2X75 - JenaLib

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Title :   STAPHYLOCOCCUS AUREUS ADENYLOSUCCINATE LYASE

Authors :   P. K. Fyfe, A. Dawson, M. T. Hutchison, S. Cameron, W. N. Hunter

Date :   23 Feb 10 (Deposition) - 09 Mar 10 (Release) - 30 May 12 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.50

Chains :   Asym. Unit : A
Biol. Unit 1: A  (4x)

Keywords :   Lyase, Purine Cycle, Purine Biosynthesis (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   P. K. Fyfe, A. Dawson, M. T. Hutchison, S. Cameron, W. N. Hunter
Structure Of Staphylococcus Aureus Adenylosuccinate Lyase (Purb) And Assessment Of Its Potential As A Target For Structure-Based Inhibitor Discovery.
Acta Crystallogr. , Sect. D V. 66 881 2010
PubMed-ID: 20693687 | Reference-DOI: 10.1107/S0907444910020081

Molecule 1 - ADENYLOSUCCINATE LYASE
	Chains	:	A
	EC Number	:	4.3.2.2
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Strain	:	BL21(DE3) PLYSS
	Expression System Taxid	:	469008
	Organism Scientific	:	STAPHYLOCOCCUS AUREUS
	Organism Taxid	:	1280
	Other Details	:	AMERICAN TYPE CULTURE COLLECTION
	Strain	:	35556

		1
Asymmetric Unit	:	A
Biological Unit 1 (4x)	:	A

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (4, 4)

No.	Name	Count	Type	Full Name
1	AMP	1	Ligand/Ion	ADENOSINE MONOPHOSPHATE
2	CL	1	Ligand/Ion	CHLORIDE ION
3	OXL	1	Ligand/Ion	OXALATE ION
4	P6G	1	Ligand/Ion	HEXAETHYLENE GLYCOL

Biological Unit 1 (3, 12)

No.	Name	Count	Type	Full Name
1	AMP	4	Ligand/Ion	ADENOSINE MONOPHOSPHATE
2	CL	-1	Ligand/Ion	CHLORIDE ION
3	OXL	4	Ligand/Ion	OXALATE ION
4	P6G	4	Ligand/Ion	HEXAETHYLENE GLYCOL

Asymmetric Unit (4, 4)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	HIS A:68 , SER A:94 , GLN A:259 , AMP A:1433 , HOH A:2022	BINDING SITE FOR RESIDUE OXL A1432
2	AC2	SOFTWARE	ARG A:4 , TYR A:5 , ARG A:67 , HIS A:68 , ASP A:69 , SER A:94 , THR A:95 , HIS A:141 , GLN A:212 , ASN A:276 , ARG A:301 , ILE A:303 , SER A:306 , ARG A:310 , OXL A:1432 , HOH A:2070	BINDING SITE FOR RESIDUE AMP A1433
3	AC3	SOFTWARE	ARG A:85 , ALA A:125 , LYS A:129 , ASN A:130	BINDING SITE FOR RESIDUE P6G A1434
4	AC4	SOFTWARE	ALA A:207 , GLN A:215 , ARG A:218	BINDING SITE FOR RESIDUE CL A1435

(no "SS Bond" information available for 2X75)

(no "Cis Peptide Bond" information available for 2X75)

(no "SAP(SNP)/Variant" information available for 2X75)

Asymmetric Unit (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	FUMARATE_LYASES	PS00163	Fumarate lyases signature.	PUR8_STAAW	261-270	1	A:261-270

Biological Unit 1 (1, 4)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	FUMARATE_LYASES	PS00163	Fumarate lyases signature.	PUR8_STAAW	261-270	4	A:261-270

(no "Exon" information available for 2X75)

Asymmetric Unit

Reformat:	Number of residues per line = ('0' or empty: single-line sequence representation)
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	UniProt sequence: complete aligned part

Show mapping:	SCOP domains	CATH domains	Pfam domains	Secondary structure (by author)
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Chain A from PDB  Type:PROTEIN  Length:427
 aligned with PUR8_STAAW | Q7A0G9 from UniProtKB/Swiss-Prot  Length:431

    Alignment length:430
                                    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       391       401       411       421       431
           PUR8_STAAW     2 IERYSREEMSNIWTDQNRYEAWLEVEILACEAWSELGHIPKADVQKIRQNAKVNVERAQEIEQETRHDVVAFTRQVSETLGEERKWVHYGLTSTDVVDTALSFVIKQANDIIEKDLERFIDVLAEKAKNYKYTLMMGRTHGVHAEPTTFGVKMALWYTEMQRNLQRFKQVREEIEVGKMSGAVGTFANIPPEIESYVCKHLGIGTAPVSTQTLQRDRHAYYIATLALIATSLEKFAVEIRNLQKTETREVEEAFAKGQKGSSAMPHKRNPIGSENITGISRVIRGYITTAYENVPLWHERDISHSSAERIMLPDVTIALDYALNRFTNIVDRLTVFEDNMRNNIDKTFGLIFSQRVLLALINKGMVREEAYDKVQPKAMISWETKTPFRELIEQDESITSVLTKEELDECFDPKHHLNQVDTIFERAGLA 431
               SCOP domains d2x75a_ A: automated matches                                                                                                                                                                                                                                                                                                                                                                                                                   SCOP domains
               CATH domains 2x75A01 A:2-92 Fumarase/aspartase (N-terminal domain)                                      2x75A02 A:93-348 Fumarase/aspartase (Central domain)                                                                                                                                                                                                            2x75A03 A:349-431 Fumarase/aspartase (C-terminal dom   ain)                         CATH domains
               Pfam domains -Lyase_1-2x75A02 A:3-286                                                                                                                                                                                                                                                                     --------------------------------------------------------------ADSL_C-2x75A01 A:349-429                                                         -- Pfam domains
         Sec.struct. author .....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...eeeeee..eeeeeeehhhhhhhhhhhhhhhhhhhhhhhhhhhee............hhhhhhhhhhhhh.ee.........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....ee..................hhhhhhhhhhhhhhhhhhhhhhhh........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhheehhhhhhhhh....hhhhhhhhhhhhhh...........hhhhhhhhhhh..hhhhhhh......---hhhhh....hhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------FUMARATE_L----------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2x75 A   2 IERYSREEMSNIWTDQNRYEAWLEVEILACEAWSELGHIPKADVQKIRQNAKVNVERAQEIEQETRHDVVAFTRQVSETLGEERKWVHYGLTSTDVVDTALSFVIKQANDIIEKDLERFIDVLAEKAKNYKYTLMMGRTHGVHAEPTTFGVKMALWYTEMQRNLQRFKQVREEIEVGKMSGAVGTFANIPPEIESYVCKHLGIGTAPVSTQTLQRDRHAYYIATLALIATSLEKFAVEIRNLQKTETREVEEAFAKGQKGSSAMPHKRNPIGSENITGISRVIRGYITTAYENVPLWHERDISHSSAERIMLPDVTIALDYALNRFTNIVDRLTVFEDNMRNNIDKTFGLIFSQRVLLALINKGMVREEAYDKVQPKAMISWETKTPFRELIEQDESIT---TKEELDECFDPKHHLNQVDTIFERAGLA 431
                                    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       391        |-  |    411       421       431
                                                                                                                                                                                                                                                                                                                                                                                                                                        400 404

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(

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Folds(

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Superfamilies( (-)

)

Families(

)

Protein Domains( (-)

)

Organisms( (-)

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Class: All alpha proteins (14657)

Fold: L-aspartase-like (67)

Superfamily: L-aspartase-like (67)

Family: L-aspartase/fumarase (39)

Protein domain: automated matches (7)

Staphylococcus aureus [TaxId: 1280] (1)

d2x75a_

Asymmetric Unit

Clans(

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Families(

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Organisms( (-)

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Clan: no clan defined [family: ADSL_C] (6)

Family: ADSL_C (6)

Staphylococcus aureus (strain MW2) (1)

ADSL_C-2x75A01

A:349-429

Clan: no clan defined [family: Lyase_1] (27)

Family: Lyase_1 (27)

Staphylococcus aureus (strain MW2) (1)

Lyase_1-2x75A02

A:3-286

Asymmetric Unit(hide GO term definitions)

Chain A (PUR8_STAAW | Q7A0G9)

molecular function
	GO:0070626	(S)-2-(5-amino-1-(5-phospho-D-ribosyl)imidazole-4-carboxamido)succinate AMP-lyase (fumarate-forming) activity	Catalysis of the reaction: (S)-2-(5-amino-1-(5-phospho-D-ribosyl)imidazole-4-carboxamido)succinate = fumarate + 5-amino-1-(5-phospho-D-ribosyl)imidazole-4-carboxamide.
	GO:0004018	N6-(1,2-dicarboxyethyl)AMP AMP-lyase (fumarate-forming) activity	Catalysis of the reaction: N6-(1,2-dicarboxyethyl)AMP = fumarate + AMP.
	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.
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:0006189	'de novo' IMP biosynthetic process	The chemical reactions and pathways resulting in the formation of IMP, inosine monophosphate, by the stepwise assembly of a purine ring on ribose 5-phosphate.
	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:0009152	purine ribonucleotide biosynthetic process	The chemical reactions and pathways resulting in the formation of a purine ribonucleotide, a compound consisting of ribonucleoside (a purine base linked to a ribose sugar) esterified with a phosphate group at either the 3' or 5'-hydroxyl group of the sugar.

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