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(-) Description

Title :  THE STRUCTURE OF COBALT-SUBSTITUTED PSEUDOAZURIN FROM ALCALIGENES FAECALIS
 
Authors :  R. Gessmann, K. Petratos
Date :  15 Jul 10  (Deposition) - 20 Oct 10  (Release) - 12 Jan 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.86
Chains :  Asym./Biol. Unit :  A
Keywords :  Beta-Sandwich, Red-Ox Protein, Divalent Metal-Ion, Metalloprotein, Metal Binding Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  R. Gessmann, C. Kyvelidou, M. Papadovasilaki, K. Petratos
The Crystal Structure Of Cobalt-Substituted Pseudoazurin From Alcaligenes Faecalis.
Biopolymers V. 95 202 2011
PubMed-ID: 20945335  |  Reference-DOI: 10.1002/BIP.21553

(-) Compounds

Molecule 1 - PSEUDOAZURIN
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PAB301
    Expression System Strain: C600
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Organism Scientific: ALCALIGENES FAECALIS
    Organism Taxid: 511
    Synonym: CUPREDOXIN, BLUE COPPER PROTEIN

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

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

Asymmetric/Biological Unit (1, 1)
No.NameCountTypeFull Name
1CO1Ligand/IonCOBALT (II) ION

(-) Sites  (1, 1)

Asymmetric Unit (1, 1)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHIS A:40 , CYS A:78 , HIS A:81 , MET A:86BINDING SITE FOR RESIDUE CO A 124

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3NYK)

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Glu A:19 -Pro A:20

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3NYK)

(-) PROSITE Motifs  (1, 1)

Asymmetric/Biological Unit (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1COPPER_BLUEPS00196 Type-1 copper (blue) proteins signature.AZUP_ALCFA95-109  1A:72-86

(-) Exons   (0, 0)

(no "Exon" information available for 3NYK)

(-) 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:120
 aligned with AZUP_ALCFA | P04377 from UniProtKB/Swiss-Prot  Length:146

    Alignment length:120
                                    33        43        53        63        73        83        93       103       113       123       133       143
           AZUP_ALCFA    24 ENIEVHMLNKGAEGAMVFEPAYIKANPGDTVTFIPVDKGHNVESIKDMIPEGAEKFKSKINENYVLTVTQPGAYLVKCTPHYAMGMIALIAVGDSPANLDQIVSAKKPKIVQERLEKVIA 143
               SCOP domains d3nyka_ A: Pseudoazurin                                                                                                  SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ----Copper-bind-3nykA01 A:5-93                                                               --------------------------- Pfam domains
         Sec.struct. author .eeeeeeeeee..eeeeee..eeee....eeeeee.......ee...................eeee....eeeeee.........eeeeee.....hhhhhhhh..hhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE -----------------------------------------------------------------------COPPER_BLUE    ---------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------ Transcript
                 3nyk A   1 ENIEVHMLNKGAEGAMVFEPAYIKANPGDTVTFIPVDKGHNVESIKDMIPEGAEKFKSKINENYVLTVTQPGAYLVKCTPHYAMGMIALIAVGDSPANLDQIVSAKKPKIVQERLEKVIA 120
                                    10        20        30        40        50        60        70        80        90       100       110       120
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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 beta proteins (24004)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3NYK)

(-) Pfam Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Clan: CU_oxidase (192)

(-) Gene Ontology  (5, 5)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (AZUP_ALCFA | P04377)
molecular function
    GO:0005507    copper ion binding    Interacting selectively and non-covalently with copper (Cu) ions.
    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: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: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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 Related Entries

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

UniProtKB/Swiss-Prot
        AZUP_ALCFA | P04377: 1paz 1py0 1pza 1pzb 1pzc 2p80 3paz 4paz 4rh4 5paz 5x31 6paz 7paz 8paz

(-) Related Entries Specified in the PDB File

1paz NATIVE PSEUDOAZURIN
1pza
1pzb
1pzc