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(-) Description

Title :  THE CRYSTAL STRUCTURE OF THE ALLENE OXIDE CYCLASE 2 FROM ARABIDOPSIS THALIANA WITH BOUND INHIBITOR - VERNOLIC ACID
 
Authors :  B. A. Terlecka, S. Pollmann, E. Hofmann
Date :  11 Feb 14  (Deposition) - 04 Mar 15  (Release) - 04 Mar 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.80
Chains :  Asym./Biol. Unit :  A,B,C
Keywords :  Isomerase, Jasmonates, Cyclization, Oxylipins (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  B. A. Terlecka, S. Pollmann, E. Hofmann
The Ligand-Bound Structures Of The Aoc2 From A. Thaliana And The Implications For The Catalytic Mechanism
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - ALLENE OXIDE CYCLASE 2, CHLOROPLASTIC
    Chains: A, B, C
    EC Number: 5.3.99.6
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PQE30
    Expression System Strain: ER2566
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Fragment: RESIDUE 78-253
    Organism Common: THALE CRESS
    Organism Scientific: ARABIDOPSIS THALIANA
    Organism Taxid: 3702

 Structural Features

(-) Chains, Units

  123
Asymmetric/Biological Unit : ABC

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 4)

Asymmetric/Biological Unit (3, 4)
No.NameCountTypeFull Name
1MRD1Ligand/Ion(4R)-2-METHYLPENTANE-2,4-DIOL
2PO41Ligand/IonPHOSPHATE ION
3T252Ligand/Ion(9Z)-11-[(2R,3S)-3-PENTYLOXIRAN-2-YL]UNDEC-9-ENOIC ACID

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLU A:23 , ASN A:53 , TYR A:142 , HOH A:2022 , HOH A:2023BINDING SITE FOR RESIDUE MRD A1189
2AC2SOFTWAREALA A:38 , PHE A:39 , SER A:40 , LEU A:45 , HOH A:2052 , HOH A:2222 , HOH A:2223 , HIS C:30 , LYS C:33BINDING SITE FOR RESIDUE PO4 A1190
3AC3SOFTWAREGLU B:23 , PRO B:32 , PHE B:51 , ASN B:53 , CYS B:71 , ALA B:87 , TYR B:89 , TYR B:142 , HOH B:2019 , HOH B:2020 , HOH B:2201BINDING SITE FOR RESIDUE T25 B1189
4AC4SOFTWAREHOH A:2031 , GLU C:23 , ILE C:34 , ASN C:53 , TYR C:89 , TYR C:105 , TYR C:136 , TYR C:142 , HOH C:2017 , HOH C:2018BINDING SITE FOR RESIDUE T25 C1189

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4CQ6)

(-) Cis Peptide Bonds  (6, 6)

Asymmetric/Biological Unit
No.Residues
1Ser A:31 -Pro A:32
2Tyr A:136 -Pro A:137
3Ser B:31 -Pro B:32
4Tyr B:136 -Pro B:137
5Ser C:31 -Pro C:32
6Tyr C:136 -Pro C:137

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4CQ6)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4CQ6)

(-) Exons   (0, 0)

(no "Exon" information available for 4CQ6)

(-) 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:174
                                                                                                                                                                                                              
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..eeeeeeee.......................eeee..eeee.....eeeeeeeeeeeeeeehhhheeeeeeeeeee....eeeeeeeeee....eeeeeeeeee.....eeeeeeeeee...eeeeeeeee......hhhhh............hhhhhh.hhhh....... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4cq6 A  15 KVQELSVYEINELDRHSPKILKNAFSLMFGLGDLVPFTNKLYTGDLKKRVGITAGLCVVIEHVPEKKGERFEATYSFYFGDYGHLSVQGPYLTYEDSFLAITGGAGIFEGAYGQVKLQQLVYPTKLFYTFYLKGLANDLPLELTGTPVPPSKDIEPAPEAKALEPSGVISNYTN 188
                                    24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184    


Chain B from PDB  Type:PROTEIN  Length:174
                                                                                                                                                                                                              
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..eeeeeeee.......................eeee..eeee.....eeeeeeeeeeeeeeehhhheeeeeeeeeee....eeeeeeeeee....eeeeeeeeee.....eeeeeeeeee...eeeeeeeee......hhhhh............hhhhhh.hhhh....... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4cq6 B  15 KVQELSVYEINELDRHSPKILKNAFSLMFGLGDLVPFTNKLYTGDLKKRVGITAGLCVVIEHVPEKKGERFEATYSFYFGDYGHLSVQGPYLTYEDSFLAITGGAGIFEGAYGQVKLQQLVYPTKLFYTFYLKGLANDLPLELTGTPVPPSKDIEPAPEAKALEPSGVISNYTN 188
                                    24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184    


Chain C from PDB  Type:PROTEIN  Length:174
                                                                                                                                                                                                              
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..eeeeeeee.......................eeee..eeee.....eeeeeeeeeeeeeeehhhheeeeeeeeeee....eeeeeeeeee....eeeeeeeeee.....eeeeeeeeee...eeeeeeeee......hhhhh............hhhhhh.hhhh....... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4cq6 C  15 KVQELSVYEINELDRHSPKILKNAFSLMFGLGDLVPFTNKLYTGDLKKRVGITAGLCVVIEHVPEKKGERFEATYSFYFGDYGHLSVQGPYLTYEDSFLAITGGAGIFEGAYGQVKLQQLVYPTKLFYTFYLKGLANDLPLELTGTPVPPSKDIEPAPEAKALEPSGVISNYTN 188
                                    24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184
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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  (0, 0)

(no "SCOP Domain" information available for 4CQ6)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4CQ6)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4CQ6)

(-) Gene Ontology  (10, 10)

Asymmetric/Biological Unit(hide GO term definitions)

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 Related Entries

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        AOC2_ARATH | Q9LS02: 1z8k 2brj 2dio 2gin 2q4i 4cq7

(-) Related Entries Specified in the PDB File

4cq7 THE CRYSTAL STRUCTURE OF THE ALLENE OXIDE CYCLASE 2 FROM ARABIDOPSIS THALIANA WITH BOUND PRODUCT - OPDA