1Q90

Structure of the cytochrome b6f (plastohydroquinone : plastocyanin oxidoreductase) from Chlamydomonas reinhardtii

  • Classification: PHOTOSYNTHESIS
  • Deposited: 2003-08-22 Released: 2003-12-09
  • Deposition author(s): Stroebel, D.Choquet, Y.Popot, J.-L.Picot, D.
  • Organism: Chlamydomonas reinhardtii
  • Expression System: Chlamydomonas reinhardtii, Chlamydomonas reinhardtii, Chlamydomonas reinhardtii, Chlamydomonas reinhardtii, Chlamydomonas reinhardtii, Chlamydomonas reinhardtii, Chlamydomonas reinhardtii, Chlamydomonas reinhardtii, Chlamydomonas reinhardtii

Structural Biology Knowledgebase: 1Q90 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.1 Å
  • R-Value Free: 0.261
  • R-Value Work: 0.222

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 1Q90

Classification: PHOTOSYNTHESIS

Total Structure Weight: 113856.01

Macromolecule Entities
Molecule Chains Length Organism Details
Apocytochrome f A 292 Chlamydomonas reinhardtii Fragment: Residues 1-292
Gene Name(s): petA
Cytochrome b6 B 215 Chlamydomonas reinhardtii Fragment: Residues 4-215
Gene Name(s): petB
Cytochrome B6-F complex iron-sulfur subunit C 127 Chlamydomonas reinhardtii EC#: 1.10.9.1 IUBMB
Fragment: Soluble domain
Gene Name(s): petC
Cytochrome b6-f complex subunit 4 D 159 Chlamydomonas reinhardtii Fragment: Residues 4-159
Gene Name(s): petD
Cytochrome B6-F complex iron-sulfur subunit R 49 Chlamydomonas reinhardtii EC#: 1.10.9.1 IUBMB
Fragment: Transmembrane domain
Gene Name(s): petC
Cytochrome b6f complex subunit petG G 37 Chlamydomonas reinhardtii Fragment: Residues 1-30
Gene Name(s): petG
Cytochrome b6f complex subunit petL L 32 Chlamydomonas reinhardtii Fragment: Residues 1-32
Gene Name(s): petL
Cytochrome b6f complex subunit PETM M 39 Chlamydomonas reinhardtii Fragment: Residues 62-95
Gene Name(s): petM petX
Cytochrome b6f complex subunit PETN N 31 Chlamydomonas reinhardtii Fragment: Residues 68-98
Gene Name(s): PETN CHLREDRAFT_177155

Membrane Protein

Source: mpstruc | Group: ALPHA-HELICAL

Subgroup Name: Electron Transport Chain Complexes: Cytochrome b6f of Oxygenic Photosynthesis

Protein Name: Cytochrome b6f complex


Small Molecules
Ligands 8 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
CLA
Query on CLA

D CHLOROPHYLL A
C55 H72 Mg N4 O5
VIQFHHZSLDFWDU-AENOIHSZSA-M
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
SQD
Query on SQD

R 1,2-DI-O-ACYL-3-O-[6-DEOXY-6-SULFO-ALPHA- D-GLUCOPYRANOSYL]-SN-GLYCEROL
SULFOQUINOVOSYLDIACYLGLYCEROL (Synonym)
C41 H78 O12 S
RVUUQPKXGDTQPG-JUDHQOGESA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
LMG
Query on LMG

D, L 1,2-DISTEAROYL-MONOGALACTOSYL-DIGLYCERIDE
C45 H86 O10
DCLTVZLYPPIIID-CVELTQQQSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
HEM
Query on HEM

A, B PROTOPORPHYRIN IX CONTAINING FE
HEME (Synonym)
C34 H32 Fe N4 O4
KABFMIBPWCXCRK-RGGAHWMASA-L
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
BCR
Query on BCR

B BETA-CAROTENE
C40 H56
OENHQHLEOONYIE-JLTXGRSLSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
TDS
Query on TDS

D 8-HYDROXY-5,7-DIMETHOXY-3-METHYL-2-TRIDECYL- 4H-CHROMEN-4-ONE
TRIDECYL-STIGMATELLIN (Synonym)
C25 H38 O5
LSHATXKKRQGSEC-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
LFA
Query on LFA

B EICOSANE
LIPID FRAGMENT (Synonym)
C20 H42
CBFCDTFDPHXCNY-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
FES
Query on FES

C FE2/S2 (INORGANIC) CLUSTER
Fe2 S2
NIXDOXVAJZFRNF-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.1 Å
  • R-Value Free: 0.261
  • R-Value Work: 0.222
  • Space Group: I 2 2 2
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 102.45 α = 90.00
b = 171.21 β = 90.00
c = 351.01 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2003-08-22
  • Released Date: 2003-12-09
  • Deposition author(s): Stroebel, D., Choquet, Y., Popot, J.-L., Picot, D.

Revision History

  • 2012-07-25
    Type: Non-polymer description | Details: Change ligand CL1 to CLA
  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4
  • 2011-07-13
    Type: Biological assembly | Details: Added software calculated values