1DJ2 - JenaLib

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Title :   STRUCTURES OF ADENYLOSUCCINATE SYNTHETASE FROM TRITICUM AESTIVUM AND ARABIDOPSIS THALIANA

Authors :   L. Prade, S. W. Cowan-Jacob, P. Chemla, S. Potter, E. Ward, R. Fonne- Pfister

Date :   01 Dec 99 (Deposition) - 24 Mar 00 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.90

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

Keywords :   Gdp, Ligase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   L. Prade, S. W. Cowan-Jacob, P. Chemla, S. Potter, E. Ward, R. Fonne-Pfister
Structures Of Adenylosuccinate Synthetase From Triticum Aestivum And Arabidopsis Thaliana.
J. Mol. Biol. V. 296 569 2000
PubMed-ID: 10669609 | Reference-DOI: 10.1006/JMBI.1999.3473
(for further references see the PDB file header)

Molecule 1 - ADENYLOSUCCINATE SYNTHETASE
	Chains	:	A, B
	EC Number	:	6.3.4.4
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Cellular Location	:	CYTOSOL
	Expression System Taxid	:	562
	Expression System Vector	:	PET16B
	Organism Common	:	THALE CRESS
	Organism Scientific	:	ARABIDOPSIS THALIANA
	Organism Taxid	:	3702

		1	2
Asymmetric/Biological Unit	:	A	B

Summary Information (see also Sequences/Alignments below)

Asymmetric/Biological Unit (1, 2)

No.	Name	Count	Type	Full Name
1	GDP	2	Ligand/Ion	GUANOSINE-5'-DIPHOSPHATE

Asymmetric Unit (2, 2)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	GLY A:30 , ASP A:31 , GLY A:33 , LYS A:34 , GLY A:35 , LYS A:36 , GLY A:58 , HIS A:59 , THR A:60 , TYR A:62 , LYS A:349 , ASP A:351 , GLY A:432 , ILE A:433 , GLY A:434	BINDING SITE FOR RESIDUE GDP A 500
2	AC2	SOFTWARE	GLY B:30 , ASP B:31 , GLY B:33 , LYS B:34 , GLY B:35 , LYS B:36 , GLY B:58 , HIS B:59 , THR B:60 , TYR B:62 , LYS B:349 , ASP B:351 , GLY B:432 , ILE B:433 , GLY B:434 , PRO B:435	BINDING SITE FOR RESIDUE GDP B 600

(no "SS Bond" information available for 1DJ2)

Asymmetric/Biological Unit

No.	Residues
1	Tyr A:253	-	Pro A:254
2	Tyr B:253	-	Pro B:254

(no "SAP(SNP)/Variant" information available for 1DJ2)

Asymmetric/Biological Unit (2, 4)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	ADENYLOSUCCIN_SYN_1	PS01266	Adenylosuccinate synthetase GTP-binding site.	PURA_ARATH	75-82	2	A:28-35 B:28-35
2	ADENYLOSUCCIN_SYN_2	PS00513	Adenylosuccinate synthetase active site.	PURA_ARATH	198-209	2	A:151-162 B:151-162

(no "Exon" information available for 1DJ2)

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:429
 aligned with PURA_ARATH | Q96529 from UniProtKB/Swiss-Prot  Length:490

    Alignment length:429
                                    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       391       401       411       421       431       441       451       461       471       481         
           PURA_ARATH    62 IGSLSQVSGVLGCQWGDEGKGKLVDILAQHFDIVARCQGGANAGHTIYNSEGKKFALHLVPSGILNEDTTCVIGNGVVVHLPGLFKEIDGLESNGVSCKGRILVSDRAHLLFDFHQEVDGLRESELAKSFIGTTKRGIGPAYSSKVIRNGIRVGDLRHMDTLPQKLDLLLSDAAARFQGFKYTPEMLREEVEAYKRYADRLEPYITDTVHFINDSISQKKKVLVEGGQATMLDIDFGTYPFVTSSSPSAGGICTGLGIAPSVVGDLIGVVKAYTTRVGSGPFPTENLGTGGDLLRLAGQEFGTTTGRPRRCGWLDIVALKFSCQINGFASLNLTKLDVLSDLNEIQLGVAYKRSDGTPVKSFPGDLRLLEELHVEYEVLPGWKSDISSVRNYSDLPKAAQQYVERIEELVGVPIHYIGIGPGRDALIYK 490
               SCOP domains d1dj2a_ A: Adenylosuccinate synthetase, PurA                                                                                                                                                                                                                                                                                                                                                                                                  SCOP domains
               CATH domains ----1dj2A01 A:19-119,A:219-283 Adenylosuccinate Synthetase, subunit A, domain 1                          1dj2A02 A:120-218 Adenylosuccinate Synthetase, subunit A, domain 2                                 1dj2A01 A:19-119,A:219-283                                       1dj2A03 A:284-443 Adenylosuccinate Synthetase, subunit A, domain 3                                                                                               CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......eeeeee......hhhhhhhhhhhhh.eeee........eeee.....eeee...hhhhhh...eeee....eehhhhhhhhhhhhhh........eeee...ee.hhhhhhhhhhhhhhh..........hhhhhhhhhhh.....hhhhhh..hhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhh..eehhhhhhhhhhhh...eeeeeeee.hhh...............hhhhhhh..........eeeeee.eeee...........hhhhhhhhhhhh..........eeeeeehhhhhhhhhhhh..eeeeehhhhhhhh.eeeeeeeee............hhhhhhhheeeeeeee...............hhhhhhhhhhhhhhhh..eeeee.......eee. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------ADENYLOS-------------------------------------------------------------------------------------------------------------------ADENYLOSUCCI----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1dj2 A  15 IGSLSQVSGVLGCQWGDEGKGKLVDILAQHFDIVARCQGGANAGHTIYNSEGKKFALHLVPSGILNEDTTCVIGNGVVVHLPGLFKEIDGLESNGVSCKGRILVSDRAHLLFDFHQEVDGLRESELAKSFIGTTKRGIGPAYSSKVIRNGIRVGDLRHMDTLPQKLDLLLSDAAARFQGFKYTPEMLREEVEAYKRYADRLEPYITDTVHFINDSISQKKKVLVEGGQATMLDIDFGTYPFVTSSSPSAGGICTGLGIAPSVVGDLIGVVKAYTTRVGSGPFPTENLGTGGDLLRLAGQEFGTTTGRPRRCGWLDIVALKFSCQINGFASLNLTKLDVLSDLNEIQLGVAYKRSDGTPVKSFPGDLRLLEELHVEYEVLPGWKSDISSVRNYSDLPKAAQQYVERIEELVGVPIHYIGIGPGRDALIYK 443
                                    24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304       314       324       334       344       354       364       374       384       394       404       414       424       434

Chain B from PDB  Type:PROTEIN  Length:429
 aligned with PURA_ARATH | Q96529 from UniProtKB/Swiss-Prot  Length:490

    Alignment length:429
                                    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       391       401       411       421       431       441       451       461       471       481         
           PURA_ARATH    62 IGSLSQVSGVLGCQWGDEGKGKLVDILAQHFDIVARCQGGANAGHTIYNSEGKKFALHLVPSGILNEDTTCVIGNGVVVHLPGLFKEIDGLESNGVSCKGRILVSDRAHLLFDFHQEVDGLRESELAKSFIGTTKRGIGPAYSSKVIRNGIRVGDLRHMDTLPQKLDLLLSDAAARFQGFKYTPEMLREEVEAYKRYADRLEPYITDTVHFINDSISQKKKVLVEGGQATMLDIDFGTYPFVTSSSPSAGGICTGLGIAPSVVGDLIGVVKAYTTRVGSGPFPTENLGTGGDLLRLAGQEFGTTTGRPRRCGWLDIVALKFSCQINGFASLNLTKLDVLSDLNEIQLGVAYKRSDGTPVKSFPGDLRLLEELHVEYEVLPGWKSDISSVRNYSDLPKAAQQYVERIEELVGVPIHYIGIGPGRDALIYK 490
               SCOP domains d1dj2b_ B: Adenylosuccinate synthetase, PurA                                                                                                                                                                                                                                                                                                                                                                                                  SCOP domains
               CATH domains ----1dj2B01 B:19-119,B:219-283 Adenylosuccinate Synthetase, subunit A, domain 1                          1dj2B02 B:120-218 Adenylosuccinate Synthetase, subunit A, domain 2                                 1dj2B01 B:19-119,B:219-283                                       1dj2B03 B:284-443 Adenylosuccinate Synthetase, subunit A, domain 3                                                                                               CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......eeeeee......hhhhhhhhhhhhh.eeee........eeee.....eeee...hhhhhh...eeee....eehhhhhhhhhhhhhh........eeee...ee.hhhhhhhhhhhhh............hhhhhhhhhhh.....hhhhhh..hhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhh..eehhhhhhhhhhhh...eeeeeeee.hhh...............hhhhhhhhh........eeeeee.eeee........ee.hhhhhhhhhhh...........eeee.hhhhhhhhhhhhh..eeeeehhhhhhhh.eeeeeeeee............hhhhhhhheeeeeeee...............hhhhhhhhhhhhhhhh..eeeee.......eee. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------ADENYLOS-------------------------------------------------------------------------------------------------------------------ADENYLOSUCCI----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1dj2 B  15 IGSLSQVSGVLGCQWGDEGKGKLVDILAQHFDIVARCQGGANAGHTIYNSEGKKFALHLVPSGILNEDTTCVIGNGVVVHLPGLFKEIDGLESNGVSCKGRILVSDRAHLLFDFHQEVDGLRESELAKSFIGTTKRGIGPAYSSKVIRNGIRVGDLRHMDTLPQKLDLLLSDAAARFQGFKYTPEMLREEVEAYKRYADRLEPYITDTVHFINDSISQKKKVLVEGGQATMLDIDFGTYPFVTSSSPSAGGICTGLGIAPSVVGDLIGVVKAYTTRVGSGPFPTENLGTGGDLLRLAGQEFGTTTGRPRRCGWLDIVALKFSCQINGFASLNLTKLDVLSDLNEIQLGVAYKRSDGTPVKSFPGDLRLLEELHVEYEVLPGWKSDISSVRNYSDLPKAAQQYVERIEELVGVPIHYIGIGPGRDALIYK 443
                                    24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304       314       324       334       344       354       364       374       384       394       404       414       424       434

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: P-loop containing nucleoside triphosphate hydrolases (2083)

Superfamily: P-loop containing nucleoside triphosphate hydrolases (2083)

Family: Nitrogenase iron protein-like (152)

Protein domain: Adenylosuccinate synthetase, PurA (35)

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

1a	d1dj2a_	A:
1b	d1dj2b_	B:

(no "Pfam Domain" information available for 1DJ2)

Asymmetric/Biological Unit(hide GO term definitions)

Chain A,B (PURA_ARATH | Q96529)

molecular function
	GO:0005525	GTP binding	Interacting selectively and non-covalently with GTP, guanosine triphosphate.
	GO:0004019	adenylosuccinate synthase activity	Catalysis of the reaction: L-aspartate + GTP + IMP = N(6)-(1,2-dicarboxyethyl)-AMP + GDP + 3 H(+) + phosphate.
	GO:0016874	ligase activity	Catalysis of the joining of two substances, or two groups within a single molecule, with the concomitant hydrolysis of the diphosphate bond in ATP or a similar triphosphate.
	GO:0000287	magnesium ion binding	Interacting selectively and non-covalently with magnesium (Mg) ions.
	GO:0046872	metal ion binding	Interacting selectively and non-covalently with any metal ion.
	GO:0000166	nucleotide binding	Interacting selectively and non-covalently with a nucleotide, any compound consisting of a nucleoside that is esterified with (ortho)phosphate or an oligophosphate at any hydroxyl group on the ribose or deoxyribose.
biological process
	GO:0044208	'de novo' AMP biosynthetic process	The chemical reactions and pathways resulting in the formation of adenosine monophosphate (AMP) from inosine 5'-monophosphate (IMP).
	GO:0006167	AMP biosynthetic process	The chemical reactions and pathways resulting in the formation of AMP, adenosine monophosphate.
	GO:0046040	IMP metabolic process	The chemical reactions and pathways involving IMP, inosine monophosphate.
	GO:0006164	purine nucleotide biosynthetic process	The chemical reactions and pathways resulting in the formation of a purine nucleotide, a compound consisting of nucleoside (a purine base linked to a deoxyribose or ribose sugar) esterified with a phosphate group at either the 3' or 5'-hydroxyl group of the sugar.
	GO:0046686	response to cadmium ion	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 cadmium (Cd) ion stimulus.
cellular component
	GO:0048046	apoplast	The cell membranes and intracellular regions in a plant are connected through plasmodesmata, and plants may be described as having two major compartments: the living symplast and the non-living apoplast. The apoplast is external to the plasma membrane and includes cell walls, intercellular spaces and the lumen of dead structures such as xylem vessels. Water and solutes pass freely through it.
	GO:0009507	chloroplast	A chlorophyll-containing plastid with thylakoids organized into grana and frets, or stroma thylakoids, and embedded in a stroma.
	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:0005737	cytoplasm	All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
	GO:0005829	cytosol	The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.
	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.

Asymmetric/Biological Unit
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		Tyr B:253 - Pro B:254	[ RasMol ]

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(no "Entries Sharing at Least One Protein Chain" available for 1DJ2)

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (1, 2)

Sites (2, 2)

SS Bonds (0, 0)

Cis Peptide Bonds (2, 2)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (2, 4)

Exons (0, 0)

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SCOP Domains (1, 2)

CATH Domains (3, 6)

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