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/ LRRK2 binds to the Rab32 subfamily in a GTP-dependent manner via its armadillo domain. LRRK2 binds to the Rab32 subfamily in a GTP-dependent manner via its armadillo domain. Small GTPases 2019 imex curation McGrath E., Waschbüsch D., Baker BM., Khan AR. Parkinsons - Interactions investigated in the context of Parkinsons disease Neurodegeneration - Publications depicting interactions involved in neurodegenerative diseases. email to authors 22/11/19:-Regarding Figures 5A, Supp. Fig 6A:- In all other Pull downs the Rab molecules have either a mutation (Rab38 Q69L and Rab32 Q85L) OR are stated to have GTP/GDP/GTP analogue present/bound, but in Figs 5A and Supp. 6A NONE of these are present. Is this a deliberate omission? -or is GTP or a Q69L mutation present, but not stated? NO reply - 9/12/2019 so sent for checking. amirrafk@tcd.ie Only protein-protein interactions imex curation in vitro In vitro itc isothermal titration calorimetry ITC ITC itc predetermined predetermined participant predetermined McGrath E., Waschbüsch D., Baker BM., Khan AR. Parkinsons - Interactions investigated in the context of Parkinsons disease Rab38 Q69L and Rab32 Q85L mutants are locked in the GTP bound form. email to authors 22/11/19:-Regarding Figures 5A, Supp. Fig 6A:- In all other Pull downs the Rab molecules have either a mutation (Rab38 Q69L and Rab32 Q85L) OR are stated to have GTP/GDP/GTP analogue present/bound, but in Figs 5A and Supp. 6A NONE of these are present. Is this a deliberate omission? -or is GTP or a Q69L mutation present, but not stated? NO reply - 9/12/2019 so sent for checking. amirrafk@tcd.ie Accepted 2020-MAY-08 AT 05:27 BST AT 05:27 BST by KALPANAP Small GTPases 2019 Only protein-protein interactions imex curation imex curation LRRK2 binds to the Rab32 subfamily in a GTP-dependent manner via its armadillo domain. LRRK2 binds to the Rab32 subfamily in a GTP-dependent manner via its armadillo domain. Small GTPases 2019 imex curation McGrath E., Waschbüsch D., Baker BM., Khan AR. Parkinsons - Interactions investigated in the context of Parkinsons disease Neurodegeneration - Publications depicting interactions involved in neurodegenerative diseases. email to authors 22/11/19:-Regarding Figures 5A, Supp. Fig 6A:- In all other Pull downs the Rab molecules have either a mutation (Rab38 Q69L and Rab32 Q85L) OR are stated to have GTP/GDP/GTP analogue present/bound, but in Figs 5A and Supp. 6A NONE of these are present. Is this a deliberate omission? -or is GTP or a Q69L mutation present, but not stated? NO reply - 9/12/2019 so sent for checking. amirrafk@tcd.ie Only protein-protein interactions imex curation in vitro In vitro fps fluorescence polarization spectroscopy Fluorescence anisotropy FPS FPS Fluorescence anisotropy fps predetermined predetermined participant predetermined McGrath E., Waschbüsch D., Baker BM., Khan AR. Parkinsons - Interactions investigated in the context of Parkinsons disease email to authors 22/11/19:-Regarding Figures 5A, Supp. Fig 6A:- In all other Pull downs the Rab molecules have either a mutation (Rab38 Q69L and Rab32 Q85L) OR are stated to have GTP/GDP/GTP analogue present/bound, but in Figs 5A and Supp. 6A NONE of these are present. Is this a deliberate omission? -or is GTP or a Q69L mutation present, but not stated? NO reply - 9/12/2019 so sent for checking. amirrafk@tcd.ie Accepted 2020-MAY-08 AT 05:27 BST AT 05:27 BST by KALPANAP Small GTPases 2019 Only protein-protein interactions imex curation imex curation LRRK2 binds to the Rab32 subfamily in a GTP-dependent manner via its armadillo domain. LRRK2 binds to the Rab32 subfamily in a GTP-dependent manner via its armadillo domain. Small GTPases 2019 imex curation McGrath E., Waschbüsch D., Baker BM., Khan AR. Parkinsons - Interactions investigated in the context of Parkinsons disease Neurodegeneration - Publications depicting interactions involved in neurodegenerative diseases. email to authors 22/11/19:-Regarding Figures 5A, Supp. Fig 6A:- In all other Pull downs the Rab molecules have either a mutation (Rab38 Q69L and Rab32 Q85L) OR are stated to have GTP/GDP/GTP analogue present/bound, but in Figs 5A and Supp. 6A NONE of these are present. Is this a deliberate omission? -or is GTP or a Q69L mutation present, but not stated? NO reply - 9/12/2019 so sent for checking. amirrafk@tcd.ie Only protein-protein interactions imex curation in vitro In vitro pull down pull down weight by comassie molecular weight estimation by coomasie staining weight by comassie McGrath E., Waschbüsch D., Baker BM., Khan AR. Parkinsons - Interactions investigated in the context of Parkinsons disease Rab38 Q69L and Rab32 Q85L mutants are locked in the GTP bound form. email to authors 22/11/19:-Regarding Figures 5A, Supp. Fig 6A:- In all other Pull downs the Rab molecules have either a mutation (Rab38 Q69L and Rab32 Q85L) OR are stated to have GTP/GDP/GTP analogue present/bound, but in Figs 5A and Supp. 6A NONE of these are present. Is this a deliberate omission? -or is GTP or a Q69L mutation present, but not stated? NO reply - 9/12/2019 so sent for checking. amirrafk@tcd.ie Accepted 2020-MAY-08 AT 05:27 BST AT 05:27 BST by KALPANAP Small GTPases 2019 Only protein-protein interactions imex curation imex curation gtp guanosine triphosphate - GTP 5'-GTP GTP Guanosine 5'-triphosphate guanosine 5'-triphosphoric acid guanosine triphosphate GUANOSINE-5'-TRIPHOSPHATE H4gtp guanosine 5'-(tetrahydrogen triphosphate) small molecule small molecule chemical synthesis Chemical synthesis (Chemical synthesis) InChI=1/C10H16N5O14P3/c11-10-13-7-4(8(18)14-10)12-2-15(7)9-6(17)5(16)3(27-9)1-26-31(22,23)29-32(24,25)28-30(19,20)21/h2-3,5-6,9,16-17H,1H2,(H,22,23)(H,24,25)(H2,19,20,21)(H3,11,13,14,18)/t3-,5-,6-,9-/m1/s1/f/h14,19-20,22,24H,11H2 InChI=1/C10H16N5O14P3/c11-10-13-7-4(8(18)14-10)12-2-15(7)9-6(17)5(16)3(27-9)1-26-31(22,23)29-32(24,25)28-30(19,20)21/h2-3,5-6,9,16-17H,1H2,(H,22,23)(H,24,25)(H2,19,20,21)(H3,11,13,14,18)/t3-,5-,6-,9-/m1/s1/f/h14,19-20,22,24H,11H2 rab7l_human Ras-related protein Rab-7L1 RAB29 RAB7L1 Rab-7-like protein 1 Ras-related protein Rab-29 protein protein human Homo sapiens Human MGSRDHLFKVLVVGDAAVGKTSLVQRYSQDSFSKHYKSTVGVDFALKVLQWSDYEIVRLQLWDIAGQERFTSMTRLYYRDASACVIMFDVTNATTFSNSQRWKQDLDSKLTLPNGEPVPCLLLANKCDLSPWAVSRDQIDRFSKENGFTGWTETSVKENKNINEAMRVLIEKMMRNSTEDIMSLSTQGDYINLQTKSSSWSCC 40E7CAB02446DF97 guanosine 5'-[beta,gamma-imido]triphosphate guanosine 5'-[beta,gamma-imido]triphosphate 5'-Guanylic acid, monoanhydride with imidodiphosphoric acid 5'-guanylylimidodiphosphate GMP-PNP GMP-Pnp Gpp(NH)-p Gpp(NH)p Guanylyl imidodiphosphate 5'-O-(hydroxy{[hydroxy(phosphonoamino)phosphoryl]oxy}phosphoryl)guanosine small molecule small molecule chemical synthesis Chemical synthesis (Chemical synthesis) gdp guanosine 5-diphosphate small molecule small molecule chemical synthesis Chemical synthesis (Chemical synthesis) rab32_human Ras-related protein Rab-32 RAB32 protein protein human Homo sapiens Human MAGGGAGDPGLGAAAAPAPETREHLFKVLVIGELGVGKTSIIKRYVHQLFSQHYRATIGVDFALKVLNWDSRTLVRLQLWDIAGQERFGNMTRVYYKEAVGAFVVFDISRSSTFEAVLKWKSDLDSKVHLPNGSPIPAVLLANKCDQNKDSSQSPSQVDQFCKEHGFAGWFETSAKDNINIEEAARFLVEKILVNHQSFPNEENDVDKIKLDQETLRAENKSQCC DIP protein Q13637 original sequence version: 145 91D41BAC1E3434CA rab38_human Ras-related protein Rab-38 RAB38 Melanoma antigen NY-MEL-1 protein protein human Homo sapiens Human MQAPHKEHLYKLLVIGDLGVGKTSIIKRYVHQNFSSHYRATIGVDFALKVLHWDPETVVRLQLWDIAGQERFGNMTRVYYREAMGAFIVFDVTRPATFEAVAKWKNDLDSKLSLPNGKPVSVVLLANKCDQGKDVLMNNGLKMDQFCKEHGFVGWFETSAKENINIDEASRCLVKHILANECDLMESIEPDVVKPHLTSTKVASCSGCAKS DIP protein P57729 original sequence version: 119 DIP protein P57729 original sequence version: 140 0D16B42A1B237539 lrrk2_human Leucine-rich repeat serine/threonine-protein kinase 2 LRRK2 PARK8 Dardarin protein protein human Homo sapiens Human MASGSCQGCEEDEETLKKLIVRLNNVQEGKQIETLVQILEDLLVFTYSERASKLFQGKNIHVPLLIVLDSYMRVASVQQVGWSLLCKLIEVCPGTMQSLMGPQDVGNDWEVLGVHQLILKMLTVHNASVNLSVIGLKTLDLLLTSGKITLLILDEESDIFMLIFDAMHSFPANDEVQKLGCKALHVLFERVSEEQLTEFVENKDYMILLSALTNFKDEEEIVLHVLHCLHSLAIPCNNVEVLMSGNVRCYNIVVEAMKAFPMSERIQEVSCCLLHRLTLGNFFNILVLNEVHEFVVKAVQQYPENAALQISALSCLALLTETIFLNQDLEEKNENQENDDEGEEDKLFWLEACYKALTWHRKNKHVQEAACWALNNLLMYQNSLHEKIGDEDGHFPAHREVMLSMLMHSSSKEVFQASANALSTLLEQNVNFRKILLSKGIHLNVLELMQKHIHSPEVAESGCKMLNHLFEGSNTSLDIMAAVVPKILTVMKRHETSLPVQLEALRAILHFIVPGMPEESREDTEFHHKLNMVKKQCFKNDIHKLVLAALNRFIGNPGIQKCGLKVISSIVHFPDALEMLSLEGAMDSVLHTLQMYPDDQEIQCLGLSLIGYLITKKNVFIGTGHLLAKILVSSLYRFKDVAEIQTKGFQTILAILKLSASFSKLLVHHSFDLVIFHQMSSNIMEQKDQQFLNLCCKCFAKVAMDDYLKNVMLERACDQNNSIMVECLLLLGADANQAKEGSSLICQVCEKESSPKLVELLLNSGSREQDVRKALTISIGKGDSQIISLLLRRLALDVANNSICLGGFCIGKVEPSWLGPLFPDKTSNLRKQTNIASTLARMVIRYQMKSAVEEGTASGSDGNFSEDVLSKFDEWTFIPDSSMDSVFAQSDDLDSEGSEGSFLVKKKSNSISVGEFYRDAVLQRCSPNLQRHSNSLGPIFDHEDLLKRKRKILSSDDSLRSSKLQSHMRHSDSISSLASEREYITSLDLSANELRDIDALSQKCCISVHLEHLEKLELHQNALTSFPQQLCETLKSLTHLDLHSNKFTSFPSYLLKMSCIANLDVSRNDIGPSVVLDPTVKCPTLKQFNLSYNQLSFVPENLTDVVEKLEQLILEGNKISGICSPLRLKELKILNLSKNHISSLSENFLEACPKVESFSARMNFLAAMPFLPPSMTILKLSQNKFSCIPEAILNLPHLRSLDMSSNDIQYLPGPAHWKSLNLRELLFSHNQISILDLSEKAYLWSRVEKLHLSHNKLKEIPPEIGCLENLTSLDVSYNLELRSFPNEMGKLSKIWDLPLDELHLNFDFKHIGCKAKDIIRFLQQRLKKAVPYNRMKLMIVGNTGSGKTTLLQQLMKTKKSDLGMQSATVGIDVKDWPIQIRDKRKRDLVLNVWDFAGREEFYSTHPHFMTQRALYLAVYDLSKGQAEVDAMKPWLFNIKARASSSPVILVGTHLDVSDEKQRKACMSKITKELLNKRGFPAIRDYHFVNATEESDALAKLRKTIINESLNFKIRDQLVVGQLIPDCYVELEKIILSERKNVPIEFPVIDRKRLLQLVRENQLQLDENELPHAVHFLNESGVLLHFQDPALQLSDLYFVEPKWLCKIMAQILTVKVEGCPKHPKGIISRRDVEKFLSKKRKFPKNYMSQYFKLLEKFQIALPIGEEYLLVPSSLSDHRPVIELPHCENSEIIIRLYEMPYFPMGFWSRLINRLLEISPYMLSGRERALRPNRMYWRQGIYLNWSPEAYCLVGSEVLDNHPESFLKITVPSCRKGCILLGQVVDHIDSLMEEWFPGLLEIDICGEGETLLKKWALYSFNDGEEHQKILLDDLMKKAEEGDLLVNPDQPRLTIPISQIAPDLILADLPRNIMLNNDELEFEQAPEFLLGDGSFGSVYRAAYEGEEVAVKIFNKHTSLRLLRQELVVLCHLHHPSLISLLAAGIRPRMLVMELASKGSLDRLLQQDKASLTRTLQHRIALHVADGLRYLHSAMIIYRDLKPHNVLLFTLYPNAAIIAKIADYGIAQYCCRMGIKTSEGTPGFRAPEVARGNVIYNQQADVYSFGLLLYDILTTGGRIVEGLKFPNEFDELEIQGKLPDPVKEYGCAPWPMVEKLIKQCLKENPQERPTSAQVFDILNSAELVCLTRRILLPKNVIVECMVATHHNSRNASIWLGCGHTDRGQLSFLDLNTEGYTSEEVADSRILCLALVHLPVEKESWIVSGTQSGTLLVINTEDGKKRHTLEKMTDSVTCLYCNSFSKQSKQKNFLLVGTADGKLAIFEDKTVKLKGAAPLKILNIGNVSTPLMCLSESTNSTERNVMWGGCGTKIFSFSNDFTIQKLIETRTSQLFSYAAFSDSNIITVVVDTALYIAKQNSPVVEVWDKKTEKLCGLIDCVHFLREVMVKENKESKHKMSYSGRVKTLCLQKNTALWIGTGGGHILLLDLSTRRLIRVIYNFCNSVRVMMTAQLGSLKNVMLVLGYNRKNTEGTQKQKEIQSCLTVWDINLPHEVQNLEKHIEVRKELAEKMRRTSVE DIP protein Q5S007 original sequence version: 36 DIP protein Q5S007 original sequence version: 68 DIP protein Q5S007 original sequence version: 64 26142A0CECBBC3F4 rab29-lrrk2-1 3 5 unspecified role unspecified role bait bait purified purified n-terminus his tag his tag Hexa-His-tag 6-His-tag Histidine-tag Hexa-His-tag Histidine-tag 6-His-tag n-term range n-terminal range n-term range n-term range n-terminal range n-term range region sufficient to bind sufficient binding region sufficient to bind certain certain sequence position certain certain certain sequence position certain ecoli Escherichia coli (strain K12) 10 unspecified role unspecified role prey prey purified purified region sufficient to bind sufficient binding region sufficient to bind certain certain sequence position certain certain certain sequence position certain ecoli Escherichia coli (strain K12) 6 cofactor cofactor coenzyme unspecified role unspecified role purified purified binding_region binding region binding-associated region binding region undetermined undetermined sequence position undetermined undetermined undetermined sequence position undetermined chemical synthesis Chemical synthesis (Chemical synthesis) 18 14 direct interaction direct interaction 1B, Supp. fig 3 rab32-lrrk2-2 3 8 unspecified role unspecified role bait bait purified purified n-terminus his tag his tag Hexa-His-tag 6-His-tag Histidine-tag Hexa-His-tag Histidine-tag 6-His-tag n-term range n-terminal range n-term range n-term range n-terminal range n-term range region sufficient to bind sufficient binding region sufficient to bind certain certain sequence position certain certain certain sequence position certain Q13637:p.Gln85Leu mutation mutation certain certain sequence position certain certain certain sequence position certain Q L Tue Jun 30 17:07:15 BST 2020 This feature has been corrected as a result of our quality control procedures. The original label was 'p.Gln85Leu' ecoli Escherichia coli (strain K12) 10 unspecified role unspecified role prey prey purified purified region sufficient to bind sufficient binding region sufficient to bind certain certain sequence position certain certain certain sequence position certain ecoli Escherichia coli (strain K12) 4 cofactor cofactor coenzyme unspecified role unspecified role purified purified binding_region binding region binding-associated region binding region undetermined undetermined sequence position undetermined undetermined undetermined sequence position undetermined chemical synthesis Chemical synthesis (Chemical synthesis) 22 27 direct interaction direct interaction 1C, Supp. fig 3/4/6C Deletion of a negatively charged loop (residues 317-342) in the LRRK2 ARM domain did not affect its ability to bind to the Rab32 subfamily. rab32-lrrk2-4 3 9 unspecified role unspecified role bait bait purified purified n-terminus his tag his tag Hexa-His-tag 6-His-tag Histidine-tag Hexa-His-tag Histidine-tag 6-His-tag n-term range n-terminal range n-term range n-term range n-terminal range n-term range region sufficient to bind sufficient binding region sufficient to bind certain certain sequence position certain certain certain sequence position certain P57729:p.Gln69Leu mutation mutation certain certain sequence position certain certain certain sequence position certain Q L Tue Jun 30 17:50:10 BST 2020 This feature has been corrected as a result of our quality control procedures. The original label was 'p.Gln69Leu' ecoli Escherichia coli (strain K12) 10 unspecified role unspecified role prey prey purified purified region sufficient to bind sufficient binding region sufficient to bind certain certain sequence position certain certain certain sequence position certain Q5S007:p.[Cys6Ser;Cys9Ser;Cys228Ser;Cys236Ser;Cys272Ser;Cys746Ala] mutation with no effect mutation with no effect mutation with no effect mutation not affecting interaction certain certain sequence position certain certain certain sequence position certain C S certain certain sequence position certain certain certain sequence position certain C S certain certain sequence position certain certain certain sequence position certain C S certain certain sequence position certain certain certain sequence position certain C A certain certain sequence position certain certain certain sequence position certain C S certain certain sequence position certain certain certain sequence position certain C S Tue Jun 30 19:32:55 BST 2020 This feature has been corrected as a result of our quality control procedures. The original label was 'p.[Cys6Ser;Cys9Ser;Cys228Ser;Cys236Ser;Cys272Ser;Cys746Ala]' ecoli Escherichia coli (strain K12) 4 cofactor cofactor coenzyme unspecified role unspecified role purified purified binding_region binding region binding-associated region binding region undetermined undetermined sequence position undetermined undetermined undetermined sequence position undetermined chemical synthesis Chemical synthesis (Chemical synthesis) 37 31 direct interaction direct interaction 1D, Supp. Fig 2/4/6C Deletion of a negatively charged loop (residues 317-342) in the LRRK2 ARM domain did not affect its ability to bind to the Rab32 subfamily. rab29-lrrk2-2 3 5 unspecified role unspecified role bait bait purified purified n-terminus his tag his tag Hexa-His-tag 6-His-tag Histidine-tag Hexa-His-tag Histidine-tag 6-His-tag n-term range n-terminal range n-term range n-term range n-terminal range n-term range region sufficient to bind sufficient binding region sufficient to bind certain certain sequence position certain certain certain sequence position certain ecoli Escherichia coli (strain K12) 10 unspecified role unspecified role prey prey purified purified region sufficient to bind sufficient binding region sufficient to bind certain certain sequence position certain certain certain sequence position certain Q5S007:p.Leu728_Leu729delinsAspAsp mutation with no effect mutation with no effect mutation with no effect mutation not affecting interaction certain certain sequence position certain certain certain sequence position certain LL DD Tue Jun 30 17:05:50 BST 2020 This feature has been corrected as a result of our quality control procedures. The original label was 'p.Leu728_Leu729delinsAspAsp' ecoli Escherichia coli (strain K12) 4 cofactor cofactor coenzyme unspecified role unspecified role purified purified binding_region binding region binding-associated region binding region undetermined undetermined sequence position undetermined undetermined undetermined sequence position undetermined chemical synthesis Chemical synthesis (Chemical synthesis) 41 46 direct interaction direct interaction 1F It is unclear if the LRRK2 L728D+L729D mutation reduces binding to Rab29 or if the fainter band is entirely due to instability of the mutated protein. rab29-lrrk2-3 3 5 unspecified role unspecified role bait bait purified purified n-terminus his tag his tag Hexa-His-tag 6-His-tag Histidine-tag Hexa-His-tag Histidine-tag 6-His-tag n-term range n-terminal range n-term range n-term range n-terminal range n-term range region sufficient to bind sufficient binding region sufficient to bind certain certain sequence position certain certain certain sequence position certain ecoli Escherichia coli (strain K12) 10 unspecified role unspecified role prey prey purified purified region sufficient to bind sufficient binding region sufficient to bind certain certain sequence position certain certain certain sequence position certain ecoli Escherichia coli (strain K12) 6 cofactor cofactor coenzyme unspecified role unspecified role purified purified binding_region binding region binding-associated region binding region undetermined undetermined sequence position undetermined undetermined undetermined sequence position undetermined chemical synthesis Chemical synthesis (Chemical synthesis) 50 54 direct interaction direct interaction 2A rab29-lrrk2-4 3 9 competitor competitor competitor unspecified role unspecified role purified purified region sufficient to bind sufficient binding region sufficient to bind certain certain sequence position certain certain certain sequence position certain P57729:p.Gln69Leu mutation mutation certain certain sequence position certain certain certain sequence position certain Q L Tue Jun 30 20:09:03 BST 2020 This feature has been corrected as a result of our quality control procedures. The original label was 'p.Gln69Leu' ecoli Escherichia coli (strain K12) 5 unspecified role unspecified role bait bait purified purified n-terminus his tag his tag Hexa-His-tag 6-His-tag Histidine-tag Hexa-His-tag Histidine-tag 6-His-tag n-term range n-terminal range n-term range n-term range n-terminal range n-term range region sufficient to bind sufficient binding region sufficient to bind certain certain sequence position certain certain certain sequence position certain ecoli Escherichia coli (strain K12) 10 unspecified role unspecified role prey prey purified purified region sufficient to bind sufficient binding region sufficient to bind certain certain sequence position certain certain certain sequence position certain ecoli Escherichia coli (strain K12) 6 cofactor cofactor coenzyme unspecified role unspecified role purified purified binding_region binding region binding-associated region binding region undetermined undetermined sequence position undetermined undetermined undetermined sequence position undetermined chemical synthesis Chemical synthesis (Chemical synthesis) 61 65 physical association physical association 2A-2 rab29-lrrk2-5 3 9 competitor competitor competitor unspecified role unspecified role purified purified region sufficient to bind sufficient binding region sufficient to bind certain certain sequence position certain certain certain sequence position certain P57729:p.Gln69Leu mutation mutation certain certain sequence position certain certain certain sequence position certain Q L Tue Jun 30 17:34:21 BST 2020 This feature has been corrected as a result of our quality control procedures. The original label was 'p.Gln69Leu' ecoli Escherichia coli (strain K12) 8 unspecified role unspecified role bait bait purified purified n-terminus his tag his tag Hexa-His-tag 6-His-tag Histidine-tag Hexa-His-tag Histidine-tag 6-His-tag n-term range n-terminal range n-term range n-term range n-terminal range n-term range region sufficient to bind sufficient binding region sufficient to bind certain certain sequence position certain certain certain sequence position certain Q13637:p.Gln85Leu mutation mutation certain certain sequence position certain certain certain sequence position certain Q L Tue Jun 30 17:47:51 BST 2020 This feature has been corrected as a result of our quality control procedures. The original label was 'p.Gln85Leu' ecoli Escherichia coli (strain K12) 10 unspecified role unspecified role prey prey purified purified region sufficient to bind sufficient binding region sufficient to bind certain certain sequence position certain certain certain sequence position certain ecoli Escherichia coli (strain K12) 6 cofactor cofactor coenzyme unspecified role unspecified role purified purified binding_region binding region binding-associated region binding region undetermined undetermined sequence position undetermined undetermined undetermined sequence position undetermined chemical synthesis Chemical synthesis (Chemical synthesis) 72 77 physical association physical association 2A-4 rab32-lrrk2-5 3 8 unspecified role unspecified role bait bait purified purified n-terminus his tag his tag Hexa-His-tag 6-His-tag Histidine-tag Hexa-His-tag Histidine-tag 6-His-tag n-term range n-terminal range n-term range n-term range n-terminal range n-term range region sufficient to bind sufficient binding region sufficient to bind certain certain sequence position certain certain certain sequence position certain Q13637:p.Gln85Leu mutation mutation certain certain sequence position certain certain certain sequence position certain Q L Tue Jun 30 19:26:15 BST 2020 This feature has been corrected as a result of our quality control procedures. The original label was 'p.Gln85Leu' ecoli Escherichia coli (strain K12) 10 unspecified role unspecified role prey prey purified purified region sufficient to bind sufficient binding region sufficient to bind certain certain sequence position certain certain certain sequence position certain ecoli Escherichia coli (strain K12) 6 cofactor cofactor coenzyme unspecified role unspecified role purified purified binding_region binding region binding-associated region binding region undetermined undetermined sequence position undetermined undetermined undetermined sequence position undetermined chemical synthesis Chemical synthesis (Chemical synthesis) 86 81 physical association physical association 2A-3 rab38-lrrk2-1 1 9 unspecified role unspecified role neutral component neutral component purified purified n-terminus his tag his tag Hexa-His-tag 6-His-tag Histidine-tag Hexa-His-tag Histidine-tag 6-His-tag n-term range n-terminal range n-term range n-term range n-terminal range n-term range region sufficient to bind sufficient binding region sufficient to bind certain certain sequence position certain certain certain sequence position certain P57729:p.Gln69Leu mutation mutation certain certain sequence position certain certain certain sequence position certain Q L Tue Jun 30 17:29:30 BST 2020 This feature has been corrected as a result of our quality control procedures. The original label was 'p.Gln69Leu' ecoli Escherichia coli (strain K12) 4 cofactor cofactor coenzyme unspecified role unspecified role purified purified binding_region binding region binding-associated region binding region undetermined undetermined sequence position undetermined undetermined undetermined sequence position undetermined chemical synthesis Chemical synthesis (Chemical synthesis) 10 unspecified role unspecified role neutral component neutral component purified purified region sufficient to bind sufficient binding region sufficient to bind certain certain sequence position certain certain certain sequence position certain ecoli Escherichia coli (strain K12) 93 90 direct interaction direct interaction 2B-1, Table 2. rab38-lrrk2-2 1 9 unspecified role unspecified role neutral component neutral component purified purified n-terminus his tag his tag Hexa-His-tag 6-His-tag Histidine-tag Hexa-His-tag Histidine-tag 6-His-tag n-term range n-terminal range n-term range n-term range n-terminal range n-term range region sufficient to bind sufficient binding region sufficient to bind certain certain sequence position certain certain certain sequence position certain ecoli Escherichia coli (strain K12) 6 cofactor cofactor coenzyme unspecified role unspecified role purified purified binding_region binding region binding-associated region binding region undetermined undetermined sequence position undetermined undetermined undetermined sequence position undetermined chemical synthesis Chemical synthesis (Chemical synthesis) 10 unspecified role unspecified role neutral component neutral component purified purified region sufficient to bind sufficient binding region sufficient to bind certain certain sequence position certain certain certain sequence position certain ecoli Escherichia coli (strain K12) 101 99 direct interaction direct interaction 2B-2 Kd values are not given in Table 2 for this interaction with GppNHp. rab29-lrrk2-6 2 6 cofactor cofactor coenzyme unspecified role unspecified role purified purified binding_region binding region binding-associated region binding region undetermined undetermined sequence position undetermined undetermined undetermined sequence position undetermined mant_tag fluorophore fluorophore undetermined undetermined sequence position undetermined undetermined undetermined sequence position undetermined chemical synthesis Chemical synthesis (Chemical synthesis) 5 unspecified role unspecified role bait bait purified purified binding_region binding region binding-associated region binding region undetermined undetermined sequence position undetermined undetermined undetermined sequence position undetermined ecoli Escherichia coli (strain K12) 10 unspecified role unspecified role prey prey purified purified Q5S007:p.[Asp390Asn;Asp392Asn] mutation decreasing strength mutation decreasing interaction strength mutation decreasing strength certain certain sequence position certain certain certain sequence position certain D N certain certain sequence position certain certain certain sequence position certain D N Tue Jun 30 17:26:58 BST 2020 This feature has been corrected as a result of our quality control procedures. The original label was 'p.[Asp390Asn;Asp392Asn]' region sufficient to bind sufficient binding region sufficient to bind certain certain sequence position certain certain certain sequence position certain ecoli Escherichia coli (strain K12) 106 109 direct interaction direct interaction 2D, table 2, 5D rab29-lrrk2-7 2 6 cofactor cofactor coenzyme unspecified role unspecified role purified purified binding_region binding region binding-associated region binding region undetermined undetermined sequence position undetermined undetermined undetermined sequence position undetermined mant_tag fluorophore fluorophore undetermined undetermined sequence position undetermined undetermined undetermined sequence position undetermined chemical synthesis Chemical synthesis (Chemical synthesis) 9 unspecified role unspecified role bait bait purified purified binding_region binding region binding-associated region binding region undetermined undetermined sequence position undetermined undetermined undetermined sequence position undetermined P57729:p.Arg39Gln mutation decreasing strength mutation decreasing interaction strength mutation decreasing strength certain certain sequence position certain certain certain sequence position certain R Q Tue Jun 30 17:20:21 BST 2020 This feature has been corrected as a result of our quality control procedures. The original label was 'p.Arg39Gln' ecoli Escherichia coli (strain K12) 10 unspecified role unspecified role prey prey purified purified region sufficient to bind sufficient binding region sufficient to bind certain certain sequence position certain certain certain sequence position certain ecoli Escherichia coli (strain K12) 115 118 direct interaction direct interaction 2C, table 2, 5B rab38-lrrk2-3 2 6 cofactor cofactor coenzyme unspecified role unspecified role purified purified binding_region binding region binding-associated region binding region undetermined undetermined sequence position undetermined undetermined undetermined sequence position undetermined mant_tag fluorophore fluorophore undetermined undetermined sequence position undetermined undetermined undetermined sequence position undetermined chemical synthesis Chemical synthesis (Chemical synthesis) 8 unspecified role unspecified role bait bait purified purified binding_region binding region binding-associated region binding region undetermined undetermined sequence position undetermined undetermined undetermined sequence position undetermined ecoli Escherichia coli (strain K12) 10 unspecified role unspecified role prey prey purified purified region sufficient to bind sufficient binding region sufficient to bind certain certain sequence position certain certain certain sequence position certain ecoli Escherichia coli (strain K12) 124 127 direct interaction direct interaction 2E, table 2 rab38-lrrk2-4 3 9 unspecified role unspecified role bait bait purified purified P57729:p.Ile42Ala mutation with no effect mutation with no effect mutation with no effect mutation not affecting interaction certain certain sequence position certain certain certain sequence position certain I A Tue Jun 30 18:11:18 BST 2020 This feature has been corrected as a result of our quality control procedures. The original label was 'p.Ile42Ala' P57729:p.Ile42Glu mutation with no effect mutation with no effect mutation with no effect mutation not affecting interaction certain certain sequence position certain certain certain sequence position certain I E Tue Jun 30 15:56:43 BST 2020 This feature has been corrected as a result of our quality control procedures. The original label was 'p.Ile42Glu' P57729:p.[Arg77Gln;Arg81Gln] mutation with no effect mutation with no effect mutation with no effect mutation not affecting interaction certain certain sequence position certain certain certain sequence position certain R Q certain certain sequence position certain certain certain sequence position certain R Q Tue Jun 30 20:12:39 BST 2020 This feature has been corrected as a result of our quality control procedures. The original label was 'p.[Arg77Gln;Arg81Gln]' n-terminus his tag his tag Hexa-His-tag 6-His-tag Histidine-tag Hexa-His-tag Histidine-tag 6-His-tag n-term range n-terminal range n-term range n-term range n-terminal range n-term range region sufficient to bind sufficient binding region sufficient to bind certain certain sequence position certain certain certain sequence position certain P57729:p.Arg39Gln mutation decreasing strength mutation decreasing interaction strength mutation decreasing strength certain certain sequence position certain certain certain sequence position certain R Q Tue Jun 30 19:54:48 BST 2020 This feature has been corrected as a result of our quality control procedures. The original label was 'p.Arg39Gln' ecoli Escherichia coli (strain K12) 10 unspecified role unspecified role prey prey purified purified region sufficient to bind sufficient binding region sufficient to bind certain certain sequence position certain certain certain sequence position certain ecoli Escherichia coli (strain K12) direct interaction direct interaction 5A, Supp. Fig 6A rab29-lrrk2-8 3 5 unspecified role unspecified role bait bait purified purified n-terminus his tag his tag Hexa-His-tag 6-His-tag Histidine-tag Hexa-His-tag Histidine-tag 6-His-tag n-term range n-terminal range n-term range n-term range n-terminal range n-term range region sufficient to bind sufficient binding region sufficient to bind certain certain sequence position certain certain certain sequence position certain ecoli Escherichia coli (strain K12) 10 unspecified role unspecified role prey prey purified purified region sufficient to bind sufficient binding region sufficient to bind certain certain sequence position certain certain certain sequence position certain Q5S007:p.[Asp390Asn;Asp392Asn] mutation decreasing strength mutation decreasing interaction strength mutation decreasing strength certain certain sequence position certain certain certain sequence position certain D N certain certain sequence position certain certain certain sequence position certain D N Tue Jun 30 17:03:42 BST 2020 This feature has been corrected as a result of our quality control procedures. The original label was 'p.[Asp390Asn;Asp392Asn]' ecoli Escherichia coli (strain K12) 4 cofactor cofactor coenzyme unspecified role unspecified role purified purified binding_region binding region binding-associated region binding region undetermined undetermined sequence position undetermined undetermined undetermined sequence position undetermined chemical synthesis Chemical synthesis (Chemical synthesis) 143 148 direct interaction direct interaction 5C-1, Supp. fig 4. It has been assumed the LRRK2 1-552 construct has been used here based on the statement :-"LRRK2 2mut was stably expressed and purified, and pulldowns revealed a decrease in binding to Rab29 and Rab38 (Figure 5(c),S4).". -Fig S4 explicitly states 1-552. rab29-lrrk2-9 3 9 unspecified role unspecified role bait bait purified purified n-terminus his tag his tag Hexa-His-tag 6-His-tag Histidine-tag Hexa-His-tag Histidine-tag 6-His-tag n-term range n-terminal range n-term range n-term range n-terminal range n-term range region sufficient to bind sufficient binding region sufficient to bind certain certain sequence position certain certain certain sequence position certain ecoli Escherichia coli (strain K12) 10 unspecified role unspecified role prey prey purified purified Q5S007:p.[Glu386Gln;Asp390_Asp392delinsAsnGlnAsn] mutation disrupting strength mutation disrupting interaction strength mutation disrupting strength certain certain sequence position certain certain certain sequence position certain DED NQN certain certain sequence position certain certain certain sequence position certain E Q Mon Dec 16 11:54:32 GMT 2019 This feature has been corrected as a result of our quality control procedures. The original label was 'p.[Glu386Gln;Asp390Asn_Asp392delinsAsnGlnAsn]' Tue Jun 30 18:44:02 BST 2020 This feature has been corrected as a result of our quality control procedures. The original label was 'p.[Glu386Gln;Asp390_Asp392delinsAsnGlnAsn]' Q5S007:p.[Asp390Asn;Asp392Asn] mutation decreasing strength mutation decreasing interaction strength mutation decreasing strength certain certain sequence position certain certain certain sequence position certain D N certain certain sequence position certain certain certain sequence position certain D N Tue Jun 30 16:06:29 BST 2020 This feature has been corrected as a result of our quality control procedures. The original label was 'p.[Asp390Asn;Asp392Asn]' region sufficient to bind sufficient binding region sufficient to bind certain certain sequence position certain certain certain sequence position certain p.Asp390Asn_Asp392delinsAsnGlnAsn mutation disrupting strength mutation disrupting interaction strength mutation disrupting strength certain certain sequence position certain certain certain sequence position certain DED N Q5S007:p.Glu193_Glu194delinsGlnGln mutation with no effect mutation with no effect mutation with no effect mutation not affecting interaction certain certain sequence position certain certain certain sequence position certain EE QQ Mon Dec 16 10:43:17 GMT 2019 This feature has been corrected as a result of our quality control procedures. The original label was 'p.Glu193_Glu194delins GlnGln' Tue Jun 30 20:06:32 BST 2020 This feature has been corrected as a result of our quality control procedures. The original label was 'p.Glu193_Glu194delinsGlnGln' ecoli Escherichia coli (strain K12) 4 cofactor cofactor coenzyme unspecified role unspecified role purified purified binding_region binding region binding-associated region binding region undetermined undetermined sequence position undetermined undetermined undetermined sequence position undetermined chemical synthesis Chemical synthesis (Chemical synthesis) 160 152 direct interaction direct interaction 5C/E, Supp. fig 6B Figure 5:It has been assumed the LRRK2 1-552 construct has been used here from the statement :-"LRRK2 2mut was stably expressed and purified, and pulldowns revealed a decrease in binding to Rab29 and Rab38 (Figure 5(c),S4)."-Fig S4 explicitly states 1-552. Supplementary Figure 6B: The "Nmut = E192Q+E193Q" mutation has been entered as "E193Q+E194Q" as there is no "E" at residue 192 in LRRK2. rab32-lrrk2-6 2 6 cofactor cofactor coenzyme unspecified role unspecified role purified purified binding_region binding region binding-associated region binding region undetermined undetermined sequence position undetermined undetermined undetermined sequence position undetermined mant_tag fluorophore fluorophore undetermined undetermined sequence position undetermined undetermined undetermined sequence position undetermined chemical synthesis Chemical synthesis (Chemical synthesis) 8 unspecified role unspecified role bait bait purified purified binding_region binding region binding-associated region binding region undetermined undetermined sequence position undetermined undetermined undetermined sequence position undetermined Q13637:p.Gln85Leu mutation mutation certain certain sequence position certain certain certain sequence position certain Q L Tue Jun 30 19:22:06 BST 2020 This feature has been corrected as a result of our quality control procedures. The original label was 'p.Gln85Leu' Q13637:p.Arg55Gln mutation decreasing strength mutation decreasing interaction strength mutation decreasing strength certain certain sequence position certain certain certain sequence position certain R Q Tue Jun 30 15:49:32 BST 2020 This feature has been corrected as a result of our quality control procedures. The original label was 'p.Arg55Gln' ecoli Escherichia coli (strain K12) 10 unspecified role unspecified role prey prey purified purified region sufficient to bind sufficient binding region sufficient to bind certain certain sequence position certain certain certain sequence position certain ecoli Escherichia coli (strain K12) 163 166 direct interaction direct interaction 5F-LHS rab29-lrrk2-10 2 6 cofactor cofactor coenzyme unspecified role unspecified role purified purified binding_region binding region binding-associated region binding region undetermined undetermined sequence position undetermined undetermined undetermined sequence position undetermined mant_tag fluorophore fluorophore undetermined undetermined sequence position undetermined undetermined undetermined sequence position undetermined chemical synthesis Chemical synthesis (Chemical synthesis) 5 unspecified role unspecified role bait bait purified purified binding_region binding region binding-associated region binding region undetermined undetermined sequence position undetermined undetermined undetermined sequence position undetermined O14966:p.Lys37Gln mutation with no effect mutation with no effect mutation with no effect mutation not affecting interaction certain certain sequence position certain certain certain sequence position certain K Q Tue Jun 30 18:12:15 BST 2020 This feature has been corrected as a result of our quality control procedures. The original label was 'p.Lys37Gln' ecoli Escherichia coli (strain K12) 10 unspecified role unspecified role prey prey purified purified region sufficient to bind sufficient binding region sufficient to bind certain certain sequence position certain certain certain sequence position certain ecoli Escherichia coli (strain K12) 173 176 direct interaction direct interaction 5F-RHS rab29-lrrk2-11 3 5 unspecified role unspecified role bait bait purified purified n-terminus his tag his tag Hexa-His-tag 6-His-tag Histidine-tag Hexa-His-tag Histidine-tag 6-His-tag n-term range n-terminal range n-term range n-term range n-terminal range n-term range region sufficient to bind sufficient binding region sufficient to bind certain certain sequence position certain certain certain sequence position certain ecoli Escherichia coli (strain K12) 10 unspecified role unspecified role prey prey purified purified region sufficient to bind sufficient binding region sufficient to bind certain certain sequence position certain certain certain sequence position certain ecoli Escherichia coli (strain K12) 7 cofactor cofactor coenzyme unspecified role unspecified role purified purified binding_region binding region binding-associated region binding region undetermined undetermined sequence position undetermined undetermined undetermined sequence position undetermined chemical synthesis Chemical synthesis (Chemical synthesis) 187 183 direct interaction direct interaction Supp. fig 3 Only the LRRK2 1-910 construct showed any binding to Rab29-GDP. delete if you do not think there is any binding shown here - this interaction is my observation, not supported by anything in the text. rab32-lrrk2-8 3 9 competitor competitor competitor unspecified role unspecified role purified purified region sufficient to bind sufficient binding region sufficient to bind certain certain sequence position certain certain certain sequence position certain P57729:p.Gln69Leu mutation mutation certain certain sequence position certain certain certain sequence position certain Q L Tue Jun 30 18:17:12 BST 2020 This feature has been corrected as a result of our quality control procedures. The original label was 'p.Gln69Leu' ecoli Escherichia coli (strain K12) 8 unspecified role unspecified role bait bait purified purified n-terminus his tag his tag Hexa-His-tag 6-His-tag Histidine-tag Hexa-His-tag Histidine-tag 6-His-tag n-term range n-terminal range n-term range n-term range n-terminal range n-term range region sufficient to bind sufficient binding region sufficient to bind certain certain sequence position certain certain certain sequence position certain Q13637:p.Gln85Leu mutation mutation certain certain sequence position certain certain certain sequence position certain Q L Tue Jun 30 16:35:57 BST 2020 This feature has been corrected as a result of our quality control procedures. The original label was 'p.Gln85Leu' ecoli Escherichia coli (strain K12) 4 cofactor cofactor coenzyme unspecified role unspecified role purified purified binding_region binding region binding-associated region binding region undetermined undetermined sequence position undetermined undetermined undetermined sequence position undetermined chemical synthesis Chemical synthesis (Chemical synthesis) 10 unspecified role unspecified role prey prey purified purified region sufficient to bind sufficient binding region sufficient to bind certain certain sequence position certain certain certain sequence position certain ecoli Escherichia coli (strain K12) 197 194 physical association physical association Supp. Fig. 4