3BNF Oxidoreductase date Dec 14, 2007
title W. Succinogenes Nrfa Sulfite Complex
authors P.Lukat, O.Einsle
compound source
Molecule: Cytochrome C-552
Chain: A
Synonym: Ammonia-Forming Cytochrome C Nitrite Reductase, Cytochrome C Nitrite Reductase;
Organism_scientific: Wolinella Succinogenes
Organism_taxid: 844
symmetry Space Group: I 41 2 2
R_factor 0.233 R_Free 0.280
length a length b length c angle alpha angle beta angle gamma
119.500 119.500 186.674 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.70 Å
ligand ACT, CA, HEM, SO3, Y1 enzyme Oxidoreductase E.C. BRENDA

Primary referenceBinding and Reduction of Sulfite by Cytochrome c Nitrite Reductase(,)., Lukat P, Rudolf M, Stach P, Messerschmidt A, Kroneck PM, Simon J, Einsle O, Biochemistry. 2008 Feb 19;47(7):2080-2086. Epub 2008 Jan 18. PMID:18201106
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (104 Kb) [Save to disk]
  • Biological Unit Coordinates (3bnf.pdb1.gz) 189 Kb
  • LPC: Ligand-Protein Contacts for 3BNF
  • CSU: Contacts of Structural Units for 3BNF
  • Likely Quarternary Molecular Structure file(s) for 3BNF
  • Structure Factors (1499 Kb)
  • Retrieve 3BNF in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3BNF from S2C, [Save to disk]
  • Re-refined 3bnf structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3BNF 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 3BNF
  • Cartoon representation from PDB Cartoon
  • 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
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 3BNF, from MSDmotif at EBI
  • Fold representative 3bnf from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3bnf_A] [3bnf]
  • SWISS-PROT database: [Q9S1E5]
  • Domain organization of [NRFA_WOLSU] by SWISSPFAM
  • Other resources with information on 3BNF
  • Community annotation for 3BNF 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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