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(-) Description

Title :  THE MULTIPLE PHENYLPROPENE SYNTHASES IN BOTH CLARKIA BREWERI AND PETUNIA HYBRIDA REPRESENT TWO DISTINCT LINEAGES
 
Authors :  G. V. Louie, J. P. Noel, M. E. Bowman
Date :  29 Jan 08  (Deposition) - 06 May 08  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.15
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Eugenol, Phenylpropene, Pip Reductase, Short-Chain Dehydrogenase/Reductase, Nadp, Oxidoreductase, Phenylpropanoid Metabolism (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  T. Koeduka, G. V. Louie, I. Orlova, C. M. Kish, M. Ibdah, C. G. Wilkerson, M. E. Bowman, T. J. Baiga, J. P. Noel, N. Dudareva, E. Pichersky
The Multiple Phenylpropene Synthases In Both Clarkia Breweri And Petunia Hybrida Represent Two Distinct Protein Lineages.
Plant J. V. 54 362 2008
PubMed-ID: 18208524  |  Reference-DOI: 10.1111/J.1365-313X.2008.03412.X
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - EUGENOL SYNTHASE 1
    Chains: A, B
    EC Number: 1.-.-.-
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Plasmid: PHIS8
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: EGS1
    Mutation: YES
    Organism Common: SWEET BASIL
    Organism Scientific: OCIMUM BASILICUM
    Organism Taxid: 39350

 Structural Features

(-) Chains, Units

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

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 2)

Asymmetric Unit (1, 2)
No.NameCountTypeFull Name
1NAP2Ligand/IonNADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE
Biological Unit 1 (1, 1)
No.NameCountTypeFull Name
1NAP1Ligand/IonNADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE
Biological Unit 2 (1, 1)
No.NameCountTypeFull Name
1NAP1Ligand/IonNADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLY A:14 , THR A:16 , GLY A:17 , TYR A:18 , ILE A:19 , THR A:38 , ARG A:39 , LYS A:44 , ALA A:82 , LEU A:83 , GLN A:87 , TYR A:88 , SER A:110 , ASP A:111 , PHE A:112 , GLY A:113 , ASN A:152 , CYS A:153 , PHE A:154 , PHE A:158BINDING SITE FOR RESIDUE NAP A 401
2AC2SOFTWAREGLY B:14 , THR B:16 , GLY B:17 , TYR B:18 , ILE B:19 , THR B:38 , ARG B:39 , ALA B:82 , LEU B:83 , ALA B:84 , GLN B:87 , TYR B:88 , SER B:110 , ASP B:111 , PHE B:112 , GLY B:113 , ASN B:152 , CYS B:153 , PHE B:154 , PHE B:158BINDING SITE FOR RESIDUE NAP B 401

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3C3X)

(-) Cis Peptide Bonds  (2, 2)

Asymmetric Unit
No.Residues
1Glu A:253 -Pro A:254
2Glu B:253 -Pro B:254

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3C3X)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3C3X)

(-) Exons   (0, 0)

(no "Exon" information available for 3C3X)

(-) 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:310
 aligned with EGS1_OCIBA | Q15GI4 from UniProtKB/Swiss-Prot  Length:314

    Alignment length:310
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304       314
           EGS1_OCIBA     5 GMKSKILIFGGTGYIGNHMVKGSLKLGHPTYVFTRPNSSKTTLLDEFQSLGAIIVKGELDEHEKLVELMKKVDVVISALAFPQILDQFKILEAIKVAGNIKRFLPSDFGVEEDRINALPPFEALIERKRMIRRAIEEANIPYTYVSANCFASYFINYLLRPYDPKDEITVYGTGEAKFAMNYEQDIGLYTIKVATDPRALNRVVIYRPSTNIITQLELISRWEKKIGKKFKKIHVPEEEIVALTKELPEPENIPIAILHCLFIDGATMSYDFKENDVEASTLYPELKFTTIDELLDIFVHDPPPPASAAF 314
               SCOP domains d3c3xa_ A: automated matches                                                                                                                                                                                                                                                                                           SCOP domains
               CATH domains 3c3xA01 A:5-150,A:187-209,A:275-287 NAD(P)-binding Rossmann-like Domain                                                                           3c3xA02                             3c3xA01                3c3xA02 A:151-186,A:210-274,A:288-314                            3c3xA01      3c3xA02                     CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eeee.....hhhhhhhhhhhh...eeeee.....hhhhhhhhhhh..eeee....hhhhhhhhhh...eeee..hhhhhhhhhhhhhhhhhhh...eee......hhhhh..hhhhhhhhhhhhhhhhhhhhh....eeee..eehhhhhhhhhh......eeeee.....eeeeehhhhhhhhhhhhhhhhhhh.eeee..hhh.eeehhhhhhhhhhhhh...eeeeehhhhhhhhhhhh...hhhhhhhhhhhhh.............ee.hhh.......hhhhhhhhhhhh......... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3c3x A   5 GMKSKILIFGGTGYIGNHMVKGSLKLGHPTYVFTRPNSSKTTLLDEFQSLGAIIVKGELDEHEKLVELMKKVDVVISALAVPQYLDQFKILEAIKVAGNIKRFLPSDFGVEEDRINALPPFEALIERKRMIRRAIEEANIPYTYVSANCFASYFINYLLRPYDPKDEITVYGTGEAKFAMNYEQDIGLYTIKVATDPRALNRVVIYRPSTNIITQLELISRWEKKIGKKFKKIHVPEEEIVALTKELPEPENIPIAILHCLFIDGATMSYDFKENDVEASTLYPELKFTTIDELLDIFVHDPPPPASAAF 314
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304       314


Chain B from PDB  Type:PROTEIN  Length:310
 aligned with EGS1_OCIBA | Q15GI4 from UniProtKB/Swiss-Prot  Length:314

    Alignment length:310
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304       314
           EGS1_OCIBA     5 GMKSKILIFGGTGYIGNHMVKGSLKLGHPTYVFTRPNSSKTTLLDEFQSLGAIIVKGELDEHEKLVELMKKVDVVISALAFPQILDQFKILEAIKVAGNIKRFLPSDFGVEEDRINALPPFEALIERKRMIRRAIEEANIPYTYVSANCFASYFINYLLRPYDPKDEITVYGTGEAKFAMNYEQDIGLYTIKVATDPRALNRVVIYRPSTNIITQLELISRWEKKIGKKFKKIHVPEEEIVALTKELPEPENIPIAILHCLFIDGATMSYDFKENDVEASTLYPELKFTTIDELLDIFVHDPPPPASAAF 314
               SCOP domains d3c3xb_ B: automated matches                                                                                                                                                                                                                                                                                           SCOP domains
               CATH domains 3c3xB01 B:5-150,B:187-209,B:275-287 NAD(P)-binding Rossmann-like Domain                                                                           3c3xB02                             3c3xB01                3c3xB02 B:151-186,B:210-274,B:288-314                            3c3xB01      3c3xB02                     CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eeee.....hhhhhhhhhhhh...eeeee.....hhhhhhhhhhh..eeee....hhhhhhhhhh...eeee..hhhhhhhhhhhhhhhhhhh...eee.............hhhhhhhhhhhhhhhhhhhhh....eeee..eehhhhhhhhhh......eeeee.....eeeeehhhhhhhhhhhhhhhhhhh.eeee..hhh.eeehhhhhhhhhhhhh...eeeeehhhhhhhhhhhh...hhhhhhhhhhhhh.............ee.hhh.......hhhhhhhhhhhh......... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3c3x B   5 GMKSKILIFGGTGYIGNHMVKGSLKLGHPTYVFTRPNSSKTTLLDEFQSLGAIIVKGELDEHEKLVELMKKVDVVISALAVPQYLDQFKILEAIKVAGNIKRFLPSDFGVEEDRINALPPFEALIERKRMIRRAIEEANIPYTYVSANCFASYFINYLLRPYDPKDEITVYGTGEAKFAMNYEQDIGLYTIKVATDPRALNRVVIYRPSTNIITQLELISRWEKKIGKKFKKIHVPEEEIVALTKELPEPENIPIAILHCLFIDGATMSYDFKENDVEASTLYPELKFTTIDELLDIFVHDPPPPASAAF 314
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304       314
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  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, 2)

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

(-) CATH Domains  (2, 4)

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

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3C3X)

(-) Gene Ontology  (4, 4)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (EGS1_OCIBA | Q15GI4)
molecular function
    GO:0016491    oxidoreductase activity    Catalysis of an oxidation-reduction (redox) reaction, a reversible chemical reaction in which the oxidation state of an atom or atoms within a molecule is altered. One substrate acts as a hydrogen or electron donor and becomes oxidized, while the other acts as hydrogen or electron acceptor and becomes reduced.
biological process
    GO:0055114    oxidation-reduction process    A metabolic process that results in the removal or addition of one or more electrons to or from a substance, with or without the concomitant removal or addition of a proton or protons.
    GO:0009699    phenylpropanoid biosynthetic process    The chemical reactions and pathways resulting in the formation of aromatic derivatives of trans-cinnamic acid.
    GO:0009698    phenylpropanoid metabolic process    The chemical reactions and pathways involving aromatic derivatives of trans-cinnamic acid.

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 Related Entries

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

UniProtKB/Swiss-Prot
        EGS1_OCIBA | Q15GI4: 2qw8 2qx7 2qys 2qzz 2r2g 2r6j

(-) Related Entries Specified in the PDB File

2qx7 EUGENOL SYNTHASE FROM OCIMUM BASILICUM
3c1o EUGENOL SYNTHASE 1 FROM CLARKIA BREWERI