heme b biosynthesis I (aerobic)

gomodel:YeastPathways_HEME-BIOSYNTHESIS-II

Aerobic heme b biosynthesis in Saccharomyces cerevisiae S288C decarboxylates uroporphyrinogen III to coproporphyrinogen III, oxidizes it through protoporphyrinogen to protoporphyrin, and inserts iron into protoporphyrin to produce ferroheme b.

Pathway type

cofactor biosynthesis

Organism scope

Saccharomyces cerevisiae S288C NCBITaxon:559292

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Pathway network

25 nodes · 36 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
cytosol `GO:0005829`	cellular component
carbon dioxide `CHEBI:16526`	small molecule
heme biosynthetic process `GO:0006783`	biological process
coproporphyrinogen III(4-) `CHEBI:57309`	small molecule
water `CHEBI:15377`	small molecule
hydron `CHEBI:15378`	small molecule
HEM13 Scer `SGD:S000002451`	protein
dioxygen `CHEBI:15379`	small molecule
HEM15 Scer `SGD:S000005702`	protein
protoporphyrinogen(2-) `CHEBI:57307`	small molecule
HEM12 Scer `SGD:S000002454`	protein
protoporphyrin(2-) `CHEBI:57306`	small molecule
HEM14 Scer `SGD:S000000816`	protein
hydrogen peroxide `CHEBI:16240`	small molecule
ferroheme b `CHEBI:17627`	small molecule
mitochondrial inner membrane `GO:0005743`	cellular component
iron(2+) `CHEBI:29033`	small molecule
uroporphyrinogen III(8-) `CHEBI:57308`	small molecule
cytoplasm `GO:0005737`	cellular component
nucleus `GO:0005634`	cellular component
FAD(3-) `CHEBI:57692`	cofactor
protoporphyrin ferrochelatase activity `gomodel:PROTOHEMEFERROCHELAT-RXN`	molecular activity
protoporphyrinogen oxidase activity, oxygen as acceptor `gomodel:PROTOPORGENOXI-RXN`	molecular activity
coproporphyrinogen oxidase activity `gomodel:RXN0-1461`	molecular activity
uroporphyrinogen decarboxylase activity `gomodel:UROGENDECARBOX-RXN`	molecular activity

Mechanistic edges

Mechanistic edges and their cited evidence
Subject	Predicate and description	Object	Evidence
uroporphyrinogen decarboxylase activity `gomodel:UROGENDECARBOX-RXN`	occurs_in	cytosol `GO:0005829`	gomodel:YeastPathways_HEME-BIOSYNTHESIS-II Source assertion: The model asserts gomodel:UROGENDECARBOX-RXN BFO:0000066 gomodel:reaction_UROGENDECARBOX-RXN_location_lociGO_0005829. Source location `./YeastPathways_HEME-BIOSYNTHESIS-II.json#/facts/0; endpoint types: /individuals/18/type; /individuals/45/type`
uroporphyrinogen decarboxylase activity `gomodel:UROGENDECARBOX-RXN`	has_output	carbon dioxide `CHEBI:16526`	gomodel:YeastPathways_HEME-BIOSYNTHESIS-II Source assertion: The model asserts gomodel:UROGENDECARBOX-RXN RO:0002234 gomodel:CHEBI_16526_UROGENDECARBOX-RXN. Source location `./YeastPathways_HEME-BIOSYNTHESIS-II.json#/facts/1; endpoint types: /individuals/18/type; /individuals/8/type` gomodel:YeastPathways_HEME-BIOSYNTHESIS-II Source assertion: The model asserts gomodel:UROGENDECARBOX-RXN RO:0002234 gomodel:YeastPathways_HEME-BIOSYNTHESIS-II/65692e7e00001653. Source location `./YeastPathways_HEME-BIOSYNTHESIS-II.json#/facts/39; endpoint types: /individuals/18/type; /individuals/57/type` gomodel:YeastPathways_HEME-BIOSYNTHESIS-II Source assertion: The model asserts gomodel:UROGENDECARBOX-RXN RO:0002234 gomodel:YeastPathways_HEME-BIOSYNTHESIS-II/65692e7e00001651. Source location `./YeastPathways_HEME-BIOSYNTHESIS-II.json#/facts/40; endpoint types: /individuals/18/type; /individuals/55/type` gomodel:YeastPathways_HEME-BIOSYNTHESIS-II Source assertion: The model asserts gomodel:UROGENDECARBOX-RXN RO:0002234 gomodel:YeastPathways_HEME-BIOSYNTHESIS-II/65692e7e00001649. Source location `./YeastPathways_HEME-BIOSYNTHESIS-II.json#/facts/44; endpoint types: /individuals/18/type; /individuals/53/type`
protoporphyrin ferrochelatase activity `gomodel:PROTOHEMEFERROCHELAT-RXN`	part_of	heme biosynthetic process `GO:0006783`	gomodel:YeastPathways_HEME-BIOSYNTHESIS-II Source assertion: The model asserts gomodel:PROTOHEMEFERROCHELAT-RXN BFO:0000050 gomodel:YeastPathways_HEME-BIOSYNTHESIS-II/YeastPathways_HEME-BIOSYNTHESIS-II. Source location `./YeastPathways_HEME-BIOSYNTHESIS-II.json#/facts/2; endpoint types: /individuals/15/type; /individuals/46/type`
coproporphyrinogen oxidase activity `gomodel:RXN0-1461`	has_input	coproporphyrinogen III(4-) `CHEBI:57309`	gomodel:YeastPathways_HEME-BIOSYNTHESIS-II Source assertion: The model asserts gomodel:RXN0-1461 RO:0002233 gomodel:CHEBI_57309_UROGENDECARBOX-RXN. Source location `./YeastPathways_HEME-BIOSYNTHESIS-II.json#/facts/3; endpoint types: /individuals/17/type; /individuals/14/type`
coproporphyrinogen oxidase activity `gomodel:RXN0-1461`	has_output	water `CHEBI:15377`	gomodel:YeastPathways_HEME-BIOSYNTHESIS-II Source assertion: The model asserts gomodel:RXN0-1461 RO:0002234 gomodel:CHEBI_15377_RXN0-1461. Source location `./YeastPathways_HEME-BIOSYNTHESIS-II.json#/facts/4; endpoint types: /individuals/17/type; /individuals/0/type` gomodel:YeastPathways_HEME-BIOSYNTHESIS-II Source assertion: The model asserts gomodel:RXN0-1461 RO:0002234 gomodel:YeastPathways_HEME-BIOSYNTHESIS-II/65692e7e00001659. Source location `./YeastPathways_HEME-BIOSYNTHESIS-II.json#/facts/41; endpoint types: /individuals/17/type; /individuals/63/type`
coproporphyrinogen oxidase activity `gomodel:RXN0-1461`	has_input	hydron `CHEBI:15378`	gomodel:YeastPathways_HEME-BIOSYNTHESIS-II Source assertion: The model asserts gomodel:RXN0-1461 RO:0002233 gomodel:YeastPathways_HEME-BIOSYNTHESIS-II/65692e7e00001655. Source location `./YeastPathways_HEME-BIOSYNTHESIS-II.json#/facts/5; endpoint types: /individuals/17/type; /individuals/59/type` gomodel:YeastPathways_HEME-BIOSYNTHESIS-II Source assertion: The model asserts gomodel:RXN0-1461 RO:0002233 gomodel:CHEBI_15378_RXN0-1461. Source location `./YeastPathways_HEME-BIOSYNTHESIS-II.json#/facts/23; endpoint types: /individuals/17/type; /individuals/2/type`
HEM13 Scer `SGD:S000002451`	enables	coproporphyrinogen oxidase activity `gomodel:RXN0-1461`	gomodel:YeastPathways_HEME-BIOSYNTHESIS-II Source assertion: The model asserts gomodel:RXN0-1461 RO:0002333 gomodel:YDR044W-MONOMER_RXN0-1461_controller. Source location `./YeastPathways_HEME-BIOSYNTHESIS-II.json#/facts/6; endpoint types: /individuals/17/type; /individuals/19/type`
protoporphyrin ferrochelatase activity `gomodel:PROTOHEMEFERROCHELAT-RXN`	has_output	hydron `CHEBI:15378`	gomodel:YeastPathways_HEME-BIOSYNTHESIS-II Source assertion: The model asserts gomodel:PROTOHEMEFERROCHELAT-RXN RO:0002234 gomodel:CHEBI_15378_PROTOHEMEFERROCHELAT-RXN. Source location `./YeastPathways_HEME-BIOSYNTHESIS-II.json#/facts/7; endpoint types: /individuals/15/type; /individuals/1/type` gomodel:YeastPathways_HEME-BIOSYNTHESIS-II Source assertion: The model asserts gomodel:PROTOHEMEFERROCHELAT-RXN RO:0002234 gomodel:YeastPathways_HEME-BIOSYNTHESIS-II/65692e7e00001686. Source location `./YeastPathways_HEME-BIOSYNTHESIS-II.json#/facts/30; endpoint types: /individuals/15/type; /individuals/77/type`
uroporphyrinogen decarboxylase activity `gomodel:UROGENDECARBOX-RXN`	has_input	hydron `CHEBI:15378`	gomodel:YeastPathways_HEME-BIOSYNTHESIS-II Source assertion: The model asserts gomodel:UROGENDECARBOX-RXN RO:0002233 gomodel:YeastPathways_HEME-BIOSYNTHESIS-II/65692e7e00001647. Source location `./YeastPathways_HEME-BIOSYNTHESIS-II.json#/facts/8; endpoint types: /individuals/18/type; /individuals/51/type` gomodel:YeastPathways_HEME-BIOSYNTHESIS-II Source assertion: The model asserts gomodel:UROGENDECARBOX-RXN RO:0002233 gomodel:YeastPathways_HEME-BIOSYNTHESIS-II/65692e7e00001643. Source location `./YeastPathways_HEME-BIOSYNTHESIS-II.json#/facts/27; endpoint types: /individuals/18/type; /individuals/47/type` gomodel:YeastPathways_HEME-BIOSYNTHESIS-II Source assertion: The model asserts gomodel:UROGENDECARBOX-RXN RO:0002233 gomodel:CHEBI_15378_UROGENDECARBOX-RXN. Source location `./YeastPathways_HEME-BIOSYNTHESIS-II.json#/facts/34; endpoint types: /individuals/18/type; /individuals/3/type` gomodel:YeastPathways_HEME-BIOSYNTHESIS-II Source assertion: The model asserts gomodel:UROGENDECARBOX-RXN RO:0002233 gomodel:YeastPathways_HEME-BIOSYNTHESIS-II/65692e7e00001645. Source location `./YeastPathways_HEME-BIOSYNTHESIS-II.json#/facts/36; endpoint types: /individuals/18/type; /individuals/49/type`
protoporphyrinogen oxidase activity, oxygen as acceptor `gomodel:PROTOPORGENOXI-RXN`	has_input	dioxygen `CHEBI:15379`	gomodel:YeastPathways_HEME-BIOSYNTHESIS-II Source assertion: The model asserts gomodel:PROTOPORGENOXI-RXN RO:0002233 gomodel:YeastPathways_HEME-BIOSYNTHESIS-II/65692e7e00001661. Source location `./YeastPathways_HEME-BIOSYNTHESIS-II.json#/facts/9; endpoint types: /individuals/16/type; /individuals/65/type` gomodel:YeastPathways_HEME-BIOSYNTHESIS-II Source assertion: The model asserts gomodel:PROTOPORGENOXI-RXN RO:0002233 gomodel:YeastPathways_HEME-BIOSYNTHESIS-II/65692e7e00001663. Source location `./YeastPathways_HEME-BIOSYNTHESIS-II.json#/facts/12; endpoint types: /individuals/16/type; /individuals/67/type` gomodel:YeastPathways_HEME-BIOSYNTHESIS-II Source assertion: The model asserts gomodel:PROTOPORGENOXI-RXN RO:0002233 gomodel:CHEBI_15379_PROTOPORGENOXI-RXN. Source location `./YeastPathways_HEME-BIOSYNTHESIS-II.json#/facts/35; endpoint types: /individuals/16/type; /individuals/4/type`
HEM15 Scer `SGD:S000005702`	enables	protoporphyrin ferrochelatase activity `gomodel:PROTOHEMEFERROCHELAT-RXN`	gomodel:YeastPathways_HEME-BIOSYNTHESIS-II Source assertion: The model asserts gomodel:PROTOHEMEFERROCHELAT-RXN RO:0002333 gomodel:YOR176W-MONOMER_PROTOHEMEFERROCHELAT-RXN_controller. Source location `./YeastPathways_HEME-BIOSYNTHESIS-II.json#/facts/10; endpoint types: /individuals/15/type; /individuals/22/type`
coproporphyrinogen oxidase activity `gomodel:RXN0-1461`	has_output	carbon dioxide `CHEBI:16526`	gomodel:YeastPathways_HEME-BIOSYNTHESIS-II Source assertion: The model asserts gomodel:RXN0-1461 RO:0002234 gomodel:YeastPathways_HEME-BIOSYNTHESIS-II/65692e7e00001657. Source location `./YeastPathways_HEME-BIOSYNTHESIS-II.json#/facts/11; endpoint types: /individuals/17/type; /individuals/61/type` gomodel:YeastPathways_HEME-BIOSYNTHESIS-II Source assertion: The model asserts gomodel:RXN0-1461 RO:0002234 gomodel:CHEBI_16526_RXN0-1461. Source location `./YeastPathways_HEME-BIOSYNTHESIS-II.json#/facts/26; endpoint types: /individuals/17/type; /individuals/7/type`
protoporphyrinogen oxidase activity, oxygen as acceptor `gomodel:PROTOPORGENOXI-RXN`	has_input	protoporphyrinogen(2-) `CHEBI:57307`	gomodel:YeastPathways_HEME-BIOSYNTHESIS-II Source assertion: The model asserts gomodel:PROTOPORGENOXI-RXN RO:0002233 gomodel:CHEBI_57307_RXN0-1461. Source location `./YeastPathways_HEME-BIOSYNTHESIS-II.json#/facts/13; endpoint types: /individuals/16/type; /individuals/12/type`
HEM12 Scer `SGD:S000002454`	enables	uroporphyrinogen decarboxylase activity `gomodel:UROGENDECARBOX-RXN`	gomodel:YeastPathways_HEME-BIOSYNTHESIS-II Source assertion: The model asserts gomodel:UROGENDECARBOX-RXN RO:0002333 gomodel:YDR047W-MONOMER_UROGENDECARBOX-RXN_controller. Source location `./YeastPathways_HEME-BIOSYNTHESIS-II.json#/facts/14; endpoint types: /individuals/18/type; /individuals/20/type`
protoporphyrinogen oxidase activity, oxygen as acceptor `gomodel:PROTOPORGENOXI-RXN`	has_output	protoporphyrin(2-) `CHEBI:57306`	gomodel:YeastPathways_HEME-BIOSYNTHESIS-II Source assertion: The model asserts gomodel:PROTOPORGENOXI-RXN RO:0002234 gomodel:CHEBI_57306_PROTOPORGENOXI-RXN. Source location `./YeastPathways_HEME-BIOSYNTHESIS-II.json#/facts/15; endpoint types: /individuals/16/type; /individuals/11/type`
HEM14 Scer `SGD:S000000816`	enables	protoporphyrinogen oxidase activity, oxygen as acceptor `gomodel:PROTOPORGENOXI-RXN`	gomodel:YeastPathways_HEME-BIOSYNTHESIS-II Source assertion: The model asserts gomodel:PROTOPORGENOXI-RXN RO:0002333 gomodel:YER014W-MONOMER_PROTOPORGENOXI-RXN_controller. Source location `./YeastPathways_HEME-BIOSYNTHESIS-II.json#/facts/16; endpoint types: /individuals/16/type; /individuals/21/type`
coproporphyrinogen oxidase activity `gomodel:RXN0-1461`	has_input	dioxygen `CHEBI:15379`	gomodel:YeastPathways_HEME-BIOSYNTHESIS-II Source assertion: The model asserts gomodel:RXN0-1461 RO:0002233 gomodel:CHEBI_15379_RXN0-1461. Source location `./YeastPathways_HEME-BIOSYNTHESIS-II.json#/facts/17; endpoint types: /individuals/17/type; /individuals/5/type`
protoporphyrinogen oxidase activity, oxygen as acceptor `gomodel:PROTOPORGENOXI-RXN`	has_output	hydrogen peroxide `CHEBI:16240`	gomodel:YeastPathways_HEME-BIOSYNTHESIS-II Source assertion: The model asserts gomodel:PROTOPORGENOXI-RXN RO:0002234 gomodel:CHEBI_16240_PROTOPORGENOXI-RXN. Source location `./YeastPathways_HEME-BIOSYNTHESIS-II.json#/facts/18; endpoint types: /individuals/16/type; /individuals/6/type` gomodel:YeastPathways_HEME-BIOSYNTHESIS-II Source assertion: The model asserts gomodel:PROTOPORGENOXI-RXN RO:0002234 gomodel:YeastPathways_HEME-BIOSYNTHESIS-II/65692e7e00001665. Source location `./YeastPathways_HEME-BIOSYNTHESIS-II.json#/facts/19; endpoint types: /individuals/16/type; /individuals/69/type` gomodel:YeastPathways_HEME-BIOSYNTHESIS-II Source assertion: The model asserts gomodel:PROTOPORGENOXI-RXN RO:0002234 gomodel:YeastPathways_HEME-BIOSYNTHESIS-II/65692e7e00001667. Source location `./YeastPathways_HEME-BIOSYNTHESIS-II.json#/facts/22; endpoint types: /individuals/16/type; /individuals/71/type`
protoporphyrinogen oxidase activity, oxygen as acceptor `gomodel:PROTOPORGENOXI-RXN`	part_of	heme biosynthetic process `GO:0006783`	gomodel:YeastPathways_HEME-BIOSYNTHESIS-II Source assertion: The model asserts gomodel:PROTOPORGENOXI-RXN BFO:0000050 gomodel:YeastPathways_HEME-BIOSYNTHESIS-II/YeastPathways_HEME-BIOSYNTHESIS-II. Source location `./YeastPathways_HEME-BIOSYNTHESIS-II.json#/facts/20; endpoint types: /individuals/16/type; /individuals/46/type`
protoporphyrin ferrochelatase activity `gomodel:PROTOHEMEFERROCHELAT-RXN`	has_output	ferroheme b `CHEBI:17627`	gomodel:YeastPathways_HEME-BIOSYNTHESIS-II Source assertion: The model asserts gomodel:PROTOHEMEFERROCHELAT-RXN RO:0002234 gomodel:CHEBI_17627_PROTOHEMEFERROCHELAT-RXN. Source location `./YeastPathways_HEME-BIOSYNTHESIS-II.json#/facts/21; endpoint types: /individuals/15/type; /individuals/9/type`
uroporphyrinogen decarboxylase activity `gomodel:UROGENDECARBOX-RXN`	has_output	coproporphyrinogen III(4-) `CHEBI:57309`	gomodel:YeastPathways_HEME-BIOSYNTHESIS-II Source assertion: The model asserts gomodel:UROGENDECARBOX-RXN RO:0002234 gomodel:CHEBI_57309_UROGENDECARBOX-RXN. Source location `./YeastPathways_HEME-BIOSYNTHESIS-II.json#/facts/24; endpoint types: /individuals/18/type; /individuals/14/type`
protoporphyrin ferrochelatase activity `gomodel:PROTOHEMEFERROCHELAT-RXN`	occurs_in	mitochondrial inner membrane `GO:0005743`	gomodel:YeastPathways_HEME-BIOSYNTHESIS-II Source assertion: The model asserts gomodel:PROTOHEMEFERROCHELAT-RXN BFO:0000066 gomodel:YeastPathways_HEME-BIOSYNTHESIS-II/65692e7e00001691. Source location `./YeastPathways_HEME-BIOSYNTHESIS-II.json#/facts/25; endpoint types: /individuals/15/type; /individuals/81/type`
protoporphyrin ferrochelatase activity `gomodel:PROTOHEMEFERROCHELAT-RXN`	has_input	iron(2+) `CHEBI:29033`	gomodel:YeastPathways_HEME-BIOSYNTHESIS-II Source assertion: The model asserts gomodel:PROTOHEMEFERROCHELAT-RXN RO:0002233 gomodel:CHEBI_29033_PROTOHEMEFERROCHELAT-RXN. Source location `./YeastPathways_HEME-BIOSYNTHESIS-II.json#/facts/28; endpoint types: /individuals/15/type; /individuals/10/type` gomodel:YeastPathways_HEME-BIOSYNTHESIS-II Source assertion: The model asserts gomodel:PROTOHEMEFERROCHELAT-RXN RO:0002233 gomodel:YeastPathways_HEME-BIOSYNTHESIS-II/65692e7e00001684. Source location `./YeastPathways_HEME-BIOSYNTHESIS-II.json#/facts/29; endpoint types: /individuals/15/type; /individuals/75/type`
coproporphyrinogen oxidase activity `gomodel:RXN0-1461`	has_output	protoporphyrinogen(2-) `CHEBI:57307`	gomodel:YeastPathways_HEME-BIOSYNTHESIS-II Source assertion: The model asserts gomodel:RXN0-1461 RO:0002234 gomodel:CHEBI_57307_RXN0-1461. Source location `./YeastPathways_HEME-BIOSYNTHESIS-II.json#/facts/31; endpoint types: /individuals/17/type; /individuals/12/type`
coproporphyrinogen oxidase activity `gomodel:RXN0-1461`	part_of	heme biosynthetic process `GO:0006783`	gomodel:YeastPathways_HEME-BIOSYNTHESIS-II Source assertion: The model asserts gomodel:RXN0-1461 BFO:0000050 gomodel:YeastPathways_HEME-BIOSYNTHESIS-II/YeastPathways_HEME-BIOSYNTHESIS-II. Source location `./YeastPathways_HEME-BIOSYNTHESIS-II.json#/facts/32; endpoint types: /individuals/17/type; /individuals/46/type`
uroporphyrinogen decarboxylase activity `gomodel:UROGENDECARBOX-RXN`	has_input	uroporphyrinogen III(8-) `CHEBI:57308`	gomodel:YeastPathways_HEME-BIOSYNTHESIS-II Source assertion: The model asserts gomodel:UROGENDECARBOX-RXN RO:0002233 gomodel:CHEBI_57308_UROGENDECARBOX-RXN. Source location `./YeastPathways_HEME-BIOSYNTHESIS-II.json#/facts/33; endpoint types: /individuals/18/type; /individuals/13/type`
protoporphyrinogen oxidase activity, oxygen as acceptor `gomodel:PROTOPORGENOXI-RXN`	occurs_in	mitochondrial inner membrane `GO:0005743`	gomodel:YeastPathways_HEME-BIOSYNTHESIS-II Source assertion: The model asserts gomodel:PROTOPORGENOXI-RXN BFO:0000066 gomodel:YeastPathways_HEME-BIOSYNTHESIS-II/65692e7e00001681. Source location `./YeastPathways_HEME-BIOSYNTHESIS-II.json#/facts/37; endpoint types: /individuals/16/type; /individuals/73/type`
protoporphyrin ferrochelatase activity `gomodel:PROTOHEMEFERROCHELAT-RXN`	has_input	protoporphyrin(2-) `CHEBI:57306`	gomodel:YeastPathways_HEME-BIOSYNTHESIS-II Source assertion: The model asserts gomodel:PROTOHEMEFERROCHELAT-RXN RO:0002233 gomodel:CHEBI_57306_PROTOPORGENOXI-RXN. Source location `./YeastPathways_HEME-BIOSYNTHESIS-II.json#/facts/38; endpoint types: /individuals/15/type; /individuals/11/type`
uroporphyrinogen decarboxylase activity `gomodel:UROGENDECARBOX-RXN`	part_of	heme biosynthetic process `GO:0006783`	gomodel:YeastPathways_HEME-BIOSYNTHESIS-II Source assertion: The model asserts gomodel:UROGENDECARBOX-RXN BFO:0000050 gomodel:YeastPathways_HEME-BIOSYNTHESIS-II/YeastPathways_HEME-BIOSYNTHESIS-II. Source location `./YeastPathways_HEME-BIOSYNTHESIS-II.json#/facts/42; endpoint types: /individuals/18/type; /individuals/46/type`
coproporphyrinogen oxidase activity `gomodel:RXN0-1461`	occurs_in	cytosol `GO:0005829`	gomodel:YeastPathways_HEME-BIOSYNTHESIS-II Source assertion: The model asserts gomodel:RXN0-1461 BFO:0000066 gomodel:reaction_RXN0-1461_location_lociGO_0005829. Source location `./YeastPathways_HEME-BIOSYNTHESIS-II.json#/facts/43; endpoint types: /individuals/17/type; /individuals/44/type`
HEM13 Scer `SGD:S000002451`	located_in Physical protein location from reviewed UniProt. ECO:0000269 (PubMed:14562095); ECO:0000269 (PubMed:3516695)	cytoplasm `GO:0005737`	UniProtKB:P11353 Source assertion: UniProtKB:P11353 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/324/comments/1/subcellularLocations/0; sha256=95f72dcc644358c480e0e59f996cf88533558b5fa4256460a030e0a1eaf9678d` UniProtKB:P11353 Source assertion: UniProtKB:P11353 has the exact SGD cross-reference SGD:S000002451. 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/324/uniProtKBCrossReferences/0; sha256=95f72dcc644358c480e0e59f996cf88533558b5fa4256460a030e0a1eaf9678d`
HEM15 Scer `SGD:S000005702`	located_in Physical protein location from reviewed UniProt. evidence code not specified by source Topology: Peripheral membrane protein. Orientation: Matrix side. Source qualification: It is bound to the mitochondrial inner membrane in eukaryotic cells with its active site on the matrix side of the membrane	mitochondrial inner membrane `GO:0005743`	UniProtKB:P16622 Source assertion: UniProtKB:P16622 annotates location Mitochondrion inner membrane (SL-0168). 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/445/comments/1/subcellularLocations/0; sha256=95f72dcc644358c480e0e59f996cf88533558b5fa4256460a030e0a1eaf9678d` UniProtKB:P16622 Source assertion: UniProtKB:P16622 has the exact SGD cross-reference SGD:S000005702. 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/445/uniProtKBCrossReferences/0; sha256=95f72dcc644358c480e0e59f996cf88533558b5fa4256460a030e0a1eaf9678d`
HEM12 Scer `SGD:S000002454`	located_in Physical protein location from reviewed UniProt. ECO:0000269 (PubMed:14562095)	nucleus `GO:0005634`	UniProtKB:P32347 Source assertion: UniProtKB:P32347 annotates location Nucleus (SL-0191). 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/881/comments/1/subcellularLocations/0; sha256=95f72dcc644358c480e0e59f996cf88533558b5fa4256460a030e0a1eaf9678d` UniProtKB:P32347 Source assertion: UniProtKB:P32347 has the exact SGD cross-reference SGD:S000002454. 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/881/uniProtKBCrossReferences/0; sha256=95f72dcc644358c480e0e59f996cf88533558b5fa4256460a030e0a1eaf9678d`
HEM12 Scer `SGD:S000002454`	located_in Physical protein location from reviewed UniProt. ECO:0000269 (PubMed:14562095); ECO:0000269 (PubMed:2180703)	cytoplasm `GO:0005737`	UniProtKB:P32347 Source assertion: UniProtKB:P32347 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/881/comments/1/subcellularLocations/1; sha256=95f72dcc644358c480e0e59f996cf88533558b5fa4256460a030e0a1eaf9678d` UniProtKB:P32347 Source assertion: UniProtKB:P32347 has the exact SGD cross-reference SGD:S000002454. 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/881/uniProtKBCrossReferences/0; sha256=95f72dcc644358c480e0e59f996cf88533558b5fa4256460a030e0a1eaf9678d`
HEM14 Scer `SGD:S000000816`	located_in Physical protein location from reviewed UniProt. ECO:0000269 (PubMed:7798202) Source qualification: Bound to the mitochondrial inner membrane with its active site facing the cytosolic side	mitochondrial inner membrane `GO:0005743`	UniProtKB:P40012 Source assertion: UniProtKB:P40012 annotates location Mitochondrion inner membrane (SL-0168). 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/3703/comments/1/subcellularLocations/0; sha256=95f72dcc644358c480e0e59f996cf88533558b5fa4256460a030e0a1eaf9678d` UniProtKB:P40012 Source assertion: UniProtKB:P40012 has the exact SGD cross-reference SGD:S000000816. 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/3703/uniProtKBCrossReferences/0; sha256=95f72dcc644358c480e0e59f996cf88533558b5fa4256460a030e0a1eaf9678d`
HEM14 Scer `SGD:S000000816`	has_cofactor UniProtKB reviewed (Swiss-Prot) annotation. UniProt evidence: not specified Binds 1 FAD per subunit. UniProt note evidence: ECO:0000250 (UniProtKB:P32397)	FAD(3-) `CHEBI:57692`	UniProtKB:P40012 Source assertion: UniProtKB:P40012 annotates CHEBI:57692 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/3703/comments/0/cofactors/0; /results/3703/comments/0/note` UniProtKB:P40012 Source assertion: UniProtKB:P40012 has the exact SGD cross-reference SGD:S000000816. 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/3703/uniProtKBCrossReferences/0`

References

gomodel:YeastPathways_HEME-BIOSYNTHESIS-II GO-CAM heme b biosynthesis I aerobic model YeastPathways_HEME-BIOSYNTHESIS-II (source version: Pinned Noctua JSON archive; model date 2023-12-13; member ./YeastPathways_HEME-BIOSYNTHESIS-II.json)
UniProtKB:P11353 Reviewed UniProtKB P11353 location annotations (source version: UniProt release 2026_03)
UniProtKB:P16622 Reviewed UniProtKB P16622 location annotations (source version: UniProt release 2026_03)
UniProtKB:P32347 Reviewed UniProtKB P32347 location annotations (source version: UniProt release 2026_03)
UniProtKB:P40012 Reviewed UniProtKB P40012 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 4 activity location assignments and 4 mapped physical proteins against reviewed S288C UniProt release2026_03 location/function/caution batch SHA256 95f72dcc644358c480e0e59f996cf88533558b5fa4256460a030e0a1eaf9678d. Added 5 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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