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(-) Description

Title :  CRYSTAL STRUCTURE OF ORGANOPHOSPHATE ANHYDROLASE/PROLIDASE MUTANT Y212F
 
Authors :  C. M. Daczkowski, S. D. Pegan, S. P. Harvey
Date :  19 May 15  (Deposition) - 14 Oct 15  (Release) - 28 Oct 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.14
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Opaa Organophosphate Prolidase Anhydrolase, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  C. M. Daczkowski, S. D. Pegan, S. P. Harvey
Engineering The Organophosphorus Acid Anhydrolase Enzyme Fo Increased Catalytic Efficiency And Broadened Stereospecificity On Russian Vx.
Biochemistry V. 54 6423 2015
PubMed-ID: 26418828  |  Reference-DOI: 10.1021/ACS.BIOCHEM.5B00624

(-) Compounds

Molecule 1 - ORGANOPHOSPHATE ANHYDROLASE/PROLIDASE
    Chains: A, B
    EC Number: 3.4.13.9
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PSE420
    Expression System Taxid: 562
    Gene: PEPQ, OPAA
    Mutation: YES
    Organism Scientific: ALTEROMONAS SP.
    Organism Taxid: 232
    Synonym: X-PRO DIPEPTIDASE,DFPASE,IMIDODIPEPTIDASE,ORGANOPHOSPHORUS ACID ANHYDROLASE 2,OPAA-2,PARAOXON HYDROLASE,PHOSPHOTRIESTERASE, PROLINE DIPEPTIDASE,PROLIDASE

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 10)

Asymmetric/Biological Unit (3, 10)
No.NameCountTypeFull Name
1GOA2Ligand/IonGLYCOLIC ACID
2GOL1Ligand/IonGLYCEROL
3MN7Ligand/IonMANGANESE (II) ION

(-) Sites  (10, 10)

Asymmetric Unit (10, 10)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREASP A:255 , HIS A:336 , GLU A:381 , GLU A:420 , MN A:502 , GOA A:506 , HOH A:602binding site for residue MN A 501
02AC2SOFTWAREASP A:244 , ASP A:255 , THR A:257 , GLU A:420 , MN A:501 , GOA A:506 , HOH A:602binding site for residue MN A 502
03AC3SOFTWAREARG A:25 , ASN A:27 , HOH A:877binding site for residue MN A 503
04AC4SOFTWAREGLU A:24 , ASN A:27 , HOH A:632binding site for residue MN A 504
05AC5SOFTWAREASP A:309 , HOH A:622 , HOH A:861 , HOH A:923binding site for residue MN A 505
06AC6SOFTWAREPHE A:212 , ASP A:244 , ASP A:255 , HIS A:336 , HIS A:343 , GLU A:381 , MN A:501 , MN A:502 , HOH A:602 , HOH A:726binding site for residue GOA A 506
07AC7SOFTWAREASP B:244 , ASP B:255 , THR B:257 , GLU B:420 , MN B:502 , GOA B:504 , HOH B:603binding site for residue MN B 501
08AC8SOFTWAREASP B:255 , HIS B:336 , GLU B:381 , GLU B:420 , MN B:501 , GOA B:504 , HOH B:603binding site for residue MN B 502
09AC9SOFTWAREASN B:27 , ASP B:29 , HOH B:602 , HOH B:817binding site for residue GOL B 503
10AD1SOFTWAREPHE B:212 , ASP B:244 , ASP B:255 , HIS B:336 , HIS B:343 , MN B:501 , MN B:502 , HOH B:603binding site for residue GOA B 504

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4ZWO)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4ZWO)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4ZWO)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4ZWO)

(-) Exons   (0, 0)

(no "Exon" information available for 4ZWO)

(-) 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:425
                                                                                                                                                                                                                                                                                                                                                                                                                                                                         
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhhhhhh...eeeee..................hhhhhh..........eeee......eeeee.........hhhhhhheeeee.hhhhhhhh.......eeee..hhhhhhhhh..ee.hhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhh.hhhhh....eeee.hhhhh...............eeeeee..ee..ee..eeeeee....hhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhh.....hhhhhhhh.hhhhhh....................................eeeee..eee.hhhhhhhhhh..hhhhhhhhhhhhhh...eee..eeeee....eeehhhhh... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4zwo A   2 NKLAVLYAEHIATLQKRTREIIERENLDGVVFHSGQAKRQFLDDMYYPFKVNPQFKAWLPVIDNPHCWIVANGTDKPKLIFYRPVDFWHKNEYWADYFDIELLVKPDQVEKLLPYDKARFAYIGEYLEVAQALGFELMNPEPVMNFYHYHRAYKTQYELACMREANKIAVQGHKAARDAFFQGKSEFEIQQAYLLATQHSENDTPFGNIVALNENCAILHYTHFDRVAPATHRSFLIDAGANFNGYAADITRTYDFTGEGEFAELVATMKQHQIALCNQLAPGKLYGELHLDCHQRVAQTLSDFNIVNLSADEIVAKGITSTFFPHGLGHHIGLQVHDVGGFMADEQGAFLRCTRKIEANQVFTIEPGLYFIDSLLGDLAATDNNQHINWDKVAELKPFGGIRIEDNIIVHEDSLENMTRELELD 440
                                    11        21        31        41        51        61        71        81        91|      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       365       375       385       395       405       415       425       435     
                                                                                                                    91|                                                                                                                                                                                                                                                               355|                                                                           
                                                                                                                     97                                                                                                                                                                                                                                                                365                                                                           


Chain B from PDB  Type:PROTEIN  Length:434
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhhhh...eeeee..................hhhhhh..........eeee......eeeee..........hhhhhhheeeee.hhhhhhhh.......eeee..hhhhhhhhh..ee.hhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhh.hhhhh....eeee.hhhhh...............eeeeee..ee..ee..eeeeee....hhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhh.....hhhhhhhh.hhhhhh.............................................eeeee..eee.hhhhhhhhhh..hhhhhhhhhhhhhh...eee..eeeee....eeehhhhh... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4zwo B   3 KLAVLYAEHIATLQKRTREIIERENLDGVVFHSGQAKRQFLDDMYYPFKVNPQFKAWLPVIDNPHCWIVANGTDKPKLIFYRPVDFWHKVNEYWADYFDIELLVKPDQVEKLLPYDKARFAYIGEYLEVAQALGFELMNPEPVMNFYHYHRAYKTQYELACMREANKIAVQGHKAARDAFFQGKSEFEIQQAYLLATQHSENDTPFGNIVALNENCAILHYTHFDRVAPATHRSFLIDAGANFNGYAADITRTYDFTGEGEFAELVATMKQHQIALCNQLAPGKLYGELHLDCHQRVAQTLSDFNIVNLSADEIVAKGITSTFFPHGLGHHIGLQVHDVGGFMADEQGAHQEPPEGHPFLRCTRKIEANQVFTIEPGLYFIDSLLGDLAATDNNQHINWDKVAELKPFGGIRIEDNIIVHEDSLENMTRELELD 440
                                    12        22        32        42        52        62        72        82        92|      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       356       366       376       386       396       406       416       426       436    
                                                                                                                    92|                                                                                                                                                                                                                                                                                                                                                       
                                                                                                                     97
   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 4ZWO)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4ZWO)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4ZWO)

(-) Gene Ontology  (13, 13)

Asymmetric/Biological Unit(hide GO term definitions)

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  4zwo
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  PEPQ_ALTSX | Q44238
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 Related Entries

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

UniProtKB/Swiss-Prot
        PEPQ_ALTSX | Q44238: 3l24 3l7g 4zwp 4zwu

(-) Related Entries Specified in the PDB File

3l24 CONTAINS THE FULL-LENGTH WILD-TYPE PROTEIN
3l7g CONTAINS THE FULL-LENGTH WILD-TYPE PROTEIN
4zwp
4zwu