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/20090806/iprscan-20090806-14122718/chunk_1/iprscan-20090806-14122718.nocrc - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query sequence: ha01943s1 Accession: [none] Description: [none] Scores for sequence family classification (score includes all domains): Model Description Score E-value N -------- ----------- ----- ------- --- PF00035.15.ls Double-stranded RNA binding motif 110.1 6.1e-30 2 PF00035.15.fs Double-stranded RNA binding motif 106.1 3.6e-29 2 PF04408.13.ls Helicase associated domain (HA2) 91.7 2e-24 1 PF04408.13.fs Helicase associated domain (HA2) 90.0 6.6e-24 1 PF07717.6.fs Domain of unknown function (DUF1605) 84.7 7.7e-24 1 PF07717.6.ls Domain of unknown function (DUF1605) 86.5 7.7e-23 1 PF00271.21.fs Helicase conserved C-terminal domain 65.9 1.3e-18 1 PF00271.21.ls Helicase conserved C-terminal domain 67.9 3.1e-17 1 PF00270.19.ls DEAD/DEAH box helicase 9.3 8.5e-07 1 Parsed for domains: Model Domain seq-f seq-t hmm-f hmm-t score E-value -------- ------- ----- ----- ----- ----- ----- ------- PF00035.15.fs 1/2 5 70 .. 1 67 [] 51.0 1.2e-13 PF00035.15.ls 1/2 5 70 .. 1 67 [] 52.9 9.5e-13 PF00035.15.fs 2/2 182 251 .. 1 67 [] 55.2 8.3e-15 PF00035.15.ls 2/2 182 251 .. 1 67 [] 57.1 5.3e-14 PF00270.19.ls 1/1 392 552 .. 1 213 [] 9.3 8.5e-07 PF00271.21.fs 1/1 676 770 .. 1 76 [] 65.9 1.3e-18 PF00271.21.ls 1/1 676 770 .. 1 76 [] 67.9 3.1e-17 PF04408.13.ls 1/1 832 920 .. 1 124 [] 91.7 2e-24 PF04408.13.fs 1/1 832 920 .. 1 124 [] 90.0 6.6e-24 PF07717.6.fs 1/1 959 1076 .. 1 139 [] 84.7 7.7e-24 PF07717.6.ls 1/1 959 1076 .. 1 139 [] 86.5 7.7e-23 Alignments of top-scoring domains: PF00035.15.fs: domain 1 of 2, from 5 to 70: score 51.0, E = 1.2e-13 *->pkslLqEllcqkkgkkppyeyiee.gpphnpptFtvtvtvngkeyg. k+ L+ +c k++++p+ye ++ ++ +n+++F+++v v+g y + ha01943s1 5 VKNFLYA-WCGKRKMTPSYE--IRaVGNKNRQKFMCEVQVEGYNYTg 48 tGkgssKKeAkqlAAekALrkL<-* +G +++KK+A+ +AA++ ++L ha01943s1 49 MGNSTNKKDAQSNAARDFVNYL 70 PF00035.15.ls: domain 1 of 2, from 5 to 70: score 52.9, E = 9.5e-13 *->pkslLqEllcqkkgkkppyeyiee.gpphnpptFtvtvtvngkeyg. k+ L+ +c k++++p+ye ++ ++ +n+++F+++v v+g y + ha01943s1 5 VKNFLYA-WCGKRKMTPSYE--IRaVGNKNRQKFMCEVQVEGYNYTg 48 tGkgssKKeAkqlAAekALrkL<-* +G +++KK+A+ +AA++ ++L ha01943s1 49 MGNSTNKKDAQSNAARDFVNYL 70 PF00035.15.fs: domain 2 of 2, from 182 to 251: score 55.2, E = 8.3e-15 *->pkslLqEllcqkkgkkppyeyiee.gpphnpptFtvtvtv.....ng +k +L++ + qk++ + +y+y+ + gp+hn ++F++++t+ ++ + ha01943s1 182 AKARLNQ-YFQKEKIQGEYKYT-QvGPDHN-RSFIAEMTIyikqlGR 225 keygtGkgssKKeAkqlAAekALrkL<-* +++++ gs+KK+A q++A r+L ha01943s1 226 RIFAREHGSNKKLAAQSCALSLVRQL 251 PF00035.15.ls: domain 2 of 2, from 182 to 251: score 57.1, E = 5.3e-14 *->pkslLqEllcqkkgkkppyeyiee.gpphnpptFtvtvtv.....ng +k +L++ + qk++ + +y+y+ + gp+hn ++F++++t+ ++ + ha01943s1 182 AKARLNQ-YFQKEKIQGEYKYT-QvGPDHN-RSFIAEMTIyikqlGR 225 keygtGkgssKKeAkqlAAekALrkL<-* +++++ gs+KK+A q++A r+L ha01943s1 226 RIFAREHGSNKKLAAQSCALSLVRQL 251 PF00270.19.ls: domain 1 of 1, from 392 to 552: score 9.3, E = 8.5e-07 RF xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx xxxxx *->tpiQaeaipaileGrDvlvqApTGSGKTlafllPilqallk.pennq + +e ++ai ++ v+++++TG GKT il+ + +++ ha01943s1 392 KKFESEILEAISQNSVVIIRGATGCGKTTQVPQFILDDFIQnD---- 434 RF xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx xxxxxxxxxxxxxxxxxx eskplkkkkdgpqalvlaPTreLaeQiyeel.kklgkgiqpdleellglk + + ++v P r a ++e++ ++g+ g ha01943s1 435 -------RAAECNIVVTQPRRISAVSVAERVaFERGEE--------PGKS 469 RF xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx vallyGGdsikeqleklDYrlkkglkgkpdIlvgTPgrLldlllkgrkre ++ ++ si ++ + + I ++T g Ll l e ha01943s1 470 CGYSVRFESILPR---------PH----ASIMFCTVGVLLRKL------E 500 RF xxxxxxxxxxxxxxxxxxxxxxx xxxxxxxxxxxxxxxxxxxxxxxxxx gasldlknlkllVlDEAhrlldm.kGfgedleeilrrlprpklrrlsqdl + + ++ +++DE+h+ d + f ++ + + + p+ ha01943s1 501 AG---IRGISHVIVDEIHE-RDInTDFLLVVLRDVVQAY-PE-------- 537 RF xxxxxxxxxxxxxxxxxxx pnrqtllfSATlprnvedl<-* ++++l+SAT+ + ++ ha01943s1 538 --VRIVLMSATI--DTSMF 552 PF00271.21.fs: domain 1 of 1, from 676 to 770: score 65.9, E = 1.3e-18 *->ll.epgikvarlhGglsqeeReeilekFrngkskvLvaTdvagrGiD +++ + +++++lh++++ ee++++++ g +kv+++T++a+++i+ ha01943s1 676 HFgSHRYQILPLHSQIPREEQRKVFDPVPVGVTKVILSTNIAETSIT 722 ipdvnlVInydl..................pwnpesyiQRiGRaGRaG<- i dv +VI+ ++ + + +++ ++ + + + +++ QR GRaGR+ ha01943s1 723 INDVVYVIDSCKqkvklftahnnmtnyatvWASKTNLEQRKGRAGRVR 770 * ha01943s1 - - PF00271.21.ls: domain 1 of 1, from 676 to 770: score 67.9, E = 3.1e-17 *->ll.epgikvarlhGglsqeeReeilekFrngkskvLvaTdvagrGiD +++ + +++++lh++++ ee++++++ g +kv+++T++a+++i+ ha01943s1 676 HFgSHRYQILPLHSQIPREEQRKVFDPVPVGVTKVILSTNIAETSIT 722 ipdvnlVInydl..................pwnpesyiQRiGRaGRaG<- i dv +VI+ ++ + + +++ ++ + + + +++ QR GRaGR+ ha01943s1 723 INDVVYVIDSCKqkvklftahnnmtnyatvWASKTNLEQRKGRAGRVR 770 * ha01943s1 - - PF04408.13.ls: domain 1 of 1, from 832 to 920: score 91.7, E = 2e-24 *->aAlelLyeLgAlrDsdgeLTsplGrlmarlPldPrLgkmLvllaalf +A+ +L+eL+Al D+++eLT plGr++a+lP++Pr+gkm+ +++++f ha01943s1 832 EAEHTLRELDAL-DANDELT-PLGRILAKLPIEPRFGKMM-IMGCIF 875 gcldealiiaaiLsvrgepfvntGvDRdaqrlpldksekakrWNiSrdla d +++iaa+ +epf+n + k + ha01943s1 876 YVGDAICTIAAATCF-PEPFIN--------------EGKRL------GYI 904 rakfegrsllksarsrlts.lsDhlall<-* ++ f ++++ sDh all ha01943s1 905 HRNF------------AGNrFSDHVALL 920 PF04408.13.fs: domain 1 of 1, from 832 to 920: score 90.0, E = 6.6e-24 *->aAlelLyeLgAlrDsdgeLTsplGrlmarlPldPrLgkmLvllaalf +A+ +L+eL+Al D+++eLT plGr++a+lP++Pr+gkm+ +++++f ha01943s1 832 EAEHTLRELDAL-DANDELT-PLGRILAKLPIEPRFGKMM-IMGCIF 875 gcldealiiaaiLsvrgepfvntGvDRdaqrlpldksekakrWNiSrdla d +++iaa+ +epf+n + k + ha01943s1 876 YVGDAICTIAAATCF-PEPFIN--------------EGKRL------GYI 904 rakfegrsllksarsrlts.lsDhlall<-* ++ f ++++ sDh all ha01943s1 905 HRNF------------AGNrFSDHVALL 920 PF07717.6.fs: domain 1 of 1, from 959 to 1076: score 84.7, E = 7.7e-24 *->sQLlrilkrlgli..........lnessgdiellrkallaGlypnvA QL++il + g++++ ++ ++ + +++ +++ +l+ G ypnv+ ha01943s1 959 VQLKEILINSGFPedclltqvftNTGPDNNLDVVISLLAFGVYPNVC 1005 rreedrggkgsYktlrsvrlpvrskrsgvkdgee.kgkfkt.ndgnVfiH + ++k+k++t++++n++iH ha01943s1 1006 YH-------------------------------KeKRKILTtEGRNALIH 1024 PsSvLfn....tkkkppkwivytelvetskkgdgskvyardvtaispewl sSv+ +++ +k p++++v++e+++t ++ + a+ +t ++p +l ha01943s1 1025 KSSVNCPfssqDMKYPSPFFVFGEKIRT-----RA-ISAKGMTLVTPLQL 1068 lllapgki<-* ll+a+ k+ ha01943s1 1069 LLFASKKV 1076 PF07717.6.ls: domain 1 of 1, from 959 to 1076: score 86.5, E = 7.7e-23 *->sQLlrilkrlgli..........lnessgdiellrkallaGlypnvA QL++il + g++++ ++ ++ + +++ +++ +l+ G ypnv+ ha01943s1 959 VQLKEILINSGFPedclltqvftNTGPDNNLDVVISLLAFGVYPNVC 1005 rreedrggkgsYktlrsvrlpvrskrsgvkdgee.kgkfkt.ndgnVfiH + ++k+k++t++++n++iH ha01943s1 1006 YH-------------------------------KeKRKILTtEGRNALIH 1024 PsSvLfn....tkkkppkwivytelvetskkgdgskvyardvtaispewl sSv+ +++ +k p++++v++e+++t ++ + a+ +t ++p +l ha01943s1 1025 KSSVNCPfssqDMKYPSPFFVFGEKIRT-----RA-ISAKGMTLVTPLQL 1068 lllapgki<-* ll+a+ k+ ha01943s1 1069 LLFASKKV 1076 //