IntAct European Bioinformatics Institute IntAct intact http://www.ebi.ac.uk/ http://www.ebi.ac.uk/intact/query/${ac} EBI-[0-9]+|IA:[0-9]+ INTerAction database (IntAct) provides an open source database and toolkit for the storage, presentation and analysis of molecular interactions. http://www.ebi.ac.uk/intact European Bioinformatics Institute; Wellcome Trust Genome Campus; Hinxton, Cambridge; CB10 1SD; United Kingdom http://www.ebi.ac.uk/intact/ http://www.ebi.ac.uk/ wen-2014-1 in vitro In vitro phosphotransferase phosphotransferase assay phosphotransferase weight autoradiogra molecular weight estimation by autoradiography weight autoradiogra Wen J., Xiao J., Rahdar M., Choudhury BP., Cui J., Taylor GS., Esko JD., Dixon JE., Wen J., Xiao J., Rahdar M., Choudhury BP., Cui J., Taylor GS., Esko JD., Dixon JE. DCN, GPC1, SDC1, and SDC4 ORFs were subcloned into pCCF (with a C-terminal FLAG tag), AND a modified pDisplay expression plasmid encoding a C-terminal strep-tag;however in most instances it is not stated which plasmid was used. cDNAs for Human Decorin (DCN), SCDC4/1 and B3GALT6 were obtained from DNASU. Using the Gene name as the search term on the DNASU website, only human cDNAs are found. jedixon@ucsd.edu Proceedings of the National Academy of Sciences of the United States of America 2014 imex curation Only protein-protein interactions wen-2014-2 in vitro In vitro phosphotransferase phosphotransferase assay phosphotransferase tag visualisation tag visualisation Wen J., Xiao J., Rahdar M., Choudhury BP., Cui J., Taylor GS., Esko JD., Dixon JE., Wen J., Xiao J., Rahdar M., Choudhury BP., Cui J., Taylor GS., Esko JD., Dixon JE. DCN, GPC1, SDC1, and SDC4 ORFs were subcloned into pCCF (with a C-terminal FLAG tag), AND a modified pDisplay expression plasmid encoding a C-terminal strep-tag;however in most instances it is not stated which plasmid was used. cDNAs for Human Decorin (DCN), SCDC4/1 and B3GALT6 were obtained from DNASU. Using the Gene name as the search term on the DNASU website, only human cDNAs are found. jedixon@ucsd.edu Proceedings of the National Academy of Sciences of the United States of America 2014 imex curation Only protein-protein interactions wen-2014-4 in vitro In vitro phosphotransferase phosphotransferase assay phosphotransferase ms participant Identification by mass spectrometry ms participant Wen J., Xiao J., Rahdar M., Choudhury BP., Cui J., Taylor GS., Esko JD., Dixon JE., Wen J., Xiao J., Rahdar M., Choudhury BP., Cui J., Taylor GS., Esko JD., Dixon JE. DCN, GPC1, SDC1, and SDC4 ORFs were subcloned into pCCF (with a C-terminal FLAG tag), AND a modified pDisplay expression plasmid encoding a C-terminal strep-tag;however in most instances it is not stated which plasmid was used. cDNAs for Human Decorin (DCN), SCDC4/1 and B3GALT6 were obtained from DNASU. Using the Gene name as the search term on the DNASU website, only human cDNAs are found. jedixon@ucsd.edu Proceedings of the National Academy of Sciences of the United States of America 2014 imex curation Only protein-protein interactions wen-2014-3 in vitro In vitro enzymatic study enzymatic study tag visualisation tag visualisation Wen J., Xiao J., Rahdar M., Choudhury BP., Cui J., Taylor GS., Esko JD., Dixon JE., Wen J., Xiao J., Rahdar M., Choudhury BP., Cui J., Taylor GS., Esko JD., Dixon JE. DCN, GPC1, SDC1, and SDC4 ORFs were subcloned into pCCF (with a C-terminal FLAG tag), AND a modified pDisplay expression plasmid encoding a C-terminal strep-tag;however in most instances it is not stated which plasmid was used. Galactosyl-transferase assay cDNAs for Human Decorin (DCN), SCDC4/1 and B3GALT6 were obtained from DNASU. Using the Gene name as the search term on the DNASU website, only human cDNAs are found. jedixon@ucsd.edu Proceedings of the National Academy of Sciences of the United States of America 2014 imex curation Only protein-protein interactions pgs2_human Decorin DCN SLRR1B Bone proteoglycan II PG-S2 PG40 protein protein human Homo sapiens Human MKATIILLLLAQVSWAGPFQQRGLFDFMLEDEASGIGPEVPDDRDFEPSLGPVCPFRCQCHLRVVQCSDLGLDKVPKDLPPDTTLLDLQNNKITEIKDGDFKNLKNLHALILVNNKISKVSPGAFTPLVKLERLYLSKNQLKELPEKMPKTLQELRAHENEITKVRKVTFNGLNQMIVIELGTNPLKSSGIENGAFQGMKKLSYIRIADTNITSIPQGLPPSLTELHLDGNKISRVDAASLKGLNNLAKLGLSFNSISAVDNGSLANTPHLRELHLDNNKLTRVPGGLAEHKYIQVVYLHNNNISVVGSSDFCPPGHNTKKASYSGVSLFSNPVQYWEIQPSTFRCVYVRSAIQLGNYK xylk_human Glycosaminoglycan xylosylkinase FAM20B KIAA0475 Xylose kinase protein protein human Homo sapiens Human MKLKQRVVLLAILLVIFIFTKVFLIDNLDTSAANREDQRAFHRMMTGLRVELAPKLDHTLQSPWEIAAQWVVPREVYPEETPELGAVMHAMATKKIIKADVGYKGTQLKALLILEGGQKVVFKPKRYSRDHVVEGEPYAGYDRHNAEVAAFHLDRILGFHRAPLVVGRFVNLRTEIKPVATEQLLSTFLTVGNNTCFYGKCYYCRETEPACADGDIMEGSVTLWLPDVWPLQKHRHPWGRTYREGKLARWEYDESYCDAVKKTSPYDSGPRLLDIIDTAVFDYLIGNADRHHYESFQDDEGASMLILLDNAKSFGNPSLDERSILAPLYQCCIIRVSTWNRLNYLKNGVLKSALKSAMAHDPISPVLSDPHLDAVDQRLLSVLATVKQCTDQFGMDTVLVEDRMPLSHL sdc1_human Syndecan-1 SDC1 SDC protein protein human Homo sapiens Human MRRAALWLWLCALALSLQPALPQIVATNLPPEDQDGSGDDSDNFSGSGAGALQDITLSQQTPSTWKDTQLLTAIPTSPEPTGLEATAASTSTLPAGEGPKEGEAVVLPEVEPGLTAREQEATPRPRETTQLPTTHLASTTTATTAQEPATSHPHRDMQPGHHETSTPAGPSQADLHTPHTEDGGPSATERAAEDGASSQLPAAEGSGEQDFTFETSGENTAVVAVEPDRRNQSPVDQGATGASQGLLDRKEVLGGVIAGGLVGLIFAVCLVGFMLYRMKKKDEGSYSLEEPKQANGGAYQKPTKQEEFYA sdc4_human Syndecan-4 SDC4 Amphiglycan Ryudocan core protein protein protein human Homo sapiens Human MAPARLFALLLFFVGGVAESIRETEVIDPQDLLEGRYFSGALPDDEDVVGPGQESDDFELSGSGDLDDLEDSMIGPEVVHPLVPLDNHIPERAGSGSQVPTEPKKLEENEVIPKRISPVEESEDVSNKVSMSSTVQGSNIFERTEVLAALIVGGIVGILFAVFLILLLMYRMKKKDEGSYDLGKKPIYKKAPTNEFYA pgca_bovin Aggrecan core protein ACAN AGC1 Cartilage-specific proteoglycan core protein protein protein bovin Bos taurus (Bovine) Bovine MTTLLLVFVTLRVITAAISVEVSEPDNSLSVSIPEPSPLRVLLGSSLTIPCYFIDPMHPVTTAPSTAPLAPRIKWSRISKEKEVVLLVATEGRVRVNSAYQDKVTLPNYPAIPSDATLEIQNMRSNDSGILRCEVMHGIEDSQATLEVVVKGIVFHYRAISTRYTLDFDRAQRACLQNSAIIATPEQLQAAYEDGFHQCDAGWLADQTVRYPIHTPREGCYGDKDEFPGVRTYGIRDTNETYDVYCFAEEMEGEVFYATSPEKFTFQEAANECRRLGARLATTGQLYLAWQGGMDMCSAGWLADRSVRYPISKARPNCGGNLLGVRTVYLHANQTGYPDPSSRYDAICYTGEDFVDIPESFFGVGGEEDITIQTVTWPDVELPLPRNITEGEARGSVILTAKPDFEVSPTAPEPEEPFTFVPEVRATAFPEVENRTEEATRPWAFPRESTPGLGAPTAFTSEDLVVQVTLAPGAAEVPGQPRLPGGVVFHYRPGSSRYSLTFEEAKQACLRTGAIIASPEQLQAAYEAGYEQCDAGWLQDQTVRYPIVSPRTPCVGDKDSSPGVRTYGVRPPSETYDVYCYVDRLEGEVFFATRLEQFTFWEAQEFCESQNATLATTGQLYAAWSRGLDKCYAGWLADGSLRYPIVTPRPACGGDKPGVRTVYLYPNQTGLLDPLSRHHAFCFRGVSAAPSPEEEEGSAPTAGPDVEEWMVTQVGPGVAAVPIGEETTAIPGFTVEPENKTEWELAYTPAGTLPLPGIPPTWPPTGEATEEHTEGPSATEVPSASEKPFPSEEPFPPEEPFPSEKPFPPEELFPSEKPFPSEKPFPSEEPFPSEKPFPPEELFPSEKPIPSEEPFPSEEPFPSEKPFPPEEPFPSEKPIPSEEPFPSEKPFPSEEPFPSEEPSTLSAPVPSRTELPSSGEVSGVPEISGDFTGSGEISGHLDFSGQPSGESASGLPSEDLDSSGLTSTVGSGLPVESGLPSGEEERITWTSAPKVDRLPSGGEGPEVSGVEDISGLPSGGEVHLEISASGVEDISGLPSGGEVHLEISASGVEDLSRIPSGEGPEISASGVEDISGLPSGEEGHLEISASGVEDLSGIPSGEGPEVSASGVEDLIGLPSGEGPEVSASGVEDLSRLPSGEGPEVSASGVEDLSGLPSGEGPEVSVSGVEDLSRLPSGEGPEVSASGVEDLSRLPSGEGPEISVSGVEDISILPSGEGPEVSASGVEDLSVLPSGEGHLEISTSGVEDLSVLPSGEGHLETSSGVEDISRLPSGEGPEVSASGVEDLSVLPSGEDHLEISASGVEDLGVLPSGEDHLEISASGVEDISRLPSGEGPEVSASGVEDLSVLPSGEGHLEISASGVEDLSRLPSGGEDHLETSASGVGDLSGLPSGREGLEISASGAGDLSGLTSGKEDLTGSASGALDLGRIPSVTLGSGQAPEASGLPSGFSGEYSGVDLESGPSSGLPDFSGLPSGFPTVSLVDTTLVEVVTATTAGELEGRGTIDISGAGETSGLPFSELDISGGASGLSSGAELSGQASGSPDISGETSGLFGVSGQPSGFPDISGETSGLLEVSGQPSGFYGEISGVTELSGLASGQPEISGEASGILSGLGPPFGITDLSGEAPGIPDLSGQPSGLPEFSGTASGIPDLVSSAVSGSGESSGITFVDTSLVEVTPTTFKEEEGLGSVELSGLPSGELGVSGTSGLADVSGLSSGAIDSSGFTSQPPEFSGLPSGVTEVSGEASGAESGSSLPSGAYDSSGLPSGFPTVSFVDRTLVESVTQAPTAQEAGEGPSGILELSGAPSGAPDMSGDHLGSLDQSGLQSGLVEPSGEPASTPYFSGDFSGTTDVSGESSAATSTSGEASGLPEVTLITSELVEGVTEPTVSQELGQRPPVTYTPQLFESSGEASASGDVPRFPGSGVEVSSVPESSGETSAYPEAEVGASAAPEASGGASGSPNLSETTSTFHEADLEGTSGLGVSGSPSAFPEGPTEGLATPEVSGESTTAFDVSVEASGSPSATPLASGDRTDTSGDLSGHTSGLDIVISTTIPESEWTQQTQRPAEARLEIESSSPVHSGEESQTADTATSPTDASIPASAGGTDDSEATTTDIDECLSSPCLNGATCVDAIDSFTCLCLPSYQGDVCEIQKLCEEGWTKFQGHCYRHFPDRATWVDAESQCRKQQSHLSSIVTPEEQEFVNNNAQDYQWIGLNDKTIEGDFRWSDGHSLQFENWRPNQPDNFFATGEDCVVMIWHEKGEWNDVPCNYQLPFTCKKGTVACGEPPVVEHARIFGQKKDRYEINALVRYQCTEGFIQGHVPTIRCQPSGHWEEPRITCTDPATYKRRLQKRSSRPLRRSHPSTAH gpc1_human Glypican-1 GPC1 protein protein human Homo sapiens Human MELRARGWWLLCAAAALVACARGDPASKSRSCGEVRQIYGAKGFSLSDVPQAEISGEHLRICPQGYTCCTSEMEENLANRSHAELETALRDSSRVLQAMLATQLRSFDDHFQHLLNDSERTLQATFPGAFGELYTQNARAFRDLYSELRLYYRGANLHLEETLAEFWARLLERLFKQLHPQLLLPDDYLDCLGKQAEALRPFGEAPRELRLRATRAFVAARSFVQGLGVASDVVRKVAQVPLGPECSRAVMKLVYCAHCLGVPGARPCPDYCRNVLKGCLANQADLDAEWRNLLDSMVLITDKFWGTSGVESVIGSVHTWLAEAINALQDNRDTLTAKVIQGCGNPKVNPQGPGPEEKRRRGKLAPRERPPSGTLEKLVSEAKAQLRDVQDFWISLPGTLCSEKMALSTASDDRCWNGMARGRYLPEVMGDGLANQINNPEVEVDITKPDMTIRQQIMQLKIMTNRLRSAYNGNDVDFQDASDDGSGSGSGDGCLDDLCSRKVSRKSSSSRTPLTHALPGLSEQEGQKTSAASCPQPPTFLLPLLLFLALTVARPRWR Cell surface proteoglycan that bears heparan sulfate mint tetra-ben Tetra-Ben small molecule small molecule chemical synthesis Chemical synthesis (Chemical synthesis) gal-xyl-ben Gal-Xyl-Ben small molecule small molecule chemical synthesis Chemical synthesis (Chemical synthesis) b3gt6_human Beta-1,3-galactosyltransferase 6 B3GALT6 GAG GalTII Galactosyltransferase II Galactosylxylosylprotein 3-beta-galactosyltransferase UDP-Gal:betaGal beta 1,3-galactosyltransferase polypeptide 6 protein protein human Homo sapiens Human MKLLRRAWRRRAALGLGTLALCGAALLYLARCAAEPGDPRAMSGRSPPPPAPARAAAFLAVLVASAPRAAERRSVIRSTWLARRGAPGDVWARFAVGTAGLGAEERRALEREQARHGDLLLLPALRDAYENLTAKVLAMLAWLDEHVAFEFVLKADDDSFARLDALLAELRAREPARRRRLYWGFFSGRGRVKPGGRWREAAWQLCDYYLPYALGGGYVLSADLVHYLRLSRDYLRAWHSEDVSLGAWLAPVDVQREHDPRFDTEYRSRGCSNQYLVTHKQSLEDMLEKHATLAREGRLCKREVQLRLSYVYDWSAPPSQCCQRREGIP dcn-fam20b-3 2825439 N/A 2825443 enzyme target enzyme target substrate substrate neutral component neutral component c_terminus flag tag flag tag FLAG-tagged FLAG DYKDDDDKV epitope tag DYKDDDDKV epitope tag FLAG FLAG-tagged c-term range C-terminal range c-term range c-term range C-terminal range c-term range false P07585:p.Ser34Ala mutation disrupting rate mutation disrupting interaction rate mutation disrupting rate certain certain sequence position certain certain certain sequence position certain false human-293t Homo sapiens 293 cells transformed with SV40 large T antigen 293t 293 cells expressing SV40 large T antigen. The original designation of this cell line was 293tsA1609neo. It is not in Cabri,ATCC or HyperCLDB. N/A 2825444 enzyme enzyme neutral component neutral component O75063:p.Asp309Ala mutation disrupting rate mutation disrupting interaction rate mutation disrupting rate certain certain sequence position certain certain certain sequence position certain false trini-high_5 Trichoplusia ni cell line from eggs high_5 Insect cell line from Trichoplusia ni egg cells Invitrogen supplies this cell line. Invitrogen supply this cell line. phosphorylation phosphorylation reaction phosphorylation false false false 1C, supp 1 fam20b-sdc1-1 2825439 N/A 2825445 enzyme target enzyme target substrate substrate neutral component neutral component human-293t Homo sapiens 293 cells transformed with SV40 large T antigen 293t 293 cells expressing SV40 large T antigen. The original designation of this cell line was 293tsA1609neo. It is not in Cabri,ATCC or HyperCLDB. N/A 2825444 enzyme enzyme neutral component neutral component O75063:p.Asp309Ala mutation disrupting rate mutation disrupting interaction rate mutation disrupting rate certain certain sequence position certain certain certain sequence position certain false trini-high_5 Trichoplusia ni cell line from eggs high_5 Insect cell line from Trichoplusia ni egg cells Invitrogen supplies this cell line. Invitrogen supply this cell line. phosphorylation phosphorylation reaction phosphorylation false false false supp 2B fam20b-sdc4-1 2825439 N/A 2825446 enzyme target enzyme target substrate substrate neutral component neutral component human-293t Homo sapiens 293 cells transformed with SV40 large T antigen 293t 293 cells expressing SV40 large T antigen. The original designation of this cell line was 293tsA1609neo. It is not in Cabri,ATCC or HyperCLDB. N/A 2825444 enzyme enzyme neutral component neutral component O75063:p.Asp309Ala mutation disrupting rate mutation disrupting interaction rate mutation disrupting rate certain certain sequence position certain certain certain sequence position certain false trini-high_5 Trichoplusia ni cell line from eggs high_5 Insect cell line from Trichoplusia ni egg cells Invitrogen supplies this cell line. Invitrogen supply this cell line. phosphorylation phosphorylation reaction phosphorylation false false false supp 2A fam20b-sdc4-2 2825439 N/A 2825447 enzyme target enzyme target substrate substrate neutral component neutral component bovin-cartilage Bos taurus cartilage Cartilage N/A 2825444 enzyme enzyme neutral component neutral component O75063:p.Asp309Ala mutation disrupting rate mutation disrupting interaction rate mutation disrupting rate certain certain sequence position certain certain certain sequence position certain false trini-high_5 Trichoplusia ni cell line from eggs high_5 Insect cell line from Trichoplusia ni egg cells Invitrogen supplies this cell line. Invitrogen supply this cell line. phosphorylation phosphorylation reaction phosphorylation false false false supp 2C dcn-fam20b-1 2825439 N/A 2825443 enzyme target enzyme target substrate substrate neutral component neutral component c_terminus flag tag flag tag FLAG-tagged FLAG DYKDDDDKV epitope tag DYKDDDDKV epitope tag FLAG FLAG-tagged c-term range C-terminal range c-term range c-term range C-terminal range c-term range false human-u2-os Human U2-OS osteosarcoma cell line u2-os U2-OS osteocaroma cell line Not in CAPRI and no primary literature reference N/A 2825444 enzyme enzyme neutral component neutral component trini-high_5 Trichoplusia ni cell line from eggs high_5 Insect cell line from Trichoplusia ni egg cells Invitrogen supplies this cell line. Invitrogen supply this cell line. phosphorylation phosphorylation reaction phosphorylation false false false 3A When using FAM20B KO cells most of DCN and GPC1 migrated as a sharp band, implying that FAM20B deletion impaired GAG elongation. dcn-fam20b-2 2825439 N/A 2825448 enzyme target enzyme target substrate substrate neutral component neutral component c_terminus flag tag flag tag FLAG-tagged FLAG DYKDDDDKV epitope tag DYKDDDDKV epitope tag FLAG FLAG-tagged c-term range C-terminal range c-term range c-term range C-terminal range c-term range false human-u2-os Human U2-OS osteosarcoma cell line u2-os U2-OS osteocaroma cell line Not in CAPRI and no primary literature reference N/A 2825444 enzyme enzyme neutral component neutral component trini-high_5 Trichoplusia ni cell line from eggs high_5 Insect cell line from Trichoplusia ni egg cells Invitrogen supplies this cell line. Invitrogen supply this cell line. phosphorylation phosphorylation reaction phosphorylation false false false 3Ai When using FAM20B KO cells most of DCN and GPC1 migrated as a sharp band, implying that FAM20B deletion impaired GAG elongation. fam20b-tetra_ben-1 2825440 N/A 2825449 enzyme target enzyme target substrate substrate neutral component neutral component chemical synthesis Chemical synthesis (Chemical synthesis) N/A 2825444 enzyme enzyme neutral component neutral component O75063:p.Asp309Ala mutation disrupting rate mutation disrupting interaction rate mutation disrupting rate certain certain sequence position certain certain certain sequence position certain false trini-high_5 Trichoplusia ni cell line from eggs high_5 Insect cell line from Trichoplusia ni egg cells Invitrogen supplies this cell line. Invitrogen supply this cell line. phosphorylation phosphorylation reaction phosphorylation false false false 2825440 1 F/G, supp 3B fam20b-gal_xyl_ben-1 2825440 N/A 2825450 enzyme target enzyme target substrate substrate neutral component neutral component chemical synthesis Chemical synthesis (Chemical synthesis) N/A 2825444 enzyme enzyme neutral component neutral component trini-high_5 Trichoplusia ni cell line from eggs high_5 Insect cell line from Trichoplusia ni egg cells Invitrogen supplies this cell line. Invitrogen supply this cell line. phosphorylation phosphorylation reaction phosphorylation false false false 2825440 1G 234r3qr-1 2825441 N/A 2825444 enzyme enzyme neutral component neutral component trini-high_5 Trichoplusia ni cell line from eggs high_5 Insect cell line from Trichoplusia ni egg cells Invitrogen supplies this cell line. Invitrogen supply this cell line. N/A 2825449 enzyme target enzyme target substrate substrate neutral component neutral component 2-O-phospho-xylose tag tag undetermined undetermined sequence position undetermined undetermined undetermined sequence position undetermined false chemical synthesis Chemical synthesis (Chemical synthesis) phosphorylation phosphorylation reaction phosphorylation false false false Supp 3 C/D fam20b-tetra_ben-2 2825441 N/A 2825444 enzyme enzyme neutral component neutral component trini-high_5 Trichoplusia ni cell line from eggs high_5 Insect cell line from Trichoplusia ni egg cells Invitrogen supplies this cell line. Invitrogen supply this cell line. N/A 2825443 enzyme target enzyme target substrate substrate neutral component neutral component human-u2-os Human U2-OS osteosarcoma cell line u2-os U2-OS osteocaroma cell line Not in CAPRI and no primary literature reference phosphorylation phosphorylation reaction phosphorylation false false false Supp 7 C b3galt6-gal_xyl_ben-1 2825442 N/A 2825450 enzyme target enzyme target substrate substrate neutral component neutral component 2-O-phospho-xylose tag tag undetermined undetermined sequence position undetermined undetermined undetermined sequence position undetermined false chemical synthesis Chemical synthesis (Chemical synthesis) N/A 2825451 enzyme enzyme neutral component neutral component n_terminus mbp tag maltose binding protein tag maltose binding protein tag maltose binding protein tag mbp tag n-term range n-terminal range n-term range n-term range n-terminal range n-term range false trini-high_5 Trichoplusia ni cell line from eggs high_5 Insect cell line from Trichoplusia ni egg cells Invitrogen supplies this cell line. Invitrogen supply this cell line. enzymatic reaction enzymatic reaction Biochemical reaction Biochemical reaction false false false 2825442 4B, Supp 10A In the absence of xylose phosphorylation, GalT-II activity toward Gal-Xyl-Ben was decreased to less than 1% of its activity toward phosphorylated Gal-Xyl(P)-Ben. I could add another molecule to Chebi - but thought this orginal molecule + tag + comment was better? I will go back and re-add a new Chebi compound if you think is appropriate.