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/ yi-2010-2 TGF-beta signaling specifies axons during brain development. mouse-neocortex Mus musculus Neocortex neocortex NEOCORTEX The neocortex is the top layer of the cerebral hemispheres, 2-4 mm thick, and made up of six layers, labelled I to VI (with VI being the innermost and I being the outermost). It is involved in higher functions such as sensory perception, generation of motor commands, spatial reasoning, conscious thought, and in humans, language. confocal microscopy confocal microscopy immunostaining immunostaining Yi JJ., Barnes AP., Hand R., Polleux F., Ehlers MD. Apoptosis - Interactions involving proteins with a function related to apoptosis ehlers@neuro.duke.edu Cell (0092-8674) 2010 Only protein-protein interactions imex curation yi-2010-3 TGF-beta signaling specifies axons during brain development. rat-hippocampus Rattus norvegicus hippocampal neurons hippocampus Hippocampus [Brain hippocampus] confocal microscopy confocal microscopy immunostaining immunostaining Yi JJ., Barnes AP., Hand R., Polleux F., Ehlers MD. Apoptosis - Interactions involving proteins with a function related to apoptosis ehlers@neuro.duke.edu Cell (0092-8674) 2010 Only protein-protein interactions imex curation yi-2010-1 TGF-beta signaling specifies axons during brain development. rat-embryonic_forebrain Rattus norvegicus embryonic forebrain embryonic_forebrain Embryo forebrain anti bait coip anti bait coimmunoprecipitation anti bait coip western blot western blot Immuno blot Immuno blot Yi JJ., Barnes AP., Hand R., Polleux F., Ehlers MD. Apoptosis - Interactions involving proteins with a function related to apoptosis ehlers@neuro.duke.edu Cell (0092-8674) 2010 Only protein-protein interactions imex curation yi-2010-4 TGF-beta signaling specifies axons during brain development. mouse-neocortex Mus musculus Neocortex neocortex NEOCORTEX The neocortex is the top layer of the cerebral hemispheres, 2-4 mm thick, and made up of six layers, labelled I to VI (with VI being the innermost and I being the outermost). It is involved in higher functions such as sensory perception, generation of motor commands, spatial reasoning, conscious thought, and in humans, language. confocal microscopy confocal microscopy immunostaining immunostaining Yi JJ., Barnes AP., Hand R., Polleux F., Ehlers MD. Apoptosis - Interactions involving proteins with a function related to apoptosis ehlers@neuro.duke.edu Cell (0092-8674) 2010 Only protein-protein interactions imex curation cntn2_mouse Contactin-2 Axonin-1 Axonal glycoprotein TAG-1 Transient axonal glycoprotein 1 Cntn2 Tax protein protein mouse Mus musculus Mouse MGAPARKRASLLLLLLATMALVSSPGWSFSQGTPATFGPVFEEQPVGLLFPEESAEDQVTLACRARASPPATYRWKMNGTEMNLEPGSRHQLMGGNLVIMSPTKAQDAGVYQCLASNPVGTVVSKEAVLRFGFLQEFSKEERDPVKTHEGWGVMLPCNPPAHYPGLSYRWLLNEFPNFIPTDGRHFVSQTTGNLYIARTNASDLGNYSCLATSHLDFSTKSVFSKFAQLNLAAEDPRLFAPSIKARFPPETYALVGQQVTLECFAFGNPVPRIKWRKVDGSLSPQWGTAEPTLQIPSVSFEDEGTYECEAENSKGRDTVQGRIIVQAQPEWLKVISDTEADIGSNLRWGCAAAGKPRPMVRWLRNGEPLASQNRVEVLAGDLRFSKLNLEDSGMYQCVAENKHGTIYASAELAVQALAPDFRQNPVRRLIPAARGGEISIPCQPRAAPKATILWSKGTEILGNSTRVTVTLDGTLIIRNISRSDEGKYTCFAENFMGKANSTGILSVRDATKITLAPSSADINVGDNLTLQCHASHDPTMDLTFTWTLDDFPVDFDKPGGHYRRASVKETIGDLTILNAQLRHGGTYTCMAQTVVDGASKEATVLVRGPPGPPGGVVVRDIGDTTVQLSWSRGFDNHSPIAKYTLQARTPPSGKWKQVRTNPVNIEGNAETAQVLGLMPWMDYEFRVSASNILGTGEPSGPSSRIRTKEAVPSVAPSGLSGGGGAPGELTINWTPMSREYQNGDGFGYLLSFRRQGSSSWQTARVPGADTQYFVYSNDSIHPYTPFEVKIRSYNRRGDGPESLTAIVYSAEEEPKVAPAKVWAKGSSSSEMNVSWEPVLQDMNGILLGYEIRYWKAGDKEAAADRVRTAGLDSSARVTGLYPNTKYHVTVRAYNRAGTGPASPSADAMTMKPPPRRPPGNISWTFSSSSLSLKWDPVVPLRNESTVTGYKMLYQNDLQPTPMLHLTSKNWIEIPVPEDIGHALVQIRTTGPGGDGIPAEVHIVRNGGTSMMVESSAVRPAHPGPVFSCMVILMLAGCQRL tgfr2_mouse TGF-beta receptor type-2 Tgfbr2 Transforming growth factor-beta receptor type II TGF-beta type II receptor protein protein mouse Mus musculus Mouse MGRGLLRGLWPLHIVLWTRIASTIPPHVPKSDVEMEAQKDASIHLSCNRTIHPLKHFNSDVMASDNGGAVKLPQLCKFCDVRLSTCDNQKSCMSNCSITAICEKPHEVCVAVWRKNDKNITLETVCHDPKLTYHGFTLEDAASPKCVMKEKKRAGETFFMCACNMEECNDYIIFSEEYTTSSPDLLLVIIQVTGVSLLPPLGIAIAVIIIFYCYRVHRQQKLSPSWESSKPRKLMDFSDNCAIILEDDRSDISSTCANNINHNTELLPIELDTLVGKGRFAEVYKAKLKQNTSEQFETVAVKIFPYEEYSSWKTEKDIFSDINLKHENILQFLTAEERKTELGKQYWLITAFHAKGNLQEYLTRHVISWEDLRKLGSSLARGIAHLHSDHTPCGRPKMPIVHRDLKSSNILVKNDLTCCLCDFGLSLRLDPTLSVDDLANSGQVGTARYMAPEVLESRMNLENVESFKQTDVYSMALVLWEMTSRCNAVGEVKDYEPPFGSKVREHPCVESMKDSVLRDRGRPEIPSFWLNHQGIQIVCETLTECWDHDPEARLTAQCVAERFSELEHPERLSGRSCSQEKIPEDGSLNTTK tgfr1_mouse TGF-beta receptor type-1 Tgfbr1 Transforming growth factor-beta receptor type I ESK2 protein protein mouse Mus musculus Mouse MEAAAAAPRRPQLLIVLVAAATLLPGAKALQCFCHLCTKDNFTCETDGLCFVSVTETTDKVIHNSMCIAEIDLIPRDRPFVCAPSSKTGAVTTTYCCNQDHCNKIELPTTGPFSEKQSAGLGPVELAAVIAGPVCFVCIALMLMVYICHNRTVIHHRVPNEEDPSLDRPFISEGTTLKDLIYDMTTSGSGSGLPLLVQRTIARTIVLQESIGKGRFGEVWRGKWRGEEVAVKIFSSREERSWFREAEIYQTVMLRHENILGFIAADNKDNGTWTQLWLVSDYHEHGSLFDYLNRYTVTVEGMIKLALSTASGLAHLHMEIVGTQGKPAIAHRDLKSKNILVKKNGTCCIADLGLAVRHDSATDTIDIAPNHRVGTKRYMAPEVLDDSINMKHFESFKRADIYAMGLVFWEIARRCSIGGIHEDYQLPYYDLVPSDPSVEEMRKVVCEQKLRPNIPNRWQSCEALRVMAKIMRECWYANGAARLTALRIKKTLSQLSQQEGIKM nest_mouse Nestin Nes protein protein mouse Mus musculus Mouse MEGCVGEESFQMWELNRRLEAYLTRVKTLEEQNQLLSAELGGLRAQSGDASWRARADDELAALRVLVDQRWREKHEAEVQRDNLAEELESVAGRCQQVRLARERTIEEAACSRRALEAEKNARGWLSTQAAELERELEALRASHEEERAHLNAQAACTPRRPPAPAHASPIRAPEVEELARRLGEVWRGAVRDYQERVAHMESSLGQARERLGQAVRGARESRLEVQQLQADRDSLQERREALEQRLEGRWQDRLQATEKFQLAVEALEQEKQGLQSQIAQILEGGQQLAHLKMSLSLEVATYRTLLEAENSRLQTPGRSSQASLGFPDPKLKLHFLGIPEDQHLGSVLPVLSPTSFSSPLPNTLETPVTAFLKTQEFLKARTPTLASTPIPPMSEAPYPKNAEVRAQDVPHSLLQGGRQQAPEPLWAEATVPSSTGVLPELEEPGGEQPDHFPDDPTSLAPPLNPHHSILEAKDRESSESRVSSIFQEEEGQIWELVKKEAATEVKVENSLAQEIQESGLDTEEIQDSQGPLQMETLEALGDEPLMSLKTQNHETPGKENCNSSIEENSGTVKSPEKEKQTPLKSLEEKNVEAEKTLENGVLELSKPLGEEEPRMEDQELMSPEHTLETVSFLGKENQEVVRSSEEQNLESLITFKEESQYPLGGPEAEDQMLERLVEKEDQRFPRSPEEDQQAFRPLEKENQEPLRFEEAEDQVLERLIEKERQESLKSPEEEDQQAFRLLEKENQEPLRFEDAEDQVLERLIEKERQESLKSPEEEDQQAFRLLEKENQEPLRFEEAEDQVLERLVEKESQESLKSPEEEDQRTGKPLEKENQESLRSLDENQETIVLLESKNQRPLRSLEVEEEEQRIVKPLEKVSQVSLESLEKENVQSPRYLEEDDHMIKSLLEDKTHEILGSLEDRNGENFIPPENETQGSLRPPEEEDQRIVNHLEKESQEFLRSPEAEEEEEQVMVRSLEGENHDPLSSVVKEEQMAESKLENESQDSRKSLEDESQETFGSLEKENLESLRSLAGQDQEEQKLEQETQQPLRAVEDEQMTVNPPEKVDPELPKPLRNDQEVVRSLDKENQESLVSLNEGGMETVKSSETENIESLETVGECLGRRKSVDTQEPLWSTEVTSETIEPLEDETQEPLGCVDENQEVLTPLERESQELRSLGKWNPETVESPGGVEDSQQCLEVEEGPEREQHQESLRSLGEVEWELPGSGSQQRWEDVVEDGEGQEASLGATGVETEDKAELHLRGQGGEEKAVEEGELLQDAVGEAWSLGSSEPKEQRVPAEPLDDLEGQPEQTGTLEVPVAQGMPEATEQDEDRAQAGEQDSVEVTLGLEAARAGLELEQEVVGLEDPRHFAREEAIHPSLGEESVKAKIDQGLEEPGKEPKEAGALDSGIPELPKTSSETLECKGWEESGEGWGEEEASLETSDHEGSHAPQPRPPKTEEDEGLQAALTVPGPKLLEPCSPIPILTDAHELQPQAEGIQEAGWQPEAGTEALGRVEDEPEFGRGEIPEGLQDWEEGREDSEADELGETLPDSTPLGLYLKSPASPKWEQAGEQRLFPQGEARKEGWSPAALAAQGLSDPPEEEQQGHDSDLSSEEFEDLGTEASLLPGVPKEVSDHLGQEPPVLQPACWDQGGESDGFADEEESGEEGEEEDADEEEGAESGTQWWGPGPSGGGVKVQDVTQRGDLEHESVGDSGLWDDGLSGAAANVLVTALETVSQDSAEPSGSEGSESASLEGEEGQAIDHLDAPQEVTSVVPGAGDTFDISGQGPNLESEQVNGRMENGLEQAEGQVVLHGDEDQGIPLQEQGTLKAPLVGSPVHLGPSQPLKFTLSGVDGDSWSSGED tgfr1_rat TGF-beta receptor type-1 Tgfbr1 Transforming growth factor-beta receptor type I TGF-beta type I receptor Serine/threonine-protein kinase receptor R4 protein protein rat Rattus norvegicus (Rat) Rat MEAASAALRRCLLLIVLVAAATLLPGAKALQCFCHLCTKDNFTCETDGLCFVSVTETTDKVIHNSMCIAEIDLIPRDRPFVCAPSSKTGAVTYCCNQDHCNKIELPTTGPFSEKQSAGLGPVELAAVIAGPVCFVCIALMLMVYICHNRTVIHHRVPNEEDPSLDRPFISEGTTLKDLIYDMTTSGSGSGLPLLVQRTIARTIVLQESIGKGRFGEVWRGKWRGEEVAVKIFSSREERSWFREAEIYQTVMLRHENILGFIAADNKDNGTWTQLWLVSDYHEHGSLFDYLNRYTVTVEGMIKLALSTASGLAHLHMEIVGTQGKPAIAHRDLKSKNILVKKNGTCCIADLGLAVRHDSATDTIDIAPNHRVGTKRYMAPEVLDDSINMKHFESFKRADIYAMGLVFWEIARRCSIGGIHEDYQLPYYDLVPSDPSVEEMRKVVCEQKLRPNIPNRWQSCEALRVMAKIMRECWYANGAARLTALRIKKTLSQLSQQEGIKM tgfr2_rat TGF-beta receptor type-2 Tgfbr2 Transforming growth factor-beta receptor type II TGF-beta type II receptor protein protein rat Rattus norvegicus (Rat) Rat MGRGLLRGLWPLHIVLWTRIASTIPPHVPKSVNSDLMAGDNSGAVKLPQLCKFCDVTLSTCDNQKSCMSNCSVTSICEKPQEVCVAVWRKNDKNITLETVCHDPKFTYHGFTLEDATSPTCVMKEKKRAGETFFMCSCNTEECNDYIIFNEEYTTSSPDLLLVIIQVTGVSLLPPLGIAIAVIAIFYCYRVHRQQKLSPSWESSKPRKLMDFSDNCAIILEDDRSDISSTCANNINHNTELLPIELDTLVGKGRFAEVYKAKLKQNTSEQFETVAVKIFPYEEYSSWKTEKDIFSDINLKHENILQFLTAEERKTEMGKQYWLITAFHAKGNLQEYLTRHVISWEDLRKLGSSLARGIAHLHSDHTPCGRPKMPIVHRDLKSSNILVKNDLTCCLCDFGLSLRLDPTLSVDDLANSGQVGTARYMAPEVLESRMNLENMESFKQTDVYSMALVLWEMTSRCNAVGEVKDYEPPFGSKVREHPCVESMKDNVLRDRGRPEIPSFWLNHQGIQIVCETLTECWDHDPEARLTAQCVAERFSELEHPDRLSGRSCSQEKIPEDGSLNTTK par6a_rat Partitioning defective 6 homolog alpha Pard6a Par-6a Par6a protein protein rat Rattus norvegicus (Rat) Rat MARPQRTPARSPDSIVEVKSKFDAEFRRFALPRTSVRGFQEFSRLLCVVHQIPGLDVLLGYTDAHGDLLPLTNDDSLHRALASGPPPLRLLVQKRAEGDSSGLAFASNSLQRRKKGLLLRPVAPLRTRPPLLISLPQDFRQVSSVIDVDLLPETHRRVRLHKHGSDRPLGFYIRDGMSVRVAPQGLERVPGIFISRLVRGGLAESTGLLAVSDEILEVNGIEVAGKTLDQVTDMMVANSHNLIVTVKPANQRNNVVRGASGRLTGPSSVGPGPTDPDSDDDNSDPVIENRHPPCSNGLSQGPLCWDLQPGCLHPSAGSSLPSLDSREQANSGWGNGMRGDVSGFSL not sure about protein subtype, an alpha form was given by me pard3_rat Partitioning defective 3 homolog Pard3 Par3 Atypical PKC isotype-specific-interacting protein Atypical PKC-specific-binding protein protein protein rat Rattus norvegicus (Rat) Rat MKVTVCFGRTRVVVPCGDGRMKVFSLIQQAVTRYRKAVAKDPNYWIQVHRLEHGDGGILDLDDILCDVADDKDRLVAVFDEQDPHHGGDGTSASSTGTQSPEIFGSELGTNNVSAFRPYQTTSEIEVTPSVLRANMPLHVRRSSDPALTGLSTSVSDNNFSSEEPSRKNPTRWSTTAGFLKQNTTGSPKTCDRKKDENYRSLPRDPSSWSNQFQRDNARSSLSASHPMVDRWLEKQEQDEEGTEEDSSRVEPVGHADTGLENMPNFSLDDMVKLVQVPNDGGPLGIHVVPFSARGGRTLGLLVKRLEKGGKAEQENLFHENDCIVRINDGDLRNRRFEQAQHMFRQAMRARVIWFHVVPAANKEQYEQLSQREMNNYSPGRFSPDSHCVANRSVANNAPQALPRAPRLSQPPEQLDAHPRLPHSAHASTKPPTAPALAPPNVLSTSVGSVYNTKRVGKRLNIQLKKGTEGLGFSITSRDVTIGGSAPIYVKNILPRGAAIQDGRLKAGDRLIEVNGVDLAGKSQEEVVSLLRSTKMEGTVSLLVFRQEEAFHPREMNAEPSQMQSPKETKAEDEDIVLTPDGTREFLTFEVPLNDSGSAGLGVSVKGNRSKENHADLGIFVKSIINGGAASKDGRLRVNDQLIAVNGESLLGKANQEAMETLRRSMSTEGNKRGMIQLIVARRISRCNELRSPGSPAAPELPIETELDDRERRISHSLYSGIEGLDESPTRNAALSRIMGESGKCQLSPTVNMPHDDTVMIEDDRLPVLPPHLSDQSSSSSHDDVGFIMTEAGTWAKATISDSADCSLSPDVDPVLAFQREGFGRQSMSEKRTKQFSNASQLDFVKTRKSKSMDLGIADETKLNTVDDQRAGSPNRDVGPSLGLKKSSSLESLQTAVAEVTLNGNIPFHRPRPRIIRGRGCNESFRAAIDKSYDKPMVDDDDEGMETLEEDTEESSRSGRESVSTSSDQPSYSLERQMNGDPEKRDKAEKKKDKAGKDKKKDREKEKDKLKAKKGMLKGLGDMFRFGKHRKDDKMEKMGRIKIQDSFTSEEDRVRMKEEQERIQAKTREFRERQARERDYAEIQDFHRTFGCDDELLYGGMSSYDGCLALNARPQSPREGHLMDTLYAQVKKPRSSKPGDSNRSTPSNHDRIQRLRQEFQQAKQDEDVEDRRRTYSFEQSWSSSRPASQSGRHSVSVEVQVQRQRQEERESFQQAQRQYSSLPRQSRKNASSVSQDSWEQNYAPGEGFQSAKENPRYSSYQGSRNGYLGGHGFNARVMLETQELLRQEQRRKEQQLKKQPPADGVRGPFRQDVPPSPSQVARLNRLQTPEKGRPFYS par6a_mouse Partitioning defective 6 homolog alpha Pard6a Par6a protein protein mouse Mus musculus Mouse MARPQRTPARSPDSIVEVKSKFDAEFRRFALPRTSVRGFQEFSRLLCVVHQIPGLDVLLGYTDAHGDLLPLTNDDSLHRALASGPPPLRLLVQKRAEGDSSGLAFASNSLQRRKKGLLLRPVAPLRTRPPLLISLPQDFRQVSSVIDVDLLPETHRRVRLHKHGSDRPLGFYIRDGMSVRVAPQGLERVPGIFISRLVRGGLAESTGLLAVSDEILEVNGIEVAGKTLDQVTDMMVANSHNLIVTVKPANQRNNVVRGASGRLTGPSSVGPGPTDPDSDDDSSDLVIENRHPPCSNGLSQGPLCWDLQPGCLLPGAGSSLPSLDSREQANSGWGNGMRGDVSGFSL tbr2-tag1 974544 n/a 974548 unspecified role unspecified role neutral component neutral component n/a 974549 unspecified role unspecified role neutral component neutral component colocalization colocalization false false false Simultaneously labelling of the cortex with an antibody for TBR2 and TAG1, (a marker of corticofugal axons) showed coincident immunoreactivity between TBR2 and TAG1. Fig 1 E+F. tgfr1_2-nestin 974544 n/a 974550 unspecified role unspecified role neutral component neutral component n/a 974549 unspecified role unspecified role neutral component neutral component n/a 974551 unspecified role unspecified role neutral component neutral component colocalization colocalization false false false Both TBR1 and TBR2 are highly expressed throughout the mouse neocortex, including nestin-positive radial glial progenitors. Both receptor types are present at apical domains of radial glia. Fig 1 A+B. tgfr1_2 974544 n/a 974549 unspecified role unspecified role neutral component neutral component n/a 974550 unspecified role unspecified role neutral component neutral component colocalization colocalization false false false Both TBR1 and TBR2 were found in the cell bodies of layer 6 neurons, and diffuse TBR1 labeling was found within the intermediate zone (IZ) of the cortical wall. Fig 1 C+D. tgfr1_2-1 974545 n/a 974552 unspecified role unspecified role neutral component neutral component n/a 974553 unspecified role unspecified role neutral component neutral component colocalization colocalization false false false Punctate distribution of TBR1 and TBR2 at the tips of all neurites can be seen in stage 2 cells prior to polarization. By stage 3 (DIV4), TBR1and TBR2 were enriched within the within the growth cone of the axon and largely absent from dendrites. Fig 3 D-F. tgfr1-par6 974545 n/a 974554 unspecified role unspecified role neutral component neutral component n/a 974552 unspecified role unspecified role neutral component neutral component colocalization colocalization false false false In dissociated hippocampal neurons, surface TBR1 and Par6 colocalize in discrete punctate clusters within growth cones of undifferentiated neurites, particularly within filopodial protrusions. Fig 6 C+D. tbr1-par 974546 n/a 974555 unspecified role unspecified role prey prey n/a 974554 unspecified role unspecified role prey prey n/a 974552 unspecified role unspecified role bait bait physical association physical association false false false Fig 6E. Both Par6 and Par3 coimmunoprecipitated with TBR1 from E18 rat forebrain lysates, indicating that TBR1 and Par3/Par6 form a biochemical complex in developing brain. tgfr1_2-nestin-par6 974547 n/a 974556 unspecified role unspecified role neutral component neutral component n/a 974550 unspecified role unspecified role neutral component neutral component n/a 974551 unspecified role unspecified role neutral component neutral component colocalization colocalization false false false Using antibody labeled brain slices from E18 mouse embryos both Par6 and TBR1 are enriched within apical domains of radial glia in the VZ. Fig 6 A+B.