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/20080808/iprscan-20080808-08480570/chunk_1/iprscan-20080808-08480570.nocrc - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query sequence: ef03678 Accession: [none] Description: [none] Scores for sequence family classification (score includes all domains): Model Description Score E-value N -------- ----------- ----- ------- --- PF00476.11.fs DNA polymerase family A 242.0 1.2e-69 4 PF00476.11.ls DNA polymerase family A 183.9 3.5e-52 1 PF00271.21.fs Helicase conserved C-terminal domain 56.8 5.8e-16 1 PF00271.21.ls Helicase conserved C-terminal domain 58.8 1.7e-14 1 Parsed for domains: Model Domain seq-f seq-t hmm-f hmm-t score E-value -------- ------- ----- ----- ----- ----- ----- ------- PF00271.21.fs 1/1 30 109 .. 1 76 [] 56.8 5.8e-16 PF00271.21.ls 1/1 30 109 .. 1 76 [] 58.8 1.7e-14 PF00476.11.ls 1/1 1718 2209 .. 1 480 [] 183.9 3.5e-52 PF00476.11.fs 3/4 1939 2119 .. 158 407 .. 176.9 4.8e-50 PF00476.11.fs 4/4 2158 2209 .. 419 480 .] 47.3 1.5e-12 Alignments of top-scoring domains: PF00271.21.fs: domain 1 of 1, from 30 to 109: score 56.8, E = 5.8e-16 *->ll.epgikvarlhGglsqeeReeilekFrngkskvLvaTdvagrGiD + + p + va +h+gl+ eeR+ i+ +Fr g ++vL aT+ ++ G++ ef03678 30 QKtVP-WGVAFHHAGLTFEERDIIEGAFRQGLIRVLAATSTLSSGVN 75 ipdvnlVInydl....pwnpesyiQRiGRaGRaG<-* +p+ +++I + +++p ++ +y Q++GRaGR G ef03678 76 LPARRVIIRTPIfggrPLDILTYKQMVGRAGRKG 109 PF00271.21.ls: domain 1 of 1, from 30 to 109: score 58.8, E = 1.7e-14 *->ll.epgikvarlhGglsqeeReeilekFrngkskvLvaTdvagrGiD + + p + va +h+gl+ eeR+ i+ +Fr g ++vL aT+ ++ G++ ef03678 30 QKtVP-WGVAFHHAGLTFEERDIIEGAFRQGLIRVLAATSTLSSGVN 75 ipdvnlVInydl....pwnpesyiQRiGRaGRaG<-* +p+ +++I + +++p ++ +y Q++GRaGR G ef03678 76 LPARRVIIRTPIfggrPLDILTYKQMVGRAGRKG 109 PF00476.11.ls: domain 1 of 1, from 1718 to 2209: score 183.9, E = 3.5e-52 *->vdverleelseelgaqqladlekkiyelaGeeFNlgSpkqlgtvLFe ++ ++e++ + a l + e ++y laG++F ++S + + +vLF ef03678 1718 FSTAECESQKHIMQAK-LDAIETQAYQLAGHSFSFTSSDDIAEVLFL 1763 elGlpk........lkkTkktGar..............stnadvLesLre el lp++++ +++++kkT ++ r+ +++++ + +++ st+ dvL +L ef03678 1764 ELKLPPnremknqgSKKTLGSTRRgidngrklrlgrqfSTSKDVLNKLKA 1813 ddaheivkiiLeyeylkrqlsklksTyvdkLplmi..dpadG..riHTsf h+++ iLe r ++ +v +L+ ++ +p G +ri + + ef03678 1814 --LHPLPGLILEW----RRITNAITKVVFPLQREKclNPFLGmeRIYP-V 1856 nqagTaTGRLSstePNLQnIPirnN..TPTL................... q TaTGR + tePN Qn P+ + PTL +++++++ +++ + ++ ef03678 1857 SQSHTATGRITFTEPNIQNVPRDFEikMPTLvgesppsqavgkgllpmgr 1906 ......seyGreI...................RkaFiAeeGddyvlvaaD ++ ++++ ++ +++ + +++ +++ + + + R aF++ +G + + aaD ef03678 1907 gkykkgFSVNPRCqaqmeeraadrgmpfsismRHAFVPFPG--GSILAAD 1954 YSQiELRilAhLsgdenlieaFreGaDiHtltAadifGvdleeKTAqVtg YSQ+ELRilAhLs d+ li++ ++GaD ++ Aa+ ++ e+ V ef03678 1955 YSQLELRILAHLSHDRRLIQVLNTGADVFRSIAAEWKMIEPES----VGD 2000 eqRraAKtiNFGvvYGaSAkgLsqqLgrfnisIsreEAkefiekYFarfP + R +AK i +G++YG++Ak L++q g I + +A+ +i+ + r+ ef03678 2001 DLRQQAKQICYGIIYGMGAKSLGEQMG-----IKENDAACYIDSFKSRYT 2045 GLRWYRLDEGEWLVRELNLPVDRTEGGWiLqDLVkayrektvktlveKWE G + +++++tvk ef03678 2046 G--------------------------------INQFMTETVK------- 2056 VVAEeakkgGYvetLfgRRRSIAesylPdidSrgCgInrsvreaAeRaNe k++G v+t +gRRR ylP+i+ n + + AeR+ ef03678 2057 ----NCKRDGFVQTILGRRR-----YLPGIKDN----NPYRKAHAERQ-- 2091 FltSAlNtpIQGsAADilKlamIkldeaL............reegLraGW A+Nt +QGsAADi K+a + + ++L++ +++ +++++re L++ ef03678 2092 ----AINTIVQGSAADIVKIATVNIQKQLetfhstfkshghREGMLQS-- 2135 D..................GDFRmllqVHDEivlevpkeekyaeavakli D+++ +++++ ++ + +G F ++lq HDE+++ev++e+ + +va + ef03678 2136 DrtglsrkrklqgmfcpirGGF-FILQLHDELLYEVAEED--VVQVAQIV 2182 kelMenamelwnFYKFLfdVpLlvEvgvGrnWfsa<-* k+ Me a+ l +V L+v v++G +W+++ ef03678 2183 KNEMESAVKL--------SVKLKVKVKIGASWGEL 2209 PF00476.11.fs: domain 3 of 4, from 1939 to 2119: score 176.9, E = 4.8e-50 *->RkaFiAeeGddyvlvaaDYSQiELRilAhLsgdenlieaFreGaDiH R aF++ +G + + aaDYSQ+ELRilAhLs d+ li++ ++GaD ef03678 1939 RHAFVPFPG--GSILAADYSQLELRILAHLSHDRRLIQVLNTGADVF 1983 tltAadifGvdleeKTAqVtgeqRraAKtiNFGvvYGaSAkgLsqqLgrf ++ Aa+ ++ e+ V + R +AK i +G++YG++Ak L++q g ef03678 1984 RSIAAEWKMIEPES----VGDDLRQQAKQICYGIIYGMGAKSLGEQMG-- 2027 nisIsreEAkefiekYFarfPGLRWYRLDEGEWLVRELNLPVDRTEGGWi I + +A+ +i+ + r+ G ef03678 2028 ---IKENDAACYIDSFKSRYTG---------------------------- 2046 LqDLVkayrektvktlveKWEVVAEeakkgGYvetLfgRRRSIAesylPd + +++++tvk k++G v+t +gRRR ylP+ ef03678 2047 ----INQFMTETVK-----------NCKRDGFVQTILGRRR-----YLPG 2076 idSrgCgInrsvreaAeRaNeFltSAlNtpIQGsAADilKlamIkldeaL i+ n + + AeR+ A+Nt +QGsAADi K+a + + ++L ef03678 2077 IKDN----NPYRKAHAERQ------AINTIVQGSAADIVKIATVNIQKQL 2116 ree<-* +++ ef03678 2117 ETF 2119 PF00476.11.fs: domain 4 of 4, from 2158 to 2209: score 47.3, E = 1.5e-12 *->mllqVHDEivlevpkeekyaeavaklikelMenamelwnFYKFLfdV ++lq HDE+++ev++e+ + +va +k+ Me a+ l +V ef03678 2158 FILQLHDELLYEVAEED--VVQVAQIVKNEMESAVKL--------SV 2194 pLlvEvgvGrnWfsa<-* L+v v++G +W+++ ef03678 2195 KLKVKVKIGASWGEL 2209 //