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(-) Description

Title :  PHAGE DUTPASES CONTROL TRANSFER OF VIRULENCE GENES BY A PROTO-ONCOGENIC G PROTEIN-LIKE MECHANISM. (STAPHYLOCOCCUS BACTERIOPHAGE 80ALPHA DUTPASE D81N MUTANT WITH DUPNHPP).
 
Authors :  M. A. Tormo-Mas, J. Donderis, M. Garcia-Caballer, A. Alt, I. Mir-Sanch A. Marina, J. R. Penades
Date :  10 Dec 12  (Deposition) - 30 Jan 13  (Release) - 17 Apr 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  3.00
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (3x)
Keywords :  Hydrolase, Pathogenicity Island, Sapi Induction, Gene Transf Moonlighting Proteins, G-Protein, P-Loop (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  M. A. Tormo-Mas, J. Donderis, M. Garcia-Caballer, A. Alt, I. Mir-Sanchis, A. Marina, J. R. Penades
Phage Dutpases Control Transfer Of Virulence Genes By A Proto-Oncogenic G Protein-Like Mechanism.
Mol. Cell V. 49 947 2013
PubMed-ID: 23333307  |  Reference-DOI: 10.1016/J.MOLCEL.2012.12.013
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - DUTPASE
    ChainsA
    EC Number3.6.1.23
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System StrainBL21(DE3)
    Expression System Taxid469008
    Expression System VectorPET28A
    Expression System Vector TypePLASMID
    MutationYES
    Organism ScientificSTAPHYLOCOCCUS PHAGE 80ALPHA
    Organism Taxid53369
    Other DetailsSTRUCTURE IN PRESENCE OF DUPNHPP AND MAGNESIUM

 Structural Features

(-) Chains, Units

  1
Asymmetric Unit A
Biological Unit 1 (3x)A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 3)

Asymmetric Unit (2, 3)
No.NameCountTypeFull Name
1DUP1Ligand/Ion2'-DEOXYURIDINE 5'-ALPHA,BETA-IMIDO-TRIPHOSPHATE
2NI2Ligand/IonNICKEL (II) ION
Biological Unit 1 (1, 3)
No.NameCountTypeFull Name
1DUP3Ligand/Ion2'-DEOXYURIDINE 5'-ALPHA,BETA-IMIDO-TRIPHOSPHATE
2NI-1Ligand/IonNICKEL (II) ION

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASP A:95BINDING SITE FOR RESIDUE NI A1157
2AC2SOFTWAREHOH A:2037BINDING SITE FOR RESIDUE NI A1158
3AC3SOFTWAREARG A:64 , SER A:65 , GLY A:66 , GLY A:78 , LYS A:79 , ASN A:81 , TYR A:84 , ASN A:87 , LEU A:88 , GLY A:89 , ASN A:91 , GLN A:137 , HOH A:2017 , HOH A:2021BINDING SITE FOR RESIDUE DUP A 777

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3ZF1)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3ZF1)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3ZF1)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3ZF1)

(-) Exons   (0, 0)

(no "Exon" information available for 3ZF1)

(-) Sequences/Alignments

Asymmetric Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
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  UniProt sequence: complete  aligned part    
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SAPs(SNPs) PROSITE motifs Exons
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Chain A from PDB  Type:PROTEIN  Length:155
 aligned with A4ZF98_9CAUD | A4ZF98 from UniProtKB/TrEMBL  Length:170

    Alignment length:155
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151     
         A4ZF98_9CAUD     2 TNTLQVKLLSKNARMPERNHKTDAGYDIFSAETVVLEPQEKAVIKTDVAVSIPEGYVGLLTSRSGVSSKTHLVIETGKIDAGYHGNLGINIKNDHEDDKMQTIFLRNIDNEKIFEKERHLYKLGSYRIEKGERIAQLVIVPIWTPELKQVEEFES 156
               SCOP domains d3zf1a_ A: automated matches                                                                                                                                SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeee.................eeee....eee....eeeee..eeee....eeeeeeehhhhhhhh.eee..eee........eeeeee.......ee..................ee...eee....eeeeeeeee.............. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3zf1 A   2 TNTLQVKLLSKNARMPERNHKTDAGYDIFSAETVVLEPQEKAVIKTDVAVSIPEGYVGLLTSRSGVSSKTHLVIETGKINAGYHGNLGINIKNDHEDDKMQTIFLRNIDNEKIFEKERHLYKLGSYRIEKGERIAQLVIVPIWTPELKQVEEFES 156
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151     

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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)

Asymmetric Unit

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3ZF1)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3ZF1)

(-) Gene Ontology  (2, 2)

Asymmetric Unit(hide GO term definitions)
Chain A   (A4ZF98_9CAUD | A4ZF98)
molecular function
    GO:0016787    hydrolase activity    Catalysis of the hydrolysis of various bonds, e.g. C-O, C-N, C-C, phosphoric anhydride bonds, etc. Hydrolase is the systematic name for any enzyme of EC class 3.
biological process
    GO:0046080    dUTP metabolic process    The chemical reactions and pathways involving dUTP, deoxyuridine (5'-)triphosphate.

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 Related Entries

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

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        A4ZF98_9CAUD | A4ZF983zez 3zf0 3zf2 3zf3 3zf4 3zf5 3zf6 5cco 5cct

(-) Related Entries Specified in the PDB File

3zez PHAGE DUTPASES CONTROL TRANSFER OF VIRULENCE GENES BY A PROTO-ONCOGENIC G PROTEIN-LIKE MECHANISM. ( STAPHYLOCOCCUS BACTERIOPHAGE 80ALPHA DUTPASE WITH DUPNHPP).
3zf0 PHAGE DUTPASES CONTROL TRANSFER OF VIRULENCE GENES BY A PROTO-ONCOGENIC G PROTEIN-LIKE MECHANISM. ( STAPHYLOCOCCUS BACTERIOPHAGE 80ALPHA DUTPASE D81A MUTANT WITH DUPNHPP).
3zf2 PHAGE DUTPASES CONTROL TRANSFER OF VIRULENCE GENES BY A PROTO-ONCOGENIC G PROTEIN-LIKE MECHANISM. ( STAPHYLOCOCCUS BACTERIOPHAGE 80ALPHA DUTPASE).
3zf3 PHAGE DUTPASES CONTROL TRANSFER OF VIRULENCE GENES BY A PROTO-ONCOGENIC G PROTEIN-LIKE MECHANISM. ( STAPHYLOCOCCUS BACTERIOPHAGE 80ALPHA DUTPASE Y84I MUTANT).
3zf4 PHAGE DUTPASES CONTROL TRANSFER OF VIRULENCE GENES BY A PROTO-ONCOGENIC G PROTEIN-LIKE MECHANISM. ( STAPHYLOCOCCUS BACTERIOPHAGE 80ALPHA DUTPASE Y81A MUTANT WITH DUPNHPP).
3zf5 PHAGE DUTPASES CONTROL TRANSFER OF VIRULENCE GENES BY A PROTO-ONCOGENIC G PROTEIN-LIKE MECHANISM. ( STAPHYLOCOCCUS BACTERIOPHAGE 80ALPHA DUTPASE Y84F MUTANT WITH DUPNHPP).
3zf6 PHAGE DUTPASES CONTROL TRANSFER OF VIRULENCE GENES BY A PROTO-ONCOGENIC G PROTEIN-LIKE MECHANISM. ( STAPHYLOCOCCUS BACTERIOPHAGE 80ALPHA DUTPASE D81A D110C S168C MUTANT WITH DUPNHPP).