{ "bcoid": "GLY_000843", "title": "Dicty Glycosyltransferases", "description": "The Dicty Glycosyltransferases dataset contains list of dicty [taxid:44689] glycosyltransferases enzymes ...", "filename": "dicty_protein_glycosyltransferase.csv", "filetype": "csv", "categories": { "species": [ "Dictyostelium discoideum" ], "molecule": [ "Protein" ], "tag": [ "Glycosyltransferases" ], "file_type": [ "csv" ], "status": [ "Reviewed" ], "scope": [ "internal" ] }, "minitable": { "content": [ [ "P34114-1...", "Dictyosteliu..." ], [ "Q00766-1...", "Dictyosteliu..." ] ], "headers": [ "uniprotkb_ca...", "species..." ], "colwidth": [ "40%", "20%" ] }, "sampledata": { "type": "table", "data": [ [ { "type": "string", "label": "uniprotkb_canonical_ac" }, { "type": "string", "label": "species" }, { "type": "string", "label": "status" }, { "type": "string", "label": "gene_symbol" }, { "type": "string", "label": "uniprotkb_protein_name" }, { "type": "string", "label": "ec_number" }, { "type": "string", "label": "brenda_ec_number" }, { "type": "string", "label": "cazy_gt_family" }, { "type": "string", "label": "interpro_id" }, { "type": "string", "label": "pfam_ac" }, { "type": "string", "label": "go_molecular_function" } ], [ "P34114-1", "Dictyostelium discoideum (Social amoeba)", "reviewed", "glpD", "Glycogen phosphorylase 2 (GP2) (EC 2.4.1.1)", "2.4.1.1", "", "GT35", "IPR011833|IPR000811|IPR035090", "PF00343", "glycogen phosphorylase activity [GO:0008184]| identical protein binding [GO:0042802]| linear malto-oligosaccharide phosphorylase activity [GO:0102250]| pyridoxal phosphate binding [GO:0030170]| SHG alpha-glucan phosphorylase activity [GO:0102499]" ], [ "Q00766-1", "Dictyostelium discoideum (Social amoeba)", "reviewed", "glpV", "Glycogen phosphorylase 1 (GP1) (EC 2.4.1.1)", "2.4.1.1", "", "GT35", "IPR011833|IPR000811|IPR035090", "PF00343", "glycogen phosphorylase activity [GO:0008184]| linear malto-oligosaccharide phosphorylase activity [GO:0102250]| nucleotide binding [GO:0000166]| pyridoxal phosphate binding [GO:0030170]| SHG alpha-glucan phosphorylase activity [GO:0102499]" ], [ "Q54IL5-1", "Dictyostelium discoideum (Social amoeba)", "reviewed", "ugt52", "UDP-sugar-dependent glycosyltransferase 52 (EC 2.4.1.173) (Sterol 3-beta-glucosyltransferase) (UDP-glycosyltransferase 52)", "2.4.1.173", "2.4.1.173", "GT1", "IPR007235|IPR004276|IPR004182|IPR011993|IPR001849|IPR002213|IPR000306|IPR017455|IPR011011|IPR013083", "PF01363|PF04101|PF03033|PF02893|PF00169", "beta-sitosterol UDP-glucosyltransferase activity [GO:0051507]| brassicasterol glucosyltransferase activity [GO:0102203]| cholesterol alpha-glucosyltransferase activity [GO:0102205]| ergosterol UDP-glucosyltransferase activity [GO:0051506]| metal ion binding [GO:0046872]| soladodine glucosyltransferase activity [GO:0102202]| stigmasterol UDP-glucosyltransferase activity [GO:0051508]| tomatidine UDP-glucosyltransferase activity [GO:0051509]" ], [ "Q54QG0-1", "Dictyostelium discoideum (Social amoeba)", "reviewed", "pgtA", "Bifunctional glycosyltransferase pgtA (FT85) [Includes: N-acetylglucosamine 3-beta-galactosyltransferase (EC 2.4.1.-); Alpha-1,2-fucosyltransferase (EC 2.4.1.69)]", "2.4.1.-| 2.4.1.69", "", "GT2|GT74", "IPR001173|IPR029044", "PF00535", "alpha-(1,2)-fucosyltransferase activity [GO:0031127]| fucosyltransferase activity [GO:0008417]| galactoside 2-alpha-L-fucosyltransferase activity [GO:0008107]| glycoprotein-N-acetylgalactosamine 3-beta-galactosyltransferase activity [GO:0016263]" ], [ "Q54RP0-1", "Dictyostelium discoideum (Social amoeba)", "reviewed", "agtA", "UDP-galactose:fucoside alpha-3-galactosyltransferase (EC 2.4.1.37) (Alpha-GalT1) (Fucosylgalactoside 3-alpha-galactosyltransferase) (Skp1 alpha-3-galactosyltransferase)", "2.4.1.37", "", "GT77", "IPR020472|IPR005069|IPR015943|IPR019775|IPR036322|IPR001680", "PF03407|PF00400", "fucosylgalactoside 3-alpha-galactosyltransferase activity [GO:0004381]" ], [ "Q8T1C6-1", "Dictyostelium discoideum (Social amoeba)", "reviewed", "gnt1", "[Skp1-protein]-hydroxyproline N-acetylglucosaminyltransferase (EC 2.4.1.229) (Glycosyltransferase GnT51) (Skp1-HyPro GlcNAc-transferase) (UDP-GlcNAc:Skp1-hydroxyproline GlcNAc-transferase) (Skp1 GlcNAc-Tase) (UDP-GlcNAc:hydroxyproline polypeptide GlcNAc-transferase)", "2.4.1.229", "2.4.1.229", "GT60", "IPR021067|IPR029044", "PF11397", "acetylglucosaminyltransferase activity [GO:0008375]| metal ion binding [GO:0046872]| Skp1-protein-hydroxyproline N-acetylglucosaminyltransferase activity [GO:0033830]" ], [ "Q9U720-1", "Dictyostelium discoideum (Social amoeba)", "reviewed", "dcsA", "Cellulose synthase catalytic subunit A [UDP-forming] (DcsA) (EC 2.4.1.12)", "2.4.1.12", "", "GT2", "IPR001173|IPR029044", "PF13632", "cellulose synthase (UDP-forming) activity [GO:0016760]" ], [ "P90522-1", "Dictyostelium discoideum (Social amoeba)", "reviewed", "alg1", "Chitobiosyldiphosphodolichol beta-mannosyltransferase (EC 2.4.1.142) (Asparagine-linked glycosylation protein 1 homolog) (Beta-1,4-mannosyltransferase) (GDP-Man:GlcNAc2-PP-dolichol mannosyltransferase) (GDP-mannose-dolichol diphosphochitobiose mannosyltransferase)", "2.4.1.142", "", "GT33", "IPR026051|IPR001296", "PF00534", "chitobiosyldiphosphodolichol beta-mannosyltransferase activity [GO:0004578]| mannosyltransferase activity [GO:0000030]" ], [ "Q54LP3-1", "Dictyostelium discoideum (Social amoeba)", "reviewed", "dpm1", "Dolichol-phosphate mannosyltransferase subunit 1 (EC 2.4.1.83) (Dolichol-phosphate mannose synthase subunit 1) (DPM synthase subunit 1) (Dolichyl-phosphate beta-D-mannosyltransferase subunit 1) (Mannose-P-dolichol synthase subunit 1) (MPD synthase subunit 1)", "2.4.1.83", "", "", "IPR039528|IPR001173|IPR029044", "PF00535", "dolichyl-phosphate beta-D-mannosyltransferase activity [GO:0004582]| dolichyl-phosphate-mannose-protein mannosyltransferase activity [GO:0004169]| metal ion binding [GO:0046872]" ], [ "Q55GH4-1", "Dictyostelium discoideum (Social amoeba)", "reviewed", "glcS", "Glycogen [starch] synthase (EC 2.4.1.11)", "2.4.1.11", "", "", "IPR008631", "PF05693", "glycogen (starch) synthase activity [GO:0004373]" ], [ "Q54DM9-1", "Dictyostelium discoideum (Social amoeba)", "reviewed", "alg11", "GDP-Man:Man(3)GlcNAc(2)-PP-Dol alpha-1,2-mannosyltransferase (EC 2.4.1.131) (Asparagine-linked glycosylation protein 11 homolog) (Glycolipid 2-alpha-mannosyltransferase)", "2.4.1.131", "", "", "IPR038013|IPR031814|IPR001296", "PF15924|PF00534", "alpha-1,2-mannosyltransferase activity [GO:0000026]| GDP-Man:Man3GlcNAc2-PP-Dol alpha-1,2-mannosyltransferase activity [GO:0004377]" ], [ "Q54IA4-1", "Dictyostelium discoideum (Social amoeba)", "reviewed", "pigm", "GPI mannosyltransferase 1 (EC 2.4.1.-) (GPI mannosyltransferase I) (GPI-MT-I) (Phosphatidylinositol-glycan biosynthesis class M protein) (PIG-M)", "2.4.1.-", "", "", "IPR007704", "PF05007", "alpha-1,4-mannosyltransferase activity [GO:0051751]| glycolipid mannosyltransferase activity [GO:0004376]| mannosyltransferase activity [GO:0000030]" ], [ "Q54J42-1", "Dictyostelium discoideum (Social amoeba)", "reviewed", "alg5", "Dolichyl-phosphate beta-glucosyltransferase (DolP-glucosyltransferase) (EC 2.4.1.117) (Asparagine-linked glycosylation protein 5 homolog)", "2.4.1.117", "", "GT2", "IPR035518|IPR001173|IPR029044", "PF00535", "dolichyl-phosphate beta-glucosyltransferase activity [GO:0004581]" ], [ "Q54K57-1", "Dictyostelium discoideum (Social amoeba)", "reviewed", "tpsA", "Alpha,alpha-trehalose-phosphate synthase [UDP-forming] A (EC 2.4.1.15) (Trehalose-6-phosphate synthase A) (UDP-glucose-glucosephosphate glucosyltransferase A)", "2.4.1.15", "", "", "IPR001830|IPR036412|IPR023214|IPR012766|IPR003337", "PF00982|PF02358", "alpha,alpha-trehalose-phosphate synthase (UDP-forming) activity [GO:0003825]" ], [ "Q54M40-1", "Dictyostelium discoideum (Social amoeba)", "reviewed", "pigC", "Putative phosphatidylinositol N-acetylglucosaminyltransferase subunit C (EC 2.4.1.198) (Phosphatidylinositol-glycan biosynthesis class C protein) (PIG-C)", "2.4.1.198", "", "", "IPR009450", "PF06432", "phosphatidylinositol N-acetylglucosaminyltransferase activity [GO:0017176]" ], [ "Q54NM9-1", "Dictyostelium discoideum (Social amoeba)", "reviewed", "stt3", "Dolichyl-diphosphooligosaccharide--protein glycosyltransferase subunit STT3 (Oligosaccharyl transferase subunit STT3) (EC 2.4.99.18)", "2.4.99.18", "", "", "IPR003674", "PF02516", "dolichyl-diphosphooligosaccharide-protein glycotransferase activity [GO:0004579]| metal ion binding [GO:0046872]" ], [ "Q54NU9-1", "Dictyostelium discoideum (Social amoeba)", "reviewed", "tpsB", "Alpha,alpha-trehalose-phosphate synthase [UDP-forming] B (EC 2.4.1.15) (Trehalose-6-phosphate synthase B) (UDP-glucose-glucosephosphate glucosyltransferase B)", "2.4.1.15", "", "", "IPR001830|IPR036412|IPR006379|IPR023214|IPR003337", "PF00982|PF02358", "alpha,alpha-trehalose-phosphate synthase (UDP-forming) activity [GO:0003825]" ], [ "Q54QG6-1", "Dictyostelium discoideum (Social amoeba)", "reviewed", "alg6", "Probable dolichyl pyrophosphate Man9GlcNAc2 alpha-1,3-glucosyltransferase (EC 2.4.1.267) (Asparagine-linked glycosylation protein 6 homolog) (Dol-P-Glc:Man(9)GlcNAc(2)-PP-Dol alpha-1,3-glucosyltransferase) (Dolichyl-P-Glc:Man9GlcNAc2-PP-dolichyl glucosyltransferase)", "2.4.1.267", "", "", "IPR004856", "PF03155", "dolichyl pyrophosphate Man9GlcNAc2 alpha-1,3-glucosyltransferase activity [GO:0042281]" ], [ "Q554E2-1", "Dictyostelium discoideum (Social amoeba)", "reviewed", "alg8", "Probable dolichyl pyrophosphate Glc1Man9GlcNAc2 alpha-1,3-glucosyltransferase (EC 2.4.1.265) (Asparagine-linked glycosylation protein 8 homolog) (Dol-P-Glc:Glc(1)Man(9)GlcNAc(2)-PP-dolichyl alpha-1,3-glucosyltransferase) (Dolichyl-P-Glc:Glc1Man9GlcNAc2-PP-dolichyl glucosyltransferase)", "2.4.1.265", "", "GT57", "IPR004856", "PF03155", "dolichyl pyrophosphate Glc1Man9GlcNAc2 alpha-1,3-glucosyltransferase activity [GO:0042283]" ], [ "Q555Q9-1", "Dictyostelium discoideum (Social amoeba)", "reviewed", "glgB", "1,4-alpha-glucan-branching enzyme (EC 2.4.1.18) (Glycogen-branching enzyme)", "2.4.1.18", "", "CBM48|GH13", "IPR006048|IPR037439|IPR006047|IPR004193|IPR013780|IPR017853|IPR013783|IPR014756", "PF00128|PF02806|PF02922", "1,4-alpha-glucan branching enzyme activity [GO:0003844]| 1,4-alpha-glucan branching enzyme activity (using a glucosylated glycogenin as primer for glycogen synthesis) [GO:0102752]| cation binding [GO:0043169]| hydrolase activity, hydrolyzing O-glycosyl compounds [GO:0004553]" ], [ "Q55F69-1", "Dictyostelium discoideum (Social amoeba)", "reviewed", "alg3", "Probable Dol-P-Man:Man(5)GlcNAc(2)-PP-Dol alpha-1,3-mannosyltransferase (EC 2.4.1.258) (Asparagine-linked glycosylation protein 3 homolog) (Dol-P-Man-dependent alpha(1-3)-mannosyltransferase) (Dolichyl-phosphate-mannose--glycolipid alpha-mannosyltransferase)", "2.4.1.258", "", "", "IPR007873", "PF05208", "alpha-1,3-mannosyltransferase activity [GO:0000033]| dol-P-Man:Man(5)GlcNAc(2)-PP-Dol alpha-1,3-mannosyltransferase activity [GO:0052925]" ], [ "Q7KWM5-1", "Dictyostelium discoideum (Social amoeba)", "reviewed", "alg2", "Alpha-1,3/1,6-mannosyltransferase ALG2 (EC 2.4.1.132) (EC 2.4.1.257) (Asparagine-linked glycosylation protein 2 homolog) (GDP-Man:Man(1)GlcNAc(2)-PP-Dol alpha-1,3-mannosyltransferase) (GDP-Man:Man(1)GlcNAc(2)-PP-dolichol mannosyltransferase) (GDP-Man:Man(2)GlcNAc(2)-PP-Dol alpha-1,6-mannosyltransferase)", "2.4.1.132| 2.4.1.257", "", "", "IPR027054|IPR001296|IPR028098", "PF13439|PF00534", "alpha-1,3-mannosyltransferase activity [GO:0000033]| GDP-Man:Man1GlcNAc2-PP-Dol alpha-1,3-mannosyltransferase activity [GO:0004378]| GDP-Man:Man2GlcNAc2-PP-dolichol alpha-1,6-mannosyltransferase activity [GO:0102704]| glycolipid mannosyltransferase activity [GO:0004376]" ], [ "Q8T191-1", "Dictyostelium discoideum (Social amoeba)", "reviewed", "ggtA", "Probable UDP-glucose:glycoprotein glucosyltransferase A (EC 2.4.1.-) (Developmental gene 1109 protein)", "2.4.1.-", "", "GT24", "IPR040497|IPR029044|IPR009448|IPR040693|IPR040694|IPR040692", "PF18404|PF18400|PF18401|PF18402|PF06427", "UDP-glucose:glycoprotein glucosyltransferase activity [GO:0003980]| unfolded protein binding [GO:0051082]" ], [ "Q8MXQ3-1", "Dictyostelium discoideum (Social amoeba)", "reviewed", "", "Protein O-mannosyl-transferase tmem260 (EC 2.4.1.109) (Transmembrane protein 260 homolog)", "2.4.1.109", "", "", "IPR021280", "PF11028", "dolichyl-phosphate-mannose-protein mannosyltransferase activity [GO:0004169]" ] ] }, "readme": "Name\n - Dicty Glycosyltransferases\n\nVersion\n - v-2.3.1\n\nCreated on\n - \n\nModified on\n - 2024-01-09T04:43:26\n\nCreated by\n - Jeet Vora [jeetvora@gwu.edu], Karina Martinez [karinamartinez@gwu.edu], Robel Kahsay [rykahsay@gwu.edu], Jingyue Wu [jingyue.wu@email.gwu.edu]\n\nAuthors\n - \n\nChecksum\n - \n\nUsability Domain\n - The Dicty Glycosyltransferases dataset contains list of dicty [taxid:44689] glycosyltransferases enzymes with evidence of glycosyltransferase activity defined by one or several of the following criteria: gene ontology (GO) or UniProtKB/Swiss-Prot annotation; classification by CAZY database; inclusion in the GT panel developed by the Consortium of Functional Glycomics (CFG); domains reported by InterPro and Pfam. The dataset was created by: Proteomes, gene and protein lists were retrieved from UniProtKB/Swiss-Prot. The full set of proteins comprising the dicty proteome was retrieved with the following search terms: keyword:\\\"Complete proteome [KW-0181]\\\" (now removed from UniProtKB) AND reviewed:yes AND organism:\\\"Dictyostelium discoideum (Dicty) [44689]\\\". To retrieve the list of all dicty glycosyltransferases, the full list of dicty proteins were filtered using Gene Ontology (GO) terms, with molecular function GO term, GO:0016757 transferase activity, transferring glycosyl groups, each corresponding to a unique gene. To ensure the gene list was comprehensive with respect to available annotations, entries were cross-referenced with two external glycomics databases: the Carbohydrate Active Enzymes database (CAZY, http://www.cazy.org/), the Consortium for Functional Glycomics (CFG) functional glycomics gateway (http://www.functionalglycomics.org/), BRENDA (https://www.brenda-enzymes.org/index.php) and Enzyme Portal (https://www.ebi.ac.uk/enzymeportal/). The list was then filtered to remove any duplicate references resulting from cross-database redundancy or secondary accessions. Entries not already contained in the GO-derived glycosyltransferase gene list were added to the list. InterPro and Pfam accessions were then retrieved for all genes currently in the list. For GlyGen, GTs that were not part of glycan metabolism were removed to produce a manually curated list of glycosyltransferase. If you use this dataset please provide proper attribution to UniProtKB and GlyGen\n\nDescription Domain\n Keywords\n - GT\n - glycosyltransferase\n - CAZy\n - CFG\n - EC EC Number\n - GO\n\n Pipeline Steps\n - Step-1: The script maps and replaces the UniProtKb accession to the UniProtKB canonical accession\n\nExecution Domain\n Scripts - https://github.com/glygener/glygen-backend-integration/blob/master/dataset-maker/make-protein-dataset.py\n\n\n Software Prerequisites\n Name: Python\n Version: 2.7.5\n URI: https://www.python.org/download/releases/2.7.5/\n\nI/O Domain\n Input Subdomain\n Name: dicty_protein_glycosyltransferase.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.3.1/compiled/dicty_protein_glycosyltransferase.csv\n Name: dicty_protein_masterlist.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.3.1/reviewed/dicty_protein_masterlist.csv\n Output Subdomain\n Name: dicty_protein_glycosyltransferase.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.3.1/reviewed/dicty_protein_glycosyltransferase.csv\n Name: dicty_protein_glycosyltransferase.stat.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.3.1/reviewed/dicty_protein_glycosyltransferase.stat.csv\n\nFields\n Name: \"uniprotkb_canonical_ac\"\n Description: \"\"\n Unique Values: \"24\"\n Name: \"species\"\n Description: \"Species of the protein.\"\n Unique Values: \"1\"\n Name: \"status\"\n Description: \"Status of the protein record in UniProtKB database that can be reviewed for UniProtKB/Swiss-Prot entry or unreviewed for UniProtKB/TrEMBL entry\"\n Unique Values: \"1\"\n Name: \"gene_symbol\"\n Description: \"\"Official gene name/symbol assigned to the gene. Human gene names/symbols are approved by the HUGO Gene Nomenclature Committee (HGNC)\"\n Unique Values: \"24\"\n Name: \"uniprotkb_protein_name\"\n Description: \"Name of the protein in UniProtKB database\"\n Unique Values: \"24\"\n Name: \"ec_number\"\n Description: \"Enzyme Commision number assigned to an enzyme by Nomenclature Committee of the International Union of Biochemistry and Molecular Biology (IUBMB)\"\n Unique Values: \"21\"\n Name: \"brenda_ec_number\"\n Description: \"Enzyme Commission (EC) number assigned to enzyme in BRENDA database\"\n Unique Values: \"3\"\n Name: \"cazy_gt_family\"\n Description: \"The Family assigned to glycosyltransferase in the CAZy (Carbohydrate-Active enZYmes) database\"\n Unique Values: \"11\"\n Name: \"interpro_id\"\n Description: \"InterPro Identifier\"\n Unique Values: \"21\"\n Name: \"pfam_ac\"\n Description: \"Accession assigned to the protein family in the Pfam database\"\n Unique Values: \"19\"\n Name: \"go_molecular_function\"\n Description: \"\"The elemental activities of a gene product at the molecular level\"\n Unique Values: \"23\"", "downloadurl": "/ln2data/releases/data/v-2.3.1/reviewed/dicty_protein_glycosyltransferase.csv" }