1Z1F - JenaLib

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Title :   CRYSTAL STRUCTURE OF STILBENE SYNTHASE FROM ARACHIS HYPOGAEA (RESVERATROL-BOUND FORM)

Authors :   Y. Shomura, I. Torayama, D. Y. Suh, T. Xiang, A. Kita, U. Sankawa, K. Miki

Date :   03 Mar 05 (Deposition) - 30 Aug 05 (Release) - 13 Jul 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.90

Chains :   Asym. Unit : A
Biol. Unit 1: A  (2x)

Keywords :   Stilbene, Type Iii Polyketide Synthase, Sts, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   Y. Shomura, I. Torayama, D. Y. Suh, T. Xiang, A. Kita, U. Sankawa, K. Mik
Crystal Structure Of Stilbene Synthase From Arachis Hypogae
Proteins V. 60 803 2005
PubMed-ID: 16028220 | Reference-DOI: 10.1002/PROT.20584

Molecule 1 - STILBENE SYNTHASE
	Chains	:	A
	EC Number	:	2.3.1.95
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PET32A, PET-STS
	Expression System Strain	:	BL21 (DE3) PLYSS
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Organism Common	:	PEANUT
	Organism Scientific	:	ARACHIS HYPOGAEA
	Organism Taxid	:	3818

		1
Asymmetric Unit	:	A
Biological Unit 1 (2x)	:	A

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (2, 2)

No.	Name	Count	Type	Full Name
1	CIT	1	Ligand/Ion	CITRIC ACID
2	STL	1	Ligand/Ion	RESVERATROL

Biological Unit 1 (2, 4)

No.	Name	Count	Type	Full Name
1	CIT	2	Ligand/Ion	CITRIC ACID
2	STL	2	Ligand/Ion	RESVERATROL

Asymmetric Unit (2, 2)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	LEU A:137 , CYS A:164 , GLU A:192 , ASN A:193 , THR A:194 , THR A:197 , ALA A:216 , ILE A:254 , GLY A:255 , GLY A:256 , PHE A:265 , LEU A:267 , ASN A:336 , SER A:338 , HOH A:559 , HOH A:566	BINDING SITE FOR RESIDUE STL A 400
2	AC2	SOFTWARE	TRP A:117 , GLN A:119 , LYS A:123 , ASP A:183 , ARG A:185 , ASP A:227 , VAL A:229 , GLU A:233	BINDING SITE FOR RESIDUE CIT A 401

(no "SS Bond" information available for 1Z1F)

Asymmetric Unit

No.	Residues
1	Leu A:137	-	Pro A:138

(no "SAP(SNP)/Variant" information available for 1Z1F)

(no "PROSITE Motif" information available for 1Z1F)

(no "Exon" information available for 1Z1F)

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:388
 aligned with Q9SLV5_ARAHY | Q9SLV5 from UniProtKB/TrEMBL  Length:389

    Alignment length:388
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381        
         Q9SLV5_ARAHY     2 VSVSGIRKVQRAEGPATVLAIGTANPPNCVDQSTYADYYFRVTNSEHMTDLKKKFQRICERTQIKNRHMYLTEEILKENPNMCAYKAPSLDAREDMMIREVPRVGKEAATKAIKEWGQPMSKITHLIFCTTSGVALPGVDYELIVLLGLDPSVKRYMMYHQGCFAGGTVLRLAKDLAENNKDARVLIVCSENTSVTFRGPSETDMDSLVGQALFADGAAAIIIGSDPVPEVENPLFEIVSTDQQLVPNSHGAIGGLLREVGLTFYLNKSVPDIISQNINDALSKAFDPLGISDYNSIFWIAHPGGRAILDQVEEKVNLKPEKMKATRDVLSNYGNMSSACVFFIMDLMRKKSLEAGLKTTGEGLDWGVLFGFGPGLTIETVVLRSMAI 389
               SCOP domains d1z1fa1 A:2-235 automated matches                                                                                                                                                                                                         d1z1fa2 A:236-389 automated matches                                                                                                                        SCOP domains
               CATH domains 1z1fA01 A:2-235  [code=3.40.47.10, no name defined]                                                                                                                                                                                       1z1fA02 A:236-389  [code=3.40.47.10, no name defined]                                                                                                      CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhh....eeeeeeeee....eee..hhhhhhhhhh.hhhhhhhhhhhhhhhhh....eee..........hhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhh.eeeeee.......hhhhhhhhhhh.....eeeeee....hhhhhhhhhhhhhhhhh...eeeeeeee............hhhhhhhh.....eeeeeeeee..........eeeeeeeeee.......eeeeee..eeeeee..hhhhhhhhhhhhhhhhhhhhhh.......eee....hhhhhhhhhhhhh.hhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhh.........eeee..ee...eeeeeeeee... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1z1f A   2 VSVSGIRKVQRAEGPATVLAIGTANPPNCVDQSTYADYYFRVTNSEHMTDLKKKFQRICERTQIKNRHMYLTEEILKENPNMCAYKAPSLDAREDMMIREVPRVGKEAATKAIKEWGQPMSKITHLIFCTTSGVALPGVDYELIVLLGLDPSVKRYMMYHQGCFAGGTVLRLAKDLAENNKDARVLIVCSENTSVTFRGPSETDMDSLVGQALFADGAAAIIIGSDPVPEVENPLFEIVSTDQQLVPNSHGAIGGLLREVGLTFYLNKSVPDIISQNINDALSKAFDPLGISDYNSIFWIAHPGGRAILDQVEEKVNLKPEKMKATRDVLSNYGNMSSACVFFIMDLMRKKSLEAGLKTTGEGLDWGVLFGFGPGLTIETVVLRSMAI 389
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381

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: Alpha and beta proteins (a/b) (23833)

Fold: Thiolase-like (231)

Superfamily: Thiolase-like (231)

Family: automated matches (108)

Protein domain: automated matches (108)

Peanut (Arachis hypogaea) [TaxId: 3818] (2)

d1z1fa2

A:236-389

Family: Chalcone synthase-like (56)

Protein domain: automated matches (2)

Peanut (Arachis hypogaea) [TaxId: 3818] (2)

d1z1fa1

A:2-235

Asymmetric Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Alpha Beta (26913)

Architecture: 3-Layer(aba) Sandwich (12045)

Topology: Peroxisomal Thiolase; Chain A, domain 1 (130)

Homologous Superfamily: [code=3.40.47.10, no name defined] (130)

Peanut (Arachis hypogaea) (2)

1a	1z1fA02	A:236-389
1b	1z1fA01	A:2-235

(no "Pfam Domain" information available for 1Z1F)

Asymmetric Unit(hide GO term definitions)

Chain A (Q9SLV5_ARAHY | Q9SLV5)

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.

Asymmetric Unit
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	Ligands, Modified Residues, Ions
		CIT	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]
		STL	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]

	Sites
		AC1	[ RasMol ]	+environment [ RasMol ]
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	Cis Peptide Bonds
		Leu A:137 - Pro A:138	[ RasMol ]

Biological Unit
	Complete Structure
		Biological Unit 1	[ Jena3D ]

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Access by PDB/NDB ID
	1z1f
		Family and Domain Information	:	ProDom \| SYSTERS
		General Structural Information	:	GlycoscienceDB \| MMDB \| NDB \| OCA \| PDB \| PDBe \| PDBj \| PDBsum \| PDBWiki \| PQS \| PROTEOPEDIA
		Orientation in Membranes	:	OPM
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	2.3.1.95
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UniProtKB/TrEMBL
	Q9SLV5_ARAHY \| Q9SLV5	:	1z1e

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (2, 2)

Sites (2, 2)

SS Bonds (0, 0)

Cis Peptide Bonds (1, 1)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (0, 0)

Exons (0, 0)

Sequences/Alignments

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CATH Domains (1, 2)

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Gene Ontology (6, 6)

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