1Q90 Photosynthesis date Aug 22, 2003
title Structure Of The Cytochrome B6f (Plastohydroquinone : Plasto Oxidoreductase) From Chlamydomonas Reinhardtii
authors D.Stroebel, Y.Choquet, J.L.Popot, D.Picot
compound source
Molecule: Apocytochrome F
Chain: A
Fragment: Residues 1-292
Engineered: Yes
Mutation: Yes
Organism_scientific: Chlamydomonas Reinhardtii
Organism_taxid: 3055
Strain: H6f5
Atcc: Chloroplast Gene
Collection: Chloroplast Gene
Organelle: Chloroplast
Gene: Peta
Expression_system: Chlamydomonas Reinhardtii
Expression_system_taxid: 3055
Expression_system_strain: H6f5

Molecule: Cytochrome B6
Chain: B
Fragment: Residues 4-215
Engineered: Yes

Organism_scientific: Chlamydomonas Reinhardtii
Organism_taxid: 3055
Strain: H6f5
Atcc: Chloroplast Gene
Collection: Chloroplast Gene
Organelle: Chloroplast
Gene: Petb
Expression_system: Chlamydomonas Reinhardtii
Expression_system_taxid: 3055
Expression_system_strain: H6f5

Molecule: Cytochrome B6-F Complex Iron-Sulfur Subunit
Chain: C
Fragment: Soluble Domain
Synonym: Rieske Iron-Sulfur Protein, Risp
Ec: 1.10.99.1
Engineered: Yes

Organism_scientific: Chlamydomonas Reinhardtii
Organism_taxid: 3055
Strain: H6f5
Atcc: Nuclear Gene
Collection: Nuclear Gene
Organelle: Chloroplast
Gene: Petc
Expression_system: Chlamydomonas Reinhardtii
Expression_system_taxid: 3055
Expression_system_strain: H6f5

Molecule: Cytochrome B6-F Complex Subunit 4
Chain: D
Fragment: Residues 4-159
Synonym: 17 Kda Polypeptide
Engineered: Yes

Organism_scientific: Chlamydomonas Reinhardtii
Organism_taxid: 3055
Strain: H6f5
Atcc: Chloroplast Gene
Collection: Chloroplast Gene
Organelle: Chloroplast
Gene: Petd
Expression_system: Chlamydomonas Reinhardtii
Expression_system_taxid: 3055
Expression_system_strain: H6f5

Molecule: Cytochrome B6-F Complex Iron-Sulfur Subunit
Chain: R
Fragment: Transmembrane Domain
Synonym: Rieske Iron-Sulfur Protein, Risp
Ec: 1.10.99.1
Engineered: Yes

Organism_scientific: Chlamydomonas Reinhardtii
Organism_taxid: 3055
Strain: H6f5
Atcc: Nuclear Gene
Collection: Nuclear Gene
Organelle: Chloroplast
Gene: Petc
Expression_system: Chlamydomonas Reinhardtii
Expression_system_taxid: 3055
Expression_system_strain: H6f5

Molecule: Cytochrome B6f Complex Subunit Petg
Chain: G
Fragment: Residues 1-30
Synonym: Cytochrome B6-F Complex Subunit V
Engineered: Yes

Organism_scientific: Chlamydomonas Reinhardtii
Organism_taxid: 3055
Strain: H6f5
Atcc: Chloroplast Gene
Collection: Chloroplast Gene
Organelle: Chloroplast
Gene: Petg
Expression_system: Chlamydomonas Reinhardtii
Expression_system_taxid: 3055
Expression_system_strain: H6f5

Molecule: Cytochrome B6f Complex Subunit Petl
Chain: L
Fragment: Residues 1-32
Synonym: Cytochrome B6-F Complex Subunit Vi
Engineered: Yes

Organism_scientific: Chlamydomonas Reinhardtii
Organism_taxid: 3055
Strain: H6f5
Atcc: Chloroplast Gene
Collection: Chloroplast Gene
Organelle: Chloroplast
Gene: Petl
Expression_system: Chlamydomonas Reinhardtii
Expression_system_taxid: 3055
Expression_system_strain: H6f5

Molecule: Cytochrome B6f Complex Subunit Petm
Chain: M
Fragment: Residues 62-95
Synonym: Cytochrome B6-F Complex Subunit 7
Engineered: Yes

Organism_scientific: Chlamydomonas Reinhardtii
Organism_taxid: 3055
Strain: H6f5
Atcc: Nuclear Gene
Collection: Nuclear Gene
Organelle: Chloroplast
Gene: Petm
Expression_system: Chlamydomonas Reinhardtii
Expression_system_taxid: 3055
Expression_system_strain: H6f5

Molecule: Cytochrome B6f Complex Subunit Petn
Chain: N
Fragment: Residues 68-98
Engineered: Yes

Organism_scientific: Chlamydomonas Reinhardtii
Organism_taxid: 3055
Strain: H6f5
Atcc: Nuclear Gene
Collection: Nuclear Gene
Organelle: Chloroplast
Gene: Petn
Expression_system: Chlamydomonas Reinhardtii
Expression_system_taxid: 3055
Expression_system_strain: H6f5
symmetry Space Group: I 2 2 2
R_factor 0.222 R_Free 0.261
crystal
cell
length a length b length c angle alpha angle beta angle gamma
102.454 171.205 351.009 90.00 90.00 90.00
method X-Ray Diffractionresolution 3.10 Å
ligand BCR, CLA, FES, HEC, LFA, LMG, SQD, TDS enzyme Oxidoreductase E.C.1.10.99.1 BRENDA
note 1Q90 is a representative structure
Gene
Ontology
ChainFunctionProcessComponent
A
  • electron transfer activity


  • B


    C


    D


    G
  • electron transporter, transf...


  • L


    M


    N


    R


    Primary referenceAn atypical haem in the cytochrome b(6)f complex., Stroebel D, Choquet Y, Popot JL, Picot D, Nature 2003 Nov 27;426(6965):413-8. PMID:14647374
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (170 Kb) [Save to disk]
  • Biological Unit Coordinates (1q90.pdb1.gz) 308 Kb
  • Biological Unit Coordinates (1q90.pdb2.gz) 612 Kb
  • LPC: Ligand-Protein Contacts for 1Q90
  • CSU: Contacts of Structural Units for 1Q90
  • Likely Quarternary Molecular Structure file(s) for 1Q90
  • Structure Factors (483 Kb)
  • Retrieve 1Q90 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1Q90 from S2C, [Save to disk]
  • Re-refined 1q90 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1Q90 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 1Q90
  • 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 1Q90, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1q90a1, region A:1-168,A:233-247 [Jmol] [rasmolscript] [script source]
        - Domain d1q90a2, region A:169-232 [Jmol] [rasmolscript] [script source]
        - Domain d1q90a3, region A:248-292 [Jmol] [rasmolscript] [script source]
        - Domain d1q90b_, region B [Jmol] [rasmolscript] [script source]
        - Domain d1q90c_, region C [Jmol] [rasmolscript] [script source]
        - Domain d1q90d_, region D [Jmol] [rasmolscript] [script source]
        - Domain d1q90g_, region G [Jmol] [rasmolscript] [script source]
        - Domain d1q90l_, region L [Jmol] [rasmolscript] [script source]
        - Domain d1q90m_, region M [Jmol] [rasmolscript] [script source]
        - Domain d1q90n_, region N [Jmol] [rasmolscript] [script source]
        - Domain d1q90r_, region R [Jmol] [rasmolscript] [script source]
  • Class (fold), Architecture (subfold), Topology, Homologous superfamily from CATH
  • Summaries and structural analyses of PDB data files from PDBSum
  • Identification of Protein Pockets & Cavities at CASTp
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1q90_R] [1q90_G] [1q90_D] [1q90_N] [1q90_C] [1q90_M] [1q90_A] [1q90_B] [1q90_L] [1q90]
  • SWISS-PROT database: [Q00471] [P23577] [P23230] [Q08362] [P50369] [Q42496] [P0C1D4] [P49728]
  • Domain organization of [CYB6_CHLRE] [CYF_CHLRE] [PETD_CHLRE] [PETG_CHLRE] [PETL_CHLRE] [PETM_CHLRE] [PETN_CHLRE] [UCRIA_CHLRE] by SWISSPFAM
  • Other resources with information on 1Q90
  • Community annotation for 1Q90 at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
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