RPS-BLAST 2.2.22 [Sep-27-2009] Database: CddA 21,609 sequences; 6,263,737 total letters Searching..................................................done Query= gi|254780601|ref|YP_003065014.1| ATP-dependent RNA helicase protein [Candidatus Liberibacter asiaticus str. psy62] (573 letters) >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 = 327 bits (839), Expect = 5e-90 Identities = 154/469 (32%), Positives = 235/469 (50%), Gaps = 18/469 (3%) Query: 6 NIPQVIGEALSERGYVNLTSVQEAILNPDLREKDVLVSAQTGSGKTVAFGLALASTLLAE 65 + + +AL + G+ T +Q A + L +DVL AQTG+GKT AF L L + Sbjct: 35 GLSPELLQALKDLGFEEPTPIQLAAIPLILAGRDVLGQAQTGTGKTAAFLLPLLQKI--- 91 Query: 66 NDRFSPASAPLALAIAPTRELAVQVGRELEWLYAKT-GVVVAVCIGGVSVHRERRDLQNG 124 + AL +APTRELAVQ+ EL L G+ VAV GGVS+ ++ L+ G Sbjct: 92 -LKSVERKYVSALILAPTRELAVQIAEELRKLGKNLGGLRVAVVYGGVSIRKQIEALKRG 150 Query: 125 AHIVVGTPGRLCDHIRGKGLNISHLKAVVLDEADEMLDLGFRDDIEFILDSSPKKRRMLM 184 IVV TPGRL D I+ L++S ++ +VLDEAD MLD+GF DDIE IL + P R+ L+ Sbjct: 151 VDIVVATPGRLLDLIKRGKLDLSGVETLVLDEADRMLDMGFIDDIEKILKALPPDRQTLL 210 Query: 185 FSATISPAITTLAKNYQKDAVRVNIASEN--RQHSDIDYRAVLV-ALSDRDNAIVNILRY 241 FSAT+ I LA+ Y D V + ++ E R I + V + ++ ++ +L+ Sbjct: 211 FSATMPDDIRELARRYLNDPVEIEVSVEKLERTLKKIKQFYLEVESEEEKLELLLKLLKD 270 Query: 242 HGAKNAIVFCSTRASVSRFTKVLAEHLFQVVALSGELSQQERSNALQMMRDGRARVCIAT 301 IVF T+ V + L + F+V AL G+L Q+ER AL+ +DG RV +AT Sbjct: 271 EDEGRVIVFVRTKRLVEELAESLRKRGFKVAALHGDLPQEERDRALEKFKDGELRVLVAT 330 Query: 302 DVAARGIDLPDLELVIHAELSSNPENLLHRSGRTGRAGRKGMSV-FVIPQNMQRRAERLF 360 DVAARG+D+PD+ VI+ +L +PE+ +HR GRTGRAGRKG+++ FV + ++ +R+ Sbjct: 331 DVAARGLDIPDVSHVINYDLPLDPEDYVHRIGRTGRAGRKGVAISFVTEEEEVKKLKRIE 390 Query: 361 REANVSV-VWEPAPSVEAIRERDAQRI-------LQDPLFLDSIQGDEKKMVDVLLAKHD 412 + + P E + + + ++ +K ++ L + Sbjct: 391 KRLERKLPSAVLLPLDEPEDAKLLKTTRPGLEEESDISDEIKKLKSSKKALLRGLGVRFT 450 Query: 413 PEKIAAGFLRIHRAGLCAPEEITPVSLVSGRDRFRDDSRAFKVGGGSRD 461 K+ A + I P + D K + Sbjct: 451 LSKLLANLGKEIPGAG-DAVTIDPELERRSPNSADDIEYILKGLSYRAE 498 >gnl|CDD|35552 KOG0331, KOG0331, KOG0331, ATP-dependent RNA helicase [RNA processing and modification]. Length = 519 Score = 272 bits (697), Expect = 2e-73 Identities = 126/370 (34%), Positives = 201/370 (54%), Gaps = 9/370 (2%) Query: 7 IPQVIGEALSERGYVNLTSVQEAILNPDLREKDVLVSAQTGSGKTVAFGLALASTLLAEN 66 + + + +AL E+G+ T +Q L +D++ A+TGSGKT+A+ L L E Sbjct: 98 LSEELMKALKEQGFEKPTPIQAQGWPIALSGRDLVGIARTGSGKTLAYLLPAIVHLNNEQ 157 Query: 67 DRFSPASAPLALAIAPTRELAVQVGRELEWLYAKTGVVVAVCIGGVSVHRERRDLQNGAH 126 + S P+ L +APTRELAVQV E + GG + RDL+ G Sbjct: 158 GKLSRGDGPIVLVLAPTRELAVQVQAEAREFGKSLRLRSTCVYGGAPKGPQLRDLERGVD 217 Query: 127 IVVGTPGRLCDHIRGKGLNISHLKAVVLDEADEMLDLGFRDDIEFILDSSPKKRR-MLMF 185 +V+ TPGRL D + LN+S + +VLDEAD MLD+GF I IL P+ R LMF Sbjct: 218 VVIATPGRLIDLLEEGSLNLSRVTYLVLDEADRMLDMGFEPQIRKILSQIPRPDRQTLMF 277 Query: 186 SATISPAITTLAKNYQKDAVRVNIASENRQ--HSDIDYRAVLVALSDRDNAIVNILRYHG 243 SAT + LA+++ + +++N+ ++ + +I + + + + +L Sbjct: 278 SATWPKEVRQLAEDFLNNPIQINVGNKKELKANHNIRQIVEVCDETAKLRKLGKLLEDIS 337 Query: 244 AKN---AIVFCSTRASVSRFTKVLAEHLFQVVALSGELSQQERSNALQMMRDGRARVCIA 300 + + I+FC T+ + + L + VA+ G+ SQ ER L+ R+G++ V +A Sbjct: 338 SDSEGKVIIFCETKRTCDELARNLRRKGWPAVAIHGDKSQSERDWVLKGFREGKSPVLVA 397 Query: 301 TDVAARGIDLPDLELVIHAELSSNPENLLHRSGRTGRAGRKGMSV-FVIPQNMQ--RRAE 357 TDVAARG+D+PD++LVI+ + +N E+ +HR GRTGRAG+KG ++ F N + R Sbjct: 398 TDVAARGLDVPDVDLVINYDFPNNVEDYVHRIGRTGRAGKKGTAITFFTSDNAKLARELI 457 Query: 358 RLFREANVSV 367 ++ REA +V Sbjct: 458 KVLREAGQTV 467 >gnl|CDD|35551 KOG0330, KOG0330, KOG0330, ATP-dependent RNA helicase [RNA processing and modification]. Length = 476 Score = 247 bits (632), Expect = 5e-66 Identities = 117/345 (33%), Positives = 197/345 (57%), Gaps = 8/345 (2%) Query: 7 IPQVIGEALSERGYVNLTSVQEAILNPDLREKDVLVSAQTGSGKTVAFGLALASTLLAEN 66 P+++ EA E G+ T +Q + L +DV+ A+TGSGKT AF L + LL E Sbjct: 69 HPELL-EACQELGWKKPTKIQSEAIPVALGGRDVIGLAETGSGKTGAFALPILQRLLQEP 127 Query: 67 DRFSPASAPLALAIAPTRELAVQVGRELEWLYAKTGVVVAVCIGGVSVHRERRDLQNGAH 126 AL + PTRELA Q+ + E L + G+ VAV +GG+ + + L H Sbjct: 128 ------KLFFALVLTPTRELAQQIAEQFEALGSGIGLRVAVLVGGMDMMLQANQLSKKPH 181 Query: 127 IVVGTPGRLCDHIRG-KGLNISHLKAVVLDEADEMLDLGFRDDIEFILDSSPKKRRMLMF 185 I+V TPGRL DH+ KG ++ LK +VLDEAD +LD+ F +++++IL P++R+ +F Sbjct: 182 ILVATPGRLWDHLENTKGFSLEQLKFLVLDEADRLLDMDFEEELDYILKVIPRERQTFLF 241 Query: 186 SATISPAITTLAKNYQKDAVRVNIASENRQHSDIDYRAVLVALSDRDNAIVNILRYHGAK 245 SAT++ + L + + V+V ++S+ + + + V D+D +V +L Sbjct: 242 SATMTKKVRKLQRASLDNPVKVAVSSKYQTVDHLKQTYLFVPGKDKDTYLVYLLNELAGN 301 Query: 246 NAIVFCSTRASVSRFTKVLAEHLFQVVALSGELSQQERSNALQMMRDGRARVCIATDVAA 305 + IVFC+T + +L FQ + L G++SQ +R AL + G + + TDVA+ Sbjct: 302 SVIVFCNTCNTTRFLALLLRNLGFQAIPLHGQMSQSKRLGALNKFKAGARSILVCTDVAS 361 Query: 306 RGIDLPDLELVIHAELSSNPENLLHRSGRTGRAGRKGMSVFVIPQ 350 RG+D+P +++V++ ++ ++ ++ +HR GRT RAGR G ++ ++ Q Sbjct: 362 RGLDIPHVDVVVNYDIPTHSKDYIHRVGRTARAGRSGKAITLVTQ 406 >gnl|CDD|35563 KOG0342, KOG0342, KOG0342, ATP-dependent RNA helicase pitchoune [RNA processing and modification]. Length = 543 Score = 225 bits (575), Expect = 2e-59 Identities = 119/341 (34%), Positives = 186/341 (54%), Gaps = 8/341 (2%) Query: 14 ALSERGYVNLTSVQEAILNPDLREKDVLVSAQTGSGKTVAFGLALASTLLAENDRFSPAS 73 A+ E G+ +T VQ+ + P L KDVL +A+TG+GKT+AF L L +F P + Sbjct: 96 AIKEMGFETMTPVQQKTIPPLLEGKDVLAAAKTGTGKTLAFLLPAIELLR--KLKFKPRN 153 Query: 74 APLALAIAPTRELAVQVGREL-EWLYAKTGVVVAVCIGGVSVHRERRDLQNGAHIVVGTP 132 L I PTRELA+Q+ E E L + V + IGG + E L G +I++ TP Sbjct: 154 GTGVLIICPTRELAMQIFAEAKELLKYHESITVGIVIGGNNFSVEADKLVKGCNILIATP 213 Query: 133 GRLCDHI-RGKGLNISHLKAVVLDEADEMLDLGFRDDIEFILDSSPKKRRMLMFSATISP 191 GRL DH+ G +LK +VLDEAD +LD+GF +D+E I+ PK+R+ L+FSAT Sbjct: 214 GRLLDHLQNTSGFLFRNLKCLVLDEADRLLDIGFEEDVEQIIKILPKQRQTLLFSATQPS 273 Query: 192 AITTLAKN-YQKDAVRVNIASEN--RQHSDIDYRAVLVALSDRDNAIVNILRYH-GAKNA 247 + LA+ ++D V VN+ H ++ V+ R + + L+ + Sbjct: 274 KVKDLARGALKRDPVFVNVDDGGERETHERLEQGYVVAPSDSRFSLLYTFLKKNIKRYKI 333 Query: 248 IVFCSTRASVSRFTKVLAEHLFQVVALSGELSQQERSNALQMMRDGRARVCIATDVAARG 307 IVF ST SV ++L V+ + G+ Q +R++ + + + TDVAARG Sbjct: 334 IVFFSTCMSVKFHAELLNYIDLPVLEIHGKQKQNKRTSTFFEFCKAESGILVCTDVAARG 393 Query: 308 IDLPDLELVIHAELSSNPENLLHRSGRTGRAGRKGMSVFVI 348 +D+PD++ V+ + S+PE +HR GRT R G++G ++ ++ Sbjct: 394 LDIPDVDWVVQYDPPSDPEQYIHRVGRTAREGKEGKALLLL 434 >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 = 222 bits (568), Expect = 2e-58 Identities = 111/346 (32%), Positives = 190/346 (54%), Gaps = 16/346 (4%) Query: 14 ALSERGYVNLTSVQEAILNPDLREKDVLVSAQTGSGKTVAFGLA-LASTLLAENDRFSPA 72 + G+ +++Q+ + L+ +DV+ AQ+G+GKT F ++ L S ++ + Sbjct: 41 GIYAYGFEKPSAIQQRAIPQILKGRDVIAQAQSGTGKTATFSISVLQSLDISVRET---- 96 Query: 73 SAPLALAIAPTRELAVQVGRELEWLYAKTGVVVAVCIGGVSVHRERRDLQNGAHIVVGTP 132 AL ++PTRELAVQ+ + + L V CIGG ++ + + L G H+V GTP Sbjct: 97 ---QALILSPTRELAVQIQKVILALGDYMNVQCHACIGGKNLGEDIKKLDYGQHVVSGTP 153 Query: 133 GRLCDHIRGKGLNISHLKAVVLDEADEMLDLGFRDDIEFILDSSPKKRRMLMFSATISPA 192 GR+ D I+ + L +K +VLDEADEML+ GF++ I I P ++++ SAT+ Sbjct: 154 GRVLDMIKRRSLRTRAVKMLVLDEADEMLNKGFKEQIYDIYRYLPPGAQVVLVSATLPHE 213 Query: 193 ITTLAKNYQKDAVRVNIASENRQHSDIDYRAVLVALSDRDN----AIVNILRYHGAKNAI 248 I + + + D VR+ + + I V V +++ + ++ A+ Sbjct: 214 ILEMTEKFMTDPVRILVKRDELTLEGIKQFFVAV---EKEEWKFDTLCDLYDTLTITQAV 270 Query: 249 VFCSTRASVSRFTKVLAEHLFQVVALSGELSQQERSNALQMMRDGRARVCIATDVAARGI 308 +FC+T+ V T+ + E F V ++ G++ Q+ER + R G++RV I TDV ARGI Sbjct: 271 IFCNTKRKVDWLTEKMREANFTVSSMHGDMEQKERDKIMNDFRSGKSRVLITTDVWARGI 330 Query: 309 DLPDLELVIHAELSSNPENLLHRSGRTGRAGRKGMSV-FVIPQNMQ 353 D+ + LVI+ +L +N E +HR GR+GR GRKG+++ FV +++ Sbjct: 331 DVQQVSLVINYDLPNNRELYIHRIGRSGRFGRKGVAINFVKSDDLR 376 >gnl|CDD|35566 KOG0345, KOG0345, KOG0345, ATP-dependent RNA helicase [RNA processing and modification]. Length = 567 Score = 221 bits (564), Expect = 5e-58 Identities = 122/349 (34%), Positives = 197/349 (56%), Gaps = 10/349 (2%) Query: 11 IGEALSERGYVNLTSVQEAILNPDLREKDVLVSAQTGSGKTVAFGLALASTLLAENDRFS 70 + EAL E G+ +T VQ A + L+ KDV+V A TGSGKT+AF L + + + Sbjct: 17 LLEALDESGFEKMTPVQAATIPLLLKNKDVVVEAVTGSGKTLAFLLPMLEIIYRREAKTP 76 Query: 71 PASAPLALAIAPTRELAVQVGRELEWLYAKTGVVVAVC-IGGVSVHRE-RRDLQNGAHIV 128 P AL I+PTRELA Q+ + + +GG SV + + + G +I+ Sbjct: 77 PGQV-GALIISPTRELARQIREVAQPFLEHLPNLNCELLVGGRSVEEDIKTFKEEGPNIL 135 Query: 129 VGTPGRLCDHIR--GKGLNISHLKAVVLDEADEMLDLGFRDDIEFILDSSPKKRRMLMFS 186 VGTPGRL D ++ + L+ L+ +VLDEAD +LD+GF + IL PK+RR +FS Sbjct: 136 VGTPGRLLDILQREAEKLSFRSLEILVLDEADRLLDMGFEASVNTILSFLPKQRRTGLFS 195 Query: 187 ATISPAITTLAKNYQKDAVRVNIASENRQH--SDIDYRAVLVALSDRDNAIVNILRYHGA 244 AT + + LA+ ++ VRV++ +++ S + ++ ++ + +V++L + Sbjct: 196 ATQTQEVEDLARAGLRNPVRVSVKEKSKSATPSSLALEYLVCEADEKLSQLVHLLNNNKD 255 Query: 245 KNAIVFCSTRASVSRFTKVLAEHL--FQVVALSGELSQQERSNALQMMRDGRARVCIATD 302 K IVF T ASV F K+ + L ++ ++ G++SQ+ R+ L+ R V TD Sbjct: 256 KKCIVFFPTCASVEYFGKLFSRLLKKREIFSIHGKMSQKARAKVLEAFRKLSNGVLFCTD 315 Query: 303 VAARGIDLPDLELVIHAELSSNPENLLHRSGRTGRAGRKGMS-VFVIPQ 350 VAARG+D+P ++LV+ + +P + +HR GRT RAGR+G + VF+ P+ Sbjct: 316 VAARGLDIPGIDLVVQFDPPKDPSSFVHRCGRTARAGREGNAIVFLNPR 364 >gnl|CDD|35561 KOG0340, KOG0340, KOG0340, ATP-dependent RNA helicase [RNA processing and modification]. Length = 442 Score = 208 bits (530), Expect = 4e-54 Identities = 120/351 (34%), Positives = 185/351 (52%), Gaps = 23/351 (6%) Query: 13 EALSERGYVNLTSVQEAILNPDLREKDVLVSAQTGSGKTVAFGLALASTLLAENDRFSPA 72 E L G T +Q+A + L +D + A+TGSGKT AF L + + L D + Sbjct: 20 EQLKALGIKKPTPIQQACIPKILEGRDCIGCAKTGSGKTAAFALPILNRL--SEDPYGI- 76 Query: 73 SAPLALAIAPTRELAVQVGRELEWLYAKTGVVVAVCIGGVSVHRERRDLQNGAHIVVGTP 132 AL + PTRELA+Q+ + L + V+V +GG + + L + H+VV TP Sbjct: 77 ---FALVLTPTRELALQIAEQFIALGKLLNLKVSVIVGGTDMIMQAAILSDRPHVVVATP 133 Query: 133 GRLCDHIRGKGLNIS----HLKAVVLDEADEMLDLGFRDDIEFILDSSPKKRRMLMFSAT 188 GRL DH+ S LK +VLDEAD +L F D +E I + PK R+ L+FSAT Sbjct: 134 GRLADHLSSNLGVCSWIFQRLKFLVLDEADRVLAGCFPDILEGIEECLPKPRQTLLFSAT 193 Query: 189 ISPAITTLAKNYQKDAVRVNIASENRQHSDI------DYRAVLVALSDRDNAIVNILR-- 240 I+ I L + +IA E + +LV++ +D +V++LR Sbjct: 194 ITDTIKQL----FGCPITKSIAFELEVIDGVSTVETLYQGYILVSIDVKDAYLVHLLRDF 249 Query: 241 -YHGAKNAIVFCSTRASVSRFTKVLAEHLFQVVALSGELSQQERSNALQMMRDGRARVCI 299 + ++F +T + L +VV+L ++ Q+ER AL R AR+ I Sbjct: 250 ENKENGSIMIFVNTTRECQLLSMTLKNLEVRVVSLHSQMPQKERLAALSRFRSNAARILI 309 Query: 300 ATDVAARGIDLPDLELVIHAELSSNPENLLHRSGRTGRAGRKGMSVFVIPQ 350 ATDVA+RG+D+P +ELV++ ++ +P++ +HR GRT RAGRKGM++ ++ Q Sbjct: 310 ATDVASRGLDIPTVELVVNHDIPRDPKDYIHRVGRTARAGRKGMAISIVTQ 360 >gnl|CDD|35554 KOG0333, KOG0333, KOG0333, U5 snRNP-like RNA helicase subunit [RNA processing and modification]. Length = 673 Score = 206 bits (525), Expect = 1e-53 Identities = 121/375 (32%), Positives = 194/375 (51%), Gaps = 29/375 (7%) Query: 6 NIPQVIGEALSERGYVNLTSVQEAILNPDLREKDVLVSAQTGSGKTVAFGLAL---ASTL 62 P + + + GY T +Q + L+ +D + A+TGSGKT AF + L S+L Sbjct: 251 GFPLELLSVIKKPGYKEPTPIQRQAIPLGLQNRDPIGVAETGSGKTAAFLIPLLIWISSL 310 Query: 63 LAENDRFSPASAPLALAIAPTRELAVQVGRELEWLYAKTGVVVAVCIGGVSVHRERRDLQ 122 + P A+ +APTRELA Q+ E G+ IGG+S + L Sbjct: 311 PPMARLENNIEGPYAIILAPTRELAQQIEEETNKFGKPLGIRTVSVIGGLSFEEQGFQLS 370 Query: 123 NGAHIVVGTPGRLCDHIRGKGLNISHLKAVVLDEADEMLDLGFRDDIEFILDSSP----- 177 G IV+ TPGRL D + + L ++ VVLDEAD M+D+GF D++ IL+ P Sbjct: 371 MGCEIVIATPGRLIDSLENRYLVLNQCTYVVLDEADRMIDMGFEPDVQKILEQMPSSNAK 430 Query: 178 --------------------KKRRMLMFSATISPAITTLAKNYQKDAVRVNIASENRQHS 217 K R+ +MF+AT+ PA+ LA++Y + V V I S + Sbjct: 431 PDTDEKEGEERVRKNFSSSKKYRQTVMFTATMPPAVERLARSYLRRPVVVTIGSAGKPTP 490 Query: 218 DIDYRAVLVALSDRDNAIVNILRYHGAKNAIVFCSTRASVSRFTKVLAEHLFQVVALSGE 277 ++ + +V+ ++ ++ IL + I+F +T+ K+L + ++V L G Sbjct: 491 RVEQKVEMVSEDEKRKKLIEILESNFDPPIIIFVNTKKGADALAKILEKAGYKVTTLHGG 550 Query: 278 LSQQERSNALQMMRDGRARVCIATDVAARGIDLPDLELVIHAELSSNPENLLHRSGRTGR 337 SQ++R NAL R+G + +ATDVA RGID+P++ LVI+ +++ + E+ HR GRTGR Sbjct: 551 KSQEQRENALADFREGTGDILVATDVAGRGIDIPNVSLVINYDMAKSIEDYTHRIGRTGR 610 Query: 338 AGRKGMSV-FVIPQN 351 AG+ G ++ F+ P + Sbjct: 611 AGKSGTAISFLTPAD 625 >gnl|CDD|35548 KOG0327, KOG0327, KOG0327, Translation initiation factor 4F, helicase subunit (eIF-4A) and related helicases [Translation, ribosomal structure and biogenesis]. Length = 397 Score = 201 bits (512), Expect = 4e-52 Identities = 115/350 (32%), Positives = 189/350 (54%), Gaps = 9/350 (2%) Query: 24 TSVQEAILNPDLREKDVLVSAQTGSGKTVAFGLALASTLLAENDRFSPASAPLALAIAPT 83 +++Q+ + P ++ DV+ AQ+G+GKT AF +++ + AL +APT Sbjct: 50 SAIQQRAILPCIKGHDVIAQAQSGTGKTAAFLISILQQIDMSVK------ETQALILAPT 103 Query: 84 RELAVQVGRELEWLYAKTGVVVAVCIGGVSVHRE-RRDLQNGAHIVVGTPGRLCDHIRGK 142 RELA Q+ + + L V V CIGG +V RE + L++ HIVVGTPGR+ D + Sbjct: 104 RELAQQIQKVVRALGDHMDVSVHACIGGTNVRREDQALLKDKPHIVVGTPGRVFDMLNRG 163 Query: 143 GLNISHLKAVVLDEADEMLDLGFRDDIEFILDSSPKKRRMLMFSATISPAITTLAKNYQK 202 L+ +K VLDEADEML GF+D I I P ++++ SAT+ + + K + + Sbjct: 164 SLSTDGIKMFVLDEADEMLSRGFKDQIYDIFQELPSDVQVVLLSATMPSDVLEVTKKFMR 223 Query: 203 DAVRVNIASENRQHSDIDYRAVLVALSDRDNAIVNILRYHGAKNAIVFCSTRASVSRFTK 262 + VR+ + + I + V ++ + + ++ Y A++FC+TR V T Sbjct: 224 EPVRILVKKDELTLEGIKQFYINVEKEEKLDTLCDL--YRRVTQAVIFCNTRRKVDNLTD 281 Query: 263 VLAEHLFQVVALSGELSQQERSNALQMMRDGRARVCIATDVAARGIDLPDLELVIHAELS 322 L H F V A+ G++ Q ER ++ R G +RV I TD+ ARGID+ + LV++ +L Sbjct: 282 KLRAHGFTVSAIHGDMEQNERDTLMREFRSGSSRVLITTDLLARGIDVQQVSLVVNYDLP 341 Query: 323 SNPENLLHRSGRTGRAGRKGMSVFVIPQNMQRRAERLFREANVSVVWEPA 372 + EN +HR GR GR GRKG+++ + + R + + + N + P+ Sbjct: 342 ARKENYIHRIGRAGRFGRKGVAINFVTEEDVRDLKDIEKFYNTPIEELPS 391 >gnl|CDD|35559 KOG0338, KOG0338, KOG0338, ATP-dependent RNA helicase [RNA processing and modification]. Length = 691 Score = 200 bits (510), Expect = 9e-52 Identities = 113/346 (32%), Positives = 176/346 (50%), Gaps = 11/346 (3%) Query: 6 NIPQVIGEALSERGYVNLTSVQEAILNPDLREKDVLVSAQTGSGKTVAFGLALASTLLAE 65 N+ + + +A S GY T +Q A + L KD+ A TGSGKT AF L + LL Sbjct: 187 NLSRPLLKACSTLGYKKPTPIQVATIPVALLGKDICACAATGSGKTAAFALPILERLL-- 244 Query: 66 NDRFSPASAPLA--LAIAPTRELAVQVGRELEWLYAKTGVVVAVCIGGVSVHRERRDLQN 123 + P L + PTRELA+QV + L T + V + +GG+ + + L++ Sbjct: 245 ---YRPKKVAATRVLVLVPTRELAIQVHSVTKQLAQFTDITVGLAVGGLDLKAQEAVLRS 301 Query: 124 GAHIVVGTPGRLCDHIRG-KGLNISHLKAVVLDEADEMLDLGFRDDIEFILDSSPKKRRM 182 IV+ TPGRL DH+R N+ ++ +VLDEAD ML+ GF D++ I+ PK R+ Sbjct: 302 RPDIVIATPGRLIDHLRNSPSFNLDSIEVLVLDEADRMLEEGFADEMNEIIRLCPKNRQT 361 Query: 183 LMFSATISPAITTLAKNYQKDAVRVNIASENRQHSDIDYRAVLVALS---DRDNAIVNIL 239 ++FSAT++ + LA VR+ + + + + DR+ + +++ Sbjct: 362 MLFSATMTEEVKDLASLSLNKPVRIFVDPNKDTAPKLTQEFIRIRPKREGDREAMLASLI 421 Query: 240 RYHGAKNAIVFCSTRASVSRFTKVLAEHLFQVVALSGELSQQERSNALQMMRDGRARVCI 299 IVF T+ R +L + L G L+Q++R +L+ + V I Sbjct: 422 TRTFQDRTIVFVRTKKQAHRLRILLGLLGLKAGELHGSLTQEQRLESLEKFKKEEIDVLI 481 Query: 300 ATDVAARGIDLPDLELVIHAELSSNPENLLHRSGRTGRAGRKGMSV 345 ATDVA+RG+D+ ++ VI+ + E+ LHR GRT RAGR G SV Sbjct: 482 ATDVASRGLDIEGVQTVINYAMPKTIEHYLHRVGRTARAGRAGRSV 527 >gnl|CDD|35556 KOG0335, KOG0335, KOG0335, ATP-dependent RNA helicase [RNA processing and modification]. Length = 482 Score = 200 bits (509), Expect = 1e-51 Identities = 112/377 (29%), Positives = 187/377 (49%), Gaps = 19/377 (5%) Query: 4 FENIPQVIGEALSERGYVNLTSVQEAILNPDLREKDVLVSAQTGSGKTVAFGLALASTLL 63 + + + + GY T VQ+ + +D++ AQTGSGKT AF + + S LL Sbjct: 78 EAILGEALAGNIKRSGYTKPTPVQKYSIPIISGGRDLMACAQTGSGKTAAFLIPIISYLL 137 Query: 64 AENDRFSPASA----PLALAIAPTRELAVQVGRELEWLYAKTGVVVAVCIGGVSVHRERR 119 E S P AL +APTREL Q+ E +G+ V GG + + R Sbjct: 138 DEGPEDRGESGGGVYPRALILAPTRELVDQIYNEARKFSYLSGMKSVVVYGGTDLGAQLR 197 Query: 120 DLQNGAHIVVGTPGRLCDHIRGKGLNISHLKAVVLDEADEMLD-LGFRDDIEFILDSSPK 178 ++ G I+V TPGRL D I +++ + K +VLDEAD MLD +GF I I++ Sbjct: 198 FIKRGCDILVATPGRLKDLIERGKISLDNCKFLVLDEADRMLDEMGFEPQIRKIVEQLGM 257 Query: 179 ----KRRMLMFSATISPAITTLAKNYQKDA-VRVNIASENRQHSDIDYRAVLVALSDRDN 233 R+ L+FSAT I LA ++ KD + + + +I + + V ++ + Sbjct: 258 PPKNNRQTLLFSATFPKEIQRLAADFLKDNYIFLAVGRVGSTSENITQKILFVNEMEKRS 317 Query: 234 AIVNILRYHGA---------KNAIVFCSTRASVSRFTKVLAEHLFQVVALSGELSQQERS 284 ++++L + +VF T+ L+ + + ++ G+ +Q ER Sbjct: 318 KLLDLLNKDDGPPSDGEPKWEKTLVFVETKRGADELAAFLSSNGYPAKSIHGDRTQIERE 377 Query: 285 NALQMMRDGRARVCIATDVAARGIDLPDLELVIHAELSSNPENLLHRSGRTGRAGRKGMS 344 AL R+G+A V +AT+VAARG+D+P+++ VI+ ++ ++ ++ +HR GRTGR G G + Sbjct: 378 QALNDFRNGKAPVLVATNVAARGLDIPNVKHVINYDMPADIDDYVHRIGRTGRVGNGGRA 437 Query: 345 VFVIPQNMQRRAERLFR 361 + Q A+ L Sbjct: 438 TSFFNEKNQNIAKALVE 454 >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 = 200 bits (510), Expect = 1e-51 Identities = 79/203 (38%), Positives = 112/203 (55%), Gaps = 4/203 (1%) Query: 6 NIPQVIGEALSERGYVNLTSVQEAILNPDLREKDVLVSAQTGSGKTVAFGLALASTLLAE 65 + + + G+ T +Q + P L +DV+ AQTGSGKT AF + + L Sbjct: 5 GLSPELLRGIYALGFEKPTPIQARAIPPLLSGRDVIGQAQTGSGKTAAFLIPILEKLDPS 64 Query: 66 NDRFSPASAPLALAIAPTRELAVQVGRELEWLYAKTGVVVAVCIGGVSVHRERRDLQNGA 125 P AL +APTRELA+Q+ L T + V V GG S+ ++ R L+ G Sbjct: 65 ----PKKDGPQALILAPTRELALQIAEVARKLGKHTNLKVVVIYGGTSIDKQIRKLKRGP 120 Query: 126 HIVVGTPGRLCDHIRGKGLNISHLKAVVLDEADEMLDLGFRDDIEFILDSSPKKRRMLMF 185 HIVV TPGRL D + L++S +K +VLDEAD MLD+GF D I IL PK R+ L+F Sbjct: 121 HIVVATPGRLLDLLERGKLDLSKVKYLVLDEADRMLDMGFEDQIREILKLLPKDRQTLLF 180 Query: 186 SATISPAITTLAKNYQKDAVRVN 208 SAT+ + LA+ + ++ VR+ Sbjct: 181 SATMPKEVRDLARKFLRNPVRIL 203 >gnl|CDD|35562 KOG0341, KOG0341, KOG0341, DEAD-box protein abstrakt [RNA processing and modification]. Length = 610 Score = 192 bits (490), Expect = 2e-49 Identities = 116/354 (32%), Positives = 181/354 (51%), Gaps = 13/354 (3%) Query: 8 PQVIGEALSERGYVNLTSVQEAILNPDLREKDVLVSAQTGSGKTVAFGLALASTLLAEND 67 P+ + L ++G V+ T +Q L L +D++ A TGSGKT+ F L + L + Sbjct: 178 PKPLLRGLKKKGIVHPTPIQVQGLPVVLSGRDMIGIAFTGSGKTLVFVLPVIMFALEQEM 237 Query: 68 R--FSPASAPLALAIAPTRELAVQVGRELEWLYAKTG------VVVAVCIGGVSVHRERR 119 F+ P L I P+RELA Q +E A + +CIGGV V + Sbjct: 238 MLPFARGEGPYGLIICPSRELARQTHDIIEQYVAALQEAGYPELRSLLCIGGVPVREQLD 297 Query: 120 DLQNGAHIVVGTPGRLCDHIRGKGLNISHLKAVVLDEADEMLDLGFRDDIEFILDSSPKK 179 ++ G HIVV TPGRL D + K +++ + + LDEAD M+D+GF DDI I + Sbjct: 298 VVRRGVHIVVATPGRLMDMLAKKIMSLDACRYLTLDEADRMIDMGFEDDIRTIFSFFKGQ 357 Query: 180 RRMLMFSATISPAITTLAKNYQKDAVRVNIASENRQHSDIDYRAVLVALSDRDNAIVNIL 239 R+ L+FSAT+ I AK+ V VN+ D+ V ++ IV +L Sbjct: 358 RQTLLFSATMPKKIQNFAKSALVKPVTVNVGRAGAASLDVIQEVEYVK---QEAKIVYLL 414 Query: 240 R--YHGAKNAIVFCSTRASVSRFTKVLAEHLFQVVALSGELSQQERSNALQMMRDGRARV 297 + ++F +A V + L + VA+ G Q++R A++ R G+ V Sbjct: 415 ECLQKTSPPVLIFAEKKADVDDIHEYLLLKGVEAVAIHGGKDQEDRHYAIEAFRAGKKDV 474 Query: 298 CIATDVAARGIDLPDLELVIHAELSSNPENLLHRSGRTGRAGRKGMSVFVIPQN 351 +ATDVA++G+D PD++ VI+ ++ EN +HR GRTGR+G+ G++ I +N Sbjct: 475 LVATDVASKGLDFPDIQHVINYDMPEEIENYVHRIGRTGRSGKTGIATTFINKN 528 >gnl|CDD|35569 KOG0348, KOG0348, KOG0348, ATP-dependent RNA helicase [RNA processing and modification]. Length = 708 Score = 190 bits (484), Expect = 9e-49 Identities = 124/401 (30%), Positives = 190/401 (47%), Gaps = 73/401 (18%) Query: 23 LTSVQEAILNPDLREKDVLVSAQTGSGKTVAFGLALASTLLAENDRFSPASAPLALAIAP 82 TSVQ+ + L +D LV AQTGSGKT+A+ L + +L A + + P AL I P Sbjct: 160 PTSVQKQAIPVLLEGRDALVRAQTGSGKTLAYLLPIVQSLQAMEPKIQRSDGPYALVIVP 219 Query: 83 TRELAVQVGRELEWLYAK-TGVVVAVCIGGVSVHRERRDLQNGAHIVVGTPGRLCDHIRG 141 TRELA+Q+ ++ L +V V +GG E+ L+ G +I++GTPGRL DH++ Sbjct: 220 TRELALQIYETVQKLLKPFHWIVPGVLMGGEKKKSEKARLRKGINILIGTPGRLVDHLKN 279 Query: 142 -KGLNISHLKAVVLDEADEMLDLGFRDDIEFIL-------------DSSPKKRRMLMFSA 187 K + S L+ +VLDEAD +L+LGF DI IL P + + ++ SA Sbjct: 280 TKSIKFSRLRWLVLDEADRLLELGFEKDITQILKAVHSIQNAECKDPKLPHQLQNMLLSA 339 Query: 188 TISPAITTLAKNYQKDAVRVNI-ASENRQHSDIDY------------------------- 221 T++ + LA KD V +++ S ++ + Sbjct: 340 TLTDGVNRLADLSLKDPVYISLDKSHSQLNPKDKAVQEVDDGPAGDKLDSFAIPEQLLQR 399 Query: 222 ------RAVLVALSDRDNAIVNILRYHGAKNAIVFCSTRASV----SRFTKVLAEHLFQ- 270 + LVAL+ ++N +++ + IVF S SV S F++ L HL Sbjct: 400 YTVVPPKLRLVALA---ALLLNKVKFEEKQKMIVFFSCSDSVEFHYSLFSEALLSHLEGS 456 Query: 271 -----------------VVALSGELSQQERSNALQMMRDGRARVCIATDVAARGIDLPDL 313 L G + Q+ER++ Q R V + TDVAARG+DLP + Sbjct: 457 SGAPDSEGLPPLFMDLKFYRLHGSMEQEERTSVFQEFSHSRRAVLLCTDVAARGLDLPHV 516 Query: 314 ELVIHAELSSNPENLLHRSGRTGRAGRKGMSV-FVIPQNMQ 353 LV+ + + + LHR GRT RAG KG ++ F++P + Sbjct: 517 GLVVQYDPPFSTADYLHRVGRTARAGEKGEALLFLLPSEAE 557 >gnl|CDD|35564 KOG0343, KOG0343, KOG0343, RNA Helicase [RNA processing and modification]. Length = 758 Score = 190 bits (483), Expect = 1e-48 Identities = 121/365 (33%), Positives = 194/365 (53%), Gaps = 13/365 (3%) Query: 4 FENIP--QVIGEALSERGYVNLTSVQEAILNPDLREKDVLVSAQTGSGKTVAFGLALAST 61 F ++P Q + L E +V +T +Q + L+ DVL +A+TGSGKT+AF + + Sbjct: 71 FADLPLSQKTLKGLKEAKFVKMTEIQRDTIPMALQGHDVLGAAKTGSGKTLAFLVPVLEA 130 Query: 62 LLAENDRFSPASAPLALAIAPTRELAVQVGRELEWLYAKTGVVVAVCIGGVSVHRERRDL 121 L ++SP AL I+PTRELA+Q L + + IGG V E + Sbjct: 131 LYRL--KWSPTDGLGALIISPTRELALQTFEVLNKVGKHHDFSAGLIIGGKDVKFELERI 188 Query: 122 QNGAHIVVGTPGRLCDHI-RGKGLNISHLKAVVLDEADEMLDLGFRDDIEFILDSSPKKR 180 + +I+V TPGRL H+ + S+L+ +VLDEAD MLD+GF+ + I+++ PKKR Sbjct: 189 -SQMNILVCTPGRLLQHMDENPNFSTSNLQMLVLDEADRMLDMGFKKTLNAIIENLPKKR 247 Query: 181 RMLMFSATISPAITTLAKNYQKDAVRVNIASENRQH--SDIDYRAVLVALSDRDNAIVNI 238 + L+FSAT + ++ LA+ KD V V++ S++ V+V L D+ + + + Sbjct: 248 QTLLFSATQTKSVKDLARLSLKDPVYVSVHENAVAATPSNLQQSYVIVPLEDKIDMLWSF 307 Query: 239 LRYHGAKNAIVFCSTRASVSRFTKVLAEHL---FQVVALSGELSQQERSNALQMMRDGRA 295 ++ H K +IVF S+ V +F L ++AL G +SQ++R + RA Sbjct: 308 IKSHLKKKSIVFLSSCKQV-KFLYEAFCRLRPGIPLLALHGTMSQKKRIEVYKKFVRKRA 366 Query: 296 RVCIATDVAARGIDLPDLELVIHAELSSNPENLLHRSGRTGRAGRKGMS-VFVIPQNMQR 354 V TDVAARG+D P ++ VI + + + +HR GRT R +G S + + P + Sbjct: 367 VVLFCTDVAARGLDFPAVDWVIQVDCPEDVDTYIHRVGRTARYKERGESLLMLTPSEEEA 426 Query: 355 RAERL 359 ++L Sbjct: 427 MLKKL 431 >gnl|CDD|35560 KOG0339, KOG0339, KOG0339, ATP-dependent RNA helicase [RNA processing and modification]. Length = 731 Score = 187 bits (477), Expect = 5e-48 Identities = 113/352 (32%), Positives = 176/352 (50%), Gaps = 5/352 (1%) Query: 13 EALSERGYVNLTSVQEAILNPDLREKDVLVSAQTGSGKTVAFGLALASTLLAENDRFSPA 72 A+ + Y T +Q L L +DV+ A+TGSGKT AF + ++ + + P Sbjct: 236 TAIRKSEYEKPTPIQCQALPTALSGRDVIGIAKTGSGKTAAFIWPMIVHIMDQPE-LKPG 294 Query: 73 SAPLALAIAPTRELAVQVGRELEWLYAKTGVVVAVCIGGVSVHRERRDLQNGAHIVVGTP 132 P+ + + PTRELA Q+ E + G+ V GG S + ++L+ GA IVV TP Sbjct: 295 EGPIGVILVPTRELASQIFSEAKKFGKAYGLRVVAVYGGGSKWEQSKELKEGAEIVVATP 354 Query: 133 GRLCDHIRGKGLNISHLKAVVLDEADEMLDLGFRDDIEFILDSSPKKRRMLMFSATISPA 192 GRL D ++ K N+S + +VLDEAD M D+GF + I R+ L+FSAT Sbjct: 355 GRLIDMVKMKATNLSRVSYLVLDEADRMFDMGFEPQVRSIKQHIRPDRQTLLFSATFKKK 414 Query: 193 ITTLAKNYQKDAVRVNIASENRQHSDIDYRAVLVALSDRDN---AIVNILRYHGAKNAIV 249 I LA++ D VRV + DI + V V S+ + +++ + ++ Sbjct: 415 IEKLARDILSDPVRVVQGEVGEANEDIT-QTVSVCPSEEKKLNWLLRHLVEFSSEGKVLI 473 Query: 250 FCSTRASVSRFTKVLAEHLFQVVALSGELSQQERSNALQMMRDGRARVCIATDVAARGID 309 F + +A L F V L G+ Q ER+ L + R V +ATDVAARG+D Sbjct: 474 FVTKKADAEEIAANLKLKGFNVSLLHGDKDQAERNEVLSKFKKKRKPVLVATDVAARGLD 533 Query: 310 LPDLELVIHAELSSNPENLLHRSGRTGRAGRKGMSVFVIPQNMQRRAERLFR 361 +P ++ V++ + + + + HR GRTGRAG KG++ ++ + A L Sbjct: 534 IPSIKTVVNYDFARDIDTHTHRIGRTGRAGEKGVAYTLVTEKDAEFAGHLVN 585 >gnl|CDD|35568 KOG0347, KOG0347, KOG0347, RNA helicase [RNA processing and modification]. Length = 731 Score = 187 bits (477), Expect = 6e-48 Identities = 125/419 (29%), Positives = 209/419 (49%), Gaps = 46/419 (10%) Query: 7 IPQVIGEALSERGYVNLTSVQEAILNPDLREK-DVLVSAQTGSGKTVAFGLALASTLLAE 65 +P I ALS G+ T +Q +L +R K D+L +A+TGSGKT+AFG+ + LL Sbjct: 188 LPMEILRALSNLGFSRPTEIQSLVLPAAIRGKVDILGAAETGSGKTLAFGIPIVERLLES 247 Query: 66 NDRFSPASA-------PLALAIAPTRELAVQVGRELEWLYAKTGVVVAVCIGGVSVHRER 118 +D S P+AL + PTRELA QV + L+ + KT + VA GG++V +++ Sbjct: 248 SDDSQELSNTSAKYVKPIALVVTPTRELAHQVKQHLKAIAEKTQIRVASITGGLAVQKQQ 307 Query: 119 RDLQNGAHIVVGTPGRLCDHIRGKGL---NISHLKAVVLDEADEMLDLG----FRDDIEF 171 R L IVV TPGRL + I N +K +VLDEAD M++ G ++ Sbjct: 308 RLLNQRPDIVVATPGRLWELIEEDNTHLGNFKKVKCLVLDEADRMVEKGHFEELSKLLKH 367 Query: 172 ILDSSPK-KRRMLMFSATISPAITT-LAKNYQKDAVR----------------------V 207 + + +R+ L+FSAT++ + L+ + +K + Sbjct: 368 LNEEQKNRQRQTLVFSATLTLVLQQPLSSSRKKKDKEDELNAKIQHLMKKIGFRGKPKII 427 Query: 208 NIASENRQHSDIDYRAVLVALSDRDNAIVNIL-RYHGAKNAIVFCSTRASVSRFTKVLAE 266 ++ ++ S + + ++D + L RY G +VFC++ V R T +L Sbjct: 428 DLTPQSATASTLTESLIECPPLEKDLYLYYFLTRYPG--RTLVFCNSIDCVKRLTVLLNN 485 Query: 267 HLFQVVALSGELSQQERSNALQMMRDGRARVCIATDVAARGIDLPDLELVIHAELSSNPE 326 + L + Q++R L+ + + V IATDVAARG+D+P ++ VIH ++ E Sbjct: 486 LDIPPLPLHASMIQKQRLKNLEKFKQSPSGVLIATDVAARGLDIPGVQHVIHYQVPRTSE 545 Query: 327 NLLHRSGRTGRAGRKGMSVFVI-PQNMQ---RRAERLFREANVSVVWEPAPSVEAIRER 381 +HRSGRT RA +G+SV + PQ + + + L ++ ++ + ++A++ER Sbjct: 546 IYVHRSGRTARANSEGVSVMLCGPQEVGPLKKLCKTLKKKEDLPIFPVETDIMDALKER 604 >gnl|CDD|35555 KOG0334, KOG0334, KOG0334, RNA helicase [RNA processing and modification]. Length = 997 Score = 185 bits (471), Expect = 3e-47 Identities = 109/358 (30%), Positives = 184/358 (51%), Gaps = 10/358 (2%) Query: 11 IGEALSERGYVNLTSVQEAILNPDLREKDVLVSAQTGSGKTVAFGLALASTLLAENDRFS 70 I E L + GY T +Q + + +DV+ A+TGSGKT+AF L + + + Sbjct: 376 ILETLKKLGYEKPTPIQAQAIPAIMSGRDVIGVAKTGSGKTLAFLLPMIRHIKDQR-PLE 434 Query: 71 PASAPLALAIAPTRELAVQVGRELEWLYAKTGVVVAVCIGGVSVHRERRDLQNGAHIVVG 130 P+AL +APTRELA+Q+ RE+ G+ V GG + ++ +L+ GA IVV Sbjct: 435 EGDGPIALILAPTRELAMQIHREVRKFLKLLGIRVVCVYGGSGISQQIAELKRGAEIVVC 494 Query: 131 TPGRLCDHI---RGKGLNISHLKAVVLDEADEMLDLGFRDDIEFILDSSPKKRRMLMFSA 187 TPGR+ D + G+ N+ + +VLDEAD M D+GF I IL + R+ ++FSA Sbjct: 495 TPGRMIDILCANSGRVTNLRRVTYLVLDEADRMFDMGFEPQITRILQNLRPDRQTVLFSA 554 Query: 188 TISPAITTLAKNYQKDAVRVNIASENRQHSDIDYRAVLVALSDRDNAIVNILR----YHG 243 T ++ LA+ K V + + + ++ + A + + +L + Sbjct: 555 TFPRSMEALARKVLKKPVEIIVGGRSVVCKEVTQVVRVCA--IENEKFLKLLELLGERYE 612 Query: 244 AKNAIVFCSTRASVSRFTKVLAEHLFQVVALSGELSQQERSNALQMMRDGRARVCIATDV 303 I+F + + L + + +L G + Q +RS+ ++ ++G + +AT V Sbjct: 613 DGKTIIFVDKQEKADALLRDLQKAGYNCDSLHGGVDQHDRSSTIEDFKNGVVNLLVATSV 672 Query: 304 AARGIDLPDLELVIHAELSSNPENLLHRSGRTGRAGRKGMSVFVIPQNMQRRAERLFR 361 ARG+D+ +L LV++ + ++ E+ +HR GRTGRAGRKG +V I + + A L + Sbjct: 673 VARGLDVKELILVVNYDFPNHYEDYVHRVGRTGRAGRKGAAVTFITPDQLKYAGDLCK 730 >gnl|CDD|35557 KOG0336, KOG0336, KOG0336, ATP-dependent RNA helicase [RNA processing and modification]. Length = 629 Score = 185 bits (470), Expect = 3e-47 Identities = 117/370 (31%), Positives = 188/370 (50%), Gaps = 9/370 (2%) Query: 4 FENIPQVIGEALSERGYVNLTSVQEAILNPDLREKDVLVSAQTGSGKTVAFGLALASTLL 63 F+ P+V+ + + G+ T +Q L+ D++ AQTG+GKT+AF L + Sbjct: 225 FQCYPEVMEN-IKKTGFQKPTPIQSQAWPILLQGIDLIGVAQTGTGKTLAFLLPGFIHID 283 Query: 64 AENDRFSPASAPLALAIAPTRELAVQVGRELEWLYAKTGVVVAVCI-GGVSVHRERRDLQ 122 A+ R + P L + PTRELA+Q+ E++ Y+ G+ +VC+ GG + + + DL+ Sbjct: 284 AQPKRREQRNGPGVLVLTPTRELALQIEGEVK-KYSYNGLK-SVCVYGGGNRNEQIEDLK 341 Query: 123 NGAHIVVGTPGRLCDHIRGKGLNISHLKAVVLDEADEMLDLGFRDDIEFILDSSPKKRRM 182 G I++ TPGRL D +N++ + +VLDEAD MLD+GF I IL R+ Sbjct: 342 RGVEIIIATPGRLNDLQMDNVINLASITYLVLDEADRMLDMGFEPQIRKILLDIRPDRQT 401 Query: 183 LMFSATISPAITTLAKNYQKDAVRVNIASENRQHSDIDYRAVLVALSDRDNAIVNILRYH 242 +M SAT + LA++Y K+ + V + S + + ++V IV + Sbjct: 402 VMTSATWPEGVRRLAQSYLKEPMIVYVGSLDLVAVKSVKQNIIVTTDSEKLEIVQFFVAN 461 Query: 243 GAKN--AIVFCSTRASVSRFTKVLAEHLFQVVALSGELSQQERSNALQMMRDGRARVCIA 300 + N I+F S + + +L G Q +R AL+ + G R+ +A Sbjct: 462 MSSNDKVIIFVSRKVMADHLSSDFCLKGISSQSLHGNREQSDREMALEDFKSGEVRILVA 521 Query: 301 TDVAARGIDLPDLELVIHAELSSNPENLLHRSGRTGRAGRKGMSVFVIPQNMQRRAERLF 360 TD+A+RG+D+PD+ V + + N E +HR GRTGRAGR G S+ + +N AE L Sbjct: 522 TDLASRGLDVPDITHVYNYDFPRNIEEYVHRVGRTGRAGRTGTSISFLTRNDWSMAEELI 581 Query: 361 R---EANVSV 367 + A V Sbjct: 582 QILERAEQEV 591 >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 = 180 bits (458), Expect = 1e-45 Identities = 79/173 (45%), Positives = 101/173 (58%), Gaps = 6/173 (3%) Query: 24 TSVQEAILNPDLREKDVLVSAQTGSGKTVAFGLALASTLLAENDRFSPASAPLALAIAPT 83 T +Q + L KDVLV A TGSGKT+AF L LL D P AL +APT Sbjct: 1 TPIQAEAIPAILEGKDVLVQAPTGSGKTLAFLLPALQALLKNPD------GPQALVLAPT 54 Query: 84 RELAVQVGRELEWLYAKTGVVVAVCIGGVSVHRERRDLQNGAHIVVGTPGRLCDHIRGKG 143 RELA Q+ EL+ L G+ VA+ GG S + R L+ G I+VGTPGRL D + G Sbjct: 55 RELAEQIYEELKKLGKYLGLKVALLYGGDSPKEQLRKLKKGPDILVGTPGRLLDLLERGG 114 Query: 144 LNISHLKAVVLDEADEMLDLGFRDDIEFILDSSPKKRRMLMFSATISPAITTL 196 L + +LK +VLDEA +LD GF DD+E IL P KR++L+ SAT+ + L Sbjct: 115 LLLKNLKLLVLDEAHRLLDQGFGDDLEEILRRLPPKRQILLLSATLPRNVEDL 167 >gnl|CDD|39485 KOG4284, KOG4284, KOG4284, DEAD box protein [Transcription]. Length = 980 Score = 174 bits (442), Expect = 6e-44 Identities = 100/348 (28%), Positives = 171/348 (49%), Gaps = 27/348 (7%) Query: 13 EALSERGYVNLTSVQEAILNPDLREKDVLVSAQTGSGKTVAFGLALASTLLAENDRFSPA 72 L + T +Q A + + D++V A++G+GKT+ F + +L + + Sbjct: 38 LGLRRNAFALPTKIQAAAIPAIFSKMDLIVQAKSGTGKTLVFSVLAVESLDSRS------ 91 Query: 73 SAPLALAIAPTRELAVQVGRELEWLYAK-TGVVVAVCIGGVSVHRERRDLQNGAHIVVGT 131 S + + PTRE+AVQ+ + + TG +V IGG + + L IV+GT Sbjct: 92 SHIQKVIVTPTREIAVQIKETVRKVAPSFTGARCSVFIGGTAHKLDLIRL-KQTRIVIGT 150 Query: 132 PGRLCDHIRGKGLNISHLKAVVLDEADEMLDLG-FRDDIEFILDSSPKKRRMLMFSATIS 190 PGR+ + +N+SH++ VLDEAD+++D F+DDI I++S P+ R++ FSAT Sbjct: 151 PGRIAQLVELGAMNMSHVRLFVLDEADKLMDTESFQDDINIIINSLPQIRQVAAFSATYP 210 Query: 191 PAITTLAKNYQKDAVRVNIASENRQHSDIDYRAVLVALSDRDNA-------------IVN 237 + L + +D V +++ Q I + +VA +N+ + Sbjct: 211 RNLDNLLSKFMRDPALVRFNADDVQLFGI--KQYVVAKCSPNNSVEEMRLKLQKLTHVFK 268 Query: 238 ILRYHGAKNAIVFCSTRASVSRFTKVLAEHLFQVVALSGELSQQERSNALQMMRDGRARV 297 + Y A+VFC + L V +SG +SQ++R A+ +R R R+ Sbjct: 269 SIPY---VQALVFCDQISRAEPIATHLKSSGLDVTFISGAMSQKDRLLAVDQLRAFRVRI 325 Query: 298 CIATDVAARGIDLPDLELVIHAELSSNPENLLHRSGRTGRAGRKGMSV 345 ++TD+ ARGID ++ LV++ + ++ E HR GR GR G G +V Sbjct: 326 LVSTDLTARGIDADNVNLVVNIDAPADEETYFHRIGRAGRFGAHGAAV 373 >gnl|CDD|35553 KOG0332, KOG0332, KOG0332, ATP-dependent RNA helicase [RNA processing and modification]. Length = 477 Score = 172 bits (437), Expect = 2e-43 Identities = 106/359 (29%), Positives = 183/359 (50%), Gaps = 26/359 (7%) Query: 2 KIFENI---PQVIGEALSERGYVNLTSVQEAILNPDLRE--KDVLVSAQTGSGKTVAFGL 56 K FE + P+++ + L + + +QE L L E ++++ +Q+G+GKT AF L Sbjct: 90 KSFEELRLKPELL-KGLYAMKFQKPSKIQETALPLLLAEPPQNLIAQSQSGTGKTAAFVL 148 Query: 57 ALASTLLAENDRFSPASAPLALAIAPTRELAVQVGRELEWLYAKTGVVVAVCIGGVSVHR 116 + S + + P + +APTRELA Q G +E + T + + I G R Sbjct: 149 TMLSRVDPDV------VVPQCICLAPTRELAPQTGEVVEEMGKFTELTASYAIRGSKAKR 202 Query: 117 ERRDLQNGAHIVVGTPGRLCDHI-RGKGLNISHLKAVVLDEADEMLDL-GFRDDIEFILD 174 + IV+GTPG + D + + K +++ +K VLDEAD M+D GF+D I+ Sbjct: 203 GN---KLTEQIVIGTPGTVLDLMLKLKCIDLEKIKVFVLDEADVMIDTQGFQDQSIRIMR 259 Query: 175 SSPKKRRMLMFSATISPAITTLAKNYQKDAVRVNIASENRQHSDIDYRAVLVALSDRD-- 232 S P+ +++L+FSAT + A +A + + E D + ++ D Sbjct: 260 SLPRNQQLLLFSATFVEKVAAFALKIVPNANVIILKREE-LALDNIKQLYVLCACRDDKY 318 Query: 233 NAIVNILRYHGAKNAIVFCSTRASVSRFTKVLAEHLFQVVALSGELSQQERSNALQMMRD 292 A+VN+ +I+FC T+A+ + + QV L G+L+ ++R+ + R+ Sbjct: 319 QALVNLYGLLTIGQSIIFCHTKATAMWLYEEMRAEGHQVSLLHGDLTVEQRAAIIDRFRE 378 Query: 293 GRARVCIATDVAARGIDLPDLELVIHAEL------SSNPENLLHRSGRTGRAGRKGMSV 345 G+ +V I T+V ARGID+ + +V++ +L + E LHR GRTGR G+KG+++ Sbjct: 379 GKEKVLITTNVCARGIDVAQVSVVVNYDLPVKYTGEPDYETYLHRIGRTGRFGKKGLAI 437 >gnl|CDD|35547 KOG0326, KOG0326, KOG0326, ATP-dependent RNA helicase [RNA processing and modification]. Length = 459 Score = 165 bits (420), Expect = 2e-41 Identities = 91/332 (27%), Positives = 167/332 (50%), Gaps = 7/332 (2%) Query: 17 ERGYVNLTSVQEAILNPDLREKDVLVSAQTGSGKTVAFGLALASTLLAENDRFSPASAPL 76 E+G+ + +QE + L +D+L A+ G+GKT A+ + + + + + Sbjct: 102 EKGFEKPSPIQEESIPIALTGRDILARAKNGTGKTAAYCIPVLEKIDPKKNVIQ------ 155 Query: 77 ALAIAPTRELAVQVGRELEWLYAKTGVVVAVCIGGVSVHRERRDLQNGAHIVVGTPGRLC 136 A+ + PTRELA+Q + + L G+ V V GG S+ + L H+VVGTPGR+ Sbjct: 156 AIILVPTRELALQTSQVCKELSKHLGIKVMVTTGGTSLRDDIMRLNQTVHLVVGTPGRIL 215 Query: 137 DHIRGKGLNISHLKAVVLDEADEMLDLGFRDDIEFILDSSPKKRRMLMFSATISPAITTL 196 D + ++S +V+DEAD++L + F+ +E ++ PK+R++L++SAT + Sbjct: 216 DLAKKGVADLSDCVILVMDEADKLLSVDFQPIVEKLISFLPKERQILLYSATFPLTVKGF 275 Query: 197 AKNYQKDAVRVNIASENRQHSDIDYRAVLVALSDRDNAIVNILRYHGAKNAIVFCSTRAS 256 + K +N+ E Y A V + + + + +I+FC++ Sbjct: 276 MDRHLKKPYEINLMEELTLKGVTQYYA-FVEERQKVHCLNTLFSKLQINQSIIFCNSTNR 334 Query: 257 VSRFTKVLAEHLFQVVALSGELSQQERSNALQMMRDGRARVCIATDVAARGIDLPDLELV 316 V K + E + + +++Q+ R+ R+G+ R + TD+ RGID+ + +V Sbjct: 335 VELLAKKITELGYSCYYIHAKMAQEHRNRVFHDFRNGKCRNLVCTDLFTRGIDIQAVNVV 394 Query: 317 IHAELSSNPENLLHRSGRTGRAGRKGMSVFVI 348 I+ + N E LHR GR+GR G G+++ +I Sbjct: 395 INFDFPKNAETYLHRIGRSGRFGHLGLAINLI 426 >gnl|CDD|35571 KOG0350, KOG0350, KOG0350, DEAD-box ATP-dependent RNA helicase [RNA processing and modification]. Length = 620 Score = 161 bits (409), Expect = 4e-40 Identities = 108/411 (26%), Positives = 184/411 (44%), Gaps = 62/411 (15%) Query: 11 IGEALSERGYVNLTSVQEAILN---------PDLREKDVLVSAQTGSGKTVAFGLALAST 61 I + L + L VQ A+L P R +D+ V+A TGSGKT+A+ + + Sbjct: 148 IDQLLVKMAISRLFPVQYAVLPSLLEEIRSPPPSRPRDICVNAPTGSGKTLAYVIPIVQL 207 Query: 62 LLAENDRFSPASAPLALAIAPTRELAVQVGRELEWLYAKTGVVVAVCIGGVSVHRERRDL 121 L + P A+ I PTRELA+QV + L + TG+ V G S+ E R L Sbjct: 208 LSSR-----PVKRLRAVVIVPTRELALQVYDTFKRLNSGTGLAVCSLSGQNSLEDEARQL 262 Query: 122 QN-----GAHIVVGTPGRLCDHIRG-KGLNISHLKAVVLDEADEMLDLGFRD-------- 167 + I+V TPGRL DH+ K ++ HL+ +V+DEAD +LD F++ Sbjct: 263 ASDPPECRIDILVATPGRLVDHLNNTKSFDLKHLRFLVIDEADRLLDQSFQEWLDTVMSL 322 Query: 168 --------------------------DIEFILDSSPKKRRMLMFSATISPAITTLAK--- 198 ++ L L+FSAT+S + L Sbjct: 323 CKTMKRVACLDNIIRQRQAPQPTVLSELLTKLGKLYPPLWKLVFSATLSQDPSKLKDLTL 382 Query: 199 -NYQKDAVRVNIASENRQHSDIDYRAVLVALSDRDNAIVNILRYHGAKNAIVFCSTRASV 257 + V + S + +R V+ + A+ ++ + + F ++ +S Sbjct: 383 HIPRLFHVSKPLIGRYSLPSSLSHRLVVTEPKFKPLAVYALITSNKLNRTLCFVNSVSSA 442 Query: 258 SRFTKVLAEHL----FQVVALSGELSQQERSNALQMMRDGRARVCIATDVAARGIDLPDL 313 +R VL F+V +G+L+ + R L+ G V I +D ARGID+ D+ Sbjct: 443 NRLAHVLKVEFCSDNFKVSEFTGQLNGKRRYKMLEKFAKGDINVLICSDALARGIDVNDV 502 Query: 314 ELVIHAELSSNPENLLHRSGRTGRAGRKGMSVFVIPQNMQRRAERLFREAN 364 + VI+ + ++ + +HR+GRT RAG+ G ++ ++ ++ +R +L ++ N Sbjct: 503 DNVINYDPPASDKTYVHRAGRTARAGQDGYAITLLDKHEKRLFSKLLKKTN 553 >gnl|CDD|35567 KOG0346, KOG0346, KOG0346, RNA helicase [RNA processing and modification]. Length = 569 Score = 141 bits (357), Expect = 4e-34 Identities = 95/394 (24%), Positives = 166/394 (42%), Gaps = 43/394 (10%) Query: 2 KIFE--NIPQVIGEALSERGYVNLTSVQEAILNPDLREKDVLVSAQTGSGKTVAFGLALA 59 K FE + + +A+++ G+ T +Q + + L KDV+ A+TGSGKT A+ + L Sbjct: 19 KTFEEFGLDSRLLKAITKLGWEKPTLIQSSAIPLALEGKDVVARARTGSGKTAAYLIPLL 78 Query: 60 STLLAENDRFSPASAPLALAIAPTRELAVQVGRELEWLYAKTGVVVAVC--IGGVSVHRE 117 LLAE P A+ + PT+ELA QV + +E L + +S Sbjct: 79 QKLLAEKKTNDGEQGPSAVILVPTKELAQQVYKVIEKLVEYCSKDLRAINLASSMSDSVN 138 Query: 118 RRDLQNGAHIVVGTPGRLCDHIR-GKGLNISHLKAVVLDEADEMLDLGFRDDIEFILDSS 176 L + IVV TP +L H+ G + L +V+DEAD +L G+ +D++ + Sbjct: 139 SVALMDLPDIVVATPAKLLRHLAAGVLEYLDSLSFLVVDEADLLLSFGYEEDLKKLRSHL 198 Query: 177 PKKRRMLMFSATISPAITTLAKNYQKDAVRVNIASENRQHSD-IDYRAVLVALSDRDNAI 235 P+ + + SAT+S + L K + + V + + + D + V + D+ + Sbjct: 199 PRIYQCFLMSATLSDDVQALKKLFLHNPVILKLTEGELPNPDQLTQYQVKCSEEDKFLLL 258 Query: 236 VNILRYHGAK-NAIVFCSTRASVSRFTKVLAEHLFQVVALSGELSQQERSNALQMMRDGR 294 +L+ + +++F +T R L + + L+ EL R + ++ G Sbjct: 259 YALLKLRLIRGKSLIFVNTIDRCYRLKLFLEQFGIKSCILNSELPANSRCHIIEQFNKGL 318 Query: 295 ARVCIATDV-----------------------------------AARGIDLPDLELVIHA 319 + IATD +RGID + V++ Sbjct: 319 YDIVIATDDSADGDKLEEEVKGKSDEKNPKNDKKSKKKLDKESGVSRGIDFHHVSNVLNF 378 Query: 320 ELSSNPENLLHRSGRTGRAGRKGMSV-FVIPQNM 352 + + +HR GRT R KG ++ FV P+ Sbjct: 379 DFPETVTSYIHRVGRTARGNNKGTALSFVSPKEE 412 >gnl|CDD|35558 KOG0337, KOG0337, KOG0337, ATP-dependent RNA helicase [RNA processing and modification]. Length = 529 Score = 141 bits (357), Expect = 5e-34 Identities = 99/330 (30%), Positives = 170/330 (51%), Gaps = 6/330 (1%) Query: 14 ALSERGYVNLTSVQEAILNPDLREKDVLVSAQTGSGKTVAFGLALASTLLAENDRFSPAS 73 A+ ++G+ T +Q + L +DV+ A+TGSGKT AF + + L + + + Sbjct: 35 AIHKKGFNTPTPIQRKTIPLILEGRDVVGMARTGSGKTAAFLIPMIEKLKSHSQ-----T 89 Query: 74 APLALAIAPTRELAVQVGRELEWLYAKTGVVVAVCIGGVSVHRERRDLQNGAHIVVGTPG 133 AL ++PTRELA+Q + ++ L T + ++ +GG S+ + L I++ TPG Sbjct: 90 GLRALILSPTRELALQTLKVVKDLGRGTKLRQSLLVGGDSIEEQFILLNENPDIIIATPG 149 Query: 134 RLCDHIRGKGLNISHLKAVVLDEADEMLDLGFRDDIEFILDSSPKKRRMLMFSATISPAI 193 RL L +S ++ VV DEAD + ++GF++ + IL P+ R+ L+FSAT+ + Sbjct: 150 RLLHLGVEMTLTLSSVEYVVFDEADRLFEMGFQEQLHEILSRLPESRQTLLFSATLPRDL 209 Query: 194 TTLAKNYQKDAVRVNIASENRQHSDIDYRAVLVALSDRDNAIVNILRYH-GAKNAIVFCS 252 AK V V + E + + R V ++++ A+++IL K IVF + Sbjct: 210 VDFAKAGLVPPVLVRLDVETKISELLKVRFFRVRKAEKEAALLSILGGRIKDKQTIVFVA 269 Query: 253 TRASVSRFTKVLAEHLFQVVALSGELSQQERSNALQMMRDGRARVCIATDVAARGIDLPD 312 T+ V +L + + + L Q+ R + R + + + TDVAARG+D+P Sbjct: 270 TKHHVEYVRGLLRDFGGEGSDIYSSLDQEARKINGRDFRGRKTSILVVTDVAARGLDIPL 329 Query: 313 LELVIHAELSSNPENLLHRSGRTGRAGRKG 342 L+ VI+ + + + +HR GR RAGR G Sbjct: 330 LDNVINYDFPPDDKLFVHRVGRVARAGRTG 359 >gnl|CDD|35550 KOG0329, KOG0329, KOG0329, ATP-dependent RNA helicase [RNA processing and modification]. Length = 387 Score = 132 bits (334), Expect = 2e-31 Identities = 92/335 (27%), Positives = 158/335 (47%), Gaps = 44/335 (13%) Query: 14 ALSERGYVNLTSVQEAILNPDLREKDVLVSAQTGSGKTVAFGLALASTLLAENDRFSPAS 73 A+ + G+ + + VQ + + DVL A++G GKT F LA + + + S Sbjct: 56 AIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQIEPVDGQVS--- 112 Query: 74 APLALAIAPTRELAVQVGRELEWLYAK--TGVVVAVCIGGVSVHRERRDLQNGAHIVVGT 131 L + TRELA Q+ +E E ++K V V+V GG+ + ++ L+N HIVVGT Sbjct: 113 ---VLVMCHTRELAFQISKEYE-RFSKYMPSVKVSVFFGGLFIKKDEELLKNCPHIVVGT 168 Query: 132 PGRLCDHIRGKGLNISHLKAVVLDEADEML-DLGFRDDIEFILDSSPKKRRMLMFSATIS 190 PGR+ +R + LN+ ++K VLDE D+ML L R D++ I +P +++++MFSAT+S Sbjct: 169 PGRILALVRNRSLNLKNVKHFVLDECDKMLEQLDMRRDVQEIFRMTPHEKQVMMFSATLS 228 Query: 191 PAITTLAKNYQKDAVRVNIASENRQHSDIDYRAVLVALSDRDNAIVNILRYHGAKNAIVF 250 I + + +D + + + E + L HG + V Sbjct: 229 KEIRPVCHKFMQDPMEIFVDDEAK------------------------LTLHGLQQYYVK 264 Query: 251 CSTRASVSRFTKVLAEHLFQVVALSGELSQQERSNALQMMRDGRARVCIATDVAARGIDL 310 + +L F V + + Q R + +ATD+ RG+D+ Sbjct: 265 LKENEKNRKLNDLLDVLEFNQVVIFVKSVQ----------RLSFQKRLVATDLFGRGMDI 314 Query: 311 PDLELVIHAELSSNPENLLHRSGRTGRAGRKGMSV 345 + +V + ++ + + LHR R GR G KG+++ Sbjct: 315 ERVNIVFNYDMPEDSDTYLHRVARAGRFGTKGLAI 349 >gnl|CDD|35565 KOG0344, KOG0344, KOG0344, ATP-dependent RNA helicase [RNA processing and modification]. Length = 593 Score = 120 bits (303), Expect = 8e-28 Identities = 97/350 (27%), Positives = 165/350 (47%), Gaps = 17/350 (4%) Query: 8 PQVIGEALSERGYVNLTSVQEAILNPDLREKDVLVSAQTGSGKTVAFGLALASTLLAEND 67 +++ L E G+ T +Q+ + L ++DVL A TGSGKT+AF L + L + Sbjct: 145 KRLLEN-LQELGFDEPTPIQKQAIPVFLEKRDVLACAPTGSGKTLAFNLPILQHLKDLSQ 203 Query: 68 RFSPASAPLALAIAPTRELAVQVGRELEWLYAKTGVVV-AVCIGGVSVHRERRDLQNGAH 126 AL ++PTRELA Q+ RE+ G + A + ++ + Sbjct: 204 EKHK-VGLRALILSPTRELAAQIYREMRKYSIDEGTSLRAAQFSKPAYPSQKPAFLSDEK 262 Query: 127 --IVVGTPGRLCDHIRGKGLNI--SHLKAVVLDEADEMLD-LGFRDDIEFILD--SSPKK 179 I++ TP R+ + LNI S ++ +V+DEAD + + F + + I SP Sbjct: 263 YDILISTPMRIVGLLGLGKLNIDLSKVEWLVVDEADLLFEPEFFVEQLADIYSACQSPDI 322 Query: 180 RRMLMFSATISPAITTLAKNYQKDAVRVNIASENRQHSDIDYRAVLVALSD-RDNAIVNI 238 R +FSATIS + A+ + D RV + N + +D V + A+ + Sbjct: 323 RVA-LFSATISVYVEEWAELIKSDLKRVIVGLRNSANETVDQELVFCGSEKGKLLALRQL 381 Query: 239 LRYHGAKNAIVFCSTRASVSRFTKVLAEHLFQVVALS---GELSQQERSNALQMMRDGRA 295 + ++F ++ + + L ++ + + GE SQ++R ++ R G+ Sbjct: 382 VASGFKPPVLIFVQSKERAKQLFEELE--IYDNINVDVIHGERSQKQRDETMERFRIGKI 439 Query: 296 RVCIATDVAARGIDLPDLELVIHAELSSNPENLLHRSGRTGRAGRKGMSV 345 V I TD+ ARGID + LVI+ + + + +HR GRTGRAGR G ++ Sbjct: 440 WVLICTDLLARGIDFKGVNLVINYDFPQSDLSYIHRIGRTGRAGRSGKAI 489 >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 = 119 bits (300), Expect = 2e-27 Identities = 60/152 (39%), Positives = 83/152 (54%), Gaps = 8/152 (5%) Query: 38 KDVLVSAQTGSGKTVAFGLALASTLLAENDRFSPASAPLALAIAPTRELAVQVGRELEWL 97 +DVL++A TGSGKT+A L + L + L +APTRELA QV L+ L Sbjct: 1 RDVLLAAPTGSGKTLAALLPILELLDSLKG-------GQVLVLAPTRELANQVAERLKEL 53 Query: 98 YAKTGVVVAVCIGGVSVHRERRDLQNGAHIVVGTPGRLCDHIRGKGLNISHLKAVVLDEA 157 G+ V IGG S+ ++ + L IVVGTPGRL D + L++ L ++LDEA Sbjct: 54 -FGEGIKVGYLIGGTSIKQQEKLLSGKTDIVVGTPGRLLDELERLKLSLKKLDLLILDEA 112 Query: 158 DEMLDLGFRDDIEFILDSSPKKRRMLMFSATI 189 +L+ GF IL PK R++L+ SAT Sbjct: 113 HRLLNQGFGLLGLKILLKLPKDRQVLLLSATP 144 >gnl|CDD|35570 KOG0349, KOG0349, KOG0349, Putative DEAD-box RNA helicase DDX1 [RNA processing and modification]. Length = 725 Score = 118 bits (296), Expect = 5e-27 Identities = 88/337 (26%), Positives = 146/337 (43%), Gaps = 53/337 (15%) Query: 64 AENDRFSPASAPLALAIAPTRELAVQV---GRELEWLYAKTGVVVAVCIGGVSVHRERRD 120 A + + +P +AP A+ + P+RELA Q E + + V + IGGV + + Sbjct: 277 APSAKPAP-NAPEAVIVEPSRELAEQTHNQIEEFKMHTSNPEVRSLLMIGGVLKRTQCKQ 335 Query: 121 LQNGAHIVVGTPGRLCDHIRGKGLNISHLKAVVLDEADEMLDLGFRDDIEFILDSSPK-- 178 L++G HIVVGTPGRL I + ++H + +VLDEAD +L G+ D I P Sbjct: 336 LKDGTHIVVGTPGRLLQPISKGLVTLTHCRFLVLDEADLLLGQGYDDKIYRFHGQIPHMT 395 Query: 179 ----KRRMLMFSATISP-AITTLAKNYQKDAVRVNIASENRQHSDIDYRAVLVALS---- 229 + + + SAT+ + + + V++ E+ + + LV S Sbjct: 396 SDGFRLQSPVCSATLHIFEVKKVGERVMHFPTWVDLKGEDLVPETVHHVVKLVCPSVDGS 455 Query: 230 --------------DRDNAI---------------------VNILRYHGAKNAIVFCSTR 254 +DN + V +R H AI+FC T+ Sbjct: 456 WCDLRQFIETDKVHTKDNLLPGQVSPENPSSATKILKGEYGVVAIRRHAMDKAIIFCRTK 515 Query: 255 ASVSRFTKVLAE---HLFQVVALSGELSQQERSNALQMMRDGRARVCIATDVAARGIDLP 311 +++ + + V L G+ ER L+ + + I TDVAARG+D+ Sbjct: 516 QDCDNLERMMNQKGGKHYSCVCLHGDRKPDERKANLESFKKFDVKFLICTDVAARGLDIT 575 Query: 312 DLELVIHAELSSNPENLLHRSGRTGRAGRKGMSVFVI 348 L +I+ L + N +HR GR GRA R G+++ ++ Sbjct: 576 GLPFMINVTLPDDKTNYVHRIGRVGRAERMGLAISLV 612 Score = 33.5 bits (76), Expect = 0.15 Identities = 20/48 (41%), Positives = 27/48 (56%) Query: 11 IGEALSERGYVNLTSVQEAILNPDLREKDVLVSAQTGSGKTVAFGLAL 58 +G A E + T VQ + L DVL++A+TGSGKT AF L + Sbjct: 13 LGMATDELDWTLPTDVQAEAIPLILGGGDVLMAAETGSGKTGAFCLPI 60 >gnl|CDD|31394 COG1201, Lhr, Lhr-like helicases [General function prediction only]. Length = 814 Score = 111 bits (278), Expect = 6e-25 Identities = 82/370 (22%), Positives = 155/370 (41%), Gaps = 29/370 (7%) Query: 1 MKIFENIPQVIGEALSERGYVNLTSVQEAILNPDLREKDVLVSAQTGSGKTVAFGLALAS 60 +IF + + E + + +LT Q + ++VL+ A TGSGKT A L + + Sbjct: 2 EEIFNILDPRVREWFKRK-FTSLTPPQRYAIPEIHSGENVLIIAPTGSGKTEAAFLPVIN 60 Query: 61 TLLAENDRFSPASAPLALAIAPTRELAVQVGRELEWLYAKTGVVVAVCIGGVSVHRERRD 120 LL + AL I+P + L + R LE + G+ VAV G +++ Sbjct: 61 ELL-SLGKGKLEDGIYALYISPLKALNNDIRRRLEEPLRELGIEVAVRHGDTPQSEKQKM 119 Query: 121 LQNGAHIVVGTPGRLCDHIRGKGL--NISHLKAVVLDEADEM--------LDLGFRDDIE 170 L+N HI++ TP L + + ++ V++DE + L L +E Sbjct: 120 LKNPPHILITTPESLAILLNSPKFRELLRDVRYVIVDEIHALAESKRGVQLALS----LE 175 Query: 171 FILDSSPKKRRMLMFSATISPAITTLAKNYQKDAVRVNIASEN-RQHSDIDYRAVLVALS 229 + + + +R+ + SAT+ P +AK I + + +I + + L Sbjct: 176 RLRELAGDFQRIGL-SATVGP-PEEVAKFLVGFGDPCEIVDVSAAKKLEIKVISPVEDLI 233 Query: 230 D-------RDNAIVNILRYHGAKNAIVFCSTRASVSRFTKVLAEHLFQVVAL-SGELSQQ 281 I +++ H + ++F +TR+ R L + ++ + G LS++ Sbjct: 234 YDEELWAALYERIAELVKKH--RTTLIFTNTRSGAERLAFRLKKLGPDIIEVHHGSLSRE 291 Query: 282 ERSNALQMMRDGRARVCIATDVAARGIDLPDLELVIHAELSSNPENLLHRSGRTGRAGRK 341 R + +++G + +AT GID+ D++LVI + L R GR G + Sbjct: 292 LRLEVEERLKEGELKAVVATSSLELGIDIGDIDLVIQLGSPKSVNRFLQRIGRAGHRLGE 351 Query: 342 GMSVFVIPQN 351 +I ++ Sbjct: 352 VSKGIIIAED 361 >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 = 104 bits (261), Expect = 7e-23 Identities = 47/132 (35%), Positives = 78/132 (59%), Gaps = 3/132 (2%) Query: 218 DIDYRAVLVALSDRDNAIVNILRYHGAKN--AIVFCSTRASVSRFTKVLAEHLFQVVALS 275 I VL ++ A++ +L+ H K ++FC ++ + ++L + +V AL Sbjct: 1 PIKQY-VLPVEDEKLEALLELLKEHLKKGGKVLIFCPSKKMLDELAELLRKPGIKVAALH 59 Query: 276 GELSQQERSNALQMMRDGRARVCIATDVAARGIDLPDLELVIHAELSSNPENLLHRSGRT 335 G+ SQ+ER L+ R+G V +ATDV ARGIDLP++ +VI+ +L +P + L R GR Sbjct: 60 GDGSQEEREEVLKDFREGEIVVLVATDVIARGIDLPNVSVVINYDLPWSPSSYLQRIGRA 119 Query: 336 GRAGRKGMSVFV 347 GRAG+KG ++ + Sbjct: 120 GRAGQKGTAILL 131 >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 = 86.8 bits (216), Expect = 1e-17 Identities = 38/78 (48%), Positives = 54/78 (69%) Query: 262 KVLAEHLFQVVALSGELSQQERSNALQMMRDGRARVCIATDVAARGIDLPDLELVIHAEL 321 K+L + +V L G LSQ+ER L+ R+G+++V +ATDVA RGIDLPD+ +VI+ +L Sbjct: 1 KLLRKPGIKVARLHGGLSQEEREEILEDFRNGKSKVLVATDVAGRGIDLPDVNVVINYDL 60 Query: 322 SSNPENLLHRSGRTGRAG 339 NP + + R GR GRAG Sbjct: 61 PWNPASYIQRIGRAGRAG 78 >gnl|CDD|30860 COG0514, RecQ, Superfamily II DNA helicase [DNA replication, recombination, and repair]. Length = 590 Score = 79.6 bits (196), Expect = 2e-15 Identities = 78/334 (23%), Positives = 131/334 (39%), Gaps = 31/334 (9%) Query: 19 GYVNLTSVQEAILNPDLREKDVLVSAQTGSGKTVAFGLALASTLLAENDRFSPASAPLAL 78 GY + Q+ I++ L KD LV TG GK++ + + LL E L L Sbjct: 14 GYASFRPGQQEIIDALLSGKDTLVVMPTGGGKSLCYQIP---ALLLEG---------LTL 61 Query: 79 AIAPTREL-AVQVGRELEWLYAKTGVVVAVCIGGVSVHRERRDLQNGAH-----IVVGTP 132 ++P L QV + G+ A + ER+ + N ++ +P Sbjct: 62 VVSPLISLMKDQVDQLEA-----AGIRAA-YLNSTLSREERQQVLNQLKSGQLKLLYISP 115 Query: 133 GRLCDHIRGKGLNISHLKAVVLDEADEMLDLG--FRDDIEFILDSSPKKRR--MLMFSAT 188 RL + L + V +DEA + G FR D + +L +AT Sbjct: 116 ERLMSPRFLELLKRLPISLVAIDEAHCISQWGHDFRPDYRRLGRLRAGLPNPPVLALTAT 175 Query: 189 ISPAIT-TLAKNYQKDAVRVNIASENRQHSDIDYRAVLVALSDRDNAIVNILRYHGAKNA 247 +P + + + + S +R ++ + V A + + +K+ Sbjct: 176 ATPRVRDDIREQLGLQDANIFRGSFDR--PNLALKVVEKGEPSDQLAFLATVLPQLSKSG 233 Query: 248 IVFCSTRASVSRFTKVLAEHLFQVVALSGELSQQERSNALQMMRDGRARVCIATDVAARG 307 I++C TR V + L ++ A LS +ER Q + +V +AT+ G Sbjct: 234 IIYCLTRKKVEELAEWLRKNGISAGAYHAGLSNEERERVQQAFLNDEIKVMVATNAFGMG 293 Query: 308 IDLPDLELVIHAELSSNPENLLHRSGRTGRAGRK 341 ID PD+ VIH +L + E+ +GR GR G Sbjct: 294 IDKPDVRFVIHYDLPGSIESYYQETGRAGRDGLP 327 >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 = 75.8 bits (186), Expect = 3e-14 Identities = 83/378 (21%), Positives = 134/378 (35%), Gaps = 48/378 (12%) Query: 7 IPQVIGEALSERGYVNLTSVQEAILNPDLREKDVLVSAQTGSGKTVAFGLALASTLLAEN 66 + + AL + G L S Q L ++V+V+ TGSGKT +F L + LL + Sbjct: 55 RDESLKSALVKAGIERLYSHQVDALRLIREGRNVVVTTGTGSGKTESFLLPILDHLLRDP 114 Query: 67 DRFSPASAPLALAIAPTRELAV-QVGRELEWLYAKTGVVVAVCIGGVSVHRERRDLQ-NG 124 AL + PT LA Q R E + G V G + ERR + N Sbjct: 115 SA-------RALLLYPTNALANDQAERLRELISDLPGKVTFGRYTGDTPPEERRAIIRNP 167 Query: 125 AHIVVGTPGRLCDHIRGKGLN----ISHLKAVVLDEA--------DEMLDLGFRDDIEFI 172 I++ P L + + +LK +V+DE E+ L R + Sbjct: 168 PDILLTNPDMLHYLLLRNHDAWLWLLRNLKYLVVDELHTYRGVQGSEVALLLRR--LLRR 225 Query: 173 LDSSPKKRRMLMFSATISPAITTLAKNYQKDAVRVNI------------ASENRQHSDID 220 L +++ SAT++ A+ V + ++ Sbjct: 226 LRRYGSPLQIICTSATLA-NPGEFAEELFGRDFEVPVDEDGSPRGLRYFVRREPPIRELA 284 Query: 221 YRAVLVALSDRDNAIVNILRYHGAKNAIVFCSTRASVSRFTKVL-------AEHLFQVVA 273 AL++ ++R +G + +VF +R V L V+ Sbjct: 285 ESIRRSALAELATLAALLVR-NGIQT-LVFFRSRKQVELLYLSPRRRLVREGGKLLDAVS 342 Query: 274 L-SGELSQQERSNALQMMRDGRARVCIATDVAARGIDLPDLELVIHAELSSNPENLLHRS 332 L ++ER ++G IAT+ GID+ L+ VI + Sbjct: 343 TYRAGLHREERRRIEAEFKEGELLGVIATNALELGIDIGSLDAVIAYGYPGVSVLSFRQ- 401 Query: 333 GRTGRAGRKGMSVFVIPQ 350 R GRAGR+G V+ Sbjct: 402 -RAGRAGRRGQESLVLVV 418 >gnl|CDD|31261 COG1061, SSL2, DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]. Length = 442 Score = 68.6 bits (167), Expect = 5e-12 Identities = 63/369 (17%), Positives = 112/369 (30%), Gaps = 74/369 (20%) Query: 28 EAILNPDLREKDVLVSAQTGSGKTVAFGLALASTLLAENDRFSPASAPLALAIAPTRELA 87 +A++ E+ ++ TG+GKTV + L L + PT+EL Sbjct: 46 DALVKNRRTERRGVIVLPTGAGKTV-VAAEAIAELKRS-----------TLVLVPTKELL 93 Query: 88 VQVGRELEWLYAKTGVVVAVCIGGVSVHRERRDLQNGAHIVVGTPGRLCDHIRGKGLNIS 147 Q L + + I G A + V T L + Sbjct: 94 DQWAEAL---KKFLLLNDEIGIYGGGEKELE-----PAKVTVATVQTLARRQLLDEFLGN 145 Query: 148 HLKAVVLDEADEMLDLGFRDDIEFILDSSPKKRRMLMFSAT---------------ISPA 192 ++ DE + +R IL+ L +AT I P Sbjct: 146 EFGLIIFDEVHHLPAPSYRR----ILELLSAAYPRLGLTATPEREDGGRIGDLFDLIGPI 201 Query: 193 I-------------------------------TTLAKNYQKDAVRVNIASENRQHSDIDY 221 + AK + + R ++ Sbjct: 202 VYEVSLKELIDEGYLAPYKYVEIKVTLTEDEEREYAKESARFRELLRARGTLRAENEA-- 259 Query: 222 RAVLVALSDRDNAIVNILRYHG-AKNAIVFCSTRASVSRFTKVLAEHLFQVVALSGELSQ 280 R + +A + A+ +L H ++F S K+ V A++GE + Sbjct: 260 RRIAIASERKIAAVRGLLLKHARGDKTLIFASDVEHAYEIAKLFLAPGI-VEAITGETPK 318 Query: 281 QERSNALQMMRDGRARVCIATDVAARGIDLPDLELVIHAELSSNPENLLHRSGRTGRAGR 340 +ER L+ R G +V + V G+D+PD +++I + + + R GR R Sbjct: 319 EEREAILERFRTGGIKVLVTVKVLDEGVDIPDADVLIILRPTGSRRLFIQRLGRGLRPAE 378 Query: 341 KGMSVFVIP 349 + Sbjct: 379 GKEDTLALD 387 >gnl|CDD|146487 pfam03880, DbpA, DbpA RNA binding domain. This RNA binding domain is found at the C-terminus of a number of DEAD helicase proteins. It is sufficient to confer specificity for hairpin 92 of 23S rRNA, which is part of the ribosomal A-site. However, several members of this family lack specificity for 23S rRNA. These can proteins can generally be distinguished by a basic region that extends beyond this domain [Karl Kossen, unpublished data]. Length = 74 Score = 65.9 bits (162), Expect = 3e-11 Identities = 14/53 (26%), Positives = 22/53 (41%) Query: 467 SWFSLSVGSKQKAEARWLMPMLCRSSGINRQSIGAIRVQPDLTFVEVSADGVD 519 ++VG K ++ + GI IG I + + +FVEV D D Sbjct: 1 VRLFINVGRKDGIRPGDIVGAIANEGGITGDDIGKIDIFDNFSFVEVPEDMAD 53 >gnl|CDD|35575 KOG0354, KOG0354, KOG0354, DEAD-box like helicase [General function prediction only]. Length = 746 Score = 66.1 bits (161), Expect = 3e-11 Identities = 40/123 (32%), Positives = 57/123 (46%), Gaps = 13/123 (10%) Query: 247 AIVFCSTRASVSRFTKVLAE-HLFQVVA--LSGE--------LSQQERSNALQMMRDGRA 295 I+F TR S K L + H + A G+ ++Q+E+ L RDG Sbjct: 416 TIIFVETRESALALKKWLLQLHELGIKAEIFIGQGKSTQSTGMTQKEQKEVLDKFRDGEI 475 Query: 296 RVCIATDVAARGIDLPDLELVIHAELSSNPENLLHRSGRTGRAGRKGMSVFVIPQNMQRR 355 V +AT VA G+D+ + LVI + SSNP ++ R GR GRA R V + + Sbjct: 476 NVLVATSVAEEGLDIGECNLVICYDYSSNPIRMVQRRGR-GRA-RNSKCVLLTTGSEVIE 533 Query: 356 AER 358 ER Sbjct: 534 FER 536 Score = 31.8 bits (72), Expect = 0.57 Identities = 35/168 (20%), Positives = 66/168 (39%), Gaps = 12/168 (7%) Query: 23 LTSVQEAILNPDLREKDVLVSAQTGSGKTVAFGLALASTLLAENDRFSPASAPLALAIAP 82 L + QE ++ P L K+ +++ TGSGKT A+ ++ + + P + +AP Sbjct: 63 LRNYQEELVQPALG-KNTIIALPTGSGKTFI-----AAVIMKNHFEWRPKGK--VVFLAP 114 Query: 83 TRELAVQVGRELEWLYAKTGVVVAVCIGGVSVHRERRDLQNGAHIVVGTPGRLCDHI-RG 141 TR L Q V +G R ++ + TP L + + G Sbjct: 115 TRPLVNQQIACFSIYLIPYSVTGQ--LGDTVPRSNRGEIVASKRVFFRTPQILENDLKSG 172 Query: 142 KGLNISHLKAVVLDEADEML-DLGFRDDIEFILDSSPKKRRMLMFSAT 188 +S +V DE + + + + LD + ++L +A+ Sbjct: 173 LHDELSDFSLIVFDECHRTSKNHPYNNIMREYLDLKNQGNQILGLTAS 220 >gnl|CDD|31397 COG1204, COG1204, Superfamily II helicase [General function prediction only]. Length = 766 Score = 65.8 bits (160), Expect = 3e-11 Identities = 78/375 (20%), Positives = 131/375 (34%), Gaps = 70/375 (18%) Query: 25 SVQEAILNPDLREKDVLVSAQTGSGKTVAFGLALASTLLAENDRFSPASAPLALAIAPTR 84 QEA+ L +++VL+SA TGSGKT+ LA+ STLL + + I P + Sbjct: 35 PQQEAVEKGLLSDENVLISAPTGSGKTLIALLAILSTLLEGGGK--------VVYIVPLK 86 Query: 85 ELAVQVGRELEWLYAKTGVVVAVCIGGVSVHRERRDLQNGAHIVVGTPGRLCDHIRGKGL 144 LA + E L G+ V + G + ER ++V TP +L R + Sbjct: 87 ALAEEKYEEFSRLEEL-GIRVGISTGDYDLDDERLA---RYDVIVTTPEKLDSLTRKRPS 142 Query: 145 NISHLKAVVLDEADEMLDLGFRDD-IEFILDSSPKKR---RMLMFSATISPAITTLAK-- 198 I + VV+DE +L R +E I+ + R++ SAT+ P +A Sbjct: 143 WIEEVDLVVIDEI-HLLGDRTRGPVLESIVARMRRLNELIRIVGLSATL-PNAEEVADWL 200 Query: 199 --NYQKDAVRVNIASE---NRQHSDIDYRAVLVALSDRDNAIVNILRYHGAKN--AIVFC 251 + R DN + ++ A+ +VF Sbjct: 201 NAKLVESDWRPVPLRRGVPYVGAFLGADGKKKTWPLLIDNLALELVLESLAEGGQVLVFV 260 Query: 252 STRASVSRFTKVLAEHLF----------------QVVALSGE------------------ 277 +R + K L + ++ Sbjct: 261 HSRKEAEKTAKKLRIKMSATLSDDEKIVLDEGASPILIPETPTSEDEELAELVLRGVAFH 320 Query: 278 ---LSQQERSNALQMMRDGRARVCIATDVAARGIDLPDLELVIHAELSSNPENLLHRSGR 334 L +++R R G+ +V ++T A G++LP ++I +P+ + Sbjct: 321 HAGLPREDRQLVEDAFRKGKIKVLVSTPTLAAGVNLPARTVIIKDTRRYDPKGGIVDIPV 380 Query: 335 ------TGRAGRKGM 343 GRAGR G Sbjct: 381 LDVLQMAGRAGRPGY 395 >gnl|CDD|35572 KOG0351, KOG0351, KOG0351, ATP-dependent DNA helicase [Replication, recombination and repair]. Length = 941 Score = 59.7 bits (144), Expect = 2e-09 Identities = 76/343 (22%), Positives = 122/343 (35%), Gaps = 43/343 (12%) Query: 19 GYVNLTSVQEAILNPDLREKDVLVSAQTGSGKTVAFGLALASTLLAENDRFSPA--SAPL 76 G+ Q +N L KD V TG GK++ + L PA + Sbjct: 261 GHKGFRPNQLEAINATLSGKDCFVLMPTGGGKSLCYQL--------------PALLLGGV 306 Query: 77 ALAIAPTRELAVQVGRELEWLYAKTGVVVAVCIGGVSVHRER----RDLQNGA---HIVV 129 + I+P L L +K G+ A + + ER + L NG I+ Sbjct: 307 TVVISPLISLMQDQVTHL----SKKGIP-ACFLSSIQTAAERLAILQKLANGNPIIKILY 361 Query: 130 GTPGRLCDHIR----GKGLNISHLKA-VVLDEADEMLDLG--FRDD---IEFILDSSPKK 179 TP ++ L L A V+DEA + G FR + + P Sbjct: 362 VTPEKVVASEGLLESLADLYARGLLALFVIDEAHCVSQWGHDFRPSYKRLGLLRIRFPG- 420 Query: 180 RRMLMFSATISPAITT-LAKNYQKDAVRVNIASENRQHSDIDYRAVLVALSDRDNAIV-N 237 + +AT + + + ++ + +S NR ++ Y D I+ Sbjct: 421 VPFIALTATATERVREDVIRSLGLRNPELFKSSFNR--PNLKYEVSPKTDKDALLDILEE 478 Query: 238 ILRYHGAKNAIVFCSTRASVSRFTKVLAEHLFQVVALSGELSQQERSNALQMMRDGRARV 297 H ++ I++C +R + + VL L +ER + + RV Sbjct: 479 SKLRHPDQSGIIYCLSRKECEQVSAVLRSLGKSAAFYHAGLPPKERETVQKAWMSDKIRV 538 Query: 298 CIATDVAARGIDLPDLELVIHAELSSNPENLLHRSGRTGRAGR 340 +AT GID PD+ VIH L + E +GR GR G Sbjct: 539 IVATVAFGMGIDKPDVRFVIHYSLPKSFEGYYQEAGRAGRDGL 581 >gnl|CDD|31395 COG1202, COG1202, Superfamily II helicase, archaea-specific [General function prediction only]. Length = 830 Score = 58.0 bits (140), Expect = 6e-09 Identities = 74/357 (20%), Positives = 126/357 (35%), Gaps = 40/357 (11%) Query: 6 NIPQVIGEALSERGYVNLTSVQE-AILNPDLREKDVLVSAQTGSGKTVAFGLALASTLLA 64 +IP+ L G L VQ A+ L +++LV + T SGKT+ LA LL+ Sbjct: 200 DIPEKFKRMLKREGIEELLPVQVLAVEAGLLEGENLLVVSATASGKTLIGELAGIPRLLS 259 Query: 65 ENDRFSPASAPLALAIAPTRELAVQVGRELEWLYAKTGVVVAVCIG----GVSVHRERRD 120 + L + P LA Q + + Y+K G+ VA+ +G D Sbjct: 260 GGKKM--------LFLVPLVALANQKYEDFKERYSKLGLKVAIRVGMSRIKTREEPVVVD 311 Query: 121 LQNGAHIVVGTPGRLCDHIRGKGLNISHLKAVVLDEADEMLDL--GFRDDIEFILDSSPK 178 A I+VGT + D++ G ++ + VV+DE + D G R LD Sbjct: 312 TSPDADIIVGTYEGI-DYLLRTGKDLGDIGTVVIDEIHTLEDEERGPR------LDGLIG 364 Query: 179 KRRMLMFSATISPAITTLAKNYQ-KDAVRVNIASENRQHSDIDYRAVLVAL-SDRDNAIV 236 + R L A T+ + + + + + ++ V S++ + I Sbjct: 365 RLRYLFPGAQFIYLSATVGNPEELAKKLGAKLVLYDERPVPLERHLVFARNESEKWDIIA 424 Query: 237 NILR----------YHGAKNAIVFCSTRASVSRFTKVLAEHLFQVVALSGELSQQERSNA 286 +++ Y G IVF +R L + L +ER + Sbjct: 425 RLVKREFSTESSKGYRG--QTIVFTYSRRRCHELADALTGKGLKAAPYHAGLPYKERKSV 482 Query: 287 LQMMRDGRARVCIATDVAARGIDLPDLELVIHAELSSN----PENLLHRSGRTGRAG 339 + + T A G+D P +++ + GR GR Sbjct: 483 ERAFAAQELAAVVTTAALAAGVDFPASQVIFESLAMGIEWLSVREFQQMLGRAGRPD 539 >gnl|CDD|31308 COG1111, MPH1, ERCC4-like helicases [DNA replication, recombination, and repair]. Length = 542 Score = 57.2 bits (138), Expect = 1e-08 Identities = 33/124 (26%), Positives = 52/124 (41%), Gaps = 10/124 (8%) Query: 237 NILRYHGAKNAIVFCSTRASVSRFTKVLAEHLFQVVAL---------SGELSQQERSNAL 287 L +G IVF R + L + + +SQ+E+ + Sbjct: 359 EQLEKNGDSRVIVFTEYRDTAEEIVNFLKKIGIKARVRFIGQASREGDKGMSQKEQKEII 418 Query: 288 QMMRDGRARVCIATDVAARGIDLPDLELVIHAELSSNPENLLHRSGRTGRAGRKGMSVFV 347 R G V +AT V G+D+P+++LVI E + + R GRTGR RKG V + Sbjct: 419 DQFRKGEYNVLVATSVGEEGLDIPEVDLVIFYEPVPSEIRSIQRKGRTGR-KRKGRVVVL 477 Query: 348 IPQN 351 + + Sbjct: 478 VTEG 481 Score = 37.9 bits (88), Expect = 0.008 Identities = 27/122 (22%), Positives = 47/122 (38%), Gaps = 9/122 (7%) Query: 36 REKDVLVSAQTGSGKTVAFGLALASTLLAENDRFSPASAPLALAIAPTRELAVQVGRELE 95 K+ LV TG GKT + + L L +APT+ L +Q Sbjct: 28 LFKNTLVVLPTGLGKT-FIAAMVIANRLRWFGGK-------VLFLAPTKPLVLQHAEFCR 79 Query: 96 WLYAKTGVVVAVCIGGVSVHRERRDLQNGAHIVVGTPGRLCDHIRGKGLNISHLKAVVLD 155 + +A G V ER +L + V TP + + ++ +++ + ++ D Sbjct: 80 KVTGIPEDEIAALTGEVRP-EEREELWAKKKVFVATPQVVENDLKAGRIDLDDVSLLIFD 138 Query: 156 EA 157 EA Sbjct: 139 EA 140 >gnl|CDD|31396 COG1203, COG1203, Predicted helicases [General function prediction only]. Length = 733 Score = 55.9 bits (134), Expect = 3e-08 Identities = 67/355 (18%), Positives = 122/355 (34%), Gaps = 38/355 (10%) Query: 17 ERGYVNLTSVQEAILNPDLREKDVLVSAQTGSGKTVAFGLALASTLLAENDRFSPASAPL 76 GY E IL + R V++ A TG GKT A L LA LL E + Sbjct: 194 HEGYELQEKALELILRLEKRSLLVVLEAPTGYGKTEAS-LILALALLDEKIK----LKSR 248 Query: 77 ALAIAPTRELAVQVGRELEWLYAKTGVVVAVCIGGVSVHR-----------ERRDLQNGA 125 + + P R + + R + V+ + S + Sbjct: 249 VIYVLPFRTIIEDMYRRAK-EIFGLFSVIGKSLHSSSKEPLLLEPDQDILLTLTTNDSYK 307 Query: 126 HIVVGTPGRLCDHIRGKGLNISHLKA--------VVLDEADEMLDLGFRDDIEFILDSSP 177 +++ I + + V+LDE D + +L++ Sbjct: 308 KLLLALIVVTPIQILIFSVKGFKFEFLALLLTSLVILDEVHLYADETMLAALLALLEALA 367 Query: 178 KKR-RMLMFSATISPAITTLAKN-YQKDAVRVNIAS----ENRQHSDIDYRAVLVALSDR 231 + +L+ SAT+ P + K K V A E+ R + Sbjct: 368 EAGVPVLLMSATLPPFLKEKLKKALGKGREVVENAKFCPKEDEPGLKRKERVDVEDGPQE 427 Query: 232 DNAIVNILRYHGAKNAIVFCSTRASVSRFTKVLAEHLFQVVALSGELSQQERSNALQMMR 291 + + K +V +T + L E +V+ L + ++R + ++ Sbjct: 428 ELIELISEEVKEGKKVLVIVNTVDRAIELYEKLKEKGPKVLLLHSRFTLKDREEKERELK 487 Query: 292 D----GRARVCIATDVAARGIDLPDLELVIHAELSSNPENLLHRSGRTGRAGRKG 342 + +AT V G+D+ D +++I EL+ ++L+ R+GR R G+K Sbjct: 488 KLFKQNEGFIVVATQVIEAGVDI-DFDVLI-TELAP-IDSLIQRAGRVNRHGKKE 539 >gnl|CDD|35574 KOG0353, KOG0353, KOG0353, ATP-dependent DNA helicase [General function prediction only]. Length = 695 Score = 55.2 bits (132), Expect = 5e-08 Identities = 73/323 (22%), Positives = 123/323 (38%), Gaps = 27/323 (8%) Query: 26 VQEAILNPDLREKDVLVSAQTGSGKTVAFGL-ALASTLLAENDRFSPASAPLALAIAPTR 84 +Q A +N + +D + TG GK++ + L AL + D F+ PL + Sbjct: 98 LQLAAINATMAGEDAFLILPTGGGKSLCYQLPALCA------DGFALVICPLISLMEDQI 151 Query: 85 ELAVQVGRELEWLYAKTGVVVAVCIGGVSVHRERRDLQNGAHIVVGTPGRLCDHIR---- 140 Q+G + L A + A V + + ++ TP ++ + Sbjct: 152 LQLKQLGIDASMLNANSSKEEAK-----RVEAAITNKDSEFKLIYVTPEKIAKSKKFMNK 206 Query: 141 -GKGLNISHLKAVVLDEADEMLDLG--FRDDIEF--ILDSSPKKRRMLMFSATISPAITT 195 K L K + +DE G FR D + IL K ++ +AT + + Sbjct: 207 LEKALEAGFFKLIAIDEVHCCSQWGHDFRPDYKALGILKRQFKGAPIIGLTATATNHVLD 266 Query: 196 LAKNYQK-DAVRVNIASENRQHSDIDYRAVLVALSDRD---NAIVNILRYHGAKNAIVFC 251 AK+ +A A NR ++ Y ++ D + I ++ I++C Sbjct: 267 DAKDILCIEAAFTFRAGFNR--PNLKYEVRQKPGNEDDCIEDIAKLIKGDFAGQSGIIYC 324 Query: 252 STRASVSRFTKVLAEHLFQVVALSGELSQQERSNALQMMRDGRARVCIATDVAARGIDLP 311 ++ + K L H A L +++S A Q G +V +AT GID P Sbjct: 325 FSQKDCEKVAKALKNHGIHAGAYHANLEPEDKSGAHQGWIAGEIQVIVATVAFGMGIDKP 384 Query: 312 DLELVIHAELSSNPENLLHRSGR 334 D+ VIH L + EN S R Sbjct: 385 DVRFVIHHSLPKSIENYYQASAR 407 >gnl|CDD|35573 KOG0352, KOG0352, KOG0352, ATP-dependent DNA helicase [Replication, recombination and repair]. Length = 641 Score = 50.9 bits (121), Expect = 1e-06 Identities = 28/95 (29%), Positives = 41/95 (43%) Query: 247 AIVFCSTRASVSRFTKVLAEHLFQVVALSGELSQQERSNALQMMRDGRARVCIATDVAAR 306 IV+C TR + +L +A L ++ER+ + + V AT Sbjct: 258 GIVYCRTRNECEQVAIMLEIAGIPAMAYHAGLKKKERTEVQEKWMNNEIPVIAATVSFGM 317 Query: 307 GIDLPDLELVIHAELSSNPENLLHRSGRTGRAGRK 341 G+D PD+ VIH S N SGR GR G++ Sbjct: 318 GVDKPDVRFVIHWSPSQNLAGYYQESGRAGRDGKR 352 >gnl|CDD|31829 COG1643, HrpA, HrpA-like helicases [DNA replication, recombination, and repair]. Length = 845 Score = 50.3 bits (120), Expect = 1e-06 Identities = 85/331 (25%), Positives = 133/331 (40%), Gaps = 50/331 (15%) Query: 40 VLVSAQTGSGKTVAFGLALASTLLAENDRFSPASAPLALAIAPTRELAVQVGRELEWLYA 99 V++ +TGSGKT L L + + P LA R +A +V EL Sbjct: 68 VIIVGETGSGKTTQLPQFLLEEGLGIAGKIG-CTQPRRLA---ARSVAERVAEELG---E 120 Query: 100 KTGVVVAVCIGGVSVHRERRDLQNGAHIVVGTPGRLCDHIRGKGLNISHLKAVVLDEADE 159 K G V I S R I V T G L I+ L +S V++DEA E Sbjct: 121 KLGETVGYSIRFESKVSPR------TRIKVMTDGILLREIQNDPL-LSGYSVVIIDEAHE 173 Query: 160 MLDLGFRDDIE--FILDSSPKKR---RMLMFSATISPAITTLAKNYQKDAVRVNIASENR 214 DI + D ++R ++++ SAT+ Y +A + I E R Sbjct: 174 RS---LNTDILLGLLKDLLARRRDDLKLIIMSATLDAERF---SAYFGNAPVIEI--EGR 225 Query: 215 QHS-DIDYRAVLVA---LSDRDNAIVNILRYHGAKNAIVFCSTRASVSRFTKVLAEH--- 267 + +I Y A L D A V+I G+ + +VF + + R + L + Sbjct: 226 TYPVEIRYLPEAEADYILLDAIVAAVDIHLREGSGSILVFLPGQREIERTAEWLEKAELG 285 Query: 268 -LFQVVALSGELSQQERSNALQMMRDGRARVCIATDVAARGIDLPDLELVIHAELSS--- 323 +++ L G LS +E+ + G+ +V +AT++A + +P + VI + L+ Sbjct: 286 DDLEILPLYGALSAEEQVRVFEPAPGGKRKVVLATNIAETSLTIPGIRYVIDSGLAKEKR 345 Query: 324 -NPENLLHR-----------SGRTGRAGRKG 342 +P L R R GRAGR G Sbjct: 346 YDPRTGLTRLETEPISKASADQRAGRAGRTG 376 >gnl|CDD|31393 COG1200, RecG, RecG-like helicase [DNA replication, recombination, and repair / Transcription]. Length = 677 Score = 46.4 bits (110), Expect = 2e-05 Identities = 73/348 (20%), Positives = 125/348 (35%), Gaps = 88/348 (25%) Query: 41 LVSAQTGSGKTVAFGLALASTLLAENDRFSPASAPLALAIAPTRELAVQVGRELEWLYAK 100 L+ GSGKTV +AL + L A A AL +APT LA Q L Sbjct: 287 LLQGDVGSGKTV---VALLAMLAA-----IEAGYQAAL-MAPTEILAEQHYESLRKWLEP 337 Query: 101 TGVVVAVCIGGVSVHRERRDLQNG-----AHIVVGTPGRLCDHIRGKGLNISHLKAVVLD 155 G+ VA+ G + + R+++ IVVGT + D + L + V++D Sbjct: 338 LGIRVALLTGSLKG-KARKEILEQLASGEIDIVVGTHALIQDKVEFHNLGL-----VIID 391 Query: 156 E---------------ADEM--------------LDLGFRDDIEF-ILDSSPKKRRMLMF 185 E ++ L L D++ I+D P R+ Sbjct: 392 EQHRFGVHQRLALREKGEQNPHVLVMTATPIPRTLALTAFGDLDVSIIDELPPGRK---- 447 Query: 186 SATISPAITTLAKNYQKDAVRVNIASENRQHSDIDYRAVLVALSDRDNAIVNILRYHGAK 245 P T + + ++ V I E + L+ S++ + Sbjct: 448 -----PITTVVIPHERRPEVYERIREEIAKGRQAYVVCPLIEESEKLE----------LQ 492 Query: 246 NAIVFCSTRASVSRFTKVLAEHLFQVVALSGELSQQERSNALQMMRDGRARVCIATDVAA 305 A L E +V + G + E+ ++ ++G + +AT V Sbjct: 493 AAEELY------EELKSFLPE--LKVGLVHGRMKPAEKDAVMEAFKEGEIDILVATTVIE 544 Query: 306 RGIDLPDLELVI--HAE---LSSNPENLLHR-SGRTGRAGRKGMSVFV 347 G+D+P+ +++ +AE L+ LH+ GR GR + V + Sbjct: 545 VGVDVPNATVMVIENAERFGLAQ-----LHQLRGRVGRGDLQSYCVLL 587 >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 = 43.0 bits (101), Expect = 2e-04 Identities = 60/332 (18%), Positives = 126/332 (37%), Gaps = 46/332 (13%) Query: 23 LTSVQEAILNPDLRE----KDVLVSAQTGSGKTVAFGLALASTLLAENDRFSPASAPLAL 78 L+ Q+ N ++ +D LV A TG+GKT + L + R AS Sbjct: 98 LSPGQKKASNQLVQYIKQKEDTLVWAVTGAGKTEMIFQGIEQAL-NQGGRVCIAS----- 151 Query: 79 AIAPTRELAVQVGRELEWLYAKTGVVVAVCIGGVSVHRERRDLQNGAHIVVGTPGRLCDH 138 P ++ +++ L+ ++ + + ++ + A +VV T +L Sbjct: 152 ---PRVDVCLELYPRLKQAFSNCDIDL--------LYGDSDSYFR-APLVVATTHQL--- 196 Query: 139 IRGKGLNISHLKAVVLDEADEMLDLGFRDD--IEFILDSSPKKRRMLMFSATISPAITTL 196 +R K +++DE D F DD +++ + + KK ++ T +P Sbjct: 197 LRFK----QAFDLLIIDEVDA---FPFSDDQSLQYAVKKARKKEGATIY-LTATPTKKLE 248 Query: 197 AKNYQKDAVRVNIASENRQHSDIDYRAVLVALSDR-------DNAIVNILRYH--GAKNA 247 K + + + + + + V + ++ + L + Sbjct: 249 RKILKGNLRILKLPARFHGKPLPVPKFVWIGNWNKKLQRNKLPLKLKRWLEKQRKTGRPV 308 Query: 248 IVFCSTRASVSRFTKVLAEHLFQVVALSGELSQQERSNALQMMRDGRARVCIATDVAARG 307 ++F ++ + L + L + S Q R ++ RDG+ + I T + RG Sbjct: 309 LIFFPEIETMEQVAAALKKKLPKETIASVHSEDQHRKEKVEAFRDGKITLLITTTILERG 368 Query: 308 IDLPDLEL-VIHAELSS-NPENLLHRSGRTGR 337 + P++++ V+ AE L+ +GR GR Sbjct: 369 VTFPNVDVFVLGAEHRVFTESALVQIAGRVGR 400 >gnl|CDD|36169 KOG0951, KOG0951, KOG0951, RNA helicase BRR2, DEAD-box superfamily [RNA processing and modification]. Length = 1674 Score = 42.3 bits (99), Expect = 4e-04 Identities = 80/411 (19%), Positives = 145/411 (35%), Gaps = 77/411 (18%) Query: 18 RGYVNLTSVQEAILNPDLREKD-VLVSAQTGSGKT-VAFGLALASTLLAENDRFSPASAP 75 G +L +Q + + LR + +L+ A TG+GKT VA L + S AP Sbjct: 305 FGKQSLNRIQSKVYDAALRGDENMLLCAPTGAGKTNVAVLTILQELGNHLREDGSVNLAP 364 Query: 76 LALA-IAPTRELAVQVGRELEWLYAKTGVVVAVCIGGVSVHRERRDLQNGAHIVVGTPGR 134 + IAP + L ++ A G+ V G + +E+ + ++V TP + Sbjct: 365 FKIVYIAPMKALVQEMVGSFSKRLAPLGITVLELTGDSQLGKEQIE---ETQVIVTTPEK 421 Query: 135 LCDHIRGKGLNISHLKAVVLDEADEMLDLGFRDDIEFILDSSPKKRRMLMFSATISPAIT 194 D I K + ++ + V L DE+ L DD +L+S + S + Sbjct: 422 W-DIITRKSGDRAYEQLVRLLIIDEIHLLH--DDRGPVLESIVARTFRRSESTEEGSRLV 478 Query: 195 TLAK---NYQKDAVRVNIASENRQHSDIDYR---------AVLVALSDRDNAIVN----- 237 L+ NY+ A + + E + D YR + + +N Sbjct: 479 GLSATLPNYEDVASFLRVDPEGLFYFDSSYRPVPLKQQYIGITEKKPLKRFQAMNEACYE 538 Query: 238 -ILRYHGAKNAIVF-----------------CSTRASVSRFTK-------VLAEHLFQVV 272 +L + G +VF ++SRF + +L Q Sbjct: 539 KVLEHAGKNQVLVFVHSRKETAKTARAIRDKALEEDTLSRFMREDSASREILRTEAGQAK 598 Query: 273 ALS-------------GELSQQERSNALQMMRDGRARVCIATDVAARGIDLPDLELVIHA 319 L++++R + DG +V ++T A G++LP ++I Sbjct: 599 NPDLKDLLPYGFAIHHAGLNRKDRELVEDLFADGHIQVLVSTATLAWGVNLPAHTVIIKG 658 Query: 320 ELSSNPE----------NLLHRSGRTGRAGRKGMSVFVIPQNMQRRAERLF 360 +PE +++ GR GR +I + +E + Sbjct: 659 TQVYDPEKGRWTELSPLDVMQMLGRAGRPQYDTCGEGIIITD---HSELQY 706 >gnl|CDD|34219 COG4581, COG4581, Superfamily II RNA helicase [DNA replication, recombination, and repair]. Length = 1041 Score = 41.9 bits (98), Expect = 4e-04 Identities = 43/165 (26%), Positives = 68/165 (41%), Gaps = 19/165 (11%) Query: 27 QEAILNPDLREKDVLVSAQTGSGKTVAFGLALASTLLAENDRFSPASAPLALAIAPTREL 86 QEAI + R + VLV A T SGKTV A+A L +P + L Sbjct: 125 QEAIAILE-RGESVLVCAPTSSGKTVVAEYAIALALRDGQRVI---------YTSPIKAL 174 Query: 87 AVQVGRELEWLYAKTGVVVAVCIGGVSVHRERRDLQNGAHIVVGTPGRLCDHIRGKGLNI 146 + Q R+L + +V + G VS++ A +V T L + + ++ Sbjct: 175 SNQKYRDLLAKFGDVADMVGLMTGDVSIN-------PDAPCLVMTTEILRNMLYRGSESL 227 Query: 147 SHLKAVVLDEADEMLDLGFRDDI-EFILDSSPKKRRMLMFSATIS 190 ++ VV DE + D R + E ++ P R + SAT+ Sbjct: 228 RDIEWVVFDEVHYIGD-RERGVVWEEVIILLPDHVRFVFLSATVP 271 >gnl|CDD|39353 KOG4150, KOG4150, KOG4150, Predicted ATP-dependent RNA helicase [RNA processing and modification]. Length = 1034 Score = 39.7 bits (92), Expect = 0.002 Identities = 63/387 (16%), Positives = 130/387 (33%), Gaps = 63/387 (16%) Query: 4 FENIPQVIGEALSERGYVNLTSVQEAILNPDLREKDVLVSAQTGSGKTVAFGLALASTLL 63 +E+I ++ + E G ++ +L + + +GK Sbjct: 272 WESIRSLLNKNTGESGI----AISLELLKFASEGRADGGNEARQAGKGTCPTSGSRKFQT 327 Query: 64 AENDRFSPASAPLALAIAPTRELAVQVGR----ELEWLYAKTGVVVAVCIGGVSVHRERR 119 A+ +L + E + +E + A+ V + +S + Sbjct: 328 LC-----HATN--SLLPSEMVEHLRNGSKGQVVHVEVIKARKSAYVEMS-DKLSETTKSA 379 Query: 120 DLQNGAHIVVGTPGRLCDHIRGKGLN----ISHLKAVVLDE------------ADEM--- 160 + G + + K L + + D++ Sbjct: 380 LKRIGLNTLYSHQAEAISAALAKSLCYNVPVFEELCKDTNSCALYLFPTKALAQDQLRAL 439 Query: 161 LDL--GFRDDI--EFILDSSPKKRRMLMFSATISPAITTLAKNYQKDAVRVNIASENRQH 216 DL GF I +P K R + S + + L V ++ + + + Sbjct: 440 SDLIKGFEASINMGVYDGDTPYKDRTRLRSELANLSELEL--------VTIDGSPSSEKL 491 Query: 217 SDI-DYRAVLVALSDRDNAIVNI------LRYHGAKNAIVFCSTRASVSRFTK----VLA 265 + + A + S++ + +V + + HG + I FC +R +LA Sbjct: 492 FVLWNPSAPPTSKSEKSSKVVEVSHLFAEMVQHGLR-CIAFCPSRKLCELVLCLTREILA 550 Query: 266 E---HLFQ-VVALSGELSQQERSNALQMMRDGRARVCIATDVAARGIDLPDLELVIHAEL 321 E HL + + + G ++R + G+ IAT+ GID+ L+ V+H Sbjct: 551 ETAPHLVEAITSYRGGYIAEDRRKIESDLFGGKLCGIIATNALELGIDIGHLDAVLHLGF 610 Query: 322 SSNPENLLHRSGRTGRAGRKGMSVFVI 348 + NL ++GR GR + ++V+V Sbjct: 611 PGSIANLWQQAGRAGRRNKPSLAVYVA 637 >gnl|CDD|36218 KOG1000, KOG1000, KOG1000, Chromatin remodeling protein HARP/SMARCAL1, DEAD-box superfamily [Chromatin structure and dynamics]. Length = 689 Score = 39.3 bits (91), Expect = 0.003 Identities = 37/185 (20%), Positives = 66/185 (35%), Gaps = 11/185 (5%) Query: 172 ILDSSPKKRRMLMFSATISPAITTLAKNYQKDAVRVNIASENRQHSD---IDYR-AVLVA 227 +L P KRR +++ + I + K A + + + + Y + Sbjct: 416 VLKQLPPKRREVVYVSG--GRIDARMDDLVKAAADYTKVNSMERKHESLLLFYSLTGIAK 473 Query: 228 LSDRDNAIVNILRY--HGAKNAIVFCSTRASVSRFTKVLAEHLFQVVALSGELSQQERSN 285 + I+ + +VF + + + + + + G R+ Sbjct: 474 AAAVCEYILENYFLPDAPPRKFLVFAHHQIVLDTIQVEVNKRKVGSIRIDGSTPSHRRTL 533 Query: 286 ALQMMR-DGRARVCIATDVAAR-GIDLPDLELVIHAELSSNPENLLHRSGRTGRAGRKGM 343 Q + RV + + AA G+ L +V+ AEL NP LL R R G+K Sbjct: 534 LCQSFQTSEEVRVAVLSITAAGVGLTLTAASVVVFAELHWNPGVLLQAEDRAHRIGQKS- 592 Query: 344 SVFVI 348 SVFV Sbjct: 593 SVFVQ 597 >gnl|CDD|31307 COG1110, COG1110, Reverse gyrase [DNA replication, recombination, and repair]. Length = 1187 Score = 38.4 bits (89), Expect = 0.005 Identities = 39/156 (25%), Positives = 56/156 (35%), Gaps = 29/156 (18%) Query: 35 LREKDVLVSAQTGSGKTVAFGLALASTLLAENDRFSPASAPLALAIAPTRELAVQVGREL 94 +R K + A TG GKT FGL ++ L + R I PT L QV L Sbjct: 95 VRGKSFAIIAPTGVGKT-TFGLLMSLYLAKKGKR--------VYIIVPTTTLVRQVYERL 145 Query: 95 EWLYAKTGVV-VAVCIGGVSVHRERRDL-----QNGAHIVVGTPGRLCDHIRGKGLNISH 148 + G + V V +E+ + I++ T L +S Sbjct: 146 KKFAEDAGSLDVLVVYHSALPTKEKEEALERIESGDFDILITTSQFLSKRFE----ELSK 201 Query: 149 LKAVVLDEADEMLDLGFRDDIEFILDSSPKKRRMLM 184 LK D F DD++ IL +S R+L Sbjct: 202 LK----------FDFIFVDDVDAILKASKNVDRLLR 227 >gnl|CDD|36170 KOG0952, KOG0952, KOG0952, DNA/RNA helicase MER3/SLH1, DEAD-box superfamily [RNA processing and modification]. Length = 1230 Score = 37.6 bits (87), Expect = 0.009 Identities = 60/281 (21%), Positives = 106/281 (37%), Gaps = 49/281 (17%) Query: 19 GYVNLTSVQEAILNPDLREK-DVLVSAQTGSGKTVAFGLALASTLLAENDRFSPASAPLA 77 + +Q + + ++L+ A TGSGKTV L + T+ ++ A Sbjct: 107 SFEEFNRIQSEVFPVAYKSNENMLICAPTGSGKTVLAELCILRTIKEHEEQGDIAKDDFK 166 Query: 78 LA-IAPTRELAVQVGRELEWLYAKTGVVVAVCIGGVSVHRERRDLQNGAHIVVGTPGRLC 136 + IAP + LA ++ + A G+ V G + + ++ + I+V TP + Sbjct: 167 IVYIAPMKALAAEMVDKFSKKLAPLGISVRELTGDTQLTKT--EIAD-TQIIVTTPEKW- 222 Query: 137 DHIRGKGLN----ISHLKAVVLDEADEMLDLGFRDD----IEFIL-------DSSPKKRR 181 D + K + S ++ V++DE +L DD +E I+ +SS R Sbjct: 223 DVVTRKSVGDSALFSLVRLVIIDEV-HLL----HDDRGPVLETIVARTLRLVESSQSMIR 277 Query: 182 MLMFSATISPAITTLAKNYQKDAVRVNIASENRQHSDIDYRAV--------------LVA 227 ++ SAT+ P +A +RVN D YR V Sbjct: 278 IVGLSATL-PNYEDVA-----RFLRVN-PYAGLFSFDQRYRPVPLTQGFIGIKGKKNRQQ 330 Query: 228 LSDRDNA-IVNILRYHGAKNAI-VFCSTRASVSRFTKVLAE 266 + D ++ + + + VF +R R K L E Sbjct: 331 KKNIDEVCYDKVVEFLQEGHQVLVFVHSRNETIRTAKKLRE 371 Score = 28.4 bits (63), Expect = 5.8 Identities = 14/40 (35%), Positives = 21/40 (52%), Gaps = 2/40 (5%) Query: 31 LNPDLREKDVLVSAQTGSG--KTVAFGLALASTLLAENDR 68 LN D E ++++S + T+ FG+ L L ENDR Sbjct: 1187 LNMDELELEIIMSKVRDTNLKLTLPFGIGLHHAGLIENDR 1226 >gnl|CDD|30902 COG0556, UvrB, Helicase subunit of the DNA excision repair complex [DNA replication, recombination, and repair]. Length = 663 Score = 36.3 bits (84), Expect = 0.021 Identities = 45/187 (24%), Positives = 75/187 (40%), Gaps = 32/187 (17%) Query: 254 RASVSRFTKVLAEHL--------FQVVALSGELSQQERSNALQMMRDGRARVCIATDVAA 305 R V+ TK +AE L +V L ++ ER ++ +R G V + ++ Sbjct: 448 RVLVTTLTKKMAEDLTEYLKELGIKVRYLHSDIDTLERVEIIRDLRLGEFDVLVGINLLR 507 Query: 306 RGIDLPDLELVIHAELSSNPENLLHRSGRT-----GRAGR--KGMSVF---VIPQNMQRR 355 G+DLP++ LV A L ++ E L RS R+ GRA R G + I +MQ+ Sbjct: 508 EGLDLPEVSLV--AILDADKEGFL-RSERSLIQTIGRAARNVNGKVILYADKITDSMQKA 564 Query: 356 AERLFREANVSVVWE------PAPSVEAIRERDAQRILQDPLFLDSIQGDEKKMVDVLLA 409 + R + + + P + IR+ IL D + +K + Sbjct: 565 IDETERRREIQMAYNEEHGITPQTIKKKIRD-----ILDGEYEEDEYKAKIEKKASKMSK 619 Query: 410 KHDPEKI 416 K + I Sbjct: 620 KELEKLI 626 >gnl|CDD|36142 KOG0924, KOG0924, KOG0924, mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]. Length = 1042 Score = 32.7 bits (74), Expect = 0.28 Identities = 75/367 (20%), Positives = 133/367 (36%), Gaps = 72/367 (19%) Query: 17 ERGYVNLTSVQEAILNPDLREKDV-LVSAQTGSGKTVAFGLALASTLLAENDRFSPASAP 75 +R Y+ + + ++ +L+ +RE V ++ +TGSGKT L A+N Sbjct: 351 QRQYLPVFACRDQLLS-VIRENQVVVIVGETGSGKTTQLAQYLYEDGYADNGMIGCTQPR 409 Query: 76 LALAIAPTRELAVQVGRELEWLYAKTGVVVAVCIGGVSVHRERRDLQNGAHIVVGTPGRL 135 AI+ + +A ++G L G V G S+ E ++ I T G L Sbjct: 410 RVAAISVAKRVAEEMGVTL-------GDTV-----GYSIRFEDVTSED-TKIKYMTDGIL 456 Query: 136 CDHIRGKGLNISHLKAVVLDEADEMLDLGFRDDIEF-ILDSSPKKRR---MLMFSATIS- 190 ++ +++DEA E DI F +L +RR +++ SAT+ Sbjct: 457 LRESLKDR-DLDKYSVIIMDEAHER---SLNTDILFGLLKKVLARRRDLKLIVTSATMDA 512 Query: 191 ----------PAITTLAKNYQKDAVRVNIASENRQHSDIDYRAVLVALSDRDNAIVNILR 240 P T + Y V + + DY V A+ V I Sbjct: 513 QKFSNFFGNCPQFTIPGRTY---PVEIMYTKTPVE----DY--VEAAVKQA----VQIHL 559 Query: 241 YHGAKNAIVFCSTRASVSRFTKVLAEHLFQ----------VVALSGELSQQERSNALQMM 290 + ++F + + + ++ E L Q V+ + +L ++ Q Sbjct: 560 SGPPGDILIFMTGQEDIECTCDIIKEKLEQLDSAPTTDLAVLPIYSQLPADLQAKIFQKA 619 Query: 291 RDGRARVCIATDVAARGIDLPDLELVIHA---------------ELSSNPENLLHRSGRT 335 G + +AT++A + +P + VI L P + + R Sbjct: 620 EGGVRKCIVATNIAETSLTIPGIRYVIDTGYCKLKVYNPRIGMDALQIVPISQANADQRA 679 Query: 336 GRAGRKG 342 GRAGR G Sbjct: 680 GRAGRTG 686 >gnl|CDD|36166 KOG0948, KOG0948, KOG0948, Nuclear exosomal RNA helicase MTR4, DEAD-box superfamily [RNA processing and modification]. Length = 1041 Score = 32.6 bits (74), Expect = 0.33 Identities = 25/59 (42%), Positives = 30/59 (50%), Gaps = 2/59 (3%) Query: 28 EAILNPDLREKDVLVSAQTGSGKTVAFGLALASTLLAENDRFSPASAPLALAIAPTREL 86 AI D R + VLVSA T +GKTV A+A + L E R S AL+ REL Sbjct: 136 TAIKCID-RGESVLVSAHTSAGKTVVAEYAIAMS-LREKQRVIYTSPIKALSNQKYREL 192 >gnl|CDD|36167 KOG0949, KOG0949, KOG0949, Predicted helicase, DEAD-box superfamily [General function prediction only]. Length = 1330 Score = 32.3 bits (73), Expect = 0.33 Identities = 20/63 (31%), Positives = 33/63 (52%), Gaps = 1/63 (1%) Query: 278 LSQQERSNALQMMRDGRARVCIATDVAARGIDLPDLELVIHAE-LSSNPENLLHRSGRTG 336 L+++ RS + R G +V AT+ + GI++P +V + L +P N +GR G Sbjct: 972 LNRKYRSLVEVLFRQGHLQVLFATETLSLGINMPCRTVVFAGDSLQLDPLNYKQMAGRAG 1031 Query: 337 RAG 339 R G Sbjct: 1032 RRG 1034 >gnl|CDD|36168 KOG0950, KOG0950, KOG0950, DNA polymerase theta/eta, DEAD-box superfamily [General function prediction only]. Length = 1008 Score = 32.3 bits (73), Expect = 0.36 Identities = 24/92 (26%), Positives = 37/92 (40%), Gaps = 6/92 (6%) Query: 278 LSQQERSNALQMMRDGRARVCIATDVAARGIDLPDLELVIHAELSSNPEN----LLHRSG 333 L+ +ER R+G V +AT A G++LP ++I A G Sbjct: 532 LTSEEREIIEAAFREGNIFVLVATSTLAAGVNLPARRVIIRAPYVGREFLTRLEYKQMVG 591 Query: 334 RTGRAG--RKGMSVFVIPQNMQRRAERLFREA 363 R GR G G S+ +I + ++R L Sbjct: 592 RAGRTGIDTLGDSILIIKSSEKKRVRELVNSP 623 >gnl|CDD|147155 pfam04851, ResIII, Type III restriction enzyme, res subunit. Length = 103 Score = 32.2 bits (74), Expect = 0.37 Identities = 17/69 (24%), Positives = 24/69 (34%), Gaps = 11/69 (15%) Query: 22 NLTSVQEAILNPDLREKDVLVSAQTGSGKT-VAFGLALASTLLAENDRFSPASAPLALAI 80 L Q + L +K L+ TGSGKT A L + L + Sbjct: 3 ELRPYQIEAIRNLLEKKRGLIVMATGSGKTLTAAKLIARLLKGKKK----------VLFL 52 Query: 81 APTRELAVQ 89 P ++L Q Sbjct: 53 VPRKDLLEQ 61 >gnl|CDD|36165 KOG0947, KOG0947, KOG0947, Cytoplasmic exosomal RNA helicase SKI2, DEAD-box superfamily [RNA processing and modification]. Length = 1248 Score = 31.9 bits (72), Expect = 0.51 Identities = 38/164 (23%), Positives = 68/164 (41%), Gaps = 23/164 (14%) Query: 27 QEAILNPDLREKDVLVSAQTGSGKTVAFGLALASTLLAENDRFSPASAPLALAIAPTREL 86 +EAI + R V V+A T +GKTV A+A + +P + L Sbjct: 303 KEAIYHL-ERGDSVFVAAHTSAGKTVVAEYAIALAQ---------KHMTRTIYTSPIKAL 352 Query: 87 AVQVGRELEWLYAKTGVVVAVCIGGVSVHRERRDLQNGAHIVVGTPGRLCDHI-RGKGLN 145 + Q R+ + + G++ G V ++ E A ++ T L + RG L Sbjct: 353 SNQKFRDFKETFGDVGLLT----GDVQINPE-------ASCLIMTTEILRSMLYRGADL- 400 Query: 146 ISHLKAVVLDEADEMLDLGFRDDIEFILDSSPKKRRMLMFSATI 189 I ++ V+ DE + D+ E ++ P+ ++ SAT+ Sbjct: 401 IRDVEFVIFDEVHYINDVERGVVWEEVIIMLPRHVNFILLSATV 444 >gnl|CDD|31391 COG1198, PriA, Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]. Length = 730 Score = 31.5 bits (71), Expect = 0.70 Identities = 20/65 (30%), Positives = 27/65 (41%), Gaps = 4/65 (6%) Query: 253 TRASVSRFTKVLAEHLFQVVALSGELSQQERSNALQMMRDGRARVCIATDVAARGIDLPD 312 T ++RF +V L LS ER + R G ARV I T A + + Sbjct: 258 TPQLLARFKARFGA---KVAVLHSGLSPGERYRVWRRARRGEARVVIGTRSALF-LPFKN 313 Query: 313 LELVI 317 L L+I Sbjct: 314 LGLII 318 Score = 28.4 bits (63), Expect = 6.4 Identities = 20/69 (28%), Positives = 30/69 (43%), Gaps = 12/69 (17%) Query: 286 ALQMMRDGRARVCIATDVAARGIDLPDLELV--IHAELSSN------PENLLHR----SG 333 L +G A + I T + A+G D P++ LV + A+ E +G Sbjct: 526 LLDQFANGEADILIGTQMIAKGHDFPNVTLVGVLDADTGLGSPDFRASERTFQLLMQVAG 585 Query: 334 RTGRAGRKG 342 R GRAG+ G Sbjct: 586 RAGRAGKPG 594 >gnl|CDD|38299 KOG3089, KOG3089, KOG3089, Predicted DEAD-box-containing helicase [General function prediction only]. Length = 271 Score = 30.8 bits (69), Expect = 1.1 Identities = 26/114 (22%), Positives = 51/114 (44%), Gaps = 17/114 (14%) Query: 73 SAPLALAIAPTRELAVQVGRELEWLYAKTGVVVAVCIGGVSVHRERRDLQNG-AHIVVGT 131 L L I + A+++ + ++ G V+ + + V + + L+ H+ +GT Sbjct: 144 VFVLMLIICSSAVRALELIKSMKAFRGSDGKVIKLFAKHIKVQAQVKLLKKRVVHLGIGT 203 Query: 132 PGRLCDHIRGKGLNISHLKAVVLDEADEMLDLGFRDDIEFILDSSPKKRRMLMF 185 PGR+ + ++ G N+S LK ++LD + +RD K R+L Sbjct: 204 PGRIKELVKQGGFNLSPLKFIILDWS-------WRD---------QKLNRILDI 241 >gnl|CDD|35610 KOG0389, KOG0389, KOG0389, SNF2 family DNA-dependent ATPase [Chromatin structure and dynamics]. Length = 941 Score = 30.3 bits (68), Expect = 1.6 Identities = 26/109 (23%), Positives = 50/109 (45%), Gaps = 11/109 (10%) Query: 299 IATDVAARGIDLPDLELVIHAELSSNPENLLHRSGRTGRAGR-KGMSVF------VIPQN 351 ++T GI+L VI ++ NP + R R G+ K ++V+ I + Sbjct: 834 LSTKAGGFGINLTCANTVIIHDIDFNPYDDKQAEDRCHRVGQTKPVTVYRLITKSTIEEG 893 Query: 352 MQRRAER-LFREANVSVVWEPAPSVEAIRERDAQRILQDPLFLDSIQGD 399 + R A+ L EA+++ E VE E+ ++L+ L+ D+ + + Sbjct: 894 ILRLAKTKLALEADLT---EDGKGVEDEGEKTVGKLLETELYGDNRKPE 939 >gnl|CDD|39006 KOG3802, KOG3802, KOG3802, Transcription factor OCT-1, contains POU and HOX domains [Transcription]. Length = 398 Score = 29.7 bits (66), Expect = 2.5 Identities = 20/83 (24%), Positives = 34/83 (40%), Gaps = 20/83 (24%) Query: 145 NISHLKAVV---LDEADEMLDLGFRDDIEFILDSSPKKRRMLMFSATISPA--------- 192 N+ LK ++ L+EA+ G + IE I S K+++ + A Sbjct: 258 NMCKLKPLLEKWLEEAESRESTGSPNSIEKIGAQSRKRKKRTSIEVNVRGALEKHFLKNP 317 Query: 193 ------ITTLAK--NYQKDAVRV 207 IT +A+ +K+ VRV Sbjct: 318 KPTSQEITHIAESLQLEKEVVRV 340 >gnl|CDD|31633 COG1444, COG1444, Predicted P-loop ATPase fused to an acetyltransferase [General function prediction only]. Length = 758 Score = 29.1 bits (65), Expect = 3.5 Identities = 21/73 (28%), Positives = 33/73 (45%), Gaps = 7/73 (9%) Query: 34 DLREKDVLVSAQTGSGKTVAFGLALASTLLAENDRFSPA--SAPLALAIAPTRELAVQVG 91 D ++ ++++A G GK+ A G+ALA A +AP A + L G Sbjct: 228 DAPKRALVLTADRGRGKSAALGIALA--AAARLAGSVRIIVTAP---TPANVQTLFEFAG 282 Query: 92 RELEWLYAKTGVV 104 + LE+L K V Sbjct: 283 KGLEFLGYKRKVA 295 >gnl|CDD|36138 KOG0920, KOG0920, KOG0920, ATP-dependent RNA helicase A [RNA processing and modification]. Length = 924 Score = 29.1 bits (65), Expect = 3.6 Identities = 76/395 (19%), Positives = 145/395 (36%), Gaps = 97/395 (24%) Query: 13 EALSERGYVNLTSVQEAILNPDLREKDVLVSAQTGSGKT---VAFGL-------ALASTL 62 E L R + +++ IL+ + V++S +TG GKT F L A + + Sbjct: 164 EMLRFRESLPAYKMRDTILDAIEENQVVVISGETGCGKTTQVPQFILDEAIESGAACNII 223 Query: 63 LAENDRFSPASAPLALAIAPTRELAVQVGRELEWLYAKTGVVVAVCIGGVSVHRERRDLQ 122 + R S AI+ +A +V +E G V G V E + Sbjct: 224 CTQPRRIS--------AIS----VAERVAKERGE---SLGEEV-----GYQVRLESK-RS 262 Query: 123 NGAHIVVGTPGRLCDHIRGKGLNISHLKAVVLDEADE------MLDLGFRDDIEFILDSS 176 ++ T G L ++ +S + +++DE E L + +D +L + Sbjct: 263 RETRLLFCTTGVLLRRLQS-DPTLSGVTHIIVDEVHERSINTDFLLILLKD----LLPRN 317 Query: 177 PKKRRMLMFSATI-----------SPAITT------LAKNYQKDAV---RVNIASEN--- 213 P + +LM SAT+ P IT + + + +D + ++ Sbjct: 318 PDLKVILM-SATLDAELFSDYFGGCPVITIPGRTFPVKEYFLEDILSKTGYVSEDDSARS 376 Query: 214 -RQHSDIDYRAVLVALSDRD-NAIVNILRY----HGAKNAIVFCSTRASVSRFTKVLAEH 267 + S + + + + D + I +++ Y +VF + + ++L + Sbjct: 377 GPERSQLRLARLKLWEPEIDYDLIEDLIEYIDEREFEGAILVFLPGWEEILQLKELLEVN 436 Query: 268 L-------FQVVALSGELSQQERSNALQMMRDGRARVCIATDVAARGIDLPDLELVI--- 317 L F ++ L + +E+ + G ++ +AT++A I + D+ VI Sbjct: 437 LPFADSLKFAILPLHSSIPSEEQQAVFKRPPKGTRKIILATNIAETSITIDDVVYVIDSG 496 Query: 318 -HAELSSNPE--------------NLLHRSGRTGR 337 E S +PE N R GR GR Sbjct: 497 LVKEKSYDPERKVSCLLLSWVSKANAKQRRGRAGR 531 >gnl|CDD|33203 COG3396, COG3396, Uncharacterized conserved protein [Function unknown]. Length = 265 Score = 28.4 bits (63), Expect = 6.0 Identities = 19/84 (22%), Positives = 34/84 (40%), Gaps = 12/84 (14%) Query: 220 DYRAVLVALSDR--DNAIVNILRY-----HGAKNAIVFCSTRASVSRFTKVLAEHLFQVV 272 YR L+ L + D+ +V LR H +++ + H + + Sbjct: 15 AYRRTLIRLISQLADSELVLALREGEWLGHAPT-----LEEDLALANIVQDEMGHGWLLY 69 Query: 273 ALSGELSQQERSNALQMMRDGRAR 296 L+ EL + R + L +RDGR + Sbjct: 70 RLAEELEGKGREDDLAYLRDGRHK 93 >gnl|CDD|34068 COG4346, COG4346, Predicted membrane-bound dolichyl-phosphate-mannose-protein mannosyltransferase [Posttranslational modification, protein turnover, chaperones]. Length = 438 Score = 28.1 bits (62), Expect = 6.4 Identities = 19/61 (31%), Positives = 24/61 (39%), Gaps = 2/61 (3%) Query: 52 VAFGLALASTLLAENDRFSPASAPLALAIAPTRELAVQVGRELEWLYAKTGVVVAVCIGG 111 VAF AL LA NDR + L LA A + V L + K + I G Sbjct: 212 VAFFTALFMYFLA-NDRPLWSGIALGLA-ASVKLSGAFVFPILWYAILKENDLKERFIAG 269 Query: 112 V 112 + Sbjct: 270 I 270 >gnl|CDD|35384 KOG0162, KOG0162, KOG0162, Myosin class I heavy chain [Cytoskeleton]. Length = 1106 Score = 28.0 bits (62), Expect = 7.1 Identities = 16/50 (32%), Positives = 27/50 (54%), Gaps = 10/50 (20%) Query: 4 FENIPQVIGEALSERGYVNLTSVQEAILNPDLREKDVLVSAQTGSGKTVA 53 +EN P + AL++ Y N+ E + V++S ++G+GKTVA Sbjct: 81 YENPPHIY--ALADNMYRNMKIDNE--------NQCVIISGESGAGKTVA 120 >gnl|CDD|31390 COG1197, Mfd, Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]. Length = 1139 Score = 27.9 bits (62), Expect = 7.4 Identities = 21/91 (23%), Positives = 43/91 (47%), Gaps = 13/91 (14%) Query: 276 GELSQQERSNALQMMRDGRARVCIATDVAARGIDLPDLELVI--HAE---LSSNPENLLH 330 G++ ++E + +G V + T + GID+P+ +I A+ L+ L+ Sbjct: 837 GQMRERELEEVMLDFYNGEYDVLVCTTIIETGIDIPNANTIIIERADKFGLAQ-----LY 891 Query: 331 R-SGRTGRAGRKGMSVFVIPQN--MQRRAER 358 + GR GR+ ++ + F+ P + AE+ Sbjct: 892 QLRGRVGRSNKQAYAYFLYPPQKALTEDAEK 922 >gnl|CDD|109807 pfam00764, Arginosuc_synth, Arginosuccinate synthase. This family contains a PP-loop motif. Length = 389 Score = 28.1 bits (63), Expect = 7.6 Identities = 16/66 (24%), Positives = 23/66 (34%), Gaps = 18/66 (27%) Query: 94 LEWLYAKTGVVVAVCIGGVSVHRERRDLQNGAHIVVGTPGRLCDHIRGKGLNISHLKAVV 153 + WL K V+AV + VG D R K L + +K V Sbjct: 14 IPWLKEKYYEVIAVAVD------------------VGQGEEDLDEAREKALKLGAVKHYV 55 Query: 154 LDEADE 159 +D +E Sbjct: 56 IDAKEE 61 >gnl|CDD|32525 COG2378, COG2378, Predicted transcriptional regulator [Transcription]. Length = 311 Score = 27.7 bits (61), Expect = 8.6 Identities = 24/161 (14%), Positives = 49/161 (30%), Gaps = 13/161 (8%) Query: 113 SVHRERRDLQNGAHIVVGTPG-----RLCDHIRGKGLNISHLKAVVLDEADEMLD----- 162 +++R+ L+ + G G RL + L + +A L A L Sbjct: 38 TIYRDIATLRAAGVPIEGERGKGGGYRLRPGFKLPPLMFTEEEAEALLLALRALASRGGA 97 Query: 163 ---LGFRDDIEFILDSSPKKRRMLMFSATISPAITTLAKNYQKDAVRVNIASENRQHSDI 219 + I P+ R + + I + ++ + A + Sbjct: 98 ELAQAALKALSKIAAVLPEALRRKLEAIAILAPVFGKRNEDRETLAILRQAIREEKVLSF 157 Query: 220 DYRAVLVALSDRDNAIVNILRYHGAKNAIVFCSTRASVSRF 260 DYR ++R + ++ G + +C R F Sbjct: 158 DYRDSSGEETERIVEPLGLVFKGGHWYLVAWCELRQDFRTF 198 >gnl|CDD|31444 COG1252, Ndh, NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]. Length = 405 Score = 27.9 bits (62), Expect = 8.9 Identities = 17/77 (22%), Positives = 28/77 (36%), Gaps = 9/77 (11%) Query: 502 IRVQPDLTFVEVSADGVDLLRRTVKLDKGIQLKY------LGGEKPDFR--GYKSSGFKS 553 +R ++ FV+ +D + V L ++ Y LG E F G F Sbjct: 67 LRKSGNVQFVQGEVTDIDRDAKKVTLADLGEISYDYLVVALGSETNYFGIPGAAEYAFGL 126 Query: 554 KNSQDGATKRFKRFKGA 570 K +D A + + A Sbjct: 127 KTLED-ALRLRRHLLEA 142 >gnl|CDD|30100 cd01378, MYSc_type_I, Myosin motor domain, type I myosins. Myosin I generates movement at the leading edge in cell motility, and class I myosins have been implicated in phagocytosis and vesicle transport. Myosin I, an unconventional myosin, does not form dimers. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Myosins are actin-dependent molecular motors that play important roles in muscle contraction, cell motility, and organelle transport. The head domain is a molecular motor, which utilizes ATP hydrolysis to generate directed movement toward the plus end along actin filaments. A cyclical interaction between myosin and actin provides the driving force. Rates of ATP hydrolysis and consequently the speed of movement along actin filaments vary widely, from about 0.04 micrometer per second for myosin I to 4.5 micrometer per second for myosin II in skeletal muscle. Myosin II moves in discrete steps about 5-10 nm long and generates 1-5 piconewtons of force. Upon ATP binding, the myosin head dissociates from an actin filament. ATP hydrolysis causes the head to pivot and associate with a new actin subunit. The release of Pi causes the head to pivot and move the filament (power stroke). Release of ADP completes the cycle.. Length = 674 Score = 27.5 bits (61), Expect = 9.4 Identities = 14/51 (27%), Positives = 26/51 (50%), Gaps = 10/51 (19%) Query: 3 IFENIPQVIGEALSERGYVNLTSVQEAILNPDLREKDVLVSAQTGSGKTVA 53 +E P + AL++ Y ++ S E + V++S ++G+GKT A Sbjct: 62 RYELPPHIY--ALADNAYRSMKSENE--------NQCVIISGESGAGKTEA 102 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 0.319 0.135 0.382 Gapped Lambda K H 0.267 0.0775 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 21609 Number of Hits to DB: 6,703,616 Number of extensions: 362020 Number of successful extensions: 1203 Number of sequences better than 10.0: 1 Number of HSP's gapped: 1098 Number of HSP's successfully gapped: 101 Length of query: 573 Length of database: 6,263,737 Length adjustment: 99 Effective length of query: 474 Effective length of database: 4,124,446 Effective search space: 1954987404 Effective search space used: 1954987404 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 (21.8 bits) S2: 60 (26.8 bits)