3VPC	Ligase	date	Feb 29, 2012
title	Argx From Sulfolobus Tokodaii Complexed With Adp
authors	T.Tomita, A.Horie, T.Kuzuyama, M.Nishiyama
compound		source
Molecule: Putative Acetylornithine Deacetylase Chain: A, B, C, D Synonym: Stargx Ec: 3.5.1.16 Engineered: Yes		Organism_scientific: Sulfolobus Tokodaii Organism_taxid: 111955 Strain: Dsm 16993, Jcm 10545, Nbrc 100140, 7 Gene: Argx Expression_system: Escherichia Coli Expression_system_taxid: 273063 Expression_system_strain: Bl21codonplus(De3) Expression_system_vector_type: Plasmid Expression_system_plasmid: Pet-Stargx
symmetry	Space Group: P 1	R_factor 0.198 R_Free 0.253
crystal cell	length a length b length c angle alpha angle beta angle gamma 63.266 67.845 80.032 87.77 75.29 67.03
method	X-Ray Diffraction	resolution	1.87 Å
ligand	ADP	enzyme	Hydrolase E.C.3.5.1.16 BRENDA
Gene Ontology	Chain Function Process Component A, D, C, B
Primary reference	Lysine and arginine biosyntheses mediated by a common carrier protein in Sulfolobus., Ouchi T, Tomita T, Horie A, Yoshida A, Takahashi K, Nishida H, Lassak K, Taka H, Mineki R, Fujimura T, Kosono S, Nishiyama C, Masui R, Kuramitsu S, Albers SV, Kuzuyama T, Nishiyama M, Nat Chem Biol. 2013 Apr;9(4):277-83. doi: 10.1038/nchembio.1200. Epub 2013 Feb, 24. PMID:23434852

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (202 Kb) [Save to disk] Biological Unit Coordinates (3vpc.pdb1.gz) 197 Kb LPC: Ligand-Protein Contacts for 3VPC CSU: Contacts of Structural Units for 3VPC Structure Factors (1380 Kb) Retrieve 3VPC in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 3VPC from S2C, [Save to disk] Re-refined 3vpc structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 3VPC 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 3VPC

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 3VPC, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [3vpc_D] [3vpc_B] [3vpc_A] [3vpc] [3vpc_C] SWISS-PROT database: Domain organization of by SWISSPFAM

Other resources with information on 3VPC

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

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