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(-) Description

Title :  HYDROXYNITRILE LYASE COMPLEXED WITH HISTIDINE
 
Authors :  U. G. Wagner, C. Kratky
Date :  15 May 96  (Deposition) - 16 Jun 97  (Release) - 08 Sep 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.90
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (2x)
Keywords :  Oxynitrilase, Cyanogenesis, Cyanhydrin Formation, Lyase, Complex (Lyase/Peptide) (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  U. G. Wagner, M. Hasslacher, H. Griengl, H. Schwab, C. Kratky
Mechanism Of Cyanogenesis: The Crystal Structure Of Hydroxynitrile Lyase From Hevea Brasiliensis.
Structure V. 4 811 1996
PubMed-ID: 8805565  |  Reference-DOI: 10.1016/S0969-2126(96)00088-3
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - HYDROXYNITRILE LYASE
    Chains: A
    EC Number: 4.1.2.39
    Engineered: YES
    Expression System: PICHIA PASTORIS
    Expression System Gene: HNL
    Expression System Plasmid: BHIL-D2
    Expression System Taxid: 4922
    Gene: HNL
    Organ: LEAF
    Organism Scientific: HEVEA BRASILIENSIS
    Organism Taxid: 3981
    Synonym: OXYNITRILE LYASE

 Structural Features

(-) Chains, Units

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

Summary Information (see also Sequences/Alignments below)

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

Asymmetric Unit (2, 2)
No.NameCountTypeFull Name
1HIS1Mod. Amino AcidHISTIDINE
2SO41Ligand/IonSULFATE ION
Biological Unit 1 (2, 4)
No.NameCountTypeFull Name
1HIS2Mod. Amino AcidHISTIDINE
2SO42Ligand/IonSULFATE ION

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWARETHR A:137 , ASP A:139 , GLY A:140 , GLY A:232 , GLY A:233 , LYS A:241BINDING SITE FOR RESIDUE SO4 A 301
2AC2SOFTWARETHR A:11 , ILE A:12 , HIS A:14 , SER A:80 , CYS A:81 , TRP A:128 , LEU A:148 , LEU A:157 , HIS A:235 , LYS A:236BINDING SITE FOR RESIDUE HIS A 300
3CATUNKNOWNHIS A:235BINDING SITE.

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 1YAS)

(-) 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:257
 aligned with HNL_HEVBR | P52704 from UniProtKB/Swiss-Prot  Length:257

    Alignment length:257
                                                                                                                                                                                                                                                                                         257 
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251     | 
            HNL_HEVBR     2 AFAHFVLIHTICHGAWIWHKLKPLLEALGHKVTALDLAASGVDPRQIEEIGSFDEYSEPLLTFLEALPPGEKVILVGESCGGLNIAIAADKYCEKIAAAVFHNSVLPDTEHCPSYVVDKLMEVFPDWKDTTYFTYTKDGKEITGLKLGFTLLRENLYTLCGPEEYELAKMLTRKGSLFQNILAKRPFFTKEGYGSIKKIYVWTDQDEIFLPEFQLWQIENYKPDKVYKVEGGDHKLQLTKTKEIAEILQEVADTYN-   -
               SCOP domains d1yasa_ A: Hydroxynitrile lyase                                                                                                                                                                                                                                   SCOP domains
               CATH domains 1yasA00 A:2-257  [code=3.40.50.1820, no name defined]                                                                                                                                                                                                           - CATH domains
               Pfam domains ----Abhydrolase_6-1yasA01 A:6-248                                                                                                                                                                                                                      ---------- Pfam domains
         Sec.struct. author ..eeeeee...........hhhhhhhh...eeeee................hhhhhhhhhhhhhhhh.....eeeeee.hhhhhhhhhhhhhh.eeeeeeeee..........hhhhhhhhhhh......eeeeeee..eeeeeee.hhhhhhhhh....hhhhhhhhhhhh..eeehhhhhhh............eeeeee.......hhhhhhhhhhhh...eeeee.....hhhhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1yas A   2 AFAHFVLIHTICHGAWIWHKLKPLLEALGHKVTALDLAASGVDPRQIEEIGSFDEYSEPLLTFLEALPPGEKVILVGESCGGLNIAIAADKYCEKIAAAVFHNSVLPDTEHCPSYVVDKLMEVFPDWKDTTYFTYTKDGKEITGLKLGFTLLRENLYTLCGPEEYELAKMLTRKGSLFQNILAKRPFFTKEGYGSIKKIYVWTDQDEIFLPEFQLWQIENYKPDKVYKVEGGDHKLQLTKTKEIAEILQEVADTYNH 300
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251     ||
                                                                                                                                                                                                                                                                                         257|
                                                                                                                                                                                                                                                                                          300
   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  (1, 1)

Asymmetric Unit
(-)
Class: Alpha and beta proteins (a/b) (23833)

(-) CATH Domains  (1, 1)

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

(-) Pfam Domains  (1, 1)

Asymmetric Unit
(-)
Clan: AB_hydrolase (347)

(-) Gene Ontology  (3, 3)

Asymmetric Unit(hide GO term definitions)
Chain A   (HNL_HEVBR | P52704)
molecular function
    GO:0052891    aliphatic (S)-hydroxynitrile lyase activity    Catalysis of the reaction: an aliphatic (S)-hydroxynitrile = an aliphatic aldehyde or ketone + cyanide.
    GO:0052892    aromatic (S)-hydroxynitrile lyase activity    Catalysis of the reaction: an aromatic (S)-hydroxynitrile = an aromatic aldehyde + cyanide.
    GO:0016829    lyase activity    Catalysis of the cleavage of C-C, C-O, C-N and other bonds by other means than by hydrolysis or oxidation, or conversely adding a group to a double bond. They differ from other enzymes in that two substrates are involved in one reaction direction, but only one in the other direction. When acting on the single substrate, a molecule is eliminated and this generates either a new double bond or a new ring.

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 Related Entries

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

UniProtKB/Swiss-Prot
        HNL_HEVBR | P52704: 1qj4 1sc9 1sci 1sck 1scq 1yb6 1yb7 2g4l 2yas 3c6x 3c6y 3c6z 3c70 3yas 4yas 5yas 6yas 7yas

(-) Related Entries Specified in the PDB File

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