mpidb The Microbial Protein Interaction Database a_t_bara-2010-2 Characterization of the RNA degradosome of Pseudoalteromonas haloplanktis: conservation of the RNase E-RhlB interaction in the gammaproteobacteria. ecoli Escherichia coli (strain K12) anti tag coip anti tag coimmunoprecipitation anti tag coip weight by sybr molecular weight estimation by sybr staining safe DNA gel stain safe DNA gel stain weight by sybr Aït-Bara S., Carpousis A.J. J. Bacteriol. (0021-9193) 2010 Only protein-protein interactions imex curation a_t_bara-2010-1 Characterization of the RNA degradosome of Pseudoalteromonas haloplanktis: conservation of the RNase E-RhlB interaction in the gammaproteobacteria. pseht Pseudoalteromonas haloplanktis (strain TAC 125) anti tag coip anti tag coimmunoprecipitation anti tag coip ms participant Identification by mass spectrometry ms participant Aït-Bara S., Carpousis A.J. J. Bacteriol. (0021-9193) 2010 Only protein-protein interactions imex curation a_t_bara-2010-3 Characterization of the RNA degradosome of Pseudoalteromonas haloplanktis: conservation of the RNase E-RhlB interaction in the gammaproteobacteria. in vitro In vitro pull down pull down weight by sybr molecular weight estimation by sybr staining safe DNA gel stain safe DNA gel stain weight by sybr Aït-Bara S., Carpousis A.J. J. Bacteriol. (0021-9193) 2010 Only protein-protein interactions imex curation rne_ecoli Ribonuclease E rne ams hmp1 b1084 JW1071 protein protein ecoli Escherichia coli (strain K12) MKRMLINATQQEELRVALVDGQRLYDLDIESPGHEQKKANIYKGKITRIEPSLEAAFVDYGAERHGFLPLKEIAREYFPANYSAHGRPNIKDVLREGQEVIVQIDKEERGNKGAALTTFISLAGSYLVLMPNNPRAGGISRRIEGDDRTELKEALASLELPEGMGLIVRTAGVGKSAEALQWDLSFRLKHWEAIKKAAESRPAPFLIHQESNVIVRAFRDYLRQDIGEILIDNPKVLELARQHIAALGRPDFSSKIKLYTGEIPLFSHYQIESQIESAFQREVRLPSGGSIVIDSTEALTAIDINSARATRGGDIEETAFNTNLEAADEIARQLRLRDLGGLIVIDFIDMTPVRHQRAVENRLREAVRQDRARIQISHISRFGLLEMSRQRLSPSLGESSHHVCPRCSGTGTVRDNESLSLSILRLIEEEALKENTQEVHAIVPVPIASYLLNEKRSAVNAIETRQDGVRCVIVPNDQMETPHYHVLRVRKGEETPTLSYMLPKLHEEAMALPSEEEFAERKRPEQPALATFAMPDVPPAPTPAEPAAPVVAPAPKAAPATPAAPAQPGLLSRFFGALKALFSGGEETKPTEQPAPKAEAKPERQQDRRKPRQNNRRDRNERRDTRSERTEGSDNREENRRNRRQAQQQTAETRESRQQAEVTEKARTADEQQAPRRERSRRRNDDKRQAQQEAKALNVEEQSVQETEQEERVRPVQPRRKQRQLNQKVRYEQSVAEEAVVAPVVEETVAAEPIVQEAPAPRTELVKVPLPVVAQTAPEQQEENNADNRDNGGMPRRSRRSPRHLRVSGQRRRRYRDERYPTQSPMPLTVACASPELASGKVWIRYPIVRPQDVQVEEQREQEEVHVQPMVTEVPVAAAIEPVVSAPVVEEVAGVVEAPVQVAEPQPEVVETTHPEVIAAAVTEQPQVITESDVAVAQEVAEQAEPVVEPQEETADIEEVVETAEVVVAEPEVVAQPAAPVVAEVAAEVETVAAVEPEVTVEHNHATAPMTRAPAPEYVPEAPRHSDWQRPTFAFEGKGAAGGHTATHHASAAPARPQPVE eno_ecoli Enolase eno b2779 JW2750 2-phosphoglycerate dehydratase 2-phospho-D-glycerate hydro-lyase protein protein ecoli Escherichia coli (strain K12) MSKIVKIIGREIIDSRGNPTVEAEVHLEGGFVGMAAAPSGASTGSREALELRDGDKSRFLGKGVTKAVAAVNGPIAQALIGKDAKDQAGIDKIMIDLDGTENKSKFGANAILAVSLANAKAAAAAKGMPLYEHIAELNGTPGKYSMPVPMMNIINGGEHADNNVDIQEFMIQPVGAKTVKEAIRMGSEVFHHLAKVLKAKGMNTAVGDEGGYAPNLGSNAEALAVIAEAVKAAGYELGKDITLAMDCAASEFYKDGKYVLAGEGNKAFTSEEFTHFLEELTKQYPIVSIEDGLDESDWDGFAYQTKVLGDKIQLVGDDLFVTNTKILKEGIEKGIANSILIKFNQIGSLTETLAAIKMAKDAGYTAVISHRSGETEDATIADLAVGTAAGQIKTGSMSRSDRVAKYNQLIRIEEALGEKAPYNGRKEIKGQA rhlb_ecoli ATP-dependent RNA helicase RhlB rhlB mmrA b3780 JW3753 protein protein ecoli Escherichia coli (strain K12) MSKTHLTEQKFSDFALHPKVVEALEKKGFHNCTPIQALALPLTLAGRDVAGQAQTGTGKTMAFLTSTFHYLLSHPAIADRKVNQPRALIMAPTRELAVQIHADAEPLAEATGLKLGLAYGGDGYDKQLKVLESGVDILIGTTGRLIDYAKQNHINLGAIQVVVLDEADRMYDLGFIKDIRWLFRRMPPANQRLNMLFSATLSYRVRELAFEQMNNAEYIEVEPEQKTGHRIKEELFYPSNEEKMRLLQTLIEEEWPDRAIIFANTKHRCEEIWGHLAADGHRVGLLTGDVAQKKRLRILDEFTRGDLDILVATDVAARGLHIPAVTHVFNYDLPDDCEDYVHRIGRTGRAGASGHSISLACEEYALNLPAIETYIGHSIPVSKYNPDALMTDLPKPLRLTRPRTGNGPRRTGAPRNRRRSG 48E1ADD025CBFA1A pnp_ecoli Polyribonucleotide nucleotidyltransferase pnp b3164 Polynucleotide phosphorylase JW5851 protein protein ecoli Escherichia coli (strain K12) MLNPIVRKFQYGQHTVTLETGMMARQATAAVMVSMDDTAVFVTVVGQKKAKPGQDFFPLTVNYQERTYAAGRIPGSFFRREGRPSEGETLIARLIDRPIRPLFPEGFVNEVQVIATVVSVNPQVNPDIVAMIGASAALSLSGIPFNGPIGAARVGYINDQYVLNPTQDELKESKLDLVVAGTEAAVLMVESEAQLLSEDQMLGAVVFGHEQQQVVIQNINELVKEAGKPRWDWQPEPVNEALNARVAALAEARLSDAYRITDKQERYAQVDVIKSETIATLLAEDETLDENELGEILHAIEKNVVRSRVLAGEPRIDGREKDMIRGLDVRTGVLPRTHGSALFTRGETQALVTATLGTARDAQVLDELMGERTDTFLFHYNFPPYSVGETGMVGSPKRREIGHGRLAKRGVLAVMPDMDKFPYTVRVVSEITESNGSSSMASVCGASLALMDAGVPIKAAVAGIAMGLVKEGDNYVVLSDILGDEDHLGDMDFKVAGSRDGISALQMDIKIEGITKEIMQVALNQAKGARLHILGVMEQAINAPRGDISEFAPRIHTIKINPDKIKDVIGKGGSVIRALTEETGTTIEIEDDGTVKIAATDGEKAKHAIRRIEEITAEIEVGRVYTGKVTRIVDFGAFVAIGGGKEGLVHISQIADKRVEKVTDYLQMGQEVPVKVLEVDRQGRIRLSIKEATEQSQPAAAPEAPAAEQGE q3idi9_pset1 ATP-dependent RNA helicase RhlB PSHAa0114 rhlB protein protein pseht Pseudoalteromonas haloplanktis (strain TAC 125) MTDKKFSDFAIAPEVVAGLTESGFEYCTPIQAKCLPFICEGRDIAGQAQTGTGKTLAFLTATCHRLLQSSKAPSKHPRALIMAPTRELAIQIHKDAKILAPHCNLNLGLVYGGEDYEKQRAQLEKGVDILIGTTGRLIDLYKQGCYTLNEIEVVVLDEADRMFDLGFIKDIRYMFHRMPDTSKRLNLLFSATLSYRVQELAFEHMTNPEHVQIEPDVKTGKRIQEELFHPSQEDKIKLLLTLIEEEWPEKAIIFANTKHSCETVYAWLKADGHRVGMLTGDVNQKKRQSILAEFSKGDLDFLVATDVAARGLHIPEVSHVFNFDLPDDCEDYVHRIGRTARAGASGHAISFACEQYAYNLHEIEEYIDHSIPLSHYDKTALLDDLTKPTIHRKRNFSTGPRNRSNNSGRRPNNSYQKGRS q3ihd2_pset1 Ribonuclease E PSHAa1816 rne protein protein pseht Pseudoalteromonas haloplanktis (strain TAC 125) MKRMLINATQQEEMRVALVDGQRLYDLDIESPGHEQKKANIYKGKITRIEPSLEAAFVEYGADRHGFLPLKEIARTYFPAGYTFHGRPNIRDVIKEGQEVIVQVDKEERGQKGAALTTFISVAGSYLVLMPNNPRAGGISRRIEGDERTELKESLSRLELPKGMGLIVRTAGVGKSFEELNYDLKALLVHWEAIGVAADSAKAPFLIHQESNVIFRAIRDYLRRDIGEILIDKPRVFEEAKAHIERFRPDFMSRVKLYQGDTPLFTHYQIESQIESAFQREVRLPSGGSIVIDPTEALTSIDINSSKATKGGDIEETALNTNLEAADEIARQLRLRDLGGLIVIDFIDMTPPRHQREVENRLKDAVRPDRARVQIGKISRFGLLEMSRQRLRPSLGEASQGPCPRCSGQGTIRSNESIALSILRLIEEEAIKDNTAQVNAQVPVAVAAYLLNEQRRSVHRMEKQHKCDIVIIPNQHMETPHYEVMRLRKDETIETVSYGQIVAPEPEAFEMSKSPVAPVREEPMLKGVVMPAAPAPQAAPANVVAPAETKAQSGLLDAIGKWFKSLFASETVEVKKEETQKQQQETRDNTRNNDNRRRNNNNQRRRNNPRSKPRTERTADEEVKTNSVSTPEAATQTNENQERGENRNKRRRNPNSRKRPEPRTEDKDAVKVDAPAKAEAETKPVQAEEPKDQKPKVRRQRRNLRKKVRLQDENAEQVQTTDETPVQATEKETPVAQEQAPVVEKQTQTAAEKTAHIKEEKVEDVDSNDETPTTEDEQEQTRTRSRRSPRHLRASGQRRRRPEGEGNEAKSDEAPAFVPVADQAAAEYEAELKAKSAATPADAAQQVEQAVAVEDLAKVEAVEEPVQTEEPAKVETPVVTEEPAKVETPVAAEEPAKVETPVAAEEPAKVEAPVVTEEPAKVETPLVTEEPAKVEAPVVTEEPAKVETPVVTEEPAKVEAPVVTEEPTKVETPVVTEEPTKVEAPVVTEEPAKVETPVVTAAPHVKTAIAQGSASAPMAQPTPVADSEVKHTSVAMAHDKRELVPDSGLRAGSIKPAGRASSTMTKTMSVD pnp_pset1 Polyribonucleotide nucleotidyltransferase pnp Polynucleotide phosphorylase PSHAa1001 protein protein pseht Pseudoalteromonas haloplanktis (strain TAC 125) MQAIIKEFQLGQHTVTLETGAIARQADGAVLASIGDTSVLVTVVGKREAQPGQDFFPLTVNYQERMYAAGRIPGGFLKREGRPNDGETLIARLIDRPIRPLFPSGFVNEVQVIATVVSVNPEIQPDMVALIGTSAALAISGIPFSGPIGATRVGYIDGEYVLNPTLKELEESKLDLVVAGTDNAVLMVESEADVLAEDIMLGAVVYGHEQAQAIITAIKEFKAEAGKPTWDWTAPAKNVSLEEKVASIAADKVGEAYRITDKVARKEALGVAKDEVVAVLTSELAEGESLDKQEIGKIFGSLEKKIVRGRIAAGEKRIDGREPDMIRALDVMTGVLPRTHGSAIFTRGETQALVTATLGTERDSQLIDDLTGTHKNHFMLNYNFPPFCVGETGFVGSPKRREIGHGNLAKRGIAAVMPTLTEFPYSIRVVSEITESNGSSSMASVCGTSLALMNAGVPIKASVAGIAMGLVKEDDKFVVLSDILGDEDHLGDMDFKVAGTAGGITALQMDIKIEGITQEIMQIALKQAKAARLHILEVMDKAISAPSEELSQFAPRIYTMKIPQKKIAEVIGKGGATIRQLTEETGTTIEIGDDGTIKIAATDGESAANAISRIEQLTAELEVGTIYEGKVVRIVDFGAFVNILPGKDGLVHISQISTERVNNVTDHLSEGQEVKVKVLEVDRQGRVRLSIKEAMESAAPAADAPTDA rne-eno-6 1337758 not-defined-154822876 1337761 unspecified role unspecified role bait bait p21513-- P21513-- flag tag flag tag FLAG-tagged FLAG DYKDDDDKV epitope tag DYKDDDDKV epitope tag FLAG FLAG-tagged undetermined undetermined sequence position undetermined undetermined undetermined sequence position undetermined false not-defined-1503210119 1337762 unspecified role unspecified role prey prey n/a 1337763 unspecified role unspecified role prey prey n/a 1337764 unspecified role unspecified role prey prey association association false false false Figure 5 rne-rhlb 1337758 not-defined-2002973773 1337761 unspecified role unspecified role bait bait p21513-- P21513-- flag tag flag tag FLAG-tagged FLAG DYKDDDDKV epitope tag DYKDDDDKV epitope tag FLAG FLAG-tagged undetermined undetermined sequence position undetermined undetermined undetermined sequence position undetermined false region required to bind necessary binding region required to bind certain certain sequence position certain certain certain sequence position certain false not-defined-630747940 1337765 unspecified role unspecified role prey prey physical association physical association false false false Figure 5 Result confirmed by western blotting. rne-pnp-2 1337759 not-defined-1162569193 1337766 unspecified role unspecified role bait bait q3ihd2-- Q3IHD2-- flag tag flag tag FLAG-tagged FLAG DYKDDDDKV epitope tag DYKDDDDKV epitope tag FLAG FLAG-tagged undetermined undetermined sequence position undetermined undetermined undetermined sequence position undetermined false ecolx Escherichia coli not-defined-1903153847 1337765 unspecified role unspecified role prey prey n/a 1337767 unspecified role unspecified role prey prey association association false false false Figure 2 rne-pnp-3 1337760 n/a 1337767 unspecified role unspecified role prey prey pseht Pseudoalteromonas haloplanktis (strain TAC 125) not-defined-522279005 1337766 unspecified role unspecified role bait bait q3ihd2-1034-1071 Q3IHD2-1034-1071 required to bind necessary binding region required to bind certain certain sequence position certain certain certain sequence position certain false q3ihd2-- Q3IHD2-- flag tag flag tag FLAG-tagged FLAG DYKDDDDKV epitope tag DYKDDDDKV epitope tag FLAG FLAG-tagged undetermined undetermined sequence position undetermined undetermined undetermined sequence position undetermined false ecolx Escherichia coli physical association physical association false false false Figure 7