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/ http://www.ebi.ac.uk/ typas-2010-1 Regulation of peptidoglycan synthesis by outer-membrane proteins. in vitro In vitro pull down pull down western blot western blot Immuno blot Immuno blot Typas A., Banzhaf M., van den Berg van Saparoea B., Verheul J., Biboy J., Nichols RJ., Zietek M., Beilharz K., Kannenberg K., von Rechenberg M., Breukink E., den Blaauwen T., Gross CA., Vollmer W. Immobilised protein coupled to CNBr-activated sepharose. athanasios.typas@ucsf.edu, w.vollmer@ncl.ac.uk Cell (0092-8674) 2010 Only protein-protein interactions imex curation typas-2010-2 Regulation of peptidoglycan synthesis by outer-membrane proteins. in vitro In vitro crosslink cross-linking study crosslink western blot western blot Immuno blot Immuno blot Typas A., Banzhaf M., van den Berg van Saparoea B., Verheul J., Biboy J., Nichols RJ., Zietek M., Beilharz K., Kannenberg K., von Rechenberg M., Breukink E., den Blaauwen T., Gross CA., Vollmer W. Immobilised protein coupled to CNBr-activated sepharose. athanasios.typas@ucsf.edu, w.vollmer@ncl.ac.uk Cell (0092-8674) 2010 Only protein-protein interactions imex curation lpoa_ecoli Penicillin-binding protein activator LpoA lpoA b3147 JW3116 yraM Lipoprotein activator of PBP from the outer membrane A protein protein ecoli Escherichia coli (strain K12) MVPSTFSRLKAARCLPVVLAALIFAGCGTHTPDQSTAYMQGTAQADSAFYLQQMQQSSDDTRINWQLLAIRALVKEGKTGQAVELFNQLPQELNDAQRREKTLLAVEIKLAQKDFAGAQNLLAKITPADLEQNQQARYWQAKIDASQGRPSIDLLRALIAQEPLLGAKEKQQNIDATWQALSSMTQEQANTLVINADENILQGWLDLQRVWFDNRNDPDMMKAGIADWQKRYPNNPGAKMLPTQLVNVKAFKPASTNKIALLLPLNGQAAVFGRTIQQGFEAAKNIGTQPVAAQVAAAPAADVAEQPQPQTVDGVASPAQASVSDLTGEQPAAQPVPVSAPATSTAAVSAPANPSAELKIYDTSSQPLSQILSQVQQDGASIVVGPLLKNNVEELLKSNTPLNVLALNQPENIENRVNICYFALSPEDEARDAARHIRDQGKQAPLVLIPRSSLGDRVANAFAQEWQKLGGGTVLQQKFGSTSELRAGVNGGSGIALTGSPITLRATTDSGMTTNNPTLQTTPTDDQFTNNGGRVDAVYIVATPGEIAFIKPMIAMRNGSQSGATLYASSRSAQGTAGPDFRLEMEGLQYSEIPMLAGGNLPLMQQALSAVNNDYSLARMYAMGVDAWSLANHFSQMRQVQGFEINGNTGSLTANPDCVINRNLSWLQYQQGQVVPVS pbpa_ecoli Penicillin-binding protein 1A mrcA ponA b3396 JW3359 protein protein ecoli Escherichia coli (strain K12) MKFVKYFLILAVCCILLGAGSIYGLYRYIEPQLPDVATLKDVRLQIPMQIYSADGELIAQYGEKRRIPVTLDQIPPEMVKAFIATEDSRFYEHHGVDPVGIFRAASVALFSGHASQGASTITQQLARNFFLSPERTLMRKIKEVFLAIRIEQLLTKDEILELYLNKIYLGYRAYGVGAAAQVYFGKTVDQLTLNEMAVIAGLPKAPSTFNPLYSMDRAVARRNVVLSRMLDEGYITQQQFDQTRTEAINANYHAPEIAFSAPYLSEMVRQEMYNRYGESAYEDGYRIYTTITRKVQQAAQQAVRNNVLDYDMRHGYRGPANVLWKVGESAWDNNKITDTLKALPTYGPLLPAAVTSANPQQATAMLADGSTVALSMEGVRWARPYRSDTQQGPTPRKVTDVLQTGQQIWVRQVGDAWWLAQVPEVNSALVSINPQNGAVMALVGGFDFNQSKFNRATQALRQVGSNIKPFLYTAAMDKGLTLASMLNDVPISRWDASAGSDWQPKNSPPQYAGPIRLRQGLGQSKNVVMVRAMRAMGVDYAAEYLQRFGFPAQNIVHTESLALGSASFTPMQVARGYAVMANGGFLVDPWFISKIENDQGGVIFEAKPKVACPECDIPVIYGDTQKSNVLENNDVEDVAISREQQNVSVPMPQLEQANQALVAKTGAQEYAPHVINTPLAFLIKSALNTNIFGEPGWQGTGWRAGRDLQRRDIGGKTGTTNSSKDAWFSGYGPGVVTSVWIGFDDHRRNLGHTTASGAIKDQISGYEGGAKSAQPAWDAYMKAVLEGVPEQPLTPPPGIVTVNIDRSTGQLANGGNSREEYFIEGTQPTQQAVHEVGTTIIDNGEAQELF pbpb_ecoli Penicillin-binding protein 1B mrcB pbpF ponB b0149 JW0145 Murein polymerase protein protein ecoli Escherichia coli (strain K12) MAGNDREPIGRKGKPTRPVKQKVSRRRYEDDDDYDDYDDYEDEEPMPRKGKGKGKGRKPRGKRGWLWLLLKLAIVFAVLIAIYGVYLDQKIRSRIDGKVWQLPAAVYGRMVNLEPDMTISKNEMVKLLEATQYRQVSKMTRPGEFTVQANSIEMIRRPFDFPDSKEGQVRARLTFDGDHLATIVNMENNRQFGFFRLDPRLITMISSPNGEQRLFVPRSGFPDLLVDTLLATEDRHFYEHDGISLYSIGRAVLANLTAGRTVQGASTLTQQLVKNLFLSSERSYWRKANEAYMALIMDARYSKDRILELYMNEVYLGQSGDNEIRGFPLASLYYFGRPVEELSLDQQALLVGMVKGASIYNPWRNPKLALERRNLVLRLLQQQQIIDQELYDMLSARPLGVQPRGGVISPQPAFMQLVRQELQAKLGDKVKDLSGVKIFTTFDSVAQDAAEKAAVEGIPALKKQRKLSDLETAIVVVDRFSGEVRAMVGGSEPQFAGYNRAMQARRSIGSLAKPATYLTALSQPKIYRLNTWIADAPIALRQPNGQVWSPQNDDRRYSESGRVMLVDALTRSMNVPTVNLGMALGLPAVTETWIKLGVPKDQLHPVPAMLLGALNLTPIEVAQAFQTIASGGNRAPLSALRSVIAEDGKVLYQSFPQAERAVPAQAAYLTLWTMQQVVQRGTGRQLGAKYPNLHLAGKTGTTNNNVDTWFAGIDGSTVTITWVGRDNNQPTKLYGASGAMSIYQRYLANQTPTPLNLVPPEDIADMGVDYDGNFVCSGGMRILPVWTSDPQSLCQQSEMQQQPSGNPFDQSSQPQQQPQQQPAQQEQKDSDGVAGWIKDMFGSN lpob_ecoli Penicillin-binding protein activator LpoB ycfM Lipoprotein activator of PBP from the outer membrane B lpoB b1105 JW5157 protein protein ecoli Escherichia coli (strain K12) MTKMSRYALITALAMFLAGCVGQREPAPVEEVKPAPEQPAEPQQPVPTVPSVPTIPQQPGPIEHEDQTAPPAPHIRHYDWNGAMQPMVSKMLGADGVTAGSVLLVDSVNNRTNGSLNAAEATETLRNALANNGKFTLVSAQQLSMAKQQLGLSPQDSLGTRSKAIGIARNVGAHYVLYSSASGNVNAPTLQMQLMLVQTGEIIWSGKGAVSQQ yram-mrca-1 Interaction between yram (lpoA) and mrcA (Pbp1a) 1012352 n/a 1012354 unspecified role unspecified role bait bait c-terminal region required to bind necessary binding region required to bind deletion analysis deletion analysis less-than less-than certain certain sequence position certain false ecoli Escherichia coli (strain K12) n/a 1012355 unspecified role unspecified role prey prey ecoli Escherichia coli (strain K12) physical association physical association false false false Figs. 2A, 2E Coordintates of the C-terminal domain of LpoA are not given in the publication. ycfm-mrcb-1 Interaction between ycfm (lpoB) and mrcB (Pbp1b) 1012352 n/a 1012356 unspecified role unspecified role prey prey ecoli Escherichia coli (strain K12) n/a 1012357 unspecified role unspecified role bait bait ecoli Escherichia coli (strain K12) physical association physical association false false false Fig. 2B mrca-yram Interaction between yram (lpoA) and mrcA (Pbp1a) 1012352 n/a 1012354 unspecified role unspecified role prey prey ecoli Escherichia coli (strain K12) n/a 1012355 unspecified role unspecified role bait bait ecoli Escherichia coli (strain K12) physical association physical association false false false Fig. 2C mrcb-ycfm Interaction between ycfm (lpoB) and mrcB (Pbp1b) 1012352 n/a 1012356 unspecified role unspecified role bait bait ecoli Escherichia coli (strain K12) n/a 1012357 unspecified role unspecified role prey prey ecoli Escherichia coli (strain K12) physical association physical association false false false Fig. 2D mrcb-ycfm-1 Interaction between ycfm (lpoB) and mrcB (Pbp1b) 1012353 n/a 1012356 unspecified role unspecified role bait bait ub2h region required to bind necessary binding region required to bind deletion analysis deletion analysis certain certain sequence position certain certain certain sequence position certain false ecoli Escherichia coli (strain K12) n/a 1012357 unspecified role unspecified role prey prey ecoli Escherichia coli (strain K12) physical association physical association false false false Figs. 2G, 6C yram-mrca-3 Interaction between yram (lpoA) and mrcA (Pbp1a) 1012353 n/a 1012355 unspecified role unspecified role prey prey ecoli Escherichia coli (strain K12) n/a 1012354 unspecified role unspecified role bait bait ecoli Escherichia coli (strain K12) physical association physical association false false false Figs. 2F