1TJ7 - JenaLib

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Title :   STRUCTURE DETERMINATION AND REFINEMENT AT 2.44 A RESOLUTION OF ARGININOSUCCINATE LYASE FROM E. COLI

Authors :   P. Bhaumik, M. K. Koski, U. Bergman, R. K. Wierenga

Date :   03 Jun 04 (Deposition) - 26 Oct 04 (Release) - 13 Jul 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.44

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

Keywords :   Argininosuccinate Lyase, Crystallin, E. Coli, Fumarase, Aspartase, Lyase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   P. Bhaumik, M. K. Koski, U. Bergmann, R. K. Wierenga
Structure Determination And Refinement At 2. 44 A Resolution Of Argininosuccinate Lyase From Escherichia Coli.
Acta Crystallogr. , Sect. D V. 60 1964 2004
PubMed-ID: 15502303 | Reference-DOI: 10.1107/S0907444904021912

Molecule 1 - ARGININOSUCCINATE LYASE
	Chains	:	A, B
	EC Number	:	4.3.2.1
	Organism Scientific	:	ESCHERICHIA COLI
	Organism Taxid	:	562
	Strain	:	BL21(DE3)PLYSS
	Synonym	:	ARGINOSUCCINASE, ASAL

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

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (2, 5)

No.	Name	Count	Type	Full Name
1	GOL	3	Ligand/Ion	GLYCEROL
2	PO4	2	Ligand/Ion	PHOSPHATE ION

Biological Unit 1 (2, 5)

No.	Name	Count	Type	Full Name
1	GOL	3	Ligand/Ion	GLYCEROL
2	PO4	2	Ligand/Ion	PHOSPHATE ION

Biological Unit 2 (2, 10)

No.	Name	Count	Type	Full Name
1	GOL	6	Ligand/Ion	GLYCEROL
2	PO4	4	Ligand/Ion	PHOSPHATE ION

Asymmetric Unit (5, 5)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	SER A:108 , ARG A:109 , ASN A:110 , SER B:277 , SER B:278 , PO4 B:602	BINDING SITE FOR RESIDUE PO4 A 601
2	AC2	SOFTWARE	ASN A:110 , THR A:155 , HIS A:156 , PO4 A:601 , SER B:277 , MET B:280 , LYS B:283 , ASN B:285	BINDING SITE FOR RESIDUE PO4 B 602
3	AC3	SOFTWARE	GLY B:153 , TYR B:154 , TRP B:168 , ASP B:255 , PHE B:259 , LEU B:315 , ALA B:316 , HOH B:688	BINDING SITE FOR RESIDUE GOL B 603
4	AC4	SOFTWARE	TYR A:205 , ASP A:372 , LYS A:433 , HOH A:682	BINDING SITE FOR RESIDUE GOL A 602
5	AC5	SOFTWARE	GLY A:153 , TYR A:154 , TRP A:168 , LEU A:200 , LEU A:226 , ASP A:255 , PHE A:259 , PRO A:314 , LEU A:315 , ALA A:316 , HOH A:714	BINDING SITE FOR RESIDUE GOL A 603

(no "SS Bond" information available for 1TJ7)

Asymmetric Unit

No.	Residues
1	Leu A:315	-	Ala A:316
2	Leu B:315	-	Ala B:316

(no "SAP(SNP)/Variant" information available for 1TJ7)

Asymmetric Unit (1, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	FUMARATE_LYASES	PS00163	Fumarate lyases signature.	ARLY_ECOLI	276-285	2	A:276-285 B:276-285

Biological Unit 1 (1, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	FUMARATE_LYASES	PS00163	Fumarate lyases signature.	ARLY_ECOLI	276-285	2	A:276-285 B:276-285

Biological Unit 2 (1, 4)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	FUMARATE_LYASES	PS00163	Fumarate lyases signature.	ARLY_ECOLI	276-285	4	A:276-285 B:276-285

(no "Exon" information available for 1TJ7)

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:455
 aligned with ARLY_ECOLI | P11447 from UniProtKB/Swiss-Prot  Length:457

    Alignment length:455
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362       372       382       392       402       412       422       432       442       452     
           ARLY_ECOLI     3 LWGGRFTQAADQRFKQFNDSLRFDYRLAEQDIVGSVAWSKALVTVGVLTAEEQAQLEEALNVLLEDVRARPQQILESDAEDIHSWVEGKLIDKVGQLGKKLHTGRSRNDQVATDLKLWCKDTVSELLTANRQLQSALVETAQNNQDAVMPGYTHLQRAQPVTFAHWCLAYVEMLARDESRLQDALKRLDVSPLGCGALAGTAYEIDREQLAGWLGFASATRNSLDSVSDRDHVLELLSAAAIGMVHLSRFAEDLIFFNTGEAGFVELSDRVTSGSSLMPQKKNPDALELIRGKCGRVQGALTGMMMTLKGLPLAYNKDMQEDKEGLFDALDTWLDCLHMAALVLDGIQVKRPRCQEAAQQGYANATELADYLVAKGVPFREAHHIVGEAVVEAIRQGKPLEDLPLSELQKFSQVIDEDVYPILSLQSCLDKRAAKGGVSPQQVAQAIAFAQARLG 457
               SCOP domains d1tj7a_ A: Argininosuccinate lyase/delta-crystallin                                                                                                                                                                                                                                                                                                                                                                                                                     SCOP domains
               CATH domains 1tj7A01 A:3-107 Fumarase/aspartase (N-terminal domain)                                                   1tj7A02 A:108-362,A:434-457 Fumarase/aspartase (Central domain)                                                                                                                                                                                                1tj7A03 A:363-433 Fumarase/aspartase (C-terminal domain)               1tj7A02                  CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..........hhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....eeeeee..eeeeeeehhhhhhhhhhhhhhhhhhhhhhhhhhh................hhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh......ee.hhhhh...........hhhhhhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..eehhhhhhhhhh....hhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhh........hhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------FUMARATE_L---------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1tj7 A   3 LWGGRFTQAADQRFKQFNDSLRFDYRLAEQDIVGSVAWSKALVTVGVLTAEEQAQLEEALNVLLEDVRARPQQILESDAEDIHSWVEGKLIDKVGQLGKKLHTGRSRNDQVATDLKLWCKDTVSELLTANRQLQSALVETAQNNQDAVMPGYTHLQRAQPVTFAHWCLAYVEMLARDESRLQDALKRLDVSPLGCGALAGTAYEIDREQLAGWLGFASATRNSLDSVSDRDHVLELLSAAAIGMVHLSRFAEDLIFFNTGEAGFVELSDRVTSGSSLMPQKKNPDALELIRGKCGRVQGALTGMMMTLKGLPLAYNKDMQEDKEGLFDALDTWLDCLHMAALVLDGIQVKRPRCQEAAQQGYANATELADYLVAKGVPFREAHHIVGEAVVEAIRQGKPLEDLPLSELQKFSQVIDEDVYPILSLQSCLDKRAAKGGVSPQQVAQAIAFAQARLG 457
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362       372       382       392       402       412       422       432       442       452

Chain B from PDB  Type:PROTEIN  Length:451
 aligned with ARLY_ECOLI | P11447 from UniProtKB/Swiss-Prot  Length:457

    Alignment length:451
                                    16        26        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 
           ARLY_ECOLI     7 RFTQAADQRFKQFNDSLRFDYRLAEQDIVGSVAWSKALVTVGVLTAEEQAQLEEALNVLLEDVRARPQQILESDAEDIHSWVEGKLIDKVGQLGKKLHTGRSRNDQVATDLKLWCKDTVSELLTANRQLQSALVETAQNNQDAVMPGYTHLQRAQPVTFAHWCLAYVEMLARDESRLQDALKRLDVSPLGCGALAGTAYEIDREQLAGWLGFASATRNSLDSVSDRDHVLELLSAAAIGMVHLSRFAEDLIFFNTGEAGFVELSDRVTSGSSLMPQKKNPDALELIRGKCGRVQGALTGMMMTLKGLPLAYNKDMQEDKEGLFDALDTWLDCLHMAALVLDGIQVKRPRCQEAAQQGYANATELADYLVAKGVPFREAHHIVGEAVVEAIRQGKPLEDLPLSELQKFSQVIDEDVYPILSLQSCLDKRAAKGGVSPQQVAQAIAFAQARLG 457
               SCOP domains d1tj7b_ B: Argininosuccinate lyase/delta-crystallin                                                                                                                                                                                                                                                                                                                                                                                                                 SCOP domains
               CATH domains -----------------------------------------------------------------------------------------------------1tj7B02 B:108-362,B:434-457 Fumarase/aspartase (Central domain)                                                                                                                                                                                                1tj7B03 B:363-433 Fumarase/aspartase (C-terminal domain)               1tj7B02                  CATH domains
           Pfam domains (1) Lyase_1-1tj7B01 B:7-301                                                                                                                                                                                                                                                                                ------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains (1)
           Pfam domains (2) Lyase_1-1tj7B02 B:7-301                                                                                                                                                                                                                                                                                ------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains (2)
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...eeeeee..eeeeeeehhhhhhhhhhhhhhhhhhhhhhhhhhhee..............hhhhhhhhhh..ee..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh......ee.hhhhh...........hhhhhhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhheehhhhhhhhhhh..hhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhh........hhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------FUMARATE_L---------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1tj7 B   7 RFTQAADQRFKQFNDSLRFDYRLAEQDIVGSVAWSKALVTVGVLTAEEQAQLEEALNVLLEDVRARPQQILESDAEDIHSWVEGKLIDKVGQLGKKLHTGRSRNDQVATDLKLWCKDTVSELLTANRQLQSALVETAQNNQDAVMPGYTHLQRAQPVTFAHWCLAYVEMLARDESRLQDALKRLDVSPLGCGALAGTAYEIDREQLAGWLGFASATRNSLDSVSDRDHVLELLSAAAIGMVHLSRFAEDLIFFNTGEAGFVELSDRVTSGSSLMPQKKNPDALELIRGKCGRVQGALTGMMMTLKGLPLAYNKDMQEDKEGLFDALDTWLDCLHMAALVLDGIQVKRPRCQEAAQQGYANATELADYLVAKGVPFREAHHIVGEAVVEAIRQGKPLEDLPLSELQKFSQVIDEDVYPILSLQSCLDKRAAKGGVSPQQVAQAIAFAQARLG 457
                                    16        26        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 Unit

Classes(

)

Folds(

)

Superfamilies( (-)

)

Families(

)

Protein Domains( (-)

)

Organisms( (-)

)

Class: All alpha proteins (14657)

Fold: L-aspartase-like (67)

Superfamily: L-aspartase-like (67)

Family: L-aspartase/fumarase (39)

Protein domain: Argininosuccinate lyase/delta-crystallin (14)

Escherichia coli [TaxId: 562] (1)

1a	d1tj7a_	A:
1b	d1tj7b_	B:

Asymmetric Unit

Clans(

)

Families(

)

Organisms( (-)

)

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

Family: Lyase_1 (27)

Escherichia coli (strain K12) (7)

1a	Lyase_1-1tj7B01	B:7-301
1b	Lyase_1-1tj7B02	B:7-301

Asymmetric Unit(hide GO term definitions)

Chain A,B (ARLY_ECOLI | P11447)

molecular function
	GO:0004056	argininosuccinate lyase activity	Catalysis of the reaction: N-(L-arginino)succinate = fumarate + L-arginine.
	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:0006526	arginine biosynthetic process	The chemical reactions and pathways resulting in the formation of arginine, 2-amino-5-(carbamimidamido)pentanoic acid.
	GO:0042450	arginine biosynthetic process via ornithine	The chemical reactions and pathways resulting in the formation of arginine (2-amino-5-guanidinopentanoic acid) via the intermediate compound ornithine.
	GO:0008652	cellular amino acid biosynthetic process	The chemical reactions and pathways resulting in the formation of amino acids, organic acids containing one or more amino substituents.
	GO:0051262	protein tetramerization	The formation of a protein tetramer, a macromolecular structure consisting of four noncovalently associated identical or nonidentical subunits.
cellular component
	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.

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	Cis Peptide Bonds
		Leu A:315 - Ala A:316	[ RasMol ]
		Leu B:315 - Ala B:316	[ RasMol ]

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Description

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Ligands, Modified Residues, Ions (2, 5)

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SS Bonds (0, 0)

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