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Electron transport PDB-id
1cfm
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Protein chains
251 a.a. *
Ligands
HEM ×3
Waters ×1001

* Residue conservation analysis
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PDB id: 1cfm
Name: Electron transport
Title: Cytochrome f from chlamydomonas reinhardtii

Structure:
Cytochrome f. Chain: a, b, c

Source:
Chlamydomonas reinhardtii. Organism_taxid: 3055. Strain: f283st

UniProt:
Chains A, B, C: P23577 (CYF_CHLRE)
Pfam  
Seq:
Struc:
Seq: 317 a.a.
Struc: 251 a.a.
Key:    PfamA domain
 Secondary structure  CATH domain

Resolution:
2.00Å

R-factor:
0.214

R-free:
0.271

Authors:
Y.I.Chi,L.S.Huang,Z.Zhang,J.G.Fernandez-Velasco,R.Malkin, E.A.Berry

Key ref:
Y.I.Chi et al. (2000). X-ray structure of a truncated form of cytochrome f from chlamydomonas reinhardtii.. Biochemistry, 39, 7689-7701. [PubMed id: 10869174] [DOI: 10.1021/bi000090k]

Date:
18-Sep-98

Release date:
27-Apr-99
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    Key reference    
 
 
DOI no: 10.1021/bi000090k Biochemistry 39:7689-7701 (2000)
PubMed id: 10869174  
 
 
X-ray structure of a truncated form of cytochrome f from chlamydomonas reinhardtii.
Y.I.Chi, L.S.Huang, Z.Zhang, J.G.Fernández-Velasco, E.A.Berry.
 
  ABSTRACT  
 
A truncated form of cytochrome f from Chlamydomonas reinhardtii (an important eukaryotic model organism for photosynthetic electron transfer studies) has been crystallized (space group P2(1)2(1)2(1); three molecules/asymmetric unit) and its structure determined to 2.0 A resolution by molecular replacement using the coordinates of a truncated turnip cytochrome f as a model. The structure displays the same folding and detailed features as turnip cytochrome f, including (a) an unusual heme Fe ligation by the alpha-amino group of tyrosine 1, (b) a cluster of lysine residues (proposed docking site of plastocyanin), and (c) the presence of a chain of seven water molecules bound to conserved residues and extending between the heme pocket and K58 and K66 at the lysine cluster. For this array of waters, we propose a structural role. Two cytochrome f molecules are related by a noncrystallographic symmetry operator which is a distorted proper 2-fold rotation. This may represent the dimeric relation of the monomers in situ; however, the heme orientation suggested by this model is not consistent with previous EPR measurements on oriented membranes.
 

Literature references that cite this PDB file's key reference

  PubMed id Reference
19773387 A.Zuppini, C.Gerotto, R.Moscatiello, E.Bergantino, and B.Baldan (2009).
Chlorella saccharophila cytochrome f and its involvement in the heat shock response.
  J Exp Bot, 60, 4189-4200.  
17972160 E.L.Gross (2007).
A Brownian Dynamics computational study of the interaction of spinach plastocyanin with turnip cytochrome f: the importance of plastocyanin conformational changes.
  Photosynth Res, 94, 411-422.  
17287214 K.H.Sharp, S.Schneider, A.Cockayne, and M.Paoli (2007).
Crystal structure of the heme-IsdC complex, the central conduit of the Isd iron/heme uptake system in Staphylococcus aureus.
  J Biol Chem, 282, 10625-10631.
PDB code: 2o6p
16452476 A.Borgia, D.Bonivento, C.Travaglini-Allocatelli, A.Di Matteo, and M.Brunori (2006).
Unveiling a hidden folding intermediate in c-type cytochromes by protein engineering.
  J Biol Chem, 281, 9331-9336.
PDB code: 2exv
16239335 E.J.Haddadian, and E.L.Gross (2006).
A Brownian dynamics study of the effects of cytochrome f structure and deletion of its small domain in interactions with cytochrome c6 and plastocyanin in Chlamydomonas reinhardtii.
  Biophys J, 90, 566-577.  
16844750 E.J.Haddadian, and E.L.Gross (2006).
A Brownian dynamics study of the interactions of the luminal domains of the cytochrome b6f complex with plastocyanin and cytochrome c6: the effects of the Rieske FeS protein on the interactions.
  Biophys J, 91, 2589-2600.  
16214856 E.L.Gross, and I.Rosenberg (2006).
A Brownian dynamics study of the interaction of Phormidium cytochrome f with various cyanobacterial plastocyanins.
  Biophys J, 90, 366-380.  
16756511 W.A.Cramer, H.Zhang, J.Yan, G.Kurisu, and J.L.Smith (2006).
Transmembrane traffic in the cytochrome b6f complex.
  Annu Rev Biochem, 75, 769-790.  
15626695 E.J.Haddadian, and E.L.Gross (2005).
Brownian dynamics study of cytochrome f interactions with cytochrome c6 and plastocyanin in Chlamydomonas reinhardtii plastocyanin, and cytochrome c6 mutants.
  Biophys J, 88, 2323-2339.  
15691836 F.Musiani, A.Dikiy, A.Y.Semenov, and S.Ciurli (2005).
Structure of the intermolecular complex between plastocyanin and cytochrome f from spinach.
  J Biol Chem, 280, 18833-18841.
PDB code: 1ylb
15345580 E.L.Gross (2004).
A Brownian dynamics study of the interaction of Phormidium laminosum plastocyanin with Phormidium laminosum cytochrome f.
  Biophys J, 87, 2043-2059.  
12944318 E.L.Gross, and D.C.Pearson (2003).
Brownian dynamics simulations of the interaction of Chlamydomonas cytochrome f with plastocyanin and cytochrome c6.
  Biophys J, 85, 2055-2068.  
11714931 A.Bergkvist, M.Ejdebäck, M.Ubbink, and B.G.Karlsson (2001).
Surface interactions in the complex between cytochrome f and the E43Q/D44N and E59K/E60Q plastocyanin double mutants as determined by (1)H-NMR chemical shift analysis.
  Protein Sci, 10, 2623-2626.  
11337403 E.H.Harris (2001).
CHLAMYDOMONAS AS A MODEL ORGANISM.
  Annu Rev Plant Physiol Plant Mol Biol, 52, 363-406.  
10924110 G.Sainz, C.J.Carrell, M.V.Ponamarev, G.M.Soriano, W.A.Cramer, and J.L.Smith (2000).
Interruption of the internal water chain of cytochrome f impairs photosynthetic function.
  Biochemistry, 39, 9164-9173.
PDB codes: 1e2v 1e2w 1e2z 1ewh
The most recent references are shown first. Citation data come partly from CiteXplore and partly from an automated harvesting procedure. Note that this is likely to be only a partial list as not all journals are covered by either method. However, we are continually building up the citation data so more and more references will be included with time. Where a reference describes a PDB structure, the PDB code is shown on the right.