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)