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Title :   X-RAY STRUCTURE OF THE ALLENE OXIDE CYCLASE FROM ARABIDOPSIS THALIANA

Authors :   E. Hofmann, P. Zerbe, F. Schaller

Date :   06 May 05 (Deposition) - 24 Aug 06 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.50

Chains :   Asym./Biol. Unit : A,B,C

Keywords :   Cyclase, Jasmonate Synthesis, Allene Oxide Cyclase, Beta Barrel, Isomerase, Transit Peptide (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   E. Hofmann, P. Zerbe, F. Schaller
The Crystal Structure Of Arabidopsis Thaliana Allene Oxide Cyclase: Insights Into The Oxylipin Cyclization Reaction.
Plant Cell V. 18 3201 2006
PubMed-ID: 17085685 | Reference-DOI: 10.1105/TPC.106.043984

Molecule 1 - ARABIDOPSIS THALIANA GENOMIC DNA, CHROMOSOME 3, TAC CLONE:K13N2
	Chains	:	A, B, C
	EC Number	:	5.3.99.6
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Strain	:	M15
	Expression System Taxid	:	562
	Expression System Vector	:	PQE-30
	Organism Common	:	MOUSE-EAR CRESS
	Organism Scientific	:	ARABIDOPSIS THALIANA
	Organism Taxid	:	3702
	Synonym	:	ALLENE OXIDE CYCLASE, AT3G25770/K13N2_9

		1	2	3
Asymmetric/Biological Unit	:	A	B	C

Summary Information (see also Sequences/Alignments below)

Asymmetric/Biological Unit (2, 6)

No.	Name	Count	Type	Full Name
1	GOL	3	Ligand/Ion	GLYCEROL
2	MSE	3	Mod. Amino Acid	SELENOMETHIONINE

Asymmetric Unit (3, 3)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	LEU A:35 , ASN A:37 , HOH A:2185 , HOH A:2186 , HOH A:2187 , ASN B:37 , LEU C:35 , ASN C:37	BINDING SITE FOR RESIDUE GOL A1189
2	AC2	SOFTWARE	ASP A:28 , ARG A:29 , LYS A:54 , ASN A:188	BINDING SITE FOR RESIDUE GOL A1190
3	AC3	SOFTWARE	ASP C:28 , ARG C:29 , LYS C:54 , ASN C:188	BINDING SITE FOR RESIDUE GOL C1189

(no "SS Bond" information available for 2BRJ)

Asymmetric/Biological Unit

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

(no "SAP(SNP)/Variant" information available for 2BRJ)

(no "PROSITE Motif" information available for 2BRJ)

(no "Exon" information available for 2BRJ)

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
 aligned with AOC2_ARATH | Q9LS02 from UniProtKB/Swiss-Prot  Length:253

    Alignment length:174
                                    89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249    
           AOC2_ARATH    80 KVQELSVYEINELDRHSPKILKNAFSLMFGLGDLVPFTNKLYTGDLKKRVGITAGLCVVIEHVPEKKGERFEATYSFYFGDYGHLSVQGPYLTYEDSFLAITGGAGIFEGAYGQVKLQQLVYPTKLFYTFYLKGLANDLPLELTGTPVPPSKDIEPAPEAKALEPSGVISNYTN 253
               SCOP domains d2brja1 A:15-188 Allene oxide cyclase, AOC                                                                                                                                     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
                 2brj A  15 KVQELSVYEINELDRHSPKILKNAFSLmFGLGDLVPFTNKLYTGDLKKRVGITAGLCVVIEHVPEKKGERFEATYSFYFGDYGHLSVQGPYLTYEDSFLAITGGAGIFEGAYGQVKLQQLVYPTKLFYTFYLKGLANDLPLELTGTPVPPSKDIEPAPEAKALEPSGVISNYTN 188
                                    24        34       |44        54        64        74        84        94       104       114       124       134       144       154       164       174       184    
                                                      42-MSE

Chain B from PDB  Type:PROTEIN  Length:174
 aligned with AOC2_ARATH | Q9LS02 from UniProtKB/Swiss-Prot  Length:253

    Alignment length:174
                                    89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249    
           AOC2_ARATH    80 KVQELSVYEINELDRHSPKILKNAFSLMFGLGDLVPFTNKLYTGDLKKRVGITAGLCVVIEHVPEKKGERFEATYSFYFGDYGHLSVQGPYLTYEDSFLAITGGAGIFEGAYGQVKLQQLVYPTKLFYTFYLKGLANDLPLELTGTPVPPSKDIEPAPEAKALEPSGVISNYTN 253
               SCOP domains d2brjb_ B: automated matches                                                                                                                                                   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
                 2brj B  15 KVQELSVYEINELDRHSPKILKNAFSLmFGLGDLVPFTNKLYTGDLKKRVGITAGLCVVIEHVPEKKGERFEATYSFYFGDYGHLSVQGPYLTYEDSFLAITGGAGIFEGAYGQVKLQQLVYPTKLFYTFYLKGLANDLPLELTGTPVPPSKDIEPAPEAKALEPSGVISNYTN 188
                                    24        34       |44        54        64        74        84        94       104       114       124       134       144       154       164       174       184    
                                                      42-MSE

Chain C from PDB  Type:PROTEIN  Length:174
 aligned with AOC2_ARATH | Q9LS02 from UniProtKB/Swiss-Prot  Length:253

    Alignment length:174
                                    89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249    
           AOC2_ARATH    80 KVQELSVYEINELDRHSPKILKNAFSLMFGLGDLVPFTNKLYTGDLKKRVGITAGLCVVIEHVPEKKGERFEATYSFYFGDYGHLSVQGPYLTYEDSFLAITGGAGIFEGAYGQVKLQQLVYPTKLFYTFYLKGLANDLPLELTGTPVPPSKDIEPAPEAKALEPSGVISNYTN 253
               SCOP domains d2brjc_ C: automated matches                                                                                                                                                   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
                 2brj C  15 KVQELSVYEINELDRHSPKILKNAFSLmFGLGDLVPFTNKLYTGDLKKRVGITAGLCVVIEHVPEKKGERFEATYSFYFGDYGHLSVQGPYLTYEDSFLAITGGAGIFEGAYGQVKLQQLVYPTKLFYTFYLKGLANDLPLELTGTPVPPSKDIEPAPEAKALEPSGVISNYTN 188
                                    24        34       |44        54        64        74        84        94       104       114       124       134       144       154       164       174       184    
                                                      42-MSE

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 '\|'

Asymmetric/Biological Unit

Classes(

)

Folds(

)

Superfamilies( (-)

)

Families(

)

Protein Domains( (-)

)

Organisms( (-)

)

Class: All beta proteins (24004)

Fold: AOC barrel-like (13)

Superfamily: Allene oxide cyclase-like (11)

Family: Allene oxide cyclase-like (9)

Protein domain: Allene oxide cyclase, AOC (6)

Thale cress (Arabidopsis thaliana), chloroplast AOC2 [TaxId: 3702] (5)

d2brja1

A:15-188

Protein domain: automated matches (3)

Thale cress (Arabidopsis thaliana) [TaxId: 3702] (1)

2a	d2brjb_	B:
2b	d2brjc_	C:

(no "CATH Domain" information available for 2BRJ)

(no "Pfam Domain" information available for 2BRJ)

Asymmetric/Biological Unit(hide GO term definitions)

Chain A,B,C (AOC2_ARATH | Q9LS02)

molecular function
	GO:0046423	allene-oxide cyclase activity	Catalysis of the reaction: (9Z,13S,15Z)-12,13-epoxyoctadeca-9,11,15-trienoate = (15Z)-12-oxophyto-10,15-dienoate.
	GO:0016853	isomerase activity	Catalysis of the geometric or structural changes within one molecule. Isomerase is the systematic name for any enzyme of EC class 5.
biological process
	GO:0009695	jasmonic acid biosynthetic process	The chemical reactions and pathways resulting in the formation of jasmonic acid, a fatty acid derivative.
	GO:0009409	response to cold	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 cold stimulus, a temperature stimulus below the optimal temperature for that organism.
cellular component
	GO:0009507	chloroplast	A chlorophyll-containing plastid with thylakoids organized into grana and frets, or stroma thylakoids, and embedded in a stroma.
	GO:0009941	chloroplast envelope	The double lipid bilayer enclosing the chloroplast and separating its contents from the rest of the cytoplasm; includes the intermembrane space.
	GO:0009570	chloroplast stroma	The space enclosed by the double membrane of a chloroplast but excluding the thylakoid space. It contains DNA, ribosomes and some temporary products of photosynthesis.
	GO:0009535	chloroplast thylakoid membrane	The pigmented membrane of a chloroplast thylakoid. An example of this component is found in Arabidopsis thaliana.
	GO:0009536	plastid	Any member of a family of organelles found in the cytoplasm of plants and some protists, which are membrane-bounded and contain DNA. Plant plastids develop from a common type, the proplastid.
	GO:0010319	stromule	Thin filamentous structure extending from the surface of all plastid types examined so far, including chloroplast, proplastid, etioplast, leucoplast, amyloplast, and chromoplast. In general, stromules are more abundant in tissues containing non-green plastids, and in cells containing smaller plastids. The primary function of stromules is still unresolved, although the presence of stromules markedly increases the plastid surface area, potentially increasing transport to and from the cytosol. Other functions of stromules, such as transfer of macromolecules between plastids and starch granule formation in cereal endosperm, may be restricted to particular tissues and cell types.

Asymmetric/Biological Unit
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		Ser A:31 - Pro A:32	[ RasMol ]
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		Tyr A:136 - Pro A:137	[ RasMol ]
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		Tyr C:136 - Pro C:137	[ RasMol ]

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	AOC2_ARATH \| Q9LS02	:	1z8k 2dio 2gin 2q4i 4cq6 4cq7

1z8k	X-RAY STRUCTURE OF ALLENE OXIDE CYCLASE FROM ARABIDOPSISTHALIANA AT3G25770

Description

Compounds

Structural Features

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Ligands, Modified Residues, Ions (2, 6)

Sites (3, 3)

SS Bonds (0, 0)

Cis Peptide Bonds (6, 6)

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