phospholipid biosynthesis
gomodel:YeastPathways_PHOSLIPSYN2-PWY-1
Phospholipid biosynthesis in Saccharomyces cerevisiae S288C routes CDP-diacylglycerol to phosphatidylserine, phosphatidylethanolamine, phosphatidylcholine, and cardiolipin through CDP-diacylglycerol-serine O-phosphatidyltransferase, phosphatidylserine decarboxylase, phosphatidylethanolamine methyltransferase, phosphatidylglycerophosphate synthase, phosphatidylglycerophosphatase, and cardiolipin synthase activities.
- Pathway type
- lipid biosynthesis
- Organism scope
Pathway network
50 nodes · 89 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
Components and activities
| Node | Kind or role | Source direction |
|---|---|---|
Saccharomyces cerevisiae S288CNCBITaxon:559292 | taxon | |
S-adenosyl-L-methionine zwitterionCHEBI:59789 | small molecule | |
phosphatidylethanolamineCHEBI:16038 | lipid | |
waterCHEBI:15377 | small molecule | |
3-sn-phosphatidyl-L-serineCHEBI:11750 | lipid | |
phospholipid biosynthetic processGO:0008654 | biological process | |
1,2-diacyl-sn-glycero-3-phospho-(1'-sn-glycerol)(1-)CHEBI:64716 | small molecule | |
cardiolipin(2-)CHEBI:62237 | small molecule | |
cytosolGO:0005829 | cellular component | |
phosphatidyl-N,N-dimethylethanolamineCHEBI:17152 | lipid | |
PSD2 ScerSGD:S000003402 | protein | |
carbon dioxideCHEBI:16526 | small molecule | |
L-serine zwitterionCHEBI:33384 | small molecule | |
PSD1 ScerSGD:S000005113 | protein | |
hydronCHEBI:15378 | small molecule | |
OPI3 ScerSGD:S000003834 | protein | |
hydrogenphosphateCHEBI:43474 | small molecule | |
1,2-diacyl-sn-glycero-3-phosphocholine(1+)CHEBI:16110 | small molecule | |
phosphatidyl-N-methylethanolamineCHEBI:15958 | lipid | |
1-(3-sn-phosphatidyl)-sn-glycerol 3-phosphateCHEBI:37393 | lipid | |
S-adenosyl-L-homocysteine zwitterionCHEBI:57856 | small molecule | |
cytidine 5'-monophosphate(2-)CHEBI:60377 | small molecule | |
sn-glycerol 3-phosphate(2-)CHEBI:57597 | small molecule | |
PGS1 ScerSGD:S000000510 | protein | |
GEP4 ScerSGD:S000001142 | protein | |
CRD1 ScerSGD:S000002301 | protein | |
CHO1 ScerSGD:S000000828 | protein | |
CHO2 ScerSGD:S000003389 | protein | |
CDP-diacylglycerolCHEBI:17962 | lipid | |
Golgi membraneGO:0000139 | cellular component | |
endosome membraneGO:0010008 | cellular component | |
mitochondrial inner membraneGO:0005743 | cellular component | |
lipid dropletGO:0005811 | cellular component | |
endoplasmic reticulum membraneGO:0005789 | cellular component | |
mitochondrial membraneGO:0031966 | cellular component | |
mitochondrionGO:0005739 | cellular component | |
mitochondrial outer membraneGO:0005741 | cellular component | |
CDP-diacylglycerol(2-)CHEBI:58332 | lipid | |
pyruvoyl groupCHEBI:45360 | cofactor | |
calcium(2+)CHEBI:29108 | cofactor | |
magnesium(2+)CHEBI:18420 | cofactor | |
manganese(2+)CHEBI:29035 | cofactor | |
phosphatidylethanolamine N-methyltransferase activitygomodel:2.1.1.17-RXN | molecular activity | |
phosphatidyl-N-methylethanolamine N-methyltransferase activitygomodel:2.1.1.71-RXN | molecular activity | |
cardiolipin synthase (CMP-forming) activitygomodel:CARDIOLIPSYN-RXN | molecular activity | |
phosphatidylglycerophosphatase activitygomodel:PGPPHOSPHA-RXN | molecular activity | |
CDP-diacylglycerol-glycerol-3-phosphate 3-phosphatidyltransferase activitygomodel:PHOSPHAGLYPSYN-RXN | molecular activity | |
phosphatidylserine decarboxylase activitygomodel:PHOSPHASERDECARB-RXN | molecular activity | |
CDP-diacylglycerol-serine O-phosphatidyltransferase activitygomodel:PHOSPHASERSYN-RXN | molecular activity | |
phosphatidyl-N-methylethanolamine N-methyltransferase activitygomodel:RXN3O-349 | molecular activity | |
phosphatidylserine decarboxylase activitygomodel:YeastPathways_PHOSLIPSYN2-PWY-1/6a4c244800007485 | molecular activity |
Mechanistic edges
| Subject | Predicate and description | Object | Evidence |
|---|---|---|---|
phosphatidyl-N-methylethanolamine N-methyltransferase activitygomodel:2.1.1.71-RXN | has_input | S-adenosyl-L-methionine zwitterionCHEBI:59789 |
|
phosphatidylethanolamine N-methyltransferase activitygomodel:2.1.1.17-RXN | has_input | phosphatidylethanolamineCHEBI:16038 |
|
phosphatidylserine decarboxylase activitygomodel:YeastPathways_PHOSLIPSYN2-PWY-1/6a4c244800007485 | provides_input_for | phosphatidylethanolamine N-methyltransferase activitygomodel:2.1.1.17-RXN |
|
phosphatidylglycerophosphatase activitygomodel:PGPPHOSPHA-RXN | has_input | waterCHEBI:15377 |
|
phosphatidylserine decarboxylase activitygomodel:YeastPathways_PHOSLIPSYN2-PWY-1/6a4c244800007485 | has_input | 3-sn-phosphatidyl-L-serineCHEBI:11750 |
|
cardiolipin synthase (CMP-forming) activitygomodel:CARDIOLIPSYN-RXN | part_of | phospholipid biosynthetic processGO:0008654 |
|
phosphatidylglycerophosphatase activitygomodel:PGPPHOSPHA-RXN | has_output | 1,2-diacyl-sn-glycero-3-phospho-(1'-sn-glycerol)(1-)CHEBI:64716 |
|
CDP-diacylglycerol-serine O-phosphatidyltransferase activitygomodel:PHOSPHASERSYN-RXN | has_output | 3-sn-phosphatidyl-L-serineCHEBI:11750 |
|
phosphatidyl-N-methylethanolamine N-methyltransferase activitygomodel:RXN3O-349 | part_of | phospholipid biosynthetic processGO:0008654 |
|
phosphatidylserine decarboxylase activitygomodel:YeastPathways_PHOSLIPSYN2-PWY-1/6a4c244800007485 | part_of | phospholipid biosynthetic processGO:0008654 |
|
phosphatidyl-N-methylethanolamine N-methyltransferase activitygomodel:RXN3O-349 | has_input | phosphatidyl-N,N-dimethylethanolamineCHEBI:17152 |
|
PSD2 ScerSGD:S000003402 | enables | phosphatidylserine decarboxylase activitygomodel:YeastPathways_PHOSLIPSYN2-PWY-1/6a4c244800007485 |
|
phosphatidylserine decarboxylase activitygomodel:PHOSPHASERDECARB-RXN | has_output | carbon dioxideCHEBI:16526 |
|
CDP-diacylglycerol-serine O-phosphatidyltransferase activitygomodel:PHOSPHASERSYN-RXN | has_input | L-serine zwitterionCHEBI:33384 |
|
PSD1 ScerSGD:S000005113 | enables | phosphatidylserine decarboxylase activitygomodel:PHOSPHASERDECARB-RXN |
|
phosphatidyl-N-methylethanolamine N-methyltransferase activitygomodel:2.1.1.71-RXN | has_output | hydronCHEBI:15378 |
|
phosphatidylserine decarboxylase activitygomodel:PHOSPHASERDECARB-RXN | part_of | phospholipid biosynthetic processGO:0008654 |
|
OPI3 ScerSGD:S000003834 | enables | phosphatidyl-N-methylethanolamine N-methyltransferase activitygomodel:2.1.1.71-RXN |
|
phosphatidylglycerophosphatase activitygomodel:PGPPHOSPHA-RXN | has_output | hydrogenphosphateCHEBI:43474 |
|
phosphatidylserine decarboxylase activitygomodel:PHOSPHASERDECARB-RXN | has_input | hydronCHEBI:15378 |
|
CDP-diacylglycerol-serine O-phosphatidyltransferase activitygomodel:PHOSPHASERSYN-RXN | provides_input_for | phosphatidylserine decarboxylase activitygomodel:YeastPathways_PHOSLIPSYN2-PWY-1/6a4c244800007485 |
|
CDP-diacylglycerol-glycerol-3-phosphate 3-phosphatidyltransferase activitygomodel:PHOSPHAGLYPSYN-RXN | part_of | phospholipid biosynthetic processGO:0008654 |
|
CDP-diacylglycerol-serine O-phosphatidyltransferase activitygomodel:PHOSPHASERSYN-RXN | part_of | phospholipid biosynthetic processGO:0008654 |
|
phosphatidyl-N-methylethanolamine N-methyltransferase activitygomodel:2.1.1.71-RXN | part_of | phospholipid biosynthetic processGO:0008654 |
|
phosphatidyl-N-methylethanolamine N-methyltransferase activitygomodel:2.1.1.71-RXN | has_output | phosphatidyl-N,N-dimethylethanolamineCHEBI:17152 |
|
phosphatidylserine decarboxylase activitygomodel:YeastPathways_PHOSLIPSYN2-PWY-1/6a4c244800007485 | has_output | carbon dioxideCHEBI:16526 |
|
phosphatidylethanolamine N-methyltransferase activitygomodel:2.1.1.17-RXN | has_input | S-adenosyl-L-methionine zwitterionCHEBI:59789 |
|
phosphatidyl-N-methylethanolamine N-methyltransferase activitygomodel:2.1.1.71-RXN | provides_input_for | phosphatidyl-N-methylethanolamine N-methyltransferase activitygomodel:RXN3O-349 |
|
phosphatidyl-N-methylethanolamine N-methyltransferase activitygomodel:RXN3O-349 | has_output | 1,2-diacyl-sn-glycero-3-phosphocholine(1+)CHEBI:16110 |
|
phosphatidylglycerophosphatase activitygomodel:PGPPHOSPHA-RXN | part_of | phospholipid biosynthetic processGO:0008654 |
|
phosphatidyl-N-methylethanolamine N-methyltransferase activitygomodel:2.1.1.71-RXN | has_input | phosphatidyl-N-methylethanolamineCHEBI:15958 |
|
CDP-diacylglycerol-glycerol-3-phosphate 3-phosphatidyltransferase activitygomodel:PHOSPHAGLYPSYN-RXN | has_output | 1-(3-sn-phosphatidyl)-sn-glycerol 3-phosphateCHEBI:37393 |
|
phosphatidyl-N-methylethanolamine N-methyltransferase activitygomodel:RXN3O-349 | has_output | S-adenosyl-L-homocysteine zwitterionCHEBI:57856 |
|
phosphatidylserine decarboxylase activitygomodel:PHOSPHASERDECARB-RXN | provides_input_for | phosphatidylethanolamine N-methyltransferase activitygomodel:2.1.1.17-RXN |
|
phosphatidylglycerophosphatase activitygomodel:PGPPHOSPHA-RXN | has_input | 1-(3-sn-phosphatidyl)-sn-glycerol 3-phosphateCHEBI:37393 |
|
CDP-diacylglycerol-serine O-phosphatidyltransferase activitygomodel:PHOSPHASERSYN-RXN | has_output | cytidine 5'-monophosphate(2-)CHEBI:60377 |
|
CDP-diacylglycerol-glycerol-3-phosphate 3-phosphatidyltransferase activitygomodel:PHOSPHAGLYPSYN-RXN | has_input | sn-glycerol 3-phosphate(2-)CHEBI:57597 |
|
PGS1 ScerSGD:S000000510 | enables | CDP-diacylglycerol-glycerol-3-phosphate 3-phosphatidyltransferase activitygomodel:PHOSPHAGLYPSYN-RXN |
|
CDP-diacylglycerol-glycerol-3-phosphate 3-phosphatidyltransferase activitygomodel:PHOSPHAGLYPSYN-RXN | has_output | hydronCHEBI:15378 |
|
GEP4 ScerSGD:S000001142 | enables | phosphatidylglycerophosphatase activitygomodel:PGPPHOSPHA-RXN |
|
phosphatidylserine decarboxylase activitygomodel:PHOSPHASERDECARB-RXN | has_input | 3-sn-phosphatidyl-L-serineCHEBI:11750 |
|
phosphatidylglycerophosphatase activitygomodel:PGPPHOSPHA-RXN | provides_input_for | cardiolipin synthase (CMP-forming) activitygomodel:CARDIOLIPSYN-RXN |
|
CRD1 ScerSGD:S000002301 | enables | cardiolipin synthase (CMP-forming) activitygomodel:CARDIOLIPSYN-RXN |
|
CHO1 ScerSGD:S000000828 | enables | CDP-diacylglycerol-serine O-phosphatidyltransferase activitygomodel:PHOSPHASERSYN-RXN |
|
phosphatidylethanolamine N-methyltransferase activitygomodel:2.1.1.17-RXN | has_output | hydronCHEBI:15378 |
|
phosphatidylethanolamine N-methyltransferase activitygomodel:2.1.1.17-RXN | provides_input_for | phosphatidyl-N-methylethanolamine N-methyltransferase activitygomodel:2.1.1.71-RXN |
|
CDP-diacylglycerol-glycerol-3-phosphate 3-phosphatidyltransferase activitygomodel:PHOSPHAGLYPSYN-RXN | has_output | cytidine 5'-monophosphate(2-)CHEBI:60377 |
|
CHO2 ScerSGD:S000003389 | enables | phosphatidylethanolamine N-methyltransferase activitygomodel:2.1.1.17-RXN |
|
phosphatidylserine decarboxylase activitygomodel:YeastPathways_PHOSLIPSYN2-PWY-1/6a4c244800007485 | has_output | phosphatidylethanolamineCHEBI:16038 |
|
phosphatidylserine decarboxylase activitygomodel:YeastPathways_PHOSLIPSYN2-PWY-1/6a4c244800007485 | has_input | hydronCHEBI:15378 |
|
CDP-diacylglycerol-glycerol-3-phosphate 3-phosphatidyltransferase activitygomodel:PHOSPHAGLYPSYN-RXN | has_input | CDP-diacylglycerolCHEBI:17962 |
|
phosphatidylserine decarboxylase activitygomodel:PHOSPHASERDECARB-RXN | has_output | phosphatidylethanolamineCHEBI:16038 |
|
phosphatidyl-N-methylethanolamine N-methyltransferase activitygomodel:RXN3O-349 | has_input | S-adenosyl-L-methionine zwitterionCHEBI:59789 |
|
phosphatidylethanolamine N-methyltransferase activitygomodel:2.1.1.17-RXN | has_output | phosphatidyl-N-methylethanolamineCHEBI:15958 |
|
CDP-diacylglycerol-serine O-phosphatidyltransferase activitygomodel:PHOSPHASERSYN-RXN | has_input | CDP-diacylglycerolCHEBI:17962 |
|
phosphatidyl-N-methylethanolamine N-methyltransferase activitygomodel:2.1.1.71-RXN | has_output | S-adenosyl-L-homocysteine zwitterionCHEBI:57856 |
|
OPI3 ScerSGD:S000003834 | enables | phosphatidyl-N-methylethanolamine N-methyltransferase activitygomodel:RXN3O-349 |
|
phosphatidylethanolamine N-methyltransferase activitygomodel:2.1.1.17-RXN | part_of | phospholipid biosynthetic processGO:0008654 |
|
CDP-diacylglycerol-serine O-phosphatidyltransferase activitygomodel:PHOSPHASERSYN-RXN | provides_input_for | phosphatidylserine decarboxylase activitygomodel:PHOSPHASERDECARB-RXN |
|
CDP-diacylglycerol-glycerol-3-phosphate 3-phosphatidyltransferase activitygomodel:PHOSPHAGLYPSYN-RXN | provides_input_for | phosphatidylglycerophosphatase activitygomodel:PGPPHOSPHA-RXN |
|
phosphatidylethanolamine N-methyltransferase activitygomodel:2.1.1.17-RXN | has_output | S-adenosyl-L-homocysteine zwitterionCHEBI:57856 |
|
CDP-diacylglycerol-serine O-phosphatidyltransferase activitygomodel:PHOSPHASERSYN-RXN | has_output | hydronCHEBI:15378 |
|
PSD2 ScerSGD:S000003402 | located_in Physical protein location from reviewed UniProt. ECO:0000255 (HAMAP-Rule:MF_03209); ECO:0000269 (PubMed:7890739) Topology: Peripheral membrane protein. Orientation: Cytoplasmic side. | Golgi membraneGO:0000139 |
|
PSD2 ScerSGD:S000003402 | located_in Physical protein location from reviewed UniProt. ECO:0000255 (HAMAP-Rule:MF_03209); ECO:0000269 (PubMed:20016005) Topology: Peripheral membrane protein. Orientation: Cytoplasmic side. | endosome membraneGO:0010008 |
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PSD1 ScerSGD:S000005113 | located_in Physical protein location from reviewed UniProt. ECO:0000255 (HAMAP-Rule:MF_03208); ECO:0000269 (PubMed:14576278); ECO:0000269 (PubMed:22984266); ECO:0000269 (PubMed:23124206); ECO:0000269 (PubMed:29290583); ECO:0000269 (PubMed:3005242); ECO:0000269 (PubMed:33718843); ECO:0000305 (PubMed:34818062); molecular form: Phosphatidylserine decarboxylase 1 beta chain. Topology: Single-pass membrane protein. Orientation: Intermembrane side. | mitochondrial inner membraneGO:0005743 |
|
PSD1 ScerSGD:S000005113 | located_in Physical protein location from reviewed UniProt. ECO:0000269 (PubMed:34818062) Source qualification: Localizes to sites of lipid droplet formation on the endoplasmic reticulum membrane | lipid dropletGO:0005811 |
|
PSD1 ScerSGD:S000005113 | located_in Physical protein location from reviewed UniProt. ECO:0000269 (PubMed:29290583); ECO:0000269 (PubMed:34818062) Source qualification: Localizes to sites of lipid droplet formation on the endoplasmic reticulum membrane | endoplasmic reticulum membraneGO:0005789 |
|
OPI3 ScerSGD:S000003834 | located_in Physical protein location from reviewed UniProt. ECO:0000255 (HAMAP-Rule:MF_03216); ECO:0000269 (PubMed:14562095) Topology: Multi-pass membrane protein. | endoplasmic reticulum membraneGO:0005789 |
|
OPI3 ScerSGD:S000003834 | located_in Physical protein location from reviewed UniProt. ECO:0000255 (HAMAP-Rule:MF_03216); ECO:0000269 (PubMed:14576278) Topology: Multi-pass membrane protein. | mitochondrial membraneGO:0031966 |
|
PGS1 ScerSGD:S000000510 | located_in Physical protein location from reviewed UniProt. ECO:0000269 (PubMed:9545322); ECO:0000269 (PubMed:9799363) | mitochondrionGO:0005739 |
|
GEP4 ScerSGD:S000001142 | located_in Physical protein location from reviewed UniProt. ECO:0000269 (PubMed:16823961); ECO:0000269 (PubMed:20485265) Topology: Peripheral membrane protein. Orientation: Matrix side. | mitochondrial inner membraneGO:0005743 |
|
CRD1 ScerSGD:S000002301 | located_in Physical protein location from reviewed UniProt. ECO:0000305 (PubMed:9442089) Topology: Multi-pass membrane protein. | mitochondrial inner membraneGO:0005743 |
|
CHO1 ScerSGD:S000000828 | located_in Physical protein location from reviewed UniProt. evidence code not specified by source Topology: Multi-pass membrane protein. | endoplasmic reticulum membraneGO:0005789 |
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CHO1 ScerSGD:S000000828 | located_in Physical protein location from reviewed UniProt. ECO:0000269 (PubMed:3005242) Topology: Multi-pass membrane protein. | mitochondrial outer membraneGO:0005741 |
|
CHO2 ScerSGD:S000003389 | located_in Physical protein location from reviewed UniProt. ECO:0000255 (HAMAP-Rule:MF_03217); ECO:0000269 (PubMed:14562095) Topology: Multi-pass membrane protein. | endoplasmic reticulum membraneGO:0005789 |
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phosphatidylserine decarboxylase activitygomodel:PHOSPHASERDECARB-RXN | occurs_in Activity compartment supported by an inspected functional annotation. ECO:0000255 (HAMAP-Rule:MF_03208); ECO:0000269 (PubMed:11294902); ECO:0000269 (PubMed:17976194); ECO:0000269 (PubMed:23045528); ECO:0000269 (PubMed:23124206); ECO:0000269 (PubMed:25829489); ECO:0000269 (PubMed:29290583); ECO:0000269 (PubMed:30926815); ECO:0000269 (PubMed:34818062); ECO:0000269 (PubMed:8227017); ECO:0000269 (PubMed:8407984); ECO:0000269 (PubMed:8530379). Alternative isoenzymes may function elsewhere. | mitochondrionGO:0005739 |
|
phosphatidylserine decarboxylase activitygomodel:YeastPathways_PHOSLIPSYN2-PWY-1/6a4c244800007485 | occurs_in Activity compartment supported by an inspected functional annotation. ECO:0000255 (HAMAP-Rule:MF_03209); ECO:0000269 (PubMed:11294902); ECO:0000269 (PubMed:20016005); ECO:0000269 (PubMed:24366873); ECO:0000269 (PubMed:7890739); ECO:0000269 (PubMed:7890740). Alternative isoenzymes may function elsewhere. | Golgi membraneGO:0000139 |
|
phosphatidylserine decarboxylase activitygomodel:YeastPathways_PHOSLIPSYN2-PWY-1/6a4c244800007485 | occurs_in Activity compartment supported by an inspected functional annotation. ECO:0000255 (HAMAP-Rule:MF_03209); ECO:0000269 (PubMed:11294902); ECO:0000269 (PubMed:20016005); ECO:0000269 (PubMed:24366873); ECO:0000269 (PubMed:7890739); ECO:0000269 (PubMed:7890740). Alternative isoenzymes may function elsewhere. | endosome membraneGO:0010008 |
|
cardiolipin synthase (CMP-forming) activitygomodel:CARDIOLIPSYN-RXN | has_input Yeast CRD1 is the CMP-forming cardiolipin synthase: CDP-diacylglycerol and phosphatidylglycerol are inputs; cardiolipin, CMP and H+ are outputs. The imported bacterial glycerol-forming chemistry is superseded. | CDP-diacylglycerol(2-)CHEBI:58332 |
|
cardiolipin synthase (CMP-forming) activitygomodel:CARDIOLIPSYN-RXN | has_input Yeast CRD1 is the CMP-forming cardiolipin synthase: CDP-diacylglycerol and phosphatidylglycerol are inputs; cardiolipin, CMP and H+ are outputs. The imported bacterial glycerol-forming chemistry is superseded. | 1,2-diacyl-sn-glycero-3-phospho-(1'-sn-glycerol)(1-)CHEBI:64716 |
|
cardiolipin synthase (CMP-forming) activitygomodel:CARDIOLIPSYN-RXN | has_output Yeast CRD1 is the CMP-forming cardiolipin synthase: CDP-diacylglycerol and phosphatidylglycerol are inputs; cardiolipin, CMP and H+ are outputs. The imported bacterial glycerol-forming chemistry is superseded. | cardiolipin(2-)CHEBI:62237 |
|
cardiolipin synthase (CMP-forming) activitygomodel:CARDIOLIPSYN-RXN | has_output Yeast CRD1 is the CMP-forming cardiolipin synthase: CDP-diacylglycerol and phosphatidylglycerol are inputs; cardiolipin, CMP and H+ are outputs. The imported bacterial glycerol-forming chemistry is superseded. | cytidine 5'-monophosphate(2-)CHEBI:60377 |
|
cardiolipin synthase (CMP-forming) activitygomodel:CARDIOLIPSYN-RXN | has_output Yeast CRD1 is the CMP-forming cardiolipin synthase: CDP-diacylglycerol and phosphatidylglycerol are inputs; cardiolipin, CMP and H+ are outputs. The imported bacterial glycerol-forming chemistry is superseded. | hydronCHEBI:15378 |
|
PSD2 ScerSGD:S000003402 | has_cofactor UniProtKB reviewed (Swiss-Prot) annotation. Reviewed source qualification: The cofactor note explicitly describes a covalently bound pyruvoyl group; use the exact group class rather than free pyruvate. UniProt evidence: ECO:0000250 (UniProtKB:P0A8K1); ECO:0000255 (HAMAP-Rule:MF_03209) Binds 1 pyruvoyl group covalently per subunit. UniProt note evidence: ECO:0000250 (UniProtKB:P0A8K1); ECO:0000255 (HAMAP-Rule:MF_03209) | pyruvoyl groupCHEBI:45360 |
|
PSD2 ScerSGD:S000003402 | has_cofactor UniProtKB reviewed (Swiss-Prot) annotation. Reviewed source qualification: The cofactor note explicitly describes a covalently bound pyruvoyl group; use the exact group class rather than free pyruvate. UniProt evidence: ECO:0000255 (PROSITE-ProRule:PRU00041) | calcium(2+)CHEBI:29108 |
|
PSD1 ScerSGD:S000005113 | has_cofactor UniProtKB reviewed (Swiss-Prot) annotation. Reviewed source qualification: The cofactor note explicitly describes a covalently bound pyruvoyl group; use the exact group class rather than free pyruvate. UniProt evidence: ECO:0000255 (HAMAP-Rule:MF_03208) Binds 1 pyruvoyl group covalently per subunit. UniProt note evidence: ECO:0000255 (HAMAP-Rule:MF_03208) | pyruvoyl groupCHEBI:45360 |
|
CRD1 ScerSGD:S000002301 | has_cofactor UniProtKB reviewed (Swiss-Prot) annotation. Reviewed source qualification: The caution corrects the historical species attribution of a sequence; the current reviewed yeast entry and magnesium annotation remain applicable. UniProt evidence: ECO:0000269 (PubMed:2171667) | magnesium(2+)CHEBI:18420 |
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CHO1 ScerSGD:S000000828 | has_cofactor UniProtKB reviewed (Swiss-Prot) annotation. UniProt evidence: ECO:0000269 (PubMed:6088519); ECO:0000269 (PubMed:6274497) Divalent metal cations; Mn(2+) or Mg(2+). UniProt note evidence: ECO:0000269 (PubMed:6088519) | manganese(2+)CHEBI:29035 |
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CHO1 ScerSGD:S000000828 | has_cofactor UniProtKB reviewed (Swiss-Prot) annotation. UniProt evidence: ECO:0000269 (PubMed:6088519) Divalent metal cations; Mn(2+) or Mg(2+). UniProt note evidence: ECO:0000269 (PubMed:6088519) | magnesium(2+)CHEBI:18420 |
|
References
gomodel:YeastPathways_PHOSLIPSYN2-PWY-1SGD GO-CAM phospholipid biosynthesis model (source version: Pinned Noctua JSON archive; model date 2026-07-23; member ./YeastPathways_PHOSLIPSYN2-PWY-1.json)UniProtKB:P53037Reviewed UniProtKB P53037 location annotations (source version: UniProt release 2026_03)UniProtKB:P39006Reviewed UniProtKB P39006 location annotations (source version: UniProt release 2026_03)UniProtKB:P05375Reviewed UniProtKB P05375 location annotations (source version: UniProt release 2026_03)UniProtKB:P25578Reviewed UniProtKB P25578 location annotations (source version: UniProt release 2026_03)UniProtKB:P38812Reviewed UniProtKB P38812 location annotations (source version: UniProt release 2026_03)UniProtKB:Q07560Reviewed UniProtKB Q07560 location annotations (source version: UniProt release 2026_03)UniProtKB:P08456Reviewed UniProtKB P08456 location annotations (source version: UniProt release 2026_03)UniProtKB:P05374Reviewed UniProtKB P05374 location annotations (source version: UniProt release 2026_03)CHEBI:45360ChEBI CHEBI:45360: pyruvoyl group (source version: ChEBI release 255)
Curation history
- 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.
- Codex; review-catalytic-function; Reconciled native GO-CAM chemistry with independently reviewed enzyme specificity, direction, physiological scope and source cautions; superseded facts remain in the function review ledger.
- Codex
- EDIT — Audit causal activity compartments and preserve scoped protein location evidence
Reviewed all 9 activity location assignments and 8 mapped physical proteins against reviewed S288C UniProt release2026_03 location/function/caution batch SHA256 95f72dcc644358c480e0e59f996cf88533558b5fa4256460a030e0a1eaf9678d. Added 16 independently supported location edges and quarantined 9 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.
- EDIT — Audit causal activity compartments and preserve scoped protein location evidence