DIP Database of Interacting Proteins 611 Young Drive East; Los Angeles CA 90095; USA http://dip.doe-mbi.ucla.edu/ dip@mbi.ucla.edu 611 Young Drive East; Los Angeles CA 90095; USA http://dip.doe-mbi.ucla.edu/ krojer-2008-1 ecolx Escherichia coli x-ray diffraction x-ray crystallography X-ray X-ray x-ray diffraction predetermined predetermined participant predetermined Krojer T., Sawa J., Schäfer E., Saibil HR., Ehrmann M., Clausen T. DIP original experiment: DIP-250376X Nature 2008 IMEx Structural basis for the regulated protease and chaperone function of DegP. Krojer T., Sawa J., Schäfer E., Saibil HR., Ehrmann M., Clausen T. Only protein-protein interactions imex curation krojer-2008-2 ecolx Escherichia coli molecular sieving molecular sieving Gel Filtration Size Exclusion Chromatography Size Exclusion Chromatography Gel Filtration Sizing column predetermined predetermined participant predetermined Krojer T., Sawa J., Schäfer E., Saibil HR., Ehrmann M., Clausen T. DIP original experiment: DIP-250374X Nature 2008 IMEx Structural basis for the regulated protease and chaperone function of DegP. Krojer T., Sawa J., Schäfer E., Saibil HR., Ehrmann M., Clausen T. Only protein-protein interactions imex curation krojer-2008-3 ecolx Escherichia coli molecular sieving molecular sieving Gel Filtration Size Exclusion Chromatography Size Exclusion Chromatography Gel Filtration Sizing column western blot western blot Immuno blot Immuno blot Krojer T., Sawa J., Schäfer E., Saibil HR., Ehrmann M., Clausen T. DIP original experiment: DIP-250377X Nature 2008 IMEx Structural basis for the regulated protease and chaperone function of DegP. Krojer T., Sawa J., Schäfer E., Saibil HR., Ehrmann M., Clausen T. Only protein-protein interactions imex curation krojer-2008-5 ecolx Escherichia coli molecular sieving molecular sieving Gel Filtration Size Exclusion Chromatography Size Exclusion Chromatography Gel Filtration Sizing column ms participant Identification by mass spectrometry ms participant Krojer T., Sawa J., Schäfer E., Saibil HR., Ehrmann M., Clausen T. DIP original experiment: DIP-250375X Nature 2008 IMEx Structural basis for the regulated protease and chaperone function of DegP. Krojer T., Sawa J., Schäfer E., Saibil HR., Ehrmann M., Clausen T. Only protein-protein interactions imex curation krojer-2008-6 ecolx Escherichia coli 3d-em 3D electron microscopy 3D-EM electron tomog predetermined predetermined participant predetermined Krojer T., Sawa J., Schäfer E., Saibil HR., Ehrmann M., Clausen T. DIP original experiment: DIP-250378X Nature 2008 IMEx Structural basis for the regulated protease and chaperone function of DegP. Krojer T., Sawa J., Schäfer E., Saibil HR., Ehrmann M., Clausen T. Only protein-protein interactions imex curation krojer-2008-7 ecolx Escherichia coli molecular sieving molecular sieving Gel Filtration Size Exclusion Chromatography Size Exclusion Chromatography Gel Filtration Sizing column western blot western blot Immuno blot Immuno blot Krojer T., Sawa J., Schäfer E., Saibil HR., Ehrmann M., Clausen T. DIP original experiment: DIP-250379X Nature 2008 IMEx Structural basis for the regulated protease and chaperone function of DegP. Krojer T., Sawa J., Schäfer E., Saibil HR., Ehrmann M., Clausen T. Only protein-protein interactions imex curation krojer-2008-8 ecolx Escherichia coli dls dynamic light scattering dls predetermined predetermined participant predetermined Krojer T., Sawa J., Schäfer E., Saibil HR., Ehrmann M., Clausen T. DIP original experiment: DIP-250381X Nature 2008 IMEx Structural basis for the regulated protease and chaperone function of DegP. Krojer T., Sawa J., Schäfer E., Saibil HR., Ehrmann M., Clausen T. Only protein-protein interactions imex curation degp_ecoli Periplasmic serine endoprotease DegP degP htrA ptd b0161 JW0157 Heat shock protein DegP Protease Do protein protein ecoli Escherichia coli (strain K12) MKKTTLALSALALSLGLALSPLSATAAETSSATTAQQMPSLAPMLEKVMPSVVSINVEGSTTVNTPRMPRNFQQFFGDDSPFCQEGSPFQSSPFCQGGQGGNGGGQQQKFMALGSGVIIDADKGYVVTNNHVVDNATVIKVQLSDGRKFDAKMVGKDPRSDIALIQIQNPKNLTAIKMADSDALRVGDYTVAIGNPFGLGETVTSGIVSALGRSGLNAENYENFIQTDAAINRGNSGGALVNLNGELIGINTAILAPDGGNIGIGFAIPSNMVKNLTSQMVEYGQVKRGELGIMGTELNSELAKAMKVDAQRGAFVSQVLPNSSAAKAGIKAGDVITSLNGKPISSFAALRAQVGTMPVGSKLTLGLLRDGKQVNVNLELQQSSQNQVDSSSIFNGIEGAEMSNKGKDQGVVVNNVKTGTPAAQIGLKKGDVIIGANQQAVKNIAELRKVLDSKPSVLALNIQRGDSTIYLLMQ ompc_ecoli Outer membrane porin C ompC meoA par b2215 Outer membrane protein 1B JW2203 Porin OmpC Outer membrane protein C protein protein ecoli Escherichia coli (strain K12) MKVKVLSLLVPALLVAGAANAAEVYNKDGNKLDLYGKVDGLHYFSDNKDVDGDQTYMRLGFKGETQVTDQLTGYGQWEYQIQGNSAENENNSWTRVAFAGLKFQDVGSFDYGRNYGVVYDVTSWTDVLPEFGGDTYGSDNFMQQRGNGFATYRNTDFFGLVDGLNFAVQYQGKNGNPSGEGFTSGVTNNGRDALRQNGDGVGGSITYDYEGFGIGGAISSSKRTDAQNTAAYIGNGDRAETYTGGLKYDANNIYLAAQYTQTYNATRVGSLGWANKAQNFEAVAQYQFDFGLRPSLAYLQSKGKNLGRGYDDEDILKYVDVGATYYFNKNMSTYVDYKINLLDDNQFTRDAGINTDNIVALGLVYQF lamb_ecoli Maltoporin lamB malB Maltose-inducible porin b4036 JW3996 Maltose outer membrane channel Phage lambda receptor protein protein protein ecoli Escherichia coli (strain K12) MMITLRKLPLAVAVAAGVMSAQAMAVDFHGYARSGIGWTGSGGEQQCFQTTGAQSKYRLGNECETYAELKLGQEVWKEGDKSFYFDTNVAYSVAQQNDWEATDPAFREANVQGKNLIEWLPGSTIWAGKRFYQRHDVHMIDFYYWDISGPGAGLENIDVGFGKLSLAATRSSEAGGSSSFASNNIYDYTNETANDVFDVRLAQMEINPGGTLELGVDYGRANLRDNYRLVDGASKDGWLFTAEHTQSVLKGFNKFVVQYATDSMTSQGKGLSQGSGVAFDNEKFAYNINNNGHMLRILDHGAISMGDNWDMMYVGMYQDINWDNDNGTKWWTVGIRPMYKWTPIMSTVMEIGYDNVESQRTGDKNNQYKITLAQQWQAGDSIWSRPAIRVFATYAKWDEKWGYDYTGNADNNANFGKAVPADFNGGSFGRGDSDEWTFGAQMEIWW ompa_ecoli Outer membrane protein A ompA tolG tut con Outer membrane protein II* b0957 JW0940 Outer membrane porin A Outer membrane protein 3A Outer membrane protein B Outer membrane protein d protein protein ecoli Escherichia coli (strain K12) MKKTAIAIAVALAGFATVAQAAPKDNTWYTGAKLGWSQYHDTGFINNNGPTHENQLGAGAFGGYQVNPYVGFEMGYDWLGRMPYKGSVENGAYKAQGVQLTAKLGYPITDDLDIYTRLGGMVWRADTKSNVYGKNHDTGVSPVFAGGVEYAITPEIATRLEYQWTNNIGDAHTIGTRPDNGMLSLGVSYRFGQGEAAPVVAPAPAPAPEVQTKHFTLKSDVLFNFNKATLKPEGQAALDQLYSQLSNLDPKDGSVVVLGYTDRIGSDAYNQGLSERRAQSVVDYLISKGIPADKISARGMGESNPVTGNTCDNVKQRAALIDCLAPDRRVEIEVKGIKDVVTQPQA ompf_ecoli Outer membrane porin F ompF cmlB tolF coa cry Porin OmpF Outer membrane protein 1A Outer membrane protein IA Outer membrane protein B b0929 JW0912 Outer membrane protein F protein protein ecoli Escherichia coli (strain K12) MMKRNILAVIVPALLVAGTANAAEIYNKDGNKVDLYGKAVGLHYFSKGNGENSYGGNGDMTYARLGFKGETQINSDLTGYGQWEYNFQGNNSEGADAQTGNKTRLAFAGLKYADVGSFDYGRNYGVVYDALGYTDMLPEFGGDTAYSDDFFVGRVGGVATYRNSNFFGLVDGLNFAVQYLGKNERDTARRSNGDGVGGSISYEYEGFGIVGAYGAADRTNLQEAQPLGNGKKAEQWATGLKYDANNIYLAANYGETRNATPITNKFTNTSGFANKTQDVLLVAQYQFDFGLRPSIAYTKSKAKDVEGIGDVDLVNYFEVGATYYFNKNMSTYVDYIINQIDSDNKLGVGSDDTVAVGIVYQF 3F0974D96DB65464 degp-2 3171766 N/A 3171773 unspecified role unspecified role unspecified role unspecified role ecolx Escherichia coli Stoichiometry: 24.0 direct interaction direct interaction false false false degp-8 3171767 N/A 3171773 unspecified role unspecified role unspecified role unspecified role ecolx Escherichia coli direct interaction direct interaction false false false Sup Fig 1b/4 degp-ompc-1 3171768 N/A 3171774 unspecified role unspecified role unspecified role unspecified role ecolx Escherichia coli N/A 3171773 unspecified role unspecified role unspecified role unspecified role ecolx Escherichia coli physical association physical association false false false degp-lamb-1 3171769 N/A 3171775 unspecified role unspecified role unspecified role unspecified role ecolx Escherichia coli N/A 3171776 unspecified role unspecified role unspecified role unspecified role ecolx Escherichia coli N/A 3171777 unspecified role unspecified role unspecified role unspecified role ecolx Escherichia coli N/A 3171774 unspecified role unspecified role unspecified role unspecified role ecolx Escherichia coli N/A 3171773 unspecified role unspecified role unspecified role unspecified role ecolx Escherichia coli association association false false false degp-4 3171770 N/A 3171773 unspecified role unspecified role unspecified role unspecified role ecolx Escherichia coli direct interaction direct interaction false false false degp-ompa-3 3171771 N/A 3171776 unspecified role unspecified role unspecified role unspecified role ecolx Escherichia coli N/A 3171774 unspecified role unspecified role unspecified role unspecified role ecolx Escherichia coli N/A 3171773 unspecified role unspecified role unspecified role unspecified role ecolx Escherichia coli physical association physical association false false false degp-5 3171772 N/A 3171773 unspecified role unspecified role unspecified role unspecified role ecolx Escherichia coli direct interaction direct interaction false false false