Purine Deoxyribonucleosides Degradation

PathBank:SMP0002089

The complete six-reaction PathBank pathway annotated here for Escherichia coli K-12 MG1655 channels deoxyadenosine, deoxyinosine and deoxyguanosine into free purine bases, acetaldehyde and D-glyceraldehyde 3-phosphate. Add deaminates deoxyadenosine to deoxyinosine; the DeoD homohexamer provides three parallel phosphorolysis branches, including direct deoxyadenosine cleavage. DeoB transfers the deoxyribose phosphate from C1 to C5 and DeoC cleaves the resulting sugar phosphate. Degradation-directed Rhea reactions retain every chemical side and its exact charge and stereochemistry. This native boundary ends before acetaldehyde oxidation to acetyl-CoA and does not assert purine ring degradation, nucleoside uptake, or nucleotide salvage. MG1655 follows native component annotations; the reviewed proteins are K-12 entries, and the inspected enzyme studies do not establish whole-pathway flux in MG1655. DeoC's monomer/dimer states and Add's inferred zinc assignment remain explicitly qualified.

Pathway type

purine deoxyribonucleoside catabolism

Organism scope

Escherichia coli str. K-12 substr. MG1655 NCBITaxon:511145

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Pathway network

31 nodes · 49 asserted directed edges

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Reaction / activity
Chemical / cofactor
Protein / complex
Cell / process context
Pathway
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
Escherichia coli str. K-12 substr. MG1655 `NCBITaxon:511145`	taxon
2'-deoxyadenosine `CHEBI:17256`	small molecule
water `CHEBI:15377`	small molecule
hydron `CHEBI:15378`	small molecule
2'-deoxyinosine `CHEBI:28997`	small molecule
ammonium `CHEBI:28938`	small molecule
hydrogenphosphate `CHEBI:43474`	small molecule
2-deoxy-alpha-D-ribose 1-phosphate(2-) `CHEBI:57259`	small molecule
adenine `CHEBI:16708`	small molecule
hypoxanthine `CHEBI:17368`	small molecule
2'-deoxyguanosine `CHEBI:17172`	small molecule
guanine `CHEBI:16235`	small molecule
2-deoxy-D-ribofuranose 5-phosphate(2-) `CHEBI:62877`	small molecule
D-glyceraldehyde 3-phosphate(2-) `CHEBI:59776`	small molecule
acetaldehyde `CHEBI:15343`	small molecule
zinc(2+) `CHEBI:29105`	cofactor
manganese(2+) `CHEBI:29035`	cofactor
cobalt(2+) `CHEBI:48828`	cofactor
nickel(2+) `CHEBI:49786`	cofactor
cytosol `GO:0005829`	cellular component
Adenosine deaminase `UniProtKB:P22333`	protein
Purine nucleoside phosphorylase DeoD-type `UniProtKB:P0ABP8`	protein
Phosphopentomutase `UniProtKB:P0A6K6`	protein
Deoxyribose-phosphate aldolase `UniProtKB:P0A6L0`	protein
purine nucleoside phosphorylase `MetaCyc:DEOD-CPLX`	complex
2'-deoxyadenosine + H2O + H(+) => 2'-deoxyinosine + NH4(+) `RHEA:28191`	molecular activity	left to right
2'-deoxyadenosine + phosphate => 2-deoxy-alpha-D-ribose 1-phosphate + adenine `RHEA:27743`	molecular activity	left to right
2'-deoxyinosine + phosphate => 2-deoxy-alpha-D-ribose 1-phosphate + hypoxanthine `RHEA:27751`	molecular activity	left to right
2'-deoxyguanosine + phosphate => 2-deoxy-alpha-D-ribose 1-phosphate + guanine `RHEA:27739`	molecular activity	left to right
2-deoxy-alpha-D-ribose 1-phosphate => 2-deoxy-D-ribose 5-phosphate `RHEA:27659`	molecular activity	left to right
2-deoxy-D-ribose 5-phosphate => D-glyceraldehyde 3-phosphate + acetaldehyde `RHEA:12822`	molecular activity	left to right

Mechanistic edges

Mechanistic edges and their cited evidence
Subject	Predicate and description	Object	Evidence
2'-deoxyadenosine `CHEBI:17256`	consumes	2'-deoxyadenosine + H2O + H(+) => 2'-deoxyinosine + NH4(+) `RHEA:28191`	RHEA:28191 Source assertion: Rhea RHEA:28191 assigns CHEBI:17256 to substrates with coefficient 1; the linked compound resolves to this exact ChEBI species. Source location `rdf:Description[@rdf:about='http://rdf.rhea-db.org/28191']/rh:substrates; rdf:Description[@rdf:about='http://rdf.rhea-db.org/28190_L']/rh:contains1[@rdf:resource='http://rdf.rhea-db.org/Participant_28190_compound_1711']; rh:compound/rh:chebi`
water `CHEBI:15377`	consumes	2'-deoxyadenosine + H2O + H(+) => 2'-deoxyinosine + NH4(+) `RHEA:28191`	RHEA:28191 Source assertion: Rhea RHEA:28191 assigns CHEBI:15377 to substrates with coefficient 1; the linked compound resolves to this exact ChEBI species. Source location `rdf:Description[@rdf:about='http://rdf.rhea-db.org/28191']/rh:substrates; rdf:Description[@rdf:about='http://rdf.rhea-db.org/28190_L']/rh:contains1[@rdf:resource='http://rdf.rhea-db.org/Participant_28190_compound_1283']; rh:compound/rh:chebi`
hydron `CHEBI:15378`	consumes	2'-deoxyadenosine + H2O + H(+) => 2'-deoxyinosine + NH4(+) `RHEA:28191`	RHEA:28191 Source assertion: Rhea RHEA:28191 assigns CHEBI:15378 to substrates with coefficient 1; the linked compound resolves to this exact ChEBI species. Source location `rdf:Description[@rdf:about='http://rdf.rhea-db.org/28191']/rh:substrates; rdf:Description[@rdf:about='http://rdf.rhea-db.org/28190_L']/rh:contains1[@rdf:resource='http://rdf.rhea-db.org/Participant_28190_compound_3249']; rh:compound/rh:chebi`
2'-deoxyadenosine + H2O + H(+) => 2'-deoxyinosine + NH4(+) `RHEA:28191`	produces	2'-deoxyinosine `CHEBI:28997`	RHEA:28191 Source assertion: Rhea RHEA:28191 assigns CHEBI:28997 to products with coefficient 1; the linked compound resolves to this exact ChEBI species. Source location `rdf:Description[@rdf:about='http://rdf.rhea-db.org/28191']/rh:products; rdf:Description[@rdf:about='http://rdf.rhea-db.org/28190_R']/rh:contains1[@rdf:resource='http://rdf.rhea-db.org/Participant_28190_compound_6258']; rh:compound/rh:chebi`
2'-deoxyadenosine + H2O + H(+) => 2'-deoxyinosine + NH4(+) `RHEA:28191`	produces	ammonium `CHEBI:28938`	RHEA:28191 Source assertion: Rhea RHEA:28191 assigns CHEBI:28938 to products with coefficient 1; the linked compound resolves to this exact ChEBI species. Source location `rdf:Description[@rdf:about='http://rdf.rhea-db.org/28191']/rh:products; rdf:Description[@rdf:about='http://rdf.rhea-db.org/28190_R']/rh:contains1[@rdf:resource='http://rdf.rhea-db.org/Participant_28190_compound_1012']; rh:compound/rh:chebi`
2'-deoxyadenosine `CHEBI:17256`	consumes	2'-deoxyadenosine + phosphate => 2-deoxy-alpha-D-ribose 1-phosphate + adenine `RHEA:27743`	RHEA:27743 Source assertion: Rhea RHEA:27743 assigns CHEBI:17256 to substrates with coefficient 1; the linked compound resolves to this exact ChEBI species. Source location `rdf:Description[@rdf:about='http://rdf.rhea-db.org/27743']/rh:substrates; rdf:Description[@rdf:about='http://rdf.rhea-db.org/27742_L']/rh:contains1[@rdf:resource='http://rdf.rhea-db.org/Participant_27742_compound_1711']; rh:compound/rh:chebi`
hydrogenphosphate `CHEBI:43474`	consumes	2'-deoxyadenosine + phosphate => 2-deoxy-alpha-D-ribose 1-phosphate + adenine `RHEA:27743`	RHEA:27743 Source assertion: Rhea RHEA:27743 assigns CHEBI:43474 to substrates with coefficient 1; the linked compound resolves to this exact ChEBI species. Source location `rdf:Description[@rdf:about='http://rdf.rhea-db.org/27743']/rh:substrates; rdf:Description[@rdf:about='http://rdf.rhea-db.org/27742_L']/rh:contains1[@rdf:resource='http://rdf.rhea-db.org/Participant_27742_compound_5518']; rh:compound/rh:chebi`
2'-deoxyadenosine + phosphate => 2-deoxy-alpha-D-ribose 1-phosphate + adenine `RHEA:27743`	produces	2-deoxy-alpha-D-ribose 1-phosphate(2-) `CHEBI:57259`	RHEA:27743 Source assertion: Rhea RHEA:27743 assigns CHEBI:57259 to products with coefficient 1; the linked compound resolves to this exact ChEBI species. Source location `rdf:Description[@rdf:about='http://rdf.rhea-db.org/27743']/rh:products; rdf:Description[@rdf:about='http://rdf.rhea-db.org/27742_R']/rh:contains1[@rdf:resource='http://rdf.rhea-db.org/Participant_27742_compound_3098']; rh:compound/rh:chebi`
2'-deoxyadenosine + phosphate => 2-deoxy-alpha-D-ribose 1-phosphate + adenine `RHEA:27743`	produces	adenine `CHEBI:16708`	RHEA:27743 Source assertion: Rhea RHEA:27743 assigns CHEBI:16708 to products with coefficient 1; the linked compound resolves to this exact ChEBI species. Source location `rdf:Description[@rdf:about='http://rdf.rhea-db.org/27743']/rh:products; rdf:Description[@rdf:about='http://rdf.rhea-db.org/27742_R']/rh:contains1[@rdf:resource='http://rdf.rhea-db.org/Participant_27742_compound_4174']; rh:compound/rh:chebi`
2'-deoxyinosine `CHEBI:28997`	consumes	2'-deoxyinosine + phosphate => 2-deoxy-alpha-D-ribose 1-phosphate + hypoxanthine `RHEA:27751`	RHEA:27751 Source assertion: Rhea RHEA:27751 assigns CHEBI:28997 to substrates with coefficient 1; the linked compound resolves to this exact ChEBI species. Source location `rdf:Description[@rdf:about='http://rdf.rhea-db.org/27751']/rh:substrates; rdf:Description[@rdf:about='http://rdf.rhea-db.org/27750_L']/rh:contains1[@rdf:resource='http://rdf.rhea-db.org/Participant_27750_compound_6258']; rh:compound/rh:chebi`
hydrogenphosphate `CHEBI:43474`	consumes	2'-deoxyinosine + phosphate => 2-deoxy-alpha-D-ribose 1-phosphate + hypoxanthine `RHEA:27751`	RHEA:27751 Source assertion: Rhea RHEA:27751 assigns CHEBI:43474 to substrates with coefficient 1; the linked compound resolves to this exact ChEBI species. Source location `rdf:Description[@rdf:about='http://rdf.rhea-db.org/27751']/rh:substrates; rdf:Description[@rdf:about='http://rdf.rhea-db.org/27750_L']/rh:contains1[@rdf:resource='http://rdf.rhea-db.org/Participant_27750_compound_5518']; rh:compound/rh:chebi`
2'-deoxyinosine + phosphate => 2-deoxy-alpha-D-ribose 1-phosphate + hypoxanthine `RHEA:27751`	produces	2-deoxy-alpha-D-ribose 1-phosphate(2-) `CHEBI:57259`	RHEA:27751 Source assertion: Rhea RHEA:27751 assigns CHEBI:57259 to products with coefficient 1; the linked compound resolves to this exact ChEBI species. Source location `rdf:Description[@rdf:about='http://rdf.rhea-db.org/27751']/rh:products; rdf:Description[@rdf:about='http://rdf.rhea-db.org/27750_R']/rh:contains1[@rdf:resource='http://rdf.rhea-db.org/Participant_27750_compound_3098']; rh:compound/rh:chebi`
2'-deoxyinosine + phosphate => 2-deoxy-alpha-D-ribose 1-phosphate + hypoxanthine `RHEA:27751`	produces	hypoxanthine `CHEBI:17368`	RHEA:27751 Source assertion: Rhea RHEA:27751 assigns CHEBI:17368 to products with coefficient 1; the linked compound resolves to this exact ChEBI species. Source location `rdf:Description[@rdf:about='http://rdf.rhea-db.org/27751']/rh:products; rdf:Description[@rdf:about='http://rdf.rhea-db.org/27750_R']/rh:contains1[@rdf:resource='http://rdf.rhea-db.org/Participant_27750_compound_3881']; rh:compound/rh:chebi`
2'-deoxyguanosine `CHEBI:17172`	consumes	2'-deoxyguanosine + phosphate => 2-deoxy-alpha-D-ribose 1-phosphate + guanine `RHEA:27739`	RHEA:27739 Source assertion: Rhea RHEA:27739 assigns CHEBI:17172 to substrates with coefficient 1; the linked compound resolves to this exact ChEBI species. Source location `rdf:Description[@rdf:about='http://rdf.rhea-db.org/27739']/rh:substrates; rdf:Description[@rdf:about='http://rdf.rhea-db.org/27738_L']/rh:contains1[@rdf:resource='http://rdf.rhea-db.org/Participant_27738_compound_3664']; rh:compound/rh:chebi`
hydrogenphosphate `CHEBI:43474`	consumes	2'-deoxyguanosine + phosphate => 2-deoxy-alpha-D-ribose 1-phosphate + guanine `RHEA:27739`	RHEA:27739 Source assertion: Rhea RHEA:27739 assigns CHEBI:43474 to substrates with coefficient 1; the linked compound resolves to this exact ChEBI species. Source location `rdf:Description[@rdf:about='http://rdf.rhea-db.org/27739']/rh:substrates; rdf:Description[@rdf:about='http://rdf.rhea-db.org/27738_L']/rh:contains1[@rdf:resource='http://rdf.rhea-db.org/Participant_27738_compound_5518']; rh:compound/rh:chebi`
2'-deoxyguanosine + phosphate => 2-deoxy-alpha-D-ribose 1-phosphate + guanine `RHEA:27739`	produces	2-deoxy-alpha-D-ribose 1-phosphate(2-) `CHEBI:57259`	RHEA:27739 Source assertion: Rhea RHEA:27739 assigns CHEBI:57259 to products with coefficient 1; the linked compound resolves to this exact ChEBI species. Source location `rdf:Description[@rdf:about='http://rdf.rhea-db.org/27739']/rh:products; rdf:Description[@rdf:about='http://rdf.rhea-db.org/27738_R']/rh:contains1[@rdf:resource='http://rdf.rhea-db.org/Participant_27738_compound_3098']; rh:compound/rh:chebi`
2'-deoxyguanosine + phosphate => 2-deoxy-alpha-D-ribose 1-phosphate + guanine `RHEA:27739`	produces	guanine `CHEBI:16235`	RHEA:27739 Source assertion: Rhea RHEA:27739 assigns CHEBI:16235 to products with coefficient 1; the linked compound resolves to this exact ChEBI species. Source location `rdf:Description[@rdf:about='http://rdf.rhea-db.org/27739']/rh:products; rdf:Description[@rdf:about='http://rdf.rhea-db.org/27738_R']/rh:contains1[@rdf:resource='http://rdf.rhea-db.org/Participant_27738_compound_2523']; rh:compound/rh:chebi`
2-deoxy-alpha-D-ribose 1-phosphate(2-) `CHEBI:57259`	consumes	2-deoxy-alpha-D-ribose 1-phosphate => 2-deoxy-D-ribose 5-phosphate `RHEA:27659`	RHEA:27659 Source assertion: Rhea RHEA:27659 assigns CHEBI:57259 to substrates with coefficient 1; the linked compound resolves to this exact ChEBI species. Source location `rdf:Description[@rdf:about='http://rdf.rhea-db.org/27659']/rh:substrates; rdf:Description[@rdf:about='http://rdf.rhea-db.org/27658_L']/rh:contains1[@rdf:resource='http://rdf.rhea-db.org/Participant_27658_compound_3098']; rh:compound/rh:chebi`
2-deoxy-alpha-D-ribose 1-phosphate => 2-deoxy-D-ribose 5-phosphate `RHEA:27659`	produces	2-deoxy-D-ribofuranose 5-phosphate(2-) `CHEBI:62877`	RHEA:27659 Source assertion: Rhea RHEA:27659 assigns CHEBI:62877 to products with coefficient 1; the linked compound resolves to this exact ChEBI species. Source location `rdf:Description[@rdf:about='http://rdf.rhea-db.org/27659']/rh:products; rdf:Description[@rdf:about='http://rdf.rhea-db.org/27658_R']/rh:contains1[@rdf:resource='http://rdf.rhea-db.org/Participant_27658_compound_14166']; rh:compound/rh:chebi`
2-deoxy-D-ribofuranose 5-phosphate(2-) `CHEBI:62877`	consumes	2-deoxy-D-ribose 5-phosphate => D-glyceraldehyde 3-phosphate + acetaldehyde `RHEA:12822`	RHEA:12822 Source assertion: Rhea RHEA:12822 assigns CHEBI:62877 to substrates with coefficient 1; the linked compound resolves to this exact ChEBI species. Source location `rdf:Description[@rdf:about='http://rdf.rhea-db.org/12822']/rh:substrates; rdf:Description[@rdf:about='http://rdf.rhea-db.org/12821_L']/rh:contains1[@rdf:resource='http://rdf.rhea-db.org/Participant_12821_compound_14166']; rh:compound/rh:chebi`
2-deoxy-D-ribose 5-phosphate => D-glyceraldehyde 3-phosphate + acetaldehyde `RHEA:12822`	produces	D-glyceraldehyde 3-phosphate(2-) `CHEBI:59776`	RHEA:12822 Source assertion: Rhea RHEA:12822 assigns CHEBI:59776 to products with coefficient 1; the linked compound resolves to this exact ChEBI species. Source location `rdf:Description[@rdf:about='http://rdf.rhea-db.org/12822']/rh:products; rdf:Description[@rdf:about='http://rdf.rhea-db.org/12821_R']/rh:contains1[@rdf:resource='http://rdf.rhea-db.org/Participant_12821_compound_6062']; rh:compound/rh:chebi`
2-deoxy-D-ribose 5-phosphate => D-glyceraldehyde 3-phosphate + acetaldehyde `RHEA:12822`	produces	acetaldehyde `CHEBI:15343`	RHEA:12822 Source assertion: Rhea RHEA:12822 assigns CHEBI:15343 to products with coefficient 1; the linked compound resolves to this exact ChEBI species. Source location `rdf:Description[@rdf:about='http://rdf.rhea-db.org/12822']/rh:products; rdf:Description[@rdf:about='http://rdf.rhea-db.org/12821_R']/rh:contains1[@rdf:resource='http://rdf.rhea-db.org/Participant_12821_compound_3952']; rh:compound/rh:chebi`
Adenosine deaminase `UniProtKB:P22333`	enables Functional Add role; no inference that an isolated monomer is sufficient. Exact activity is attributed to the inspected curated sources; the cited 1978 full text was inaccessible.	2'-deoxyadenosine + H2O + H(+) => 2'-deoxyinosine + NH4(+) `RHEA:28191`	UniProtKB:P22333 Source assertion: Reviewed Add catalytic-activity comment 2 assigns deoxyadenosine deamination to RHEA:28190 and physiological left-to-right RHEA:28191, with experimental attribution to PMID:357905 alongside HAMAP inference. Source location `comments[2].reaction; comments[2].physiologicalReactions; comments[2].reaction.evidences` MetaCyc:ADDALT-ENZRXN Source assertion: ADDALT-ENZRXN assigns ADDALT-RXN to ADENODEAMIN-MONOMER, marks it physiologically relevant and cites purified-native-protein assay evidence from PMID:357905. Source location `Enzymatic-Reaction[@frameid="ADDALT-ENZRXN"]/reaction, enzyme, physiologically-relevant, evidence` MetaCyc:ADENODEAMIN-MONOMER Source assertion: The native Add entity explicitly cross-references UniProt P22333 and MG1655 TAX-511145; it distinguishes E. coli K-12 enzyme data from the murine monomeric zinc-enzyme comparison. Source location `Protein[@frameid="ADENODEAMIN-MONOMER"]/dblink[dblink-db="UNIPROT"], species, comment`
purine nucleoside phosphorylase `MetaCyc:DEOD-CPLX`	catalyzes The physiologically relevant degradation direction is selected for reversible phosphorolysis; the catalyst is the DeoD hexamer.	2'-deoxyadenosine + phosphate => 2-deoxy-alpha-D-ribose 1-phosphate + adenine `RHEA:27743`	UniProtKB:P0ABP8 Source assertion: Reviewed DeoD catalytic-activity comment 6 assigns the exact deoxyribonucleoside phosphorolysis to RHEA:27742, citing experimental PMID:235429; comment 10 identifies the homohexamer. Source location `comments[6].reaction; comments[6].reaction.evidences; comments[10]` MetaCyc:DEOD-CPLX Source assertion: The native purine nucleoside phosphorylase complex contains six DEOD-MONOMER subunits and catalyzes DEOXYADENPHOSPHOR-RXN. Source location `Protein[@frameid="DEOD-CPLX"]/component; catalyzes/Enzymatic-Reaction/reaction`
purine nucleoside phosphorylase `MetaCyc:DEOD-CPLX`	catalyzes The physiologically relevant degradation direction is selected for reversible phosphorolysis; the catalyst is the DeoD hexamer.	2'-deoxyinosine + phosphate => 2-deoxy-alpha-D-ribose 1-phosphate + hypoxanthine `RHEA:27751`	UniProtKB:P0ABP8 Source assertion: Reviewed DeoD catalytic-activity comment 8 assigns the exact deoxyribonucleoside phosphorolysis to RHEA:27750, citing experimental PMID:235429; comment 10 identifies the homohexamer. Source location `comments[8].reaction; comments[8].reaction.evidences; comments[10]` MetaCyc:DEOD-CPLX Source assertion: The native purine nucleoside phosphorylase complex contains six DEOD-MONOMER subunits and catalyzes DEOXYINOPHOSPHOR-RXN. Source location `Protein[@frameid="DEOD-CPLX"]/component; catalyzes/Enzymatic-Reaction/reaction`
purine nucleoside phosphorylase `MetaCyc:DEOD-CPLX`	catalyzes The physiologically relevant degradation direction is selected for reversible phosphorolysis; the catalyst is the DeoD hexamer.	2'-deoxyguanosine + phosphate => 2-deoxy-alpha-D-ribose 1-phosphate + guanine `RHEA:27739`	UniProtKB:P0ABP8 Source assertion: Reviewed DeoD catalytic-activity comment 7 assigns the exact deoxyribonucleoside phosphorolysis to RHEA:27738, citing experimental PMID:235429; comment 10 identifies the homohexamer. Source location `comments[7].reaction; comments[7].reaction.evidences; comments[10]` MetaCyc:DEOD-CPLX Source assertion: The native purine nucleoside phosphorylase complex contains six DEOD-MONOMER subunits and catalyzes DEOXYGUANPHOSPHOR-RXN. Source location `Protein[@frameid="DEOD-CPLX"]/component; catalyzes/Enzymatic-Reaction/reaction`
Phosphopentomutase `UniProtKB:P0A6K6`	catalyzes Monomeric enzyme supported by the inspected physical-characterization abstract; C1-to-C5 degradation direction selected from the reversible reaction.	2-deoxy-alpha-D-ribose 1-phosphate => 2-deoxy-D-ribose 5-phosphate `RHEA:27659`	UniProtKB:P0A6K6 Source assertion: Reviewed DeoB catalytic-activity comment 1 assigns the exact deoxyribose 1-phosphate to 5-phosphate interconversion to RHEA:27658, citing PMID:1089430 and PMID:4992818. Source location `comments[1].reaction; comments[1].reaction.evidences` PMID:1089430 Source assertion: The inspected primary abstract reports that all four purified phosphodeoxyribomutase forms consist of a single polypeptide chain, with molecular weight about 45,000, and have different cobalt-binding properties. Source location `resultList.result[0].abstractText` MetaCyc:PPENTOMUT-MONOMER Source assertion: PPENTOMUT-MONOMER explicitly cross-references UniProt P0A6K6, is assigned to MG1655 and catalyzes the deoxyribose phosphomutase reaction. Source location `Protein[@frameid="PPENTOMUT-MONOMER"]/dblink[dblink-db="UNIPROT"], species, catalyzes`
Deoxyribose-phosphate aldolase `UniProtKB:P0A6L0`	enables Functional DeoC role retains the documented monomer/dimer alternatives; no invented physical assembly or universal monomer-sufficiency claim. Degradation cleavage is selected from reversible aldol chemistry.	2-deoxy-D-ribose 5-phosphate => D-glyceraldehyde 3-phosphate + acetaldehyde `RHEA:12822`	UniProtKB:P0A6L0 Source assertion: Reviewed DeoC assigns deoxyribose 5-phosphate cleavage to RHEA:12821, with experimental references, and explicitly annotates both monomer and homodimer states. Source location `comments[1].reaction; comments[4]` PMID:7675789 Source assertion: The primary abstract identifies E. coli class I DERA and its reversible cleavage of deoxyribose 5-phosphate into acetaldehyde and glyceraldehyde 3-phosphate. Source location `resultList.result[0].abstractText` PMID:6749498 Source assertion: The inspected E. coli K-12 primary abstract reports that purified DeoC may exist in both monomeric and dimeric forms. Source location `resultList.result[0].abstractText` MetaCyc:DEOXYRIBOSE-P-ALD-MONOMER Source assertion: The native MG1655 DeoC entity cross-references P0A6L0; its comment reports monomer in Tris/HCl with EDTA and dimer in phosphate buffer, citing PMID:6749498. Source location `Protein[@frameid="DEOXYRIBOSE-P-ALD-MONOMER"]/dblink[dblink-db="UNIPROT"], species, comment`
Purine nucleoside phosphorylase DeoD-type `UniProtKB:P0ABP8`	part_of Six DeoD copies per native complex. The PathBank and MetaCyc assembly descriptions corroborate composition; no physical-instance sameAs mapping is asserted.	purine nucleoside phosphorylase `MetaCyc:DEOD-CPLX`	MetaCyc:DEOD-CPLX Source assertion: The native DEOD-CPLX component slot specifies six copies of DEOD-MONOMER. Source location `Protein[@frameid="DEOD-CPLX"]/component` MetaCyc:DEOD-MONOMER Source assertion: DEOD-MONOMER explicitly cross-references UniProt P0ABP8 and is a component of DEOD-CPLX. Source location `Protein[@frameid="DEOD-MONOMER"]/dblink[dblink-db="UNIPROT"], component-of` PathBank:SMP0002089 Source assertion: Native ProteinComplex/4056 has six copies of Protein/6182; its protein reference identifies P0ABP8. This independently supports the same six-subunit composition. Source location `bp:Complex[@rdf:ID="ProteinComplex/4056"]/bp:componentStoichiometry; bp:Stoichiometry[@rdf:ID="Protein/6182/Stoichiometry/6.0"]; bp:ProteinReference[@rdf:ID="ProteinReference/6182"]/bp:xref` PMID:235429 Source assertion: The inspected primary abstract supports six identical subunits; association experiments suggest that only the hexameric form is active. Source location `resultList.result[0].abstractText` PMID:30337572 Source assertion: The primary full text reports six identical chains arranged as a trimer of dimers and explains that the hexameric architecture stabilizes catalytically competent dimers. Source location `body; Results and Discussion, crystal structures paragraph beginning "All PNP structures"; Conclusions`
Adenosine deaminase `UniProtKB:P22333`	has_cofactor Inferred zinc cofactor annotation; the mammalian structural comparison is not transferred as E. coli experimental proof.	zinc(2+) `CHEBI:29105`	UniProtKB:P22333 Source assertion: Reviewed Add annotates Zn(2+) and one zinc ion per subunit using ECO:0000255 HAMAP-Rule MF_00540; this is sequence-based inference, not a directly inspected E. coli metal-binding experiment. Source location `comments[3].cofactors; comments[3].note`
Phosphopentomutase `UniProtKB:P0A6K6`	has_cofactor Alternative metal-supported activities, not simultaneous occupancy or proof of the physiological metal. The source-cited 1970 full paper was inaccessible; no primary metal stoichiometry is inferred.	manganese(2+) `CHEBI:29035`	UniProtKB:P0A6K6 Source assertion: Reviewed DeoB annotates Mn(2+) support: Mn(2+) and Co(2+) are equally good activators; Ni(2+) can substitute less efficiently, attributed to PMID:4992818. The two-Mn binding stoichiometry is separately marked by similarity. Source location `comments[3].cofactors; comments[3].note.texts[0]`
Phosphopentomutase `UniProtKB:P0A6K6`	has_cofactor Alternative metal-supported activities, not simultaneous occupancy or proof of the physiological metal. The source-cited 1970 full paper was inaccessible; no primary metal stoichiometry is inferred.	cobalt(2+) `CHEBI:48828`	UniProtKB:P0A6K6 Source assertion: Reviewed DeoB annotates Co(2+) support: Mn(2+) and Co(2+) are equally good activators; Ni(2+) can substitute less efficiently, attributed to PMID:4992818. The two-Mn binding stoichiometry is separately marked by similarity. Source location `comments[3].cofactors; comments[3].note.texts[0]`
Phosphopentomutase `UniProtKB:P0A6K6`	has_cofactor Alternative metal-supported activities, not simultaneous occupancy or proof of the physiological metal. The source-cited 1970 full paper was inaccessible; no primary metal stoichiometry is inferred.	nickel(2+) `CHEBI:49786`	UniProtKB:P0A6K6 Source assertion: Reviewed DeoB annotates Ni(2+) support: Mn(2+) and Co(2+) are equally good activators; Ni(2+) can substitute less efficiently, attributed to PMID:4992818. The two-Mn binding stoichiometry is separately marked by similarity. Source location `comments[3].cofactors; comments[3].note.texts[0]`
Adenosine deaminase `UniProtKB:P22333`	located_in	cytosol `GO:0005829`	UniProtKB:P22333 Source assertion: The reviewed protein explicitly carries a GO:0005829 cytosol cross-reference with IDA:EcoCyc attribution; this is an inspected database assertion, not a newly repeated localization experiment. Source location `uniProtKBCrossReferences[database="GO",id="GO:0005829"].properties; evidences`
Purine nucleoside phosphorylase DeoD-type `UniProtKB:P0ABP8`	located_in	cytosol `GO:0005829`	UniProtKB:P0ABP8 Source assertion: The reviewed protein explicitly carries a GO:0005829 cytosol cross-reference with IDA:EcoCyc attribution; this is an inspected database assertion, not a newly repeated localization experiment. Source location `uniProtKBCrossReferences[database="GO",id="GO:0005829"].properties; evidences`
Phosphopentomutase `UniProtKB:P0A6K6`	located_in	cytosol `GO:0005829`	UniProtKB:P0A6K6 Source assertion: The reviewed protein explicitly carries a GO:0005829 cytosol cross-reference with IDA:EcoCyc attribution; this is an inspected database assertion, not a newly repeated localization experiment. Source location `uniProtKBCrossReferences[database="GO",id="GO:0005829"].properties; evidences`
Deoxyribose-phosphate aldolase `UniProtKB:P0A6L0`	located_in	cytosol `GO:0005829`	UniProtKB:P0A6L0 Source assertion: The reviewed protein explicitly carries a GO:0005829 cytosol cross-reference with IDA:EcoCyc attribution; this is an inspected database assertion, not a newly repeated localization experiment. Source location `uniProtKBCrossReferences[database="GO",id="GO:0005829"].properties; evidences`
purine nucleoside phosphorylase `MetaCyc:DEOD-CPLX`	located_in	cytosol `GO:0005829`	MetaCyc:DEOD-CPLX Source assertion: The native DEOD-CPLX location is CCO-CYTOSOL, the cytosolic compartment. Source location `Protein[@frameid="DEOD-CPLX"]/location`
2'-deoxyadenosine + H2O + H(+) => 2'-deoxyinosine + NH4(+) `RHEA:28191`	part_of Native generic/protonation forms are projected to the exact reviewed-enzyme Rhea species; no exactMatch between different ChEBI forms is asserted. Native 6068 is written right-to-left, which is the selected deamination direction.	`PathBank:SMP0002089`	PathBank:SMP0002089 Source assertion: The exact pathway SMP0002089 declares Reactions/6068 as a pathway component and links it to a step. Its substrates, products and catalyst correspond to this selected degradation reaction; all native chemical roles are retained. Source location `bp:Pathway[@rdf:about="http://identifiers.org/smpdb/SMP0002089"]/bp:pathwayComponent; bp:BiochemicalReaction[@rdf:ID="Reactions/6068"]; linked bp:Catalysis` MetaCyc:ADDALT-RXN Source assertion: Native reaction ADDALT-RXN has Rhea cross-reference 28190; its enzyme and chemical identities support the bridge from the PathBank reaction to this Rhea family. Source location `Reaction[@frameid="ADDALT-RXN"]/dblink[dblink-db="RHEA"], left, right, enzymatic-reaction` RHEA:28191 Source assertion: Rhea master 28190 explicitly links directed left-to-right member 28191. Source location `rdf:Description[@rdf:about="http://rdf.rhea-db.org/28190"]/rh:directionalReaction`
2'-deoxyadenosine + phosphate => 2-deoxy-alpha-D-ribose 1-phosphate + adenine `RHEA:27743`	part_of Native generic/protonation forms are projected to the exact reviewed-enzyme Rhea species; no exactMatch between different ChEBI forms is asserted.	`PathBank:SMP0002089`	PathBank:SMP0002089 Source assertion: The exact pathway SMP0002089 declares Reactions/6069 as a pathway component and links it to a step. Its substrates, products and catalyst correspond to this selected degradation reaction; all native chemical roles are retained. Source location `bp:Pathway[@rdf:about="http://identifiers.org/smpdb/SMP0002089"]/bp:pathwayComponent; bp:BiochemicalReaction[@rdf:ID="Reactions/6069"]; linked bp:Catalysis` MetaCyc:DEOXYADENPHOSPHOR-RXN Source assertion: Native reaction DEOXYADENPHOSPHOR-RXN has Rhea cross-reference 27745; its enzyme and chemical identities support the bridge from the PathBank reaction to this Rhea family. Source location `Reaction[@frameid="DEOXYADENPHOSPHOR-RXN"]/dblink[dblink-db="RHEA"], left, right, enzymatic-reaction` RHEA:27743 Source assertion: Rhea master 27742 explicitly links directed left-to-right member 27743 and bidirectional member 27745. Source location `rdf:Description[@rdf:about="http://rdf.rhea-db.org/27742"]/rh:directionalReaction; rh:bidirectionalReaction`
2'-deoxyinosine + phosphate => 2-deoxy-alpha-D-ribose 1-phosphate + hypoxanthine `RHEA:27751`	part_of Native generic/protonation forms are projected to the exact reviewed-enzyme Rhea species; no exactMatch between different ChEBI forms is asserted.	`PathBank:SMP0002089`	PathBank:SMP0002089 Source assertion: The exact pathway SMP0002089 declares Reactions/6067 as a pathway component and links it to a step. Its substrates, products and catalyst correspond to this selected degradation reaction; all native chemical roles are retained. Source location `bp:Pathway[@rdf:about="http://identifiers.org/smpdb/SMP0002089"]/bp:pathwayComponent; bp:BiochemicalReaction[@rdf:ID="Reactions/6067"]; linked bp:Catalysis` MetaCyc:DEOXYINOPHOSPHOR-RXN Source assertion: Native reaction DEOXYINOPHOSPHOR-RXN has Rhea cross-reference 27753; its enzyme and chemical identities support the bridge from the PathBank reaction to this Rhea family. Source location `Reaction[@frameid="DEOXYINOPHOSPHOR-RXN"]/dblink[dblink-db="RHEA"], left, right, enzymatic-reaction` RHEA:27751 Source assertion: Rhea master 27750 explicitly links directed left-to-right member 27751 and bidirectional member 27753. Source location `rdf:Description[@rdf:about="http://rdf.rhea-db.org/27750"]/rh:directionalReaction; rh:bidirectionalReaction`
2'-deoxyguanosine + phosphate => 2-deoxy-alpha-D-ribose 1-phosphate + guanine `RHEA:27739`	part_of Native generic/protonation forms are projected to the exact reviewed-enzyme Rhea species; no exactMatch between different ChEBI forms is asserted.	`PathBank:SMP0002089`	PathBank:SMP0002089 Source assertion: The exact pathway SMP0002089 declares Reactions/6070 as a pathway component and links it to a step. Its substrates, products and catalyst correspond to this selected degradation reaction; all native chemical roles are retained. Source location `bp:Pathway[@rdf:about="http://identifiers.org/smpdb/SMP0002089"]/bp:pathwayComponent; bp:BiochemicalReaction[@rdf:ID="Reactions/6070"]; linked bp:Catalysis` MetaCyc:DEOXYGUANPHOSPHOR-RXN Source assertion: Native reaction DEOXYGUANPHOSPHOR-RXN has Rhea cross-reference 27741; its enzyme and chemical identities support the bridge from the PathBank reaction to this Rhea family. Source location `Reaction[@frameid="DEOXYGUANPHOSPHOR-RXN"]/dblink[dblink-db="RHEA"], left, right, enzymatic-reaction` RHEA:27739 Source assertion: Rhea master 27738 explicitly links directed left-to-right member 27739 and bidirectional member 27741. Source location `rdf:Description[@rdf:about="http://rdf.rhea-db.org/27738"]/rh:directionalReaction; rh:bidirectionalReaction`
2-deoxy-alpha-D-ribose 1-phosphate => 2-deoxy-D-ribose 5-phosphate `RHEA:27659`	part_of Native generic/protonation forms are projected to the exact reviewed-enzyme Rhea species; no exactMatch between different ChEBI forms is asserted.	`PathBank:SMP0002089`	PathBank:SMP0002089 Source assertion: The exact pathway SMP0002089 declares Reactions/6071 as a pathway component and links it to a step. Its substrates, products and catalyst correspond to this selected degradation reaction; all native chemical roles are retained. Source location `bp:Pathway[@rdf:about="http://identifiers.org/smpdb/SMP0002089"]/bp:pathwayComponent; bp:BiochemicalReaction[@rdf:ID="Reactions/6071"]; linked bp:Catalysis` MetaCyc:D-PPENTOMUT-RXN Source assertion: Native reaction D-PPENTOMUT-RXN has Rhea cross-reference 27661; its enzyme and chemical identities support the bridge from the PathBank reaction to this Rhea family. Source location `Reaction[@frameid="D-PPENTOMUT-RXN"]/dblink[dblink-db="RHEA"], left, right, enzymatic-reaction` RHEA:27659 Source assertion: Rhea master 27658 explicitly links directed left-to-right member 27659 and bidirectional member 27661. Source location `rdf:Description[@rdf:about="http://rdf.rhea-db.org/27658"]/rh:directionalReaction; rh:bidirectionalReaction`
2-deoxy-D-ribose 5-phosphate => D-glyceraldehyde 3-phosphate + acetaldehyde `RHEA:12822`	part_of Native generic/protonation forms are projected to the exact reviewed-enzyme Rhea species; no exactMatch between different ChEBI forms is asserted.	`PathBank:SMP0002089`	PathBank:SMP0002089 Source assertion: The exact pathway SMP0002089 declares Reactions/6072 as a pathway component and links it to a step. Its substrates, products and catalyst correspond to this selected degradation reaction; all native chemical roles are retained. Source location `bp:Pathway[@rdf:about="http://identifiers.org/smpdb/SMP0002089"]/bp:pathwayComponent; bp:BiochemicalReaction[@rdf:ID="Reactions/6072"]; linked bp:Catalysis` MetaCyc:DEOXYRIBOSE-P-ALD-RXN Source assertion: Native reaction DEOXYRIBOSE-P-ALD-RXN has Rhea cross-reference 12824; its enzyme and chemical identities support the bridge from the PathBank reaction to this Rhea family. Source location `Reaction[@frameid="DEOXYRIBOSE-P-ALD-RXN"]/dblink[dblink-db="RHEA"], left, right, enzymatic-reaction` RHEA:12822 Source assertion: Rhea master 12821 explicitly links directed left-to-right member 12822 and bidirectional member 12824. Source location `rdf:Description[@rdf:about="http://rdf.rhea-db.org/12821"]/rh:directionalReaction; rh:bidirectionalReaction`
2'-deoxyadenosine + H2O + H(+) => 2'-deoxyinosine + NH4(+) `RHEA:28191`	provides_input_for Material transfer through the exact shared intermediate; diagram array ordering is not treated as a causal chain between parallel branches.	2'-deoxyinosine + phosphate => 2-deoxy-alpha-D-ribose 1-phosphate + hypoxanthine `RHEA:27751`	RHEA:28191 Source assertion: This directed reaction produces CHEBI:28997; the linked product compound supplies the chemically identical intermediate consumed by RHEA:27751. Source location `rdf:Description[@rdf:about="http://rdf.rhea-db.org/28191"]/rh:products; side/rh:contains1/rh:compound/rh:chebi` RHEA:27751 Source assertion: This directed reaction consumes CHEBI:28997, the exact species produced by RHEA:28191. Source location `rdf:Description[@rdf:about="http://rdf.rhea-db.org/27751"]/rh:substrates; side/rh:contains1/rh:compound/rh:chebi`
2'-deoxyadenosine + phosphate => 2-deoxy-alpha-D-ribose 1-phosphate + adenine `RHEA:27743`	provides_input_for Material transfer through the exact shared intermediate; diagram array ordering is not treated as a causal chain between parallel branches.	2-deoxy-alpha-D-ribose 1-phosphate => 2-deoxy-D-ribose 5-phosphate `RHEA:27659`	RHEA:27743 Source assertion: This directed reaction produces CHEBI:57259; the linked product compound supplies the chemically identical intermediate consumed by RHEA:27659. Source location `rdf:Description[@rdf:about="http://rdf.rhea-db.org/27743"]/rh:products; side/rh:contains1/rh:compound/rh:chebi` RHEA:27659 Source assertion: This directed reaction consumes CHEBI:57259, the exact species produced by RHEA:27743. Source location `rdf:Description[@rdf:about="http://rdf.rhea-db.org/27659"]/rh:substrates; side/rh:contains1/rh:compound/rh:chebi`
2'-deoxyinosine + phosphate => 2-deoxy-alpha-D-ribose 1-phosphate + hypoxanthine `RHEA:27751`	provides_input_for Material transfer through the exact shared intermediate; diagram array ordering is not treated as a causal chain between parallel branches.	2-deoxy-alpha-D-ribose 1-phosphate => 2-deoxy-D-ribose 5-phosphate `RHEA:27659`	RHEA:27751 Source assertion: This directed reaction produces CHEBI:57259; the linked product compound supplies the chemically identical intermediate consumed by RHEA:27659. Source location `rdf:Description[@rdf:about="http://rdf.rhea-db.org/27751"]/rh:products; side/rh:contains1/rh:compound/rh:chebi` RHEA:27659 Source assertion: This directed reaction consumes CHEBI:57259, the exact species produced by RHEA:27751. Source location `rdf:Description[@rdf:about="http://rdf.rhea-db.org/27659"]/rh:substrates; side/rh:contains1/rh:compound/rh:chebi`
2'-deoxyguanosine + phosphate => 2-deoxy-alpha-D-ribose 1-phosphate + guanine `RHEA:27739`	provides_input_for Material transfer through the exact shared intermediate; diagram array ordering is not treated as a causal chain between parallel branches.	2-deoxy-alpha-D-ribose 1-phosphate => 2-deoxy-D-ribose 5-phosphate `RHEA:27659`	RHEA:27739 Source assertion: This directed reaction produces CHEBI:57259; the linked product compound supplies the chemically identical intermediate consumed by RHEA:27659. Source location `rdf:Description[@rdf:about="http://rdf.rhea-db.org/27739"]/rh:products; side/rh:contains1/rh:compound/rh:chebi` RHEA:27659 Source assertion: This directed reaction consumes CHEBI:57259, the exact species produced by RHEA:27739. Source location `rdf:Description[@rdf:about="http://rdf.rhea-db.org/27659"]/rh:substrates; side/rh:contains1/rh:compound/rh:chebi`
2-deoxy-alpha-D-ribose 1-phosphate => 2-deoxy-D-ribose 5-phosphate `RHEA:27659`	provides_input_for Material transfer through the exact shared intermediate; diagram array ordering is not treated as a causal chain between parallel branches.	2-deoxy-D-ribose 5-phosphate => D-glyceraldehyde 3-phosphate + acetaldehyde `RHEA:12822`	RHEA:27659 Source assertion: This directed reaction produces CHEBI:62877; the linked product compound supplies the chemically identical intermediate consumed by RHEA:12822. Source location `rdf:Description[@rdf:about="http://rdf.rhea-db.org/27659"]/rh:products; side/rh:contains1/rh:compound/rh:chebi` RHEA:12822 Source assertion: This directed reaction consumes CHEBI:62877, the exact species produced by RHEA:27659. Source location `rdf:Description[@rdf:about="http://rdf.rhea-db.org/12822"]/rh:substrates; side/rh:contains1/rh:compound/rh:chebi`

References

PathBank:SMP0002089 PathBank native purine deoxyribonucleosides degradation (source version: Native BioPAX PW002077.owl from primary archive; SHA256 covers uncompressed member bytes)
UniProtKB:P22333 Reviewed UniProtKB P22333 (source version: UniProt release 2026_03; response release date 02-September-2026)
UniProtKB:P0ABP8 Reviewed UniProtKB P0ABP8 (source version: UniProt release 2026_03; response release date 02-September-2026)
UniProtKB:P0A6K6 Reviewed UniProtKB P0A6K6 (source version: UniProt release 2026_03; response release date 02-September-2026)
UniProtKB:P0A6L0 Reviewed UniProtKB P0A6L0 (source version: UniProt release 2026_03; response release date 02-September-2026)
RHEA:28191 Rhea exact directed reaction 28191 (source version: Rhea release 142; SHA256 covers complete native RDF gzip)
RHEA:27743 Rhea exact directed reaction 27743 (source version: Rhea release 142; SHA256 covers complete native RDF gzip)
RHEA:27751 Rhea exact directed reaction 27751 (source version: Rhea release 142; SHA256 covers complete native RDF gzip)
RHEA:27739 Rhea exact directed reaction 27739 (source version: Rhea release 142; SHA256 covers complete native RDF gzip)
RHEA:27659 Rhea exact directed reaction 27659 (source version: Rhea release 142; SHA256 covers complete native RDF gzip)
RHEA:12822 Rhea exact directed reaction 12822 (source version: Rhea release 142; SHA256 covers complete native RDF gzip)
MetaCyc:DEOD-CPLX MetaCyc native DEOD-CPLX (source version: MetaCyc 22.5 public SGD-hosted native XML)
MetaCyc:DEOD-MONOMER MetaCyc native DEOD-MONOMER (source version: MetaCyc 22.5 public SGD-hosted native XML)
MetaCyc:ADENODEAMIN-MONOMER MetaCyc native ADENODEAMIN-MONOMER (source version: MetaCyc 22.5 public SGD-hosted native XML)
MetaCyc:PPENTOMUT-MONOMER MetaCyc native PPENTOMUT-MONOMER (source version: MetaCyc 22.5 public SGD-hosted native XML)
MetaCyc:DEOXYRIBOSE-P-ALD-MONOMER MetaCyc native DEOXYRIBOSE-P-ALD-MONOMER (source version: MetaCyc 22.5 public SGD-hosted native XML)
MetaCyc:ADDALT-ENZRXN MetaCyc native ADDALT-ENZRXN (source version: MetaCyc 22.5 public SGD-hosted native XML)
MetaCyc:D-PPENTOMUT MetaCyc native D-PPENTOMUT (source version: MetaCyc 22.5 public SGD-hosted native XML)
PMID:235429 Purine nucleoside phosphorylase from Escherichia coli and Salmonella typhimurium. Purification and some properties. (source version: Primary indexed abstract inspected; no full-text claim)
PMID:1089430 Multiple forms of phosphodeoxyribomutase from Escherichia coli. Physical and chemical characterization. (source version: Primary indexed abstract inspected; no full-text claim)
PMID:6749498 The primary structure of Escherichia coli K12 2-deoxyribose 5-phosphate aldolase. Nucleotide sequence of the deoC gene and the amino acid sequence of the enzyme. (source version: Primary indexed abstract inspected; no full-text claim)
PMID:7675789 Crystallization and preliminary crystallographic data for class I deoxyribose-5-phosphate aldolase from Escherichia coli: an application of reverse screening. (source version: Primary indexed abstract inspected; no full-text claim)
PMID:30337572 Crystallographic snapshots of ligand binding to hexameric purine nucleoside phosphorylase and kinetic studies give insight into the mechanism of catalysis (source version: 2018 primary full text; PMC6193948 XML)
MetaCyc:ADDALT-RXN MetaCyc native ADDALT-RXN (source version: MetaCyc 22.5 public SGD-hosted native XML)
MetaCyc:DEOXYADENPHOSPHOR-RXN MetaCyc native DEOXYADENPHOSPHOR-RXN (source version: MetaCyc 22.5 public SGD-hosted native XML)
MetaCyc:DEOXYINOPHOSPHOR-RXN MetaCyc native DEOXYINOPHOSPHOR-RXN (source version: MetaCyc 22.5 public SGD-hosted native XML)
MetaCyc:DEOXYGUANPHOSPHOR-RXN MetaCyc native DEOXYGUANPHOSPHOR-RXN (source version: MetaCyc 22.5 public SGD-hosted native XML)
MetaCyc:D-PPENTOMUT-RXN MetaCyc native D-PPENTOMUT-RXN (source version: MetaCyc 22.5 public SGD-hosted native XML)
MetaCyc:DEOXYRIBOSE-P-ALD-RXN MetaCyc native DEOXYRIBOSE-P-ALD-RXN (source version: MetaCyc 22.5 public SGD-hosted native XML)

Curation history

2026-10-11T01:14:13Z Codex; add-pathway; Curated all six native SMP0002089 reactions after ignored-inclusive deduplication; verified exact Rhea sides, source-specific direction bridges, DeoD assembly and qualified enzyme/cofactor evidence. Preserved the boundary difference from the seven-reaction MetaCyc superpathway.
2026-10-11T01:17:25Z Codex
- CREATE — Add the complete six-reaction purine deoxyribonucleoside degradation route.
  Curated exact PathBank:SMP0002089 rather than the larger MetaCyc superpathway. Preserved the three DeoD branches, sugar degradation, enzyme assemblies, experimental and inferred cofactor limits, and MG1655 versus broader K-12 evidence. Source and duplicate-search receipts, full native/Rhea replay and deliberate exclusions are in research/pathway_additions/2026-10-10-next-cohort/purine-deoxy-*. Root rebuilt independent identifier authorities while preserving the baseline; final corpus gates and independent scientific reviews are retained separately.
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