RPS-BLAST 2.2.22 [Sep-27-2009] Database: CddB 21,608 sequences; 5,994,473 total letters Searching..................................................done Query= gi|254780332|ref|YP_003064745.1| replicative DNA helicase [Candidatus Liberibacter asiaticus str. psy62] (504 letters) >gnl|CDD|181676 PRK09165, PRK09165, replicative DNA helicase; Provisional. Length = 497 Score = 817 bits (2113), Expect = 0.0 Identities = 313/494 (63%), Positives = 391/494 (79%), Gaps = 3/494 (0%) Query: 8 IILSIPKEDSSQYRESPNNIEAEQALLGAILVNNEAFYRVSDFLKPLHFFEAIHQKIFEI 67 ++ P + RE P+NIEAEQALLGAIL+NN A RVSDFLKP HFFE +HQ+I+E Sbjct: 6 VLDLAPDAAEPEIRELPHNIEAEQALLGAILINNRALDRVSDFLKPEHFFEPLHQRIYEA 65 Query: 68 MGKLVHMGKTANPVTVKTFLSDQDMLGELTVPQYLARLASEAVSIINTEDYGRIIYGLAL 127 + K++ GK A PVT+KTFL + + LGEL QYLA+LA+EAV+IIN DYGRIIY LAL Sbjct: 66 IAKIIRKGKLATPVTLKTFLENDEALGELGGVQYLAKLATEAVTIINARDYGRIIYDLAL 125 Query: 128 RRTLITIGEEMVNAAYEASLDKSPSIQIEEAERKLFHLAENGRYDGGFHTFSDAMTVAID 187 RR LI IGE++VN AY+A +D +P QIE+AE+KL+ LAE GRY+GGF +F A+T A+D Sbjct: 126 RRELINIGEDVVNNAYDAPVDVAPQEQIEDAEQKLYELAETGRYEGGFQSFGTAITEAVD 185 Query: 188 MAGQAFNRDGRLAGVSTGIQTLDKQMGGLQRSDLIIIAGRPGMGKTSLATNIAYNVADAY 247 MA AF RDG L+G+STG++ LD ++GGL SDLII+AGRP MGKT+LATNIA+N A AY Sbjct: 186 MANAAFKRDGHLSGISTGLRDLDSKLGGLHPSDLIILAGRPSMGKTALATNIAFNAAKAY 245 Query: 248 KAELQTDGSYKTINGGIVGFYSLEMSSEQLATRIISEQTEVPSSKIRRGELTRPDYEKIV 307 + E Q DGS K +NGG+VGF+SLEMS+EQLATRI+SEQ+E+ SSKIRRG+++ D+EK+V Sbjct: 246 RREAQPDGSKKAVNGGVVGFFSLEMSAEQLATRILSEQSEISSSKIRRGKISEEDFEKLV 305 Query: 308 ACSQVMQKLPLYIDQTGGISMSQLATRARRLKRQRGLDLLIVDYIQLMT-TSKKIEENRV 366 SQ +QKLPLYID T +S+SQL RARRLKRQ GLDLL+VDY+QL+ +SK+ +NRV Sbjct: 306 DASQELQKLPLYIDDTPALSISQLRARARRLKRQHGLDLLVVDYLQLIRGSSKRSSDNRV 365 Query: 367 LEITGITMALKALAKELNIPIIALSQLSRQVENRDNKRPQLSDLRESGSIEQDADVVLFV 426 EI+ IT LKALAKELNIP+IALSQLSRQVE RD+KRPQLSDLRESGSIEQDADVV+FV Sbjct: 366 QEISEITQGLKALAKELNIPVIALSQLSRQVEQRDDKRPQLSDLRESGSIEQDADVVMFV 425 Query: 427 IRDEYYIRNKEPTNKDDILAYTKWQEDLKRVKGIADIIIAKQRHGPTGTVTLAFQAEFTR 486 R+EYY++ KEP + +WQE +++V A++IIAKQRHGPTGTV LAF++EFTR Sbjct: 426 YREEYYLKRKEPREGTP--KHEEWQEKMEKVHNKAEVIIAKQRHGPTGTVKLAFESEFTR 483 Query: 487 FSALSDSSYQTGEH 500 F L+D S E+ Sbjct: 484 FGDLADRSQLPEEY 497 >gnl|CDD|161985 TIGR00665, DnaB, replicative DNA helicase. This model describes the helicase DnaB, a homohexameric protein required for DNA replication. The homohexamer can form a ring around a single strand of DNA near a replication fork. An intein of > 400 residues is found at a conserved location in DnaB of Synechocystis PCC6803, Rhodothermus marinus (both experimentally confirmed), and Mycobacterium tuberculosis. The intein removes itself by a self-splicing reaction. The seed alignment contains inteins so that the model built from the seed alignment will model a low cost at common intein insertion sites. Length = 434 Score = 602 bits (1555), Expect = e-173 Identities = 220/469 (46%), Positives = 297/469 (63%), Gaps = 37/469 (7%) Query: 24 PNNIEAEQALLGAILVNNEAFYRVSDFLKPLHFFEAIHQKIFEIMGKLVHMGKTANPVTV 83 P+NIEAEQA+LGAIL++NEA V++ LKP F+ HQ IF+ + L G+ + VTV Sbjct: 3 PHNIEAEQAVLGAILLDNEAIDDVAEILKPEDFYRPAHQLIFQAILDLYEKGEPIDLVTV 62 Query: 84 KTFLSDQDMLGELTVPQYLARLASEAVSIINTEDYGRIIYGLALRRTLITIGEEMVNAAY 143 K L L E+ YLA LA S N E Y I+ A+ R LI G E+V AY Sbjct: 63 KEELEKDGKLEEVGGLAYLAELADNVPSAANIEYYAEIVKEKAILRRLIEAGTEIVELAY 122 Query: 144 EASLDKSPSIQIEEAERKLFHLAENGRYDGGFHTFSDAMTVAIDMAGQAFNRDGRLAGVS 203 + D ++EAE+K+F +AE+ R GGF + + + ++ + + R G + GV Sbjct: 123 DPEGD--VEELLDEAEQKIFEIAES-RTSGGFKSIKEILKDTVEEIEELYERGGGITGVP 179 Query: 204 TGIQTLDKQMGGLQRSDLIIIAGRPGMGKTSLATNIAYNVADAYKAELQTDGSYKTINGG 263 TG LDK GLQ SDLII+A RP MGKT+ A NIA N A G Sbjct: 180 TGFTDLDKLTSGLQPSDLIILAARPSMGKTAFALNIAENAA--------------IKEGK 225 Query: 264 IVGFYSLEMSSEQLATRIISEQTEVPSSKIRRGELTRPDYEKIVACSQVMQKLPLYIDQT 323 V F+SLEMS+EQLA R++S ++ V S K+R G+L+ D+EK+ + + + + PLYID T Sbjct: 226 PVAFFSLEMSAEQLAMRMLSSESRVDSQKLRTGKLSDEDWEKLTSAAGKLSEAPLYIDDT 285 Query: 324 GGISMSQLATRARRLKRQRGLDLLIVDYIQLMTTSKKIEENRVLEITGITMALKALAKEL 383 G+++++L +ARRLKR+ GL L+++DY+QLM+ S + ENR E++ I+ +LKALAKEL Sbjct: 286 PGLTITELRAKARRLKREHGLGLIVIDYLQLMSGSGR-SENRQQEVSEISRSLKALAKEL 344 Query: 384 NIPIIALSQLSRQVENRDNKRPQLSDLRESGSIEQDADVVLFVIRDEYYIRNKEPTNKDD 443 N+P+IALSQLSR VE R++KRPQLSDLRESGSIEQDAD+V+F+ RDEYY N + + Sbjct: 345 NVPVIALSQLSRSVEQREDKRPQLSDLRESGSIEQDADIVMFLYRDEYY--NPDSED--- 399 Query: 444 ILAYTKWQEDLKRVKGIADIIIAKQRHGPTGTVTLAFQAEFTRFSALSD 492 KGIA+IIIAKQR+GPTGTV LAFQ E+TRF L+ Sbjct: 400 --------------KGIAEIIIAKQRNGPTGTVKLAFQGEYTRFENLAR 434 >gnl|CDD|180232 PRK05748, PRK05748, replicative DNA helicase; Provisional. Length = 448 Score = 417 bits (1075), Expect = e-117 Identities = 197/482 (40%), Positives = 279/482 (57%), Gaps = 37/482 (7%) Query: 16 DSSQYRESPNNIEAEQALLGAILVNNEAFYRVSDFLKPLHFFEAIHQKIFEIMGKLVHMG 75 + + R P +IEAEQA+LGAI ++ +A VS++L P F+ H+ IF M KL G Sbjct: 3 EVAALRVPPQSIEAEQAVLGAIFLDPDALITVSEYLSPDDFYRHAHRLIFRAMLKLSDRG 62 Query: 76 KTANPVTVKTFLSDQDMLGELTVPQYLARLASEAVSIINTEDYGRIIYGLALRRTLITIG 135 + + VTV L DQ L E+ YLA LA+ + N E Y +I+ A+ R LI Sbjct: 63 EPIDVVTVTEILDDQGDLEEVGGLSYLAELANSVPTAANIEYYAKIVAEKAMLRRLIRTA 122 Query: 136 EEMVNAAYEASLDKSPSIQIEEAERKLFHLAENGRYDGGFHTFSDAMTVAIDMAGQAFNR 195 E+ N AYE D + I ++EAE+K+F ++E R GF D + A D N+ Sbjct: 123 TEIANDAYEPE-DDADEI-LDEAEKKIFEVSER-RNKSGFKNIKDVLVKAYDRIEMLHNQ 179 Query: 196 DGRLAGVSTGIQTLDKQMGGLQRSDLIIIAGRPGMGKTSLATNIAYNVADAYKAELQTDG 255 G + G+ TG LDK GLQ +DLII+A RP +GKT+ A NIA NVA +TD Sbjct: 180 TGDITGIPTGFTDLDKMTSGLQPNDLIIVAARPSVGKTAFALNIAQNVA------TKTDK 233 Query: 256 SYKTINGGIVGFYSLEMSSEQLATRIISEQTEVPSSKIRRGELTRPDYEKIVACSQVMQK 315 + V +SLEM +E L R++ + + + ++R G+LT D+ K+ + Sbjct: 234 N--------VAIFSLEMGAESLVMRMLCAEGNIDAQRLRTGQLTDDDWPKLTIAMGSLSD 285 Query: 316 LPLYIDQTGGISMSQLATRARRLKRQR-GLDLLIVDYIQLMTTSKKIEENRVLEITGITM 374 P+YID T GI ++++ R RRL ++ GL L+++DY+QL+ S + ENR E++ I+ Sbjct: 286 APIYIDDTPGIKVTEIRARCRRLAQEHGGLGLILIDYLQLIQGSGRSGENRQQEVSEISR 345 Query: 375 ALKALAKELNIPIIALSQLSRQVENRDNKRPQLSDLRESGSIEQDADVVLFVIRDEYYIR 434 +LKALAKEL +P+IALSQLSR VE R +KRP +SD+RESGSIEQDAD+V F+ RD+YY Sbjct: 346 SLKALAKELKVPVIALSQLSRGVEQRQDKRPVMSDIRESGSIEQDADIVAFLYRDDYY-- 403 Query: 435 NKEPTNKDDILAYTKWQEDLKRVKGIADIIIAKQRHGPTGTVTLAFQAEFTRFSALSDSS 494 ++E N K +IIIAKQR+GP GTV LAFQ E+ +F L+ Sbjct: 404 DEETEN-----------------KNTIEIIIAKQRNGPVGTVELAFQKEYNKFVNLARRE 446 Query: 495 YQ 496 Sbjct: 447 ED 448 >gnl|CDD|132639 TIGR03600, phage_DnaB, phage replicative helicase, DnaB family, HK022 subfamily. Members of this family are phage (or prophage-region) homologs of the bacterial homohexameric replicative helicase DnaB. Some phage may rely on host DnaB, while others encode their own verions. This model describes the largest phage-specific clade among the close homologs of DnaB, but there are, or course, other DnaB homologs from phage that fall outside the scope of this model. Length = 421 Score = 360 bits (926), Expect = e-100 Identities = 174/459 (37%), Positives = 262/459 (57%), Gaps = 42/459 (9%) Query: 26 NIEAEQALLGAILVNNEAFYRVSDFLKPLHFFEAIHQKIFEIMGKLVHMGKTANPVTVKT 85 +IEAEQA+LG +L++N+ RV LKP HF+ H+ IFE M + + +P+T+ Sbjct: 1 SIEAEQAVLGGLLLDNDFIERVMAILKPEHFYSQDHRIIFEAMLDMFAENRPVDPLTLAD 60 Query: 86 FLSDQDMLGELTVPQYLARLASEAVSIINTEDYGRIIYGLALRRTLITIGEEMVNAAYEA 145 L + ++ YLA +++ S N Y RI+ A R LI + +++ A + Sbjct: 61 KLEAEGEAEKVGGLAYLAEISNNTPSAANISSYARIVREKAKERKLIAACQRIIDLAC-S 119 Query: 146 SLDKSPSIQIEEAERKLFHLAENGRYDG---GFHTFSDAMTVAIDMAGQAFNRDGRLAGV 202 ++ ++EEA+ L L G DG GF TF + + + + FN G L G+ Sbjct: 120 DGGQTAEQKVEEAQAALLAL--TGMSDGQERGFVTFGEVLEDVVRDLDKRFNPKGELTGL 177 Query: 203 STGIQTLDKQMGGLQRSDLIIIAGRPGMGKTSLATNIAYNVADAYKAELQTDGSYKTING 262 STG+ LD+ GL + DLI+I RP MGKT+LA NIA NVA G Sbjct: 178 STGLPKLDRLTNGLVKGDLIVIGARPSMGKTTLALNIAENVALR--------------EG 223 Query: 263 GIVGFYSLEMSSEQLATRIISEQTEVPSSKIRRGELTRPDYEKIVACSQVMQKLPLYIDQ 322 V F+SLEMS+EQL R+++ ++ + + IR G D+ +++ + + LYID Sbjct: 224 KPVLFFSLEMSAEQLGERLLASKSGINTGNIRTGRFNDSDFNRLLNAVDRLSEKDLYIDD 283 Query: 323 TGGISMSQLATRARRLKRQ-RGLDLLIVDYIQLMTTSKKIEENRVLEITGITMALKALAK 381 TGG++++Q+ + ARR+KR+ GLDL++VDYIQLM ++ +R E+ GI+ LKALAK Sbjct: 284 TGGLTVAQIRSIARRIKRKKGGLDLIVVDYIQLMAPTRG--RDRNEELGGISRGLKALAK 341 Query: 382 ELNIPIIALSQLSRQVENRDNKRPQLSDLRESGSIEQDADVVLFVIRDEYYIRNKEPTNK 441 EL++P++ L+QL+R E R +KRP +SDLR+SG+IEQDADV+ + R+ YY + P Sbjct: 342 ELDVPVVLLAQLNRGSEKRTDKRPIMSDLRDSGAIEQDADVIGLIHREGYYDAREPPA-- 399 Query: 442 DDILAYTKWQEDLKRVKGIADIIIAKQRHGPTGTVTLAF 480 G+A++I+AK RHGPTGTV L F Sbjct: 400 -----------------GVAELILAKNRHGPTGTVELLF 421 >gnl|CDD|181111 PRK07773, PRK07773, replicative DNA helicase; Validated. Length = 886 Score = 323 bits (829), Expect = 7e-89 Identities = 141/419 (33%), Positives = 221/419 (52%), Gaps = 22/419 (5%) Query: 10 LSIPKEDSSQY----RESPNNIEAEQALLGAILVNNEAFYRVSDFLKPLHFFEAIHQKIF 65 L+ + S R+ P ++ AEQ++LG +L++ EA RV + L+P F+ HQ I+ Sbjct: 7 LAPGMDSSPPSEDYGRQPPQDLAAEQSVLGGMLLSKEAIARVLERLRPGAFYRPAHQNIY 66 Query: 66 EIMGKLVHMGKTANPVTVKTFLSDQDMLGELTVPQYLARLASEAVSIINTEDYGRIIYGL 125 + + L G+ A+ VTV L + +L + YL L S + N + Y RI+ Sbjct: 67 DAILDLYGRGEPADLVTVAAELDRRGLLERIGGAPYLHTLISTVPTAANADYYARIVAEK 126 Query: 126 ALRRTLITIGEEMVNAAYEASLDKSPSIQIEEAERKLFHLAENGRYDGGFHTFSDAMTVA 185 AL R LI G +V Y D + ++ A+ +++ + + R F D + Sbjct: 127 ALLRRLIEAGTRIVQYGYAEGAD-VAEV-VDRAQAEIYDVTDR-RLSEDFVALEDLLQPT 183 Query: 186 IDMAGQAFNRDGRLAGVSTGIQTLDKQMGGLQRSDLIIIAGRPGMGKTSLATNIAYNVAD 245 D + G GV TG LD GL LII+A RP MGKT+ + A N A Sbjct: 184 FDEIDAIASSGGLARGVPTGFTELDAMTNGLHPGQLIIVAARPSMGKTTFGLDFARNCAI 243 Query: 246 AYKAELQTDGSYKTINGGIVGFYSLEMSSEQLATRIISEQTEVPSSKIRRGELTRPDYEK 305 ++ V +SLEMS EQL R++S + ++ S +R G ++ D+ + Sbjct: 244 RHRLA--------------VAIFSLEMSKEQLVMRLLSAEAKIKLSDMRSGRMSDDDWTR 289 Query: 306 IVACSQVMQKLPLYIDQTGGISMSQLATRARRLKRQRGLDLLIVDYIQLMTTSKKIEENR 365 + + + P++ID T +++ ++ +ARRL+++ L L++VDY+QLMT+ KK ENR Sbjct: 290 LARAMGEISEAPIFIDDTPNLTVMEIRAKARRLRQEANLGLIVVDYLQLMTSGKKY-ENR 348 Query: 366 VLEITGITMALKALAKELNIPIIALSQLSRQVENRDNKRPQLSDLRESGSIEQDADVVL 424 E++ I+ LK LAKEL +P++ALSQLSR VE R +KRP LSDLRESG + D ++ Sbjct: 349 QQEVSEISRHLKLLAKELEVPVVALSQLSRGVEQRTDKRPMLSDLRESGCLTGDTLILR 407 Score = 80.6 bits (199), Expect = 1e-15 Identities = 33/79 (41%), Positives = 44/79 (55%), Gaps = 19/79 (24%) Query: 415 SIEQDADVVLFVIRDEYYIRNKEPTNKDDILAYTKWQEDLKRVKGIADIIIAKQRHGPTG 474 SIEQDADVV+ + R +YY + + G A+ I+AK R+GPTG Sbjct: 827 SIEQDADVVILLYRPDYY----DRDDPR---------------GGEAEFIVAKHRNGPTG 867 Query: 475 TVTLAFQAEFTRFSALSDS 493 TVTLAFQ +RF+ L+ S Sbjct: 868 TVTLAFQLHLSRFANLARS 886 >gnl|CDD|180791 PRK07004, PRK07004, replicative DNA helicase; Provisional. Length = 460 Score = 322 bits (827), Expect = 1e-88 Identities = 182/471 (38%), Positives = 267/471 (56%), Gaps = 39/471 (8%) Query: 21 RESPNNIEAEQALLGAILVNNEAFYRVSDFLKPLHFFEAIHQKIFEIMGKLVHMGKTANP 80 + P++IEAEQ++LG +L++N A+ R++DFL F+ H+ IFE +G+L+ + A+ Sbjct: 13 KVPPHSIEAEQSVLGGLLLDNAAWDRIADFLSQSDFYRYDHRIIFEHIGRLIAATRPADV 72 Query: 81 VTVKTFLSDQDMLGELTVPQYLARLASEAVSIINTEDYGRIIYGLALRRTLITIGEEMVN 140 +TV L+ E+ YL LA S N Y I+ A+ R L+++ +E+ Sbjct: 73 ITVYEALTTSGKAEEVGGLAYLNALAQNTPSAANIRRYAEIVRDRAVLRRLVSVADEISA 132 Query: 141 AAYEASLDKSPSIQIEEAERKLFHLAENG-RYDGGFHTFSDAMTVAIDMAGQAFNRDGR- 198 A+ K ++EAE K+F +AE G R GF +T ++ ++ Sbjct: 133 DAFNPQ-GKEVRQLLDEAESKVFSIAEEGARGTQGFLEIGPLLTQVVERIDTLYHTANPS 191 Query: 199 -LAGVSTGIQTLDKQMGGLQRSDLIIIAGRPGMGKTSLATNIAYNVADAYKAELQTDGSY 257 + G TG LD+ G+ +LII+AGRP MGKT+ + NI VA Y Sbjct: 192 DVTGTPTGFVDLDRMTSGMHGGELIIVAGRPSMGKTAFSMNIGEYVAVEY---------- 241 Query: 258 KTINGGIVGFYSLEMSSEQLATRIISEQTEVPSSKIRRGELTRPDYEKIVACSQVMQKLP 317 G V +S+EM QLA R++ + ++R G LT D+ K+ Q M + Sbjct: 242 ----GLPVAVFSMEMPGTQLAMRMLGSVGRLDQHRMRTGRLTDEDWPKLTHAVQKMSEAQ 297 Query: 318 LYIDQTGGISMSQLATRARRLKRQRG-LDLLIVDYIQLMTTSKKIEENRVLEITGITMAL 376 L+ID+TGG++ +L +RARRL RQ G L L+I+DY+QLM+ S + ENR EI+ I+ +L Sbjct: 298 LFIDETGGLNPMELRSRARRLARQCGKLGLIIIDYLQLMSGSSQ-GENRATEISEISRSL 356 Query: 377 KALAKELNIPIIALSQLSRQVENRDNKRPQLSDLRESGSIEQDADVVLFVIRDEYYIRNK 436 K+LAKEL++P+IALSQL+R +E R NKRP +SDLRESG+IEQDADV+LF+ RDE Y Sbjct: 357 KSLAKELDVPVIALSQLNRGLEQRPNKRPVMSDLRESGAIEQDADVILFIYRDEVY---- 412 Query: 437 EPTNKDDILAYTKWQEDLKRVKGIADIIIAKQRHGPTGTVTLAFQAEFTRF 487 P + D KG A+III KQR+GP G V L F ++T+F Sbjct: 413 NPDSPD---------------KGTAEIIIGKQRNGPIGPVRLTFLGQYTKF 448 >gnl|CDD|181547 PRK08760, PRK08760, replicative DNA helicase; Provisional. Length = 476 Score = 317 bits (813), Expect = 5e-87 Identities = 177/484 (36%), Positives = 266/484 (54%), Gaps = 39/484 (8%) Query: 19 QYRESPNNIEAEQALLGAILVNNEAFYRVSDFLKPLHFFEAIHQKIFEIMGKLVHMGKTA 78 Q R P+++EAEQA+LG +++ +A RV+D L F+ H+ I+ + +L + Sbjct: 29 QLRVPPHSVEAEQAVLGGLMLAPDALDRVNDQLTENDFYRRDHRLIYRAIRELSEKDRPF 88 Query: 79 NPVTVKTFLSDQDMLGELTVPQYLARLASEAVSIINTEDYGRIIYGLALRRTLITIGEEM 138 + VT+ + Q L ++ YL LAS S N Y I+ A+ R LI +G + Sbjct: 89 DAVTLGEWFESQGKLEQVGDGAYLIELASTTPSAANIAAYAEIVRDKAVLRQLIEVGTTI 148 Query: 139 VNAAYEASLDKSPSIQIEEAERKLFHLAENGRYDGGFHTFSD---AMTVAIDMAGQAFNR 195 VN ++ +S + + AE+ +F +AE G G F A+ A + F Sbjct: 149 VNDGFQPEGRESIEL-LASAEKAVFKIAEAGAR--GRTDFVAMPGALKDAFEELRNRFEN 205 Query: 196 DGRLAGVSTGIQTLDKQMGGLQRSDLIIIAGRPGMGKTSLATNIAYNVADAYKAELQTDG 255 G + G+ TG D GLQ +DLII+A RP MGKT+ A NIA A K Sbjct: 206 GGNITGLPTGYNDFDAMTAGLQPTDLIILAARPAMGKTTFALNIAEYAAIKSKKG----- 260 Query: 256 SYKTINGGIVGFYSLEMSSEQLATRIISEQTEVPSSKIRRGELTRPDYEKIVACSQVMQK 315 V +S+EMS+ QLA R+IS + + ++R G L D+ ++ +++++ Sbjct: 261 ---------VAVFSMEMSASQLAMRLISSNGRINAQRLRTGALEDEDWARVTGAIKMLKE 311 Query: 316 LPLYIDQTGGISMSQLATRARRLKRQRGLDLLIVDYIQLMTTSKKIEENRVLEITGITMA 375 ++ID T G+S L ++ RRLKR+ L L+++DY+QLM+ ENR EI+ I+ + Sbjct: 312 TKIFIDDTPGVSPEVLRSKCRRLKREHDLGLIVIDYLQLMSVPGN-SENRATEISEISRS 370 Query: 376 LKALAKELNIPIIALSQLSRQVENRDNKRPQLSDLRESGSIEQDADVVLFVIRDEYYIRN 435 LK LAKELN+P+IALSQL+R +E R +KRP ++DLRESG+IEQDAD+++F+ RD+YY N Sbjct: 371 LKGLAKELNVPVIALSQLNRSLETRTDKRPVMADLRESGAIEQDADMIVFIYRDDYY--N 428 Query: 436 KEPTNKDDILAYTKWQEDLKRVKGIADIIIAKQRHGPTGTVTLAFQAEFTRFSALSDSSY 495 KE + KG+A+III K R GPTG+ L F E+TRF L+ S Sbjct: 429 KENSPD----------------KGLAEIIIGKHRGGPTGSCKLKFFGEYTRFDNLAHDSV 472 Query: 496 QTGE 499 + E Sbjct: 473 GSFE 476 >gnl|CDD|181451 PRK08506, PRK08506, replicative DNA helicase; Provisional. Length = 472 Score = 311 bits (800), Expect = 2e-85 Identities = 164/480 (34%), Positives = 260/480 (54%), Gaps = 30/480 (6%) Query: 26 NIEAEQALLGAILVNNEAFYRVSDFLKPLHFFEAIHQKIFEIMGKLVHMGKTANPVTVKT 85 +++ E+A+L +IL + + F ++ L+P F+ HQ IFE M KL + + + ++ Sbjct: 6 DLDIERAVLSSILFSPDKFEEIASVLEPKDFYLPAHQDIFEAMLKLHNEDEPIDEEFIRK 65 Query: 86 FLSDQDMLGELTVPQYLARLASEAVSIINTEDYGRIIYGLALRRTLITIGEEMVNAAYEA 145 L + E + + LA I N E Y I +++R L+++ + A E Sbjct: 66 KLPKDKKIDEEILLEILA-----TNPIDNIEAYVEEIKEKSIKRELLSLANTIPEQAVEE 120 Query: 146 SLDKSPSIQIEEAERKLFHLAENGRYDGGFHTFSDAMTVAIDMAGQAFNRDGR-LAGVST 204 D+ S ++E ER+L+ + NG F + + ++ + + + G+ T Sbjct: 121 --DQKSSDILDEVERELYSIT-NGSNSEDFKDSKEVIESTMEHIKKQKRLGNKDIIGLDT 177 Query: 205 GIQTLDKQMGGLQRSDLIIIAGRPGMGKTSLATNIAYNVADAYKAELQTDGSYKTINGGI 264 G L+K G + DLIIIA RP MGKT+L N+A + K Sbjct: 178 GFVELNKMTKGFNKGDLIIIAARPSMGKTTLCLNMALKALNQDKG--------------- 222 Query: 265 VGFYSLEMSSEQLATRIISEQTEVPSSKIRRGELTRPDYEKIVACSQVMQKLPLYIDQTG 324 V F+SLEM +EQL R++S +T +P +R G+L ++E++ + K L++ +G Sbjct: 223 VAFFSLEMPAEQLMLRMLSAKTSIPLQNLRTGDLDDDEWERLSDACDELSKKKLFVYDSG 282 Query: 325 GISMSQLATRARRLKRQ-RGLDLLIVDYIQLMTTSKKIEENRVLEITGITMALKALAKEL 383 +++ Q+ + R+LK Q + L ++DY+QLM+ S ++ R L+I+ I+ LK LA+EL Sbjct: 283 YVNIHQVRAQLRKLKSQHPEIGLAVIDYLQLMSGSGNFKD-RHLQISEISRGLKLLAREL 341 Query: 384 NIPIIALSQLSRQVENRDNKRPQLSDLRESGSIEQDADVVLFVIRDEYYIRNKEPTNKDD 443 +IPIIALSQL+R +E+R +KRP LSDLRESG+IEQDAD++LFV RD+ Y +E + Sbjct: 342 DIPIIALSQLNRSLESRADKRPMLSDLRESGAIEQDADIILFVYRDDVYKEREEKEKEKK 401 Query: 444 ILAYTKWQEDLKRVKGI---ADIIIAKQRHGPTGTVTLAFQAEFTRF-SALSDSSYQTGE 499 K + + A+III K R+GPTGTV L FQ EFTRF +S Y+ GE Sbjct: 402 AKKEGKEERRIHFQNKSIEEAEIIIGKNRNGPTGTVKLRFQKEFTRFVDKPIESHYEEGE 461 >gnl|CDD|180157 PRK05595, PRK05595, replicative DNA helicase; Provisional. Length = 444 Score = 305 bits (783), Expect = 2e-83 Identities = 173/473 (36%), Positives = 262/473 (55%), Gaps = 37/473 (7%) Query: 18 SQYRESPNNIEAEQALLGAILVNNEAFYRVSDFLKPLHFFEAIHQKIFEIMGKLVHMGKT 77 + R P +IEAEQ++LGA++++ + ++ LK F+ H+ IF + +L Sbjct: 3 APIRSLPQSIEAEQSVLGAMIIDKTSIAEAAEVLKSEDFYRDSHKVIFSAIIELYQKDIA 62 Query: 78 ANPVTVKTFLSDQDMLGELTVPQYLARLASEAVSIINTEDYGRIIYGLALRRTLITIGEE 137 + +T+ L D L Y+ L++ VS N + Y +I+ + R LI E Sbjct: 63 VDMLTLTENLKSTDKLEAAGGVTYITELSNSIVSTANIQSYIKIVKDKSTLRRLIKSSTE 122 Query: 138 MVNAAYEASLDKSPSIQIEEAERKLFHLAENGRYDGGFHTFSDAMTVAIDMAGQAFNRDG 197 ++ +Y D + I+ AE+K+F ++E R F S+ + + FN G Sbjct: 123 IIENSYNNQ-DDVEKV-IDSAEKKIFDISEK-RTTSDFEPLSNVLERGFEQIENLFNNKG 179 Query: 198 RLAGVSTGIQTLDKQMGGLQRSDLIIIAGRPGMGKTSLATNIAYNVADAYKAELQTDGSY 257 GV++G + LD + G Q+ D+I+IA RP MGKT+ A NIA A Sbjct: 180 ETTGVASGFRELDAKTSGFQKGDMILIAARPSMGKTTFALNIAEYAA------------- 226 Query: 258 KTINGGIVGFYSLEMSSEQLATRIISEQTEVPSSKIRRGELTRPDYEKIVACSQVMQKLP 317 G V +SLEMS EQLA +++ + V ++R G L D+E I S + Sbjct: 227 -LREGKSVAIFSLEMSKEQLAYKLLCSEANVDMLRLRTGNLEDKDWENIARASGPLAAAK 285 Query: 318 LYIDQTGGISMSQLATRARRLKRQRGLDLLIVDYIQLMTTSKKIEENRVLEITGITMALK 377 ++ID T G+S+ ++ ++ RRLK + G+D++++DY+QLM+ K E+R E++ I+ ++K Sbjct: 286 IFIDDTAGVSVMEMRSKCRRLKIEHGIDMILIDYLQLMSGGKG-SESRQQEVSEISRSIK 344 Query: 378 ALAKELNIPIIALSQLSRQVENRDNKRPQLSDLRESGSIEQDADVVLFVIRDEYYIRNKE 437 ALAKE+ P+IALSQLSR E R + RP LSDLRESGSIEQDADVV+F+ RDEYY NKE Sbjct: 345 ALAKEMECPVIALSQLSRAPEQRADHRPMLSDLRESGSIEQDADVVMFLYRDEYY--NKE 402 Query: 438 PTNKDDILAYTKWQEDLKRVKGIADIIIAKQRHGPTGTVTLAFQAEFTRFSAL 490 ED K +A+ IIAKQR+GPTGTV LA+ ++++F L Sbjct: 403 -------------TED----KNVAECIIAKQRNGPTGTVKLAWLGQYSKFGNL 438 >gnl|CDD|181193 PRK08006, PRK08006, replicative DNA helicase; Provisional. Length = 471 Score = 291 bits (747), Expect = 2e-79 Identities = 173/477 (36%), Positives = 270/477 (56%), Gaps = 41/477 (8%) Query: 24 PNNIEAEQALLGAILVNNEAFYRVSDFLKPLHFFEAIHQKIFEIMGKLVHMGKTANPVTV 83 P++IEAEQ++LG ++++NE + V++ + F+ H+ IF M +L G + +T+ Sbjct: 28 PHSIEAEQSVLGGLMLDNERWDDVAERVVADDFYTRPHRHIFTEMARLQESGSPIDLITL 87 Query: 84 KTFLSDQDMLGELTVPQYLARLASEAVSIINTEDYGRIIYGLALRRTLITIGEEMVNAAY 143 L Q L + YLA L+ S N Y I+ A+ R +I++ E+ +A Y Sbjct: 88 AESLERQGQLDSVGGFAYLAELSKNTPSAANISAYADIVRERAVVREMISVANEIADAGY 147 Query: 144 EASLDKSPSIQIEEAERKLFHLAEN-GRYDGGFHTFSDAMTVAIDMAGQAFNR--DGRLA 200 + S + ++ AE ++F +AE+ D G +D + + Q F + DG + Sbjct: 148 DPQGRTSEDL-LDLAESRVFQIAESRANKDEGPKNIADILDATVARIEQLFQQPHDG-VT 205 Query: 201 GVSTGIQTLDKQMGGLQRSDLIIIAGRPGMGKTSLATNIAYNVADAYKAELQTDGSYKTI 260 GV+TG L+K+ GLQ SDLII+A RP MGKT+ A N+ N A + Sbjct: 206 GVNTGYDDLNKKTAGLQPSDLIIVAARPSMGKTTFAMNLCENAA--------------ML 251 Query: 261 NGGIVGFYSLEMSSEQLATRIISEQTEVPSSKIRRGELTRPDYEKIVACSQV-MQKLPLY 319 V +SLEM EQ+ R+++ + V ++IR G+L D+ +I + ++K +Y Sbjct: 252 QDKPVLIFSLEMPGEQIMMRMLASLSRVDQTRIRTGQLDDEDWARISGTMGILLEKRNMY 311 Query: 320 IDQTGGISMSQLATRARRLKRQR-GLDLLIVDYIQLMTTSKKIEENRVLEITGITMALKA 378 ID + G++ +++ +RARR+ R+ GL L+++DY+QLM + +NR LEI I+ +LKA Sbjct: 312 IDDSSGLTPTEVRSRARRIFREHGGLSLIMIDYLQLMRVPS-LSDNRTLEIAEISRSLKA 370 Query: 379 LAKELNIPIIALSQLSRQVENRDNKRPQLSDLRESGSIEQDADVVLFVIRDEYYIRNKEP 438 LAKEL +P++ALSQL+R +E R +KRP SDLRESGSIEQDAD+++F+ RDE Y N + Sbjct: 371 LAKELQVPVVALSQLNRSLEQRADKRPVNSDLRESGSIEQDADLIMFIYRDEVYHENSD- 429 Query: 439 TNKDDILAYTKWQEDLKRVKGIADIIIAKQRHGPTGTVTLAFQAEFTRFSALSDSSY 495 +KGIA+III KQR+GP GTV L F +++RF + Y Sbjct: 430 ------------------LKGIAEIIIGKQRNGPIGTVRLTFNGQWSRFDNYAGPQY 468 >gnl|CDD|136106 PRK06904, PRK06904, replicative DNA helicase; Validated. Length = 472 Score = 287 bits (735), Expect = 5e-78 Identities = 181/477 (37%), Positives = 269/477 (56%), Gaps = 42/477 (8%) Query: 24 PNNIEAEQALLGAILVNNEAFYRVSDFLKPLHFFEAIHQKIFEIMGKLVHMGKTANPVTV 83 P++IEAEQA+LG I+++N + V++ + F+ H+ IF+ M L + +T+ Sbjct: 24 PHSIEAEQAVLGGIMLDNRHWDSVAERVIADDFYTFEHRIIFQEMELLFRQNTPIDLLTL 83 Query: 84 KTFLSDQDMLGELTVPQYLARLASEAVSIINTEDYGRIIYGLALRRTLITIGEEMVNAAY 143 L + E+ YLA L++ S N Y I+ A+ R LI++G + AY Sbjct: 84 DQALKTKGKSDEVGGFAYLAELSNNTPSAANILAYADIVREKAILRELISVGNNIAKNAY 143 Query: 144 EASLDKSPSIQIEEAERKLFHLAE--NGRYDGGFHTFS--DAMTVAIDMAGQAFNRDGRL 199 I ++EAER +F +AE +G + + + I+ +G + Sbjct: 144 SPKGQDIKDI-LDEAERDVFSIAEKRTTANEGPQNVINLLENTIDKIENLAATPTNNG-V 201 Query: 200 AGVSTGIQTLDKQMGGLQRSDLIIIAGRPGMGKTSLATNIAYNVADAYKAELQTDGSYKT 259 GV+TG LDK+ GLQ SDLII+A RP MGKT+ A N+ N A A + Sbjct: 202 TGVTTGFTDLDKKTAGLQPSDLIIVAARPSMGKTTFAMNLCENAAMASEKP--------- 252 Query: 260 INGGIVGFYSLEMSSEQLATRIISEQTEVPSSKIRRGE-LTRPDYEKIVACSQVM-QKLP 317 V +SLEM +EQ+ R+++ + V +KIR G+ L + D+ KI + + QK Sbjct: 253 -----VLVFSLEMPAEQIMMRMLASLSRVDQTKIRTGQNLDQQDWAKISSTVGMFKQKPN 307 Query: 318 LYIDQTGGISMSQLATRARRLKRQRG-LDLLIVDYIQLMTTSKKIEENRVLEITGITMAL 376 LYID + G++ ++L +RARR+ R+ G L L++VDY+QLM + E+NR LEI I+ +L Sbjct: 308 LYIDDSSGLTPTELRSRARRVYRENGGLSLIMVDYLQLMR-APGFEDNRTLEIAEISRSL 366 Query: 377 KALAKELNIPIIALSQLSRQVENRDNKRPQLSDLRESGSIEQDADVVLFVIRDEYYIRNK 436 KALAKEL +P++ALSQL+R +ENR +KRP SDLRESGSIEQDAD+++F+ RDE Y Sbjct: 367 KALAKELKVPVVALSQLNRTLENRGDKRPVNSDLRESGSIEQDADLIMFIYRDEVYNETT 426 Query: 437 EPTNKDDILAYTKWQEDLKRVKGIADIIIAKQRHGPTGTVTLAFQAEFTRFSALSDS 493 E KG+A+III KQR+GP G V LAFQ +++RF L++ Sbjct: 427 EDN------------------KGVAEIIIGKQRNGPIGRVRLAFQGQYSRFDNLANI 465 >gnl|CDD|181562 PRK08840, PRK08840, replicative DNA helicase; Provisional. Length = 464 Score = 284 bits (727), Expect = 4e-77 Identities = 176/469 (37%), Positives = 271/469 (57%), Gaps = 41/469 (8%) Query: 24 PNNIEAEQALLGAILVNNEAFYRVSDFLKPLHFFEAIHQKIFEIMGKLVHMGKTANPVTV 83 P+++EAEQ+++G +L++NE + V++ + F+ H+ IFE + ++ GK + +T+ Sbjct: 21 PHSLEAEQSVIGGLLLDNERWDTVAEKVVASDFYSRPHRLIFEGVKSILEAGKPLDLITL 80 Query: 84 KTFLSDQDMLGELTVPQYLARLASEAVSIINTEDYGRIIYGLALRRTLITIGEEMVNAAY 143 L ++ L ++ YLA LA S N Y I+ AL R LI + E+ +A Y Sbjct: 81 SEHLERREQLEDVGGFAYLADLAKNTPSAANINAYADIVAERALVRNLIGVANEIADAGY 140 Query: 144 EASLDKSPSIQIEEAERKLFHLAENGRYDG-GFHTFSDAMTVAIDMAGQAFN--RDGRLA 200 + S + ++ AE K+F +AE + G + ++ + +DG + Sbjct: 141 DPQGRTSEDL-LDMAESKVFAIAEARTSENEGPQNVDSILEKTLERIELLYKTPQDG-VT 198 Query: 201 GVSTGIQTLDKQMGGLQRSDLIIIAGRPGMGKTSLATNIAYNVADAYKAELQTDGSYKTI 260 GV TG L+K+ GLQ SDLII+A RP MGKT+ A N+ N A + D Sbjct: 199 GVDTGFTDLNKKTAGLQGSDLIIVAARPSMGKTTFAMNLCENAA------MDQDKP---- 248 Query: 261 NGGIVGFYSLEMSSEQLATRIISEQTEVPSSKIRRGELTRPDYEKIVACSQV-MQKLPLY 319 V +SLEM +EQL R+++ + V +KIR G+L D+ +I + + M+K +Y Sbjct: 249 ----VLIFSLEMPAEQLMMRMLASLSRVDQTKIRTGQLDDEDWARISSTMGILMEKKNMY 304 Query: 320 IDQTGGISMSQLATRARRLKRQR-GLDLLIVDYIQLMTTSKKIEENRVLEITGITMALKA 378 ID + G++ +++ +RARR+ R+ GL +++VDY+QLM + +NR LEI I+ +LKA Sbjct: 305 IDDSSGLTPTEVRSRARRIAREHGGLSMIMVDYLQLMRVPA-LSDNRTLEIAEISRSLKA 363 Query: 379 LAKELNIPIIALSQLSRQVENRDNKRPQLSDLRESGSIEQDADVVLFVIRDEYYIRNKEP 438 LAKELN+P++ALSQL+R +E R +KRP SDLRESGSIEQDAD+++F+ RDE Y Sbjct: 364 LAKELNVPVVALSQLNRSLEQRADKRPVNSDLRESGSIEQDADLIMFIYRDEVY------ 417 Query: 439 TNKDDILAYTKWQEDLKRVKGIADIIIAKQRHGPTGTVTLAFQAEFTRF 487 N D L KG A+III KQR+GP G+V L FQ +++RF Sbjct: 418 -NPDSPL------------KGTAEIIIGKQRNGPIGSVRLTFQGQYSRF 453 >gnl|CDD|180528 PRK06321, PRK06321, replicative DNA helicase; Provisional. Length = 472 Score = 280 bits (718), Expect = 5e-76 Identities = 169/501 (33%), Positives = 257/501 (51%), Gaps = 68/501 (13%) Query: 12 IPKEDSSQYRESPNNIEAEQALLGAILVNNEAFYRVSDFLKPLHFFEAIHQKIFEIMGKL 71 K +Q PN+ E+E +LG +L + ++ L+ F+ H+ IF ++ Sbjct: 5 TKKPQPTQLLSPPNSKESEMIVLGCMLTSVNYLNLAANQLQEDDFYFLEHKIIFRVLQDA 64 Query: 72 VHMGKTANPVTVKTFLSDQDMLGELTVPQYLARLASEAVSIINTEDYGRIIYGLALRRTL 131 K + L ++ L + P YL LA A + E+Y II ++ R + Sbjct: 65 FKSDKPIDVHLAGEELKRRNQLNVIGGPSYLITLAEFAGTSAYIEEYAEIIRSKSILRKM 124 Query: 132 ITIGEEMVNAAYEASLDKSPSIQIEEAERKLFHLAENGRYDGGFHTFSDAMTVAIDMAG- 190 I +E+ A E D + ++EA+ LF +++ + + VA + G Sbjct: 125 IQTAKEIEKKALEEPKDV--ATALDEAQNLLFKISQTT-------NLAQYVLVADKLKGL 175 Query: 191 ----------------QAFNRDGR------LAGVSTGIQTLDKQMGGLQRSDLIIIAGRP 228 +AF + + ++G+ T LDK + G S+L+I+A RP Sbjct: 176 TSSKDKPFLLQLQERQEAFQQSAQGDSSPMISGIPTHFIDLDKMINGFSPSNLMILAARP 235 Query: 229 GMGKTSLATNIAYNVADAYKAELQTDGSYKTINGGIVGFYSLEMSSEQLATRIISEQTEV 288 MGKT+LA NIA N ++ L VG +SLEM+ +QL RII ++EV Sbjct: 236 AMGKTALALNIAENF--CFQNRLP------------VGIFSLEMTVDQLIHRIICSRSEV 281 Query: 289 PSSKIRRGELTRPDYEKIVACSQVMQKLPLYIDQTGGISMSQLATRARRLKRQRGLDLLI 348 S KI G+L+ D+++IV+ MQ+ L ID G+ ++ L RARR+K + LI Sbjct: 282 ESKKISVGDLSGRDFQRIVSVVNEMQEHTLLIDDQPGLKITDLRARARRMKESYDIQFLI 341 Query: 349 VDYIQLMTTS--KKIEENRVLEITGITMALKALAKELNIPIIALSQLSRQVENRDNKRPQ 406 +DY+QL++ S + E+R EI+ I+ LK LA+ELNIPI+ LSQLSR+VE+R N RP Sbjct: 342 IDYLQLLSGSGNLRNSESRQTEISEISRMLKNLARELNIPILCLSQLSRKVEDRANHRPM 401 Query: 407 LSDLRESGSIEQDADVVLFVIRDEYYIRNKEPTNKDDILAYTKWQEDLKRVKGIADIIIA 466 +SDLRESGSIEQD+D+V+F++R EYY N +P G A++I+A Sbjct: 402 MSDLRESGSIEQDSDLVMFLLRREYYDPNDKP--------------------GTAELIVA 441 Query: 467 KQRHGPTGTVTLAFQAEFTRF 487 K RHG G+V L F+ EF RF Sbjct: 442 KNRHGSIGSVPLVFEKEFARF 462 >gnl|CDD|180177 PRK05636, PRK05636, replicative DNA helicase; Provisional. Length = 505 Score = 277 bits (711), Expect = 3e-75 Identities = 152/473 (32%), Positives = 256/473 (54%), Gaps = 35/473 (7%) Query: 16 DSSQYRESPNNIEAEQALLGAILVNNEAFYRVSDFLKPLHFFEAIHQKIFEIMGKLVHMG 75 + +R+ P + EAEQ +LGA+L++ + + + L P F+ HQ IF+ + L Sbjct: 63 EYRDFRQPPYDNEAEQGVLGAMLLSPDTVIDIVEVLTPEDFYRPAHQLIFQAIIDLFSDN 122 Query: 76 KTANPVTVKTFLSDQDMLGELTVPQYLARLASEAVSIINTEDYGRIIYGLALRRTLITIG 135 K +PV V L + L + YL L + N Y I+ A+ R L+ G Sbjct: 123 KEIDPVIVAGRLDRTNDLERVGGAPYLHTLIQSVPTAANARYYAEIVSEKAVLRRLVDAG 182 Query: 136 EEMVNAAYEASLDKSPSIQIEEAERKLFHLAENGRYDGGFHTFSDAMTVAIDMAGQAFNR 195 +V YE I+ A++++F +++ + + + +D + +D ++ Sbjct: 183 TRVVQLGYEGDEGAEIDSVIDRAQQEVFAVSQKNQSED-YAVLADILDPTMDELEMLSSQ 241 Query: 196 DGRLAGVSTGIQTLDKQMGGLQRSDLIIIAGRPGMGKTSLATNIAYNVADAYKAELQTDG 255 G G+ TG + LD GL+ +II+A RPG+GK++LA + + A ++ Sbjct: 242 GGIATGIPTGFKDLDDLTNGLRGGQMIIVAARPGVGKSTLALDFMRS------ASIK--- 292 Query: 256 SYKTINGGIVGFYSLEMSSEQLATRIISEQTEVPSSKIRRGELTRPDYEKIVACSQVMQK 315 + +SLEMS ++ R++S + EV S +R G++ +EK+V + + Sbjct: 293 -----HNKASVIFSLEMSKSEIVMRLLSAEAEVRLSDMRGGKMDEDAWEKLVQRLGKIAQ 347 Query: 316 LPLYIDQTGGISMSQLATRARRLKRQRGLDLLIVDYIQLMTTSKKIEENRVLEITGITMA 375 P++ID + ++M ++ ++ARRLK++ L L++VDY+QLM++ K++E +R E++ + Sbjct: 348 APIFIDDSANLTMMEIRSKARRLKQKHDLKLIVVDYLQLMSSGKRVE-SRQQEVSEFSRQ 406 Query: 376 LKALAKELNIPIIALSQLSRQVENRDNKRPQLSDLRESGSIEQDADVVLFVIRDEYYIRN 435 LK LAKEL++P+IA+SQL+R E+R +KRPQL+DLRESGS+EQDAD+V+ + R Sbjct: 407 LKLLAKELDVPLIAISQLNRGPESRTDKRPQLADLRESGSLEQDADMVMLLYR------- 459 Query: 436 KEPTNKDDILAYTKWQEDLKRVKGIADIIIAKQRHGPTGTVTLAFQAEFTRFS 488 + +KDD A G ADII+AK R GP TV +A Q ++RF Sbjct: 460 PDSQDKDDERA------------GEADIILAKHRGGPIDTVQVAHQLHYSRFV 500 >gnl|CDD|168658 PRK06749, PRK06749, replicative DNA helicase; Provisional. Length = 428 Score = 233 bits (596), Expect = 7e-62 Identities = 153/468 (32%), Positives = 236/468 (50%), Gaps = 54/468 (11%) Query: 26 NIEAEQALLGAILVNNEAFYRVSDFLKPLHFFEAIHQKIFEIMGKLVHMGKTANPVTVKT 85 N+EAE+ +LG++L++ E L +F +H+ IF++M K+ G+ P+ + T Sbjct: 5 NVEAEKTVLGSLLLDGELIKECR--LTEQYFSMPVHKSIFQLMRKMEDEGQ---PIDLVT 59 Query: 86 FLS--DQDMLGELTVPQYLARLASEAVSIINTEDYGRIIYGLALRRTLITIGEEMVNAAY 143 F S D + L + +Y L + N Y ++ G +G +M Sbjct: 60 FTSRVDPNFLKGIGGMEYFIGLMDGVPTTSNFSYYEGLVRGAWKMYQAGVLGHKMGERLI 119 Query: 144 EASLDKSPSIQIEEAERKLFHLAENGRYDGGFHTFSDAMTVAIDMAGQAFNRDGRLAGVS 203 +KS I I E L L E DA+ +D+ + + G+ Sbjct: 120 A---EKSEKI-IGETITALCELEEKDCVCE--FDLKDAL---VDLYEELHQDAKEITGIE 170 Query: 204 TGIQTLDKQMGGLQRSDLIIIAGRPGMGKTSLATNIAYNVADAYKAELQTDGSYKTINGG 263 TG +L+K GLQ D +++ RP MGKT+ A N+ + A + A Sbjct: 171 TGYTSLNKMTCGLQEGDFVVLGARPSMGKTAFALNVGLHAAKSGAA-------------- 216 Query: 264 IVGFYSLEMSSEQLATRIISEQTEVPSSKIR--RGELTRPDYEKIVACSQVMQKLPLYID 321 VG +SLEMSS+QL R+ S EV +++ + D+EK+ + +LPL I Sbjct: 217 -VGLFSLEMSSKQLLKRMASCVGEVSGGRLKNPKHRFAMEDWEKVSKAFAEIGELPLEIY 275 Query: 322 QTGGISMSQLATRARRLKRQRGLD--LLIVDYIQLMTTSKKIEENRVLEITGITMALKAL 379 G+++ + + R+LKR+ G L+IVDY+QL+T K + NR EI+ I+ LK L Sbjct: 276 DNAGVTVQDIWMQTRKLKRKHGDKKILIIVDYLQLITGDPKHKGNRFQEISEISRKLKLL 335 Query: 380 AKELNIPIIALSQLSRQVENRDNKRPQLSDLRESGSIEQDADVVLFVIRDEYYIRNKEPT 439 A+ELN+ ++ALSQLSR VE+R +KRP LSDLRE+G IEQDADV++ + R++YY +KE Sbjct: 336 ARELNVCVVALSQLSRSVESRQDKRPLLSDLRETGQIEQDADVIMLMYREDYY--DKETM 393 Query: 440 NKDDILAYTKWQEDLKRVKGIADIIIAKQRHGPTGTVTLAFQAEFTRF 487 K+ + +I +AK R+GP G+ L F EF RF Sbjct: 394 QKE-----------------MTEIHVAKHRNGPVGSFKLRFLKEFGRF 424 >gnl|CDD|177377 PHA02542, 41, 41 helicase; Provisional. Length = 473 Score = 56.6 bits (137), Expect = 1e-08 Identities = 59/228 (25%), Positives = 102/228 (44%), Gaps = 35/228 (15%) Query: 214 GGLQRSDLIIIAGRPGMGKTSLATNIAYNVADAYKAELQTDGSYKTINGGIVGFYSLEMS 273 GG +R L ++ +GK+ ++A AD LQ G V + S+EM+ Sbjct: 185 GGAERKTLNVLLAGVNVGKSLGLCSLA---ADY----LQQ--------GYNVLYISMEMA 229 Query: 274 SEQLATRIISEQTEVPSSKIRRGELTRPDYEKIVACSQVMQKLPLYIDQ--TGGIS---- 327 E +A RI + +V I +L++ +Y+ + + + L I Q TGG Sbjct: 230 EEVIAKRIDANLLDVSLDDID--DLSKAEYKAKMEKLRSKTQGKLIIKQYPTGGAHAGHF 287 Query: 328 ---MSQLATRARRLKRQRGLDLLIVDYIQLMTTS--KKIEENRVLEITGITMALKALAKE 382 +++L +LK+ D++IVDY+ + +S + EN + I L+ LA E Sbjct: 288 RALLNEL-----KLKKNFKPDVIIVDYLGICASSRLRVSSENSYTYVKAIAEELRGLAVE 342 Query: 383 LNIPIIALSQLSRQVENRDNKRPQLSDLRESGSIEQDADVVLFVIRDE 430 ++ + +Q +R D+ +SD ES + AD +L VI E Sbjct: 343 HDVVVWTAAQTTR--SGWDSSDVDMSDTAESAGLPATADFMLAVIETE 388 >gnl|CDD|168322 PRK05973, PRK05973, replicative DNA helicase; Provisional. Length = 237 Score = 43.9 bits (104), Expect = 1e-04 Identities = 40/200 (20%), Positives = 75/200 (37%), Gaps = 48/200 (24%) Query: 213 MGGLQRSDLIIIAGRPGMGKTSLATNIAYNVADAYKAELQTDGSYKTINGGIVGFYSLEM 272 L+ DL+++ RPG GKT L +A +A K G F++LE Sbjct: 58 FSQLKPGDLVLLGARPGHGKTLLGLELA---VEAMK-----SGRTGV-------FFTLEY 102 Query: 273 SSEQLATRIISEQTEVPSSKIRRGELTRPDYEKIVACSQVMQKLPLYIDQTGGISMSQLA 332 + + + R+ ++ D + I + Sbjct: 103 TEQDVRDRL--RALGADRAQFAD---------------------LFEFDTSDAICADYI- 138 Query: 333 TRARRLKRQRGLDLLIVDYIQLMTTSKKIEENRVL-EITGITMALKALAKELNIPIIALS 391 RL L+++DY+QL+ ++ R +++ ALK+ A+E + I+ +S Sbjct: 139 --IARLASAPRGTLVVIDYLQLL------DQRREKPDLSVQVRALKSFARERGLIIVFIS 190 Query: 392 QLSRQVENRDNKRPQLSDLR 411 Q+ R + P + D+R Sbjct: 191 QIDRSFDPSAKPLPDIRDVR 210 >gnl|CDD|181771 PRK09302, PRK09302, circadian clock protein KaiC; Reviewed. Length = 509 Score = 42.6 bits (101), Expect = 3e-04 Identities = 16/41 (39%), Positives = 26/41 (63%), Gaps = 1/41 (2%) Query: 202 VSTGIQTLDKQMG-GLQRSDLIIIAGRPGMGKTSLATNIAY 241 +S+G+ LD+ +G G R +I+++G G GKT LA+ A Sbjct: 255 ISSGVPDLDEMLGGGFFRGSIILVSGATGTGKTLLASKFAE 295 >gnl|CDD|183326 PRK11823, PRK11823, DNA repair protein RadA; Provisional. Length = 446 Score = 38.5 bits (91), Expect = 0.004 Identities = 46/198 (23%), Positives = 77/198 (38%), Gaps = 68/198 (34%) Query: 202 VSTGIQTLDKQMG-GLQRSDLIIIAGRPGMGKTSLATNIAYNVADAYKAELQTDGSYKTI 260 +STGI LD+ +G GL +++I G PG+GK++L +A +A A L Y + Sbjct: 62 ISTGIGELDRVLGGGLVPGSVVLIGGDPGIGKSTLLLQVAARLAAAGGKVL-----Y--V 114 Query: 261 NGGIVGFYSLEMSSEQLATRIISEQTEVPSSKIRRGELTRPDYEKIVACSQVMQKLPLYI 320 +G E S+ Q+ R +E+ +PS + L + E I+A + ++ P Sbjct: 115 SG--------EESASQIKLR--AERLGLPSDNLYL--LAETNLEAILA--TIEEEKP--- 157 Query: 321 DQTGGISMSQLATRARRLKRQRGLDLLIVDYIQLMTTSKKIEENRVLEITGI-------- 372 DL+++D IQ M + E+ Sbjct: 158 ------------------------DLVVIDSIQTMYSP---------ELESAPGSVSQVR 184 Query: 373 --TMALKALAKELNIPII 388 L LAK+ I + Sbjct: 185 ECAAELMRLAKQRGIAVF 202 >gnl|CDD|161868 TIGR00416, sms, DNA repair protein RadA. The gene protuct codes for a probable ATP-dependent protease involved in both DNA repair and degradation of proteins, peptides, glycopeptides. Also known as sms. Residues 11-28 of the SEED alignment contain a putative Zn binding domain. Residues 110-117 of the seed contain a putative ATP binding site both documented in Haemophilus and in Listeria monocytogenes. for E.coli see ( J. BACTERIOL. 178:5045-5048(1996)). Length = 454 Score = 34.8 bits (80), Expect = 0.054 Identities = 45/181 (24%), Positives = 73/181 (40%), Gaps = 36/181 (19%) Query: 202 VSTGIQTLDKQMGG-LQRSDLIIIAGRPGMGKTSLATNIAYNVADAYKAELQTDGSYKTI 260 S+G LD+ +GG + LI+I G PG+GK++L +A +A L G Sbjct: 76 FSSGFGELDRVLGGGIVPGSLILIGGDPGIGKSTLLLQVACQLAKNQMKVLYVSG----- 130 Query: 261 NGGIVGFYSLEMSSEQLATRIISEQTEVPSSKIRRGELTRPDYEKIVACSQVMQKLPLYI 320 E S +Q+ R I P+ + L+ ++E+I A + I Sbjct: 131 ----------EESLQQIKMRAIRLGLPEPNLYV----LSETNWEQICANIEEENPQACVI 176 Query: 321 D----------QTGGISMSQL---ATRARRLKRQRGLDLLIVDYIQLMTTSKKIEENRVL 367 D + S+SQ+ RL + RG+ + IV ++ T I +VL Sbjct: 177 DSIQTLYSPDISSAPGSVSQVRECTAELMRLAKTRGIAIFIVGHV---TKEGSIAGPKVL 233 Query: 368 E 368 E Sbjct: 234 E 234 >gnl|CDD|163593 TIGR03881, KaiC_arch_4, KaiC domain protein, PAE1156 family. Members of this protein family are archaeal single-domain KaiC_related proteins, homologous to the Cyanobacterial circadian clock cycle protein KaiC, an autokinase/autophosphorylase that has two copies of the domain. Length = 229 Score = 34.3 bits (79), Expect = 0.078 Identities = 17/41 (41%), Positives = 25/41 (60%), Gaps = 1/41 (2%) Query: 202 VSTGIQTLDKQM-GGLQRSDLIIIAGRPGMGKTSLATNIAY 241 +STG++ LDK + GG+ R + + G PG GKT + AY Sbjct: 2 LSTGVEGLDKLLEGGIPRGFFVAVTGEPGTGKTIFCLHFAY 42 >gnl|CDD|147949 pfam06068, TIP49, TIP49 C-terminus. This family consists of the C-terminal region of several eukaryotic and archaeal RuvB-like 1 (Pontin or TIP49a) and RuvB-like 2 (Reptin or TIP49b) proteins. The N-terminal domain contains the pfam00004 domain. In zebrafish, the liebeskummer (lik) mutation, causes development of hyperplastic embryonic hearts. lik encodes Reptin, a component of a DNA-stimulated ATPase complex. Beta-catenin and Pontin, a DNA-stimulated ATPase that is often part of complexes with Reptin, are in the same genetic pathways. The Reptin/Pontin ratio serves to regulate heart growth during development, at least in part via the beta-catenin pathway. TBP-interacting protein 49 (TIP49) was originally identified as a TBP-binding protein, and two related proteins are encoded by individual genes, tip49a and b. Although the function of this gene family has not been elucidated, they are supposed to play a critical role in nuclear events because they interact with various kinds of nuclear factors and have DNA helicase activities.TIP49a has been suggested to act as an autoantigen in some patients with autoimmune diseases. Length = 395 Score = 34.2 bits (79), Expect = 0.086 Identities = 22/52 (42%), Positives = 28/52 (53%), Gaps = 10/52 (19%) Query: 222 IIIAGRPGMGKTSLATNIAYNVADAYKAELQTDGSYKTINGGIVGFYSLEMS 273 ++IAG PG GKT+LA I+ EL D + I+G V YSLEM Sbjct: 53 VLIAGPPGTGKTALAIAIS--------KELGEDTPFCPISGSEV--YSLEMK 94 >gnl|CDD|184311 PRK13764, PRK13764, ATPase; Provisional. Length = 602 Score = 34.0 bits (79), Expect = 0.099 Identities = 10/19 (52%), Positives = 14/19 (73%) Query: 222 IIIAGRPGMGKTSLATNIA 240 I+IAG PG GK++ A +A Sbjct: 260 ILIAGAPGAGKSTFAQALA 278 >gnl|CDD|148381 pfam06745, KaiC, KaiC. This family represents a conserved region within bacterial and archaeal proteins, most of which are hypothetical. More than one copy is sometimes found in each protein. This family includes KaiC, which is one of the Kai proteins among which direct protein-protein association may be a critical process in the generation of circadian rhythms in cyanobacteria. Length = 231 Score = 33.4 bits (77), Expect = 0.15 Identities = 17/42 (40%), Positives = 23/42 (54%), Gaps = 1/42 (2%) Query: 202 VSTGIQTLDKQM-GGLQRSDLIIIAGRPGMGKTSLATNIAYN 242 V TGI LD+ + GG+ +++I G PG GKT YN Sbjct: 1 VKTGIPGLDEILKGGIPEGRVVLITGGPGTGKTIFGLQFLYN 42 >gnl|CDD|163589 TIGR03877, thermo_KaiC_1, KaiC domain protein, Ph0284 family. Members of this family contain a single copy of the KaiC domain (pfam06745) that occurs in two copies of the circadian clock protein kinase KaiC itself. Members occur primarily in thermophilic archaea and in Thermotoga. Length = 237 Score = 32.8 bits (75), Expect = 0.22 Identities = 13/42 (30%), Positives = 26/42 (61%), Gaps = 1/42 (2%) Query: 202 VSTGIQTLDKQM-GGLQRSDLIIIAGRPGMGKTSLATNIAYN 242 V TGI +D+ + GG+ ++++++G PG GK+ + +N Sbjct: 3 VKTGIPGMDEILHGGIPERNVVLLSGGPGTGKSIFSQQFLWN 44 >gnl|CDD|179826 PRK04328, PRK04328, hypothetical protein; Provisional. Length = 249 Score = 32.4 bits (74), Expect = 0.31 Identities = 13/42 (30%), Positives = 26/42 (61%), Gaps = 1/42 (2%) Query: 202 VSTGIQTLDKQM-GGLQRSDLIIIAGRPGMGKTSLATNIAYN 242 V TGI +D+ + GG+ ++++++G PG GK+ + +N Sbjct: 5 VKTGIPGMDEILYGGIPERNVVLLSGGPGTGKSIFSQQFLWN 46 >gnl|CDD|128665 smart00382, AAA, ATPases associated with a variety of cellular activities. AAA - ATPases associated with a variety of cellular activities. This profile/alignment only detects a fraction of this vast family. The poorly conserved N-terminal helix is missing from the alignment. Length = 148 Score = 31.6 bits (71), Expect = 0.43 Identities = 34/178 (19%), Positives = 54/178 (30%), Gaps = 51/178 (28%) Query: 218 RSDLIIIAGRPGMGKTSLATNIAYNVADAYKAELQTDGSYKTINGGIVGFYSLEMSSEQL 277 ++I+I G PG GKT+LA +A + G I+G + Sbjct: 1 PGEVILIVGPPGSGKTTLARALARELG-------PPGGGVIYIDGED-----ILEEVLDQ 48 Query: 278 ATRIISEQTEVPSSKIRRGELTRPDYEKIVACSQVMQKLPLYIDQTGGISMSQLATRARR 337 II + S R L A Sbjct: 49 LLLIIVGGKKASGSGELRLRL------------------------------------ALA 72 Query: 338 LKRQRGLDLLIVDYIQLMTTSKKIEENRVLEITGITMALKALAKELNIPIIALSQLSR 395 L R+ D+LI+D I + E+ +L + L L E N+ +I + + Sbjct: 73 LARKLKPDVLILDEITSLL---DAEQEALLLLLEELRLLLLLKSEKNLTVILTTNDEK 127 >gnl|CDD|181799 PRK09361, radB, DNA repair and recombination protein RadB; Provisional. Length = 225 Score = 31.0 bits (71), Expect = 0.78 Identities = 16/44 (36%), Positives = 25/44 (56%), Gaps = 1/44 (2%) Query: 202 VSTGIQTLDKQM-GGLQRSDLIIIAGRPGMGKTSLATNIAYNVA 244 + TG + LD+ + GG +R + I G PG GKT++ +A A Sbjct: 5 LPTGCKMLDELLGGGFERGTITQIYGPPGSGKTNICLQLAVEAA 48 >gnl|CDD|178594 PLN03023, PLN03023, Expansin-like B1; Provisional. Length = 247 Score = 30.9 bits (70), Expect = 0.87 Identities = 17/42 (40%), Positives = 22/42 (52%), Gaps = 2/42 (4%) Query: 442 DDILAYTKWQEDLKRVKGIADIIIA--KQRHGPTGTVTLAFQ 481 +DILA WQED K +G+ A + P G +TL FQ Sbjct: 173 NDILAVEIWQEDCKEWRGMRKAYGAVWDMPNPPKGPITLRFQ 214 >gnl|CDD|131703 TIGR02655, circ_KaiC, circadian clock protein KaiC. Members of this family are the circadian clock protein KaiC, part of the kaiABC operon that controls circadian rhythm. It may be universal in Cyanobacteria. Each member has two copies of the KaiC domain (Pfam model pfam06745), which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor. Length = 484 Score = 30.7 bits (69), Expect = 0.99 Identities = 18/42 (42%), Positives = 23/42 (54%), Gaps = 1/42 (2%) Query: 202 VSTGIQTLDKQMGGLQRSDLIIIA-GRPGMGKTSLATNIAYN 242 VS+G+ LD+ GG D II+A G G GKT L + N Sbjct: 245 VSSGVVRLDEMCGGGFFKDSIILATGATGTGKTLLVSKFLEN 286 >gnl|CDD|181743 PRK09270, PRK09270, nucleoside triphosphate hydrolase domain-containing protein; Reviewed. Length = 229 Score = 29.9 bits (68), Expect = 1.5 Identities = 14/68 (20%), Positives = 22/68 (32%), Gaps = 14/68 (20%) Query: 175 FHTFSDAMTVAID-MAGQAFNRDGRLAGVSTGIQTLDKQMGGLQRSDLIIIAGRPGMGKT 233 + I+ + R L QR ++ IAG PG GK+ Sbjct: 1 LKVQAQYRDEEIEAVHKPLLRRLAALQAEP-------------QRRTIVGIAGPPGAGKS 47 Query: 234 SLATNIAY 241 +LA + Sbjct: 48 TLAEFLEA 55 >gnl|CDD|178847 PRK00080, ruvB, Holliday junction DNA helicase RuvB; Reviewed. Length = 328 Score = 29.7 bits (68), Expect = 1.8 Identities = 11/21 (52%), Positives = 16/21 (76%) Query: 220 DLIIIAGRPGMGKTSLATNIA 240 D +++ G PG+GKT+LA IA Sbjct: 52 DHVLLYGPPGLGKTTLANIIA 72 >gnl|CDD|180192 PRK05673, dnaE, DNA polymerase III subunit alpha; Validated. Length = 1135 Score = 29.7 bits (68), Expect = 1.9 Identities = 16/39 (41%), Positives = 21/39 (53%), Gaps = 7/39 (17%) Query: 351 YIQLMTTSKKIEENRVLEITGITMALKALAKELNIPIIA 389 Y++LM IE RV AL LAKEL +P++A Sbjct: 168 YLELMRHGLPIER-RVEH------ALLELAKELGLPLVA 199 >gnl|CDD|184251 PRK13695, PRK13695, putative NTPase; Provisional. Length = 174 Score = 29.5 bits (67), Expect = 2.2 Identities = 11/19 (57%), Positives = 13/19 (68%) Query: 222 IIIAGRPGMGKTSLATNIA 240 I I G PG+GKT+L IA Sbjct: 3 IGITGPPGVGKTTLVLKIA 21 >gnl|CDD|180750 PRK06921, PRK06921, hypothetical protein; Provisional. Length = 266 Score = 29.4 bits (66), Expect = 2.3 Identities = 11/27 (40%), Positives = 15/27 (55%) Query: 217 QRSDLIIIAGRPGMGKTSLATNIAYNV 243 R + I + G+PG GKT L T A + Sbjct: 115 SRKNSIALLGQPGSGKTHLLTAAANEL 141 >gnl|CDD|180381 PRK06067, PRK06067, flagellar accessory protein FlaH; Validated. Length = 234 Score = 29.2 bits (66), Expect = 2.6 Identities = 16/41 (39%), Positives = 25/41 (60%), Gaps = 1/41 (2%) Query: 202 VSTGIQTLDKQM-GGLQRSDLIIIAGRPGMGKTSLATNIAY 241 +STG + LD+++ GG+ LI+I G G GK+ L+ Y Sbjct: 7 ISTGNEELDRKLGGGIPFPSLILIEGDHGTGKSVLSQQFVY 47 >gnl|CDD|181679 PRK09181, PRK09181, aspartate kinase; Validated. Length = 475 Score = 29.1 bits (66), Expect = 3.0 Identities = 12/33 (36%), Positives = 20/33 (60%), Gaps = 2/33 (6%) Query: 367 LEITGITM-ALKALAKELNIPIIALSQLSRQVE 398 + + G+ A++ALA+ I ++AL Q RQV Sbjct: 412 IAVPGVLAKAVQALAEA-GINVLALHQSMRQVN 443 >gnl|CDD|149035 pfam07744, SPOC, SPOC domain. The SPOC (Spen paralogue and orthologue C-terminal) domain is involved in developmental signalling. Length = 108 Score = 28.8 bits (65), Expect = 3.0 Identities = 8/39 (20%), Positives = 23/39 (58%) Query: 311 QVMQKLPLYIDQTGGISMSQLATRARRLKRQRGLDLLIV 349 +++ LPL ++ G + +SQ+ R+L++ ++++ Sbjct: 25 KLVSLLPLKLEIRGRLDLSQVEKYLRKLRKSSTKAVVVL 63 >gnl|CDD|179778 PRK04195, PRK04195, replication factor C large subunit; Provisional. Length = 482 Score = 29.1 bits (66), Expect = 3.0 Identities = 10/19 (52%), Positives = 15/19 (78%) Query: 222 IIIAGRPGMGKTSLATNIA 240 +++ G PG+GKTSLA +A Sbjct: 42 LLLYGPPGVGKTSLAHALA 60 >gnl|CDD|129721 TIGR00635, ruvB, Holliday junction DNA helicase, RuvB subunit. RuvA specifically binds Holliday junctions as a sandwich of two tetramers and maintains the configuration of the junction. It forms a complex with two hexameric rings of RuvB, the subunit that contains helicase activity. The complex drives ATP-dependent branch migration of the Holliday junction recombination intermediate. The endonuclease RuvC resolves junctions. Length = 305 Score = 28.8 bits (65), Expect = 3.7 Identities = 11/21 (52%), Positives = 16/21 (76%) Query: 220 DLIIIAGRPGMGKTSLATNIA 240 D +++ G PG+GKT+LA IA Sbjct: 31 DHLLLYGPPGLGKTTLAHIIA 51 >gnl|CDD|131290 TIGR02236, recomb_radA, DNA repair and recombination protein RadA. This family consists exclusively of archaeal RadA protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239), and archaeal RadB (TIGR02237). This protein is involved in DNA repair and recombination. The member from Pyrococcus horikoshii contains an intein. Length = 310 Score = 28.6 bits (64), Expect = 3.9 Identities = 15/43 (34%), Positives = 24/43 (55%), Gaps = 1/43 (2%) Query: 202 VSTGIQTLDKQMGGLQRSDLII-IAGRPGMGKTSLATNIAYNV 243 ++TG + LD+ +GG + I + G G GKT + +A NV Sbjct: 77 ITTGSKELDELLGGGIETQAITEVFGEFGSGKTQICHQLAVNV 119 >gnl|CDD|162131 TIGR00956, 3a01205, Pleiotropic Drug Resistance (PDR) Family protein. Length = 1394 Score = 28.5 bits (64), Expect = 4.1 Identities = 19/55 (34%), Positives = 27/55 (49%), Gaps = 11/55 (20%) Query: 211 KQMGGLQR-SDLIIIAGRPGMGKTSLATNIAYNVADAYKAELQTDGSYKTINGGI 264 K M GL + +L ++ GRPG G ++L IA N TDG + + G I Sbjct: 78 KPMDGLIKPGELTVVLGRPGSGCSTLLKTIASN----------TDGFHIGVEGVI 122 >gnl|CDD|105560 PRK12339, PRK12339, 2-phosphoglycerate kinase; Provisional. Length = 197 Score = 28.6 bits (64), Expect = 4.4 Identities = 12/26 (46%), Positives = 17/26 (65%) Query: 219 SDLIIIAGRPGMGKTSLATNIAYNVA 244 S + I G PG+GKTS++ IA + A Sbjct: 3 STIHFIGGIPGVGKTSISGYIARHRA 28 >gnl|CDD|181283 PRK08197, PRK08197, threonine synthase; Validated. Length = 394 Score = 28.0 bits (63), Expect = 5.3 Identities = 10/17 (58%), Positives = 12/17 (70%) Query: 409 DLRESGSIEQDADVVLF 425 LRESG ++ D VVLF Sbjct: 359 QLRESGWLKGDERVVLF 375 >gnl|CDD|162659 TIGR02012, tigrfam_recA, protein RecA. This model describes orthologs of the recA protein. RecA promotes hybridization of homolgous regions of DNA. A segment of ssDNA can be hybridized to another ssDNA region, or to a dsDNA region. ATP is hydrolyzed in the process. Part of the SOS respones, it is regulated by LexA via autocatalytic cleavage. Length = 321 Score = 28.1 bits (63), Expect = 5.6 Identities = 21/50 (42%), Positives = 29/50 (58%), Gaps = 5/50 (10%) Query: 202 VSTGIQTLDKQMG--GLQRSDLIIIAGRPGMGKTSLATNIAYNVADAYKA 249 +STG +LD +G GL R +I I G GKT+LA + +A+A KA Sbjct: 36 ISTGSLSLDLALGVGGLPRGRIIEIYGPESSGKTTLALHA---IAEAQKA 82 >gnl|CDD|183817 PRK12892, PRK12892, allantoate amidohydrolase; Reviewed. Length = 412 Score = 28.1 bits (63), Expect = 5.7 Identities = 20/72 (27%), Positives = 23/72 (31%), Gaps = 21/72 (29%) Query: 148 DKSPSIQIEEAERKLFHLAENGRYDGGFH--TFSDA----------------MTVAIDMA 189 I + L LA G G H T+SDA + V ID Sbjct: 2 LAMLRIDGQRVLDDLMELAAIGAAKTGVHRPTYSDAHVAARRRLAAWCEAAGLAVRIDGI 61 Query: 190 GQAFNRDGRLAG 201 G F GRL G Sbjct: 62 GNVF---GRLPG 70 >gnl|CDD|148176 pfam06414, Zeta_toxin, Zeta toxin. This family consists of several bacterial zeta toxin proteins. Zeta toxin is thought to be part of a postregulational killing system in bacteria. It relies on antitoxin/toxin systems that secure stable inheritance of low and medium copy number plasmids during cell division and kill cells that have lost the plasmid. Length = 191 Score = 28.0 bits (63), Expect = 5.9 Identities = 9/23 (39%), Positives = 15/23 (65%) Query: 217 QRSDLIIIAGRPGMGKTSLATNI 239 +R +++ G+PG GKT LA + Sbjct: 10 ERPVAVLLGGQPGAGKTELARAL 32 >gnl|CDD|150510 pfam09848, DUF2075, Uncharacterized conserved protein (DUF2075). This domain, found in various prokaryotic proteins (including putative ATP/GTP binding proteins), has no known function. Length = 348 Score = 28.0 bits (63), Expect = 6.2 Identities = 11/39 (28%), Positives = 17/39 (43%), Gaps = 8/39 (20%) Query: 221 LIIIAGRPGMGKTSLATNIAYNVADAYKAELQTDGSYKT 259 + ++ G PG GKT +A N+ EL +T Sbjct: 3 VFLVTGGPGTGKTVVALNLFA--------ELSDSDLGRT 33 >gnl|CDD|129161 TIGR00051, TIGR00051, acyl-CoA thioester hydrolase, YbgC/YbaW family. This model describes a subset of related acyl-CoA thioesterases that include several at least partially characterized proteins. YbgC is an acyl-CoA thioesterase associated with the Tol-Pal system. YbaW is part of the FadM regulon. Length = 117 Score = 27.8 bits (62), Expect = 6.3 Identities = 15/53 (28%), Positives = 23/53 (43%), Gaps = 3/53 (5%) Query: 410 LRESGSIEQD--ADVVLFVIRDEYYIRNKEPTNKDDILAYTKWQEDLKRVKGI 460 LR G + A+ V FV+ + I K+P DD+L E+L + Sbjct: 32 LRSLGFPQSVLRAEGVAFVVVN-INIEYKKPARLDDVLEIRTQIEELNGFSFV 83 >gnl|CDD|163592 TIGR03880, KaiC_arch_3, KaiC domain protein, AF_0351 family. This model represents a rather narrowly distributed archaeal protein family in which members have a single copy of the KaiC domain. This stands in contrast to the circadian clock protein KaiC itself, with two copies of the domain. Members are expected to have weak ATPase activity, by homology to the autokinase/autophosphorylase KaiC itself. Length = 224 Score = 27.7 bits (62), Expect = 6.4 Identities = 13/39 (33%), Positives = 20/39 (51%), Gaps = 1/39 (2%) Query: 205 GIQTLDKQM-GGLQRSDLIIIAGRPGMGKTSLATNIAYN 242 GI LD+ + GG +I++ G G GKT+ + Y Sbjct: 1 GIPGLDEMLGGGFPEGHVIVVIGEYGTGKTTFSLQFLYQ 39 >gnl|CDD|162744 TIGR02173, cyt_kin_arch, cytidylate kinase, putative. Proteins in this family are believed to be cytidylate kinase. Members of this family are found in the archaea and in spirochaetes, and differ considerably from the common bacterial form of cytidylate kinase described by TIGR00017. Length = 171 Score = 27.8 bits (62), Expect = 7.1 Identities = 14/45 (31%), Positives = 22/45 (48%), Gaps = 12/45 (26%) Query: 221 LIIIAGRPGMGKTSLATNIAYNVADAYKAELQTDGSYKTINGGIV 265 +I I+G PG GKT++A +A + S K I+ G + Sbjct: 2 IITISGPPGSGKTTVAKILAEKL------------SLKLISAGDI 34 >gnl|CDD|130080 TIGR01007, eps_fam, capsular exopolysaccharide family. This model describes the capsular exopolysaccharide proteins in bacteria. The exopolysaccharide gene cluster consists of several genes which encode a number of proteins which regulate the exoploysaccharide biosynthesis(EPS). Atleast 13 genes espA to espM in streptococcus species seem to direct the EPS proteins and all of which share high homology. Functional roles were characterized by gene disruption experiments which resulted in exopolysaccharide-deficient phenotypes. Length = 204 Score = 27.8 bits (62), Expect = 7.5 Identities = 16/44 (36%), Positives = 23/44 (52%) Query: 212 QMGGLQRSDLIIIAGRPGMGKTSLATNIAYNVADAYKAELQTDG 255 Q G + L+I + +PG GK++ + NIA A A L DG Sbjct: 11 QFSGAEIKVLLITSVKPGEGKSTTSANIAVAFAQAGYKTLLIDG 54 >gnl|CDD|162028 TIGR00763, lon, ATP-dependent protease La. This protein is induced by heat shock and other stresses in E. coli, B. subtilis, and other species. The yeast member, designated PIM1, is located in the mitochondrial matrix, required for mitochondrial function, and also induced by heat shock. Length = 775 Score = 27.6 bits (62), Expect = 8.1 Identities = 10/15 (66%), Positives = 12/15 (80%) Query: 226 GRPGMGKTSLATNIA 240 G PG+GKTSL +IA Sbjct: 354 GPPGVGKTSLGKSIA 368 >gnl|CDD|179771 PRK04182, PRK04182, cytidylate kinase; Provisional. Length = 180 Score = 27.5 bits (62), Expect = 9.3 Identities = 10/20 (50%), Positives = 15/20 (75%) Query: 221 LIIIAGRPGMGKTSLATNIA 240 +I I+G PG GKT++A +A Sbjct: 2 IITISGPPGSGKTTVARLLA 21 Database: CddB Posted date: Feb 4, 2011 9:54 PM Number of letters in database: 5,994,473 Number of sequences in database: 21,608 Lambda K H 0.317 0.133 0.364 Gapped Lambda K H 0.267 0.0669 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 21608 Number of Hits to DB: 8,217,451 Number of extensions: 552258 Number of successful extensions: 1642 Number of sequences better than 10.0: 1 Number of HSP's gapped: 1552 Number of HSP's successfully gapped: 90 Length of query: 504 Length of database: 5,994,473 Length adjustment: 97 Effective length of query: 407 Effective length of database: 3,898,497 Effective search space: 1586688279 Effective search space used: 1586688279 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.3 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.7 bits) S2: 59 (26.6 bits)