2VND	Hydrolase	date	Feb 04, 2008
title	The N69q Mutant Of Vibrio Cholerae Endonuclease I
authors	L.Niiranen, B.Altermark, B.O.Brandsdal, H.K.S.Leiros, R.Helland A.O.Smalas, N.P.Willassen
compound		source
Molecule: Endonuclease I Chain: A Ec: 3.1.21.- Engineered: Yes Mutation: Yes Other_details: 1 Mutation \: N69q		Organism_scientific: Vibrio Cholerae Organism_taxid: 666 Atcc: 14035 Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_strain: Top10 Expression_system_variant: Pbadgiii
symmetry	Space Group: P 21 21 21	R_factor 0.197 R_Free 0.259
crystal cell	length a length b length c angle alpha angle beta angle gamma 40.265 64.411 75.639 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	1.70 Å
ligand	CL, MG	enzyme	Hydrolase E.C.3.1.21 BRENDA
Gene Ontology	Chain Function Process Component A
Primary reference	Effects of salt on the kinetics and thermodynamic stability of endonuclease I from Vibrio salmonicida and Vibrio cholerae., Niiranen L, Altermark B, Brandsdal BO, Leiros HK, Helland R, Smalas AO, Willassen NP, FEBS J. 2008 Apr;275(7):1593-605. Epub 2008 Feb 27. PMID:18312415

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (43 Kb) [Save to disk] Biological Unit Coordinates (2vnd.pdb1.gz) 38 Kb LPC: Ligand-Protein Contacts for 2VND CSU: Contacts of Structural Units for 2VND Likely Quarternary Molecular Structure file(s) for 2VND Structure Factors (291 Kb) Retrieve 2VND in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 2VND from S2C, [Save to disk] Re-refined 2vnd structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 2VND 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 2VND

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 2VND, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [2vnd] [2vnd_A] SWISS-PROT database: [P08038] Domain organization of [DRNE_VIBCH] by SWISSPFAM

Other resources with information on 2VND

Community annotation for 2VND at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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