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Source ontology files for the Gene Ontology
http://geneontology.org/page/download-ontology
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Bulk obsoletion request: single step processes or regulation of molecular function with no annotations (336 terms) #28482

Closed pgaudet closed 1 month ago

pgaudet commented 1 month ago

The following terms have no annotations; 1 has a InterPro mapping; 2 have UniRule & HAMAP mappings, see https://github.com/geneontology/go-annotation/issues/5345

@balhoff Can you please obsolete the list below:

Thanks, Pascale

pgaudet commented 1 month ago

GO:0015013 heparan sulfate proteoglycan biosynthetic process, linkage to polypeptide GO:1903049 negative regulation of acetylcholine-gated cation channel activity GO:1905620 negative regulation of alpha-(1->3)-fucosyltransferase activity GO:0010362 negative regulation of anion channel activity by blue light GO:0150071 negative regulation of arginase activity GO:0070927 negative regulation of ATP:ADP antiporter activity GO:1902552 negative regulation of catalase activity GO:1904218 negative regulation of CDP-diacylglycerol-serine O-phosphatidyltransferase activity GO:1903668 negative regulation of chemorepellent activity GO:1902770 negative regulation of choline O-acetyltransferase activity GO:1905376 negative regulation of cytochrome-c oxidase activity GO:1903857 negative regulation of cytokinin dehydrogenase activity GO:1900758 negative regulation of D-amino-acid oxidase activity GO:1905688 negative regulation of diacylglycerol kinase activity GO:1903933 negative regulation of DNA primase activity GO:1900263 negative regulation of DNA-directed DNA polymerase activity GO:1902393 negative regulation of exodeoxyribonuclease activity GO:0106042 negative regulation of GABA-A receptor activity GO:1905124 negative regulation of glucosylceramidase activity GO:1904224 negative regulation of glucuronosyltransferase activity GO:0035228 negative regulation of glutamate-cysteine ligase activity GO:1903283 negative regulation of glutathione peroxidase activity GO:1903548 negative regulation of growth hormone activity GO:0043105 negative regulation of GTP cyclohydrolase I activity GO:0061962 negative regulation of heme oxygenase activity GO:1903199 negative regulation of L-dopa decarboxylase activity GO:1903634 negative regulation of leucine-tRNA ligase activity GO:0045831 negative regulation of light-activated channel activity GO:1903219 negative regulation of malate dehydrogenase (decarboxylating) (NADP+) activity GO:0035506 negative regulation of myosin light chain kinase activity GO:1901665 negative regulation of NAD+ ADP-ribosyltransferase activity GO:0033671 negative regulation of NAD+ kinase activity GO:0051395 negative regulation of nerve growth factor receptor activity GO:1904296 negative regulation of osmolarity-sensing cation channel activity GO:1903741 negative regulation of phosphatidate phosphatase activity GO:0120140 negative regulation of phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity GO:1904006 negative regulation of phospholipase D activity GO:1900162 negative regulation of phospholipid scramblase activity GO:0106247 negative regulation of poly(A)-specific ribonuclease activity GO:1904452 negative regulation of potassium:proton exchanging ATPase activity GO:2000362 negative regulation of prostaglandin-E synthase activity GO:0032112 negative regulation of protein histidine kinase activity GO:0150075 negative regulation of protein-glutamine gamma-glutamyltransferase activity GO:1900277 negative regulation of proteinase activated receptor activity GO:1905272 negative regulation of proton-transporting ATP synthase activity, rotational mechanism GO:1904183 negative regulation of pyruvate dehydrogenase activity GO:1903303 negative regulation of pyruvate kinase activity GO:1905256 negative regulation of RNA binding transcription factor activity GO:1902281 negative regulation of RNA helicase activity GO:1904230 negative regulation of succinate dehydrogenase activity GO:1903183 negative regulation of SUMO transferase activity GO:1903124 negative regulation of thioredoxin peroxidase activity GO:0150069 negative regulation of tubulin deacetylase activity GO:0032080 negative regulation of type I site-specific deoxyribonuclease activity GO:0032081 negative regulation of type II site-specific deoxyribonuclease activity GO:0032082 negative regulation of type III site-specific deoxyribonuclease activity GO:0032083 negative regulation of type IV site-specific deoxyribonuclease activity GO:0032772 negative regulation of tyrosinase activity GO:1903177 negative regulation of tyrosine 3-monooxygenase activity GO:1902942 negative regulation of voltage-gated chloride channel activity GO:1903953 negative regulation of voltage-gated potassium channel activity involved in atrial cardiac muscle cell action potential repolarization GO:1903761 negative regulation of voltage-gated potassium channel activity involved in ventricular cardiac muscle cell action potential repolarization GO:1902428 negative regulation of water channel activity GO:0120137 positive regulation of all-trans-retinyl-ester hydrolase, 11-cis retinol forming activity GO:1905621 positive regulation of alpha-(1->3)-fucosyltransferase activity GO:0031553 positive regulation of brain-derived neurotrophic factor-activated receptor activity GO:1903669 positive regulation of chemorepellent activity GO:1902771 positive regulation of choline O-acetyltransferase activity GO:1900012 positive regulation of corticotropin-releasing hormone receptor activity GO:1905409 positive regulation of creatine transmembrane transporter activity GO:1904191 positive regulation of cyclin-dependent protein serine/threonine kinase activity involved in meiotic nuclear division GO:1904043 positive regulation of cystathionine beta-synthase activity GO:1900759 positive regulation of D-amino-acid oxidase activity GO:1900023 positive regulation of D-erythro-sphingosine kinase activity GO:1903629 positive regulation of dUTP diphosphatase activity GO:1902394 positive regulation of exodeoxyribonuclease activity GO:0106041 positive regulation of GABA-A receptor activity GO:0044516 positive regulation of glucagon-like peptide receptor 1 activity in another organism GO:1905125 positive regulation of glucosylceramidase activity GO:1904225 positive regulation of glucuronosyltransferase activity GO:0080114 positive regulation of glycine hydroxymethyltransferase activity GO:1904228 positive regulation of glycogen synthase activity, transferring glucose-1-phosphate GO:1903549 positive regulation of growth hormone activity GO:0043104 positive regulation of GTP cyclohydrolase I activity GO:0061961 positive regulation of heme oxygenase activity GO:0010910 positive regulation of heparan sulfate proteoglycan biosynthesis by positive regulation of epimerase activity GO:0086095 positive regulation of IKACh channel activity by G protein-coupled acetylcholine receptor signaling pathway involved in negative regulation of heart rate GO:1904256 positive regulation of iron ion transmembrane transporter activity GO:1905017 positive regulation of isoleucine-tRNA ligase activity GO:0045832 positive regulation of light-activated channel activity GO:1903220 positive regulation of malate dehydrogenase (decarboxylating) (NADP+) activity GO:1902964 positive regulation of metalloendopeptidase activity involved in amyloid precursor protein catabolic process GO:1905020 positive regulation of methionine-tRNA ligase activity GO:1903870 positive regulation of methylenetetrahydrofolate reductase (NAD(P)H) activity GO:0033672 positive regulation of NAD+ kinase activity GO:0051396 positive regulation of nerve growth factor receptor activity GO:1904297 positive regulation of osmolarity-sensing cation channel activity GO:1903740 positive regulation of phosphatidate phosphatase activity GO:2001146 positive regulation of phosphatidylinositol-3,4,5-trisphosphate 5-phosphatase activity GO:0120139 positive regulation of phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity GO:1903022 positive regulation of phosphodiesterase activity, acting on 3'-phosphoglycolate-terminated DNA strands GO:1904007 positive regulation of phospholipase D activity GO:0106248 positive regulation of poly(A)-specific ribonuclease activity GO:1901969 positive regulation of polynucleotide 3'-phosphatase activity GO:1904453 positive regulation of potassium:proton exchanging ATPase activity GO:0010864 positive regulation of protein histidine kinase activity GO:1900278 positive regulation of proteinase activated receptor activity GO:1904184 positive regulation of pyruvate dehydrogenase activity GO:1903304 positive regulation of pyruvate kinase activity GO:1905257 positive regulation of RNA binding transcription factor activity GO:1905023 positive regulation of threonine-tRNA ligase activity GO:0150068 positive regulation of tubulin deacetylase activity GO:1905182 positive regulation of urease activity GO:0044518 positive regulation of vasoactive intestinal polypeptide receptor activity in another organism GO:1902433 positive regulation of water channel activity involved in maintenance of lens transparency GO:1902395 regulation of 1-deoxy-D-xylulose-5-phosphate synthase activity GO:0032114 regulation of glucose-6-phosphatase activity GO:0010462 regulation of light-activated voltage-gated calcium channel activity GO:0043497 regulation of protein heterodimerization activity GO:0031289 actin phosphorylation GO:0071587 CAAX-box protein modification GO:0019930 cis-14-hydroxy-10,13-dioxo-7-heptadecenoic acid peptidyl-aspartate ester biosynthetic process from peptidyl-aspartic acid GO:0034420 co-translational protein acetylation GO:0019703 coenzyme A-peptidyl-cysteine covalent linking GO:0018429 copper incorporation into copper-sulfur cluster via heptakis-L-histidino tetracopper mu4-sulfide hydroxide GO:0050842 copper incorporation via L-cysteinyl copper sulfido molybdopterin cytosine dinucleotide GO:0018379 cytochrome c-heme linkage via heme-bis-L-cysteine GO:0018378 cytochrome c-heme linkage via heme-L-cysteine GO:0045328 cytochrome P450 4A1-heme linkage GO:0044526 formation of peptidyl-cystine persulfide by sulphur transfer from free cysteine GO:0044527 formation of peptidyl-cystine persulfide by sulphur transfer from H2S GO:0018290 iron and molybdenum incorporation into iron-molybdenum-sulfur cluster via L-cysteinyl homocitryl molybdenum-heptairon-nonasulfide GO:0046893 iron incorporation into hydrogenase diiron subcluster via L-cysteine ligation GO:0018306 iron incorporation into iron-sulfur cluster via bis-L-cysteinyl-L-N3'-histidino-L-serinyl tetrairon tetrasulfide GO:0018441 iron incorporation into iron-sulfur cluster via hexakis-L-cysteinyl L-serinyl octairon heptasulfide GO:0019709 iron incorporation into iron-sulfur cluster via pentakis-L-cysteinyl L-histidino nickel tetrairon pentasulfide GO:0018285 iron incorporation into iron-sulfur cluster via tetrakis-L-cysteinyl diiron disulfide GO:0018288 iron incorporation into iron-sulfur cluster via tetrakis-L-cysteinyl tetrairon tetrasulfide GO:0045459 iron incorporation into iron-sulfur cluster via tetrakis-L-cysteinyl triiron tetrasulfide GO:0050836 iron incorporation into iron-sulfur cluster via tris-L-cysteinyl L-arginyl diiron disulfide GO:0018415 iron incorporation into iron-sulfur cluster via tris-L-cysteinyl L-cysteine persulfido bis-L-glutamato L-histidino nickel triiron disulfide trioxide GO:0018417 iron incorporation into iron-sulfur cluster via tris-L-cysteinyl L-cysteine persulfido L-glutamato L-histidino L-serinyl nickel triiron disulfide trioxide GO:0050835 iron incorporation into iron-sulfur cluster via tris-L-cysteinyl S-adenosylmethion-N,O-diyl tetrairon tetrasulfide GO:0018287 iron incorporation into iron-sulfur cluster via tris-L-cysteinyl triiron tetrasulfide GO:0046869 iron incorporation into iron-sulfur cluster via tris-L-cysteinyl-L-aspartato diiron disulfide GO:0018304 iron incorporation into iron-sulfur cluster via tris-L-cysteinyl-L-aspartato tetrairon tetrasulfide GO:0018301 iron incorporation into iron-sulfur cluster via tris-L-cysteinyl-L-cysteine persulfido-bis-L-glutamato-L-histidino tetrairon GO:0018302 iron incorporation into iron-sulfur cluster via tris-L-cysteinyl-L-N1'-histidino tetrairon tetrasulfide GO:0018303 iron incorporation into iron-sulfur cluster via tris-L-cysteinyl-L-N3'-histidino tetrairon tetrasulfide GO:0018305 iron incorporation into iron-sulfur cluster via tris-L-cysteinyl-L-serinyl tetrairon tetrasulfide GO:0018284 iron incorporation into protein via tetrakis-L-cysteinyl iron GO:0018299 iron incorporation into the Rieske iron-sulfur cluster via bis-L-cysteinyl bis-L-histidino diiron disulfide GO:0050986 isopeptide cross-linking via N-(L-isoglutamyl)-glycine GO:0034438 lipoprotein amino acid oxidation GO:0051217 molybdenum incorporation via L-aspartyl molybdenum bis(molybdopterin guanine dinucleotide) GO:0050834 molybdenum incorporation via L-cysteinyl copper sulfido molybdopterin cytosine dinucleotide GO:0018292 molybdenum incorporation via L-cysteinyl molybdopterin GO:0018187 molybdenum incorporation via L-cysteinyl molybdopterin guanine dinucleotide GO:0018147 molybdenum incorporation via L-selenocysteinyl molybdenum bis(molybdopterin guanine dinucleotide) GO:0042258 molybdenum incorporation via L-serinyl molybdopterin guanine dinucleotide GO:0017189 N-terminal peptidyl-alanine acetylation GO:0019716 N-terminal peptidyl-alanine monomethylation GO:0046945 N-terminal peptidyl-alanine N-carbamoylation GO:0018387 N-terminal peptidyl-amino acid deamination to pyruvic acid GO:0048275 N-terminal peptidyl-arginine acetylation GO:0031366 N-terminal peptidyl-asparagine deamination GO:0018275 N-terminal peptidyl-cysteine acetylation GO:0018386 N-terminal peptidyl-cysteine condensation with pyruvate to form N-pyruvic acid 2-iminyl-L-cysteine GO:0018060 N-terminal peptidyl-cysteine deamination GO:0031367 N-terminal peptidyl-glutamine deamination GO:0018019 N-terminal peptidyl-glutamine methylation GO:0017193 N-terminal peptidyl-glycine acetylation GO:0018005 N-terminal peptidyl-glycine N-formylation GO:0046918 N-terminal peptidyl-glycine N-palmitoylation GO:0017194 N-terminal peptidyl-isoleucine acetylation GO:0046895 N-terminal peptidyl-isoleucine methylation GO:0046896 N-terminal peptidyl-leucine methylation GO:0017195 N-terminal peptidyl-lysine N2-acetylation GO:0050988 N-terminal peptidyl-methionine carboxylation GO:0018014 N-terminal peptidyl-methionine methylation GO:0018015 N-terminal peptidyl-phenylalanine methylation GO:0017197 N-terminal peptidyl-proline acetylation GO:0071891 N-terminal peptidyl-proline dimethylation involved in translation GO:0051364 N-terminal peptidyl-proline N-formylation GO:0017198 N-terminal peptidyl-serine acetylation GO:0018059 N-terminal peptidyl-serine deamination GO:0035571 N-terminal peptidyl-serine monomethylation GO:0017199 N-terminal peptidyl-threonine acetylation GO:0018278 N-terminal peptidyl-threonine deamination GO:0018000 N-terminal peptidyl-tyrosine acetylation GO:0046897 N-terminal peptidyl-tyrosine methylation GO:0018001 N-terminal peptidyl-valine acetylation GO:0018388 N-terminal peptidyl-valine condensation with pyruvate to form N-pyruvic acid 2-iminyl-L-valine GO:0018389 N-terminal peptidyl-valine deamination GO:0018416 nickel incorporation into iron-sulfur cluster via tris-L-cysteinyl L-cysteine persulfido bis-L-glutamato L-histidino nickel triiron disulfide trioxide GO:0042075 nickel incorporation into nickel-iron-sulfur cluster via pentakis-L-cysteinyl L-histidino nickel tetrairon pentasulfide GO:0016270 O-glycan processing, core 4 GO:0031041 O-glycan processing, core 5 GO:0031042 O-glycan processing, core 6 GO:0031043 O-glycan processing, core 7 GO:0031044 O-glycan processing, core 8 GO:0018425 O3-(N-acetylglucosamine-1-phosphoryl)-L-serine biosynthetic process GO:0018426 O3-(phosphoglycosyl-D-mannose-1-phosphoryl)-L-serine biosynthetic process GO:0046926 peptide cross-linking via 2-(S-L-cysteinyl)-D-allo-threonine GO:0046925 peptide cross-linking via 2-(S-L-cysteinyl)-D-phenylalanine GO:0046924 peptide cross-linking via 2-(S-L-cysteinyl)-L-phenylalanine GO:0051363 peptidoglycan-protein cross-linking via L-alanyl-pentaglycyl-murein GO:0042902 peptidoglycan-protein cross-linking via L-threonyl-pentaglycyl-murein GO:0019121 peptidoglycan-protein cross-linking via N6-mureinyl-L-lysine GO:0018082 peptidyl-(Z)-dehydrobutyrine biosynthetic process from peptidyl-threonine GO:0019921 peptidyl-1-thioglycine biosynthetic process, carboxy-terminal GO:0019920 peptidyl-1-thioglycine biosynthetic process, internal GO:0050838 peptidyl-5-hydroxy-L-lysine trimethylation GO:0019728 peptidyl-allysine oxidation to 2-aminoadipic acid GO:0030962 peptidyl-arginine dihydroxylation to peptidyl-3,4-dihydroxy-L-arginine GO:0018102 peptidyl-arginine hydroxylation to peptidyl-4-hydroxy-L-arginine GO:0019701 peptidyl-arginine N5-methylation GO:0019803 peptidyl-aspartic acid carboxylation GO:0019715 peptidyl-aspartic acid hydroxylation to form L-erythro-beta-hydroxyaspartic acid GO:0051203 peptidyl-aspartic acid reduction to form L-aspartyl aldehyde GO:0019711 peptidyl-beta-carboxyaspartic acid biosynthetic process from peptidyl-aspartic acid GO:0098822 peptidyl-cysteine modification to L-cysteine persulfide GO:0098823 peptidyl-cysteine modification to S-amindino-L-cysteine GO:0018218 peptidyl-cysteine phosphorylation GO:0018219 peptidyl-cysteine S-acetylation GO:0046891 peptidyl-cysteine S-carbamoylation GO:0098824 peptidyl-cysteine sulfation GO:0019917 peptidyl-D-alanine racemization via peptidyl-L-serine GO:0019916 peptidyl-D-alanine racemization, direct GO:0018250 peptidyl-dehydroalanine biosynthetic process from peptidyl-tyrosine or peptidyl-serine GO:0018020 peptidyl-glutamic acid methylation GO:0018361 peptidyl-glutamine 2-methylation GO:0019708 peptidyl-glycine cholesteryl ester biosynthesis from peptidyl-glycine GO:0050495 peptidyl-glycyl-phosphatidylethanolamine biosynthetic process from peptidyl-glycine GO:0051112 peptidyl-histidine adenylylation, to form peptidyl-1'-(phospho-5'-adenosine)-L-histidine GO:0090593 peptidyl-histidine autophosphorylation GO:0098825 peptidyl-histidine guanylation GO:0036138 peptidyl-histidine hydroxylation GO:0042037 peptidyl-histidine methylation, to form pros-methylhistidine GO:0051110 peptidyl-histidine uridylylation, to form peptidyl-1'-(phospho-5'-uridine)-L-histidine GO:0019124 peptidyl-isoleucine racemization GO:0018068 peptidyl-L-2',4',5'-topaquinone biosynthetic process from peptidyl-tyrosine GO:0018067 peptidyl-L-3',4'-dihydroxyphenylalanine biosynthetic process from peptidyl-tyrosine GO:0018172 peptidyl-L-3',4',5'-trihydroxyphenylalanine biosynthetic process from peptidyl-tyrosine GO:0019704 peptidyl-L-cysteine S-myristoylation GO:0018072 peptidyl-L-glutamyl 5-glycerylphosphorylethanolamine biosynthetic process from peptidyl-glutamic acid GO:0050496 peptidyl-L-glutamyl 5-omega-hydroxyceramide ester biosynthetic process from peptidyl-glutamine GO:0018084 peptidyl-lactic acid biosynthetic process from peptidyl-serine GO:0019129 peptidyl-leucine racemization GO:0106225 peptidyl-lysine 2-hydroxyisobutyrylation GO:0018116 peptidyl-lysine adenylylation GO:0018238 peptidyl-lysine carboxyethylation GO:0018235 peptidyl-lysine carboxylation GO:0061699 peptidyl-lysine deglutarylation GO:0030963 peptidyl-lysine dihydroxylation to 4,5-dihydroxy-L-lysine GO:0018257 peptidyl-lysine formylation GO:0018261 peptidyl-lysine guanylylation GO:1901260 peptidyl-lysine hydroxylation involved in bacterial-type EF-P lysine modification GO:0018396 peptidyl-lysine hydroxylation to 4-hydroxy-L-lysine GO:0044392 peptidyl-lysine malonylation GO:0018341 peptidyl-lysine modification to peptidyl-N6-pyruvic acid 2-iminyl-L-lysine GO:0018028 peptidyl-lysine myristoylation GO:0018029 peptidyl-lysine palmitoylation GO:0036050 peptidyl-lysine succinylation GO:0018159 peptidyl-methionine oxidation GO:0019123 peptidyl-methionine racemization GO:0050841 peptidyl-N6,N6,N6-trimethyl-lysine hydroxylation to peptidyl-N6,N6,N6-trimethyl-5-hydroxy-L-lysine GO:0018340 peptidyl-O-(sn-1-glycerophosphoryl)-L-serine biosynthetic process from peptidyl-serine GO:0019125 peptidyl-phenylalanine racemization GO:0018227 peptidyl-S-12-hydroxyfarnesyl-L-cysteine biosynthetic process from peptidyl-cysteine GO:0046892 peptidyl-S-carbamoyl-L-cysteine dehydration GO:0018115 peptidyl-S-diphytanylglycerol diether-L-cysteine biosynthetic process from peptidyl-cysteine GO:0018226 peptidyl-S-farnesyl-L-cysteine biosynthetic process from peptidyl-cysteine GO:0018228 peptidyl-S-geranylgeranyl-L-cysteine biosynthetic process from peptidyl-cysteine GO:0019939 peptidyl-S-palmitoleyl-L-cysteine biosynthetic process from peptidyl-cysteine GO:0019736 peptidyl-sarcosine incorporation GO:0051367 peptidyl-serine decanoylation GO:0018413 peptidyl-serine O-glucuronidation GO:0018221 peptidyl-serine palmitoylation GO:0019126 peptidyl-serine racemization GO:0050984 peptidyl-serine sulfation GO:0018178 peptidyl-threonine adenylylation GO:0051369 peptidyl-threonine decanoylation GO:0051368 peptidyl-threonine octanoylation GO:0018220 peptidyl-threonine palmitoylation GO:0046927 peptidyl-threonine racemization GO:0050985 peptidyl-threonine sulfation GO:1990294 peptidyl-threonine trans-autophosphorylation GO:0019879 peptidyl-thyronine biosynthetic process from peptidyl-tyrosine GO:0045325 peptidyl-tryptophan hydroxylation GO:0019128 peptidyl-tryptophan racemization GO:0018062 peptidyl-tryptophan succinylation GO:0018254 peptidyl-tyrosine adenylylation GO:0030922 peptidyl-tyrosine dehydrogenation to form (E)-2,3-didehydrotyrosine GO:0030921 peptidyl-tyrosine dehydrogenation to form (Z)-2,3-didehydrotyrosine GO:1901920 peptidyl-tyrosine dephosphorylation involved in activation of protein kinase activity GO:0018165 peptidyl-tyrosine uridylylation GO:0018362 peroxidase-heme linkage via dihydroxyheme-L-aspartyl ester-L-glutamyl ester GO:0018363 peroxidase-heme linkage via dihydroxyheme-L-aspartyl ester-L-glutamyl ester-L-methionine sulfonium GO:0018185 poly-N-methyl-propylamination GO:0018032 protein amidation GO:0036291 protein cis-autophosphorylation GO:0018180 protein desulfurization GO:0071905 protein N-linked glucosylation via asparagine GO:0018244 protein N-linked glycosylation via tryptophan GO:0071904 protein N-linked N-acetylgalactosaminylation via asparagine GO:0071903 protein N-linked N-acetylglucosaminylation via asparagine GO:0018402 protein-chondroitin sulfate linkage via chondroitin sulfate D-glucuronyl-D-galactosyl-D-galactosyl-D-xylosyl-L-serine GO:0018403 protein-dermatan sulfate linkage via dermatan 4-sulfate D-glucuronyl-D-galactosyl-D-galactosyl-D-xylosyl-L-serine GO:0018297 protein-FAD linkage via 1'-(8alpha-FAD)-L-histidine GO:0018295 protein-FAD linkage via 3'-(8alpha-FAD)-L-histidine GO:0018296 protein-FAD linkage via O4'-(8alpha-FAD)-L-tyrosine GO:0018294 protein-FAD linkage via S-(8alpha-FAD)-L-cysteine GO:0046805 protein-heme linkage via 1'-L-histidine GO:0018182 protein-heme linkage via 3'-L-histidine GO:0018360 protein-heme P460 linkage via heme P460-bis-L-cysteine-L-lysine GO:0018359 protein-heme P460 linkage via heme P460-bis-L-cysteine-L-tyrosine GO:0018404 protein-heparan sulfate linkage via heparan sulfate D-glucuronyl-D-galactosyl-D-galactosyl-D-xylosyl-L-serine GO:0018405 protein-keratan sulfate linkage via keratan sulfate D-glucuronyl-D-galactosyl-D-galactosyl-D-xylosyl-L-threonine GO:0071915 protein-lysine lysylation GO:0072581 protein-N6-(L-lysyl)-L-lysine modification to protein-N6-(beta-lysyl)-L-lysine GO:0018355 protein-phosphoribosyl dephospho-coenzyme A linkage via O-(phosphoribosyl dephospho-coenzyme A)-L-serine GO:0018356 protein-phycobiliviolin linkage via S-phycobiliviolin-L-cysteine GO:0018353 protein-phycocyanobilin linkage via S-phycocyanobilin-L-cysteine GO:0018167 protein-phycoerythrobilin linkage via phycoerythrobilin-bis-L-cysteine GO:0018168 protein-phycoerythrobilin linkage via S-phycoerythrobilin-L-cysteine GO:0018357 protein-phycourobilin linkage via phycourobilin-bis-L-cysteine GO:0018358 protein-phytochromobilin linkage via S-phytochromobilin-L-cysteine GO:0018148 RNA-protein covalent cross-linking via peptidyl-tyrosine GO:0031162 sulfur incorporation into metallo-sulfur cluster GO:0036511 trimming of first mannose on A branch GO:0036512 trimming of second mannose on A branch GO:0036509 trimming of terminal mannose on B branch GO:0051221 tungsten incorporation into metallo-sulfur cluster GO:0051218 tungsten incorporation via L-selenocysteinyl tungsten bis(molybdopterin guanine dinucleotide) GO:0042039 vanadium incorporation into metallo-sulfur cluster GO:0042082 GSI anchor biosynthetic process GO:0050494 GSI anchor biosynthetic process via N-glycyl-glycosylsphingolipidinositolethanolamine GO:0018281 GSI anchor biosynthetic process via N-seryl-glycosylsphingolipidinositolethanolamine

RLovering commented 1 month ago

There are 3 UCL annotations as follows: UniProtKB:H3BPP0 CHRFAM7A involved_in GO:1903049 negative regulation of acetylcholine-gated cation channel activity ECO:0000314 IDA PMID:21718690
9606 Homo sapiens ParkinsonsUK-UCL has_input (UniProtKB:P36544) UniProtKB:P19224-3 UGT1A6 involved_in GO:1904224 negative regulation of glucuronosyltransferase activity ECO:0000250 ISS PMID:20610558
UniProtKB:Q9HAW9-2 9606 Homo sapiens BHF-UCL
UniProtKB:Q9HAW9-2 UGT1A8 involved_in GO:1904224 negative regulation of glucuronosyltransferase activity ECO:0000314 IDA PMID:20610558
9606 Homo sapiens BHF-UCL has_input (UniProtKB:Q9HAW7-1)

RLovering commented 1 month ago

in total there are 12 annotations - the others are TAIR: Symbol Qualifier GO Term Evidence Reference With / From Taxon Assigned By Annotation Extension

RLovering commented 1 month ago

3 UCL annotations all changed to inhibitor activities, ie UCL done

rozaru commented 1 month ago

GO:0016270 O-glycan processing, core 4 GO:0031041 O-glycan processing, core 5 GO:0031042 O-glycan processing, core 6 GO:0031043 O-glycan processing, core 7 GO:0031044 O-glycan processing, core 8

Just for consistency, will the other terms related to the ones above become obsolete as well? GO:0016269 O-glycan processing, core 3 1 annotation GO:0016268 O-glycan processing, core 2 4 annotation GO:0016267 O-glycan processing, core 1 0 annotation

See ticket #27105

pgaudet commented 1 month ago

Thanks for reporting this @RLovering !

It's always distressing to see discrepancies between QuickGO and AmiGO.

For the human genes, 2 are to isoforms, which we didn't use to load - but fortunately at the next release we will load these.

The third one, H3BPP0, is not in the file produced by GOA for human - I will follow up with @alexsign

pgaudet commented 1 month ago

For TAIR, I am not sure what happened.

Lookin at the current version of the TAIR file generated 2024-05-17

For GO:1905182 I see

Thanks once again!

Pascale

pgaudet commented 1 month ago

Hi @balhoff I reviewed the discrepancies reported by @RLovering , and we can go ahead with the obsoletion.

Thanks, Pascale

ValWood commented 1 month ago

I have done GO:0018244 protein N-linked glycosylation via tryptophan as part of another ticket so that I can do a merge of the remaining sibling into the paretn

balhoff commented 1 month ago

I think we also need to obsolete these, which regulate terms above:

@ValWood since Pascale is on vacation, could you let me know if I can go ahead and obsolete those three terms along with the rest here?

ValWood commented 1 month ago

Yes, these 3 terms should go. There is a single EXP annotation to "regulation of actin phosphorylation" but it may have already been fixed, and/or can be fixed from reports.