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(-) Description

Title :  STRUCTURE OF PHOSPHOTRIESTERASE MUTANT (S308L/Y309A) FROM AGROBACTERIUM RADIOBACTER WITH DIETHYL THIOPHOSPHATE BOUND IN THE ACTIVE SITE
 
Authors :  C. J. Jackson, P. D. Carr, E. Sugrue
Date :  20 Nov 13  (Deposition) - 24 Sep 14  (Release) - 04 Feb 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.99
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (2x)
Keywords :  Phosphotriesterase, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  T. Naqvi, A. C. Warden, N. French, E. Sugrue, P. D. Carr, C. J. Jackson, C. Scott
A 5000-Fold Increase In The Specificity Of A Bacterial Phosphotriesterase For Malathion Through Combinatorial Active Site Mutagenesis
Plos One V. 9 94177 2014
PubMed-ID: 24721933  |  Reference-DOI: 10.1371/JOURNAL.PONE.0094177

(-) Compounds

Molecule 1 - PHOSPHOTRIESTERASE
    Chains: A
    EC Number: 3.1.8.1
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PETMCS1
    Expression System Strain: BL21
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Fragment: UNP RESIDUES 32-360
    Gene: OPDA
    Mutation: YES
    Organism Scientific: AGROBACTERIUM TUMEFACIENS
    Organism Taxid: 358

 Structural Features

(-) Chains, Units

  1
Asymmetric Unit : A
Biological Unit 1 (2x): A

Summary Information (see also Sequences/Alignments below)

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

Asymmetric Unit (5, 5)
No.NameCountTypeFull Name
1CO1Ligand/IonCOBALT (II) ION
2DPJ1Ligand/IonO,O-DIETHYL HYDROGEN THIOPHOSPHATE
3EDO1Ligand/Ion1,2-ETHANEDIOL
4FE21Ligand/IonFE (II) ION
5KCX1Mod. Amino AcidLYSINE NZ-CARBOXYLIC ACID
Biological Unit 1 (4, 8)
No.NameCountTypeFull Name
1CO-1Ligand/IonCOBALT (II) ION
2DPJ2Ligand/IonO,O-DIETHYL HYDROGEN THIOPHOSPHATE
3EDO2Ligand/Ion1,2-ETHANEDIOL
4FE22Ligand/IonFE (II) ION
5KCX2Mod. Amino AcidLYSINE NZ-CARBOXYLIC ACID

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHIS A:55 , HIS A:57 , KCX A:169 , ASP A:301 , DPJ A:403BINDING SITE FOR RESIDUE FE2 A 401
2AC2SOFTWAREKCX A:169 , HIS A:201 , HIS A:230 , DPJ A:403BINDING SITE FOR RESIDUE CO A 402
3AC3SOFTWAREHIS A:55 , HIS A:57 , TRP A:131 , KCX A:169 , HIS A:201 , HIS A:230 , ARG A:254 , TYR A:257 , LEU A:271 , ASP A:301 , LEU A:303 , FE2 A:401 , CO A:402 , EDO A:404 , HOH A:659BINDING SITE FOR RESIDUE DPJ A 403
4AC4SOFTWAREDPJ A:403BINDING SITE FOR RESIDUE EDO A 404

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4NP7)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4NP7)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4NP7)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4NP7)

(-) Exons   (0, 0)

(no "Exon" information available for 4NP7)

(-) Sequences/Alignments

Asymmetric Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
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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:329
                                                                                                                                                                                                                                                                                                                                                                         
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeee..eeee.hhh..eeeee..ee...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...eeee..hhhhh.hhhhhhhhhhhhh.eee.eee.....hhhhhh.hhhhhhhhhhhhhhh..........eeeee.....hhhhhhhhhhhhhhhhhhh..eeee.hhhhhhhhhhhhhhhhh..hhh.eee.hhhhh.hhhhhhhhhhh..eeee............hhhhhhhhh..hhhhhhhhhhhhhhh.hhh.eee......ee.....hhhhhhhhhh.hhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4np7 A  33 TGDLINTVRGPIPVSEAGFTLTHEHICGSSAGFLRAWPEFFGSRKALAEKAVRGLRHARAAGVQTIVDVSTFDIGRDVRLLAEVSRAADVHIVAATGLWFDPPLSMRMRSVEELTQFFLREIQHGIEDTGIRAGIIkVATTGKATPFQELVLKAAARASLATGVPVTTHTSASQRDGEQQAAIFESEGLSPSRVCIGHSDDTDDLSYLTGLAARGYLVGLDRMPYSAIGLEGDASALALFGTRSWQTRALLIKALIDRGYKDRILVSHDWLFGFSLAVTNIMDVMDRINPDGMAFVPLRVIPFLREKGVPPETLAGVTVANPARFLSPT 361
                                    42        52        62        72        82        92       102       112       122       132       142       152       162      |172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352         
                                                                                                                                                                  169-KCX
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 Classification and Annotation

(-) SCOP Domains  (0, 0)

(no "SCOP Domain" information available for 4NP7)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4NP7)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4NP7)

(-) Gene Ontology  (4, 4)

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 Related Entries

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

UniProtKB/TrEMBL
        Q93LD7_RHIRD | Q93LD7: 2d2g 2d2h 2d2j 2r1k 2r1l 2r1m 2r1n 2r1p 3a3w 3a3x 3a4j 3c86 3ood 3oqe 3so7 3wml

(-) Related Entries Specified in the PDB File

3wml ARPTE (S308L/Y309A) WITHOUT DPJ