1GTH	Oxidoreductase	date	Jan 15, 2002
title	Dihydropyrimidine Dehydrogenase (Dpd) From Pig, Ternary Comp Nadph And 5-Iodouracil
authors	D.Dobritzsch, S.Ricagno, G.Schneider, K.D.Schnackerz, Y.Lindqvis
compound		source
Molecule: Dihydropyrimidine Dehydrogenase Chain: A, B, C, D Synonym: Dpd, Dhpdhase, Dihydrouracil Dehydrogenase, Dihydr Dehydrogenase; Ec: 1.3.1.2 Engineered: Yes		Organism_scientific: Sus Scrofa Organism_common: Pig Organism_taxid: 9823 Organ: Liver Expression_system: Escherichia Coli Dh5[Alpha] Expression_system_taxid: 668369 Expression_system_plasmid: Pse420
symmetry	Space Group: P 1 21 1	R_factor 0.177 R_Free 0.209
crystal cell	length a length b length c angle alpha angle beta angle gamma 82.210 159.690 167.590 90.00 97.11 90.00
method	X-Ray Diffraction	resolution	2.25 Å
ligand	FAD, FMN, IDH, IUR, NDP, SF4, URA BindingDB	enzyme	Oxidoreductase E.C.1.3.1.2 BRENDA
related structures	by homologous chain: 1H7X
Gene Ontology	Chain Function Process Component A, D, C, B
Primary reference	Crystal structure of the productive ternary complex of dihydropyrimidine dehydrogenase with NADPH and 5-iodouracil. Implications for mechanism of inhibition and electron transfer., Dobritzsch D, Ricagno S, Schneider G, Schnackerz KD, Lindqvist Y, J Biol Chem 2002 Apr 12;277(15):13155-66. PMID:11796730

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (709 Kb) [Save to disk] Biological Unit Coordinates (1gth.pdb1.gz) 358 Kb Biological Unit Coordinates (1gth.pdb2.gz) 353 Kb LPC: Ligand-Protein Contacts for 1GTH CSU: Contacts of Structural Units for 1GTH Likely Quarternary Molecular Structure file(s) for 1GTH Structure Factors (1721 Kb) Retrieve 1GTH in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 1GTH from S2C, [Save to disk] Re-refined 1gth structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 1GTH in 3D

Proteopedia, because life has more than 2D. On Jmol, a nice Rasmol like molecule viewer. This is good for easiest viewing of basic structure. On FirstGlance, an excellent tool for a guided tour on the structure components, by E. Martz.

Visual 3D analysis of 1GTH

Ramachandran plot from PDBSum

Structure-derived information

Electron Density related parameters from EDS Electron Density Server, at Upsala Dipole moment, from Dipole Server at Weizmann Institute 3D motif for 1GTH, from MSDmotif at EBI Classification of representative domains in scop (Structural Classification of Proteins)     - Domain d1gtha4, region A:184-287,A:441-532 [Jmol] [rasmolscript] [script source]     - Domain d1gtha1, region A:2-183 [Jmol] [rasmolscript] [script source]     - Domain d1gtha3, region A:288-440 [Jmol] [rasmolscript] [script source]     - Domain d1gtha2, region A:533-844 [Jmol] [rasmolscript] [script source]     - Domain d1gtha5, region A:845-1020 [Jmol] [rasmolscript] [script source]     - Domain d1gthb4, region B:184-287,B:441-532 [Jmol] [rasmolscript] [script source]     - Domain d1gthb1, region B:2-183 [Jmol] [rasmolscript] [script source]     - Domain d1gthb3, region B:288-440 [Jmol] [rasmolscript] [script source]     - Domain d1gthb2, region B:533-844 [Jmol] [rasmolscript] [script source]     - Domain d1gthb5, region B:845-1020 [Jmol] [rasmolscript] [script source]     - Domain d1gthc4, region C:184-287,C:441-532 [Jmol] [rasmolscript] [script source]     - Domain d1gthc1, region C:2-183 [Jmol] [rasmolscript] [script source]     - Domain d1gthc3, region C:288-440 [Jmol] [rasmolscript] [script source]     - Domain d1gthc2, region C:533-844 [Jmol] [rasmolscript] [script source]     - Domain d1gthc5, region C:845-1020 [Jmol] [rasmolscript] [script source]     - Domain d1gthd4, region D:184-287,D:441-532 [Jmol] [rasmolscript] [script source]     - Domain d1gthd1, region D:2-183 [Jmol] [rasmolscript] [script source]     - Domain d1gthd3, region D:288-440 [Jmol] [rasmolscript] [script source]     - Domain d1gthd2, region D:533-844 [Jmol] [rasmolscript] [script source]     - Domain d1gthd5, region D:845-1020 [Jmol] [rasmolscript] [script source] Class (fold), Architecture (subfold), Topology, Homologous superfamily from CATH Summaries and structural analyses of PDB data files from PDBSum Identification of Protein Pockets & Cavities at CASTp

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [1gth] [1gth_D] [1gth_B] [1gth_C] [1gth_A] SWISS-PROT database: [Q28943] Domain organization of [DPYD_PIG] by SWISSPFAM

Other resources with information on 1GTH

Community annotation for 1GTH at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

Movements, Movies and Images

Images from IMB Jena Image Library of Biological Macromolecules.

You may enter another PDB ID code

Go [Back], to the [PDB Lite page], to the [OCA Search page] or to the [PDB Home page]

---

OCA© by Jaime Prilusky, 1996-2014,2022 Bioinformatics Unit Weizmann Institute of Science

---