Annotations: 1GPM

Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d1gpma2	Alpha and beta proteins (a/b)	Flavodoxin-like	Class I glutamine amidotransferase-like	Class I glutamine amidotransferases (GAT)	GMP synthetase	(Escherichia coli K-12 ) [TaxId: 83333 ],	SCOPe (2.08)
A	d1gpma1	Alpha and beta proteins (a/b)	Adenine nucleotide alpha hydrolase-like	Adenine nucleotide alpha hydrolases-like	N-type ATP pyrophosphatases	GMP synthetase, central domain	(Escherichia coli K-12 ) [TaxId: 83333 ],	SCOPe (2.08)
A	d1gpma3	Alpha and beta proteins (a+b)	Alpha-lytic protease prodomain-like	GMP synthetase C-terminal dimerisation domain	GMP synthetase C-terminal dimerisation domain	GMP synthetase C-terminal dimerisation domain	(Escherichia coli K-12 ) [TaxId: 83333 ],	SCOPe (2.08)
B	d1gpmb2	Alpha and beta proteins (a/b)	Flavodoxin-like	Class I glutamine amidotransferase-like	Class I glutamine amidotransferases (GAT)	GMP synthetase	(Escherichia coli K-12 ) [TaxId: 83333 ],	SCOPe (2.08)
B	d1gpmb1	Alpha and beta proteins (a/b)	Adenine nucleotide alpha hydrolase-like	Adenine nucleotide alpha hydrolases-like	N-type ATP pyrophosphatases	GMP synthetase, central domain	(Escherichia coli K-12 ) [TaxId: 83333 ],	SCOPe (2.08)
B	d1gpmb3	Alpha and beta proteins (a+b)	Alpha-lytic protease prodomain-like	GMP synthetase C-terminal dimerisation domain	GMP synthetase C-terminal dimerisation domain	GMP synthetase C-terminal dimerisation domain	(Escherichia coli K-12 ) [TaxId: 83333 ],	SCOPe (2.08)
C	d1gpmc2	Alpha and beta proteins (a/b)	Flavodoxin-like	Class I glutamine amidotransferase-like	Class I glutamine amidotransferases (GAT)	GMP synthetase	(Escherichia coli K-12 ) [TaxId: 83333 ],	SCOPe (2.08)
C	d1gpmc1	Alpha and beta proteins (a/b)	Adenine nucleotide alpha hydrolase-like	Adenine nucleotide alpha hydrolases-like	N-type ATP pyrophosphatases	GMP synthetase, central domain	(Escherichia coli K-12 ) [TaxId: 83333 ],	SCOPe (2.08)
C	d1gpmc3	Alpha and beta proteins (a+b)	Alpha-lytic protease prodomain-like	GMP synthetase C-terminal dimerisation domain	GMP synthetase C-terminal dimerisation domain	GMP synthetase C-terminal dimerisation domain	(Escherichia coli K-12 ) [TaxId: 83333 ],	SCOPe (2.08)
D	d1gpmd2	Alpha and beta proteins (a/b)	Flavodoxin-like	Class I glutamine amidotransferase-like	Class I glutamine amidotransferases (GAT)	GMP synthetase	(Escherichia coli K-12 ) [TaxId: 83333 ],	SCOPe (2.08)
D	d1gpmd1	Alpha and beta proteins (a/b)	Adenine nucleotide alpha hydrolase-like	Adenine nucleotide alpha hydrolases-like	N-type ATP pyrophosphatases	GMP synthetase, central domain	(Escherichia coli K-12 ) [TaxId: 83333 ],	SCOPe (2.08)
D	d1gpmd3	Alpha and beta proteins (a+b)	Alpha-lytic protease prodomain-like	GMP synthetase C-terminal dimerisation domain	GMP synthetase C-terminal dimerisation domain	GMP synthetase C-terminal dimerisation domain	(Escherichia coli K-12 ) [TaxId: 83333 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2 Family	GMP synthetase C-terminal dimerisation domain	8022747	4001196	SCOP2 (2022-06-29)
A	SCOP2 Family	Class I glutamine amidotransferases (GAT)	8031760	4003747	SCOP2 (2022-06-29)
A	SCOP2 Family	N-type ATP pyrophosphatases	8031828	4003831	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	GMP synthetase C-terminal dimerisation domain	8035127	3001035	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Class I glutamine amidotransferase-like	8044138	3001405	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Adenine nucleotide alpha hydrolases-like	8044206	3001593	SCOP2 (2022-06-29)
B	SCOP2B Superfamily	Class I glutamine amidotransferase-like	8044138	3001405	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	GMP synthetase C-terminal dimerisation domain	8035127	3001035	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Adenine nucleotide alpha hydrolases-like	8044206	3001593	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Adenine nucleotide alpha hydrolases-like	8044206	3001593	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Class I glutamine amidotransferase-like	8044138	3001405	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	GMP synthetase C-terminal dimerisation domain	8035127	3001035	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Adenine nucleotide alpha hydrolases-like	8044206	3001593	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	GMP synthetase C-terminal dimerisation domain	8035127	3001035	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Class I glutamine amidotransferase-like	8044138	3001405	SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	GMP_synt_C	e1gpmA1	A: a+b two layers	X: Alpha-lytic protease prodomain-like	H: GMP synthetase C-terminal dimerisation domain (From Topology)	T: GMP synthetase C-terminal dimerisation domain	F: GMP_synt_C	ECOD (1.6)
A	NAD_synthase	e1gpmA2	A: a/b three-layered sandwiches	X: HUP domain-like	H: HUP domains (From Topology)	T: HUP domains	F: NAD_synthase	ECOD (1.6)
A	GATase	e1gpmA3	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Class I glutamine amidotransferase-like	T: Class I glutamine amidotransferase-like	F: GATase	ECOD (1.6)
B	GMP_synt_C	e1gpmB1	A: a+b two layers	X: Alpha-lytic protease prodomain-like	H: GMP synthetase C-terminal dimerisation domain (From Topology)	T: GMP synthetase C-terminal dimerisation domain	F: GMP_synt_C	ECOD (1.6)
B	NAD_synthase	e1gpmB2	A: a/b three-layered sandwiches	X: HUP domain-like	H: HUP domains (From Topology)	T: HUP domains	F: NAD_synthase	ECOD (1.6)
B	GATase	e1gpmB3	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Class I glutamine amidotransferase-like	T: Class I glutamine amidotransferase-like	F: GATase	ECOD (1.6)
C	GMP_synt_C	e1gpmC1	A: a+b two layers	X: Alpha-lytic protease prodomain-like	H: GMP synthetase C-terminal dimerisation domain (From Topology)	T: GMP synthetase C-terminal dimerisation domain	F: GMP_synt_C	ECOD (1.6)
C	NAD_synthase	e1gpmC2	A: a/b three-layered sandwiches	X: HUP domain-like	H: HUP domains (From Topology)	T: HUP domains	F: NAD_synthase	ECOD (1.6)
C	GATase	e1gpmC3	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Class I glutamine amidotransferase-like	T: Class I glutamine amidotransferase-like	F: GATase	ECOD (1.6)
D	GMP_synt_C	e1gpmD1	A: a+b two layers	X: Alpha-lytic protease prodomain-like	H: GMP synthetase C-terminal dimerisation domain (From Topology)	T: GMP synthetase C-terminal dimerisation domain	F: GMP_synt_C	ECOD (1.6)
D	NAD_synthase	e1gpmD2	A: a/b three-layered sandwiches	X: HUP domain-like	H: HUP domains (From Topology)	T: HUP domains	F: NAD_synthase	ECOD (1.6)
D	GATase	e1gpmD3	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Class I glutamine amidotransferase-like	T: Class I glutamine amidotransferase-like	F: GATase	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.40.50.880	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Class I glutamine amidotransferase (GATase) domain	CATH (4.3.0)
A	3.40.50.620	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	HUPs	CATH (4.3.0)
A	3.30.300.10	Alpha Beta	2-Layer Sandwich	GMP Synthetase	Chain A, domain 3	CATH (4.3.0)
B	3.40.50.880	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Class I glutamine amidotransferase (GATase) domain	CATH (4.3.0)
B	3.40.50.620	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	HUPs	CATH (4.3.0)
B	3.30.300.10	Alpha Beta	2-Layer Sandwich	GMP Synthetase	Chain A, domain 3	CATH (4.3.0)
C	3.40.50.880	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Class I glutamine amidotransferase (GATase) domain	CATH (4.3.0)
C	3.40.50.620	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	HUPs	CATH (4.3.0)
C	3.30.300.10	Alpha Beta	2-Layer Sandwich	GMP Synthetase	Chain A, domain 3	CATH (4.3.0)
D	3.40.50.880	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Class I glutamine amidotransferase (GATase) domain	CATH (4.3.0)
D	3.40.50.620	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	HUPs	CATH (4.3.0)
D	3.30.300.10	Alpha Beta	2-Layer Sandwich	GMP Synthetase	Chain A, domain 3	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D	PF00117	Glutamine amidotransferase class-I (GATase)	Glutamine amidotransferase class-I		Domain
A, B, C, D	PF00958	GMP synthase C terminal domain (GMP_synt_C)	GMP synthase C terminal domain	GMP synthetase is a glutamine amidotransferase from the de novo purine biosynthetic pathway. This family is the C-terminal domain specific to the GMP synthases Swiss:P49915 EC:6.3.5.2. In prokaryotes this domain mediates dimerisation. Eukaryotic GMP ...	GMP synthetase is a glutamine amidotransferase from the de novo purine biosynthetic pathway. This family is the C-terminal domain specific to the GMP synthases Swiss:P49915 EC:6.3.5.2. In prokaryotes this domain mediates dimerisation. Eukaryotic GMP synthases are monomers. This domain in eukaryotes includes several large insertions that may form globular domains.	Domain
A, B, C, D	PF02540	NAD synthase (NAD_synthase)	NAD synthase	NAD synthase (EC:6.3.5.1) is involved in the de novo synthesis of NAD and is induced by stress factors such as heat shock and glucose limitation.	Domain
A, B, C, D	PF07722	Peptidase C26 (Peptidase_C26)	Peptidase C26	These peptidases have gamma-glutamyl hydrolase activity; that is they catalyse the cleavage of the gamma-glutamyl bond in poly-gamma-glutamyl substrates. They are structurally related to Pfam:PF00117, but contain extensions in four loops and at the C ...	These peptidases have gamma-glutamyl hydrolase activity; that is they catalyse the cleavage of the gamma-glutamyl bond in poly-gamma-glutamyl substrates. They are structurally related to Pfam:PF00117, but contain extensions in four loops and at the C terminus [1].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D	GMP SYNTHETASE	binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding carbon-nitrogen ligase activity, with glutamine as amido-N-donor GMP synthase (glutamine-hydrolyzing) activity catalytic activity ligase activity, forming carbon-nitrogen bonds ligase activity GMP synthase activity identical protein binding protein binding	ribose phosphate metabolic process purine ribonucleoside monophosphate biosynthetic process nucleotide biosynthetic process carbohydrate derivative metabolic process purine ribonucleotide biosynthetic process nucleobase-containing compound metabolic process ribonucleotide biosynthetic process purine nucleoside monophosphate biosynthetic process purine ribonucleoside monophosphate metabolic process purine nucleotide metabolic process ribonucleotide metabolic process ribonucleoside monophosphate metabolic process nucleobase-containing small molecule metabolic process purine-containing compound biosynthetic process purine nucleoside monophosphate metabolic process ribose phosphate metabolic process purine ribonucleoside monophosphate biosynthetic process nucleotide biosynthetic process carbohydrate derivative metabolic process purine ribonucleotide biosynthetic process nucleobase-containing compound metabolic process ribonucleotide biosynthetic process purine nucleoside monophosphate biosynthetic process purine ribonucleoside monophosphate metabolic process purine nucleotide metabolic process ribonucleotide metabolic process ribonucleoside monophosphate metabolic process nucleobase-containing small molecule metabolic process purine-containing compound biosynthetic process purine nucleoside monophosphate metabolic process phosphate-containing compound metabolic process GMP metabolic process small molecule metabolic process phosphorus metabolic process ribose phosphate biosynthetic process nucleoside monophosphate metabolic process nucleoside phosphate metabolic process carbohydrate derivative biosynthetic process GMP biosynthetic process primary metabolic process nucleotide metabolic process nucleobase-containing compound biosynthetic process nucleoside monophosphate biosynthetic process purine-containing compound metabolic process biosynthetic process organophosphate metabolic process organophosphate biosynthetic process nucleoside phosphate biosynthetic process metabolic process cellular process purine ribonucleotide metabolic process ribonucleoside monophosphate biosynthetic process purine nucleotide biosynthetic process	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D	IPR029062	Class I glutamine amidotransferase-like	Homologous Superfamily
A, B, C, D	IPR022310	NAD/GMP synthase	Domain
A, B, C, D	IPR004739	GMP synthase, glutamine amidotransferase	Domain
A, B, C, D	IPR014729	Rossmann-like alpha/beta/alpha sandwich fold	Homologous Superfamily
A, B, C, D	IPR022955	GMP synthase	Family
A, B, C, D	IPR001674	GMP synthase, C-terminal	Domain
A, B, C, D	IPR017926	Glutamine amidotransferase	Domain
A, B, C, D	IPR025777	GMP synthetase ATP pyrophosphatase domain	Domain

Structure Motif Annotation: Mechanism and Catalytic Site Atlas M-CSA Database Homepage

Chains	Enzyme Name	Description	Catalytic Residues
A	GMP synthase (glutamine-hydrolysing) M-CSA #234	The Class I glutamine amidotransferase an example of a single enzymatic reaction being catalysed by two modules, each responsible for a distinct component of the reaction. It catalyses the amination of the nucleotide precursor xanthosine 5'-monophosphate to form GMP in the de novo purine biosynthesis pathway. The amidotransferase domain is found in related enzymes of the purine, pyrimidine, tryptophan, arginine, histidine and folic acid pathways. This domain includes a conserved Cys-His-Glu triad, responsible for the abstraction of the amide nitrogen from glutamine. Despite the apparent catalytic readiness of the GMP synthetase active site, the Class I aminotransferase domain is actually a very poor glutaminase in the absence of the substrates XMP and ATP, which is consistent with the biological role of this enzyme, in which the hydrolysis of glutamine is tightly couple with the formation of GMP. The synthetase domain catalyses the addition of ammonia to an acceptor substrate. They are designed to work in concert to ensure efficient coupling of catalytic functions, it is suggested that a flexible hinge exists to bring the two sites together for concerted ammonia transfer.	Defined by 7 residues: GLY:A-59CYS:A-86TYR:A-87HIS:A-181GLU:A-183ASP:A-239LYS:A-381 \| Explore in 3D: M-CSA Motif Definition Search M-CSA Motif EC: 6.3.5.2 (PDB Primary Data) Search M-CSA Motif + EC 6.3.5.2

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729.