4EF8

Crystal structure of dihydroorotate dehydrogenase from Leishmania major in complex with Phenyl isothiocyanate

Structural Biology Knowledgebase: 4EF8 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.56 Å
  • R-Value Free: 0.194
  • R-Value Work: 0.176

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 4EF8

Classification: Oxidoreductase / Oxidoreductase inhibitor

Total Structure Weight: 78067.20

Macromolecule Entities
Molecule Chains Length Organism Details
Dihydroorotate dehydrogenase A, B 354 Leishmania major EC#: 1.3.98.1 IUBMB
Gene Name(s): DHODH Gene View LMJF_16_0530
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
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
0FI
Query on 0FI

A, B N-phenylthioformamide
bound form, (Synonym)
C7 H7 N S
UNRRVOATHRPYDX-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
SO4
Query on SO4

A, B SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
GOL
Query on GOL

A, B GLYCEROL
2, (Synonym)
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.56 Å
  • R-Value Free: 0.194
  • R-Value Work: 0.176
  • Space Group: P 61
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 144.19 α = 90.00
b = 144.19 β = 90.00
c = 69.87 γ = 120.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2012-03-29
  • Released Date: 2012-12-12
  • Deposition author(s): Pinheiro, M.P., Emery, F.S., Nonato, M.C.

Revision History

  • 2013-05-22
    Type: Citation | Details: Citation update