mpidb The Microbial Protein Interaction Database schmidt-2009-1 ClpS is the recognition component for Escherichia coli substrates of the N-end rule degradation pathway. ecoli Escherichia coli (strain K12) pull down pull down ms participant Identification by mass spectrometry ms participant Schmidt R., Zahn R., Bukau B., Mogk A. Mol. Microbiol. (0950-382X) 2009 Only protein-protein interactions imex curation schmidt-2009-2 ClpS is the recognition component for Escherichia coli substrates of the N-end rule degradation pathway. in vitro In vitro protease assay protease assay tag fluorescence tag visualisation by fluorescence tag fluorescence Schmidt R., Zahn R., Bukau B., Mogk A. Mol. Microbiol. (0950-382X) 2009 Only protein-protein interactions imex curation clps_ecoli ATP-dependent Clp protease adapter protein ClpS yljA clpS b0881 JW0865 protein protein ecoli Escherichia coli (strain K12) MGKTNDWLDFDQLAEEKVRDALKPPSMYKVILVNDDYTPMEFVIDVLQKFFSYDVERATQLMLAVHYQGKAICGVFTAEVAETKVAMVNKYARENEHPLLCTLEKA apha_ecoli Class B acid phosphatase aphA napA b4055 yjbP JW4015 protein protein ecoli Escherichia coli (strain K12) MRKITQAISAVCLLFALNSSAVALASSPSPLNPGTNVARLAEQAPIHWVSVAQIENSLAGRPPMAVGFDIDDTVLFSSPGFWRGKKTFSPESEDYLKNPVFWEKMNNGWDEFSIPKEVARQLIDMHVRRGDAIFFVTGRSPTKTETVSKTLADNFHIPATNMNPVIFAGDKPGQNTKSQWLQDKNIRIFYGDSDNDITAARDVGARGIRILRASNSTYKPLPQAGAFGEEVIVNSEY nhar_ecoli Transcriptional activator protein NhaR Na(+)/H(+) antiporter regulatory protein nhaR antO b0020 JW0019 protein protein ecoli Escherichia coli (strain K12) MSMSHINYNHLYYFWHVYKEGSVVGAAEALYLTPQTITGQIRALEERLQGKLFKRKGRGLEPSELGELVYRYADKMFTLSQEMLDIVNYRKESNLLFDVGVADALSKRLVSSVLNAAVVEGEPIHLRCFESTHEMLLEQLSQHKLDMIISDCPIDSTQQEGLFSVRIGECGVSFWCTNPPPEKPFPACLEERRLLIPGRRSMLGRKLLNWFNSQGLNVEILGEFDDAALMKAFGAMHNAIFVAPTLYAYDFYADKTVVEIGRVENVMEEYHAIFAERMIQHPAVQRICNTDYSALFSPAVR mrec_ecoli Cell shape-determining protein MreC mreC Cell shape protein MreC Rod shape-determining protein MreC JW3219 b3250 protein protein ecoli Escherichia coli (strain K12) MKPIFSRGPSLQIRLILAVLVALGIIIADSRLGTFSQIRTYMDTAVSPFYFVSNAPRELLDGVSQTLASRDQLELENRALRQELLLKNSELLMLGQYKQENARLRELLGSPLRQDEQKMVTQVISTVNDPYSDQVVIDKGSVNGVYEGQPVISDKGVVGQVVAVAKLTSRVLLICDATHALPIQVLRNDIRVIAAGNGCTDDLQLEHLPANTDIRVGDVLVTSGLGGRFPEGYPVAVVSSVKLDTQRAYTVIQARPTAGLQRLRYLLLLWGADRNGANPMTPEEVHRVANERLMQMMPQVLPSPDAMGPKLPEPATGIAQPTPQQPATGNAATAPAAPTQPAANRSPQRATPPQSGAQPPARAPGGQ hemy_ecoli Protein HemY hemY b3802 JW3774 protein protein ecoli Escherichia coli (strain K12) MLKVLLLFVLLIAGIVVGPMIAGHQGYVLIQTDNYNIETSVTGLAIILILAMVVLFAIEWLLRRIFRTGAHTRGWFVGRKRRRARKQTEQALLKLAEGDYQQVEKLMAKNADHAEQPVVNYLLAAEAAQQRGDEARANQHLERAAELAGNDTIPVEITRVRLQLARNENHAARHGVDKLLEVTPRHPEVLRLAEQAYIRTGAWSSLLDIIPSMAKAHVGDEEHRAMLEQQAWIGLMDQARADNGSEGLRNWWKNQSRKTRHQVALQVAMAEHLIECDDHDTAQQIIIDGLKRQYDDRLLLPIPRLKTNNPEQLEKVLRQQIKNVGDRPLLWSTLGQSLMKHGEWQEASLAFRAALKQRPDAYDYAWLADALDRLHKPEEAAAMRRDGLMLTLQNNPPQ argp_ecoli HTH-type transcriptional regulator ArgP argP Inhibitor of chromosome initiation OriC replication inhibitor iciA JW2883 b2916 protein protein ecoli Escherichia coli (strain K12) MKRPDYRTLQALDAVIRERGFERAAQKLCITQSAVSQRIKQLENMFGQPLLVRTVPPRPTEQGQKLLALLRQVELLEEEWLGDEQTGSTPLLLSLAVNADSLATWLLPALAPVLADSPIRLNLQVEDETRTQERLRRGEVVGAVSIQHQALPSCLVDKLGALDYLFVSSKPFAEKYFPNGVTRSALLKAPVVAFDHLDDMHQAFLQQNFDLPPGSVPCHIVNSSEAFVQLARQGTTCCMIPHLQIEKELASGELIDLTPGLFQRRMLYWHRFAPESRMMRKVTDALLDYGHKVLRQD This sequence has been withdrawn from Uniprot. 8AD60B7B6661E3EF cfa_ecoli Cyclopropane-fatty-acyl-phospholipid synthase cfa cdfA b1661 JW1653 protein protein ecoli Escherichia coli (strain K12) MSSSCIEEVSVPDDNWYRIANELLSRAGIAINGSAPADIRVKNPDFFKRVLQEGSLGLGESYMDGWWECDRLDMFFSKVLRAGLENQLPHHFKDTLRIAGARLFNLQSKKRAWIVGKEHYDLGNDLFSRMLDPFMQYSCAYWKDADNLESAQQAKLKMICEKLQLKPGMRVLDIGCGWGGLAHYMASNYDVSVVGVTISAEQQKMAQERCEGLDVTILLQDYRDLNDQFDRIVSVGMFEHVGPKNYDTYFAVVDRNLKPEGIFLLHTIGSKKTDLNVDPWINKYIFPNGCLPSVRQIAQSSEPHFVMEDWHNFGADYDTTLMAWYERFLAAWPEIADNYSERFKRMFTYYLNACAGAFRARDIQLWQVVFSRGVENGLRVAR 861FF3314FDAF2C4 lipa_ecoli Lipoyl synthase Lipoic acid synthase Lipoate synthase Sulfur insertion protein LipA Lip-syn lipA lip b0628 JW0623 protein protein ecoli Escherichia coli (strain K12) MSKPIVMERGVKYRDADKMALIPVKNVATEREALLRKPEWMKIKLPADSTRIQGIKAAMRKNGLHSVCEEASCPNLAECFNHGTATFMILGAICTRRCPFCDVAHGRPVAPDANEPVKLAQTIADMALRYVVITSVDRDDLRDGGAQHFADCITAIREKSPQIKIETLVPDFRGRMDRALDILTATPPDVFNHNLENVPRIYRQVRPGADYNWSLKLLERFKEAHPEIPTKSGLMVGLGETNEEIIEVMRDLRRHGVTMLTLGQYLQPSRHHLPVQRYVSPDEFDEMKAEALAMGFTHAACGPFVRSSYHADLQAKGMEVK BE7BF32A4E3AA358 yeah_ecoli UPF0229 protein YeaH yeaH b1784 JW1773 protein protein ecoli Escherichia coli (strain K12) MTWFIDRRLNGKNKSMVNRQRFLRRYKAQIKQSISEAINKRSVTDVDSGESVSIPTEDISEPMFHQGRGGLRHRVHPGNDHFVQNDRIERPQGGGGGSGSGQGQASQDGEGQDEFVFQISKDEYLDLLFEDLALPNLKQNQQRQLTEYKTHRAGYTANGVPANISVVRSLQNSLARRTAMTAGKRRELHALEENLAIISNSEPAQLLEEERLRKEIAELRAKIERVPFIDTFDLRYKNYEKRPDPSSQAVMFCLMDVSGSMDQSTKDMAKRFYILLYLFLSRTYKNVEVVYIRHHTQAKEVDEHEFFYSQETGGTIVSSALKLMDEVVKERYNPAQWNIYAAQASDGDNWADDSPLCHEILAKKLLPVVRYYSYIEITRRAHQTLWREYEHLQSTFDNFAMQHIRDQDDIYPVFRELFHKQNATAKG ubie_ecoli Ubiquinone/menaquinone biosynthesis C-methyltransferase UbiE ubiE b3833 yigO JW5581 2-methoxy-6-polyprenyl-1,4-benzoquinol methylase Demethylmenaquinone methyltransferase protein protein ecoli Escherichia coli (strain K12) MVDKSQETTHFGFQTVAKEQKADMVAHVFHSVASKYDVMNDLMSFGIHRLWKRFTIDCSGVRRGQTVLDLAGGTGDLTAKFSRLVGETGKVVLADINESMLKMGREKLRNIGVIGNVEYVQANAEALPFPDNTFDCITISFGLRNVTDKDKALRSMYRVLKPGGRLLVLEFSKPIIEPLSKAYDAYSFHVLPRIGSLVANDADSYRYLAESIRMHPDQDTLKAMMQDAGFESVDYYNLTAGVVALHRGYKF B1EEE209BDC68F5E dps_ecoli DNA protection during starvation protein dps pexB vtm b0812 JW0797 protein protein ecoli Escherichia coli (strain K12) MSTAKLVKSKATNLLYTRNDVSDSEKKATVELLNRQVIQFIDLSLITKQAHWNMRGANFIAVHEMLDGFRTALIDHLDTMAERAVQLGGVALGTTQVINSKTPLKSYPLDIHNVQDHLKELADRYAIVANDVRKAIGEAKDDDTADILTAASRDLDKFLWFIESNIE pat_ecoli Putrescine aminotransferase Putrescine--2-oxoglutaric acid transaminase JW5510 b3073 patA ygjG Diamine transaminase Cadaverine transaminase Putrescine transaminase Putrescine:2-OG aminotransferase protein protein ecoli Escherichia coli (strain K12) MNRLPSSASALACSAHALNLIEKRTLDHEEMKALNREVIEYFKEHVNPGFLEYRKSVTAGGDYGAVEWQAGSLNTLVDTQGQEFIDCLGGFGIFNVGHRNPVVVSAVQNQLAKQPLHSQELLDPLRAMLAKTLAALTPGKLKYSFFCNSGTESVEAALKLAKAYQSPRGKFTFIATSGAFHGKSLGALSATAKSTFRKPFMPLLPGFRHVPFGNIEAMRTALNECKKTGDDVAAVILEPIQGEGGVILPPPGYLTAVRKLCDEFGALMILDEVQTGMGRTGKMFACEHENVQPDILCLAKALGGGVMPIGATIATEEVFSVLFDNPFLHTTTFGGNPLACAAALATINVLLEQNLPAQAEQKGDMLLDGFRQLAREYPDLVQEARGKGMLMAIEFVDNEIGYNFASEMFRQRVLVAGTLNNAKTIRIEPPLTLTIEQCELVIKAARKALAAMRVSVEEA clpa_ecoli ATP-dependent Clp protease ATP-binding subunit ClpA clpA lopD b0882 JW0866 protein protein ecoli Escherichia coli (strain K12) MLNQELELSLNMAFARAREHRHEFMTVEHLLLALLSNPSAREALEACSVDLVALRQELEAFIEQTTPVLPASEEERDTQPTLSFQRVLQRAVFHVQSSGRNEVTGANVLVAIFSEQESQAAYLLRKHEVSRLDVVNFISHGTRKDEPTQSSDPGSQPNSEEQAGGEERMENFTTNLNQLARVGGIDPLIGREKELERAIQVLCRRRKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSLLAGTKYRGDFEKRFKALLKQLEQDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLSSGKIRVIGSTTYQEFSNIFEKDRALARRFQKIDITEPSIEETVQIINGLKPKYEAHHDVRYTAKAVRAAVELAVKYINDRHLPDKAIDVIDEAGARARLMPVSKRKKTVNVADIESVVARIARIPEKSVSQSDRDTLKNLGDRLKMLVFGQDKAIEALTEAIKMARAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKALGIELLRFDMSEYMERHTVSRLIGAPPGYVGFDQGGLLTDAVIKHPHAVLLLDEIEKAHPDVFNILLQVMDNGTLTDNNGRKADFRNVVLVMTTNAGVRETERKSIGLIHQDNSTDAMEEIKKIFTPEFRNRLDNIIWFDHLSTDVIHQVVDKFIVELQVQLDQKGVSLEVSQEARNWLAEKGYDRAMGARPMARVIQDNLKKPLANELLFGSLVDGGQVTVALDKEKNELTYGFQSAQKHKAEAAH clpp_ecoli ATP-dependent Clp protease proteolytic subunit clpP lopP Endopeptidase Clp Caseinolytic protease Protease Ti Heat shock protein F21.5 b0437 JW0427 protein protein ecoli Escherichia coli (strain K12) MSYSGERDNFAPHMALVPMVIEQTSRGERSFDIYSRLLKERVIFLTGQVEDHMANLIVAQMLFLEAENPEKDIYLYINSPGGVITAGMSIYDTMQFIKPDVSTICMGQAASMGAFLLTAGAKGKRFCLPNSRVMIHQPLGGYQGQATDIEIHAREILKVKGRMNELMALHTGQSLEQIERDTERDRFLSAPEAVEYGLVDSILTHRN clps-apha 1335680 not-defined-1207785632 1335682 unspecified role unspecified role bait bait region gst tag glutathione s tranferase tag glutathione S-tranferase tag glutathione S-tranferase tag gst tag undetermined undetermined sequence position undetermined undetermined undetermined sequence position undetermined false n/a 1335683 unspecified role unspecified role prey prey n/a 1335684 unspecified role unspecified role prey prey n/a 1335685 unspecified role unspecified role prey prey n/a 1335686 unspecified role unspecified role prey prey n/a 1335687 unspecified role unspecified role prey prey n/a 1335688 unspecified role unspecified role prey prey n/a 1335689 unspecified role unspecified role prey prey n/a 1335690 unspecified role unspecified role prey prey n/a 1335691 unspecified role unspecified role prey prey n/a 1335692 unspecified role unspecified role prey prey not-defined-582463559 1335693 unspecified role unspecified role prey prey association association false false false Fig. 4, Supp Table 1 clps-apha-1 1335680 n/a 1335687 unspecified role unspecified role prey prey not-defined-1207785632 1335682 unspecified role unspecified role bait bait region gst tag glutathione s tranferase tag glutathione S-tranferase tag glutathione S-tranferase tag gst tag undetermined undetermined sequence position undetermined undetermined undetermined sequence position undetermined false P0A8Q6:p.Asp35_Asp36delinsAlaAla mutation mutation certain certain sequence position certain certain certain sequence position certain false not-defined-582463559 1335693 unspecified role unspecified role prey prey association association false false false Fig. 4, Supp Table 1 clpa-clpp 1335681 not-defined-54228017 1335692 enzyme target enzyme target substrate substrate neutral component neutral component region sufficient to bind sufficient binding region sufficient to bind certain certain sequence position certain certain certain sequence position certain false region gfp tag green fluorescent protein tag GFP green fluorescent protein GFP green fluorescent protein gfp tag undetermined undetermined sequence position undetermined undetermined undetermined sequence position undetermined false not-defined-1439077698 1335694 ancillary ancillary neutral component neutral component n/a 1335695 enzyme enzyme unspecified role unspecified role n/a 1335682 ancillary ancillary unspecified role unspecified role cleavage cleavage reaction cleavage false false false Fig. 6