3KVY	Transferase	date	Nov 30, 2009
title	Trapping Of An Oxocarbenium Ion Intermediate In Up Crystals
authors	D.Paul, S.O'Leary, K.Rajashankar, W.Bu, A.Toms, E.Settembre, J.San T.P.Begley, S.E.Ealick
compound		source
Molecule: Uridine Phosphorylase Chain: A, B Engineered: Yes		Organism_scientific: Bos Taurus Organism_common: Bovine Organism_taxid: 9913 Gene: Upp1 Expression_system: Escherichia Coli Expression_system_taxid: 469008 Expression_system_strain: Bl21star(De3) Expression_system_vector_type: Plasmid Expression_system_plasmid: Xf1
symmetry	Space Group: P 41 21 2	R_factor 0.180 R_Free 0.208
crystal cell	length a length b length c angle alpha angle beta angle gamma 83.478 83.478 260.063 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	2.30 Å
ligand	R2B, SO4, URA	enzyme
Gene Ontology	Chain Function Process Component A, B
Primary reference	Glycal formation in crystals of uridine phosphorylase., Paul D, O'Leary SE, Rajashankar K, Bu W, Toms A, Settembre EC, Sanders JM, Begley TP, Ealick SE, Biochemistry. 2010 Apr 27;49(16):3499-509. PMID:20364833

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (102 Kb) [Save to disk] Biological Unit Coordinates (3kvy.pdb1.gz) 97 Kb LPC: Ligand-Protein Contacts for 3KVY CSU: Contacts of Structural Units for 3KVY Structure Factors (553 Kb) Retrieve 3KVY in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 3KVY from S2C, [Save to disk] Re-refined 3kvy structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 3KVY 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 3KVY

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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 3KVY, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [3kvy] [3kvy_A] [3kvy_B] SWISS-PROT database: Domain organization of by SWISSPFAM

Other resources with information on 3KVY

Community annotation for 3KVY at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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