1Q16 Oxidoreductase date Jul 18, 2003
title Crystal Structure Of Nitrate Reductase A, Narghi, From Escherichia Coli
authors M.G.Bertero, N.C.J.Strynadka
compound source
Molecule: Respiratory Nitrate Reductase 1 Alpha Chain
Chain: A
Ec: 1.7.99.4
Engineered: Yes
Organism_scientific: Escherichia Coli
Organism_taxid: 562
Gene: Narg
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pva700

Molecule: Respiratory Nitrate Reductase 1 Beta Chain
Chain: B
Ec: 1.7.99.4
Engineered: Yes

Organism_scientific: Escherichia Coli
Organism_taxid: 562
Gene: Narh
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pva700

Molecule: Respiratory Nitrate Reductase 1 Gamma Chain
Chain: C
Synonym: Cytochrome B-Nr
Ec: 1.7.99.4
Engineered: Yes

Organism_scientific: Escherichia Coli
Organism_taxid: 562
Gene: Nari
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pva700
symmetry Space Group: C 2 2 21
R_factor 0.202 R_Free 0.230
crystal
cell
length a length b length c angle alpha angle beta angle gamma
154.175 241.376 139.494 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.90 Å
ligand 3PH, 6MO, AGA, F3S, FME, HEM, MD1, SF4 enzyme Oxidoreductase E.C.1.7.99.4 BRENDA
related structures by homologous chain: 1Y4Z, 1Y5I
Gene
Ontology
ChainFunctionProcessComponent
A
  • electron transfer activity


  • B
  • electron transfer activity


  • C


    Primary referenceInsights into the respiratory electron transfer pathway from the structure of nitrate reductase A., Bertero MG, Rothery RA, Palak M, Hou C, Lim D, Blasco F, Weiner JH, Strynadka NC, Nat Struct Biol 2003 Sep;10(9):681-7. Epub 2003 Aug 10. PMID:12910261
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (356 Kb) [Save to disk]
  • Biological Unit Coordinates (1q16.pdb1.gz) 347 Kb
  • Biological Unit Coordinates (1q16.pdb2.gz) 684 Kb
  • Biological Unit Coordinates (1q16.pdb3.gz) 687 Kb
  • Biological Unit Coordinates (1q16.pdb4.gz) 685 Kb
  • LPC: Ligand-Protein Contacts for 1Q16
  • CSU: Contacts of Structural Units for 1Q16
  • Likely Quarternary Molecular Structure file(s) for 1Q16
  • Structure Factors (1822 Kb)
  • Retrieve 1Q16 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1Q16 from S2C, [Save to disk]
  • Re-refined 1q16 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1Q16 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 1Q16
  • 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 1Q16, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1q16a2, region A:1-1074 [Jmol] [rasmolscript] [script source]
        - Domain d1q16a1, region A:1075-1244 [Jmol] [rasmolscript] [script source]
        - Domain d1q16b_, region B [Jmol] [rasmolscript] [script source]
        - Domain d1q16c_, region C [Jmol] [rasmolscript] [script source]
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1q16] [1q16_B] [1q16_A] [1q16_C]
  • SWISS-PROT database: [P09152] [P11349] [P11350]
  • Belongs to the prokaryotic molybdopterin-containing oxidoreductase (pmo) family according to TCDB.
  • Domain organization of [NARG_ECOLI] [NARH_ECOLI] [NARI_ECOLI] by SWISSPFAM
  • Domain found in 1Q16: [Molybdop_Fe4S4 ] by SMART
  • Other resources with information on 1Q16
  • Community annotation for 1Q16 at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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