1ZRT Oxidoreductase Metal Transport date May 22, 2005
title Rhodobacter Capsulatus Cytochrome Bc1 Complex With Stigmatellin Bound
authors E.A.Berry, L.S.Huang, L.K.Saechao, N.G.Pon, M.Valkova-Valchanov, F.Daldal
compound source
Molecule: Cytochrome B
Chain: C, P
Ec: 1.10.2.2
Engineered: Yes
Organism_scientific: Rhodobacter Capsulatus
Organism_taxid: 1061
Expression_system: Rhodobacter Capsulatus
Expression_system_taxid: 1061
Expression_system_strain: Pmts1mt-Rbc1
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pmts1
Other_details: The Strain Pmts1mt-Rbc1 Corresponds To A Deletion Strain Mt-Rbc1 Complemented In Trans With The Plasmid Pmts1 Bearing A Wild-Type Copy Of The Petabc Operon Encoding The Bc1 Complex;

Molecule: Cytochrome C1
Chain: D, Q
Ec: 1.10.2.2
Engineered: Yes

Organism_scientific: Rhodobacter Capsulatus
Organism_taxid: 1061
Expression_system: Rhodobacter Capsulatus
Expression_system_taxid: 1061
Expression_system_strain: Pmts1mt-Rbc1
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pmts1
Other_details: The Strain Pmts1mt-Rbc1 Corresponds To A Deletion Strain Mt-Rbc1 Complemented In Trans With The Plasmid Pmts1 Bearing A Wild-Type Copy Of The Petabc Operon Encoding The Bc1 Complex;

Molecule: Ubiquinol-Cytochrome C Reductase Iron-Sulfur Subunit;
Chain: E, R
Synonym: Rieske Iron-Sulfur Protein, Risp
Ec: 1.10.2.2
Engineered: Yes

Organism_scientific: Rhodobacter Capsulatus
Organism_taxid: 1061
Expression_system: Rhodobacter Capsulatus
Expression_system_taxid: 1061
Expression_system_strain: Pmts1mt-Rbc1
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pmts1
Other_details: The Strain Pmts1mt-Rbc1 Corresponds To A Deletion Strain Mt-Rbc1 Complemented In Trans With The Plasmid Pmts1 Bearing A Wild-Type Copy Of The Petabc Operon Encoding The Bc1 Complex
symmetry Space Group: P 1 21 1
R_factor 0.300 R_Free 0.358
crystal
cell
length a length b length c angle alpha angle beta angle gamma
95.633 154.360 103.057 90.00 113.57 90.00
method X-Ray Diffractionresolution 3.50 Å
ligand FES, HEC, HEM, SMA enzyme Oxidoreductase E.C.1.10.2.2 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
C, P


Q, D
  • electron transfer activity


  • R, E
  • ubiquinol-cytochrome-c reduc...


  • Primary referenceX-Ray Structure of Rhodobacter Capsulatus Cytochrome bc (1): Comparison with its Mitochondrial and Chloroplast Counterparts., Berry EA, Huang LS, Saechao LK, Pon NG, Valkova-Valchanova M, Daldal F, Photosynth Res. 2004;81(3):251-75. PMID:16034531
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (289 Kb) [Save to disk]
  • Biological Unit Coordinates (1zrt.pdb1.gz) 274 Kb
  • LPC: Ligand-Protein Contacts for 1ZRT
  • CSU: Contacts of Structural Units for 1ZRT
  • Likely Quarternary Molecular Structure file(s) for 1ZRT
  • Structure Factors (289 Kb)
  • Retrieve 1ZRT in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1ZRT from S2C, [Save to disk]
  • Re-refined 1zrt structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1ZRT in 3D
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  • 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 1ZRT
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  • 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 1ZRT, from MSDmotif at EBI
  • Fold representative 1zrt from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1zrt_R] [1zrt_Q] [1zrt_P] [1zrt_C] [1zrt] [1zrt_E] [1zrt_D]
  • SWISS-PROT database: [P08501] [P08502] [P08500]
  • Domain organization of [CY1_RHOCA] [CYB_RHOCA] [UCRI_RHOCA] by SWISSPFAM
  • Other resources with information on 1ZRT
  • Community annotation for 1ZRT at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
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