-------------------------------------------------------------------------------- Domain name : PF01537.9_Herpes_glycop_D Domain size : 56 Domain Description : Herpesvirus glycoprotein D Domain gathering score : 25.0000 Domain trusted cutoff : 49.3000 Domain architecture : non-TM/SP [1 372], TM [373 410] -------------------------------------------------------------------------------- Example 1 gi|125558650|gb|EAZ04186.1| hypothetical protein OsI_025418 [Oryza sativa (indica cultivar-group)] 682 (length) 252 324 .. (wrt seq) 326 410 .] (wrt HMM) No.of residues in non-TM/SP region : 47 [13%(over non-TM/SP length)] Scores for sequence family classification: Model Description Score E-value N -------- ----------- ----- ------- --- Pkinase Protein kinase domain 198.0 2.5e-56 1 DUF26 Domain of unknown function DUF26 142.8 1.7e-41 2 Pkinase_Tyr Protein tyrosine kinase 134.4 2.4e-39 2 Herpes_glycop_D Herpesvirus glycoprotein D 27.2 3.5e-08 1 HrpE HrpE protein 6.9 0.073 1 Parsed for domains: Model Domain seq-f seq-t hmm-f hmm-t score E-value -------- ------- ----- ----- ----- ----- ----- ------- Pkinase 1/1 350 551 .. 1 210 [. 198.0 2.5e-56 DUF26 1/2 71 124 .. 1 55 [] 70.7 3.4e-20 DUF26 2/2 188 242 .. 1 55 [] 72.1 1.4e-20 Pkinase_Tyr 1/2 350 549 .. 1 209 [. 133.6 4e-39 Pkinase_Tyr 2/2 602 622 .. 250 270 .] 0.8 4.5 Herpes_glycop_D 1/1 252 324 .. 326 409 .] 27.2 3.5e-08 HrpE 1/1 621 631 .. 1 11 [. 6.9 0.073 Alignments of top-scoring domains: Pkinase: domain 1 of 1, from 350 to 551: score 198.0, E = 2.5e-56 CS EEEEEEEEEETTEEEEEEEETTTTEEEEEEEEEHHHCCCCCCHHHHH *->yelleklGsGsfGtVykakhkgtgkiVAvKiikkrkekskkdktarr + klG+G+fGtVy++k + +k VAvK+++ + + ++ + gi|1255586 350 FSDSNKLGEGGFGTVYRGKLGNGQK-VAVKKLSQAQYTREGLNQLHN 395 CS EHHHHHHHHHSSSSB--EEEEEEETTEEEEEEE--TS-..EEBHHHHHH. lsEiqilkrLsHpNIvrlidvfedkdhlylVlEycegGLrvldLfdylse E+q+l++L+H+N vrl++++ d++ lV E+ +G +L +l + gi|1255586 396 --ELQLLAELQHKNFVRLLGFCSHQDEMMLVYEHIKNG----SLDIFLFD 439 CS .HHHHST---HHHHHHHHHHHHHHHHHHHHT TEE-S--SGGGEEEET trrkgpllfsedeakkialQilrgleYLHsn...giiHRDLKPeNILldn t+r+++l +++ +i+l i++g+ YLH+ ++ +iiHRDLK NILld+ gi|1255586 440 TSRGKTL--NWEQRHNIILGIAKGILYLHEDssiRIIHRDLKANNILLDE 487 CS TTEE--EEEE--GTT.E... E CSS C-S--S-GGGS-HHHHCCS-CTH ngvvdaflKiaDFGlAkkls.t.sss.lttfvGTpwYmAPEvllggngyg n+++ KiaDFGl ++l + + ++++ t+vGT++YmAPE +l + + gi|1255586 488 NMNP----KIADFGLGRLLGgGhTQTkTATVVGTYGYMAPEYVL-FGKVS 532 CS HHHHHHHHHHHHHHHHHSS tkvDvWSlGvilyelltGk<-* +k+D++S+Gv++ e +tG+ gi|1255586 533 PKIDIFSFGVLVLEIVTGR 551 DUF26: domain 1 of 2, from 71 to 124: score 70.7, E = 3.4e-20 *->vYglaQCrgDls.psdCrsCLasavaellpkcCpgkkggrvlydsCf +Ygla+CrgD++++++C +C+a+a+++ +++C+++++++v+yd C+ gi|1255586 71 AYGLALCRGDTTnATACGACVAAAFQDG-QQLCAYAREATVFYDPCY 116 lRYslypsF<-* lR+s ++F gi|1255586 117 LRFS-GRNF 124 DUF26: domain 2 of 2, from 188 to 242: score 72.1, E = 1.4e-20 *->vYglaQCrgDlspsdCrsCLasavae..llpkcCpgkkggrvlydsC +Y+l+QC++D+sp+ CrsCLa++++ + p +++g+ grvl+++C gi|1255586 188 IYALVQCTPDMSPAGCRSCLAGIISWvnD-PDYFSGSPTGRVLGVRC 233 flRYslypsF<-* + Y+++p F gi|1255586 234 NYWYDVHP-F 242 Pkinase_Tyr: domain 1 of 2, from 350 to 549: score 133.6, E = 4e-39 CS EEEEEEEEEETTEEEEEEEEECSTTSTEEEEEEEEE SSSSHHHH.. *->ltlgkkLGeGaFGeVykGtlkgsgdgteikVAVKtL.kegaseeeie + kLGeG FG+Vy+G+l +++kVAVK+L+ ++++ e gi|1255586 350 FSDSNKLGEGGFGTVYRGKLG-----NGQKVAVKKLsQAQYTREG-- 389 CS HHHHHHHHHHHHHHTCTTTB-EEEEEECSESSSS..EEEEEEETTTEBHH redFlrEAsiMkklGdHpNiVrLlGvCtlkqgePnglyiVtEymegGdLl + + +E++++ +l +H+N VrLlG C+ +++ +++V E+ ++G+L+ gi|1255586 390 LNQLHNELQLLAEL-QHKNFVRLLGFCS--HQDE--MMLVYEHIKNGSLD 434 CS HHHHHTTCTTTSHHHHHHHHHHHHHHHHHHHH HTTEECSTSSGGGEE dfLrkhreggkLtlkdLlsfalQiAkGMeYLe...sknfvHRDLAARNcL fL + + g+ L+ ++ ++ l iAkG YL++++s++++HRDL A N+L gi|1255586 435 IFLFDTSRGKTLNWEQRHNIILGIAKGILYLHedsSIRIIHRDLKANNIL 484 CS EETTTEEEE-STTTHEESTTSSEETEETTSSE CCGGGSHHHHHHHCEEH VsenlvVKIsDFGLaRdiysddyYvrkrgggk.lPvkWmAPEslkygkFt ++en+ KI+DFGL R++ + ++++ + mAPE +gk + gi|1255586 485 LDENMNPKIADFGLGRLL-GGGHT-QTKTATVvGTYGYMAPEYVLFGKVS 532 CS HHHHHHHHHHHHHHHHT skSDVWSFGVlLWEift<-* k D+ SFGVl Ei+t gi|1255586 533 PKIDIFSFGVLVLEIVT 549 Pkinase_Tyr: domain 2 of 2, from 602 to 622: score 0.8, E = 4.5 CS HHHTSSSGGGS-HHHHHHHHH *->lqCWaedPedRPtFselveeL<-* l+C +e P dRP+ s ++ +L gi|1255586 602 LLCVQESPVDRPSISSVILML 622 Herpes_glycop_D: domain 1 of 1, from 252 to 324: score 27.2, E = 3.5e-08 CS .XXXXXXXXXXXX........XXXXXXXXXXXXXXXX.....XXXXX *->daeqlpetgevpeadPevvPsisdeevpspppatpaNpdakvtsvii da+ ++ +++ p+ + ++++ s ppa+ a + + t vii gi|1255586 252 DAPAFDVAPPAPS--------PAPVAADSTPPADRAGRK-R-TAVII 288 CS XXXXXXXXXXXXXXXXXXXXXXXXXX.XXXXXXXXXX givvlalligaiivgvvyyilrRrRkeakkyvrlpps<-* +++v++++ +i+ ++++i+++rRk a k +++p++ gi|1255586 289 SASVACSIVFVLIISGSVFICLKRRK-ASKNQKTPII 324 HrpE: domain 1 of 1, from 621 to 631: score 6.9, E = 0.073 *->MLtrRrItLva<-* MLtrRrI+L + gi|1255586 621 MLTRRRIKLQQ 631 Revised version of Example 1 gi|218199763|gb|EEC82190.1|hypothetical protein OsI_26328 [Oryza sativa Indica Group] 658 (length) Scores for sequence family classification (score includes all domains): Model Description Score E-value N -------- ----------- ----- ------- --- Pkinase Protein kinase domain 198.0 2.5e-56 1 DUF26 Domain of unknown function DUF26 142.8 1.7e-41 2 Pkinase_Tyr Protein tyrosine kinase 134.4 2.4e-39 2 Herpes_glycop_D Herpesvirus glycoprotein D 7.9 0.022 1 HrpE HrpE protein 6.9 0.073 1 ABC1 ABC1 family 6.8 0.45 1 Lgl_C Lethal giant larvae(Lgl) like, C-term 1.6 1.6 1 RIO1 RIO1 family 1.4 2.8 1 Inh Protease inhibitor Inh 2.6 3.5 1 Nitrate_red_del Nitrate reductase delta subunit 1.9 3.7 1 GTP_EFTU_D2 Elongation factor Tu domain 2 3.7 3.8 1 Sm_multidrug_ex Putative small multi-drug export prot 2.0 4.2 1 ELL RNA polymerase II elongation factor E 0.4 4.3 1 APH Phosphotransferase enzyme family 1.0 5.2 1 FPL Uncharacterised conserved protein 1.6 5.9 1 HIM Haemagglutinin 3.5 6.2 1 TrbI Bacterial conjugation TrbI-like prote 0.3 6.3 1 TrbC TrbC/VIRB2 family 2.7 6.5 1 DUF682 Protein of unknown function (DUF682) 0.9 6.7 1 DUF1130 Protein of unknown function (DUF1130) 1.0 7 1 Gate Nucleoside recognition 1.8 7.3 1 DUF159 Uncharacterised ACR, COG2135 -0.9 8.1 1 DUF1796 Putative papain-like cysteine peptida 0.4 8.4 1 AF-4 AF-4 proto-oncoprotein -3.2 9.1 1 Parsed for domains: Model Domain seq-f seq-t hmm-f hmm-t score E-value -------- ------- ----- ----- ----- ----- ----- ------- Gate 1/1 2 65 .. 52 108 .] 1.8 7.3 Nitrate_red_del 1/1 37 61 .. 136 160 .. 1.9 3.7 TrbC 1/1 53 71 .. 1 20 [. 2.7 6.5 ELL 1/1 67 85 .. 1 19 [. 0.4 4.3 DUF26 1/2 71 124 .. 1 55 [] 70.7 3.4e-20 HIM 1/1 137 156 .. 1 24 [] 3.5 6.2 DUF1130 1/1 171 188 .. 105 123 .] 1.0 7 DUF26 2/2 188 242 .. 1 55 [] 72.1 1.4e-20 Herpes_glycop_D 1/1 279 300 .. 387 409 .] 7.9 0.022 Pkinase 1/1 326 527 .. 1 210 [. 198.0 2.5e-56 Pkinase_Tyr 1/2 326 525 .. 1 209 [. 133.6 4e-39 GTP_EFTU_D2 1/1 333 351 .. 1 19 [. 3.7 3.8 ABC1 1/1 338 354 .. 25 42 .. 6.8 0.45 RIO1 1/1 339 354 .. 1 18 [. 1.4 2.8 Inh 1/1 341 355 .. 89 103 .] 2.6 3.5 Lgl_C 1/1 350 364 .. 1 15 [. 1.6 1.6 AF-4 1/1 359 374 .. 1416 1431 .] -3.2 9.1 DUF1796 1/1 373 397 .. 157 185 .] 0.4 8.4 DUF682 1/1 374 387 .. 143 156 .] 0.9 6.7 Sm_multidrug_ex 1/1 425 438 .. 1 15 [. 2.0 4.2 FPL 1/1 429 436 .. 149 156 .] 1.6 5.9 APH 1/1 448 462 .. 177 191 .. 1.0 5.2 Pkinase_Tyr 2/2 578 598 .. 250 270 .] 0.8 4.5 HrpE 1/1 597 607 .. 1 11 [. 6.9 0.073 TrbI 1/1 618 624 .. 196 202 .] 0.3 6.3 DUF159 1/1 647 655 .. 273 281 .] -0.9 8.1 Alignments of top-scoring domains: Gate: domain 1 of 1, from 2 to 65: score 1.8, E = 7.3 *->aalalllgftagesalasliillgle..........aseleviftll a+++lll f+++ +++a++++ g ++ ++++ +s l++++++l gi|2181997 2 AITTLLLAFLVALPGGAKAWHFCGSSgdvfapnttyQSNLALLSAGL 48 sasciavfllpvivsilGik<-* + +++ pv+++ +G++ gi|2181997 49 AKNASSS---PVLFAAGGVG 65 Nitrate_red_del: domain 1 of 1, from 37 to 61: score 1.9, E = 3.7 *->yavilalLagrLeqrespYaelvda<-* y ++lalL++ L++++s +l++a gi|2181997 37 YQSNLALLSAGLAKNASSSPVLFAA 61 TrbC: domain 1 of 1, from 53 to 71: score 2.7, E = 6.5 *->falPalAqaaggggdpvesv<-* +++P l +a gg gdp++++ gi|2181997 53 SSSPVLFAA-GGVGDPPDTA 71 ELL: domain 1 of 1, from 67 to 85: score 0.4, E = 4.3 *->qeelsygLscgriteadrt<-* +++++ygL+++r++++ t gi|2181997 67 PPDTAYGLALCRGDTTNAT 85 DUF26: domain 1 of 2, from 71 to 124: score 70.7, E = 3.4e-20 *->vYglaQCrgDls.psdCrsCLasavaellpkcCpgkkggrvlydsCf +Ygla+CrgD++++++C +C+a+a+++ +++C+++++++v+yd C+ gi|2181997 71 AYGLALCRGDTTnATACGACVAAAFQDG-QQLCAYAREATVFYDPCY 116 lRYslypsF<-* lR+s ++F gi|2181997 117 LRFS-GRNF 124 HIM: domain 1 of 1, from 137 to 156: score 3.5, E = 6.2 CS EEEEEE--S...-EETT-TT--CC *->qqItNVasGeitvtktDAvnvsQL<-* ++ NV + + ++DA++v +L gi|2181997 137 SKVRNVTAP---AEVFDAAVV-AL 156 DUF1130: domain 1 of 1, from 171 to 188: score 1.0, E = 7 *->RrivadrallarGveVvHi<-* Rr+ ++ + rG+ V++i gi|2181997 171 RRFATG-VEAFRGWGVRDI 188 DUF26: domain 2 of 2, from 188 to 242: score 72.1, E = 1.4e-20 *->vYglaQCrgDlspsdCrsCLasavae..llpkcCpgkkggrvlydsC +Y+l+QC++D+sp+ CrsCLa++++ + p +++g+ grvl+++C gi|2181997 188 IYALVQCTPDMSPAGCRSCLAGIISWvnD-PDYFSGSPTGRVLGVRC 233 flRYslypsF<-* + Y+++p F gi|2181997 234 NYWYDVHP-F 242 Herpes_glycop_D: domain 1 of 1, from 279 to 300: score 7.9, E = 0.022 CS XXXXXXXXXXXX.XXXXXXXXXX *->gvvyyilrRrRkeakkyvrlpps<-* +++++i+++rRk a k +++p++ gi|2181997 279 AGSVFICLKRRK-ASKNQKTPII 300 Pkinase: domain 1 of 1, from 326 to 527: score 198.0, E = 2.5e-56 CS EEEEEEEEEETTEEEEEEEETTTTEEEEEEEEEHHHCCCCCCHHHHH *->yelleklGsGsfGtVykakhkgtgkiVAvKiikkrkekskkdktarr + klG+G+fGtVy++k + +k VAvK+++ + + ++ + gi|2181997 326 FSDSNKLGEGGFGTVYRGKLGNGQK-VAVKKLSQAQYTREGLNQLHN 371 CS EHHHHHHHHHSSSSB--EEEEEEETTEEEEEEE--TS-..EEBHHHHHH. lsEiqilkrLsHpNIvrlidvfedkdhlylVlEycegGLrvldLfdylse E+q+l++L+H+N vrl++++ d++ lV E+ +G +L +l + gi|2181997 372 --ELQLLAELQHKNFVRLLGFCSHQDEMMLVYEHIKNG----SLDIFLFD 415 CS .HHHHST---HHHHHHHHHHHHHHHHHHHHT TEE-S--SGGGEEEET trrkgpllfsedeakkialQilrgleYLHsn...giiHRDLKPeNILldn t+r+++l +++ +i+l i++g+ YLH+ ++ +iiHRDLK NILld+ gi|2181997 416 TSRGKTL--NWEQRHNIILGIAKGILYLHEDssiRIIHRDLKANNILLDE 463 CS TTEE--EEEE--GTT.E... E CSS C-S--S-GGGS-HHHHCCS-CTH ngvvdaflKiaDFGlAkkls.t.sss.lttfvGTpwYmAPEvllggngyg n+++ KiaDFGl ++l + + ++++ t+vGT++YmAPE +l + + gi|2181997 464 NMNP----KIADFGLGRLLGgGhTQTkTATVVGTYGYMAPEYVL-FGKVS 508 CS HHHHHHHHHHHHHHHHHSS tkvDvWSlGvilyelltGk<-* +k+D++S+Gv++ e +tG+ gi|2181997 509 PKIDIFSFGVLVLEIVTGR 527 Pkinase_Tyr: domain 1 of 2, from 326 to 525: score 133.6, E = 4e-39 CS EEEEEEEEEETTEEEEEEEEECSTTSTEEEEEEEEE SSSSHHHH.. *->ltlgkkLGeGaFGeVykGtlkgsgdgteikVAVKtL.kegaseeeie + kLGeG FG+Vy+G+l +++kVAVK+L+ ++++ e gi|2181997 326 FSDSNKLGEGGFGTVYRGKLG-----NGQKVAVKKLsQAQYTREG-- 365 CS HHHHHHHHHHHHHHTCTTTB-EEEEEECSESSSS..EEEEEEETTTEBHH redFlrEAsiMkklGdHpNiVrLlGvCtlkqgePnglyiVtEymegGdLl + + +E++++ +l +H+N VrLlG C+ +++ +++V E+ ++G+L+ gi|2181997 366 LNQLHNELQLLAEL-QHKNFVRLLGFCS--HQDE--MMLVYEHIKNGSLD 410 CS HHHHHTTCTTTSHHHHHHHHHHHHHHHHHHHH HTTEECSTSSGGGEE dfLrkhreggkLtlkdLlsfalQiAkGMeYLe...sknfvHRDLAARNcL fL + + g+ L+ ++ ++ l iAkG YL++++s++++HRDL A N+L gi|2181997 411 IFLFDTSRGKTLNWEQRHNIILGIAKGILYLHedsSIRIIHRDLKANNIL 460 CS EETTTEEEE-STTTHEESTTSSEETEETTSSE CCGGGSHHHHHHHCEEH VsenlvVKIsDFGLaRdiysddyYvrkrgggk.lPvkWmAPEslkygkFt ++en+ KI+DFGL R++ + ++++ + mAPE +gk + gi|2181997 461 LDENMNPKIADFGLGRLL-GGGHT-QTKTATVvGTYGYMAPEYVLFGKVS 508 CS HHHHHHHHHHHHHHHHT skSDVWSFGVlLWEift<-* k D+ SFGVl Ei+t gi|2181997 509 PKIDIFSFGVLVLEIVT 525 GTP_EFTU_D2: domain 1 of 1, from 333 to 351: score 3.7, E = 3.8 CS EEEEEEEEEESEEETTEEE *->GtVatgRvesGtlkkGdev<-* G +g+v++G+l G++v gi|2181997 333 GEGGFGTVYRGKLGNGQKV 351 ABC1: domain 1 of 1, from 338 to 354: score 6.8, E = 0.45 *->AQVHrAvLkdsGeeVAVK<-* + V+r++L + G++VAVK gi|2181997 338 GTVYRGKLGN-GQKVAVK 354 RIO1: domain 1 of 1, from 339 to 354: score 1.4, E = 2.8 CS EEEEEEEECTTEEEEEEE *->nVYhAysaedgkdevAvK<-* VY + +g+ +vAvK gi|2181997 339 TVYRGKL-GNGQ-KVAVK 354 Inh: domain 1 of 1, from 341 to 355: score 2.6, E = 3.5 CS EEEE-SSS-EEEEEE *->YrgrlgdGavltLkr<-* Yrg+lg+G + k+ gi|2181997 341 YRGKLGNGQKVAVKK 355 Lgl_C: domain 1 of 1, from 350 to 364: score 1.6, E = 1.6 *->nVavtsvSfAaetlE<-* +Vav++ S A++t+E gi|2181997 350 KVAVKKLSQAQYTRE 364 AF-4: domain 1 of 1, from 359 to 374: score -3.2, E = 9.1 *->VrYtRQGLhwLRqdAk<-* ++YtR GL +L + gi|2181997 359 AQYTREGLNQLHNELQ 374 DUF1796: domain 1 of 1, from 373 to 397: score 0.4, E = 8.4 *->pellsalvkknfsrLdFlllivspdqrse<-* ++ll++l++knf +ll+ + +q + gi|2181997 373 LQLLAELQHKNFV----RLLGFCSHQDEM 397 DUF682: domain 1 of 1, from 374 to 387: score 0.9, E = 6.7 *->aLLkhLlqlslIei<-* +LL++L++++++ + gi|2181997 374 QLLAELQHKNFVRL 387 Sm_multidrug_ex: domain 1 of 1, from 425 to 438: score 2.0, E = 4.2 *->ElRGAIpvGiailGl<-* E+R I++Gia +G+ gi|2181997 425 EQRHNIILGIA-KGI 438 FPL: domain 1 of 1, from 429 to 436: score 1.6, E = 5.9 *->nIvLnIlk<-* nI+L+I+k gi|2181997 429 NIILGIAK 436 APH: domain 1 of 1, from 448 to 462: score 1.0, E = 5.2 CS EEE-SS-STTSEEEE *->vlvHGDlhpgNllvd<-* +++H+Dl+++N+l+d gi|2181997 448 RIIHRDLKANNILLD 462 Pkinase_Tyr: domain 2 of 2, from 578 to 598: score 0.8, E = 4.5 CS HHHTSSSGGGS-HHHHHHHHH *->lqCWaedPedRPtFselveeL<-* l+C +e P dRP+ s ++ +L gi|2181997 578 LLCVQESPVDRPSISSVILML 598 HrpE: domain 1 of 1, from 597 to 607: score 6.9, E = 0.073 *->MLtrRrItLva<-* MLtrRrI+L + gi|2181997 597 MLTRRRIKLQQ 607 TrbI: domain 1 of 1, from 618 to 624: score 0.3, E = 6.3 *->dFSkvYe<-* dFS+vY+ gi|2181997 618 DFSSVYQ 624 DUF159: domain 1 of 1, from 647 to 655: score -0.9, E = 8.1 CS ........E *->VNnprNdgp<-* VN + N++p gi|2181997 647 VNDVTNTDP 655 Example 2 gi|40886673|gb|AAR96255.1| MHC class Ib antigen [Rattus norvegicus] 364 (length) 298 351 .. (wrt seq) 355 410 .] (wrt HMM) No.of residues in non-TM/SP region : 18 [5%(over non-TM/SP length)] Scores for sequence family classification: Model Description Score E-value N -------- ----------- ----- ------- --- MHC_I Class I Histocompatibility antigen, d 447.4 2.2e-131 1 C1-set Immunoglobulin C1-set domain 99.4 1.9e-29 1 Herpes_glycop_D Herpesvirus glycoprotein D 25.5 1.1e-07 1 Parsed for domains: Model Domain seq-f seq-t hmm-f hmm-t score E-value -------- ------- ----- ----- ----- ----- ----- ------- MHC_I 1/1 24 202 .. 1 180 [] 447.4 2.2e-131 C1-set 1/1 215 294 .. 1 92 [] 99.4 1.9e-29 Herpes_glycop_D 1/1 298 351 .. 354 409 .] 25.5 1.1e-07 Alignments of top-scoring domains: MHC_I: domain 1 of 1, from 24 to 202: score 447.4, E = 2.2e-131 CS TEEEEEEEEEEEEETTSSSEEEEEEEEETTEEEEEEETTSSS-SEEE *->gsHSLrYFyTaVSrPGlGePrFiaVGYVDDtqFVrFDSdaenprmeP gsHSLrYF+Ta+SrPGlGePrFi+VGYVDD qFVr+D+daenprmeP gi|4088667 24 GSHSLRYFETAMSRPGLGEPRFISVGYVDDRQFVRYDNDAENPRMEP 70 CS SSGGGGTSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-TTTS-EEEEE rapWieqegpeYWereTqiaKaneqifrvnLrtLlgYYNqSegGSHTlQw ra+W+e+egpeYW reTq+aK++eq+ rvnL t+l+YYNqSegGSHT+Q+ gi|4088667 71 RARWMEREGPEYWQRETQRAKGQEQWSRVNLGTALRYYNQSEGGSHTIQR 120 CS EEEEEEETTSSEEEEEEEEEETTEEEEEEETTSSEEEESSHHHHHHHHHH myGCdvgpDgrllrGYeqfAYDGkDYiaLNedLrsWTAadtaAqITkrKW myGCd+g+Dg+llrGYeq+AY G+DYiaLNedL++WTAad+ AqIT++KW gi|4088667 121 MYGCDLGSDGSLLRGYEQYAYAGRDYIALNEDLKTWTAADMVAQITQNKW 170 CS HHHTHHHHHHHHHHHTHHHHHHHHHHHHTHHHH eaageaerkeraYLEgeCvEwLrRYLenGKetL<-* +ag aer +r YLEg+CvE+L+R+Le+GKetL gi|4088667 171 DQAGTAER-HRDYLEGTCVESLLRHLELGKETL 202 C1-set: domain 1 of 1, from 215 to 294: score 99.4, E = 1.9e-29 CS ESTSHHTHHTSEEEEEEEEEEEBSS-EEEEEEETTEEESTTEEEEEE *->ppgspepelgkpntLvClVtgFyPpdItVtWlkNGqevtegvestep p +pe + +tL C++ gFyP+dIt tW+ NG+++t++ e e+ gi|4088667 215 HP-RPE----GDVTLRCWALGFYPADITLTWQLNGEDLTQDMELVET 256 CS EEEETTSEEEEEEEEEEEHHHHHTSSEEEEEEEETTSTE.TSEEE lpkngDgtYqlsSyLtftasepesgdtYtCrVeHesLkvenePlt<-* +p gDgt+q++ ++ ++ + YtC VeHe+L+ ePlt gi|4088667 257 RP-AGDGTFQKWASVVVP---LGKEQNYTCLVEHEGLP---EPLT 294 Herpes_glycop_D: domain 1 of 1, from 298 to 351: score 25.5, E = 1.1e-07 CS XXXXXXXXX.....XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX.X *->spppatpaNpdakvtsviigivvlalligaiivgvvyyilrRrRkea +p+p t++N v++v++g+vv+++ ++aiiv++v+ ++rRrR+ gi|4088667 298 EPSPSTDSNMETNVIYVVVGAVVIIG-AVAIIVALVVVVRRRRRS-R 342 CS XXXXXXXXX kkyvrlpps<-* ++++r++ + gi|4088667 343 TRRRRRRNI 351 Example 3 gi|210101265|gb|EEA49333.1| hypothetical protein BRAFLDRAFT_93828 [Branchiostoma floridae] 1324 (length) 620 664 .. (wrt seq) 364 410 .] (wrt HMM) No.of residues in non-TM/SP region : 9 [2%(over non-TM/SP length)] Scores for sequence family classification: Model Description Score E-value N -------- ----------- ----- ------- --- Y_phosphatase Protein-tyrosine phosphatase 625.9 3.9e-185 3 fn3 Fibronectin type III domain 36.3 1.3e-09 1 Herpes_glycop_D Herpesvirus glycoprotein D 24.7 2e-07 1 ig Immunoglobulin domain 18.1 0.00017 1 EGF EGF-like domain 18.0 0.00056 2 DSPc Dual specificity phosphatase, catalyt 13.3 0.002 1 DSL Delta serrate ligand 12.3 0.0043 2 Laminin_EGF Laminin EGF-like (Domains III and V) 12.9 0.0061 1 DUF916 Bacterial protein of unknown function 9.2 0.017 1 I-set Immunoglobulin I-set domain 10.6 0.024 1 EGF_2 EGF-like domain 12.1 0.028 2 Parsed for domains: Model Domain seq-f seq-t hmm-f hmm-t score E-value -------- ------- ----- ----- ----- ----- ----- ------- Y_phosphatase 1/3 760 770 .. 1 11 [. 6.9 0.15 Y_phosphatase 2/3 798 1015 .. 14 271 .] 360.4 3.3e-105 Y_phosphatase 3/3 1075 1312 .. 1 271 [] 258.6 1.5e-74 fn3 1/1 521 607 .. 1 84 [] 36.3 1.3e-09 Herpes_glycop_D 1/1 620 664 .. 363 409 .] 24.7 2e-07 ig 1/1 437 501 .. 1 67 [] 18.1 0.00017 EGF 1/2 243 272 .. 1 38 [] 13.1 0.013 EGF 2/2 290 323 .. 1 38 [] 4.9 2.5 DSPc 1/1 951 969 .. 108 126 .. 13.3 0.002 DSL 1/2 255 272 .. 50 67 .] 8.9 0.045 DSL 2/2 314 323 .. 58 67 .] 3.3 2.3 Laminin_EGF 1/1 247 273 .. 1 41 [. 12.9 0.0061 DUF916 1/1 635 656 .. 347 368 .] 9.2 0.017 I-set 1/1 423 452 .. 1 30 [. 10.6 0.024 EGF_2 1/2 247 272 .. 1 37 [] 8.8 0.24 EGF_2 2/2 308 323 .. 11 37 .] 3.3 7.5 Alignments of top-scoring domains: Y_phosphatase: domain 1 of 3, from 760 to 770: score 6.9, E = 0.15 CS GGGG-SSTTS- *->NkeKNRykdil<-* Nk+KNRy +i+ gi|2101012 760 NKKKNRYGNIV 770 Y_phosphatase: domain 2 of 3, from 798 to 1015: score 360.4, E = 3.3e-105 CS GGGEEEBTSTTTTTTTTEEEEEEEEEEG...ECTEEEEEEEEE---G *->DhtRVkLkpipgdedsDYINAsyidgpfllvvykkpkayIaTQgPlp Dh+RV++ d+ sDYINAsyi+g ykk k yIa+QgP + gi|2101012 798 DHSRVVMG---CDPTSDYINASYIKG------YKKDKMYIAAQGPNK 835 CS GGHHHHHHHHHHTT-TEEEEESHSEETTE..EC.S---S-S..STTSEEE nTieDFWrMvweqkvtvIVMLtelvEkgrdseKtCaqYWPegskeggslt Ti+D WrM w++k+++IVM+t+l+E+++ +K C++YWP+ +++ gi|2101012 836 ATIGDLWRMTWQEKSPCIVMVTNLMENNK--VK-CERYWPD---NTQTQL 879 CS ETTEEEEEEEEEEESSEEEEEEEEEE TT...........TEEEEEEEEE yGditVtlvseekeadytvRtleltn.gtgskinakqekkgetrtVthfh yGd+ Vt+++e+ +ad+t+R+++l ++++ +++++++ gi|2101012 880 YGDFGVTCMREDIYADFTIRKFHLFQgDNP----------KIFHELYQYQ 919 CS EESS-SSSSGSC HHHHHHHHHHHHHSC.......TTTTSS.......-E ytgWPDhgvPes.kslldllrkvrksqpsnvelgerspdsgprSystaPi +t WPDhgvP +l+ l+++v+++ + p sg Pi gi|2101012 920 FTVWPDHGVPTYaSPLMALRNRVKEHVT---------PESG-------PI 953 CS EEECSSSSHHHHHHHHHHHHHHHHHHHSEE.-HHHHHHHHHCCSTTSS-S vVHCSAGvGRTGtfiaidillqqleaegevidvfdiVkelRsqRpgmVQt +VHCSAGvGRTGtfi++d+++++ ++e+ v d+f+ V +lR+qR +mVQt gi|2101012 954 IVHCSAGVGRTGTFIMLDMMMEMFKDEEQV-DIFNNVNQLREQRINMVQT 1002 CS HHHHHHHHHHHHH eeQYiFlydaile<-* +QYiF+yda+le gi|2101012 1003 SDQYIFIYDALLE 1015 Y_phosphatase: domain 3 of 3, from 1075 to 1312: score 258.6, E = 1.5e-74 CS GGGG-SSTTS-B-GGGEEEBTSTTTTTTTTEEEEEEEEEEG...ECT *->NkeKNRykdilpyDhtRVkLkpipgdedsDYINAsyidgpfllvvyk N++KNR +d lp D+ R L +++++ +++YINA +i+g yk gi|2101012 1075 NRNKNRRSDDLPSDRARPFLMSPGDETGTNYINAAFING------YK 1115 CS EEEEEEEEE---GGGHHHHHHHHHHTT-TEEEEESHSEETTE..EC.S-- kpkayIaTQgPlpnTieDFWrMvweqkvtvIVMLtelvEkgrdseKtCaq + yIaTQ+PlpnT+ D Wr v++++++++VML++ ++++ t+++ gi|2101012 1116 QRDVYIATQAPLPNTVLDMWRLVYDYRISSVVMLNDMDDNDP----TYPK 1161 CS -S-S..STTSEEEETTEEEEEEEEEEESSEEEEEEEEEE TT........ YWPegskeggsltyGditVtlvseekeadytvRtleltn.gtgskinakq YWP+ +s+++G + + v e+++ + ++Rtl+l+n+ ++ gi|2101012 1162 YWPD---PKQSVQHGVFLIQHVGETVDGHLITRTLRLQNtLKDN------ 1202 CS ...TEEEEEEEEEEESS-SS SSGSC HHHHHHHHHHHHHSC...... ekkgetrtVthfhytgWPDh.gvPes...kslldllrkvrksqpsnvelg + r+V+ f+ tgWP ++++P+s+ + +++ ll +v+ +q++ gi|2101012 1203 ---EAARMVKIFQLTGWPRDeKTPPSpcqAAMITLLSEVERWQQQ----- 1244 CS .TTTTSS.......-EEEECSSSSHHHHHHHHHHHHHHHHHHHSEE.-HH erspdsgprSystaPivVHCSAGvGRTGtfiaidillqqleaegevidvf +++ PivVHC +Gv R+G+f+++ +++++++ e++v dvf gi|2101012 1245 ---TGNE-------PIVVHCIDGVERSGVFCTMGVACERVKVEQVV-DVF 1283 CS HHHHHHHCCSTTSS-SHHHHHHHHHHHHH diVkelRsqRpgmVQteeQYiFlydaile<-* ++Vk++R++Rp mV + Y +++ ++e gi|2101012 1284 QAVKTVRACRPSMVNNVVAYDCCHELVIE 1312 fn3: domain 1 of 1, from 521 to 607: score 36.3, E = 1.3e-09 CS ----CEEEEEEECTTEEEEEEE--S -SS--SEEEEEEEEETTT *->PsaPtnltvtdvtstsltlsWspPt....gngpitgYevtyRqpkng P + ++t +dv+s+ ++++ ++++ +g+gpi+g +v+yR + + gi|2101012 521 PVPLNQPTMSDVGSDFIQVNVITSSepfsGDGPIEGITVRYR-ELPD 566 CS CCCEEEEEETTTSEEEEES--TT-EEEEEEEEEETTE -EBE gewkeltvpgtttsytltgLkPgteYtvrVqAvnggG.GpeS<-* g+w +++ p+ ++++ ltgL+ +teY+v+V+ +++ G+G+ gi|2101012 567 GQWEQVDAPSGQSRVDLTGLTQDTEYNVTVV-LTRPGpGGTG 607 Herpes_glycop_D: domain 1 of 1, from 620 to 664: score 24.7, E = 2e-07 CS .....XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX.XXXXXXXXXX *->pdakvtsviigivvlalligaiivgvvyyilrRrRkeakkyvrlpps p++ ++i+g+++++ + ++++v+v+++i+ RrR +k + r pp+ gi|2101012 620 PGPS-LGLIAGAAGGSAALILVLVAVAIFIFWRRRR-GKESSRAPPP 664 CS <-* gi|2101012 - - ig: domain 1 of 1, from 437 to 501: score 18.1, E = 0.00017 CS TSEEEEEEEEE ESSSSSSEEEEEETTC-SS-CEEEEEEETSSCCC *->GesvtLtCsvs..sgppqvdvtWfkegkgleessetgtdenrvssqt G+svt tC + +++ p d+t++k + +++ ++ + ++++++ gi|2101012 437 GQSVTVTCGANgdPEPIKDDFTLTKPDNSVIHQA----SSTNTNATA 479 CS EEEEEEESSE-GGG-EEEEEEE stslLtisnvteedsGtYtCvv<-* +s++++s vt +G Y+C+v gi|2101012 480 VFSTFQLSEVTHAVDGQYVCRV 501 EGF: domain 1 of 2, from 243 to 272: score 13.1, E = 0.013 CS TTSSCTTSSSTEEEEEETTEEEEEETTT.CECEESTTC *->CnpnngpCsngGtCvdtpggytCeCpeGyvllytGkrC<-* C+ C +gG C ++ tC+Cp+G +tG++C gi|2101012 243 CSTPC-LCYHGGWCDVSG---TCICPPG----FTGENC 272 EGF: domain 2 of 2, from 290 to 323: score 4.9, E = 2.5 CS TTSSC TTSSSTEEEEEETTEEEEEETTT.CECEESTTC *->Cnpnn..gpCsngGtCvdtpggytCeCpeGyvllytGkrC<-* Cn+ n+ pC +C++ p y CeC+ G y+G +C gi|2101012 290 CNDGNpvRPCRKSLICLPDP--YGCECANG----YKGFDC 323 Laminin_EGF: domain 1 of 1, from 247 to 273: score 12.9, E = 0.0061 CS --STTTCBCCC--B-T.......TT-SB-SB-TTEESTTS- *->CdCnphGslsddtCdsddelfgeetGqClkCkpnvtGrrCd<-* C C + G Cd +G C C p++tG++C+ gi|2101012 247 CLCYHGG-----WCDV--------SGTCI-CPPGFTGENCE 273 DSPc: domain 1 of 1, from 951 to 969: score 13.3, E = 0.002 CS -EEEEE-SSSSSHHHHHHH *->gkVLVHCqAGiSRSAtlii<-* g++ VHC AG+ R++t+i+ gi|2101012 951 GPIIVHCSAGVGRTGTFIM 969 DSL: domain 1 of 2, from 255 to 272: score 8.9, E = 0.045 *->CdenGnklClnGWkGeyC<-* Cd G +C +G +Ge+C gi|2101012 255 CDVSGTCICPPGFTGENC 272 DSL: domain 2 of 2, from 314 to 323: score 3.3, E = 2.3 *->ClnGWkGeyC<-* C+nG kG +C gi|2101012 314 CANGYKGFDC 323 DUF916: domain 1 of 1, from 635 to 656: score 9.2, E = 0.017 *->glllllllllivyliwkrkkkk<-* ++l+l+l+ +++++ w+r++ k gi|2101012 635 AALILVLVAVAIFIFWRRRRGK 656 I-set: domain 1 of 1, from 423 to 452: score 10.6, E = 0.024 CS -EEEE--EEEEEETTCEEEEEEEEE-SSS- *->PkFtqkpkdveVqeGesarFeCkvtGdPpP<-* P++ p+dv ++ G+s++ +C + GdP+P gi|2101012 423 PSIAFNPRDVDANLGQSVTVTCGANGDPEP 452 EGF_2: domain 1 of 2, from 247 to 272: score 8.8, E = 0.24 *->C.CngshGtCvspngtstpcGkCvCdsgyedkyqGadC<-* C C +G C+ + G C C++g ++G C gi|2101012 247 ClCYH-GGWCDVS-------GTCICPPG----FTGENC 272 EGF_2: domain 2 of 2, from 308 to 323: score 3.3, E = 7.5 *->spngtstpcGkCvCdsgyedkyqGadC<-* +p+g C+C +g y G dC gi|2101012 308 DPYG-------CECANG----YKGFDC 323 Example 4 gi|149587184|ref|XP_001519017.1| PREDICTED: similar to poliovirus receptor related 2 [Ornithorhynchus anatinus] 849 (length) 720 776 .. (wrt seq) 348 410 .] (wrt HMM) No.of residues in non-TM/SP region : 25 [7%(over non-TM/SP length)] Scores for sequence family classification: Model Description Score E-value N -------- ----------- ----- ------- --- V-set Immunoglobulin V-set domain 72.8 8.3e-20 3 C2-set_2 CD80-like C2-set immunoglobulin domai 43.4 1.5e-11 1 ig Immunoglobulin domain 25.0 1.7e-06 3 Herpes_glycop_D Herpesvirus glycoprotein D 19.6 6.5e-06 1 C1-set Immunoglobulin C1-set domain 19.8 1.7e-05 1 I-set Immunoglobulin I-set domain 13.9 0.0027 3 Parsed for domains: Model Domain seq-f seq-t hmm-f hmm-t score E-value -------- ------- ----- ----- ----- ----- ----- ------- V-set 1/3 24 144 .. 1 142 [] 34.4 4.4e-09 V-set 2/3 525 602 .. 54 142 .] 15.2 0.0011 V-set 3/3 644 721 .. 54 142 .] 23.2 6e-06 C2-set_2 1/1 145 232 .. 1 101 [] 43.4 1.5e-11 ig 1/3 36 127 .. 1 67 [] 15.0 0.0013 ig 2/3 181 223 .. 18 67 .] 2.0 7.3 ig 3/3 259 314 .. 1 67 [] 8.0 0.14 Herpes_glycop_D 1/1 720 776 .. 347 409 .] 19.6 6.5e-06 C1-set 1/1 186 233 .. 39 92 .] 19.8 1.7e-05 I-set 1/3 461 476 .. 66 81 .. 4.2 1.7 I-set 2/3 563 601 .. 58 96 .] 5.1 0.96 I-set 3/3 685 720 .. 61 96 .] 4.6 1.3 Alignments of top-scoring domains: V-set: domain 1 of 3, from 24 to 144: score 34.4, E = 4.4e-09 CS XEEEEEECSS.............EEEEETTSEEEEEEEEECHHSSSG *->qsvvtqepprWGLLLTASLsWptsvtvaeGgsvtLpCtysGtfddss ++v + +v++ +Gg+v LpC + ++++ gi|1495871 24 RVEVIP-----------------VVRGRLGGTVDLPCRLL-PTGPDV 52 CS SSTTCEEEEEEECEETTSEEEEEE.EESSCTEEEEETTTCEEEEETTEEE sssgtfsiyWyrqqppgkgpeliiisyysyystsegngtvgerfkgrvtl +s++++++W r sy + s+ e + ++++ + ++ gi|1495871 53 KVSQVTWVRWDR-VGR---------SYSVAVSHPEHGASFPDPEADGRR- 91 CS EEETC TTEEEEEESSCSGGGCEEEEEEEEETSEEEEECEEEE sgnps........kgdfsLtIsnlqlsDsGtYyCavsnsnelvfgggtrL s ++ ++ d++L+ + l++ D G Y+C +++ ++ g t+L gi|1495871 92 LKFLSagsvgeaaLRDATLQVRELRAQDQGNYTCEFATFPRGNSKGATWL 141 CS EEE tVl<-* +V+ gi|1495871 142 RVE 144 V-set: domain 2 of 3, from 525 to 602: score 15.2, E = 0.0011 CS EEEEEECEETTSEEEEEE.EESSCTEEEEETTTCEEEEETTEEEEEE *->siyWyrqqppgkgpeliiisyysyystsegngtvgerfkgrvtlsgn +++Wyr ++++p+li +y+++ s n g+ ++gr gi|1495871 525 TYTWYR--GAAGKPHLIL-RYNTGVGVS--NWLLGPAHSGREA---- 562 CS TCTTEEEEEESSCSGGGCEEEEEEEEETSEEEEECEEEEEEE pskgdfsLtIsnlqlsDsGtYyCavsnsnelvfgggtrLtVl<-* + ++ sL ++++++ DsG Y +v + + ++ ++ V+ gi|1495871 563 -GTKNGSLLLRDVSPQDSGRYIVHVVTL-QGKEEASITIDVS 602 V-set: domain 3 of 3, from 644 to 721: score 23.2, E = 6e-06 CS EEEEEECEETTSEEEEEE.EESSCTEEEEETTTCEEEEETTEEEEEE *->siyWyrqqppgkgpeliiisyysyystsegngtvgerfkgrvtlsgn +++Wyr +++gp+ i ++++++s+ + +g+ ++gr t + n gi|1495871 644 TYTWYR--GAAGGPHRIL-RCNTGGSAPNC--LPGPAHSGRETCTKN 685 CS TCTTEEEEEESSCSGGGCEEEEEEEEETSEEEEECEEEEEEE pskgdfsLtIsnlqlsDsGtYyCavsnsnelvfgggtrLtVl<-* +s L ++++++ DsG Y +v + + ++ ++ V+ gi|1495871 686 GS-----LLLRDVSPQDSGRYIVHVVTL-WGKEEASITIDVS 721 C2-set_2: domain 1 of 1, from 145 to 232: score 43.4, E = 1.5e-11 *->peIeppa.sllegeksenlevvatCvlpysagGkPapritWyldgke ++++a +++ ++ s + va C ++ G Pa+r++W ++++ gi|1495871 145 AAPQNQAwTQEVTQ-SSAPAPVAFC----VSTGLPAARLSWSTSLNH 186 lvpeekteaittsseqdpesglytvtStLklvpsredhgqsltCqvsyga ++ ++e+ p +g+ tvtS+L+l p+r hgqs+tC v++++ gi|1495871 187 E--------ANITQEELP-NGTITVTSQLSLLPTRNVHGQSVTCKVEHET 227 lrgsk<-* l++++ gi|1495871 228 LQEPQ 232 ig: domain 1 of 3, from 36 to 127: score 15.0, E = 0.0013 CS TSEEEEEEEEE ESSSSSSEEEEEETTC-SS-CEEEEEEETSSCC *->GesvtLtCsvs...sgppqvdvtWfkegkgleessetgtdenrvssq G++v L+C+ +++++ + +vtW +++ + + s +++ ++ gi|1495871 36 GGTVDLPCRLLptgPDVKVSQVTWVRWDRVGRSYSVAVSHPEHGA-- 80 CS CEE EEEEESSE-GGG-EEEEEEE tst.........................slLtisnvteedsGtYtCvv<- s+++++ ++++ + + ++ ++ ++ +L+++ ++ +d G+YtC+ gi|1495871 81 -SFpdpeadgrrlkflsagsvgeaalrdATLQVRELRAQDQGNYTCEF 127 CS * gi|1495871 - - ig: domain 2 of 3, from 181 to 223: score 2.0, E = 7.3 CS SEEEEEETTC-SS-CEEEEEEETSSCCCEEEEEEESSE-GGG-EEEE *->dvtWfkegkgleessetgtdenrvssqtstslLtisnvteedsGtYt ++++ +e +++e+ + gt + ++ L + +++ ++ + t gi|1495871 181 STSLNHEANITQEELPNGTITVTSQ-------LSLLPTRNVHGQSVT 220 CS EEE Cvv<-* C v gi|1495871 221 CKV 223 ig: domain 3 of 3, from 259 to 314: score 8.0, E = 0.14 CS TSEEEEEEEEEESSSSSSEEEEEETTC-SS-CEEEEEEETSSCCCEE *->GesvtLtCsvssgppqvdvtWfkegkgleessetgtdenrvssqtst +++ L C ++s p+++++ W+ + l+++ + + ++ gi|1495871 259 RSDAILNCDAQSYPEPTSYEWSTLSGFLPSTVKAQGSR--------- 296 CS EEEEESSE-GGG-EEEEEEE slLtisnvteedsGtYtCvv<-* L + nv+ ++t++C v gi|1495871 297 --LMVYNVDNLVNTTFVCKV 314 Herpes_glycop_D: domain 1 of 1, from 720 to 776: score 19.6, E = 6.5e-06 CS XXXXXXXXXXXXXXXX.....XXXXXXXXXXXXXXXXXXXXXXXXXX *->isdeevpspppatpaNpdakvtsviigivvlalligaiivgvvyyil +s+e++++p+++ pa ++i+ +vv++l ++++++++y+ + gi|1495871 720 VSPEPTTTPAEKAPAS-----GGIIAALVVGILVGTSLLGALGYWLF 761 CS XXXXX.XXXXXXXXXX rRrRkeakkyvrlpps<-* rR + +++rl+++ gi|1495871 762 HFRRR-SRGSPRLTET 776 C1-set: domain 1 of 1, from 186 to 233: score 19.8, E = 1.7e-05 CS STTEEEEEEEEEETTSEEEEEEEEEEEHHHHHTSSEEEEEEEETTST *->tegvesteplpkngDgtYqlsSyLtftasepesgdtYtCrVeHesLk +e++ + e+lp +gt +++S+L + ++ +g + tC+VeHe+L+ gi|1495871 186 HEANITQEELP---NGTITVTSQLSLLPTRNVHGQSVTCKVEHETLQ 229 CS E.TSEEE venePlt<-* eP+ gi|1495871 230 ---EPQM 233 I-set: domain 1 of 3, from 461 to 476: score 4.2, E = 1.7 CS ECCE-CGGGCEEEEEE *->IsnvqpdDeGkYtCvA<-* I++v dD+G+Yt ++ gi|1495871 461 IQEVREDDAGQYTLQV 476 I-set: domain 2 of 3, from 563 to 601: score 5.1, E = 0.96 CS ..TEEEEEECCE-CGGGCEEEEEEEETTEEEEEEEEEEE *->GsgtytLtIsnvqpdDeGkYtCvAtNsaGeaeasaeLtV<-* G + +L ++v p D+G Y + ++ G+ eas++ V gi|1495871 563 GTKNGSLLLRDVSPQDSGRYIVHVVTLQGKEEASITIDV 601 I-set: domain 3 of 3, from 685 to 720: score 4.6, E = 1.3 CS EEEEEECCE-CGGGCEEEEEEEETTEEEEEEEEEEE *->tytLtIsnvqpdDeGkYtCvAtNsaGeaeasaeLtV<-* + +L ++v p D+G Y + ++ G+ eas++ V gi|1495871 685 NGSLLLRDVSPQDSGRYIVHVVTLWGKEEASITIDV 720 Example 5 gi|198424579|ref|XP_002124481.1| PREDICTED: similar to Notch [Ciona intestinalis] 693 (length) 136 246 .. (wrt seq) 287 410 .] (wrt HMM) No.of residues in non-TM/SP region : 86 [23%(over non-TM/SP length)] Scores for sequence family classification: Model Description Score E-value N -------- ----------- ----- ------- --- EGF EGF-like domain 114.8 2.9e-31 3 EGF_2 EGF-like domain 44.6 2.6e-11 3 Herpes_glycop_D Herpesvirus glycoprotein D 19.9 5.4e-06 1 DUF2077 Uncharacterized protein conserved in 13.5 0.0012 1 CUB CUB domain 7.7 0.064 1 DUF916 Bacterial protein of unknown function 6.5 0.1 1 Parsed for domains: Model Domain seq-f seq-t hmm-f hmm-t score E-value -------- ------- ----- ----- ----- ----- ----- ------- EGF 1/3 28 59 .. 1 38 [] 36.7 3.4e-09 EGF 2/3 66 97 .. 1 38 [] 44.0 3.1e-11 EGF 3/3 104 135 .. 1 38 [] 34.1 1.8e-08 EGF_2 1/3 28 59 .. 1 37 [] 9.7 0.13 EGF_2 2/3 66 97 .. 1 37 [] 16.3 0.0018 EGF_2 3/3 104 135 .. 1 37 [] 18.5 0.00046 Herpes_glycop_D 1/1 136 246 .. 287 409 .] 19.9 5.4e-06 DUF2077 1/1 190 234 .. 165 211 .] 13.5 0.0012 CUB 1/1 1 18 [. 99 116 .] 7.7 0.064 DUF916 1/1 214 238 .. 344 368 .] 6.5 0.1 Alignments of top-scoring domains: EGF: domain 1 of 3, from 28 to 59: score 36.7, E = 3.4e-09 CS TTSSCTTSSSTEEEEEETTEEEEEETTT.CECEESTTC *->CnpnngpCsngGtCvdtpggytCeCpeGyvllytGkrC<-* C +n pC+++G+C + p+ ytC+C G ++G++C gi|1984245 28 CESN--PCQHDGECESHPDYYTCKCSDG----FAGINC 59 EGF: domain 2 of 3, from 66 to 97: score 44.0, E = 3.1e-11 CS TTSSCTTSSSTEEEEEETTEEEEEETTT.CECEESTTC *->CnpnngpCsngGtCvdtpggytCeCpeGyvllytGkrC<-* C++ pC++gGtCvd+ +ytC+C eG +tGk+C gi|1984245 66 CASY--PCKHGGTCVDGVRDYTCDCLEG----FTGKDC 97 EGF: domain 3 of 3, from 104 to 135: score 34.1, E = 1.8e-08 CS TTSSCTTSSSTEEEEEETTEEEEEETTT.CECEESTTC *->CnpnngpCsngGtCvdtpggytCeCpeGyvllytGkrC<-* C++n pC ngG Cv+ ++ C Cp + G++C gi|1984245 104 CASN--PCENGGLCVNRNVDFVCSCPRD----FMGEKC 135 EGF_2: domain 1 of 3, from 28 to 59: score 9.7, E = 0.13 *->C....CngshGtCvspngtstpcGkCvCdsgyedkyqGadC<-* C++++C+ +G C+s C+C++g + G C gi|1984245 28 CesnpCQH-DGECESHPD----YYTCKCSDG----FAGINC 59 EGF_2: domain 2 of 3, from 66 to 97: score 16.3, E = 0.0018 *->C....CngshGtCvspngtstpcGkCvCdsgyedkyqGadC<-* C + +C +GtCv +++ C+C g ++G+dC gi|1984245 66 CasypCKH-GGTCV-DGVR---DYTCDCLEG----FTGKDC 97 EGF_2: domain 3 of 3, from 104 to 135: score 18.5, E = 0.00046 *->C....CngshGtCvspngtstpcGkCvCdsgyedkyqGadC<-* C +++C + +G Cv+ n+ +C+C++ + G +C gi|1984245 104 CasnpCEN-GGLCVNRNV----DFVCSCPRD----FMGEKC 135 Herpes_glycop_D: domain 1 of 1, from 136 to 246: score 19.9, E = 5.4e-06 CS ....HHHH------------------.---------X...XX XXXX *->draRPdsveyeipakpsdaeddrpdsesdgesalperiedae.qlpe +++ P +++ + pa++++a+ +++ e+ +++pe+ + +++++p+ gi|1984245 136 EEPVPTPSPPPTPAPTTPAPTQPEPTEPAKNKPAPEVTTQPPsPAPK 182 CS XXXXXX........XXXXXXXXXXXXXXXX.....XXXXXXXXXXXXXXX tgevpeadPevvPsisdeevpspppatpaNpdakvtsviigivvlallig +e e + +++++++pp + +N + tsvii +v+l+ll + gi|1984245 183 EDEKGE--------AAPADHEPHPPGDANN--HR-TSVII-AVILVLLVL 220 CS XXXXXXXXXXXXXXXX.XXXXXXXXXX aiivgvvyyilrRrRkeakkyvrlpps<-* ++++g+ ++ ++ Rk +++ +r + gi|1984245 221 FLLLGIFLWYWFKLRK-GNPQKREKEV 246 DUF2077: domain 1 of 1, from 190 to 234: score 13.5, E = 0.0012 *->aLSphwqgvaaarrrlrrlrrvPlWtvvaalalllllglylglsylL a ++h ++++ +++ r +v + ++ ++l l+lllg++l++++ L gi|1984245 190 APADHEPHPPGDANNHRT--SVIIAVILVLLVLFLLLGIFLWYWFKL 234 <-* gi|1984245 - - CUB: domain 1 of 1, from 1 to 18: score 7.7, E = 0.064 CS EEEEESSTTS----EEEE *->ikFvsDssiqkrGFkaty<-* + FvsD+s + +GFk ++ gi|1984245 1 MVFVSDDSAAESGFKFSF 18 DUF916: domain 1 of 1, from 214 to 238: score 6.5, E = 0.1 *->iiiglllllllllivyliwkrkkkk<-* i++ l+l+lll+++++++ k +k gi|1984245 214 ILVLLVLFLLLGIFLWYWFKLRKGN 238 Example 6 gi|159109774|ref|XP_001705150.1| High cysteine membrane protein Group 2 [Giardia lamblia ATCC 50803]gi|157433230|gb|EDO77476.1| High cysteine membrane protein Group 2 [Giardia lamblia ATCC 50803] 801 (length) 755 795 .. (wrt seq) 369 410 .] (wrt HMM) No.of residues in non-TM/SP region : 4 [1%(over non-TM/SP length)] Scores for sequence family classification: Model Description Score E-value N -------- ----------- ----- ------- --- VSP Giardia variant-specific surface prot 58.6 3.7e-16 4 Herpes_glycop_D Herpesvirus glycoprotein D 18.3 1.7e-05 1 EB EB module 19.0 0.00017 5 TIL Trypsin Inhibitor like cysteine rich 8.6 0.033 3 Laminin_EGF Laminin EGF-like (Domains III and V) 10.2 0.035 3 TNFR_c6 TNFR/NGFR cysteine-rich region 10.4 0.036 3 Parsed for domains: Model Domain seq-f seq-t hmm-f hmm-t score E-value -------- ------- ----- ----- ----- ----- ----- ------- VSP 1/4 126 194 .. 172 241 .. 18.0 5.6e-05 VSP 2/4 202 222 .. 1 17 [. 0.3 4.3 VSP 3/4 430 490 .. 270 327 .. 28.2 8.9e-08 VSP 4/4 754 785 .. 380 412 .] 12.1 0.0025 Herpes_glycop_D 1/1 755 795 .. 368 409 .] 18.3 1.7e-05 EB 1/5 31 58 .. 1 27 [. 9.2 0.098 EB 2/5 168 180 .. 1 13 [. 3.1 5.3 EB 3/5 442 455 .. 1 14 [. 1.5 16 EB 4/5 478 490 .. 46 58 .] 0.7 27 EB 5/5 725 742 .. 41 58 .] 4.5 2.2 TIL 1/3 267 293 .. 45 68 .] 6.8 0.13 TIL 2/3 354 360 .. 62 68 .] 1.9 4.9 TIL 3/3 660 682 .. 46 68 .] 0.0 19 Laminin_EGF 1/3 205 222 .. 43 59 .] 7.2 0.26 Laminin_EGF 2/3 269 287 .. 40 59 .] 1.7 10 Laminin_EGF 3/3 439 460 .. 40 59 .] 1.3 13 TNFR_c6 1/3 479 502 .. 1 24 [. 5.1 1.4 TNFR_c6 2/3 531 548 .. 1 20 [. 4.7 1.8 TNFR_c6 3/3 561 575 .. 19 33 .. 0.6 29 Alignments of top-scoring domains: VSP: domain 1 of 4, from 126 to 194: score 18.0, E = 5.6e-05 *->DGtsYCSeCateteyPqNGVCtStaaRatatCkdstvanGvCssCan +G +YCS C ++ ey G C S + C+ +G C C n gi|1591097 126 GGNKYCSRCSVKSEYLVDGKCLSSTDN--NACTSQDYPDGTCKLCGN 170 GylrmnGGCYeTtK.fPGKSVCee<-* Gy+ GGCY t + PG +C e gi|1591097 171 GYFLYKGGCYSITHgAPGNLICKE 194 VSP: domain 2 of 4, from 202 to 222: score 0.3, E = 4.3 *->CaeCklGy....elsadktkc<-* C++C++G+ + +e++a ++ c gi|1591097 202 CKLCQDGFfrlpEPAANRQSC 222 VSP: domain 3 of 4, from 430 to 490: score 28.2, E = 8.9e-08 *->CktCtssTvCttCadGyvkdggsdvCtk....CD.ssCeTCTaGatt C++C+s TvC Ca Gy+ + s++C ++++C ++C+TC G + gi|1591097 430 CEECSSDTVCSRCAAGYIIS--SSACVAdpdpCSvAGCKTCVSGNRQ 474 tCktCaTGYYKsgtgc<-* C +C G+YK gt+c gi|1591097 475 LCLVCHDGFYKDGTTC 490 VSP: domain 4 of 4, from 754 to 785: score 12.1, E = 0.0025 *->STGAIAGIsVAvviVVGGLVGFLCWWFiCRGKA<-* STG IAGIsVA v +V+ +G L WF+ R K gi|1591097 754 STGMIAGISVASVAIVAVIIGCLV-WFLLRRKN 785 Herpes_glycop_D: domain 1 of 1, from 755 to 795: score 18.3, E = 1.7e-05 CS XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX.XXXXXXXXXX *->tsviigivvlalligaiivgvvyyilrRrRkeakkyvrlpps<-* t+ i+gi+v++++i+a+i+g ++ l+Rr++ ++ + r p gi|1591097 755 TGMIAGISVASVAIVAVIIGCLVWFLLRRKN-SGSLNREPSL 795 EB: domain 1 of 5, from 31 to 58: score 9.2, E = 0.098 *->CpsgqvlvngeClpk.lvlpGesGCesd<-* C +g l++g C+ +++ ++G++GCe+d gi|1591097 31 CTPGLLLIDGACVEQdSHEVGSAGCEVD 58 EB: domain 2 of 5, from 168 to 180: score 3.1, E = 5.3 *->CpsgqvlvngeCl<-* C +g++l+ g C+ gi|1591097 168 CGNGYFLYKGGCY 180 EB: domain 3 of 5, from 442 to 455: score 1.5, E = 16 *->CpsgqvlvngeClp<-* C g++ +++ C++ gi|1591097 442 CAAGYIISSSACVA 455 EB: domain 4 of 5, from 478 to 490: score 0.7, E = 27 *->qCpeGftavggrC<-* +C +Gf +g++C gi|1591097 478 VCHDGFYKDGTTC 490 EB: domain 5 of 5, from 725 to 742: score 4.5, E = 2.2 *->ingtCqCpeGftavggrC<-* ++g+C C G++++g++C gi|1591097 725 RRGKCHCMGGQVPSGNTC 742 TIL: domain 1 of 3, from 267 to 293: score 6.8, E = 0.13 CS SEEE --CCCTEEEETT EEEECCCS *->gvCv.CqpGyVrnndgd..kCVprseC<-* +vC+ C p+y++ ++gd+ C eC gi|1591097 267 PVCEaCHPDYYLLSRGDsaMCLSSQEC 293 TIL: domain 2 of 3, from 354 to 360: score 1.9, E = 4.9 CS EEECCCS *->CVprseC<-* CVp eC gi|1591097 354 CVPLDEC 360 TIL: domain 3 of 3, from 660 to 682: score 0.0, E = 19 CS EEE--CCCTEEEETTEEEECCCS *->vCvCqpGyVrnndgdkCVprseC<-* +C C++ y +ndg+ C p C gi|1591097 660 ACMCEDSYAPSNDGTLCEPTKPC 682 Laminin_EGF: domain 1 of 3, from 205 to 222: score 7.2, E = 0.26 CS E-TTEEEGTT- CGCCSE *->CkpGyyglpsg.dpgqgC<-* C++G+++lp+ ++q+C gi|1591097 205 CQDGFFRLPEPaANRQSC 222 Laminin_EGF: domain 2 of 3, from 269 to 287: score 1.7, E = 10 CS S-EE-TTEEEGTT-CGCCSE *->CdrCkpGyyglpsgdpgqgC<-* C+ C p yy l++gd++ C gi|1591097 269 CEACHPDYYLLSRGDSA-MC 287 Laminin_EGF: domain 3 of 3, from 439 to 460: score 1.3, E = 13 CS S-EE-TTEEEGTT- CGCCSE *->CdrCkpGyyglpsg...dpgqgC<-* C rC+ Gy +s+ dp C gi|1591097 439 CSRCAAGYIISSSAcvaDPD-PC 460 TNFR_c6: domain 1 of 3, from 479 to 502: score 5.1, E = 1.4 CS CCTTTEEEE TSSSSSEEE EESBTT *->CeegvtYtd.enhvpqCls.CskCep<-* C++g +Y d++ + ++C ++C++C++ gi|1591097 479 CHDG-FYKDgTTC-RKCAAgCTVCSG 502 TNFR_c6: domain 2 of 3, from 531 to 548: score 4.7, E = 1.8 CS CCTTTEEEETSSSSSEEEEE *->CeegvtYtdenhvpqClsCs<-* C +g ++ d+ + C++Cs gi|1591097 531 CGDG-HFEDTTL-KVCTRCS 548 TNFR_c6: domain 3 of 3, from 561 to 575: score 0.6, E = 29 CS EESBTTGGTEEEEE- *->CskCepemGqvlvsp<-* C++C+ +m+++l+s+ gi|1591097 561 CTRCQDDMYLKLTSS 575 Example 7 gi|124512776|ref|XP_001349744.1| rifin [Plasmodium falciparum 3D7]gi|23615161|emb|CAD52149.1| rifin [Plasmodium falciparum 3D7] 369 (length) 311 364 .. (wrt seq) 351 410 .] (wrt HMM) No.of residues in non-TM/SP region : 22 [6%(over non-TM/SP length)] Scores for sequence family classification: Model Description Score E-value N -------- ----------- ----- ------- --- Rifin_STEVOR Rifin/stevor family 554.8 5.9e-171 1 Herpes_glycop_D Herpesvirus glycoprotein D 17.3 3.3e-05 1 7TM-7TMR_HD 7TM receptor with intracellular HD hy 8.4 0.068 1 Parsed for domains: Model Domain seq-f seq-t hmm-f hmm-t score E-value -------- ------- ----- ----- ----- ----- ----- ------- Rifin_STEVOR 1/1 20 369 .] 1 380 [] 554.8 5.9e-171 Herpes_glycop_D 1/1 311 364 .. 350 409 .] 17.3 3.3e-05 7TM-7TMR_HD 1/1 327 360 .. 1 34 [. 8.4 0.068 Alignments of top-scoring domains: Rifin_STEVOR: domain 1 of 1, from 20 to 369: score 554.8, E = 5.9e-171 *->hNkKYNkpyITnrthtptitSRlLcEcelysPsnYDNDpEMKeVmen +N+ +++yIT+ tp++t+R+LcEcely+P+nYDNDpEMKeVm+n gi|1245127 20 YNQ--RNHYITR---TPKATTRTLCECELYEPANYDNDPEMKEVMDN 61 FnrQTsQRFeEYdERmkdkRqKCKeqcDKeIQkIIlKDKlEKELmdKfaT FnrQT+QRF+EYdE m +kR++CKeqcDKeIQkIIlKDK+EKELmdKfaT gi|1245127 62 FNRQTQQRFHEYDECMVEKRMQCKEQCDKEIQKIILKDKMEKELMDKFAT 111 LqTDIqtDAIPTCVCEKSlAdKVEKgCLrCGfgLGgGVapksGllGGiga LqTDIq+DAIPTC+CEKSlAdK+EK+CL+CG+ GgG++++sG+lGGig gi|1245127 112 LQTDIQNDAIPTCICEKSLADKTEKFCLNCGVNVGGGITLSSGVLGGIGS 161 iavnewYkksAmaAlvaAiqkGieAGiLadelasvcKviaaglkklGvST +avn+w k ++ A++ ++A+ i++gl+ + + gi|1245127 162 VAVNAW-KT-----TEIAAA--TKAA------------IDKGLALGKIAG 191 LikglgkyvvildlsklrinkfcpkiisaiinasnYsapktligaIaakk i+g++k v++++ + ++i ++ + +++ii a++Y++ +++ g+I ++ gi|1245127 192 DIEGAAKVVELVKST-FKIEELGVRTLESIIDANTYTKSSLISGFIETEY 240 aatiCa..avsanegskmcfsskigl.....silssstatriGpPakdaI +++ C++ +++ +++ +++ ++++++++++++++ + t+ I gi|1245127 241 SRLGCGniFTGMKKP-FCNSVYERIFdtsggKGVYPITF----------I 279 pkvlnglVtsaasdAaaaAkaaeeavtgtiitkataliestfassitaIi k + V+ a+s Aaa ++++ a+ ++i + + +ie+t+++ +t I+ gi|1245127 280 EKKVETMVSEAESVAAAKSAKVAAAEKAAILETSKKAIETTSYNWYTTIG 329 aSviAILiIvLvMlIIYLILRYRRKKKMkKKlQYiKLLne<-* +S+ AILiIvL+M+IIYLILRYRRKKKMkKKlQYiKLL+e gi|1245127 330 YSITAILIIVLIMVIIYLILRYRRKKKMKKKLQYIKLLKE 369 Herpes_glycop_D: domain 1 of 1, from 311 to 364: score 17.3, E = 3.3e-05 CS XXXXXXXXXXXXX.....XXXXXXXXXXXXXXXXXXXXXXXXXXXXX *->eevpspppatpaNpdakvtsviigivvlalligaiivgvvyyilrRr e+ +++++t+ N +++ig +++a+li+ +i +++y ilr r gi|1245127 311 ETSKKAIETTSYN-----WYTTIGYSITAILIIVLIMVIIYLILRYR 352 CS XX.XXXXXXXXXX Rkeakkyvrlpps<-* Rk k+ ++l + gi|1245127 353 RK-KKMKKKLQYI 364 7TM-7TMR_HD: domain 1 of 1, from 327 to 360: score 8.4, E = 0.068 *->wlillglallvlllllifllylkrykkellkkrs<-* + ++++a+l+++l++++++ + ry++ + +k++ gi|1245127 327 TIGYSITAILIIVLIMVIIYLILRYRRKKKMKKK 360 Example 8 gi|156334547|ref|XP_001619472.1| hypothetical protein NEMVEDRAFT_v1g224148 [Nematostella vectensis]gi|156202733|gb|EDO27372.1| predicted protein [Nematostella vectensis] 610 (length) 423 463 .. (wrt seq) 357 397 .. (wrt HMM) No.of residues in non-TM/SP region : 16 [4%(over non-TM/SP length)] Scores for sequence family classification: Model Description Score E-value N -------- ----------- ----- ------- --- ANF_receptor Receptor family ligand binding region 143.4 1.4e-41 1 Pkinase_Tyr Protein tyrosine kinase 30.1 1.1e-08 1 Herpes_glycop_D Herpesvirus glycoprotein D 15.7 1e-04 1 Parsed for domains: Model Domain seq-f seq-t hmm-f hmm-t score E-value -------- ------- ----- ----- ----- ----- ----- ------- ANF_receptor 1/1 34 378 .. 1 416 [] 143.4 1.4e-41 Pkinase_Tyr 1/1 499 559 .. 58 125 .. 30.1 1.1e-08 Herpes_glycop_D 1/1 423 463 .. 356 396 .. 15.7 1e-04 Alignments of top-scoring domains: ANF_receptor: domain 1 of 1, from 34 to 378: score 143.4, E = 1.4e-41 *->qvlpAmrlAvediNadggillpgitlgyedddtcsdsalcsslsFdd + ++A++l ++diN+d + llp ++l+y ++d+ + gi|1563345 34 RIAAAAPLSIQDINNDIT-LLPAFNLTYSIHDS------------AC 67 .aavaaaacllkkgVvAiiGPscssvaiavarlanewgiPlisygataps a ++ + +g ++iiGP+cs +a +va la w++P+i+y+a++ + gi|1563345 68 vAEKGLRGMVAFEGLDFIIGPGCSLTAQPVATLAKIWNKPIITYAASSAA 117 lsdklknryptffRtvPsdtkqga....AiadilkhtfgWkrvaviyddd + d k+ + tf+ ++++ + + ++ ++a+++ f+W+ +++ + + gi|1563345 118 FID--KTVFSTFATVTAYGRRNQQytpaFVARLMSA-FNWTVCGILTSTE 164 dydkgeggcYFtlealedalkeaglkvvavAavvseviasdddftallke + + ++ ++++ v+v + ++ d t ++ + gi|1563345 165 VE--WKAM----AQKIRALISPL----VNV----TVYEEHDPQTTRFDEI 200 lkdlikskarvivvcgssddlgllkrqilqqarelGlmsggYvwiltdlw l++ + +arv+++ ++ + + i+++a++lG+++g+++++ +dl gi|1563345 201 LRR-GRENARVFLLLCYVNQV----TDIMRAAKNLGMTNGDHAFVTIDLN 245 sssldsdgdgstlpwariagadeGlltartfpfqpdndkareaakgvlgf ++ ++s g w + +d + + ++g++ + gi|1563345 246 TDVFYSNG-----RWTG---ND------------GPGSQFSQDLNGIVDL 275 tlk.p.spefqeflerlkk............sdtevnsyallaYDAVyll + +p + ++f r+++ ++ ++ ++ ++ ++ ya+++YDA++l gi|1563345 276 SVDrPlLS--EDFKARYRAmgsalvpevrqyLNAKPSWYAAFLYDAIWLA 323 AhAlnealsddpngtaggcnacrdrvddasnalgglnlglskwdGsqlle A Aln++ d+ ++t+ + + ++ gi|1563345 324 ALALNDTIADGYDVTNTS----------------------------ATVQ 345 ylrnkmvkvnfeGltGdvqfddnggrrpdysleilnwd<-* ++ n ++f+G +G v++ g r+p + + + gi|1563345 346 RMFN----RQFQGESGKVRMIN-GTRVPLFAVGNIVNG 378 Pkinase_Tyr: domain 1 of 1, from 499 to 559: score 30.1, E = 1.1e-08 CS HHHTCTTTB-EEEEEECSESSSS.. EEEEEEETTTEBHHHHHHHTT *->kklGdHpNiVrLlGvCtlkqgePng.lyiVtEymegGdLldfLrkhr ++l +H N+ ++GvC+ eP +++iV E++++G+L d L + gi|1563345 499 CEL-RHVNVNPCVGVCV----EP-LtVCIVNEFCAKGSLQDILLDD- 538 CS CTTTSHHHHHHHHHHHHHHHHH eggkLtlkdLlsfalQiAkGMe<-* + kL+ + sfa++iA+GMe gi|1563345 539 -NLKLDWTFKMSFAMDIARGME 559 Herpes_glycop_D: domain 1 of 1, from 423 to 463: score 15.7, E = 1e-04 CS XXXXXXX.....XXXXXXXXXXXXXXXXXXXXXXXXXXXXX *->ppatpaNpdakvtsviigivvlalligaiivgvvyyilrRr<-* +++tp + ++ t++ii++v +a++++ ++vgv+++ +rR+ gi|1563345 423 INKTPDGKSSDETQLIIFAVLGACICLVVLVGVAVFLRRRQ 463