-------------------------------------------------------------------------------- Domain acession : PF02037.19 Domain description : SAP (SAP_domain) Gathering score : 28.8 -------------------------------------------------------------------------------- Example 1 of 7: Query sequence: gi|226529129|ref|NP_001146906.1| Accession: [none] Description: 35.8 0.00017 LOC100280514 [Zea mays]gi|195604980|gb|ACG24320.1| apurinic endonuclease-redox protein [Zea mays] Scores for sequence family classification (score includes all domains): Model Description Score E-value N -------- ----------- ----- ------- --- Exo_endo_phos Endonuclease/Exonuclease/phosphatase f 193.8 4.8e-55 1 SAP SAP domain 38.6 2.5e-08 2 Rho_N Rho termination factor, N-terminal dom 12.8 0.025 1 Parsed for domains: Model Domain seq-f seq-t hmm-f hmm-t score E-value -------- ------- ----- ----- ----- ----- ----- ------- Rho_N 1/1 87 128 .. 1 43 [] 12.8 0.025 SAP 1/2 88 122 .. 1 35 [] 35.8 1.7e-07 Exo_endo_phos 1/1 250 508 .. 1 199 [] 193.8 4.8e-55 SAP 2/2 252 282 .. 1 35 [] 2.8 1.1 Alignments of top-scoring domains: Rho_N: domain 1 of 1, from 87 to 128: score 12.8, E = 0.025 *->eLknktlseLleiAkelGienvsrmRKqeLIFaILK.aqaekgg<-* +L+++t++eL+e+ + Gi + +K++L+ a++ +++ e++g gi|2265291 87 QLQSMTVKELRELTRRRGI--SVKGTKKDLVSALMNsMAVEANG 128 SAP: domain 1 of 2, from 88 to 122: score 35.8, E = 1.7e-07 CS GGCSHHHHHHHHHHHTT---SSCHHHHHHHHHHHH *->lssLkVseLKeeLkkrGLstsGkKaeLidRLleal<-* l+s++V+eL+e+ ++rG s++G+K++L++ L + + gi|2265291 88 LQSMTVKELRELTRRRGISVKGTKKDLVSALMNSM 122 Exo_endo_phos: domain 1 of 1, from 250 to 508: score 193.8, E = 4.8e-55 CS EEEEEEEEECCCC C C HHHCCHH CSESEEEEEEECSCT H H *->lkiltwNvnglra.l.s...allellk.edpDvicLQEvklsp.s.l lki++wNvngl+a l+s++ +++l ++ed+Dv+cLQE+k+++++ gi|2265291 250 LKIMSWNVNGLKAlLkSrgfSVQQLAQrEDFDVLCLQETKMQEkDiE 296 CS H H HH THH EEEEEE ETTCEEEEEEESSCEEEEE CC CEE l.l.lg.gyv...ytgfgg.gggkgGvailsklplvsvi.gi.....dli + + +++++ + + ++ g++G+ai+s+++++s g + +++d++ gi|2265291 297 ViKdTLlDGYtnsFWTCSVsKLGYSGTAIISRVKPLSIKyGLgipdhDTE 346 CS EEEEETTE EEEEEEEEECCS HHHHHHHHHHHHHHHHHH TTS .rvilasgt.fvvvntHlpagg.....rlderlaqyaelldflsa..rsd +rv+++++++f+++++++p+ g++ ++ + ++ l +++++ ++s+ gi|2265291 347 gRVVTVEFDdFYLLTAYVPNSGdglkrLTYRVTEWDPSLGNYMKEleKSK 396 CS EEEEEEE-S-SCTSCHH HHH HHTTHH pvilcGDfNarpdeids.llk.igkstl...................... pvil+GD+N++++eid +++ ++++s + +++++++ +++ +++ ++ gi|2265291 397 PVILTGDLNCAHQEIDIhDPAgNRRSAGftneeresfgtnflskgfvdtf 446 CS TTTHCSTTSBEBTTTTHCTTS--B--EEEEEES CH CE EE EEECC ..elpitfppTywsyrgtsekkntgsrlDrilvsg.ll.rv.il.illev ++++p+ +++yw yr++++k+n g+rlD++lvs++ ++ v+++ il+++ gi|2265291 447 rkQHPNVVAYSYWGYRHNARKTNKGWRLDYFLVSEsIAeKVhDSyILPDI 496 CS CSSSB--EEEEE lgSDHrPVlatl<-* +SDH P+ ++l gi|2265291 497 SASDHSPLGLVL 508 SAP: domain 2 of 2, from 252 to 282: score 2.8, E = 1.1 CS GGCSHHHHHHHHHHHTT---SSCHHHHHHHHHHHH *->lssLkVseLKeeLkkrGLstsGkKaeLidRLleal<-* ++s+ V+ LK++Lk+rG s++ +L +R + gi|2265291 252 IMSWNVNGLKALLKSRGFSVQ----QLAQREDFDV 282 // -------------------------------------------------------------------------------- HMM-to-structure alignment: -------------------------------------------------------------------------------- gi|15988053|pdb|1JJR|A: domain 1 of 2, from 61 to 95: score 42.8, E = 1.4e-06 CS GGCSHHHHHHHHHHHTT---SSCHHHHHHHHHHHH *->lssLkVseLKeeLkkrGLstsGkKaeLidRLleal<-* l +++V++LKe ++++GL+ + kK+eL++ L++++ gi|1598805 61 LGKFTVPMLKEACRAYGLKSGLKKQELLEALTKHF 95 gi|15988053|pdb|1JJR|A: domain 2 of 2, from 115 to 149: score 42.8, E = 1.4e-06 CS GGCSHHHHHHHHHHHTT---SSCHHHHHHHHHHHH *->lssLkVseLKeeLkkrGLstsGkKaeLidRLleal<-* l +++V++LKe ++++GL+ + kK+eL++ L++++ gi|1598805 115 LGKFTVPMLKEACRAYGLKSGLKKQELLEALTKHF 149 -------------------------------------------------------------------------------- Domain acession : PF03130.8 Domain description : HEAT_PBS (PBS lyase HEAT-like repeat) Gathering score : 27.9 -------------------------------------------------------------------------------- Example 2 of 7: Query sequence: gi|220933644|ref|YP_002512543.1| Accession: [none] Description: 26.7 0.1 serine/threonine protein kinase [Thioalkalivibrio sp. HL-EbGR7]gi|219994954|gb|ACL71556.1| serine/threonine protein k Scores for sequence family classification (score includes all domains): Model Description Score E-value N -------- ----------- ----- ------- --- Pkinase Protein kinase domain 185.0 2.2e-52 1 HEAT_PBS PBS lyase HEAT-like repeat 103.1 9.8e-28 7 Pkinase_Tyr Protein tyrosine kinase -8.7 3.8e-13 1 HEAT HEAT repeat 37.2 6.6e-08 3 Parsed for domains: Model Domain seq-f seq-t hmm-f hmm-t score E-value -------- ------- ----- ----- ----- ----- ----- ------- HEAT_PBS 1/7 33 59 .. 1 27 [] 6.7 11 HEAT 1/3 43 79 .. 1 36 [] 9.2 3.7 HEAT_PBS 2/7 64 90 .. 1 27 [] 20.5 0.0071 HEAT_PBS 3/7 95 121 .. 1 27 [] 20.8 0.0056 HEAT_PBS 4/7 126 152 .. 1 27 [] 24.2 0.00054 HEAT 2/3 136 172 .. 1 36 [] 26.6 0.0001 HEAT_PBS 5/7 157 183 .. 1 27 [] 26.7 9.8e-05 HEAT_PBS 6/7 187 213 .. 1 27 [] 4.2 28 HEAT_PBS 7/7 218 244 .. 1 27 [] 0.0 1.1e+02 HEAT 3/3 197 233 .. 1 36 [] 1.4 33 Pkinase 1/1 330 588 .. 1 287 [] 185.0 2.2e-52 Pkinase_Tyr 1/1 330 588 .. 1 270 [] -8.7 3.8e-13 Alignments of top-scoring domains: HEAT_PBS: domain 1 of 7, from 33 to 59: score 6.7, E = 11 CS HHHHHHHHHCCCSSHCCHHHHHHHHCT *->vRraAaraLgalgdpeAipaLleaLed<-* v++ A++ + + +dpe L ++L d gi|2209336 33 VQEQAIETIIQRNDPETMKYLSAVLHD 59 HEAT: domain 1 of 3, from 43 to 79: score 9.2, E = 3.7 CS H HHCHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHSC *->e.ildellplllkllnDpdpeVReaAaeaLgalaevl<-* ++ +e + +l l+D+ ++ R+aA+e L ++ + + gi|2209336 43 QrNDPETMKYLSAVLHDEAEHARRAAVEVLNKIGSAA 79 HEAT_PBS: domain 2 of 7, from 64 to 90: score 20.5, E = 0.0071 CS HHHHHHHHHCCCSSHCCHHHHHHHHCT *->vRraAaraLgalgdpeAipaLleaLed<-* +RraA++ L ++g+ +Ai Lle ++d gi|2209336 64 ARRAAVEVLNKIGSAAAIKELLESVKD 90 HEAT_PBS: domain 3 of 7, from 95 to 121: score 20.8, E = 0.0056 CS HHHHHHHHHCCCSSHCCHHHHHHHHCT *->vRraAaraLgalgdpeAipaLleaLed<-* vR++ a aL+++g p+++ a +e+ +d gi|2209336 95 VRARSADALAKIGGPRVVKAVVELIKD 121 HEAT_PBS: domain 4 of 7, from 126 to 152: score 24.2, E = 0.00054 CS HHHHHHHHHCCCSSHCCHHHHHHHHCT *->vRraAaraLgalgdpeAipaLleaLed<-* +Rr+A++ L +d++Ai +L++aL+d gi|2209336 126 IRRSAIEILNSTRDEQAISHLIDALDD 152 HEAT: domain 2 of 3, from 136 to 172: score 26.6, E = 0.0001 CS H HHCHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHSC *->e.ildellplllkllnDpdpeVReaAaeaLgalaevl<-* ++ ++ +++l+++l+D+d+ VRe A+ aL+++ ++ gi|2209336 136 StRDEQAISHLIDALDDSDWWVRERAVDALANIGNKA 172 HEAT_PBS: domain 5 of 7, from 157 to 183: score 26.7, E = 9.8e-05 CS HHHHHHHHHCCCSSHCCHHHHHHHHCT *->vRraAaraLgalgdpeAipaLleaLed<-* vR++A+ aL+++g+++A paL++ L+ gi|2209336 157 VRERAVDALANIGNKAATPALVRMLKR 183 HEAT_PBS: domain 6 of 7, from 187 to 213: score 4.2, E = 28 CS HHHHHHHHHCCCSSHCCHHHHHHHHCT *->vRraAaraLgalgdpeAipaLleaLed<-* + ++raL++lgd+++i a le L+ gi|2209336 187 AVPVVLRALAKLGDERVIHAVLEQLKR 213 HEAT: domain 3 of 3, from 197 to 233: score 1.4, E = 33 CS H HHCHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHSC *->e.ildellplllkllnDpdpeVReaAaeaLgalaevl<-* + ++++ ++l+ l+ p+pe+++ A+ +Lg+la gi|2209336 197 KlGDERVIHAVLEQLKRPVPEIQLEALHTLGELAGSE 233 DUF1662: domain 1 of 1, from 205 to 269: score -9.3, E = 6.3 *->iqvVdpLrl...CesltelaalEsrtvSnmakvlLqqgIcrfLknrs ++v+++L + + +l++l +l + + S++a + + ++I ++ ++ + gi|2209336 205 HAVLEQLKRpvpEIQLEALHTLGELAGSENAAG-ICEVIVKY-TDKA 249 iseveaakwlaTelledaLERqq<-* sev++a+ + ++l d + + gi|2209336 250 ASEVREAALEVRDRLQD---KFS 269 HEAT_PBS: domain 7 of 7, from 218 to 244: score 0.0, E = 1.1e+02 CS HHHHHHHHHCCCSSHCCHHHHHHHHCT *->vRraAaraLgalgdpeAipaLleaLed<-* ++ +A+ Lg+l e ++ ++e+ gi|2209336 218 IQLEALHTLGELAGSENAAGICEVIVK 244 Pkinase: domain 1 of 1, from 330 to 588: score 185.0, E = 2.2e-52 CS EEEEEEEEEETTEEEEEEEETTTTEEEEEEEEEHHHCCCCCCHHHHH *->yelleklGsGsfGtVykakhkgtgkiVAvKiikkrkekskkdktarr y+ ++++G+G+fGtV + + ++ +K++ + ++++ + ++ gi|2209336 330 YRYVRRVGRGAFGTVLLVEDEVISESLILKVLHPQMASDEDMIKRFV 376 CS EHHHHHHHHHSSSSB--EEEEEEETTEEEEEEE--TS-..EEBHHHHHH. lsEiqilkrLsHpNIvrlidvfedkdhlylVlEycegGLrvldLfdylse + E ++ +++ H+N++r++d+ + l + +Ey + L + gi|2209336 377 Q-EMRLSRKITHENVIRIYDFLNIQGLLAISMEYFPSS----TLA----V 417 CS .HHHHST---HHHHHHHHHHHHHHHHHHHHTTEE-S--SGGGEEEETTT .trrkgpllfsedeakkialQilrgleYLHsngiiHRDLKPeNILldnng +++ + pl + + a ++a i++g++ H+ g++HRDLKP N+L++n+g gi|2209336 418 sLEPREPL--PVEAALRYAHDIAKGMAAAHETGVVHRDLKPGNVLINNRG 465 CS EE--EEEE--GTT.E... E CSS C-S--S-GGGS-HHHHCCS-CTHH vvdaflKiaDFGlAkkls..t.sss.lttfvGTpwYmAPEvllggngygt v+ Ki DFG+A+ + + +++ + GTp Ym+PE +l g++ + gi|2209336 466 VL----KIVDFGVAAARAagDqQLTrTGILIGTPKYMSPEQVL-GKPVDA 510 CS HHHHHHHHHHHHHHHHSS-TTSSSHHHHCCTHHHHSSHHH......TTS. kvDvWSlGvilyelltGkpPFsgevqdsldqlqlirkilgpplefdspew ++D+++lG+++ye+l G +P+sge dq++++++ +++ + s+ gi|2209336 511 RSDIYALGIMMYEMLAGTLPYSGE-----DQMAVMYQHVQGKARPVSE-- 553 CS ........... ....HHHHHHHHHHT-SSGGGSTT HHHHHTSGGG dsisrsefrrl.pnlseeakdLikkcLnkDPskRlt.aeeilqHPwf<-* ++pn+++++ ++ k+ ++ P++R+ + ee+ + gi|2209336 554 ----------VnPNVPRTLSAVVAKMMALSPEDRYQnMEEVRRA--L 588 Pkinase_Tyr: domain 1 of 1, from 330 to 588: score -8.7, E = 3.8e-13 CS EEEEEEEEEETTEEEEEEEEECSTTSTEEEEEEEEE SSSSHHHH.. *->ltlgkkLGeGaFGeVykGtlkgsgdgteikVAVKtL.kegaseeeie + + G+GaFG+V l +++ K+L+++ as+e++ gi|2209336 330 YRYVRRVGRGAFGTV---LLV-EDEVISESLILKVLhPQMASDEDM- 371 CS HHHHHHHHHHHHHHTCTTTB-EEEEEECSESSSS..EEEEEEETTTEBHH redFlrEAsiMkklGdHpNiVrLlGvCtlkqgePnglyiVtEymegGdLl ++ F +E+++ +k+ H+N++r + ++ l i +Ey + L gi|2209336 372 IKRFVQEMRLSRKI-THENVIRIYDFLN--IQGL--LAISMEYFPSSTLA 416 CS HHHHHTTCTTTSHHHHHHHHHHHHHHHHHHHHHTTEECSTSSGGGEEEET dfLrkhreggkLtlkdLlsfalQiAkGMeYLesknfvHRDLAARNcLVse L +++L+++ l +a++iAkGM+ ++ + vHRDL N+L+++ gi|2209336 417 VSLEP---REPLPVEAALRYAHDIAKGMAAAHETGVVHRDLKPGNVLINN 463 CS TTEEEE-STTTHEES TTSSEETEETTSSECCGGGSHHHHHHHCEEHHHH nlvVKIsDFGLaRdi.ysddyYvrkrgggklPvkWmAPEslkygkFtskS +v KI DFG a + d + + +g k m+PE + S gi|2209336 464 RGVLKIVDFGVAAARaAGDQQL-TRTGILIGTPKYMSPEQVLGKPVDARS 512 CS HHHHHHHHHHHHHTTS-CTHTTTS HHHHHHHHHHHTT-- ---TTTCH DVWSFGVlLWEiftlGeqPFYpgm.sneevlellyedGyR..LprPenCP D+++ G+ ++E++ G P Y g + + +++++ + R+ + +n P gi|2209336 513 DIYALGIMMYEMLA-GTLP-YSGEdQMAVMYQHV-QGKARpvSEVNPNVP 559 CS HHHHHHHHHHTSSSGGGS -HHHHHHHHH delYelMlqCWaedPedR.PtFselveeL<-* l + + +a PedR ++e+++ L gi|2209336 560 RTLSAVVAKMMALSPEDRyQNMEEVRRAL 588 // Example 3 of 7: Query sequence: gi|254412378|ref|ZP_05026152.1| Accession: [none] Description: 29.4 0.015 Ser/Thr protein phosphatase family protein [Microcoleus chthonoplastes PCC 7420]gi|196180688|gb|EDX75678.1| Ser/Thr Scores for sequence family classification (score includes all domains): Model Description Score E-value N -------- ----------- ----- ------- --- HEAT_PBS PBS lyase HEAT-like repeat 143.3 7.3e-40 8 Metallophos Calcineurin-like phosphoesterase 54.5 4.1e-13 1 HEAT HEAT repeat 34.8 3.5e-07 4 NACHT NACHT domain -0.7 9e-05 1 NB-ARC NB-ARC domain -118.9 0.051 1 Parsed for domains: Model Domain seq-f seq-t hmm-f hmm-t score E-value -------- ------- ----- ----- ----- ----- ----- ------- NB-ARC 1/1 63 344 .. 1 350 [] -118.9 0.051 NACHT 1/1 80 244 .. 1 203 [] -0.7 9e-05 HEAT_PBS 1/8 477 503 .. 1 27 [] 5.7 16 HEAT 1/4 487 523 .. 1 36 [] 7.2 6.5 HEAT_PBS 2/8 508 534 .. 1 27 [] 29.4 1.5e-05 HEAT_PBS 3/8 539 565 .. 1 27 [] 26.5 0.00011 HEAT 2/4 553 586 .. 1 36 [] 8.2 4.9 HEAT_PBS 4/8 571 597 .. 1 27 [] 27.0 7.7e-05 HEAT_PBS 5/8 632 658 .. 1 27 [] 25.8 0.00017 HEAT 3/4 646 678 .. 1 36 [] 14.2 0.54 HEAT_PBS 6/8 663 689 .. 1 27 [] 11.1 2.5 HEAT 4/4 705 740 .. 1 36 [] 5.2 11 HEAT_PBS 7/8 725 747 .. 1 27 [] 2.4 50 HEAT_PBS 8/8 789 815 .. 1 27 [] 15.4 0.25 Metallophos 1/1 851 1099 .. 1 124 [] 54.5 4.1e-13 Alignments of top-scoring domains: NB-ARC: domain 1 of 1, from 63 to 344: score -118.9, E = 0.051 CS -HHHHHHHHHHHTTST..TS-EEEEEE--TTSSHHH HHHHHH -- *->redmieaviekLlemsadenlgvvgivGMGGvGKTT.LAkqiy..nd + + v++ L + ++ + +vG++G+GK+T L + +++ + gi|2544123 63 EQVETLTVLKGLRK----YAPQHILLVGRPGSGKSTaLVRLLLeeTE 105 CS HHHHHHH-TT- EEEEEEES--HH....HHHHHHHHHHHHHTTT.--S. dslvgghFPDv..vaWvvVSktyteKDsvfrlqkdQlilqeLglddeswd ++ ++ + Dv+ ++W + ++ ++ +l + + +++ ++ gi|2544123 106 KA-KEACR-DVpwHVWEKGDRSIKI----PVLVEL-----RYYRT--TI- 141 CS .........................-SS---SHHH.HHHHHHHHHHHT-T dshsITDFINRVLSRSEDDLLnfpSserveknesevlarklkelLlrKHP +DL++ +r + n+ ++lk L++ gi|2544123 142 -----------------EDLIQQFL-QRHDPNLTL-NPDTLKTGLRQE-- 170 CS T-EEEEEEE-- HH.HH.......HTT-SS-EEEEEES-GGGGTT--S RfLlVLDDVWe...keldWdkigvpfpdgengsrvilTTRsesVagrmga fLl+LD + e +++ +++ + + + + +TTR+ +++g++g gi|2544123 171 QFLLLLDGINElpsEA-ARRELQQFRQNYQKTTPMVFTTRDLGIGGNLGI 219 CS -.EEEEE--S--HHHHHHHHHHH.....HTS-G......GGS-THHHHHH keskphevelLekeesWeLFsnkGmPmPVfekedplsehpelEevakeiv k++e+ L+++ e+ +++ +p+ + l ++++ + gi|2544123 220 --TKKLEMQPLTPKQMQEFVCAY----------LPQQGKQMLQRLGNRLR 257 CS HHCTT-HHHHHHHHHHH..HH.ST.T -HHHHHHHHHS----SS-- ekCkGLPLalkvlGglLasKsktvYe.....eWekvleqlnnelaesrgs e + PL lk l l + + t+ +++ +++++ ++q ++ gi|2544123 258 EFGQ-TPLLLKMLCDLFHCLE-TI-PsnlgsVFRAFAQQYDRKV------ 298 CS SSS--HHHHHHHHHHHTS-C.CCHHHHHHGG.......G--TT--EEHHH ssnlnevlsiLklSYdnLpsdhLKrCFlylaDEDRSALlFpedyeirkeq + +++ S + + L+ yla + + ++ gi|2544123 299 ----KADVPVTEDSREFWSE-LLQ----YLA-------FVMTKGN--DSK 330 CS HHHHHT--HH.HHHHH lvklWiaEgfveasdi<-* + ia ++ a+ i gi|2544123 331 EIQVAIAKTE--AETI 344 NACHT: domain 1 of 1, from 80 to 244: score -0.7, E = 9e-05 *->rtvilqGeAGsGKTtLlqklallWaqgklpqdafdfvFflscrelsr + ++l+G +GsGK+t l +l l+ + ++++ d++ ++ + + gi|2544123 80 QHILLVGRPGSGKSTALVRLLLEETEKAKEACR-DVPWHVWEKGDRS 125 sgeaaalLrsLadl......LfsqwpepaapveeKlFeeskvfavilelp ++ ++L L++++++ ++L +q+++ +p + +p gi|2544123 126 IK--IPVLVELRYYrttiedLIQQFLQRHDPNLT-------------LNP 160 erlLkSalllpgqttvlilDGlDElksqlgqpdgelctdwkepqpvrtLL + l +l ++ l+lDG++El+s +r+ L gi|2544123 161 DTLK---TGLRQEQFLLLLDGINELPS----------------EAARREL 191 ssLlrkkLLPgaslllTsRPdalrdwllrrgleepqearylevrgFseed +r ++ ++++ + T+R + +++ l + le++++ +++ gi|2544123 192 QQ-FRQNYQKTTPMVFTTRDLG-----IGGNLGIT---KKLEMQPLTPKQ 232 rkeyvrkyfsde<-* +e+v+ y++ + gi|2544123 233 MQEFVCAYLPQQ 244 HEAT_PBS: domain 1 of 8, from 477 to 503: score 5.7, E = 16 CS HHHHHHHHHCCCSSHCCHHHHHHHHCT *->vRraAaraLgalgdpeAipaLleaLed<-* + ++ Lg+ +++ Ai L++aLe+ gi|2544123 477 PQLLTIQLLGRTKSESAISNLMKALEH 503 HEAT: domain 1 of 4, from 487 to 523: score 7.2, E = 6.5 CS H HHCHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHSC *->e.ildellplllkllnDpdpeVReaAaeaLgalaevl<-* ++ ++ ++ l+k+l+++d++V + Aa aLg++ gi|2544123 487 RtKSESAISNLMKALEHEDSDVSRRAADALGKIGLPK 523 HEAT_PBS: domain 2 of 8, from 508 to 534: score 29.4, E = 1.5e-05 CS HHHHHHHHHCCCSSHCCHHHHHHHHCT *->vRraAaraLgalgdpeAipaLleaLed<-* v r+Aa aLg++g p Aip+L++aL++ gi|2544123 508 VSRRAADALGKIGLPKAIPHLIKALKH 534 HEAT_PBS: domain 3 of 8, from 539 to 565: score 26.5, E = 0.00011 CS HHHHHHHHHCCCSSHCCHHHHHHHHCT *->vRraAaraLgalgdpeAipaLleaLed<-* v r+Aa aLg++g++ AipaL+e L++ gi|2544123 539 VSRRAADALGKIGSESAIPALIETLNE 565 HEAT: domain 2 of 4, from 553 to 586: score 8.2, E = 4.9 CS H HHCHHHHHHHHHTCSS HHHHHHHHHHHHHHHHHSC *->e.ildellplllkllnDp.dpeVReaAaeaLgalaevl<-* e+++ p+l++ ln ++p+ Re Aa aLg++ + gi|2544123 553 EsAI----PALIETLNERqVPNAREIAATALGKIGSDS 586 HEAT_PBS: domain 4 of 8, from 571 to 597: score 27.0, E = 7.7e-05 CS HHHHHHHHHCCCSSHCCHHHHHHHHCT *->vRraAaraLgalgdpeAipaLleaLed<-* +R+ Aa aLg++g++ A+paL++ L+d gi|2544123 571 AREIAATALGKIGSDSAVPALVQTLKD 597 HEAT_PBS: domain 5 of 8, from 632 to 658: score 25.8, E = 0.00017 CS HHHHHHHHHCCCSSHCCHHHHHHHHCT *->vRraAaraLgalgdpeAipaLleaLed<-* +R+++a aLg+++++ A aL+eaL+d gi|2544123 632 LREEVADALGKINSKSAELALIEALDD 658 HEAT: domain 3 of 4, from 646 to 678: score 14.2, E = 0.54 CS H HHCHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHSC *->e.ildellplllkllnDpdpeVReaAaeaLgalaevl<-* +++ +l+++l+D++pe+R+++a++L+++ ++ gi|2544123 646 KsAE----LALIEALDDEEPEIRKSVAYTLAKIGSKR 678 HEAT_PBS: domain 6 of 8, from 663 to 689: score 11.1, E = 2.5 CS HHHHHHHHHCCCSSHCCHHHHHHHHCT *->vRraAaraLgalgdpeAipaLleaLed<-* +R ++a+ L+++g+++A+ a ++aL+d gi|2544123 663 IRKSVAYTLAKIGSKRAVFACVKALND 689 HEAT: domain 4 of 4, from 705 to 740: score 5.2, E = 11 CS H HHCHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHSC *->e.ildellplllkllnDpdpeVReaAaeaLgalaevl<-* ++ l+ +l + l+ +++ VR+ Aa+aL ++ ++ gi|2544123 705 MgYE-LLVTILTQSLTIENAFVRDIAAKALEEINDQS 740 HEAT_PBS: domain 7 of 8, from 725 to 747: score 2.4, E = 50 CS HHHHHHHHHCCCSSHCCHHHHHHHHCT *->vRraAaraLgalgdpeAipaLleaLed<-* vR Aa+aL +++d + L ea + gi|2544123 725 VRDIAAKALEEIND----QSLTEADIN 747 HEAT_PBS: domain 8 of 8, from 789 to 815: score 15.4, E = 0.25 CS HHHHHHHHHCCCSSHCCHHHHHHHHCT *->vRraAaraLgalgdpeAipaLleaLed<-* aA+r Lg++g+p+ +p+L ++L d gi|2544123 789 RIDAAIRILGEIGNPDILPVLHDLLLD 815 Metallophos: domain 1 of 1, from 851 to 1099: score 54.5, E = 4.1e-13 CS EEEEEE-SETTBHHHH HHHHHHH H TTSEEEEESTBS *->mrilvigDlHggledl.........llllela.e.kpdlvlflGDlv m il+++DlH+ +d + +++ +l l + ++ ++ d+++ GD+ gi|2544123 851 MHILHLSDLHFSTPDQatlwstqlrLDLRRELnIsQLDALILSGDIA 897 CS STSSSHHHHHHHH HHHHHHTTTCEEEE--TTHHHHHHHHH drgppslevllll.....falklkapgpvylvrGNHDsdsgnsvy..... ++ +p++++ + ++ + + p ++ +v+GNHD + + ++ + gi|2544123 898 NYSTPEEYEAAAKflntlCQTFSLNPEQITIVPGNHDLNWKLAEEayqli 947 CS .................................................. ++++++++ ++++ + ++ + ++ + +++++++++ ++ + ++++ gi|2544123 948 drpkyngklidghyinvrdevirvrdesaykkrfdnfrqfyetikqkpyp 997 CS H HHHHHH .........................................w.eflell. +++ + ++ + + + ++ + +++++++ + + + + ++ gi|2544123 998 ldydqqytldylpeqnllilglnsawqldhhfksrasihvnAlINALDEi 1047 CS HHCEE ESSEEEEEESSSSSCC HHHHHH TTSSEEEEESSS lllla.lvdgkillvHgplsps.........leellk.ngvdlvirGHtH ++ ki++ H+pl ++ ++ + +++ ll g+ ++GH+H gi|2544123 1048 DTNSDyDNCLKIAVWHHPLDSPyqdriidqdFIGLLAvSGFRFFLHGHIH 1097 CS SE vp<-* + gi|2544123 1098 KA 1099 // -------------------------------------------------------------------------------- HMM-to-structure alignment: -------------------------------------------------------------------------------- gi|51247637|pdb|1TE4|A: domain 2 of 3, from 58 to 84: score 36.3, E = 0.00012 CS HHHHHHHHHCCCSSHCCHHHHHHHHCT *->vRraAaraLgalgdpeAipaLleaLed<-* +R aAa+ +g+++d++A+++L+++Led gi|5124763 58 IRGAAAWIIGNFQDERAVEPLIKLLED 84 -------------------------------------------------------------------------------- Domain acession : PF03958.9 Domain description : Secretin_N (Bacterial type II/III secretion system short domain) Gathering score : 29.5 -------------------------------------------------------------------------------- Example 4 of 7: Query sequence: gi|153842373|ref|ZP_01993497.1| Accession: [none] Description: 42.4 1.8e-06 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase (CMK)(4-(cytidine-5'-diphospho)-2-C-methyl-D-erythritol kinase) Scores for sequence family classification (score includes all domains): Model Description Score E-value N -------- ----------- ----- ------- --- GHMP_kinases_N GHMP kinases N terminal domain 70.4 6.4e-18 1 Secretin_N Bacterial type II/III secretion syste 42.4 1.7e-09 1 Secretin Bacterial type II and III secretion s 17.9 6e-08 1 Parsed for domains: Model Domain seq-f seq-t hmm-f hmm-t score E-value -------- ------- ----- ----- ----- ----- ----- ------- Secretin_N 1/1 50 116 .. 1 76 [] 42.4 1.7e-09 Secretin 1/1 118 328 .. 1 252 [] 17.9 6e-08 GHMP_kinases_N 1/1 272 330 .. 1 81 [] 70.4 6.4e-18 Alignments of top-scoring domains: Secretin_N: domain 1 of 1, from 50 to 116: score 42.4, E = 1.7e-09 *->trvipLkyasaeertlyrdqviPGllsaLkallg..llskrgrvtad +++i++++a a++ ++++++ ++ + ls+rg++t+d gi|1538423 50 SEIIKVNFAKASD-----------IAEMINGEGNisMLSERGSMTID 85 ertnslivsGppeyvelvrelieqlDvppsq<-* ertnsl+++ pe+++ +re+ie lD+p q gi|1538423 86 ERTNSLLIRELPENIAVIREIIESLDIPVKQ 116 Secretin: domain 1 of 1, from 118 to 328: score 17.9, E = 6e-08 *->lIearIvEvslsdlqeLGvnWgaanggggggtgggsgsgntg.na.. +IearIv +s++++ eLG++Wg+++ +g+ ++gg +++++ ++ + gi|1538423 118 QIEARIVTISEGNMDELGIRWGFTSINGNNTVGGSIENNLATiGLye 164 ...................l.gntaagtaglsggglligilgsgggrdld +++++++++++++ + ++ l++n+aa++++++++++++++lgs + +ld gi|1538423 165 gggdgegeeggdgvgiddfLnVNLAATNPNAASIAFQVAKLGS--DTLLD 212 allsALeqegkakilstPsilTldneeAsilVGqevPyvtgsgtdsangf ++lsAL+qe+ka+i+s+P+++T ++++A+i +G+e+Py+++s++ +a++ gi|1538423 213 LELSALQQESKAEIISSPRLITTNKKPAYIEQGTEIPYLESSSS-GATAL 261 atierkdvGvsLeVtPqvlddgrkrilLdisqevSslagsssgsggatne +++++ ++G +e + ++g+ ++gss+ gi|1538423 262 QNYAHCSFGAHIELHKVLPMGGG----------I--GGGSSN-------- 291 sntagvPiinkreinTtvlvkdGqtvvlGGLisdntsdsvskVPlLG... + +++++n L + n +d++ +L + gi|1538423 292 -AATTLVALNY-------------------LWQLNLTDDELAEIGLKlga 321 DIPllGaLFrstskqkekteLvvfITPrivr<-* D+P+ vr gi|1538423 322 DVPVF------------------------VR 328 GHMP_kinases_N: domain 1 of 1, from 272 to 330: score 70.4, E = 6.4e-18 CS EEEEEESSTTTSSSHHHHHHHHHHHHHHHHHTT-SGG.SEC...HHH *->dieiesniPvgaGLGSSaAlavAtllAlnelfglpeklavlpddske +ie+++ +P+g+G G+++++a++tl+Aln+l++l+ l +++ gi|1538423 272 HIELHKVLPMGGGIGGGSSNAATTLVALNYLWQLN-----L---TDD 310 CS HHHHHHHHHHHHHHHHHSS-.HCHHHHHHHHHCS eLaaarlalaaEneaahGvpGsGddvqaaslyGG<-* eL + +++ +G+dv ++++ G gi|1538423 311 EL----AEIGLK---------LGADV-PVFVRGF 330 // -------------------------------------------------------------------------------- HMM-to-structure alignment: -------------------------------------------------------------------------------- gi|223674029|pdb|3EZJ|A: domain 1 of 2, from 109 to 172: score 41.9, E = 2.7e-06 *->trvipLkyasaeertlyrdqviPGllsaLkallgllskrgrvtader t+v+p++++s++e l+ +L++++ + + g+v+ +++ gi|2236740 109 TKVVPVRNVSVRE-----------LAPILRQMI-DSAGSGNVVNYDP 143 tnslivsGppeyvelvrelieqlDvppsq<-* +n+++++G ++ ve++ e+i+++D ++ + gi|2236740 144 SNVIMLTGRASVVERLTEVIQRVDHAGNR 172 gi|223674029|pdb|3EZJ|A: domain 2 of 2, from 174 to 241: score 44.4, E = 4.8e-07 *->trvipLkyasaeertlyrdqviPGllsaLkallg......llskrgr +vipL +asa+e ++ +L +l ++++++++ + + + gi|2236740 174 EEVIPLDNASASE-----------IARVLESLTKnsgenqPATLKSQ 209 vtadertnslivsGppeyvelvrelieqlDvppsq<-* ++adertns+ivsG+p++ ++ r+li++l +s gi|2236740 210 IVADERTNSVIVSGDPATRDKMRRLIRRL---DSE 241 -------------------------------------------------------------------------------- Domain acession : PF07498.4 Domain description : Rho_N (Rho termination factor, N-terminal domain) Gathering score : 31 -------------------------------------------------------------------------------- Example 5 of 7: Query sequence: gi|156398391|ref|XP_001638172.1| Accession: [none] Description: 27.0 0.078 predicted protein [Nematostella vectensis]gi|156225290|gb|EDO46109.1| predicted protein [Nematostella vectensis] Scores for sequence family classification (score includes all domains): Model Description Score E-value N -------- ----------- ----- ------- --- Scramblase Scramblase 377.2 2.9e-110 1 Rho_N Rho termination factor, N-terminal do 27.0 7.5e-05 1 DNA_pol_B_2 DNA polymerase type B, organellar and -64.8 0.00013 1 Parsed for domains: Model Domain seq-f seq-t hmm-f hmm-t score E-value -------- ------- ----- ----- ----- ----- ----- ------- Scramblase 1/1 73 295 .. 1 260 [] 377.2 2.9e-110 Rho_N 1/1 325 365 .. 1 43 [] 27.0 7.5e-05 DNA_pol_B_2 1/1 947 1462 .. 1 531 [] -64.8 0.00013 Alignments of top-scoring domains: Scramblase: domain 1 of 1, from 73 to 295: score 377.2, E = 2.9e-110 *->msgplpppancPagLeyLaqldtilVhQqiEplEifTGfETkNRYvi m+ p ++pancP+gLeyL+ d++l+ Qq E+lE fTGfET+N+Y+i gi|1563983 73 MPLPPAAPANCPPGLEYLTMVDQLLIKQQVELLEAFTGFETNNKYKI 119 knvngqplyyamErGdfsiSnccaRQccGthRpFvmritDnfGneVltlk n+ gq++ +a+E+ ++cc+RQccG++RpF +i+Dn ++eV++l gi|1563983 120 TNNLGQQVFFAAED-----TDCCTRQCCGPSRPFDIKIMDNTQREVIHLT 164 RpfrCcsshlCCiiaCcpsclqeseithdyqapsGqtIGeVlqtWhlwrr Rp+rC+s C +p+clqe+e+ q+p+G+++G+ q W + + gi|1563983 165 RPLRCSS---CW----FPCCLQEVEV----QSPPGTVVGYCCQSWSICIP 203 nyelldkdgnqvllvegPgckcscCggdkdFpVktadgsevvGsIsRkWg +y+l+d++++++l++egP+c+ +gd++F V +adg+ vG++s++W+ gi|1563983 204 KYTLQDANRQTILQIEGPLCTFN-ICGDVEFQVLSADGQNQVGKVSKQWS 252 GlgrEaFTDADtfvVrFPlvdeaqklgdailveelvvkrDLdvklKAvLl Gl+ EaFTDAD+f+V+FP+ DLdvk+KAv++ gi|1563983 253 GLVKEAFTDADNFGVTFPM--------------------DLDVKMKAVII 282 gatFLIDFdyFEr<-* g++FLI ++ gi|1563983 283 GTAFLITGEDVSE 295 Rho_N: domain 1 of 1, from 325 to 365: score 27.0, E = 7.5e-05 *->eLknktlseLleiAkelGienvsrmRKqeLIFaILKaqaekgg<-* +Lk++++++L+++Ake Gi ++ mR eL+ a+ + gi|1563983 325 QLKDLKVKDLKALAKERGIPRYYWMRRDELVGAL--TNTSPPP 365 DNA_pol_B_2: domain 1 of 1, from 947 to 1462: score -64.8, E = 0.00013 *->kintelkyrnfipy.aHNllkFDgtfiLpnldkkkkske.l.sd.ki +n++ + +f p+ +HNl+++D + ++nl + ++ +++++++ gi|1563983 947 ACNLRFRAPKFFPVlFHNLSGYDSHLFVKNLGTSEGKINcIpNNeEK 993 kniikdkkiwklgiiikidfkykyikimvrDsylllptSLrklakafnle ++++++ ++ + + + + ++ i+++Ds+ + +SL+ l k + e gi|1563983 994 YISFTKQVVVDRFTNKEGKQVDVKRDIRFIDSFKFMSASLDSLVKNLPRE 1043 k................iqKGcfPYkfvnentllgsyeqdwpkggfPiek ++ + + ++++ + KG fPY+++ + l +++ + P e gi|1563983 1044 SfknltihykgeqlqllLRKGVFPYDWFCNFDQLDAIQ------LPPKEA 1087 ywk.....dfeeyiynk..eiwnilknkgnkydikketieYcknDvlvla + + +++d++e++y++ + +w+ +k + ++++ Y++ Dvl la gi|1563983 1088 FYStlndtDISEEDYQHaqKVWETFK----MSTMRDYHDLYLESDVLLLA 1133 elvakllesfknfiyeefninstsfntftRPTissl....shaiFkqnyf ++ e f + + e++++ + +++ T ++l + +++i + + gi|1563983 1134 ----DVFENFRDVCLENYGL---DPAWYY--TAPGLawdaALKITRVEL- 1173 eYreekqkelldnkipapsk...............relyn..yiRkayyG +l + ++ + +++ +++ + +++++ +n++y+R+ gi|1563983 1174 ---------ELLTDCDMLLMfeegirggvsmistrHSKANnpYMREY--- 1211 GRcevfkpgiynDmepiyvYDvNSlYPsaMknhpmPyGkPlyvkgkalki ++ p y i + D N lY aM +p+P++ ++++++ ++ gi|1563983 1212 ---DPNLPTKY-----ITYLDANNLYGWAMS-KPLPTHGFRWMTD--QEL 1250 keliygffrgeikidvfdpklkpg..........i.fiParpptklllld ke+ + ++ ++v + ++++++++ + ++ i + + kl+ + gi|1563983 1251 KEWGRHPCV----VEVDMAYPRHLhdshddyplaPeSIKINKVGKLI-PN 1295 plgpfcgrkggrLwytneeLkyavstgiDiiTLhyrievikgykfdektt + + + + e Lk+ +s+g + +v++g+ +e+++ gi|1563983 1296 LNDKTKY------VVHHETLKLYESLG------LKVTKVHRGIT-FEESG 1332 vFkeyiclcdeyysikiaakekadkeknqtiRsiaKlLlNsLYGrFatkp k yi d s++ +a++ +k+ + Kl++Ns +G+ ++ gi|1563983 1333 WLKTYI---DLNTSLRAKATNDFEKD-------FFKLMNNSVFGKTMENI 1372 e.sdkkkivfsedikslllltgeeeelkeisngkvlikskiklettlsnd +++ + ++ e+ +l+ + + ++++ + ++ + i ++++ + gi|1563983 1373 RnRVDIRLITNEKQARKLISKPNYKHRTIFCENLAAIHMRKTRLVF---- 1418 dnlsdifipnstatislarsglaqlsaalydpieelyyidtdsi<-* ++ +++ +++ + + +l + +++y ++ +l +dtds+ gi|1563983 1419 NKPVYLGMCILDLSKNLMYDFHYGYVKPKYGDKAKLLFTDTDSL 1462 // Example 6 of 7: Query sequence: gi|225010175|ref|ZP_03700647.1| Accession: [none] Description: 26.9 0.088 ribosomal protein L21 [Flavobacteria bacterium MS024-3C]gi|225005654|gb|EEG43604.1| ribosomal protein L21 [Flavobac Scores for sequence family classification (score includes all domains): Model Description Score E-value N -------- ----------- ----- ------- --- Ribosomal_L21p Ribosomal prokaryotic L21 protein 165.2 1.9e-46 1 Rho_N Rho termination factor, N-terminal dom 26.9 8.4e-05 1 Parsed for domains: Model Domain seq-f seq-t hmm-f hmm-t score E-value -------- ------- ----- ----- ----- ----- ----- ------- Ribosomal_L21p 1/1 1 96 [. 1 96 [] 165.2 1.9e-46 Rho_N 1/1 140 173 .. 1 43 [] 26.9 8.4e-05 Alignments of top-scoring domains: Ribosomal_L21p: domain 1 of 1, from 1 to 96: score 165.2, E = 1.9e-46 *->MYAIIetGGKQykVeeGdvikVEKldaevGdkiefdkVLlvggdgkv MYAI+e+ G Q+kV+++++++V++l+ ++G+k++f V+l+ ++ ++ gi|2250101 1 MYAIVEIAGQQFKVAKDQKVFVNRLPEAEGEKVQFSNVMLLEDGKNI 47 kiGkPyveGAkVtAeVlehgrgkKvivfKykrrKnyrrkqGHRQpyTrv< +iG+P +eGA V+A+V++h++g+KvivfK+krrK+yr k+GHRQ++ ++ gi|2250101 48 TIGAPAIEGAAVEAKVIKHLKGDKVIVFKKKRRKGYRVKNGHRQYLSEI 96 -* gi|2250101 - - Rho_N: domain 1 of 1, from 140 to 173: score 26.9, E = 8.4e-05 *->eLknktlseLleiAkelGienvsrmRKqeLIFaILKaqaekgg<-* +L +kt++eL+++Ak Gie++s m+K eLI a+ gi|2250101 140 DLSSKTVAELKDMAKAKGIEGISAMKKAELIAAL--------- 173 // -------------------------------------------------------------------------------- HMM-to-structure alignment: -------------------------------------------------------------------------------- gi|4929861|pdb|1A8V|A: domain 1 of 1, from 8 to 50: score 78.6, E = 2.3e-17 *->eLknktlseLleiAkelGienvsrmRKqeLIFaILKaqaekgg<-* eLkn ++seL + + +G+en +rmRKq++IFaILK++a++g+ gi|4929861 8 ELKNTPVSELITLGENMGLENLARMRKQDIIFAILKQHAKSGE 50 -------------------------------------------------------------------------------- Domain acession : PF07554.5 Domain description : FIVAR (Uncharacterised Sugar-binding Domain) Gathering score : 26.8 -------------------------------------------------------------------------------- Example 7 of 7: Query sequence: gi|225019784|ref|ZP_03708976.1| Accession: [none] Description: 34.6 0.00042 hypothetical protein CLOSTMETH_03737 [Clostridium methylpentosum DSM 5476]gi|224947479|gb|EEG28688.1| hypothetica Scores for sequence family classification (score includes all domains): Model Description Score E-value N -------- ----------- ----- ------- --- CotH CotH protein 119.3 1.2e-32 1 FIVAR Uncharacterised Sugar-binding Domain 88.1 3.2e-23 3 Big_4 Bacterial Ig-like domain (group 4) 72.1 2e-18 4 Glug The GLUG motif 37.5 5.3e-08 3 Parsed for domains: Model Domain seq-f seq-t hmm-f hmm-t score E-value -------- ------- ----- ----- ----- ----- ----- ------- CotH 1/1 190 537 .. 1 501 [] 119.3 1.2e-32 Glug 1/3 661 687 .. 1 38 [] 7.2 6.2 Glug 2/3 693 722 .. 1 38 [] 12.1 1.7 Glug 3/3 731 758 .. 1 38 [] 18.2 0.034 Big_4 1/4 860 934 .. 1 62 [] 19.1 0.0026 Big_4 2/4 938 1022 .. 1 62 [] 12.3 0.014 Big_4 3/4 1030 1112 .. 1 62 [] 12.0 0.015 Big_4 4/4 1139 1203 .. 1 62 [] 28.7 2.4e-05 FIVAR 1/3 1230 1285 .. 1 64 [] 34.6 4e-07 FIVAR 2/3 1302 1353 .. 1 64 [] 27.0 7.6e-05 FIVAR 3/3 1369 1423 .. 1 64 [] 26.5 0.00011 Alignments of top-scoring domains: CotH: domain 1 of 1, from 190 to 537: score 119.3, E = 1.2e-32 *->IryRGnsTLqglltgasvrdspKKSFklkfdkyedgekedaklklrt +++RGn T + +pKK++ +k+d ++d+ gi|2250197 190 VKGRGNTT----------WGLPKKPYQIKLDSKQDI----------- 215 glfqglrgakeliLnanfsDpSlmrnkLafdlfsdlgIevYYptPrasfv +g+++ k+++L+an+ D+Sl+rnk a+dl++dlg + ++P+++fv gi|2250197 216 ---LGMGKNKTWVLLANYGDRSLIRNKIAYDLANDLGMD---YSPQSQFV 259 nvfiNGeywGvYllvEqidekylkkrnfgs.........sddgvlykade +vf+NG+y G Y+l E + ++++ +++ +++++++ + +g+l + d gi|2250197 260 DVFMNGQYLGNYQLSEKTEVG-TNRVEINDleddtsgeiT-GGYLLEYDR 307 ltrdgadltydsdddteyktklengyefkqgkedddkD.lqeeikkkyls l + ++t + + +++++k++++ +++q ++++y++ gi|2250197 308 L---------AYSEATWITGS--QTHMPITVKSPEFATpEQKAYIQEYVN 346 dlikflntas.deefeaedyYFqlekylDVdsllrylavnnllvNsDgyg d+++ ++ ++++ ++ ++ + +y+D s+ + + vn++++N D gi|2250197 347 DMENAIFGENgFNDKGKH-----YTEYIDAASFDKLYWVNEIVKNGDY-- 389 gnvfvsnyylykdGkyy........YGLgetGkfkiiPlWDfdlafgrtg + ++y+ykd k ++++++ YG +P+WDfd+a+++++ gi|2250197 390 ---SYGSTYMYKD-KDKspeepslmYG---------GPVWDFDIAMANAV 426 gggpmeadgfliggggggrvneegskeiegtAteeefgGnfgfgaadefg + + ++ + ++ gi|2250197 427 ANAGATT---PDRQQNLASPE----------------------------- 444 enfgfdenrdsdGkrrfagddfngirdafegggesdasdlgldnlrglde gi|2250197 - -------------------------------------------------- - lngdfeeggvnrdrrGnssnGnnpLiarL..LddPpeFrki.Ykerlkei ++ L+++ +++++ + F +++Y e+ ke gi|2250197 445 ---------------------GWWLRTTAdgIAS-ELFMHQdYRELNKEM 472 lenvfneell.iiekidsiaelIrpyvkvdpdrfgivedlklttfeeq.y +e+ ++ l + +k++++a++Ir +++++ r ++ +e + gi|2250197 473 YETTVRPLLQaLPQKAEEYAAQIRSSADMNFVR---------WDVLEHgH 513 tkpseenvtffenEveRHAmyiknyidk<-* +++++++ t+++ Ev +k+y+ k gi|2250197 514 QWATPNTATTYDGEVA----FVKDYLQK 537 Glug: domain 1 of 3, from 661 to 687: score 7.2, E = 6.2 *->gnsavGGLvGgaegggrGeqenpgsienctatgnvtvt<-* ++ + ++vG+ ++ + + nc+ ++ +vt gi|2250197 661 TAQDAAAVVGRMSD---------SKVLNCSNSA--SVT 687 Glug: domain 2 of 3, from 693 to 722: score 12.1, E = 1.7 *->gnsavGGLvGgae..gggrGeqenpgsienctatgnvtvt<-* g++ +GG+vG+a +++++ si nc+ tg t++ gi|2250197 693 GHQMTGGVVGHAVspTTN--------SIVNCYNTG--TIS 722 Glug: domain 3 of 3, from 731 to 758: score 18.2, E = 0.034 *->gnsavGGLvGgaegggrGeqenpgsienctatgnvtvt<-* + +vGG++G+++g+ + + nc+ tg +vt gi|2250197 731 SCRGVGGVAGHISGT--------TPLVNCYNTG--KVT 758 Big_4: domain 1 of 4, from 860 to 934: score 19.1, E = 0.0026 *->iepvsvttavGeap................ltLPstVtvyysdGtvs + +++ ++ + ++ ++ + +++++ + l LP+tV v +s+ gi|2250197 860 VLTPEQDVPAITVVglletlnvdngtefsaLPLPTTVQVSLSNN--K 904 teelkVtWdavdvdqyakaGtfeVtGtVeGt<-* t +++VtW + d +a+ G+++ tGt+e + gi|2250197 905 TMDVPVTWAEGNYD-SATQGSYTLTGTIEES 934 Big_4: domain 2 of 4, from 938 to 1022: score 12.3, E = 0.014 *->iepvsvttavGeap...........................ltLPst + p ++t+ + ++++ + ++ + +++ +++ + ++ + l LP+ gi|2250197 938 TNPQNLTASITVNVsapalpslvsitspapktveygtvydaLGLPAG 984 VtvyysdGtvsteelkVtWd.avdvdqyakaGtfeVtGtVeGt<-* V ++s+G + ++V W++ d + ++Gt++ tG +e + gi|2250197 985 VMITLSNG--KSTVHNVNWTgHYDGN---TPGTYTLTGVLEAI 1022 Big_4: domain 3 of 4, from 1030 to 1112: score 12.0, E = 0.015 *->iepvsvttavGeap.........................ltLPstVt svt++v e+p + ++ ++ ++ ++ + + +++ ++l+LP Vt gi|2250197 1030 NLTASVTITVKEKPveiptvtsvetlepitveygtpfdsLDLPVGVT 1076 vyysdGtvsteelkVtWdavdvdqyakaGtfeVtGtVeGt<-* v +sdG +t +V W+ d d + +Gt++ tGt++ + gi|2250197 1077 VGLSDG--TTGLATVKWS-GDYD-GNAPGTYTLTGTLDEV 1112 Big_4: domain 4 of 4, from 1139 to 1203: score 28.7, E = 2.4e-05 *->iepvsvttavGeap......ltLPstVtvyysdGtvsteelkVtWda ie v ta +a++++ + l LPstV v++s+ +t+ +V+W+a gi|2250197 1139 IESVGTLTAKTVAFgtpfdaLSLPSTVAVVLSNQ--ETVQANVIWSA 1183 vdvdqyakaGtfeVtGtVeGt<-* +aG+++ tG+++++ gi|2250197 1184 EGYL-ADQAGSYTLTGMIADS 1203 FIVAR: domain 1 of 3, from 1230 to 1285: score 34.6, E = 4e-07 CS XHHHHHHHH.HTHHHHHTSHHH...HTS-HHHHHHHHHHHHHHHHHH *->akkaLkeainnkaetlkstslydnYsnytteskaalnealtaAkavL +k+ Lk+ + + a++ ++ ++y + t+ ++ + +a+++A av+ gi|2250197 1230 NKSVLKTVL-DYAQAAMAGEEY---VGAITSVQKSFAAAYDHALAVY 1272 CS --.-------HHHHHHH nedennnvatqeevdaa<-* ++ ++ atq+e+daa gi|2250197 1273 DN-SD---ATQSEIDAA 1285 FIVAR: domain 2 of 3, from 1302 to 1353: score 27.0, E = 7.6e-05 CS XHHHHHHHH.HTHHHHHTSHHH...HTS-HHHHHHHHHHHHHHHHHH *->akkaLkeainnkaetlkstslydnYsnytteskaalnealtaAkavL + ++L++++ ++a l+ s+y ++ + ++++altaA+++L gi|2250197 1302 DEAQLETLV-AQALGLDL-------SQYVAAGQPEFTAALTAAQELL 1340 CS --.-------HHHHHHH nedennnvatqeevdaa<-* ++ ++ a q+e+daa gi|2250197 1341 AT-GD---AMQDEIDAA 1353 FIVAR: domain 3 of 3, from 1369 to 1423: score 26.5, E = 0.00011 CS XHHHHHHHH.HTHHHHHTSHHH...HTS-HHHHHHHHHHHHHHHHHH *->akkaLkeainnkaetlkstslydnYsnytteskaalnealtaAkavL +k+ L +++++++++ s+ t+ s++a+n+a++aA++v+ gi|2250197 1369 DKALLGQTLSQAYSINL--------SEFTPLSVEAFNSAKQAAEEVY 1407 CS --.-------HHHHHHH nedennnvatqeevdaa<-* ++ + +v +q+ vdaa gi|2250197 1408 QD-ASLSVEDQAKVDAA 1423 // -------------------------------------------------------------------------------- HMM-to-structure alignment: -------------------------------------------------------------------------------- gi|145579143|pdb|2DGJ|A: domain 1 of 2, from 2 to 60: score 27.2, E = 0.07 CS XHHHHHHHH.HTHHHHHTSHHH...HTS-HHHHHHHHHHHHHHHHHH *->akkaLkeainnkaetlkstslydnYsnytteskaalnealtaAkavL a +L+ i + +++k+t++y ++ +++k+a+++a +aAka+L gi|1455791 2 AXGQLQHGI-DDENATKQTQKY---RDAEQSKKTAYDQAVAAAKAIL 44 CS --.-------HHHHHHH nedennnvatqeevdaa<-* n+ ++++++++ vd a gi|1455791 45 NK-QTGSNSDKAAVDRA 60 gi|145579143|pdb|2DGJ|A: domain 2 of 2, from 128 to 186: score 37.0, E = 8.1e-05 CS XHHHHHHHH.HTHHHHHTSHHH...HTS-HHHHHHHHHHHHHHHHHH *->akkaLkeainnkaetlkstslydnYsnytteskaalnealtaAkavL a + L+ ai n +++ ++++y ++++++ +a+++a taA+ +L gi|1455791 128 AXNSLQGAI-NDKDATLRNQNY---LDADESKRNAYTQAVTAAEGIL 170 CS --.-------HHHHHHH nedennnvatqeevdaa<-* n+ ++ ++++++vd+a gi|1455791 171 NK-QTGGNTSKADVDNA 186 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