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/20080811/iprscan-20080811-13371038/chunk_1/iprscan-20080811-13371038.nocrc - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query sequence: fk13737 Accession: [none] Description: [none] Scores for sequence family classification (score includes all domains): Model Description Score E-value N -------- ----------- ----- ------- --- PF00136.12.fs DNA polymerase family B 559.0 1.9e-166 1 PF00136.12.ls DNA polymerase family B 508.5 6.8e-150 1 PF03104.9.ls DNA polymerase family B, exonuclease do 445.9 5e-131 1 PF03104.9.fs DNA polymerase family B, exonuclease do 444.1 1.7e-130 1 Parsed for domains: Model Domain seq-f seq-t hmm-f hmm-t score E-value -------- ------- ----- ----- ----- ----- ----- ------- PF03104.9.fs 1/1 132 479 .. 1 435 [] 444.1 1.7e-130 PF03104.9.ls 1/1 132 479 .. 1 435 [] 445.9 5e-131 PF00136.12.fs 1/1 552 908 .. 1 436 [. 559.0 1.9e-166 PF00136.12.ls 1/1 552 1009 .. 1 537 [] 508.5 6.8e-150 Alignments of top-scoring domains: PF03104.9.fs: domain 1 of 1, from 132 to 479: score 444.1, E = 1.7e-130 *->ktddggsvcvnvfgfkpYFYvaapegseaeevekeinllkelkdler +td+g svc++++gf pYFY++ap+g+ +e+ +++ +l+ ++++++ fk13737 132 VTDEGFSVCCHIHGFAPYFYTPAPPGFGPEHMGDLQRELNLAISRDS 178 esllkkygilifkieivekedldldnhllgkkkslygYdgppkspylKvs +++++ g+ ++ +e +++ +s++gY+g++ sp+l+++ fk13737 179 RGGRELTGPAVLAVELCSR-------------ESMFGYHGHGPSPFLRIT 215 fsnpnplrkirknLeegve.Nn.qfdangykvyDLdIvDiREadvdyleR ++ p+ ++ +r+ Le+g++ ++ ++ + + y Ea+vd+ +R fk13737 216 VALPRLVAPARRLLEQGIRvAGlGT--PSFAPY--------EANVDFEIR 255 fliDndIvgfgWykvkkgfdvnaSWCkKlgrvyirrvegrvsncdiefdc f++D dIvg++W+++++g +y r +++ c++e d+ fk13737 256 FMVDTDIVGCNWLELPAG-------------KYALRLKEKATQCQLEADV 292 svsdlislpeekiwpdirPplrvlSFDIEctslkgkFPdAenekDpIiqI +sd++s+p+e+ w++i +plrvlSFDIEc+++kg FP e+e Dp+iqI fk13737 293 LWSDVVSHPPEGPWQRI-APLRVLSFDIECAGRKGIFP--EPERDPVIQI 339 ScvlygqGfLitnrEiesdpierfvftlgtcasiesnplelkklilpklv +++ ++G e++p+ r+ +tl++ca+i fk13737 340 CSLGLRWG--------EPEPFLRLALTLRPCAPIL--------------- 366 ekLnngvevyefNEpsEkeLLqaFfefirqydPDvitGYNidnFDlpYil g +v ++ E++LLqa+ +fir +dPDvitGYNi+nFDlpY+ fk13737 367 -----GAKVQSY--EKEEDLLQAWSTFIRIMDPDVITGYNIQNFDLPYLI 409 nRakilglkltpeygvrkskigrlkrggfpskqggtssnfqaavpvkdig Ra+ l++ +p++g+ + +++++++f+skq+g+ fk13737 410 SRAQTLKVQTFPFLGRVAGLCSNIRDSSFQSKQTGR-------------- 445 kgffgsrekvkisGrihlDlyqvikrksylklpSYkLnaV<-* ++++ v++ Gr+++D++qv+ r++ kl+SY+LnaV fk13737 446 ----RDTKVVSMVGRVQMDMLQVLLREY--KLRSYTLNAV 479 PF03104.9.ls: domain 1 of 1, from 132 to 479: score 445.9, E = 5e-131 *->ktddggsvcvnvfgfkpYFYvaapegseaeevekeinllkelkdler +td+g svc++++gf pYFY++ap+g+ +e+ +++ +l+ ++++++ fk13737 132 VTDEGFSVCCHIHGFAPYFYTPAPPGFGPEHMGDLQRELNLAISRDS 178 esllkkygilifkieivekedldldnhllgkkkslygYdgppkspylKvs +++++ g+ ++ +e +++ +s++gY+g++ sp+l+++ fk13737 179 RGGRELTGPAVLAVELCSR-------------ESMFGYHGHGPSPFLRIT 215 fsnpnplrkirknLeegve.Nn.qfdangykvyDLdIvDiREadvdyleR ++ p+ ++ +r+ Le+g++ ++ ++ + + y Ea+vd+ +R fk13737 216 VALPRLVAPARRLLEQGIRvAGlGT--PSFAPY--------EANVDFEIR 255 fliDndIvgfgWykvkkgfdvnaSWCkKlgrvyirrvegrvsncdiefdc f++D dIvg++W+++++g +y r +++ c++e d+ fk13737 256 FMVDTDIVGCNWLELPAG-------------KYALRLKEKATQCQLEADV 292 svsdlislpeekiwpdirPplrvlSFDIEctslkgkFPdAenekDpIiqI +sd++s+p+e+ w++i +plrvlSFDIEc+++kg FP e+e Dp+iqI fk13737 293 LWSDVVSHPPEGPWQRI-APLRVLSFDIECAGRKGIFP--EPERDPVIQI 339 ScvlygqGfLitnrEiesdpierfvftlgtcasiesnplelkklilpklv +++ ++G e++p+ r+ +tl++ca+i fk13737 340 CSLGLRWG--------EPEPFLRLALTLRPCAPIL--------------- 366 ekLnngvevyefNEpsEkeLLqaFfefirqydPDvitGYNidnFDlpYil g +v ++ E++LLqa+ +fir +dPDvitGYNi+nFDlpY+ fk13737 367 -----GAKVQSY--EKEEDLLQAWSTFIRIMDPDVITGYNIQNFDLPYLI 409 nRakilglkltpeygvrkskigrlkrggfpskqggtssnfqaavpvkdig Ra+ l++ +p++g+ + +++++++f+skq+g+ fk13737 410 SRAQTLKVQTFPFLGRVAGLCSNIRDSSFQSKQTGR-------------- 445 kgffgsrekvkisGrihlDlyqvikrksylklpSYkLnaV<-* ++++ v++ Gr+++D++qv+ r++ kl+SY+LnaV fk13737 446 ----RDTKVVSMVGRVQMDMLQVLLREY--KLRSYTLNAV 479 PF00136.12.fs: domain 1 of 1, from 552 to 908: score 559.0, E = 1.9e-166 *->GqqirvfslLLreakernfilPdkkekraggkkegYqGAtVlePkkG Gqq++v s+LLr a+ ++ ++P+ k+ +e Y GAtV+eP+kG fk13737 552 GQQVKVVSQLLRQAMHEGLLMPVVKSE----GGEDYTGATVIEPLKG 594 fYdnpvlvLDFaSLYPSIIqahNLCysTlvrddeeapgleaereeppeld +Yd p+++LDF SLYPSI++ahNLCy+Tl+r+ + ++++ fk13737 595 YYDVPIATLDFSSLYPSIMMAHNLCYTTLLRP---GTAQKLG-------- 633 vltcefvvgggvserfvkskgvregiLpeLLedwladkRkevKklmkesk lt + ++++++++ fvk ++vr+g+Lp +Le +l+ +Rk++K+++++++ fk13737 634 -LTEDQFIRTPTGDEFVK-TSVRKGLLPQILENLLS-ARKRAKAELAKET 680 dpeerlrllLDkqQlAlKvtaNSvYGftGvangrLPclpiAasVTaiGRe dp r++LD++QlAlKv+aNSvYGftG+++g+LPcl+i++sVT +GR+ fk13737 681 DPLR--RQVLDGRQLALKVSANSVYGFTGAQVGKLPCLEISQSVTGFGRQ 728 mlekTkdyveekyaspefln.elgeantdyfkViYGDTDSvFikfggkda m+ekTk++ve+ky + n++ +kV+YGDTDSv+++fg++ + fk13737 729 MIEKTKQLVESKY---TVENgYSTS-----AKVVYGDTDSVMCRFGVSSV 770 svkarlkleedmeevvklgeelakhvssklFykPikLEfEkvykpllLit e++ lg+e+a++vs F++Pi+LEfEkvy+p+lLi+ fk13737 771 ------------AEAMALGREAADWVS-GHFPSPIRLEFEKVYFPYLLIS 807 lKKrYaGlkydgdgdvndvgkdkllmKGvdlVRRDncefvkevirkvldl KKrYaGl++++++d + d++++KG+++VRRDnc++v + + + l++ fk13737 808 -KKRYAGLLFSSRPDA---H-DRMDCKGLEAVRRDNCPLVANLVTASLRR 852 ilkdkdveeavaaelsaeviieelknrglPeGflkvidvLnealgellke +l+d+d+e+a +a+++ +vi+++l+n + fk13737 853 LLIDRDPEGA-VAHAQ-DVISDLLCN---------------------R-- 877 nkvkdleklvitkeLsrkppsaYknknlpeirpHvaValr<-* + d+++lvitkeL+ ++ s+Y+ k++ Hv++a+r fk13737 878 --I-DISQLVITKELT-RAASDYAGKQA-----HVELAER 908 PF00136.12.ls: domain 1 of 1, from 552 to 1009: score 508.5, E = 6.8e-150 *->GqqirvfslLLreakernfilPdkkekraggkkegYqGAtVlePkkG Gqq++v s+LLr a+ ++ ++P+ k+ +e Y GAtV+eP+kG fk13737 552 GQQVKVVSQLLRQAMHEGLLMPVVKSE----GGEDYTGATVIEPLKG 594 fYdnpvlvLDFaSLYPSIIqahNLCysTlvrddeeapgleaereeppeld +Yd p+++LDF SLYPSI++ahNLCy+Tl+r+ + ++++ fk13737 595 YYDVPIATLDFSSLYPSIMMAHNLCYTTLLRP---GTAQKLG-------- 633 vltcefvvgggvserfvkskgvregiLpeLLedwladkRkevKklmkesk lt + ++++++++ fvk ++vr+g+Lp +Le +l+ +Rk++K+++++++ fk13737 634 -LTEDQFIRTPTGDEFVK-TSVRKGLLPQILENLLS-ARKRAKAELAKET 680 dpeerlrllLDkqQlAlKvtaNSvYGftGvangrLPclpiAasVTaiGRe dp r++LD++QlAlKv+aNSvYGftG+++g+LPcl+i++sVT +GR+ fk13737 681 DPLR--RQVLDGRQLALKVSANSVYGFTGAQVGKLPCLEISQSVTGFGRQ 728 mlekTkdyveekyaspefln.elgeantdyfkViYGDTDSvFikfggkda m+ekTk++ve+ky + n++ +kV+YGDTDSv+++fg++ + fk13737 729 MIEKTKQLVESKY---TVENgYSTS-----AKVVYGDTDSVMCRFGVSSV 770 svkarlkleedmeevvklgeelakhvssklFykPikLEfEkvykpllLit e++ lg+e+a++vs F++Pi+LEfEkvy+p+lLi+ fk13737 771 ------------AEAMALGREAADWVS-GHFPSPIRLEFEKVYFPYLLIS 807 lKKrYaGlkydgdgdvndvgkdkllmKGvdlVRRDncefvkevirkvldl KKrYaGl++++++d + d++++KG+++VRRDnc++v + + + l++ fk13737 808 -KKRYAGLLFSSRPDA---H-DRMDCKGLEAVRRDNCPLVANLVTASLRR 852 ilkdkdveeavaaelsaeviieelknrglPeGflkvidvLnealgellke +l+d+d+e+a +a+++ +vi+++l+n + fk13737 853 LLIDRDPEGA-VAHAQ-DVISDLLCN---------------------R-- 877 nkvkdleklvitkeLsrkppsaYknknlpeirpHvaValrlkargreelP + d+++lvitkeL+ ++ s+Y+ k++ Hv++a+r + ++ fk13737 878 --I-DISQLVITKELT-RAASDYAGKQA-----HVELAERTRCSCWSTAC 918 svGDRipYVivkgt...........................iakgakpye ++ +t+ +++ ++++ +++++ + ++ +++ +++ + fk13737 919 --------PLTRSTtwssswpspscassspswaravprlcyCGGTTRAAR 960 lAedpeyvlennnskvlpiDadyYlenqllppverifeaifggvLlG.HT ++ +a + ++++ + a +++T fk13737 961 RCSRAR------------WAASWPSP----NAATAALAA--AQ---CsAT 989 R.rtdvvstekllglfipkr<-* R+++++++ + l+ +++ fk13737 990 RePCVSSASPGSLSCIRRRY 1009 //