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/ NKX2-3 variant rs11190140 is associated with IBD and alters binding of NFAT. NKX2-3 variant rs11190140 is associated with IBD and alters binding of NFAT. Molecular genetics and metabolism 2010 imex curation John G., Hegarty JP., Yu W., Berg A., Pastor DM., Kelly AA., Wang Y., Poritz LS., Schreiber S., Koltun WA., Lin Z. IBD - Inflammatory bowel disease zlin@hmc.psu.edu,wkoltun@hmc.psu.edu 20-Dec-2016: Contacted by IntAct-Help. Only protein-protein interactions imex curation human-b-cell Homo sapiens B cell b-cell B-cell [B lymphocyte; B-lymphocyte; B cell; B-cells] ch-ip chromatin immunoprecipitation assay ch-ip primer specific pcr primer specific pcr John G., Hegarty JP., Yu W., Berg A., Pastor DM., Kelly AA., Wang Y., Poritz LS., Schreiber S., Koltun WA., Lin Z. IBD - Inflammatory bowel disease no idea what "(#033-01-1)" refers to - no hits with google so presumably an internal ID? Nuclear extracts from immortalised B-lymphocytes (#033-01-1) isolated from peripheral blood. zlin@hmc.psu.edu,wkoltun@hmc.psu.edu Accepted 2016-OCT-13 AT 10:01 BST AT 10:01 BST by PPORRAS Molecular genetics and metabolism 2010 Only protein-protein interactions imex curation imex curation NKX2-3 variant rs11190140 is associated with IBD and alters binding of NFAT. NKX2-3 variant rs11190140 is associated with IBD and alters binding of NFAT. Molecular genetics and metabolism 2010 imex curation John G., Hegarty JP., Yu W., Berg A., Pastor DM., Kelly AA., Wang Y., Poritz LS., Schreiber S., Koltun WA., Lin Z. IBD - Inflammatory bowel disease zlin@hmc.psu.edu,wkoltun@hmc.psu.edu 20-Dec-2016: Contacted by IntAct-Help. Only protein-protein interactions imex curation in vitro In vitro pull down pull down western blot western blot Immuno blot Immuno blot John G., Hegarty JP., Yu W., Berg A., Pastor DM., Kelly AA., Wang Y., Poritz LS., Schreiber S., Koltun WA., Lin Z. IBD - Inflammatory bowel disease Nuclear extracts from immortalised B-lymphocytes isolated from peripheral blood. zlin@hmc.psu.edu,wkoltun@hmc.psu.edu Accepted 2016-OCT-13 AT 10:01 BST AT 10:01 BST by PPORRAS Molecular genetics and metabolism 2010 Only protein-protein interactions imex curation imex curation c25_variant_nkx2-3_probe_ promoter region_at rs11190140_location C25_variant_NKX2-3 promoter region_at rs11190140_location dna deoxyribonucleic acid DNA deoxyribonucleic acid dna DNA deoxyribonucleic acid human Homo sapiens Human AATAGGCGGAAAAGAAGGCTGGCCAA nkx23_human_gene Homeobox protein Nkx-2.3 NKX2-3 NKX23 NKX2C gene gene human Homo sapiens Human nfac1_human Nuclear factor of activated T-cells, cytoplasmic 1 NFATC1 NFAT2 NFATC NFAT transcription complex cytosolic component protein protein human Homo sapiens Human MPSTSFPVPSKFPLGPAAAVFGRGETLGPAPRAGGTMKSAEEEHYGYASSNVSPALPLPTAHSTLPAPCHNLQTSTPGIIPPADHPSGYGAALDGGPAGYFLSSGHTRPDGAPALESPRIEITSCLGLYHNNNQFFHDVEVEDVLPSSKRSPSTATLSLPSLEAYRDPSCLSPASSLSSRSCNSEASSYESNYSYPYASPQTSPWQSPCVSPKTTDPEEGFPRGLGACTLLGSPRHSPSTSPRASVTEESWLGARSSRPASPCNKRKYSLNGRQPPYSPHHSPTPSPHGSPRVSVTDDSWLGNTTQYTSSAIVAAINALTTDSSLDLGDGVPVKSRKTTLEQPPSVALKVEPVGEDLGSPPPPADFAPEDYSSFQHIRKGGFCDQYLAVPQHPYQWAKPKPLSPTSYMSPTLPALDWQLPSHSGPYELRIEVQPKSHHRAHYETEGSRGAVKASAGGHPIVQLHGYLENEPLMLQLFIGTADDRLLRPHAFYQVHRITGKTVSTTSHEAILSNTKVLEIPLLPENSMRAVIDCAGILKLRNSDIELRKGETDIGRKNTRVRLVFRVHVPQPSGRTLSLQVASNPIECSQRSAQELPLVEKQSTDSYPVVGGKKMVLSGHNFLQDSKVIFVEKAPDGHHVWEMEAKTDRDLCKPNSLVVEIPPFRNQRITSPVHVSFYVCNGKRKRSQYQRFTYLPANVPIIKTEPTDDYEPAPTCGPVSQGLSPLPRPYYSQQLAMPPDPSSCLVAGFPPCPQRSTLMPAAPGVSPKLHDLSPAAYTKGVASPGHCHLGLPQPAGEAPAVQDVPRPVATHPGSPGQPPPALLPQQVSAPPSSSCPPGLEHSLCPSSPSPPLPPATQEPTCLQPCSPACPPATGRPQHLPSTVRRDESPTAGPRLLPEVHEDGSPNLAPIPVTVKREPEELDQLYLDDVNEIIRNDLSSTSTHS DIP protein O95644 original sequence version: 141 DIP protein O95644 original sequence version: 156 E72FAB10ECEB2D66 c25_variant_nkx2_3 promoter region_at rs11190140_location-nfatc1-1 2 3 unspecified role unspecified role bait bait purified purified region biotin tag biotin tag undetermined undetermined sequence position undetermined undetermined undetermined sequence position undetermined C7-methyl biological feature biological feature certain certain sequence position certain certain certain sequence position certain Methylation chemical synthesis Chemical synthesis (Chemical synthesis) 5 unspecified role unspecified role prey prey subcellular prep subcellular preparation subcellular prep human-b-cell Homo sapiens B cell b-cell B-cell [B lymphocyte; B-lymphocyte; B cell; B-cells] physical association physical association 4 methylated cytosine; - not obvious what to add it as - so added as a "variant" (A natural change in a sequence or structure in comparison to a reference entity.) or it could be added as a "biological feature" - or it could just be a "comment". Both methylated and non-methylated oligonucleotides bound to NFAT1. c25_variant_nkx2_3_probe_ promoter region_at rs11190140_location-nfatc1-1 2 5 unspecified role unspecified role prey prey subcellular prep subcellular preparation subcellular prep human-b-cell Homo sapiens B cell b-cell B-cell [B lymphocyte; B-lymphocyte; B cell; B-cells] 3 unspecified role unspecified role bait bait purified purified C7T mutation disrupting strength mutation disrupting interaction strength mutation disrupting strength certain certain sequence position certain certain certain sequence position certain C T region biotin tag biotin tag undetermined undetermined sequence position undetermined undetermined undetermined sequence position undetermined chemical synthesis Chemical synthesis (Chemical synthesis) physical association physical association 4-1 Both methylated and non-methylated oligonucleotides bound to NFAT1. The SNP rs11190140 consists of a C to T polymorphism, with the T allele being over-transmitted in IBD populations. nfatc1-nkx2_3-1 1 4 unspecified role unspecified role prey prey promoter_region sufficient to bind sufficient binding region sufficient to bind undetermined undetermined sequence position undetermined undetermined undetermined sequence position undetermined 5 unspecified role unspecified role bait bait association association 5