RPS-BLAST 2.2.22 [Sep-27-2009] Database: CddA 21,609 sequences; 6,263,737 total letters Searching..................................................done Query= gi|254780382|ref|YP_003064795.1| ATP dependent RNA helicase protein [Candidatus Liberibacter asiaticus str. psy62] (465 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 = 395 bits (1015), Expect = e-110 Identities = 183/464 (39%), Positives = 265/464 (57%), Gaps = 12/464 (2%) Query: 1 MDFADLGLSPKVVCAVLDAGYVKPTPIQIKTIPLVLQRHDVCGIAQTGTGKTASFVLPML 60 +FA LGLSP+++ A+ D G+ +PTPIQ+ IPL+L DV G AQTGTGKTA+F+LP+L Sbjct: 29 PEFASLGLSPELLQALKDLGFEEPTPIQLAAIPLILAGRDVLGQAQTGTGKTAAFLLPLL 88 Query: 61 TILEKGRARVRMPRTLILEPTRELAAQVADNFEKYGKN-YNLTVALLIGGIPFEAQNKKL 119 + K + LIL PTRELA Q+A+ K GKN L VA++ GG+ Q + L Sbjct: 89 QKILK-SVERKYVSALILAPTRELAVQIAEELRKLGKNLGGLRVAVVYGGVSIRKQIEAL 147 Query: 120 ERGADVLICTPGRILDHFNRGKLLMNNIEILVIDEADRMLDMGFIPYIQNITSLVPFTRQ 179 +RG D+++ TPGR+LD RGKL ++ +E LV+DEADRMLDMGFI I+ I +P RQ Sbjct: 148 KRGVDIVVATPGRLLDLIKRGKLDLSGVETLVLDEADRMLDMGFIDDIEKILKALPPDRQ 207 Query: 180 TLLFSATMTDELQKVSENFLQNPKRIEVNTP--SSTAETIEHCFVATYAQYSKKCALLQQ 237 TLLFSATM D++++++ +L +P IEV+ T + I+ ++ ++ K LL + Sbjct: 208 TLLFSATMPDDIRELARRYLNDPVEIEVSVEKLERTLKKIKQFYLEVESEEEKL-ELLLK 266 Query: 238 LLQSQDTMKNGIIFCNQKKNVVNLCHSLEKQGFSVCAIHGNIDQRSRMKILSNFKEGTIQ 297 LL+ +D I+F K+ V L SL K+GF V A+HG++ Q R + L FK+G ++ Sbjct: 267 LLKDED-EGRVIVFVRTKRLVEELAESLRKRGFKVAALHGDLPQEERDRALEKFKDGELR 325 Query: 298 LMVASDLAARGLDIPDVGHVFNFDVPNRAENYIHRIGRTGRAGRHGKAFTLVA-KEDIKH 356 ++VA+D+AARGLDIPDV HV N+D+P E+Y+HRIGRTGRAGR G A + V +E++K Sbjct: 326 VLVATDVAARGLDIPDVSHVINYDLPLDPEDYVHRIGRTGRAGRKGVAISFVTEEEEVKK 385 Query: 357 IDAIEKLIEKKVDWLNGDLSSLNPPLEKIDIAQHNHARKNNPIPQKSTGFDRRKKNYSSQ 416 + IEK +E+K+ + L P E D R + ++ K+ Sbjct: 386 LKRIEKRLERKLPS-----AVLLPLDEPEDAKLLKTTRPGLEEESDISDEIKKLKSSKKA 440 Query: 417 KSHIPLKESEKISKLQQDIQENDADSLGFRGNMPAFMLPKNRGK 460 L +E + N Sbjct: 441 LLRGLGVRFTLSKLLANLGKEIPGAGDAVTIDPELERRSPNSAD 484 >gnl|CDD|35552 KOG0331, KOG0331, KOG0331, ATP-dependent RNA helicase [RNA processing and modification]. Length = 519 Score = 334 bits (858), Expect = 3e-92 Identities = 151/374 (40%), Positives = 219/374 (58%), Gaps = 10/374 (2%) Query: 2 DFADLGLSPKVVCAVLDAGYVKPTPIQIKTIPLVLQRHDVCGIAQTGTGKTASFVLPMLT 61 F +LGLS +++ A+ + G+ KPTPIQ + P+ L D+ GIA+TG+GKT +++LP + Sbjct: 92 AFQELGLSEELMKALKEQGFEKPTPIQAQGWPIALSGRDLVGIARTGSGKTLAYLLPAIV 151 Query: 62 ILEKGRA---RVRMPRTLILEPTRELAAQVADNFEKYGKNYNLTVALLIGGIPFEAQNKK 118 L + R P L+L PTRELA QV ++GK+ L + GG P Q + Sbjct: 152 HLNNEQGKLSRGDGPIVLVLAPTRELAVQVQAEAREFGKSLRLRSTCVYGGAPKGPQLRD 211 Query: 119 LERGADVLICTPGRILDHFNRGKLLMNNIEILVIDEADRMLDMGFIPYIQNITS-LVPFT 177 LERG DV+I TPGR++D G L ++ + LV+DEADRMLDMGF P I+ I S + Sbjct: 212 LERGVDVVIATPGRLIDLLEEGSLNLSRVTYLVLDEADRMLDMGFEPQIRKILSQIPRPD 271 Query: 178 RQTLLFSATMTDELQKVSENFLQNPKRIEV--NTPSSTAETIEHCFVATYAQYSKKCALL 235 RQTL+FSAT E+++++E+FL NP +I V I + + K L Sbjct: 272 RQTLMFSATWPKEVRQLAEDFLNNPIQINVGNKKELKANHNIRQ--IVEVCDETAKLRKL 329 Query: 236 QQLLQSQDTMKNG--IIFCNQKKNVVNLCHSLEKQGFSVCAIHGNIDQRSRMKILSNFKE 293 +LL+ + G IIFC K+ L +L ++G+ AIHG+ Q R +L F+E Sbjct: 330 GKLLEDISSDSEGKVIIFCETKRTCDELARNLRRKGWPAVAIHGDKSQSERDWVLKGFRE 389 Query: 294 GTIQLMVASDLAARGLDIPDVGHVFNFDVPNRAENYIHRIGRTGRAGRHGKAFTLVAKED 353 G ++VA+D+AARGLD+PDV V N+D PN E+Y+HRIGRTGRAG+ G A T ++ Sbjct: 390 GKSPVLVATDVAARGLDVPDVDLVINYDFPNNVEDYVHRIGRTGRAGKKGTAITFFTSDN 449 Query: 354 IKHIDAIEKLIEKK 367 K + K++ + Sbjct: 450 AKLARELIKVLREA 463 >gnl|CDD|35551 KOG0330, KOG0330, KOG0330, ATP-dependent RNA helicase [RNA processing and modification]. Length = 476 Score = 310 bits (796), Expect = 4e-85 Identities = 147/392 (37%), Positives = 226/392 (57%), Gaps = 7/392 (1%) Query: 1 MDFADLGLSPKVVCAVLDAGYVKPTPIQIKTIPLVLQRHDVCGIAQTGTGKTASFVLPML 60 FADLG+ P+++ A + G+ KPT IQ + IP+ L DV G+A+TG+GKT +F LP+L Sbjct: 61 KSFADLGVHPELLEACQELGWKKPTKIQSEAIPVALGGRDVIGLAETGSGKTGAFALPIL 120 Query: 61 TILEKGRARVRMPRTLILEPTRELAAQVADNFEKYGKNYNLTVALLIGGIPFEAQNKKLE 120 L + ++ L+L PTRELA Q+A+ FE G L VA+L+GG+ Q +L Sbjct: 121 QRLLQEP---KLFFALVLTPTRELAQQIAEQFEALGSGIGLRVAVLVGGMDMMLQANQLS 177 Query: 121 RGADVLICTPGRILDHFNRGKLL-MNNIEILVIDEADRMLDMGFIPYIQNITSLVPFTRQ 179 + +L+ TPGR+ DH K + ++ LV+DEADR+LDM F + I ++P RQ Sbjct: 178 KKPHILVATPGRLWDHLENTKGFSLEQLKFLVLDEADRLLDMDFEEELDYILKVIPRERQ 237 Query: 180 TLLFSATMTDELQKVSENFLQNPKRIEVNTPSSTAETIEHCFVATYAQYSKKCALLQQLL 239 T LFSATMT +++K+ L NP ++ V++ T + ++ ++ + K L+ L Sbjct: 238 TFLFSATMTKKVRKLQRASLDNPVKVAVSSKYQTVDHLKQTYLFVPGKD-KDTYLVYLL- 295 Query: 240 QSQDTMKNGIIFCNQKKNVVNLCHSLEKQGFSVCAIHGNIDQRSRMKILSNFKEGTIQLM 299 ++ + I+FCN L L GF +HG + Q R+ L+ FK G ++ Sbjct: 296 -NELAGNSVIVFCNTCNTTRFLALLLRNLGFQAIPLHGQMSQSKRLGALNKFKAGARSIL 354 Query: 300 VASDLAARGLDIPDVGHVFNFDVPNRAENYIHRIGRTGRAGRHGKAFTLVAKEDIKHIDA 359 V +D+A+RGLDIP V V N+D+P +++YIHR+GRT RAGR GKA TLV + D++ + Sbjct: 355 VCTDVASRGLDIPHVDVVVNYDIPTHSKDYIHRVGRTARAGRSGKAITLVTQYDVELVQR 414 Query: 360 IEKLIEKKVDWLNGDLSSLNPPLEKIDIAQHN 391 IE + KK+ D + + E++ AQ Sbjct: 415 IEHALGKKLPEYKVDKNEVMSLNERVAEAQKE 446 >gnl|CDD|35559 KOG0338, KOG0338, KOG0338, ATP-dependent RNA helicase [RNA processing and modification]. Length = 691 Score = 294 bits (754), Expect = 3e-80 Identities = 156/436 (35%), Positives = 232/436 (53%), Gaps = 10/436 (2%) Query: 3 FADLGLSPKVVCAVLDAGYVKPTPIQIKTIPLVLQRHDVCGIAQTGTGKTASFVLPMLTI 62 F + LS ++ A GY KPTPIQ+ TIP+ L D+C A TG+GKTA+F LP+L Sbjct: 183 FQSMNLSRPLLKACSTLGYKKPTPIQVATIPVALLGKDICACAATGSGKTAAFALPILER 242 Query: 63 LEKGRARVRMPRTLILEPTRELAAQVADNFEKYGKNYNLTVALLIGGIPFEAQNKKLERG 122 L +V R L+L PTRELA QV ++ + ++TV L +GG+ +AQ L Sbjct: 243 LLYRPKKVAATRVLVLVPTRELAIQVHSVTKQLAQFTDITVGLAVGGLDLKAQEAVLRSR 302 Query: 123 ADVLICTPGRILDHF-NRGKLLMNNIEILVIDEADRMLDMGFIPYIQNITSLVPFTRQTL 181 D++I TPGR++DH N +++IE+LV+DEADRML+ GF + I L P RQT+ Sbjct: 303 PDIVIATPGRLIDHLRNSPSFNLDSIEVLVLDEADRMLEEGFADEMNEIIRLCPKNRQTM 362 Query: 182 LFSATMTDELQKVSENFLQNPKRIEVNTPSSTAETIEHCFVATYAQYSK-KCALLQQLLQ 240 LFSATMT+E++ ++ L P RI V+ TA + F+ + + A+L L+ Sbjct: 363 LFSATMTEEVKDLASLSLNKPVRIFVDPNKDTAPKLTQEFIRIRPKREGDREAMLASLIT 422 Query: 241 SQDTMKNGIIFCNQKKNVVNLCHSLEKQGFSVCAIHGNIDQRSRMKILSNFKEGTIQLMV 300 I+F KK L L G +HG++ Q R++ L FK+ I +++ Sbjct: 423 RTFQ-DRTIVFVRTKKQAHRLRILLGLLGLKAGELHGSLTQEQRLESLEKFKKEEIDVLI 481 Query: 301 ASDLAARGLDIPDVGHVFNFDVPNRAENYIHRIGRTGRAGRHGKAFTLVAKEDIKHIDAI 360 A+D+A+RGLDI V V N+ +P E+Y+HR+GRT RAGR G++ TLV + D K + Sbjct: 482 ATDVASRGLDIEGVQTVINYAMPKTIEHYLHRVGRTARAGRAGRSVTLVGESDRK----L 537 Query: 361 EKLIEKKVDWLNGDLSSLNPPLEKIDIAQHNHARKNNPIPQKSTGFDRRKKNYSSQKSHI 420 K I K L + N P E I+ + Q +R +K K+ Sbjct: 538 LKEIIKSSTKAGSKLKNRNIPPEVIE-KFRKKIEEMEDTIQAVLDEEREEKE--LSKAEA 594 Query: 421 PLKESEKISKLQQDIQ 436 L++ E + + +I Sbjct: 595 QLEKGENMLEHGDEIY 610 >gnl|CDD|35554 KOG0333, KOG0333, KOG0333, U5 snRNP-like RNA helicase subunit [RNA processing and modification]. Length = 673 Score = 288 bits (739), Expect = 2e-78 Identities = 133/380 (35%), Positives = 206/380 (54%), Gaps = 34/380 (8%) Query: 5 DLGLSPKVVCAVLDAGYVKPTPIQIKTIPLVLQRHDVCGIAQTGTGKTASFVLPMLTILE 64 + G +++ + GY +PTPIQ + IPL LQ D G+A+TG+GKTA+F++P+L + Sbjct: 249 ESGFPLELLSVIKKPGYKEPTPIQRQAIPLGLQNRDPIGVAETGSGKTAAFLIPLLIWIS 308 Query: 65 KGRARVRM------PRTLILEPTRELAAQVADNFEKYGKNYNLTVALLIGGIPFEAQNKK 118 R+ P +IL PTRELA Q+ + K+GK + +IGG+ FE Q + Sbjct: 309 SLPPMARLENNIEGPYAIILAPTRELAQQIEEETNKFGKPLGIRTVSVIGGLSFEEQGFQ 368 Query: 119 LERGADVLICTPGRILDHFNRGKLLMNNIEILVIDEADRMLDMGFIPYIQNITSLVPFT- 177 L G +++I TPGR++D L++N +V+DEADRM+DMGF P +Q I +P + Sbjct: 369 LSMGCEIVIATPGRLIDSLENRYLVLNQCTYVVLDEADRMIDMGFEPDVQKILEQMPSSN 428 Query: 178 ------------------------RQTLLFSATMTDELQKVSENFLQNPKRIEVNTPSST 213 RQT++F+ATM +++++ ++L+ P + + + Sbjct: 429 AKPDTDEKEGEERVRKNFSSSKKYRQTVMFTATMPPAVERLARSYLRRPVVVTIGSAGKP 488 Query: 214 AETIEHCFVATYAQYSKKCALLQQLLQSQDTMKNGIIFCNQKKNVVNLCHSLEKQGFSVC 273 +E +K L ++L+S IIF N KK L LEK G+ V Sbjct: 489 TPRVEQ--KVEMVSEDEKRKKLIEILESNFD-PPIIIFVNTKKGADALAKILEKAGYKVT 545 Query: 274 AIHGNIDQRSRMKILSNFKEGTIQLMVASDLAARGLDIPDVGHVFNFDVPNRAENYIHRI 333 +HG Q R L++F+EGT ++VA+D+A RG+DIP+V V N+D+ E+Y HRI Sbjct: 546 TLHGGKSQEQRENALADFREGTGDILVATDVAGRGIDIPNVSLVINYDMAKSIEDYTHRI 605 Query: 334 GRTGRAGRHGKAFTLVAKED 353 GRTGRAG+ G A + + D Sbjct: 606 GRTGRAGKSGTAISFLTPAD 625 >gnl|CDD|35556 KOG0335, KOG0335, KOG0335, ATP-dependent RNA helicase [RNA processing and modification]. Length = 482 Score = 266 bits (682), Expect = 9e-72 Identities = 136/396 (34%), Positives = 214/396 (54%), Gaps = 25/396 (6%) Query: 2 DFADLGLSPKVVCAVLDAGYVKPTPIQIKTIPLVLQRHDVCGIAQTGTGKTASFVLPMLT 61 F + L + + +GY KPTP+Q +IP++ D+ AQTG+GKTA+F++P+++ Sbjct: 75 TFDEAILGEALAGNIKRSGYTKPTPVQKYSIPIISGGRDLMACAQTGSGKTAAFLIPIIS 134 Query: 62 ILEKGR-------ARVRMPRTLILEPTRELAAQVADNFEKYGKNYNLTVALLIGGIPFEA 114 L PR LIL PTREL Q+ + K+ + ++ GG A Sbjct: 135 YLLDEGPEDRGESGGGVYPRALILAPTRELVDQIYNEARKFSYLSGMKSVVVYGGTDLGA 194 Query: 115 QNKKLERGADVLICTPGRILDHFNRGKLLMNNIEILVIDEADRMLD-MGFIPYIQNI--- 170 Q + ++RG D+L+ TPGR+ D RGK+ ++N + LV+DEADRMLD MGF P I+ I Sbjct: 195 QLRFIKRGCDILVATPGRLKDLIERGKISLDNCKFLVLDEADRMLDEMGFEPQIRKIVEQ 254 Query: 171 -TSLVPFTRQTLLFSATMTDELQKVSENFL-QNPKRIEVNTPSSTAETIEHCFVATYAQY 228 RQTLLFSAT E+Q+++ +FL N + V ST+E I + + Sbjct: 255 LGMPPKNNRQTLLFSATFPKEIQRLAADFLKDNYIFLAVGRVGSTSENITQKILFVN-EM 313 Query: 229 SKKCALLQQLLQSQDTMKNG-------IIFCNQKKNVVNLCHSLEKQGFSVCAIHGNIDQ 281 K+ LL L + +G ++F K+ L L G+ +IHG+ Q Sbjct: 314 EKRSKLLDLLNKDDGPPSDGEPKWEKTLVFVETKRGADELAAFLSSNGYPAKSIHGDRTQ 373 Query: 282 RSRMKILSNFKEGTIQLMVASDLAARGLDIPDVGHVFNFDVPNRAENYIHRIGRTGRAGR 341 R + L++F+ G ++VA+++AARGLDIP+V HV N+D+P ++Y+HRIGRTGR G Sbjct: 374 IEREQALNDFRNGKAPVLVATNVAARGLDIPNVKHVINYDMPADIDDYVHRIGRTGRVGN 433 Query: 342 HGKAFTLVAKEDIKHIDAIEKLIEK----KVDWLNG 373 G+A + +++ A+ +++ + WL+ Sbjct: 434 GGRATSFFNEKNQNIAKALVEILTEANQEVPQWLSE 469 >gnl|CDD|35557 KOG0336, KOG0336, KOG0336, ATP-dependent RNA helicase [RNA processing and modification]. Length = 629 Score = 265 bits (678), Expect = 2e-71 Identities = 132/361 (36%), Positives = 218/361 (60%), Gaps = 7/361 (1%) Query: 10 PKVVCAVLDAGYVKPTPIQIKTIPLVLQRHDVCGIAQTGTGKTASFVLPMLTILE---KG 66 P+V+ + G+ KPTPIQ + P++LQ D+ G+AQTGTGKT +F+LP ++ K Sbjct: 229 PEVMENIKKTGFQKPTPIQSQAWPILLQGIDLIGVAQTGTGKTLAFLLPGFIHIDAQPKR 288 Query: 67 RARVRMPRTLILEPTRELAAQVADNFEKYGKNYNLTVALLIGGIPFEAQNKKLERGADVL 126 R + P L+L PTRELA Q+ +KY N +V + GG E Q + L+RG +++ Sbjct: 289 REQRNGPGVLVLTPTRELALQIEGEVKKYSYNGLKSVCVYGGGNRNE-QIEDLKRGVEII 347 Query: 127 ICTPGRILDHFNRGKLLMNNIEILVIDEADRMLDMGFIPYIQNITSLVPFTRQTLLFSAT 186 I TPGR+ D + + +I LV+DEADRMLDMGF P I+ I + RQT++ SAT Sbjct: 348 IATPGRLNDLQMDNVINLASITYLVLDEADRMLDMGFEPQIRKILLDIRPDRQTVMTSAT 407 Query: 187 MTDELQKVSENFLQNPKRIEVNTPSSTA-ETIEHCFVATYAQYSKKCALLQQLLQSQDTM 245 + ++++++++L+ P + V + A ++++ + T S+K ++Q + + + Sbjct: 408 WPEGVRRLAQSYLKEPMIVYVGSLDLVAVKSVKQNIIVTTD--SEKLEIVQFFVANMSSN 465 Query: 246 KNGIIFCNQKKNVVNLCHSLEKQGFSVCAIHGNIDQRSRMKILSNFKEGTIQLMVASDLA 305 IIF ++K +L +G S ++HGN +Q R L +FK G ++++VA+DLA Sbjct: 466 DKVIIFVSRKVMADHLSSDFCLKGISSQSLHGNREQSDREMALEDFKSGEVRILVATDLA 525 Query: 306 ARGLDIPDVGHVFNFDVPNRAENYIHRIGRTGRAGRHGKAFTLVAKEDIKHIDAIEKLIE 365 +RGLD+PD+ HV+N+D P E Y+HR+GRTGRAGR G + + + + D + + +++E Sbjct: 526 SRGLDVPDITHVYNYDFPRNIEEYVHRVGRTGRAGRTGTSISFLTRNDWSMAEELIQILE 585 Query: 366 K 366 + Sbjct: 586 R 586 >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 = 263 bits (673), Expect = 7e-71 Identities = 138/376 (36%), Positives = 213/376 (56%), Gaps = 5/376 (1%) Query: 3 FADLGLSPKVVCAVLDAGYVKPTPIQIKTIPLVLQRHDVCGIAQTGTGKTASFVLPMLTI 62 F D+GL ++ + G+ KP+ IQ + IP +L+ DV AQ+GTGKTA+F + +L Sbjct: 29 FDDMGLKEDLLRGIYAYGFEKPSAIQQRAIPQILKGRDVIAQAQSGTGKTATFSISVLQS 88 Query: 63 LEKGRARVRMPRTLILEPTRELAAQVADNFEKYGKNYNLTVALLIGGIPFEAQNKKLERG 122 L+ VR + LIL PTRELA Q+ G N+ IGG KKL+ G Sbjct: 89 LD---ISVRETQALILSPTRELAVQIQKVILALGDYMNVQCHACIGGKNLGEDIKKLDYG 145 Query: 123 ADVLICTPGRILDHFNRGKLLMNNIEILVIDEADRMLDMGFIPYIQNITSLVPFTRQTLL 182 V+ TPGR+LD R L +++LV+DEAD ML+ GF I +I +P Q +L Sbjct: 146 QHVVSGTPGRVLDMIKRRSLRTRAVKMLVLDEADEMLNKGFKEQIYDIYRYLPPGAQVVL 205 Query: 183 FSATMTDELQKVSENFLQNPKRIEVNTPSSTAETIEHCFVATYAQYSKKCALLQQLLQSQ 242 SAT+ E+ +++E F+ +P RI V T E I+ FVA + K L L Sbjct: 206 VSATLPHEILEMTEKFMTDPVRILVKRDELTLEGIKQFFVAVEKEEWKFDTLCD--LYDT 263 Query: 243 DTMKNGIIFCNQKKNVVNLCHSLEKQGFSVCAIHGNIDQRSRMKILSNFKEGTIQLMVAS 302 T+ +IFCN K+ V L + + F+V ++HG+++Q+ R KI+++F+ G ++++ + Sbjct: 264 LTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMEQKERDKIMNDFRSGKSRVLITT 323 Query: 303 DLAARGLDIPDVGHVFNFDVPNRAENYIHRIGRTGRAGRHGKAFTLVAKEDIKHIDAIEK 362 D+ ARG+D+ V V N+D+PN E YIHRIGR+GR GR G A V +D++ + IE+ Sbjct: 324 DVWARGIDVQQVSLVINYDLPNNRELYIHRIGRSGRFGRKGVAINFVKSDDLRILRDIEQ 383 Query: 363 LIEKKVDWLNGDLSSL 378 ++D + +++ L Sbjct: 384 YYSTQIDEMPMNVADL 399 >gnl|CDD|35561 KOG0340, KOG0340, KOG0340, ATP-dependent RNA helicase [RNA processing and modification]. Length = 442 Score = 262 bits (670), Expect = 2e-70 Identities = 143/419 (34%), Positives = 224/419 (53%), Gaps = 18/419 (4%) Query: 2 DFADLGLSPKVVCAVLDAGYVKPTPIQIKTIPLVLQRHDVCGIAQTGTGKTASFVLPMLT 61 F+ LGLSP +V + G KPTPIQ IP +L+ D G A+TG+GKTA+F LP+L Sbjct: 8 PFSILGLSPWLVEQLKALGIKKPTPIQQACIPKILEGRDCIGCAKTGSGKTAAFALPILN 67 Query: 62 ILEKGRARVRMPRTLILEPTRELAAQVADNFEKYGKNYNLTVALLIGGIPFEAQNKKLER 121 L + + L+L PTRELA Q+A+ F GK NL V++++GG Q L Sbjct: 68 RLSEDPYGIF---ALVLTPTRELALQIAEQFIALGKLLNLKVSVIVGGTDMIMQAAILSD 124 Query: 122 GADVLICTPGRILDHFNRGKL-----LMNNIEILVIDEADRMLDMGFIPYIQNITSLVPF 176 V++ TPGR+ DH L + ++ LV+DEADR+L F ++ I +P Sbjct: 125 RPHVVVATPGRLADHL-SSNLGVCSWIFQRLKFLVLDEADRVLAGCFPDILEGIEECLPK 183 Query: 177 TRQTLLFSATMTDELQKVSENFLQNP--KRIEVNTPSSTAETIEHCFVATYAQYSKKCAL 234 RQTLLFSAT+TD ++++ + +EV ST ET+ ++ + K L Sbjct: 184 PRQTLLFSATITDTIKQLFGCPITKSIAFELEVIDGVSTVETLYQGYILV-SIDVKDAYL 242 Query: 235 LQQLLQSQDTMK-NGIIFCNQKKNVVNLCHSLEKQGFSVCAIHGNIDQRSRMKILSNFKE 293 + L ++ + +IF N + L +L+ V ++H + Q+ R+ LS F+ Sbjct: 243 VHLLRDFENKENGSIMIFVNTTRECQLLSMTLKNLEVRVVSLHSQMPQKERLAALSRFRS 302 Query: 294 GTIQLMVASDLAARGLDIPDVGHVFNFDVPNRAENYIHRIGRTGRAGRHGKAFTLVAKED 353 ++++A+D+A+RGLDIP V V N D+P ++YIHR+GRT RAGR G A ++V + D Sbjct: 303 NAARILIATDVASRGLDIPTVELVVNHDIPRDPKDYIHRVGRTARAGRKGMAISIVTQRD 362 Query: 354 IKHIDAIEKLIEKKVDWLNGDLSSLNPPLEKIDIAQHNHARKNNPIPQKSTGFDRRKKN 412 ++ + AIE+ I KK+ N ++ + Q A++ + + GF R + Sbjct: 363 VELLQAIEEEIGKKLTEYNKV-----QRTVELYVTQVTVAKREAEMKMDNNGFGERAQK 416 >gnl|CDD|35560 KOG0339, KOG0339, KOG0339, ATP-dependent RNA helicase [RNA processing and modification]. Length = 731 Score = 261 bits (669), Expect = 2e-70 Identities = 134/355 (37%), Positives = 209/355 (58%), Gaps = 3/355 (0%) Query: 3 FADLGLSPKVVCAVLDAGYVKPTPIQIKTIPLVLQRHDVCGIAQTGTGKTASFVLPMLTI 62 F G +++ A+ + Y KPTPIQ + +P L DV GIA+TG+GKTA+F+ PM+ Sbjct: 225 FEHFGFDKQLMTAIRKSEYEKPTPIQCQALPTALSGRDVIGIAKTGSGKTAAFIWPMIVH 284 Query: 63 L--EKGRARVRMPRTLILEPTRELAAQVADNFEKYGKNYNLTVALLIGGIPFEAQNKKLE 120 + + P +IL PTRELA+Q+ +K+GK Y L V + GG Q+K+L+ Sbjct: 285 IMDQPELKPGEGPIGVILVPTRELASQIFSEAKKFGKAYGLRVVAVYGGGSKWEQSKELK 344 Query: 121 RGADVLICTPGRILDHFNRGKLLMNNIEILVIDEADRMLDMGFIPYIQNITSLVPFTRQT 180 GA++++ TPGR++D ++ + LV+DEADRM DMGF P +++I + RQT Sbjct: 345 EGAEIVVATPGRLIDMVKMKATNLSRVSYLVLDEADRMFDMGFEPQVRSIKQHIRPDRQT 404 Query: 181 LLFSATMTDELQKVSENFLQNPKRIEVNTPSSTAETIEHCFVATYAQYSKKCALLQQLLQ 240 LLFSAT +++K++ + L +P R+ E I ++ K LL+ L++ Sbjct: 405 LLFSATFKKKIEKLARDILSDPVRVVQGEVGEANEDITQTVSVCPSEEKKLNWLLRHLVE 464 Query: 241 SQDTMKNGIIFCNQKKNVVNLCHSLEKQGFSVCAIHGNIDQRSRMKILSNFKEGTIQLMV 300 K +IF +K + + +L+ +GF+V +HG+ DQ R ++LS FK+ ++V Sbjct: 465 FSSEGKV-LIFVTKKADAEEIAANLKLKGFNVSLLHGDKDQAERNEVLSKFKKKRKPVLV 523 Query: 301 ASDLAARGLDIPDVGHVFNFDVPNRAENYIHRIGRTGRAGRHGKAFTLVAKEDIK 355 A+D+AARGLDIP + V N+D + + HRIGRTGRAG G A+TLV ++D + Sbjct: 524 ATDVAARGLDIPSIKTVVNYDFARDIDTHTHRIGRTGRAGEKGVAYTLVTEKDAE 578 >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 = 256 bits (656), Expect = 8e-69 Identities = 132/361 (36%), Positives = 205/361 (56%), Gaps = 9/361 (2%) Query: 3 FADLGLSPKVVCAVLDAGYVKPTPIQIKTIPLVLQRHDVCGIAQTGTGKTASFVLPMLTI 62 F D+ L ++ + G+ KP+ IQ + I ++ HDV AQ+GTGKTA+F++ I Sbjct: 28 FDDMNLKESLLRGIYAYGFEKPSAIQQRAILPCIKGHDVIAQAQSGTGKTAAFLIS---I 84 Query: 63 LEKGRARVRMPRTLILEPTRELAAQVADNFEKYGKNYNLTVALLIGGIPFEAQNKKLER- 121 L++ V+ + LIL PTRELA Q+ G + +++V IGG +++ L + Sbjct: 85 LQQIDMSVKETQALILAPTRELAQQIQKVVRALGDHMDVSVHACIGGTNVRREDQALLKD 144 Query: 122 GADVLICTPGRILDHFNRGKLLMNNIEILVIDEADRMLDMGFIPYIQNITSLVPFTRQTL 181 +++ TPGR+ D NRG L + I++ V+DEAD ML GF I +I +P Q + Sbjct: 145 KPHIVVGTPGRVFDMLNRGSLSTDGIKMFVLDEADEMLSRGFKDQIYDIFQELPSDVQVV 204 Query: 182 LFSATMTDELQKVSENFLQNPKRIEVNTPSSTAETIEHCFVATYAQYSKKCALLQQLLQS 241 L SATM ++ +V++ F++ P RI V T E I+ ++ +K L L Sbjct: 205 LLSATMPSDVLEVTKKFMREPVRILVKKDELTLEGIKQFYI-----NVEKEEKLDTLCDL 259 Query: 242 QDTMKNGIIFCNQKKNVVNLCHSLEKQGFSVCAIHGNIDQRSRMKILSNFKEGTIQLMVA 301 + +IFCN ++ V NL L GF+V AIHG+++Q R ++ F+ G+ ++++ Sbjct: 260 YRRVTQAVIFCNTRRKVDNLTDKLRAHGFTVSAIHGDMEQNERDTLMREFRSGSSRVLIT 319 Query: 302 SDLAARGLDIPDVGHVFNFDVPNRAENYIHRIGRTGRAGRHGKAFTLVAKEDIKHIDAIE 361 +DL ARG+D+ V V N+D+P R ENYIHRIGR GR GR G A V +ED++ + IE Sbjct: 320 TDLLARGIDVQQVSLVVNYDLPARKENYIHRIGRAGRFGRKGVAINFVTEEDVRDLKDIE 379 Query: 362 K 362 K Sbjct: 380 K 380 >gnl|CDD|35563 KOG0342, KOG0342, KOG0342, ATP-dependent RNA helicase pitchoune [RNA processing and modification]. Length = 543 Score = 251 bits (643), Expect = 3e-67 Identities = 139/389 (35%), Positives = 214/389 (55%), Gaps = 8/389 (2%) Query: 3 FADLGLSPKVVCAVLDAGYVKPTPIQIKTIPLVLQRHDVCGIAQTGTGKTASFVLPMLTI 62 F + LSP + A+ + G+ TP+Q KTIP +L+ DV A+TGTGKT +F+LP + + Sbjct: 84 FEEGSLSPLTLKAIKEMGFETMTPVQQKTIPPLLEGKDVLAAAKTGTGKTLAFLLPAIEL 143 Query: 63 LEKGRARVRMP-RTLILEPTRELAAQVADNFEKYGK-NYNLTVALLIGGIPFEAQNKKLE 120 L K + + R LI+ PTRELA Q+ ++ K + ++TV ++IGG F + KL Sbjct: 144 LRKLKFKPRNGTGVLIICPTRELAMQIFAEAKELLKYHESITVGIVIGGNNFSVEADKLV 203 Query: 121 RGADVLICTPGRILDHF-NRGKLLMNNIEILVIDEADRMLDMGFIPYIQNITSLVPFTRQ 179 +G ++LI TPGR+LDH N L N++ LV+DEADR+LD+GF ++ I ++P RQ Sbjct: 204 KGCNILIATPGRLLDHLQNTSGFLFRNLKCLVLDEADRLLDIGFEEDVEQIIKILPKQRQ 263 Query: 180 TLLFSATMTDELQKVSENFL-QNPKRIEV--NTPSSTAETIEHCFVATYAQYSKKCALLQ 236 TLLFSAT +++ ++ L ++P + V T E +E +V A + +LL Sbjct: 264 TLLFSATQPSKVKDLARGALKRDPVFVNVDDGGERETHERLEQGYVV--APSDSRFSLLY 321 Query: 237 QLLQSQDTMKNGIIFCNQKKNVVNLCHSLEKQGFSVCAIHGNIDQRSRMKILSNFKEGTI 296 L+ I+F + +V L V IHG Q R F + Sbjct: 322 TFLKKNIKRYKIIVFFSTCMSVKFHAELLNYIDLPVLEIHGKQKQNKRTSTFFEFCKAES 381 Query: 297 QLMVASDLAARGLDIPDVGHVFNFDVPNRAENYIHRIGRTGRAGRHGKAFTLVAKEDIKH 356 ++V +D+AARGLDIPDV V +D P+ E YIHR+GRT R G+ GKA L+A ++ Sbjct: 382 GILVCTDVAARGLDIPDVDWVVQYDPPSDPEQYIHRVGRTAREGKEGKALLLLAPWELGF 441 Query: 357 IDAIEKLIEKKVDWLNGDLSSLNPPLEKI 385 + ++KL ++ ++ + LEK+ Sbjct: 442 LRYLKKLPLEEFEFPPLKPEDVQSQLEKL 470 >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 = 251 bits (643), Expect = 3e-67 Identities = 100/204 (49%), Positives = 140/204 (68%), Gaps = 1/204 (0%) Query: 3 FADLGLSPKVVCAVLDAGYVKPTPIQIKTIPLVLQRHDVCGIAQTGTGKTASFVLPMLTI 62 F +LGLSP+++ + G+ KPTPIQ + IP +L DV G AQTG+GKTA+F++P+L Sbjct: 1 FEELGLSPELLRGIYALGFEKPTPIQARAIPPLLSGRDVIGQAQTGSGKTAAFLIPILEK 60 Query: 63 LEKGRARVRMPRTLILEPTRELAAQVADNFEKYGKNYNLTVALLIGGIPFEAQNKKLERG 122 L+ + P+ LIL PTRELA Q+A+ K GK+ NL V ++ GG + Q +KL+RG Sbjct: 61 LDP-SPKKDGPQALILAPTRELALQIAEVARKLGKHTNLKVVVIYGGTSIDKQIRKLKRG 119 Query: 123 ADVLICTPGRILDHFNRGKLLMNNIEILVIDEADRMLDMGFIPYIQNITSLVPFTRQTLL 182 +++ TPGR+LD RGKL ++ ++ LV+DEADRMLDMGF I+ I L+P RQTLL Sbjct: 120 PHIVVATPGRLLDLLERGKLDLSKVKYLVLDEADRMLDMGFEDQIREILKLLPKDRQTLL 179 Query: 183 FSATMTDELQKVSENFLQNPKRIE 206 FSATM E++ ++ FL+NP RI Sbjct: 180 FSATMPKEVRDLARKFLRNPVRIL 203 >gnl|CDD|35555 KOG0334, KOG0334, KOG0334, RNA helicase [RNA processing and modification]. Length = 997 Score = 248 bits (635), Expect = 2e-66 Identities = 146/463 (31%), Positives = 235/463 (50%), Gaps = 16/463 (3%) Query: 4 ADLGLSPKVVCAVLDAGYVKPTPIQIKTIPLVLQRHDVCGIAQTGTGKTASFVLPMLTIL 63 GLS K++ + GY KPTPIQ + IP ++ DV G+A+TG+GKT +F+LPM+ + Sbjct: 368 TQCGLSSKILETLKKLGYEKPTPIQAQAIPAIMSGRDVIGVAKTGSGKTLAFLLPMIRHI 427 Query: 64 EKGR--ARVRMPRTLILEPTRELAAQVADNFEKYGKNYNLTVALLIGGIPFEAQNKKLER 121 + R P LIL PTRELA Q+ K+ K + V + GG Q +L+R Sbjct: 428 KDQRPLEEGDGPIALILAPTRELAMQIHREVRKFLKLLGIRVVCVYGGSGISQQIAELKR 487 Query: 122 GADVLICTPGRILDHF--NRGKLL-MNNIEILVIDEADRMLDMGFIPYIQNITSLVPFTR 178 GA++++CTPGR++D N G++ + + LV+DEADRM DMGF P I I + R Sbjct: 488 GAEIVVCTPGRMIDILCANSGRVTNLRRVTYLVLDEADRMFDMGFEPQITRILQNLRPDR 547 Query: 179 QTLLFSATMTDELQKVSENFLQNPKRIEVNTPSSTAETIEHCFVATYAQYSKKCALLQQL 238 QT+LFSAT ++ ++ L+ P I V S + + + K LL+ L Sbjct: 548 QTVLFSATFPRSMEALARKVLKKPVEIIVGGRSVVCKEVTQVVRVCAIENEKFLKLLELL 607 Query: 239 LQSQDTMKNGIIFCNQKKNVVNLCHSLEKQGFSVCAIHGNIDQRSRMKILSNFKEGTIQL 298 + + K IIF ++++ L L+K G++ ++HG +DQ R + +FK G + L Sbjct: 608 GERYEDGKT-IIFVDKQEKADALLRDLQKAGYNCDSLHGGVDQHDRSSTIEDFKNGVVNL 666 Query: 299 MVASDLAARGLDIPDVGHVFNFDVPNRAENYIHRIGRTGRAGRHGKAFTLVAKEDIKHID 358 +VA+ + ARGLD+ ++ V N+D PN E+Y+HR+GRTGRAGR G A T + + +K+ Sbjct: 667 LVATSVVARGLDVKELILVVNYDFPNHYEDYVHRVGRTGRAGRKGAAVTFITPDQLKYAG 726 Query: 359 AIEKLIEKKVDWLNGDLSSLNPPLEKIDIAQH-NHARKNNPIPQKSTGFDRRKKNYSSQK 417 + K +E P L + + + GF + + + Sbjct: 727 DLCKALELS--------KQPVPKLLQALSERFKAKQKAGGSQVHGGGGFGGKGLKFDEVE 778 Query: 418 SHIPLKESEKISKLQQDIQENDADSLGFRGNMPAFMLPKNRGK 460 + +E ++ + ++E D +S N P+ + Sbjct: 779 EEL-RQERKEAQRKDLGLKEGDNESDIEVDNSDKASQPRESIQ 820 >gnl|CDD|35562 KOG0341, KOG0341, KOG0341, DEAD-box protein abstrakt [RNA processing and modification]. Length = 610 Score = 247 bits (631), Expect = 6e-66 Identities = 149/412 (36%), Positives = 223/412 (54%), Gaps = 30/412 (7%) Query: 2 DFADLGLSPKVVCAVLDAGYVKPTPIQIKTIPLVLQRHDVCGIAQTGTGKTASFVLPMLT 61 F ++ ++ + G V PTPIQ++ +P+VL D+ GIA TG+GKT FVLP++ Sbjct: 171 SFKEMKFPKPLLRGLKKKGIVHPTPIQVQGLPVVLSGRDMIGIAFTGSGKTLVFVLPVIM 230 Query: 62 I-LEKGR----ARVRMPRTLILEPTRELAAQVADNFEKYGKNYN------LTVALLIGGI 110 LE+ AR P LI+ P+RELA Q D E+Y L L IGG+ Sbjct: 231 FALEQEMMLPFARGEGPYGLIICPSRELARQTHDIIEQYVAALQEAGYPELRSLLCIGGV 290 Query: 111 PFEAQNKKLERGADVLICTPGRILDHFNRGKLLMNNIEILVIDEADRMLDMGFIPYIQNI 170 P Q + RG +++ TPGR++D + + ++ L +DEADRM+DMGF I+ I Sbjct: 291 PVREQLDVVRRGVHIVVATPGRLMDMLAKKIMSLDACRYLTLDEADRMIDMGFEDDIRTI 350 Query: 171 TSLVPFTRQTLLFSATMTDELQKVSENFLQNPKRIEVNTPSSTAETIEHCFVATYAQYSK 230 S RQTLLFSATM ++Q +++ L P + VN + A +++ V +Y K Sbjct: 351 FSFFKGQRQTLLFSATMPKKIQNFAKSALVKP--VTVNVGRAGAASLD---VIQEVEYVK 405 Query: 231 KCALLQQLLQS-QDTMKNGIIFCNQKKNVVNLCHSLEKQGFSVCAIHGNIDQRSRMKILS 289 + A + LL+ Q T +IF +K +V ++ L +G AIHG DQ R + Sbjct: 406 QEAKIVYLLECLQKTSPPVLIFAEKKADVDDIHEYLLLKGVEAVAIHGGKDQEDRHYAIE 465 Query: 290 NFKEGTIQLMVASDLAARGLDIPDVGHVFNFDVPNRAENYIHRIGRTGRAGRHGKAFTLV 349 F+ G ++VA+D+A++GLD PD+ HV N+D+P ENY+HRIGRTGR+G+ G A T + Sbjct: 466 AFRAGKKDVLVATDVASKGLDFPDIQHVINYDMPEEIENYVHRIGRTGRSGKTGIATTFI 525 Query: 350 AKE-------DIKHIDAIEKLIEKKVDWLNGDLSSLNPPLEKIDIAQHNHAR 394 K D+KH+ L E K + + L+ L P+E+ IA + Sbjct: 526 NKNQEESVLLDLKHL-----LQEAKQE-VPPVLAELAGPMEEETIADAGGEK 571 >gnl|CDD|35566 KOG0345, KOG0345, KOG0345, ATP-dependent RNA helicase [RNA processing and modification]. Length = 567 Score = 245 bits (627), Expect = 2e-65 Identities = 142/404 (35%), Positives = 216/404 (53%), Gaps = 34/404 (8%) Query: 1 MDFADLG--LSPKVVCAVLDAGYVKPTPIQIKTIPLVLQRHDVCGIAQTGTGKTASFVLP 58 F+ L LSP ++ A+ ++G+ K TP+Q TIPL+L+ DV A TG+GKT +F+LP Sbjct: 4 KSFSSLAPPLSPWLLEALDESGFEKMTPVQAATIPLLLKNKDVVVEAVTGSGKTLAFLLP 63 Query: 59 MLTILEKGRARVRMPR--TLILEPTRELAAQ---VADNFEKYGKNYNLTVALLIGGIPFE 113 ML I+ + A+ + LI+ PTRELA Q VA F ++ N L LL+GG E Sbjct: 64 MLEIIYRREAKTPPGQVGALIISPTRELARQIREVAQPFLEHLPN--LNCELLVGGRSVE 121 Query: 114 AQNKKLER-GADVLICTPGRILDHFNRG--KLLMNNIEILVIDEADRMLDMGFIPYIQNI 170 K + G ++L+ TPGR+LD R KL ++EILV+DEADR+LDMGF + I Sbjct: 122 EDIKTFKEEGPNILVGTPGRLLDILQREAEKLSFRSLEILVLDEADRLLDMGFEASVNTI 181 Query: 171 TSLVPFTRQTLLFSATMTDELQKVSENFLQNPKRIEVNTPSSTAETIEHCFVATYAQYSK 230 S +P R+T LFSAT T E++ ++ L+NP R+ V S +A ++ A Sbjct: 182 LSFLPKQRRTGLFSATQTQEVEDLARAGLRNPVRVSVKEKSKSATP------SSLALEYL 235 Query: 231 KCALLQQLLQ-----SQDTMKNGIIFCNQKKNVVNLCHSLEK--QGFSVCAIHGNIDQRS 283 C ++L Q + + K I+F +V + + + +IHG + Q++ Sbjct: 236 VCEADEKLSQLVHLLNNNKDKKCIVFFPTCASVEYFGKLFSRLLKKREIFSIHGKMSQKA 295 Query: 284 RMKILSNFKEGTIQLMVASDLAARGLDIPDVGHVFNFDVPNRAENYIHRIGRTGRAGRHG 343 R K+L F++ + ++ +D+AARGLDIP + V FD P +++HR GRT RAGR G Sbjct: 296 RAKVLEAFRKLSNGVLFCTDVAARGLDIPGIDLVVQFDPPKDPSSFVHRCGRTARAGREG 355 Query: 344 KAFTLVAKE--------DIKHIDAIEKL-IEKKVDWLNGDLSSL 378 A + IK +E++ EK + D+ S+ Sbjct: 356 NAIVFLNPREEAYVEFLRIKGKVELERIDTEKASLSVYQDIRSI 399 >gnl|CDD|35558 KOG0337, KOG0337, KOG0337, ATP-dependent RNA helicase [RNA processing and modification]. Length = 529 Score = 241 bits (616), Expect = 3e-64 Identities = 132/354 (37%), Positives = 205/354 (57%), Gaps = 4/354 (1%) Query: 3 FADLGLSPKVVCAVLDAGYVKPTPIQIKTIPLVLQRHDVCGIAQTGTGKTASFVLPMLTI 62 F +GL KV+ A+ G+ PTPIQ KTIPL+L+ DV G+A+TG+GKTA+F++PM+ Sbjct: 23 FQSMGLDYKVLRAIHKKGFNTPTPIQRKTIPLILEGRDVVGMARTGSGKTAAFLIPMIEK 82 Query: 63 LEKGRARVRMPRTLILEPTRELAAQVADNFEKYGKNYNLTVALLIGGIPFEAQNKKLERG 122 L K ++ + R LIL PTRELA Q + G+ L +LL+GG E Q L Sbjct: 83 L-KSHSQTGL-RALILSPTRELALQTLKVVKDLGRGTKLRQSLLVGGDSIEEQFILLNEN 140 Query: 123 ADVLICTPGRILDHFNRGKLLMNNIEILVIDEADRMLDMGFIPYIQNITSLVPFTRQTLL 182 D++I TPGR+L L ++++E +V DEADR+ +MGF + I S +P +RQTLL Sbjct: 141 PDIIIATPGRLLHLGVEMTLTLSSVEYVVFDEADRLFEMGFQEQLHEILSRLPESRQTLL 200 Query: 183 FSATMTDELQKVSENFLQNPKRIEVNTPSSTAETIEHCFVATYAQYSKKCALLQQLLQSQ 242 FSAT+ +L ++ L P + ++ + +E ++ F + ++K A L +L + Sbjct: 201 FSATLPRDLVDFAKAGLVPPVLVRLDVETKISELLKVRFF--RVRKAEKEAALLSILGGR 258 Query: 243 DTMKNGIIFCNQKKNVVNLCHSLEKQGFSVCAIHGNIDQRSRMKILSNFKEGTIQLMVAS 302 K I+F K +V + L G I+ ++DQ +R +F+ ++V + Sbjct: 259 IKDKQTIVFVATKHHVEYVRGLLRDFGGEGSDIYSSLDQEARKINGRDFRGRKTSILVVT 318 Query: 303 DLAARGLDIPDVGHVFNFDVPNRAENYIHRIGRTGRAGRHGKAFTLVAKEDIKH 356 D+AARGLDIP + +V N+D P + ++HR+GR RAGR G+A++LVA D + Sbjct: 319 DVAARGLDIPLLDNVINYDFPPDDKLFVHRVGRVARAGRTGRAYSLVASTDDPY 372 >gnl|CDD|35564 KOG0343, KOG0343, KOG0343, RNA Helicase [RNA processing and modification]. Length = 758 Score = 241 bits (615), Expect = 4e-64 Identities = 134/394 (34%), Positives = 215/394 (54%), Gaps = 13/394 (3%) Query: 1 MDFADLGLSPKVVCAVLDAGYVKPTPIQIKTIPLVLQRHDVCGIAQTGTGKTASFVLPML 60 FADL LS K + + +A +VK T IQ TIP+ LQ HDV G A+TG+GKT +F++P+L Sbjct: 69 KKFADLPLSQKTLKGLKEAKFVKMTEIQRDTIPMALQGHDVLGAAKTGSGKTLAFLVPVL 128 Query: 61 TIL-EKGRARVRMPRTLILEPTRELAAQVADNFEKYGKNYNLTVALLIGGIPFEAQNKKL 119 L + LI+ PTRELA Q + K GK+++ + L+IGG + + +++ Sbjct: 129 EALYRLKWSPTDGLGALIISPTRELALQTFEVLNKVGKHHDFSAGLIIGGKDVKFELERI 188 Query: 120 ERGADVLICTPGRILDHFNRGKLL-MNNIEILVIDEADRMLDMGFIPYIQNITSLVPFTR 178 + ++L+CTPGR+L H + +N+++LV+DEADRMLDMGF + I +P R Sbjct: 189 SQ-MNILVCTPGRLLQHMDENPNFSTSNLQMLVLDEADRMLDMGFKKTLNAIIENLPKKR 247 Query: 179 QTLLFSATMTDELQKVSENFLQNPKRIEV--NTPSSTAETIEHCFVATYAQYSKKCALLQ 236 QTLLFSAT T ++ ++ L++P + V N ++T ++ +V + K +L Sbjct: 248 QTLLFSATQTKSVKDLARLSLKDPVYVSVHENAVAATPSNLQQSYVIVPLE--DKIDMLW 305 Query: 237 QLLQSQDTMKNGIIFCNQKKNVVNLCHSLEK--QGFSVCAIHGNIDQRSRMKILSNFKEG 294 ++S K I+F + K V L + + G + A+HG + Q+ R+++ F Sbjct: 306 SFIKSHLKKK-SIVFLSSCKQVKFLYEAFCRLRPGIPLLALHGTMSQKKRIEVYKKFVRK 364 Query: 295 TIQLMVASDLAARGLDIPDVGHVFNFDVPNRAENYIHRIGRTGRAGRHGKAFT-LVAKED 353 ++ +D+AARGLD P V V D P + YIHR+GRT R G++ L E+ Sbjct: 365 RAVVLFCTDVAARGLDFPAVDWVIQVDCPEDVDTYIHRVGRTARYKERGESLLMLTPSEE 424 Query: 354 IKHIDAIEK-LIE-KKVDWLNGDLSSLNPPLEKI 385 + ++K I K++ L+S+ LE + Sbjct: 425 EAMLKKLQKKKIPIKEIKIDPEKLTSIRNKLEAL 458 >gnl|CDD|35547 KOG0326, KOG0326, KOG0326, ATP-dependent RNA helicase [RNA processing and modification]. Length = 459 Score = 220 bits (562), Expect = 5e-58 Identities = 116/367 (31%), Positives = 197/367 (53%), Gaps = 7/367 (1%) Query: 2 DFADLGLSPKVVCAVLDAGYVKPTPIQIKTIPLVLQRHDVCGIAQTGTGKTASFVLPMLT 61 +F D L +++ + + G+ KP+PIQ ++IP+ L D+ A+ GTGKTA++ +P+L Sbjct: 86 EFEDYCLKRELLMGIFEKGFEKPSPIQEESIPIALTGRDILARAKNGTGKTAAYCIPVLE 145 Query: 62 ILEKGRARVRMPRTLILEPTRELAAQVADNFEKYGKNYNLTVALLIGGIPFEAQNKKLER 121 ++ + ++ +IL PTRELA Q + ++ K+ + V + GG +L + Sbjct: 146 KIDPKKNVIQ---AIILVPTRELALQTSQVCKELSKHLGIKVMVTTGGTSLRDDIMRLNQ 202 Query: 122 GADVLICTPGRILDHFNRGKLLMNNIEILVIDEADRMLDMGFIPYIQNITSLVPFTRQTL 181 +++ TPGRILD +G +++ ILV+DEAD++L + F P ++ + S +P RQ L Sbjct: 203 TVHLVVGTPGRILDLAKKGVADLSDCVILVMDEADKLLSVDFQPIVEKLISFLPKERQIL 262 Query: 182 LFSATMTDELQKVSENFLQNPKRIEVNTPSSTAETIEHCFVATYAQYSKKCALLQQLLQS 241 L+SAT ++ + L+ P I + + ++ + + +K L L S Sbjct: 263 LYSATFPLTVKGFMDRHLKKPYEINLMEELTLKGVTQY---YAFVEERQKVHCLNTLF-S 318 Query: 242 QDTMKNGIIFCNQKKNVVNLCHSLEKQGFSVCAIHGNIDQRSRMKILSNFKEGTIQLMVA 301 + + IIFCN V L + + G+S IH + Q R ++ +F+ G + +V Sbjct: 319 KLQINQSIIFCNSTNRVELLAKKITELGYSCYYIHAKMAQEHRNRVFHDFRNGKCRNLVC 378 Query: 302 SDLAARGLDIPDVGHVFNFDVPNRAENYIHRIGRTGRAGRHGKAFTLVAKEDIKHIDAIE 361 +DL RG+DI V V NFD P AE Y+HRIGR+GR G G A L+ ED ++ IE Sbjct: 379 TDLFTRGIDIQAVNVVINFDFPKNAETYLHRIGRSGRFGHLGLAINLITYEDRFNLYRIE 438 Query: 362 KLIEKKV 368 + + ++ Sbjct: 439 QELGTEI 445 >gnl|CDD|35553 KOG0332, KOG0332, KOG0332, ATP-dependent RNA helicase [RNA processing and modification]. Length = 477 Score = 216 bits (552), Expect = 9e-57 Identities = 123/387 (31%), Positives = 201/387 (51%), Gaps = 27/387 (6%) Query: 3 FADLGLSPKVVCAVLDAGYVKPTPIQIKTIPLVLQR--HDVCGIAQTGTGKTASFVLPML 60 F +L L P+++ + + KP+ IQ +PL+L ++ +Q+GTGKTA+FVL ML Sbjct: 92 FEELRLKPELLKGLYAMKFQKPSKIQETALPLLLAEPPQNLIAQSQSGTGKTAAFVLTML 151 Query: 61 TILEKGRARVRMPRTLILEPTRELAAQVADNFEKYGKNYNLTVALLIGGIPFEAQNKKLE 120 + ++ V +P+ + L PTRELA Q + E+ GK LT + I G K + Sbjct: 152 SRVD---PDVVVPQCICLAPTRELAPQTGEVVEEMGKFTELTASYAIRG-------SKAK 201 Query: 121 RGAD----VLICTPGRILDHFNRGKLL-MNNIEILVIDEADRMLDM-GFIPYIQNITSLV 174 RG ++I TPG +LD + K + + I++ V+DEAD M+D GF I + Sbjct: 202 RGNKLTEQIVIGTPGTVLDLMLKLKCIDLEKIKVFVLDEADVMIDTQGFQDQSIRIMRSL 261 Query: 175 PFTRQTLLFSATMTDELQKVSENFLQNPKRIEVNTPSSTAETIEHCFVATYAQYSKKCAL 234 P +Q LLFSAT +++ + + N I + + I+ +V + K AL Sbjct: 262 PRNQQLLLFSATFVEKVAAFALKIVPNANVIILKREELALDNIKQLYVLCACRDDKYQAL 321 Query: 235 LQQLLQSQDTMKNGIIFCNQKKNVVNLCHSLEKQGFSVCAIHGNIDQRSRMKILSNFKEG 294 + L T+ IIFC+ K + L + +G V +HG++ R I+ F+EG Sbjct: 322 VN--LYGLLTIGQSIIFCHTKATAMWLYEEMRAEGHQVSLLHGDLTVEQRAAIIDRFREG 379 Query: 295 TIQLMVASDLAARGLDIPDVGHVFNFDVPNRA------ENYIHRIGRTGRAGRHGKAFTL 348 ++++ +++ ARG+D+ V V N+D+P + E Y+HRIGRTGR G+ G A L Sbjct: 380 KEKVLITTNVCARGIDVAQVSVVVNYDLPVKYTGEPDYETYLHRIGRTGRFGKKGLAINL 439 Query: 349 V-AKEDIKHIDAIEKLIEKKVDWLNGD 374 V K+ + ++ I+K K+ L+ D Sbjct: 440 VDDKDSMNIMNKIQKHFNMKIKRLDPD 466 >gnl|CDD|35568 KOG0347, KOG0347, KOG0347, RNA helicase [RNA processing and modification]. Length = 731 Score = 209 bits (533), Expect = 1e-54 Identities = 120/413 (29%), Positives = 203/413 (49%), Gaps = 54/413 (13%) Query: 3 FADLGLSPKVVCAVLDAGYVKPTPIQIKTIPLVLQ-RHDVCGIAQTGTGKTASFVLPMLT 61 + +L L +++ A+ + G+ +PT IQ +P ++ + D+ G A+TG+GKT +F +P++ Sbjct: 183 WKNLFLPMEILRALSNLGFSRPTEIQSLVLPAAIRGKVDILGAAETGSGKTLAFGIPIVE 242 Query: 62 ILEKGR----------ARVRMPRTLILEPTRELAAQVADNFEKYGKNYNLTVALLIGGIP 111 L + A+ P L++ PTRELA QV + + + + VA + GG+ Sbjct: 243 RLLESSDDSQELSNTSAKYVKPIALVVTPTRELAHQVKQHLKAIAEKTQIRVASITGGLA 302 Query: 112 FEAQNKKLERGADVLICTPGRILDHFNRGKLLMNNIE---ILVIDEADRMLDMGFIPYIQ 168 + Q + L + D+++ TPGR+ + + N + LV+DEADRM++ G + Sbjct: 303 VQKQQRLLNQRPDIVVATPGRLWELIEEDNTHLGNFKKVKCLVLDEADRMVEKGHFEELS 362 Query: 169 NITSLVPFT-----RQTLLFSATMT-----------------DELQKVSEN------FLQ 200 + + RQTL+FSAT+T DEL ++ F Sbjct: 363 KLLKHLNEEQKNRQRQTLVFSATLTLVLQQPLSSSRKKKDKEDELNAKIQHLMKKIGFRG 422 Query: 201 NPKRIEVNTPSSTAETIEHCFVATYAQYSKKCALLQQ--LLQSQDTMKNG--IIFCNQKK 256 PK I++ S+TA T+ + +C L++ L T G ++FCN Sbjct: 423 KPKIIDLTPQSATASTLTESLI--------ECPPLEKDLYLYYFLTRYPGRTLVFCNSID 474 Query: 257 NVVNLCHSLEKQGFSVCAIHGNIDQRSRMKILSNFKEGTIQLMVASDLAARGLDIPDVGH 316 V L L +H ++ Q+ R+K L FK+ +++A+D+AARGLDIP V H Sbjct: 475 CVKRLTVLLNNLDIPPLPLHASMIQKQRLKNLEKFKQSPSGVLIATDVAARGLDIPGVQH 534 Query: 317 VFNFDVPNRAENYIHRIGRTGRAGRHGKAFTLVAKEDIKHIDAIEKLIEKKVD 369 V ++ VP +E Y+HR GRT RA G + L +++ + + K ++KK D Sbjct: 535 VIHYQVPRTSEIYVHRSGRTARANSEGVSVMLCGPQEVGPLKKLCKTLKKKED 587 >gnl|CDD|35567 KOG0346, KOG0346, KOG0346, RNA helicase [RNA processing and modification]. Length = 569 Score = 204 bits (521), Expect = 3e-53 Identities = 112/405 (27%), Positives = 191/405 (47%), Gaps = 44/405 (10%) Query: 3 FADLGLSPKVVCAVLDAGYVKPTPIQIKTIPLVLQRHDVCGIAQTGTGKTASFVLPMLTI 62 F + GL +++ A+ G+ KPT IQ IPL L+ DV A+TG+GKTA++++P+L Sbjct: 21 FEEFGLDSRLLKAITKLGWEKPTLIQSSAIPLALEGKDVVARARTGSGKTAAYLIPLLQK 80 Query: 63 L---EKGRARVRMPRTLILEPTRELAAQVADNFEKYGK--NYNLTVALLIGGIPFEAQNK 117 L +K + P +IL PT+ELA QV EK + + +L L + + Sbjct: 81 LLAEKKTNDGEQGPSAVILVPTKELAQQVYKVIEKLVEYCSKDLRAINLASSMSDSVNSV 140 Query: 118 KLERGADVLICTPGRILDHFNRGKLL-MNNIEILVIDEADRMLDMGFIPYIQNITSLVPF 176 L D+++ TP ++L H G L ++++ LV+DEAD +L G+ ++ + S +P Sbjct: 141 ALMDLPDIVVATPAKLLRHLAAGVLEYLDSLSFLVVDEADLLLSFGYEEDLKKLRSHLPR 200 Query: 177 TRQTLLFSATMTDELQKVSENFLQNPKRIEVNTPS-STAETIEHCFVATYAQYSKKCALL 235 Q L SAT++D++Q + + FL NP +++ + + V + K LL Sbjct: 201 IYQCFLMSATLSDDVQALKKLFLHNPVILKLTEGELPNPDQLTQYQVKCSEE--DKFLLL 258 Query: 236 QQLLQSQDTMKNGIIFCNQKKNVVNLCHSLEKQGFSVCAIHGNIDQRSRMKILSNFKEGT 295 LL+ + +IF N L LE+ G C ++ + SR I+ F +G Sbjct: 259 YALLKLRLIRGKSLIFVNTIDRCYRLKLFLEQFGIKSCILNSELPANSRCHIIEQFNKGL 318 Query: 296 IQLMVASDL-----------------------------------AARGLDIPDVGHVFNF 320 +++A+D +RG+D V +V NF Sbjct: 319 YDIVIATDDSADGDKLEEEVKGKSDEKNPKNDKKSKKKLDKESGVSRGIDFHHVSNVLNF 378 Query: 321 DVPNRAENYIHRIGRTGRAGRHGKAFTLVAKEDIKHIDAIEKLIE 365 D P +YIHR+GRT R G A + V+ ++ +++E +++ Sbjct: 379 DFPETVTSYIHRVGRTARGNNKGTALSFVSPKEEFGKESLESILK 423 >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 = 202 bits (516), Expect = 2e-52 Identities = 77/170 (45%), Positives = 108/170 (63%), Gaps = 3/170 (1%) Query: 25 TPIQIKTIPLVLQRHDVCGIAQTGTGKTASFVLPMLTILEKGRARVRMPRTLILEPTREL 84 TPIQ + IP +L+ DV A TG+GKT +F+LP L L K P+ L+L PTREL Sbjct: 1 TPIQAEAIPAILEGKDVLVQAPTGSGKTLAFLLPALQALLKNPDG---PQALVLAPTREL 57 Query: 85 AAQVADNFEKYGKNYNLTVALLIGGIPFEAQNKKLERGADVLICTPGRILDHFNRGKLLM 144 A Q+ + +K GK L VALL GG + Q +KL++G D+L+ TPGR+LD RG LL+ Sbjct: 58 AEQIYEELKKLGKYLGLKVALLYGGDSPKEQLRKLKKGPDILVGTPGRLLDLLERGGLLL 117 Query: 145 NNIEILVIDEADRMLDMGFIPYIQNITSLVPFTRQTLLFSATMTDELQKV 194 N+++LV+DEA R+LD GF ++ I +P RQ LL SAT+ ++ + Sbjct: 118 KNLKLLVLDEAHRLLDQGFGDDLEEILRRLPPKRQILLLSATLPRNVEDL 167 >gnl|CDD|35571 KOG0350, KOG0350, KOG0350, DEAD-box ATP-dependent RNA helicase [RNA processing and modification]. Length = 620 Score = 194 bits (495), Expect = 3e-50 Identities = 118/403 (29%), Positives = 184/403 (45%), Gaps = 65/403 (16%) Query: 26 PIQIKTIPLVLQRH---------DVCGIAQTGTGKTASFVLPMLTILEKGRARVRMPRTL 76 P+Q +P +L+ D+C A TG+GKT ++V+P++ +L V+ R + Sbjct: 162 PVQYAVLPSLLEEIRSPPPSRPRDICVNAPTGSGKTLAYVIPIVQLL--SSRPVKRLRAV 219 Query: 77 ILEPTRELAAQVADNFEKYGKNYNLTVALLIGGIPFEAQNKKL-----ERGADVLICTPG 131 ++ PTRELA QV D F++ L V L G E + ++L E D+L+ TPG Sbjct: 220 VIVPTRELALQVYDTFKRLNSGTGLAVCSLSGQNSLEDEARQLASDPPECRIDILVATPG 279 Query: 132 RILDHFNRGK-LLMNNIEILVIDEADRMLDMGF-----------------------IPYI 167 R++DH N K + ++ LVIDEADR+LD F I Sbjct: 280 RLVDHLNNTKSFDLKHLRFLVIDEADRLLDQSFQEWLDTVMSLCKTMKRVACLDNIIRQR 339 Query: 168 QNITSLV-----------PFTRQTLLFSATMTDELQKVSENFLQNPKRIEVNTPS----S 212 Q V L+FSAT++ + K+ + L P+ V+ P S Sbjct: 340 QAPQPTVLSELLTKLGKLYPPLWKLVFSATLSQDPSKLKDLTLHIPRLFHVSKPLIGRYS 399 Query: 213 TAETIEHCFVATYAQYSKKCALLQQLLQSQDTMKNGIIFCNQKKNVVNLCH----SLEKQ 268 ++ H V T ++ K + L+ S + + F N + L H Sbjct: 400 LPSSLSHRLVVTEPKF--KPLAVYALITSNK-LNRTLCFVNSVSSANRLAHVLKVEFCSD 456 Query: 269 GFSVCAIHGNIDQRSRMKILSNFKEGTIQLMVASDLAARGLDIPDVGHVFNFDVPNRAEN 328 F V G ++ + R K+L F +G I +++ SD ARG+D+ DV +V N+D P + Sbjct: 457 NFKVSEFTGQLNGKRRYKMLEKFAKGDINVLICSDALARGIDVNDVDNVINYDPPASDKT 516 Query: 329 YIHRIGRTGRAGRHGKAFTLVAKEDIKHIDAIEKLIEKKVDWL 371 Y+HR GRT RAG+ G A TL+ K + + KL++K W Sbjct: 517 YVHRAGRTARAGQDGYAITLLDKHEKRL---FSKLLKKTNLWD 556 >gnl|CDD|35569 KOG0348, KOG0348, KOG0348, ATP-dependent RNA helicase [RNA processing and modification]. Length = 708 Score = 193 bits (492), Expect = 8e-50 Identities = 116/427 (27%), Positives = 198/427 (46%), Gaps = 67/427 (15%) Query: 3 FADLGLSPKVVCAVLDA-GYVKPTPIQIKTIPLVLQRHDVCGIAQTGTGKTASFVLPMLT 61 FA LGL P +V + PT +Q + IP++L+ D AQTG+GKT +++LP++ Sbjct: 138 FASLGLHPHLVSHLNTKMKISAPTSVQKQAIPVLLEGRDALVRAQTGSGKTLAYLLPIVQ 197 Query: 62 ILEKGRARVRM---PRTLILEPTRELAAQVADNFEKYGKNYNLTV-ALLIGGIPFEAQNK 117 L+ +++ P L++ PTRELA Q+ + +K K ++ V +L+GG +++ Sbjct: 198 SLQAMEPKIQRSDGPYALVIVPTRELALQIYETVQKLLKPFHWIVPGVLMGGEKKKSEKA 257 Query: 118 KLERGADVLICTPGRILDHF-NRGKLLMNNIEILVIDEADRMLDMGFIPYIQNITSLV-- 174 +L +G ++LI TPGR++DH N + + + LV+DEADR+L++GF I I V Sbjct: 258 RLRKGINILIGTPGRLVDHLKNTKSIKFSRLRWLVLDEADRLLELGFEKDITQILKAVHS 317 Query: 175 -----------PFTRQTLLFSATMTDELQKVSENFLQNPKRIEV-NTPSSTAETIEHCFV 222 P Q +L SAT+TD + ++++ L++P I + + S + Sbjct: 318 IQNAECKDPKLPHQLQNMLLSATLTDGVNRLADLSLKDPVYISLDKSHSQLNPKDKAVQE 377 Query: 223 ATYAQYSKKCALLQ---QLLQSQDTMKNGIIFCNQKKNVVNLCHSLEKQG----FSVC-- 273 K QLLQ + + ++N EKQ FS Sbjct: 378 VDDGPAGDKLDSFAIPEQLLQRYTVVPPKLRLVALAALLLNKVKFEEKQKMIVFFSCSDS 437 Query: 274 --------------------------------------AIHGNIDQRSRMKILSNFKEGT 295 +HG+++Q R + F Sbjct: 438 VEFHYSLFSEALLSHLEGSSGAPDSEGLPPLFMDLKFYRLHGSMEQEERTSVFQEFSHSR 497 Query: 296 IQLMVASDLAARGLDIPDVGHVFNFDVPNRAENYIHRIGRTGRAGRHGKAFTLVAKEDIK 355 +++ +D+AARGLD+P VG V +D P +Y+HR+GRT RAG G+A + + + Sbjct: 498 RAVLLCTDVAARGLDLPHVGLVVQYDPPFSTADYLHRVGRTARAGEKGEALLFLLPSEAE 557 Query: 356 HIDAIEK 362 +++ ++K Sbjct: 558 YVNYLKK 564 >gnl|CDD|39485 KOG4284, KOG4284, KOG4284, DEAD box protein [Transcription]. Length = 980 Score = 189 bits (481), Expect = 1e-48 Identities = 116/467 (24%), Positives = 195/467 (41%), Gaps = 37/467 (7%) Query: 2 DFADLGLSPKVVCAVLDAGYVKPTPIQIKTIPLVLQRHDVCGIAQTGTGKTASFVLPMLT 61 F L L +V+ + + PT IQ IP + + D+ A++GTGKT F + Sbjct: 26 GFEQLALWREVLLGLRRNAFALPTKIQAAAIPAIFSKMDLIVQAKSGTGKTLVFSV---L 82 Query: 62 ILEKGRARVRMPRTLILEPTRELAAQVADNFEKYGKNY-NLTVALLIGGIPFEAQNKKLE 120 +E +R + +I+ PTRE+A Q+ + K ++ ++ IGG + Sbjct: 83 AVESLDSRSSHIQKVIVTPTREIAVQIKETVRKVAPSFTGARCSVFIGGTAH-KLDLIRL 141 Query: 121 RGADVLICTPGRILDHFNRGKLLMNNIEILVIDEADRMLDMG-FIPYIQNITSLVPFTRQ 179 + ++I TPGRI G + M+++ + V+DEAD+++D F I I + +P RQ Sbjct: 142 KQTRIVIGTPGRIAQLVELGAMNMSHVRLFVLDEADKLMDTESFQDDINIIINSLPQIRQ 201 Query: 180 TLLFSATMTDELQKVSENFLQNPKRIEVNTPSSTAETIEHCFVA------TYAQYSKKCA 233 FSAT L + F+++P + N I+ VA + + K Sbjct: 202 VAAFSATYPRNLDNLLSKFMRDPALVRFNADDVQLFGIKQYVVAKCSPNNSVEEMRLKLQ 261 Query: 234 LLQQLLQSQDTMKNGIIFCNQKKNVVNLCHSLEKQGFSVCAIHGNIDQRSRMKILSNFKE 293 L + ++FC+Q + L+ G V I G + Q+ R+ + + Sbjct: 262 KLTHVF-KSIPYVQALVFCDQISRAEPIATHLKSSGLDVTFISGAMSQKDRLLAVDQLRA 320 Query: 294 GTIQLMVASDLAARGLDIPDVGHVFNFDVPNRAENYIHRIGRTGRAGRHGKAFTLVA-KE 352 ++++V++DL ARG+D +V V N D P E Y HRIGR GR G HG A TL+ + Sbjct: 321 FRVRILVSTDLTARGIDADNVNLVVNIDAPADEETYFHRIGRAGRFGAHGAAVTLLEDER 380 Query: 353 DIKHIDAIEKLIEKKVDWLNGDLSSLNPPLEKIDIAQHN--------HARKNNPIPQKST 404 ++K A+ I V + + L L K + N + + Sbjct: 381 ELKGFTAMAYRIAVTVKRVVEPVHPLPGDLVKNQEFWKDLDYFIDFETPTGPNDLNKVP- 439 Query: 405 GFDRRKKNYSSQKSHIPLKESEKISKLQQDIQENDADSLGFRGNMPA 451 +R+ ES K + Q+ + R M Sbjct: 440 --NRQSAV-----------ESLKSEREAS-GQKTSSSKKYTRDEMMV 472 >gnl|CDD|35565 KOG0344, KOG0344, KOG0344, ATP-dependent RNA helicase [RNA processing and modification]. Length = 593 Score = 187 bits (475), Expect = 8e-48 Identities = 127/375 (33%), Positives = 197/375 (52%), Gaps = 20/375 (5%) Query: 5 DLGLSPKVVCAVLDAGYVKPTPIQIKTIPLVLQRHDVCGIAQTGTGKTASFVLPMLTILE 64 D ++ +++ + + G+ +PTPIQ + IP+ L++ DV A TG+GKT +F LP+L L Sbjct: 140 DYSMNKRLLENLQELGFDEPTPIQKQAIPVFLEKRDVLACAPTGSGKTLAFNLPILQHL- 198 Query: 65 KGRARVRMP---RTLILEPTRELAAQVADNFEKYGKNYNLTVALLIGGIPFEAQNKK--- 118 K ++ + R LIL PTRELAAQ+ KY + + +L A + Sbjct: 199 KDLSQEKHKVGLRALILSPTRELAAQIYREMRKY--SIDEGTSLRAAQFSKPAYPSQKPA 256 Query: 119 --LERGADVLICTPGRILDHFNRGKLLMN--NIEILVIDEADRMLD-MGFIPYIQNITSL 173 + D+LI TP RI+ GKL ++ +E LV+DEAD + + F+ + +I S Sbjct: 257 FLSDEKYDILISTPMRIVGLLGLGKLNIDLSKVEWLVVDEADLLFEPEFFVEQLADIYSA 316 Query: 174 V--PFTRQTLLFSATMTDELQKVSENFLQNPKRIEVNTPSSTAETIEHCFVATYAQYSKK 231 P R L FSAT++ +++ +E + KR+ V +S ET++ V ++ K Sbjct: 317 CQSPDIRVAL-FSATISVYVEEWAELIKSDLKRVIVGLRNSANETVDQELVFCGSEKGKL 375 Query: 232 CALLQQLLQSQDTMKNGIIFCNQKKNVVNLCHSLEK-QGFSVCAIHGNIDQRSRMKILSN 290 AL Q L + +IF K+ L LE +V IHG Q+ R + + Sbjct: 376 LALRQ--LVASGFKPPVLIFVQSKERAKQLFEELEIYDNINVDVIHGERSQKQRDETMER 433 Query: 291 FKEGTIQLMVASDLAARGLDIPDVGHVFNFDVPNRAENYIHRIGRTGRAGRHGKAFTLVA 350 F+ G I +++ +DL ARG+D V V N+D P +YIHRIGRTGRAGR GKA T Sbjct: 434 FRIGKIWVLICTDLLARGIDFKGVNLVINYDFPQSDLSYIHRIGRTGRAGRSGKAITFYT 493 Query: 351 KEDIKHIDAIEKLIE 365 +D+ I +I +++E Sbjct: 494 DQDMPRIRSIAEVME 508 >gnl|CDD|35550 KOG0329, KOG0329, KOG0329, ATP-dependent RNA helicase [RNA processing and modification]. Length = 387 Score = 146 bits (370), Expect = 9e-36 Identities = 109/373 (29%), Positives = 186/373 (49%), Gaps = 43/373 (11%) Query: 3 FADLGLSPKVVCAVLDAGYVKPTPIQIKTIPLVLQRHDVCGIAQTGTGKTASFVLPMLTI 62 F D L P+++ A++D G+ P+ +Q + IP + DV A++G GKTA FVL L Sbjct: 44 FRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQ 103 Query: 63 LEKGRARVRMPRTLILEPTRELAAQVADNFEKYGKNY-NLTVALLIGGIPFEAQNKKLER 121 +E +V + L++ TRELA Q++ +E++ K ++ V++ GG+ + + L+ Sbjct: 104 IEPVDGQVSV---LVMCHTRELAFQISKEYERFSKYMPSVKVSVFFGGLFIKKDEELLKN 160 Query: 122 GADVLICTPGRILDHFNRGKLLMNNIEILVIDEADRML-DMGFIPYIQNITSLVPFTRQT 180 +++ TPGRIL L + N++ V+DE D+ML + +Q I + P +Q Sbjct: 161 CPHIVVGTPGRILALVRNRSLNLKNVKHFVLDECDKMLEQLDMRRDVQEIFRMTPHEKQV 220 Query: 181 LLFSATMTDELQKVSENFLQNPKRIEVNTPSSTAETIEHCFVATYAQYSKKCALLQQLLQ 240 ++FSAT++ E++ V F+Q+P I V+ A+ H L Q ++ Sbjct: 221 MMFSATLSKEIRPVCHKFMQDPMEIFVD---DEAKLTLH-------------GLQQYYVK 264 Query: 241 SQDTMKNGIIFCNQKKNVVNLCHSLEKQGFSVCAIHGNIDQRSRMKILSNFKEGTIQLMV 300 ++ KN + +L LE F+ I QR + + +V Sbjct: 265 LKENEKNRKLN--------DLLDVLE---FNQVVIFVKSVQRLSFQ----------KRLV 303 Query: 301 ASDLAARGLDIPDVGHVFNFDVPNRAENYIHRIGRTGRAGRHGKAFTLVA-KEDIKHIDA 359 A+DL RG+DI V VFN+D+P ++ Y+HR+ R GR G G A T V+ + D K ++ Sbjct: 304 ATDLFGRGMDIERVNIVFNYDMPEDSDTYLHRVARAGRFGTKGLAITFVSDENDAKILNP 363 Query: 360 IEKLIEKKVDWLN 372 ++ E + L Sbjct: 364 VQDRFEVNIKELP 376 >gnl|CDD|35570 KOG0349, KOG0349, KOG0349, Putative DEAD-box RNA helicase DDX1 [RNA processing and modification]. Length = 725 Score = 146 bits (369), Expect = 1e-35 Identities = 93/332 (28%), Positives = 153/332 (46%), Gaps = 49/332 (14%) Query: 73 PRTLILEPTRELAAQVADN---FEKYGKNYNLTVALLIGGIPFEAQNKKLERGADVLICT 129 P +I+EP+RELA Q + F+ + N + L+IGG+ Q K+L+ G +++ T Sbjct: 287 PEAVIVEPSRELAEQTHNQIEEFKMHTSNPEVRSLLMIGGVLKRTQCKQLKDGTHIVVGT 346 Query: 130 PGRILDHFNRGKLLMNNIEILVIDEADRMLDMGFIPYIQNITSLVP------FTRQTLLF 183 PGR+L ++G + + + LV+DEAD +L G+ I +P F Q+ + Sbjct: 347 PGRLLQPISKGLVTLTHCRFLVLDEADLLLGQGYDDKIYRFHGQIPHMTSDGFRLQSPVC 406 Query: 184 SATMTD-ELQKVSENFLQNPKRIEVNTPSSTAETIEHCFVATYAQYSKKCALLQQLLQSQ 242 SAT+ E++KV E + P +++ ET+ H L+Q +++ Sbjct: 407 SATLHIFEVKKVGERVMHFPTWVDLKGEDLVPETVHHVVKLVCPSVDGSWCDLRQFIETD 466 Query: 243 DT------------------------------------MKNGIIFCNQKKNVVNLCHSLE 266 M IIFC K++ NL + Sbjct: 467 KVHTKDNLLPGQVSPENPSSATKILKGEYGVVAIRRHAMDKAIIFCRTKQDCDNLERMMN 526 Query: 267 KQG---FSVCAIHGNIDQRSRMKILSNFKEGTIQLMVASDLAARGLDIPDVGHVFNFDVP 323 ++G +S +HG+ R L +FK+ ++ ++ +D+AARGLDI + + N +P Sbjct: 527 QKGGKHYSCVCLHGDRKPDERKANLESFKKFDVKFLICTDVAARGLDITGLPFMINVTLP 586 Query: 324 NRAENYIHRIGRTGRAGRHGKAFTLVAKEDIK 355 + NY+HRIGR GRA R G A +LVA K Sbjct: 587 DDKTNYVHRIGRVGRAERMGLAISLVATVPEK 618 Score = 53.5 bits (128), Expect = 1e-07 Identities = 24/61 (39%), Positives = 38/61 (62%) Query: 3 FADLGLSPKVVCAVLDAGYVKPTPIQIKTIPLVLQRHDVCGIAQTGTGKTASFVLPMLTI 62 F + G+ P++ A + + PT +Q + IPL+L DV A+TG+GKT +F LP+L I Sbjct: 4 FEEFGVLPELGMATDELDWTLPTDVQAEAIPLILGGGDVLMAAETGSGKTGAFCLPILQI 63 Query: 63 L 63 + Sbjct: 64 V 64 >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 = 129 bits (326), Expect = 1e-30 Identities = 58/149 (38%), Positives = 85/149 (57%), Gaps = 5/149 (3%) Query: 39 HDVCGIAQTGTGKTASFVLPMLTILEKGRARVRMPRTLILEPTRELAAQVADNFEKYGKN 98 DV A TG+GKT + +LP+L +L+ + + L+L PTRELA QVA+ ++ Sbjct: 1 RDVLLAAPTGSGKTLAALLPILELLDSLKG----GQVLVLAPTRELANQVAERLKELFG- 55 Query: 99 YNLTVALLIGGIPFEAQNKKLERGADVLICTPGRILDHFNRGKLLMNNIEILVIDEADRM 158 + V LIGG + Q K L D+++ TPGR+LD R KL + +++L++DEA R+ Sbjct: 56 EGIKVGYLIGGTSIKQQEKLLSGKTDIVVGTPGRLLDELERLKLSLKKLDLLILDEAHRL 115 Query: 159 LDMGFIPYIQNITSLVPFTRQTLLFSATM 187 L+ GF I +P RQ LL SAT Sbjct: 116 LNQGFGLLGLKILLKLPKDRQVLLLSATP 144 >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 = 118 bits (296), Expect = 5e-27 Identities = 50/119 (42%), Positives = 72/119 (60%) Query: 230 KKCALLQQLLQSQDTMKNGIIFCNQKKNVVNLCHSLEKQGFSVCAIHGNIDQRSRMKILS 289 K ALL+ L + +IFC KK + L L K G V A+HG+ Q R ++L Sbjct: 13 KLEALLELLKEHLKKGGKVLIFCPSKKMLDELAELLRKPGIKVAALHGDGSQEEREEVLK 72 Query: 290 NFKEGTIQLMVASDLAARGLDIPDVGHVFNFDVPNRAENYIHRIGRTGRAGRHGKAFTL 348 +F+EG I ++VA+D+ ARG+D+P+V V N+D+P +Y+ RIGR GRAG+ G A L Sbjct: 73 DFREGEIVVLVATDVIARGIDLPNVSVVINYDLPWSPSSYLQRIGRAGRAGQKGTAILL 131 >gnl|CDD|30860 COG0514, RecQ, Superfamily II DNA helicase [DNA replication, recombination, and repair]. Length = 590 Score = 110 bits (275), Expect = 1e-24 Identities = 88/354 (24%), Positives = 140/354 (39%), Gaps = 31/354 (8%) Query: 20 GYVKPTPIQIKTIPLVLQRHDVCGIAQTGTGKTASFVLPMLTILEKGRARVRMPRTLILE 79 GY P Q + I +L D + TG GK+ + +P A + TL++ Sbjct: 14 GYASFRPGQQEIIDALLSGKDTLVVMPTGGGKSLCYQIP---------ALLLEGLTLVVS 64 Query: 80 PTRELAA-QVADNFEKYGKNYNLTVALLIGGIPFEAQN---KKLERGA-DVLICTPGRIL 134 P L QV + + A L + E + +L+ G +L +P R++ Sbjct: 65 PLISLMKDQVDQL-----EAAGIRAAYLNSTLSREERQQVLNQLKSGQLKLLYISPERLM 119 Query: 135 DHFNRGKLLMNNIEILVIDEADRMLDMG--FIPYIQNITSLVP-FTRQTLL-FSATMTDE 190 L I ++ IDEA + G F P + + L +L +AT T Sbjct: 120 SPRFLELLKRLPISLVAIDEAHCISQWGHDFRPDYRRLGRLRAGLPNPPVLALTATATPR 179 Query: 191 LQK--VSENFLQNPKRIEVNTPSSTAETIEHCFVATYAQYSKKCALLQQLLQSQDTMKNG 248 ++ + LQ+ S + V + L L Q K+G Sbjct: 180 VRDDIREQLGLQDANIFRG---SFDRPNLALKVVEKGEPSDQLAFLATVLPQLS---KSG 233 Query: 249 IIFCNQKKNVVNLCHSLEKQGFSVCAIHGNIDQRSRMKILSNFKEGTIQLMVASDLAARG 308 II+C +K V L L K G S A H + R ++ F I++MVA++ G Sbjct: 234 IIYCLTRKKVEELAEWLRKNGISAGAYHAGLSNEERERVQQAFLNDEIKVMVATNAFGMG 293 Query: 309 LDIPDVGHVFNFDVPNRAENYIHRIGRTGRAGRHGKAFTLVAKEDIKHIDAIEK 362 +D PDV V ++D+P E+Y GR GR G +A L + EDI+ + + Sbjct: 294 IDKPDVRFVIHYDLPGSIESYYQETGRAGRDGLPAEAILLYSPEDIRWQRYLIE 347 >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 = 104 bits (263), Expect = 4e-23 Identities = 36/76 (47%), Positives = 51/76 (67%) Query: 265 LEKQGFSVCAIHGNIDQRSRMKILSNFKEGTIQLMVASDLAARGLDIPDVGHVFNFDVPN 324 L K G V +HG + Q R +IL +F+ G +++VA+D+A RG+D+PDV V N+D+P Sbjct: 3 LRKPGIKVARLHGGLSQEEREEILEDFRNGKSKVLVATDVAGRGIDLPDVNVVINYDLPW 62 Query: 325 RAENYIHRIGRTGRAG 340 +YI RIGR GRAG Sbjct: 63 NPASYIQRIGRAGRAG 78 >gnl|CDD|31394 COG1201, Lhr, Lhr-like helicases [General function prediction only]. Length = 814 Score = 93.4 bits (232), Expect = 1e-19 Identities = 92/407 (22%), Positives = 166/407 (40%), Gaps = 45/407 (11%) Query: 10 PKVVCAVLDAGYVKPTPIQIKTIPLVLQRHDVCGIAQTGTGKTASFVLPMLT-ILEKGRA 68 V + TP Q IP + +V IA TG+GKT + LP++ +L G+ Sbjct: 9 DPRVREWFKRKFTSLTPPQRYAIPEIHSGENVLIIAPTGSGKTEAAFLPVINELLSLGKG 68 Query: 69 RVRMP-RTLILEPTRELAAQVADNFEKYGKNYNLTVALLIGGIPFEAQNKKLERGADVLI 127 ++ L + P + L + E+ + + VA+ G P + K L+ +LI Sbjct: 69 KLEDGIYALYISPLKALNNDIRRRLEEPLRELGIEVAVRHGDTPQSEKQKMLKNPPHILI 128 Query: 128 CTPGRILDHFNRGKL--LMNNIEILVIDEADRMLD----MGFIPYIQNITSLVP-FTRQT 180 TP + N K L+ ++ +++DE + + + ++ + L F R Sbjct: 129 TTPESLAILLNSPKFRELLRDVRYVIVDEIHALAESKRGVQLALSLERLRELAGDFQRIG 188 Query: 181 LLFSATMTD--ELQK-----------VSENFLQNPKRIEVNTPSSTAETIEHCFVATYAQ 227 L SAT+ E+ K V + + + I+V +P E + A Y + Sbjct: 189 L--SATVGPPEEVAKFLVGFGDPCEIVDVSAAKKLE-IKVISPVEDLIYDEELWAALYER 245 Query: 228 YSKKCALLQQLLQSQDTMKNGIIFCNQKKNVVNLCHSLEKQGFSVCAIH-GNIDQRSRMK 286 + + + + + T +IF N + L L+K G + +H G++ + R++ Sbjct: 246 ------IAELVKKHRTT----LIFTNTRSGAERLAFRLKKLGPDIIEVHHGSLSRELRLE 295 Query: 287 ILSNFKEGTIQLMVASDLAARGLDIPDVGHVFNFDVPNRAENYIHRIGRTG-RAGRHGKA 345 + KEG ++ +VA+ G+DI D+ V P ++ RIGR G R G K Sbjct: 296 VEERLKEGELKAVVATSSLELGIDIGDIDLVIQLGSPKSVNRFLQRIGRAGHRLGEVSKG 355 Query: 346 FTLVAK-EDIKHIDAIEKLIEKKVDWLNGDLSSLNPPLEKIDI-AQH 390 + +D+ + L L G L + P +D+ AQ Sbjct: 356 IIIAEDRDDLLECLVLADLA------LEGKLERIKIPKNPLDVLAQQ 396 >gnl|CDD|31261 COG1061, SSL2, DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]. Length = 442 Score = 80.5 bits (198), Expect = 1e-15 Identities = 74/415 (17%), Positives = 137/415 (33%), Gaps = 69/415 (16%) Query: 1 MDFADLGLSPKVVCAVLDAGYVKPTPIQIKTIPLVLQRHDVCG----IAQTGTGKTASFV 56 + AD L + ++ A + P Q + + +++ + TG GKT Sbjct: 14 EELADYVLDEGLPLKLIVAFEFELRPYQEEALDALVKNRRTERRGVIVLPTGAGKT---- 69 Query: 57 LPMLTILEKGRARVRMPRTLILEPTRELAAQVADNFEKYGKNYNLTVALLIGGIPFEAQN 116 ++ TL+L PT+EL Q A+ +K+ LL I Sbjct: 70 -----VVAAEAIAELKRSTLVLVPTKELLDQWAEALKKFL--------LLNDEIGIYGGG 116 Query: 117 KKLERGADVLICTPGRILDHFNRGKLLMNNIEILVIDEADRMLDMGFIPYIQNITSLVPF 176 +K A V + T + + L N +++ DE + + ++ +++ P Sbjct: 117 EKELEPAKVTVATVQTLARRQLLDEFLGNEFGLIIFDEVHHLPAPSYRRILELLSAAYP- 175 Query: 177 TRQTLLFSATMTDELQK---------------------VSENFLQNPKRIEVNTPSSTAE 215 L +AT E + E +L K +E+ + E Sbjct: 176 ---RLGLTATPEREDGGRIGDLFDLIGPIVYEVSLKELIDEGYLAPYKYVEIKVTLTEDE 232 Query: 216 ---------------------TIEHCFVATYAQYSKKCALLQQLLQSQDTMKNGIIFCNQ 254 E+ +K A ++ LL +IF + Sbjct: 233 EREYAKESARFRELLRARGTLRAENEARRIAIASERKIAAVRGLLLKHARGDKTLIFASD 292 Query: 255 KKNVVNLCHSLEKQGFSVCAIHGNIDQRSRMKILSNFKEGTIQLMVASDLAARGLDIPDV 314 ++ + G V AI G + R IL F+ G I+++V + G+DIPD Sbjct: 293 VEHAYEIAKLFLAPGI-VEAITGETPKEEREAILERFRTGGIKVLVTVKVLDEGVDIPDA 351 Query: 315 GHVFNFDVPNRAENYIHRIGRTGRAGRHGKAFTLVAKEDIKHIDAIEKLIEKKVD 369 + +I R+GR R + + + D E+ I ++ Sbjct: 352 DVLIILRPTGSRRLFIQRLGRGLRPAEGKEDTLALDYSLV-PDDLGEEDIARRRR 405 >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 = 65.8 bits (160), Expect = 2e-11 Identities = 85/421 (20%), Positives = 159/421 (37%), Gaps = 62/421 (14%) Query: 11 KVVCAVLDAGYVKPTPIQIKTIPLVLQRHDVCGIAQTGTGKTASFVLPMLTILEKGRARV 70 + A++ AG + Q+ + L+ + +V TG+GKT SF+LP+L L + + Sbjct: 58 SLKSALVKAGIERLYSHQVDALRLIREGRNVVVTTGTGSGKTESFLLPILDHLLRDPSA- 116 Query: 71 RMPRTLILEPTRELAAQVADNFEKYGKN--YNLTVALLIGGIPFEAQNKKLERGADVLIC 128 R L+L PT LA A+ + + +T G P E + + D+L+ Sbjct: 117 ---RALLLYPTNALANDQAERLRELISDLPGKVTFGRYTGDTPPEERRAIIRNPPDILLT 173 Query: 129 TPG----RILDHFNRGKLLMNNIEILVIDEA---------------DRMLDMGFIPYIQN 169 P +L + + L+ N++ LV+DE R+L Sbjct: 174 NPDMLHYLLLRNHDAWLWLLRNLKYLVVDELHTYRGVQGSEVALLLRRLLRR-------- 225 Query: 170 ITSLVPFTRQTLLFSATMTDELQKVSENFLQNPKRIEVNTPSSTAETIEHCFVATYAQ-Y 228 Q + SAT+ + + E F ++ EV + FV Sbjct: 226 -LRRYGSPLQIICTSATLANPGEFAEELFGRD---FEVPVDEDGSPRGLRYFVRREPPIR 281 Query: 229 SKKCALLQQLLQSQDTMK-----NGII---FCNQKKNVVNLCHSLEKQ--------GFSV 272 ++ + L T+ NGI F +K V L S ++ +V Sbjct: 282 ELAESIRRSALAELATLAALLVRNGIQTLVFFRSRKQVELLYLSPRRRLVREGGKLLDAV 341 Query: 273 CAIHGNIDQRSRMKILSNFKEGTIQLMVASDLAARGLDIPDVGHVFNFDVPNRAE-NYIH 331 + + R +I + FKEG + ++A++ G+DI + V + P + ++ Sbjct: 342 STYRAGLHREERRRIEAEFKEGELLGVIATNALELGIDIGSLDAVIAYGYPGVSVLSFRQ 401 Query: 332 RIGRTGRAGRHGKAFTLVAKEDI-----KHIDAIEKLIEKKVDWLNGDLSSLNPPLEKID 386 R GR GR G+ ++ + + +H + + + V+ + D + N L Sbjct: 402 RAGRAGRRGQESLVLVVLRSDPLDSYYLRHPEELLETGFGPVESVRVDDN--NEYLLDGH 459 Query: 387 I 387 + Sbjct: 460 L 460 >gnl|CDD|35573 KOG0352, KOG0352, KOG0352, ATP-dependent DNA helicase [Replication, recombination and repair]. Length = 641 Score = 61.7 bits (149), Expect = 4e-10 Identities = 84/391 (21%), Positives = 146/391 (37%), Gaps = 74/391 (18%) Query: 25 TPIQIKTIPLVLQRH-DVCGIAQTGTGKTASFVLPMLTILEKGRARVRMPRTLILEPTRE 83 + +Q + I +++R DV TG GK+ + LP L + G T+++ P Sbjct: 22 SRLQEQAINCIVKRKCDVYVSMPTGAGKSLCYQLPAL--VHGGI-------TIVISP--- 69 Query: 84 LAAQVADNFEKYGKNYNLTVALLIGGIPFEAQNKKL---ERG------------ADVLIC 128 L A + D + L +P E+ N KL ER +L Sbjct: 70 LIALIKDQID----------HLKRLKVPCESLNSKLSTVERSRIMGDLAKEKPTIKMLYI 119 Query: 129 TPGRILDHFNRGKLL-----MNNIEILVIDEADRMLDMG--FIPYIQNITSL------VP 175 TP + KLL + + +V+DEA + G F P + SL VP Sbjct: 120 TPEGAATDGFQ-KLLNGLANRDVLRYIVVDEAHCVSQWGHDFRPDYLTLGSLRSVCPGVP 178 Query: 176 FTRQTLLFSATMTDELQKVSENFLQNPKRIEVNTPS---------STAETIEHCFVATYA 226 + T +A + +++ + L+NP I TP+ I C A Sbjct: 179 WVALTATANAKVQEDIAFQLK--LRNPVAI-FKTPTFRDNLFYDNHMKSFITDCL-TVLA 234 Query: 227 QYSKKCALLQQLLQSQDTMKN----GIIFCNQKKNVVNLCHSLEKQGFSVCAIHGNIDQR 282 +S L + ++ K GI++C + + LE G A H + ++ Sbjct: 235 DFSSSN--LGKHEKASQNKKTFTGCGIVYCRTRNECEQVAIMLEIAGIPAMAYHAGLKKK 292 Query: 283 SRMKILSNFKEGTIQLMVASDLAARGLDIPDVGHVFNFDVPNRAENYIHRIGRTGRAGRH 342 R ++ + I ++ A+ G+D PDV V ++ Y GR GR G+ Sbjct: 293 ERTEVQEKWMNNEIPVIAATVSFGMGVDKPDVRFVIHWSPSQNLAGYYQESGRAGRDGKR 352 Query: 343 GKAFTLVAKEDIKHIDAIEKLIEKKVDWLNG 373 +++D +A+ L+ ++ L Sbjct: 353 SYCRLYYSRQD---KNALNFLVSGELAKLRE 380 >gnl|CDD|31393 COG1200, RecG, RecG-like helicase [DNA replication, recombination, and repair / Transcription]. Length = 677 Score = 61.4 bits (149), Expect = 5e-10 Identities = 76/336 (22%), Positives = 137/336 (40%), Gaps = 69/336 (20%) Query: 48 GTGKTASFVLPMLTILEKGRARVRMPRTLILEPTRELAAQVADNFEKYGKNYNLTVALLI 107 G+GKT +L ML +E G + ++ PT LA Q ++ K+ + + VALL Sbjct: 293 GSGKTVVALLAMLAAIEAGY------QAALMAPTEILAEQHYESLRKWLEPLGIRVALLT 346 Query: 108 GGIPFEAQNKKLER----GADVLICTPGRILDHFNRGKLLMNNIEILVIDEADR------ 157 G + +A+ + LE+ D+++ T I D K+ +N+ +++IDE R Sbjct: 347 GSLKGKARKEILEQLASGEIDIVVGTHALIQD-----KVEFHNLGLVIIDEQHRFGVHQR 401 Query: 158 --MLDMGFIPYIQNITSLVPFTRQTLLFSA------TMTDELQKVSENFLQNPKRIEVNT 209 + + G + + P R TL +A ++ DEL P R + T Sbjct: 402 LALREKGEQNPHVLVMTATPIPR-TLALTAFGDLDVSIIDELP---------PGRKPITT 451 Query: 210 PSSTAETIEHCFVATYAQYSKKCALLQQ------LLQSQDTMKNGIIFCNQKKNVVNLCH 263 E Y + ++ A +Q L++ + + + + L Sbjct: 452 VVIPHERRPE----VYERIREEIAKGRQAYVVCPLIEESEKL--------ELQAAEELYE 499 Query: 264 SLEK--QGFSVCAIHGNIDQRSRMKILSNFKEGTIQLMVASDLAARGLDIPDVGHVFNFD 321 L+ V +HG + + ++ FKEG I ++VA+ + G+D+P+ Sbjct: 500 ELKSFLPELKVGLVHGRMKPAEKDAVMEAFKEGEIDILVATTVIEVGVDVPNA----TVM 555 Query: 322 VPNRAENY----IHRI-GRTGRAGRHGKAFTLVAKE 352 V AE + +H++ GR GR G L+ K Sbjct: 556 VIENAERFGLAQLHQLRGRVGR-GDLQSYCVLLYKP 590 >gnl|CDD|31307 COG1110, COG1110, Reverse gyrase [DNA replication, recombination, and repair]. Length = 1187 Score = 56.1 bits (135), Expect = 2e-08 Identities = 68/321 (21%), Positives = 120/321 (37%), Gaps = 67/321 (20%) Query: 44 IAQTGTGKTASFVLPM-LTILEKGRARVRMPRTLILEPTRELAAQVADNFEKYGKNYNLT 102 IA TG GKT +F L M L + +KG+ R I+ PT L QV + +K+ ++ Sbjct: 103 IAPTGVGKT-TFGLLMSLYLAKKGK------RVYIIVPTTTLVRQVYERLKKFAEDAGSL 155 Query: 103 VALLI--GGIPFEAQNKKLER----GADVLICTPGRILDHFNRGKLLMNNIEILVIDEAD 156 L++ +P + + + LER D+LI T + F +L + + +D+ D Sbjct: 156 DVLVVYHSALPTKEKEEALERIESGDFDILITTSQFLSKRFE--ELSKLKFDFIFVDDVD 213 Query: 157 RMLDMGFIPYIQNITSLVPFTRQTLLFSATMTDELQKV--SENFLQNPKRI--EVNTPSS 212 +L + + L+ F+ + + SA +L++ E + + EV Sbjct: 214 AILKAS--KNVDRLLRLLGFSEEVIE-SAYELIKLRRKLYGEKRAERVREELREVERERE 270 Query: 213 TAETIEHCFV---ATYAQYSKKCALLQQLL-----QSQDTMKN----------------- 247 V AT + L ++LL + ++N Sbjct: 271 KKRRKLGILVVSSATGKPRGSRLKLFRELLGFEVGSGGEGLRNIVDIYVESESLEKVVEL 330 Query: 248 -------GIIFCNQKKN---VVNLCHSLEKQGFSVCAIHGNIDQRSRMKILSNFKEGTIQ 297 G+IF L L G + IH + + L +F+EG + Sbjct: 331 VKKLGDGGLIFVPIDYGREKAEELAEYLRSHGINAELIH-----AEKEEALEDFEEGEVD 385 Query: 298 LMVAS----DLAARGLDIPDV 314 ++V + RGLD+P Sbjct: 386 VLVGVASYYGVLVRGLDLPHR 406 >gnl|CDD|31308 COG1111, MPH1, ERCC4-like helicases [DNA replication, recombination, and repair]. Length = 542 Score = 55.7 bits (134), Expect = 3e-08 Identities = 24/71 (33%), Positives = 39/71 (54%), Gaps = 1/71 (1%) Query: 281 QRSRMKILSNFKEGTIQLMVASDLAARGLDIPDVGHVFNFDVPNRAENYIHRIGRTGRAG 340 Q+ + +I+ F++G ++VA+ + GLDIP+V V ++ I R GRTGR Sbjct: 411 QKEQKEIIDQFRKGEYNVLVATSVGEEGLDIPEVDLVIFYEPVPSEIRSIQRKGRTGR-K 469 Query: 341 RHGKAFTLVAK 351 R G+ LV + Sbjct: 470 RKGRVVVLVTE 480 Score = 51.0 bits (122), Expect = 7e-07 Identities = 44/199 (22%), Positives = 85/199 (42%), Gaps = 21/199 (10%) Query: 21 YVKPTPIQIKTIPL-----VLQRHDVCGIAQTGTGKTASFVLPMLTILEKGRARVRMPRT 75 +KP I+ + L L ++ + + TG GKT + + L +V Sbjct: 8 LIKPNTIEPRLYQLNIAAKALFKNTLVVLP-TGLGKTFIAAMVIANRLRWFGGKV----- 61 Query: 76 LILEPTRELAAQVADNFEKYGKNYNLTVALLIGGIPFEAQNKKLERGADVLICTPGRILD 135 L L PT+ L Q A+ K +A L G + E + + + V + TP + + Sbjct: 62 LFLAPTKPLVLQHAEFCRKVTGIPEDEIAALTGEVRPEEREELWAKK-KVFVATPQVVEN 120 Query: 136 HFNRGKLLMNNIEILVIDEADRMLDMGFIPYIQNITSLVPFTRQTLLFSATMT-----DE 190 G++ ++++ +L+ DEA R +G Y+ + + L+ T + ++ Sbjct: 121 DLKAGRIDLDDVSLLIFDEAHRA--VGNYAYVFVAKEYLRSAKNPLILGLTASPGSDLEK 178 Query: 191 LQKVSENFLQNPKRIEVNT 209 +Q+V EN +++EV T Sbjct: 179 IQEVVENL--GIEKVEVRT 195 >gnl|CDD|31396 COG1203, COG1203, Predicted helicases [General function prediction only]. Length = 733 Score = 55.5 bits (133), Expect = 3e-08 Identities = 62/361 (17%), Positives = 125/361 (34%), Gaps = 51/361 (14%) Query: 44 IAQTGTGKTASFVLPMLTILEKGRARVRMPRTLILEPTRELAAQVADNFEKYGKNYNLTV 103 A TG GKT + ++ L +L++ R + + P R + + ++ +++ Sbjct: 220 EAPTGYGKTEASLILALALLDEKIKLK--SRVIYVLPFRTIIEDMYRRAKEIFGLFSVIG 277 Query: 104 ALLIGGIPFEAQNKKLERGAD--------------VLICTPGRIL------DHFNRGKLL 143 L + + +++ TP +IL F LL Sbjct: 278 KSLHSSSKEPLLLEPDQDILLTLTTNDSYKKLLLALIVVTPIQILIFSVKGFKFEFLALL 337 Query: 144 MNNIEILVIDEADRMLD---MGFIPYIQNITSLVPFTRQTLLFSATMTDELQKVSENFLQ 200 + ++ +++DE D + + + + +L LL SAT+ L++ + L Sbjct: 338 LTSL--VILDEVHLYADETMLAAL--LALLEALAEAGVPVLLMSATLPPFLKEKLKKALG 393 Query: 201 NPKRIEVNTPSSTAETIEHCFVATYAQYSKKCALLQQLLQSQDTMKNG--IIFCNQKKNV 258 + + N E L S++ + ++ N Sbjct: 394 KGREVVENAKFCPKEDEPGLKRKERVDVEDGPQEELIELISEEVKEGKKVLVIVNTVDRA 453 Query: 259 VNLCHSLEKQGFSVCAIHGNIDQRSR----MKILSNFKEGTIQLMVASDLAARGLDIPDV 314 + L L+++G V +H + R ++ FK+ ++VA+ + G+DI Sbjct: 454 IELYEKLKEKGPKVLLLHSRFTLKDREEKERELKKLFKQNEGFIVVATQVIEAGVDI--- 510 Query: 315 GHVFNFDV----PNRAENYIHRIGRTGRAGRHGKAFTLVAK--EDIKHIDAIEKLIEKKV 368 +FDV ++ I R GR RHGK D + ++ EK Sbjct: 511 ----DFDVLITELAPIDSLIQRAGR---VNRHGKKENGKIYVYNDEERGPYLKYSYEKLE 563 Query: 369 D 369 Sbjct: 564 K 564 >gnl|CDD|35574 KOG0353, KOG0353, KOG0353, ATP-dependent DNA helicase [General function prediction only]. Length = 695 Score = 53.7 bits (128), Expect = 1e-07 Identities = 71/337 (21%), Positives = 123/337 (36%), Gaps = 53/337 (15%) Query: 26 PIQIKTIPLVLQRHDVCGIAQTGTGKTASFVLPMLTILEKGRARVRMPRTLILEPTRELA 85 P+Q+ I + D I TG GK+ + LP L G A V P ++E Sbjct: 97 PLQLAAINATMAGEDAFLILPTGGGKSLCYQLPAL--CADGFALVICPLISLMEDQILQL 154 Query: 86 AQVADNFEKYGKNYNLTVALLIGGIPFEAQNKKLERGADVLICTPGRILDHFNRGKLLMN 145 Q+ + N + A + NK E ++ TP +I + K MN Sbjct: 155 KQLGIDASMLNANSSKEEAKRVEA---AITNKDSE--FKLIYVTPEKIA----KSKKFMN 205 Query: 146 NIE---------ILVIDEA--------DRMLDMGFIPYIQNITSLVPFTRQTLLFSATMT 188 +E ++ IDE D D + ++ P T + + Sbjct: 206 KLEKALEAGFFKLIAIDEVHCCSQWGHDFRPDYKALGILKRQFKGAPIIGLTATATNHVL 265 Query: 189 DELQKV---------SENFLQNPKRIEV-NTPSSTAETIEHCFVATYAQYSKKCALLQQL 238 D+ + + F + + EV P + + IE + +L Sbjct: 266 DDAKDILCIEAAFTFRAGFNRPNLKYEVRQKPGNEDDCIED---------------IAKL 310 Query: 239 LQSQDTMKNGIIFCNQKKNVVNLCHSLEKQGFSVCAIHGNIDQRSRMKILSNFKEGTIQL 298 ++ ++GII+C +K+ + +L+ G A H N++ + + G IQ+ Sbjct: 311 IKGDFAGQSGIIYCFSQKDCEKVAKALKNHGIHAGAYHANLEPEDKSGAHQGWIAGEIQV 370 Query: 299 MVASDLAARGLDIPDVGHVFNFDVPNRAENYIHRIGR 335 +VA+ G+D PDV V + +P ENY R Sbjct: 371 IVATVAFGMGIDKPDVRFVIHHSLPKSIENYYQASAR 407 >gnl|CDD|31397 COG1204, COG1204, Superfamily II helicase [General function prediction only]. Length = 766 Score = 51.9 bits (124), Expect = 3e-07 Identities = 29/130 (22%), Positives = 58/130 (44%), Gaps = 9/130 (6%) Query: 26 PIQIKTIPLVLQRHDVCGIAQTGTGKTASFVLPMLTILEKGRARVRMPRTLILEPTRELA 85 P Q +L +V A TG+GKT +L +L+ L +G +V + + P + LA Sbjct: 35 PQQEAVEKGLLSDENVLISAPTGSGKTLIALLAILSTLLEGGGKV-----VYIVPLKALA 89 Query: 86 AQVADNFEKYGKNYNLTVALLIGGIPFEAQNKKLERGADVLICTPGRILDHFNRGKLLMN 145 + + F + + + V + G + + DV++ TP ++ + + Sbjct: 90 EEKYEEFSRL-EELGIRVGISTGDYDL---DDERLARYDVIVTTPEKLDSLTRKRPSWIE 145 Query: 146 NIEILVIDEA 155 ++++VIDE Sbjct: 146 EVDLVVIDEI 155 >gnl|CDD|35575 KOG0354, KOG0354, KOG0354, DEAD-box like helicase [General function prediction only]. Length = 746 Score = 51.9 bits (124), Expect = 4e-07 Identities = 48/232 (20%), Positives = 86/232 (37%), Gaps = 44/232 (18%) Query: 143 LMNNIEILVIDEADRMLDMGFIPYIQNITSLVPFTRQTLLFS----ATMTDELQKVSENF 198 L L+I + R +D + Y+++ V + L E E+ Sbjct: 329 LRKYNLALLISDGIRFVD--ALDYLEDFYEEVALKKYLKLELEARLIRNFTENMNELEHL 386 Query: 199 LQNPKRIEVNTPSSTAETIEHCFVATYAQYSKKCALLQQLLQSQDTMKNGIIFCNQKKNV 258 +P E+ + K +L + + Q+ IIF +++ Sbjct: 387 SLDPP-------------KEN------PKLEKLVEILVEQFE-QNPDSRTIIFVETRESA 426 Query: 259 VNLCHSLEK-------------QGFSVCAIHGNIDQRSRMKILSNFKEGTIQLMVASDLA 305 + L L + QG S + Q+ + ++L F++G I ++VA+ +A Sbjct: 427 LALKKWLLQLHELGIKAEIFIGQGKSTQSTGMT--QKEQKEVLDKFRDGEINVLVATSVA 484 Query: 306 ARGLDIPDVGHVFNFDVPNRAENYIHRIGRTGRAGRHGKAFTLVAK-EDIKH 356 GLDI + V +D + + R GR GRA R+ K L E I+ Sbjct: 485 EEGLDIGECNLVICYDYSSNPIRMVQRRGR-GRA-RNSKCVLLTTGSEVIEF 534 >gnl|CDD|31829 COG1643, HrpA, HrpA-like helicases [DNA replication, recombination, and repair]. Length = 845 Score = 49.6 bits (118), Expect = 2e-06 Identities = 82/383 (21%), Positives = 154/383 (40%), Gaps = 52/383 (13%) Query: 35 VLQRHDVCGI-AQTGTGKTASFVLPMLTILEKGRARVRMPRTLILEPTRELAAQVADNF- 92 ++++ V I +TG+GKT LP +LE+G +P R LAA+ Sbjct: 61 AIEQNQVVIIVGETGSGKTTQ--LP-QFLLEEGLGIAGK--IGCTQP-RRLAARSVAERV 114 Query: 93 -EKYGKNYNLTVALLIGGIPFEAQNKKLERGADVLICTPGRILDHFNRGKLLMNNIEILV 151 E+ G+ TV I FE++ R + + T G +L LL + +++ Sbjct: 115 AEELGEKLGETVGYSI---RFESKVSPRTR---IKVMTDGILLREIQNDPLL-SGYSVVI 167 Query: 152 IDEA-DRMLDMGFI-PYIQNITSLVPFTRQTLLFSATMTDELQKVSENFLQNPKRIEVNT 209 IDEA +R L+ + ++++ + + ++ SAT+ ++ S F P IE+ Sbjct: 168 IDEAHERSLNTDILLGLLKDLLARRRDDLKLIIMSATLDA--ERFSAYFGNAP-VIEIEG 224 Query: 210 PSSTAETI-EHCFVATYAQYSKKCALLQQLLQSQDTMKNGIIFCNQKKNVVNLCHSLEKQ 268 + E A Y A + L+ + ++F ++ + LEK Sbjct: 225 RTYPVEIRYLPEAEADYILLDAIVAAVDIHLREGS--GSILVFLPGQREIERTAEWLEKA 282 Query: 269 ----GFSVCAIHGNIDQRSRMKILSNFKEGTIQLMVASDLAARGLDIPDVGHVFNFDVPN 324 + ++G + ++++ G ++++A+++A L IP + +V + + Sbjct: 283 ELGDDLEILPLYGALSAEEQVRVFEPAPGGKRKVVLATNIAETSLTIPGIRYVIDSGL-A 341 Query: 325 RAENYIHRIG----------------RTGRAGR--HGKAFTLVAKEDIKHIDAIEKLIEK 366 + + Y R G R GRAGR G + L ++ED Sbjct: 342 KEKRYDPRTGLTRLETEPISKASADQRAGRAGRTGPGICYRLYSEEDFLAFPE-----FT 396 Query: 367 KVDWLNGDLSSLNPPLEKIDIAQ 389 + L DLS L L+ + I Q Sbjct: 397 LPEILRTDLSGLVLQLKSLGIGQ 419 >gnl|CDD|30902 COG0556, UvrB, Helicase subunit of the DNA excision repair complex [DNA replication, recombination, and repair]. Length = 663 Score = 49.0 bits (117), Expect = 3e-06 Identities = 50/200 (25%), Positives = 84/200 (42%), Gaps = 37/200 (18%) Query: 255 KKNVVNLCHSLEKQGFSVCAIHGNIDQRSRMKILSNFKEGTIQLMVASDLAARGLDIPDV 314 KK +L L++ G V +H +ID R++I+ + + G ++V +L GLD+P+V Sbjct: 456 KKMAEDLTEYLKELGIKVRYLHSDIDTLERVEIIRDLRLGEFDVLVGINLLREGLDLPEV 515 Query: 315 GHVFNFDVPN----RAE-NYIHRIGRTGRAGRHGKAFTLVAKEDIKHIDAIEKLIEKKVD 369 V D R+E + I IGR R +GK I + D I ++K +D Sbjct: 516 SLVAILDADKEGFLRSERSLIQTIGRAAR-NVNGKV--------ILYADKITDSMQKAID 566 Query: 370 WLNGDLSSLNPPLEKIDIAQHNHARKNNPIPQ-----------KSTGFDRRKKNYSSQKS 418 + +I Q + ++ PQ D K + S Sbjct: 567 ETE----------RRREI-QMAYNEEHGITPQTIKKKIRDILDGEYEEDEYKAKIEKKAS 615 Query: 419 HIPLKESEK-ISKLQQDIQE 437 + KE EK I KL+++++E Sbjct: 616 KMSKKELEKLIKKLEKEMKE 635 Score = 28.6 bits (64), Expect = 4.2 Identities = 17/49 (34%), Positives = 29/49 (59%), Gaps = 9/49 (18%) Query: 47 TGTGKTASFVLPMLTILEKGRARVRMPRTLILEPTRELAAQVADNFEKY 95 TG+GKT + M ++ A+V+ P TL+L + LAAQ+ F+++ Sbjct: 41 TGSGKTFT----MANVI----AKVQRP-TLVLAHNKTLAAQLYSEFKEF 80 >gnl|CDD|35572 KOG0351, KOG0351, KOG0351, ATP-dependent DNA helicase [Replication, recombination and repair]. Length = 941 Score = 48.5 bits (115), Expect = 4e-06 Identities = 30/108 (27%), Positives = 45/108 (41%) Query: 248 GIIFCNQKKNVVNLCHSLEKQGFSVCAIHGNIDQRSRMKILSNFKEGTIQLMVASDLAAR 307 GII+C +K + L G S H + + R + + I+++VA+ Sbjct: 488 GIIYCLSRKECEQVSAVLRSLGKSAAFYHAGLPPKERETVQKAWMSDKIRVIVATVAFGM 547 Query: 308 GLDIPDVGHVFNFDVPNRAENYIHRIGRTGRAGRHGKAFTLVAKEDIK 355 G+D PDV V ++ +P E Y GR GR G L DI Sbjct: 548 GIDKPDVRFVIHYSLPKSFEGYYQEAGRAGRDGLPSSCVLLYGYADIS 595 >gnl|CDD|36138 KOG0920, KOG0920, KOG0920, ATP-dependent RNA helicase A [RNA processing and modification]. Length = 924 Score = 44.5 bits (105), Expect = 7e-05 Identities = 73/386 (18%), Positives = 141/386 (36%), Gaps = 69/386 (17%) Query: 24 PTPIQIKTIPLVLQRHDVCGIA-QTGTGKTASFVLPMLTILEKGRARVRMPRTLILEPTR 82 P TI ++ + V I+ +TG GKT +P IL++ + +P R Sbjct: 173 PAYKMRDTILDAIEENQVVVISGETGCGKTTQ--VPQF-ILDEAIESGAACNIICTQPRR 229 Query: 83 ELAAQVADNFEK-YGKNYNLTVALLIGGIPFEAQNKKLERGADVLICTPGRILDHFNRGK 141 A VA+ K G++ V + K R +L CT G +L + Sbjct: 230 ISAISVAERVAKERGESLGEEVGYQVRL------ESKRSRETRLLFCTTGVLLRRL-QSD 282 Query: 142 LLMNNIEILVIDEA-DRMLDMGFIPYIQNITSLVPFTR--QTLLFSATMTDELQK----- 193 ++ + +++DE +R ++ F+ + + L+P + +L SAT+ EL Sbjct: 283 PTLSGVTHIIVDEVHERSINTDFLLIL--LKDLLPRNPDLKVILMSATLDAELFSDYFGG 340 Query: 194 ------------VSENFLQN-----PKRIEVNTPSSTAETIEHCFVATYAQYSK-KCALL 235 V E FL++ E ++ S E + + L+ Sbjct: 341 CPVITIPGRTFPVKEYFLEDILSKTGYVSEDDSARSGPERSQLRLARLKLWEPEIDYDLI 400 Query: 236 QQLLQS-QDTMKNGIIFC---------NQKKNVVNLCHSLEKQGFSVCAIHGNIDQRSRM 285 + L++ + G I K+ + + F++ +H +I + Sbjct: 401 EDLIEYIDEREFEGAILVFLPGWEEILQLKELLEVNLPFADSLKFAILPLHSSIPSEEQQ 460 Query: 286 KILSNFKEGTIQLMVASDLAARGLDIPDVGHVFN--------FDVPNRAE---------- 327 + +GT ++++A+++A + I DV +V + +D + Sbjct: 461 AVFKRPPKGTRKIILATNIAETSITIDDVVYVIDSGLVKEKSYDPERKVSCLLLSWVSKA 520 Query: 328 NYIHRIGRTGRAGRHGKAFTLVAKED 353 N R GR GR R G + L + Sbjct: 521 NAKQRRGRAGRV-RPGICYHLYTRSR 545 >gnl|CDD|31390 COG1197, Mfd, Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]. Length = 1139 Score = 42.9 bits (101), Expect = 2e-04 Identities = 22/98 (22%), Positives = 48/98 (48%), Gaps = 9/98 (9%) Query: 271 SVCAIHGNIDQRSRMKILSNFKEGTIQLMVASDLAARGLDIPDVGHVFNFDVPNRAENY- 329 + HG + +R +++ +F G ++V + + G+DIP+ N + RA+ + Sbjct: 831 RIAVAHGQMRERELEEVMLDFYNGEYDVLVCTTIIETGIDIPNA----NTIIIERADKFG 886 Query: 330 ---IHRI-GRTGRAGRHGKAFTLVAKEDIKHIDAIEKL 363 ++++ GR GR+ + A+ L + DA ++L Sbjct: 887 LAQLYQLRGRVGRSNKQAYAYFLYPPQKALTEDAEKRL 924 >gnl|CDD|36170 KOG0952, KOG0952, KOG0952, DNA/RNA helicase MER3/SLH1, DEAD-box superfamily [RNA processing and modification]. Length = 1230 Score = 40.7 bits (95), Expect = 8e-04 Identities = 26/118 (22%), Positives = 51/118 (43%), Gaps = 12/118 (10%) Query: 45 AQTGTGKTASFVLPMLTILEKGRARVRMPR----TLILEPTRELAAQVADNFEKYGKNYN 100 A TG+GKT L +L +++ + + + + + P + LAA++ D F K Sbjct: 133 APTGSGKTVLAELCILRTIKEHEEQGDIAKDDFKIVYIAPMKALAAEMVDKFSKKLAPLG 192 Query: 101 LTVALLIGGIPFEAQNKKLERGADVLICTPGRILDHFNRGKL----LMNNIEILVIDE 154 ++V L G +++ TP + D R + L + + +++IDE Sbjct: 193 ISVRELTGDTQLTKTEIA---DTQIIVTTPEK-WDVVTRKSVGDSALFSLVRLVIIDE 246 >gnl|CDD|36171 KOG0953, KOG0953, KOG0953, Mitochondrial RNA helicase SUV3, DEAD-box superfamily [RNA processing and modification]. Length = 700 Score = 39.2 bits (91), Expect = 0.003 Identities = 54/277 (19%), Positives = 102/277 (36%), Gaps = 35/277 (12%) Query: 117 KKLERGADVLICTPGRILDHFNRGKLLMNNIEILVIDEADRMLDMGFIPYIQNITSLVPF 176 ++L+ + C P R+L H +L I ++ +R + Q+++ V Sbjct: 210 QRLKSAKSGVYCGPLRLLAHEVYDRLNALGIPCDLLTGEERRFVLDNGNPAQHVSCTVEM 269 Query: 177 TRQTLLFSATMTDELQKVSE--------NFLQNPKRIEVN---TPS------STAETIEH 219 + + DE+Q + + L E++ PS + Sbjct: 270 VSVNTPYEVAVIDEIQMMRDPSRGWAWTRALLGLAADEIHLCGEPSVLDLVRKILKMTGD 329 Query: 220 CFVATYAQYSKKCALLQQLLQSQDTMKNG-IIFCNQKKNVVNLCHSLEKQGFSVCA-IHG 277 + + + L S +K G + KK++ + +EK G CA I+G Sbjct: 330 DVEVREYERLSPLVVEETALGSLSNLKPGDCVVAFSKKDIFTVKKKIEKAGNHKCAVIYG 389 Query: 278 NIDQRSRMKILSNF--KEGTIQLMVASDLAARGLDIPDVGHVFN-FDVPNRAE------N 328 ++ +R+ + F ++VASD GL++ +F + E + Sbjct: 390 SLPPETRLAQAALFNDPSNECDVLVASDAIGMGLNLNIRRIIFYSLIKYSGRETEDITVS 449 Query: 329 YIHRIGRTGRAGRHGKAF-----TLVAKEDIKHIDAI 360 I +I GRAGR G + T + ED+K + I Sbjct: 450 QIKQIA--GRAGRFGSKYPQGEVTTLHSEDLKLLKRI 484 >gnl|CDD|36141 KOG0923, KOG0923, KOG0923, mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]. Length = 902 Score = 38.0 bits (88), Expect = 0.006 Identities = 31/124 (25%), Positives = 48/124 (38%), Gaps = 25/124 (20%) Query: 255 KKNVVNLCHSLEKQG--FSVCAIHGNIDQRSRMKILSNFKEGTIQLMVASDLAARGLDIP 312 K+N+ C L + V I+ N+ + KI G ++++A+++A L I Sbjct: 490 KENLKERCRRLGSKIRELIVLPIYANLPSELQAKIFEPTPPGARKVVLATNIAETSLTID 549 Query: 313 DVGHVFN--FDVPNRAENYIHRIG----------------RTGRAGRH--GKAFTLVAKE 352 + +V + F N Y R G R GRAGR GK F L Sbjct: 550 GIKYVIDPGFVKQNS---YNPRTGMESLLVTPISKASANQRAGRAGRTGPGKCFRLYTAW 606 Query: 353 DIKH 356 +H Sbjct: 607 AYEH 610 >gnl|CDD|30899 COG0553, HepA, Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]. Length = 866 Score = 37.8 bits (86), Expect = 0.006 Identities = 32/149 (21%), Positives = 56/149 (37%), Gaps = 14/149 (9%) Query: 249 IIFCNQKKNVVNLCHSLEKQGFSVCAIHGNIDQRSRMKILSNFKEGTIQLMVASDLAARG 308 +IF + L L+ G + G+ + R +++ F + + L A G Sbjct: 715 LIFSQFTPVLDLLEDYLKALGIKYVRLDGSTPAKRRQELIDRFNADEEEKVFLLSLKAGG 774 Query: 309 LDIPDVG--HVFNFD------VPNRAENYIHRIGRTGRAGRHGKAFTLVAKEDI--KHID 358 L + G V FD V +A + HRIG+ R K + L+ + I K ++ Sbjct: 775 LGLNLTGADTVILFDPWWNPAVELQAIDRAHRIGQK----RPVKVYRLITRGTIEEKILE 830 Query: 359 AIEKLIEKKVDWLNGDLSSLNPPLEKIDI 387 EK E ++ + L D+ Sbjct: 831 LQEKKQELLDSLIDAEGEKELSKLSIEDL 859 >gnl|CDD|36220 KOG1002, KOG1002, KOG1002, Nucleotide excision repair protein RAD16 [Replication, recombination and repair]. Length = 791 Score = 35.8 bits (82), Expect = 0.026 Identities = 40/154 (25%), Positives = 72/154 (46%), Gaps = 18/154 (11%) Query: 233 ALLQQL--LQSQDTMKNGIIFCNQKKNVVNLCH-SLEKQGFSVCAIHGNIDQRSRMKILS 289 AL+++L L+ +D I+F +Q ++++L L K GFS + G++ +R + Sbjct: 624 ALVEELYFLRERDRTAKSIVF-SQFTSMLDLIEWRLGKAGFSCVKLVGSMSPAARDATIK 682 Query: 290 NFKEGTIQLMVASDLAARG--LDIPDVGHVFNFD------VPNRAENYIHRIGRTGRAGR 341 FK + L A G L++ + VF D V +A++ IHRIG+ R Sbjct: 683 YFKNDIDCRVFLVSLKAGGVALNLTEASQVFMMDPWWNPAVEWQAQDRIHRIGQY----R 738 Query: 342 HGKAFTLVAKEDIKHIDAIEKLIEKKVDWLNGDL 375 K + I+ + I +L EKK + ++ + Sbjct: 739 PVKVVRFCIENSIE--EKIIELQEKKANMIHATI 770 >gnl|CDD|36169 KOG0951, KOG0951, KOG0951, RNA helicase BRR2, DEAD-box superfamily [RNA processing and modification]. Length = 1674 Score = 35.7 bits (82), Expect = 0.026 Identities = 29/120 (24%), Positives = 47/120 (39%), Gaps = 15/120 (12%) Query: 20 GYVKPTPIQIKTIPLVLQRHD-VCGIAQTGTGKTASFVLPMLTILEKGRARVRMPRTLIL 78 G IQ K L+ + + A TG GKT + +LTIL++ +R ++ L Sbjct: 306 GKQSLNRIQSKVYDAALRGDENMLLCAPTGAGKT---NVAVLTILQELGNHLREDGSVNL 362 Query: 79 E--------PTRELAAQVADNFEKYGKNYNLTVALLIGGIPFEAQNKKLERGADVLICTP 130 P + L ++ +F K +TV L G K+ V++ TP Sbjct: 363 APFKIVYIAPMKALVQEMVGSFSKRLAPLGITVLELTGD---SQLGKEQIEETQVIVTTP 419 Score = 32.6 bits (74), Expect = 0.21 Identities = 30/108 (27%), Positives = 45/108 (41%), Gaps = 10/108 (9%) Query: 26 PIQIKTIPLVLQRHDVCGI-AQTGTGKTASFVLPMLTILEKGRARVRMPRTLILEPTREL 84 PIQ + + +D + A G+GKTA L +L GRA P I + Sbjct: 1146 PIQTQVFTSLYNTNDNVLVGAPNGSGKTACAELALLRPDTIGRAVYIAPLEEIAD----- 1200 Query: 85 AAQVADNFEKYGKNYNLTVALLIGGIPFEAQNKKLERGADVLICTPGR 132 Q D +K+ K L + L G + + KL + V+I TP + Sbjct: 1201 -EQYRDWEKKFSKLLGLRIVKLTGE---TSLDLKLLQKGQVIISTPEQ 1244 >gnl|CDD|34219 COG4581, COG4581, Superfamily II RNA helicase [DNA replication, recombination, and repair]. Length = 1041 Score = 35.3 bits (81), Expect = 0.038 Identities = 36/171 (21%), Positives = 66/171 (38%), Gaps = 15/171 (8%) Query: 23 KPTPIQIKTIPLVLQRHDVCGIAQTGTGKTASFVLPMLTILEKGRARVRMPRTLILEPTR 82 + P Q + I ++ + V A T +GKT ++ A R + P + Sbjct: 119 ELDPFQQEAIAILERGESVLVCAPTSSGKT------VVAEYAIALALRDGQRVIYTSPIK 172 Query: 83 ELAAQV-ADNFEKYGKNYNLTVALLIGGIPFEAQNKKLERGADVLICTPGRILDHFNRGK 141 L+ Q D K+G V L+ G + + A L+ T + + RG Sbjct: 173 ALSNQKYRDLLAKFGD-VADMVGLMTGDV-------SINPDAPCLVMTTEILRNMLYRGS 224 Query: 142 LLMNNIEILVIDEADRMLDMGFIPYIQNITSLVPFTRQTLLFSATMTDELQ 192 + +IE +V DE + D + + L+P + + SAT+ + + Sbjct: 225 ESLRDIEWVVFDEVHYIGDRERGVVWEEVIILLPDHVRFVFLSATVPNAEE 275 >gnl|CDD|36340 KOG1125, KOG1125, KOG1125, TPR repeat-containing protein [General function prediction only]. Length = 579 Score = 34.2 bits (78), Expect = 0.080 Identities = 22/131 (16%), Positives = 37/131 (28%), Gaps = 6/131 (4%) Query: 332 RIGRTGRAGRHGKAFTLVAKEDIKHIDAIEKLIEKKVDWLNGDLSSLNPPLEKIDIAQHN 391 R A VA + ++LI + + N S PP K+D Sbjct: 27 DNNNLQEQLRAHLAKASVAFYIPLQLAEGDELINEFLQQNNQPNVSRGPPSFKMDNLLAE 86 Query: 392 HARKN----NPIPQKSTGFDRRKKNYSSQKSHIPLKESEKISKLQQDIQENDADSLGFRG 447 A + ++ G +S + S L + + Q + N S Sbjct: 87 TADISIKGVRNASKEFQGLQ--NSQWSEEFSQFFLNALKSDRDVTQPLSRNQHGSEFINE 144 Query: 448 NMPAFMLPKNR 458 + NR Sbjct: 145 SSDPLASSHNR 155 >gnl|CDD|147155 pfam04851, ResIII, Type III restriction enzyme, res subunit. Length = 103 Score = 33.0 bits (76), Expect = 0.18 Identities = 17/70 (24%), Positives = 32/70 (45%), Gaps = 6/70 (8%) Query: 23 KPTPIQIKTIPLVLQRHDVCGIAQTGTGKTASFVLPMLTILEKGRARVRMPRTLILEPTR 82 + P QI+ I +L++ + TG+GKT L ++ + + + L L P + Sbjct: 3 ELRPYQIEAIRNLLEKKRGLIVMATGSGKT----LTAAKLIARLLKGKK--KVLFLVPRK 56 Query: 83 ELAAQVADNF 92 +L Q + F Sbjct: 57 DLLEQALEEF 66 >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 = 0.33 Identities = 24/122 (19%), Positives = 48/122 (39%), Gaps = 8/122 (6%) Query: 270 FSVCAIHGNIDQRSRMKILSNFKEGTIQLMVASDLAARGLDIPDVGHVFNFDV----PNR 325 + V H + R I + F+EG I ++VA+ A G+++P + Sbjct: 523 YGVAYHHAGLTSEEREIIEAAFREGNIFVLVATSTLAAGVNLPARRVIIRAPYVGREFLT 582 Query: 326 AENYIHRIGRTGRAGRH--GKAFTLVAKEDIKHIDAIEKLIEKKVDWLNGDLSSLNPPLE 383 Y +GR GR G G + ++ + K + + K ++ + + +N P+ Sbjct: 583 RLEYKQMVGRAGRTGIDTLGDSILIIKSSEKKRVRELVNSPLKPLN--SCLSNEVNGPIL 640 Query: 384 KI 385 Sbjct: 641 MA 642 >gnl|CDD|36218 KOG1000, KOG1000, KOG1000, Chromatin remodeling protein HARP/SMARCAL1, DEAD-box superfamily [Chromatin structure and dynamics]. Length = 689 Score = 31.5 bits (71), Expect = 0.48 Identities = 35/197 (17%), Positives = 70/197 (35%), Gaps = 23/197 (11%) Query: 249 IIFCNQKKNVVNLCHSLEKQGFSVCAIHGNIDQRSRMKILSNFKEGT-IQLMVASDLAAR 307 ++F + + + + + K+ I G+ R + +F+ +++ V S AA Sbjct: 496 LVFAHHQIVLDTIQVEVNKRKVGSIRIDGSTPSHRRTLLCQSFQTSEEVRVAVLSITAAG 555 Query: 308 -GLDIPDVGHV------FNFDVPNRAENYIHRIGRTGRAGRHGKAFTLVAKEDIKHIDAI 360 GL + V +N V +AE+ HRIG+ LVAK D + Sbjct: 556 VGLTLTAASVVVFAELHWNPGVLLQAEDRAHRIGQKSSVFVQ----YLVAKGTAD--DYM 609 Query: 361 EKLIEKKVDWLNGDLSSLNPPLEKIDIAQHNHARKNNPIPQKSTGFDRRKKNYSSQKSHI 420 ++++K+D L G + + + N+ + + + I Sbjct: 610 WPMLQQKLDVL-GSVGLSSDTFRTAEKM---GLSFNDAAQPGIAEY-----LKKTPDTTI 660 Query: 421 PLKESEKISKLQQDIQE 437 E K D++ Sbjct: 661 DEWEDPVEEKEDDDLEI 677 >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 = 0.55 Identities = 19/75 (25%), Positives = 32/75 (42%), Gaps = 16/75 (21%) Query: 286 KILSNFKEGTIQLMVASDLAARGLDIPDVGHV---------FNFDVPNRAENYIHRI--- 333 +L F G +++ + + A+G D P+V V + D RA ++ Sbjct: 525 DLLDQFANGEADILIGTQMIAKGHDFPNVTLVGVLDADTGLGSPDF--RASERTFQLLMQ 582 Query: 334 --GRTGRAGRHGKAF 346 GR GRAG+ G+ Sbjct: 583 VAGRAGRAGKPGEVV 597 >gnl|CDD|36339 KOG1123, KOG1123, KOG1123, RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, 3'-5' helicase subunit SSL2 [Transcription, Replication, recombination and repair]. Length = 776 Score = 31.1 bits (70), Expect = 0.71 Identities = 25/88 (28%), Positives = 39/88 (44%), Gaps = 12/88 (13%) Query: 275 IHGNIDQRSRMKILSNFKEG-TIQLMVASDLAARGLDIPDVGHVFNFDV---PNRAENYI 330 I+G Q RMKIL NF+ + + S + +D+P+ + R E Sbjct: 568 IYGPTSQNERMKILQNFQTNPKVNTIFLSKVGDTSIDLPEANVLIQISSHGGSRRQE--A 625 Query: 331 HRIGRTGRAGRHG----KAF--TLVAKE 352 R+GR RA + AF +LV+K+ Sbjct: 626 QRLGRILRAKKRNDEEFNAFFYSLVSKD 653 >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 = 31.1 bits (70), Expect = 0.72 Identities = 67/319 (21%), Positives = 122/319 (38%), Gaps = 58/319 (18%) Query: 45 AQTGTGKTASFVLPMLTILEKG-RARVRMPRTLILEPTRELAAQVADNFEKYGKNYNLTV 103 A TG GKT + L +G R + PR + EL ++ F N + Sbjct: 123 AVTGAGKTEMIFQGIEQALNQGGRVCIASPRVDVC---LELYPRLKQAFS------NCDI 173 Query: 104 ALLIGGIP--FEAQNKKLERGADVLICTPGRIL---DHFNRGKLLMNNIEILVIDEADRM 158 LL G F A +++ T ++L F ++L+IDE D Sbjct: 174 DLLYGDSDSYFRAP---------LVVATTHQLLRFKQAF----------DLLIIDEVDAF 214 Query: 159 LDMGFIPYIQNITSLVPFTRQ------TLLFSATMTDELQKV----SENFLQNPKRIEVN 208 P+ + + + T+ +AT T +L++ + L+ P R Sbjct: 215 ------PFSDDQSLQYAVKKARKKEGATIYLTATPTKKLERKILKGNLRILKLPARFH-G 267 Query: 209 TPSSTAETIEHCFVATYAQYSKKCALLQQLLQSQ-DTMKNGIIFCNQKKNVVNLCHSLEK 267 P + + Q +K L++ L+ Q T + +IF + + + + +L+K Sbjct: 268 KPLPVPKFVWIGNWNKKLQRNKLPLKLKRWLEKQRKTGRPVLIFFPEIETMEQVAAALKK 327 Query: 268 Q-GFSVCAIHGNIDQRSRMKILSNFKEGTIQLMVASDLAARGLDIPDVGHVFNFDVPNR- 325 + A + DQ R + + F++G I L++ + + RG+ P+V VF +R Sbjct: 328 KLPKETIASVHSEDQ-HRKEKVEAFRDGKITLLITTTILERGVTFPNV-DVFVLGAEHRV 385 Query: 326 --AENYIHRIGRTGRAGRH 342 + GR GR+ Sbjct: 386 FTESALVQIAGRVGRSLER 404 >gnl|CDD|35920 KOG0701, KOG0701, KOG0701, dsRNA-specific nuclease Dicer and related ribonucleases [RNA processing and modification]. Length = 1606 Score = 30.4 bits (68), Expect = 1.1 Identities = 27/122 (22%), Positives = 47/122 (38%), Gaps = 12/122 (9%) Query: 231 KCALLQQLLQSQDTMKNGIIFCNQKKNVVNLCHSLEKQG----FSVCAIHGNIDQRSRM- 285 C L+ + + +GIIF +Q+ L L + V G +S Sbjct: 278 VCPLVDKEYLEKIETLSGIIFVDQRYTAYVLLELLREIFSNDPLFVTGASGANLWKSFKN 337 Query: 286 -------KILSNFKEGTIQLMVASDLAARGLDIPDVGHVFNFDVPNRAENYIHRIGRTGR 338 ++L F + L++A+ + G+D+P V FD P +Y+ + GR Sbjct: 338 ELELRQAEVLRRFHFHELNLLIATSVLEEGVDVPKCNLVVLFDAPTYYRSYVQKKGRARA 397 Query: 339 AG 340 A Sbjct: 398 AD 399 >gnl|CDD|36219 KOG1001, KOG1001, KOG1001, Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription, Replication, recombination and repair]. Length = 674 Score = 30.0 bits (67), Expect = 1.6 Identities = 31/127 (24%), Positives = 53/127 (41%), Gaps = 14/127 (11%) Query: 249 IIFCNQKKNVVNLCHSLEKQGFSVCAIHGNIDQRSRMKILSNFKEGTIQLMVASDLAAR- 307 +IF + +C L +GF G + + R K ++F + + L A Sbjct: 543 VIFSQLIWGLALVCLRLFFKGFVFLRYDGEMLMKIRTKSFTDFPCDPLVTALLMSLKAGK 602 Query: 308 -GLDIPDVGHVFNFD------VPNRAENYIHRIGRTGRAGRHGKAFTLVAKEDIKHIDAI 360 GL++ HV D V +A + HRIG+T + K + K+ ++ + I Sbjct: 603 VGLNLTAASHVLLMDPWWNPAVEEQAIDRAHRIGQT----KPVKVSRFIIKDTVE--ERI 656 Query: 361 EKLIEKK 367 K+ EKK Sbjct: 657 LKIQEKK 663 >gnl|CDD|176220 cd08259, Zn_ADH5, Alcohol dehydrogenases of the MDR family. NAD(P)(H)-dependent oxidoreductases are the major enzymes in the interconversion of alcohols and aldehydes, or ketones. This group contains proteins that share the characteristic catalytic and structural zinc-binding sites of the zinc-dependent alcohol dehydrogenase family. Alcohol dehydrogenase in the liver converts ethanol and NAD+ to acetaldehyde and NADH, while in yeast and some other microorganisms ADH catalyzes the conversion acetaldehyde to ethanol in alcoholic fermentation. ADH is a member of the medium chain alcohol dehydrogenase family (MDR), which have a NAD(P)(H)-binding domain in a Rossmann fold of a beta-alpha form. The NAD(H)-binding region is comprised of 2 structurally similar halves, each of which contacts a mononucleotide. A GxGxxG motif after the first mononucleotide contact half allows the close contact of the coenzyme with the ADH backbone. The N-terminal catalytic domain has a distant homology to GroES. These proteins typically form dimers (typically higher plants, mammals) or tetramers (yeast, bacteria), and have 2 tightly bound zinc atoms per subunit, a catalytic zinc at the active site and a structural zinc in a lobe of the catalytic domain. NAD(H)-binding occurs in the cleft between the catalytic and coenzyme-binding domains at the active site, and coenzyme binding induces a conformational closing of this cleft. Coenzyme binding typically precedes and contributes to substrate binding. In human ADH catalysis, the zinc ion helps coordinate the alcohol, followed by deprotonation of a histidine (His-51), the ribose of NAD, a serine (Ser-48), then the alcohol, which allows the transfer of a hydride to NAD+, creating NADH and a zinc-bound aldehyde or ketone. In yeast and some bacteria, the active site zinc binds an aldehyde, polarizing it, and leading to the reverse reaction. Length = 332 Score = 29.6 bits (67), Expect = 1.8 Identities = 7/24 (29%), Positives = 12/24 (50%) Query: 20 GYVKPTPIQIKTIPLVLQRHDVCG 43 G V P P ++ L+L+ + G Sbjct: 256 GNVTPDPAPLRPGLLILKEIRIIG 279 >gnl|CDD|30955 COG0610, COG0610, Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]. Length = 962 Score = 29.6 bits (66), Expect = 1.9 Identities = 26/114 (22%), Positives = 43/114 (37%), Gaps = 11/114 (9%) Query: 47 TGTGKTASFVLPMLTILEKGRARVRMPRTLILEPTRELAAQVADNFEKYGKNYNLTVALL 106 G+GKT + M + + P+ L + ++L Q +D F+ +GK Sbjct: 282 QGSGKTLT----MFKLARLLLELPKNPKVLFVVDRKDLDDQTSDEFQSFGKVAFNDPKAE 337 Query: 107 IGGIPFEAQNKKLERGADVLICTPGRILDHFN--RGKLLMNNIEILVI-DEADR 157 E LE G +I T + + L+ ++VI DEA R Sbjct: 338 STSELKEL----LEDGKGKIIVTTIQKFNKAVKEDELELLKRKNVVVIIDEAHR 387 >gnl|CDD|33260 COG3457, COG3457, Predicted amino acid racemase [Amino acid transport and metabolism]. Length = 353 Score = 29.1 bits (65), Expect = 2.4 Identities = 5/41 (12%), Positives = 15/41 (36%) Query: 354 IKHIDAIEKLIEKKVDWLNGDLSSLNPPLEKIDIAQHNHAR 394 ++ +E ++ ++ ++ L + NH R Sbjct: 181 LQGKKKLEASSGIQLKQVSAGNATSLTLLPMGSLPGINHLR 221 >gnl|CDD|173823 cd00314, plant_peroxidase_like, Heme-dependent peroxidases similar to plant peroxidases. Along with animal peroxidases, these enzymes belong to a group of peroxidases containing a heme prosthetic group (ferriprotoporphyrin IX), which catalyzes a multistep oxidative reaction involving hydrogen peroxide as the electron acceptor. The plant peroxidase-like superfamily is found in all three kingdoms of life and carries out a variety of biosynthetic and degradative functions. Several sub-families can be identified. Class I includes intracellular peroxidases present in fungi, plants, archaea and bacteria, called catalase-peroxidases, that can exhibit both catalase and broad-spectrum peroxidase activities depending on the steady-state concentration of hydrogen peroxide. Catalase-peroxidases are typically comprised of two homologous domains that probably arose via a single gene duplication event. Class II includes ligninase and other extracellular fungal peroxidases, while class III is comprised of classic extracellular plant peroxidases, like horseradish peroxidase. Length = 255 Score = 28.7 bits (64), Expect = 3.3 Identities = 16/69 (23%), Positives = 23/69 (33%), Gaps = 9/69 (13%) Query: 50 GKTASFVLPMLTILEK---GR-----ARVRMPRTLILEPTRELAAQVA-DNFEKYGKNYN 100 G A L GR + +P L P +A D F++ G + + Sbjct: 90 GAVAVESTFGGGPLIPFRFGRLDATEPDLGVPDPEGLLPNETSSATELRDKFKRMGLSPS 149 Query: 101 LTVALLIGG 109 VAL G Sbjct: 150 ELVALSAGA 158 >gnl|CDD|73027 cd03268, ABC_BcrA_bacitracin_resist, The BcrA subfamily represents ABC transporters involved in peptide antibiotic resistance. Bacitracin is a dodecapeptide antibiotic produced by B. licheniformis and B. subtilis. The synthesis of bacitracin is non-ribosomally catalyzed by a multienzyme complex BcrABC. Bacitracin has potent antibiotic activity against gram-positive bacteria. The inhibition of peptidoglycan biosynthesis is the best characterized bacterial effect of bacitracin. The bacitracin resistance of B. licheniformis is mediated by the ABC transporter Bcr which is composed of two identical BcrA ATP-binding subunits and one each of the integral membrane proteins, BcrB and BcrC. B. subtilis cells carrying bcr genes on high-copy number plasmids develop collateral detergent sensitivity, a similar phenomenon in human cells with overexpressed multi-drug resistance P-glycoprotein.. Length = 208 Score = 28.6 bits (64), Expect = 3.5 Identities = 15/56 (26%), Positives = 30/56 (53%) Query: 143 LMNNIEILVIDEADRMLDMGFIPYIQNITSLVPFTRQTLLFSATMTDELQKVSENF 198 L+ N ++L++DE LD I ++ + + T+L S+ + E+QKV++ Sbjct: 141 LLGNPDLLILDEPTNGLDPDGIKELRELILSLRDQGITVLISSHLLSEIQKVADRI 196 >gnl|CDD|38880 KOG3676, KOG3676, KOG3676, Ca2+-permeable cation channel OSM-9 and related channels (OTRPC family) [Inorganic ion transport and metabolism, Signal transduction mechanisms]. Length = 782 Score = 28.0 bits (62), Expect = 5.6 Identities = 14/42 (33%), Positives = 17/42 (40%) Query: 345 AFTLVAKEDIKHIDAIEKLIEKKVDWLNGDLSSLNPPLEKID 386 TL AK K + K DW G ++S PL ID Sbjct: 311 PLTLAAKLGKKEMFQHILERRKFTDWAYGPVTSSLYPLNSID 352 >gnl|CDD|31392 COG1199, DinG, Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]. Length = 654 Score = 27.8 bits (61), Expect = 6.1 Identities = 22/72 (30%), Positives = 33/72 (45%), Gaps = 9/72 (12%) Query: 21 YVKPTPIQIKTIPLV---LQRHDVCGI-AQTGTGKTASFVLPMLTILEKGRARVRMPRTL 76 +P P Q + V L+ + I A TGTGKT +++LP L AR + + Sbjct: 13 GFEPRPEQREMAEAVAEALKGGEGLLIEAPTGTGKTLAYLLPALAY-----AREEGKKVI 67 Query: 77 ILEPTRELAAQV 88 I T+ L Q+ Sbjct: 68 ISTRTKALQEQL 79 >gnl|CDD|111435 pfam02534, TraG, TraG/TraD family. These proteins contain a P-loop and walker-B site for nucleotide binding. TraG is essential for DNA transfer in bacterial conjugation. These proteins are thought to mediate interactions between the DNA-processing (Dtr) and the mating pair formation (Mpf) systems. Length = 468 Score = 27.8 bits (62), Expect = 6.3 Identities = 16/53 (30%), Positives = 23/53 (43%), Gaps = 8/53 (15%) Query: 44 IAQTGTGKTASFVLPMLTILEKGRARVRMPRTLILEPTRELAAQVADNFEKYG 96 A TG+GK V+P +L + V +L+P EL + EK G Sbjct: 50 FAGTGSGKGVGVVIP--NLLVWKGSIV------VLDPKGELWELTSGIREKQG 94 >gnl|CDD|36040 KOG0822, KOG0822, KOG0822, Protein kinase inhibitor [Cell cycle control, cell division, chromosome partitioning]. Length = 649 Score = 27.6 bits (61), Expect = 7.4 Identities = 12/63 (19%), Positives = 19/63 (30%), Gaps = 21/63 (33%) Query: 365 EKKVDWLNGDLSSLNPPLEKIDI---------------------AQHNHARKNNPIPQKS 403 + +V ++ D+ N P E+ DI AQ IP Sbjct: 420 DNRVTIISSDMRKWNAPREQADIIVSELLGSFGDNELSPECLDGAQKFLKPDGISIPSSY 479 Query: 404 TGF 406 T + Sbjct: 480 TSY 482 >gnl|CDD|32062 COG1878, COG1878, Predicted metal-dependent hydrolase [General function prediction only]. Length = 218 Score = 27.5 bits (61), Expect = 8.6 Identities = 23/108 (21%), Positives = 33/108 (30%), Gaps = 5/108 (4%) Query: 306 ARGLDIPDVGHVFNFDVPNRAENYIHRIG-----RTGRAGRHGKAFTLVAKEDIKHIDAI 360 +DI + G RTG + R G I+A Sbjct: 79 GVVIDISGKDPDEVITEDDIEAWDAEHPGDIVLIRTGWSKRWGDEPAFQYHFPGISIEAA 138 Query: 361 EKLIEKKVDWLNGDLSSLNPPLEKIDIAQHNHARKNNPIPQKSTGFDR 408 E LIE+ V + D S +P L + A I + T D+ Sbjct: 139 EYLIERGVKAVGIDTPSTDPGLSEDFPAHRLLLSAGILIVENLTNLDK 186 >gnl|CDD|37551 KOG2340, KOG2340, KOG2340, Uncharacterized conserved protein [Function unknown]. Length = 698 Score = 27.3 bits (60), Expect = 8.7 Identities = 29/127 (22%), Positives = 49/127 (38%), Gaps = 31/127 (24%) Query: 123 ADVLICTP-GRILDHFNRGKL-----LMNNIEILVIDEADRMLDMGFIPYIQNITS---L 173 +D+L+ +P G + N G +++IE+L+ID+AD ML M ++ +I L Sbjct: 386 SDILVASPLGLRMILGNTGDKKRDFDFLSSIELLIIDQADIML-MQNWEHLLHIFDHLNL 444 Query: 174 VP---------------------FTRQTLLFSATMTDELQKVSENFLQNPKRIEVNTPSS 212 P + RQTLLFS + + QN Sbjct: 445 QPSKQHDVDFSRVRMWYLDGQSRYFRQTLLFSRYSHPLFNSLFNQYCQNMAGKVKARNLQ 504 Query: 213 TAETIEH 219 + +I + Sbjct: 505 SGGSISN 511 >gnl|CDD|31237 COG1034, NuoG, NADH dehydrogenase/NADH:ubiquinone oxidoreductase 75 kD subunit (chain G) [Energy production and conversion]. Length = 693 Score = 27.3 bits (60), Expect = 8.9 Identities = 16/78 (20%), Positives = 26/78 (33%), Gaps = 4/78 (5%) Query: 328 NYIHRIGRTGRAGRHGKAFTLVAKEDIKHIDAIEKLIEKKVDWLNGDLSSLNPPLEKIDI 387 N R+ R +A R +ED + + A+ + K+D+ D Sbjct: 569 NLEGRVQRFNQALR----PGGDEREDWRVLHALASELGLKLDFDQLDAVRAALAAAHPGF 624 Query: 388 AQHNHARKNNPIPQKSTG 405 A + A K P G Sbjct: 625 ALIDSAAKGEREPPAGEG 642 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 0.320 0.136 0.394 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: 5,500,963 Number of extensions: 291117 Number of successful extensions: 1027 Number of sequences better than 10.0: 1 Number of HSP's gapped: 908 Number of HSP's successfully gapped: 102 Length of query: 465 Length of database: 6,263,737 Length adjustment: 97 Effective length of query: 368 Effective length of database: 4,167,664 Effective search space: 1533700352 Effective search space used: 1533700352 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: 59 (26.4 bits)