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(-) Description

Title :  ORGANOPHOSPHORUS HYDROLASE FROM DEINOCOCCUS RADIODURANS
 
Authors :  S. D. Larsen, R. Hawwa, K. Ratia, B. D. Santarsiero, A. D. Mesecar
Date :  02 Nov 07  (Deposition) - 25 Nov 08  (Release) - 23 Jun 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.90
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  A  (2x)
Keywords :  Alpha Beta Barrel, Bi-Nuclear Metal Active-Site, Carboxylated Lysine, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  S. D. Larsen, R. Hawwa, K. Ratia, B. D. Santarsiero, A. D. Mesecar
X-Ray Structural Insights Into A Phosphotriesterase
To Be Published
PubMed: search
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - PHOSPHOTRIESTERASE
    Chains: A
    EC Number: 3.1.8.1
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET15B
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Organism Scientific: DEINOCOCCUS RADIODURANS
    Organism Taxid: 1299
    Strain: R1
    Synonym: ORGANOPHOSPHORUS HYDROLASE

 Structural Features

(-) Chains, Units

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

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 7)

Asymmetric Unit (3, 7)
No.NameCountTypeFull Name
1BR4Ligand/IonBROMIDE ION
2CO2Ligand/IonCOBALT (II) ION
3KCX1Mod. Amino AcidLYSINE NZ-CARBOXYLIC ACID
Biological Unit 1 (1, 1)
No.NameCountTypeFull Name
1BR-1Ligand/IonBROMIDE ION
2CO-1Ligand/IonCOBALT (II) ION
3KCX1Mod. Amino AcidLYSINE NZ-CARBOXYLIC ACID
Biological Unit 2 (1, 2)
No.NameCountTypeFull Name
1BR-1Ligand/IonBROMIDE ION
2CO-1Ligand/IonCOBALT (II) ION
3KCX2Mod. Amino AcidLYSINE NZ-CARBOXYLIC ACID

(-) Sites  (6, 6)

Asymmetric Unit (6, 6)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREPRO A:176 , ALA A:177BINDING SITE FOR RESIDUE BR A 1
2AC2SOFTWAREASN A:175BINDING SITE FOR RESIDUE BR A 2
3AC3SOFTWAREARG A:401BINDING SITE FOR RESIDUE BR A 3
4AC4SOFTWAREHOH A:601 , HOH A:792BINDING SITE FOR RESIDUE BR A 4
5AC5SOFTWAREHIS A:121 , HIS A:123 , KCX A:243 , ASP A:364 , CO A:425 , HOH A:426BINDING SITE FOR RESIDUE CO A 424
6AC6SOFTWARETYR A:197 , KCX A:243 , HIS A:276 , HIS A:304 , CO A:424 , HOH A:426 , HOH A:427BINDING SITE FOR RESIDUE CO A 425

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2ZC1)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2ZC1)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2ZC1)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2ZC1)

(-) Exons   (0, 0)

(no "Exon" information available for 2ZC1)

(-) Sequences/Alignments

Asymmetric 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
(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:333
 aligned with Q9RVU2_DEIRA | Q9RVU2 from UniProtKB/TrEMBL  Length:323

    Alignment length:333
                                      1                                                                                                                                                                                                                                                                                                                                  
                                     -|       10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320   
         Q9RVU2_DEIRA     - ----------MTAQTVTGAVAAAQLGATLPHEHVIFGYPGYAGDVTLGPFDHAAALASCTETARALLARGIQTVVDATPNDCGRNPAFLREVSEATGLQILCATGFYYEGEGATTYFKFRASLGDAESEIYEMMRTEVTEGIAGTGIRAGVIKLASSRDAITPYEQLFFRAAARVQRETGVPIITHTQEGQQGPQQAELLTSLGADPARIMIGHMDGNTDPAYHRETLRHGVSIAFDRIGLQGMVGTPTDAERLSVLTTLLGEGYADRLLLSHDSIWHWLGRPPAIPEAALPAVKDWHPLHISDDILPDLRRRGITEEQVGQMTVGNPARLFG 323
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------PTE-2zc1A01 A:110-423                                                                                                                                                                                                                                                                                                      Pfam domains
         Sec.struct. author ............eee..eeehhhhh.eeeeeeeeee...hhhhhh.....hhhhhhhhhhhhhhhhhhh.eeeeee........hhhhhhhhhhhhh.eee.ee.........hhhhhhhhhhhhhhhhhhhhhhhhhhh..........eeeee......hhhhhhhhhhhhhhhhhhh..eeee.....hhhhhhhhhhhh..hhh.eee.hhhhh.hhhhhhhhhh...eeee............hhhhhhhhhhhhhhhhhhh.eee....eeee..........hhhhhh....hhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2zc1 A  91 SSGLVPRGSHMTAQTVTGAVAAAQLGATLPHEHVIFGYPGYAGDVTLGPFDHAAALASCTETARALLARGIQTVVDATPNDCGRNPAFLREVSEATGLQILCATGFYYEGEGATTYFKFRASLGDAESEIYEMMRTEVTEGIAGTGIRAGVIkLASSRDAITPYEQLFFRAAARVQRETGVPIITHTQEGQQGPQQAELLTSLGADPARIMIGHMDGNTDPAYHRETLRHGVSIAFDRIGLQGMVGTPTDAERLSVLTTLLGEGYADRLLLSHDSIWHWLGRPPAIPEAALPAVKDWHPLHISDDILPDLRRRGITEEQVGQMTVGNPARLFG 423
                                   100       110       120       130       140       150       160       170       180       190       200       210       220       230       240  |    250       260       270       280       290       300       310       320       330       340       350       360       370       380       390       400       410       420   
                                                                                                                                                                                  243-KCX
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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  (0, 0)

(no "SCOP Domain" information available for 2ZC1)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 2ZC1)

(-) Pfam Domains  (1, 1)

Asymmetric Unit
(-)
Clan: Amidohydrolase (126)

(-) Gene Ontology  (5, 5)

Asymmetric Unit(hide GO term definitions)
Chain A   (Q9RVU2_DEIRA | Q9RVU2)
molecular function
    GO:0016788    hydrolase activity, acting on ester bonds    Catalysis of the hydrolysis of any ester bond.
    GO:0046573    lactonohydrolase activity    Catalysis of the hydrolysis of lactone rings (intramolecular cyclic esters) to produce a hydroxyl group and a carboxyl group.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    GO:0008270    zinc ion binding    Interacting selectively and non-covalently with zinc (Zn) ions.
biological process
    GO:0009056    catabolic process    The chemical reactions and pathways resulting in the breakdown of substances, including the breakdown of carbon compounds with the liberation of energy for use by the cell or organism.

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  2zc1
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  3.1.8.1
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 Related Entries

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UniProtKB/TrEMBL
        Q9RVU2_DEIRA | Q9RVU2: 3fdk 3gtf 3gth 3gti 3gtx 3gu1 3gu2 3gu9 3htw 4j2m 4j35 4j5n

(-) Related Entries Specified in the PDB File

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