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(-) Description

Title :  THE CRYSTAL STRUCTURE OF A COMPLEX OF CAMPYLOBACTER JEJUNI DUTPASE WITH SUBSTRATE ANALOGUE DUPNHPP
 
Authors :  O. V. Moroz, M. Harkiolaki, D. Gonzalez-Pacanowska, K. S. Wilson
Date :  17 Mar 06  (Deposition) - 27 Mar 07  (Release) - 11 May 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.70
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (2x)
Keywords :  Ligand Complex, Hydrolase, Drug Target, Dutp Pyrophosphatase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  G. R. Hemsworth, O. V. Moroz, M. J. Fogg, B. Scott, C. Bosch-Navarrete, D. Gonzalez-Pacanowska, K. S. Wilson
The Crystal Structure Of The Leishmania Major Deoxyuridine Triphosphate Nucleotidohydrolase In Complex With Nucleotide Analogues, Dump, And Deoxyuridine.
J. Biol. Chem. V. 286 16470 2011
PubMed-ID: 21454646  |  Reference-DOI: 10.1074/JBC.M111.224873

(-) Compounds

Molecule 1 - DEOXYURIDINE 5'-TRIPHOSPHATE NUCLEOTIDE HYDROLASE
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Organism Scientific: CAMPYLOBACTER JEJUNI
    Organism Taxid: 197

 Structural Features

(-) Chains, Units

  1
Asymmetric Unit : A
Biological Unit 1 (2x): 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
2MG2Ligand/IonMAGNESIUM ION
Biological Unit 1 (1, 2)
No.NameCountTypeFull Name
1DUP2Ligand/Ion2'-DEOXYURIDINE 5'-ALPHA,BETA-IMIDO-TRIPHOSPHATE
2MG-1Ligand/IonMAGNESIUM ION

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLU A:46 , DUP A:1968 , MG A:1970 , HOH A:2161 , HOH A:2470 , HOH A:2475 , HOH A:2477BINDING SITE FOR RESIDUE MG A1969
2AC2SOFTWAREGLU A:46 , GLU A:74 , ASP A:77 , DUP A:1968 , MG A:1969 , HOH A:2213 , HOH A:2469 , HOH A:2472BINDING SITE FOR RESIDUE MG A1970
3AC3SOFTWAREGLN A:14 , LEU A:17 , ASN A:18 , ASN A:22 , TRP A:39 , GLU A:46 , LYS A:57 , HIS A:58 , TRP A:59 , ASP A:77 , HIS A:80 , PHE A:81 , LYS A:175 , ASN A:179 , ARG A:182 , TYR A:187 , LYS A:194 , ASN A:202 , MG A:1969 , MG A:1970 , HOH A:2135 , HOH A:2366 , HOH A:2392 , HOH A:2415 , HOH A:2469 , HOH A:2470 , HOH A:2471 , HOH A:2472 , HOH A:2473 , HOH A:2474 , HOH A:2475 , HOH A:2476 , HOH A:2477 , HOH A:2478BINDING SITE FOR RESIDUE DUP A1968

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2CIC)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2CIC)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2CIC)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2CIC)

(-) Exons   (0, 0)

(no "Exon" information available for 2CIC)

(-) Sequences/Alignments

Asymmetric 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:223
 aligned with Q0P8G4_CAMJE | Q0P8G4 from UniProtKB/TrEMBL  Length:229

    Alignment length:229
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220         
         Q0P8G4_CAMJE     1 MTNIEILENMLKLQQKLNDETNGLNWENGYTKEGKLISWRRCIYMECAELIDSFTWKHWKNISSLTNWENVRIEIVDIWHFILSLLLEEYRDKNNKDFKAIATEVNAVSVFQDFCKEEEYPNEGDIYGILNDIELIIHKCSGFGFNLGELLSTYFTLAIKCGLNLEILYKTYIGKNVLNIFRQNNGYKDGSYKKTWNGKEDNEVLAQILEQELDFDTIYKKLEECYKKA 229
               SCOP domains d2cica_ A: Type II deoxyuridine triphosphatase                                                                                                                                                                                        SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhhh.hhhhh........hhhhhhhhhhhhhhh..............hhhhhhhhhhhhhhhhhhhhhhhh------hhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhh.........ee..eehhhhhhhhhhhh.hhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2cic A   1 MTNIEILENMLKLQQKLNDETNGLNWENGYTKEGKLISWRRCIYMECAELIDSFTWKHWKNISSLTNWENVRIEIVDIWHFILSLLLEEY------DFKAIATEVNAVSVFQDFCKEEEYPNEGDIYGILNDIELIIHKCSGFGFNLGELLSTYFTLAIKCGLNLEILYKTYIGKNVLNIFRQNNGYKDGSYKKTWNGKEDNEVLAQILEQELDFDTIYKKLEECYKKA 229
                                    10        20        30        40        50        60        70        80        90      |100       110       120       130       140       150       160       170       180       190       200       210       220         
                                                                                                                    90     97
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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 Unit
(-)
Class: All alpha proteins (14657)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 2CIC)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2CIC)

(-) Gene Ontology  (3, 3)

Asymmetric Unit(hide GO term definitions)
Chain A   (Q0P8G4_CAMJE | Q0P8G4)
molecular function
    GO:0004170    dUTP diphosphatase activity    Catalysis of the reaction: dUTP + H2O = dUMP + diphosphate.
    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.
    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/TrEMBL
        Q0P8G4_CAMJE | Q0P8G4: 1w2y

(-) Related Entries Specified in the PDB File

1w2y THE CRYSTAL STRUCTURE OF A COMPLEX OF CAMPYLOBACTER JEJUNI DUTPASE WITH SUBSTRATE ANALOGUE DUPNHP
2cje THE CRYSTAL STRUCTURE OF A COMPLEX OF LEISHMANIA MAJOR DUTPASE WITH SUBSTRATE ANALOGUE DUPNHP
2yay THE CRYSTAL STRUCTURE OF LEISHMANIA MAJOR DUTPASE IN COMPLEX WITH SUBSTRATE ANALOGUE DUPNPP
2yaz THE CRYSTAL STRUCTURE OF LEISHMANIA MAJOR DUTPASE IN COMPLEX DUMP
2yb0 THE CRYSTAL STRUCTURE OF LEISHMANIA MAJOR DUTPASE IN COMPLEX DEOXYURIDINE