HMM PD0133

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Symbol: MTMR5_C1

Name: MTMR5, C1 domain

Description

The MTMR5 subfamily has a C1 domain which is able to be detected by Pfam C1_1 profile in C1 clan. We try to build a HMM, which can detect the C1 domain of MTMR5.

How the HMM is built

We PSI-BLASTed the sequence that containing the C1 domain in C. elegans mtm-5 (1540-1590 determined by searching the complete sequence against CDD and Pfam database). However, the search converged right after the 1st round.

Below are the two full sequences used:

C. elegans sequence:

MRDPDKVKSGPICDTVAVIVLEESDDENALPDVLHEVQSPHTSDNIPTSSIKKFARPRGWYNQSVSSPSEFFYQILTTERGTRRIAYVLSTWEEDEKTLNFKAVSIVLISQNFHPKAFKEILLEISNDLRTPEFSSSSELIRFLTYELVEEGSTIEIRTKTLHVELGFELIPISPVTGKDVAMLFKMLGFQNVIKIIHALLSDCRIVLASSSLMRLSRCQNAILSLLYPFEYVHSCVTILPDSLAEVLESPTPFLIGVLSEFVTSFGDENIVVYLDNGEVHVPDHAEIYKSDDYYYNSLHQRLRDVMFTTTSQEDLSIPNEERIEVDDFILDKKLRACFIYYFAELLYGYQYYILYTRIKGNFEKKLTTSLTFHVGAFRGFRKLTDMMSSSLLKSVYFQTFILTRALPRRKHDLFDEISCFKELDQLIFKQNSTSSESKKIIEHISCELIQKERYMEKCSARKQEIFTKIHWISGKELAQNNNSIIHTVKPKMRSNVILQAMLPVVNTHAEYHANQFEAYAHRIEALRNCLAAIFEGKVAFASKSLDAVKSSMRFAPLRIELCRLLNQKCSHDKLTDKQFEDIALLMNAALQAECEEDKDGVVRSLMYLSNVYSRKVAQGMQQYMYTAVQEHKVWKNQRFWTSCFYYEVHEMLFSEMLQKDRKITESLWCHTLRPCAMEMINTDDTDQEELVKQENEMIQAQAKHFANILISLQIPLSEEFFEHEDAHRSVLNEKCKWIVNTLDSILGVTGRINGLSLSRIQTYVEAHVESLRDVYVEMSTGEHLKKGNFDPVLAHGEFLISDPIDCYLLTSIEESEMSLNRLENLLPADGSLFLTNYRVIFKGKSVDINATNGTIVQTIPLYSMESFKKLTNKKLIPTQLIEKGVKIEHIISIRSSCASSIIIAFDEDEINNMAIEKFLEVIETNSHNSFAFYNTRKDMKVVENGSHKFGTLNSAIRGFTKKKTDTRRIRSHSSHRGSIQLSFDKMEELDYLKKNAHIRYAVIDYPRIGLNSKIVKLRMSHSNLDYTICPSYPGNFIVPSETNESELAKVAKGFVEHRLPVVVWMNENGALLVRASAFTSIDMVKKLKKVVNYRRNASKLTGSMTGSQQTLHSKASSNEESSSNIVAGAEIKSAEVQMNYIAKLSNSSQRAVSYALPTQYADKFSTFNDGCTLTQNNANGFPTTRIHRKALYVLLEKGHGVKIPIDSNAEAIMVRSVKESELRRSLQRARQICSSEFQVENRTSFLESWNASNWPQCVSRMIELSNSIVALMNLYNSSVAICLEAGRSITTILSSLSQLLSDPYYRTCDGFQVLVEKEWLAFGHYFHKDTETSSPSFICFLDCVYQISQQYPTAFEFSYFYISFLAYHSTAGYFRTFIDDCEEKRLQSDANEFYLPDNLATINVWEFIKLRNRVSAAFYNELYEQIGDIVIPSSSIPQIHMWPFLAETHLKYGSPYDIEPASHEQQLVDPDYEEEEDWSKLNNTDIDERHLNRRVRSPERDPANMDMIRLLQKSYLTELFDASDRKTTTNGESNGKETIHELTPFTVGARPVQCCYCTNILTRWSKAVHCKKCRIHVHEGCVNRNITIGNITHTWDAKPFEDIKMPSGAIQIGTPQAEKMLHSPNNTLTRESMSPPTANTIPPLCTGYLSKRGAKLKLWVPRFFVLYPDSPKVYYYEDFENWKTAEKPSGCIDLVDFKSFNLEQTGRRGLIELHMKNKTHRLLSENINEAIRWKECIEQVIRD

Drosophila Melanogaster sequence:

MSRLADYFVIVGYDSDKEKTASNVGGQPTCGKIVQRFPEKDWPDTPFIEGIEWFCQPLGWSLSYEKQEPKFFVSVLTDIDANKHYCACLSFHETVAITQTRSVDDEDETIGSSRLLGATPSSMDGITTTSTPASITHHSVMYAPKCLVLISRLDCAETFKNCLGTIYTVYIENLAYGLETLIGNILGCIQVPPAGGPQVRFSIGAGDKQSLQPPQSSSLPTTGSGVHFLFKQLGIKNVLILLCSVMTENKILFLSKCYWHLTDSCRALVALMYPFRYTHVYIPILPAPLTEVLSTPTPFIMGIHSSLQTEITDLLDVIVVDLDGGLVTIPESLTPPVPILPSPLWEQTQDLLSMILFPNLAQADLAFPTLERPSAIAKTDAQIDKELRAIFMRLFAQLLQGYRSCLTIIRIHPKPVITFHKAGFLGARDLIESEFLFRVLDSMFFTTFVNERGPPWRSSDAWDELYSSMNELLKSEAQNRNLVGRTQRFKGYFNFTFPSYFQILTHIQELGRVLYENEGTLAHISYAQKVLRPPEGAFQRIHQPAFPRISSEKVELIIQEGIRKNGVPQRFHVTRNQHRIIPMGPRLPEALDVRPNVQNSARRLEVLRICVSYIFENRITDARKLLPAVMRTLMHRDARLILCREFFGYVHGNKAVLDHQQFELVVRFMNKALQKSSGIDEYTVAAALLPMSTIFCRKLSTGVVQFAYTEIQDHAIWKNLQFWESTFFQDVQGQIKALYLLHRRQNEHQKEANCVLDEVPLEEPTALEITAEQLRKSPNIEEEKKAELAKSEESTLYSQAIHFANRMVSLLIPLDVNVDAASKPKPAFRLEENQSVSNSIMGSHSLSEHSDEGFEENNALEIGVTVGKTISRFIDCVCTEGGVTSEHIRNLHDMVPGVVHMHIESLEPVYLEAKRHPHVQKPKIQTPCLLPGEDLVTDHLRCFLMPDGREDETQCLIPAEGALFLTNYRVIFKGSPCDPLFCEQVIVRTFPIASLLKEKKISVLYLAHLDQTLTEGLQLRSSSFQLIKVAFDPEVTPEQIESFRKILSKARHPFDEFEYFAFQSYGTMLQGVAPLKTKEKYSTLKGFAKKTLLRGAKKAGFKQKQQTKRKLVSDYDYGSADAQETQSIDDELEDGDEFETQNNAMPRLLTTKDVERMRERSYVQDWKRLGFDAESQRGFRISNANTSYATCRSYPAIIVAPVQCSDAAIMHLGRCFKGQRIPLPTWRHANGALLIRGGQPNSKSVIGMLKNTTGSTTNAHHDVTHYPEQDKYFLALINTMPKLTPLALNQYSGMNLSMSSLMGHSSSDDRQPLTPELSRKHKNNLDISDGNKSSQGGKGGTMKGNPKNSLAHPFRKMRLYALGEKSQAKSNMNVDFCADFIPVDYPDIRQSRPAFKKLIRACMPSHNTNEADGQSFAKMVEQSDWLQQISSLMQLSGAVVDLIDLQESSVMLSLEDGSDVTAQLSSIAQLCLDPYYRSLDGFRVLVEKEWLAFGHRFAHRSNLKPSHANTNIAFAPTFLQFLDVVHQLQRQFPMAFEFNDFYLRFLAYHSVSCRFRTFLFDCELERSDSGIAAMEDKRGSLNAKHMFGAGGMATNGSDDECSVYPLDIRSQRAPAPLNRIGHSIFDYIERQHNKTPIFYNFLYSGDKSVTLRPQNNVAALDLWCYYTNEELAQGAPYDLEVTTVDDEIDLSETKGKRMVITAGYDNMEKCNPSAYVCLLSEVKQAETERGHLPQKWLQVWNSLEVPQLEPVARNTSLGNIFVQTHQHKRSTLEIIMKGRLAGYQDKYFHPHRFEKHPYTTPTNCNHCTKLLWGPVGYRCMDCGNSYHEKCTEHSMKNCTKYKAIDGAVGPPNVNMSQGDTASIASSAATTARTSSHHFYNQFSSNVAENRTHEGHLYKRGALLKGWKQRWFVLDSIKHQLRYYDTSEDTAPKGIIELAEVQSVTAAQPAQIGAKGVDEKGFFDLKTSKRIYNFYAINANLAQEWIEKLQACLQ