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(-) Description

Title :  SOLUTION STRUCTURE OF THE FUNCTIONAL DOMAIN OF PARACOCCUS DENITRIFICANS CYTOCHROME C552 IN THE REDUCED STATE
 
Authors :  B. Reincke, C. Perez, P. Pristovsek, C. Luecke, C. Ludwig, F. Loehr, V. V. Rogov, B. Ludwig, H. Rueterjans
Date :  02 Mar 01  (Deposition) - 17 Oct 01  (Release) - 24 Feb 09  (Revision)
Method :  SOLUTION NMR
Resolution :  NOT APPLICABLE
Chains :  NMR Structure  :  A  (20x)
Keywords :  Electron Transport, Cytochrome C552, Heme, Redox States, Isotope Enrichment {13C/15N}, Nmr Spectroscopy, Solution Structure (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  B. Reincke, C. Perez, P. Pristovsek, C. Lucke, C. Ludwig, F. Lohr, V. V. Rogov, B. Ludwig, H. Ruterjans
Solution Structure And Dynamics Of The Functional Domain Of Paracoccus Denitrificans Cytochrome C(552) In Both Redox States.
Biochemistry V. 40 12312 2001
PubMed-ID: 11591150  |  Reference-DOI: 10.1021/BI010615O
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - CYTOCHROME C552
    Cellular Location: PERIPLASM
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Cellular Location: PERIPLASM
    Expression System Plasmid: PET22B+
    Expression System Strain: BL21 (DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Fragment: SOLUBLE FUNCTIONAL DOMAIN
    Gene: CYCM
    Organism Scientific: PARACOCCUS DENITRIFICANS
    Organism Taxid: 266
    Other Details: COVALENT THIOETHER LINKAGES FROM HEME COFACTOR TO BOTH CYS14 AND CYS17
    Other Details - Source: HETEROLOGOUS EXPRESSION
    Strain: PD1235

 Structural Features

(-) Chains, Units

  
NMR Structure (20x): 

Summary Information (see also Sequences/Alignments below)

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

NMR Structure (1, 1)
No.NameCountTypeFull Name
1HEC1Ligand/IonHEME C

(-) Sites  (1, 1)

NMR Structure (1, 1)
No.NameEvidenceResiduesDescription
1AC1SOFTWARELYS A:13 , CYS A:14 , CYS A:17 , HIS A:18 , VAL A:26 , ARG A:36 , TYR A:46 , SER A:47 , MET A:50 , TRP A:57 , LEU A:62 , PHE A:65 , LEU A:66 , THR A:76 , LYS A:77 , MET A:78 , ALA A:79 , PHE A:80 , LEU A:92BINDING SITE FOR RESIDUE HEC A 101

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1I6D)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1I6D)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1I6D)

(-) PROSITE Motifs  (1, 1)

NMR Structure (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1CYTCPS51007 Cytochrome c family profile.CY552_PARDE78-176  1A:2-100

(-) Exons   (0, 0)

(no "Exon" information available for 1I6D)

(-) 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    
   Show mapping: SCOP domains CATH domains Pfam domains Secondary structure (by author)
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:100
 aligned with CY552_PARDE | P54820 from UniProtKB/Swiss-Prot  Length:176

    Alignment length:100
                                    86        96       106       116       126       136       146       156       166       176
          CY552_PARDE    77 SADPAAGEKVFGKCKACHKLDGNDGVGPHLNGVVGRTVAGVDGFNYSDPMKAHGGDWTPEALQEFLTNPKAVVKGTKMAFAGLPKIEDRANLIAYLEGQQ 176
               SCOP domains d1i6da_ A: Cytochrome c552                                                                           SCOP domains
               CATH domains 1i6dA00 A:1-100 Cytochrome c                                                                         CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhh..................................hhhhhh.....hhhhhhhhh.hhhh.............hhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -CYTC  PDB: A:2-100 UniProt: 78-176                                                                  PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------- Transcript
                 1i6d A   1 MADPAAGEKVFGKCKACHKLDGNDGVGPHLNGVVGRTVAGVDGFNYSDPMKAHGGDWTPEALQEFLTNPKAVVKGTKMAFAGLPKIEDRANLIAYLEGQQ 100
                                    10        20        30        40        50        60        70        80        90       100
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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 1I6D)

(-) Gene Ontology  (7, 7)

NMR Structure(hide GO term definitions)
Chain A   (CY552_PARDE | P54820)
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:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
biological process
    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:0016021    integral component of membrane    The component of a membrane consisting of the gene products and protein complexes having at least some part of their peptide sequence embedded in the hydrophobic region of the membrane.
    GO:0016020    membrane    A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.
    GO:0005886    plasma membrane    The membrane surrounding a cell that separates the cell from its external environment. It consists of a phospholipid bilayer and associated proteins.

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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

UniProtKB/Swiss-Prot
        CY552_PARDE | P54820: 1c7m 1i6e 1ql3 1ql4 1zyy 3m97

(-) Related Entries Specified in the PDB File

1c7m SOLUTION STRUCTURE OF THE FUNCTIONAL DOMAIN OF PARACOCCUS DENITRIFICANS CYTOCHROME C552 IN THE REDUCED STATE
1i6e SOLUTION STRUCTURE OF THE FUNCTIONAL DOMAIN OF PARACOCCUS DENITRIFICANS CYTOCHROME C552 IN THE OXIDIZED STATE
1ql3 X-RAY STRUCTURE OF THE SOLUBLE DOMAIN OF CYTOCHROME C552 FROM PARACOCCUS DENITRIFICANS IN THE REDUCED STATE
1ql4 X-RAY STRUCTURE OF THE SOLUBLE DOMAIN OF CYTOCHROME C552 FROM PARACOCCUS DENITRIFICANS IN THE OXIDIZED STATE