De novo biosynthesis of pyrimidine deoxyribonucleotides (Saccharomyces cerevisiae)

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Revision as of 04:50, 8 October 2024 by Khanspers (Talk | contribs)
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Description

Deoxyribonucleoside triphosphates (dNTPs) are the monomeric building blocks of DNA. In all cellular organisms, synthesis of the four canonical dNTPs (dATP, dGTP, dCTP, dTTP) required for DNA replication and repair involves the action of ribonucleotide reductase, which converts ribonucleotides to their corresponding deoxy- forms by substituting their 2-hydroxyl group with a hydrogen atom. S. cerevisiae contains a class Ia RNR that is composed of two large and two small subunits. RNR2 and RNR4 encode the small subunits, while the large subunits are encoded by either RNR1 (major isoform) or RNR3 (minor isoform). Budding yeast RNR accepts ribonucleoside diphosphates (e.g. ADP, UDP) as substrate and converts them to their corresponding deoxy- forms (e.g. dADP, dUDP). These dNDPs can then be phosphorylated by NDP kinase (Ynk1p) to yield dNTPs. In contrast to the class I RNRs in yeast and other eukaryotes, class II and class III RNRs found in archaea and many bacteria can produce dNTPs directly by using NTPs as substrates. Source: https://pathway.yeastgenome.org/

Comments

GenMAPP remarks 
Based on http://pathway.yeastgenome.org/biocyc/

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Quality Tags

Ontology Terms

 

Bibliography

  1. ''de novo biosynthesis of pyrimidine deoxyribonucleotides''; YeastGenome,

History

View all...
CompareRevisionActionTimeUserComment
135637view04:54, 8 October 2024KhanspersOntology Term : 'classic metabolic pathway' added !
135636view04:50, 8 October 2024Khanspersremoved GenMAPP comments and updated reference
135635view04:49, 8 October 2024KhanspersModified description
135634view04:48, 8 October 2024Khanspersoverhaul
124941view06:57, 3 January 2023EgonwMore metabolites as DataNode and connected lines
117280view10:46, 20 May 2021EweitzModified title
107020view13:47, 17 September 2019MaintBotHMDB identifier normalization
87228view14:47, 19 July 2016SusanOntology Term : 'de novo pyrimidine biosynthetic pathway' added !
87227view14:47, 19 July 2016SusanOntology Term : 'PW:0000861' removed !
87225view14:44, 19 July 2016SusanOntology Term : 'pyrimidine biosynthetic pathway' added !
72053view17:07, 24 October 2013Mkutmonupdated annotation for pyrophosphate
69864view17:26, 11 July 2013EgonwMarked a few DataNodes with CAS registry numbers as metabolites.
69612view20:33, 8 July 2013MaintBotUpdated to 2013 gpml schema
41845view04:50, 2 March 2011MaintBotRemoved redundant pathway information and comments
20753view11:29, 14 November 2008MaintBot[[Pathway:Saccharomyces cerevisiae:De Novo Biosynthesis of Pyrimidine Deoxyribonucleotides]] moved to [[Pathway:WP36]]: Moved to stable identifier
12684view07:57, 17 May 2008MaintBotautomated metabolite conversion
8687view14:06, 7 January 2008MaintBotAdded to category $category
8685view14:06, 7 January 2008M.BraymerUploaded new pathway

External references

DataNodes

View all...
NameTypeDatabase referenceComment
2.7.4.13GeneProduct2.7.4.13 (Enzyme Nomenclature)
2.7.4.14GeneProduct2.7.4.14 (Enzyme Nomenclature)
2.7.4.25GeneProduct2.7.4.25 (Enzyme Nomenclature)
3.5.4.13GeneProduct3.5.4.13 (Enzyme Nomenclature)
5,10-methylene-THFMetabolite31690-11-6 (CAS)
7,8-dihydrofolateMetabolite
ADPMetabolite58-64-0 (CAS)
ATPMetabolite1927-31-7 (CAS)
CDC21GeneProductS000005600 (SGD)
CDC8GeneProductS000003818 (SGD)
CDPMetabolite63-38-7 (CAS)
DUT1GeneProductS000000456 (SGD)
H+Metabolite15378 (ChEBI)
H2OMetabolite
NH3Metabolite
RNR1GeneProductS000000872 (SGD)
RNR2GeneProductS000003563 (SGD)
RNR3GeneProductS000001328 (SGD)
RNR4GeneProductS000003412 (SGD)
UDPMetabolite
YNK1GeneProductS000001550 (SGD)
dCDPMetabolite800-73-7 (CAS)
dCMPMetabolite1032-65-1 (CAS)
dCTPMetabolite2056-98-6 (CAS)
dTDPMetabolite491-97-4 (CAS)
dTMPMetabolite365-07-1 (CAS)
dTTPMetabolite
dUDPMetabolite
dUMPMetabolite964-26-1 (CAS)
dUTPMetabolite
diphosphateMetabolite29888 (ChEBI)
oxidized thioredoxinMetabolite
reduced thioredoxinMetabolite

Annotated Interactions

No annotated interactions
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