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/ Matrix metalloproteinase-9 promotes chronic lymphocytic leukemia b cell survival through its hemopexin domain. Matrix metalloproteinase-9 promotes chronic lymphocytic leukemia b cell survival through its hemopexin domain. Cancer Cell (1535-6108) 2010 imex curation Redondo-Munoz J., Ugarte-Berzal E., Terol MJ., Van den Steen PE., Hernandez del Cerro M., Roderfeld M., Roeb E., Opdenakker G., Garcia-Marco JA., Garcia-Pardo A. Apoptosis - Interactions involving proteins with a function related to apoptosis Cancer - Interactions investigated in the context of cancer DNA Pull-down Assay using biotinylated 22 nucleotide probe containing the specific binding site for STAT factors in the Mcl-1 promoter, and Streptavidin-Conjugated Beads. agarciapardo@cib.csic.es 25-Jun-2010: Contacted by JYOTI. orchard Only protein-protein interactions 6 human-pbl-bcll Homo sapiens pbl-bcll: PBLs from human B cell Chronic Lymphocytic Leukaemia patients peripheral_blood_lymphocyte-bcll pbl-bcll: PBLs from B cell Chronic Lymphocytic Leukaemia patients B cell population was >95% CD19+ and >90% CD5+. confocal microscopy confocal microscopy immunostaining immunostaining Redondo-Munoz J., Ugarte-Berzal E., Terol MJ., Van den Steen PE., Hernandez del Cerro M., Roderfeld M., Roeb E., Opdenakker G., Garcia-Marco JA., Garcia-Pardo A. Apoptosis - Interactions involving proteins with a function related to apoptosis DNA Pull-down Assay using biotinylated 22 nucleotide probe containing the specific binding site for STAT factors in the Mcl-1 promoter, and Streptavidin-Conjugated Beads. agarciapardo@cib.csic.es Accepted 2010-APR-10 by ORCHARD. 25-Jun-2010: Contacted by JYOTI. Cancer Cell (1535-6108) 2010 orchard Only protein-protein interactions 6 imex curation Matrix metalloproteinase-9 promotes chronic lymphocytic leukemia b cell survival through its hemopexin domain. Matrix metalloproteinase-9 promotes chronic lymphocytic leukemia b cell survival through its hemopexin domain. Cancer Cell (1535-6108) 2010 imex curation Redondo-Munoz J., Ugarte-Berzal E., Terol MJ., Van den Steen PE., Hernandez del Cerro M., Roderfeld M., Roeb E., Opdenakker G., Garcia-Marco JA., Garcia-Pardo A. Apoptosis - Interactions involving proteins with a function related to apoptosis Cancer - Interactions investigated in the context of cancer DNA Pull-down Assay using biotinylated 22 nucleotide probe containing the specific binding site for STAT factors in the Mcl-1 promoter, and Streptavidin-Conjugated Beads. agarciapardo@cib.csic.es 25-Jun-2010: Contacted by JYOTI. orchard Only protein-protein interactions 6 human-pbl-bcll Homo sapiens pbl-bcll: PBLs from human B cell Chronic Lymphocytic Leukaemia patients peripheral_blood_lymphocyte-bcll pbl-bcll: PBLs from B cell Chronic Lymphocytic Leukaemia patients B cell population was >95% CD19+ and >90% CD5+. pull down pull down western blot western blot Immuno blot Immuno blot Redondo-Munoz J., Ugarte-Berzal E., Terol MJ., Van den Steen PE., Hernandez del Cerro M., Roderfeld M., Roeb E., Opdenakker G., Garcia-Marco JA., Garcia-Pardo A. Apoptosis - Interactions involving proteins with a function related to apoptosis DNA Pull-down Assay using biotinylated 22 nucleotide probe containing the specific binding site for STAT factors in the Mcl-1 promoter, and Streptavidin-Conjugated Beads. agarciapardo@cib.csic.es Accepted 2010-APR-10 by ORCHARD. 25-Jun-2010: Contacted by JYOTI. Cancer Cell (1535-6108) 2010 orchard Only protein-protein interactions 6 imex curation Matrix metalloproteinase-9 promotes chronic lymphocytic leukemia b cell survival through its hemopexin domain. Matrix metalloproteinase-9 promotes chronic lymphocytic leukemia b cell survival through its hemopexin domain. Cancer Cell (1535-6108) 2010 imex curation Redondo-Munoz J., Ugarte-Berzal E., Terol MJ., Van den Steen PE., Hernandez del Cerro M., Roderfeld M., Roeb E., Opdenakker G., Garcia-Marco JA., Garcia-Pardo A. Apoptosis - Interactions involving proteins with a function related to apoptosis Cancer - Interactions investigated in the context of cancer DNA Pull-down Assay using biotinylated 22 nucleotide probe containing the specific binding site for STAT factors in the Mcl-1 promoter, and Streptavidin-Conjugated Beads. agarciapardo@cib.csic.es 25-Jun-2010: Contacted by JYOTI. orchard Only protein-protein interactions 6 human-pbl-bcll Homo sapiens pbl-bcll: PBLs from human B cell Chronic Lymphocytic Leukaemia patients peripheral_blood_lymphocyte-bcll pbl-bcll: PBLs from B cell Chronic Lymphocytic Leukaemia patients B cell population was >95% CD19+ and >90% CD5+. anti bait coip anti bait coimmunoprecipitation anti bait coip western blot western blot Immuno blot Immuno blot Redondo-Munoz J., Ugarte-Berzal E., Terol MJ., Van den Steen PE., Hernandez del Cerro M., Roderfeld M., Roeb E., Opdenakker G., Garcia-Marco JA., Garcia-Pardo A. Apoptosis - Interactions involving proteins with a function related to apoptosis DNA Pull-down Assay using biotinylated 22 nucleotide probe containing the specific binding site for STAT factors in the Mcl-1 promoter, and Streptavidin-Conjugated Beads. agarciapardo@cib.csic.es Accepted 2010-APR-10 by ORCHARD. Cancer Cell (1535-6108) 2010 orchard Only protein-protein interactions 6 imex curation biotin_probe_mcl-1 biotinylated 22 nucleotide probe; the binding site for STAT factors in the Mcl-1 promoter dna deoxyribonucleic acid DNA deoxyribonucleic acid dna DNA deoxyribonucleic acid human Homo sapiens Human CCCTTTTATGGGAATACTTTTT FF4E49CF7820C814 lyn_human Tyrosine-protein kinase Lyn JTK8 Lck/Yes-related novel protein tyrosine kinase V-yes-1 Yamaguchi sarcoma viral related oncogene homolog p53Lyn p56Lyn LYN protein protein human Homo sapiens Human MGCIKSKGKDSLSDDGVDLKTQPVRNTERTIYVRDPTSNKQQRPVPESQLLPGQRFQTKDPEEQGDIVVALYPYDGIHPDDLSFKKGEKMKVLEEHGEWWKAKSLLTKKEGFIPSNYVAKLNTLETEEWFFKDITRKDAERQLLAPGNSAGAFLIRESETLKGSFSLSVRDFDPVHGDVIKHYKIRSLDNGGYYISPRITFPCISDMIKHYQKQADGLCRRLEKACISPKPQKPWDKDAWEIPRESIKLVKRLGAGQFGEVWMGYYNNSTKVAVKTLKPGTMSVQAFLEEANLMKTLQHDKLVRLYAVVTREEPIYIITEYMAKGSLLDFLKSDEGGKVLLPKLIDFSAQIAEGMAYIERKNYIHRDLRAANVLVSESLMCKIADFGLARVIEDNEYTAREGAKFPIKWTAPEAINFGCFTIKSDVWSFGILLYEIVTYGKIPYPGRTNADVMTALSQGYRMPRVENCPDELYDIMKMCWKEKAEERPTFDYLQSVLDDFYTATEGQYQQQP DIP protein P07948 original sequence version: 141 408D3D461204E378 stat3_human Signal transducer and activator of transcription 3 Acute-phase response factor STAT3 APRF protein protein human Homo sapiens Human MAQWNQLQQLDTRYLEQLHQLYSDSFPMELRQFLAPWIESQDWAYAASKESHATLVFHNLLGEIDQQYSRFLQESNVLYQHNLRRIKQFLQSRYLEKPMEIARIVARCLWEESRLLQTAATAAQQGGQANHPTAAVVTEKQQMLEQHLQDVRKRVQDLEQKMKVVENLQDDFDFNYKTLKSQGDMQDLNGNNQSVTRQKMQQLEQMLTALDQMRRSIVSELAGLLSAMEYVQKTLTDEELADWKRRQQIACIGGPPNICLDRLENWITSLAESQLQTRQQIKKLEELQQKVSYKGDPIVQHRPMLEERIVELFRNLMKSAFVVERQPCMPMHPDRPLVIKTGVQFTTKVRLLVKFPELNYQLKIKVCIDKDSGDVAALRGSRKFNILGTNTKVMNMEESNNGSLSAEFKHLTLREQRCGNGGRANCDASLIVTEELHLITFETEVYHQGLKIDLETHSLPVVVISNICQMPNAWASILWYNMLTNNPKNVNFFTKPPIGTWDQVAEVLSWQFSSTTKRGLSIEQLTTLAEKLLGPGVNYSGCQITWAKFCKENMAGKGFSFWVWLDNIIDLVKKYILALWNEGYIMGFISKERERAILSTKPPGTFLLRFSESSKEGGVTFTWVEKDISGKTQIQSVEPYTKQQLNNMSFAEIIMGYKIMDATNILVSPLVYLYPDIPKEEAFGKYCRPESQEHPEADPGSAAPYLKTKFICVTPTTCSNTIDLPMSPRTLDSLMQFGNNGEGAEPSAGGQFESLTFDMELTSECATSPM 6C00632211C8012D DIP protein P40763 original sequence version: 157 DIP protein P40763-1 original sequence version: 147 DIP protein P40763-1 original sequence version: 135 DIP protein P40763-1 original sequence version: 157 DIP protein P40763 original sequence version: 165 DIP protein P40763 original sequence version: 182 DIP protein P40763 original sequence version: 135 6C00632211C8012D itb1_human Integrin beta-1 Fibronectin receptor subunit beta VLA-4 subunit beta ITGB1 FNRB MDF2 MSK12 Glycoprotein IIa protein protein human Homo sapiens Human MNLQPIFWIGLISSVCCVFAQTDENRCLKANAKSCGECIQAGPNCGWCTNSTFLQEGMPTSARCDDLEALKKKGCPPDDIENPRGSKDIKKNKNVTNRSKGTAEKLKPEDITQIQPQQLVLRLRSGEPQTFTLKFKRAEDYPIDLYYLMDLSYSMKDDLENVKSLGTDLMNEMRRITSDFRIGFGSFVEKTVMPYISTTPAKLRNPCTSEQNCTSPFSYKNVLSLTNKGEVFNELVGKQRISGNLDSPEGGFDAIMQVAVCGSLIGWRNVTRLLVFSTDAGFHFAGDGKLGGIVLPNDGQCHLENNMYTMSHYYDYPSIAHLVQKLSENNIQTIFAVTEEFQPVYKELKNLIPKSAVGTLSANSSNVIQLIIDAYNSLSSEVILENGKLSEGVTISYKSYCKNGVNGTGENGRKCSNISIGDEVQFEISITSNKCPKKDSDSFKIRPLGFTEEVEVILQYICECECQSEGIPESPKCHEGNGTFECGACRCNEGRVGRHCECSTDEVNSEDMDAYCRKENSSEICSNNGECVCGQCVCRKRDNTNEIYSGKFCECDNFNCDRSNGLICGGNGVCKCRVCECNPNYTGSACDCSLDTSTCEASNGQICNGRGICECGVCKCTDPKFQGQTCEMCQTCLGVCAEHKECVQCRAFNKGEKKDTCTQECSYFNITKVESRDKLPQPVQPDPVSHCKEKDVDDCWFYFTYSVNGNNEVMVHVVENPECPTGPDIIPIVAGVVAGIVLIGLALLLIWKLLMIIHDRREFAKFEKEKMNAKWDTGENPIYKSAVTTVVNPKYEGK DIP protein P05556 original sequence version: 139 DIP protein P05556-1 original sequence version: 143 DIP protein P05556 original sequence version: 154 DIP protein P05556 original sequence version: 167 DE35979C1625578C ita4_human Integrin alpha-4 Integrin alpha-IV VLA-4 subunit alpha CD49 antigen-like family member D ITGA4 CD49D protein protein human Homo sapiens Human MAWEARREPGPRRAAVRETVMLLLCLGVPTGRPYNVDTESALLYQGPHNTLFGYSVVLHSHGANRWLLVGAPTANWLANASVINPGAIYRCRIGKNPGQTCEQLQLGSPNGEPCGKTCLEERDNQWLGVTLSRQPGENGSIVTCGHRWKNIFYIKNENKLPTGGCYGVPPDLRTELSKRIAPCYQDYVKKFGENFASCQAGISSFYTKDLIVMGAPGSSYWTGSLFVYNITTNKYKAFLDKQNQVKFGSYLGYSVGAGHFRSQHTTEVVGGAPQHEQIGKAYIFSIDEKELNILHEMKGKKLGSYFGASVCAVDLNADGFSDLLVGAPMQSTIREEGRVFVYINSGSGAVMNAMETNLVGSDKYAARFGESIVNLGDIDNDGFEDVAIGAPQEDDLQGAIYIYNGRADGISSTFSQRIEGLQISKSLSMFGQSISGQIDADNNGYVDVAVGAFRSDSAVLLRTRPVVIVDASLSHPESVNRTKFDCVENGWPSVCIDLTLCFSYKGKEVPGYIVLFYNMSLDVNRKAESPPRFYFSSNGTSDVITGSIQVSSREANCRTHQAFMRKDVRDILTPIQIEAAYHLGPHVISKRSTEEFPPLQPILQQKKEKDIMKKTINFARFCAHENCSADLQVSAKIGFLKPHENKTYLAVGSMKTLMLNVSLFNAGDDAYETTLHVKLPVGLYFIKILELEEKQINCEVTDNSGVVQLDCSIGYIYVDHLSRIDISFLLDVSSLSRAEEDLSITVHATCENEEEMDNLKHSRVTVAIPLKYEVKLTVHGFVNPTSFVYGSNDENEPETCMVEKMNLTFHVINTGNSMAPNVSVEIMVPNSFSPQTDKLFNILDVQTTTGECHFENYQRVCALEQQKSAMQTLKGIVRFLSKTDKRLLYCIKADPHCLNFLCNFGKMESGKEASVHIQLEGRPSILEMDETSALKFEIRATGFPEPNPRVIELNKDENVAHVLLEGLHHQRPKRYFTIVIISSSLLLGLIVLLLISYVMWKAGFFKRQYKSILQEENRRDSWSYINSKSNDD DIP protein P13612 original sequence version: 131 DIP protein P13612-1 original sequence version: 171 DIP protein P13612 original sequence version: 138 73EC1204DE78CD35 o43521-1 Bcl-2-like protein 11 Bim(EL) BCL2L11 BIM Bcl2-interacting mediator of cell death protein protein human Homo sapiens Human MAKQPSDVSSECDREGRQLQPAERPPQLRPGAPTSLQTEPQGNPEGNHGGEGDSCPHGSPQGPLAPPASPGPFATRSPLFIFMRRSSLLSRSSSGYFSFDTDRSPAPMSCDKSTQTPSPPCQAFNHYLSAMASMRQAEPADMRPEIWIAQELRRIGDEFNAYYARRVFLNNYQAAEDHPRMVILRLLRYIVRLVWRMH D75735E469CA6997 mcl1_human Induced myeloid leukemia cell differentiation protein Mcl-1 Bcl-2-related protein EAT/mcl1 mcl1/EAT MCL1 BCL2L3 Bcl-2-like protein 3 protein protein human Homo sapiens Human MFGLKRNAVIGLNLYCGGAGLGAGSGGATRPGGRLLATEKEASARREIGGGEAGAVIGGSAGASPPSTLTPDSRRVARPPPIGAEVPDVTATPARLLFFAPTRRAAPLEEMEAPAADAIMSPEEELDGYEPEPLGKRPAVLPLLELVGESGNNTSTDGSLPSTPPPAEEEEDELYRQSLEIISRYLREQATGAKDTKPMGRSGATSRKALETLRRVGDGVQRNHETAFQGMLRKLDIKNEDDVKSLSRVMIHVFSDGVTNWGRIVTLISFGAFVAKHLKTINQESCIEPLAESITDVLVRTKRDWLVKQRGWDGFVEFFHVEDLEGGIRNVLLAFAGVAGVGAGLAYLIR DIP protein Q07820 original sequence version: 85 DIP protein Q07820 original sequence version: 89 DIP protein Q07820 original sequence version: 113 DIP protein Q07820 original sequence version: 168 DIP protein Q07820-1 original sequence version: 113 D85821AC59275F1F bimel-mcl1 3 9 unspecified role unspecified role prey prey 10 unspecified role unspecified role bait bait physical association physical association In response to proMMP-9, Mcl-1 sequestered BH3-only proteins thus preventing mitochondrial damage and apoptosis. Fig 2C. itb1-ita4-lyn 3 5 unspecified role unspecified role prey prey 7 unspecified role unspecified role bait bait 8 unspecified role unspecified role prey prey association association Anti-beta1 integrin antibodies pulled down the alpha4 integrin subunit as expected, plus one band of 55 kDa, which was recognized by an anti-Lyn antibody. Fig 3C. lyn-itab1 3 7 unspecified role unspecified role prey prey 5 unspecified role unspecified role bait bait region (possible) phosres phosphorylated residue PhosRes Phospho Phosphorylation Phosphorylation (O of Serine, Threonine, Tyrosine and Aspartate, N epsilon of Lysine) undetermined undetermined sequence position undetermined undetermined undetermined sequence position undetermined association association After cell incubation on BSA, the beta1 integrin subunit remained bound to Lyn, but this association was almost completely lost upon incubation on proMMP-9. Cell binding to proMMP-9 clearly resulted in Lyn Tyr396 phosphorylation while incubation on BSA did not. Fig 3D. stat3_probe 2 4 unspecified role unspecified role bait bait 6 unspecified role unspecified role prey prey physical association physical association STAT3 was clearly increased in the nuclear fraction of proMMP-9-treated cells compared to BSA-treated cells. Moreover, STAT3 from proMMP-9-cultured cells was specifically pulled down by a Mcl-1 promoter probe, but not by a mutated or control DNA probe. Fig 4C. lyn-ita4-1 3 8 unspecified role unspecified role prey prey 7 unspecified role unspecified role prey prey 5 unspecified role unspecified role bait bait association association Conversely, western blotting analyses of anti-Lyn immunoprecipitates revealed the presence of the alpha4 and beta1 integrin subunits. Fig S3C. lyn-ita4 1 5 unspecified role unspecified role neutral component neutral component 8 unspecified role unspecified role neutral component neutral component colocalization colocalization Fig S3D. Colocalization of Lyn (green) with alpha4 and beta1 integrins (red) was further demonstrated. Problem with printing for this one - missing words.GO term: "cell periphery" was stated in the paper. lyn-itb1 1 5 unspecified role unspecified role neutral component neutral component 7 unspecified role unspecified role neutral component neutral component colocalization colocalization Fig S3D. Colocalization of Lyn (green) with alpha4 and beta1 integrins (red) was further demonstrated. Problem with printing for this one - missing words.GO term: "cell periphery" was stated in the paper.