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(-) Description

Title :  CRYSTAL STRUCTURE OF CDP-CHASE IN COMPLEX WITH GD3+
 
Authors :  K. C. Duong-Ly, S. B. Gabelli, L. M. Amzel
Date :  23 Dec 10  (Deposition) - 13 Jul 11  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.50
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Nudix Hydrolase, Asymmetric Dimer, Pyrophosphatase, Rna Exonuclease, Cdp-Choline Pyrophosphatase, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  K. C. Duong-Ly, S. B. Gabelli, W. Xu, C. A. Dunn, A. J. Schoeffield, M. J. Bessman, L. M. Amzel
The Nudix Hydrolase Cdp-Chase, A Cdp-Choline Pyrophosphatase, Is An Asymmetric Dimer With Two Distinct Enzymatic Activities.
J. Bacteriol. V. 193 3175 2011
PubMed-ID: 21531795  |  Reference-DOI: 10.1128/JB.00089-11

(-) Compounds

Molecule 1 - PHOSPHOHYDROLASE (MUTT/NUDIX FAMILY PROTEIN)
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET-24A
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: BC2032, BC_2032
    Organism Scientific: BACILLUS CEREUS
    Organism Taxid: 226900
    Strain: ATCC 14579

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 3)

Asymmetric/Biological Unit (1, 3)
No.NameCountTypeFull Name
1GD33Ligand/IonGADOLINIUM ION

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLY A:96 , GLU A:112 , GLU A:116 , HOH A:212BINDING SITE FOR RESIDUE GD3 A 301
2AC2SOFTWAREGLY B:96 , GLU B:112 , GLU B:116 , HOH B:214BINDING SITE FOR RESIDUE GD3 B 302
3AC3SOFTWAREGLU B:30 , GLU B:163 , HOH B:211 , HOH B:223BINDING SITE FOR RESIDUE GD3 B 303

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3Q4I)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3Q4I)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3Q4I)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3Q4I)

(-) Exons   (0, 0)

(no "Exon" information available for 3Q4I)

(-) 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:204
 aligned with Q81EE8_BACCR | Q81EE8 from UniProtKB/TrEMBL  Length:205

    Alignment length:204
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201    
         Q81EE8_BACCR     2 TIKWIDWVKQIQSIAQAGLTYSKDVYDIERFQQLRDISISMMSHYTKTDWEVVEKLFASETGYQTPKVDIRAVVFQNEKLLFVKEKSDGKWALPGGWADVGYTPTEVAAKEVFEETGYEVDHFKLLAIFDKEKHQPSPSATHVYKIFIGCEIIGGEKKTSIETEEVEFFGENELPNLSIARNTEDQIKEMFAYMKDPQKEKLID 205
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhh.......eeeeeeeeee..eeeeee......ee..eee.....hhhhhhhhhhhhhhheeeeeeeeeeeeehhhhh.......eeeeeeeeeeeee..........eeee.............hhhhhhhhhhhhhh.....ee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3q4i A   2 TIKWIDWVKQIQSIAQAGLTYSKDVYDIERFQQLRDISISMMSHYTKTDWEVVEKLFASETGYQTPKVDIRAVVFQNEKLLFVKEKSDGKWALPGGWADVGYTPTEVAAKEVFEETGYEVDHFKLLAIFDKEKHQPSPSATHVYKIFIGCEIIGGEKKTSIETEEVEFFGENELPNLSIARNTEDQIKEMFAYMKDPQKEKLID 205
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201    


Chain B from PDB  Type:PROTEIN  Length:204
 aligned with Q81EE8_BACCR | Q81EE8 from UniProtKB/TrEMBL  Length:205

    Alignment length:204
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201    
         Q81EE8_BACCR     2 TIKWIDWVKQIQSIAQAGLTYSKDVYDIERFQQLRDISISMMSHYTKTDWEVVEKLFASETGYQTPKVDIRAVVFQNEKLLFVKEKSDGKWALPGGWADVGYTPTEVAAKEVFEETGYEVDHFKLLAIFDKEKHQPSPSATHVYKIFIGCEIIGGEKKTSIETEEVEFFGENELPNLSIARNTEDQIKEMFAYMKDPQKEKLID 205
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhh.......................eeeeeeeeee..eeeeeee.....ee..eee.....hhhhhhhhhhhhhhheeeeeeeeeeeee.hhh........eeeeeeeeeeeee.......eeeeeee.............hhhhhhhhhhhhhh.....ee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3q4i B   2 TIKWIDWVKQIQSIAQAGLTYSKDVYDIERFQQLRDISISMMSHYTKTDWEVVEKLFASETGYQTPKVDIRAVVFQNEKLLFVKEKSDGKWALPGGWADVGYTPTEVAAKEVFEETGYEVDHFKLLAIFDKEKHQPSPSATHVYKIFIGCEIIGGEKKTSIETEEVEFFGENELPNLSIARNTEDQIKEMFAYMKDPQKEKLID 205
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201
   Legend:   → Mismatch (orange background)
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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 3Q4I)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3Q4I)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3Q4I)

(-) Gene Ontology  (1, 1)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B   (Q81EE8_BACCR | Q81EE8)
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.

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 Related Entries

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

UniProtKB/TrEMBL
        Q81EE8_BACCR | Q81EE8: 3q1p

(-) Related Entries Specified in the PDB File

3q1p CRYSTAL STRUCTURE OF CDP-CHASE