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(-) Description

Title :  CRYSTAL STRUCUTRE OF PKS-I FROM THE BROWN ALGAE ECTOCARPUS SILICULOSUS
 
Authors :  C. Leroux, L. Meslet-Cladiere, L. Delage, S. Goulitquer, C. Leblanc, E V. Stiger-Pouvreau, P. Potin, M. Czjzek
Date :  03 Jul 12  (Deposition) - 10 Jul 13  (Release) - 22 Apr 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.85
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Transferase, Polyphenol Biosynthesis, Arachidonyl Group (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  L. Meslet-Cladiere, L. Delage, C. J-J Leroux, S. Goulitquer, C. Leblanc, E. Creis, E. A. Gall, V. Stiger-Pouvreau, M. Czjzek, P. Potin
Structure/Function Analysis Of A Type Iii Polyketide Synthase In The Brown Alga Ectocarpus Siliculosus Reveals A Biochemical Pathway In Phlorotannin Monomer Biosynthesis.
Plant Cell V. 25 3089 2013
PubMed-ID: 23983220  |  Reference-DOI: 10.1105/TPC.113.111336

(-) Compounds

Molecule 1 - POLYKETIDE SYNTHASE III
    Chains: A, B
    EC Number: 2.3.1.-
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Strain: BL21
    Expression System Taxid: 511693
    Expression System Variant: CODONPLUS-RILP
    Expression System Vector: PQE-80L
    Expression System Vector Type: PLASMID
    Organism Common: BROWN ALGAE
    Organism Scientific: ECTOCARPUS SILICULOSUS
    Organism Taxid: 2880
    Other Details: COVALENT LINK BETWEEN C 194 AND THE ACETYL GROUP OF THE FATTY ACID LIGAND
    Strain: EC32
    Synonym: TYPE III POLYKETIDE SYNTHASE

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 4)

Asymmetric/Biological Unit (2, 4)
No.NameCountTypeFull Name
1ACD2Ligand/IonARACHIDONIC ACID
2MLA2Ligand/IonMALONIC ACID

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLY A:164 , PHE A:165 , LEU A:166 , GLY A:169 , LEU A:188 , GLY A:190 , GLY B:190BINDING SITE FOR RESIDUE MLA A1415
2AC2SOFTWAREALA A:62 , TYR A:83 , ARG A:91 , PHE A:98 , CYS A:194 , SER A:224 , THR A:228 , PHE A:230 , HIS A:240 , PHE A:243 , LEU A:284 , ILE A:291 , LEU A:366 , HOH A:2126BINDING SITE FOR RESIDUE ACD A1416
3AC3SOFTWAREGLY A:190 , PHE A:191 , GLY B:164 , PHE B:165 , LEU B:166 , GLY B:167 , LEU B:188BINDING SITE FOR RESIDUE MLA B1415
4AC4SOFTWARETYR B:83 , ARG B:91 , PHE B:98 , CYS B:194 , SER B:224 , THR B:228 , PHE B:230 , HIS B:240 , PHE B:243 , LEU B:284 , ILE B:291 , LEU B:366BINDING SITE FOR RESIDUE ACD B1416

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4B0N)

(-) Cis Peptide Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1Gly A:403 -Val A:404
2Gly B:403 -Val B:404

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4B0N)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4B0N)

(-) Exons   (0, 0)

(no "Exon" information available for 4B0N)

(-) 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:379
 aligned with D8LJ35_ECTSI | D8LJ35 from UniProtKB/TrEMBL  Length:414

    Alignment length:379
                                    45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265       275       285       295       305       315       325       335       345       355       365       375       385       395       405         
         D8LJ35_ECTSI    36 KDEQTVYPVIAGMAIGNPQYRCTQNEALAVASKCPGLESIKPVLERIYGNSRIGSRYFAVPDFTPGRAAKGDPLFYPADGSYQVPVDVRLDKFKEKAVPLVSDVARRAIKEAGLNVEDISKLVVVSSTGFLGPGLDCELIKNLGLTRSVDRTLIGFMGCAAAMNGFRNANDYVTANPGKYALMICVELSSVHTTFDDNINDAILHAIFADGCAAAVLKGARKSECPKGTLAIVDNHAWLMEGTEDGITLAIKPNGITCTLSKFLPQYIAKNIAFFADGFLKKHKLGRDDVDFWCVHPGGRRIIEEAQNGLGLSEEQTADSWAVLGEYGNMLSPSVMFVLSRVFKRHNAALAQGKPGYQTGMAFSFSPGVGAEGILLRQI 414
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......eeeeeeeeee...eeeehhhhhhhhhhhhhhh.hhhhhhhhhhh....eeee.hhhhh....................hhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhh.eeeeeeee.......hhhhhhhhhh......eeeeee.hhhhhhhhhhhhhhhhhhhh...eeeeeeeee.hhh.....hhhhhhhhhhh.eeeeeeeeeee.........eeeeeeeeee.......eeeeee..eeeeee..hhhhhhhhhhhhhhhhhhhh...hhhhh.eeee...hhhhhhhhhhhhh.....hhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhh.......eeeeeeee...eeeeeeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4b0n A  36 KDEQTVYPVIAGMAIGNPQYRCTQNEALAVASKCPGLESIKPVLERIYGNSRIGSRYFAVPDFTPGRAAKGDPLFYPADGSYQVPVDVRLDKFKEKAVPLVSDVARRAIKEAGLNVEDISKLVVVSSTGFLGPGLDCELIKNLGLTRSVDRTLIGFMGCAAAMNGFRNANDYVTANPGKYALMICVELSSVHTTFDDNINDAILHAIFADGCAAAVLKGARKSECPKGTLAIVDNHAWLMEGTEDGITLAIKPNGITCTLSKFLPQYIAKNIAFFADGFLKKHKLGRDDVDFWCVHPGGRRIIEEAQNGLGLSEEQTADSWAVLGEYGNMLSPSVMFVLSRVFKRHNAALAQGKPGYQTGMAFSFSPGVGAEGILLRQI 414
                                    45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265       275       285       295       305       315       325       335       345       355       365       375       385       395       405         


Chain B from PDB  Type:PROTEIN  Length:379
 aligned with D8LJ35_ECTSI | D8LJ35 from UniProtKB/TrEMBL  Length:414

    Alignment length:379
                                    45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265       275       285       295       305       315       325       335       345       355       365       375       385       395       405         
         D8LJ35_ECTSI    36 KDEQTVYPVIAGMAIGNPQYRCTQNEALAVASKCPGLESIKPVLERIYGNSRIGSRYFAVPDFTPGRAAKGDPLFYPADGSYQVPVDVRLDKFKEKAVPLVSDVARRAIKEAGLNVEDISKLVVVSSTGFLGPGLDCELIKNLGLTRSVDRTLIGFMGCAAAMNGFRNANDYVTANPGKYALMICVELSSVHTTFDDNINDAILHAIFADGCAAAVLKGARKSECPKGTLAIVDNHAWLMEGTEDGITLAIKPNGITCTLSKFLPQYIAKNIAFFADGFLKKHKLGRDDVDFWCVHPGGRRIIEEAQNGLGLSEEQTADSWAVLGEYGNMLSPSVMFVLSRVFKRHNAALAQGKPGYQTGMAFSFSPGVGAEGILLRQI 414
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......eeeeeeeeee...eeeehhhhhhhhhhh.hhhhhhhhhhhhhhh....eeee.hhhhhhhhh................hhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhh.eeeeeeee.......hhhhhhhhhhh.....eeeeee.hhhhhhhhhhhhhhhhhhhh...eeeeeeeee.hhh.....hhhhhhhh....eeeeeeeeeee.........eeeeeeeeee.......eeeeee..eeeeee..hhhhhhhhhhhhhhhhhhhh...hhhhh.eeee...hhhhhhhhhhhhh.....hhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhh......eeeeeeee...eeeeeeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4b0n B  36 KDEQTVYPVIAGMAIGNPQYRCTQNEALAVASKCPGLESIKPVLERIYGNSRIGSRYFAVPDFTPGRAAKGDPLFYPADGSYQVPVDVRLDKFKEKAVPLVSDVARRAIKEAGLNVEDISKLVVVSSTGFLGPGLDCELIKNLGLTRSVDRTLIGFMGCAAAMNGFRNANDYVTANPGKYALMICVELSSVHTTFDDNINDAILHAIFADGCAAAVLKGARKSECPKGTLAIVDNHAWLMEGTEDGITLAIKPNGITCTLSKFLPQYIAKNIAFFADGFLKKHKLGRDDVDFWCVHPGGRRIIEEAQNGLGLSEEQTADSWAVLGEYGNMLSPSVMFVLSRVFKRHNAALAQGKPGYQTGMAFSFSPGVGAEGILLRQI 414
                                    45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265       275       285       295       305       315       325       335       345       355       365       375       385       395       405
   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  (0, 0)

(no "SCOP Domain" information available for 4B0N)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4B0N)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4B0N)

(-) Gene Ontology  (6, 6)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B   (D8LJ35_ECTSI | D8LJ35)
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:0016740    transferase activity    Catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from one compound (generally regarded as the donor) to another compound (generally regarded as the acceptor). Transferase is the systematic name for any enzyme of EC class 2.
    GO:0016746    transferase activity, transferring acyl groups    Catalysis of the transfer of an acyl group from one compound (donor) to another (acceptor).
    GO:0016747    transferase activity, transferring acyl groups other than amino-acyl groups    Catalysis of the transfer of an acyl group, other than amino-acyl, from one compound (donor) to another (acceptor).
biological process
    GO:0009058    biosynthetic process    The chemical reactions and pathways resulting in the formation of substances; typically the energy-requiring part of metabolism in which simpler substances are transformed into more complex ones.
    GO:0008152    metabolic process    The chemical reactions and pathways, including anabolism and catabolism, by which living organisms transform chemical substances. Metabolic processes typically transform small molecules, but also include macromolecular processes such as DNA repair and replication, and protein synthesis and degradation.

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    Gly A:403 - Val A:404   [ RasMol ]  
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