2IVD	Oxidoreductase	date	Jun 12, 2006
title	Structure Of Protoporphyrinogen Oxidase From Myxococcus Xanthus With Acifluorfen
authors	H.R.Corradi, A.V.Corrigall, E.Boix, C.G.Mohan, E.D.Sturrock, P.N.Meissner, K.R.Acharya
compound		source
Molecule: Protoporphyrinogen Oxidase Chain: A, B Synonym: Ppo, Ppox Ec: 1.3.3.4 Engineered: Yes		Organism_scientific: Myxococcus Xanthus Organism_taxid: 34 Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_strain: Jm109
symmetry	Space Group: P 4 21 2	R_factor 0.234 R_Free 0.283
crystal cell	length a length b length c angle alpha angle beta angle gamma 148.918 148.918 131.924 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	2.3 Å
ligand	ACJ, FAD, GOL, TWN	enzyme	Oxidoreductase E.C.1.3.3.4 BRENDA
Gene Ontology	Chain Function Process Component A, B
Primary reference	Crystal structure of protoporphyrinogen oxidase from Myxococcus xanthus and its complex with the inhibitor acifluorfen., Corradi HR, Corrigall AV, Boix E, Mohan CG, Sturrock ED, Meissner PN, Acharya KR, J Biol Chem. 2006 Dec 15;281(50):38625-33. Epub 2006 Oct 17. PMID:17046834

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (151 Kb) [Save to disk] Biological Unit Coordinates (2ivd.pdb1.gz) 74 Kb Biological Unit Coordinates (2ivd.pdb2.gz) 75 Kb LPC: Ligand-Protein Contacts for 2IVD CSU: Contacts of Structural Units for 2IVD Likely Quarternary Molecular Structure file(s) for 2IVD Structure Factors (1391 Kb) Retrieve 2IVD in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 2IVD from S2C, [Save to disk] Re-refined 2ivd structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 2IVD 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 2IVD

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 2IVD, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [2ivd] [2ivd_B] [2ivd_A] SWISS-PROT database: [P56601] Domain organization of [PPOX_MYXXA] by SWISSPFAM

Other resources with information on 2IVD

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

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