4H6A - JenaLib

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Title :   CRYSTAL STRUCTURE OF THE ALLENE OXIDE CYCLASE 2 FROM PHYSCOMITRELLA PATENS

Authors :   P. Neumann, R. Ficner

Date :   19 Sep 12 (Deposition) - 17 Oct 12 (Release) - 12 Dec 12 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.95

Chains :   Asym. Unit : A,B,C,D,E,F
Biol. Unit 1: A,B,D  (1x)
Biol. Unit 2: C,E,F  (1x)

Keywords :   B-Barrel, Oxylipins, Fatty Acid, Metabolites, Allene-Oxide Cyclase Activity, Isomerase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   P. Neumann, F. Brodhun, K. Sauer, C. Herrfurth, M. Hamberg, J. Brinkmann, J. Scholz, A. Dickmanns, I. Feussner, R. Ficner
Crystal Structures Of Physcomitrella Patens Aoc1 And Aoc2: Insights Into The Enzyme Mechanism And Differences In Substrate Specificity.
Plant Physiol. V. 160 1251 2012
PubMed-ID: 22987885 | Reference-DOI: 10.1104/PP.112.205138

Molecule 1 - ALLENE OXIDE CYCLASE
	Chains	:	A, B, C, D, E, F
	EC Number	:	5.3.99.6
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PGEX-6-P-1
	Expression System Strain	:	BL21(DE3)
	Expression System Taxid	:	469008
	Expression System Vector Type	:	PLASMID
	Gene	:	AOC2, PHYPADRAFT_158446
	Organism Common	:	MOSS
	Organism Scientific	:	PHYSCOMITRELLA PATENS SUBSP. PATENS
	Organism Taxid	:	145481

		1	2	3	4	5	6
Asymmetric Unit	:	A	B	C	D	E	F
Biological Unit 1 (1x)	:	A	B		D
Biological Unit 2 (1x)	:			C		E	F

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (4, 12)

No.	Name	Count	Type	Full Name
1	IPA	7	Ligand/Ion	ISOPROPYL ALCOHOL
2	MPD	3	Ligand/Ion	(4S)-2-METHYL-2,4-PENTANEDIOL
3	MRD	1	Ligand/Ion	(4R)-2-METHYLPENTANE-2,4-DIOL
4	SO4	1	Ligand/Ion	SULFATE ION

Biological Unit 1 (3, 6)

No.	Name	Count	Type	Full Name
1	IPA	3	Ligand/Ion	ISOPROPYL ALCOHOL
2	MPD	2	Ligand/Ion	(4S)-2-METHYL-2,4-PENTANEDIOL
3	MRD	-1	Ligand/Ion	(4R)-2-METHYLPENTANE-2,4-DIOL
4	SO4	1	Ligand/Ion	SULFATE ION

Biological Unit 2 (3, 6)

No.	Name	Count	Type	Full Name
1	IPA	4	Ligand/Ion	ISOPROPYL ALCOHOL
2	MPD	1	Ligand/Ion	(4S)-2-METHYL-2,4-PENTANEDIOL
3	MRD	1	Ligand/Ion	(4R)-2-METHYLPENTANE-2,4-DIOL
4	SO4	-1	Ligand/Ion	SULFATE ION

Asymmetric Unit (10, 10)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	GLU A:18 , PRO A:27 , VAL A:50 , PHE A:52 , ASN A:54 , CYS A:72 , TYR A:106 , HOH A:383	BINDING SITE FOR RESIDUE MPD A 201
02	AC2	SOFTWARE	HOH A:317 , HOH A:429	BINDING SITE FOR RESIDUE IPA A 202
03	AC3	SOFTWARE	GLN B:12 , HOH B:319 , HOH B:388	BINDING SITE FOR RESIDUE IPA B 201
04	AC4	SOFTWARE	TYR B:106	BINDING SITE FOR RESIDUE IPA B 202
05	AC5	SOFTWARE	GLU C:18 , ILE C:29 , PHE C:52 , ASN C:54 , TYR C:90 , TYR C:143	BINDING SITE FOR RESIDUE MPD C 201
06	AC6	SOFTWARE	PRO B:51 , LEU D:46 , ILE D:75	BINDING SITE FOR RESIDUE SO4 D 201
07	AC7	SOFTWARE	GLU D:18 , ILE D:29 , PHE D:52 , ASN D:54 , HOH D:367	BINDING SITE FOR RESIDUE MPD D 202
08	AC8	SOFTWARE	TYR E:106 , PHE E:137	BINDING SITE FOR RESIDUE IPA E 203
09	AC9	SOFTWARE	GLU F:18 , PHE F:52 , ASN F:54 , CYS F:72 , LEU F:141 , TYR F:143	BINDING SITE FOR RESIDUE MRD F 201
10	BC1	SOFTWARE	TYR F:86 , PRO F:138	BINDING SITE FOR RESIDUE IPA F 202

(no "SS Bond" information available for 4H6A)

Asymmetric Unit

No.	Residues
1	Ser A:26	-	Pro A:27
2	Phe A:137	-	Pro A:138
3	Phe B:137	-	Pro B:138
4	Phe C:137	-	Pro C:138
5	Phe D:137	-	Pro D:138
6	Ser E:26	-	Pro E:27
7	Phe E:137	-	Pro E:138
8	Ser F:26	-	Pro F:27
9	Phe F:137	-	Pro F:138

(no "SAP(SNP)/Variant" information available for 4H6A)

(no "PROSITE Motif" information available for 4H6A)

(no "Exon" information available for 4H6A)

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:194
                                                                                                                                                                                                                                  
               SCOP domains d4h6aa_ A: automated matches                                                                                                                                                                       SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhheeeeeeeee...............ee.....ee.....eeee..eeee.....eeeeeeeeeeeee........eeeeeeeee.hhh.eeeeeeeee....eeeeeeee.hhhh..eeeeeeeeee...eeeeeeeee.....hhhhh............hhhhhh.hhhhh...... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4h6a A  -5 GGPLGSMGNKVDKLAGVQELSVYEINERDRGSPVILPFGGKKDENGAHANSLGDLVPFSNKVYDGSLQRRLGITAGICTLISHNAEKKGDRYEAQYSFYFGDYGHISVQGPYITYEDTELVVTGGTGIFAGCHGVAKLHQIIFPVKLFYTFYLQGIKKLPEELCASVVPPSPSAEPSEQAKKCHPSSVAPNFTN 188
                                     4        14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184

Chain B from PDB  Type:PROTEIN  Length:180
                                                                                                                                                                                                                    
               SCOP domains d4h6ab_ B: automated matches                                                                                                                                                         SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhheeeeeeeee...............eeee..eeee.....eeeeeeeeeeeeeee....eeeeeeeeeee.hhh.eeeeeeeee....eeeeeeee.hhhh..eeeeeeeeee...eeeeeeeee.....hhhhh............hhhhhh.hhhhh...... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4h6a B  -5 GGPLGSMGNKVDKLAGVQELSVYEINERDRGSPVANSLGDLVPFSNKVYDGSLQRRLGITAGICTLISHNAEKKGDRYEAQYSFYFGDYGHISVQGPYITYEDTELVVTGGTGIFAGCHGVAKLHQIIFPVKLFYTFYLQGIKKLPEELCASVVPPSPSAEPSEQAKKCHPSSVAPNFTN 188
                                     4        14        24   ||   48        58        68        78        88        98       108       118       128       138       148       158       168       178       188
                                                            28|                                                                                                                                                 
                                                             43

Chain C from PDB  Type:PROTEIN  Length:181
                                                                                                                                                                                                                     
               SCOP domains d4h6ac_ C: automated matches                                                                                                                                                          SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhheeeeeeeee................eeee..eeee.....eeeeeeeeeeeeeee....eeeeeeeeeee.hhh.eeeeeeeee....eeeeeeee.hhhh..eeeeeeeeee...eeeeeeeee.....hhhhh............hhhhhh.hhhhh...... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4h6a C  -5 GGPLGSMGNKVDKLAGVQELSVYEINERDRGSPVIANSLGDLVPFSNKVYDGSLQRRLGITAGICTLISHNAEKKGDRYEAQYSFYFGDYGHISVQGPYITYEDTELVVTGGTGIFAGCHGVAKLHQIIFPVKLFYTFYLQGIKKLPEELCASVVPPSPSAEPSEQAKKCHPSSVAPNFTN 188
                                     4        14        24    ||  47        57        67        77        87        97       107       117       127       137       147       157       167       177       187 
                                                             29|                                                                                                                                                 
                                                              43

Chain D from PDB  Type:PROTEIN  Length:179
                                                                                                                                                                                                                   
               SCOP domains d4h6ad_ D: automated matches                                                                                                                                                        SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhheeeeeeeee..............eeee..eeee.....eeeeeeeeeeeeeee....eeeeeeeeeee.hhh.eeeeeeeee....eeeeeeee.hhhh..eeeeeeeeee...eeeeeeeee.....hhhhh............hhhhhh.hhhhh...... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4h6a D  -5 GGPLGSMGNKVDKLAGVQELSVYEINERDRGSPVISLGDLVPFSNKVYDGSLQRRLGITAGICTLISHNAEKKGDRYEAQYSFYFGDYGHISVQGPYITYEDTELVVTGGTGIFAGCHGVAKLHQIIFPVKLFYTFYLQGIKKLPEELCASVVPPSPSAEPSEQAKKCHPSSVAPNFTN 188
                                     4        14        24    ||  49        59        69        79        89        99       109       119       129       139       149       159       169       179         
                                                             29|                                                                                                                                               
                                                              45

Chain E from PDB  Type:PROTEIN  Length:193
                                                                                                                                                                                                                                 
               SCOP domains d4h6ae_ E: automated matches                                                                                                                                                                      SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhh...eeeeeeeee...............ee.....ee.....eeee..eeee.....eeeeeeeeeeeee........eeeeeeeee.hhh.eeeeeeeee....eeeeeeee.hhhh..eeeeeeeeee...eeeeeeeee.....hhhhh............hhhhhh.hhhhh...... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4h6a E  -4 GPLGSMGNKVDKLAGVQELSVYEINERDRGSPVILPFGGKKDENGAHANSLGDLVPFSNKVYDGSLQRRLGITAGICTLISHNAEKKGDRYEAQYSFYFGDYGHISVQGPYITYEDTELVVTGGTGIFAGCHGVAKLHQIIFPVKLFYTFYLQGIKKLPEELCASVVPPSPSAEPSEQAKKCHPSSVAPNFTN 188
                                     5        15        25        35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185

Chain F from PDB  Type:PROTEIN  Length:180
                                                                                                                                                                                                                    
               SCOP domains d4h6af_ F: automated matches                                                                                                                                                         SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .hhhhhhhhhhhh..eeeeeeeee................eeee..eeee.....eeeeeeeeeeeeeee....eeeeeeeeeee.hhh.eeeeeeeee....eeeeeeee.hhhh..eeeeeeeeee...eeeeeeeee.....hhhhh............hhhhhh.hhhhh...... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4h6a F  -4 GPLGSMGNKVDKLAGVQELSVYEINERDRGSPVILPSLGDLVPFSNKVYDGSLQRRLGITAGICTLISHNAEKKGDRYEAQYSFYFGDYGHISVQGPYITYEDTELVVTGGTGIFAGCHGVAKLHQIIFPVKLFYTFYLQGIKKLPEELCASVVPPSPSAEPSEQAKKCHPSSVAPNFTN 188
                                     5        15        25     || 48        58        68        78        88        98       108       118       128       138       148       158       168       178       188
                                                              31|                                                                                                                                               
                                                               45

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 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: automated matches (2)

Protein domain: automated matches (2)

Physcomitrella patens [TaxId: 145481] (2)

1a	d4h6aa_	A:
1b	d4h6ab_	B:
1c	d4h6ac_	C:
1d	d4h6ad_	D:
1e	d4h6ae_	E:
1f	d4h6af_	F:

(no "CATH Domain" information available for 4H6A)

(no "Pfam Domain" information available for 4H6A)

Asymmetric Unit(hide GO term definitions)

Asymmetric Unit
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	Cis Peptide Bonds
		Phe A:137 - Pro A:138	[ RasMol ]
		Phe B:137 - Pro B:138	[ RasMol ]
		Phe C:137 - Pro C:138	[ RasMol ]
		Phe D:137 - Pro D:138	[ RasMol ]
		Phe E:137 - Pro E:138	[ RasMol ]
		Phe F:137 - Pro F:138	[ RasMol ]
		Ser A:26 - Pro A:27	[ RasMol ]
		Ser E:26 - Pro E:27	[ RasMol ]
		Ser F:26 - Pro F:27	[ RasMol ]

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Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (4, 12)

Sites (10, 10)

SS Bonds (0, 0)

Cis Peptide Bonds (9, 9)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

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