Biological Assembly 1  

 3D View: Structure | Electron Density | Ligand Interaction

Standalone Viewers  
Protein Workshop | Ligand Explorer

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A 

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 40894.29 
• Atom Count: 2860 
• Residue Count: 367 
• Unique protein chains: 1

1D3H

HUMAN DIHYDROOROTATE DEHYDROGENASE COMPLEXED WITH ANTIPROLIFERATIVE AGENT A771726

• DOI: 10.2210/pdb1D3H/pdb

• Classification: OXIDOREDUCTASE
• Organism(s): Homo sapiens
• Expression System: Escherichia coli


• Deposited: 1999-09-29 Released: 2000-08-13 
• Deposition Author(s): Liu, S., Neidhardt, E.A., Grossman, T.H., Ocain, T., Clardy, J.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.8 Å
• R-Value Free: 0.185 
• R-Value Work: 0.162 

Literature

Structures of human dihydroorotate dehydrogenase in complex with antiproliferative agents.

Liu, S., Neidhardt, E.A., Grossman, T.H., Ocain, T., Clardy, J.

(2000) Structure Fold.Des. 8: 25-33

• PubMed: 10673429 
• Primary Citation of Related Structures:  
  1D3G


• PubMed Abstract: 
  

Dihydroorotate dehydrogenase (DHODH) catalyzes the fourth committed step in the de novo biosynthesis of pyrimidines. As rapidly proliferating human T cells have an exceptional requirement for de novo pyrimidine biosynthesis, small molecule DHODH inhibitors constitute an attractive therapeutic approach to autoimmune diseases, immunosuppression, and cancer. Neither the structure of human DHODH nor any member of its family was known.

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Organizational Affiliation: 

Department of Chemistry and Chemical Biology, Cornell University, Ithaca, NY 14853-1301, USA.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
DIHYDROOROTATE DEHYDROGENASE	A	367	Homo sapiens	Mutation(s): 0  Gene Names: DHODH EC: 1.3.5.2
Find proteins for Q02127 (Homo sapiens) Go to Gene View: DHODH Go to UniProtKB:  Q02127

Small Molecules

Ligands 5 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram & Interactions
SO4	A	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L
FMN	A	FLAVIN MONONUCLEOTIDE RIBOFLAVIN MONOPHOSPHATE C17 H21 N4 O9 P FVTCRASFADXXNN-SCRDCRAPSA-N
ACT	A	ACETATE ION C2 H3 O2 QTBSBXVTEAMEQO-UHFFFAOYSA-M
A26	A	(2Z)-2-cyano-3-hydroxy-N-[4-(trifluoromethyl)phenyl]but-2-enamide ANTIPROLIFERATIVE AGENT A771726 C12 H9 F3 N2 O2 UTNUDOFZCWSZMS-YFHOEESVSA-N
ORO	A	OROTIC ACID C5 H4 N2 O4 PXQPEWDEAKTCGB-UHFFFAOYSA-N

External Ligand Annotations
ID	Binding Affinity (Sequence Identity %)
A26	IC50: 18 - 5012 nM (89) BINDINGDB

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.8 Å
• R-Value Free: 0.185 
• R-Value Work: 0.162 
• Space Group: P 3₂ 2 1

Unit Cell:

Length (Å)	Angle (°)
a = 90.610	α = 90.00
b = 90.610	β = 90.00
c = 122.410	γ = 120.00

Software Package:

Software Name	Purpose
MOSFLM	data reduction
SHELXS	phasing
CNS	refinement
CCP4	data scaling
SCALA	data scaling

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 1999-09-29 
• Released Date: 2000-08-13 
• Deposition Author(s): Liu, S., Neidhardt, E.A., Grossman, T.H., Ocain, T., Clardy, J.

Revision History 

• Version 1.0: 2000-08-13
  Type: Initial release
• Version 1.1: 2008-04-27
  Type: Version format compliance
• Version 1.2: 2011-07-13
  Type: Version format compliance
• Version 1.3: 2012-07-18
  Type: Non-polymer description