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/mpm/mpm06020/w3open/interpro/cnk_1/seq.in - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: mKIAA4142 ( 1639 res) mpm06020 Scores for sequence family classification (score includes all domains): Model Description Score E-value N -------- ----------- ----- ------- --- Ldl_recept_b Low-density lipoprotein receptor repeat 562.1 3.8e-165 19 Ldl_recept_a Low-density lipoprotein receptor domain 155.4 1e-42 3 EGF EGF-like domain 79.1 9.2e-20 5 NHL NHL repeat 23.8 0.004 4 Parsed for domains: Model Domain seq-f seq-t hmm-f hmm-t score E-value -------- ------- ----- ----- ----- ----- ----- ------- Ldl_recept_b 1/19 99 142 .. 1 47 [] 21.7 0.017 NHL 1/4 131 159 .. 1 29 [] 4.1 30 Ldl_recept_b 2/19 144 185 .. 1 47 [] 57.7 2.6e-13 Ldl_recept_b 3/19 187 229 .. 1 47 [] 64.4 2.3e-15 Ldl_recept_b 4/19 231 270 .. 1 47 [] 22.2 0.012 Ldl_recept_b 5/19 272 313 .. 1 47 [] 13.2 0.31 EGF 1/5 323 360 .. 1 39 [] 35.3 1.4e-06 Ldl_recept_b 6/19 409 450 .. 1 47 [] 42.0 1.4e-08 NHL 2/4 439 467 .. 1 29 [] 6.9 13 Ldl_recept_b 7/19 452 493 .. 1 47 [] 55.8 9.1e-13 Ldl_recept_b 8/19 495 537 .. 1 47 [] 61.4 2e-14 NHL 3/4 526 554 .. 1 29 [] 1.5 63 Ldl_recept_b 9/19 539 582 .. 1 47 [] 26.5 0.00064 EGF 2/5 629 664 .. 1 39 [] 33.8 3.9e-06 Ldl_recept_b 10/19 711 752 .. 1 47 [] 41.0 2.6e-08 NHL 4/4 741 769 .. 1 29 [] 11.2 3.7 Ldl_recept_b 11/19 754 795 .. 1 47 [] 40.7 3.4e-08 Ldl_recept_b 12/19 797 838 .. 1 47 [] 31.1 2.6e-05 Ldl_recept_b 13/19 840 877 .. 1 47 [] 20.7 0.03 Ldl_recept_b 14/19 880 921 .. 1 47 [] 32.2 1.2e-05 EGF 3/5 930 965 .. 1 39 [] 11.4 1.4 Ldl_recept_b 15/19 1013 1058 .. 1 47 [] 3.3 6.8 Ldl_recept_b 16/19 1060 1101 .. 1 47 [] 8.9 1.2 Ldl_recept_b 17/19 1103 1146 .. 1 47 [] 27.2 0.00037 Ldl_recept_b 18/19 1148 1189 .. 1 47 [] 26.0 0.00088 Ldl_recept_b 19/19 1190 1231 .. 1 47 [] 1.6 12 EGF 4/5 1241 1277 .. 1 39 [] 32.4 1e-05 Ldl_recept_a 1/3 1281 1321 .. 1 43 [] 67.0 4e-16 EGF 5/5 1322 1356 .. 1 39 [] -1.9 29 Ldl_recept_a 2/3 1322 1358 .. 1 43 [] 48.5 1.5e-10 Ldl_recept_a 3/3 1359 1396 .. 1 43 [] 55.8 9.6e-13 Alignments of top-scoring domains: Ldl_recept_b: domain 1 of 19, from 99 to 142: score 21.7, E = 0.017 *->grlYWtDsslrkIasisvadlnGsd..rrtlfsededlqhPngIavD g +YWtD+s++ i ln++ ++ + l +P+g+a D mKIAA4142 99 GAVYWTDVSEE---AIKQTYLNQTGaaAQNIVISG--LVSPDGLACD 140 pi<-* ++ mKIAA4142 141 WV 142 NHL: domain 1 of 4, from 131 to 159: score 4.1, E = 30 *->lnrPhGvavdpsdGrvyVaDsenhrvqvf<-* l +P G+a d + +y +Dse++r+ v mKIAA4142 131 LVSPDGLACDWVGKKLYWTDSETNRIEVA 159 Ldl_recept_b: domain 2 of 19, from 144 to 185: score 57.7, E = 2.6e-13 *->grlYWtDsslrkIasisvadlnGsdrrtlfsededlqhPngIavDpi ++lYWtDs++ +i+va+lnG++r++lf +d l+ P++Ia+Dp mKIAA4142 144 KKLYWTDSETN---RIEVANLNGTSRKVLFWQD--LDQPRAIALDPA 185 <-* mKIAA4142 - - Ldl_recept_b: domain 3 of 19, from 187 to 229: score 64.4, E = 2.3e-15 *->grlYWtDsslrkIasisvadlnGsdrrtlfsededlqhPngIavDpi g++YWtD+++ ++i++a+++Gs r++++++d +++Png+++D + mKIAA4142 187 GYMYWTDWGEA--PRIERAGMDGSTRKIIVDSD--IYWPNGLTIDLE 229 <-* mKIAA4142 - - Ldl_recept_b: domain 4 of 19, from 231 to 270: score 22.2, E = 0.012 *->grlYWtDsslrkIasisvadlnGsdrrtlfsededlqhPngIavDpi ++lYW D++l i +a+l+Gs r ++ + l hP+++++ + mKIAA4142 231 QKLYWADAKLS---FIHRANLDGSFRQKVVEGS--LTHPFALTL--S 270 <-* mKIAA4142 - - Ldl_recept_b: domain 5 of 19, from 272 to 313: score 13.2, E = 0.31 *->grlYWtDsslrkIasisvadlnGsdrrtlfsededlqhPngIavDpi + lYWtD+ +r + ++++ +G r+ ++s ++P +I v + mKIAA4142 272 DTLYWTDWQTR--SIHACNKWTGEQRKEILSAL---YSPMDIQVLSQ 313 <-* mKIAA4142 - - EGF: domain 1 of 5, from 323 to 360: score 35.3, E = 1.4e-06 *->CspnngpCsngGtCvdtpg..gytCeCppGdyfllytGkrC<-* C ++ng+Cs+ C+ +p+++ y+C Cp G ++l+ +Gk+C mKIAA4142 323 CEEDNGGCSH--LCLLSPRepFYSCACPTG-VQLQDNGKTC 360 Ldl_recept_b: domain 6 of 19, from 409 to 450: score 42.0, E = 1.4e-08 *->grlYWtDsslrkIasisvadlnGsdrrtlfsededlqhPngIavDpi g++YWtD + r i +a l+Gs tl++ + +++P+gIavD++ mKIAA4142 409 GYVYWTDDEVR---AIRRAYLDGSGAQTLVNTE--INDPDGIAVDWV 450 <-* mKIAA4142 - - NHL: domain 2 of 4, from 439 to 467: score 6.9, E = 13 *->lnrPhGvavdpsdGrvyVaDsenhrvqvf<-* n P G+avd + ++y +D+++ r+ v mKIAA4142 439 INDPDGIAVDWVARNLYWTDTGTDRIEVT 467 Ldl_recept_b: domain 7 of 19, from 452 to 493: score 55.8, E = 9.1e-13 *->grlYWtDsslrkIasisvadlnGsdrrtlfsededlqhPngIavDpi ++lYWtD +++ +i+v +lnG++r++l+sed l++P++I+++p+ mKIAA4142 452 RNLYWTDTGTD---RIEVTRLNGTSRKILVSED--LDEPRAIVLHPV 493 <-* mKIAA4142 - - Ldl_recept_b: domain 8 of 19, from 495 to 537: score 61.4, E = 2e-14 *->grlYWtDsslrkIasisvadlnGsdrrtlfsededlqhPngIavDpi g++YWtD+++ ++i++a+l+G dr++l++ l +Png+a+D + mKIAA4142 495 GLMYWTDWGEN--PKIECANLDGRDRHVLVNTS--LGWPNGLALDLQ 537 <-* mKIAA4142 - - NHL: domain 3 of 4, from 526 to 554: score 1.5, E = 63 *->lnrPhGvavdpsdGrvyVaDsenhrvqvf<-* l P G+a+d G +y D + ++ v+ mKIAA4142 526 LGWPNGLALDLQEGKLYWGDAKTDKIEVI 554 Ldl_recept_b: domain 9 of 19, from 539 to 582: score 26.5, E = 0.00064 *->grlYWtDsslrkIasisvadlnGsdrrtlfsededlqhPngIav..D g+lYW D++++ +i+v++++G++r+tl+ + l h +g ++ +D mKIAA4142 539 GKLYWGDAKTD---KIEVINIDGTKRKTLLEDK--LPHIFGFTLlgD 580 pi<-* i mKIAA4142 581 FI 582 EGF: domain 2 of 5, from 629 to 664: score 33.8, E = 3.9e-06 *->CspnngpCsngGtCvdtpggytCeCppGdyfllytGkrC<-* C++ ng+Cs+ C tp+ +C Cp G + ll ++k+C mKIAA4142 629 CADGNGGCSH--LCFFTPRATKCGCPIG-LELLSDMKTC 664 Ldl_recept_b: domain 10 of 19, from 711 to 752: score 41.0, E = 2.6e-08 *->grlYWtDsslrkIasisvadlnGsdrrtlfsededlqhPngIavDpi +++YWtD+sl+ +is+a +nGs++ ++ l+ P+g avD+ mKIAA4142 711 NHIYWTDVSLK---TISRAFMNGSSVEHVIEFG--LDYPEGMAVDWM 752 <-* mKIAA4142 - - NHL: domain 4 of 4, from 741 to 769: score 11.2, E = 3.7 *->lnrPhGvavdpsdG.rvyVaDsenhrvqvf<-* l++P G avd + G+++y aD++++r+ v mKIAA4142 741 LDYPEGMAVD-WMGkNLYWADTGTNRIEVA 769 Ldl_recept_b: domain 11 of 19, from 754 to 795: score 40.7, E = 3.4e-08 *->grlYWtDsslrkIasisvadlnGsdrrtlfsededlqhPngIavDpi ++lYW D ++ +i+va+l+G+ r +l+ d l++P+++a+Dp+ mKIAA4142 754 KNLYWADTGTN---RIEVARLDGQFRQVLVWRD--LDNPRSLALDPT 795 <-* mKIAA4142 - - Ldl_recept_b: domain 12 of 19, from 797 to 838: score 31.1, E = 2.6e-05 *->grlYWtDsslrkIasisvadlnGsdrrtlfsededlqhPngIavDpi g++YWt+++ + ++i +a ++G++ + + + + n++++D+ mKIAA4142 797 GYIYWTEWGGK--PRIVRAFMDGTN-CMTLVDK--VGRANDLTIDYA 838 <-* mKIAA4142 - - Ldl_recept_b: domain 13 of 19, from 840 to 877: score 20.7, E = 0.03 *->grlYWtDsslrkIasisvadlnGsdrrtlfsededlqhPngIavDpi +rlYWtD+ + +i++ ++ G++ r+++++d l P+g++ + mKIAA4142 840 QRLYWTDLDTN---MIESSNMLGQE-RMVIADD--LPYPFGLT---Q 877 <-* mKIAA4142 - - Ldl_recept_b: domain 14 of 19, from 880 to 921: score 32.2, E = 1.2e-05 *->grlYWtDsslrkIasisvadlnGsdrrtlfsededlqhPngIavDpi +++YWtD++l+ si++ad + ++ rtl+++ l+ +I v+++ mKIAA4142 880 DYIYWTDWNLH---SIERADKTSGRNRTLIQGH--LDFVMDILVFHS 921 <-* mKIAA4142 - - EGF: domain 3 of 5, from 930 to 965: score 11.4, E = 1.4 *->CspnngpCsngGtCvdtpggytCeCppGdyfllytGkrC<-* C ng C C+ pgg++C C+ + y l+ + ++C mKIAA4142 930 CVHSNGQCGQ--LCLAIPGGHRCGCASH-YTLDPSSRNC 965 Ldl_recept_b: domain 15 of 19, from 1013 to 1058: score 3.3, E = 6.8 *->grlYWtDsslrkIasisvadlnGsdrrtlfsededl...qhPngIav +++YW+D+++ + +++d+++ + t s+ l++++ P ++ + mKIAA4142 1013 KFIYWVDGRQN--IKRAKDDGTQPSMLTSPSQS--LspdRQPHDLSI 1055 Dpi<-* D+ mKIAA4142 1056 DIY 1058 Ldl_recept_b: domain 16 of 19, from 1060 to 1101: score 8.9, E = 1.2 *->grlYWtDsslrkIasisvadlnGsdrrtlfsededlqhPngIavDpi + l+Wt + +i v +l+G +++++d ++P++Iav + mKIAA4142 1060 RTLFWTCEATN---TINVHRLDGDAMGVVLRGD--RDKPRAIAVNAE 1101 <-* mKIAA4142 - - Ldl_recept_b: domain 17 of 19, from 1103 to 1146: score 27.2, E = 0.00037 *->grlYWtDsslrkIasisvadlnGsdrrtlfsededlqhPngIavDpi g++Y+t+ + a+i++a l+G++r +lf+ l P +++vD mKIAA4142 1103 GYMYFTNMQDH-AAKIERASLDGTEREVLFTTG--LIRPVALVVDNA 1146 <-* mKIAA4142 - - Ldl_recept_b: domain 18 of 19, from 1148 to 1189: score 26.0, E = 0.00088 *->grlYWtDsslrkIasisvadlnGsdrrtlfsededlqhPngIavDpi g+l+W+D+ l+ +i++ dl G++r tl + + + P g++v + mKIAA4142 1148 GKLFWVDADLK---RIESCDLSGANRLTLEDAN--IVQPVGLTVLGR 1189 <-* mKIAA4142 - - Ldl_recept_b: domain 19 of 19, from 1190 to 1231: score 1.6, E = 12 *->grlYWtDsslrkIasisvadlnGsdrrtlfsededlqhPngI.avDp +lYW+D ++ +i++ + +d rt +++ + h +gI+av + mKIAA4142 1190 -HLYWIDRQQQ---MIERVEKTTGDKRTRVQGR--VTHLTGIhAVEE 1230 i<-* + mKIAA4142 1231 V 1231 EGF: domain 4 of 5, from 1241 to 1277: score 32.4, E = 1e-05 *->CspnngpCsngGtCvdtpg.gytCeCppGdyfllytGkrC<-* C+ +ng+Cs+ +C+ ++++++C Cp++ ++ll + +C mKIAA4142 1241 CARDNGGCSH--ICIAKGDgTPRCSCPVH-LVLLQNLLTC 1277 Ldl_recept_a: domain 1 of 3, from 1281 to 1321: score 67.0, E = 4e-16 *->stCggpdeFqCgsgr.rCIprswvCDGdpDCeDGSDEslenCaa<-* +tC+ pd+F C +g+ CIp w+CDG p+C+D+SDE e+C+ mKIAA4142 1281 PTCS-PDQFACTTGEiDCIPGAWRCDGFPECADQSDE--EGCPV 1321 EGF: domain 5 of 5, from 1322 to 1356: score -1.9, E = 29 *->CspnngpCsngGtCvdtpg..gytCeCppGdyfllytGkrC<-* Cs pC G+Cvd++ + + + +C+ + +C mKIAA4142 1322 CSASQFPCAR-GQCVDLRLrcDGEADCQDR-----SDEANC 1356 Ldl_recept_a: domain 2 of 3, from 1322 to 1358: score 48.5, E = 1.5e-10 *->stCggpdeFqCgsgrrCIprswvCDGdpDCeDGSDEslenCaa<-* C+ + +F C+ g+ C+ +++CDG++DC+D SDE +nC a mKIAA4142 1322 --CS-ASQFPCARGQ-CVDLRLRCDGEADCQDRSDE--ANCDA 1358 Ldl_recept_a: domain 3 of 3, from 1359 to 1396: score 55.8, E = 9.6e-13 *->stCggpdeFqCgsgrrCIprswvCDGdpDCeDGSDEslenCaa<-* C p++F+C sg+ C+ ++++CD pDC+DGSDE C mKIAA4142 1359 -VCL-PNQFRCTSGQ-CVLIKQQCDSFPDCADGSDE--LMCEI 1396 //