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(-) Description

Title :  CRYSTAL STRUCTURE OF ORGANOPHOSPHATE ANHYDROLASE/PROLIDASE MUTANT Y212F, V342L, I215Y
 
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 :  2.20
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, 3.1.8.2, 3.1.8.1
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PSE420
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: PEPQ, OPAA
    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  (4, 10)

Asymmetric/Biological Unit (4, 10)
No.NameCountTypeFull Name
1BA2Ligand/IonBARIUM ION
2GOA1Ligand/IonGLYCOLIC ACID
3GOL1Ligand/IonGLYCEROL
4MN6Ligand/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 , HOH A:638 , HOH A:774binding site for residue MN A 501
02AC2SOFTWAREASP A:244 , ASP A:255 , THR A:257 , GLU A:420 , MN A:501 , HOH A:638binding site for residue MN A 502
03AC3SOFTWAREASP A:29 , HOH A:772binding site for residue BA A 503
04AC4SOFTWAREASP A:29binding site for residue MN A 504
05AC5SOFTWAREPHE B:212 , ASP B:244 , ASP B:255 , HIS B:336 , HIS B:343 , GLU B:381 , MN B:503 , MN B:504 , HOH B:607binding site for residue GOA B 501
06AC6SOFTWAREASP A:309 , ASN A:311binding site for residue GOL B 502
07AC7SOFTWAREASP B:244 , ASP B:255 , THR B:257 , GLU B:420 , GOA B:501 , MN B:504 , HOH B:607binding site for residue MN B 503
08AC8SOFTWAREASP B:255 , HIS B:336 , GLU B:381 , GLU B:420 , GOA B:501 , MN B:503 , HOH B:607binding site for residue MN B 504
09AC9SOFTWAREGLU B:10 , ASP B:398binding site for residue MN B 505
10AD1SOFTWAREHOH A:803 , ASN B:27 , HOH B:612binding site for residue BA B 506

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4ZWU)

(-) 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:435
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                   
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhhhhhh...eeeee..................hhhhhh..........eeee......eeeee..............hhhhheeeee.hhhhhhhh.......eeee..hhhhhhhhh..ee.hhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhh.hhhhh....eeee.hhhhh...............eeeeeeeeee..eeeeeeeeee....hhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhh.....hhhhhhhh.hhhhhh...........................................eeeee..eee.hhhhhhhhhhh.hhhhhhhhhhhhhh...eee..eeeee....eeehhhhh... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4zwu A   2 NKLAVLYAEHIATLQKRTREIIERENLDGVVFHSGQAKRQFLDDMYYPFKVNPQFKAWLPVIDNPHCWIVANGTDKPKLIFYRPVDFWHKVEPNEYWADYFDIELLVKPDQVEKLLPYDKARFAYIGEYLEVAQALGFELMNPEPVMNFYHYHRAYKTQYELACMREANKIAVQGHKAARDAFFQGKSEFEIQQAYLLATQHSENDTPFGNYVALNENCAILHYTHFDRVAPATHRSFLIDAGANFNGYAADITRTYDFTGEGEFAELVATMKQHQIALCNQLAPGKLYGELHLDCHQRVAQTLSDFNIVNLSADEIVAKGITSTFFPHGLGHHIGLQLHDVGGFMADEQGAHQEPGHPFLRCTRKIEANQVFTIEPGLYFIDSLLGDLAATDNNQHINWDKVAELKPFGGIRIEDNIIVHEDSLENMTRELELD 440
                                    11        21        31        41        51        61        71        81        91||     103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313       323       333       343       353     ||365       375       385       395       405       415       425       435     
                                                                                                                     92|                                                                                                                                                                                                                                                                     359|                                                                              
                                                                                                                      95                                                                                                                                                                                                                                                                      362                                                                              


Chain B from PDB  Type:PROTEIN  Length:435
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                   
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhhhhh...eeeee..................hhhhhh..........eeee......eeeee..........hhhhhhheeeee.hhhhhhhh.......eeee..hhhhhhhhh..ee.hhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhh..........eeee.hhhhh...............eeeeeeeeee..eeeeeeeeee....hhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhh.....hhhhhhhh.hhhhhh.............................................eeeee..eee.hhhhhhhhhhhhhhhhhhhhhhhhhh...eee..eeeee....eee.hhhhh.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4zwu B   2 NKLAVLYAEHIATLQKRTREIIERENLDGVVFHSGQAKRQFLDDMYYPFKVNPQFKAWLPVIDNPHCWIVANGTDKPKLIFYRPVDFWHEPNEYWADYFDIELLVKPDQVEKLLPYDKARFAYIGEYLEVAQALGFELMNPEPVMNFYHYHRAYKTQYELACMREANKIAVQGHKAARDAFFQGKSEFEIQQAYLLATQHSENDTPFGNYVALNENCAILHYTHFDRVAPATHRSFLIDAGANFNGYAADITRTYDFTGEGEFAELVATMKQHQIALCNQLAPGKLYGELHLDCHQRVAQTLSDFNIVNLSADEIVAKGITSTFFPHGLGHHIGLQLHDVGGFMADEQGAHQEPPEGHPFLRCTRKIEANQVFTIEPGLYFIDSLLGDLAATDNNQHINWDKVAELKPFGGIRIEDNIIVHEDSLENMTRELELD 440
                                    11        21        31        41        51        61        71        81        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265       275       285       295       305       315       325       335       345       355       365       375       385       395       405       415       425       435     
                                                                                                                   90|                                                                                                                                                                                                                                                                                                                                                         
                                                                                                                    95
   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 4ZWU)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (13, 13)

Asymmetric/Biological Unit(hide GO term definitions)

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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 4zwo 4zwp

(-) Related Entries Specified in the PDB File

4zwo 4zwp