphasing
PDB_EXTRACTdata extraction
iMOSFLMdata reduction
HKL-2000data scaling
PHENIXrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2016-08-03
    Type: Initial release
  • Version 1.1: 2016-08-10
    Type: Data collection
  • Version 1.2: 2017-04-26
    Type: Structure summary
  • Version 1.3: 2017-09-27
    Type: Author supporting evidence
  • Version 1.4: 2017-11-01
    Type: Author supporting evidence