hmmpfam - search a single seq against HMM database HMMER 2.1.1 (Dec 1998) Copyright (C) 1992-1998 Washington University School of Medicine HMMER is freely distributed under the GNU General Public License (GPL). - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - HMM file: /data11/genetics/InterProScan/iprscan/data/Pfam Sequence file: /cdna4/rodent/full/goal/mbg/mbg06166/w3open/interpro/cnk_1/seq.in - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: mKIAA0054 ( 1617 res) mbg06166 Scores for sequence family classification (score includes all domains): Model Description Score E-value N -------- ----------- ----- ------- --- zf-CCCH Zinc finger C-x8-C-x5-C-x3-H type (and 35.6 1.2e-06 1 PAM2 Ataxin-2 C-terminal region 26.3 0.00073 1 ResIII Type III restriction enzyme, res subuni -28.6 0.073 1 Extensin_2 Extensin-like region -143.2 0.7 1 UvrD-helicase UvrD/REP helicase -201.4 0.71 1 Parsed for domains: Model Domain seq-f seq-t hmm-f hmm-t score E-value -------- ------- ----- ----- ----- ----- ----- ------- zf-CCCH 1/1 180 206 .. 1 27 [] 35.6 1.2e-06 ResIII 1/1 641 816 .. 1 244 [] -28.6 0.073 UvrD-helicase 1/1 643 1091 .. 1 653 [] -201.4 0.71 PAM2 1/1 1096 1113 .. 1 18 [] 26.3 0.00073 Extensin_2 1/1 1103 1558 .. 1 385 [] -143.2 0.7 Alignments of top-scoring domains: zf-CCCH: domain 1 of 1, from 180 to 206: score 35.6, E = 1.2e-06 *->yktelCrffsrtGtCkyGdrCkFaHge<-* + lC++f++ G C+yG++C aH++ mKIAA0054 180 EEYTLCKRFLEQGICRYGAQCTSAHSQ 206 ResIII: domain 1 of 1, from 641 to 816: score -28.6, E = 0.073 *->iklRpyQeeAierllesiekgelrlatglkdkdkkkrglivmATGsG +l+ Q+eA+ ++ ++++ + +li+ + G+G mKIAA0054 641 PRLNAKQKEAVLAITTPLSIQ-------------LPPVLIIGPYGTG 674 KTltaakiliarllkkqq.klkhgriddskvLFlVprkdLleQaleeF.. KT+t a+ +++++l+ qq+ ++L+ ++++ ++ ++++ + mKIAA0054 675 KTFTLAQ-AAKHILQ-QQeT---------RILICTHSNSAADLYIKDYlh 713 .........................tkfeskkkkefknpgvdkklkvltd + + ++++ ++ + +++ ++ + ++++++ mKIAA0054 714 pyveagnpqarplrvyfrnrwvktvHPVVHQYCLI--------------- 748 nqkdsalegkskkndieiifttiQkLskalklgkendeeekskstes.vv ++ s++ ++ +++++ + +++ +t+s+++ mKIAA0054 749 SSTQSTF---------------------QMPQKEDILKHRVVVVTLStSQ 777 .glrlavesleflldefdliIiDEaHrssaktksakededatklevyrki + l++ +++f ++ DEa ++a + + i mKIAA0054 778 yLCQ-----LDLEPGFFTHVLLDEA--AQAME--------------CETI 806 lekwelelnkkyfkpaflLGlTATPer<-* + L l AT + mKIAA0054 807 MP----------------LAL-ATKNT 816 UvrD-helicase: domain 1 of 1, from 643 to 1091: score -201.4, E = 0.71 *->LNpeQrkAvthlgGpl.......LVlAGAGSGKTrvlthRiayLiae LN Q++Av+++++pl+ + ++ L++ G+GKT++l++ + + + + mKIAA0054 643 LNAKQKEAVLAITTPLsiqlppvLIIGPYGTGKTFTLAQAAKHILQQ 689 ggiePeeeILavTFTNKAAnEMkeRirkrLkeal.a..leaellgeplqk ++ IL+ T N AA+ i+ L+ ++a+++ a +l+ mKIAA0054 690 Q---ETR-ILICTHSNSAAD---LYIKDYLHPYVeAgnPQARPLRVY--- 729 slleiaqklrlralaaaselnisTFHsfclriLrrygkrlglipedqiet +++ ++ T+H + ++ mKIAA0054 730 ----------------FRNRWVKTVH----------PVVHQ--------- 744 lqraisdlrknFsilDeedevflddlkqlkllkeilkkvlkddedldekk +i + + ++ ++ ed+ ++ mKIAA0054 745 ----------YCLISSTQS------------TFQMP----QK-EDILKHR 767 lrpralleqlkynerqkllalysekakfeslkrfaeslkelisalKnell + + +++ + l+ + ++ mKIAA0054 768 VVVV-----------------------------TLSTSQYLCQLDLEPGF 788 speelqkklkyagdpldkqaaevyeeYqerlkennavktaksp.flDFdD + l++ +++qa+e+ ++ +l +n + +l d mKIAA0054 789 FTHVLLD--------EAAQAMECETIMPLALATKNT------RiVLAGDH 824 LllltledqlLLrdesaqfetelakenpelleayrerfkyiLVDEyQDTN + l + +++ e + ++V mKIAA0054 825 MQLSPFV---YSEF------------ARE---------RNLHV------- 843 piQyellklLagghsntgpdsgnLfvVGDpDQSIYgFRGAdienilkfek ll +L+ + + mKIAA0054 844 ----SLLDRLYEHYPA---------------------------------- 855 dfpnneLnppakvikLeqNYRStpnILaaANsviknnknrkekreiydi. +fp +i L +NYRS+++I++ + +++ k ++ + mKIAA0054 856 EFPC--------RILLCENYRSHEAIINYTSELFYEGKLMASGK----Qp 893 vhs...lllLwsqkdsgekivlyeaeigteqeEaefianeIkalhkngaa +h++ l +++ ++++ + a +++E ++++ ++l++++ mKIAA0054 894 AHKdfyPLTFFTARGEDVQEKNSTAF--YNNAEVFEVVERVEELRRKWP- 940 avkfkk.ktyRvqaaDiAvLyRtNkaqsraiEeaLlkagIPykivggvsd v+++k +++ i v +q +i+ +L+k + + + mKIAA0054 941 -VAWGKlDDG-----SIGVVTPYA-DQVFRIRAELRK----KRLSDVNV- 978 FfdrkEikdlLayLrlialNpkddlallrilntPkrgigattleklrnla + + r+++ + ++ + + i ++++ +++ mKIAA0054 979 ---ERVLNVQGKQFRVLF---LSTVRTRHTCKHKQTPIKKKEQLLEDSTE 1022 ktrdislsefqalk.qleeklg.iaklakllsaraikklksflalieele + + ls ++ l++++ + + +a ++ + i ++ f + + +l+ mKIAA0054 1023 DLDYGFLSNYKLLNtAITRAQSlVAVVGDPVALCSIGRCRKFWERFIALC 1072 kllleiaelllealldevlellgy<-* +++ +l++++ e +++ ++ mKIAA0054 1073 H-ENH----SLHGITFEQIKAQLE 1091 PAM2: domain 1 of 1, from 1096 to 1113: score 26.3, E = 0.00073 *->kkkskLNPnAkEFVPssk<-* kk+++LNP+A+EF+P+ mKIAA0054 1096 KKTYVLNPLAPEFIPRAL 1113 Extensin_2: domain 1 of 1, from 1103 to 1558: score -143.2, E = 0.7 *->lltlvvalvslslpseasakYsYsSPPPpekpY.............. l++ + +l l + + + +SPP + Y++++++ ++++ + mKIAA0054 1103 PLAPEFIPRALRLQHSGNSSRQQQSPPKVKSLYhpqsdhfqsdgivq 1149 ............vYkSPPpPspkyvy..kSPPPpkkpY.......vYsSP ++++ +++ + Y PPpP +++ +kSP P ++ ++++++ +Y mKIAA0054 1150 pnpsvlignpirAY-TPPPPLGPHPNlgKSPSPVQRIDphtgtsiLYVPA 1198 PPPsyvykSPPPPkp.............................yvYkSP v+ S P P p ++ +++ +++ +++ + + + + + mKIAA0054 1199 VYGGNVVMSVPLPVPwtgyqgrfavdpriithqaamaynmnllhTHGRGS 1248 PpPkyvYkSPPpPv....................ykYkSPPPPthsppPp P P PP +++++++ ++++++++++++ P P + mKIAA0054 1249 PIPYGLGHHPPVSLgqpqsqhaekdqqeqnrngkTDTNNPGPEI--NKIR 1296 yvykSPPPPpk.....kyvykSpPpptPvYkYkSPPPPp.......yvYk k P P++ + ++ + +Sp P +Y+ P +++ +++ + + mKIAA0054 1297 TPEKKPTEPKQvdlesNPQNRSPES-RPGVVYSNTKFPRkdhlnprHINN 1345 sp.PpPvkk.ripyvYkSPPPPpPYvYkSpPppvkkyiyksppppephkY p P+P + ip P P P pP p + p ++ mKIAA0054 1346 LPlPAPHAQyAIPSRHFHPLPQLP----RPPFPA-----SQPHTLLNQ-Q 1385 vYkSPPPPpPYvyesvpeqkikYvYkSPPPPkksYkspsppkyVYkSpPp + P P ++p+q + + P P+ + +P mKIAA0054 1386 QNNLPEQPN--QMAPQPNQVAPQPNQMTPQPN-------------QVAPQ 1420 PvipykYkSPPPPkkkyspaPrkpyvYkSPPPPtyvYkSpP.pPykpptp P + +S PP + ++paP+ ++ ++ P + + + ++P+ p mKIAA0054 1421 PNQVVQQQSQAPP-QAPQPAPQLSPAFQAGPTNAFFNNAVAhRPQSPAAE 1469 pkiyksPPPPtPvyvYkspPpippik.....sssppPvyvYkSpPppvys + + PPPP + sp + i ++++ sp +v +S P + mKIAA0054 1470 AVGPEQPPPPG-LPDGHSPLR--AITqpgpiLASPLNNFVDESSPGLPIE 1516 PPPPyvYssPPPPvyvynsaPvykksPPkhhYiYsSPPPphh<-* v s + + a ++ s + + + P hh mKIAA0054 1517 EALDGVHGSVALETLRQQQARLQQWSEHHAYLSQGGIPYSHH 1558 //