1MDV

KEY ROLE OF PHENYLALANINE 20 IN CYTOCHROME C3: STRUCTURE, STABILITY AND FUNCTION STUDIES


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.30 Å
  • R-Value Free: 0.296 
  • R-Value Work: 0.224 
  • R-Value Observed: 0.224 

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This is version 1.2 of the entry. See complete history


Literature

Key role of phenylalanine 20 in cytochrome c3: structure, stability, and function studies.

Dolla, A.Arnoux, P.Protasevich, I.Lobachov, V.Brugna, M.Giudici-Orticoni, M.T.Haser, R.Czjzek, M.Makarov, A.Bruschi, M.

(1999) Biochemistry 38: 33-41

  • DOI: 10.1021/bi981593h
  • Primary Citation of Related Structures:  
    1MDV

  • PubMed Abstract: 
  • Aromatic residues in c-type cytochromes might have an important function in the folding and/or electron transferring properties of the molecule. In the tetraheme cytochrome c3 (Mr 13 000) from Desulfovibrio vulgaris Hildenborough, Phe20, is located between heme 1 and heme 3 with its aromatic ring close and almost parallel to the ring plane of heme 1 ...

    Aromatic residues in c-type cytochromes might have an important function in the folding and/or electron transferring properties of the molecule. In the tetraheme cytochrome c3 (Mr 13 000) from Desulfovibrio vulgaris Hildenborough, Phe20, is located between heme 1 and heme 3 with its aromatic ring close and almost parallel to the ring plane of heme 1. We replaced this residue by a nonaromatic hydrophobe residue, leucine, and analyzed the effects in terms of functional, structural, and physicochemical properties. While the F20L replacement did not have any strong effects on the heme region stability, a decrease of the thermostability of the whole molecule was observed. In the same way, the four macroscopic redox potentials were affected by the mutation as well as the flexibility of the surface loop around heme 4. The F20L replacement itself and/or this structural modification might be responsible for the loss of the intermolecular cooperativity between F20L cytochrome c3 molecules.


    Related Citations: 
    • Structure Analysis of Cytochrome C3 from Desulfovibrio Vulgaris Hildenborough at 1.9 A Resolution
      Matias, P.M., Frazao, C., Morais, J., Coll, M., Carrondo, M.A.
      (1993) J Mol Biol 234: 680
    • Effects of Amino Acid Substitution on Three-Dimensional Structure: An X-Ray Analysis of Cytochrome C3 from Desulfovibrio Vulgaris Hildenborough at 2 A Resolution
      Morimoto, Y., Tani, T., Okumura, H., Higuchi, Y., Yasuoka, N.
      (1991) J Biochem 110: 532

    Organizational Affiliation

    Laboratoire de Bioénergétique et Ingénierie des protéines, UPR 9036 C.N.R.S., Marseille, France.



Macromolecules
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Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
CYTOCHROME C3A, B107Desulfovibrio vulgaris str. HildenboroughMutation(s): 0 
Gene Names: CYCDVU_3171
UniProt
Find proteins for P00131 (Desulfovibrio vulgaris (strain ATCC 29579 / DSM 644 / NCIMB 8303 / VKM B-1760 / Hildenborough))
Explore P00131 
Go to UniProtKB:  P00131
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP00131
Protein Feature View
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.30 Å
  • R-Value Free: 0.296 
  • R-Value Work: 0.224 
  • R-Value Observed: 0.224 
  • Space Group: P 4
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 97.22α = 90
b = 97.22β = 90
c = 36.03γ = 90
Software Package:
Software NamePurpose
X-PLORmodel building
X-PLORrefinement
DENZOdata reduction
SCALEPACKdata scaling
X-PLORphasing

Structure Validation

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Ligand Structure Quality Assessment 


Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 1999-05-04
    Type: Initial release
  • Version 1.1: 2008-03-24
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Derived calculations, Version format compliance