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)