RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddA
21,609 sequences; 6,263,737 total letters
Searching..................................................done
Query= gi|254780947|ref|YP_003065360.1| transcription-repair coupling
factor [Candidatus Liberibacter asiaticus str. psy62]
(1187 letters)
>gnl|CDD|31390 COG1197, Mfd, Transcription-repair coupling factor (superfamily II
helicase) [DNA replication, recombination, and repair /
Transcription].
Length = 1139
Score = 1159 bits (3000), Expect = 0.0
Identities = 467/1155 (40%), Positives = 692/1155 (59%), Gaps = 37/1155 (3%)
Query: 16 KKITLSPVIDGTEGFILAEIAR-LGLSLVYICSDERILINLKKILTLVVPDIRVIIFPAW 74
+ L + G + ++A +A ++ + +D + L + L PD V++ P W
Sbjct: 10 DPLLLGGLSGGAKALLIAALAEEKPNPVLLVTADLQEADRLAEDLRFF-PDQPVLLLPDW 68
Query: 75 DCLPYDRVSPSPYVVTRRLSCISNLVSFNSSKETIIVLTTVSAVMCRSVNIMSIKDYKLS 134
+ LPYDR SPS +V+ RL + L IV+ V+A++ + +++ L+
Sbjct: 69 ETLPYDRFSPSQDIVSSRLEALRRLAQGKKG----IVVVPVNALLQKLPPPDFLEENSLT 124
Query: 135 IQSKDQIDMAKVIEKLETNGFQRVNAVYKVGEYAVRGGILDVYEPTKKYPVRLDFFGNTI 194
++ +++D+ + +L G++RV+ V + GE+AVRGGILD++ P + P R++FFG+ I
Sbjct: 125 LKVGEELDLDDLEARLVRAGYERVDMVMEPGEFAVRGGILDIFPPGSEEPYRIEFFGDEI 184
Query: 195 DSLRLFDSSTQRTIREISIFEINTLSEVMLTSQNISRFRENYLANFGTTTQEDPLYVAIS 254
+S+R FD TQR++ E+ E+ SE +L + I FR+ YL F +D LY A+S
Sbjct: 185 ESIRSFDPETQRSLEEVEEIELLPASEFILDEEAIEAFRKQYLETFEPKR-DDALYEALS 243
Query: 255 QGRRYPGMEHWLPFFYQSMETIFPYLSE-FCIITDPLVKETARKRSQLIQDYYEARLQYS 313
GRR+ G+E++LP FY+ + T+F YL + I+ D V E A + + + D+YEARL
Sbjct: 244 SGRRFAGLEYFLPLFYEDLATLFDYLPKNTLIVVDERVLEAAEEFEKEVADFYEARLSDG 303
Query: 314 SDKKQYSVYKPIAPEKLYLNYQQFDALIQTTHKLVQMTAFNQQETAHNRVVHLNAFPGKS 373
Y P+ PE LYL+ ++ L++ + + + + E + +++L+ P +
Sbjct: 304 E-------YPPLPPEALYLSAEELFELLKPVPR-ISLFPEHLPELSAEEIINLDPLPDLA 355
Query: 374 WVPSAVQKIESQDNWESGGRFDKFLSHVAQQAQKGIKTIISASSQGALQHLIHLIESHGF 433
+ + D + + G K II A S+G + L+ L+ H
Sbjct: 356 FFGQHKEP------------LDALRKEIERFR-GGYKVIILAESEGRRERLLELLAEHDI 402
Query: 434 KKIKKINTLTEINSLLKEEIAAVILPINQGFETKHM--ILVTETDLLGKKIARRVVRKKN 491
K + ++ K E+ + P+ GF ++TE++LLG ++ RR RK+
Sbjct: 403 PPQK----VDRLDEAKKGEVYIAVGPLESGFILPDEKLAVITESELLGSRVKRRRRRKRR 458
Query: 492 VHAQSFFDS-SNIEEGAIIVHAEHGIGRFVRLYSIEVSGTFHDCLELHYADNAKLFVPVE 550
+ + ++ G +VH +HGIGRF+ L ++EV G D LEL YA KL+VPVE
Sbjct: 459 KKNATRIKDLAELKPGDYVVHIDHGIGRFLGLETLEVGGIERDYLELEYAGEDKLYVPVE 518
Query: 551 NIDLISRY-STEITTVTLDKLGGSAWKTRKANLKKRLEDLAQKLVDIAAKRAIHSVPPLM 609
+ LISRY L KLGG AWK KA +K++ D+A +L+ + AKR
Sbjct: 519 QLHLISRYVGASDEAPKLHKLGGGAWKKAKAKARKKVRDIAAELIKLYAKRQAKKGFAFP 578
Query: 610 VSQDLYSQFIKRFPHVETEDQEKAIDAVIQDLSSGRLMDRLICGDVGFGKTEIALRAAFI 669
+ +F FP+ ET DQ KAI+ V +D+ SG+ MDRLICGDVGFGKTE+A+RAAF
Sbjct: 579 PDTEWQEEFEASFPYEETPDQLKAIEEVKRDMESGKPMDRLICGDVGFGKTEVAMRAAFK 638
Query: 670 AVMNGLQVAVIAPTTLLVRQHFRLFSERFQGFSVRIASISRFVQTKEAALHKKSITEGQV 729
AVM+G QVAV+ PTTLL +QH+ F ERF GF VRI +SRF KE K + EG+V
Sbjct: 639 AVMDGKQVAVLVPTTLLAQQHYETFKERFAGFPVRIEVLSRFRSAKEQKEILKGLAEGKV 698
Query: 730 DIVIGTHALLNPKITFANLGLIIIDEEQHFGVKHKEALKETHTGVHVLTLSATPIPRTLQ 789
DIVIGTH LL+ + F +LGL+IIDEEQ FGVKHKE LKE V VLTLSATPIPRTL
Sbjct: 699 DIVIGTHRLLSKDVKFKDLGLLIIDEEQRFGVKHKEKLKELRANVDVLTLSATPIPRTLN 758
Query: 790 LAITGVRELSLISMPPINRIACRTSISIFDPLVVRETLMREYYRGGQSFYVCPRLSDLEK 849
++++G+R+LS+I+ PP +R+ +T +S +D L++RE ++RE RGGQ FYV R+ +EK
Sbjct: 759 MSLSGIRDLSVIATPPEDRLPVKTFVSEYDDLLIREAILRELLRGGQVFYVHNRVESIEK 818
Query: 850 CYTFLQSEVPELKIAMAHGQMSPKNLEDKMNAFYEGQYDVLLSTSIVESGLDLPKANTMI 909
L+ VPE +IA+AHGQM + LE+ M FY G+YDVL+ T+I+E+G+D+P ANT+I
Sbjct: 819 KAERLRELVPEARIAVAHGQMRERELEEVMLDFYNGEYDVLVCTTIIETGIDIPNANTII 878
Query: 910 VQRADMFGLAQLYQLRGRVGRSKIASFALFLLPENRPLTAAAQKRLRILQSLNTLGAGFQ 969
++RAD FGLAQLYQLRGRVGRS ++A FL P + LT A+KRL + S LGAGF+
Sbjct: 879 IERADKFGLAQLYQLRGRVGRSNKQAYAYFLYPPQKALTEDAEKRLEAIASFTELGAGFK 938
Query: 970 LASYDLDIRGTGNLLGEEQSGHIREIGFELYQKMLEETVASIKGQKDLVESDWSPQVLIE 1029
LA +DL+IRG GNLLGEEQSGHI +GF+LY +MLEE +A++KG +++E + ++ +
Sbjct: 939 LAMHDLEIRGAGNLLGEEQSGHIESVGFDLYMEMLEEAIAALKGSLEVLEEEKEVEIDLP 998
Query: 1030 ASVMIPESYVSDINLRLSLYRRLGNITDHADISHFKEEMVDRFGPLPIEVIHLLKVVFLK 1089
IPE Y+ D NLRL LY+RL N ++ KEE++DRFGPLP EV +LL + LK
Sbjct: 999 VPAFIPEDYIPDDNLRLELYKRLANAESEEELEEIKEELIDRFGPLPDEVKNLLDIAELK 1058
Query: 1090 LLCRIANIDKMDIGLKGIIIQFRHKTFSNPEALLQYIAQQKGKIIIRPDQNLVFDCLLPT 1149
LL R I+K+D G G++I+F NP+ L++ + +Q K ++ D L+F L
Sbjct: 1059 LLARKLGIEKIDAGENGVVIEFSKNEQVNPKKLIKLLQKQPLKAKLKGDTKLLFIKDLIE 1118
Query: 1150 INQRFFEAKRIITHL 1164
+R +++ L
Sbjct: 1119 PEERLDAVAKLLKAL 1133
>gnl|CDD|31393 COG1200, RecG, RecG-like helicase [DNA replication, recombination,
and repair / Transcription].
Length = 677
Score = 328 bits (842), Expect = 6e-90
Identities = 167/446 (37%), Positives = 252/446 (56%), Gaps = 30/446 (6%)
Query: 582 LKKRL---EDLAQ--KLVDIAAKRAIHSVPPLMVSQDLYSQFIKRFPHVETEDQEKAIDA 636
++RL E LA L+ AKR S PL + +L ++F+ P T Q++ I
Sbjct: 214 ARRRLAFEELLALQLSLLLRRAKRQKRSGIPLPANGELLAKFLAALPFKLTNAQKRVIKE 273
Query: 637 VIQDLSSGRLMDRLICGDVGFGKTEIALRAAFIAVMNGLQVAVIAPTTLLVRQHFRLFSE 696
++ DL+S M+RL+ GDVG GKT +AL A A+ G Q A++APT +L QH+ +
Sbjct: 274 ILADLASPVPMNRLLQGDVGSGKTVVALLAMLAAIEAGYQAALMAPTEILAEQHYESLRK 333
Query: 697 RFQGFSVRIASISRFVQTKEAALHKKSITEGQVDIVIGTHALLNPKITFANLGLIIIDEE 756
+ +R+A ++ ++ K + + G++DIV+GTHAL+ K+ F NLGL+IIDE+
Sbjct: 334 WLEPLGIRVALLTGSLKGKARKEILEQLASGEIDIVVGTHALIQDKVEFHNLGLVIIDEQ 393
Query: 757 QHFGVKHKEALKET-HTGVHVLTLSATPIPRTLQLAITGVRELSLISMPPINRIACRTSI 815
FGV + AL+E HVL ++ATPIPRTL L G ++S+I P R T +
Sbjct: 394 HRFGVHQRLALREKGEQNPHVLVMTATPIPRTLALTAFGDLDVSIIDELPPGRKPITTVV 453
Query: 816 SIFDPLV--VRETLMREYYRGGQSFYVCPRLSDLEKC--------YTFLQSEVPELKIAM 865
I V E + E +G Q++ VCP + + EK Y L+S +PELK+ +
Sbjct: 454 -IPHERRPEVYERIREEIAKGRQAYVVCPLIEESEKLELQAAEELYEELKSFLPELKVGL 512
Query: 866 AHGQMSPKNLEDKMNAFYEGQYDVLLSTSIVESGLDLPKANTMIVQRADMFGLAQLYQLR 925
HG+M P + M AF EG+ D+L++T+++E G+D+P A M+++ A+ FGLAQL+QLR
Sbjct: 513 VHGRMKPAEKDAVMEAFKEGEIDILVATTVIEVGVDVPNATVMVIENAERFGLAQLHQLR 572
Query: 926 GRVGRSKIASFALFLLPENRPLTAAAQKRLRILQSLNTLGAGFQLASYDLDIRGTGNLLG 985
GRVGR + S+ + L PL+ A++RL+I++ GF +A DL +RG G LLG
Sbjct: 573 GRVGRGDLQSYCVLLY--KPPLSEVAKQRLKIMRETTD---GFVIAEEDLKLRGPGELLG 627
Query: 986 EEQSGHIREIGFELY-----QKMLEE 1006
QSG F + +LEE
Sbjct: 628 TRQSG---LPEFRVADLVRDYDILEE 650
>gnl|CDD|146217 pfam03461, TRCF, TRCF domain.
Length = 101
Score = 110 bits (278), Expect = 2e-24
Identities = 37/100 (37%), Positives = 60/100 (60%)
Query: 1028 IEASVMIPESYVSDINLRLSLYRRLGNITDHADISHFKEEMVDRFGPLPIEVIHLLKVVF 1087
+ IP+ Y+ D+ RL LY+R+ ++ ++E++DRFGPLP EV +LL++
Sbjct: 2 LPVDAFIPDDYIPDVRQRLELYKRIAAAESEEELDEIEDELIDRFGPLPEEVKNLLELAR 61
Query: 1088 LKLLCRIANIDKMDIGLKGIIIQFRHKTFSNPEALLQYIA 1127
LKLL + I+K+ + KGI +QF T +PE L++ I
Sbjct: 62 LKLLAKRLGIEKIKLKGKGITLQFSDDTSIDPEKLIKLIQ 101
>gnl|CDD|144015 pfam00270, DEAD, DEAD/DEAH box helicase. Members of this family
include the DEAD and DEAH box helicases. Helicases are
involved in unwinding nucleic acids. The DEAD box
helicases are involved in various aspects of RNA
metabolism, including nuclear transcription, pre mRNA
splicing, ribosome biogenesis, nucleocytoplasmic
transport, translation, RNA decay and organellar gene
expression.
Length = 167
Score = 108 bits (272), Expect = 1e-23
Identities = 47/176 (26%), Positives = 76/176 (43%), Gaps = 24/176 (13%)
Query: 627 TEDQEKAIDAVIQDLSSGRLMDRLICGDVGFGKTEIALRAAFIAVMN---GLQVAVIAPT 683
T Q +AI A+++ D L+ G GKT L A A++ G Q V+APT
Sbjct: 1 TPIQAEAIPAILEG------KDVLVQAPTGSGKTLAFLLPALQALLKNPDGPQALVLAPT 54
Query: 684 TLLVRQHFRLFSERFQGFSVRIASISRFVQTKEAALHKKSITEGQVDIVIGTHALL---- 739
L Q + + + +++A + KE + + DI++GT L
Sbjct: 55 RELAEQIYEELKKLGKYLGLKVALLYGGDSPKE----QLRKLKKGPDILVGTPGRLLDLL 110
Query: 740 -NPKITFANLGLIIIDE-----EQHFGVKHKEALKETHTGVHVLTLSATPIPRTLQ 789
+ NL L+++DE +Q FG +E L+ +L LSAT PR ++
Sbjct: 111 ERGGLLLKNLKLLVLDEAHRLLDQGFGDDLEEILRRLPPKRQILLLSATL-PRNVE 165
>gnl|CDD|145606 pfam02559, CarD_TRCF, CarD-like/TRCF domain. CarD is a Myxococcus
xanthus protein required for the activation of light-
and starvation-inducible genes. This family includes the
presumed N-terminal domain. CarD interacts with the
zinc-binding protein CarG, to form a complex that
regulates multiple processes in Myxococcus xanthus. This
family also includes a domain to the N-terminal side of
the DEAD helicase of TRCF proteins. TRCF displaces RNA
polymerase stalled at a lesion, binds to the damage
recognition protein UvrA, and increases the template
strand repair rate during transcription. This domain is
involved in binding to the stalled RNA polymerase.
Length = 98
Score = 108 bits (272), Expect = 1e-23
Identities = 42/98 (42%), Positives = 59/98 (60%), Gaps = 1/98 (1%)
Query: 502 NIEEGAIIVHAEHGIGRFVRLYSIEVSGTFHDCLELHYADNAKLFVPVENIDLISRY-ST 560
++ G +VH +HG+GRF + +IEV G + L YAD KL+VPV+ +DLI RY +
Sbjct: 1 MLKVGDYVVHPDHGVGRFEGIETIEVGGEKREYYVLEYADGDKLYVPVDQLDLIGRYIGS 60
Query: 561 EITTVTLDKLGGSAWKTRKANLKKRLEDLAQKLVDIAA 598
E LDKLGG WK RK +K D+A +L+ + A
Sbjct: 61 EDEVPVLDKLGGGTWKKRKRKIKSGDIDIAAELLRLLA 98
>gnl|CDD|33855 COG4098, comFA, Superfamily II DNA/RNA helicase required for DNA
uptake (late competence protein) [DNA replication,
recombination, and repair].
Length = 441
Score = 82.3 bits (203), Expect = 8e-16
Identities = 78/356 (21%), Positives = 146/356 (41%), Gaps = 64/356 (17%)
Query: 612 QDLYSQFIKRFPHVE--------TEDQEKAIDAVIQDLSSGRLMDRLICGDVGFGKTEIA 663
Q LY FP + Q+KA + ++Q + D L+ G GKTE+
Sbjct: 76 QKLYYWKPYAFPKKSVLQWKGTLSPGQKKASNQLVQYIKQKE--DTLVWAVTGAGKTEMI 133
Query: 664 LRAAFIAVMNGLQVAVIAPTTLLVRQHFRLFSERFQGFSVRIASISRFVQTKEAALHKKS 723
+ A+ G +V + +P + + + + F + L+ S
Sbjct: 134 FQGIEQALNQGGRVCIASPRVDVCLELYPRLKQAFSNCDI-------------DLLYGDS 180
Query: 724 ITEGQVDIVIGT-HALLNPKITFANLGLIIIDE--------EQHFGVKHKEALKETHTGV 774
+ + +V+ T H LL K F L+IIDE +Q K+A K+
Sbjct: 181 DSYFRAPLVVATTHQLLRFKQAF---DLLIIDEVDAFPFSDDQSLQYAVKKARKKEGA-- 235
Query: 775 HVLTLSATPIPRTLQLAITGVRELSLISMP-----------------PINRIACRTSISI 817
+ L+ATP + + + G L ++ +P N+ R +
Sbjct: 236 -TIYLTATPTKKLERKILKG--NLRILKLPARFHGKPLPVPKFVWIGNWNKKLQRNKL-- 290
Query: 818 FDPLVVRETLMREYYRGGQSFYVCPRLSDLEKCYTFLQSEVPELKIAMAHGQMSPKNLED 877
PL ++ L ++ G P + +E+ L+ ++P+ IA H + ++ ++
Sbjct: 291 --PLKLKRWLEKQRKTGRPVLIFFPEIETMEQVAAALKKKLPKETIASVHSE--DQHRKE 346
Query: 878 KMNAFYEGQYDVLLSTSIVESGLDLPKANTMIV-QRADMFGLAQLYQLRGRVGRSK 932
K+ AF +G+ +L++T+I+E G+ P + ++ +F + L Q+ GRVGRS
Sbjct: 347 KVEAFRDGKITLLITTTILERGVTFPNVDVFVLGAEHRVFTESALVQIAGRVGRSL 402
>gnl|CDD|28960 cd00079, HELICc, Helicase superfamily c-terminal domain; associated
with DEXDc-, DEAD-, and DEAH-box proteins, yeast
initiation factor 4A, Ski2p, and Hepatitis C virus NS3
helicases; this domain is found in a wide variety of
helicases and helicase related proteins; may not be an
autonomously folding unit, but an integral part of the
helicase; 4 helicase superfamilies at present according
to the organization of their signature motifs; all
helicases share the ability to unwind nucleic acid
duplexes with a distinct directional polarity; they
utilize the free energy from nucleoside triphosphate
hydrolysis to fuel their translocation along DNA,
unwinding the duplex in the process.
Length = 131
Score = 77.7 bits (191), Expect = 2e-14
Identities = 33/119 (27%), Positives = 56/119 (47%), Gaps = 3/119 (2%)
Query: 822 VVRETLMREYYRGGQSFYVCPRLSDLEKCYTFLQSEVPELKIAMAHGQMSPKNLEDKMNA 881
+ E L +GG+ CP L++ L+ P +K+A HG S + E+ +
Sbjct: 16 ALLELLKEHLKKGGKVLIFCPSKKMLDELAELLRK--PGIKVAALHGDGSQEEREEVLKD 73
Query: 882 FYEGQYDVLLSTSIVESGLDLPKANTMIVQRADMFGLAQLYQLRGRVGRSKIASFALFL 940
F EG+ VL++T ++ G+DLP + +I + + Q GR GR+ A+ L
Sbjct: 74 FREGEIVVLVATDVIARGIDLPNVSVVINYDLP-WSPSSYLQRIGRAGRAGQKGTAILL 131
>gnl|CDD|35565 KOG0344, KOG0344, KOG0344, ATP-dependent RNA helicase [RNA
processing and modification].
Length = 593
Score = 76.6 bits (188), Expect = 4e-14
Identities = 63/377 (16%), Positives = 117/377 (31%), Gaps = 81/377 (21%)
Query: 616 SQFIKRFPHVETEDQEKA-IDAVIQDLSSGRLMDRLICGDVGFGKTEIALRAAFIAVMNG 674
S +F Q+ A + D+ M I G +G GK I L V++
Sbjct: 239 SLRAAQFSKPAYPSQKPAFLSDEKYDILISTPMR--IVGLLGLGKLNIDLSKVEWLVVDE 296
Query: 675 LQVAVIAPTTLLVRQHFRLFSERFQGFSVRIASISRFVQTKEAALHKKSITEGQVDIVIG 734
+ P V Q ++S +R+A S + + I +++G
Sbjct: 297 -ADLLFEPEFF-VEQLADIYSACQSP-DIRVALFS-ATISVYVEEWAELIKSDLKRVIVG 352
Query: 735 THALLNPKITFANLGLIIIDEEQHFGVKHKEALKETHTGVHVLTLSATPIPRTLQLAITG 794
N +D+E F K L LA+
Sbjct: 353 LR----------NSANETVDQELVFCGSEKGKL----------------------LAL-- 378
Query: 795 VRELSLISMPPINRIACRTSISIFDPLVVRETLMREYYRGGQSFYVCPRLSDLEKCYTFL 854
R+L P I ++ R Q F
Sbjct: 379 -RQLVASGFKPPVLIFVQS-----------------KERAKQLFEELEIY---------- 410
Query: 855 QSEVPELKIAMAHGQMSPKNLEDKMNAFYEGQYDVLLSTSIVESGLDLPKANTMIVQRAD 914
+ + + HG+ S K ++ M F G+ VL+ T ++ G+D N +I
Sbjct: 411 ----DNINVDVIHGERSQKQRDETMERFRIGKIWVLICTDLLARGIDFKGVNLVINYDFP 466
Query: 915 MFGLAQLYQLRGRVGRSKIASFALFLLPENRPLTAAAQKRLRILQSLNTLGAGFQLASYD 974
L+ ++++ GR GR+ + A+ + R+R + + +G ++
Sbjct: 467 QSDLSYIHRI-GRTGRAGRSGKAITFYTD------QDMPRIRSIAEVMEQ-SGCEVPEKI 518
Query: 975 LDIRGTGNLLGEEQSGH 991
+ I+ L ++
Sbjct: 519 MGIKKLSRLKKKKLLKA 535
>gnl|CDD|31391 COG1198, PriA, Primosomal protein N' (replication factor Y) -
superfamily II helicase [DNA replication, recombination,
and repair].
Length = 730
Score = 76.1 bits (187), Expect = 5e-14
Identities = 96/440 (21%), Positives = 149/440 (33%), Gaps = 107/440 (24%)
Query: 591 QKLVDIAAKRAIHSVPPLMVSQDLYSQFIKRFPHVETEDQEKAIDAVIQDLSSGRLMDRL 650
+ L I PPL+V+ S ++Q+ A++A++ L L
Sbjct: 167 KGLEKKGLIEIIELEPPLVVAPPDPS---LSEWLALNQEQQAAVEAILSSLGGFAPF--L 221
Query: 651 ICGDVGFGKTEIALRAAFIAVMNGLQVAVIAPTTLLVRQHFRLFSERFQG-FSVRIASIS 709
+ G G GKTE+ L A + G QV V+ P L Q RF+ F ++A +
Sbjct: 222 LDGVTGSGKTEVYLEAIAKVLAQGKQVLVLVPEIALTPQ----LLARFKARFGAKVAVLH 277
Query: 710 RFVQTKEAALHKKSITEGQVDIVIGTH-ALLNPKITFANLGLIIIDEEQHFGVKHKEA-- 766
+ E + G+ +VIGT AL P F NLGLII+DEE K ++
Sbjct: 278 SGLSPGERYRVWRRARRGEARVVIGTRSALFLP---FKNLGLIIVDEEHDSSYKQEDGPR 334
Query: 767 --------LKETHTGVHVLTLSATPIPRTLQLAITGVRELSLIS-------MPPINRIAC 811
L+ V+ SATP + A +G +L ++ +P + I
Sbjct: 335 YHARDVAVLRAKKENAPVVLGSATPSLESYANAESGKYKLLRLTNRAGRARLPRVEIIDM 394
Query: 812 RTSISIFDPLV-------VRETLMREY-------YRGGQSFYVCPRLSDLEKC------Y 851
R + +R+TL R RG +C + +C
Sbjct: 395 RKEPLETGRSLSPALLEAIRKTLERGEQVLLFLNRRGYAPLLLCRDCGYIAECPNCDSPL 454
Query: 852 TF-------------------------------------------LQSEVPELKIA-MAH 867
T L+ P +I +
Sbjct: 455 TLHKATGQLRCHYCGYQEPIPQSCPECGSEHLRAVGPGTERIEEELKRLFPGARIIRIDS 514
Query: 868 GQMSPKN-LEDKMNAFYEGQYDVLLSTSIVESGLDLPKANTMIVQRADMF---------- 916
K LED ++ F G+ D+L+ T ++ G D P + V AD
Sbjct: 515 DTTRRKGALEDLLDQFANGEADILIGTQMIAKGHDFPNVTLVGVLDADTGLGSPDFRASE 574
Query: 917 -GLAQLYQLRGRVGRSKIAS 935
L Q+ GR GR+
Sbjct: 575 RTFQLLMQVAGRAGRAGKPG 594
>gnl|CDD|28927 cd00046, DEXDc, DEAD-like helicases superfamily. A diverse family
of proteins involved in ATP-dependent RNA or DNA
unwinding. This domain contains the ATP-binding region..
Length = 144
Score = 75.1 bits (184), Expect = 1e-13
Identities = 42/149 (28%), Positives = 61/149 (40%), Gaps = 17/149 (11%)
Query: 647 MDRLICGDVGFGKTEIALRAAFIAVM--NGLQVAVIAPTTLLVRQHFRLFSERFQGFSVR 704
D L+ G GKT AL + G QV V+APT L Q E F G ++
Sbjct: 1 RDVLLAAPTGSGKTLAALLPILELLDSLKGGQVLVLAPTRELANQVAERLKELF-GEGIK 59
Query: 705 IASISRFVQTKEAALHKKSITEGQVDIVIGTHALL-----NPKITFANLGLIIIDEEQHF 759
+ + K+ ++ + G+ DIV+GT L K++ L L+I+DE
Sbjct: 60 VGYLIGGTSIKQ----QEKLLSGKTDIVVGTPGRLLDELERLKLSLKKLDLLILDEAHRL 115
Query: 760 GVKHKEA-----LKETHTGVHVLTLSATP 783
+ L + VL LSATP
Sbjct: 116 LNQGFGLLGLKILLKLPKDRQVLLLSATP 144
>gnl|CDD|144016 pfam00271, Helicase_C, Helicase conserved C-terminal domain. The
Prosite family is restricted to DEAD/H helicases,
whereas this domain family is found in a wide variety of
helicases and helicase related proteins. It may be that
this is not an autonomously folding unit, but an
integral part of the helicase.
Length = 78
Score = 69.5 bits (171), Expect = 6e-12
Identities = 24/74 (32%), Positives = 38/74 (51%), Gaps = 1/74 (1%)
Query: 859 PELKIAMAHGQMSPKNLEDKMNAFYEGQYDVLLSTSIVESGLDLPKANTMIVQRADMFGL 918
P +K+A HG +S + E+ + F G+ VL++T + G+DLP N +I +
Sbjct: 6 PGIKVARLHGGLSQEEREEILEDFRNGKSKVLVATDVAGRGIDLPDVNVVINYDLP-WNP 64
Query: 919 AQLYQLRGRVGRSK 932
A Q GR GR+
Sbjct: 65 ASYIQRIGRAGRAG 78
>gnl|CDD|30859 COG0513, SrmB, Superfamily II DNA and RNA helicases [DNA
replication, recombination, and repair / Transcription /
Translation, ribosomal structure and biogenesis].
Length = 513
Score = 60.2 bits (145), Expect = 3e-09
Identities = 65/333 (19%), Positives = 115/333 (34%), Gaps = 46/333 (13%)
Query: 627 TEDQEKAIDAVIQDLSSGRLMDRLICGDVGFGKTEIALRAAFIAVM----------NGLQ 676
T Q AI ++ GR D L G GKT AAF+ + +
Sbjct: 53 TPIQLAAIPLILA----GR--DVLGQAQTGTGKT-----AAFLLPLLQKILKSVERKYVS 101
Query: 677 VAVIAPTTLLVRQHFRLFSERFQGFSVRIASISRFVQTKEAALHKKSITEGQVDIVIGTH 736
++APT L Q + + + + + VDIV+ T
Sbjct: 102 ALILAPTRELAVQIAEEL-RKLGKNLGGLRVAVVYGGVSIR--KQIEALKRGVDIVVATP 158
Query: 737 A-----LLNPKITFANLGLIIIDE-----EQHFGVKHKEALKETHTGVHVLTLSATPIPR 786
+ K+ + + +++DE + F ++ LK L SAT
Sbjct: 159 GRLLDLIKRGKLDLSGVETLVLDEADRMLDMGFIDDIEKILKALPPDRQTLLFSATMPDD 218
Query: 787 TLQLAITGVRELSLISMPPINRIACRTSISIF----DPLVVRETLMREYYRGGQSFYV-- 840
+LA + + I + I F + + L+ + + V
Sbjct: 219 IRELARRYLNDPVEIEVSVEKLERTLKKIKQFYLEVESEEEKLELLLKLLKDEDEGRVIV 278
Query: 841 -CPRLSDLEKCYTFLQSEVPELKIAMAHGQMSPKNLEDKMNAFYEGQYDVLLSTSIVESG 899
+E+ L+ K+A HG + + + + F +G+ VL++T + G
Sbjct: 279 FVRTKRLVEELAESLRKR--GFKVAALHGDLPQEERDRALEKFKDGELRVLVATDVAARG 336
Query: 900 LDLPKANTMIVQRADMFGLAQLYQLR-GRVGRS 931
LD+P + V D+ + Y R GR GR+
Sbjct: 337 LDIP--DVSHVINYDLPLDPEDYVHRIGRTGRA 367
>gnl|CDD|31261 COG1061, SSL2, DNA or RNA helicases of superfamily II
[Transcription / DNA replication, recombination, and
repair].
Length = 442
Score = 55.1 bits (132), Expect = 1e-07
Identities = 66/397 (16%), Positives = 116/397 (29%), Gaps = 72/397 (18%)
Query: 586 LEDLAQKLVDIAAKRAIHSVPPLMVSQDLYSQFIKRFPHVETED-QEKAIDAVIQDLSSG 644
DL Q L A+ V + + E QE+A+DA++++ +
Sbjct: 1 YGDLKQYLSSKGAEELAD-----YVLDEGLPLKLIVAFEFELRPYQEEALDALVKNRRTE 55
Query: 645 RLMDRLICGDVGFGKTEIALRAAFIAVMNGLQVAVIAPTTLLVRQHFRLFSERFQGFSVR 704
R +I G GKT +A A V+ PT L+ Q + +
Sbjct: 56 R--RGVIVLPTGAGKTVVA---AEAIAELKRSTLVLVPTKELLDQWAEALKKFL-LLNDE 109
Query: 705 IASISRFVQTKEAALHKKSITEGQVDIVIGTHALLNPKITFANLGLIIIDEEQHFG-VKH 763
I E L +T V + L + GLII DE H +
Sbjct: 110 IGIYG----GGEKELEPAKVTVATVQTLARRQLLD--EFLGNEFGLIIFDEVHHLPAPSY 163
Query: 764 KEALKETHTGVHVLTLSATPI----------------------------------PRTLQ 789
+ L+ L L+ATP + ++
Sbjct: 164 RRILELLSAAYPRLGLTATPEREDGGRIGDLFDLIGPIVYEVSLKELIDEGYLAPYKYVE 223
Query: 790 LAITGVRELSLISMPPINRIACRTSISIFDPLVVRE---------------TLMREYYRG 834
+ +T + R L+ ++ RG
Sbjct: 224 IKVTLTEDEEREYAKESARFRELLRARGTLRAENEARRIAIASERKIAAVRGLLLKHARG 283
Query: 835 GQSFYVCPRLSDLEKCYTFLQSEVPELKIAMAHGQMSPKNLEDKMNAFYEGQYDVLLSTS 894
++ + + + I G+ + E + F G VL++
Sbjct: 284 DKTLIFASDVEHAYEIAKLFLAPGIVEAI---TGETPKEEREAILERFRTGGIKVLVTVK 340
Query: 895 IVESGLDLPKANTMIVQRADMFGLAQLYQLRGRVGRS 931
+++ G+D+P A+ +I+ R Q GR R
Sbjct: 341 VLDEGVDIPDADVLIILRPTGS-RRLFIQRLGRGLRP 376
>gnl|CDD|30902 COG0556, UvrB, Helicase subunit of the DNA excision repair complex
[DNA replication, recombination, and repair].
Length = 663
Score = 54.8 bits (132), Expect = 1e-07
Identities = 33/144 (22%), Positives = 72/144 (50%), Gaps = 12/144 (8%)
Query: 92 RLSCISNLVSFNSSKETIIVLTTVSAVMCRSVNIMSIKDYK---LSIQSKDQIDMAKVIE 148
R S +L+ + +IV+ +VS + + S ++Y LS++ +ID +++
Sbjct: 123 RHSATRSLLE----RRDVIVVASVSCIY----GLGSPEEYLKMMLSLEVGQEIDRRELLR 174
Query: 149 KLETNGFQRVNAVYKVGEYAVRGGILDVY-EPTKKYPVRLDFFGNTIDSLRLFDSSTQRT 207
KL ++R + ++ G + VRG +++++ +R++FFG+ I+ + FD T +
Sbjct: 175 KLVDLQYERNDVDFQRGTFRVRGDVVEIFPAYYDDEAIRIEFFGDEIERISEFDPLTGQV 234
Query: 208 IREISIFEINTLSEVMLTSQNISR 231
I E+ F I S + + + +
Sbjct: 235 IGELDRFTIYPASHYVTPRERLEQ 258
Score = 29.4 bits (66), Expect = 6.1
Identities = 17/52 (32%), Positives = 28/52 (53%), Gaps = 4/52 (7%)
Query: 884 EGQYDVLLSTSIVESGLDLPKANTMIVQRADMFGL----AQLYQLRGRVGRS 931
G++DVL+ +++ GLDLP+ + + + AD G L Q GR R+
Sbjct: 494 LGEFDVLVGINLLREGLDLPEVSLVAILDADKEGFLRSERSLIQTIGRAARN 545
>gnl|CDD|31398 COG1205, COG1205, Distinct helicase family with a unique C-terminal
domain including a metal-binding cysteine cluster
[General function prediction only].
Length = 851
Score = 51.9 bits (124), Expect = 1e-06
Identities = 71/398 (17%), Positives = 127/398 (31%), Gaps = 65/398 (16%)
Query: 596 IAAKRAIHSVPPLMVSQDLYSQFIKRFPHVETEDQEKAIDAVIQDLSSGRLMDRLICGDV 655
I A+ S P + + L S +K Q A+ + GR + ++
Sbjct: 41 IEARPGKTSEFPELRDESLKSALVKAGIERLYSHQVDALRL----IREGR--NVVVTTGT 94
Query: 656 GFGKTEIALRAAFIAVMNGL--QVAVIAPTTLLVR---QHFRLFSERFQGFSVRIASISR 710
G GKTE L ++ + ++ PT L + R V +
Sbjct: 95 GSGKTESFLLPILDHLLRDPSARALLLYPTNALANDQAERLRELISDL-PGKVTFGRYTG 153
Query: 711 FVQTKEAALHKKSITEGQVDIVIGTHALL---------NPKITFANLGLIIIDEEQHF-- 759
+E +++I DI++ +L NL +++DE H
Sbjct: 154 DTPPEE----RRAIIRNPPDILLTNPDMLHYLLLRNHDAWLWLLRNLKYLVVDE-LHTYR 208
Query: 760 GV----------KHKEALKETHTGVHVLTLSAT----------------PIPRTLQLAIT 793
GV + L+ + + ++ SAT +P +
Sbjct: 209 GVQGSEVALLLRRLLRRLRRYGSPLQIICTSATLANPGEFAEELFGRDFEVPVDEDGSPR 268
Query: 794 GVRELSLISMPPINRIACRTSISIFDPLVVRETLMREYYRGGQSFYVCPRL-SDLEKCYT 852
G+R PPI +A S L TL R G V R +E Y
Sbjct: 269 GLRYFVRRE-PPIRELAESIRRSALAEL---ATLAALLVRNGIQTLVFFRSRKQVELLYL 324
Query: 853 FLQSEVPEL------KIAMAHGQMSPKNLEDKMNAFYEGQYDVLLSTSIVESGLDLPKAN 906
+ + ++ + + F EG+ +++T+ +E G+D+ +
Sbjct: 325 SPRRRLVREGGKLLDAVSTYRAGLHREERRRIEAEFKEGELLGVIATNALELGIDIGSLD 384
Query: 907 TMIVQRADMFGLAQLYQLRGRVGRSKIASFALFLLPEN 944
+I + Q GR GR S L +L +
Sbjct: 385 AVIAYGYPGVSVLSFRQRAGRAGRRGQESLVLVVLRSD 422
>gnl|CDD|35551 KOG0330, KOG0330, KOG0330, ATP-dependent RNA helicase [RNA
processing and modification].
Length = 476
Score = 50.7 bits (121), Expect = 2e-06
Identities = 82/404 (20%), Positives = 134/404 (33%), Gaps = 68/404 (16%)
Query: 569 KLGGSAWKTRKANLKKRLEDLAQKLVDIAAKRAIHSVPPLMVSQDLYSQFIKRFPHVETE 628
L WK + + K + A + ++ + S L V +L + T+
Sbjct: 27 SLASEGWKKNEESGDKFILSAANRNEEMQTDESFKSFADLGVHPELLEACQELGWKKPTK 86
Query: 629 DQEKAIDAVIQDLSSGRLMDRLICGDVGFGKTEIALRAAF-IAVMNGL-------QVAVI 680
Q +AI + GR D + + G GKT AF + ++ L V+
Sbjct: 87 IQSEAIPVALG----GR--DVIGLAETGSGKT-----GAFALPILQRLLQEPKLFFALVL 135
Query: 681 APTTLLVRQHFRLFSERFQGFSVRIASI--SRFVQTKEAALHKKSITEGQVDIVIGT--- 735
PT L +Q F G +R+A + + + L KK I++ T
Sbjct: 136 TPTRELAQQIAEQFEALGSGIGLRVAVLVGGMDMMLQANQLSKK------PHILVATPGR 189
Query: 736 --HALLNPK-ITFANLGLIIIDE-----EQHFGVKHKEALKETHTGVHVLTLSATPIPRT 787
L N K + L +++DE + F + LK SAT
Sbjct: 190 LWDHLENTKGFSLEQLKFLVLDEADRLLDMDFEEELDYILKVIPRERQTFLFSAT----- 244
Query: 788 LQLAITGVRELSLISMPPINRIACRTSISIFDPLVVRETLMREYYR------------GG 835
VR+L S+ ++A + D L + + G
Sbjct: 245 ---MTKKVRKLQRASLDNPVKVAVSSKYQTVDHLKQTYLFVPGKDKDTYLVYLLNELAGN 301
Query: 836 QSFYVCPRLSDLEKCYTFL-QSEVPELKIAMAHGQMSPKNLEDKMNAFYEGQYDVLLSTS 894
C + L + + HGQMS +N F G +L+ T
Sbjct: 302 SVIVFCNTCNTTRFLALLLRNLGFQAIPL---HGQMSQSKRLGALNKFKAGARSILVCTD 358
Query: 895 IVESGLDLPKANTMIVQRADMFGLAQLYQLR----GRVGRSKIA 934
+ GLD+P + +V D+ ++ Y R R GRS A
Sbjct: 359 VASRGLDIPHVD--VVVNYDIPTHSKDYIHRVGRTARAGRSGKA 400
>gnl|CDD|34219 COG4581, COG4581, Superfamily II RNA helicase [DNA replication,
recombination, and repair].
Length = 1041
Score = 48.0 bits (114), Expect = 1e-05
Identities = 45/223 (20%), Positives = 86/223 (38%), Gaps = 21/223 (9%)
Query: 576 KTRKANLKKRLEDLAQKLVDIAAKRAIHSVPPLMVSQDLYSQFIKRFPHVETEDQEKAID 635
++ ++ + +++L D+A VP D + + +P Q++AI
Sbjct: 71 ESLNVGMRLDVRLSSKELSDVAVPDDYDMVPDAESPFD-LAPPAREYPFELDPFQQEAIA 129
Query: 636 AVIQDLSSGRLMDRLICGDVGFGKTEIALRAAFIAVMNGLQVAVIAPTTLLVRQHFRLFS 695
+ + S L+C GKT +A A +A+ +G +V +P L Q +R
Sbjct: 130 ILERGES------VLVCAPTSSGKTVVAEYAIALALRDGQRVIYTSPIKALSNQKYRDLL 183
Query: 696 ERFQGFSVRIASISRFVQTKEAALHKKSITEGQVDIVIGTHALLNPKITFANLGLIIIDE 755
+F + + ++ V A TE I + L + ++ ++ D
Sbjct: 184 AKFGDVADMVGLMTGDVSINPDAPCLVMTTE------ILRNMLYRGSESLRDIEWVVFD- 236
Query: 756 EQHF------GVKHKEALKETHTGVHVLTLSATPIPRTLQLAI 792
E H+ GV +E + V + LSAT +P + A
Sbjct: 237 EVHYIGDRERGVVWEEVIILLPDHVRFVFLSAT-VPNAEEFAE 278
>gnl|CDD|36169 KOG0951, KOG0951, KOG0951, RNA helicase BRR2, DEAD-box superfamily
[RNA processing and modification].
Length = 1674
Score = 46.5 bits (110), Expect = 5e-05
Identities = 71/389 (18%), Positives = 132/389 (33%), Gaps = 109/389 (28%)
Query: 650 LICGDVGFGKTEIALRAAFIAVMNGL-----------QVAVIAPTTLLVRQHFRLFSERF 698
L+C G GKT +A+ + N L ++ IAP LV++ FS+R
Sbjct: 329 LLCAPTGAGKTNVAVLTILQELGNHLREDGSVNLAPFKIVYIAPMKALVQEMVGSFSKRL 388
Query: 699 QGFSVRIASISRFVQTKEAALHKKSITEGQV--------DIVIGTHALLNPKITFANLGL 750
+ + ++ ++ L K+ I E QV DI+ + L
Sbjct: 389 APLGITVLELTG-----DSQLGKEQIEETQVIVTTPEKWDIITRKSGDR----AYEQLVR 439
Query: 751 IIIDEEQHF------------GVKHKEALKETHTGVHVLTLSAT---------------- 782
++I +E H + + T G ++ LSAT
Sbjct: 440 LLIIDEIHLLHDDRGPVLESIVARTFRRSESTEEGSRLVGLSATLPNYEDVASFLRVDPE 499
Query: 783 ----------PIPRTLQLAITGVRELSLISMPPINRI----------------------- 809
P+P Q ++ L +N
Sbjct: 500 GLFYFDSSYRPVPLKQQYIGITEKK-PLKRFQAMNEACYEKVLEHAGKNQVLVFVHSRKE 558
Query: 810 ACRTSISIFDPLVVRETLMREYYRGGQSFYVCPRLSDLEKCYTFLQSEVPEL---KIAMA 866
+T+ +I D + +TL R S + + K ++ +L A+
Sbjct: 559 TAKTARAIRDKALEEDTLSRFMREDSASREILRTEAGQAK-----NPDLKDLLPYGFAIH 613
Query: 867 HGQMSPKNLEDKMNAFYEGQYDVLLSTSIVESGLDLPKANTMIVQ----------RADMF 916
H ++ K+ E + F +G VL+ST+ + G++LP A+T+I++ R
Sbjct: 614 HAGLNRKDRELVEDLFADGHIQVLVSTATLAWGVNLP-AHTVIIKGTQVYDPEKGRWTEL 672
Query: 917 GLAQLYQLRGRVGRSKIASFALFLLPENR 945
+ Q+ GR GR + + ++ +
Sbjct: 673 SPLDVMQMLGRAGRPQYDTCGEGIIITDH 701
>gnl|CDD|35569 KOG0348, KOG0348, KOG0348, ATP-dependent RNA helicase [RNA
processing and modification].
Length = 708
Score = 43.5 bits (102), Expect = 4e-04
Identities = 52/226 (23%), Positives = 84/226 (37%), Gaps = 12/226 (5%)
Query: 742 KITFANLGLIIIDEEQHFGVKHKEALKETHTGVHVLTLSATPIPRTLQLAITGV-RELSL 800
++ + I +D+ +A++E G L + IP L T V +L L
Sbjct: 350 DLSLKDPVYISLDKSHSQLNPKDKAVQEVDDGPAGDKLDSFAIPEQLLQRYTVVPPKLRL 409
Query: 801 ISMPPINRIACRTSISIFDPLVVRETLMREYYRGGQSFYVCPRLSDLEKCYTFLQSE-VP 859
+++ + + + + E++ S + LS LE SE +P
Sbjct: 410 VALAALLLNKVKFEEKQKMIVFFSCSDSVEFH---YSLFSEALLSHLEGSSGAPDSEGLP 466
Query: 860 EL----KIAMAHGQMSPKNLEDKMNAFYEGQYDVLLSTSIVESGLDLPKANTMIVQRADM 915
L K HG M + F + VLL T + GLDLP ++VQ
Sbjct: 467 PLFMDLKFYRLHGSMEQEERTSVFQEFSHSRRAVLLCTDVAARGLDLPHV-GLVVQYDPP 525
Query: 916 FGLAQLYQLRGRVGRS-KIASFALFLLP-ENRPLTAAAQKRLRILQ 959
F A GR R+ + LFLLP E + + + +LQ
Sbjct: 526 FSTADYLHRVGRTARAGEKGEALLFLLPSEAEYVNYLKKHHIMLLQ 571
>gnl|CDD|35559 KOG0338, KOG0338, KOG0338, ATP-dependent RNA helicase [RNA
processing and modification].
Length = 691
Score = 43.1 bits (101), Expect = 4e-04
Identities = 52/258 (20%), Positives = 101/258 (39%), Gaps = 36/258 (13%)
Query: 676 QVAVIAPTTLLVRQHFRLFSE--RFQGFSVRIASISRFVQTKEAALHKKSITEGQVDIVI 733
+V V+ PT L Q + + +F +V +A ++ +EA L + DIVI
Sbjct: 254 RVLVLVPTRELAIQVHSVTKQLAQFTDITVGLAVGGLDLKAQEAVLRSRP------DIVI 307
Query: 734 GT------HALLNPKITFANLGLIIIDE-----EQHFGVKHKEALKETHTGVHVLTLSAT 782
T H +P ++ ++++DE E+ F + E ++ + SAT
Sbjct: 308 ATPGRLIDHLRNSPSFNLDSIEVLVLDEADRMLEEGFADEMNEIIRLCPKNRQTMLFSAT 367
Query: 783 PIPRTLQLAITGVRELSLISMPPINRIACRTSISIFDPLVVRETLMREYYRGGQSFYVCP 842
LA + + I + P A + + +R RE R +
Sbjct: 368 MTEEVKDLASLSLNKPVRIFVDPNKDTAPKLTQEF-----IRIRPKREGDREAMLASLIT 422
Query: 843 RLSDLEKCYTFLQSE-----------VPELKIAMAHGQMSPKNLEDKMNAFYEGQYDVLL 891
R ++ F++++ + LK HG ++ + + + F + + DVL+
Sbjct: 423 RT-FQDRTIVFVRTKKQAHRLRILLGLLGLKAGELHGSLTQEQRLESLEKFKKEEIDVLI 481
Query: 892 STSIVESGLDLPKANTMI 909
+T + GLD+ T+I
Sbjct: 482 ATDVASRGLDIEGVQTVI 499
>gnl|CDD|35556 KOG0335, KOG0335, KOG0335, ATP-dependent RNA helicase [RNA
processing and modification].
Length = 482
Score = 43.0 bits (101), Expect = 6e-04
Identities = 81/372 (21%), Positives = 123/372 (33%), Gaps = 63/372 (16%)
Query: 638 IQDLSSGRLMDRLICGDVGFGKTEIALRAAF-IAVMNGL-----------------QVAV 679
I +S GR D + C G GKT AAF I +++ L + +
Sbjct: 105 IPIISGGR--DLMACAQTGSGKT-----AAFLIPIISYLLDEGPEDRGESGGGVYPRALI 157
Query: 680 IAPTTLLVRQHFRLFSERFQGFSVRIASISRFVQTKEAALHKKSITEGQVDIVIGTHALL 739
+APT LV Q + + FS S V + + DI++ T L
Sbjct: 158 LAPTRELVDQIY----NEARKFSYLSGMKSVVVYGGTDLGAQLRFIKRGCDILVATPGRL 213
Query: 740 NP-----KITFANLGLIIIDE------EQHFGV---KHKEALKETHTGVHVLTLSATPIP 785
KI+ N +++DE E F K E L L + P
Sbjct: 214 KDLIERGKISLDNCKFLVLDEADRMLDEMGFEPQIRKIVEQLGMPPKNNRQTLLFSATFP 273
Query: 786 RTLQLAITGVRELSLISMPPINRIACRTSISIFDPLVVRETLMREYYR---GGQSFYVCP 842
+ +Q + + I + R+ + L V E R
Sbjct: 274 KEIQRLAADFLKDNYI-FLAVGRVGSTSENITQKILFVNEMEKRSKLLDLLNKDDGPPSD 332
Query: 843 RLSDLEKCYTFLQSEVPELKIAMA-----------HGQMSPKNLEDKMNAFYEGQYDVLL 891
EK F++++ ++A HG + E +N F G+ VL+
Sbjct: 333 GEPKWEKTLVFVETKRGADELAAFLSSNGYPAKSIHGDRTQIEREQALNDFRNGKAPVLV 392
Query: 892 STSIVESGLDLPKANTMIVQRADMFGLAQLYQLR-GRVGRSKIASFALFLLPENRPLTAA 950
+T++ GLD+P N V DM Y R GR GR A N
Sbjct: 393 ATNVAARGLDIP--NVKHVINYDMPADIDDYVHRIGRTGRVGNGGRATSFF--NEKNQNI 448
Query: 951 AQKRLRILQSLN 962
A+ + IL N
Sbjct: 449 AKALVEILTEAN 460
>gnl|CDD|35566 KOG0345, KOG0345, KOG0345, ATP-dependent RNA helicase [RNA
processing and modification].
Length = 567
Score = 42.6 bits (100), Expect = 7e-04
Identities = 63/299 (21%), Positives = 112/299 (37%), Gaps = 48/299 (16%)
Query: 679 VIAPTTLLVRQHF---RLFSERFQGFSVRIASISRFVQTKEAALHKKSITEGQVDIVIGT 735
+I+PT L RQ + F E + + V + K+ E +I++GT
Sbjct: 84 IISPTRELARQIREVAQPFLEHLPNLNCEL-----LVGGRSVEEDIKTFKEEGPNILVGT 138
Query: 736 HALLN-------PKITFANLGLIIIDE-----EQHFGVKHKEAL----KETHTGVHVLTL 779
L K++F +L ++++DE + F L K+ TG+
Sbjct: 139 PGRLLDILQREAEKLSFRSLEILVLDEADRLLDMGFEASVNTILSFLPKQRRTGL----F 194
Query: 780 SATPIPRTLQLAITGVRELSLISMPPINRIACRTSISIF-------DPLVVRETLMREY- 831
SAT LA G+R +S+ ++ A +S+++ + L L+
Sbjct: 195 SATQTQEVEDLARAGLRNPVRVSVKEKSKSATPSSLALEYLVCEADEKLSQLVHLLNNNK 254
Query: 832 YRGGQSFYVCPRLSDLEKCYTFLQSEVPELKIAMAHGQMSPKNLEDKMNAFYEGQYDVLL 891
+ F+ P + +E + + +I HG+MS K + AF + VL
Sbjct: 255 DKKCIVFF--PTCASVEYFGKLFSRLLKKREIFSIHGKMSQKARAKVLEAFRKLSNGVLF 312
Query: 892 STSIVESGLDLPKANTMIV----QRADMFGLAQLYQLRGRVGRSKIASFAL-FLLPENR 945
T + GLD+P + ++ + F GR R+ A+ FL P
Sbjct: 313 CTDVAARGLDIPGIDLVVQFDPPKDPSSF-----VHRCGRTARAGREGNAIVFLNPREE 366
>gnl|CDD|31396 COG1203, COG1203, Predicted helicases [General function prediction
only].
Length = 733
Score = 42.4 bits (99), Expect = 8e-04
Identities = 80/401 (19%), Positives = 148/401 (36%), Gaps = 62/401 (15%)
Query: 582 LKKRLEDLAQKLVDIAAKRAIHSVPPLMVSQDLYS--QFIKRFPHVETEDQEKAIDAVIQ 639
L+K + ++A + A P L++ + +F H E QEKA++ +++
Sbjct: 150 LEKMDIKDTRNFTELAKQEARLLKPLLLLLSAIARINKFKSFIEHEGYELQEKALELILR 209
Query: 640 DLSSGRLMDRLICGDVGFGKTEIALRAAFIAVMNGL----QVAVIAPTTLLVRQHFRLFS 695
R + ++ G+GKTE +L A + + +V + P ++ +R
Sbjct: 210 --LEKRSLLVVLEAPTGYGKTEASLILALALLDEKIKLKSRVIYVLPFRTIIEDMYRRAK 267
Query: 696 ERFQGFSV-------------------RIASISRFVQTKEAALHKKSITEGQVDIVIGTH 736
E F FSV I + + L I + I+I
Sbjct: 268 EIFGLFSVIGKSLHSSSKEPLLLEPDQDILLTLTTNDSYKKLLLA-LIVVTPIQILIF-S 325
Query: 737 ALLNPKITFANLG--LIIIDEEQ--------HFGVKHKEALKETHTGVHVLTLSATPIPR 786
A L L+I+DE + EAL E GV VL +SAT +P
Sbjct: 326 VKGFKFEFLALLLTSLVILDEVHLYADETMLAALLALLEALAEA--GVPVLLMSAT-LPP 382
Query: 787 TLQ------LAITGVRELSLISMPPINRI----ACRTSISIFDPLVVRETLMREYYRGGQ 836
L+ L + P + R + + E + E G +
Sbjct: 383 FLKEKLKKALGKGREVVENAKFCPKEDEPGLKRKERVDVEDGPQEELIELISEEVKEGKK 442
Query: 837 SFYVCPRLSDLEKCYTFLQSEVPELKIAMAHGQMSPKNLEDKMN----AFYEGQYDVLLS 892
+ + + Y L+ + P K+ + H + + K+ E+K F + + ++++
Sbjct: 443 VLVIVNTVDRAIELYEKLKEKGP--KVLLLHSRFTLKDREEKERELKKLFKQNEGFIVVA 500
Query: 893 TSIVESGLDLPKANTMIVQRADMFGLAQLYQLRGRVGRSKI 933
T ++E+G+D+ + +I + A + L Q GRV R
Sbjct: 501 TQVIEAGVDI-DFDVLITELAPIDSLIQRA---GRVNRHGK 537
>gnl|CDD|31307 COG1110, COG1110, Reverse gyrase [DNA replication, recombination,
and repair].
Length = 1187
Score = 42.2 bits (99), Expect = 9e-04
Identities = 31/106 (29%), Positives = 46/106 (43%), Gaps = 7/106 (6%)
Query: 656 GFGKTEIALRAAFIAVMNGLQVAVIAPTTLLVRQ---HFRLFSERFQGFSVRIASISRFV 712
G GKT L + G +V +I PTT LVRQ + F+E V + S +
Sbjct: 107 GVGKTTFGLLMSLYLAKKGKRVYIIVPTTTLVRQVYERLKKFAEDAGSLDVLVVYHSA-L 165
Query: 713 QTKEAALHKKSITEGQVDIVIGTHALLN---PKITFANLGLIIIDE 755
TKE + I G DI+I T L+ +++ I +D+
Sbjct: 166 PTKEKEEALERIESGDFDILITTSQFLSKRFEELSKLKFDFIFVDD 211
Score = 29.5 bits (66), Expect = 6.4
Identities = 21/97 (21%), Positives = 40/97 (41%), Gaps = 10/97 (10%)
Query: 808 RIACRTSISIFDPLVVRET----LMREYY--RGGQSFYVCPRLS----DLEKCYTFLQSE 857
R+ S +I P V +T LM Y +G + + + P + E+ F +
Sbjct: 93 RLVRGKSFAIIAPTGVGKTTFGLLMSLYLAKKGKRVYIIVPTTTLVRQVYERLKKFAEDA 152
Query: 858 VPELKIAMAHGQMSPKNLEDKMNAFYEGQYDVLLSTS 894
+ + H + K E+ + G +D+L++TS
Sbjct: 153 GSLDVLVVYHSALPTKEKEEALERIESGDFDILITTS 189
>gnl|CDD|31308 COG1111, MPH1, ERCC4-like helicases [DNA replication,
recombination, and repair].
Length = 542
Score = 40.6 bits (95), Expect = 0.002
Identities = 26/93 (27%), Positives = 49/93 (52%), Gaps = 10/93 (10%)
Query: 848 EKCYTFLQSEVPELKIAMAHGQ--------MSPKNLEDKMNAFYEGQYDVLLSTSIVESG 899
E+ FL+ + ++ GQ MS K ++ ++ F +G+Y+VL++TS+ E G
Sbjct: 380 EEIVNFLKKIGIKARVRFI-GQASREGDKGMSQKEQKEIIDQFRKGEYNVLVATSVGEEG 438
Query: 900 LDLPKANTMIVQRADMFGLAQLYQLRGRVGRSK 932
LD+P+ + +I + + Q +GR GR +
Sbjct: 439 LDIPEVDLVIFYEPVPSEIRSI-QRKGRTGRKR 470
Score = 32.9 bits (75), Expect = 0.57
Identities = 35/146 (23%), Positives = 58/146 (39%), Gaps = 18/146 (12%)
Query: 650 LICGDVGFGKTEIA-LRAAFIAVMNGLQVAVIAPTTLLVRQHFRLFSERFQGFSVRIASI 708
L+ G GKT IA + A G +V +APT LV QH + IA++
Sbjct: 33 LVVLPTGLGKTFIAAMVIANRLRWFGGKVLFLAPTKPLVLQHAEFCRKVTGIPEDEIAAL 92
Query: 709 SRFVQTKE-AALHKKSITEGQVDIVIGT-----HALLNPKITFANLGLIIIDEEQ----- 757
+ V+ +E L K + + T + L +I ++ L+I DE
Sbjct: 93 TGEVRPEEREELWAKK------KVFVATPQVVENDLKAGRIDLDDVSLLIFDEAHRAVGN 146
Query: 758 HFGVKHKEALKETHTGVHVLTLSATP 783
+ V + + +L L+A+P
Sbjct: 147 YAYVFVAKEYLRSAKNPLILGLTASP 172
>gnl|CDD|31397 COG1204, COG1204, Superfamily II helicase [General function
prediction only].
Length = 766
Score = 40.4 bits (94), Expect = 0.003
Identities = 78/400 (19%), Positives = 137/400 (34%), Gaps = 89/400 (22%)
Query: 650 LICGDVGFGKTEIALRAAFIAVMNGLQVAV-IAPTTLLVRQHFRLFSERFQGFSVRIASI 708
LI G GKT IAL A ++ G V I P L + + FS R + +R+
Sbjct: 51 LISAPTGSGKTLIALLAILSTLLEGGGKVVYIVPLKALAEEKYEEFS-RLEELGIRVGIS 109
Query: 709 SRFVQTKEAALHKKSITEGQVDIVIGTH----ALLNPKITFANL-GLIIIDEEQHFGVKH 763
+ + L + D+++ T +L + ++ L++IDE G +
Sbjct: 110 TGDYDLDDERLARY-------DVIVTTPEKLDSLTRKRPSWIEEVDLVVIDEIHLLGDRT 162
Query: 764 KEALKET--------HTGVHVLTLSATPIPRTLQLA--ITGVRELSLIS-------MPPI 806
+ + E+ + + ++ LSAT +P ++A + S +P +
Sbjct: 163 RGPVLESIVARMRRLNELIRIVGLSAT-LPNAEEVADWLNAKLVESDWRPVPLRRGVPYV 221
Query: 807 NRIACRTSISIFDPLVVRETLMREYY----RGGQSFYVCP------------------RL 844
PL++ + GGQ L
Sbjct: 222 GAFLGADGKKKTWPLLIDNLALELVLESLAEGGQVLVFVHSRKEAEKTAKKLRIKMSATL 281
Query: 845 SDLEK------CYTFLQSEVPELK-----------IAMAHGQMSPKNLEDKMNAFYEGQY 887
SD EK L E P + +A H + ++ + +AF +G+
Sbjct: 282 SDDEKIVLDEGASPILIPETPTSEDEELAELVLRGVAFHHAGLPREDRQLVEDAFRKGKI 341
Query: 888 DVLLSTSIVESGLDLPKANTMIV---QRADMFGLAQLY------QLRGRVGRSKIASFAL 938
VL+ST + +G++LP A T+I+ +R D G Q+ GR GR +
Sbjct: 342 KVLVSTPTLAAGVNLP-ARTVIIKDTRRYDPKGGIVDIPVLDVLQMAGRAGRPGYDDYGE 400
Query: 939 FLL-------PENRPLTAAAQKRLRILQSL-NTLGAGFQL 970
++ E + I L + L L
Sbjct: 401 AIILATSHDELEYLAELYIQSEPEPIESKLGDELNLRTFL 440
>gnl|CDD|28928 cd00268, DEADc, DEAD-box helicases. A diverse family of proteins
involved in ATP-dependent RNA unwinding, needed in a
variety of cellular processes including splicing,
ribosome biogenesis and RNA degradation. The name
derives from the sequence of the Walker B motif (motif
II). This domain contains the ATP- binding region..
Length = 203
Score = 40.5 bits (95), Expect = 0.003
Identities = 41/191 (21%), Positives = 70/191 (36%), Gaps = 35/191 (18%)
Query: 627 TEDQEKAIDAVIQDLSSGRLMDRLICGDVGFGKTEIALRAAFIAVM----------NGLQ 676
T Q +AI ++ GR D + G GKT AAF+ + +G Q
Sbjct: 23 TPIQARAIPPLLS----GR--DVIGQAQTGSGKT-----AAFLIPILEKLDPSPKKDGPQ 71
Query: 677 VAVIAPTTLLVRQHFRLFSERFQGFSVRIASISRFVQTKEAALHKKSITEGQVDIVIGT- 735
++APT L Q + + + ++++ I + + G IV+ T
Sbjct: 72 ALILAPTRELALQIAEVARKLGKHTNLKVVVI---YGGTSIDKQIRKLKRG-PHIVVATP 127
Query: 736 ----HALLNPKITFANLGLIIIDE-----EQHFGVKHKEALKETHTGVHVLTLSATPIPR 786
L K+ + + +++DE + F + +E LK L SAT
Sbjct: 128 GRLLDLLERGKLDLSKVKYLVLDEADRMLDMGFEDQIREILKLLPKDRQTLLFSATMPKE 187
Query: 787 TLQLAITGVRE 797
LA +R
Sbjct: 188 VRDLARKFLRN 198
>gnl|CDD|35564 KOG0343, KOG0343, KOG0343, RNA Helicase [RNA processing and
modification].
Length = 758
Score = 40.4 bits (94), Expect = 0.003
Identities = 51/275 (18%), Positives = 97/275 (35%), Gaps = 64/275 (23%)
Query: 673 NGLQVAVIAPTTLLVRQHFRLFSE--RFQGFSVRIASISRFVQTKEAALHKKSITEGQVD 730
+GL +I+PT L Q F + ++ + FS + + K+ + I+ Q++
Sbjct: 140 DGLGALIISPTRELALQTFEVLNKVGKHHDFSAGL-----IIGGKDVKFELERIS--QMN 192
Query: 731 IVIGT------HALLNPKITFANLGLIIIDE-----EQHFGVKHKEALKETHTGVHVLTL 779
I++ T H NP + +NL ++++DE + F ++ L
Sbjct: 193 ILVCTPGRLLQHMDENPNFSTSNLQMLVLDEADRMLDMGFKKTLNAIIENLPKKRQTLLF 252
Query: 780 SATPIPRTLQLAITGVRELSLISMPPINRIACRTSISIFDPLVVRETLMREYYRGGQSFY 839
SAT LA +++ +S + L QS+
Sbjct: 253 SATQTKSVKDLARLSLKDPVYVS------------VHENAVAATPSNLQ-------QSYV 293
Query: 840 VCPRLSDLEKCYTFLQSEV-------------------------PELKIAMAHGQMSPKN 874
+ P ++ ++F++S + P + + HG MS K
Sbjct: 294 IVPLEDKIDMLWSFIKSHLKKKSIVFLSSCKQVKFLYEAFCRLRPGIPLLALHGTMSQKK 353
Query: 875 LEDKMNAFYEGQYDVLLSTSIVESGLDLPKANTMI 909
+ F + VL T + GLD P + +I
Sbjct: 354 RIEVYKKFVRKRAVVLFCTDVAARGLDFPAVDWVI 388
>gnl|CDD|35549 KOG0328, KOG0328, KOG0328, Predicted ATP-dependent RNA helicase
FAL1, involved in rRNA maturation, DEAD-box superfamily
[Translation, ribosomal structure and biogenesis].
Length = 400
Score = 39.5 bits (92), Expect = 0.006
Identities = 23/72 (31%), Positives = 36/72 (50%), Gaps = 6/72 (8%)
Query: 867 HGQMSPKNLEDKMNAFYEGQYDVLLSTSIVESGLDLPKANTMIVQRADMFGLAQLYQLR- 925
HG M K + MN F G+ VL++T + G+D+ + + +I D+ +LY R
Sbjct: 297 HGDMEQKERDKIMNDFRSGKSRVLITTDVWARGIDVQQVSLVI--NYDLPNNRELYIHRI 354
Query: 926 ---GRVGRSKIA 934
GR GR +A
Sbjct: 355 GRSGRFGRKGVA 366
>gnl|CDD|35575 KOG0354, KOG0354, KOG0354, DEAD-box like helicase [General function
prediction only].
Length = 746
Score = 39.2 bits (91), Expect = 0.007
Identities = 21/78 (26%), Positives = 42/78 (53%), Gaps = 6/78 (7%)
Query: 859 PELKIAMAHG----QMSPKNLEDKMNAFYEGQYDVLLSTSIVESGLDLPKANTMIVQRAD 914
E+ I M+ K ++ ++ F +G+ +VL++TS+ E GLD+ + N +++
Sbjct: 443 AEIFIGQGKSTQSTGMTQKEQKEVLDKFRDGEINVLVATSVAEEGLDIGECN-LVICYDY 501
Query: 915 MFGLAQLYQLRGRVGRSK 932
++ Q RGR GR++
Sbjct: 502 SSNPIRMVQRRGR-GRAR 518
Score = 29.9 bits (67), Expect = 4.4
Identities = 35/147 (23%), Positives = 50/147 (34%), Gaps = 18/147 (12%)
Query: 650 LICGDVGFGKTEIALRAA--FIAVMNGLQVAVIAPTTLLVRQHFRLFSERFQGFSVRI-- 705
+I G GKT IA +V +APT LV Q FS +SV
Sbjct: 80 IIALPTGSGKTFIAAVIMKNHFEWRPKGKVVFLAPTRPLVNQQIACFSIYLIPYSVTGQL 139
Query: 706 ---ASISRFVQTKEAALHKKSITEGQVDIVIGTHALLNPKITFANLGLIIIDEEQHFGVK 762
S + A + Q+ L + F+ LI+ DE
Sbjct: 140 GDTVPRSNRGE--IVASKRVFFRTPQILENDLKSGLHDELSDFS---LIVFDECHRTSKN 194
Query: 763 H------KEALKETHTGVHVLTLSATP 783
H +E L + G +L L+A+P
Sbjct: 195 HPYNNIMREYLDLKNQGNQILGLTASP 221
>gnl|CDD|33078 COG3267, ExeA, Type II secretory pathway, component ExeA (predicted
ATPase) [Intracellular trafficking and secretion].
Length = 269
Score = 36.0 bits (83), Expect = 0.060
Identities = 42/204 (20%), Positives = 72/204 (35%), Gaps = 26/204 (12%)
Query: 611 SQDLYSQFIKRFPHVETEDQEKAIDAVIQDLSSGRLMDRLICGDVGFGKTEIALRAAFIA 670
S+ +S I+ D +A+ + ++ G+ + + G+VG GKT LR A +A
Sbjct: 17 SRLPFSWDIQPGLDYWAADHNEALLMLHAAIADGQGI-LAVTGEVGSGKT--VLRRALLA 73
Query: 671 VMNGLQVAVI---APTTLLVRQHFRLFSERFQGFSVRIASISRFVQTKEAALHKKSITEG 727
+N QVAV+ PT + ++ V + ++ + + AAL KK
Sbjct: 74 SLNEDQVAVVVIDKPTLSDATLLEAIVADLESQPKVNVNAVLEQIDRELAALVKKGK-RP 132
Query: 728 QVDIVIGTHALLNPKIT----FANLGLIIIDEEQHFGVKHKEALKETHTGVHVLTLSATP 783
V +V H L + + NL + + P
Sbjct: 133 VVLMVDEAHDLNDSALEALRLLTNLEEDSSKLLSIVLIGQPKLR---------------P 177
Query: 784 IPRTLQLAITGVRELSLISMPPIN 807
R L R I +PP+
Sbjct: 178 RLRLPVLRELEQRIDIRIELPPLT 201
>gnl|CDD|35554 KOG0333, KOG0333, KOG0333, U5 snRNP-like RNA helicase subunit [RNA
processing and modification].
Length = 673
Score = 36.2 bits (83), Expect = 0.062
Identities = 27/80 (33%), Positives = 41/80 (51%), Gaps = 4/80 (5%)
Query: 867 HGQMSPKNLEDKMNAFYEGQYDVLLSTSIVESGLDLPKANTMIVQRADMFGLAQLYQLR- 925
HG S + E+ + F EG D+L++T + G+D+P N +V DM + Y R
Sbjct: 548 HGGKSQEQRENALADFREGTGDILVATDVAGRGIDIP--NVSLVINYDMAKSIEDYTHRI 605
Query: 926 GRVGRS-KIASFALFLLPEN 944
GR GR+ K + FL P +
Sbjct: 606 GRTGRAGKSGTAISFLTPAD 625
>gnl|CDD|35562 KOG0341, KOG0341, KOG0341, DEAD-box protein abstrakt [RNA
processing and modification].
Length = 610
Score = 35.7 bits (82), Expect = 0.074
Identities = 25/92 (27%), Positives = 43/92 (46%), Gaps = 5/92 (5%)
Query: 841 CPRLSDLEKCYTFLQSEVPELKIAMAHGQMSPKNLEDKMNAFYEGQYDVLLSTSIVESGL 900
+ +D++ + +L + ++ HG ++ + AF G+ DVL++T + GL
Sbjct: 428 AEKKADVDDIHEYLL--LKGVEAVAIHGGKDQEDRHYAIEAFRAGKKDVLVATDVASKGL 485
Query: 901 DLPKANTMIVQRADMFGLAQLYQLR-GRVGRS 931
D P +I DM + Y R GR GRS
Sbjct: 486 DFPDIQHVI--NYDMPEEIENYVHRIGRTGRS 515
>gnl|CDD|35552 KOG0331, KOG0331, KOG0331, ATP-dependent RNA helicase [RNA
processing and modification].
Length = 519
Score = 34.2 bits (78), Expect = 0.21
Identities = 71/334 (21%), Positives = 115/334 (34%), Gaps = 43/334 (12%)
Query: 656 GFGKTEIALRAAFIAVMNGLQ---------VAVIAPTTLLVRQHFRLFSERFQGFSVRIA 706
G GKT L A + + N V V+APT L Q E + +R
Sbjct: 138 GSGKTLAYLLPAIVHLNNEQGKLSRGDGPIVLVLAPTRELAVQVQAEAREFGKSLRLRST 197
Query: 707 SISRFVQTKEAALHKKSITEGQVDIVIGTHALLNPKITFANLGL-----IIIDE-----E 756
+ + VD+VI T L + +L L +++DE +
Sbjct: 198 CVYGGAPKGPQLRDLER----GVDVVIATPGRLIDLLEEGSLNLSRVTYLVLDEADRMLD 253
Query: 757 QHFGVKHKEALKETHTGVHVLTLSATPIPR-TLQLAITGVRELSLISMPPINRIACRTSI 815
F + ++ L + + + P+ QLA + I++ + +I
Sbjct: 254 MGFEPQIRKILSQIPRPDRQTLMFSATWPKEVRQLAEDFLNNPIQINVGNKKELKANHNI 313
Query: 816 S----IFDP---LVVRETLMREYYRGGQS----FYVCPRLSDLEKCYTFLQSEVPELKIA 864
+ D L L+ + + F R D E + P + I
Sbjct: 314 RQIVEVCDETAKLRKLGKLLEDISSDSEGKVIIFCETKRTCD-ELARNLRRKGWPAVAI- 371
Query: 865 MAHGQMSPKNLEDKMNAFYEGQYDVLLSTSIVESGLDLPKANTMIVQRADMFGLAQLYQL 924
HG S + + F EG+ VL++T + GLD+P + +I D + Y
Sbjct: 372 --HGDKSQSERDWVLKGFREGKSPVLVATDVAARGLDVPDVDLVI--NYDFPNNVEDYVH 427
Query: 925 R-GRVGRSKIASFA-LFLLPENRPLTAAAQKRLR 956
R GR GR+ A F +N L K LR
Sbjct: 428 RIGRTGRAGKKGTAITFFTSDNAKLARELIKVLR 461
>gnl|CDD|31394 COG1201, Lhr, Lhr-like helicases [General function prediction
only].
Length = 814
Score = 34.1 bits (78), Expect = 0.25
Identities = 69/345 (20%), Positives = 126/345 (36%), Gaps = 63/345 (18%)
Query: 627 TEDQEKAIDAVIQDLSSGRLMDRLICGDVGFGKTEIALRAAFIAVMN------------G 674
T Q AI + + LI G GKTE AAF+ V+N G
Sbjct: 24 TPPQRYAIPEIHSGENV------LIIAPTGSGKTE----AAFLPVINELLSLGKGKLEDG 73
Query: 675 LQVAVIAPTTLLVRQHFRLFSERFQGFSVRIASISRFVQTKEAALHKKS-ITEGQVDIVI 733
+ I+P L R E + + +A V+ + +K + + I+I
Sbjct: 74 IYALYISPLKALNNDIRRRLEEPLRELGIEVA-----VRHGDTPQSEKQKMLKNPPHILI 128
Query: 734 GT-----HALLNPKI--TFANLGLIIIDEEQHF-----GVKHK---EALKETHTGVHVLT 778
T L +PK ++ +I+DE GV+ E L+E +
Sbjct: 129 TTPESLAILLNSPKFRELLRDVRYVIVDEIHALAESKRGVQLALSLERLRELAGDFQRIG 188
Query: 779 LSAT-PIPRTLQLAITGVRELSLISMPPINRIACRTSISIFDPLV----------VRETL 827
LSAT P + + G + I + + I + P+
Sbjct: 189 LSATVGPPEEVAKFLVGFGDPCEIVDVSAAK---KLEIKVISPVEDLIYDEELWAALYER 245
Query: 828 MREYYRGGQSFYV-CPRLSDLEKCYTFLQSEVPELKIAMAHGQMSPKNLEDKMNAFYEGQ 886
+ E + ++ + S E+ L+ P+ I + HG +S + + EG+
Sbjct: 246 IAELVKKHRTTLIFTNTRSGAERLAFRLKKLGPD-IIEVHHGSLSRELRLEVEERLKEGE 304
Query: 887 YDVLLSTSIVESGLDLPKANTMIVQRADMFGLAQLYQLRGRVGRS 931
+++TS +E G+D+ + +++Q + + Q R+GR+
Sbjct: 305 LKAVVATSSLELGIDIGDID-LVIQLGSPKSVNRFLQ---RIGRA 345
>gnl|CDD|35568 KOG0347, KOG0347, KOG0347, RNA helicase [RNA processing and
modification].
Length = 731
Score = 33.1 bits (75), Expect = 0.48
Identities = 17/76 (22%), Positives = 34/76 (44%), Gaps = 4/76 (5%)
Query: 835 GQSFYVCPRLSDLEKCYTFLQS-EVPELKIAMAHGQMSPKNLEDKMNAFYEGQYDVLLST 893
G++ C + +++ L + ++P L + H M K + F + VL++T
Sbjct: 464 GRTLVFCNSIDCVKRLTVLLNNLDIPPLPL---HASMIQKQRLKNLEKFKQSPSGVLIAT 520
Query: 894 SIVESGLDLPKANTMI 909
+ GLD+P +I
Sbjct: 521 DVAARGLDIPGVQHVI 536
>gnl|CDD|35553 KOG0332, KOG0332, KOG0332, ATP-dependent RNA helicase [RNA
processing and modification].
Length = 477
Score = 33.0 bits (75), Expect = 0.49
Identities = 16/75 (21%), Positives = 40/75 (53%), Gaps = 2/75 (2%)
Query: 835 GQSFYVCPRLSDLEKCYTFLQSEVPELKIAMAHGQMSPKNLEDKMNAFYEGQYDVLLSTS 894
GQS C + Y +++E + +++ HG ++ + ++ F EG+ VL++T+
Sbjct: 331 GQSIIFCHTKATAMWLYEEMRAEGHQ--VSLLHGDLTVEQRAAIIDRFREGKEKVLITTN 388
Query: 895 IVESGLDLPKANTMI 909
+ G+D+ + + ++
Sbjct: 389 VCARGIDVAQVSVVV 403
>gnl|CDD|36170 KOG0952, KOG0952, KOG0952, DNA/RNA helicase MER3/SLH1, DEAD-box
superfamily [RNA processing and modification].
Length = 1230
Score = 32.6 bits (74), Expect = 0.60
Identities = 26/119 (21%), Positives = 45/119 (37%), Gaps = 15/119 (12%)
Query: 650 LICGDVGFGKTEIALRA----------AFIAVMNGLQVAVIAPTTLLVRQHFRLFSERFQ 699
LIC G GKT +A + ++ IAP L + FS++
Sbjct: 130 LICAPTGSGKTVLAELCILRTIKEHEEQGDIAKDDFKIVYIAPMKALAAEMVDKFSKKLA 189
Query: 700 GFSVRIASISRFVQTKEAALHKKSI---TEGQVDIVIGTHALLNPKITFANLGLIIIDE 755
+ + ++ Q + + I T + D+V T + F+ + L+IIDE
Sbjct: 190 PLGISVRELTGDTQLTKTEIADTQIIVTTPEKWDVV--TRKSVGDSALFSLVRLVIIDE 246
>gnl|CDD|35557 KOG0336, KOG0336, KOG0336, ATP-dependent RNA helicase [RNA
processing and modification].
Length = 629
Score = 32.3 bits (73), Expect = 0.72
Identities = 58/281 (20%), Positives = 108/281 (38%), Gaps = 48/281 (17%)
Query: 656 GFGKTEIALRAAFIAV---------MNGLQVAVIAPTTLLVRQ-HFRLFSERFQGF-SVR 704
G GKT L FI + NG V V+ PT L Q + + G SV
Sbjct: 267 GTGKTLAFLLPGFIHIDAQPKRREQRNGPGVLVLTPTRELALQIEGEVKKYSYNGLKSVC 326
Query: 705 IASI-SRFVQTKEAALHKKSITEGQVDIVIGTHALLNP-----KITFANLGLIIIDE--- 755
+ +R Q ++ + V+I+I T LN I A++ +++DE
Sbjct: 327 VYGGGNRNEQIED--------LKRGVEIIIATPGRLNDLQMDNVINLASITYLVLDEADR 378
Query: 756 --EQHFGVKHKEALKETHTGVHVLTLSATPIPRTLQLAITGVRELSLISMPPINRIACRT 813
+ F + ++ L + + SAT +LA + ++E ++ + ++ +A ++
Sbjct: 379 MLDMGFEPQIRKILLDIRPDRQTVMTSATWPEGVRRLAQSYLKEPMIVYVGSLDLVAVKS 438
Query: 814 SISIFDPLVVRETLMREYYRGGQSFYVCPRLSDLEKCYTFLQSEV-----------PELK 862
+V ++ E Q F +S +K F+ +V +
Sbjct: 439 VKQNI--IVTTDSEKLEIV---QFF--VANMSSNDKVIIFVSRKVMADHLSSDFCLKGIS 491
Query: 863 IAMAHGQMSPKNLEDKMNAFYEGQYDVLLSTSIVESGLDLP 903
HG + E + F G+ +L++T + GLD+P
Sbjct: 492 SQSLHGNREQSDREMALEDFKSGEVRILVATDLASRGLDVP 532
>gnl|CDD|110677 pfam01695, IstB, IstB-like ATP binding protein. This protein
contains an ATP/GTP binding P-loop motif. It is found
associated with IS21 family insertion sequences. The
function of this protein is unknown, but it may perform
a transposase function.
Length = 178
Score = 32.2 bits (74), Expect = 0.76
Identities = 16/67 (23%), Positives = 26/67 (38%), Gaps = 10/67 (14%)
Query: 621 RFPHVET-ED-----QEKAIDAVIQDLSSGRLMDR----LICGDVGFGKTEIALRAAFIA 670
+ P +T ED +I +L+ +++ L+ G G GKT +A A
Sbjct: 12 KLPARKTLEDFDFRAARGLDRRLIAELAGLDWIEQAENLLLLGPPGVGKTHLACALGHQA 71
Query: 671 VMNGLQV 677
G V
Sbjct: 72 CRAGYSV 78
>gnl|CDD|35561 KOG0340, KOG0340, KOG0340, ATP-dependent RNA helicase [RNA
processing and modification].
Length = 442
Score = 32.2 bits (73), Expect = 0.95
Identities = 12/50 (24%), Positives = 24/50 (48%)
Query: 860 ELKIAMAHGQMSPKNLEDKMNAFYEGQYDVLLSTSIVESGLDLPKANTMI 909
E+++ H QM K ++ F +L++T + GLD+P ++
Sbjct: 278 EVRVVSLHSQMPQKERLAALSRFRSNAARILIATDVASRGLDIPTVELVV 327
>gnl|CDD|30201 cd02028, UMPK_like, Uridine monophosphate kinase_like (UMPK_like)
is a family of proteins highly similar to the uridine
monophosphate kinase (UMPK, EC 2.7.1.48), also known as
uridine kinase or uridine-cytidine kinase (UCK)..
Length = 179
Score = 32.2 bits (73), Expect = 1.0
Identities = 24/143 (16%), Positives = 45/143 (31%), Gaps = 22/143 (15%)
Query: 650 LICGDVGFGKTEIALRAAFIAVMNGLQVAVIA--------------------PTTLLVRQ 689
I G G GKT A + + +NG+ VI+ + L +
Sbjct: 3 GIAGPSGSGKTTFAKKLSNQLRVNGIGPVVISLDDYYVPRKTPRDEDGNYDFESILDLDL 62
Query: 690 HFRLFSERFQGFSVRIASISRFVQTKEAALHKKSITEGQVDIVIGTHALLNPKITFANLG 749
+ + G V + F K K + V I+ G +A LN ++
Sbjct: 63 LNKNLHDLLNGKEVELPIYD-FRTGKRRGYRKLKLPPSGVVILEGIYA-LNERLRSLLDI 120
Query: 750 LIIIDEEQHFGVKHKEALKETHT 772
+ + H + +++
Sbjct: 121 RVAVSGGVHLNRLLRRVVRDIQF 143
>gnl|CDD|35560 KOG0339, KOG0339, KOG0339, ATP-dependent RNA helicase [RNA
processing and modification].
Length = 731
Score = 31.6 bits (71), Expect = 1.3
Identities = 17/73 (23%), Positives = 33/73 (45%), Gaps = 3/73 (4%)
Query: 860 ELKIAMAHGQMSPKNLEDKMNAFYEGQYDVLLSTSIVESGLDLPKANTMIVQRADMFGLA 919
+++ HG + ++ F + + VL++T + GLD+P T++ D
Sbjct: 492 GFNVSLLHGDKDQAERNEVLSKFKKKRKPVLVATDVAARGLDIPSIKTVV--NYDFARDI 549
Query: 920 QLYQLR-GRVGRS 931
+ R GR GR+
Sbjct: 550 DTHTHRIGRTGRA 562
>gnl|CDD|30860 COG0514, RecQ, Superfamily II DNA helicase [DNA replication,
recombination, and repair].
Length = 590
Score = 30.3 bits (68), Expect = 3.0
Identities = 66/335 (19%), Positives = 123/335 (36%), Gaps = 43/335 (12%)
Query: 629 DQEKAIDAVIQDLSSGRLMDRLICGDVGFGKTEIALRAAFIAVMNGLQVAVIAPTTLLVR 688
Q++ IDA++ D L+ G GK+ A + + GL + V++P L++
Sbjct: 21 GQQEIIDALLSG------KDTLVVMPTGGGKSLCYQIPALL--LEGLTL-VVSPLISLMK 71
Query: 689 QHFRLFSERFQGFSVRIASISRFVQTKEAALHKKSITEGQVDIVIGTHALLNPKITFANL 748
+ + +R A ++ + +E + GQ+ ++ + L L
Sbjct: 72 DQVD----QLEAAGIRAAYLNSTLSREERQQVLNQLKSGQLKLLYISPERLMSPRFLELL 127
Query: 749 -----GLIIIDEEQ---HFGVKHKEALKE--------THTGVHVLTLSATP-----IPRT 787
L+ IDE +G + + + V LT +ATP I
Sbjct: 128 KRLPISLVAIDEAHCISQWGHDFRPDYRRLGRLRAGLPNPPVLALTATATPRVRDDIREQ 187
Query: 788 LQLAITGVRELSLISMPPINRIACRTSISIFDPLVVRETLMREYYRGGQSFYVCPRLSDL 847
L L + S P + D L T++ + + G + C +
Sbjct: 188 LGLQDANIFRGSFDR--PNLALKVVEKGEPSDQLAFLATVLPQLSKSGIIY--CLTRKKV 243
Query: 848 EKCYTFLQSEVPELKIAMAHGQMSPKNLEDKMNAFYEGQYDVLLSTSIVESGLDLPKANT 907
E+ +L+ + H +S + E AF + V+++T+ G+D K +
Sbjct: 244 EELAEWLRKN--GISAGAYHAGLSNEERERVQQAFLNDEIKVMVATNAFGMGID--KPDV 299
Query: 908 MIVQRADMFG-LAQLYQLRGRVGRSKIASFALFLL 941
V D+ G + YQ GR GR + + A+ L
Sbjct: 300 RFVIHYDLPGSIESYYQETGRAGRDGLPAEAILLY 334
>gnl|CDD|147155 pfam04851, ResIII, Type III restriction enzyme, res subunit.
Length = 103
Score = 30.3 bits (69), Expect = 3.6
Identities = 15/60 (25%), Positives = 24/60 (40%), Gaps = 6/60 (10%)
Query: 630 QEKAIDAVIQDLSSGRLMDRLICGDVGFGKTEIALRAAFIAVMNGLQVAVIAPTTLLVRQ 689
Q +AI +++ R LI G GKT A + + +V + P L+ Q
Sbjct: 8 QIEAIRNLLEK---KRG---LIVMATGSGKTLTAAKLIARLLKGKKKVLFLVPRKDLLEQ 61
>gnl|CDD|33289 COG3486, IucD, Lysine/ornithine N-monooxygenase [Secondary
metabolites biosynthesis, transport, and catabolism].
Length = 436
Score = 29.8 bits (67), Expect = 4.2
Identities = 18/81 (22%), Positives = 32/81 (39%), Gaps = 10/81 (12%)
Query: 351 TAFNQQETAHNRVVHLNAFPGKS-WVPSAVQKIESQDNWESGGRFDKFLSHVAQQAQKGI 409
TA A N V+ G ++P + + + + S ++L + QK
Sbjct: 138 TANGTVYRARNLVLG----VGTQPYIPPCFRSLIGERVFHSS----EYLERHPELLQKRS 189
Query: 410 KTIISASSQGALQHLIHLIES 430
T+I S Q A + + L+ S
Sbjct: 190 VTVI-GSGQSAAEIFLDLLNS 209
>gnl|CDD|132963 cd06632, STKc_MEKK1_plant, Catalytic domain of the Protein
Serine/Threonine Kinase, Plant MAP/ERK kinase kinase 1.
Serine/threonine kinases (STKs), plant MAP/ERK kinase
kinase 1 (MEKK1)-like subfamily, catalytic (c) domain.
STKs catalyze the transfer of the gamma-phosphoryl group
from ATP to serine/threonine residues on protein
substrates. The plant MEKK1 subfamily is part of a
larger superfamily that includes the catalytic domains
of other protein STKs, protein tyrosine kinases, RIO
kinases, aminoglycoside phosphotransferase, choline
kinase, and phosphoinositide 3-kinase. This subfamily is
composed of plant mitogen-activated protein kinase
(MAPK) kinase kinases (MAPKKKs or MKKKs or MAP3Ks)
including Arabidopsis thaliana MEKK1 and MAPKKK3. MEKK1
is a MAPKKK that phosphorylates and activates MAPK
kinases (MAPKKs or MKKs or MAP2Ks), which in turn
phosphorylate and activate MAPKs during signaling
cascades that are important in mediating cellular
responses to extracellular signals. Arabidopsis thaliana
MEKK1 activates MPK4, a MAPK that regulates systemic
acquired resistance. MEKK1 also participates in the
regulation of temperature-sensitive and tissue-specific
cell death.
Length = 258
Score = 29.7 bits (67), Expect = 4.5
Identities = 19/64 (29%), Positives = 29/64 (45%), Gaps = 10/64 (15%)
Query: 188 DFFGNTIDSLRLFDSSTQRTIREISIFEINTLSEVMLTSQNISRFRENYLANFGTTTQED 247
DFF SL + Q ++++ EI LS+ L NI ++ GT +ED
Sbjct: 26 DFFAVKEVSLADDGQTGQEAVKQLEQ-EIALLSK--LQHPNIVQYL-------GTEREED 75
Query: 248 PLYV 251
LY+
Sbjct: 76 NLYI 79
>gnl|CDD|30500 COG0151, PurD, Phosphoribosylamine-glycine ligase [Nucleotide
transport and metabolism].
Length = 428
Score = 29.8 bits (67), Expect = 4.9
Identities = 7/27 (25%), Positives = 16/27 (59%)
Query: 1112 RHKTFSNPEALLQYIAQQKGKIIIRPD 1138
++ F++PE YI ++ I+++ D
Sbjct: 120 EYEVFTDPEEAKAYIDEKGAPIVVKAD 146
>gnl|CDD|33660 COG3870, COG3870, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 109
Score = 29.5 bits (66), Expect = 5.7
Identities = 14/42 (33%), Positives = 20/42 (47%), Gaps = 2/42 (4%)
Query: 632 KAIDAVIQDLSSGRLMDRLICGDVGFGKTEIALRAAFIAVMN 673
K I A++QD + L D L D F T++A F+ N
Sbjct: 2 KLIIAIVQDQDANELEDALT--DKNFRATKLASTGGFLKAGN 41
>gnl|CDD|37202 KOG1991, KOG1991, KOG1991, Nuclear transport receptor RANBP7/RANBP8
(importin beta superfamily) [Nuclear structure,
Intracellular trafficking, secretion, and vesicular
transport].
Length = 1010
Score = 29.5 bits (66), Expect = 6.3
Identities = 22/100 (22%), Positives = 42/100 (42%), Gaps = 7/100 (7%)
Query: 999 LYQKMLEETVASIKGQKDL---VESDWSPQVLIEASVMIPESYVSDINLRLSLYRRLGNI 1055
+ LE T + +L VE+ + Q I E + + + +L N
Sbjct: 499 NLSEALELTHNCLLNDNELPVRVEAALALQSFISNQEQADEKVSAHVPPIMQELLKLSNE 558
Query: 1056 TDHADISHFKEEMVDRFG----PLPIEVIHLLKVVFLKLL 1091
++ D+++ E++V +F P +E+ L FLK+L
Sbjct: 559 VENDDLTNVMEKIVCKFSEELSPFAVELCQNLAETFLKVL 598
>gnl|CDD|176127 cd08436, PBP2_LTTR_like_3, The C-terminal substrate binding domain
of an uncharacterized LysR-type transcriptional
regulator, contains the type 2 periplasmic binding fold.
LysR-transcriptional regulators comprise the largest
family of prokaryotic transcription factor. Homologs of
some of LTTRs with similar domain organizations are also
found in the archaea and eukaryotic organisms. The LTTRs
are composed of two functional domains joined by a
linker helix involved in oligomerization: an N-terminal
HTH (helix-turn-helix) domain, which is responsible for
the DNA-binding specificity, and a C-terminal
substrate-binding domain, which is structurally
homologous to the type 2 periplasmic binding proteins.
As also observed in the periplasmic binding proteins,
the C-terminal domain of the bacterial transcriptional
repressor undergoes a conformational change upon
substrate binding which in turn changes the DNA binding
affinity of the repressor. The genes controlled by the
LTTRs have diverse functional roles including amino acid
biosynthesis, CO2 fixation, antibiotic resistance,
degradation of aromatic compounds, nodule formation of
nitrogen-fixing bacteria, and synthesis of virulence
factors, to a name a few. This substrate-binding domain
shows significant homology to the type 2 periplasmic
binding proteins (PBP2), which are responsible for the
uptake of a variety of substrates such as phosphate,
sulfate, polysaccharides, lysine/arginine/ornithine, and
histidine. The PBP2 bind their ligand in the cleft
between these domains in a manner resembling a Venus
flytrap. After binding their specific ligand with high
affinity, they can interact with a cognate membrane
transport complex comprised of two integral membrane
domains and two cytoplasmically located ATPase domains.
This interaction triggers the ligand translocation
across the cytoplasmic membrane energized by ATP
hydrolysis.
Length = 194
Score = 29.5 bits (67), Expect = 6.4
Identities = 20/93 (21%), Positives = 37/93 (39%), Gaps = 18/93 (19%)
Query: 601 AIHSVPPLMVSQDLYSQFIKRFPHVETEDQEKAIDAVIQDLSSGRLMDRLICGDVGFGKT 660
I S+ + + +L ++F +R P V+ ++ D ++ + GRL D+ F
Sbjct: 6 TITSLAAVDLP-ELLARFHRRHPGVDIRLRQAGSDDLLAAVREGRL-------DLAF--- 54
Query: 661 EIALRAAFIAVMNGLQVAVIA--PTTLLV-RQH 690
+ L GL +A P +V H
Sbjct: 55 -VGLPERRPP---GLASRELAREPLVAVVAPDH 83
>gnl|CDD|36166 KOG0948, KOG0948, KOG0948, Nuclear exosomal RNA helicase MTR4,
DEAD-box superfamily [RNA processing and modification].
Length = 1041
Score = 29.1 bits (65), Expect = 6.5
Identities = 36/160 (22%), Positives = 65/160 (40%), Gaps = 22/160 (13%)
Query: 882 FYEGQYDVLLSTSIVESGLDLPKANTMIVQRADMF--------GLAQLYQLRGRVGRSKI 933
F EG VL +T GL++P A T++ F + Q+ GR GR I
Sbjct: 468 FQEGLVKVLFATETFSIGLNMP-AKTVVFTAVRKFDGKKFRWISSGEYIQMSGRAGRRGI 526
Query: 934 ASFALFLLPENRPLTAAAQKRLRILQSLNTLGAGFQLASYDLDIRGTGNLLGEE--QSGH 991
+ +L + + K + + S + L + F L +Y++ + NLL E +
Sbjct: 527 DDRGIVILMIDEKMEPQVAKDM-LKGSADPLNSAFHL-TYNMIL----NLLRVEEISPEY 580
Query: 992 IREIGFELYQKM-----LEETVASIKGQKDLVESDWSPQV 1026
+ E F +Q +EE + ++ + D + +V
Sbjct: 581 MLERSFHQFQNYKALPDIEEKLKQLEEELDSINIPNEEEV 620
>gnl|CDD|32001 COG1816, Add, Adenosine deaminase [Nucleotide transport and
metabolism].
Length = 345
Score = 29.1 bits (65), Expect = 7.0
Identities = 12/48 (25%), Positives = 21/48 (43%)
Query: 389 ESGGRFDKFLSHVAQQAQKGIKTIISASSQGALQHLIHLIESHGFKKI 436
ESG + F+S G+K I A G + + ++ G ++I
Sbjct: 179 ESGYPPELFVSLFKLARDNGLKLTIHAGEAGGPESIRDALDLLGAERI 226
>gnl|CDD|39353 KOG4150, KOG4150, KOG4150, Predicted ATP-dependent RNA helicase
[RNA processing and modification].
Length = 1034
Score = 28.9 bits (64), Expect = 8.0
Identities = 33/134 (24%), Positives = 58/134 (43%), Gaps = 27/134 (20%)
Query: 883 YEGQYDVLLSTSIVESGLDLPKANTMIVQRADMFG----LAQLYQLRGRVGRSKIASFAL 938
+ G+ +++T+ +E G+D+ + ++ G +A L+Q GR GR S A+
Sbjct: 580 FGGKLCGIIATNALELGIDIGHLDAVL-----HLGFPGSIANLWQQAGRAGRRNKPSLAV 634
Query: 939 ---FLLPENRPLTAAAQKRLRI--------LQSLNTLGAGFQLASYDLDIRGTGNLLGEE 987
FL P ++ + K Q+ + L Q A+ +L I NL ++
Sbjct: 635 YVAFLGPVDQYYMSHPDKLFGSPNEELHLDSQNKHVLMQHLQCAALELPI----NLQYDQ 690
Query: 988 Q---SGHIREIGFE 998
Q SG +R I F
Sbjct: 691 QHFGSGELRNICFL 704
>gnl|CDD|31829 COG1643, HrpA, HrpA-like helicases [DNA replication, recombination,
and repair].
Length = 845
Score = 28.8 bits (64), Expect = 8.7
Identities = 24/108 (22%), Positives = 45/108 (41%), Gaps = 19/108 (17%)
Query: 842 PRLSDLEKCYTFLQSE--VPELKIAMAHGQMSPKNLEDKMNAFYEGQYDVLLSTSIVESG 899
P ++E+ +L+ +L+I +G +S + G+ V+L+T+I E+
Sbjct: 267 PGQREIERTAEWLEKAELGDDLEILPLYGALSAEEQVRVFEPAPGGKRKVVLATNIAETS 326
Query: 900 LDLPKANTMI---VQRADMF----GLAQLY----------QLRGRVGR 930
L +P +I + + + GL +L Q GR GR
Sbjct: 327 LTIPGIRYVIDSGLAKEKRYDPRTGLTRLETEPISKASADQRAGRAGR 374
>gnl|CDD|29998 cd01132, F1_ATPase_alpha, F1 ATP synthase alpha, central domain.
The F-ATPase is found in bacterial plasma membranes,
mitochondrial inner membranes and in chloroplast
thylakoid membranes. It has also been found in the
archaea Methanosarcina barkeri. It uses a proton
gradient to drive ATP synthesis and hydrolyzes ATP to
build the proton gradient. The extrinisic membrane
domain, F1, is composed of alpha, beta, gamma, delta and
epsilon subunits with a stoichiometry of 3:3:1:1:1. The
alpha subunit of the F1 ATP synthase can bind
nucleotides, but is non-catalytic..
Length = 274
Score = 28.6 bits (64), Expect = 9.4
Identities = 17/33 (51%), Positives = 19/33 (57%), Gaps = 3/33 (9%)
Query: 632 KAIDAVIQDLSSGRLMDRLICGDVGFGKTEIAL 664
KAIDA+I GR LI GD GKT IA+
Sbjct: 58 KAIDAMI---PIGRGQRELIIGDRQTGKTAIAI 87
Database: CddA
Posted date: Feb 4, 2011 9:38 PM
Number of letters in database: 6,263,737
Number of sequences in database: 21,609
Lambda K H
0.322 0.137 0.390
Gapped
Lambda K H
0.267 0.0657 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 13,989,005
Number of extensions: 766545
Number of successful extensions: 1940
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1907
Number of HSP's successfully gapped: 82
Length of query: 1187
Length of database: 6,263,737
Length adjustment: 105
Effective length of query: 1082
Effective length of database: 3,994,792
Effective search space: 4322364944
Effective search space used: 4322364944
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 63 (28.2 bits)