mpidb The Microbial Protein Interaction Database Characterization of the RNA degradosome of Pseudoalteromonas haloplanktis: conservation of the RNase E-RhlB interaction in the gammaproteobacteria. Characterization of the RNA degradosome of Pseudoalteromonas haloplanktis: conservation of the RNase E-RhlB interaction in the gammaproteobacteria. J. Bacteriol. (0021-9193) 2010 imex curation Aït-Bara S., Carpousis A.J. 04-Feb-2013: Contacted by IntAct-Help. Only protein-protein interactions 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. Accepted 2013-JAN-02 by ORCHARD 04-Feb-2013: Contacted by IntAct-Help. J. Bacteriol. (0021-9193) 2010 Only protein-protein interactions imex curation Characterization of the RNA degradosome of Pseudoalteromonas haloplanktis: conservation of the RNase E-RhlB interaction in the gammaproteobacteria. Characterization of the RNA degradosome of Pseudoalteromonas haloplanktis: conservation of the RNase E-RhlB interaction in the gammaproteobacteria. J. Bacteriol. (0021-9193) 2010 imex curation Aït-Bara S., Carpousis A.J. 04-Feb-2013: Contacted by IntAct-Help. Only protein-protein interactions 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. Accepted 2013-JAN-02 by ORCHARD 04-Feb-2013: Contacted by IntAct-Help. J. Bacteriol. (0021-9193) 2010 Only protein-protein interactions imex curation Characterization of the RNA degradosome of Pseudoalteromonas haloplanktis: conservation of the RNase E-RhlB interaction in the gammaproteobacteria. Characterization of the RNA degradosome of Pseudoalteromonas haloplanktis: conservation of the RNase E-RhlB interaction in the gammaproteobacteria. J. Bacteriol. (0021-9193) 2010 imex curation Aït-Bara S., Carpousis A.J. 04-Feb-2013: Contacted by IntAct-Help. Only protein-protein interactions 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. Accepted 2013-JAN-02 by ORCHARD 04-Feb-2013: Contacted by IntAct-Help. J. Bacteriol. (0021-9193) 2010 Only protein-protein interactions imex curation pnp_ecoli Polyribonucleotide nucleotidyltransferase pnp b3164 Polynucleotide phosphorylase JW5851 protein protein ecoli Escherichia coli (strain K12) MLNPIVRKFQYGQHTVTLETGMMARQATAAVMVSMDDTAVFVTVVGQKKAKPGQDFFPLTVNYQERTYAAGRIPGSFFRREGRPSEGETLIARLIDRPIRPLFPEGFVNEVQVIATVVSVNPQVNPDIVAMIGASAALSLSGIPFNGPIGAARVGYINDQYVLNPTQDELKESKLDLVVAGTEAAVLMVESEAQLLSEDQMLGAVVFGHEQQQVVIQNINELVKEAGKPRWDWQPEPVNEALNARVAALAEARLSDAYRITDKQERYAQVDVIKSETIATLLAEDETLDENELGEILHAIEKNVVRSRVLAGEPRIDGREKDMIRGLDVRTGVLPRTHGSALFTRGETQALVTATLGTARDAQVLDELMGERTDTFLFHYNFPPYSVGETGMVGSPKRREIGHGRLAKRGVLAVMPDMDKFPYTVRVVSEITESNGSSSMASVCGASLALMDAGVPIKAAVAGIAMGLVKEGDNYVVLSDILGDEDHLGDMDFKVAGSRDGISALQMDIKIEGITKEIMQVALNQAKGARLHILGVMEQAINAPRGDISEFAPRIHTIKINPDKIKDVIGKGGSVIRALTEETGTTIEIEDDGTVKIAATDGEKAKHAIRRIEEITAEIEVGRVYTGKVTRIVDFGAFVAIGGGKEGLVHISQIADKRVEKVTDYLQMGQEVPVKVLEVDRQGRIRLSIKEATEQSQPAAAPEAPAAEQGE DIP protein P05055 original sequence version: null 785B7D54716FC2DE q3idi9_pset1 ATP-dependent RNA helicase RhlB PSHAa0114 rhlB protein protein pseht Pseudoalteromonas haloplanktis (strain TAC 125) MTDKKFSDFAIAPEVVAGLTESGFEYCTPIQAKCLPFICEGRDIAGQAQTGTGKTLAFLTATCHRLLQSSKAPSKHPRALIMAPTRELAIQIHKDAKILAPHCNLNLGLVYGGEDYEKQRAQLEKGVDILIGTTGRLIDLYKQGCYTLNEIEVVVLDEADRMFDLGFIKDIRYMFHRMPDTSKRLNLLFSATLSYRVQELAFEHMTNPEHVQIEPDVKTGKRIQEELFHPSQEDKIKLLLTLIEEEWPEKAIIFANTKHSCETVYAWLKADGHRVGMLTGDVNQKKRQSILAEFSKGDLDFLVATDVAARGLHIPEVSHVFNFDLPDDCEDYVHRIGRTARAGASGHAISFACEQYAYNLHEIEEYIDHSIPLSHYDKTALLDDLTKPTIHRKRNFSTGPRNRSNNSGRRPNNSYQKGRS 69F97DA4E9EB7763 rne_ecoli Ribonuclease E rne ams hmp1 b1084 JW1071 protein protein ecoli Escherichia coli (strain K12) MKRMLINATQQEELRVALVDGQRLYDLDIESPGHEQKKANIYKGKITRIEPSLEAAFVDYGAERHGFLPLKEIAREYFPANYSAHGRPNIKDVLREGQEVIVQIDKEERGNKGAALTTFISLAGSYLVLMPNNPRAGGISRRIEGDDRTELKEALASLELPEGMGLIVRTAGVGKSAEALQWDLSFRLKHWEAIKKAAESRPAPFLIHQESNVIVRAFRDYLRQDIGEILIDNPKVLELARQHIAALGRPDFSSKIKLYTGEIPLFSHYQIESQIESAFQREVRLPSGGSIVIDSTEALTAIDINSARATRGGDIEETAFNTNLEAADEIARQLRLRDLGGLIVIDFIDMTPVRHQRAVENRLREAVRQDRARIQISHISRFGLLEMSRQRLSPSLGESSHHVCPRCSGTGTVRDNESLSLSILRLIEEEALKENTQEVHAIVPVPIASYLLNEKRSAVNAIETRQDGVRCVIVPNDQMETPHYHVLRVRKGEETPTLSYMLPKLHEEAMALPSEEEFAERKRPEQPALATFAMPDVPPAPTPAEPAAPVVAPAPKAAPATPAAPAQPGLLSRFFGALKALFSGGEETKPTEQPAPKAEAKPERQQDRRKPRQNNRRDRNERRDTRSERTEGSDNREENRRNRRQAQQQTAETRESRQQAEVTEKARTADEQQAPRRERSRRRNDDKRQAQQEAKALNVEEQSVQETEQEERVRPVQPRRKQRQLNQKVRYEQSVAEEAVVAPVVEETVAAEPIVQEAPAPRTELVKVPLPVVAQTAPEQQEENNADNRDNGGMPRRSRRSPRHLRVSGQRRRRYRDERYPTQSPMPLTVACASPELASGKVWIRYPIVRPQDVQVEEQREQEEVHVQPMVTEVPVAAAIEPVVSAPVVEEVAGVVEAPVQVAEPQPEVVETTHPEVIAAAVTEQPQVITESDVAVAQEVAEQAEPVVEPQEETADIEEVVETAEVVVAEPEVVAQPAAPVVAEVAAEVETVAAVEPEVTVEHNHATAPMTRAPAPEYVPEAPRHSDWQRPTFAFEGKGAAGGHTATHHASAAPARPQPVE DIP protein P21513 original sequence version: 140 DIP protein P21513 original sequence version: null D4066D80E1DE7D37 eno_ecoli Enolase eno b2779 JW2750 2-phosphoglycerate dehydratase 2-phospho-D-glycerate hydro-lyase protein protein ecoli Escherichia coli (strain K12) MSKIVKIIGREIIDSRGNPTVEAEVHLEGGFVGMAAAPSGASTGSREALELRDGDKSRFLGKGVTKAVAAVNGPIAQALIGKDAKDQAGIDKIMIDLDGTENKSKFGANAILAVSLANAKAAAAAKGMPLYEHIAELNGTPGKYSMPVPMMNIINGGEHADNNVDIQEFMIQPVGAKTVKEAIRMGSEVFHHLAKVLKAKGMNTAVGDEGGYAPNLGSNAEALAVIAEAVKAAGYELGKDITLAMDCAASEFYKDGKYVLAGEGNKAFTSEEFTHFLEELTKQYPIVSIEDGLDESDWDGFAYQTKVLGDKIQLVGDDLFVTNTKILKEGIEKGIANSILIKFNQIGSLTETLAAIKMAKDAGYTAVISHRSGETEDATIADLAVGTAAGQIKTGSMSRSDRVAKYNQLIRIEEALGEKAPYNGRKEIKGQA DIP protein P0A6P9 original sequence version: 56 0569036E87471B91 pnp_pset1 Polyribonucleotide nucleotidyltransferase pnp Polynucleotide phosphorylase PSHAa1001 protein protein pseht Pseudoalteromonas haloplanktis (strain TAC 125) MQAIIKEFQLGQHTVTLETGAIARQADGAVLASIGDTSVLVTVVGKREAQPGQDFFPLTVNYQERMYAAGRIPGGFLKREGRPNDGETLIARLIDRPIRPLFPSGFVNEVQVIATVVSVNPEIQPDMVALIGTSAALAISGIPFSGPIGATRVGYIDGEYVLNPTLKELEESKLDLVVAGTDNAVLMVESEADVLAEDIMLGAVVYGHEQAQAIITAIKEFKAEAGKPTWDWTAPAKNVSLEEKVASIAADKVGEAYRITDKVARKEALGVAKDEVVAVLTSELAEGESLDKQEIGKIFGSLEKKIVRGRIAAGEKRIDGREPDMIRALDVMTGVLPRTHGSAIFTRGETQALVTATLGTERDSQLIDDLTGTHKNHFMLNYNFPPFCVGETGFVGSPKRREIGHGNLAKRGIAAVMPTLTEFPYSIRVVSEITESNGSSSMASVCGTSLALMNAGVPIKASVAGIAMGLVKEDDKFVVLSDILGDEDHLGDMDFKVAGTAGGITALQMDIKIEGITQEIMQIALKQAKAARLHILEVMDKAISAPSEELSQFAPRIYTMKIPQKKIAEVIGKGGATIRQLTEETGTTIEIGDDGTIKIAATDGESAANAISRIEQLTAELEVGTIYEGKVVRIVDFGAFVNILPGKDGLVHISQISTERVNNVTDHLSEGQEVKVKVLEVDRQGRVRLSIKEAMESAAPAADAPTDA C3F49D29FA41D18A rhlb_ecoli ATP-dependent RNA helicase RhlB rhlB mmrA b3780 JW3753 protein protein ecoli Escherichia coli (strain K12) MSKTHLTEQKFSDFALHPKVVEALEKKGFHNCTPIQALALPLTLAGRDVAGQAQTGTGKTMAFLTSTFHYLLSHPAIADRKVNQPRALIMAPTRELAVQIHADAEPLAEATGLKLGLAYGGDGYDKQLKVLESGVDILIGTTGRLIDYAKQNHINLGAIQVVVLDEADRMYDLGFIKDIRWLFRRMPPANQRLNMLFSATLSYRVRELAFEQMNNAEYIEVEPEQKTGHRIKEELFYPSNEEKMRLLQTLIEEEWPDRAIIFANTKHRCEEIWGHLAADGHRVGLLTGDVAQKKRLRILDEFTRGDLDILVATDVAARGLHIPAVTHVFNYDLPDDCEDYVHRIGRTGRAGASGHSISLACEEYALNLPAIETYIGHSIPVSKYNPDALMTDLPKPLRLTRPRTGNGPRRTGAPRNRRRSG 48E1ADD025CBFA1A 48E1ADD025CBFA1A q3ihd2_pset1 Ribonuclease E PSHAa1816 rne protein protein pseht Pseudoalteromonas haloplanktis (strain TAC 125) MKRMLINATQQEEMRVALVDGQRLYDLDIESPGHEQKKANIYKGKITRIEPSLEAAFVEYGADRHGFLPLKEIARTYFPAGYTFHGRPNIRDVIKEGQEVIVQVDKEERGQKGAALTTFISVAGSYLVLMPNNPRAGGISRRIEGDERTELKESLSRLELPKGMGLIVRTAGVGKSFEELNYDLKALLVHWEAIGVAADSAKAPFLIHQESNVIFRAIRDYLRRDIGEILIDKPRVFEEAKAHIERFRPDFMSRVKLYQGDTPLFTHYQIESQIESAFQREVRLPSGGSIVIDPTEALTSIDINSSKATKGGDIEETALNTNLEAADEIARQLRLRDLGGLIVIDFIDMTPPRHQREVENRLKDAVRPDRARVQIGKISRFGLLEMSRQRLRPSLGEASQGPCPRCSGQGTIRSNESIALSILRLIEEEAIKDNTAQVNAQVPVAVAAYLLNEQRRSVHRMEKQHKCDIVIIPNQHMETPHYEVMRLRKDETIETVSYGQIVAPEPEAFEMSKSPVAPVREEPMLKGVVMPAAPAPQAAPANVVAPAETKAQSGLLDAIGKWFKSLFASETVEVKKEETQKQQQETRDNTRNNDNRRRNNNNQRRRNNPRSKPRTERTADEEVKTNSVSTPEAATQTNENQERGENRNKRRRNPNSRKRPEPRTEDKDAVKVDAPAKAEAETKPVQAEEPKDQKPKVRRQRRNLRKKVRLQDENAEQVQTTDETPVQATEKETPVAQEQAPVVEKQTQTAAEKTAHIKEEKVEDVDSNDETPTTEDEQEQTRTRSRRSPRHLRASGQRRRRPEGEGNEAKSDEAPAFVPVADQAAAEYEAELKAKSAATPADAAQQVEQAVAVEDLAKVEAVEEPVQTEEPAKVETPVVTEEPAKVETPVAAEEPAKVETPVAAEEPAKVEAPVVTEEPAKVETPLVTEEPAKVEAPVVTEEPAKVETPVVTEEPAKVEAPVVTEEPTKVETPVVTEEPTKVEAPVVTEEPAKVETPVVTAAPHVKTAIAQGSASAPMAQPTPVADSEVKHTSVAMAHDKRELVPDSGLRAGSIKPAGRASSTMTKTMSVD 10BF6A650606BBDA rne-eno-6 1 6 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 7 unspecified role unspecified role prey prey 9 unspecified role unspecified role prey prey 4 unspecified role unspecified role prey prey association association Figure 5 rne-rhlb 1 6 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 region required to bind necessary binding region required to bind certain certain sequence position certain certain certain sequence position certain 5 unspecified role unspecified role prey prey physical association physical association Figure 5 Result confirmed by western blotting. rne-pnp-2 2 10 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 ecolx Escherichia coli 5 unspecified role unspecified role prey prey 8 unspecified role unspecified role prey prey association association Figure 2 rne-pnp-3 3 8 unspecified role unspecified role prey prey pseht Pseudoalteromonas haloplanktis (strain TAC 125) 10 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 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 ecolx Escherichia coli physical association physical association Figure 7