Methylphosphonate Degradation I

PathBank:SMP0002077

The four-reaction PathBank route converts methylphosphonate through ribosyl phosphonate intermediates to methane and alpha-D-ribose 1,5-bisphosphate using characterized Escherichia coli K-12 proteins. PhnI acts with PhnG, PhnH and PhnL in the source-defined assembly; PhnM, radical-SAM PhnJ and PhnP perform the following reactions. The endpoint is a phosphate ester, not free phosphate or PRPP. The graph uses Rhea charge forms and its activation-associated PhnJ equation, including generic hydrogen donor/acceptor classes. SAM cleavage and reduced [4Fe-4S] are required for the reconstructed radical reaction; one SAM consumed per physiological substrate turnover is not established. The source-defined four-protein assembly is not the full PhnGHIJKL machinery characterized later. This is enzyme chemistry, not a claim of growth by every K-12 strain: phnE phase variation can prevent methylphosphonate uptake.

Pathway type
organophosphonate catabolism
Organism scope

Read the source YAML

Pathway network

32 nodes · 40 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.

Pathway network: Methylphosphonate Degradation I 32 nodes · 40 asserted directed edges. Every arrow links to its evidence table row; nodes link to their component details. Isolated declared components are retained. CHEBI:68684 — consumes → RHEA:34680; Evidence: RHEA:34680consumes CHEBI:30616 — consumes → RHEA:34680; Evidence: RHEA:34680consumes RHEA:34680 — produces → CHEBI:68823; Evidence: RHEA:34680produces RHEA:34680 — produces → CHEBI:16708; Evidence: RHEA:34680produces CHEBI:68823 — consumes → RHEA:34684; Evidence: RHEA:34684consumes CHEBI:15377 — consumes → RHEA:34684; Evidence: RHEA:34684consumes RHEA:34684 — produces → CHEBI:68686; Evidence: RHEA:34684produces RHEA:34684 — produces → CHEBI:33019; Evidence: RHEA:34684produces RHEA:34684 — produces → CHEBI:15378; Evidence: RHEA:34684produces CHEBI:68686 — consumes → RHEA:34708; Evidence: RHEA:34708consumes CHEBI:17499 — consumes → RHEA:34708; The Rhea AH2/A pair is generic. The reconstitution used dithionite; no physiological donor or carrier identity is asserted.; Evidence: RHEA:34708consumes CHEBI:59789 — consumes → RHEA:34708; Coefficient 1 belongs to the Rhea activation-associated reference equation. It does not establish a fixed SAM-to-methylphosphonate turnover ratio in the functioning complex.; Evidence: RHEA:34708consumes RHEA:34708 — produces → CHEBI:68687; Evidence: RHEA:34708produces RHEA:34708 — produces → CHEBI:16183; Evidence: RHEA:34708produces RHEA:34708 — produces → CHEBI:17319; Coefficient 1 belongs to the Rhea activation-associated reference equation. It does not establish a fixed SAM-to-methylphosphonate turnover ratio in the functioning complex.; Evidence: RHEA:34708produces RHEA:34708 — produces → CHEBI:57844; Coefficient 1 belongs to the Rhea activation-associated reference equation. It does not establish a fixed SAM-to-methylphosphonate turnover ratio in the functioning complex.; Evidence: RHEA:34708produces RHEA:34708 — produces → CHEBI:13193; The Rhea AH2/A pair is generic. The reconstitution used dithionite; no physiological donor or carrier identity is asserted.; Evidence: RHEA:34708produces RHEA:34708 — produces → CHEBI:15378; Evidence: RHEA:34708produces CHEBI:68687 — consumes → RHEA:34796; Evidence: RHEA:34796consumes CHEBI:15377 — consumes → RHEA:34796; Evidence: RHEA:34796consumes RHEA:34796 — produces → CHEBI:68688; Evidence: RHEA:34796produces RHEA:34796 — produces → CHEBI:15378; Evidence: RHEA:34796produces PathBank:SMP0002077/ProteinComplex/4049 — has_part → UniProtKB:P16686; This is PathBank’s PhnG/H/I/L assembly for the first reconstructed reaction. No subunit copy number or equivalence to the later full C-P lyase complex is asserted.; Evidence: PathBank:SMP0002077has part PathBank:SMP0002077/ProteinComplex/4049 — has_part → UniProtKB:P16679; This is PathBank’s PhnG/H/I/L assembly for the first reconstructed reaction. No subunit copy number or equivalence to the later full C-P lyase complex is asserted.; Evidence: PathBank:SMP0002077has part PathBank:SMP0002077/ProteinComplex/4049 — has_part → UniProtKB:P16685; This is PathBank’s PhnG/H/I/L assembly for the first reconstructed reaction. No subunit copy number or equivalence to the later full C-P lyase complex is asserted.; Evidence: PathBank:SMP0002077has part PathBank:SMP0002077/ProteinComplex/4049 — has_part → UniProtKB:P16687; This is PathBank’s PhnG/H/I/L assembly for the first reconstructed reaction. No subunit copy number or equivalence to the later full C-P lyase complex is asserted.; Evidence: PathBank:SMP0002077has part PathBank:SMP0002077/ProteinComplex/4049 — catalyzes → RHEA:34680; The four proteins support the complete first reaction. PhnI alone has a separate nucleosidase activity, which is not this pathway reaction; no individual accessory subunit is asserted to catalyze the overall transformation alone. The reconstructed reaction used MgATP. This assay condition does not establish a specific magnesium-binding site or obligatory cofactor relation for the assembly, and no magnesium independence is asserted.; Evidence: PathBank:SMP0002077, UniProtKB:P16687, RHEA:34680, PMID:22089136, PMID:22089136catalyzes UniProtKB:P16689 — catalyzes → RHEA:34684; The primary PhnM assay contained MgCl2 and ZnCl2. Their presence in that assay is retained as a condition, without claiming both are independently established obligatory cofactors.; Evidence: UniProtKB:P16689, RHEA:34684catalyzes UniProtKB:P16688 — catalyzes → RHEA:34708; The source reconstitution used anaerobic conditions, an iron-sulfur cluster, SAM, dithionite and cleavage of the GST tag. Later mechanistic work distinguishes radical activation from repeated substrate turnover.; Evidence: UniProtKB:P16688, RHEA:34708catalyzes UniProtKB:P16692 — catalyzes → RHEA:34796; The physiological cyclic ribose-phosphate substrate was established in PMID:21341651; the earlier PMID:19366688 characterized structure and metal-dependent phosphodiesterase activity with other substrates.; Evidence: UniProtKB:P16692, RHEA:34796, PMID:21341651catalyzes UniProtKB:P16688 — has_cofactor → CHEBI:49883; CHEBI:49883 identifies the cluster class rather than its oxidation state. The catalytically active reduced state and anaerobic reconstitution conditions are explicit here; Zn observed at this site in aerobic structures is not substituted for the active Fe-S cluster.; Evidence: UniProtKB:P16688, PMID:22089136has cofactor UniProtKB:P16692 — has_cofactor → CHEBI:29035; The source metal-preference experiment used bis(p-nitrophenyl)phosphate. Ni2+ also supported activity; this edge does not assert exclusive Mn2+ usage or transfer that substrate-specific comparison to every physiological condition.; Evidence: UniProtKB:P16692, PMID:19366688has cofactor UniProtKB:P16692 — has_cofactor → CHEBI:29105; The zinc site is remote from the catalytic metal center and was assigned a structural role. Zinc gave poor activity in the catalytic metal-substitution assay; this is not a claim that Zn2+ substitutes equivalently for catalytic manganese.; Evidence: UniProtKB:P16692, PMID:19366688has cofactor RHEA:34680 — part_of → PathBank:SMP0002077; Manual reaction correspondence combines matching native transformation/EC, protein catalytic annotation, and exact Rhea sides. PathBank supplies no native Rhea cross-reference.; Evidence: PathBank:SMP0002077, UniProtKB:P16687, RHEA:34680part of RHEA:34684 — part_of → PathBank:SMP0002077; Manual reaction correspondence combines matching native transformation/EC, protein catalytic annotation, and exact Rhea sides. PathBank supplies no native Rhea cross-reference.; Evidence: PathBank:SMP0002077, UniProtKB:P16689, RHEA:34684part of RHEA:34708 — part_of → PathBank:SMP0002077; Manual reaction correspondence combines matching native transformation/EC, protein catalytic annotation, and exact Rhea sides. PathBank supplies no native Rhea cross-reference. PhnJ’s Rhea equation additionally includes the radical-activation reagents and products absent from the native minimal equation.; Evidence: PathBank:SMP0002077, UniProtKB:P16688, RHEA:34708part of RHEA:34796 — part_of → PathBank:SMP0002077; Manual reaction correspondence combines matching native transformation/EC, protein catalytic annotation, and exact Rhea sides. PathBank supplies no native Rhea cross-reference.; Evidence: PathBank:SMP0002077, UniProtKB:P16692, RHEA:34796part of RHEA:34680 — provides_input_for → RHEA:34684; Material transfer through the identified ribose intermediate establishes the reaction sequence. Native pathwayOrder contains membership links, not nextStep ordering assertions.; Evidence: RHEA:34680, RHEA:34684provides input for RHEA:34684 — provides_input_for → RHEA:34708; Material transfer through the identified ribose intermediate establishes the reaction sequence. Native pathwayOrder contains membership links, not nextStep ordering assertions.; Evidence: RHEA:34684, RHEA:34708provides input for RHEA:34708 — provides_input_for → RHEA:34796; Material transfer through the identified ribose intermediate establishes the reaction sequence. Native pathwayOrder contains membership links, not nextStep ordering assertions.; Evidence: RHEA:34708, RHEA:34796provides input for methylphosphonate(1-); CHEBI:68684; Declared type: small_molecule small molecule methylphosphonate(1-) ATP(4-); CHEBI:30616; Declared type: small_molecule small molecule ATP(4-) alpha-D-ribose 1-methylphosphonate 5-triphosphate(5-); CHEBI:68823; Declared type: small_molecule small molecule alpha-D-ribose 1-methylphosphonate 5-triphosphate(5-) adenine; CHEBI:16708; Declared type: small_molecule small molecule adenine water; CHEBI:15377; Declared type: small_molecule small molecule water alpha-D-ribose 1-methylphosphonate 5-phosphate(3-); CHEBI:68686; Declared type: small_molecule small molecule alpha-D-ribose 1-methylphosphonate 5-phosphate(3-) diphosphate(3-); CHEBI:33019; Declared type: small_molecule small molecule diphosphate(3-) hydron; CHEBI:15378; Declared type: small_molecule small molecule hydron hydrogen donor; CHEBI:17499; Declared type: cofactor cofactor hydrogen donor S-adenosyl-L-methionine zwitterion; CHEBI:59789; Declared type: small_molecule small molecule S-adenosyl-L-methionine zwitterion 5-phosphonato-alpha-D-ribose cyclic-1,2-phosphate(3-); CHEBI:68687; Declared type: small_molecule small molecule 5-phosphonato-alpha-D-ribose cyclic-1,2-phosphate(3-) methane; CHEBI:16183; Declared type: small_molecule small molecule methane 5'-deoxyadenosine; CHEBI:17319; Declared type: small_molecule small molecule 5'-deoxyadenosine L-methionine zwitterion; CHEBI:57844; Declared type: small_molecule small molecule L-methionine zwitterion hydrogen acceptor; CHEBI:13193; Declared type: cofactor cofactor hydrogen acceptor alpha-D-ribose 1,5-bisphosphate(4-); CHEBI:68688; Declared type: small_molecule small molecule alpha-D-ribose 1,5-bisphosphate(4-) tetra-mu3-sulfido-tetrairon; CHEBI:49883; Declared type: cofactor cofactor tetra-mu3-sulfido-tetrairon manganese(2+); CHEBI:29035; Declared type: cofactor cofactor manganese(2+) zinc(2+); CHEBI:29105; Declared type: cofactor cofactor zinc(2+) Alpha-D-ribose 1-methylphosphonate 5-triphosphate synthase subunit PhnG; UniProtKB:P16685; Declared type: protein protein Alpha-D-ribose 1-methylphosphonate 5-triphosphate synthase subunit PhnG Alpha-D-ribose 1-methylphosphonate 5-triphosphate synthase subunit PhnH; UniProtKB:P16686; Declared type: protein protein Alpha-D-ribose 1-methylphosphonate 5-triphosphate synthase subunit PhnH Alpha-D-ribose 1-methylphosphonate 5-triphosphate synthase subunit PhnI; UniProtKB:P16687; Declared type: protein protein Alpha-D-ribose 1-methylphosphonate 5-triphosphate synthase subunit PhnI Alpha-D-ribose 1-methylphosphonate 5-triphosphate synthase subunit PhnL; UniProtKB:P16679; Declared type: protein protein Alpha-D-ribose 1-methylphosphonate 5-triphosphate synthase subunit PhnL Alpha-D-ribose 1-methylphosphonate 5-triphosphate diphosphatase; UniProtKB:P16689; Declared type: protein protein Alpha-D-ribose 1-methylphosphonate 5-triphosphate diphosphatase Alpha-D-ribose 1-methylphosphonate 5-phosphate C-P lyase; UniProtKB:P16688; Declared type: protein protein Alpha-D-ribose 1-methylphosphonate 5-phosphate C-P lyase Phosphoribosyl 1,2-cyclic phosphate phosphodiesterase; UniProtKB:P16692; Declared type: protein protein Phosphoribosyl 1,2-cyclic phosphate phosphodiesterase methylphosphonate degradation complex; PathBank:SMP0002077/ProteinComplex/4049; Declared type: complex complex methylphosphonate degradation complex PhnG/H/I/L-dependent ribosyl triphosphate transfer to methylphosphonate; RHEA:34680; Declared type: molecular_activity; Source reaction direction: left_to_right molecular activity PhnG/H/I/L-dependent ribosyl triphosphate transfer to methylphosphonate PhnM hydrolysis of ribosyl methylphosphonate triphosphate; RHEA:34684; Declared type: molecular_activity; Source reaction direction: left_to_right molecular activity PhnM hydrolysis of ribosyl methylphosphonate triphosphate PhnJ C-P cleavage with radical-SAM activation chemistry; RHEA:34708; Declared type: molecular_activity; Source reaction direction: left_to_right molecular activity PhnJ C-P cleavage with radical-SAM activation chemistry PhnP hydrolysis of ribosyl 1,2-cyclic phosphate; RHEA:34796; Declared type: molecular_activity; Source reaction direction: left_to_right molecular activity PhnP hydrolysis of ribosyl 1,2-cyclic phosphate Methylphosphonate Degradation I; PathBank:SMP0002077; Declared type: pathway pathway Methylphosphonate Degradation I

Components and activities

Declared biological components and source reaction directions
NodeKind or roleSource direction
Escherichia coli K-12
NCBITaxon:83333		taxon
methylphosphonate(1-)
CHEBI:68684		small molecule
ATP(4-)
CHEBI:30616		small molecule
alpha-D-ribose 1-methylphosphonate 5-triphosphate(5-)
CHEBI:68823		small molecule
adenine
CHEBI:16708		small molecule
water
CHEBI:15377		small molecule
alpha-D-ribose 1-methylphosphonate 5-phosphate(3-)
CHEBI:68686		small molecule
diphosphate(3-)
CHEBI:33019		small molecule
hydron
CHEBI:15378		small molecule
hydrogen donor
CHEBI:17499		cofactor
S-adenosyl-L-methionine zwitterion
CHEBI:59789		small molecule
5-phosphonato-alpha-D-ribose cyclic-1,2-phosphate(3-)
CHEBI:68687		small molecule
methane
CHEBI:16183		small molecule
5'-deoxyadenosine
CHEBI:17319		small molecule
L-methionine zwitterion
CHEBI:57844		small molecule
hydrogen acceptor
CHEBI:13193		cofactor
alpha-D-ribose 1,5-bisphosphate(4-)
CHEBI:68688		small molecule
tetra-mu3-sulfido-tetrairon
CHEBI:49883		cofactor
manganese(2+)
CHEBI:29035		cofactor
zinc(2+)
CHEBI:29105		cofactor
Alpha-D-ribose 1-methylphosphonate 5-triphosphate synthase subunit PhnG
UniProtKB:P16685		protein
Alpha-D-ribose 1-methylphosphonate 5-triphosphate synthase subunit PhnH
UniProtKB:P16686		protein
Alpha-D-ribose 1-methylphosphonate 5-triphosphate synthase subunit PhnI
UniProtKB:P16687		protein
Alpha-D-ribose 1-methylphosphonate 5-triphosphate synthase subunit PhnL
UniProtKB:P16679		protein
Alpha-D-ribose 1-methylphosphonate 5-triphosphate diphosphatase
UniProtKB:P16689		protein
Alpha-D-ribose 1-methylphosphonate 5-phosphate C-P lyase
UniProtKB:P16688		protein
Phosphoribosyl 1,2-cyclic phosphate phosphodiesterase
UniProtKB:P16692		protein
methylphosphonate degradation complex
PathBank:SMP0002077/ProteinComplex/4049		complex
PhnG/H/I/L-dependent ribosyl triphosphate transfer to methylphosphonate
RHEA:34680		molecular activityleft to right
PhnM hydrolysis of ribosyl methylphosphonate triphosphate
RHEA:34684		molecular activityleft to right
PhnJ C-P cleavage with radical-SAM activation chemistry
RHEA:34708		molecular activityleft to right
PhnP hydrolysis of ribosyl 1,2-cyclic phosphate
RHEA:34796		molecular activityleft to right

Mechanistic edges

Mechanistic edges and their cited evidence
SubjectPredicate and descriptionObjectEvidence
methylphosphonate(1-)
CHEBI:68684		consumes

PhnG/H/I/L-dependent ribosyl triphosphate transfer to methylphosphonate
RHEA:34680
  • RHEA:34680

    Source assertion: Rhea places CHEBI:68684 on the substrates side of directed RHEA:34680, with coefficient 1.

    Source locationrdf:Description[@rdf:about="http://rdf.rhea-db.org/34680"]/rh:substrates; http://rdf.rhea-db.org/34679_L/rh:contains1 -> http://rdf.rhea-db.org/Participant_34679_compound_7585/rh:compound -> http://rdf.rhea-db.org/Compound_7585/rh:chebi
ATP(4-)
CHEBI:30616		consumes

PhnG/H/I/L-dependent ribosyl triphosphate transfer to methylphosphonate
RHEA:34680
  • RHEA:34680

    Source assertion: Rhea places CHEBI:30616 on the substrates side of directed RHEA:34680, with coefficient 1.

    Source locationrdf:Description[@rdf:about="http://rdf.rhea-db.org/34680"]/rh:substrates; http://rdf.rhea-db.org/34679_L/rh:contains1 -> http://rdf.rhea-db.org/Participant_34679_compound_6372/rh:compound -> http://rdf.rhea-db.org/Compound_6372/rh:chebi
PhnG/H/I/L-dependent ribosyl triphosphate transfer to methylphosphonate
RHEA:34680		produces

alpha-D-ribose 1-methylphosphonate 5-triphosphate(5-)
CHEBI:68823
  • RHEA:34680

    Source assertion: Rhea places CHEBI:68823 on the products side of directed RHEA:34680, with coefficient 1.

    Source locationrdf:Description[@rdf:about="http://rdf.rhea-db.org/34680"]/rh:products; http://rdf.rhea-db.org/34679_R/rh:contains1 -> http://rdf.rhea-db.org/Participant_34679_compound_9342/rh:compound -> http://rdf.rhea-db.org/Compound_9342/rh:chebi
PhnG/H/I/L-dependent ribosyl triphosphate transfer to methylphosphonate
RHEA:34680		produces

adenine
CHEBI:16708
  • RHEA:34680

    Source assertion: Rhea places CHEBI:16708 on the products side of directed RHEA:34680, with coefficient 1.

    Source locationrdf:Description[@rdf:about="http://rdf.rhea-db.org/34680"]/rh:products; http://rdf.rhea-db.org/34679_R/rh:contains1 -> http://rdf.rhea-db.org/Participant_34679_compound_4174/rh:compound -> http://rdf.rhea-db.org/Compound_4174/rh:chebi
alpha-D-ribose 1-methylphosphonate 5-triphosphate(5-)
CHEBI:68823		consumes

PhnM hydrolysis of ribosyl methylphosphonate triphosphate
RHEA:34684
  • RHEA:34684

    Source assertion: Rhea places CHEBI:68823 on the substrates side of directed RHEA:34684, with coefficient 1.

    Source locationrdf:Description[@rdf:about="http://rdf.rhea-db.org/34684"]/rh:substrates; http://rdf.rhea-db.org/34683_L/rh:contains1 -> http://rdf.rhea-db.org/Participant_34683_compound_9342/rh:compound -> http://rdf.rhea-db.org/Compound_9342/rh:chebi
water
CHEBI:15377		consumes

PhnM hydrolysis of ribosyl methylphosphonate triphosphate
RHEA:34684
  • RHEA:34684

    Source assertion: Rhea places CHEBI:15377 on the substrates side of directed RHEA:34684, with coefficient 1.

    Source locationrdf:Description[@rdf:about="http://rdf.rhea-db.org/34684"]/rh:substrates; http://rdf.rhea-db.org/34683_L/rh:contains1 -> http://rdf.rhea-db.org/Participant_34683_compound_1283/rh:compound -> http://rdf.rhea-db.org/Compound_1283/rh:chebi
PhnM hydrolysis of ribosyl methylphosphonate triphosphate
RHEA:34684		produces

alpha-D-ribose 1-methylphosphonate 5-phosphate(3-)
CHEBI:68686
  • RHEA:34684

    Source assertion: Rhea places CHEBI:68686 on the products side of directed RHEA:34684, with coefficient 1.

    Source locationrdf:Description[@rdf:about="http://rdf.rhea-db.org/34684"]/rh:products; http://rdf.rhea-db.org/34683_R/rh:contains1 -> http://rdf.rhea-db.org/Participant_34683_compound_7596/rh:compound -> http://rdf.rhea-db.org/Compound_7596/rh:chebi
PhnM hydrolysis of ribosyl methylphosphonate triphosphate
RHEA:34684		produces

diphosphate(3-)
CHEBI:33019
  • RHEA:34684

    Source assertion: Rhea places CHEBI:33019 on the products side of directed RHEA:34684, with coefficient 1.

    Source locationrdf:Description[@rdf:about="http://rdf.rhea-db.org/34684"]/rh:products; http://rdf.rhea-db.org/34683_R/rh:contains1 -> http://rdf.rhea-db.org/Participant_34683_compound_2106/rh:compound -> http://rdf.rhea-db.org/Compound_2106/rh:chebi
PhnM hydrolysis of ribosyl methylphosphonate triphosphate
RHEA:34684		produces

hydron
CHEBI:15378
  • RHEA:34684

    Source assertion: Rhea places CHEBI:15378 on the products side of directed RHEA:34684, with coefficient 1.

    Source locationrdf:Description[@rdf:about="http://rdf.rhea-db.org/34684"]/rh:products; http://rdf.rhea-db.org/34683_R/rh:contains1 -> http://rdf.rhea-db.org/Participant_34683_compound_3249/rh:compound -> http://rdf.rhea-db.org/Compound_3249/rh:chebi
alpha-D-ribose 1-methylphosphonate 5-phosphate(3-)
CHEBI:68686		consumes

PhnJ C-P cleavage with radical-SAM activation chemistry
RHEA:34708
  • RHEA:34708

    Source assertion: Rhea places CHEBI:68686 on the substrates side of directed RHEA:34708, with coefficient 1.

    Source locationrdf:Description[@rdf:about="http://rdf.rhea-db.org/34708"]/rh:substrates; http://rdf.rhea-db.org/34707_L/rh:contains1 -> http://rdf.rhea-db.org/Participant_34707_compound_7596/rh:compound -> http://rdf.rhea-db.org/Compound_7596/rh:chebi
hydrogen donor
CHEBI:17499		consumes

The Rhea AH2/A pair is generic. The reconstitution used dithionite; no physiological donor or carrier identity is asserted.

PhnJ C-P cleavage with radical-SAM activation chemistry
RHEA:34708
  • RHEA:34708

    Source assertion: Rhea places CHEBI:17499 on the substrates side of directed RHEA:34708, with coefficient 1.

    Source locationrdf:Description[@rdf:about="http://rdf.rhea-db.org/34708"]/rh:substrates; http://rdf.rhea-db.org/34707_L/rh:contains1 -> http://rdf.rhea-db.org/Participant_34707_compound_1304/rh:compound -> http://rdf.rhea-db.org/Compound_1304/rh:chebi
S-adenosyl-L-methionine zwitterion
CHEBI:59789		consumes

Coefficient 1 belongs to the Rhea activation-associated reference equation. It does not establish a fixed SAM-to-methylphosphonate turnover ratio in the functioning complex.

PhnJ C-P cleavage with radical-SAM activation chemistry
RHEA:34708
  • RHEA:34708

    Source assertion: Rhea places CHEBI:59789 on the substrates side of directed RHEA:34708, with coefficient 1.

    Source locationrdf:Description[@rdf:about="http://rdf.rhea-db.org/34708"]/rh:substrates; http://rdf.rhea-db.org/34707_L/rh:contains1 -> http://rdf.rhea-db.org/Participant_34707_compound_6127/rh:compound -> http://rdf.rhea-db.org/Compound_6127/rh:chebi
PhnJ C-P cleavage with radical-SAM activation chemistry
RHEA:34708		produces

5-phosphonato-alpha-D-ribose cyclic-1,2-phosphate(3-)
CHEBI:68687
  • RHEA:34708

    Source assertion: Rhea places CHEBI:68687 on the products side of directed RHEA:34708, with coefficient 1.

    Source locationrdf:Description[@rdf:about="http://rdf.rhea-db.org/34708"]/rh:products; http://rdf.rhea-db.org/34707_R/rh:contains1 -> http://rdf.rhea-db.org/Participant_34707_compound_7601/rh:compound -> http://rdf.rhea-db.org/Compound_7601/rh:chebi
PhnJ C-P cleavage with radical-SAM activation chemistry
RHEA:34708		produces

methane
CHEBI:16183
  • RHEA:34708

    Source assertion: Rhea places CHEBI:16183 on the products side of directed RHEA:34708, with coefficient 1.

    Source locationrdf:Description[@rdf:about="http://rdf.rhea-db.org/34708"]/rh:products; http://rdf.rhea-db.org/34707_R/rh:contains1 -> http://rdf.rhea-db.org/Participant_34707_compound_3576/rh:compound -> http://rdf.rhea-db.org/Compound_3576/rh:chebi
PhnJ C-P cleavage with radical-SAM activation chemistry
RHEA:34708		produces

Coefficient 1 belongs to the Rhea activation-associated reference equation. It does not establish a fixed SAM-to-methylphosphonate turnover ratio in the functioning complex.

5'-deoxyadenosine
CHEBI:17319
  • RHEA:34708

    Source assertion: Rhea places CHEBI:17319 on the products side of directed RHEA:34708, with coefficient 1.

    Source locationrdf:Description[@rdf:about="http://rdf.rhea-db.org/34708"]/rh:products; http://rdf.rhea-db.org/34707_R/rh:contains1 -> http://rdf.rhea-db.org/Participant_34707_compound_2028/rh:compound -> http://rdf.rhea-db.org/Compound_2028/rh:chebi
PhnJ C-P cleavage with radical-SAM activation chemistry
RHEA:34708		produces

Coefficient 1 belongs to the Rhea activation-associated reference equation. It does not establish a fixed SAM-to-methylphosphonate turnover ratio in the functioning complex.

L-methionine zwitterion
CHEBI:57844
  • RHEA:34708

    Source assertion: Rhea places CHEBI:57844 on the products side of directed RHEA:34708, with coefficient 1.

    Source locationrdf:Description[@rdf:about="http://rdf.rhea-db.org/34708"]/rh:products; http://rdf.rhea-db.org/34707_R/rh:contains1 -> http://rdf.rhea-db.org/Participant_34707_compound_2530/rh:compound -> http://rdf.rhea-db.org/Compound_2530/rh:chebi
PhnJ C-P cleavage with radical-SAM activation chemistry
RHEA:34708		produces

The Rhea AH2/A pair is generic. The reconstitution used dithionite; no physiological donor or carrier identity is asserted.

hydrogen acceptor
CHEBI:13193
  • RHEA:34708

    Source assertion: Rhea places CHEBI:13193 on the products side of directed RHEA:34708, with coefficient 1.

    Source locationrdf:Description[@rdf:about="http://rdf.rhea-db.org/34708"]/rh:products; http://rdf.rhea-db.org/34707_R/rh:contains1 -> http://rdf.rhea-db.org/Participant_34707_compound_3512/rh:compound -> http://rdf.rhea-db.org/Compound_3512/rh:chebi
PhnJ C-P cleavage with radical-SAM activation chemistry
RHEA:34708		produces

hydron
CHEBI:15378
  • RHEA:34708

    Source assertion: Rhea places CHEBI:15378 on the products side of directed RHEA:34708, with coefficient 1.

    Source locationrdf:Description[@rdf:about="http://rdf.rhea-db.org/34708"]/rh:products; http://rdf.rhea-db.org/34707_R/rh:contains1 -> http://rdf.rhea-db.org/Participant_34707_compound_3249/rh:compound -> http://rdf.rhea-db.org/Compound_3249/rh:chebi
5-phosphonato-alpha-D-ribose cyclic-1,2-phosphate(3-)
CHEBI:68687		consumes

PhnP hydrolysis of ribosyl 1,2-cyclic phosphate
RHEA:34796
  • RHEA:34796

    Source assertion: Rhea places CHEBI:68687 on the substrates side of directed RHEA:34796, with coefficient 1.

    Source locationrdf:Description[@rdf:about="http://rdf.rhea-db.org/34796"]/rh:substrates; http://rdf.rhea-db.org/34795_L/rh:contains1 -> http://rdf.rhea-db.org/Participant_34795_compound_7601/rh:compound -> http://rdf.rhea-db.org/Compound_7601/rh:chebi
water
CHEBI:15377		consumes

PhnP hydrolysis of ribosyl 1,2-cyclic phosphate
RHEA:34796
  • RHEA:34796

    Source assertion: Rhea places CHEBI:15377 on the substrates side of directed RHEA:34796, with coefficient 1.

    Source locationrdf:Description[@rdf:about="http://rdf.rhea-db.org/34796"]/rh:substrates; http://rdf.rhea-db.org/34795_L/rh:contains1 -> http://rdf.rhea-db.org/Participant_34795_compound_1283/rh:compound -> http://rdf.rhea-db.org/Compound_1283/rh:chebi
PhnP hydrolysis of ribosyl 1,2-cyclic phosphate
RHEA:34796		produces

alpha-D-ribose 1,5-bisphosphate(4-)
CHEBI:68688
  • RHEA:34796

    Source assertion: Rhea places CHEBI:68688 on the products side of directed RHEA:34796, with coefficient 1.

    Source locationrdf:Description[@rdf:about="http://rdf.rhea-db.org/34796"]/rh:products; http://rdf.rhea-db.org/34795_R/rh:contains1 -> http://rdf.rhea-db.org/Participant_34795_compound_7560/rh:compound -> http://rdf.rhea-db.org/Compound_7560/rh:chebi
PhnP hydrolysis of ribosyl 1,2-cyclic phosphate
RHEA:34796		produces

hydron
CHEBI:15378
  • RHEA:34796

    Source assertion: Rhea places CHEBI:15378 on the products side of directed RHEA:34796, with coefficient 1.

    Source locationrdf:Description[@rdf:about="http://rdf.rhea-db.org/34796"]/rh:products; http://rdf.rhea-db.org/34795_R/rh:contains1 -> http://rdf.rhea-db.org/Participant_34795_compound_3249/rh:compound -> http://rdf.rhea-db.org/Compound_3249/rh:chebi
methylphosphonate degradation complex
PathBank:SMP0002077/ProteinComplex/4049		has_part

This is PathBank’s PhnG/H/I/L assembly for the first reconstructed reaction. No subunit copy number or equivalence to the later full C-P lyase complex is asserted.

Alpha-D-ribose 1-methylphosphonate 5-triphosphate synthase subunit PhnH
UniProtKB:P16686
  • PathBank:SMP0002077

    Source assertion: Native ProteinComplex/4049 lists Protein/10370 as a component; its ProteinReference resolves through a UniProt xref to P16686.

    Source locationbp:Complex[@rdf:ID="ProteinComplex/4049"]/bp:component[@rdf:resource="#Protein/10370"]; ProteinReference/10370/bp:xref
methylphosphonate degradation complex
PathBank:SMP0002077/ProteinComplex/4049		has_part

This is PathBank’s PhnG/H/I/L assembly for the first reconstructed reaction. No subunit copy number or equivalence to the later full C-P lyase complex is asserted.

Alpha-D-ribose 1-methylphosphonate 5-triphosphate synthase subunit PhnL
UniProtKB:P16679
  • PathBank:SMP0002077

    Source assertion: Native ProteinComplex/4049 lists Protein/10369 as a component; its ProteinReference resolves through a UniProt xref to P16679.

    Source locationbp:Complex[@rdf:ID="ProteinComplex/4049"]/bp:component[@rdf:resource="#Protein/10369"]; ProteinReference/10369/bp:xref
methylphosphonate degradation complex
PathBank:SMP0002077/ProteinComplex/4049		has_part

This is PathBank’s PhnG/H/I/L assembly for the first reconstructed reaction. No subunit copy number or equivalence to the later full C-P lyase complex is asserted.

Alpha-D-ribose 1-methylphosphonate 5-triphosphate synthase subunit PhnG
UniProtKB:P16685
  • PathBank:SMP0002077

    Source assertion: Native ProteinComplex/4049 lists Protein/10371 as a component; its ProteinReference resolves through a UniProt xref to P16685.

    Source locationbp:Complex[@rdf:ID="ProteinComplex/4049"]/bp:component[@rdf:resource="#Protein/10371"]; ProteinReference/10371/bp:xref
methylphosphonate degradation complex
PathBank:SMP0002077/ProteinComplex/4049		has_part

This is PathBank’s PhnG/H/I/L assembly for the first reconstructed reaction. No subunit copy number or equivalence to the later full C-P lyase complex is asserted.

Alpha-D-ribose 1-methylphosphonate 5-triphosphate synthase subunit PhnI
UniProtKB:P16687
  • PathBank:SMP0002077

    Source assertion: Native ProteinComplex/4049 lists Protein/10372 as a component; its ProteinReference resolves through a UniProt xref to P16687.

    Source locationbp:Complex[@rdf:ID="ProteinComplex/4049"]/bp:component[@rdf:resource="#Protein/10372"]; ProteinReference/10372/bp:xref
methylphosphonate degradation complex
PathBank:SMP0002077/ProteinComplex/4049		catalyzes

The four proteins support the complete first reaction. PhnI alone has a separate nucleosidase activity, which is not this pathway reaction; no individual accessory subunit is asserted to catalyze the overall transformation alone. The reconstructed reaction used MgATP. This assay condition does not establish a specific magnesium-binding site or obligatory cofactor relation for the assembly, and no magnesium independence is asserted.

PhnG/H/I/L-dependent ribosyl triphosphate transfer to methylphosphonate
RHEA:34680
  • PathBank:SMP0002077

    Source assertion: Catalysis ReactionCatalysis/6000 identifies ProteinComplex/4049 as controller of Reactions/6035, the ATP+methylphosphonate reaction with EC 2.7.8.37.

    Source locationbp:Catalysis[@rdf:ID="ReactionCatalysis/6000"]/bp:controller,bp:controlled; bp:BiochemicalReaction[@rdf:ID="Reactions/6035"]/bp:eCNumber
  • UniProtKB:P16687

    Source assertion: PhnI FUNCTION requires PhnG, PhnH and PhnL for ribose-triphosphate transfer; CATALYTIC ACTIVITY assigns that transformation to RHEA:34679 with ECO:0000269 (PMID:22089136).

    Source locationcomments[commentType="FUNCTION"]; comments[commentType="CATALYTIC ACTIVITY"].reaction[reactionCrossReferences.id="RHEA:34679"]
  • RHEA:34680

    Source assertion: Rhea master 34679 specifies 34680 as its left-to-right directional reaction.

    Source locationrdf:Description[@rdf:about="http://rdf.rhea-db.org/34679"]/rh:directionalReaction; rdf:Description[@rdf:about="http://rdf.rhea-db.org/34680"]/rh:substrates,rh:products
  • PMID:22089136
    PhnI, in the presence of PhnG, PhnH, and PhnL
    Source locationPMC3245791 BioC passage offset 4703
  • PMID:22089136
    methylphosphonate reacts with MgATP
    Source locationAbstract
Alpha-D-ribose 1-methylphosphonate 5-triphosphate diphosphatase
UniProtKB:P16689		catalyzes

The primary PhnM assay contained MgCl2 and ZnCl2. Their presence in that assay is retained as a condition, without claiming both are independently established obligatory cofactors.

PhnM hydrolysis of ribosyl methylphosphonate triphosphate
RHEA:34684
  • UniProtKB:P16689

    Source assertion: UniProt CATALYTIC ACTIVITY assigns this protein to RHEA:34683 with ECO:0000269; the selected catabolic direction is RHEA:34684.

    Source locationcomments[commentType="CATALYTIC ACTIVITY"].reaction[reactionCrossReferences.id="RHEA:34683"]
  • RHEA:34684

    Source assertion: Rhea master 34683 identifies 34684 as its left-to-right directional reaction.

    Source locationrdf:Description[@rdf:about="http://rdf.rhea-db.org/34683"]/rh:directionalReaction; rdf:Description[@rdf:about="http://rdf.rhea-db.org/34684"]/rh:substrates,rh:products
Alpha-D-ribose 1-methylphosphonate 5-phosphate C-P lyase
UniProtKB:P16688		catalyzes

The source reconstitution used anaerobic conditions, an iron-sulfur cluster, SAM, dithionite and cleavage of the GST tag. Later mechanistic work distinguishes radical activation from repeated substrate turnover.

PhnJ C-P cleavage with radical-SAM activation chemistry
RHEA:34708
  • UniProtKB:P16688

    Source assertion: UniProt CATALYTIC ACTIVITY assigns this protein to RHEA:34707 with ECO:0000269; the selected catabolic direction is RHEA:34708.

    Source locationcomments[commentType="CATALYTIC ACTIVITY"].reaction[reactionCrossReferences.id="RHEA:34707"]
  • RHEA:34708

    Source assertion: Rhea master 34707 identifies 34708 as its left-to-right directional reaction.

    Source locationrdf:Description[@rdf:about="http://rdf.rhea-db.org/34707"]/rh:directionalReaction; rdf:Description[@rdf:about="http://rdf.rhea-db.org/34708"]/rh:substrates,rh:products
Phosphoribosyl 1,2-cyclic phosphate phosphodiesterase
UniProtKB:P16692		catalyzes

The physiological cyclic ribose-phosphate substrate was established in PMID:21341651; the earlier PMID:19366688 characterized structure and metal-dependent phosphodiesterase activity with other substrates.

PhnP hydrolysis of ribosyl 1,2-cyclic phosphate
RHEA:34796
  • UniProtKB:P16692

    Source assertion: UniProt CATALYTIC ACTIVITY assigns this protein to RHEA:34795 with ECO:0000269; the selected catabolic direction is RHEA:34796.

    Source locationcomments[commentType="CATALYTIC ACTIVITY"].reaction[reactionCrossReferences.id="RHEA:34795"]
  • RHEA:34796

    Source assertion: Rhea master 34795 identifies 34796 as its left-to-right directional reaction.

    Source locationrdf:Description[@rdf:about="http://rdf.rhea-db.org/34795"]/rh:directionalReaction; rdf:Description[@rdf:about="http://rdf.rhea-db.org/34796"]/rh:substrates,rh:products
  • PMID:21341651
    regiospecifically converted by PhnP to α-D-ribosyl 1,5-bisphosphate
    Source locationAbstract, synthesized 5-phospho-alpha-D-ribosyl 1,2-cyclic phosphate experiment
Alpha-D-ribose 1-methylphosphonate 5-phosphate C-P lyase
UniProtKB:P16688		has_cofactor

CHEBI:49883 identifies the cluster class rather than its oxidation state. The catalytically active reduced state and anaerobic reconstitution conditions are explicit here; Zn observed at this site in aerobic structures is not substituted for the active Fe-S cluster.

tetra-mu3-sulfido-tetrairon
CHEBI:49883
  • UniProtKB:P16688

    Source assertion: UniProt lists one [4Fe-4S] cluster per PhnJ subunit with ECO:0000269 from PMID:22089136.

    Source locationcomments[commentType="COFACTOR"].cofactors[cofactorCrossReference.id="CHEBI:49883"]; note.texts
  • PMID:22089136
    requires a reduced [4Fe-4S]-cluster and SAM
    Source locationPMC3245791 BioC passage offset 9520
Phosphoribosyl 1,2-cyclic phosphate phosphodiesterase
UniProtKB:P16692		has_cofactor

The source metal-preference experiment used bis(p-nitrophenyl)phosphate. Ni2+ also supported activity; this edge does not assert exclusive Mn2+ usage or transfer that substrate-specific comparison to every physiological condition.

manganese(2+)
CHEBI:29035
  • UniProtKB:P16692

    Source assertion: UniProt reports binding of two manganese ions per PhnP subunit with ECO:0000269 from PMID:19366688.

    Source locationcomments[commentType="COFACTOR"].cofactors[cofactorCrossReference.id="CHEBI:29035"]; note.texts
  • PMID:19366688
    distinct preference for Mn(2+) and Ni(2+) for catalysis
    Source locationAbstract, metal dependence with bis(p-nitrophenyl)phosphate
Phosphoribosyl 1,2-cyclic phosphate phosphodiesterase
UniProtKB:P16692		has_cofactor

The zinc site is remote from the catalytic metal center and was assigned a structural role. Zinc gave poor activity in the catalytic metal-substitution assay; this is not a claim that Zn2+ substitutes equivalently for catalytic manganese.

zinc(2+)
CHEBI:29105
  • UniProtKB:P16692

    Source assertion: UniProt reports binding of one zinc ion per PhnP subunit with ECO:0000269 from PMID:19366688.

    Source locationcomments[commentType="COFACTOR"].cofactors[cofactorCrossReference.id="CHEBI:29105"]; note.texts
  • PMID:19366688
    This second metal ion site appears to stabilize a structural motif.
    Source locationAbstract, remote Zn2+ binding site
PhnG/H/I/L-dependent ribosyl triphosphate transfer to methylphosphonate
RHEA:34680		part_of

Manual reaction correspondence combines matching native transformation/EC, protein catalytic annotation, and exact Rhea sides. PathBank supplies no native Rhea cross-reference.

PathBank:SMP0002077
  • PathBank:SMP0002077

    Source assertion: The native SMP0002077 Pathway explicitly includes Reactions/6035; that reaction carries EC 2.7.8.37.

    Source locationbp:Pathway[@rdf:about="http://identifiers.org/smpdb/SMP0002077"]/bp:pathwayComponent[@rdf:resource="#Reactions/6035"]; bp:BiochemicalReaction[@rdf:ID="Reactions/6035"]/bp:eCNumber
  • UniProtKB:P16687

    Source assertion: The corresponding E. coli protein annotation assigns EC 2.7.8.37 and RHEA:34679 to this transformation. Native PathBank membership and this independent reaction grounding are separate assertions.

    Source locationcomments[commentType="CATALYTIC ACTIVITY"].reaction[ecNumber="2.7.8.37"]; reactionCrossReferences
  • RHEA:34680

    Source assertion: Rhea defines directed RHEA:34680 from master RHEA:34679; its charge-balanced participants are retained instead of the older PathBank charge forms.

    Source locationrdf:Description[@rdf:about="http://rdf.rhea-db.org/34679"]/rh:directionalReaction; rdf:Description[@rdf:about="http://rdf.rhea-db.org/34680"]/rh:substrates,rh:products
PhnM hydrolysis of ribosyl methylphosphonate triphosphate
RHEA:34684		part_of

Manual reaction correspondence combines matching native transformation/EC, protein catalytic annotation, and exact Rhea sides. PathBank supplies no native Rhea cross-reference.

PathBank:SMP0002077
  • PathBank:SMP0002077

    Source assertion: The native SMP0002077 Pathway explicitly includes Reactions/6036; that reaction carries EC 3.6.1.63.

    Source locationbp:Pathway[@rdf:about="http://identifiers.org/smpdb/SMP0002077"]/bp:pathwayComponent[@rdf:resource="#Reactions/6036"]; bp:BiochemicalReaction[@rdf:ID="Reactions/6036"]/bp:eCNumber
  • UniProtKB:P16689

    Source assertion: The corresponding E. coli protein annotation assigns EC 3.6.1.63 and RHEA:34683 to this transformation. Native PathBank membership and this independent reaction grounding are separate assertions.

    Source locationcomments[commentType="CATALYTIC ACTIVITY"].reaction[ecNumber="3.6.1.63"]; reactionCrossReferences
  • RHEA:34684

    Source assertion: Rhea defines directed RHEA:34684 from master RHEA:34683; its charge-balanced participants are retained instead of the older PathBank charge forms.

    Source locationrdf:Description[@rdf:about="http://rdf.rhea-db.org/34683"]/rh:directionalReaction; rdf:Description[@rdf:about="http://rdf.rhea-db.org/34684"]/rh:substrates,rh:products
PhnJ C-P cleavage with radical-SAM activation chemistry
RHEA:34708		part_of

Manual reaction correspondence combines matching native transformation/EC, protein catalytic annotation, and exact Rhea sides. PathBank supplies no native Rhea cross-reference. PhnJ’s Rhea equation additionally includes the radical-activation reagents and products absent from the native minimal equation.

PathBank:SMP0002077
  • PathBank:SMP0002077

    Source assertion: The native SMP0002077 Pathway explicitly includes Reactions/6037; that reaction carries EC 4.7.1.1.

    Source locationbp:Pathway[@rdf:about="http://identifiers.org/smpdb/SMP0002077"]/bp:pathwayComponent[@rdf:resource="#Reactions/6037"]; bp:BiochemicalReaction[@rdf:ID="Reactions/6037"]/bp:eCNumber
  • UniProtKB:P16688

    Source assertion: The corresponding E. coli protein annotation assigns EC 4.7.1.1 and RHEA:34707 to this transformation. Native PathBank membership and this independent reaction grounding are separate assertions.

    Source locationcomments[commentType="CATALYTIC ACTIVITY"].reaction[ecNumber="4.7.1.1"]; reactionCrossReferences
  • RHEA:34708

    Source assertion: Rhea defines directed RHEA:34708 from master RHEA:34707; its charge-balanced participants are retained instead of the older PathBank charge forms.

    Source locationrdf:Description[@rdf:about="http://rdf.rhea-db.org/34707"]/rh:directionalReaction; rdf:Description[@rdf:about="http://rdf.rhea-db.org/34708"]/rh:substrates,rh:products
PhnP hydrolysis of ribosyl 1,2-cyclic phosphate
RHEA:34796		part_of

Manual reaction correspondence combines matching native transformation/EC, protein catalytic annotation, and exact Rhea sides. PathBank supplies no native Rhea cross-reference.

PathBank:SMP0002077
  • PathBank:SMP0002077

    Source assertion: The native SMP0002077 Pathway explicitly includes Reactions/6038; that reaction carries EC 3.1.4.55.

    Source locationbp:Pathway[@rdf:about="http://identifiers.org/smpdb/SMP0002077"]/bp:pathwayComponent[@rdf:resource="#Reactions/6038"]; bp:BiochemicalReaction[@rdf:ID="Reactions/6038"]/bp:eCNumber
  • UniProtKB:P16692

    Source assertion: The corresponding E. coli protein annotation assigns EC 3.1.4.55 and RHEA:34795 to this transformation. Native PathBank membership and this independent reaction grounding are separate assertions.

    Source locationcomments[commentType="CATALYTIC ACTIVITY"].reaction[ecNumber="3.1.4.55"]; reactionCrossReferences
  • RHEA:34796

    Source assertion: Rhea defines directed RHEA:34796 from master RHEA:34795; its charge-balanced participants are retained instead of the older PathBank charge forms.

    Source locationrdf:Description[@rdf:about="http://rdf.rhea-db.org/34795"]/rh:directionalReaction; rdf:Description[@rdf:about="http://rdf.rhea-db.org/34796"]/rh:substrates,rh:products
PhnG/H/I/L-dependent ribosyl triphosphate transfer to methylphosphonate
RHEA:34680		provides_input_for

Material transfer through the identified ribose intermediate establishes the reaction sequence. Native pathwayOrder contains membership links, not nextStep ordering assertions.

PhnM hydrolysis of ribosyl methylphosphonate triphosphate
RHEA:34684
  • RHEA:34680

    Source assertion: The products of RHEA:34680 include CHEBI:68823.

    Source locationrdf:Description[@rdf:about="http://rdf.rhea-db.org/34680"]/rh:products; rh:contains1/rh:compound/rh:chebi
  • RHEA:34684

    Source assertion: The substrates of RHEA:34684 include CHEBI:68823.

    Source locationrdf:Description[@rdf:about="http://rdf.rhea-db.org/34684"]/rh:substrates; rh:contains1/rh:compound/rh:chebi
PhnM hydrolysis of ribosyl methylphosphonate triphosphate
RHEA:34684		provides_input_for

Material transfer through the identified ribose intermediate establishes the reaction sequence. Native pathwayOrder contains membership links, not nextStep ordering assertions.

PhnJ C-P cleavage with radical-SAM activation chemistry
RHEA:34708
  • RHEA:34684

    Source assertion: The products of RHEA:34684 include CHEBI:68686.

    Source locationrdf:Description[@rdf:about="http://rdf.rhea-db.org/34684"]/rh:products; rh:contains1/rh:compound/rh:chebi
  • RHEA:34708

    Source assertion: The substrates of RHEA:34708 include CHEBI:68686.

    Source locationrdf:Description[@rdf:about="http://rdf.rhea-db.org/34708"]/rh:substrates; rh:contains1/rh:compound/rh:chebi
PhnJ C-P cleavage with radical-SAM activation chemistry
RHEA:34708		provides_input_for

Material transfer through the identified ribose intermediate establishes the reaction sequence. Native pathwayOrder contains membership links, not nextStep ordering assertions.

PhnP hydrolysis of ribosyl 1,2-cyclic phosphate
RHEA:34796
  • RHEA:34708

    Source assertion: The products of RHEA:34708 include CHEBI:68687.

    Source locationrdf:Description[@rdf:about="http://rdf.rhea-db.org/34708"]/rh:products; rh:contains1/rh:compound/rh:chebi
  • RHEA:34796

    Source assertion: The substrates of RHEA:34796 include CHEBI:68687.

    Source locationrdf:Description[@rdf:about="http://rdf.rhea-db.org/34796"]/rh:substrates; rh:contains1/rh:compound/rh:chebi

References

Curation history