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Asym./Biol. Unit (Jmol Viewer)

Asym./Biol. Unit - sites (Jmol Viewer)

Title :   CRYSTAL STRUCTURE OF THE RECOMBINANT MOUSE-MUSCLE ADENYLOSUCCINATE SYNTHETASE COMPLEXED WITH 6-PHOSPHORYL-IMP, GDP AND MG

Authors :   C. V. Iancu, T. Borza, H. J. Fromm, R. B. Honzatko

Date :   04 May 02 (Deposition) - 28 Aug 02 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.20

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

Keywords :   Purine Biosynthesis, Ligase, Gtp-Binding (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   C. V. Iancu, T. Borza, H. J. Fromm, R. B. Honzatko
Imp, Gtp, And 6-Phosphoryl-Imp Complexes Of Recombinant Mouse Muscle Adenylosuccinate Synthetase.
J. Biol. Chem. V. 277 26779 2002
PubMed-ID: 12004071 | Reference-DOI: 10.1074/JBC.M203730200
(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 BL21
	Expression System Plasmid	:	PET28B
	Expression System Strain	:	BL21
	Expression System Taxid	:	511693
	Expression System Vector Type	:	PLASMID
	Gene	:	ADSS1
	Organism Common	:	HOUSE MOUSE
	Organism Scientific	:	MUS MUSCULUS
	Organism Taxid	:	10090

		1	2
Asymmetric/Biological Unit	:	A	B

Summary Information (see also Sequences/Alignments below)

Asymmetric/Biological Unit (3, 6)

No.	Name	Count	Type	Full Name
1	GDP	2	Ligand/Ion	GUANOSINE-5'-DIPHOSPHATE
2	IMO	2	Ligand/Ion	6-O-PHOSPHORYL INOSINE MONOPHOSPHATE
3	MG	2	Ligand/Ion	MAGNESIUM ION

Asymmetric Unit (6, 6)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	ASP A:43 , GLY A:70 , HOH A:817 , IMO A:1451 , GDP A:1452	BINDING SITE FOR RESIDUE MG A 1453
2	AC2	SOFTWARE	ASP B:43 , GLY B:70 , HOH B:696 , GDP B:1454 , IMO B:1455	BINDING SITE FOR RESIDUE MG B 1456
3	AC3	SOFTWARE	TRP A:41 , GLY A:42 , ASP A:43 , LYS A:46 , ASN A:68 , ALA A:69 , GLY A:70 , HIS A:71 , GLY A:161 , THR A:162 , THR A:163 , ASN A:256 , LEU A:260 , VAL A:270 , THR A:271 , VAL A:305 , GLY A:306 , ARG A:335 , HOH A:501 , HOH A:602 , HOH A:649 , HOH A:660 , HOH A:703 , HOH A:817 , GDP A:1452 , MG A:1453 , ARG B:177	BINDING SITE FOR RESIDUE IMO A 1451
4	AC4	SOFTWARE	ASP A:43 , GLU A:44 , GLY A:45 , LYS A:46 , GLY A:47 , LYS A:48 , GLY A:70 , HIS A:71 , THR A:72 , LYS A:363 , ASP A:365 , GLY A:445 , VAL A:446 , GLY A:447 , LYS A:448 , HOH A:581 , HOH A:645 , HOH A:817 , IMO A:1451 , MG A:1453	BINDING SITE FOR RESIDUE GDP A 1452
5	AC5	SOFTWARE	ASP B:43 , GLU B:44 , GLY B:45 , LYS B:46 , GLY B:47 , LYS B:48 , GLY B:70 , HIS B:71 , THR B:72 , LYS B:363 , ASP B:365 , GLY B:445 , VAL B:446 , GLY B:447 , LYS B:448 , HOH B:594 , HOH B:710 , IMO B:1455 , MG B:1456	BINDING SITE FOR RESIDUE GDP B 1454
6	AC6	SOFTWARE	ARG A:177 , TRP B:41 , GLY B:42 , ASP B:43 , LYS B:46 , ASN B:68 , ALA B:69 , GLY B:70 , HIS B:71 , GLY B:161 , THR B:162 , THR B:163 , ASN B:256 , LEU B:260 , VAL B:270 , THR B:271 , VAL B:305 , GLY B:306 , HOH B:514 , HOH B:534 , HOH B:577 , HOH B:659 , GDP B:1454 , MG B:1456	BINDING SITE FOR RESIDUE IMO B 1455

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

Asymmetric/Biological Unit

No.	Residues
1	Tyr A:267	-	Pro A:268
2	Tyr B:267	-	Pro B:268

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

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.	PURA1_MOUSE	40-47	2	A:40-47 B:40-47
2	ADENYLOSUCCIN_SYN_2	PS00513	Adenylosuccinate synthetase active site.	PURA1_MOUSE	166-177	2	A:166-177 B:166-177

(no "Exon" information available for 1LNY)

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:430
 aligned with PURA1_MOUSE | P28650 from UniProtKB/Swiss-Prot  Length:457

    Alignment length:430
                                    37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       287       297       307       317       327       337       347       357       367       377       387       397       407       417       427       437       447       457
          PURA1_MOUSE    28 ATGSRVTVVLGAQWGDEGKGKVVDLLATDADIVSRCQGGNNAGHTVVVDGKEYDFHLLPSGIINTKAVSFIGNGVVIHLPGLFEEAEKNEKKGLKDWEKRLIISDRAHLVFDFHQAVDGLQEVQRQAQEGKNIGTTKKGIGPTYSSKAARTGLRICDLLSDFDEFSARFKNLAHQHQSMFPTLEIDVEGQLKRLKGFAERIRPMVRDGVYFMYEALHGPPKKVLVEGANAALLDIDFGTYPFVTSSNCTVGGVCTGLGIPPQNIGDVYGVVKAYTTRVGIGAFPTEQINEIGDLLQNRGHEWGVTTGRKRRCGWLDLMILRYAHMVNGFTALALTKLDILDVLSEIKVGISYKLNGKRIPYFPANQEILQKVEVEYETLPGWKADTTGARKWEDLPPQAQSYVRFVENHMGVAVKWVGVGKSRESMIQLF 457
               SCOP domains d1lnya_ A: Adenylosuccinate synthetase, PurA                                                                                                                                                                                                                                                                                                                                                                                                   SCOP domains
               CATH domains ---1lnyA01 A:31-131,A:232-297 Adenylosuccinate Synthetase, subunit A, domain 1                          1lnyA02 A:132-231 Adenylosuccinate Synthetase, subunit A, domain 2                                  1lnyA01 A:31-131,A:232-297                                        1lnyA03 A:298-457 Adenylosuccinate Synthetase, subunit A, domain 3                                                                                               CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eeeeee......hhhhhhhhhhhhh.eeee........eeeee..eeeee...hhhhhh...eeee....eehhhhhhhhhhhhhh....hhhh.eeee...ee.hhhhhhhhhhhhhhhhhhh.........hhhhhhhhhhh....hhhhhh.hhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhh..eehhhhhhhhhhhh....eeee...hhhhh...............hhhhhhhhh.hhh.eeeeeeeee..eee...........hhhhhhhhhhh...........eee.eehhhhhhhhhhhh..eeeeehhhhhhhh.eeeeeeeeee..ee......hhhhhh..eeeeeeee..........hhhhhhhhhhhhhhhhhhhhh..eeeee.......eee.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------ADENYLOS----------------------------------------------------------------------------------------------------------------------ADENYLOSUCCI---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1lny A  28 ATGSRVTVVLGAQWGDEGKGKVVDLLATDADIVSRCQGGNNAGHTVVVDGKEYDFHLLPSGIINTKAVSFIGNGVVIHLPGLFEEAEKNEKKGLKDWEKRLIISDRAHLVFDFHQAVDGLQEVQRQAQEGKNIGTTKKGIGPTYSSKAARTGLRICDLLSDFDEFSARFKNLAHQHQSMFPTLEIDVEGQLKRLKGFAERIRPMVRDGVYFMYEALHGPPKKVLVEGANAALLDIDFGTYPFVTSSNCTVGGVCTGLGIPPQNIGDVYGVVKAYTTRVGIGAFPTEQINEIGDLLQNRGHEWGVTTGRKRRCGWLDLMILRYAHMVNGFTALALTKLDILDVLSEIKVGISYKLNGKRIPYFPANQEILQKVEVEYETLPGWKADTTGARKWEDLPPQAQSYVRFVENHMGVAVKWVGVGKSRESMIQLF 457
                                    37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       287       297       307       317       327       337       347       357       367       377       387       397       407       417       427       437       447       457

Chain B from PDB  Type:PROTEIN  Length:431
 aligned with PURA1_MOUSE | P28650 from UniProtKB/Swiss-Prot  Length:457

    Alignment length:431
                                    36        46        56        66        76        86        96       106       116       126       136       146       156       166       176       186       196       206       216       226       236       246       256       266       276       286       296       306       316       326       336       346       356       366       376       386       396       406       416       426       436       446       456 
          PURA1_MOUSE    27 AATGSRVTVVLGAQWGDEGKGKVVDLLATDADIVSRCQGGNNAGHTVVVDGKEYDFHLLPSGIINTKAVSFIGNGVVIHLPGLFEEAEKNEKKGLKDWEKRLIISDRAHLVFDFHQAVDGLQEVQRQAQEGKNIGTTKKGIGPTYSSKAARTGLRICDLLSDFDEFSARFKNLAHQHQSMFPTLEIDVEGQLKRLKGFAERIRPMVRDGVYFMYEALHGPPKKVLVEGANAALLDIDFGTYPFVTSSNCTVGGVCTGLGIPPQNIGDVYGVVKAYTTRVGIGAFPTEQINEIGDLLQNRGHEWGVTTGRKRRCGWLDLMILRYAHMVNGFTALALTKLDILDVLSEIKVGISYKLNGKRIPYFPANQEILQKVEVEYETLPGWKADTTGARKWEDLPPQAQSYVRFVENHMGVAVKWVGVGKSRESMIQLF 457
               SCOP domains d1lnyb_ B: Adenylosuccinate synthetase, PurA                                                                                                                                                                                                                                                                                                                                                                                                    SCOP domains
               CATH domains ----1lnyB01 B:31-131,B:232-297 Adenylosuccinate Synthetase, subunit A, domain 1                          1lnyB02 B:132-231 Adenylosuccinate Synthetase, subunit A, domain 2                                  1lnyB01 B:31-131,B:232-297                                        1lnyB03 B:298-457 Adenylosuccinate Synthetase, subunit A, domain 3                                                                                               CATH domains
           Pfam domains (1) ------Adenylsucc_synt-1lnyB01 B:33-455                                                                                                                                                                                                                                                                                                                                                                                                       -- Pfam domains (1)
           Pfam domains (2) ------Adenylsucc_synt-1lnyB02 B:33-455                                                                                                                                                                                                                                                                                                                                                                                                       -- Pfam domains (2)
         Sec.struct. author ......eeeeee......hhhhhhhhhhh...eeee........eeeee..eeeee...hhhhhh...eeee....eehhhhhhhhhhhhhh....hhhh.eeee...ee.hhhhhhhhhhhhhhhhhhhh........hhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhh..eehhhhhhhhhhhh....eeee...hhhhh...............hhhhhhhhh.hhh.eeeeeeeee..eee...........hhhhhhhhhhh...........eee.eehhhhhhhhhhhh..eeeeehhhhhhhh.eeeeeeeeee..ee......hhhhhhhheeeeeeee..........hhhhhhhhhhhhhhhhhhhhh..eeeee.......eee.. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------ADENYLOS----------------------------------------------------------------------------------------------------------------------ADENYLOSUCCI---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1lny B  27 AATGSRVTVVLGAQWGDEGKGKVVDLLATDADIVSRCQGGNNAGHTVVVDGKEYDFHLLPSGIINTKAVSFIGNGVVIHLPGLFEEAEKNEKKGLKDWEKRLIISDRAHLVFDFHQAVDGLQEVQRQAQEGKNIGTTKKGIGPTYSSKAARTGLRICDLLSDFDEFSARFKNLAHQHQSMFPTLEIDVEGQLKRLKGFAERIRPMVRDGVYFMYEALHGPPKKVLVEGANAALLDIDFGTYPFVTSSNCTVGGVCTGLGIPPQNIGDVYGVVKAYTTRVGIGAFPTEQINEIGDLLQNRGHEWGVTTGRKRRCGWLDLMILRYAHMVNGFTALALTKLDILDVLSEIKVGISYKLNGKRIPYFPANQEILQKVEVEYETLPGWKADTTGARKWEDLPPQAQSYVRFVENHMGVAVKWVGVGKSRESMIQLF 457
                                    36        46        56        66        76        86        96       106       116       126       136       146       156       166       176       186       196       206       216       226       236       246       256       266       276       286       296       306       316       326       336       346       356       366       376       386       396       406       416       426       436       446       456

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)

Mouse (Mus musculus) [TaxId: 10090] (9)

1a	d1lnya_	A:
1b	d1lnyb_	B:

Asymmetric/Biological Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: P-loop_NTPase (1112)

Family: Adenylsucc_synt (18)

Mus musculus (Mouse) (6)

1a	Adenylsucc_synt-1lnyB01	B:33-455
1b	Adenylsucc_synt-1lnyB02	B:33-455

Asymmetric/Biological Unit(hide GO term definitions)

Chain A,B (PURA1_MOUSE | P28650)

molecular function
	GO:0005525	GTP binding	Interacting selectively and non-covalently with GTP, guanosine triphosphate.
	GO:0003924	GTPase activity	Catalysis of the reaction: GTP + H2O = GDP + phosphate.
	GO:0051015	actin filament binding	Interacting selectively and non-covalently with an actin filament, also known as F-actin, a helical filamentous polymer of globular G-actin subunits.
	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.
	GO:0005515	protein binding	Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules).
	GO:0042803	protein homodimerization activity	Interacting selectively and non-covalently with an identical protein to form a homodimer.
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:0006531	aspartate metabolic process	The chemical reactions and pathways involving aspartate, the anion derived from aspartic acid, 2-aminobutanedioic acid.
	GO:0035690	cellular response to drug	Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a drug stimulus. A drug is a substance used in the diagnosis, treatment or prevention of a disease.
	GO:0071257	cellular response to electrical stimulus	Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an electrical stimulus.
	GO:0006541	glutamine metabolic process	The chemical reactions and pathways involving glutamine, 2-amino-4-carbamoylbutanoic acid.
	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:0006163	purine nucleotide metabolic process	The chemical reactions and pathways involving 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:0009168	purine ribonucleoside monophosphate biosynthetic process	The chemical reactions and pathways resulting in the formation of purine ribonucleoside monophosphate, a compound consisting of a purine base linked to a ribose sugar esterified with phosphate on the sugar.
	GO:0014850	response to muscle activity	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 muscle activity stimulus.
	GO:0042594	response to starvation	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 starvation stimulus, deprivation of nourishment.
cellular component
	GO:0005737	cytoplasm	All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
	GO:0016020	membrane	A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.

Asymmetric/Biological Unit
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	Cis Peptide Bonds
		Tyr A:267 - Pro A:268	[ RasMol ]
		Tyr B:267 - Pro B:268	[ RasMol ]

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	1lny
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	PURA1_MOUSE \| P28650
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UniProtKB/Swiss-Prot
	PURA1_MOUSE \| P28650	:	1iwe 1j4b 1lon 1loo 1mez 1mf0 1mf1 2dgn

1iwe	1IWE CONTAINS THE SAME PROTEIN COMPLEXED WITH IMP, ACETATE AND MG
1j4b	1J4B CONTAINS THE UNLIGATED PROTEIN
1lon	1LON CONTAINS THE SAME PROTEIN COMPLEXED WITH 6PIMP, GDP AND HADACIDIN.
1loo	1LOO CONTAINS THE SAME PROTEIN COMPLEXED WITH GTP.

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (3, 6)

Sites (6, 6)

SS Bonds (0, 0)

Cis Peptide Bonds (2, 2)

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PROSITE Motifs (2, 4)

Exons (0, 0)

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SCOP Domains (1, 2)

CATH Domains (3, 6)

Pfam Domains (1, 2)

Gene Ontology (24, 24)

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