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(-) Description

Title :  REFINED CRYSTAL STRUCTURE OF CYTOCHROME C2 FROM RHODOPSEUDOMONAS PALUSTRIS AT 1.4 ANGSTROM RESOLUTION
 
Authors :  G. Garau, S. Geremia
Date :  21 Dec 00  (Deposition) - 02 Jan 01  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.40
Chains :  Asym./Biol. Unit :  A
Keywords :  Electron Transport, Electron Carrier, Heme Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  G. Garau, S. Geremia, L. Randaccio, L. Vaccari, M. S. Viezzoli
Crystallization And Preliminary X-Ray Analysis Of Two Ph-Dependent Forms Of Cytochrome C2 From Rhodopseudomonas Palustris
Acta Crystallogr. , Sect. D V. 56 1699 2000
PubMed-ID: 11092951  |  Reference-DOI: 10.1107/S0907444900013573
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - CYTOCHROME C2
    Chains: A
    Organism Scientific: RHODOPSEUDOMONAS PALUSTRIS
    Organism Taxid: 1076
    Strain: 42 OL

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 5)

Asymmetric/Biological Unit (4, 5)
No.NameCountTypeFull Name
1HEC1Ligand/IonHEME C
2NH31Ligand/IonAMMONIA
3PCA1Mod. Amino AcidPYROGLUTAMIC ACID
4SO42Ligand/IonSULFATE ION

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREALA A:60 , GLN A:102 , HOH A:2237 , HOH A:2238 , HOH A:2239 , HOH A:2241 , HOH A:2242 , HOH A:2243 , HOH A:2244BINDING SITE FOR RESIDUE SO4 A 300
2AC2SOFTWAREASN A:71 , THR A:94 , LYS A:96 , HOH A:2148 , HOH A:2151 , HOH A:2246 , HOH A:2248BINDING SITE FOR RESIDUE SO4 A 301
3AC3SOFTWARECYS A:13 , CYS A:16 , HIS A:17 , VAL A:24 , GLY A:25 , PRO A:26 , ALA A:36 , GLY A:37 , TYR A:44 , SER A:45 , ASN A:48 , TRP A:58 , TYR A:66 , LEU A:67 , THR A:91 , LYS A:92 , MET A:93 , PHE A:95 , NH3 A:302 , HOH A:2096 , HOH A:2236BINDING SITE FOR RESIDUE HEC A 115
4AC4SOFTWARETYR A:66 , HEC A:115 , HOH A:2249BINDING SITE FOR RESIDUE NH3 A 302

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1HH7)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1HH7)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1HH7)

(-) PROSITE Motifs  (1, 1)

Asymmetric/Biological Unit (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1CYTCPS51007 Cytochrome c family profile.CYC22_RHOPA26-139  1A:2-114

(-) Exons   (0, 0)

(no "Exon" information available for 1HH7)

(-) Sequences/Alignments

Asymmetric/Biological Unit
   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:114
 aligned with CYC22_RHOPA | P00091 from UniProtKB/Swiss-Prot  Length:139

    Alignment length:114
                                    35        45        55        65        75        85        95       105       115       125       135    
          CYC22_RHOPA    26 QDAKAGEAVFKQCMTCHRADKNMVGPALGGVVGRKAGTAAGFTYSPLNHNSGEAGLVWTADNIINYLNDPNAFLKKFLTDKGKADQAVGVTKMTFKLANEQQRKDVVAYLATLK 139
               SCOP domains d1hh7a_ A: Cytochrome c2                                                                                           SCOP domains
               CATH domains -1hh7A00 A:2-114 Cytochrome c                                                                                      CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .hhhhhhhhhhhhh..............................hhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhh.hhhhh...........hhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE CYTC  PDB: A:2-114 UniProt: 26-139                                                                                 PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------ Transcript
                 1hh7 A   1 xDAKAGEAVFKQCMTCHRADKNMVGPALAGVVGRKAGTAAGFTYSPLNHNSGEAGLVWTADNIVPYLADPNAFLKKFLTEKGKADQAVGVTKMTFKLANEQQRKDVVAYLATLK 114
                            |       10        20        30        40        50        60        70        80        90       100       110    
                            |                                                                                                                 
                            1-PCA
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
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  x → Chemical Group (purple background, 'x', labelled with number + name, e.g. ACE or NH2)
  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Class: All alpha proteins (14657)

(-) CATH Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Class: Mainly Alpha (13335)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1HH7)

(-) Gene Ontology  (5, 5)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (CYC22_RHOPA | P00091)
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.
    GO:0015979    photosynthesis    The synthesis by organisms of organic chemical compounds, especially carbohydrates, from carbon dioxide (CO2) using energy obtained from light rather than from the oxidation of chemical compounds.

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 Related Entries

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

UniProtKB/Swiss-Prot
        CYC22_RHOPA | P00091: 1fj0 1i8o 1i8p

(-) Related Entries Specified in the PDB File

1co6 CRYSTAL STRUCTURE OF FERROCYTOCHROME C2 FROM RHODOPSEUDOMONAS VIRIDIS
1fj0 1FJ0 IS THE SAME CYTOCHROME C2 IN A DIFFERENT CRYSTAL FORM, MONOCLINIC AT PH4.4.
1hro MOLECULAR STRUCTURE OF A HIGH POTENTIAL CYTOCHROME C2 ISOLATED FROM RHODOPILA GLOBIFORMIS
5cyt CYTOCHROME C (REDUCED)