2JIQ Oxidoreductase date Jun 28, 2007
title A New Catalytic Mechanism Of Periplasmic Nitrate Reductase F Desulfovibrio Desulfuricans Atcc 27774 From Crystallographi Data And Based On Detailed Analysis Of The Sixth Ligand
authors S.Najmudin, P.J.Gonzalez, J.Trincao, C.Coelho, A.Mukhopadhyay, C. I.Moura, J.J.G.Moura, C.D.Brondino, M.J.Romao
compound source
Molecule: Periplasmic Nitrate Reductase
Chain: A
Ec: 1.7.99.4
 Organism_scientific: Desulfovibrio Desulfuricans
Organism_taxid: 876
Atcc: 27774
symmetry Space Group: P 31 2 1
R_factor 0.155 R_Free 0.248
crystal
cell
length a length b length c angle alpha angle beta angle gamma
105.212 105.212 130.685 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.44 Å
ligand MGD, MO, NO2, NO3, SF4, UNX enzyme Oxidoreductase E.C.1.7.99.4 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A
  • electron transfer activity


    • Primary referencePeriplasmic nitrate reductase revisited: a sulfur atom completes the sixth coordination of the catalytic molybdenum., Najmudin S, Gonzalez PJ, Trincao J, Coelho C, Mukhopadhyay A, Cerqueira NM, Romao CC, Moura I, Moura JJ, Brondino CD, Romao MJ, J Biol Inorg Chem. 2008 Mar 8;. PMID:18327621
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (135 Kb) [Save to disk]
  • Biological Unit Coordinates (2jiq.pdb1.gz) 128 Kb
  • LPC: Ligand-Protein Contacts for 2JIQ
  • CSU: Contacts of Structural Units for 2JIQ
  • Likely Quarternary Molecular Structure file(s) for 2JIQ
  • Structure Factors (247 Kb)
  • Retrieve 2JIQ in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2JIQ from S2C, [Save to disk]
  • Re-refined 2jiq structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 2JIQ 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 2JIQ
  • 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 2JIQ, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2jiq_A] [2jiq]
  • SWISS-PROT database: [P81186]
  • Domain organization of [NAPA_DESDA] by SWISSPFAM
  • Domain found in 2JIQ: [Molybdop_Fe4S4 ] by SMART
    • Other resources with information on 2JIQ
  • Community annotation for 2JIQ at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
    • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

    • You may enter another PDB ID code
    Go [Back], to the [PDB Lite page], to the [OCA Search page] or to the [PDB Home page]
    OCA© by Jaime Prilusky, 1996-2014,2022
    Bioinformatics Unit
    Weizmann Institute of Science