5B6Q Electron Transport date Jun 01, 2016
title Crystal Structure Of Monomeric Cytochrome C5 From Shewanella
authors M.Masanari, S.Fujii, K.Kawahara, H.Oki, H.Tsujino, T.Maruno, Y.Kob T.Ohkubo, M.Nishiyama, Y.Harada, S.Wakai, Y.Sambongi
compound source
Molecule: Soluble Cytochrome Ca
Chain: A, B
Synonym: Cytochrome C5
Engineered: Yes
 Organism_scientific: Shewanella Violacea
Organism_taxid: 60217
Gene: Cytca
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Jcb387
symmetry Space Group: P 21 21 21
R_factor 0.214 R_Free 0.238
crystal
cell
length a length b length c angle alpha angle beta angle gamma
26.588 50.075 97.609 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.78 Å
ligand HEC, IMD enzyme
Gene
Ontology
ChainFunctionProcessComponent
A, B
  • electron transfer activity


    • Primary referenceComparative study on stabilization mechanism of monomeric cytochrome c5 from deep-sea piezophilic Shewanella violacea., Masanari M, Fujii S, Kawahara K, Oki H, Tsujino H, Maruno T, Kobayashi Y, Ohkubo T, Wakai S, Sambongi Y, Biosci Biotechnol Biochem. 2016 Dec;80(12):2365-2370. Epub 2016 Sep 20. PMID:27648635
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (33 Kb) [Save to disk]
  • Biological Unit Coordinates (5b6q.pdb1.gz) 15 Kb
  • Biological Unit Coordinates (5b6q.pdb2.gz) 15 Kb
  • LPC: Ligand-Protein Contacts for 5B6Q
  • CSU: Contacts of Structural Units for 5B6Q
  • Structure Factors (250 Kb)
  • Retrieve 5B6Q in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5B6Q from S2C, [Save to disk]
  • Re-refined 5b6q structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 5B6Q 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 5B6Q
  • 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
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5b6q] [5b6q_B] [5b6q_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 5B6Q
  • Community annotation for 5B6Q at PDBWiki (http://pdbwiki.org)

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