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(-) Description

Title :  CRYSTAL STRUCTURE OF PYROPHOSPHATASE FROM BACTEROIDES THETAIOTAOMICRON, ASP13ASN MUTANT, AN OPEN CAP CONFORMATION
 
Authors :  Y. Patskovsky, H. Huang, R. Toro, J. A. Gerlt, S. K. Burley, D. Dunaway-M S. C. Almo, New York Sgx Research Center For Structural Genomi (Nysgxrc), Enzyme Function Initiative(Efi)
Date :  24 Feb 11  (Deposition) - 13 Apr 11  (Release) - 16 Nov 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.50
Chains :  Asym./Biol. Unit :  A
Keywords :  Hydrolase, Pyrophosphatase, Magnesium Binding Site, New York Sgx Research Center For Structural Genomics, Nysgx Enzyme Function Initiative, Efi, Psi-2, Protein Structure Initiative, Nysgxrc (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  H. Huang, Y. Patskovsky, R. Toro, J. D. Farelli, C. Pandya, S. C. Almo, K. N. Allen, D. Dunaway-Mariano
Divergence Of Structure And Function In The Haloacid Dehalogenase Enzyme Superfamily: Bacteroides Thetaiotaomicron Bt2127 Is An Inorganic Pyrophosphatase.
Biochemistry V. 50 8937 2011
PubMed-ID: 21894910  |  Reference-DOI: 10.1021/BI201181Q

(-) Compounds

Molecule 1 - INORGANIC PYROPHOSPHATASE
    ChainsA
    EC Number3.6.1.1
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System Taxid562
    GeneBT_2127
    MutationYES
    Organism ScientificBACTEROIDES THETAIOTAOMICRON
    Organism Taxid818
    SynonymPUTATIVE BETA-PHOSPHOGLUCOMUTASE

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 4)

Asymmetric/Biological Unit (3, 4)
No.NameCountTypeFull Name
1CL1Ligand/IonCHLORIDE ION
2MG2Ligand/IonMAGNESIUM ION
3MLT1Ligand/IonMALATE ION

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASP A:11 , ASN A:13 , GLU A:47 , ASN A:172 , MLT A:227 , HOH A:232BINDING SITE FOR RESIDUE MG A 225
2AC2SOFTWAREHIS A:126 , PRO A:129 , ASN A:191 , PRO A:210 , HOH A:254 , HOH A:370BINDING SITE FOR RESIDUE MG A 226
3AC3SOFTWAREASP A:11 , MET A:12 , ASN A:13 , GLU A:47 , GLY A:48 , THR A:113 , GLY A:114 , SER A:115 , LYS A:147 , MG A:225 , HOH A:232 , HOH A:233 , HOH A:259 , HOH A:287BINDING SITE FOR RESIDUE MLT A 227
4AC4SOFTWAREARG A:40 , HOH A:316BINDING SITE FOR RESIDUE CL A 228

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Lys A:147 -Pro A:148

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 3QUT)

(-) 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:225
 aligned with Q8A5V9_BACTN | Q8A5V9 from UniProtKB/TrEMBL  Length:224

    Alignment length:225
                             1                                                                                                                                                                                                                               
                             |       9        19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219     
         Q8A5V9_BACTN     - -MRKKLKAVLFDMDGVLFNSMPYHSEAWHQVMKTHGLDLSREEAYMHEGRTGASTINIVFQRELGKEATQEEIESIYHEKSILFNSYPEAERMPGAWELLQKVKSEGLTPMVVTGSGQLSLLERLEHNFPGMFHKELMVTAFDVKYGKPNPEPYLMALKKGGLKADEAVVIENAPLGVEAGHKAGIFTIAVNTGPLDGQVLLDAGADLLFPSMQTLCDSWDTIML 224
               SCOP domains d3quta_ A: automated matches                                                                                                                                                                                                      SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------HAD_2-3qutA01 A:8-190                                                                                                                                                                  ---------------------------------- Pfam domains
         Sec.struct. author hhhhhh.eeee........hhhhhhhhhhhhhhhh....hhhhhhhh...hhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhh..eeeee....hhhhhhhhhhhh....hhh.eehhhhh......hhhhhhhhhhhh.hhh.eeeee.hhhhhhhhhhh..eeeee.....hhhhhhhh...eee.hhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3qut A   0 HMRKKLKAVLFDMNGVLFNSMPYHSEAWHQVMKTHGLDLSREEAYMHEGRTGASTINIVFQRELGKEATQEEIESIYHEKSILFNSYPEAERMPGAWELLQKVKSEGLTPMVVTGSGQLSLLERLEHNFPGMFHKELMVTAFDVKYGKPNPEPYLMALKKGGLKADEAVVIENAPLGVEAGHKAGIFTIAVNTGPLDGQVLLDAGADLLFPSMQTLCDSWDTIML 224
                                     9        19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219     

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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

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Clan: HAD (186)

(-) Gene Ontology  (3, 3)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (Q8A5V9_BACTN | Q8A5V9)
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.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
biological process
    GO:0008152    metabolic process    The chemical reactions and pathways, including anabolism and catabolism, by which living organisms transform chemical substances. Metabolic processes typically transform small molecules, but also include macromolecular processes such as DNA repair and replication, and protein synthesis and degradation.

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    Lys A:147 - Pro A:148   [ RasMol ]  
 

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 Related Entries

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

UniProtKB/TrEMBL
        Q8A5V9_BACTN | Q8A5V93qu2 3qu4 3qu5 3qu7 3qu9 3qub 3quc 3quq 3qx7 3qxg 3qyp 3r9k

(-) Related Entries Specified in the PDB File

3qu2 CRYSTAL STRUCTURE OF PYROPHOSPHATASE FROM BACTEROIDES THETAIOTAOMICRON, A CLOSED CAP CONFORMATION, WILD-TYPE PROTEIN
3qu4 CRYSTAL STRUCTURE OF PYROPHOSPHATASE FROM BACTEROIDES THETAIOTAOMICRON, ASP13ALA MUTANT
3qu5 CRYSTAL STRUCTURE OF PYROPHOSPHATASE FROM BACTEROIDES THETAIOTAOMICRON, ASP11ASN MUTANT
3qu7 CRYSTAL STRUCTURE OF PYROPHOSPHATASE FROM BACTEROIDES THETAIOTAOMICRON, ASP13ASN MUTANT COMPLEXED WITH CALCIUM AND PHOSPHATE
3qu9 CRYSTAL STRUCTURE OF PYROPHOSPHATASE FROM BACTEROIDES THETAIOTAOMICRON, ASP13ASN MUTANT COMPLEXED WITH MAGNESIUM AND TARTRATE
3qub CRYSTAL STRUCTURE OF PYROPHOSPHATASE FROM BACTEROIDES THETAIOTAOMICRON, GLU47ALA MUTANT COMPLEXED WITH SULFATE
3quc CRYSTAL STRUCTURE OF PYROPHOSPHATASE FROM BACTEROIDES THETAIOTAOMICRON, GLU47ASN MUTANT COMPLEXED WITH SULFATE
3quq CRYSTAL STRUCTURE OF PYROPHOSPHATASE FROM BACTEROIDES THETAIOTAOMICRON, AN OPEN CAP CONFORMATION, WILD-TYPE PROTEIN
3qx7 CRYSTAL STRUCTURE OF PYROPHOSPHATASE FROM BACTEROIDES THETAIOTAOMICRON COMPLEXED WITH PHOSPHATE, A CLOSED CAP CONFORMATION, WILD-TYPE PROTEIN
3qxg CRYSTAL STRUCTURE OF PYROPHOSPHATASE FROM BACTEROIDES THETAIOTAOMICRON COMPLEXED WITH CALCIUM, A CLOSED CAP CONFORMATION, WILD-TYPE PROTEIN
3qyp CRYSTAL STRUCTURE OF PYROPHOSPHATASE FROM BACTEROIDES THETAIOTAOMICRON, GLU47ASN MUTANT COMPLEXED WITH CALCIUM AND PHOSPHATE
3r9k CRYSTAL STRUCTURE OF PYROPHOSPHATASE FROM BACTEROIDES THETAIOTAOMICRON, GLU47ASP MUTANT COMPLEXED WITH SULFATE, A CLOSED CAP CONFORMATION