1MXB - JenaLib

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Title :   S-ADENOSYLMETHIONINE SYNTHETASE WITH ADP

Authors :   F. Takusagawa, S. Kamitori, G. D. Markham

Date :   10 Jan 96 (Deposition) - 11 Jul 96 (Release) - 16 Nov 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.80

Chains :   Asym. Unit : A
Biol. Unit 1: A  (2x)
Biol. Unit 2: A  (4x)

Keywords :   Transferase, One-Carbon Metabolism, Atp-Binding (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   F. Takusagawa, S. Kamitori, G. D. Markham
Structure And Function Of S-Adenosylmethionine Synthetase: Crystal Structures Of S-Adenosylmethionine Synthetase With Adp, Bradp, And Ppi At 28 Angstroms Resolution.
Biochemistry V. 35 2586 1996
PubMed-ID: 8611562 | Reference-DOI: 10.1021/BI952604Z

Molecule 1 - S-ADENOSYLMETHIONINE SYNTHETASE
	Chains	:	A
	EC Number	:	2.5.1.6
	Organism Scientific	:	ESCHERICHIA COLI
	Organism Taxid	:	562
	Synonym	:	MAT, ATP:L-METHIONINE S-ADENOSYLTRANSFERASE

		1
Asymmetric Unit	:	A
Biological Unit 1 (2x)	:	A
Biological Unit 2 (4x)	:	A

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (4, 6)

No.	Name	Count	Type	Full Name
1	ADP	1	Ligand/Ion	ADENOSINE-5'-DIPHOSPHATE
2	K	2	Ligand/Ion	POTASSIUM ION
3	MG	2	Ligand/Ion	MAGNESIUM ION
4	PO4	1	Ligand/Ion	PHOSPHATE ION

Biological Unit 1 (2, 4)

No.	Name	Count	Type	Full Name
1	ADP	2	Ligand/Ion	ADENOSINE-5'-DIPHOSPHATE
2	K	-1	Ligand/Ion	POTASSIUM ION
3	MG	-1	Ligand/Ion	MAGNESIUM ION
4	PO4	2	Ligand/Ion	PHOSPHATE ION

Biological Unit 2 (2, 8)

No.	Name	Count	Type	Full Name
1	ADP	4	Ligand/Ion	ADENOSINE-5'-DIPHOSPHATE
2	K	-1	Ligand/Ion	POTASSIUM ION
3	MG	-1	Ligand/Ion	MAGNESIUM ION
4	PO4	4	Ligand/Ion	PHOSPHATE ION

Asymmetric Unit (6, 6)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	ASP A:16 , ARG A:244 , LYS A:245 , GLY A:260 , ALA A:261 , LYS A:265 , ASP A:271 , ADP A:385 , MG A:411 , MG A:412	BINDING SITE FOR RESIDUE PO4 A 384
2	AC2	SOFTWARE	ASP A:271 , PO4 A:384 , ADP A:385	BINDING SITE FOR RESIDUE MG A 411
3	AC3	SOFTWARE	ASP A:16 , PO4 A:384 , ADP A:385	BINDING SITE FOR RESIDUE MG A 412
4	AC4	SOFTWARE	GLU A:42 , SER A:263 , LYS A:265	BINDING SITE FOR RESIDUE K A 413
5	AC5	SOFTWARE	GLY A:243 , ILE A:246	BINDING SITE FOR RESIDUE K A 414
6	AC6	SOFTWARE	HIS A:14 , ASP A:16 , ARG A:38 , ALA A:40 , GLU A:55 , GLN A:98 , ASP A:118 , LYS A:165 , GLY A:237 , LYS A:245 , LYS A:265 , LYS A:269 , ASP A:271 , PO4 A:384 , MG A:411 , MG A:412	BINDING SITE FOR RESIDUE ADP A 385

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

(no "Cis Peptide Bond" information available for 1MXB)

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

Asymmetric Unit (2, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	ADOMET_SYNTHASE_1	PS00376	S-adenosylmethionine synthase signature 1.	METK_ECOLI	116-126	1	A:115-125
2	ADOMET_SYNTHASE_2	PS00377	S-adenosylmethionine synthase signature 2.	METK_ECOLI	259-267	1	A:258-266

Biological Unit 1 (2, 4)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	ADOMET_SYNTHASE_1	PS00376	S-adenosylmethionine synthase signature 1.	METK_ECOLI	116-126	2	A:115-125
2	ADOMET_SYNTHASE_2	PS00377	S-adenosylmethionine synthase signature 2.	METK_ECOLI	259-267	2	A:258-266

Biological Unit 2 (2, 8)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	ADOMET_SYNTHASE_1	PS00376	S-adenosylmethionine synthase signature 1.	METK_ECOLI	116-126	4	A:115-125
2	ADOMET_SYNTHASE_2	PS00377	S-adenosylmethionine synthase signature 2.	METK_ECOLI	259-267	4	A:258-266

(no "Exon" information available for 1MXB)

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
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Chain A from PDB  Type:PROTEIN  Length:378
 aligned with METK_ECOLI | P0A817 from UniProtKB/Swiss-Prot  Length:384

    Alignment length:383
                                    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   
           METK_ECOLI     2 AKHLFTSESVSEGHPDKIADQISDAVLDAILEQDPKARVACETYVKTGMVLVGGEITTSAWVDIEEITRNTVREIGYVHSDMGFDANSCAVLSAIGKQSPDINQGVDRADPLEQGAGDQGLMFGYATNETDVLMPAPITYAHRLVQRQAEVRKNGTLPWLRPDAKSQVTFQYDDGKIVGIDAVVLSTQHSEEIDQKSLQEAVMEEIIKPILPAEWLTSATKFFINPTGRFVIGGPMGDCGLTGRKIIVDTYGGMARHGGGAFSGKDPSKVDRSAAYAARYVAKNIVAAGLADRCEIQVSYAIGVAEPTSIMVETFGTEKVPSEQLTLLVREFFDLRPYGLIQMLDLLHPIYKETAAYGHFGREHFPWEKTDKAQLLRDAAGLK 384
               SCOP domains d1mxba1 A:1-102 S-adenosylmethionine synthetase                                                       -----d1mxba2 A:108-231 S-adenosylmethionine synthetase                                                                           d1mxba3 A:232-383 S-adenosylmethionine synthetase                                                                                                        SCOP domains
               CATH domains 1mxbA03  1mxbA02 A:10-101,A:233-269  [code=3.30.300.10, no name defined]                             ------1mxbA01 A:108-135,A:270-382 1mxbA03 A:1-9,A:136-232  [code=3.30.300.10, no name defined]                                     1mxbA02 A:10-101,A:233-269           1mxbA01 A:108-135,A:270-382  [code=3.30.300.10, no name defined]                                                 - CATH domains
               Pfam domains S-AdoMet_synt_N-1mxbA03 A:1-100                                                                     -----------S-AdoMet_synt_M-1mxbA02 A:112-230                                                                                      -S-AdoMet_synt_C-1mxbA01 A:232-369                                                                                                         -------------- Pfam domains
         Sec.struct. author ..eeeeeeee....hhhhhhhhhhhhhhhhhhh....eeeeeeeee..eeeeeeeee......hhhhhhhhhhhh....hhh.......eeeeeeeee....-----...hhh......eeeeeeee........hhhhhhhhhhhhhhhhhh..........eeeeeeeeee..eeeee.eeeeee.......hhhhhhhhhhh.......hhh.....eeee.....................hhhhh...................hhhhhhhhhhhhhhhhhh.....eeeeeeee........eeeeee.......hhhhhhhhhhh....hhhhhhh........hhhh..........hhh....hhhhhhh.... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------ADOMET_SYNT------------------------------------------------------------------------------------------------------------------------------------ADOMET_SY--------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1mxb A   1 AKHLFTSESVSEGHPDKIADQISDAVLDAILEQDPKARVACETYVKTGMVLVGGEITTSAWVDIEEITRNTVREIGYVHSDMGFDANSCAVLSAIGKQSPDI-----RADPLEQGAGDQGLMFGYATNETDVLMPAPITYAHRLVQRQAEVRKNGTLPWLRPDAKSQVTFQYDDGKIVGIDAVVLSTQHSEEIDQKSLQEAVMEEIIKPILPAEWLTSATKFFINPTGRFVIGGPMGDCGLTGRKIIVDTYGGMARHGGGAFSGKDPSKVDRSAAYAARYVAKNIVAAGLADRCEIQVSYAIGVAEPTSIMVETFGTEKVPSEQLTLLVREFFDLRPYGLIQMLDLLHPIYKETAAYGHFGREHFPWEKTDKAQLLRDAAGLK 383
                                    10        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   
                                                                                                                               102   108

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Asymmetric Unit

Classes(

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Folds(

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Superfamilies( (-)

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Families(

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Protein Domains( (-)

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Organisms( (-)

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Class: Alpha and beta proteins (a+b) (23004)

Fold: S-adenosylmethionine synthetase (23)

Superfamily: S-adenosylmethionine synthetase (23)

Family: S-adenosylmethionine synthetase (15)

Protein domain: S-adenosylmethionine synthetase (15)

Escherichia coli [TaxId: 562] (9)

1a	d1mxba1	A:1-102
1b	d1mxba2	A:108-231
1c	d1mxba3	A:232-383

Asymmetric Unit

Classes(

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Architectures( (-)

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Topologies( (-)

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Homologous Superfamilies( (-)

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Organisms( (-)

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Class: Alpha Beta (26913)

Architecture: 2-Layer Sandwich (8480)

Topology: GMP Synthetase; Chain A, domain 3 (192)

Homologous Superfamily: [code=3.30.300.10, no name defined] (22)

Escherichia coli. Organism_taxid: 562 (6)

1a	1mxbA03	A:1-9,A:136-232
1b	1mxbA01	A:108-135,A:270-382
1c	1mxbA02	A:10-101,A:233-269

Asymmetric Unit(hide GO term definitions)

Chain A (METK_ECOLI | P0A817)

molecular function
	GO:0005524	ATP binding	Interacting selectively and non-covalently with ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
	GO:0042802	identical protein binding	Interacting selectively and non-covalently with an identical protein or proteins.
	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:0004478	methionine adenosyltransferase activity	Catalysis of the reaction: ATP + L-methionine + H2O = phosphate + diphosphate + S-adenosyl-L-methionine.
	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:0030955	potassium ion binding	Interacting selectively and non-covalently with potassium (K+) ions.
	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:0016740	transferase activity	Catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from one compound (generally regarded as the donor) to another compound (generally regarded as the acceptor). Transferase is the systematic name for any enzyme of EC class 2.
biological process
	GO:0006556	S-adenosylmethionine biosynthetic process	The chemical reactions and pathways resulting in the formation of S-adenosylmethionine, S-(5'-adenosyl)-L-methionine, an important intermediate in one-carbon metabolism.
	GO:0033353	S-adenosylmethionine cycle	A cyclic series of interconversions involving S-adenosylmethionine, S-adenosyl-L-homocysteine, L-cysteine, and L-methionine. Couples utilization of the methyl group of SAM with recycling of the homocysteinyl group and regeneration of methionine.
	GO:0006730	one-carbon metabolic process	The chemical reactions and pathways involving the transfer of one-carbon units in various oxidation states.
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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(no "Related Entries Specified in the PDB File" available for 1MXB)

Description

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Chains, Units

Ligands, Modified Residues, Ions (4, 6)

Sites (6, 6)

SS Bonds (0, 0)

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