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(-) Description

Title :  CRYSTAL STRUCTURE OF FERREDOXIN COMPONENT OF CARBAZOLE 1,9A-DIOXYGENASE OF PSEUDOMONAS RESINOVORANS STRAIN CA10
 
Authors :  J. -W. Nam, H. Noguchi, Z. Fujiomoto, H. Mizuno, S. Fushinobu, N. Kobashi, K. Iwata, T. Yoshida, H. Habe, H. Yamane, T. Omori, H. Nojir
Date :  09 Mar 04  (Deposition) - 01 Mar 05  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.90
Chains :  Asym./Biol. Unit :  A
Keywords :  Rieske-Type Ferredoxin, Carbazole 1, 9A-Dioxygenase, Pseudomonas Resinovorans Strain Ca10, Angular Dioxygenase, Rieske Non-Heme Iron Oxygenase System, Carac, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. -W. Nam, H. Noguchi, Z. Fujiomoto, H. Mizuno, Y. Ashikawa, M. Abo, S. Fushinobu, N. Kobashi, T. Wakagi, K. Iwata, T. Yoshida, H. Habe, H. Yamane, T. Omori, H. Nojiri
Crystal Structure Of The Ferredoxin Component Of Carbazole 1, 9A-Dioxygenase Of Pseudomonas Resinovorans Strain Ca10, A Novel Rieske Non-Heme Iron Oxygenase System
Proteins V. 58 779 2005
PubMed-ID: 15645447  |  Reference-DOI: 10.1002/PROT.20374
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - FERREDOXIN COMPONENT OF CARBAZOLE
    Chains: A
    EC Number: 1.14.12.-
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PECAC1
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Organism Scientific: PSEUDOMONAS RESINOVORANS
    Organism Taxid: 53412
    Strain: CA10
    Synonym: RIESKE-TYPE FERREDOXIN OF CARBAZOLE 1,9A- DIOXYGENASE

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 3)

Asymmetric/Biological Unit (3, 3)
No.NameCountTypeFull Name
1FE1Ligand/IonFE (III) ION
2FES1Ligand/IonFE2/S2 (INORGANIC) CLUSTER
3H2S1Ligand/IonHYDROSULFURIC ACID

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLU A:55 , H2S A:212 , HOH A:260BINDING SITE FOR RESIDUE FE A 211
2AC2SOFTWARECYS A:46 , HIS A:48 , GLY A:49 , CYS A:65 , PHE A:67 , HIS A:68 , GLY A:70 , CYS A:84BINDING SITE FOR RESIDUE FES A 201
3AC3SOFTWAREGLU A:55 , FE A:211 , HOH A:329 , HOH A:348BINDING SITE FOR RESIDUE H2S A 212

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Ser A:82 -Pro A:83

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (1, 1)

Asymmetric/Biological Unit (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1RIESKEPS51296 Rieske [2Fe-2S] iron-sulfur domain profile.CARAC_PSERE6-102  1A:6-102

(-) Exons   (0, 0)

(no "Exon" information available for 1VCK)

(-) 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:104
 aligned with CARAC_PSERE | Q8GI16 from UniProtKB/Swiss-Prot  Length:107

    Alignment length:104
                                    13        23        33        43        53        63        73        83        93       103    
          CARAC_PSERE     4 IWLKVCAASDMQPGTIRRVNRVGAAPLAVYRVGDQFYATEDTCTHGIASLSEGTLDGDVIECPFHGGAFNVCTGMPASSPCTVPLGVFEVEVKEGEVYVAGEKK 107
               SCOP domains -------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeee.hhh....eeeeee..eeeeeeeee..eeeeee........hhhhheee..eee......eee.....eee...........eeee..eeeee.... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --RIESKE  PDB: A:6-102 UniProt: 6-102                                                              ----- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------- Transcript
                 1vck A   4 IWLKVCAASDMQPGTIRRVNRVGAAPLAVYRVGDQFYATEDTCTHGIASLSEGTLDGDVIECPFHGGAFNVCTGMPASSPCTVPLGVFEVEVKEGEVYVAGEKK 107
                                    13        23        33        43        53        63        73        83        93       103
   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  (0, 0)

(no "SCOP Domain" information available for 1VCK)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 1VCK)

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (8, 8)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (CARAC_PSERE | Q8GI16)
molecular function
    GO:0051537    2 iron, 2 sulfur cluster binding    Interacting selectively and non-covalently with a 2 iron, 2 sulfur (2Fe-2S) cluster; this cluster consists of two iron atoms, with two inorganic sulfur atoms found between the irons and acting as bridging ligands.
    GO:0051213    dioxygenase activity    Catalysis of an oxidation-reduction (redox) reaction in which both atoms of oxygen from one molecule of O2 are incorporated into the (reduced) product(s) of the reaction. The two atoms of oxygen may be distributed between two different products.
    GO:0008901    ferredoxin hydrogenase activity    Catalysis of the reaction: 2 reduced ferredoxin + 2 H+ = 2 oxidized ferredoxin + H2.
    GO:0051536    iron-sulfur cluster binding    Interacting selectively and non-covalently with an iron-sulfur cluster, a combination of iron and sulfur atoms.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    GO:0016491    oxidoreductase activity    Catalysis of an oxidation-reduction (redox) reaction, a reversible chemical reaction in which the oxidation state of an atom or atoms within a molecule is altered. One substrate acts as a hydrogen or electron donor and becomes oxidized, while the other acts as hydrogen or electron acceptor and becomes reduced.
biological process
    GO:0046232    carbazole catabolic process    The chemical reactions and pathways resulting in the breakdown of carbazole, a heterocyclic aromatic compound containing a dibenzopyrrole system that is produced during coal gasification and is present in cigarette smoke. Coal tar produced at high temperature contains an average of 1.5% carbazole. It is used widely in synthesis of dyes, pharmaceuticals, and plastics and is a suspected carcinogen.
    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.

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 Related Entries

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

UniProtKB/Swiss-Prot
        CARAC_PSERE | Q8GI16: 2de5 2de6 2de7 3vmg 3vmh 3vmi 4nb8 4nb9 4nba 4nbb 4nbc 4nbd 4nbe 4nbf 4nbg 4nbh

(-) Related Entries Specified in the PDB File

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