2QK4 | pdb_00002qk4

Human glycinamide ribonucleotide synthetase

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
B	d2qk4b3	All beta proteins	Barrel-sandwich hybrid	Rudiment single hybrid motif	automated matches	automated matches	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
B	d2qk4b1	Alpha and beta proteins (a/b)	PreATP-grasp domain	PreATP-grasp domain	automated matches	automated matches	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
B	d2qk4b2	Alpha and beta proteins (a+b)	ATP-grasp	Glutathione synthetase ATP-binding domain-like	automated matches	automated matches	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
B	d2qk4b4	Artifacts	Tags	Tags	Tags	N-terminal Tags	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
A	d2qk4a3	All beta proteins	Barrel-sandwich hybrid	Rudiment single hybrid motif	automated matches	automated matches	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
A	d2qk4a1	Alpha and beta proteins (a/b)	PreATP-grasp domain	PreATP-grasp domain	automated matches	automated matches	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
A	d2qk4a2	Alpha and beta proteins (a+b)	ATP-grasp	Glutathione synthetase ATP-binding domain-like	automated matches	automated matches	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
A	d2qk4a4	Artifacts	Tags	Tags	Tags	N-terminal Tags	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
B		e2qk4B1	A: HTH	X: HTH	H: tetra-helical, lambda repressor-like	T: DAO, NAD_binding_8	F:	ECOD (20:10:01)
A		e2qk4A1	A: Composite domain of metallo-dependent hydrolases	X: Immunoglobulin-related	H: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	T: Y_phosphatase	F:	ECOD (20:10:01)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
B	3.40.50.20	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold		CATH (4.3.0)
B	3.30.1490.20	Alpha Beta	2-Layer Sandwich	Dna Ligase	domain 1	CATH (4.3.0)
B	3.30.470.20	Alpha Beta	2-Layer Sandwich	D-amino Acid Aminotransferase	Chain A, domain 1	CATH (4.3.0)
B	3.90.600.10	Alpha Beta	Alpha-Beta Complex	Glycinamide Ribonucleotide Synthetase	Chain A, domain 4	CATH (4.3.0)
A	3.40.50.20	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold		CATH (4.3.0)
A	3.30.1490.20	Alpha Beta	2-Layer Sandwich	Dna Ligase	domain 1	CATH (4.3.0)
A	3.30.470.20	Alpha Beta	2-Layer Sandwich	D-amino Acid Aminotransferase	Chain A, domain 1	CATH (4.3.0)
A	3.90.600.10	Alpha Beta	Alpha-Beta Complex	Glycinamide Ribonucleotide Synthetase	Chain A, domain 4	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	PF02844	Phosphoribosylglycinamide synthetase, N domain (GARS_N)	Phosphoribosylglycinamide synthetase, N domain	Phosphoribosylglycinamide synthetase catalyses the second step in the de novo biosynthesis of purine. The reaction catalysed by Phosphoribosylglycinamide synthetase is the ATP- dependent addition of 5-phosphoribosylamine to glycine to form 5'phosphor ...	Phosphoribosylglycinamide synthetase catalyses the second step in the de novo biosynthesis of purine. The reaction catalysed by Phosphoribosylglycinamide synthetase is the ATP- dependent addition of 5-phosphoribosylamine to glycine to form 5'phosphoribosylglycinamide. This domain is related to the N-terminal domain of biotin carboxylase/carbamoyl phosphate synthetase (see Pfam:PF00289). This domain is structurally related to the PreATP-grasp domain.	Domain
A, B	PF01071	Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain (GARS_A)	Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain	Phosphoribosylglycinamide synthetase catalyses the second step in the de novo biosynthesis of purine. The reaction catalysed by Phosphoribosylglycinamide synthetase is the ATP- dependent addition of 5-phosphoribosylamine to glycine to form 5'phospho ...	Phosphoribosylglycinamide synthetase catalyses the second step in the de novo biosynthesis of purine. The reaction catalysed by Phosphoribosylglycinamide synthetase is the ATP- dependent addition of 5-phosphoribosylamine to glycine to form 5'phosphoribosylglycinamide. This domain is related to the ATP-grasp domain of biotin carboxylase/carbamoyl phosphate synthetase (see Pfam:PF02786).	Domain
A, B	PF02843	Phosphoribosylglycinamide synthetase, C domain (GARS_C)	Phosphoribosylglycinamide synthetase, C domain	Phosphoribosylglycinamide synthetase catalyses the second step in the de novo biosynthesis of purine. The reaction catalysed by Phosphoribosylglycinamide synthetase is the ATP- dependent addition of 5-phosphoribosylamine to glycine to form 5'phosphor ...	Phosphoribosylglycinamide synthetase catalyses the second step in the de novo biosynthesis of purine. The reaction catalysed by Phosphoribosylglycinamide synthetase is the ATP- dependent addition of 5-phosphoribosylamine to glycine to form 5'phosphoribosylglycinamide. This domain is related to the C-terminal domain of biotin carboxylase/carbamoyl phosphate synthetase (see Pfam:PF02787).	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	Trifunctional purine biosynthetic protein adenosine-3	phosphoribosylformylglycinamidine cyclo-ligase activity catalytic activity cyclo-ligase activity ligase activity, forming carbon-nitrogen bonds ligase activity binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding phosphoribosylformylglycinamidine cyclo-ligase activity catalytic activity cyclo-ligase activity ligase activity, forming carbon-nitrogen bonds ligase activity 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 phosphoribosylglycinamide formyltransferase activity transferase activity, transferring one-carbon groups transferase activity hydroxymethyl-, formyl- and related transferase activity phosphoribosylamine-glycine ligase activity cation binding metal ion binding	developmental process anatomical structure development brainstem development ribose phosphate metabolic process IMP 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 developmental process anatomical structure development brainstem development ribose phosphate metabolic process IMP 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 nucleobase-containing small molecule metabolic process purine-containing compound biosynthetic process purine nucleoside monophosphate metabolic process phosphate-containing compound 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 primary metabolic process nucleotide metabolic process nucleobase-containing compound biosynthetic process nucleoside monophosphate biosynthetic process purine-containing compound metabolic process IMP biosynthetic process biosynthetic process organophosphate metabolic process organophosphate biosynthetic process nucleoside phosphate biosynthetic process metabolic process cellular process 'de novo' IMP biosynthetic process purine ribonucleotide metabolic process ribonucleoside monophosphate biosynthetic process purine nucleotide biosynthetic process 'de novo' AMP biosynthetic process AMP metabolic process AMP biosynthetic process nucleobase biosynthetic process purine nucleobase metabolic process purine nucleobase biosynthetic process adenine biosynthetic process nucleobase metabolic process adenine metabolic process GMP metabolic process GMP biosynthetic process 'de novo' XMP biosynthetic process XMP metabolic process XMP biosynthetic process multicellular organismal process head development animal organ development brain development nervous system development multicellular organism development cerebellum development central nervous system development metencephalon development hindbrain development system development forebrain development pallium development cerebral cortex development telencephalon development	extracellular exosome membrane-bounded organelle extracellular vesicle cellular anatomical structure extracellular organelle extracellular region organelle extracellular space vesicle extracellular membrane-bounded organelle intracellular anatomical structure cytoplasm cytosol

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR036676	PurM-like, C-terminal domain superfamily	Homologous Superfamily
A, B	IPR036477	Formyl transferase, N-terminal domain superfamily	Homologous Superfamily
A, B	IPR004733	Phosphoribosylformylglycinamidine cyclo-ligase	Family
A, B	IPR001555	Phosphoribosylglycinamide formyltransferase, active site	Active Site
A, B	IPR011054	Rudiment single hybrid motif	Homologous Superfamily
A, B	IPR002376	Formyl transferase, N-terminal	Domain
A, B	IPR036921	PurM-like, N-terminal domain superfamily	Homologous Superfamily
A, B	IPR020560	Phosphoribosylglycinamide synthetase, C-domain	Domain
A, B	IPR000115	Phosphoribosylglycinamide synthetase	Family
A, B	IPR011761	ATP-grasp fold	Domain
A, B	IPR010918	PurM-like, C-terminal domain	Domain
A, B	IPR013815	ATP-grasp fold, subdomain 1	Homologous Superfamily
A, B	IPR037123	Phosphoribosylglycinamide synthetase, C-domain superfamily	Homologous Superfamily
A, B	IPR020559	Phosphoribosylglycinamide synthetase, conserved site	Conserved Site
A, B	IPR020562	Phosphoribosylglycinamide synthetase, N-terminal	Domain
A, B	IPR016185	Pre-ATP-grasp domain superfamily	Homologous Superfamily
A, B	IPR004607	Phosphoribosylglycinamide formyltransferase	Family
A, B	IPR020561	Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain	Domain
A, B	IPR016188	PurM-like, N-terminal domain	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, B	Pharos: P22102	rheumatoid arthritis non-small cell lung carcinoma psoriasis lung adenocarcinoma medulloblastoma ovarian cancer pancreatic intraductal papillary-mucinous neoplasm Adenocarcinoma of Lung breast cancer Down syndrome hepatocellular carcinoma malignant ependymoma malignant pancreatic neoplasm myopathy oligodendroglioma rheumatoid arthritis non-small cell lung carcinoma psoriasis lung adenocarcinoma medulloblastoma ovarian cancer pancreatic intraductal papillary-mucinous neoplasm Adenocarcinoma of Lung breast cancer Down syndrome hepatocellular carcinoma malignant ependymoma malignant pancreatic neoplasm myopathy oligodendroglioma pancreatic ductal adenocarcinoma pilocytic astrocytoma astrocytic tumor Crohn disease Gaucher disease inflammatory bowel disease lung cancer malignant glioma malignant pleural mesothelioma nasopharyngeal carcinoma osteosarcoma pancreatic intraductal papillary-mucinous carcinoma primitive neuroectodermal tumor atypical teratoid rhabdoid tumor tuberculosis glioblastoma large cell medulloblastoma malignant colon neoplasm malignant mesothelioma

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. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.