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Title :   CRYSTAL STRUCTURE OF ACC SYNTHASE COMPLEXED WITH PLP

Authors :   Q. Huai, Y. Xia, Y. Chen, B. Callahan, N. Li, H. Ke

Date :   24 Mar 01 (Deposition) - 04 Apr 01 (Release) - 13 Jul 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.80

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

Keywords :   Plp-Dependent Enzymes, Lyase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   Q. Huai, Y. Xia, Y. Chen, B. Callahan, N. Li, H. Ke
Crystal Structures Of 1-Aminocyclopropane-1-Carboxylate (Acc) Synthase In Complex With Aminoethoxyvinylglycine And Pyridoxal-5'-Phosphate Provide New Insight Into Catalytic Mechanisms
J. Biol. Chem. V. 276 38210 2001
PubMed-ID: 11431475 | Reference-DOI: 10.1074/JBC.M008127200

Molecule 1 - 1-AMINOCYCLOPROPANE-1-CARBOXYLATE SYNTHASE 2
	Chains	:	A, B
	EC Number	:	4.4.1.14
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI BL21
	Expression System Plasmid	:	PET11D
	Expression System Strain	:	BL21
	Expression System Taxid	:	511693
	Expression System Vector Type	:	PLASMID
	Fragment	:	RESIDUES 11-438
	Organism Scientific	:	SOLANUM LYCOPERSICUM
	Organism Taxid	:	4081
	Synonym	:	ACC SYNTHASE 2

		1	2
Asymmetric/Biological Unit	:	A	B

Summary Information (see also Sequences/Alignments below)

Asymmetric/Biological Unit (2, 4)

No.	Name	Count	Type	Full Name
1	PLP	2	Ligand/Ion	PYRIDOXAL-5'-PHOSPHATE
2	SO4	2	Ligand/Ion	SULFATE ION

Asymmetric Unit (4, 4)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	ALA A:54 , TYR A:152 , ASN A:209 , TYR A:240 , ARG A:412	BINDING SITE FOR RESIDUE SO4 A 600
2	AC2	SOFTWARE	LEU B:53 , ALA B:54 , TYR B:152 , ARG B:412 , PLP B:501	BINDING SITE FOR RESIDUE SO4 B 601
3	AC3	SOFTWARE	GLY A:126 , ALA A:127 , THR A:128 , TYR A:152 , ASN A:209 , ILE A:239 , TYR A:240 , SER A:275 , SER A:277 , LYS A:278 , ARG A:286	BINDING SITE FOR RESIDUE PLP A 500
4	AC4	SOFTWARE	GLY B:126 , ALA B:127 , THR B:128 , TYR B:152 , ASN B:209 , ILE B:239 , TYR B:240 , SER B:275 , SER B:277 , LYS B:278 , ARG B:286 , SO4 B:601	BINDING SITE FOR RESIDUE PLP B 501

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

Asymmetric/Biological Unit

No.	Residues
1	Asn A:70	-	Pro A:71
2	Ser A:149	-	Pro A:150
3	Asn A:206	-	Pro A:207
4	Asn A:209	-	Pro A:210
5	Thr A:247	-	Pro A:248
6	Asn B:70	-	Pro B:71
7	Ser B:149	-	Pro B:150
8	Asn B:206	-	Pro B:207
9	Asn B:209	-	Pro B:210
10	Thr B:247	-	Pro B:248

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

Asymmetric/Biological Unit (1, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	AA_TRANSFER_CLASS_1	PS00105	Aminotransferases class-I pyridoxal-phosphate attachment site.	1A12_SOLLC	275-288	2	A:275-288 B:275-288

(no "Exon" information available for 1IAX)

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:417
 aligned with 1A12_SOLLC | P18485 from UniProtKB/Swiss-Prot  Length:485

    Alignment length:428
                                    20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360       370       380       390       400       410       420       430        
           1A12_SOLLC    11 ILSKLATNEEHGENSPYFDGWKAYDSDPFHPLKNPNGVIQMGLAENQLCLDLIEDWIKRNPKGSICSEGIKSFKAIANFQDYHGLPEFRKAIAKFMEKTRGGRVRFDPERVVMAGGATGANETIIFCLADPGDAFLVPSPYYPAFNRDLRWRTGVQLIPIHCESSNNFKITSKAVKEAYENAQKSNIKVKGLILTNPSNPLGTTLDKDTLKSVLSFTNQHNIHLVCDEIYAATVFDTPQFVSIAEILDEQEMTYCNKDLVHIVYSLSKDMGLPGFRVGIIYSFNDDVVNCARKMSSFGLVSTQTQYFLAAMLSDEKFVDNFLRESAMRLGKRHKHFTNGLEVVGIKCLKNNAGLFCWMDLRPLLRESTFDSEMSLWRVIINDVKLNVSPGSSFECQEPGWFRVCFANMDDGTVDIALARIRRFVGVEK 438
               SCOP domains d1iaxa_ A     : 1-aminocyclopropane-1-carboxylate synthase (ACC s      ynthase)                                                                                                                                                                                                                                                                                                                                                              SCOP domains
               CATH domains 1iaxA01 A     :11-70,A:325-434                              1iaxA      02 A:71-324 Type I PLP-dependent aspartate aminotransferase-like (Major domain)                                                                                                                                                                    1iaxA01 A:11-70,A:325-434 Aspartate Aminotransferase, domain 1                                                ---- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhh.-----...hhhhhhhhhh...........ee........hhhhhhhhh........------hhhhhhhh.....hhhhhhhhhhhhhhhh......hhhhheeeehhhhhhhhhhhhhh....eeeee.....hhhhhh......eeeee..hhhhh...hhhhhhhhhhhhhhh...eeeeeee..........hhhhhhhhhhhhhh...eeeee..hhhhh.......hhhhhhhhhhhh..hhh.eeeeee......hhhh.eeeeee.hhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...........eeeee.hhhh...hhhhhhhhhhhhhhh..ee.ee.hhhh.....eeeee....hhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AA_TRANSFER_CL------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1iax A  11 ILSKLATNE-----SPYFDGWKAYDSDPFHPLKNPNGVIQMGLAENQLCLDLIEDWIKRNPKGSI------SFKAIANFQDYHGLPEFRKAIAKFMEKTRGGRVRFDPERVVMAGGATGANETIIFCLADPGDAFLVPSPYYPAFNRDLRWRTGVQLIPIHCESSNNFKITSKAVKEAYENAQKSNIKVKGLILTNPSNPLGTTLDKDTLKSVLSFTNQHNIHLVCDEIYAATVFDTPQFVSIAEILDEQEMTYCNKDLVHIVYSLSKDMGLPGFRVGIIYSFNDDVVNCARKMSSFGLVSTQTQYFLAAMLSDEKFVDNFLRESAMRLGKRHKHFTNGLEVVGIKCLKNNAGLFCWMDLRPLLRESTFDSEMSLWRVIINDVKLNVSPGSSFECQEPGWFRVCFANMDDGTVDIALARIRRFVGVEK 438
                                    |-    |   30        40        50        60        70    |    - |      90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360       370       380       390       400       410       420       430        
                                   19    25                                                75     82

Chain B from PDB  Type:PROTEIN  Length:417
 aligned with 1A12_SOLLC | P18485 from UniProtKB/Swiss-Prot  Length:485

    Alignment length:428
                                    20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360       370       380       390       400       410       420       430        
           1A12_SOLLC    11 ILSKLATNEEHGENSPYFDGWKAYDSDPFHPLKNPNGVIQMGLAENQLCLDLIEDWIKRNPKGSICSEGIKSFKAIANFQDYHGLPEFRKAIAKFMEKTRGGRVRFDPERVVMAGGATGANETIIFCLADPGDAFLVPSPYYPAFNRDLRWRTGVQLIPIHCESSNNFKITSKAVKEAYENAQKSNIKVKGLILTNPSNPLGTTLDKDTLKSVLSFTNQHNIHLVCDEIYAATVFDTPQFVSIAEILDEQEMTYCNKDLVHIVYSLSKDMGLPGFRVGIIYSFNDDVVNCARKMSSFGLVSTQTQYFLAAMLSDEKFVDNFLRESAMRLGKRHKHFTNGLEVVGIKCLKNNAGLFCWMDLRPLLRESTFDSEMSLWRVIINDVKLNVSPGSSFECQEPGWFRVCFANMDDGTVDIALARIRRFVGVEK 438
               SCOP domains d1iaxb_ B     : 1-aminocyclopropane-1-carboxylate synthase (ACC s      ynthase)                                                                                                                                                                                                                                                                                                                                                              SCOP domains
               CATH domains 1iaxB01 B     :11-70,B:325-434                              1iaxB      02 B:71-324 Type I PLP-dependent aspartate aminotransferase-like (Major domain)                                                                                                                                                                    1iaxB01 B:11-70,B:325-434 Aspartate Aminotransferase, domain 1                                                ---- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhh.-----...hhhhhhhhh............ee........hhhhhhhhhhh......------hhhhhhhh.....hhhhhhhhhhhhhhhh......hhhhheeeehhhhhhhhhhhhhh....eeeee.....hhhhhh......eeeee..........hhhhhhhhhhhhhhh...eeeeeee..........hhhhhhhhhhhhhh...eeeee..hhhh..........hhhhhhhhhh..hhh.eeeeee......hhhh.eeeeee.hhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..ee.......eeeee.hhhh...hhhhhhhhhhhhhhh..ee.ee.hhhh.....eeeee....hhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AA_TRANSFER_CL------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1iax B  11 ILSKLATNE-----SPYFDGWKAYDSDPFHPLKNPNGVIQMGLAENQLCLDLIEDWIKRNPKGSI------SFKAIANFQDYHGLPEFRKAIAKFMEKTRGGRVRFDPERVVMAGGATGANETIIFCLADPGDAFLVPSPYYPAFNRDLRWRTGVQLIPIHCESSNNFKITSKAVKEAYENAQKSNIKVKGLILTNPSNPLGTTLDKDTLKSVLSFTNQHNIHLVCDEIYAATVFDTPQFVSIAEILDEQEMTYCNKDLVHIVYSLSKDMGLPGFRVGIIYSFNDDVVNCARKMSSFGLVSTQTQYFLAAMLSDEKFVDNFLRESAMRLGKRHKHFTNGLEVVGIKCLKNNAGLFCWMDLRPLLRESTFDSEMSLWRVIINDVKLNVSPGSSFECQEPGWFRVCFANMDDGTVDIALARIRRFVGVEK 438
                                    |-    |   30        40        50        60        70    |    - |      90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360       370       380       390       400       410       420       430        
                                   19    25                                                75     82

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

Fold: PLP-dependent transferase-like (627)

Superfamily: PLP-dependent transferases (625)

Family: GABA-aminotransferase-like (167)

Protein domain: 1-aminocyclopropane-1-carboxylate synthase (ACC synthase) (7)

Tomato (Lycopersicon esculentum) [TaxId: 4081] (2)

1a	d1iaxa_	A:
1b	d1iaxb_	B:

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

Asymmetric/Biological Unit(hide GO term definitions)

Chain A,B (1A12_SOLLC | P18485)

molecular function
	GO:0016847	1-aminocyclopropane-1-carboxylate synthase activity	Catalysis of the reaction: S-adenosyl-L-methionine(1+) = 1-aminocyclopropane-1-carboxylate + S-methyl-5'-thioadenosine + H(+).
	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:0016829	lyase activity	Catalysis of the cleavage of C-C, C-O, C-N and other bonds by other means than by hydrolysis or oxidation, or conversely adding a group to a double bond. They differ from other enzymes in that two substrates are involved in one reaction direction, but only one in the other direction. When acting on the single substrate, a molecule is eliminated and this generates either a new double bond or a new ring.
	GO:0030170	pyridoxal phosphate binding	Interacting selectively and non-covalently with pyridoxal 5' phosphate, 3-hydroxy-5-(hydroxymethyl)-2-methyl4-pyridine carboxaldehyde 5' phosphate, the biologically active form of vitamin B6.
biological process
	GO:0042218	1-aminocyclopropane-1-carboxylate biosynthetic process	The chemical reactions and pathways resulting in the formation of 1-aminocyclopropane-1-carboxylate, a natural product found in plant tissues. It is a key intermediate in the biosynthesis of ethylene (ethene), a fruit-ripening hormone in plants.
	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:0009693	ethylene biosynthetic process	The chemical reactions and pathways resulting in the formation of ethylene (C2-H4, ethene), a simple hydrocarbon gas that can function in plants as a growth regulator.
	GO:0009835	fruit ripening	An aging process that has as participant a fruit. Ripening causes changes in one or more characteristics of a fruit (color, aroma, flavor, texture, hardness, cell wall structure) and may make it more attractive to animals and aid in seed dispersal.

Asymmetric/Biological Unit
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	Cis Peptide Bonds
		Asn A:206 - Pro A:207	[ RasMol ]
		Asn A:209 - Pro A:210	[ RasMol ]
		Asn A:70 - Pro A:71	[ RasMol ]
		Asn B:206 - Pro B:207	[ RasMol ]
		Asn B:209 - Pro B:210	[ RasMol ]
		Asn B:70 - Pro B:71	[ RasMol ]
		Ser A:149 - Pro A:150	[ RasMol ]
		Ser B:149 - Pro B:150	[ RasMol ]
		Thr A:247 - Pro A:248	[ RasMol ]
		Thr B:247 - Pro B:248	[ RasMol ]

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	1iax
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	1A12_SOLLC \| P18485	:	1iay

1iay	CRYSTAL STRUCTURE OF ACC SYNTHASE COMPLEXED WITH COFACTOR PLP AND INHIBITOR AVG

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (2, 4)

Sites (4, 4)

SS Bonds (0, 0)

Cis Peptide Bonds (10, 10)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (1, 2)

Exons (0, 0)

Sequences/Alignments

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SCOP Domains (1, 2)

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Gene Ontology (8, 8)

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