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/ α-synuclein-lipoprotein interactions and elevated ApoE level in cerebrospinal fluid from Parkinson's disease patients. α-synuclein-lipoprotein interactions and elevated ApoE level in cerebrospinal fluid from Parkinson's disease patients. Proceedings of the National Academy of Sciences of the United States of America 2019 imex curation Paslawski W., Zareba-Paslawska J., Zhang X., Hölzl K., Wadensten H., Shariatgorji M., Janelidze S., Hansson O., Forsgren L., Andrén PE., Svenningsson P., Paslawski W., Zareba-Paslawska J., Zhang X., Hölzl K., Wadensten H., Shariatgorji M., Janelidze S., Hansson O., Forsgren L., Andrén PE., Svenningsson P. Parkinsons - Interactions investigated in the context of Parkinsons disease Neurodegeneration - Publications depicting interactions involved in neurodegenerative diseases. HDL/VLDL added as GO XRefs as we cannot add as interactors and not appropriate to create as a "tissue"/host organism. Per.Svenningsson@ki.se 04-05-20: Contacted by IntAct-Help. Only protein-protein interactions imex curation in vitro In vitro elisa enzyme linked immunosorbent assay ELISA ELISA elisa predetermined predetermined participant predetermined Paslawski W., Zareba-Paslawska J., Zhang X., Hölzl K., Wadensten H., Shariatgorji M., Janelidze S., Hansson O., Forsgren L., Andrén PE., Svenningsson P., Paslawski W., Zareba-Paslawska J., Zhang X., Hölzl K., Wadensten H., Shariatgorji M., Janelidze S., Hansson O., Forsgren L., Andrén PE., Svenningsson P. Parkinsons - Interactions investigated in the context of Parkinsons disease HDL/VLDL added as GO XRefs as we cannot add as interactors and not appropriate to create as a "tissue"/host organism. Per.Svenningsson@ki.se Accepted 2020-FEB-24 AT 16:12 GMT AT 16:12 GMT by KALPANAP Proceedings of the National Academy of Sciences of the United States of America 2019 Only protein-protein interactions imex curation imex curation α-synuclein-lipoprotein interactions and elevated ApoE level in cerebrospinal fluid from Parkinson's disease patients. α-synuclein-lipoprotein interactions and elevated ApoE level in cerebrospinal fluid from Parkinson's disease patients. Proceedings of the National Academy of Sciences of the United States of America 2019 imex curation Paslawski W., Zareba-Paslawska J., Zhang X., Hölzl K., Wadensten H., Shariatgorji M., Janelidze S., Hansson O., Forsgren L., Andrén PE., Svenningsson P., Paslawski W., Zareba-Paslawska J., Zhang X., Hölzl K., Wadensten H., Shariatgorji M., Janelidze S., Hansson O., Forsgren L., Andrén PE., Svenningsson P. Parkinsons - Interactions investigated in the context of Parkinsons disease Neurodegeneration - Publications depicting interactions involved in neurodegenerative diseases. HDL/VLDL added as GO XRefs as we cannot add as interactors and not appropriate to create as a "tissue"/host organism. Per.Svenningsson@ki.se 04-05-20: Contacted by IntAct-Help. Only protein-protein interactions imex curation human-csf Human Cerebrospinal fluid (CSF) csf Cerebrospinal fluid tem transmission electron microscopy tem antibody detection identification by antibody antibody detection Paslawski W., Zareba-Paslawska J., Zhang X., Hölzl K., Wadensten H., Shariatgorji M., Janelidze S., Hansson O., Forsgren L., Andrén PE., Svenningsson P., Paslawski W., Zareba-Paslawska J., Zhang X., Hölzl K., Wadensten H., Shariatgorji M., Janelidze S., Hansson O., Forsgren L., Andrén PE., Svenningsson P. Parkinsons - Interactions investigated in the context of Parkinsons disease HDL/VLDL added as GO XRefs as we cannot add as interactors and not appropriate to create as a "tissue"/host organism. immunogold labeling Per.Svenningsson@ki.se Accepted 2020-FEB-24 AT 16:12 GMT AT 16:12 GMT by KALPANAP Proceedings of the National Academy of Sciences of the United States of America 2019 Only protein-protein interactions imex curation imex curation α-synuclein-lipoprotein interactions and elevated ApoE level in cerebrospinal fluid from Parkinson's disease patients. α-synuclein-lipoprotein interactions and elevated ApoE level in cerebrospinal fluid from Parkinson's disease patients. Proceedings of the National Academy of Sciences of the United States of America 2019 imex curation Paslawski W., Zareba-Paslawska J., Zhang X., Hölzl K., Wadensten H., Shariatgorji M., Janelidze S., Hansson O., Forsgren L., Andrén PE., Svenningsson P., Paslawski W., Zareba-Paslawska J., Zhang X., Hölzl K., Wadensten H., Shariatgorji M., Janelidze S., Hansson O., Forsgren L., Andrén PE., Svenningsson P. Parkinsons - Interactions investigated in the context of Parkinsons disease Neurodegeneration - Publications depicting interactions involved in neurodegenerative diseases. HDL/VLDL added as GO XRefs as we cannot add as interactors and not appropriate to create as a "tissue"/host organism. Per.Svenningsson@ki.se 04-05-20: Contacted by IntAct-Help. Only protein-protein interactions imex curation in vitro In vitro aggregation aggregation assay aggregation predetermined predetermined participant predetermined Paslawski W., Zareba-Paslawska J., Zhang X., Hölzl K., Wadensten H., Shariatgorji M., Janelidze S., Hansson O., Forsgren L., Andrén PE., Svenningsson P., Paslawski W., Zareba-Paslawska J., Zhang X., Hölzl K., Wadensten H., Shariatgorji M., Janelidze S., Hansson O., Forsgren L., Andrén PE., Svenningsson P. Parkinsons - Interactions investigated in the context of Parkinsons disease HDL/VLDL added as GO XRefs as we cannot add as interactors and not appropriate to create as a "tissue"/host organism. Aggregate formation was monitored by Thioflavin T (ThT) fluorescence. ThT exhibits a fluorescence emission maximum at ~488nm exclusively when bound to amyloid fibrils or amyloidogenic proteins e.g. alpha-synuclein. Per.Svenningsson@ki.se Accepted 2020-FEB-24 AT 16:12 GMT AT 16:12 GMT by KALPANAP Proceedings of the National Academy of Sciences of the United States of America 2019 Only protein-protein interactions imex curation imex curation α-synuclein-lipoprotein interactions and elevated ApoE level in cerebrospinal fluid from Parkinson's disease patients. α-synuclein-lipoprotein interactions and elevated ApoE level in cerebrospinal fluid from Parkinson's disease patients. Proceedings of the National Academy of Sciences of the United States of America 2019 imex curation Paslawski W., Zareba-Paslawska J., Zhang X., Hölzl K., Wadensten H., Shariatgorji M., Janelidze S., Hansson O., Forsgren L., Andrén PE., Svenningsson P., Paslawski W., Zareba-Paslawska J., Zhang X., Hölzl K., Wadensten H., Shariatgorji M., Janelidze S., Hansson O., Forsgren L., Andrén PE., Svenningsson P. Parkinsons - Interactions investigated in the context of Parkinsons disease Neurodegeneration - Publications depicting interactions involved in neurodegenerative diseases. HDL/VLDL added as GO XRefs as we cannot add as interactors and not appropriate to create as a "tissue"/host organism. Per.Svenningsson@ki.se 04-05-20: Contacted by IntAct-Help. Only protein-protein interactions imex curation in vitro In vitro molecular sieving molecular sieving Gel Filtration Size Exclusion Chromatography Size Exclusion Chromatography Gel Filtration Sizing column western blot western blot Immuno blot Immuno blot Paslawski W., Zareba-Paslawska J., Zhang X., Hölzl K., Wadensten H., Shariatgorji M., Janelidze S., Hansson O., Forsgren L., Andrén PE., Svenningsson P., Paslawski W., Zareba-Paslawska J., Zhang X., Hölzl K., Wadensten H., Shariatgorji M., Janelidze S., Hansson O., Forsgren L., Andrén PE., Svenningsson P. Parkinsons - Interactions investigated in the context of Parkinsons disease HDL/VLDL added as GO XRefs as we cannot add as interactors and not appropriate to create as a "tissue"/host organism. Per.Svenningsson@ki.se Accepted 2020-FEB-24 AT 16:12 GMT AT 16:12 GMT by KALPANAP Proceedings of the National Academy of Sciences of the United States of America 2019 Only protein-protein interactions imex curation imex curation α-synuclein-lipoprotein interactions and elevated ApoE level in cerebrospinal fluid from Parkinson's disease patients. α-synuclein-lipoprotein interactions and elevated ApoE level in cerebrospinal fluid from Parkinson's disease patients. Proceedings of the National Academy of Sciences of the United States of America 2019 imex curation Paslawski W., Zareba-Paslawska J., Zhang X., Hölzl K., Wadensten H., Shariatgorji M., Janelidze S., Hansson O., Forsgren L., Andrén PE., Svenningsson P., Paslawski W., Zareba-Paslawska J., Zhang X., Hölzl K., Wadensten H., Shariatgorji M., Janelidze S., Hansson O., Forsgren L., Andrén PE., Svenningsson P. Parkinsons - Interactions investigated in the context of Parkinsons disease Neurodegeneration - Publications depicting interactions involved in neurodegenerative diseases. HDL/VLDL added as GO XRefs as we cannot add as interactors and not appropriate to create as a "tissue"/host organism. Per.Svenningsson@ki.se 04-05-20: Contacted by IntAct-Help. Only protein-protein interactions imex curation human-csf Human Cerebrospinal fluid (CSF) csf Cerebrospinal fluid anti bait coip anti bait coimmunoprecipitation anti bait coip sequence tag sequence tag identification sequence tag Paslawski W., Zareba-Paslawska J., Zhang X., Hölzl K., Wadensten H., Shariatgorji M., Janelidze S., Hansson O., Forsgren L., Andrén PE., Svenningsson P., Paslawski W., Zareba-Paslawska J., Zhang X., Hölzl K., Wadensten H., Shariatgorji M., Janelidze S., Hansson O., Forsgren L., Andrén PE., Svenningsson P. Parkinsons - Interactions investigated in the context of Parkinsons disease HDL/VLDL added as GO XRefs as we cannot add as interactors and not appropriate to create as a "tissue"/host organism. Some proteins found in the IP have not been entered here;notably Bovine serum albumin and trypsin. Per.Svenningsson@ki.se Accepted 2020-FEB-24 AT 16:12 GMT AT 16:12 GMT by KALPANAP Proceedings of the National Academy of Sciences of the United States of America 2019 Only protein-protein interactions imex curation imex curation hv323_human Immunoglobulin heavy variable 3-23 IGHV3-23 Ig heavy chain V-III region VH26 Ig heavy chain V-III region LAY Ig heavy chain V-III region POM Ig heavy chain V-III region TEI Ig heavy chain V-III region TIL Ig heavy chain V-III region TUR Ig heavy chain V-III region WAS Ig heavy chain V-III region ZAP protein protein human Homo sapiens Human MEFGLSWLFLVAILKGVQCEVQLVESGGGLVQPGGSLRLSCAASGFTFSSYAMSWVRQAPGKGLEWVSAISGSGGSTYYADSVKGRFTISRDNSKNTLYLQMNSLRAEDTAVYYCAK E96D8794FA22F0B5 syua_human Alpha-synuclein Non-A beta component of AD amyloid Non-A4 component of amyloid precursor SNCA NACP PARK1 protein protein human Homo sapiens Human MDVFMKGLSKAKEGVVAAAEKTKQGVAEAAGKTKEGVLYVGSKTKEGVVHGVATVAEKTKEQVTNVGGAVVTGVTAVAQKTVEGAGSIAAATGFVKKDQLGKNEEGAPQEGILEDMPVDPDNEAYEMPSEEGYQDYEPEA DIP protein P37840 original sequence version: 124 DIP protein P37840 original sequence version: 175 DIP protein P37840 original sequence version: 178 6BB2F12128931663 apoe_human Apolipoprotein E APOE protein protein human Homo sapiens Human MKVLWAALLVTFLAGCQAKVEQAVETEPEPELRQQTEWQSGQRWELALGRFWDYLRWVQTLSEQVQEELLSSQVTQELRALMDETMKELKAYKSELEEQLTPVAEETRARLSKELQAAQARLGADMEDVCGRLVQYRGEVQAMLGQSTEELRVRLASHLRKLRKRLLRDADDLQKRLAVYQAGAREGAERGLSAIRERLGPLVEQGRVRAATVGSLAGQPLQERAQAWGERLRARMEEMGSRTRDRLDEVKEQVAEVRAKLEEQAQQIRLQAEAFQARLKSWFEPLVEDMQRQWAGLVEKVQAAVGTSAAPVPSDNH DIP protein P02649 original sequence version: 197 DIP protein P02649 original sequence version: 146 91AFC04210A30689 clus_human Clusterin CLU APOJ CLI KUB1 Complement-associated protein SP-40,40 Complement cytolysis inhibitor NA1/NA2 Apolipoprotein J Testosterone-repressed prostate message 2 Ku70-binding protein 1 Aging-associated gene 4 protein AAG4 Sulfated glycoprotein 2 protein protein human Homo sapiens Human MMKTLLLFVGLLLTWESGQVLGDQTVSDNELQEMSNQGSKYVNKEIQNAVNGVKQIKTLIEKTNEERKTLLSNLEEAKKKKEDALNETRESETKLKELPGVCNETMMALWEECKPCLKQTCMKFYARVCRSGSGLVGRQLEEFLNQSSPFYFWMNGDRIDSLLENDRQQTHMLDVMQDHFSRASSIIDELFQDRFFTREPQDTYHYLPFSLPHRRPHFFFPKSRIVRSLMPFSPYEPLNFHAMFQPFLEMIHEAQQAMDIHFHSPAFQHPPTEFIREGDDDRTVCREIRHNSTGCLRMKDQCDKCREILSVDCSTNNPSQAKLRRELDESLQVAERLTRKYNELLKSYQWKMLNTSSLLEQLNEQFNWVSRLANLTQGEDQYYLRVTTVASHTSDSDVPSGVTEVVVKLFDSDPITVTVPVEVSRKNPKFMETVAEKALQEYRKKHREE DIP protein P10909 original sequence version: 151 9583DE4CCECC169F apoa1_human Apolipoprotein A-I APOA1 Apolipoprotein A1 protein protein human Homo sapiens Human MKAAVLTLAVLFLTGSQARHFWQQDEPPQSPWDRVKDLATVYVDVLKDSGRDYVSQFEGSALGKQLNLKLLDNWDSVTSTFSKLREQLGPVTQEFWDNLEKETEGLRQEMSKDLEEVKAKVQPYLDDFQKKWQEEMELYRQKVEPLRAELQEGARQKLHELQEKLSPLGEEMRDRARAHVDALRTHLAPYSDELRQRLAARLEALKENGGARLAEYHAKATEHLSTLSEKAKPALEDLRQGLLPVLESFKVSFLSALEEYTKKLNTQ DIP protein P02647 original sequence version: 116 DIP protein P02647 original sequence version: 125 DIP protein P02647 original sequence version: 147 DIP protein P02647 original sequence version: 162 1A28B8366E620310 snca-apoa1-1 5 6 unspecified role unspecified role prey prey physiological level physiological level endogenous level endogenous endogenous endogenous level 9 unspecified role unspecified role prey prey physiological level physiological level endogenous level endogenous endogenous endogenous level 10 unspecified role unspecified role prey prey physiological level physiological level endogenous level endogenous endogenous endogenous level 8 unspecified role unspecified role prey prey physiological level physiological level endogenous level endogenous endogenous endogenous level 7 unspecified role unspecified role bait bait physiological level physiological level endogenous level endogenous endogenous endogenous level association association Table 1 the IGHV protein may be derived from ?antibody - be irrelevant, but as I am unsure I have left it in. apoe-snca-1 1 8 unspecified role unspecified role bait bait physiological level physiological level endogenous level endogenous endogenous endogenous level human-csf Human Cerebrospinal fluid (CSF) csf Cerebrospinal fluid 7 unspecified role unspecified role prey prey physiological level physiological level endogenous level endogenous endogenous endogenous level human-csf Human Cerebrospinal fluid (CSF) csf Cerebrospinal fluid physical association physical association 1B apoe-snca-2 1 8 unspecified role unspecified role prey prey physiological level physiological level endogenous level endogenous endogenous endogenous level human-csf Human Cerebrospinal fluid (CSF) csf Cerebrospinal fluid 7 unspecified role unspecified role bait bait physiological level physiological level endogenous level endogenous endogenous endogenous level human-csf Human Cerebrospinal fluid (CSF) csf Cerebrospinal fluid physical association physical association 1B snca-snca-23 3 7 unspecified role unspecified role neutral component neutral component purified purified ecoli Escherichia coli (strain K12) 7 unspecified role unspecified role neutral component neutral component purified purified ecoli Escherichia coli (strain K12) direct interaction direct interaction 1D After addition of recombinant ApoE no significant changes in the aggregation profile of the recombinant aSN were observed. apoe-snca-3 2 8 unspecified role unspecified role neutral component neutral component physiological level physiological level endogenous level endogenous endogenous endogenous level 7 unspecified role unspecified role neutral component neutral component physiological level physiological level endogenous level endogenous endogenous endogenous level colocalization colocalization 1E aSN and ApoE double immune-gold labeling revealed a colocalization of aSN and ApoE on larger (>30 nm) vesicular structures in CSF. main text appears to state that TEM is shown in Supp. Fig 6A - only I do not see this. apoe-snca-4 1 8 unspecified role unspecified role bait bait purified purified ecoli Escherichia coli (strain K12) 7 unspecified role unspecified role prey prey purified purified ecoli Escherichia coli (strain K12) physical association physical association 2C HDL and VLDL vesicles enriched with aSN and/or ApoE;samples had been passed through a size-exclusion filter prior to Elisa analysis. apoe-snca-5 1 8 unspecified role unspecified role prey prey purified purified ecoli Escherichia coli (strain K12) 7 unspecified role unspecified role bait bait purified purified ecoli Escherichia coli (strain K12) physical association physical association 2D HDL and VLDL vesicles enriched with aSN and/or ApoE;samples had been passed through a size-exclusion filter prior to Elisa analysis. apoe-snca-6 4 8 unspecified role unspecified role neutral component neutral component physiological level physiological level endogenous level endogenous endogenous endogenous level human-plasma homo sapiens blood plasma plasma blood plasma 7 unspecified role unspecified role neutral component neutral component purified purified ecoli Escherichia coli (strain K12) physical association physical association 2A human plasma VLDL contains APOE but plasma HDL does not. snca-snca-24 2 7 unspecified role unspecified role neutral component neutral component physiological level physiological level endogenous level endogenous endogenous endogenous level 7 unspecified role unspecified role neutral component neutral component physiological level physiological level endogenous level endogenous endogenous endogenous level colocalization colocalization S14