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(-) Description

Title :  CRYSTALLOGRAPHIC ANALYSIS OF THE CATALYTIC MECHANISM OF HALOALKANE DEHALOGENASE
 
Authors :  K. H. G. Verschueren, B. W. Dijkstra
Date :  08 Sep 93  (Deposition) - 31 Jul 94  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.13
Chains :  Asym./Biol. Unit :  A
Keywords :  Dehalogenase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  K. H. Verschueren, F. Seljee, H. J. Rozeboom, K. H. Kalk, B. W. Dijkstra
Crystallographic Analysis Of The Catalytic Mechanism Of Haloalkane Dehalogenase.
Nature V. 363 693 1993
PubMed-ID: 8515812  |  Reference-DOI: 10.1038/363693A0
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - HALOALKANE DEHALOGENASE
    Chains: A
    EC Number: 3.8.1.5
    Engineered: YES
    Organism Scientific: XANTHOBACTER AUTOTROPHICUS
    Organism Taxid: 280

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 2)

Asymmetric/Biological Unit (2, 2)
No.NameCountTypeFull Name
10AK1Mod. Amino Acid(2S)-2-AMINO-4-(2-CHLOROETHOXY)-4-OXOBUTANOIC ACID
2CL1Ligand/IonCHLORIDE ION

(-) Sites  (1, 1)

Asymmetric Unit (1, 1)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLU A:56 , 0AK A:124 , TRP A:125 , TRP A:175 , PRO A:223BINDING SITE FOR RESIDUE CL A 552

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1Glu A:56 -Pro A:57
2Gln A:167 -Pro A:168

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 2DHD)

(-) 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:310
 aligned with DHLA_XANAU | P22643 from UniProtKB/Swiss-Prot  Length:310

    Alignment length:310
                                    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
           DHLA_XANAU     1 MINAIRTPDQRFSNLDQYPFSPNYLDDLPGYPGLRAHYLDEGNSDAEDVFLCLHGEPTWSYLYRKMIPVFAESGARVIAPDFFGFGKSDKPVDEEDYTFEFHRNFLLALIERLDLRNITLVVQDWGGFLGLTLPMADPSRFKRLIIMNACLMTDPVTQPAFSAFVTQPADGFTAWKYDLVTPSDLRLDQFMKRWAPTLTEAEASAYAAPFPDTSYQAGVRKFPKMVAQRDQACIDISTEAISFWQNDWNGQTFMAIGMKDKLLGPDVMYPMKALINGCPEPLEIADAGHFVQEFGEQVAREALKHFAETE 310
               SCOP domains d2dhda_ A: Haloalkane dehalogenase                                                                                                                                                                                                                                                                                     SCOP domains
               CATH domains 2dhdA00 A:1-310  [code=3.40.50.1820, no name defined]                                                                                                                                                                                                                                                                  CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....................eeeee..........eeeeee.......eeeeee.....hhhhhhhhhhhhh...eeeee..................hhhhhhhhhhhhhh.....eeeee..................eeeeeee...........hhhhhh.......hhhhhhhhh......hhhhhhhh.....hhhhhhhh.....hhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhh....eeeeeee.......hhhhhhhhhh.....eeeee......hhhhhhhhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2dhd A   1 MINAIRTPDQRFSNLDQYPFSPNYLDDLPGYPGLRAHYLDEGNSDAEDVFLCLHGEPTWSYLYRKMIPVFAESGARVIAPDFFGFGKSDKPVDEEDYTFEFHRNFLLALIERLDLRNITLVVQdWGGFLGLTLPMADPSRFKRLIIMNACLMTDPVTQPAFSAFVTQPADGFTAWKYDLVTPSDLRLDQFMKRWAPTLTEAEASAYAAPFPDTSYQAGVRKFPKMVAQRDQACIDISTEAISFWQNDWNGQTFMAIGMKDKLLGPDVMYPMKALINGCPEPLEIADAGHFVQEFGEQVAREALKHFAETE 310
                                    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
                                                                                                                                                     124-0AK
   Legend:   → Mismatch (orange background)
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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
(-)
Class: Alpha and beta proteins (a/b) (23833)

(-) CATH Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Class: Alpha Beta (26913)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2DHD)

(-) Gene Ontology  (5, 5)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (DHLA_XANAU | P22643)
molecular function
    GO:0003824    catalytic activity    Catalysis of a biochemical reaction at physiological temperatures. In biologically catalyzed reactions, the reactants are known as substrates, and the catalysts are naturally occurring macromolecular substances known as enzymes. Enzymes possess specific binding sites for substrates, and are usually composed wholly or largely of protein, but RNA that has catalytic activity (ribozyme) is often also regarded as enzymatic.
    GO:0018786    haloalkane dehalogenase activity    Catalysis of the reaction: 1-haloalkane + H2O = a primary alcohol + halide.
    GO:0016787    hydrolase activity    Catalysis of the hydrolysis of various bonds, e.g. C-O, C-N, C-C, phosphoric anhydride bonds, etc. Hydrolase is the systematic name for any enzyme of EC class 3.
biological process
    GO:0019260    1,2-dichloroethane catabolic process    The chemical reactions and pathways resulting in the breakdown of 1,2-dichloroethane, a major commodity chemical used, for example, in the manufacture of vinyl chloride.
    GO:0009636    response to toxic substance    Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a toxic stimulus.

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 Related Entries

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

UniProtKB/Swiss-Prot
        DHLA_XANAU | P22643: 1b6g 1be0 1bee 1bez 1cij 1edb 1edd 1ede 1hde 2dhc 2dhe 2eda 2edc 2had 2pky 2yxp

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