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(-) Description

Title :  NMR-VALIDATED STRUCTURAL MODEL FOR OXIDIZED R.PALUSTRIS CYTOCHROME C556
 
Authors :  I. Bertini, J. Faraone-Mennella, H. B. Gray, C. Luchinat, G. Parigi, J. R. Winkler
Date :  30 Dec 03  (Deposition) - 20 Jan 04  (Release) - 24 Feb 09  (Revision)
Method :  SOLUTION NMR
Resolution :  NOT APPLICABLE
Chains :  NMR Structure  :  A
Keywords :  This Is A Model Obtained By Nmr-Restrained Modeling And Minimization. , Electron Transport (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  I. Bertini, J. Faraone-Mennella, H. B. Gray, C. Luchinat, G. Parigi, J. R. Winkler
Nmr-Validated Structural Model For Oxidized Rhodopseudomonas Palustris Cytochrome C(556).
J. Biol. Inorg. Chem. V. 9 224 2004
PubMed-ID: 14735333  |  Reference-DOI: 10.1007/S00775-003-0511-2
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - CYTOCHROME C-556
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21
    Expression System Plasmid: PEE-PET, PEC86
    Expression System Strain: BL21
    Expression System Taxid: 511693
    Expression System Vector Type: PLASMID
    Organism Scientific: RHODOPSEUDOMONAS PALUSTRIS
    Organism Taxid: 1076
    Synonym: C556

 Structural Features

(-) Chains, Units

  
NMR Structure : 

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 1)

NMR Structure (1, 1)
No.NameCountTypeFull Name
1HEM1Ligand/IonPROTOPORPHYRIN IX CONTAINING FE

(-) Sites  (1, 1)

NMR Structure (1, 1)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREMET A:12 , PHE A:44 , SER A:70 , SER A:71 , ILE A:86 , PHE A:89 , ALA A:116 , CYS A:117 , CYS A:120 , HIS A:121 , PHE A:124 , ARG A:125BINDING SITE FOR RESIDUE HEM A 130

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1S05)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1S05)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1S05)

(-) PROSITE Motifs  (1, 1)

NMR Structure (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1CYTCIIPS51009 Cytochrome c class II profile.C556_RHOPA23-146  1A:3-126

(-) Exons   (0, 0)

(no "Exon" information available for 1S05)

(-) Sequences/Alignments

NMR Structure
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
  Number of residues per labelling interval =   
  UniProt sequence: complete  aligned part    
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SAPs(SNPs) PROSITE motifs Exons
(details for a mapped element are shown in a popup box when the mouse pointer rests over it) 
Chain A from PDB  Type:PROTEIN  Length:129
 aligned with C556_RHOPA | P00150 from UniProtKB/Swiss-Prot  Length:149

    Alignment length:129
                                    30        40        50        60        70        80        90       100       110       120       130       140         
           C556_RHOPA    21 QQDLVDKTQKLMKDNGRNMMVLGAIAKGEKPYDQAAVDAALKQFDETAKDLPKLFPDSVKGLKPFDSKYSSSPKIWAERAKFDTEIADFAKAVDGAKGKIKDVDTLKAAMQPIGKACGNCHENFRDKEG 149
               SCOP domains d1s05a_ A: Cytochrome c-556                                                                                                       SCOP domains
               CATH domains 1s05A00 A:1-129  [code=1.20.120.10, no name defined]                                                                              CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhh......................hhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhh...hhhhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --CYTCII  PDB: A:3-126 UniProt: 23-146                                                                                        --- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1s05 A   1 QQDLVDKTQKLMKDNGRNMMVLGAIAKGEKPYDQAAVDAALKQFDETAKDLPKLFPDSVKGLKPFDSKYSSSPKIWAERAKFDTEIADFAKAVDGAKGKIKDVDTLKAAMQPIGKACGNCHENFRDKEG 129
                                    10        20        30        40        50        60        70        80        90       100       110       120
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  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (1, 1)

NMR Structure
(-)
Class: All alpha proteins (14657)

(-) CATH Domains  (1, 1)

NMR Structure
(-)
Class: Mainly Alpha (13335)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1S05)

(-) Gene Ontology  (7, 7)

NMR Structure(hide GO term definitions)
Chain A   (C556_RHOPA | P00150)
molecular function
    GO:0009055    electron carrier activity    Any molecular entity that serves as an electron acceptor and electron donor in an electron transport chain. An electron transport chain is a process in which a series of electron carriers operate together to transfer electrons from donors to any of several different terminal electron acceptors to generate a transmembrane electrochemical gradient.
    GO:0020037    heme binding    Interacting selectively and non-covalently with heme, any compound of iron complexed in a porphyrin (tetrapyrrole) ring.
    GO:0005506    iron ion binding    Interacting selectively and non-covalently with iron (Fe) ions.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
biological process
    GO:0022900    electron transport chain    A process in which a series of electron carriers operate together to transfer electrons from donors to any of several different terminal electron acceptors to generate a transmembrane electrochemical gradient.
    GO:0055114    oxidation-reduction process    A metabolic process that results in the removal or addition of one or more electrons to or from a substance, with or without the concomitant removal or addition of a proton or protons.
cellular component
    GO:0042597    periplasmic space    The region between the inner (cytoplasmic) and outer membrane (Gram-negative Bacteria) or cytoplasmic membrane and cell wall (Fungi and Gram-positive Bacteria).

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