LiteFold/GO huggingface dataset:
guanine salvage (GO:0006178)
Namespace: biological_process
Definition: Any process that generates guanine, 2-amino-6-hydroxypurine, from derivatives of it without de novo synthesis.
Synonyms: guanine, xanthine and their nucleoside salvage
deoxyguanosine salvage (GO:0006180)
Namespace: biological_process
Definition: Any process that generates deoxyguanosine from derivatives of it, without de novo synthesis.
cGMP biosynthetic process (GO:0006182)
Namespace: biological_process
Definition: The chemical reactions and pathways resulting in the formation of cyclic GMP, guanosine 3',5'-phosphate.
Synonyms: cGMP anabolism; cGMP biosynthesis; cGMP formation; cGMP synthesis
GTP biosynthetic process (GO:0006183)
Namespace: biological_process
Definition: The chemical reactions and pathways resulting in the formation of GTP, guanosine triphosphate.
Synonyms: GTP anabolism; GTP biosynthesis; GTP formation; GTP synthesis
dGDP biosynthetic process (GO:0006185)
Namespace: biological_process
Definition: The chemical reactions and pathways resulting in the formation of dGDP, deoxyguanosine diphosphate, (2'-deoxyguanosine 5'-diphosphate).
Synonyms: dGDP anabolism; dGDP biosynthesis; dGDP formation; dGDP synthesis
obsolete dGDP phosphorylation (GO:0006186)
Namespace: biological_process
Definition: OBSOLETE. The process of introducing a phosphate group into dGDP, deoxyguanosine diphosphate, to produce dGTP.
Comment: The reason for obsoletion is that this term represents a single step MF.
dGTP biosynthetic process from dGDP (GO:0006187)
Namespace: biological_process
Definition: The chemical reactions and pathways resulting in the formation of dGTP, deoxyguanosine triphosphate (2'-deoxyguanosine 5'-triphosphate) from other compounds, including gGDP, deoxyguanosine diphosphate.
Synonyms: dGTP anabolism from dGDP; dGTP formation from dGDP; dGTP synthesis from dGDP
IMP biosynthetic process (GO:0006188)
Namespace: biological_process
Definition: The chemical reactions and pathways resulting in the formation of IMP, inosine monophosphate.
Synonyms: IMP anabolism; IMP biosynthesis; IMP formation; IMP synthesis
'de novo' IMP biosynthetic process (GO:0006189)
Namespace: biological_process
Definition: The chemical reactions and pathways resulting in the formation of IMP, inosine monophosphate, by the stepwise assembly of a purine ring on ribose 5-phosphate.
Synonyms: 'de novo' IMP anabolism; 'de novo' IMP biosynthesis; 'de novo' IMP formation; 'de novo' IMP synthesis; 'de novo' purine biosynthesis; 'de novo' purine biosynthetic process
inosine salvage (GO:0006190)
Namespace: biological_process
Definition: Any process that generates inosine, hypoxanthine riboside, from derivatives of it without de novo synthesis.
Synonyms: adenine, hypoxanthine and their nucleoside salvage; guanine, xanthine and their nucleoside salvage
deoxyinosine salvage (GO:0006191)
Namespace: biological_process
Definition: Any process that generates deoxyinosine from derivatives of it, without de novo synthesis.
obsolete IDP phosphorylation (GO:0006192)
Namespace: biological_process
Definition: OBSOLETE. The process of introducing a phosphate group into IDP, inosine (5'-)diphosphate, to produce ITP.
Comment: The reason for obsoletion is that this term represents a single step MF.
ITP catabolic process (GO:0006193)
Namespace: biological_process
Definition: The chemical reactions and pathways resulting in the breakdown of ITP, inosine (5'-)triphosphate.
Synonyms: ITP breakdown; ITP catabolism; ITP degradation; ITP hydrolysis
obsolete dIDP phosphorylation (GO:0006194)
Namespace: biological_process
Definition: OBSOLETE. The process of introducing a phosphate group into dIDP, deoxyinosine diphosphate, to produce dITP.
Comment: The reason for obsoletion is that this term represents a single step MF.
purine nucleotide catabolic process (GO:0006195)
Namespace: biological_process
Definition: The chemical reactions and pathways resulting in the breakdown of a purine nucleotide, a compound consisting of nucleoside (a purine base linked to a deoxyribose or ribose sugar) esterified with a phosphate group at either the 3' or 5'-hydroxyl group of the sugar.
Synonyms: purine nucleotide breakdown; purine nucleotide catabolism; purine nucleotide degradation
AMP catabolic process (GO:0006196)
Namespace: biological_process
Definition: The chemical reactions and pathways resulting in the breakdown of AMP, adenosine monophosphate.
Synonyms: AMP breakdown; AMP catabolism; AMP degradation
obsolete adenylate deaminase reaction (GO:0006197)
Namespace: biological_process
Definition: OBSOLETE. (Was not defined before being made obsolete).
Synonyms: adenylate deaminase reaction
Comment: This term was made obsolete because it represents a molecular function.
cAMP catabolic process (GO:0006198)
Namespace: biological_process
Definition: The chemical reactions and pathways resulting in the breakdown of the nucleotide cAMP (cyclic AMP, adenosine 3',5'-cyclophosphate).
Synonyms: 3',5' cAMP catabolic process; 3',5' cAMP catabolism; 3',5'-cAMP catabolic process; 3',5'-cAMP catabolism; adenosine 3',5'-cyclophosphate catabolic process; adenosine 3',5'-cyclophosphate catabolism; cAMP breakdown; cAMP catabolism; cAMP degradation; cyclic AMP catabolic process; cyclic AMP catabolism
obsolete ATP catabolic process (GO:0006200)
Namespace: biological_process
Definition: OBSOLETE. The chemical reactions and pathways resulting in the breakdown of ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
Synonyms: ATP breakdown; ATP catabolism; ATP degradation; ATP hydrolysis
Comment: The reason for making this term obsolete is that it gets misused in cases where phosphates are simply being removed from a small molecule. We found no cases where these molecules genuinely underwent catabolism.
GMP catabolic process to IMP (GO:0006201)
Namespace: biological_process
Definition: The chemical reactions and pathways resulting in the breakdown of guanosine monophosphate into other compounds, including inosine monophosphate.
Synonyms: GMP breakdown to IMP; GMP degradation to IMP
GMP catabolic process to guanine (GO:0006202)
Namespace: biological_process
Definition: The chemical reactions and pathways resulting in the breakdown of guanosine monophosphate into other compounds, including guanine.
Synonyms: GMP breakdown to guanine; GMP degradation to guanine
dGTP catabolic process (GO:0006203)
Namespace: biological_process
Definition: The chemical reactions and pathways resulting in the breakdown of dGTP, guanosine triphosphate.
Synonyms: dGTP breakdown; dGTP catabolism; dGTP degradation
IMP catabolic process (GO:0006204)
Namespace: biological_process
Definition: The chemical reactions and pathways resulting in the breakdown of IMP, inosine monophosphate.
Synonyms: IMP breakdown; IMP catabolism; IMP degradation
obsolete pyrimidine metabolic process (GO:0006205)
Namespace: biological_process
Definition: OBSOLETE. (Was not defined before being made obsolete).
Synonyms: pyrimidine metabolic process
Comment: This term was made obsolete because more appropriate terms were created.
pyrimidine nucleobase metabolic process (GO:0006206)
Namespace: biological_process
Definition: The chemical reactions and pathways involving pyrimidine nucleobases, 1,3-diazine, organic nitrogenous bases.
Synonyms: pyrimidine base metabolic process; pyrimidine base metabolism; pyrimidine metabolic process; pyrimidine metabolism
'de novo' pyrimidine nucleobase biosynthetic process (GO:0006207)
Namespace: biological_process
Definition: The chemical reactions and pathways resulting in the formation of pyrimidine nucleobases, 1,3-diazine, organic nitrogenous bases, beginning with the synthesis of a pyrimidine ring from simpler precursors.
Synonyms: 'de novo' pyrimidine base anabolism; 'de novo' pyrimidine base biosynthesis; 'de novo' pyrimidine base biosynthetic process; 'de novo' pyrimidine base formation; 'de novo' pyrimidine base synthesis
pyrimidine nucleobase catabolic process (GO:0006208)
Namespace: biological_process
Definition: The chemical reactions and pathways resulting in the breakdown of pyrimidine nucleobases, 1,3-diazine, organic nitrogenous bases.
Synonyms: pyrimidine base breakdown; pyrimidine base catabolic process; pyrimidine base catabolism; pyrimidine base degradation
cytosine catabolic process (GO:0006209)
Namespace: biological_process
Definition: The chemical reactions and pathways resulting in the breakdown of cytosine, 4-amino-2-hydroxypyrimidine, a pyrimidine derivative that is one of the five main bases found in nucleic acids; it occurs widely in cytidine derivatives.
Synonyms: cytosine breakdown; cytosine catabolism; cytosine degradation
thymine catabolic process (GO:0006210)
Namespace: biological_process
Definition: The chemical reactions and pathways resulting in the breakdown of thymine, 5-methyluracil, one of the two major pyrimidine bases present (as thymidine) in DNA but not found in RNA other than (as ribothymidine) in transfer RNA, where it is a minor base.
Synonyms: thymine breakdown; thymine catabolism; thymine degradation
obsolete 5-methylcytosine catabolic process (GO:0006211)
Namespace: biological_process
Definition: OBSOLETE. The chemical reactions and pathways resulting in the breakdown of 5-methylcytosine, a methylated base of DNA.
Synonyms: 5-methylcytosine breakdown; 5-methylcytosine catabolism; 5-methylcytosine degradation
Comment: This term was obsoleted because it it redundant with chromosomal 5-methylcytosine DNA demethylation pathway ; GO:0141166 or its children.
uracil catabolic process (GO:0006212)
Namespace: biological_process
Definition: The chemical reactions and pathways resulting in the breakdown of uracil, 2,4-dioxopyrimidine, one of the pyrimidine bases occurring in RNA, but not in DNA.
Synonyms: uracil breakdown; uracil catabolism; uracil degradation
pyrimidine nucleoside metabolic process (GO:0006213)
Namespace: biological_process
Definition: The chemical reactions and pathways involving any pyrimidine nucleoside, one of a family of organic molecules consisting of a pyrimidine base covalently bonded to ribose (a ribonucleoside) or deoxyribose (a deoxyribonucleoside).
Synonyms: pyrimidine metabolic process; pyrimidine metabolism; pyrimidine nucleoside metabolism
thymidine catabolic process (GO:0006214)
Namespace: biological_process
Definition: The chemical reactions and pathways resulting in the breakdown of thymidine, deoxyribosylthymine thymine 2-deoxyriboside, a deoxynucleoside very widely distributed but occurring almost entirely as phosphoric esters in deoxynucleotides and deoxyribonucleic acid, DNA.
Synonyms: deoxyribosylthymine catabolic process; deoxyribosylthymine catabolism; thymidine breakdown; thymidine catabolism; thymidine degradation
cytidine catabolic process (GO:0006216)
Namespace: biological_process
Definition: The chemical reactions and pathways resulting in the breakdown of cytidine, cytosine riboside, a widely distributed nucleoside.
Synonyms: cytidine breakdown; cytidine catabolism; cytidine degradation
deoxycytidine catabolic process (GO:0006217)
Namespace: biological_process
Definition: The chemical reactions and pathways resulting in the breakdown of deoxycytidine, 2-deoxyribosylcytosine, one of the four major nucleosides of DNA.
Synonyms: deoxycytidine breakdown; deoxycytidine catabolism; deoxycytidine degradation
uridine catabolic process (GO:0006218)
Namespace: biological_process
Definition: The chemical reactions and pathways resulting in the breakdown of uridine, uracil riboside, a ribonucleoside very widely distributed but occurring almost entirely as phosphoric esters in ribonucleotides and ribonucleic acids.
Synonyms: uridine breakdown; uridine catabolism; uridine degradation
deoxyuridine catabolic process (GO:0006219)
Namespace: biological_process
Definition: The chemical reactions and pathways resulting in the breakdown of deoxyuridine, 2-deoxyribosyluracil, one of the four major nucleosides of DNA.
Synonyms: deoxyuridine breakdown; deoxyuridine catabolism; deoxyuridine degradation
pyrimidine nucleotide metabolic process (GO:0006220)
Namespace: biological_process
Definition: The chemical reactions and pathways involving a pyrimidine nucleotide, a compound consisting of nucleoside (a pyrimidine base linked to a deoxyribose or ribose sugar) esterified with a phosphate group at either the 3' or 5'-hydroxyl group of the sugar.
Synonyms: pyrimidine metabolic process; pyrimidine metabolism; pyrimidine nucleotide metabolism
pyrimidine nucleotide biosynthetic process (GO:0006221)
Namespace: biological_process
Definition: The chemical reactions and pathways resulting in the formation of a pyrimidine nucleotide, a compound consisting of nucleoside (a pyrimidine base linked to a deoxyribose or ribose sugar) esterified with a phosphate group at either the 3' or 5'-hydroxyl group of the sugar.
Synonyms: pyrimidine nucleotide anabolism; pyrimidine nucleotide biosynthesis; pyrimidine nucleotide formation; pyrimidine nucleotide synthesis
UMP biosynthetic process (GO:0006222)
Namespace: biological_process
Definition: The chemical reactions and pathways resulting in the formation of UMP, uridine monophosphate.
Synonyms: UMP anabolism; UMP biosynthesis; UMP formation; UMP synthesis
uracil salvage (GO:0006223)
Namespace: biological_process
Definition: Any process that generates uracil, 2,4-dioxopyrimidine, from derivatives of it without de novo synthesis.
UDP biosynthetic process (GO:0006225)
Namespace: biological_process
Definition: The chemical reactions and pathways resulting in the formation of UDP, uridine (5'-)diphosphate.
Synonyms: UDP anabolism; UDP biosynthesis; UDP formation; UDP synthesis
dUDP biosynthetic process (GO:0006227)
Namespace: biological_process
Definition: The chemical reactions and pathways resulting in the formation of dUDP, deoxyuridine diphosphate (2'-deoxy-5'-uridylyl phosphate).
Synonyms: dUDP anabolism; dUDP biosynthesis; dUDP formation; dUDP synthesis
UTP biosynthetic process (GO:0006228)
Namespace: biological_process
Definition: The chemical reactions and pathways resulting in the formation of UTP, uridine (5'-)triphosphate.
Synonyms: UTP anabolism; UTP biosynthesis; UTP formation; UTP synthesis
dUTP biosynthetic process (GO:0006229)
Namespace: biological_process
Definition: The chemical reactions and pathways resulting in the formation of dUTP, deoxyuridine (5'-)triphosphate.
Synonyms: dUTP anabolism; dUTP biosynthesis; dUTP formation; dUTP synthesis
TMP biosynthetic process (GO:0006230)
Namespace: biological_process
Definition: The chemical reactions and pathways resulting in the formation of TMP, ribosylthymine monophosphate.
Synonyms: TMP anabolism; TMP biosynthesis; TMP formation; TMP synthesis
dTMP biosynthetic process (GO:0006231)
Namespace: biological_process
Definition: The chemical reactions and pathways resulting in the formation of dTMP, deoxyribosylthymine monophosphate (2'-deoxyribosylthymine 5'-phosphate).
Synonyms: dTMP anabolism; dTMP biosynthesis; dTMP formation; dTMP synthesis
TDP biosynthetic process (GO:0006232)
Namespace: biological_process
Definition: The chemical reactions and pathways resulting in the formation of TDP, ribosylthymine diphosphate.
Synonyms: TDP anabolism; TDP biosynthesis; TDP formation; TDP synthesis
dTDP biosynthetic process (GO:0006233)
Namespace: biological_process
Definition: The chemical reactions and pathways resulting in the formation of dTDP, deoxyribosylthymine diphosphate (2'-deoxyribosylthymine5'-diphosphate).
Synonyms: dTDP anabolism; dTDP biosynthesis; dTDP formation; dTDP synthesis
TTP biosynthetic process (GO:0006234)
Namespace: biological_process
Definition: The chemical reactions and pathways resulting in the formation of TTP, ribosylthymine triphosphate.
Synonyms: TTP anabolism; TTP biosynthesis; TTP formation; TTP synthesis
dTTP biosynthetic process (GO:0006235)
Namespace: biological_process
Definition: The chemical reactions and pathways resulting in the formation of dTTP, deoxyribosylthymine triphosphate.
Synonyms: dTTP anabolism; dTTP biosynthesis; dTTP formation; dTTP synthesis
obsolete cytidine salvage (GO:0006236)
Namespace: biological_process
Definition: OBSOLETE. Any process that generates cytidine, cytosine riboside, from derivatives of it without de novo synthesis.
Comment: The reason for obsoletion is that there is no evidence that this process exists.
deoxycytidine salvage (GO:0006237)
Namespace: biological_process
Definition: Any process that generates deoxycytidine, 2-deoxyribosylcytosine, from derivatives of it, without de novo synthesis.
CMP salvage (GO:0006238)
Namespace: biological_process
Definition: Any process that generates CMP, cytidine monophosphate, from derivatives of it without de novo synthesis.
Synonyms: cytidine monophosphate salvage
dCMP salvage (GO:0006239)
Namespace: biological_process
Definition: Any process that generates dCMP, deoxycytidine monophosphate from derivatives of it, without de novo synthesis.
Synonyms: deoxycytidine monophosphate salvage
dCDP biosynthetic process (GO:0006240)
Namespace: biological_process
Definition: The chemical reactions and pathways resulting in the formation of dCDP, deoxycytidine 5'-diphosphate.
Synonyms: dCDP anabolism; dCDP biosynthesis; dCDP formation; dCDP synthesis
CTP biosynthetic process (GO:0006241)
Namespace: biological_process
Definition: The chemical reactions and pathways resulting in the formation of CTP, cytidine 5'-triphosphate.
Synonyms: CTP anabolism; CTP biosynthesis; CTP formation; CTP synthesis
dCTP biosynthetic process (GO:0006242)
Namespace: biological_process
Definition: The chemical reactions and pathways resulting in the formation of dCTP, deoxycytidine triphosphate.
Synonyms: dCTP anabolism; dCTP biosynthesis; dCTP formation; dCTP synthesis
pyrimidine nucleotide catabolic process (GO:0006244)
Namespace: biological_process
Definition: The chemical reactions and pathways resulting in the breakdown of a pyrimidine nucleotide, a compound consisting of nucleoside (a pyrimidine base linked to a deoxyribose or ribose sugar) esterified with a phosphate group at either the 3' or 5'-hydroxyl group of the sugar.
Synonyms: pyrimidine nucleotide breakdown; pyrimidine nucleotide catabolism; pyrimidine nucleotide degradation
TDP catabolic process (GO:0006245)
Namespace: biological_process
Definition: The chemical reactions and pathways resulting in the breakdown of TDP, ribosylthymine diphosphate.
Synonyms: TDP breakdown; TDP catabolism; TDP degradation
dTDP catabolic process (GO:0006246)
Namespace: biological_process
Definition: The chemical reactions and pathways resulting in the breakdown of dTDP, deoxyribosylthymine diphosphate.
Synonyms: dTDP breakdown; dTDP catabolism; dTDP degradation
obsolete TTP reduction (GO:0006247)
Namespace: biological_process
Definition: OBSOLETE. (Was not defined before being made obsolete).
Synonyms: TTP reduction
Comment: This term was made obsolete because it represents a molecular function rather than a biological process.
CMP catabolic process (GO:0006248)
Namespace: biological_process
Definition: The chemical reactions and pathways resulting in the breakdown of CMP, cytidine monophosphate.
Synonyms: CMP breakdown; CMP catabolism; CMP degradation
dCMP catabolic process (GO:0006249)
Namespace: biological_process
Definition: The chemical reactions and pathways resulting in the breakdown of dCMP, deoxycytidine monophosphate.
Synonyms: dCMP breakdown; dCMP catabolism; dCMP degradation
obsolete CDP reduction (GO:0006250)
Namespace: biological_process
Definition: OBSOLETE. (Was not defined before being made obsolete).
Synonyms: CDP reduction
Comment: This term was made obsolete because it represents a molecular function rather than a biological process.
dCDP catabolic process (GO:0006251)
Namespace: biological_process
Definition: The chemical reactions and pathways resulting in the breakdown of dCDP, deoxycytidine 5'-diphosphate.
Synonyms: dCDP breakdown; dCDP catabolism; dCDP degradation
obsolete CTP reduction (GO:0006252)
Namespace: biological_process
Definition: OBSOLETE. (Was not defined before being made obsolete).
Synonyms: CTP reduction
Comment: This term was made obsolete because it represents a molecular function rather than a biological process.
dCTP catabolic process (GO:0006253)
Namespace: biological_process
Definition: The chemical reactions and pathways resulting in the breakdown of dCTP, deoxycytidine triphosphate.
Synonyms: dCTP breakdown; dCTP catabolism; dCTP degradation
obsolete UDP reduction (GO:0006255)
Namespace: biological_process
Definition: OBSOLETE. (Was not defined before being made obsolete).
Synonyms: UDP reduction
Comment: This term was made obsolete because it represents a molecular function rather than a biological process.
UDP catabolic process (GO:0006256)
Namespace: biological_process
Definition: The chemical reactions and pathways resulting in the breakdown of UDP, uridine (5'-)diphosphate.
Synonyms: UDP breakdown; UDP catabolism; UDP degradation
obsolete UDP-alpha-D-glucose catabolic process (GO:0006258)
Namespace: biological_process
Definition: OBSOLETE. The chemical reactions and pathways resulting in the breakdown of UDP-alpha-D-glucose, a substance composed of UDP-alpha-D-glucose in glycosidic linkage with uridine diphosphate.
Synonyms: UDP-glucose breakdown; UDP-glucose catabolism; UDP-glucose conversion; UDP-glucose degradation
Comment: The reason for obsoletion is that this term is not clearly defined.
DNA metabolic process (GO:0006259)
Namespace: biological_process
Definition: Any cellular metabolic process involving deoxyribonucleic acid. This is one of the two main types of nucleic acid, consisting of a long, unbranched macromolecule formed from one, or more commonly, two, strands of linked deoxyribonucleotides.
Synonyms: cellular DNA metabolism; DNA metabolism
DNA replication (GO:0006260)
Namespace: biological_process
Definition: The cellular metabolic process in which a cell duplicates one or more molecules of DNA. DNA replication begins when specific sequences, known as origins of replication, are recognized and bound by the origin recognition complex, and ends when the original DNA molecule has been completely duplicated and the copies topologically separated. The unit of replication usually corresponds to the genome of the cell, an organelle, or a virus. The template for replication can either be an existing DNA molecule or RNA.
Comment: DNA biosynthesis is only part of this process. See also the biological process terms 'DNA-dependent DNA replication ; GO:0006261' and 'RNA-dependent DNA replication ; GO:0006278'.
DNA-templated DNA replication (GO:0006261)
Namespace: biological_process
Definition: A DNA replication process that uses parental DNA as a template for the DNA-dependent DNA polymerases that synthesize the new strands.
Synonyms: DNA-dependent DNA replication
mitochondrial DNA replication (GO:0006264)
Namespace: biological_process
Definition: The process in which new strands of DNA are synthesized in the mitochondrion.
Synonyms: mitochondrial DNA synthesis; mtDNA replication; mtDNA synthesis; replication of mitochondrial DNA
DNA topological change (GO:0006265)
Namespace: biological_process
Definition: The process in which a transformation is induced in the topological structure of a double-stranded DNA helix, resulting in a change in linking number.
Synonyms: DNA underwinding
Comment: Note that the synonym 'DNA underwinding' should not be confused with 'DNA unwinding ; GO:0006268', which refers to DNA strand separation, and is a type of geometric change. GO:0006265 refers to alteration of the superhelical density of double-stranded DNA. Note that DNA topological change and DNA geometric change (GO:0032392) are distinct, but are usually coupled in vivo.
obsolete DNA ligation (GO:0006266)
Namespace: biological_process
Definition: OBSOLETE. The re-formation of a broken phosphodiester bond in the DNA backbone, carried out by DNA ligase.
Comment: The reason for obsoletion is that the term represents a molecular function.