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(-) Description

Title :  STRUCTURE OF PHENOLIC ACID DECARBOXYLASE FROM BACILLUS SUBTILIS: TYR19ALA MUTANT IN COMPLEX WITH COUMARIC ACID
 
Authors :  A. Frank, W. Eborall, R. Hyde, S. Hart, J. P. Turkenburg, G. Grogan
Date :  02 Mar 12  (Deposition) - 22 Aug 12  (Release) - 22 Aug 12  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  3.03
Chains :  Asym. Unit :  A,B,C
Biol. Unit 1:  A,B  (1x)
Biol. Unit 2:  C  (2x)
Keywords :  Lyase, Lipocalin Old, Cinnamate (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  A. Frank, W. Eborall, R. Hyde, S. Hart, J. P. Turkenburg, G. Grogan
Mutational Analysis Of Phenolic Acid Decarboxylase From Bacillus Subtilis (Bspad), Which Converts Bio-Derived Phenolic Acids To Styrene Derivatives
Catal. Sci. Technol. V. 2 1568 2012
PubMed: search  |  Reference-DOI: 10.1039/C2CY20015E

(-) Compounds

Molecule 1 - PHENOLIC ACID DECARBOXYLASE PADC
    Chains: A, B, C
    EC Number: 4.1.1.-
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector: PET-YSBLIC-3C
    Expression System Vector Type: PLASMID
    Mutation: YES
    Organism Scientific: BACILLUS SUBTILIS
    Organism Taxid: 1423
    Synonym: PAD

 Structural Features

(-) Chains, Units

  123
Asymmetric Unit : ABC
Biological Unit 1 (1x): AB 
Biological Unit 2 (2x):   C

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 3)

Asymmetric Unit (1, 3)
No.NameCountTypeFull Name
1HC43Ligand/Ion4'-HYDROXYCINNAMIC ACID
Biological Unit 1 (1, 2)
No.NameCountTypeFull Name
1HC42Ligand/Ion4'-HYDROXYCINNAMIC ACID
Biological Unit 2 (1, 2)
No.NameCountTypeFull Name
1HC42Ligand/Ion4'-HYDROXYCINNAMIC ACID

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWARETYR A:11 , TYR A:13 , TYR A:31 , ILE A:33 , ARG A:41 , GLU A:64 , LEU A:72 , ILE A:85 , PHE A:87 , HOH A:2005BINDING SITE FOR RESIDUE HC4 A1161
2AC2SOFTWARETYR B:11 , TYR B:13 , TYR B:31 , ARG B:41 , GLU B:64 , ILE B:85 , PHE B:87BINDING SITE FOR RESIDUE HC4 B1161
3AC3SOFTWARETYR C:11 , TYR C:13 , TYR C:31 , ARG C:41 , GLU C:64 , LEU C:72 , ILE C:85 , PHE C:87BINDING SITE FOR RESIDUE HC4 C1161

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (3, 3)

Asymmetric Unit
No.Residues
1Tyr A:119 -Pro A:120
2Tyr B:119 -Pro B:120
3Tyr C:119 -Pro C:120

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4ALB)

(-) 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:158
 aligned with PADC_BACSU | O07006 from UniProtKB/Swiss-Prot  Length:161

    Alignment length:158
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152        
           PADC_BACSU     3 NFIGSHMIYTYENGWEYEIYIKNDHTIDYRIHSGMVAGRWVRDQEVNIVKLTEGVYKVSWTEPTGTDVSLNFMPNEKRMHGIIFFPKWVHEHPEITVCYQNDHIDLMKESREKYETYPKYVVPEFAEITFLKNEGVDNEEVISKAPYEGMTDDIRAGR 160
               SCOP domains d4alba_ A: automated matches                                                                                                                                   SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeeeeee....eeeeee....eeeeee........eeeeee.eeeeee..eeeeeee.....eeeeeeehhh.eeeeeeeehhhhhhhhhhhh..hhhhhhhhhhhhhhh.....eeeeeeeeeeeeee...............hhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4alb A   3 NFIGSHMIYTYENGWEAEIYIKNDHTIDYRIHSGMVAGRWVRDQEVNIVKLTEGVYKVSWTEPTGTDVSLNFMPNEKRMHGIIFFPKWVHEHPEITVCYQNDHIDLMKESREKYETYPKYVVPEFAEITFLKNEGVDNEEVISKAPYEGMTDDIRAGR 160
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152        


Chain B from PDB  Type:PROTEIN  Length:159
 aligned with PADC_BACSU | O07006 from UniProtKB/Swiss-Prot  Length:161

    Alignment length:159
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151         
           PADC_BACSU     2 ENFIGSHMIYTYENGWEYEIYIKNDHTIDYRIHSGMVAGRWVRDQEVNIVKLTEGVYKVSWTEPTGTDVSLNFMPNEKRMHGIIFFPKWVHEHPEITVCYQNDHIDLMKESREKYETYPKYVVPEFAEITFLKNEGVDNEEVISKAPYEGMTDDIRAGR 160
               SCOP domains d4albb_ B: automated matches                                                                                                                                    SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eeeeeee....eeeeee....eeeeee........eeeeee.eeeeee..eeeeeee.....eeeeeeehhh.eeeeeeeehhhhhhhhhhhh..hhhhhhhhhhhhhhh.....eeeeeeeeeeeeee...............hhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4alb B   2 ENFIGSHMIYTYENGWEAEIYIKNDHTIDYRIHSGMVAGRWVRDQEVNIVKLTEGVYKVSWTEPTGTDVSLNFMPNEKRMHGIIFFPKWVHEHPEITVCYQNDHIDLMKESREKYETYPKYVVPEFAEITFLKNEGVDNEEVISKAPYEGMTDDIRAGR 160
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151         


Chain C from PDB  Type:PROTEIN  Length:158
 aligned with PADC_BACSU | O07006 from UniProtKB/Swiss-Prot  Length:161

    Alignment length:158
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152        
           PADC_BACSU     3 NFIGSHMIYTYENGWEYEIYIKNDHTIDYRIHSGMVAGRWVRDQEVNIVKLTEGVYKVSWTEPTGTDVSLNFMPNEKRMHGIIFFPKWVHEHPEITVCYQNDHIDLMKESREKYETYPKYVVPEFAEITFLKNEGVDNEEVISKAPYEGMTDDIRAGR 160
               SCOP domains d4albc_ C: automated matches                                                                                                                                   SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeeeeee....eeeeee....eeeeee........eeeeee.eeeeee..eeeeeee.....eeeeeeehhh.eeeeeeeehhhhhhhhhhhh..hhhhhhhhhhhhhhh.....eeeeeeeeeeeeee...............hhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4alb C   3 NFIGSHMIYTYENGWEAEIYIKNDHTIDYRIHSGMVAGRWVRDQEVNIVKLTEGVYKVSWTEPTGTDVSLNFMPNEKRMHGIIFFPKWVHEHPEITVCYQNDHIDLMKESREKYETYPKYVVPEFAEITFLKNEGVDNEEVISKAPYEGMTDDIRAGR 160
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152
   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, 3)

Asymmetric Unit
(-)
Class: All beta proteins (24004)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (4, 4)

Asymmetric Unit(hide GO term definitions)
Chain A,B,C   (PADC_BACSU | O07006)
molecular function
    GO:0016831    carboxy-lyase activity    Catalysis of the nonhydrolytic addition or removal of a carboxyl group to or from a compound.
    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.
biological process
    GO:0019439    aromatic compound catabolic process    The chemical reactions and pathways resulting in the breakdown of aromatic compounds, any substance containing an aromatic carbon ring.
    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

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        PADC_BACSU | O07006: 2p8g

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