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(-) Description

Title :  OXIDIZED STRUCTURE OF CYTOCHROME C3 FROM DESULFOVIBRIO DESULFURICANS ATCC 27774 AT PH 7.6
 
Authors :  I. Bento, P. M. Matias, A. M. Baptista, P. N. Da Costa, W. M. A. M. Van Dongen, L. M. Saraiva, T. R. Schneider, C. M. Soares, M. A. Carrondo
Date :  29 Sep 03  (Deposition) - 30 Sep 04  (Release) - 28 Dec 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.40
Chains :  Asym./Biol. Unit :  A
Keywords :  Electron Transport, Tetraheme Cytochrome C (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  I. Bento, P. M. Matias, A. M. Baptista, P. N. Da Costa, W. M. A. M. Van Dongen, L. M. Saraiva, T. R. Schneider, C. M. Soares, M. A. Carrondo
Molecular Basis For Redox-Bohr And Cooperative Effects In Cytochrome C3 From Desulfovibrio Desulfuricans Atcc 27774: Crystallographic And Modeling Studies Of Oxidized And Reduced High-Resolution Structures At Ph 7. 6
Proteins V. 54 135 2004
PubMed-ID: 14705030  |  Reference-DOI: 10.1002/PROT.10431
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - CYTOCHROME C3
    Atcc27774
    ChainsA
    Organism ScientificDESULFOVIBRIO DESULFURICANS
    Organism Taxid876
    SynonymCYTC3

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 4)

Asymmetric/Biological Unit (1, 4)
No.NameCountTypeFull Name
1HEC4Ligand/IonHEME C

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREPRO A:2 , ALA A:3 , PRO A:5 , GLU A:10 , PHE A:20 , HIS A:22 , HIS A:25 , VAL A:28 , GLU A:29 , CYS A:30 , CYS A:33 , HIS A:34 , TYR A:43 , LYS A:45 , CYS A:46 , HEC A:1110 , HOH A:2080 , HOH A:2141 , HOH A:2142BINDING SITE FOR RESIDUE HEC A1108
2AC2SOFTWARECYS A:33 , HIS A:35 , ALA A:44 , LYS A:45 , CYS A:46 , CYS A:51 , HIS A:52 , GLU A:61 , LEU A:74 , LYS A:75 , HIS A:76BINDING SITE FOR RESIDUE HEC A1109
3AC3SOFTWARELYS A:7 , PHE A:20 , HIS A:25 , CYS A:79 , CYS A:82 , HIS A:83 , GLU A:89 , LYS A:90 , LEU A:93 , LEU A:97 , LYS A:104 , HEC A:1108 , HOH A:2134 , HOH A:2143 , HOH A:2145 , HOH A:2146BINDING SITE FOR RESIDUE HEC A1110
4AC4SOFTWAREVAL A:11 , GLY A:13 , SER A:14 , GLN A:15 , LYS A:16 , VAL A:18 , ASP A:38 , GLY A:39 , LEU A:55 , TYR A:65 , VAL A:68 , HIS A:69 , HIS A:83 , LEU A:97 , THR A:98 , GLY A:99 , CYS A:100 , CYS A:105 , HIS A:106 , HOH A:2147BINDING SITE FOR RESIDUE HEC A1111

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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(-) PROSITE Motifs  (0, 0)

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(-) Exons   (0, 0)

(no "Exon" information available for 1UPD)

(-) 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    
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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:107
 aligned with Q9L915_DESDE | Q9L915 from UniProtKB/TrEMBL  Length:128

    Alignment length:107
                                    31        41        51        61        71        81        91       101       111       121       
         Q9L915_DESDE    22 APAVPDKPVEVKGSQKTVMFPHAPHEKVECVTCHHLVDGKESYAKCGSSGCHDDLTAKKGEKSLYYVVHAKGELKHTSCLACHSKVVAEKPELKKDLTGCAKSKCHP 128
               SCOP domains d1upda_ A: Cytochrome c3                                                                                    SCOP domains
               CATH domains 1updA00 A:1-107 Cytochrome C3                                                                               CATH domains
               Pfam domains Cytochrom_CIII-1updA01 A:1-106                                                                            - Pfam domains
         Sec.struct. author ........eeee....eeee.hhhhh..hhhhhh............................hhhhhhhh.......hhhhhhhhhhhhh..hhhhhhh........ Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------- Transcript
                 1upd A   1 APAVPDKPVEVKGSQKTVMFPHAPHEKVECVTCHHLVDGKESYAKCGSSGCHDDLTAKKGEKSLYYVVHARGELKHTSCLACHSKVVAEKPELKKDLTGCAKSKCHP 107
                                    10        20        30        40        50        60        70        80        90       100       

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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

(-) CATH Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Class: Alpha Beta (26913)

(-) Pfam Domains  (1, 1)

Asymmetric/Biological Unit

(-) Gene Ontology  (3, 3)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (Q9L915_DESDE | Q9L915)
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.

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 Related Entries

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

UniProtKB/Swiss-Prot
        Q9L915_DESDE | Q9L9152kmy 2ksu
UniProtKB/TrEMBL
        Q9L915_DESDE | Q9L9151gm4 1gmb 1i77 1up9 3cyr

(-) Related Entries Specified in the PDB File

1gm4 OXIDISED STRUCTURE OF CYTOCHROME C3 FROM DESULFOVIBRIO DESULFURICANS ATCC 27774 AT PH 7.6
1gmb REDUCED STRUCTURE OF CYTOCHROME C3 FROM DESULFOVIBRIO DESULFURICANS ATCC 27774 AT PH 7.6
1i77 CYTOCHROME C3 FROM DESULFOVIBRIO DESULFURICANS ESSEX 6
1up9 REDUCED STRUCTURE OF CYTOCHROME C3 FROM DESULFOVIBRIO DESULFURICANS ATCC 27774 AT PH 7.6
3cyr CYTOCHROME C3 FROM DESULFOVIBRIO DESULFURICANS ATCC 27774P