RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddB
21,608 sequences; 5,994,473 total letters
Searching..................................................done
Query= gi|254780222|ref|YP_003064635.1| DNA topoisomerase IV subunit B
[Candidatus Liberibacter asiaticus str. psy62]
(686 letters)
>gnl|CDD|180127 PRK05559, PRK05559, DNA topoisomerase IV subunit B; Reviewed.
Length = 631
Score = 896 bits (2319), Expect = 0.0
Identities = 302/648 (46%), Positives = 407/648 (62%), Gaps = 23/648 (3%)
Query: 39 SASDNYDASSIRILEGLEPVRMRPGMYIGGTDEKALHHLFSEVIDNAMDEVIAGYANLIE 98
++NY+A SI +LEGLEPVR RPGMYIG TD + LHHL EVIDN++DE +AG+ IE
Sbjct: 3 MMTNNYNADSIEVLEGLEPVRKRPGMYIGSTDTRGLHHLVQEVIDNSVDEALAGHGKRIE 62
Query: 99 VSLDGNGFLTVVDNGRGIPVENHPKFPNKSTLEIILTTLHAGGKFDNSTYEISGGLHGVG 158
V+L +G ++V DNGRGIPV HP+ KS +E+ILT LHAGGKF N Y+ SGGLHGVG
Sbjct: 63 VTLHADGSVSVRDNGRGIPVGIHPE-EGKSGVEVILTKLHAGGKFSNKAYKFSGGLHGVG 121
Query: 159 ISVVNALSDELHVTVARQNTIFSQKFSRGIPLSPLEKKEKV-RNKRGTRITFRPDPKIFG 217
+SVVNALS L V V R ++ Q+F G P+ PLE + K GTR+ F PDPKIF
Sbjct: 122 VSVVNALSSRLEVEVKRDGKVYRQRFEGGDPVGPLEVVGTAGKRKTGTRVRFWPDPKIF- 180
Query: 218 DKAGFDAARLLKMTQSKAYLSGRVKTCWSCDKEIAEKYGIPEKEEFYFPGGLKTYLQTKL 277
D F RL + +SKA+L + + ++E ++ F++ GLK YL
Sbjct: 181 DSPKFSPERLKERLRSKAFLLPGLTITLNDERE---------RQTFHYENGLKDYLAELN 231
Query: 278 ENRSLISSEIFTGKTEKKGTHRGTVEWAIAWCEENPEIT-SYCNTILTDEGGTHESGLRV 336
E + + E F G E + VEWA+ W +E E SY N I T +GGTHE+G R
Sbjct: 232 EGKETLP-EEFVGSFEGEAEG-EAVEWALQWTDEGGENIESYVNLIPTPQGGTHENGFRE 289
Query: 337 ALTRGIKKYAELT-QNKRAISIISDDLMISAVGILSVFIREPEFAGQTKTKLVSLDAQRT 395
L + ++++AE + + +D+ +LSV I EP+F GQTK KL S +A+R
Sbjct: 290 GLLKAVREFAEKRNLLPKGKKLEGEDVREGLAAVLSVKIPEPQFEGQTKEKLGSREARRF 349
Query: 396 VENALRDPFDHYLVQNPIEATKLLEWVIERSEERLRRRKQREVNRKTAIRKLRLPGKLAD 455
V ++D FD +L QNP A KL E I+ ++ RLR K+ + +KT LPGKLAD
Sbjct: 350 VSGVVKDAFDLWLNQNPELAEKLAEKAIKAAQARLRAAKKVKRKKKT--SGPALPGKLAD 407
Query: 456 CSQNIAHGTELFIVEGDSAGGSAKQARNRSNQAVLPLRGKILNVASAGSEKIRNNQQIMD 515
C+ TELF+VEGDSAGGSAKQAR+R QA+LPLRGKILN A + + N++I D
Sbjct: 408 CTSQDPERTELFLVEGDSAGGSAKQARDREFQAILPLRGKILNTWEASLDDVLANEEIHD 467
Query: 516 LVQALGCRTRSQYREEDLRYEKVIIMTDADVDGAHIASLLLTFFYQEMYDLIEQKHLFLI 575
++ A+G + EDLRY K+IIMTDADVDGAHIA+LLLTFFY+ L+E H+++
Sbjct: 468 IIVAIGIGPGDSFDLEDLRYGKIIIMTDADVDGAHIATLLLTFFYRHFPPLVEAGHVYIA 527
Query: 576 SPPLFRITQGTKSVYAHDEEHKQKILEEFKKHGKGKIEISRFKGLGEMLASQLKETAMDA 635
PPL+R+ +G K +YA DEE K+++L++ K GK EI RFKGLGEM QL ET MD
Sbjct: 528 LPPLYRVDKGKKKIYALDEEEKEELLKKLGK-KGGKPEIQRFKGLGEMNPDQLWETTMDP 586
Query: 636 NKRTLLRVEINKDLNSLKDTQDSINKLMGTKADERFKFIQERASFIDD 683
R L+RV I+ ++T+ ++ LMG KA+ R ++I+E F ++
Sbjct: 587 ETRRLVRVTIDD----AEETEKLVDMLMGKKAEPRREWIEENGDFAEE 630
>gnl|CDD|180181 PRK05644, gyrB, DNA gyrase subunit B; Validated.
Length = 638
Score = 707 bits (1828), Expect = 0.0
Identities = 289/658 (43%), Positives = 399/658 (60%), Gaps = 33/658 (5%)
Query: 37 NQSASDNYDASSIRILEGLEPVRMRPGMYIGGTDEKALHHLFSEVIDNAMDEVIAGYANL 96
+ + YDAS I++LEGLE VR RPGMYIG T E+ LHHL E++DN++DE +AGY +
Sbjct: 1 KEEKAQEYDASQIQVLEGLEAVRKRPGMYIGSTGERGLHHLVYEIVDNSIDEALAGYCDH 60
Query: 97 IEVSLDGNGFLTVVDNGRGIPVENHPKFPNKSTLEIILTTLHAGGKFDNSTYEISGGLHG 156
IEV+++ +G +TV DNGRGIPV+ HPK K +E++LT LHAGGKF Y++SGGLHG
Sbjct: 61 IEVTINEDGSITVTDNGRGIPVDIHPKT-GKPAVEVVLTVLHAGGKFGGGGYKVSGGLHG 119
Query: 157 VGISVVNALSDELHVTVARQNTIFSQKFSRGIPLSPLEKKEKVRNKRGTRITFRPDPKIF 216
VG+SVVNALS L V V R I+ Q++ RG+P++PLE + ++ GT +TF+PDP+IF
Sbjct: 120 VGVSVVNALSTWLEVEVKRDGKIYYQEYERGVPVTPLEVIGE-TDETGTTVTFKPDPEIF 178
Query: 217 GDKAGFDAARLLKMTQSKAYLSGRVKTCWSCDKEIA---EKYGIPEKEEFYFPGGLKTYL 273
+ FD L + A+L+ +K I E+ G ++E F++ GG+K Y+
Sbjct: 179 -ETTEFDYDTLATRLRELAFLNKGLK--------ITLTDEREGEEKEETFHYEGGIKEYV 229
Query: 274 QTKLENRSLISSEIFTGKTEKKGTHRGTVEWAIAWCEE-NPEITSYCNTILTDEGGTHES 332
+ N+ + E + EK G VE A+ + + + I S+ N I T EGGTHE
Sbjct: 230 EYLNRNKEPLHEEPIYFEGEKDGI---EVEVAMQYNDGYSENILSFANNINTHEGGTHEE 286
Query: 333 GLRVALTRGIKKYAELTQN---KRAISIISDDLMISAVGILSVFIREPEFAGQTKTKLVS 389
G + ALTR I YA ++ ++ +D+ ++SV EP+F GQTKTKL +
Sbjct: 287 GFKTALTRVINDYAR-KNKLLKEKDDNLTGEDVREGLTAVISVKHPEPQFEGQTKTKLGN 345
Query: 390 LDAQRTVENALRDPFDHYLVQNPIEATKLLEWVIERSEERLRRRKQRE-VNRKTAIRKLR 448
+ + V++ + + +L +NP A K++E I + R RK RE RK+A+
Sbjct: 346 SEVRGIVDSVVSEALSEFLEENPNVAKKIVEKAILAARAREAARKARELTRRKSALESSS 405
Query: 449 LPGKLADCSQNIAHGTELFIVEGDSAGGSAKQARNRSNQAVLPLRGKILNVASAGSEKIR 508
LPGKLADCS +EL+IVEGDSAGGSAKQ R+R QA+LPLRGKILNV A +KI
Sbjct: 406 LPGKLADCSSKDPEESELYIVEGDSAGGSAKQGRDRRFQAILPLRGKILNVEKARLDKIL 465
Query: 509 NNQQIMDLVQALGCRTRSQYREEDLRYEKVIIMTDADVDGAHIASLLLTFFYQEMYDLIE 568
N++I L+ ALG + LRY K+IIMTDADVDGAHI +LLLTFFY+ M LIE
Sbjct: 466 KNEEIRALITALGTGIGDDFDISKLRYHKIIIMTDADVDGAHIRTLLLTFFYRYMRPLIE 525
Query: 569 QKHLFLISPPLFRITQGTKSVYAHDEEHKQKILEEFKKHGKGKIEISRFKGLGEMLASQL 628
++++ PPL++I +G YA+ +E +IL E K G K I R+KGLGEM QL
Sbjct: 526 AGYVYIAQPPLYKIKKG-GKEYAYSDEELDEILAELKLKGNPKYGIQRYKGLGEMNPEQL 584
Query: 629 KETAMDANKRTLLRVEINKDLNSLKDTQDSI-NKLMGTKADERFKFIQERA---SFID 682
ET MD RTLL+V I + D I + LMG + R +FI+E A +D
Sbjct: 585 WETTMDPETRTLLQVTIEDAAEA-----DEIFSILMGDDVEPRREFIEENAKYVRNLD 637
>gnl|CDD|128710 smart00433, TOP2c, TopoisomeraseII. Eukaryotic DNA topoisomerase
II, GyrB, ParE.
Length = 594
Score = 666 bits (1720), Expect = 0.0
Identities = 271/612 (44%), Positives = 367/612 (59%), Gaps = 25/612 (4%)
Query: 73 ALHHLFSEVIDNAMDEVIAGYANLIEVSLDGNGFLTVVDNGRGIPVENHPKFPNKSTLEI 132
LHHL E++DNA DE +AGY + I+V++D + ++V DNGRGIPVE HPK K E+
Sbjct: 1 GLHHLVDEIVDNAADEALAGYMDTIKVTIDKDNSISVEDNGRGIPVEIHPKE-KKYAPEV 59
Query: 133 ILTTLHAGGKFDNSTYEISGGLHGVGISVVNALSDELHVTVARQNTIFSQKFSR-GIPLS 191
I T LHAGGKFD+ Y++SGGLHGVG SVVNALS E V VAR + Q FS G PLS
Sbjct: 60 IFTVLHAGGKFDDDAYKVSGGLHGVGASVVNALSTEFEVEVARDGKEYKQSFSNNGKPLS 119
Query: 192 PLEKKEKVRNKRGTRITFRPDPKIFGDKAGFDAARLLKMTQSKAYLSGRVKTCWSCDKEI 251
+ K GT++TF+PD +IFG D L + + A+L+ VK + ++
Sbjct: 120 EPKIIG-DTKKDGTKVTFKPDLEIFGMTTDDDFELLKRRLRELAFLNKGVKITLNDERS- 177
Query: 252 AEKYGIPEKEEFYFPGGLKTYLQTKLENRSLISSEIFTGKTEKKGTHRGTVEWAIAWCEE 311
E+E F F GG+K Y++ +N+ L+S E + EK VE A + +
Sbjct: 178 ------DEEETFLFEGGIKDYVELLNKNKELLSPEPTYIEGEKDN---IRVEVAFQYTDG 228
Query: 312 NPE-ITSYCNTILTDEGGTHESGLRVALTRGIKKYAELTQNKRAISIISDDLMISAVGIL 370
E I S+ N I T EGGTHE+G + ALTR I +YA+ + + +I +D+ +
Sbjct: 229 YSENIVSFVNNIATTEGGTHENGFKDALTRVINEYAKKKKKLKEKNIKGEDVREGLTAFI 288
Query: 371 SVFIREPEFAGQTKTKLVSLDAQRTVENALRDPFDHYLVQNPIEATKLLEWVIERSEERL 430
SV I EP+F GQTK KL + + + VE + + +L +NP+EA+K++E V+ ++ R
Sbjct: 289 SVKIPEPQFEGQTKEKLGTSEVRFGVEKIVSECLLSFLEENPVEASKIVEKVLLAAKARA 348
Query: 431 RRRKQREVNRKTAIRKLRLPGKLADCSQNIAHGTELFIVEGDSAGGSAKQARNRSNQAVL 490
+K RE+ RK + K+ LPGKLAD S ELF+VEGDSAGGSAK R+R QA+L
Sbjct: 349 AAKKARELTRKKKLSKISLPGKLADASSAGPKKCELFLVEGDSAGGSAKSGRDRDFQAIL 408
Query: 491 PLRGKILNVASAGSEKIRNNQQIMDLVQALGCRTRSQYREEDLRYEKVIIMTDADVDGAH 550
PLRGK+LNV A +KI N++I L+ ALG + E LRY K+IIMTDADVDG+H
Sbjct: 409 PLRGKLLNVEKASLDKILKNEEIQALITALGLGIGKDFDIEKLRYGKIIIMTDADVDGSH 468
Query: 551 IASLLLTFFYQEMYDLIEQKHLFLISPPLFRITQGTK----SVYAHDEEHKQKILEEFKK 606
I LLLTFFY+ M LIE +++ PPL+++T+G K S Y+ DE K E K
Sbjct: 469 IKGLLLTFFYRYMPPLIEAGFVYIAIPPLYKVTKGKKKYVYSFYSLDEYEKWL---ETKG 525
Query: 607 HGKGKIEISRFKGLGEMLASQLKETAMDANKRTLLRVEINKDLNSLKDTQDSINKLMGTK 666
K K EI R+KGLGEM A QL ET MD +RTLL V ++ + D S LMG K
Sbjct: 526 GNKSKYEIQRYKGLGEMNADQLWETTMDPERRTLLFVTLDDADEA--DLIFSA--LMGDK 581
Query: 667 ADERFKFIQERA 678
+ R ++I+E A
Sbjct: 582 VEPRKEWIEENA 593
>gnl|CDD|162180 TIGR01059, gyrB, DNA gyrase, B subunit. This model describes the
common type II DNA topoisomerase (DNA gyrase). Two
apparently independently arising families, one in the
Proteobacteria and one in Gram-positive lineages, are
both designated toposisomerase IV. Proteins scoring
above the noise cutoff for this model and below the
trusted cutoff for topoisomerase IV models probably
should be designated GyrB.
Length = 654
Score = 631 bits (1629), Expect = 0.0
Identities = 297/662 (44%), Positives = 403/662 (60%), Gaps = 43/662 (6%)
Query: 44 YDASSIRILEGLEPVRMRPGMYIGGTDEKALHHLFSEVIDNAMDEVIAGYANLIEVSLDG 103
YDASSI++LEGLE VR RPGMYIG T E LHHL EV+DN++DE +AGY + I V+++
Sbjct: 1 YDASSIKVLEGLEAVRKRPGMYIGSTGETGLHHLVYEVVDNSIDEAMAGYCDTINVTIND 60
Query: 104 NGFLTVVDNGRGIPVENHPKFPNKSTLEIILTTLHAGGKFDNSTYEISGGLHGVGISVVN 163
+G +TV DNGRGIPV+ HP+ S +E++LT LHAGGKFD +Y++SGGLHGVG+SVVN
Sbjct: 61 DGSVTVEDNGRGIPVDIHPE-EGISAVEVVLTVLHAGGKFDKDSYKVSGGLHGVGVSVVN 119
Query: 164 ALSDELHVTVARQNTIFSQKFSRGIPLSPLEKKEKVRNKRGTRITFRPDPKIFGDKAGFD 223
ALS+ L VTV R I+ Q+F RGIPL PLE K GT + F PDP+IF + FD
Sbjct: 120 ALSEWLEVTVFRDGKIYRQEFERGIPLGPLEV-VGETKKTGTTVRFWPDPEIF-ETTEFD 177
Query: 224 AARLLKMTQSKAYLSGRVKTCWSCDKEIAEKYGIPEKEEFYFPGGLKTYLQTKLENRSLI 283
L K + A+L+ VK E+ G + F++ GG+K++++ N+ +
Sbjct: 178 FDILAKRLRELAFLNSGVKISL-----EDERDGKGKSVTFHYEGGIKSFVKYLNRNKEPL 232
Query: 284 SSEIFTGKTEKKGTHRGTVEWAIAWCEE-NPEITSYCNTILTDEGGTHESGLRVALTRGI 342
EI K EK+G VE A+ W + + I S+ N I T EGGTH G R ALTR I
Sbjct: 233 HEEIIYIKGEKEGI---EVEVALQWNDGYSENILSFVNNINTREGGTHLEGFRSALTRVI 289
Query: 343 KKYAELTQ--NKRAISIISDDLMISAVGILSVFIREPEFAGQTKTKLVSLDAQRTVENAL 400
YA+ + + ++ +D+ ++SV + +P+F GQTKTKL + + + VE+ +
Sbjct: 290 NSYAKNNKLLKESKPNLTGEDIREGLTAVISVKVPDPQFEGQTKTKLGNSEVRSIVESLV 349
Query: 401 RDPFDHYLVQNPIEATKLLEWVIERSEERLRRRKQRE-VNRKTAIRKLRLPGKLADCSQN 459
+ + +NP EA ++E I ++ R RK RE RK+A+ LPGKLADCS
Sbjct: 350 YEKLTEFFEENPQEAKAIVEKAILAAQAREAARKARELTRRKSALDSGGLPGKLADCSSK 409
Query: 460 IAHGTELFIVEGDSAGGSAKQARNRSNQAVLPLRGKILNVASAGSEKIRNNQQIMDLVQA 519
+EL+IVEGDSAGGSAKQ R+R QA+LPLRGKILNV A +KI +NQ+I ++ A
Sbjct: 410 DPSKSELYIVEGDSAGGSAKQGRDRKFQAILPLRGKILNVEKARLDKILSNQEIGAIITA 469
Query: 520 LGCRTRSQYREEDLRYEKVIIMTDADVDGAHIASLLLTFFYQEMYDLIEQKHLFLISPPL 579
LGC + E LRY K+IIMTDADVDG+HI +LLLTFFY+ M LIE ++++ PPL
Sbjct: 470 LGCGIGKDFDLEKLRYHKIIIMTDADVDGSHIRTLLLTFFYRYMRPLIENGYVYIAQPPL 529
Query: 580 FRITQGTKSVYAHDEEHKQ-----------------KILEEFK-----KHGKGKIEISRF 617
+++ +G K Y D++ K+ K EE K G+ IEI R+
Sbjct: 530 YKVKKGKKERYIKDDKEKELVGEALEDLRALYIYSDKEKEEAKTQIPVHEGRKGIEIQRY 589
Query: 618 KGLGEMLASQLKETAMDANKRTLLRVEINKDLNSLKDTQDSI-NKLMGTKADERFKFIQE 676
KGLGEM A QL ET MD RTLL+V I +D D I + LMG + + R +FI+
Sbjct: 590 KGLGEMNADQLWETTMDPESRTLLKVTI-EDA----VEADRIFSTLMGDEVEPRREFIEA 644
Query: 677 RA 678
A
Sbjct: 645 NA 646
>gnl|CDD|130127 TIGR01055, parE_Gneg, DNA topoisomerase IV, B subunit,
proteobacterial. This protein is active as an
alpha(2)beta(2) heterotetramer.
Length = 625
Score = 622 bits (1605), Expect = e-178
Identities = 268/640 (41%), Positives = 374/640 (58%), Gaps = 26/640 (4%)
Query: 43 NYDASSIRILEGLEPVRMRPGMYIGGTDEKALHHLFSEVIDNAMDEVIAGYANLIEVSLD 102
NY A I +L+GLEPVR RPGMY TD +HL EVIDN++DE +AG+A++I V L
Sbjct: 3 NYSAKDIEVLDGLEPVRKRPGMY---TDTTRPNHLVQEVIDNSVDEALAGFASIIMVILH 59
Query: 103 GNGFLTVVDNGRGIPVENHPKFPNKSTLEIILTTLHAGGKFDNSTYEISGGLHGVGISVV 162
+ + V DNGRG+PV+ HPK S +E+ILTTLHAGGKF N Y SGGLHGVGISVV
Sbjct: 60 QDQSIEVFDNGRGMPVDIHPKE-GVSAVEVILTTLHAGGKFSNKNYHFSGGLHGVGISVV 118
Query: 163 NALSDELHVTVARQNTIFSQKFSRGIPLSPLEKKEKV-RNKRGTRITFRPDPKIFGDKAG 221
NALS + + V RQ ++S F G ++ L + GT + F PDP+IF D
Sbjct: 119 NALSKRVKIKVYRQGKLYSIAFENGAKVTDLISAGTCGKRLTGTSVHFTPDPEIF-DSLH 177
Query: 222 FDAARLLKMTQSKAYLSGRVKTCWSCDKEIAEKYGIPEKEEFYFPGGLKTYLQTKLENRS 281
F +RL + ++KA L V+ + + K + +P GLK YL + +
Sbjct: 178 FSVSRLYHILRAKAVLCRGVEIEFEDEVNN-------TKALWNYPDGLKDYLSEAVNGDN 230
Query: 282 LISSEIFTGKTEKKGTHRGTVEWAIAWCEENPEI--TSYCNTILTDEGGTHESGLRVALT 339
+ + F+G E VEWA+ W E E+ SY N I T +GGTH +GLR L
Sbjct: 231 TLPPKPFSGNFEGDDE---AVEWALLWLPEGGELFMESYVNLIPTPQGGTHVNGLRQGLL 287
Query: 340 RGIKKYAELTQNK-RAISIISDDLMISAVGILSVFIREPEFAGQTKTKLVSLDAQRTVEN 398
++++ E+ N R + + ++D+ +LS+ +++P+FAGQTK +L S + V
Sbjct: 288 DALREFCEMRNNLPRGVKLTAEDIWDRCSYVLSIKMQDPQFAGQTKERLSSRQVAKFVSG 347
Query: 399 ALRDPFDHYLVQNPIEATKLLEWVIERSEERLRRRKQREVNRKTAIRKLRLPGKLADCSQ 458
++D FD +L QN A L E I ++ R R ++V RK LPGKLADC++
Sbjct: 348 VIKDAFDLWLNQNVQLAEHLAEHAISSAQRRKR--AAKKVVRKKLTSGPALPGKLADCTR 405
Query: 459 NIAHGTELFIVEGDSAGGSAKQARNRSNQAVLPLRGKILNVASAGSEKIRNNQQIMDLVQ 518
GTELF+VEGDSAGGSAKQAR+R QA+LPL GKILN +K+ N+Q+I D+
Sbjct: 406 QDLEGTELFLVEGDSAGGSAKQARDREYQAILPLWGKILNTWEVSLDKVLNSQEIHDIEV 465
Query: 519 ALGCRTRSQYREEDLRYEKVIIMTDADVDGAHIASLLLTFFYQEMYDLIEQKHLFLISPP 578
ALG S + LRY K+ I+ DAD DG HIA+LL F+ L+E+ H+++ PP
Sbjct: 466 ALGIDPDSNDLSQ-LRYGKICILADADSDGLHIATLLCALFFLHFPKLVEEGHVYVAKPP 524
Query: 579 LFRITQGTKSVYAHDEEHKQKILEEFKKHGKGKIEISRFKGLGEMLASQLKETAMDANKR 638
L+RI + YA DEE K+K+L + KK KGK + RFKGLGEM +QL+ET MD N R
Sbjct: 525 LYRIDLSKEVYYALDEEEKEKLLYKLKK-KKGKPNVQRFKGLGEMNPAQLRETTMDPNTR 583
Query: 639 TLLRVEINKDLNSLKDTQDSINKLMGTKADE-RFKFIQER 677
L+++ + D + ++ L+ K E RF ++QE+
Sbjct: 584 RLVQLTL--DDVQDQRVDKIMDMLLAKKRSEDRFNWLQEK 621
>gnl|CDD|184903 PRK14939, gyrB, DNA gyrase subunit B; Provisional.
Length = 756
Score = 573 bits (1479), Expect = e-164
Identities = 246/573 (42%), Positives = 358/573 (62%), Gaps = 37/573 (6%)
Query: 38 QSASDNYDASSIRILEGLEPVRMRPGMYIGGTDE-KALHHLFSEVIDNAMDEVIAGYANL 96
S++Y ASSI++L+GL+ VR RPGMYIG TD+ LHH+ EV+DNA+DE +AG+ +
Sbjct: 1 SMMSNSYGASSIKVLKGLDAVRKRPGMYIGDTDDGTGLHHMVYEVVDNAIDEALAGHCDD 60
Query: 97 IEVSLDGNGFLTVVDNGRGIPVENHPKFPNKSTLEIILTTLHAGGKFDNSTYEISGGLHG 156
I V++ +G ++V DNGRGIP + HP+ S E+I+T LHAGGKFD ++Y++SGGLHG
Sbjct: 61 ITVTIHADGSVSVSDNGRGIPTDIHPE-EGVSAAEVIMTVLHAGGKFDQNSYKVSGGLHG 119
Query: 157 VGISVVNALSDELHVTVARQNTIFSQKFSRGIPLSPLEKKEKVRNKRGTRITFRPDPKIF 216
VG+SVVNALS+ L +T+ R I Q+F G+P++PL+ + +K GT + F P P+IF
Sbjct: 120 VGVSVVNALSEWLELTIRRDGKIHEQEFEHGVPVAPLKVVGET-DKTGTEVRFWPSPEIF 178
Query: 217 GDKAGFDAARLLKMTQSKAYLSGRVKTCWSCDKEIAEKYGI-------PEKEEFYFPGGL 269
FD L K + A+L+ V+ I ++EEF++ GG+
Sbjct: 179 E-NTEFDYDILAKRLRELAFLNSGVR--------------IRLKDERDGKEEEFHYEGGI 223
Query: 270 KTYLQTKLENRSLISSEIFTGKTEKKGTHRGTVEWAIAWCE---ENPEITSYCNTILTDE 326
K +++ N++ + IF EK G VE A+ W + EN + + N I +
Sbjct: 224 KAFVEYLNRNKTPLHPNIFYFSGEKDGI---GVEVALQWNDSYQEN--VLCFTNNIPQRD 278
Query: 327 GGTHESGLRVALTRGIKKYAELTQ-NKRA-ISIISDDLMISAVGILSVFIREPEFAGQTK 384
GGTH +G R ALTR I Y E K+A +S+ DD +LSV + +P+F+ QTK
Sbjct: 279 GGTHLAGFRAALTRTINNYIEKEGLAKKAKVSLTGDDAREGLTAVLSVKVPDPKFSSQTK 338
Query: 385 TKLVSLDAQRTVENALRDPFDHYLVQNPIEATKLLEWVIERSEERLRRRKQRE-VNRKTA 443
KLVS + + VE+ + + +L +NP EA ++ +I+ + R RK RE RK A
Sbjct: 339 DKLVSSEVRPAVESLVNEKLSEFLEENPNEAKIIVGKIIDAARAREAARKARELTRRKGA 398
Query: 444 IRKLRLPGKLADCSQNIAHGTELFIVEGDSAGGSAKQARNRSNQAVLPLRGKILNVASAG 503
+ LPGKLADC + +EL++VEGDSAGGSAKQ R+R QA+LPL+GKILNV A
Sbjct: 399 LDIAGLPGKLADCQEKDPALSELYLVEGDSAGGSAKQGRDRKFQAILPLKGKILNVEKAR 458
Query: 504 SEKIRNNQQIMDLVQALGCR-TRSQYREEDLRYEKVIIMTDADVDGAHIASLLLTFFYQE 562
+K+ ++Q+I L+ ALGC R ++ + LRY K+IIMTDADVDG+HI +LLLTFFY++
Sbjct: 459 FDKMLSSQEIGTLITALGCGIGRDEFNPDKLRYHKIIIMTDADVDGSHIRTLLLTFFYRQ 518
Query: 563 MYDLIEQKHLFLISPPLFRITQGTKSVYAHDEE 595
M +LIE+ HL++ PPL+++ +G + Y D+E
Sbjct: 519 MPELIERGHLYIAQPPLYKVKKGKQEQYLKDDE 551
Score = 73.2 bits (181), Expect = 2e-13
Identities = 35/96 (36%), Positives = 46/96 (47%), Gaps = 12/96 (12%)
Query: 590 YAHDEEHKQKI------LEEFKKHGKGKIEISRFKGLGEMLASQLKETAMDANKRTLLRV 643
Y E KQ + L+ + + I R+KGLGEM QL ET MD R LL+V
Sbjct: 658 YLERGERKQPVSSFEEALDWLLAEARKGLSIQRYKGLGEMNPEQLWETTMDPENRRLLQV 717
Query: 644 EINKDLNSLKDTQDSI-NKLMGTKADERFKFIQERA 678
I +D D I LMG + + R +FI+E A
Sbjct: 718 TI-EDA----IAADEIFTTLMGDEVEPRREFIEENA 748
>gnl|CDD|130130 TIGR01058, parE_Gpos, DNA topoisomerase IV, B subunit,
Gram-positive. Operationally, topoisomerase IV is a
type II topoisomerase required for the decatenation step
of chromosome segregation. Not every bacterium has both
a topo II and a topo IV. The topo IV families of the
Gram-positive bacteria and the Gram-negative bacteria
appear not to represent a single clade among the type II
topoisomerases, and are represented by separate models
for this reason.
Length = 637
Score = 473 bits (1219), Expect = e-134
Identities = 259/651 (39%), Positives = 371/651 (56%), Gaps = 34/651 (5%)
Query: 41 SDNYDASSIRILEGLEPVRMRPGMYIGGTDEKALHHLFSEVIDNAMDEVIAGYANLIEVS 100
+ Y+A +I+ILEGL+ VR RPGMYIG TD K LHHL E++DN++DEV+AGYA+ I V+
Sbjct: 2 ASKYNADAIKILEGLDAVRKRPGMYIGSTDSKGLHHLVWEIVDNSVDEVLAGYADNITVT 61
Query: 101 LDGNGFLTVVDNGRGIPVENHPKFPNKSTLEIILTTLHAGGKFDNSTYEISGGLHGVGIS 160
L + +TV D+GRGIP H + N ST+E + T LHAGGKFD Y+ +GGLHGVG S
Sbjct: 62 LHKDNSITVQDDGRGIPTGIH-QDGNISTVETVFTVLHAGGKFDQGGYKTAGGLHGVGAS 120
Query: 161 VVNALSDELHVTVARQNTIFSQKFSRGIPLSPLEKKEKVRNKRGTRITFRPDPKIFGDKA 220
VVNALS L VTV R I+ Q+F G + KK K GT + F PDP IF
Sbjct: 121 VVNALSSWLEVTVKRDGQIYQQRFENGGKIVQSLKKIGTTKKTGTLVHFHPDPTIF-KTT 179
Query: 221 GFDAARLLKMTQSKAYLSGRVKTCWSCDKEIAEKYGIPEKEEFYFPGGLKTYLQTKLENR 280
F++ + + + A+L ++K ++ DK + F++ GL ++ E +
Sbjct: 180 QFNSNIIKERLKESAFLLKKLKLTFT-DKRTNKTT------VFFYENGLVDFVDYINETK 232
Query: 281 SLISSEIFTGKTEKKGTHRG-TVEWAIAWCEENPE-ITSYCNTILTDEGGTHESGLRVAL 338
E + T +G G VE A + + + E I S+ N++ T EGGTHE+G ++A+
Sbjct: 233 -----ETLSQVTYFEGEKNGIEVEVAFQFNDGDSENILSFANSVKTKEGGTHENGFKLAI 287
Query: 339 TRGIKKYAELTQ--NKRAISIISDDLMISAVGILSVFIREP--EFAGQTKTKLVSLDAQR 394
T I YA ++ ++ D+ I+SV I E +F GQTK+KL S +A+
Sbjct: 288 TDVINSYARKYNLLKEKDKNLEGSDIREGLSAIISVRIPEELIQFEGQTKSKLFSPEARN 347
Query: 395 TVENALRDPFDHYLVQNPIEATKLLEWVIERSEERLRRRKQREVNRKTAIRK---LRLPG 451
V+ ++D +L +N +A L++ I+ + + +K RE + K L G
Sbjct: 348 VVDEIVQDHLFFFLEENNNDAKLLIDKAIKARDAKEAAKKAREEKKSGKKPKKEKGILSG 407
Query: 452 KLADCSQNIAHGTELFIVEGDSAGGSAKQARNRSNQAVLPLRGKILNVASAGSEKIRNNQ 511
KL ELF+VEGDSAGGSAKQ R+R QA+LPLRGK+LNV A I N+
Sbjct: 408 KLTPAQSKNPAKNELFLVEGDSAGGSAKQGRDRKFQAILPLRGKVLNVEKAKLADILKNE 467
Query: 512 QIMDLVQALGCRTRSQYREEDLRYEKVIIMTDADVDGAHIASLLLTFFYQEMYDLIEQKH 571
+I ++ +G + + +DL+Y+K+IIMTDAD DGAHI LLLTFFY+ M LIE H
Sbjct: 468 EINTIIFCIGTGIGADFSIKDLKYDKIIIMTDADTDGAHIQVLLLTFFYRYMRPLIELGH 527
Query: 572 LFLISPPLFRITQGT--KSVYAHDEEHKQKILEEFKKHGKGKIEISRFKGLGEMLASQLK 629
+++ PPL+++++ K YA + LE KK K + R+KGLGEM A QL
Sbjct: 528 VYIALPPLYKLSKKDGKKVKYAWSDLE----LESVKKKLKN-YTLQRYKGLGEMNADQLW 582
Query: 630 ETAMDANKRTLLRVEINKDLNSLKDTQDSINKLMGTKADERFKFIQERASF 680
ET M+ RTL+RV+I+ + + IN LMG K + R K+I+ +F
Sbjct: 583 ETTMNPETRTLVRVKIDDLARAER----QINTLMGDKVEPRKKWIEANINF 629
>gnl|CDD|185452 PTZ00109, PTZ00109, DNA gyrase subunit b; Provisional.
Length = 903
Score = 359 bits (923), Expect = 1e-99
Identities = 221/678 (32%), Positives = 314/678 (46%), Gaps = 127/678 (18%)
Query: 43 NYDASSIRILEGLEPVRMRPGMYIGGTDEKALHHLFSEVIDNAMDEVIAGYANLIEVSLD 102
YDA I +LEGLE VR RPGMYIG TDEK LH L E++DN++DE +AG N I V L
Sbjct: 99 EYDADDIVVLEGLEAVRKRPGMYIGNTDEKGLHQLLFEILDNSVDEYLAGECNKITVVLH 158
Query: 103 GNGFLTVVDNGRGIPVENHPKFPNKSTLEIILTTLHAGGKFDNST--------------- 147
+G + + DNGRGIP + K KS LE +LT LH+GGKF ++
Sbjct: 159 KDGSVEISDNGRGIPCDVSEK-TGKSGLETVLTVLHSGGKFQDTFPKNSRSDKSEDKNDT 217
Query: 148 -------------------------YEISGGLHGVGISVVNALSDELHVTVARQNTIFSQ 182
YE S GLHGVG+SVVNALS L V V + I+S
Sbjct: 218 KSSKKGKSSHVKGPKEAKEKESSQMYEYSSGLHGVGLSVVNALSSFLKVDVFKGGKIYSI 277
Query: 183 KFSRGIPLSPLEKKEKVRNKRGTRITFRPDPK-IF-------------GDKAGFDAARLL 228
+ S+G PL KRGT I F PD K IF G K GF+ +
Sbjct: 278 ELSKGKVTKPLSVFSCPLKKRGTTIHFLPDYKHIFKTHHQHTETEEEEGCKNGFNLDLIK 337
Query: 229 KMTQSKAYLSGRVKTCWSCDKEIAEKYGIPEKEEFYFPGGLKTYLQTKLENRSLI--SSE 286
+YL+ + T + D+ IA + E GG + +L+ +++++ +
Sbjct: 338 NRIHELSYLNPGL-TFYLVDERIANENNFYPYETIKHEGGTREFLEELIKDKTPLYKDIN 396
Query: 287 IFTGKTEKKGTHRGTVEWAIAWCEE--NPEITSYCNTILTDEGGTHESGLRVALTR---- 340
I + + K + VE +++W E I S+ N + T GTH G + A+TR
Sbjct: 397 IISIRGVIKNVN---VEVSLSWSLESYTALIKSFANNVST-TAGTHIDGFKYAITRCVNG 452
Query: 341 GIKKYAELTQNKRAISIISDDLMISAVGILSVFIREPEFAGQTKTKLVSLDAQRTVENAL 400
IKK N ++I + + I+SV + EF GQTKTKL + + +E+ +
Sbjct: 453 NIKKNGYFKGN--FVNIPGEFIREGMTAIISVKLNGAEFDGQTKTKLGNHLLKTILESIV 510
Query: 401 RDPFDHYLVQNP--IEATKLLEWVIERSEERLRRRKQREVNRKTAIRKLRLPGKLADCSQ 458
+ L P + A +++ E + K + LPGKL DC
Sbjct: 511 FEQLSEILEFEPNLLLAIYNKSLAAKKAFEEAKAAKDLIRQKNNQYYSTILPGKLVDCIS 570
Query: 459 NIAHGTELFIVEGDSAGGSAKQARNRSNQAVLPLRGKILNVASAGSEKIRNNQQIMD--- 515
+ ELFIVEG+SA G+AKQARNR QAVLPL+GKILN+ EKI+NN+++ +
Sbjct: 571 DDIERNELFIVEGESAAGNAKQARNREFQAVLPLKGKILNI-----EKIKNNKKVFENSE 625
Query: 516 ---LVQALGCRTRSQ-YREEDL-------------------------------RYEKVII 540
L+ ++G +R+ DL RY K+I+
Sbjct: 626 IKLLITSIGLSVNPVTWRQYDLSHGTKASKDESVQNNNSTLTKKKNSLFDTPLRYGKIIL 685
Query: 541 MTDADVDGAHIASLLLTFFYQEMYDLIEQKHLFLISPPLFRIT------------QGTKS 588
+TDADVDG H+ LLLT Y+ L E +++ PPL+RIT K
Sbjct: 686 LTDADVDGEHLRILLLTLLYRFCPSLYEHGRVYVACPPLYRITNNRMKQFNVSTKNSKKY 745
Query: 589 VYAHDEEHKQKILEEFKK 606
+Y +E +++ K
Sbjct: 746 IYTWSDEELNVLIKLLNK 763
Score = 59.9 bits (145), Expect = 2e-09
Identities = 35/86 (40%), Positives = 46/86 (53%), Gaps = 8/86 (9%)
Query: 593 DEEHKQKILEEFKKHGKGKIEISRFKGLGEMLASQLKETAMDANKRTLLRVEINKDLNSL 652
DE K +F KH EI RFKGLGEM+A QL ET MD KR L+R+ ++ + +
Sbjct: 822 DELDINKAFFKFSKH----YEIQRFKGLGEMMADQLWETTMDPKKRILIRITVSDAMRA- 876
Query: 653 KDTQDSINKLMGTKADERFKFIQERA 678
+ I LMG R +FI E +
Sbjct: 877 ---SELIFLLMGEDVQSRKQFIFENS 899
>gnl|CDD|178674 PLN03128, PLN03128, DNA topoisomerase 2; Provisional.
Length = 1135
Score = 144 bits (364), Expect = 9e-35
Identities = 160/627 (25%), Positives = 260/627 (41%), Gaps = 92/627 (14%)
Query: 55 LEPVRMRPGMYIGGTDEK---------------------ALHHLFSEVIDNAMD-EVIAG 92
LE + +RP YIG T++ L+ +F E++ NA D +
Sbjct: 13 LEHILLRPDTYIGSTEKHTQTLWVYEGGEMVNREVTYVPGLYKIFDEILVNAADNKQRDP 72
Query: 93 YANLIEVSLD-GNGFLTVVDNGRGIPVENHPKFPNKSTLEIILTTLHAGGKFDNSTYEIS 151
+ ++V +D ++V +NG+GIPVE H K E+I L FD++ + +
Sbjct: 73 SMDSLKVDIDVEQNTISVYNNGKGIPVEIH-KEEGVYVPELIFGHLLTSSNFDDNEKKTT 131
Query: 152 GGLHGVGISVVNALSDELHVTVARQNTI--FSQKFSRGIPL--SPLEKKEKVRNKRGTRI 207
GG +G G + N S E V A N + Q F+ + + P K ++ T+I
Sbjct: 132 GGRNGYGAKLANIFSTEFTVETADGNRGKKYKQVFTNNMSVKSEPKITSCK-ASENWTKI 190
Query: 208 TFRPDPKIFG-DKAGFDAARLLK--MTQSKAYLSGRVKTCWSCDKEIAEKYGIPEKEEFY 264
TF+PD F + D L+ + L ++K + K +P K
Sbjct: 191 TFKPDLAKFNMTRLDEDVVALMSKRVYDIAGCLGKKLKVELNGKK-------LPVKS--- 240
Query: 265 FPGGLKTYLQTKLENRSLISSEIFTGKTEKKGTHRGTVEW--AIAWCEENPEITSYCNTI 322
F + YL L + + W ++ + + + S+ N+I
Sbjct: 241 FQDYVGLYLGPNSREDPL-----------PRIYEKVNDRWEVCVSLSDGSFQQVSFVNSI 289
Query: 323 LTDEGGTHESGLRVALTRGIKKYAELTQNKRAISIISDDLMISAVGILSVF----IREPE 378
T +GGTH + + + I++ + +NK A + + L VF I P
Sbjct: 290 ATIKGGTHVDYVADQIVKHIQEKVK-KKNKNATHVKPFQIKNH----LWVFVNCLIENPT 344
Query: 379 FAGQTKTKLVSLDAQRTVENALRDPFDHYLVQNPIEATKLLEWVIERSEERLRRRKQREV 438
F QTK L + + + L + F V+ +L W + ++ L+++ +
Sbjct: 345 FDSQTKETLTTRPSSFGSKCELSEEFLKK-VEKCGVVENILSWAQFKQQKELKKKDGAKR 403
Query: 439 NRKTAIRKLRLPGKLADCSQNIAHGTE-----LFIVEGDSAGG---SAKQARNRSNQAVL 490
R T I KL N A G + L + EGDSA S R + V
Sbjct: 404 QRLTGIPKLD--------DANDAGGKKSKDCTLILTEGDSAKALAMSGLSVVGRDHYGVF 455
Query: 491 PLRGKILNVASAGSEKIRNNQQIMDLVQALGCRTRSQYREED---LRYEKVIIMTDADVD 547
PLRGK+LNV A ++I N +I ++ Q LG + Y EE+ LRY ++IMTD D D
Sbjct: 456 PLRGKLLNVREASHKQIMKNAEITNIKQILGLQFGKTYDEENTKSLRYGHLMIMTDQDHD 515
Query: 548 GAHIASLLLTFFYQEMYDLIEQKHLFLIS--PPLFRITQG--TKSVYAHDEEHKQKILEE 603
G+HI L++ FF+ L++ FL+ P+ + T+G + S Y E K E
Sbjct: 516 GSHIKGLIINFFHSFWPSLLKIPG-FLVEFITPIVKATKGGKSLSFYTMPEYEAWK---E 571
Query: 604 FKKHGKGKIEISRFKGLGEMLASQLKE 630
+ I +KGLG + + KE
Sbjct: 572 SLEGETKGWTIKYYKGLGTSTSEEAKE 598
>gnl|CDD|185451 PTZ00108, PTZ00108, DNA topoisomerase 2-like protein; Provisional.
Length = 1388
Score = 139 bits (353), Expect = 2e-33
Identities = 160/640 (25%), Positives = 259/640 (40%), Gaps = 126/640 (19%)
Query: 52 LEGLEPVRMRPGMYIGGT-----------DEK------------ALHHLFSEVIDNAMD- 87
+E + +RP YIG +EK L+ +F E++ NA D
Sbjct: 13 KTQIEHILLRPDTYIGSIETQTEDMWVYDEEKNRMVYKTITYVPGLYKIFDEILVNAADN 72
Query: 88 ---EVIAGYANLIEVSLD-GNGFLTVVDNGRGIPVENHPKFPNKSTLEIILTTLHAGGKF 143
+ I+V++D NG ++V ++G GIPV+ H K E+I L +
Sbjct: 73 KARDKGGHRMTYIKVTIDEENGEISVYNDGEGIPVQIH-KEHKIYVPEMIFGHLLTSSNY 131
Query: 144 DNSTYEISGGLHGVGISVVNALSDELHVTVA--RQNTIFSQKFS-----RGIP-LSPLEK 195
D++ ++GG +G G + N S + V + F ++ + P ++ +
Sbjct: 132 DDTEKRVTGGRNGFGAKLTNIFSTKFTVECVDSKSGKKFKMTWTDNMSKKSEPRITSYDG 191
Query: 196 KEKVRNKRGTRITFRPDPKIFG-DKAGFDAARLLKMTQSKAY-LSGRVKTCWSCDKEIAE 253
K+ T++TF PD FG + D RLLK + Y L+G
Sbjct: 192 KKDY-----TKVTFYPDYAKFGMTEFDDDMLRLLK---KRVYDLAG---CF--------- 231
Query: 254 KYGIPEKEEFYFPGGLKTYLQ-TKLENRS------LISSEIFTGKTEKKGTHRGTVEWAI 306
G LK YL ++ +S L + GK +V
Sbjct: 232 -------------GKLKVYLNGERIAIKSFKDYVDLYLPDGEEGKKPPYPFVYTSVNGRW 278
Query: 307 AWC----EENPEITSYCNTILTDEGGTHESGLRVALTRGIKKYAELTQNKRAISIISDDL 362
+ + S+ N+I T +GGTH + + L +++ A + K+ I
Sbjct: 279 EVVVSLSDGQFQQVSFVNSICTTKGGTHVNYILDQLISKLQEKA-KKKKKKGKEI--KPN 335
Query: 363 MISAVGILSVFIR----EPEFAGQTKTKLVSLDAQRTVENALRDPFDHYLVQNPIEATKL 418
I L VF+ P F QTK L + ++ L + Y++++PI
Sbjct: 336 QIKNH--LWVFVNCLIVNPSFDSQTKETLTTKPSKFGSTCELSEKLIKYVLKSPI----- 388
Query: 419 LEWVIERSEERLRRRKQREVNRKT-AIRKLRLPG--KLADCSQNIAHGTE-----LFIVE 470
+E E + + E+N+K A +K R+ G KL D N A G L + E
Sbjct: 389 ----LENIVEWAQAKLAAELNKKMKAGKKSRILGIPKLDDA--NDAGGKNSEECTLILTE 442
Query: 471 GDSAGGSAKQA----RNRSNQAVLPLRGKILNVASAGSEKIRNNQQIMDLVQALGCRTRS 526
GDSA A A R V PLRGK+LNV A +++ NN++I +L + LG
Sbjct: 443 GDSAKALA-LAGLSVVGRDYYGVFPLRGKLLNVRDASLKQLMNNKEIQNLFKILGLDIGK 501
Query: 527 QYRE-EDLRYEKVIIMTDADVDGAHIASLLLTFFYQEMYDLIEQK-HLFLISPPLFRITQ 584
+Y + + LRY ++IMTD D DG+HI LL+ + L++ L P+ + T+
Sbjct: 502 KYEDPKGLRYGSLMIMTDQDHDGSHIKGLLINMIHHFWPSLLKNPGFLKEFITPIVKATK 561
Query: 585 G---TKSVYAHDEEHKQKILEEFKKHGKGKIEISRFKGLG 621
S + + K K + G +I +KGLG
Sbjct: 562 KGNQVISFFTIPDFEKWK-----QTVGLKGWKIKYYKGLG 596
>gnl|CDD|178775 PLN03237, PLN03237, DNA topoisomerase 2; Provisional.
Length = 1465
Score = 119 bits (299), Expect = 3e-27
Identities = 169/652 (25%), Positives = 264/652 (40%), Gaps = 118/652 (18%)
Query: 55 LEPVRMRPGMYIGGTDEKA---------------------LHHLFSEVIDNAMD-EVIAG 92
LE + +RP YIG ++ L+ +F E++ NA D +
Sbjct: 38 LEHILLRPDTYIGSIEKHTQTLWVYETDKMVQRSVTYVPGLYKIFDEILVNAADNKQRDP 97
Query: 93 YANLIEVSLDG-NGFLTVVDNGRGIPVENHPKFPNKSTLEIILTTLHAGGKFDNSTYEIS 151
+ + V +D ++V +NG G+PVE H + E+I L +D++ + +
Sbjct: 98 KMDSLRVVIDVEQNLISVYNNGDGVPVEIH-QEEGVYVPEMIFGHLLTSSNYDDNEKKTT 156
Query: 152 GGLHGVGISVVNALSDELHVTVA--RQNTIFSQKFSRGIPLSPLEKKEKVRNK-----RG 204
GG +G G + N S E + A ++ + Q FS + +K E V K
Sbjct: 157 GGRNGYGAKLTNIFSTEFVIETADGKRQKKYKQVFSNNMG----KKSEPVITKCKKSENW 212
Query: 205 TRITFRPDPKIFG------------DKAGFDAARLLKMTQSKAYLSGRVKTCWSCDKEIA 252
T++TF+PD F K D A L T K L+G+
Sbjct: 213 TKVTFKPDLAKFNMTHLEDDVVALMKKRVVDIAGCLGKT-VKVELNGK------------ 259
Query: 253 EKYGIPEKEEFYFPGGLKTYLQTKLENRSLISSEIFTGKTEKKGTHRGTVEWAIAWC--E 310
IP K Y+ LE+ + E EK W + E
Sbjct: 260 ---RIPVK-------SFSDYVDLYLESANKSRPENLPRIYEKVND-----RWEVCVSLSE 304
Query: 311 ENPEITSYCNTILTDEGGTHESGLRVALTRGIKKYAELTQNKRAISIISDDLMISAVGI- 369
+ S+ N+I T +GGTH +T I + NK+ + + I A +
Sbjct: 305 GQFQQVSFVNSIATIKGGTHVD----YVTNQIANHVMEAVNKK-----NKNANIKAHNVK 355
Query: 370 --LSVF----IREPEFAGQTKTKLVSLDAQRTVENALRDPFDHYLVQNPIEATKLLEWVI 423
L VF I P F QTK L + + L + F ++++ I LL W
Sbjct: 356 NHLWVFVNALIDNPAFDSQTKETLTLRQSSFGSKCELSEDFLKKVMKSGI-VENLLSWAD 414
Query: 424 ERSEERLRRRKQREVNRKTAIRKLRLPGKLADCSQNIAHGTELFIVEGDSAGGSAKQARN 483
+ + L++ + R T I KL + +N T L + EGDSA A +
Sbjct: 415 FKQSKELKKTDGAKTTRVTGIPKLEDANEAG--GKNSEKCT-LILTEGDSAKALAVAGLS 471
Query: 484 ---RSNQAVLPLRGKILNVASAGSEKIRNNQQIMDLVQALGCRTRSQYRE-EDLRYEKVI 539
R+ V PLRGK+LNV A ++I NN +I ++ Q LG + QY + LRY ++
Sbjct: 472 VVGRNYYGVFPLRGKLLNVREASHKQIMNNAEIENIKQILGLQHGKQYESVKSLRYGHLM 531
Query: 540 IMTDADVDGAHIASLLLTFFYQEMYDLIEQKHLFLIS--PPLFRITQGTKSV---YAHDE 594
IMTD D DG+HI LL+ F + L++ FL+ P+ + T+ K V Y+ E
Sbjct: 532 IMTDQDHDGSHIKGLLINFIHSFWPSLLKVPS-FLVEFITPIVKATRRGKKVLSFYSMPE 590
Query: 595 EHKQKILEEFKKHGKGKI---EISRFKGLGEMLASQLKE--TAMDANKRTLL 641
EE+K+ G I +KGLG A + KE + +K+ +
Sbjct: 591 ------YEEWKESLGGNATGWSIKYYKGLGTSTAKEGKEYFKNLGKHKKDFV 636
>gnl|CDD|177398 PHA02569, 39, DNA topoisomerase II large subunit; Provisional.
Length = 602
Score = 94.4 bits (235), Expect = 9e-20
Identities = 103/374 (27%), Positives = 152/374 (40%), Gaps = 60/374 (16%)
Query: 317 SYCNTILTDEGGTH----ESGLRVALTRGIKKYAELTQNKRAISIISDDLMISAVGILSV 372
S+ N + T GG H + L IKK ++ K + + L I +
Sbjct: 263 SFVNGLHTKNGGHHVDCVMDDICEELIPMIKKKHKIEVTKARVK---ECLTIV------L 313
Query: 373 FIRE---PEFAGQTKTKLVS----------LDAQRTVENALRDPFDHYLVQNPIEATKLL 419
F+R P F QTK +L S LD ++ + L+ ++ IEA
Sbjct: 314 FVRNMSNPRFDSQTKERLTSPFGEIRNHIDLDYKKIAKQILKTE---AIIMPIIEAALAR 370
Query: 420 EWVIERSEERLRRRKQREVNRKTAIRKLRLPGKLADCSQNIAHGTELFIVEGDSAGGSAK 479
+ E++ E +K ++ I K L GK A+ T LF+ EGDSA G
Sbjct: 371 KLAAEKAAETKAAKKAKKAKVAKHI-KANLIGKDAE--------TTLFLTEGDSAIGYLI 421
Query: 480 QARNRSNQAVLPLRGKILNVASAGSEKIRNNQQIMDLVQALGCRTRSQYREEDLRYEKVI 539
+ R+ PLRGK+LN I N+++ D+ G + E++ Y+ +
Sbjct: 422 EVRDEELHGGYPLRGKVLNTWGMSYADILKNKELFDICAITGLVLGE--KAENMNYKNIA 479
Query: 540 IMTDADVDG-AHIASLLLTFFYQEMYDLIEQKHLFLISPPLFRITQG--TKSVYAHDEEH 596
IMTDADVDG I LLL FF + +L EQ + + P+ G TK Y+ DE
Sbjct: 480 IMTDADVDGKGSIYPLLLAFFSR-WPELFEQGRIRFVKTPVIIAQVGKETKWFYSLDEFE 538
Query: 597 KQKILEEFKKHGKGKIEISRFKGLGEMLASQLKETAMDANKRTLLRVEINKDLNSLKDTQ 656
K K + KK I KGLG + S+ + + V + D L +
Sbjct: 539 KAK--DSLKKW-----SIRYIKGLGSLRKSEYRRVINNPVYDV---VVLPDDWKELFEM- 587
Query: 657 DSINKLMGTKADER 670
L G AD R
Sbjct: 588 -----LFGDDADLR 596
Score = 84.0 bits (208), Expect = 1e-16
Identities = 59/200 (29%), Positives = 83/200 (41%), Gaps = 44/200 (22%)
Query: 49 IRILEGLEPVRMRPGMYIGGTDEKA-----------------LHHLFSEVIDNAMDEVIA 91
++L E + RPGMYIG +A L + E+IDN++DE I
Sbjct: 4 FKVLSDREHILKRPGMYIGSVAYEAHERFLFGKFTQVEYVPGLVKIIDEIIDNSVDEAIR 63
Query: 92 G---YANLIEVSLDGNGFLTVVDNGRGIPVENHPKFPNKSTL---EIILTTLHAGGKFDN 145
+AN I+V++ N +TV DNGRGIP + P + T AG FD
Sbjct: 64 TNFKFANKIDVTIKNN-QVTVSDNGRGIP-QAMVTTPEGEEIPGPVAAWTRTKAGSNFD- 120
Query: 146 STYEISGGLHGVGISVVNALSDE-LHVTVARQNTI-------FSQKFSRGIPLSPLEKKE 197
T ++GG++GVG S+ N S + T +N + P K
Sbjct: 121 DTNRVTGGMNGVGSSLTNFFSVLFIGETCDGKNEVTVNCSNGAENISWSTKP-----GKG 175
Query: 198 KVRNKRGTRITFRPDPKIFG 217
K GT +TF PD F
Sbjct: 176 K-----GTSVTFIPDFSHFE 190
>gnl|CDD|128669 smart00387, HATPase_c, Histidine kinase-like ATPases. Histidine
kinase-, DNA gyrase B-, phytochrome-like ATPases.
Length = 111
Score = 68.1 bits (167), Expect = 7e-12
Identities = 31/149 (20%), Positives = 51/149 (34%), Gaps = 41/149 (27%)
Query: 69 TDEKALHHLFSEVIDNAMDEVIAGYANLIEVSL---DGNGFLTVVDNGRGIPVENHPKFP 125
D L + S ++DNA+ G I V+L + +TV DNG GIP E+ K
Sbjct: 1 GDPDRLRQVLSNLLDNAIKYTPEG--GRITVTLERDGDHLEITVEDNGPGIPPEDLEK-- 56
Query: 126 NKSTLEIILTTLHAGGKFDNSTYEISGGLHGVGISVVNALSDELHVTVARQNTIFSQKFS 185
+ D + +I G G+G+S+V L + ++ ++
Sbjct: 57 ----------IFEPFFRTDGRSRKIGG--TGLGLSIVKKLVELHGGEISVES-------- 96
Query: 186 RGIPLSPLEKKEKVRNKRGTRITFRPDPK 214
GT T +
Sbjct: 97 --------------EPGGGTTFTITLPLE 111
>gnl|CDD|162176 TIGR01052, top6b, DNA topoisomerase VI, B subunit. This model
describes DNA topoisomerase VI, an archaeal type II DNA
topoisomerase (DNA gyrase).
Length = 488
Score = 34.8 bits (80), Expect = 0.077
Identities = 44/158 (27%), Positives = 66/158 (41%), Gaps = 37/158 (23%)
Query: 72 KALHHLFSEVIDNAMDEV-IAGYANLIEVS---LDGNGF-LTVVDNGRGIPVENHPKFPN 126
++L + E++ N++D AG I+V + + + +TV DNG GIP E PK
Sbjct: 27 RSLTTVIHELVTNSLDACEEAGILPDIKVEIEKIGKDHYKVTVEDNGPGIPEEYIPK--- 83
Query: 127 KSTLEIILTTLHAGGKFDNSTYEISGGLHGVGIS---------------VVNALSDELHV 171
+ + AG KF S G G+GIS V+++ E++V
Sbjct: 84 ------VFGKMLAGSKFHRIIQ--SRGQQGIGISGAVLYSQMTTGKPVKVISSTGGEIYV 135
Query: 172 TVARQNTIFSQKFSRGIPLSPLEKKE-KVRNKRGTRIT 208
+ I QK I +EK E RGTRI
Sbjct: 136 YKMKL-KIDVQKNEGEI----VEKGEWNKPGWRGTRIE 168
>gnl|CDD|162407 TIGR01537, portal_HK97, phage portal protein, HK97 family. This
model represents one of several distantly related
families of phage portal protein. This protein forms a
hole, or portal, that enables DNA passage during
packaging and ejection. It also forms the junction
between the phage head (capsid) and the tail proteins.
It functions as a dodecamer of a single polypeptide of
average mol. wt. of 40-90 KDa.
Length = 341
Score = 32.7 bits (75), Expect = 0.34
Identities = 30/128 (23%), Positives = 47/128 (36%), Gaps = 33/128 (25%)
Query: 101 LDGNGFLTVVDNGRGIPVENHPKFPNKSTLEI------ILTTLHAGGKFDNSTYEISGG- 153
LDGN ++ ++ + G E PNK TL+ I + D T E +
Sbjct: 70 LDGNAYIVIIRDKSGEIYELDLLTPNKVTLDNDADDRLIYYVITFD---DYPTIEKNFTF 126
Query: 154 ----------LHG-VGISVVNALSDELHVTVARQNTIFSQKFSRGIPLSPL--------- 193
L G VGIS + L + + + A Q + +KF +
Sbjct: 127 EDVLHLKLNSLDGLVGISPLEYLGETIGLDNAAQK--YKKKFFKNGLRPSGVLKVAGSLD 184
Query: 194 -EKKEKVR 200
E +EK+R
Sbjct: 185 EEAREKLR 192
>gnl|CDD|179626 PRK03660, PRK03660, anti-sigma F factor; Provisional.
Length = 146
Score = 31.8 bits (73), Expect = 0.54
Identities = 22/63 (34%), Positives = 30/63 (47%), Gaps = 13/63 (20%)
Query: 79 SEVIDNAMDEVIAGYAN------LIEVSLDGNGF-LTVVDNGRGIP-VEN--HPKFPNKS 128
SE + NA +I GY N IEV ++ +TV D G+GI +E P + K
Sbjct: 45 SEAVTNA---IIHGYENNPDGVVYIEVEIEEEELEITVRDEGKGIEDIEEAMQPLYTTKP 101
Query: 129 TLE 131
LE
Sbjct: 102 ELE 104
>gnl|CDD|161941 TIGR00585, mutl, DNA mismatch repair protein MutL. All proteins in
this family for which the functions are known are
involved in the process of generalized mismatch repair.
This family is based on the phylogenomic analysis of JA
Eisen (1999, Ph.D. Thesis, Stanford University).
Length = 312
Score = 31.5 bits (72), Expect = 0.81
Identities = 17/45 (37%), Positives = 27/45 (60%), Gaps = 6/45 (13%)
Query: 80 EVIDNAMDEVIAGYANLIEVSLDGNGF--LTVVDNGRGIPVENHP 122
E+++N++D AG A I+V ++ G + V DNG GI E+ P
Sbjct: 29 ELVENSLD---AG-ATRIDVEIEEGGLKLIEVSDNGSGIDKEDLP 69
>gnl|CDD|179773 PRK04184, PRK04184, DNA topoisomerase VI subunit B; Validated.
Length = 535
Score = 31.0 bits (71), Expect = 1.0
Identities = 32/99 (32%), Positives = 44/99 (44%), Gaps = 20/99 (20%)
Query: 72 KALHHLFSEVIDNAMD--EVIAG-----YANLIEVSLDGNGF-LTVVDNGRGIPVENHPK 123
+AL+ E++DN++D E AG + V + + +TV DNG GIP E PK
Sbjct: 35 RALYTTVKELVDNSLDACEE-AGILPDIKIEIKRVDEGKDHYRVTVEDNGPGIPPEEIPK 93
Query: 124 FPNKSTLEIILTTLHAGGKFDNSTYEISGGLHGVGISVV 162
+ L G KF N S G G+GIS
Sbjct: 94 ---------VFGKLLYGSKFHNLRQ--SRGQQGIGISAA 121
>gnl|CDD|178860 PRK00095, mutL, DNA mismatch repair protein; Reviewed.
Length = 617
Score = 31.0 bits (71), Expect = 1.1
Identities = 16/42 (38%), Positives = 25/42 (59%), Gaps = 6/42 (14%)
Query: 80 EVIDNAMDEVIAGYANLIEVSLDGNG--FLTVVDNGRGIPVE 119
E+++NA+D AG A I++ ++ G + V DNG GI E
Sbjct: 29 ELVENALD---AG-ATRIDIEIEEGGLKLIRVRDNGCGISKE 66
>gnl|CDD|148480 pfam06882, DUF1263, Protein of unknown function (DUF1263). This
family represents a conserved region located towards
the C-terminus of a number proteins of unknown function
that seem to be specific to Oryza sativa.
Length = 108
Score = 29.4 bits (66), Expect = 3.4
Identities = 8/13 (61%), Positives = 11/13 (84%)
Query: 58 VRMRPGMYIGGTD 70
V M+PG+Y+ GTD
Sbjct: 59 VAMKPGIYLTGTD 71
>gnl|CDD|173000 PRK14534, cysS, cysteinyl-tRNA synthetase; Provisional.
Length = 481
Score = 29.0 bits (65), Expect = 3.6
Identities = 17/53 (32%), Positives = 24/53 (45%), Gaps = 8/53 (15%)
Query: 599 KILEEFK----KHGKGKIEISRFKGLGEMLASQLKETAMDANKRTLLRVEINK 647
K+LEE +G + S FK G+M L D ++ RVEI+K
Sbjct: 135 KVLEENGFTYFVNGNVYFDTSCFKSYGQMAGINL----NDFKDMSVSRVEIDK 183
>gnl|CDD|185087 PRK15133, PRK15133, microcin C ABC transporter permease YejB;
Provisional.
Length = 364
Score = 28.9 bits (65), Expect = 4.2
Identities = 21/53 (39%), Positives = 26/53 (49%), Gaps = 15/53 (28%)
Query: 68 GTDEKALHHLFSEVIDNAMDEVIAGY-----------ANLIEV--SLDGNGFL 107
G EK + L+ V NAM VIAG+ + LIEV SL+G G L
Sbjct: 267 GVSEKNI--LWKHVFRNAMLLVIAGFPATFISMFFTGSLLIEVMFSLNGLGLL 317
>gnl|CDD|147822 pfam05875, aPHC, Alkaline phytoceramidase (aPHC). This family
consists of several eukaryotic Alkaline phytoceramidase
(aPHC) sequences. Ceramidases are enzymes involved in
regulating cellular levels of ceramides, sphingoid
bases, and their phosphates. Alkaline phytoceramidase
(aPHC) is responsible for the hydrolysis of
phytoceramide.
Length = 263
Score = 28.8 bits (65), Expect = 4.4
Identities = 9/21 (42%), Positives = 12/21 (57%), Gaps = 4/21 (19%)
Query: 306 IAWCEENPEITSYC----NTI 322
I WCEEN ++ Y NT+
Sbjct: 11 IDWCEENYVVSPYIAEFVNTL 31
>gnl|CDD|178477 PLN02889, PLN02889, oxo-acid-lyase/anthranilate synthase.
Length = 918
Score = 28.7 bits (64), Expect = 5.3
Identities = 20/82 (24%), Positives = 34/82 (41%), Gaps = 6/82 (7%)
Query: 12 LPPQSQGSSEKLKKSGEIPDSPAFANQSASDNYDASSIRILEGLEPVRMRPGMYIGGTD- 70
+P +G S K+ E F DNYD+ + I + L V P + + +
Sbjct: 58 VPGHLEGLSMGKKQLEEPSQKLEFVRTLLIDNYDSYTYNIYQELSIVNGVPPVVVRNDEW 117
Query: 71 --EKALHHLFSEVIDNAMDEVI 90
E+ H+L+ E A D ++
Sbjct: 118 TWEEVYHYLYEE---KAFDNIV 136
>gnl|CDD|184870 PRK14868, PRK14868, DNA topoisomerase VI subunit B; Provisional.
Length = 795
Score = 28.6 bits (64), Expect = 5.9
Identities = 31/96 (32%), Positives = 40/96 (41%), Gaps = 15/96 (15%)
Query: 69 TDEKALHHLFSEVIDNAMDEVI-AGYANLIEVSLDGNG---FLTVVDNGRGIPVENHPKF 124
+ + L E +DNA+D AG I V ++ G L V DNG GI E PK
Sbjct: 42 SGARGLVTAVKEAVDNALDATEEAGILPDIYVEIEEVGDYYRLVVEDNGPGITKEQIPK- 100
Query: 125 PNKSTLEIILTTLHAGGKFDNSTYEISGGLHGVGIS 160
+ L G +F E S G G+GIS
Sbjct: 101 --------VFGKLLYGSRF--HAREQSRGQQGIGIS 126
>gnl|CDD|182457 PRK10434, srlR, DNA-bindng transcriptional repressor SrlR;
Provisional.
Length = 256
Score = 28.5 bits (64), Expect = 6.0
Identities = 25/104 (24%), Positives = 43/104 (41%), Gaps = 17/104 (16%)
Query: 594 EEHKQKILEEFKKHGKGKIE--ISRFKGLGEMLASQLKETAMDANKRTLLR----VEINK 647
+ + ILE +K GK +E F G + L ++ + T++R V +NK
Sbjct: 4 RQRQAAILEYLQKQGKTSVEELAQYFDTTGTTIRKDL--VILE-HAGTVIRTYGGVVLNK 60
Query: 648 DLNSLK-DTQDSIN----KLMGTKADERFKFIQERASFIDDVGT 686
+ + D + IN +L+ A I + S I D G+
Sbjct: 61 EESDPPIDHKTLINTHKKELIAEAA---VSLIHDGDSIILDAGS 101
>gnl|CDD|178532 PLN02946, PLN02946, cysteine-tRNA ligase.
Length = 557
Score = 28.4 bits (63), Expect = 6.7
Identities = 12/27 (44%), Positives = 17/27 (62%)
Query: 420 EWVIERSEERLRRRKQREVNRKTAIRK 446
E V+++ EER RK +E + AIRK
Sbjct: 498 EQVLQKIEERTVARKNKEYEKSDAIRK 524
>gnl|CDD|185195 PRK15295, PRK15295, fimbrial assembly chaperone SthB; Provisional.
Length = 226
Score = 28.0 bits (62), Expect = 8.3
Identities = 10/18 (55%), Positives = 13/18 (72%)
Query: 570 KHLFLISPPLFRITQGTK 587
K F+I+PPLFR+ G K
Sbjct: 65 KQAFIITPPLFRLDAGQK 82
>gnl|CDD|184600 PRK14278, PRK14278, chaperone protein DnaJ; Provisional.
Length = 378
Score = 27.7 bits (62), Expect = 9.8
Identities = 10/38 (26%), Positives = 18/38 (47%), Gaps = 1/38 (2%)
Query: 595 EHKQ-KILEEFKKHGKGKIEISRFKGLGEMLASQLKET 631
+H+ ++L E K ++ R L S+L+ET
Sbjct: 337 DHEDIELLRELKALRGREVAEVRSTHAQGGLFSRLRET 374
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
0.316 0.134 0.377
Gapped
Lambda K H
0.267 0.0783 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 11,080,842
Number of extensions: 734654
Number of successful extensions: 1841
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1749
Number of HSP's successfully gapped: 51
Length of query: 686
Length of database: 5,994,473
Length adjustment: 100
Effective length of query: 586
Effective length of database: 3,833,673
Effective search space: 2246532378
Effective search space used: 2246532378
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 (21.6 bits)
S2: 61 (27.2 bits)