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(-) Description

Title :  SERUM PARAOXONASE-1 BY DIRECTED EVOLUTION AT PH 6.5
 
Authors :  M. Ben David, M. Elias, I. Silman, J. L. Sussman, D. S. Tawfik
Date :  07 Jul 11  (Deposition) - 21 Mar 12  (Release) - 18 Apr 12  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.99
Chains :  Asym./Biol. Unit :  A
Keywords :  Directed Evolution, 6-Blades-Propeller Fold, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  M. Ben-David, M. Elias, J. J. Filippi, E. Dunach, I. Silman, J. L. Sussman, D. S. Tawfik
Catalytic Versatility And Backups In Enzyme Active Sites: The Case Of Serum Paraoxonase 1.
J. Mol. Biol. V. 418 181 2012
PubMed-ID: 22387469  |  Reference-DOI: 10.1016/J.JMB.2012.02.042

(-) Compounds

Molecule 1 - SERUM PARAOXONASE
    ChainsA
    EC Number3.1.1.2
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System PlasmidPET32
    Expression System StrainORIGAMI DE3
    Expression System Taxid562
    Expression System Vector TypePET32
    Organism ScientificARTIFICIAL GENE
    Organism Taxid32630
    Other DetailsFROM SHUFFLED GENES OF HOMO SAPIENS, ORYCTOLAGUS CUNICULUS, MUS MUSCULUS, AND RATTUS RATTUS PARAOXONASE
    SynonymPON1

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 5)

Asymmetric/Biological Unit (4, 5)
No.NameCountTypeFull Name
1BR1Ligand/IonBROMIDE ION
2CA2Ligand/IonCALCIUM ION
3LMT1Ligand/IonDODECYL-BETA-D-MALTOSIDE
4PO41Ligand/IonPHOSPHATE ION

(-) Sites  (5, 5)

Asymmetric Unit (5, 5)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASP A:54 , ILE A:117 , ASP A:169 , HOH A:360 , HOH A:361 , HOH A:379BINDING SITE FOR RESIDUE CA A 1356
2AC2SOFTWAREGLU A:53 , ASN A:168 , ASN A:224 , ASP A:269 , ASN A:270 , HOH A:359 , PO4 A:1358BINDING SITE FOR RESIDUE CA A 1357
3AC3SOFTWAREGLU A:53 , HIS A:115 , ASN A:168 , ASN A:224 , ASP A:269 , THR A:332 , CA A:1357BINDING SITE FOR RESIDUE PO4 A 1358
4AC4SOFTWAREGLN A:20 , LEU A:198 , GLY A:199 , LEU A:200 , TRP A:202BINDING SITE FOR RESIDUE LMT A 356
5AC5SOFTWAREASN A:287 , ARG A:290 , GLY A:301 , HOH A:452BINDING SITE FOR RESIDUE BR A 1360

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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(-) PROSITE Motifs  (0, 0)

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(-) Exons   (0, 0)

(no "Exon" information available for 3SRE)

(-) 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    
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SAPs(SNPs) PROSITE motifs Exons
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Chain A from PDB  Type:PROTEIN  Length:329
                                                                                                                                                                                                                                                                                                                                                                         
               SCOP domains d3srea_ A: automated matches                                                                                                                                                                                                                                                                                                              SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhh.............eee.........eeee....eeeeee......eeeeee.......eee.eee....hhhhh.eeeeeeee.....eeeeeee......eeeeeeee....eeeeeeee.......eeeeeeee..eeeeee.....hhhhhhhhhhh....eeeeee.....eeeeeee..eeeeee.....eeeeee....eeeeeee.....eeeeeeee...eeeeeee......eeeeee.hhhhhhh........eeeeeee.......eeeeeeee.......eeeeeee..eeeeee....eeeee. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3sre A  17 FDRQKSSFQTRFNVHREVTPVELPNCNLVKGIDNGSEDLEILPNGLAFISSGLKYSGKILLMDLNEKEPAVSELEIIGNTLDISSFNPHGISTFIDDDNTVYLLVVNHPGSSSTVEVFKFQEEEKSLLHLKTIRHKLLPSVNDIVAVGPEHFYATNDHYFIDPYLKSWEMHLGLAWSFVTYYSPNDVRVVAEGFDFANGINISPDGKYVYIAELLAHKIHVYEKHANWTLTPLRVLSFDTLVDNISVDPVTGDLWVGCHPNGMRIFFYDAENPPGSEVLRIQDILSEEPKVTVVYAENGTVLQGSTVAAVYKGKLLIGTVFHKALYCDL 355
                                    26        36        46        56        66    ||  86        96       106       116       126       136       146       156       166       176       186       196       206       216       226       236       246       256       266       276       286       296       306       316       326       336       346         
                                                                                 71|                                                                                                                                                                                                                                                                                 
                                                                                  82                                                                                                                                                                                                                                                                                 

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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/Biological Unit

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (0, 0)

Asymmetric/Biological Unit(hide GO term definitions)
    (no "Gene Ontology" information available for 3SRE)

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 Related Entries

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(-) Related Entries Specified in the PDB File

1v04 3srg