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/shimazu/full/sh/sh02303/interpro/cnk_1/seq.in - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: sh02303 1282 Scores for sequence family classification (score includes all domains): Model Description Score E-value N -------- ----------- ----- ------- --- EGF EGF-like domain 403.5 2e-117 16 NIDO Nidogen-like 129.4 6.6e-35 1 fn3 Fibronectin type III domain 126.8 4.1e-34 3 Sushi Sushi domain (SCR repeat) 30.5 3.8e-05 1 Parsed for domains: Model Domain seq-f seq-t hmm-f hmm-t score E-value -------- ------- ----- ----- ----- ----- ----- ------- NIDO 1/1 37 127 .. 1 102 [] 129.4 6.6e-35 EGF 1/16 141 177 .. 1 37 [] 37.6 2.8e-07 EGF 2/16 184 215 .. 1 37 [] 40.0 5.2e-08 EGF 3/16 222 253 .. 1 37 [] 30.4 4e-05 EGF 4/16 260 291 .. 1 37 [] 45.8 9.8e-10 EGF 5/16 302 333 .. 1 37 [] 40.1 4.9e-08 EGF 6/16 341 368 .. 1 37 [] 10.2 3.4 EGF 7/16 377 409 .. 1 37 [] -2.8 49 EGF 8/16 414 445 .. 1 37 [] 38.3 1.7e-07 EGF 9/16 453 484 .. 1 37 [] 31.3 2.2e-05 EGF 10/16 492 523 .. 1 37 [] 42.0 1.3e-08 EGF 11/16 530 561 .. 1 37 [] 32.3 1.1e-05 Sushi 1/1 567 620 .. 1 62 [] 30.5 3.8e-05 EGF 12/16 626 657 .. 1 37 [] 37.7 2.6e-07 EGF 13/16 664 695 .. 1 37 [] 35.9 9.4e-07 EGF 14/16 702 733 .. 1 37 [] 31.8 1.6e-05 EGF 15/16 740 771 .. 1 37 [] 29.4 8.5e-05 fn3 1/3 775 856 .. 1 84 [] 40.4 3.9e-08 fn3 2/3 874 957 .. 1 84 [] 44.7 2e-09 fn3 3/3 973 1055 .. 1 84 [] 47.6 2.8e-10 EGF 16/16 1180 1211 .. 1 37 [] 43.1 6.4e-09 Alignments of top-scoring domains: NIDO: domain 1 of 1, from 37 to 127: score 129.4, E = 6.6e-35 *->lNTFQavLatdgsaTfaiFiYekgGLnWdsga.esggdvkgvrngvr NTFQ vL+tdg+ +f iF+Ye+ + W++g+++s+g+ ++++g+ sh02303 37 VNTFQTVLITDGKLSFTIFNYES--IVWTTGThASSGGNATGLGGIA 81 ArAGFnggdgtslwKefllPnSglasipeLseyRpdRFLtsNvGqPGkWm A+AGFn+gdg + f+ P+S++a+ e++ +NvG+PG+W sh02303 82 AQAGFNAGDGQRY---FSIPGSRTADMAEVETT-------TNVGVPGRWA 121 FRVDga<-* FR+D+a sh02303 122 FRIDDA 127 EGF: domain 1 of 16, from 141 to 177: score 37.6, E = 2.8e-07 *->CspnngpCsngGtCvdtp......ytCeCppGdyfllytGkrC<-* C pC+ngG+C+d +++++ytC C G +tG+rC sh02303 141 CLALR-PCLNGGKCIDDCvtgnpsYTCSCLSG-----FTGRRC 177 EGF: domain 2 of 16, from 184 to 215: score 40.0, E = 5.2e-08 *->CspnngpCsngGtCvdtp..ytCeCppGdyfllytGkrC<-* C+++ pC+ngGtC+ + ++++C+Cp G + G++C sh02303 184 CASQ--PCQNGGTCTHGInsFRCQCPAG-----FGGPTC 215 EGF: domain 3 of 16, from 222 to 253: score 30.4, E = 4e-05 *->CspnngpCsngGtCvdtp..ytCeCppGdyfllytGkrC<-* C+ C++gG+C+ ++ C C+ G ytG C sh02303 222 CDTK--ECQHGGQCQVENgsAVCVCQAG-----YTGAAC 253 EGF: domain 4 of 16, from 260 to 291: score 45.8, E = 9.8e-10 *->CspnngpCsngGtCvdtp..ytCeCppGdyfllytGkrC<-* Csp+ pC+ngG Cvd+ ++ytC C+++ ++G rC sh02303 260 CSPD--PCLNGGSCVDLVgnYTCLCAEP-----FKGLRC 291 EGF: domain 5 of 16, from 302 to 333: score 40.1, E = 4.9e-08 *->CspnngpCsngGtCvdtp..ytCeCppGdyfllytGkrC<-* C + pC+ngGtCvd +++y CeCp+G + G +C sh02303 302 CLSA--PCHNGGTCVDADqgYVCECPEG-----FMGLDC 333 EGF: domain 6 of 16, from 341 to 368: score 10.2, E = 3.4 *->CspnngpCsngGtCvdtp.ytCeCppGdyfllytGkrC<-* C C ngG+C+ + C+Cp G + G C sh02303 341 C-----ECRNGGRCLGANtTLCQCPLG-----FFGLLC 368 EGF: domain 7 of 16, from 377 to 409: score -2.8, E = 49 *->CspnngpCsngGtCvdtp..ytCeCppGdyfllytGkrC<-* C+ n+ C gG C++ +++y C C+ + + sh02303 377 CNMNT-QCPDGGYCMEHGgsYLCVCHTD-----HNASHS 409 EGF: domain 8 of 16, from 414 to 445: score 38.3, E = 1.7e-07 *->CspnngpCsngGtCvdtp..ytCeCppGdyfllytGkrC<-* C+++ pC ngG C +++ytCeCp G ++Gk+C sh02303 414 CDSD--PCFNGGSCDAHDdsYTCECPRG-----FHGKHC 445 EGF: domain 9 of 16, from 453 to 484: score 31.3, E = 2.2e-05 *->CspnngpCsngGtCvdtp..ytCeCppGdyfllytGkrC<-* Cs+ pC ngGtC + +++y+C Cp +tG++C sh02303 453 CSSG--PCRNGGTCKEAGgeYHCSCPYR-----FTGRHC 484 EGF: domain 10 of 16, from 492 to 523: score 42.0, E = 1.3e-08 *->CspnngpCsngGtCvdtp..ytCeCppGdyfllytGkrC<-* C++ pC+ngGtC ++y+C+CppG ++G++C sh02303 492 CASG--PCHNGGTCFHYIgkYKCDCPPG-----FSGRHC 523 EGF: domain 11 of 16, from 530 to 561: score 32.3, E = 1.1e-05 *->CspnngpCsngGtCvdtp..ytCeCppGdyfllytGkrC<-* C pC ngGtC d +++++C+C+ G y G+rC sh02303 530 CFRS--PCVNGGTCEDRDtdFFCHCQAG-----YMGRRC 561 Sushi: domain 1 of 1, from 567 to 620: score 30.5, E = 3.8e-05 *->Cp.pPdieNGrvsssgtyeypvGdtvtytCneGYrlvG.sssitCte C++p ++ +++ + + G ++ y C+ GY+l+ +s+ +C++ sh02303 567 CGpPEEVKHATLRFN-GTRL--GAVALYACDRGYSLSApSRIRVCQP 610 dggGgWsppllGelPkC<-* G Ws p P+C sh02303 611 H--GVWSEP-----PQC 620 EGF: domain 12 of 16, from 626 to 657: score 37.7, E = 2.6e-07 *->CspnngpCsngGtCvdtp..ytCeCppGdyfllytGkrC<-* C ++ pC++gG C+d +y C C G y G +C sh02303 626 CRSQ--PCLHGGSCQDRVagYLCLCSTG-----YEGAHC 657 EGF: domain 13 of 16, from 664 to 695: score 35.9, E = 9.4e-07 *->CspnngpCsngGtCvdtp..ytCeCppGdyfllytGkrC<-* C + pC ngG C+++p+ y C+Cp G + G +C sh02303 664 CRAH--PCRNGGSCRNLPgaYVCRCPAG-----FVGVHC 695 EGF: domain 14 of 16, from 702 to 733: score 31.8, E = 1.6e-05 *->CspnngpCsngGtCvdtp..ytCeCppGdyfllytGkrC<-* C++ pC++gG+C ++++ y C Cp+ + G +C sh02303 702 CDSS--PCQHGGRCESGGgaYLCVCPES-----FFGYHC 733 EGF: domain 15 of 16, from 740 to 771: score 29.4, E = 8.5e-05 *->CspnngpCsngGtCvdtp..ytCeCppGdyfllytGkrC<-* C + pC ++G C+ + ++++C C++G ytG++C sh02303 740 CFSS--PCGGRGYCLASNgsHSCTCKVG-----YTGEDC 771 fn3: domain 1 of 3, from 775 to 856: score 40.4, E = 3.9e-08 *->PsaPtnltvtdvtstsltlsWsppt...gngpitgYevtyRqpkngg + +Pt l+ + v ++ +++sW+pp ++ + ++gY vty ++ +g sh02303 775 LFPPTALKMERVEESGVSISWNPPNgpaARQMLDGYAVTY-VSS-DG 819 e.wneltvpgtttsytltgLkPgteYevrVqAvnggGGpeS<-* + ++ v++t +s++l+ L +g+ Y+++V +v+++ S sh02303 820 SyRRTDFVDRTRSSHQLQALAAGRAYNISVFSVKRN----S 856 fn3: domain 2 of 3, from 874 to 957: score 44.7, E = 2e-09 *->PsaPtnltvtdvtstsltlsWsppt.gngpitgYevtyRqpknggew P +++++ vt+vt+++++++W + +++++g +v+ R + + sh02303 874 PRPVEGFEVTNVTASTISVQWALHRiRHATVSGVRVSIR-HPEALRD 919 neltvpgtttsytltgLkPgteYevrVqAvnggG..GpeS<-* + +v+++ +++t++ L Pg +Y++++++++ G +G+e sh02303 920 QATDVDRSVDRFTFRALLPGKRYTIQLTTLS--GlrGEEH 957 fn3: domain 3 of 3, from 973 to 1055: score 47.6, E = 2.8e-10 *->PsaPtnltvtdvtstsltlsWspptgngpitgYevtyRqpknggewn P +P nlt+ vt+ts+++ W++pt+++ ++ Y + + ++ + + sh02303 973 PLPPANLTAARVTATSAHVVWDAPTPGSLLEAYVINV-TTSQST--K 1016 eltvpgttt.sytltgLkPgteYevrVqAvnggG.GpeS<-* ++ vp+ + syt+++L Pg++Y+++V+Av Gp sh02303 1017 SRYVPNGKLaSYTVRDLLPGRRYQLSVIAVQSTElGPQH 1055 EGF: domain 16 of 16, from 1180 to 1211: score 43.1, E = 6.4e-09 *->CspnngpCsngGtCvdtp..ytCeCppGdyfllytGkrC<-* Cs+n pC+ngGtCv++ + ++C+C pG ++G+rC sh02303 1180 CSEN--PCQNGGTCVPGAdaHSCDCGPG-----FKGRRC 1211 //