guanosine ribonucleotides de novo biosynthesis

gomodel:YeastPathways_PWY-7221

Guanosine ribonucleotides de novo biosynthesis in Saccharomyces cerevisiae S288C oxidizes IMP to xanthosine 5-monophosphate through IMD2, IMD3, and IMD4 IMP dehydrogenase activity, aminates xanthosine 5-monophosphate to GMP, and phosphorylates GMP and GDP to form GTP.

Pathway type

nucleotide biosynthesis

Organism scope

Saccharomyces cerevisiae S288C NCBITaxon:559292

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Pathway network

33 nodes · 64 asserted directed edges

Arrows show recorded subject → object relationships, not necessarily metabolic flow. Select a node for details or an arrow for evidence. Scroll, zoom or find a node to explore.

Reaction / activity
Chemical / cofactor
Protein / complex
Cell / process context
Solid arrow: mechanistic relation
Dashed arrow: membership, location or cofactor relation

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Components and activities

Declared biological components and source reaction directions
Node	Kind or role	Source direction
Saccharomyces cerevisiae S288C `NCBITaxon:559292`	taxon
5'-xanthylate(2-) `CHEBI:57464`	small molecule
YNK1 Scer `SGD:S000001550`	protein
ADP(3-) `CHEBI:456216`	small molecule
'de novo' GMP biosynthetic process `GO:0106387`	biological process
GDP(3-) `CHEBI:58189`	small molecule
NADH(2-) `CHEBI:57945`	small molecule
ATP(4-) `CHEBI:30616`	small molecule
cytosol `GO:0005829`	cellular component
NAD(1-) `CHEBI:57540`	small molecule
water `CHEBI:15377`	small molecule
GUK1 Scer `SGD:S000002862`	protein
guanosine 5'-monophosphate(2-) `CHEBI:58115`	small molecule
IMP(2-) `CHEBI:58053`	small molecule
diphosphoric acid `CHEBI:29888`	small molecule
GUA1 Scer `SGD:S000004830`	protein
hydron `CHEBI:15378`	small molecule
adenosine 5'-monophosphate(2-) `CHEBI:456215`	small molecule
IMD3 Scer `SGD:S000004424`	protein
L-glutamine zwitterion `CHEBI:58359`	small molecule
IMD4 Scer `SGD:S000004520`	protein
IMD2 Scer `SGD:S000001259`	protein
L-glutamate(1-) `CHEBI:29985`	small molecule
GTP(4-) `CHEBI:37565`	small molecule
cytoplasm `GO:0005737`	cellular component
mitochondrial intermembrane space `GO:0005758`	cellular component
magnesium(2+) `CHEBI:18420`	cofactor
potassium(1+) `CHEBI:29103`	cofactor
nucleoside diphosphate kinase activity `gomodel:GDPKIN-RXN`	molecular activity
GMP synthase (glutamine-hydrolyzing) activity `gomodel:GMP-SYN-GLUT-RXN`	molecular activity
GMP kinase activity `gomodel:GUANYL-KIN-RXN`	molecular activity
IMP dehydrogenase activity `gomodel:IMP-DEHYDROG-RXN`	molecular activity
IMP dehydrogenase activity `gomodel:YeastPathways_PWY-7221/6a4c244800000652`	molecular activity
IMP dehydrogenase activity `gomodel:YeastPathways_PWY-7221/6a4c244800000662`	molecular activity

Mechanistic edges

Mechanistic edges and their cited evidence
Subject	Predicate and description	Object	Evidence
IMP dehydrogenase activity `gomodel:YeastPathways_PWY-7221/6a4c244800000662`	has_output	5'-xanthylate(2-) `CHEBI:57464`	gomodel:YeastPathways_PWY-7221 Source assertion: The model asserts gomodel:YeastPathways_PWY-7221/6a4c244800000662 RO:0002234 gomodel:CHEBI_57464_IMP-DEHYDROG-RXN. Source location `./YeastPathways_PWY-7221.json#/facts/0; endpoint types: /individuals/72/type; /individuals/13/type`
YNK1 Scer `SGD:S000001550`	enables	nucleoside diphosphate kinase activity `gomodel:GDPKIN-RXN`	gomodel:YeastPathways_PWY-7221 Source assertion: The model asserts gomodel:GDPKIN-RXN RO:0002333 gomodel:YKL067W-MONOMER_GDPKIN-RXN_controller. Source location `./YeastPathways_PWY-7221.json#/facts/1; endpoint types: /individuals/20/type; /individuals/26/type`
GMP kinase activity `gomodel:GUANYL-KIN-RXN`	has_output	ADP(3-) `CHEBI:456216`	gomodel:YeastPathways_PWY-7221 Source assertion: The model asserts gomodel:GUANYL-KIN-RXN RO:0002234 gomodel:CHEBI_456216_GUANYL-KIN-RXN. Source location `./YeastPathways_PWY-7221.json#/facts/2; endpoint types: /individuals/22/type; /individuals/12/type`
GMP kinase activity `gomodel:GUANYL-KIN-RXN`	part_of	'de novo' GMP biosynthetic process `GO:0106387`	gomodel:YeastPathways_PWY-7221 Source assertion: The model asserts gomodel:GUANYL-KIN-RXN BFO:0000050 gomodel:YeastPathways_PWY-7221/YeastPathways_PWY-7221. Source location `./YeastPathways_PWY-7221.json#/facts/3; endpoint types: /individuals/22/type; /individuals/63/type`
IMP dehydrogenase activity `gomodel:YeastPathways_PWY-7221/6a4c244800000662`	part_of	'de novo' GMP biosynthetic process `GO:0106387`	gomodel:YeastPathways_PWY-7221 Source assertion: The model asserts gomodel:YeastPathways_PWY-7221/6a4c244800000662 BFO:0000050 gomodel:YeastPathways_PWY-7221/YeastPathways_PWY-7221. Source location `./YeastPathways_PWY-7221.json#/facts/4; endpoint types: /individuals/72/type; /individuals/63/type`
GMP kinase activity `gomodel:GUANYL-KIN-RXN`	has_output	GDP(3-) `CHEBI:58189`	gomodel:YeastPathways_PWY-7221 Source assertion: The model asserts gomodel:GUANYL-KIN-RXN RO:0002234 gomodel:CHEBI_58189_GUANYL-KIN-RXN. Source location `./YeastPathways_PWY-7221.json#/facts/5; endpoint types: /individuals/22/type; /individuals/18/type`
IMP dehydrogenase activity `gomodel:YeastPathways_PWY-7221/6a4c244800000662`	has_output	NADH(2-) `CHEBI:57945`	gomodel:YeastPathways_PWY-7221 Source assertion: The model asserts gomodel:YeastPathways_PWY-7221/6a4c244800000662 RO:0002234 gomodel:YeastPathways_PWY-7221/6a4c244800000667. Source location `./YeastPathways_PWY-7221.json#/facts/6; endpoint types: /individuals/72/type; /individuals/77/type`
IMP dehydrogenase activity `gomodel:YeastPathways_PWY-7221/6a4c244800000652`	part_of	'de novo' GMP biosynthetic process `GO:0106387`	gomodel:YeastPathways_PWY-7221 Source assertion: The model asserts gomodel:YeastPathways_PWY-7221/6a4c244800000652 BFO:0000050 gomodel:YeastPathways_PWY-7221/YeastPathways_PWY-7221. Source location `./YeastPathways_PWY-7221.json#/facts/7; endpoint types: /individuals/64/type; /individuals/63/type`
GMP kinase activity `gomodel:GUANYL-KIN-RXN`	has_input	ATP(4-) `CHEBI:30616`	gomodel:YeastPathways_PWY-7221 Source assertion: The model asserts gomodel:GUANYL-KIN-RXN RO:0002233 gomodel:CHEBI_30616_GUANYL-KIN-RXN. Source location `./YeastPathways_PWY-7221.json#/facts/8; endpoint types: /individuals/22/type; /individuals/8/type`
IMP dehydrogenase activity `gomodel:IMP-DEHYDROG-RXN`	occurs_in	cytosol `GO:0005829`	gomodel:YeastPathways_PWY-7221 Source assertion: The model asserts gomodel:IMP-DEHYDROG-RXN BFO:0000066 gomodel:reaction_IMP-DEHYDROG-RXN_location_lociGO_0005829. Source location `./YeastPathways_PWY-7221.json#/facts/9; endpoint types: /individuals/23/type; /individuals/62/type`
IMP dehydrogenase activity `gomodel:IMP-DEHYDROG-RXN`	part_of	'de novo' GMP biosynthetic process `GO:0106387`	gomodel:YeastPathways_PWY-7221 Source assertion: The model asserts gomodel:IMP-DEHYDROG-RXN BFO:0000050 gomodel:YeastPathways_PWY-7221/YeastPathways_PWY-7221. Source location `./YeastPathways_PWY-7221.json#/facts/10; endpoint types: /individuals/23/type; /individuals/63/type`
IMP dehydrogenase activity `gomodel:YeastPathways_PWY-7221/6a4c244800000652`	has_input	NAD(1-) `CHEBI:57540`	gomodel:YeastPathways_PWY-7221 Source assertion: The model asserts gomodel:YeastPathways_PWY-7221/6a4c244800000652 RO:0002233 gomodel:YeastPathways_PWY-7221/6a4c244800000655. Source location `./YeastPathways_PWY-7221.json#/facts/11; endpoint types: /individuals/64/type; /individuals/67/type`
IMP dehydrogenase activity `gomodel:YeastPathways_PWY-7221/6a4c244800000652`	has_input	water `CHEBI:15377`	gomodel:YeastPathways_PWY-7221 Source assertion: The model asserts gomodel:YeastPathways_PWY-7221/6a4c244800000652 RO:0002233 gomodel:YeastPathways_PWY-7221/6a4c244800000654. Source location `./YeastPathways_PWY-7221.json#/facts/12; endpoint types: /individuals/64/type; /individuals/66/type`
GUK1 Scer `SGD:S000002862`	enables	GMP kinase activity `gomodel:GUANYL-KIN-RXN`	gomodel:YeastPathways_PWY-7221 Source assertion: The model asserts gomodel:GUANYL-KIN-RXN RO:0002333 gomodel:MONOMER3O-102_GUANYL-KIN-RXN_controller. Source location `./YeastPathways_PWY-7221.json#/facts/13; endpoint types: /individuals/22/type; /individuals/24/type`
GMP synthase (glutamine-hydrolyzing) activity `gomodel:GMP-SYN-GLUT-RXN`	has_output	guanosine 5'-monophosphate(2-) `CHEBI:58115`	gomodel:YeastPathways_PWY-7221 Source assertion: The model asserts gomodel:GMP-SYN-GLUT-RXN RO:0002234 gomodel:CHEBI_58115_GMP-SYN-GLUT-RXN. Source location `./YeastPathways_PWY-7221.json#/facts/14; endpoint types: /individuals/21/type; /individuals/17/type`
IMP dehydrogenase activity `gomodel:IMP-DEHYDROG-RXN`	has_input	IMP(2-) `CHEBI:58053`	gomodel:YeastPathways_PWY-7221 Source assertion: The model asserts gomodel:IMP-DEHYDROG-RXN RO:0002233 gomodel:CHEBI_58053_IMP-DEHYDROG-RXN. Source location `./YeastPathways_PWY-7221.json#/facts/15; endpoint types: /individuals/23/type; /individuals/16/type`
nucleoside diphosphate kinase activity `gomodel:GDPKIN-RXN`	has_input	ATP(4-) `CHEBI:30616`	gomodel:YeastPathways_PWY-7221 Source assertion: The model asserts gomodel:GDPKIN-RXN RO:0002233 gomodel:CHEBI_30616_GDPKIN-RXN. Source location `./YeastPathways_PWY-7221.json#/facts/16; endpoint types: /individuals/20/type; /individuals/6/type`
GMP synthase (glutamine-hydrolyzing) activity `gomodel:GMP-SYN-GLUT-RXN`	part_of	'de novo' GMP biosynthetic process `GO:0106387`	gomodel:YeastPathways_PWY-7221 Source assertion: The model asserts gomodel:GMP-SYN-GLUT-RXN BFO:0000050 gomodel:YeastPathways_PWY-7221/YeastPathways_PWY-7221. Source location `./YeastPathways_PWY-7221.json#/facts/17; endpoint types: /individuals/21/type; /individuals/63/type`
IMP dehydrogenase activity `gomodel:YeastPathways_PWY-7221/6a4c244800000662`	has_input	water `CHEBI:15377`	gomodel:YeastPathways_PWY-7221 Source assertion: The model asserts gomodel:YeastPathways_PWY-7221/6a4c244800000662 RO:0002233 gomodel:YeastPathways_PWY-7221/6a4c244800000664. Source location `./YeastPathways_PWY-7221.json#/facts/18; endpoint types: /individuals/72/type; /individuals/74/type`
IMP dehydrogenase activity `gomodel:IMP-DEHYDROG-RXN`	has_output	NADH(2-) `CHEBI:57945`	gomodel:YeastPathways_PWY-7221 Source assertion: The model asserts gomodel:IMP-DEHYDROG-RXN RO:0002234 gomodel:CHEBI_57945_IMP-DEHYDROG-RXN. Source location `./YeastPathways_PWY-7221.json#/facts/19; endpoint types: /individuals/23/type; /individuals/15/type`
GMP kinase activity `gomodel:GUANYL-KIN-RXN`	has_input	guanosine 5'-monophosphate(2-) `CHEBI:58115`	gomodel:YeastPathways_PWY-7221 Source assertion: The model asserts gomodel:GUANYL-KIN-RXN RO:0002233 gomodel:CHEBI_58115_GMP-SYN-GLUT-RXN. Source location `./YeastPathways_PWY-7221.json#/facts/20; endpoint types: /individuals/22/type; /individuals/17/type`
IMP dehydrogenase activity `gomodel:IMP-DEHYDROG-RXN`	has_input	NAD(1-) `CHEBI:57540`	gomodel:YeastPathways_PWY-7221 Source assertion: The model asserts gomodel:IMP-DEHYDROG-RXN RO:0002233 gomodel:CHEBI_57540_IMP-DEHYDROG-RXN. Source location `./YeastPathways_PWY-7221.json#/facts/21; endpoint types: /individuals/23/type; /individuals/14/type`
GMP synthase (glutamine-hydrolyzing) activity `gomodel:GMP-SYN-GLUT-RXN`	has_output	diphosphoric acid `CHEBI:29888`	gomodel:YeastPathways_PWY-7221 Source assertion: The model asserts gomodel:GMP-SYN-GLUT-RXN RO:0002234 gomodel:CHEBI_29888_GMP-SYN-GLUT-RXN. Source location `./YeastPathways_PWY-7221.json#/facts/22; endpoint types: /individuals/21/type; /individuals/4/type`
GUA1 Scer `SGD:S000004830`	enables	GMP synthase (glutamine-hydrolyzing) activity `gomodel:GMP-SYN-GLUT-RXN`	gomodel:YeastPathways_PWY-7221 Source assertion: The model asserts gomodel:GMP-SYN-GLUT-RXN RO:0002333 gomodel:YMR217W-MONOMER_GMP-SYN-GLUT-RXN_controller. Source location `./YeastPathways_PWY-7221.json#/facts/23; endpoint types: /individuals/21/type; /individuals/27/type`
IMP dehydrogenase activity `gomodel:YeastPathways_PWY-7221/6a4c244800000652`	has_output	hydron `CHEBI:15378`	gomodel:YeastPathways_PWY-7221 Source assertion: The model asserts gomodel:YeastPathways_PWY-7221/6a4c244800000652 RO:0002234 gomodel:YeastPathways_PWY-7221/6a4c244800000656. Source location `./YeastPathways_PWY-7221.json#/facts/24; endpoint types: /individuals/64/type; /individuals/68/type`
IMP dehydrogenase activity `gomodel:YeastPathways_PWY-7221/6a4c244800000662`	occurs_in	cytosol `GO:0005829`	gomodel:YeastPathways_PWY-7221 Source assertion: The model asserts gomodel:YeastPathways_PWY-7221/6a4c244800000662 BFO:0000066 gomodel:YeastPathways_PWY-7221/6a4c244800000671. Source location `./YeastPathways_PWY-7221.json#/facts/25; endpoint types: /individuals/72/type; /individuals/79/type`
GMP synthase (glutamine-hydrolyzing) activity `gomodel:GMP-SYN-GLUT-RXN`	has_output	adenosine 5'-monophosphate(2-) `CHEBI:456215`	gomodel:YeastPathways_PWY-7221 Source assertion: The model asserts gomodel:GMP-SYN-GLUT-RXN RO:0002234 gomodel:CHEBI_456215_GMP-SYN-GLUT-RXN. Source location `./YeastPathways_PWY-7221.json#/facts/26; endpoint types: /individuals/21/type; /individuals/10/type`
nucleoside diphosphate kinase activity `gomodel:GDPKIN-RXN`	part_of	'de novo' GMP biosynthetic process `GO:0106387`	gomodel:YeastPathways_PWY-7221 Source assertion: The model asserts gomodel:GDPKIN-RXN BFO:0000050 gomodel:YeastPathways_PWY-7221/YeastPathways_PWY-7221. Source location `./YeastPathways_PWY-7221.json#/facts/27; endpoint types: /individuals/20/type; /individuals/63/type`
IMP dehydrogenase activity `gomodel:IMP-DEHYDROG-RXN`	has_output	hydron `CHEBI:15378`	gomodel:YeastPathways_PWY-7221 Source assertion: The model asserts gomodel:IMP-DEHYDROG-RXN RO:0002234 gomodel:CHEBI_15378_IMP-DEHYDROG-RXN. Source location `./YeastPathways_PWY-7221.json#/facts/28; endpoint types: /individuals/23/type; /individuals/3/type`
IMD3 Scer `SGD:S000004424`	enables	IMP dehydrogenase activity `gomodel:YeastPathways_PWY-7221/6a4c244800000662`	gomodel:YeastPathways_PWY-7221 Source assertion: The model asserts gomodel:YeastPathways_PWY-7221/6a4c244800000662 RO:0002333 gomodel:YeastPathways_PWY-7221/6a4c244800000670. Source location `./YeastPathways_PWY-7221.json#/facts/29; endpoint types: /individuals/72/type; /individuals/78/type`
GMP synthase (glutamine-hydrolyzing) activity `gomodel:GMP-SYN-GLUT-RXN`	occurs_in	cytosol `GO:0005829`	gomodel:YeastPathways_PWY-7221 Source assertion: The model asserts gomodel:GMP-SYN-GLUT-RXN BFO:0000066 gomodel:reaction_GMP-SYN-GLUT-RXN_location_lociGO_0005829. Source location `./YeastPathways_PWY-7221.json#/facts/30; endpoint types: /individuals/21/type; /individuals/60/type`
GMP synthase (glutamine-hydrolyzing) activity `gomodel:GMP-SYN-GLUT-RXN`	has_output	hydron `CHEBI:15378`	gomodel:YeastPathways_PWY-7221 Source assertion: The model asserts gomodel:GMP-SYN-GLUT-RXN RO:0002234 gomodel:CHEBI_15378_GMP-SYN-GLUT-RXN. Source location `./YeastPathways_PWY-7221.json#/facts/31; endpoint types: /individuals/21/type; /individuals/2/type`
GMP kinase activity `gomodel:GUANYL-KIN-RXN`	occurs_in	cytosol `GO:0005829`	gomodel:YeastPathways_PWY-7221 Source assertion: The model asserts gomodel:GUANYL-KIN-RXN BFO:0000066 gomodel:reaction_GUANYL-KIN-RXN_location_lociGO_0005829. Source location `./YeastPathways_PWY-7221.json#/facts/32; endpoint types: /individuals/22/type; /individuals/61/type`
IMP dehydrogenase activity `gomodel:YeastPathways_PWY-7221/6a4c244800000652`	occurs_in	cytosol `GO:0005829`	gomodel:YeastPathways_PWY-7221 Source assertion: The model asserts gomodel:YeastPathways_PWY-7221/6a4c244800000652 BFO:0000066 gomodel:YeastPathways_PWY-7221/6a4c244800000661. Source location `./YeastPathways_PWY-7221.json#/facts/33; endpoint types: /individuals/64/type; /individuals/71/type`
nucleoside diphosphate kinase activity `gomodel:GDPKIN-RXN`	has_input	GDP(3-) `CHEBI:58189`	gomodel:YeastPathways_PWY-7221 Source assertion: The model asserts gomodel:GDPKIN-RXN RO:0002233 gomodel:CHEBI_58189_GUANYL-KIN-RXN. Source location `./YeastPathways_PWY-7221.json#/facts/34; endpoint types: /individuals/20/type; /individuals/18/type`
GMP synthase (glutamine-hydrolyzing) activity `gomodel:GMP-SYN-GLUT-RXN`	has_input	L-glutamine zwitterion `CHEBI:58359`	gomodel:YeastPathways_PWY-7221 Source assertion: The model asserts gomodel:GMP-SYN-GLUT-RXN RO:0002233 gomodel:CHEBI_58359_GMP-SYN-GLUT-RXN. Source location `./YeastPathways_PWY-7221.json#/facts/35; endpoint types: /individuals/21/type; /individuals/19/type`
IMP dehydrogenase activity `gomodel:IMP-DEHYDROG-RXN`	has_output	5'-xanthylate(2-) `CHEBI:57464`	gomodel:YeastPathways_PWY-7221 Source assertion: The model asserts gomodel:IMP-DEHYDROG-RXN RO:0002234 gomodel:CHEBI_57464_IMP-DEHYDROG-RXN. Source location `./YeastPathways_PWY-7221.json#/facts/36; endpoint types: /individuals/23/type; /individuals/13/type`
IMP dehydrogenase activity `gomodel:YeastPathways_PWY-7221/6a4c244800000662`	has_output	hydron `CHEBI:15378`	gomodel:YeastPathways_PWY-7221 Source assertion: The model asserts gomodel:YeastPathways_PWY-7221/6a4c244800000662 RO:0002234 gomodel:YeastPathways_PWY-7221/6a4c244800000666. Source location `./YeastPathways_PWY-7221.json#/facts/37; endpoint types: /individuals/72/type; /individuals/76/type`
IMD4 Scer `SGD:S000004520`	enables	IMP dehydrogenase activity `gomodel:YeastPathways_PWY-7221/6a4c244800000652`	gomodel:YeastPathways_PWY-7221 Source assertion: The model asserts gomodel:YeastPathways_PWY-7221/6a4c244800000652 RO:0002333 gomodel:YeastPathways_PWY-7221/6a4c244800000658. Source location `./YeastPathways_PWY-7221.json#/facts/38; endpoint types: /individuals/64/type; /individuals/70/type`
GMP synthase (glutamine-hydrolyzing) activity `gomodel:GMP-SYN-GLUT-RXN`	has_input	ATP(4-) `CHEBI:30616`	gomodel:YeastPathways_PWY-7221 Source assertion: The model asserts gomodel:GMP-SYN-GLUT-RXN RO:0002233 gomodel:CHEBI_30616_GMP-SYN-GLUT-RXN. Source location `./YeastPathways_PWY-7221.json#/facts/39; endpoint types: /individuals/21/type; /individuals/7/type`
IMP dehydrogenase activity `gomodel:IMP-DEHYDROG-RXN`	has_input	water `CHEBI:15377`	gomodel:YeastPathways_PWY-7221 Source assertion: The model asserts gomodel:IMP-DEHYDROG-RXN RO:0002233 gomodel:CHEBI_15377_IMP-DEHYDROG-RXN. Source location `./YeastPathways_PWY-7221.json#/facts/40; endpoint types: /individuals/23/type; /individuals/1/type`
nucleoside diphosphate kinase activity `gomodel:GDPKIN-RXN`	occurs_in	cytosol `GO:0005829`	gomodel:YeastPathways_PWY-7221 Source assertion: The model asserts gomodel:GDPKIN-RXN BFO:0000066 gomodel:reaction_GDPKIN-RXN_location_lociGO_0005829. Source location `./YeastPathways_PWY-7221.json#/facts/41; endpoint types: /individuals/20/type; /individuals/59/type`
nucleoside diphosphate kinase activity `gomodel:GDPKIN-RXN`	has_output	ADP(3-) `CHEBI:456216`	gomodel:YeastPathways_PWY-7221 Source assertion: The model asserts gomodel:GDPKIN-RXN RO:0002234 gomodel:CHEBI_456216_GDPKIN-RXN. Source location `./YeastPathways_PWY-7221.json#/facts/42; endpoint types: /individuals/20/type; /individuals/11/type`
GMP synthase (glutamine-hydrolyzing) activity `gomodel:GMP-SYN-GLUT-RXN`	has_input	5'-xanthylate(2-) `CHEBI:57464`	gomodel:YeastPathways_PWY-7221 Source assertion: The model asserts gomodel:GMP-SYN-GLUT-RXN RO:0002233 gomodel:CHEBI_57464_IMP-DEHYDROG-RXN. Source location `./YeastPathways_PWY-7221.json#/facts/43; endpoint types: /individuals/21/type; /individuals/13/type`
IMP dehydrogenase activity `gomodel:YeastPathways_PWY-7221/6a4c244800000662`	has_input	NAD(1-) `CHEBI:57540`	gomodel:YeastPathways_PWY-7221 Source assertion: The model asserts gomodel:YeastPathways_PWY-7221/6a4c244800000662 RO:0002233 gomodel:YeastPathways_PWY-7221/6a4c244800000665. Source location `./YeastPathways_PWY-7221.json#/facts/44; endpoint types: /individuals/72/type; /individuals/75/type`
IMP dehydrogenase activity `gomodel:YeastPathways_PWY-7221/6a4c244800000662`	has_input	IMP(2-) `CHEBI:58053`	gomodel:YeastPathways_PWY-7221 Source assertion: The model asserts gomodel:YeastPathways_PWY-7221/6a4c244800000662 RO:0002233 gomodel:YeastPathways_PWY-7221/6a4c244800000663. Source location `./YeastPathways_PWY-7221.json#/facts/45; endpoint types: /individuals/72/type; /individuals/73/type`
IMD2 Scer `SGD:S000001259`	enables	IMP dehydrogenase activity `gomodel:IMP-DEHYDROG-RXN`	gomodel:YeastPathways_PWY-7221 Source assertion: The model asserts gomodel:IMP-DEHYDROG-RXN RO:0002333 gomodel:YHR216W-MONOMER_IMP-DEHYDROG-RXN_controller. Source location `./YeastPathways_PWY-7221.json#/facts/46; endpoint types: /individuals/23/type; /individuals/25/type`
GMP synthase (glutamine-hydrolyzing) activity `gomodel:GMP-SYN-GLUT-RXN`	has_output	L-glutamate(1-) `CHEBI:29985`	gomodel:YeastPathways_PWY-7221 Source assertion: The model asserts gomodel:GMP-SYN-GLUT-RXN RO:0002234 gomodel:CHEBI_29985_GMP-SYN-GLUT-RXN. Source location `./YeastPathways_PWY-7221.json#/facts/47; endpoint types: /individuals/21/type; /individuals/5/type`
nucleoside diphosphate kinase activity `gomodel:GDPKIN-RXN`	has_output	GTP(4-) `CHEBI:37565`	gomodel:YeastPathways_PWY-7221 Source assertion: The model asserts gomodel:GDPKIN-RXN RO:0002234 gomodel:CHEBI_37565_GDPKIN-RXN. Source location `./YeastPathways_PWY-7221.json#/facts/48; endpoint types: /individuals/20/type; /individuals/9/type`
IMP dehydrogenase activity `gomodel:YeastPathways_PWY-7221/6a4c244800000652`	has_output	5'-xanthylate(2-) `CHEBI:57464`	gomodel:YeastPathways_PWY-7221 Source assertion: The model asserts gomodel:YeastPathways_PWY-7221/6a4c244800000652 RO:0002234 gomodel:CHEBI_57464_IMP-DEHYDROG-RXN. Source location `./YeastPathways_PWY-7221.json#/facts/49; endpoint types: /individuals/64/type; /individuals/13/type`
GMP synthase (glutamine-hydrolyzing) activity `gomodel:GMP-SYN-GLUT-RXN`	has_input	water `CHEBI:15377`	gomodel:YeastPathways_PWY-7221 Source assertion: The model asserts gomodel:GMP-SYN-GLUT-RXN RO:0002233 gomodel:CHEBI_15377_GMP-SYN-GLUT-RXN. Source location `./YeastPathways_PWY-7221.json#/facts/50; endpoint types: /individuals/21/type; /individuals/0/type`
IMP dehydrogenase activity `gomodel:YeastPathways_PWY-7221/6a4c244800000652`	has_input	IMP(2-) `CHEBI:58053`	gomodel:YeastPathways_PWY-7221 Source assertion: The model asserts gomodel:YeastPathways_PWY-7221/6a4c244800000652 RO:0002233 gomodel:YeastPathways_PWY-7221/6a4c244800000653. Source location `./YeastPathways_PWY-7221.json#/facts/51; endpoint types: /individuals/64/type; /individuals/65/type`
IMP dehydrogenase activity `gomodel:YeastPathways_PWY-7221/6a4c244800000652`	has_output	NADH(2-) `CHEBI:57945`	gomodel:YeastPathways_PWY-7221 Source assertion: The model asserts gomodel:YeastPathways_PWY-7221/6a4c244800000652 RO:0002234 gomodel:YeastPathways_PWY-7221/6a4c244800000657. Source location `./YeastPathways_PWY-7221.json#/facts/52; endpoint types: /individuals/64/type; /individuals/69/type`
YNK1 Scer `SGD:S000001550`	located_in Physical protein location from reviewed UniProt. ECO:0000269 (PubMed:12472466) Source qualification: Localizes predominantly to the cytoplasm. A small fraction is present in the mitochondrial intermembrane space	cytoplasm `GO:0005737`	UniProtKB:P36010 Source assertion: UniProtKB:P36010 annotates location Cytoplasm (SL-0086). Source location `https://rest.uniprot.org/uniprotkb/stream?query=taxonomy_id%3A559292+AND+reviewed%3Atrue&format=json&fields=accession%2Cprotein_name%2Cxref_sgd%2Ccc_subcellular_location%2Ccc_function%2Ccc_caution%2Corganism_id#/results/1183/comments/1/subcellularLocations/0; sha256=95f72dcc644358c480e0e59f996cf88533558b5fa4256460a030e0a1eaf9678d` UniProtKB:P36010 Source assertion: UniProtKB:P36010 has the exact SGD cross-reference SGD:S000001550. Source location `https://rest.uniprot.org/uniprotkb/stream?query=taxonomy_id%3A559292+AND+reviewed%3Atrue&format=json&fields=accession%2Cprotein_name%2Cxref_sgd%2Ccc_subcellular_location%2Ccc_function%2Ccc_caution%2Corganism_id#/results/1183/uniProtKBCrossReferences/0; sha256=95f72dcc644358c480e0e59f996cf88533558b5fa4256460a030e0a1eaf9678d`
YNK1 Scer `SGD:S000001550`	located_in Physical protein location from reviewed UniProt. ECO:0000269 (PubMed:12472466); ECO:0000269 (PubMed:16823961); ECO:0000269 (PubMed:22984289) Source qualification: Localizes predominantly to the cytoplasm. A small fraction is present in the mitochondrial intermembrane space	mitochondrial intermembrane space `GO:0005758`	UniProtKB:P36010 Source assertion: UniProtKB:P36010 annotates location Mitochondrion intermembrane space (SL-0169). Source location `https://rest.uniprot.org/uniprotkb/stream?query=taxonomy_id%3A559292+AND+reviewed%3Atrue&format=json&fields=accession%2Cprotein_name%2Cxref_sgd%2Ccc_subcellular_location%2Ccc_function%2Ccc_caution%2Corganism_id#/results/1183/comments/1/subcellularLocations/1; sha256=95f72dcc644358c480e0e59f996cf88533558b5fa4256460a030e0a1eaf9678d` UniProtKB:P36010 Source assertion: UniProtKB:P36010 has the exact SGD cross-reference SGD:S000001550. Source location `https://rest.uniprot.org/uniprotkb/stream?query=taxonomy_id%3A559292+AND+reviewed%3Atrue&format=json&fields=accession%2Cprotein_name%2Cxref_sgd%2Ccc_subcellular_location%2Ccc_function%2Ccc_caution%2Corganism_id#/results/1183/uniProtKBCrossReferences/0; sha256=95f72dcc644358c480e0e59f996cf88533558b5fa4256460a030e0a1eaf9678d`
GUA1 Scer `SGD:S000004830`	located_in Physical protein location from reviewed UniProt. ECO:0000250 (UniProtKB:Q9P772)	cytosol `GO:0005829`	UniProtKB:P38625 Source assertion: UniProtKB:P38625 annotates location Cytoplasm, cytosol (SL-0091). Source location `https://rest.uniprot.org/uniprotkb/stream?query=taxonomy_id%3A559292+AND+reviewed%3Atrue&format=json&fields=accession%2Cprotein_name%2Cxref_sgd%2Ccc_subcellular_location%2Ccc_function%2Ccc_caution%2Corganism_id#/results/3611/comments/1/subcellularLocations/0; sha256=95f72dcc644358c480e0e59f996cf88533558b5fa4256460a030e0a1eaf9678d` UniProtKB:P38625 Source assertion: UniProtKB:P38625 has the exact SGD cross-reference SGD:S000004830. Source location `https://rest.uniprot.org/uniprotkb/stream?query=taxonomy_id%3A559292+AND+reviewed%3Atrue&format=json&fields=accession%2Cprotein_name%2Cxref_sgd%2Ccc_subcellular_location%2Ccc_function%2Ccc_caution%2Corganism_id#/results/3611/uniProtKBCrossReferences/0; sha256=95f72dcc644358c480e0e59f996cf88533558b5fa4256460a030e0a1eaf9678d`
IMD3 Scer `SGD:S000004424`	located_in Physical protein location from reviewed UniProt. ECO:0000255 (HAMAP-Rule:MF_03156); ECO:0000269 (PubMed:14562095)	cytoplasm `GO:0005737`	UniProtKB:P50095 Source assertion: UniProtKB:P50095 annotates location Cytoplasm (SL-0086). Source location `https://rest.uniprot.org/uniprotkb/stream?query=taxonomy_id%3A559292+AND+reviewed%3Atrue&format=json&fields=accession%2Cprotein_name%2Cxref_sgd%2Ccc_subcellular_location%2Ccc_function%2Ccc_caution%2Corganism_id#/results/2048/comments/1/subcellularLocations/0; sha256=95f72dcc644358c480e0e59f996cf88533558b5fa4256460a030e0a1eaf9678d` UniProtKB:P50095 Source assertion: UniProtKB:P50095 has the exact SGD cross-reference SGD:S000004424. Source location `https://rest.uniprot.org/uniprotkb/stream?query=taxonomy_id%3A559292+AND+reviewed%3Atrue&format=json&fields=accession%2Cprotein_name%2Cxref_sgd%2Ccc_subcellular_location%2Ccc_function%2Ccc_caution%2Corganism_id#/results/2048/uniProtKBCrossReferences/0; sha256=95f72dcc644358c480e0e59f996cf88533558b5fa4256460a030e0a1eaf9678d`
IMD4 Scer `SGD:S000004520`	located_in Physical protein location from reviewed UniProt. ECO:0000255 (HAMAP-Rule:MF_03156); ECO:0000269 (PubMed:14562095)	cytoplasm `GO:0005737`	UniProtKB:P50094 Source assertion: UniProtKB:P50094 annotates location Cytoplasm (SL-0086). Source location `https://rest.uniprot.org/uniprotkb/stream?query=taxonomy_id%3A559292+AND+reviewed%3Atrue&format=json&fields=accession%2Cprotein_name%2Cxref_sgd%2Ccc_subcellular_location%2Ccc_function%2Ccc_caution%2Corganism_id#/results/2047/comments/1/subcellularLocations/0; sha256=95f72dcc644358c480e0e59f996cf88533558b5fa4256460a030e0a1eaf9678d` UniProtKB:P50094 Source assertion: UniProtKB:P50094 has the exact SGD cross-reference SGD:S000004520. Source location `https://rest.uniprot.org/uniprotkb/stream?query=taxonomy_id%3A559292+AND+reviewed%3Atrue&format=json&fields=accession%2Cprotein_name%2Cxref_sgd%2Ccc_subcellular_location%2Ccc_function%2Ccc_caution%2Corganism_id#/results/2047/uniProtKBCrossReferences/0; sha256=95f72dcc644358c480e0e59f996cf88533558b5fa4256460a030e0a1eaf9678d`
IMD2 Scer `SGD:S000001259`	located_in Physical protein location from reviewed UniProt. ECO:0000255 (HAMAP-Rule:MF_03156); ECO:0000269 (PubMed:14562095)	cytoplasm `GO:0005737`	UniProtKB:P38697 Source assertion: UniProtKB:P38697 annotates location Cytoplasm (SL-0086). Source location `https://rest.uniprot.org/uniprotkb/stream?query=taxonomy_id%3A559292+AND+reviewed%3Atrue&format=json&fields=accession%2Cprotein_name%2Cxref_sgd%2Ccc_subcellular_location%2Ccc_function%2Ccc_caution%2Corganism_id#/results/1412/comments/1/subcellularLocations/0; sha256=95f72dcc644358c480e0e59f996cf88533558b5fa4256460a030e0a1eaf9678d` UniProtKB:P38697 Source assertion: UniProtKB:P38697 has the exact SGD cross-reference SGD:S000001259. Source location `https://rest.uniprot.org/uniprotkb/stream?query=taxonomy_id%3A559292+AND+reviewed%3Atrue&format=json&fields=accession%2Cprotein_name%2Cxref_sgd%2Ccc_subcellular_location%2Ccc_function%2Ccc_caution%2Corganism_id#/results/1412/uniProtKBCrossReferences/0; sha256=95f72dcc644358c480e0e59f996cf88533558b5fa4256460a030e0a1eaf9678d`
YNK1 Scer `SGD:S000001550`	has_cofactor UniProtKB reviewed (Swiss-Prot) annotation. UniProt evidence: ECO:0000269 (PubMed:5793714)	magnesium(2+) `CHEBI:18420`	UniProtKB:P36010 Source assertion: UniProtKB:P36010 annotates CHEBI:18420 as a cofactor of this protein. Source location `https://rest.uniprot.org/uniprotkb/stream?query=taxonomy_id%3A559292+AND+reviewed%3Atrue&format=json&fields=accession%2Cprotein_name%2Cxref_sgd%2Ccc_cofactor%2Corganism_id%2Ccc_caution [sha256:1378282d22c5518215707964664b55946f468ba74a227a6ea1bbf27db69ddbc4] #/results/1183/comments/0/cofactors/0` UniProtKB:P36010 Source assertion: UniProtKB:P36010 has the exact SGD cross-reference SGD:S000001550. Source location `https://rest.uniprot.org/uniprotkb/stream?query=taxonomy_id%3A559292+AND+reviewed%3Atrue&format=json&fields=accession%2Cprotein_name%2Cxref_sgd%2Ccc_cofactor%2Corganism_id%2Ccc_caution [sha256:1378282d22c5518215707964664b55946f468ba74a227a6ea1bbf27db69ddbc4] #/results/1183/uniProtKBCrossReferences/0`
GUA1 Scer `SGD:S000004830`	has_cofactor UniProtKB reviewed (Swiss-Prot) annotation. UniProt evidence: ECO:0000250 (UniProtKB:Q4WFT3)	magnesium(2+) `CHEBI:18420`	UniProtKB:P38625 Source assertion: UniProtKB:P38625 annotates CHEBI:18420 as a cofactor of this protein. Source location `https://rest.uniprot.org/uniprotkb/stream?query=taxonomy_id%3A559292+AND+reviewed%3Atrue&format=json&fields=accession%2Cprotein_name%2Cxref_sgd%2Ccc_cofactor%2Corganism_id%2Ccc_caution [sha256:1378282d22c5518215707964664b55946f468ba74a227a6ea1bbf27db69ddbc4] #/results/3611/comments/0/cofactors/0` UniProtKB:P38625 Source assertion: UniProtKB:P38625 has the exact SGD cross-reference SGD:S000004830. Source location `https://rest.uniprot.org/uniprotkb/stream?query=taxonomy_id%3A559292+AND+reviewed%3Atrue&format=json&fields=accession%2Cprotein_name%2Cxref_sgd%2Ccc_cofactor%2Corganism_id%2Ccc_caution [sha256:1378282d22c5518215707964664b55946f468ba74a227a6ea1bbf27db69ddbc4] #/results/3611/uniProtKBCrossReferences/0`
IMD3 Scer `SGD:S000004424`	has_cofactor UniProtKB reviewed (Swiss-Prot) annotation. UniProt evidence: ECO:0000255 (HAMAP-Rule:MF_03156)	potassium(1+) `CHEBI:29103`	UniProtKB:P50095 Source assertion: UniProtKB:P50095 annotates CHEBI:29103 as a cofactor of this protein. Source location `https://rest.uniprot.org/uniprotkb/stream?query=taxonomy_id%3A559292+AND+reviewed%3Atrue&format=json&fields=accession%2Cprotein_name%2Cxref_sgd%2Ccc_cofactor%2Corganism_id%2Ccc_caution [sha256:1378282d22c5518215707964664b55946f468ba74a227a6ea1bbf27db69ddbc4] #/results/2048/comments/0/cofactors/0` UniProtKB:P50095 Source assertion: UniProtKB:P50095 has the exact SGD cross-reference SGD:S000004424. Source location `https://rest.uniprot.org/uniprotkb/stream?query=taxonomy_id%3A559292+AND+reviewed%3Atrue&format=json&fields=accession%2Cprotein_name%2Cxref_sgd%2Ccc_cofactor%2Corganism_id%2Ccc_caution [sha256:1378282d22c5518215707964664b55946f468ba74a227a6ea1bbf27db69ddbc4] #/results/2048/uniProtKBCrossReferences/0`
IMD4 Scer `SGD:S000004520`	has_cofactor UniProtKB reviewed (Swiss-Prot) annotation. UniProt evidence: ECO:0000255 (HAMAP-Rule:MF_03156)	potassium(1+) `CHEBI:29103`	UniProtKB:P50094 Source assertion: UniProtKB:P50094 annotates CHEBI:29103 as a cofactor of this protein. Source location `https://rest.uniprot.org/uniprotkb/stream?query=taxonomy_id%3A559292+AND+reviewed%3Atrue&format=json&fields=accession%2Cprotein_name%2Cxref_sgd%2Ccc_cofactor%2Corganism_id%2Ccc_caution [sha256:1378282d22c5518215707964664b55946f468ba74a227a6ea1bbf27db69ddbc4] #/results/2047/comments/0/cofactors/0` UniProtKB:P50094 Source assertion: UniProtKB:P50094 has the exact SGD cross-reference SGD:S000004520. Source location `https://rest.uniprot.org/uniprotkb/stream?query=taxonomy_id%3A559292+AND+reviewed%3Atrue&format=json&fields=accession%2Cprotein_name%2Cxref_sgd%2Ccc_cofactor%2Corganism_id%2Ccc_caution [sha256:1378282d22c5518215707964664b55946f468ba74a227a6ea1bbf27db69ddbc4] #/results/2047/uniProtKBCrossReferences/0`
IMD2 Scer `SGD:S000001259`	has_cofactor UniProtKB reviewed (Swiss-Prot) annotation. UniProt evidence: ECO:0000255 (HAMAP-Rule:MF_03156)	potassium(1+) `CHEBI:29103`	UniProtKB:P38697 Source assertion: UniProtKB:P38697 annotates CHEBI:29103 as a cofactor of this protein. Source location `https://rest.uniprot.org/uniprotkb/stream?query=taxonomy_id%3A559292+AND+reviewed%3Atrue&format=json&fields=accession%2Cprotein_name%2Cxref_sgd%2Ccc_cofactor%2Corganism_id%2Ccc_caution [sha256:1378282d22c5518215707964664b55946f468ba74a227a6ea1bbf27db69ddbc4] #/results/1412/comments/0/cofactors/0` UniProtKB:P38697 Source assertion: UniProtKB:P38697 has the exact SGD cross-reference SGD:S000001259. Source location `https://rest.uniprot.org/uniprotkb/stream?query=taxonomy_id%3A559292+AND+reviewed%3Atrue&format=json&fields=accession%2Cprotein_name%2Cxref_sgd%2Ccc_cofactor%2Corganism_id%2Ccc_caution [sha256:1378282d22c5518215707964664b55946f468ba74a227a6ea1bbf27db69ddbc4] #/results/1412/uniProtKBCrossReferences/0`

References

gomodel:YeastPathways_PWY-7221 SGD GO-CAM guanosine ribonucleotides de novo biosynthesis model (source version: Pinned Noctua JSON archive; model date 2026-07-08; member ./YeastPathways_PWY-7221.json)
UniProtKB:P36010 Reviewed UniProtKB P36010 location annotations (source version: UniProt release 2026_03)
UniProtKB:P38625 Reviewed UniProtKB P38625 location annotations (source version: UniProt release 2026_03)
UniProtKB:P50095 Reviewed UniProtKB P50095 location annotations (source version: UniProt release 2026_03)
UniProtKB:P50094 Reviewed UniProtKB P50094 location annotations (source version: UniProt release 2026_03)
UniProtKB:P38697 Reviewed UniProtKB P38697 location annotations (source version: UniProt release 2026_03)

Curation history

2026-10-05T06:05:08Z Codex; review-causal-graph; Reviewed every native GO-CAM fact; preserved precise input/output, causal, location, membership and complex-part relations with traceable structured source evidence. Kept distinct generic physical instances and recorded source-scope exclusions in the cohort review ledger.
2026-10-05T06:43:56Z Codex
- EDIT — Audit causal activity compartments and preserve scoped protein location evidence
  Reviewed all 6 activity location assignments and 6 mapped physical proteins against reviewed S288C UniProt release2026_03 location/function/caution batch SHA256 95f72dcc644358c480e0e59f996cf88533558b5fa4256460a030e0a1eaf9678d. Added 6 independently supported location edges and quarantined 0 generic cytosol source assertions. Mapped physical protein locations via exact SGD cross-references; retained source ECO grades, molecular form and conditional notes. Physical protein location alone never generates activity location. Explicitly inspected functional assertions support bounded activity projections. Every original activity location and exclusion is recorded in reports/causal_graph_review/gocam-location-review.json. No independent location annotation is treated as an evidence gap, not a negative result. Cytoplasm is not narrowed to cytosol. Microsome fractions are not projected as in-vivo organelles. Semantic validation passed all85 records;4 independent source-role acceptance tests passed.
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