hmmpfam - search one or more sequences against HMM database HMMER 2.3.2 (Oct 2003) Copyright (C) 1992-2003 HHMI/Washington University School of Medicine Freely distributed under the GNU General Public License (GPL) - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - HMM file: /db/iprscan/data/Pfam.bin Sequence file: /db/iprscan/tmp/20080813/iprscan-20080813-07300011/chunk_1/iprscan-20080813-07300011.nocrc - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query sequence: pf08020 Accession: [none] Description: [none] Scores for sequence family classification (score includes all domains): Model Description Score E-value N -------- ----------- ----- ------- --- PF00058.8.fs Low-density lipoprotein receptor repeat 556.1 1e-166 19 PF00058.8.ls Low-density lipoprotein receptor repeat 547.4 1.3e-161 18 PF00057.9.fs Low-density lipoprotein receptor domain 158.7 1.3e-50 3 PF00057.9.ls Low-density lipoprotein receptor domain 164.4 2.6e-46 3 PF00008.17.ls EGF-like domain 120.8 3.6e-33 4 PF00008.17.fs EGF-like domain 113.0 7.8e-31 4 Parsed for domains: Model Domain seq-f seq-t hmm-f hmm-t score E-value -------- ------- ----- ----- ----- ----- ----- ------- PF00058.8.fs 2/19 14 56 .. 1 47 [] 59.7 3.5e-17 PF00058.8.ls 1/18 14 56 .. 1 47 [] 61.6 2.4e-15 PF00058.8.ls 2/18 58 99 .. 1 47 [] 37.5 4.1e-08 PF00058.8.fs 3/19 58 99 .. 1 47 [] 35.7 5.9e-10 PF00058.8.ls 3/18 101 140 .. 1 47 [] 4.7 0.61 PF00008.17.fs 1/4 150 187 .. 1 38 [] 32.9 2.6e-08 PF00008.17.ls 1/4 150 187 .. 1 38 [] 34.8 2.7e-07 PF00058.8.ls 4/18 236 277 .. 1 47 [] 39.4 1.2e-08 PF00058.8.fs 5/19 236 277 .. 1 47 [] 37.5 1.7e-10 PF00058.8.fs 6/19 279 320 .. 1 47 [] 51.7 8.8e-15 PF00058.8.ls 5/18 279 320 .. 1 47 [] 53.6 6.2e-13 PF00058.8.ls 6/18 322 364 .. 1 47 [] 55.7 1.4e-13 PF00058.8.fs 7/19 322 364 .. 1 47 [] 53.8 2e-15 PF00058.8.ls 7/18 366 404 .. 1 47 [] 14.2 0.032 PF00058.8.fs 8/19 366 396 .. 1 36 [. 20.6 2e-05 PF00058.8.ls 8/18 407 450 .. 1 47 [] 7.7 0.24 PF00008.17.ls 2/4 456 491 .. 1 38 [] 31.3 3.2e-06 PF00008.17.fs 2/4 456 491 .. 1 38 [] 29.3 2.6e-07 PF00058.8.fs 10/19 538 579 .. 1 47 [] 36.9 2.5e-10 PF00058.8.ls 9/18 538 579 .. 1 47 [] 38.8 1.7e-08 PF00058.8.fs 11/19 581 622 .. 1 47 [] 41.0 1.5e-11 PF00058.8.ls 10/18 581 622 .. 1 47 [] 42.9 1e-09 PF00058.8.ls 11/18 624 665 .. 1 47 [] 38.8 1.7e-08 PF00058.8.fs 12/19 624 665 .. 1 47 [] 37.0 2.4e-10 PF00058.8.ls 12/18 667 704 .. 1 47 [] 17.7 0.011 PF00058.8.fs 13/19 667 703 .. 1 43 [. 22.5 5.4e-06 PF00058.8.fs 14/19 707 748 .. 1 47 [] 28.3 9.9e-08 PF00058.8.ls 13/18 707 748 .. 1 47 [] 30.2 6.9e-06 PF00008.17.ls 3/4 757 793 .. 1 38 [] 23.2 0.00085 PF00058.8.ls 14/18 841 888 .. 1 47 [] 6.2 0.38 PF00058.8.ls 15/18 890 931 .. 1 47 [] 17.2 0.013 PF00058.8.fs 17/19 933 976 .. 1 47 [] 31.0 1.5e-08 PF00058.8.ls 16/18 933 976 .. 1 47 [] 32.9 1e-06 PF00058.8.fs 18/19 978 1019 .. 1 47 [] 37.6 1.5e-10 PF00058.8.ls 17/18 978 1019 .. 1 47 [] 39.5 1.1e-08 PF00058.8.ls 18/18 1021 1061 .. 1 47 [] 8.8 0.17 PF00008.17.fs 4/4 1071 1107 .. 1 38 [] 29.5 2.2e-07 PF00008.17.ls 4/4 1071 1107 .. 1 38 [] 31.5 2.8e-06 PF00057.9.ls 1/3 1111 1149 .. 1 40 [] 58.7 1.8e-14 PF00057.9.fs 1/3 1111 1149 .. 1 40 [] 56.7 1.2e-17 PF00057.9.ls 2/3 1150 1186 .. 1 40 [] 57.3 4.8e-14 PF00057.9.fs 2/3 1150 1186 .. 1 40 [] 55.3 3.2e-17 PF00057.9.fs 3/3 1188 1224 .. 1 40 [] 46.6 2.2e-14 PF00057.9.ls 3/3 1188 1224 .. 1 40 [] 48.5 2.1e-11 Alignments of top-scoring domains: PF00058.8.fs: domain 2 of 19, from 14 to 56: score 59.7, E = 3.5e-17 *->grlYWtDsslrkIasisvadlnGsdrrtlfsededlqhPngIavDpi g++YWtD+++ ++i++a+++Gs+r ++++++ +++Png+++D++ pf08020 14 GFMYWTDWGEV--PKIERAGMDGSSRFIIINSE--IYWPNGLTLDYE 56 <-* pf08020 - - PF00058.8.ls: domain 1 of 18, from 14 to 56: score 61.6, E = 2.4e-15 *->grlYWtDsslrkIasisvadlnGsdrrtlfsededlqhPngIavDpi g++YWtD+++ ++i++a+++Gs+r ++++++ +++Png+++D++ pf08020 14 GFMYWTDWGEV--PKIERAGMDGSSRFIIINSE--IYWPNGLTLDYE 56 <-* pf08020 - - PF00058.8.ls: domain 2 of 18, from 58 to 99: score 37.5, E = 4.1e-08 *->grlYWtDsslrkIasisvadlnGsdrrtlfsededlqhPngIavDpi ++lYW D++l i + +l+G++r +++++ l hP+++++++ pf08020 58 QKLYWADAKLN---FIHKSNLDGTNRQAVVKGS--LPHPFALTLFED 99 <-* pf08020 - - PF00058.8.fs: domain 3 of 19, from 58 to 99: score 35.7, E = 5.9e-10 *->grlYWtDsslrkIasisvadlnGsdrrtlfsededlqhPngIavDpi ++lYW D++l i + +l+G++r +++++ l hP+++++++ pf08020 58 QKLYWADAKLN---FIHKSNLDGTNRQAVVKGS--LPHPFALTLFED 99 <-* pf08020 - - PF00058.8.ls: domain 3 of 18, from 101 to 140: score 4.7, E = 0.61 *->grlYWtDsslrkIasisvadlnGsdrrtlfsededlqhPngIavDpi lYWtD+s++ ++++++ +G + +d + +P +I + + pf08020 101 --LYWTDWSTH--SILACNKYTGEG-LREIHSD--IFSPMDIHAFSQ 140 <-* pf08020 - - PF00008.17.fs: domain 1 of 4, from 150 to 187: score 32.9, E = 2.6e-08 *->CspnngpCsngGtCvdtp..ggytCeCppGyfllytGkrC<-* C +ng+Cs+ C+++p ++ y+C Cp G+ ll +Gk+C pf08020 150 CGIDNGGCSH--LCLMSPvkPFYQCACPTGVKLLENGKTC 187 PF00008.17.ls: domain 1 of 4, from 150 to 187: score 34.8, E = 2.7e-07 *->CspnngpCsngGtCvdtp..ggytCeCppGyfllytGkrC<-* C +ng+Cs+ C+++p ++ y+C Cp G+ ll +Gk+C pf08020 150 CGIDNGGCSH--LCLMSPvkPFYQCACPTGVKLLENGKTC 187 PF00058.8.ls: domain 4 of 18, from 236 to 277: score 39.4, E = 1.2e-08 *->grlYWtDsslrkIasisvadlnGsdrrtlfsededlqhPngIavDpi g++YWtD + r i + ++Gs ++++ + ++hP+gIavD++ pf08020 236 GYIYWTDDEVR---AIRRSFIDGSGSQFVVTAQ--IAHPDGIAVDWV 277 <-* pf08020 - - PF00058.8.fs: domain 5 of 19, from 236 to 277: score 37.5, E = 1.7e-10 *->grlYWtDsslrkIasisvadlnGsdrrtlfsededlqhPngIavDpi g++YWtD + r i + ++Gs ++++ + ++hP+gIavD++ pf08020 236 GYIYWTDDEVR---AIRRSFIDGSGSQFVVTAQ--IAHPDGIAVDWV 277 <-* pf08020 - - PF00058.8.fs: domain 6 of 19, from 279 to 320: score 51.7, E = 8.8e-15 *->grlYWtDsslrkIasisvadlnGsdrrtlfsededlqhPngIavDpi ++lYWtD +++ +i+v +lnG+ r++l+sed l++P++I++Dp pf08020 279 RNLYWTDTGTD---RIEVTRLNGTMRKILISED--LEEPRAIVLDPM 320 <-* pf08020 - - PF00058.8.ls: domain 5 of 18, from 279 to 320: score 53.6, E = 6.2e-13 *->grlYWtDsslrkIasisvadlnGsdrrtlfsededlqhPngIavDpi ++lYWtD +++ +i+v +lnG+ r++l+sed l++P++I++Dp pf08020 279 RNLYWTDTGTD---RIEVTRLNGTMRKILISED--LEEPRAIVLDPM 320 <-* pf08020 - - PF00058.8.ls: domain 6 of 18, from 322 to 364: score 55.7, E = 1.4e-13 *->grlYWtDsslrkIasisvadlnGsdrrtlfsededlqhPngIavDpi g++YWtD+++ ++i++a l+Gsdr +l++ l +Png+a+D+ pf08020 322 GYMYWTDWGEI--PKIERAALDGSDRVVLVNTS--LGWPNGLALDYD 364 <-* pf08020 - - PF00058.8.fs: domain 7 of 19, from 322 to 364: score 53.8, E = 2e-15 *->grlYWtDsslrkIasisvadlnGsdrrtlfsededlqhPngIavDpi g++YWtD+++ ++i++a l+Gsdr +l++ l +Png+a+D+ pf08020 322 GYMYWTDWGEI--PKIERAALDGSDRVVLVNTS--LGWPNGLALDYD 364 <-* pf08020 - - PF00058.8.ls: domain 7 of 18, from 366 to 404: score 14.2, E = 0.032 *->grlYWtDsslrkIasisvadlnGsdrrtlfsededlqhPngIavDpi g++YW D++++ +i+v +++G+ rr+l+ + + h +g ++ pf08020 366 GKIYWGDAKTD---KIEVMNTDGTGRRVLVEDK--IPHIFGFTL--- 404 <-* pf08020 - - PF00058.8.fs: domain 8 of 19, from 366 to 396: score 20.6, E = 2e-05 *->grlYWtDsslrkIasisvadlnGsdrrtlfsededl<-* g++YW D++++ +i+v +++G+ rr+l+ + + pf08020 366 GKIYWGDAKTD---KIEVMNTDGTGRRVLVEDK--I 396 PF00058.8.ls: domain 8 of 18, from 407 to 450: score 7.7, E = 0.24 *->grlYWtDsslrkIasisvadlnGsdrrtlfsededlqhPngIavDpi +++YWtD+ r si++ ++r +++++ dl + v+ + pf08020 407 DYVYWTDWQRR---SIERVHKRSAEREVIIDQLPDLMGLKATNVHRV 450 <-* pf08020 - - PF00008.17.ls: domain 2 of 4, from 456 to 491: score 31.3, E = 3.2e-06 *->CspnngpCsngGtCvdtpggytCeCppGyfllytGkrC<-* C+++ng+Cs+ C++ p+g +C Cp G+ l ++k+C pf08020 456 CAEENGGCSH--LCLYRPQGLRCACPIGFELISDMKTC 491 PF00008.17.fs: domain 2 of 4, from 456 to 491: score 29.3, E = 2.6e-07 *->CspnngpCsngGtCvdtpggytCeCppGyfllytGkrC<-* C+++ng+Cs+ C++ p+g +C Cp G+ l ++k+C pf08020 456 CAEENGGCSH--LCLYRPQGLRCACPIGFELISDMKTC 491 PF00058.8.fs: domain 10 of 19, from 538 to 579: score 36.9, E = 2.5e-10 *->grlYWtDsslrkIasisvadlnGsdrrtlfsededlqhPngIavDpi +r+YWtD sl+ +is+a +nGs ++ l+ P+g avD+ pf08020 538 NRIYWTDISLK---TISRAFMNGSALEHVVEFG--LDYPEGMAVDWL 579 <-* pf08020 - - PF00058.8.ls: domain 9 of 18, from 538 to 579: score 38.8, E = 1.7e-08 *->grlYWtDsslrkIasisvadlnGsdrrtlfsededlqhPngIavDpi +r+YWtD sl+ +is+a +nGs ++ l+ P+g avD+ pf08020 538 NRIYWTDISLK---TISRAFMNGSALEHVVEFG--LDYPEGMAVDWL 579 <-* pf08020 - - PF00058.8.fs: domain 11 of 19, from 581 to 622: score 41.0, E = 1.5e-11 *->grlYWtDsslrkIasisvadlnGsdrrtlfsededlqhPngIavDpi ++lYW D ++ +i+v +l+G++r +l+ d l++P+++a+Dp pf08020 581 KNLYWADTGTN---RIEVSKLDGQHRQVLVWKD--LDSPRALALDPA 622 <-* pf08020 - - PF00058.8.ls: domain 10 of 18, from 581 to 622: score 42.9, E = 1e-09 *->grlYWtDsslrkIasisvadlnGsdrrtlfsededlqhPngIavDpi ++lYW D ++ +i+v +l+G++r +l+ d l++P+++a+Dp pf08020 581 KNLYWADTGTN---RIEVSKLDGQHRQVLVWKD--LDSPRALALDPA 622 <-* pf08020 - - PF00058.8.ls: domain 11 of 18, from 624 to 665: score 38.8, E = 1.7e-08 *->grlYWtDsslrkIasisvadlnGsdrrtlfsededlqhPngIavDpi g++YWt+++ + ++i +a ++Gs+ rt + + + ng+++D+ pf08020 624 GFMYWTEWGGK--PKIDRAAMDGSE-RTTLVPN--VGRANGLTIDYA 665 <-* pf08020 - - PF00058.8.fs: domain 12 of 19, from 624 to 665: score 37.0, E = 2.4e-10 *->grlYWtDsslrkIasisvadlnGsdrrtlfsededlqhPngIavDpi g++YWt+++ + ++i +a ++Gs+ rt + + + ng+++D+ pf08020 624 GFMYWTEWGGK--PKIDRAAMDGSE-RTTLVPN--VGRANGLTIDYA 665 <-* pf08020 - - PF00058.8.ls: domain 12 of 18, from 667 to 704: score 17.7, E = 0.011 *->grlYWtDsslrkIasisvadlnGsdrrtlfsededlqhPngIavDpi +rlYWtD+ + i++ ++ G + r ++++d l hP+g++ + pf08020 667 RRLYWTDLDTN---LIESSNMLGLN-REVIADD--LPHPFGLT---Q 704 <-* pf08020 - - PF00058.8.fs: domain 13 of 19, from 667 to 703: score 22.5, E = 5.4e-06 *->grlYWtDsslrkIasisvadlnGsdrrtlfsededlqhPngIa<-* +rlYWtD+ + i++ ++ G + r ++++d l hP+g++ pf08020 667 RRLYWTDLDTN---LIESSNMLGLN-REVIADD--LPHPFGLT 703 PF00058.8.fs: domain 14 of 19, from 707 to 748: score 28.3, E = 9.9e-08 *->grlYWtDsslrkIasisvadlnGsdrrtlfsededlqhPngIavDpi +++YWtD+s r si++a+ + + rt++++ l+ +I v+++ pf08020 707 DYIYWTDWSRR---SIERANKTSGQNRTIIQGH--LDYVMDILVFHS 748 <-* pf08020 - - PF00058.8.ls: domain 13 of 18, from 707 to 748: score 30.2, E = 6.9e-06 *->grlYWtDsslrkIasisvadlnGsdrrtlfsededlqhPngIavDpi +++YWtD+s r si++a+ + + rt++++ l+ +I v+++ pf08020 707 DYIYWTDWSRR---SIERANKTSGQNRTIIQGH--LDYVMDILVFHS 748 <-* pf08020 - - PF00008.17.ls: domain 3 of 4, from 757 to 793: score 23.2, E = 0.00085 *->CspnngpCsngGtCvdtp.ggytCeCppGyfllytGkrC<-* C++ ng Cs+ C+ +p gg+ C Cp +y l+ + ++C pf08020 757 CASSNGHCSH--LCLAVPvGGFVCGCPAHYSLNADNRTC 793 PF00058.8.ls: domain 14 of 18, from 841 to 888: score 6.2, E = 0.38 *->grlYWtDsslrkIasisvadlnGsdrrtlfsede.....dlqhPngI + lYW+Ds++ +i +a+ +Gs t++ + +++++ +q P ++ pf08020 841 KQLYWIDSRQN---MIRKAQEDGSQGFTVVVSSVpsqnlEIQ-PYDL 883 avDpi<-* +D+ pf08020 884 SIDIY 888 PF00058.8.ls: domain 15 of 18, from 890 to 931: score 17.2, E = 0.013 *->grlYWtDsslrkIasisvadlnGsdrrtlfsededlqhPngIavDpi +++YWt + i v +l+G ++ ++++++ + P++I+v p+ pf08020 890 RYIYWTCEATN---VINVTRLDGRSVGVVLKGE--QDRPRAIVVNPE 931 <-* pf08020 - - PF00058.8.fs: domain 17 of 19, from 933 to 976: score 31.0, E = 1.5e-08 *->grlYWtDsslrkIasisvadlnGsdrrtlfsededlqhPngIavDpi g++Y+t++ +r+ ++i++a l+G++r +lf + l++P ++a+D + pf08020 933 GYMYFTNLQERS-PKIERAALDGTEREVLFFSG--LSKPIALALDSR 976 <-* pf08020 - - PF00058.8.ls: domain 16 of 18, from 933 to 976: score 32.9, E = 1e-06 *->grlYWtDsslrkIasisvadlnGsdrrtlfsededlqhPngIavDpi g++Y+t++ +r+ ++i++a l+G++r +lf + l++P ++a+D + pf08020 933 GYMYFTNLQERS-PKIERAALDGTEREVLFFSG--LSKPIALALDSR 976 <-* pf08020 - - PF00058.8.fs: domain 18 of 19, from 978 to 1019: score 37.6, E = 1.5e-10 *->grlYWtDsslrkIasisvadlnGsdrrtlfsededlqhPngIavDpi g+l+W Ds lr +i++ dl G++r +l +++ + P g++v+++ pf08020 978 GKLFWADSDLR---RIESSDLSGANRIVLEDSN--ILQPVGLTVFEN 1019 <-* pf08020 - - PF00058.8.ls: domain 17 of 18, from 978 to 1019: score 39.5, E = 1.1e-08 *->grlYWtDsslrkIasisvadlnGsdrrtlfsededlqhPngIavDpi g+l+W Ds lr +i++ dl G++r +l +++ + P g++v+++ pf08020 978 GKLFWADSDLR---RIESSDLSGANRIVLEDSN--ILQPVGLTVFEN 1019 <-* pf08020 - - PF00058.8.ls: domain 18 of 18, from 1021 to 1061: score 8.8, E = 0.17 *->grlYWtDsslrkIasisvadlnGsdrrtlfsededlqhPngI.avDp lYW+D ++ +i+++d++G + rt+++ ++ +I+av + pf08020 1021 --LYWIDKQQQ---MIEKIDMTGREGRTKVQAR--IAQLSDIhAVKE 1060 i<-* pf08020 1061 L 1061 PF00008.17.fs: domain 4 of 4, from 1071 to 1107: score 29.5, E = 2.2e-07 *->CspnngpCsngGtCvdtp.ggytCeCppGyfllytGkrC<-* C+++ng+Cs+ +C+ ++g+ +C Cp++++ll + C pf08020 1071 CAQDNGGCSH--ICLVKGdGTTRCSCPMHLVLLQDELSC 1107 PF00008.17.ls: domain 4 of 4, from 1071 to 1107: score 31.5, E = 2.8e-06 *->CspnngpCsngGtCvdtp.ggytCeCppGyfllytGkrC<-* C+++ng+Cs+ +C+ ++g+ +C Cp++++ll + C pf08020 1071 CAQDNGGCSH--ICLVKGdGTTRCSCPMHLVLLQDELSC 1107 PF00057.9.ls: domain 1 of 3, from 1111 to 1149: score 58.7, E = 1.8e-14 *->stCgpdeFqCgsgr.rCIprswvCDGdpDCeDgSDEslenC<-* +tC+p +F+C +g+ CIp w+CDG CeD+SDE nC pf08020 1111 PTCSPQQFTCFTGEiDCIPVAWRCDGFTECEDHSDE--LNC 1149 PF00057.9.fs: domain 1 of 3, from 1111 to 1149: score 56.7, E = 1.2e-17 *->stCgpdeFqCgsgr.rCIprswvCDGdpDCeDgSDEslenC<-* +tC+p +F+C +g+ CIp w+CDG CeD+SDE nC pf08020 1111 PTCSPQQFTCFTGEiDCIPVAWRCDGFTECEDHSDE--LNC 1149 PF00057.9.ls: domain 2 of 3, from 1150 to 1186: score 57.3, E = 4.8e-14 *->stCgpdeFqCgsgrrCIprswvCDGdpDCeDgSDEslenC<-* + C++ +FqC+sg+ CI ++C+Gd+ C+D SDE +nC pf08020 1150 PVCSESQFQCASGQ-CIDGALRCNGDANCQDKSDE--KNC 1186 PF00057.9.fs: domain 2 of 3, from 1150 to 1186: score 55.3, E = 3.2e-17 *->stCgpdeFqCgsgrrCIprswvCDGdpDCeDgSDEslenC<-* + C++ +FqC+sg+ CI ++C+Gd+ C+D SDE +nC pf08020 1150 PVCSESQFQCASGQ-CIDGALRCNGDANCQDKSDE--KNC 1186 PF00057.9.fs: domain 3 of 3, from 1188 to 1224: score 46.6, E = 2.2e-14 *->stCgpdeFqCgsgrrCIprswvCDGdpDCeDgSDEslenC<-* + C d+F+C++g+ CI ++++CD DC D SDE +C pf08020 1188 VLCLIDQFRCANGQ-CIGKHKKCDHNVDCSDKSDE--LDC 1224 PF00057.9.ls: domain 3 of 3, from 1188 to 1224: score 48.5, E = 2.1e-11 *->stCgpdeFqCgsgrrCIprswvCDGdpDCeDgSDEslenC<-* + C d+F+C++g+ CI ++++CD DC D SDE +C pf08020 1188 VLCLIDQFRCANGQ-CIGKHKKCDHNVDCSDKSDE--LDC 1224 //