3VTF	Oxidoreductase	date	May 29, 2012
title	Structure Of A Udp-Glucose Dehydrogenase From The Hypertherm Archaeon Pyrobaculum Islandicum
authors	H.Sakuraba, T.Ohshima, K.Yoneda
compound		source
Molecule: Udp-Glucose 6-Dehydrogenase Chain: A Ec: 1.1.1.22 Engineered: Yes		Organism_scientific: Pyrobaculum Islandicum Organism_taxid: 384616 Strain: Dsm 4184 Gene: Pisl_1505 Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_strain: Bl21(De3) Expression_system_vector_type: Plasmid Expression_system_plasmid: Pet15
symmetry	Space Group: C 1 2 1	R_factor 0.177 R_Free 0.217
crystal cell	length a length b length c angle alpha angle beta angle gamma 117.652 76.739 75.551 90.00 125.80 90.00
method	X-Ray Diffraction	resolution	2.00 Å
ligand	EDO, UPG	enzyme	Oxidoreductase E.C.1.1.1.22 BRENDA
Gene	PISL
Gene Ontology	Chain Function Process Component A
Primary reference	Structure of a UDP-glucose dehydrogenase from the hyperthermophilic archaeon Pyrobaculum islandicum., Sakuraba H, Kawai T, Yoneda K, Ohshima T, Acta Crystallogr Sect F Struct Biol Cryst Commun. 2012 Sep;68(Pt 9):1003-7. Epub , 2012 Aug 29. PMID:22949183

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (75 Kb) [Save to disk] Biological Unit Coordinates (3vtf.pdb1.gz) 138 Kb LPC: Ligand-Protein Contacts for 3VTF CSU: Contacts of Structural Units for 3VTF Structure Factors (254 Kb) Retrieve 3VTF in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 3VTF from S2C, [Save to disk] Re-refined 3vtf structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 3VTF 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 3VTF

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 3VTF, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [3vtf] [3vtf_A] SWISS-PROT database: Domain organization of by SWISSPFAM Domain found in 3VTF: [UDPG_MGDP_dh_C ] by SMART

Other resources with information on 3VTF

Community annotation for 3VTF at PDBWiki (http://pdbwiki.org)

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