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(-) Description

Title :  MYCOBACTERIUM TUBERCULOSIS DUTPASE G143STOP MUTANT
 
Authors :  G. N. Nagy, I. Leveles, V. Harmat, G. B. Vertessy
Date :  20 Oct 15  (Deposition) - 02 Nov 16  (Release) - 21 Dec 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.30
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (3x)
Keywords :  Hydrolase, Jelly-Roll, Trimer (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  G. N. Nagy, R. Suardiaz, A. Lopata, O. Ozohanics, K. Vekey, B. R. Brooks I. Leveles, J. Toth, B. G. Vertessy, E. Rosta
Structural Characterization Of Arginine Fingers: Identification Of An Arginine Finger For The Pyrophosphatas Dutpases.
J. Am. Chem. Soc. V. 138 15035 2016
PubMed-ID: 27740761  |  Reference-DOI: 10.1021/JACS.6B09012

(-) Compounds

Molecule 1 - DEOXYURIDINE 5'-TRIPHOSPHATE NUCLEOTIDOHYDROLASE
    Chains: A
    EC Number: 3.6.1.23
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Plasmid: PET15B
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: DUT, RV2697C, MTCY05A6.18C
    Mutation: YES
    Organism Scientific: MYCOBACTERIUM TUBERCULOSIS
    Organism Taxid: 1773
    Synonym: DUTPASE,DUTP PYROPHOSPHATASE

 Structural Features

(-) Chains, Units

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

Summary Information (see also Sequences/Alignments below)

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

Asymmetric Unit (4, 4)
No.NameCountTypeFull Name
1DUP1Ligand/Ion2'-DEOXYURIDINE 5'-ALPHA,BETA-IMIDO-TRIPHOSPHATE
2GOL1Ligand/IonGLYCEROL
3MG1Ligand/IonMAGNESIUM ION
4TRS1Ligand/Ion2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL
Biological Unit 1 (3, 9)
No.NameCountTypeFull Name
1DUP3Ligand/Ion2'-DEOXYURIDINE 5'-ALPHA,BETA-IMIDO-TRIPHOSPHATE
2GOL3Ligand/IonGLYCEROL
3MG-1Ligand/IonMAGNESIUM ION
4TRS3Ligand/Ion2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREARG A:64 , SER A:65 , GLY A:66 , ASN A:77 , GLY A:80 , THR A:81 , ILE A:82 , ASP A:83 , TYR A:86 , ILE A:90 , LYS A:91 , GLN A:113 , ARG A:140 , MG A:203 , HOH A:304 , HOH A:305 , HOH A:322 , HOH A:324 , HOH A:329 , HOH A:334 , HOH A:362 , HOH A:364 , HOH A:372 , HOH A:378 , HOH A:381 , HOH A:414binding site for residue DUP A 201
2AC2SOFTWARESER A:74 , ILE A:75 , VAL A:76 , HOH A:344binding site for residue TRS A 202
3AC3SOFTWAREDUP A:201 , HOH A:305 , HOH A:372 , HOH A:378binding site for residue MG A 203
4AC4SOFTWAREARG A:64 , ASP A:109 , ARG A:110 , HOH A:302 , HOH A:380binding site for residue GOL A 204

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5ECT)

(-) Cis Peptide Bonds  (1, 1)

Asymmetric Unit
No.Residues
1Ser A:78 -Pro A:79

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5ECT)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5ECT)

(-) Exons   (0, 0)

(no "Exon" information available for 5ECT)

(-) 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:146
                                                                                                                                                                                  
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhh.....eeee.................eeee....eee....eeeee..eeee....eeeeee.hhhhhhhhheee....eee........eeeeee......eee....eeeeeeeee................... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5ect A  -8 SGLVPRGSHMSTTLAIVRLDPGLPLPSRAHDGDAGVDLYSAEDVELAPGRRALVRTGVAVAVPFGMVGLVHPRSGLATRVGLSIVNSPGTIDAGYRGEIKVALINLDPAAPIVVHRGDRIAQLLVQRVELVELVEVSSFDEATSRG 141
                                     1        11        21        31        41        51        61        71        81        91       101       111       121       131 ||   
                                                                                                                                                                       133|   
                                                                                                                                                                        138
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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  (0, 0)

(no "SCOP Domain" information available for 5ECT)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5ECT)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5ECT)

(-) Gene Ontology  (11, 11)

Asymmetric Unit(hide GO term definitions)

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 Related Entries

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

UniProtKB/Swiss-Prot
        DUT_MYCTU | P9WNS5: 1mq7 1six 1sjn 1slh 1sm8 1smc 1snf 2py4 3h6d 3hza 3i93 3loj 4gcy 5edd

(-) Related Entries Specified in the PDB File

1mq7 1MQ7 CONTAINS THE WILD TYPE FORM OF THE SAME PROTEIN
1six 1SIX CONTAINS THE WILD TYPE FORM OF THE SAME PROTEIN COMPLEXED WITH MG2+ AND DUPNPP
1sjn 1SJN CONTAINS THE WILD TYPE FORM OF THE SAME PROTEIN COMPLEXED WITH MG2+ AND DUPNPP
1slh 1SLH CONTAINS THE WILD TYPE FORM OF THE SAME PROTEIN COMPLEXED WITH MG2+ AND DUPDP
1smc 1SMC CONTAINS THE WILD TYPE FORM OF THE SAME PROTEIN COMPLEXED WITH DUPNPP IN ABSENCE OF MG2+
1snf 1SNF CONTAINS THE WILD TYPE FORM OF THE SAME PROTEIN COMPLEXED WITH MG2+ AND DUPMP
2py4 2PY4 CONTAINS THE WILD TYPE FORM OF THE SAME PROTEIN COMPLEXED WITH MG2+ AND DUPNPP
3h6d 3H6D CONTAINS THE D28N VARIANT OF THE SAME PROTEIN.
3hza 3HZA CONTAINS THE H145W VARIANT OF THE SAME PROTEIN.
3i93 3I93 CONTAINS THE T138STOP VARIANT OF THE SAME PROTEIN.
3loj 3LOJ CONTAINS THE H145A VARIANT OF THE SAME PROTEIN.
4gcy 4GCY CONTAINS THE H21W VARIANT OF THE SAME PROTEIN.