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(-) Description

Title :  CRYSTAL STRUCTURE OF NITRILE HYDRATASE FROM A THERMOPHILE BACILLUS SMITHII
 
Authors :  S. Hourai, M. Miki, Y. Takashima, S. Mitsuda, K. Yanagi
Date :  09 Oct 03  (Deposition) - 09 Oct 04  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.60
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A,B  (2x)
Keywords :  Nhase, Bacillus Smithii, Lyase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  S. Hourai, M. Miki, Y. Takashima, S. Mitsuda, K. Yanagi
Crystal Structure Of Nitrile Hydratase From A Thermophilic Bacillus Smithii
Biochem. Biophys. Res. Commun. V. 312 340 2003
PubMed-ID: 14637142  |  Reference-DOI: 10.1016/J.BBRC.2003.10.124
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - NITRILE HYDRATASE A CHAIN
    Chains: A
    EC Number: 4.2.1.84
    Organism Scientific: BACILLUS SMITHII
    Organism Taxid: 1479
 
Molecule 2 - NITRILE HYDRATASE B CHAIN
    Chains: B
    EC Number: 4.2.1.84
    Organism Scientific: BACILLUS SMITHII
    Organism Taxid: 1479

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (2x): AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 1)

Asymmetric Unit (1, 1)
No.NameCountTypeFull Name
1CO1Ligand/IonCOBALT (II) ION
Biological Unit 1 (0, 0)
No.NameCountTypeFull Name
1CO-1Ligand/IonCOBALT (II) ION

(-) Sites  (1, 1)

Asymmetric Unit (1, 1)
No.NameEvidenceResiduesDescription
1AC1SOFTWARECYS A:120 , CYS A:123 , SER A:124 , CYS A:125BINDING SITE FOR RESIDUE CO A 500

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1V29)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1V29)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1V29)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1V29)

(-) Exons   (0, 0)

(no "Exon" information available for 1V29)

(-) 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    
   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:203
 aligned with Q84FS5_9BACI | Q84FS5 from UniProtKB/TrEMBL  Length:216

    Alignment length:203
                                    20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210   
         Q84FS5_9BACI    11 DPRFPHHHPRPQSFWEARAKALESLLIEKGHLSSDAIERVIKHYEHELGPMNGAKVVAKAWTDPAFKQRLLEDSETVLRELGYYGLQGEHIRVVENTDTVHNVVVCTLCSCYPWPLLGLPPSWYKEPAYRARVVKEPRQVLKEFGLDLPDSVEIRVWDSSSEIRFMVLPQRPEGTEGMTEEELAKLVTRDSMIGVAKIEPPKV 213
               SCOP domains d1v29a_ A: Cobalt-containing nitrile hydratase                                                                                                                                                              SCOP domains
               CATH domains 1v29A00 A:15-217 Nitrile Hydratase; Chain A                                                                                                                                                                 CATH domains
               Pfam domains ---------NHase_alpha-1v29A01 A:24-212                                                                                                                                                                 ----- Pfam domains
         Sec.struct. author ...hhhhh..hhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhh...hhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhh........eeeee....eeeeee.......hhhhhh...hhhhhhhhhhhh..hhhhhhhhh........eeeeee.....eeeee..........hhhhhhh...hhhhh.......... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1v29 A  15 DPRFPHHHPRPQSFWEARAKALESLLIEKRLLSSDAIERVIKHYEHELGPMNGAKVVAKAWTDPEFKQRLLEDPETVLRELGYFGLQGEHIRVVENTDTVHNVVVCTLCSCYPWPLLGLPPSWYKEPAYRSRVVKEPRKVLQEFGLDLPDSVEIRVWDSSSEVRFMVLPQRPEGTEGMTEEELAQIVTRDSMIGVAKVQPPKV 217
                                    24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214   


Chain B from PDB  Type:PROTEIN  Length:229
                                                                                                                                                                                                                                                                     
               SCOP domains d1v29b_ B: Cobalt-containing nitrile hydratase                                                                                                                                                                                        SCOP domains
               CATH domains 1v29B01 B:1-132  [code=1.10.472.20, no name defined]                                                                                1v29B02 B:133-229  [code=2.30.30.50, no name defined]                                             CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ............................hhhhhhhhhhhhhhhhh......hhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhh.........hhhhhhhhhhhhhhh...ee...........................hhhhh..eeeeeeeeeee.hhhhhh.......eeeeeeeeehhhhhh....eeeeeeee...eee... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1v29 B   1 MNGIHDVGGMDGFGKIMYVKEEEDTYFKHDWERLTFGLVAGCMAQGLGMKAFDEFRIGIEKMRPVDYLTSSYYGHWIATVAYNLLETGVLDEKELEDRTQAFMEKPDTKIQRWENPKLVKVVEKALLEGLSPVREVSSFPRFEVGERIKTRNIHPTGHTRFPRYVRDKYGVIEEVYGAHVFPDDAAHRKGENPQYLYRVRFDAEELWGVKQNDSVYIDLWEGYLEPVSH 229
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220
   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  (2, 2)

Asymmetric Unit
(-)
Class: All beta proteins (24004)
(-)
Class: Alpha and beta proteins (a+b) (23004)

(-) CATH Domains  (3, 3)

Asymmetric Unit
(-)
Class: Alpha Beta (26913)
(-)
Class: Mainly Alpha (13335)
(-)
Class: Mainly Beta (13760)

(-) Pfam Domains  (1, 1)

Asymmetric Unit
(-)
Clan: no clan defined [family: NHase_alpha] (12)

(-) Gene Ontology  (4, 4)

Asymmetric Unit(hide GO term definitions)
Chain A   (Q84FS5_9BACI | Q84FS5)
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:0018822    nitrile hydratase activity    Catalysis of the reaction: an aliphatic amide = a nitrile + H2O.
    GO:0046914    transition metal ion binding    Interacting selectively and non-covalently with a transition metal ions; a transition metal is an element whose atom has an incomplete d-subshell of extranuclear electrons, or which gives rise to a cation or cations with an incomplete d-subshell. Transition metals often have more than one valency state. Biologically relevant transition metals include vanadium, manganese, iron, copper, cobalt, nickel, molybdenum and silver.
biological process
    GO:0006807    nitrogen compound metabolic process    The chemical reactions and pathways involving organic or inorganic compounds that contain nitrogen.

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  1v29
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 Related Entries

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

UniProtKB/TrEMBL
        Q84FS5_9BACI | Q84FS5: 2dpp 3hht

(-) Related Entries Specified in the PDB File

1ahj 1ire 2ahj