RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy1604
(693 letters)
>2db3_A ATP-dependent RNA helicase VASA; DEAD-BOX, protein-RNA complex,
ATPase, riken structural genomics/proteomics initiative,
RSGI; HET: ANP; 2.20A {Drosophila melanogaster}
Length = 434
Score = 419 bits (1079), Expect = e-141
Identities = 164/259 (63%), Positives = 199/259 (76%), Gaps = 10/259 (3%)
Query: 399 KKGCNILVATMGRLKDILDRGRISLASVRFVVLDEADRMLDMGFLGDIQHVMQHSTMPDV 458
+GC++++AT GRL D +DR I+ RFVVLDEADRMLDMGF D++ +M H TM
Sbjct: 177 TRGCHVVIATPGRLLDFVDRTFITFEDTRFVVLDEADRMLDMGFSEDMRRIMTHVTMR-- 234
Query: 459 ANRQTLMFSATFPETIQ-------KNYIFIAVGIIGGASTDVVQTILEVPKQQKKKKLLE 511
QTLMFSATFPE IQ KNY+F+A+GI+GGA +DV QTI EV K K+ KL+E
Sbjct: 235 PEHQTLMFSATFPEEIQRMAGEFLKNYVFVAIGIVGGACSDVKQTIYEVNKYAKRSKLIE 294
Query: 512 LLREKDEDGVIVFVSTIRNADFIACYLCETEIATTSIHGSRLQSQREQAIHDFKTKKMKV 571
+L E+ DG IVFV T R ADF+A +L E E TTSIHG RLQSQREQA+ DFK MKV
Sbjct: 295 ILSEQ-ADGTIVFVETKRGADFLASFLSEKEFPTTSIHGDRLQSQREQALRDFKNGSMKV 353
Query: 572 LVATAVASRGLDIKGIRHVINYDLPQEIDEYVHRIGRTGRVGNKGRATSFYDPDQDGAIA 631
L+AT+VASRGLDIK I+HVINYD+P +ID+YVHRIGRTGRVGN GRATSF+DP++D AIA
Sbjct: 354 LIATSVASRGLDIKNIKHVINYDMPSKIDDYVHRIGRTGRVGNNGRATSFFDPEKDRAIA 413
Query: 632 KDLVRILEQAGQPVPEFLK 650
DLV+ILE +GQ VP+FL+
Sbjct: 414 ADLVKILEGSGQTVPDFLR 432
Score = 374 bits (964), Expect = e-124
Identities = 136/259 (52%), Positives = 173/259 (66%), Gaps = 7/259 (2%)
Query: 141 GADGAPFDPAKPPLYIPKDVDQSEDNLFSSGIQTGINFSGWENVEVKVSGDNPPRPIESF 200
G G+P YIP + +FSSGI +GI+FS + N+ VKV+G + P+PI+ F
Sbjct: 1 GPLGSP--EFPGEFYIPPEPSNDAIEIFSSGIASGIHFSKYNNIPVKVTGSDVPQPIQHF 58
Query: 201 ESAGLREILVKNLKKSNYTKPTPIQKYAIPAGLEGRDLMGCAQTGSGKTAAFLIPIMHHL 260
SA LR+I++ N+ KS Y PTPIQK +IP GRDLM CAQTGSGKTAAFL+PI+ L
Sbjct: 59 TSADLRDIIIDNVNKSGYKIPTPIQKCSIPVISSGRDLMACAQTGSGKTAAFLLPILSKL 118
Query: 261 LESPGELVTGYCAQPEVIICAPTRELVMQIHEVACKYAYSSVLKICLHYGGASSMHFNRQ 320
LE P EL G P+V+I +PTREL +QI A K+A+ S LKI + YGG S H N
Sbjct: 119 LEDPHELELGR---PQVVIVSPTRELAIQIFNEARKFAFESYLKIGIVYGGTSFRHQNEC 175
Query: 321 LEKGCNILVATMGRLKDILDRGRISLASVRFVVLDEADRMLDMGFLGDIQHVMQHSTMPD 380
+ +GC++++AT GRL D +DR I+ RFVVLDEADRMLDMGF D++ +M H TM
Sbjct: 176 ITRGCHVVIATPGRLLDFVDRTFITFEDTRFVVLDEADRMLDMGFSEDMRRIMTHVTMR- 234
Query: 381 VANRQTLMFSATFPETIQK 399
QTLMFSATFPE IQ+
Sbjct: 235 -PEHQTLMFSATFPEEIQR 252
>2i4i_A ATP-dependent RNA helicase DDX3X; DEAD, structural genomics, SGC,
structural GE consortium, hydrolase; HET: AMP; 2.20A
{Homo sapiens}
Length = 417
Score = 415 bits (1069), Expect = e-140
Identities = 128/260 (49%), Positives = 178/260 (68%), Gaps = 9/260 (3%)
Query: 399 KKGCNILVATMGRLKDILDRGRISLASVRFVVLDEADRMLDMGFLGDIQHVMQHSTMPDV 458
++GC++LVAT GRL D+++RG+I L +++VLDEADRMLDMGF I+ +++ TMP
Sbjct: 149 ERGCHLLVATPGRLVDMMERGKIGLDFCKYLVLDEADRMLDMGFEPQIRRIVEQDTMPPK 208
Query: 459 ANRQTLMFSATFPETIQ-------KNYIFIAVGIIGGASTDVVQTILEVPKQQKKKKLLE 511
R T+MFSATFP+ IQ YIF+AVG +G S ++ Q ++ V + K+ LL+
Sbjct: 209 GVRHTMMFSATFPKEIQMLARDFLDEYIFLAVGRVGSTSENITQKVVWVEESDKRSFLLD 268
Query: 512 LLREKDEDG-VIVFVSTIRNADFIACYLCETEIATTSIHGSRLQSQREQAIHDFKTKKMK 570
LL +D +VFV T + AD + +L A TSIHG R Q RE+A+H F++ K
Sbjct: 269 LLNATGKDSLTLVFVETKKGADSLEDFLYHEGYACTSIHGDRSQRDREEALHQFRSGKSP 328
Query: 571 VLVATAVASRGLDIKGIRHVINYDLPQEIDEYVHRIGRTGRVGNKGRATSFYDPDQDGAI 630
+LVATAVA+RGLDI ++HVIN+DLP +I+EYVHRIGRTGRVGN G ATSF++ + I
Sbjct: 329 ILVATAVAARGLDISNVKHVINFDLPSDIEEYVHRIGRTGRVGNLGLATSFFNER-NINI 387
Query: 631 AKDLVRILEQAGQPVPEFLK 650
KDL+ +L +A Q VP +L+
Sbjct: 388 TKDLLDLLVEAKQEVPSWLE 407
Score = 349 bits (898), Expect = e-114
Identities = 105/225 (46%), Positives = 146/225 (64%), Gaps = 10/225 (4%)
Query: 185 EVKVSGDNPPRPIESFESAGLREILVKNLKKSNYTKPTPIQKYAIPAGLEGRDLMGCAQT 244
V+ +G+N P IESF + EI++ N++ + YT+PTP+QK+AIP E RDLM CAQT
Sbjct: 2 MVEATGNNCPPHIESFSDVEMGEIIMGNIELTRYTRPTPVQKHAIPIIKEKRDLMACAQT 61
Query: 245 GSGKTAAFLIPIMHHLLESPGELVTGYCAQ----------PEVIICAPTRELVMQIHEVA 294
GSGKTAAFL+PI+ + + P ++ APTREL +QI+E A
Sbjct: 62 GSGKTAAFLLPILSQIYSDGPGEALRAMKENGRYGRRKQYPISLVLAPTRELAVQIYEEA 121
Query: 295 CKYAYSSVLKICLHYGGASSMHFNRQLEKGCNILVATMGRLKDILDRGRISLASVRFVVL 354
K++Y S ++ C+ YGGA R LE+GC++LVAT GRL D+++RG+I L +++VL
Sbjct: 122 RKFSYRSRVRPCVVYGGADIGQQIRDLERGCHLLVATPGRLVDMMERGKIGLDFCKYLVL 181
Query: 355 DEADRMLDMGFLGDIQHVMQHSTMPDVANRQTLMFSATFPETIQK 399
DEADRMLDMGF I+ +++ TMP R T+MFSATFP+ IQ
Sbjct: 182 DEADRMLDMGFEPQIRRIVEQDTMPPKGVRHTMMFSATFPKEIQM 226
>3oiy_A Reverse gyrase helicase domain; topoisomerase, DNA supercoiling,
archaea, isomeras; 2.35A {Thermotoga maritima} PDB:
3p4y_A 3p4x_A*
Length = 414
Score = 373 bits (959), Expect = e-123
Identities = 82/459 (17%), Positives = 151/459 (32%), Gaps = 89/459 (19%)
Query: 205 LREILVKNLKKSNYTKPTPIQKYAIPAGLEGRDLMGCAQTGSGKTAAFLIPIMHHLLESP 264
E KK T Q+ ++G+ A TG GKT ++ + +
Sbjct: 6 EYEDFRSFFKKKFGKDLTGYQRLWAKRIVQGKSFTMVAPTGVGKTTFGMMTALWLARKG- 64
Query: 265 GELVTGYCAQPEVIICAPTRELVMQIHEVACKYAYSSVLKICLHYGGASSMHFNRQLEK- 323
+ + PT LV Q E K A V KI Y + +
Sbjct: 65 ----------KKSALVFPTVTLVKQTLERLQKLADEKV-KIFGFYSSMKKEEKEKFEKSF 113
Query: 324 ---GCNILVATMGRLKDILDRGRISLASVRFVVLDEADRMLDMGFLGDIQHVMQHSTMPD 380
+ILV + + +R ++S FV +D+ D +L D +M +P+
Sbjct: 114 EEDDYHILVFSTQFVSK--NREKLSQKRFDFVFVDDVDAVLKASRNIDTLLMMVG--IPE 169
Query: 381 VANRQTLMFSATFPETIQKKGCNILVATMGRLKDILDRGRISLASVRFVVLDEADRMLDM 440
FS I ++ N+ +
Sbjct: 170 --EIIRKAFSTIKQGKIYERPKNLKPGIL------------------------------- 196
Query: 441 GFLGDIQHVMQHSTMPDVANRQTLMFSATFPETIQKNYIFIAVGIIGGASTDVVQTILEV 500
V+ +T R L ++ + VG + + ++ +
Sbjct: 197 --------VVSSATAKPRGIRPLLF----------RDLLNFTVGRLVSVARNITHVRISS 238
Query: 501 PKQQKKKKLLELLREKDEDGVIVFVSTIRNADFIACYLCETEIATTSIHGSRLQSQREQA 560
++K +LLE+ DG+++F T + YL + S+ E+
Sbjct: 239 RSKEKLVELLEIF----RDGILIFAQTEEEGKELYEYLKR-----FKFNVGETWSEFEKN 289
Query: 561 IHDFKTKKMKVLVATAV----ASRGLDI-KGIRHVINYDLPQEID--EYVHRIGRTGRVG 613
DFK K+ +L+ +RG+D+ + I++VI + P D Y+ GR+ R+
Sbjct: 290 FEDFKVGKINILIGVQAYYGKLTRGVDLPERIKYVIFWGTPSGPDVYTYIQASGRSSRIL 349
Query: 614 NKG--RATSFYDPDQDGAIAKDLVRILEQAGQPVPEFLK 650
N + S + + R+L A + + E +
Sbjct: 350 NGVLVKGVSVIFEEDEEIFESLKTRLLLIAEEEIIEEAE 388
>1wrb_A DJVLGB; RNA helicase, DEAD BOX, VASA, structural genomics, NPPSFA,
N project on protein structural and functional analyses;
2.40A {Dugesia japonica} SCOP: c.37.1.19
Length = 253
Score = 358 bits (920), Expect = e-120
Identities = 107/225 (47%), Positives = 152/225 (67%), Gaps = 3/225 (1%)
Query: 178 FSGWENVEVKVSGDN--PPRPIESFESAGLREILVKNLKKSNYTKPTPIQKYAIPAGLEG 235
F ++++ V V+G + IE+F+ L + N+ ++Y +PTPIQK AIPA LE
Sbjct: 1 FDKYDSIPVSVTGPDYSATNVIENFDELKLDPTIRNNILLASYQRPTPIQKNAIPAILEH 60
Query: 236 RDLMGCAQTGSGKTAAFLIPIMHHLLESPGELV-TGYCAQPEVIICAPTRELVMQIHEVA 294
RD+M CAQTGSGKTAAFLIPI++HL+ A P+ +I APTREL +QI +
Sbjct: 61 RDIMACAQTGSGKTAAFLIPIINHLVCQDLNQQRYSKTAYPKCLILAPTRELAIQILSES 120
Query: 295 CKYAYSSVLKICLHYGGASSMHFNRQLEKGCNILVATMGRLKDILDRGRISLASVRFVVL 354
K++ ++ L+ C+ YGGA + R+++ GC++LVAT GRL D +++ +ISL +++VL
Sbjct: 121 QKFSLNTPLRSCVVYGGADTHSQIREVQMGCHLLVATPGRLVDFIEKNKISLEFCKYIVL 180
Query: 355 DEADRMLDMGFLGDIQHVMQHSTMPDVANRQTLMFSATFPETIQK 399
DEADRMLDMGF I+ +++ S MP NRQTLMFSATFP+ IQK
Sbjct: 181 DEADRMLDMGFEPQIRKIIEESNMPSGINRQTLMFSATFPKEIQK 225
Score = 173 bits (441), Expect = 8e-50
Identities = 55/106 (51%), Positives = 73/106 (68%), Gaps = 7/106 (6%)
Query: 399 KKGCNILVATMGRLKDILDRGRISLASVRFVVLDEADRMLDMGFLGDIQHVMQHSTMPDV 458
+ GC++LVAT GRL D +++ +ISL +++VLDEADRMLDMGF I+ +++ S MP
Sbjct: 148 QMGCHLLVATPGRLVDFIEKNKISLEFCKYIVLDEADRMLDMGFEPQIRKIIEESNMPSG 207
Query: 459 ANRQTLMFSATFPETIQK-------NYIFIAVGIIGGASTDVVQTI 497
NRQTLMFSATFP+ IQK NYIF+ VG +G S + Q I
Sbjct: 208 INRQTLMFSATFPKEIQKLAADFLYNYIFMTVGRVGSTSDSIKQEI 253
>3sqw_A ATP-dependent RNA helicase MSS116, mitochondrial; RECA fold, RNA
dependent ATPase, RNA helicase; HET: ANP; 1.91A
{Saccharomyces cerevisiae S288C}
Length = 579
Score = 334 bits (858), Expect = e-106
Identities = 109/478 (22%), Positives = 177/478 (37%), Gaps = 83/478 (17%)
Query: 187 KVSGDNPPRPIESFESAGLREILVKNLKKSNYTKPTPIQKYAIPAGL--EGRDLMGCAQT 244
K E L + + K + + + TP+Q+ I L E D++ A+T
Sbjct: 10 KEDNSKEVTLDSLLEEGVLDKEIHKAITRMEFPGLTPVQQKTIKPILSSEDHDVIARAKT 69
Query: 245 GSGKTAAFLIPIMHHLLESPGELVTGYCAQPEVIICAPTRELVMQIHEVACKYA----YS 300
G+GKT AFLIPI HL+ + + + +I APTR+L +QI K
Sbjct: 70 GTGKTFAFLIPIFQHLINTKFDSQYM----VKAVIVAPTRDLALQIEAEVKKIHDMNYGL 125
Query: 301 SVLKICLHYGGASSMHFNRQLEK-GCNILVATMGRLKDILDRGRISLAS-VRFVVLDEAD 358
GG ++ K NI++AT GRL D+L++ V + VLDEAD
Sbjct: 126 KKYACVSLVGGTDFRAAMNKMNKLRPNIVIATPGRLIDVLEKYSNKFFRFVDYKVLDEAD 185
Query: 359 RMLDMGFLGDIQHVMQH---STMPDVANRQTLMFSATFPETIQKKGCNILVATMGRLKDI 415
R+L++GF D++ + N +TL+FSAT +
Sbjct: 186 RLLEIGFRDDLETISGILNEKNSKSADNIKTLLFSATLD------------------DKV 227
Query: 416 LDRGRISLASVRFVVLDEADRMLDMGFLGDIQHVMQHSTMPDVANRQTLMFSATFPETIQ 475
+ + LD D+ + E I
Sbjct: 228 QKLANNIMNKKECLFLDTVDK-------------NEPEA----------------HERID 258
Query: 476 KNYIFIAVGIIGGASTDVVQTILEVPKQQKKKKLLELLREKDEDGVIVFVSTIRNADFIA 535
++ + + + + ++ I+F T++ F+
Sbjct: 259 QSVV-------------ISEKFANSIFAAVEHIKKQIKERDSNYKAIIFAPTVKFTSFLC 305
Query: 536 CYLCETE---IATTSIHGSRLQSQREQAIHDFKTKKMKVLVATAVASRGLDIKGIRHVIN 592
L + HG Q++R + FK + +LV T V +RG+D + V+
Sbjct: 306 SILKNEFKKDLPILEFHGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQ 365
Query: 593 YDLPQEIDEYVHRIGRTGRVGNKGRATSFYDPDQDGAIAKDLVRILEQAGQPVPEFLK 650
+P E+ Y+HRIGRT R G +G + F D+ VR LE A V +
Sbjct: 366 IGVPSELANYIHRIGRTARSGKEGSSVLFICKDE-----LPFVRELEDAKNIVIAKQE 418
>3i5x_A ATP-dependent RNA helicase MSS116; protein-RNA complex, RNA
helicase, DEAD-BOX, ATP-binding, HE hydrolase,
mitochondrion; HET: ANP; 1.90A {Saccharomyces
cerevisiae} PDB: 3i5y_A* 3i61_A* 3i62_A* 3sqx_A*
Length = 563
Score = 333 bits (856), Expect = e-106
Identities = 111/490 (22%), Positives = 183/490 (37%), Gaps = 96/490 (19%)
Query: 182 ENVEVKVSGDNPPRPIES-FESAGLREILVKNLKKSNYTKPTPIQKYAIPAGL--EGRDL 238
+ + V ++ ++S E L + + K + + + TP+Q+ I L E D+
Sbjct: 55 KLIHVPKEDNSKEVTLDSLLEEGVLDKEIHKAITRMEFPGLTPVQQKTIKPILSSEDHDV 114
Query: 239 MGCAQTGSGKTAAFLIPIMHHLLESPGELVTGYCAQPEVIICAPTRELVMQIHEVACKYA 298
+ A+TG+GKT AFLIPI HL+ + + + +I APTR+L +QI K
Sbjct: 115 IARAKTGTGKTFAFLIPIFQHLINTKFDSQYM----VKAVIVAPTRDLALQIEAEVKKIH 170
Query: 299 YSSV----LKICLHYGGASSMHFNRQLEK-GCNILVATMGRLKDILDRGRISLAS-VRFV 352
+ GG ++ K NI++AT GRL D+L++ V +
Sbjct: 171 DMNYGLKKYACVSLVGGTDFRAAMNKMNKLRPNIVIATPGRLIDVLEKYSNKFFRFVDYK 230
Query: 353 VLDEADRMLDMGFLGDIQHVMQH---STMPDVANRQTLMFSATFPETIQKKGCNILVATM 409
VLDEADR+L++GF D++ + N +TL+FSAT
Sbjct: 231 VLDEADRLLEIGFRDDLETISGILNEKNSKSADNIKTLLFSATLD--------------- 275
Query: 410 GRLKDILDRGRISLASVRFVVLDEADRMLDMGFLGDIQHVMQHSTMPDVANRQTLMFSAT 469
+ + + LD D+ +
Sbjct: 276 ---DKVQKLANNIMNKKECLFLDTVDK-------------NEPEA--------------- 304
Query: 470 FPETIQKNYIFIAVGIIGGASTDVVQTILEVPKQQKKKKLL------ELLREKDEDGVIV 523
E I ++ + K ++ I+
Sbjct: 305 -HERIDQSVVIS-------------------EKFANSIFAAVEHIKKQIKERDSNYKAII 344
Query: 524 FVSTIRNADFIACYLCETE---IATTSIHGSRLQSQREQAIHDFKTKKMKVLVATAVASR 580
F T++ F+ L + HG Q++R + FK + +LV T V +R
Sbjct: 345 FAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQNKRTSLVKRFKKDESGILVCTDVGAR 404
Query: 581 GLDIKGIRHVINYDLPQEIDEYVHRIGRTGRVGNKGRATSFYDPDQDGAIAKDLVRILEQ 640
G+D + V+ +P E+ Y+HRIGRT R G +G + F D+ VR LE
Sbjct: 405 GMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEGSSVLFICKDE-----LPFVRELED 459
Query: 641 AGQPVPEFLK 650
A V +
Sbjct: 460 AKNIVIAKQE 469
>3dkp_A Probable ATP-dependent RNA helicase DDX52; DEAD, ADP, structural
genomics, structural GEN consortium, SGC, rRNA,
ATP-binding, hydrolase; HET: ADP; 2.10A {Homo sapiens}
Length = 245
Score = 304 bits (780), Expect = 3e-99
Identities = 75/236 (31%), Positives = 118/236 (50%), Gaps = 21/236 (8%)
Query: 174 TGINFSGWENVEVKVSGDNPPRPIESFESA----GLREILVKNLKKSNYTKPTPIQKYAI 229
INF ++ ++ V G + P PI +F+ + L++N+ + + PTPIQ AI
Sbjct: 2 MKINFLRNKH-KIHVQGTDLPDPIATFQQLDQEYKINSRLLQNILDAGFQMPTPIQMQAI 60
Query: 230 PAGLEGRDLMGCAQTGSGKTAAFLIPIMHHLLESPGELVTGYCAQPEVIICAPTRELVMQ 289
P L GR+L+ A TGSGKT AF IPI+ L + + +I +PTREL Q
Sbjct: 61 PVMLHGRELLASAPTGSGKTLAFSIPILMQLKQPANK-------GFRALIISPTRELASQ 113
Query: 290 IHEVACKYAYSSVLKICLHYGGASSMH-FNRQLEKGCNILVATMGRLKDILDRGR--ISL 346
IH K + + +I + + A + F + K +ILV T RL +L + I L
Sbjct: 114 IHRELIKISEGTGFRIHMIHKAAVAAKKFGPKSSKKFDILVTTPNRLIYLLKQDPPGIDL 173
Query: 347 ASVRFVVLDEADRMLD---MGFLGDIQHVMQHSTMPDVANRQTLMFSATFPETIQK 399
ASV ++V+DE+D++ + GF + + T + MFSATF +++
Sbjct: 174 ASVEWLVVDESDKLFEDGKTGFRDQLASIFLACTSHK---VRRAMFSATFAYDVEQ 226
Score = 121 bits (306), Expect = 3e-31
Identities = 29/98 (29%), Positives = 47/98 (47%), Gaps = 15/98 (15%)
Query: 399 KKGCNILVATMGRLKDILDRGR--ISLASVRFVVLDEADRMLD---MGFLGDIQHVMQHS 453
K +ILV T RL +L + I LASV ++V+DE+D++ + GF + +
Sbjct: 147 SKKFDILVTTPNRLIYLLKQDPPGIDLASVEWLVVDESDKLFEDGKTGFRDQLASIFLAC 206
Query: 454 TMPDVANRQTLMFSATFPETIQ-------KNYIFIAVG 484
T + MFSATF ++ N I +++G
Sbjct: 207 TSHK---VRRAMFSATFAYDVEQWCKLNLDNVISVSIG 241
>3fe2_A Probable ATP-dependent RNA helicase DDX5; DEAD, ADP, ATP-binding,
hydrolase, nucleotide- RNA-binding, methylation, mRNA
processing, mRNA S nucleus; HET: ADP; 2.60A {Homo
sapiens}
Length = 242
Score = 300 bits (772), Expect = 3e-98
Identities = 89/218 (40%), Positives = 129/218 (59%), Gaps = 7/218 (3%)
Query: 182 ENVEVKVSGDNPPRPIESFESAGLREILVKNLKKSNYTKPTPIQKYAIPAGLEGRDLMGC 241
+ E+ V G N P+P+ +F A ++ + + N+T+PT IQ P L G D++G
Sbjct: 13 RSKEITVRGHNCPKPVLNFYEANFPANVMDVIARQNFTEPTAIQAQGWPVALSGLDMVGV 72
Query: 242 AQTGSGKTAAFLIPIMHHLLESPGELVTGYCAQPEVIICAPTRELVMQIHEVACKYAYSS 301
AQTGSGKT ++L+P + H+ P L G P ++ APTREL Q+ +VA +Y +
Sbjct: 73 AQTGSGKTLSYLLPAIVHINHQP-FLERG--DGPICLVLAPTRELAQQVQQVAAEYCRAC 129
Query: 302 VLKICLHYGGASSMHFNRQLEKGCNILVATMGRLKDILDRGRISLASVRFVVLDEADRML 361
LK YGGA R LE+G I +AT GRL D L+ G+ +L ++VLDEADRML
Sbjct: 130 RLKSTCIYGGAPKGPQIRDLERGVEICIATPGRLIDFLECGKTNLRRTTYLVLDEADRML 189
Query: 362 DMGFLGDIQHVMQHSTMPDVANRQTLMFSATFPETIQK 399
DMGF I+ ++ PD RQTLM+SAT+P+ +++
Sbjct: 190 DMGFEPQIRKIVDQ-IRPD---RQTLMWSATWPKEVRQ 223
Score = 130 bits (330), Expect = 2e-34
Identities = 41/93 (44%), Positives = 59/93 (63%), Gaps = 11/93 (11%)
Query: 399 KKGCNILVATMGRLKDILDRGRISLASVRFVVLDEADRMLDMGFLGDIQHVMQHSTMPDV 458
++G I +AT GRL D L+ G+ +L ++VLDEADRMLDMGF I+ ++ PD
Sbjct: 150 ERGVEICIATPGRLIDFLECGKTNLRRTTYLVLDEADRMLDMGFEPQIRKIVDQ-IRPD- 207
Query: 459 ANRQTLMFSATFPETIQ-------KNYIFIAVG 484
RQTLM+SAT+P+ ++ K+YI I +G
Sbjct: 208 --RQTLMWSATWPKEVRQLAEDFLKDYIHINIG 238
>3iuy_A Probable ATP-dependent RNA helicase DDX53; REC-A-like, DEAD-BOX,
structural genomics, structural genomi consortium, SGC,
ATP-binding, hydrolase; HET: AMP; 2.40A {Homo sapiens}
Length = 228
Score = 284 bits (730), Expect = 3e-92
Identities = 76/215 (35%), Positives = 119/215 (55%), Gaps = 8/215 (3%)
Query: 186 VKVSGDNPPRPIESF-ESAGLREILVKNLKKSNYTKPTPIQKYAIPAGLEGRDLMGCAQT 244
P+P F ++ L+K++ + KPTPIQ A P L+G DL+ AQT
Sbjct: 7 KSGEKRLIPKPTCRFKDAFQQYPDLLKSIIRVGILKPTPIQSQAWPIILQGIDLIVVAQT 66
Query: 245 GSGKTAAFLIPIMHHLLESPGELVTGYCAQPEVIICAPTRELVMQIHEVACKYAYSSVLK 304
G+GKT ++L+P HL P P +++ PTREL + + KY+Y +
Sbjct: 67 GTGKTLSYLMPGFIHLDSQPISREQR--NGPGMLVLTPTRELALHVEAECSKYSYKGLKS 124
Query: 305 ICLHYGGASSMHFNRQLEKGCNILVATMGRLKDILDRGRISLASVRFVVLDEADRMLDMG 364
IC+ YGG + + KG +I++AT GRL D+ ++L S+ ++V+DEAD+MLDM
Sbjct: 125 ICI-YGGRNRNGQIEDISKGVDIIIATPGRLNDLQMNNSVNLRSITYLVIDEADKMLDME 183
Query: 365 FLGDIQHVMQHSTMPDVANRQTLMFSATFPETIQK 399
F I+ ++ PD RQT+M SAT+P+T+++
Sbjct: 184 FEPQIRKILLD-VRPD---RQTVMTSATWPDTVRQ 214
Score = 123 bits (310), Expect = 5e-32
Identities = 35/92 (38%), Positives = 57/92 (61%), Gaps = 11/92 (11%)
Query: 399 KKGCNILVATMGRLKDILDRGRISLASVRFVVLDEADRMLDMGFLGDIQHVMQHSTMPDV 458
KG +I++AT GRL D+ ++L S+ ++V+DEAD+MLDM F I+ ++ PD
Sbjct: 141 SKGVDIIIATPGRLNDLQMNNSVNLRSITYLVIDEADKMLDMEFEPQIRKILLD-VRPD- 198
Query: 459 ANRQTLMFSATFPETIQ-------KNYIFIAV 483
RQT+M SAT+P+T++ K+ + + V
Sbjct: 199 --RQTVMTSATWPDTVRQLALSYLKDPMIVYV 228
>2jgn_A DBX, DDX3, ATP-dependent RNA helicase DDX3X; phosphorylation,
nucleotide-binding, hydrolase, RNA-binding, ATP-binding,
DNA-binding, nuclear protein; 1.91A {Homo sapiens}
Length = 185
Score = 272 bits (699), Expect = 3e-88
Identities = 80/178 (44%), Positives = 117/178 (65%), Gaps = 2/178 (1%)
Query: 474 IQKNYIFIAVGIIGGASTDVVQTILEVPKQQKKKKLLELLREKDEDG-VIVFVSTIRNAD 532
+ ++ + G S ++ Q ++ V + K+ LL+LL +D +VFV T + AD
Sbjct: 1 MHHHHHHENLYFQGSTSENITQKVVWVEESDKRSFLLDLLNATGKDSLTLVFVETKKGAD 60
Query: 533 FIACYLCETEIATTSIHGSRLQSQREQAIHDFKTKKMKVLVATAVASRGLDIKGIRHVIN 592
+ +L A TSIHG R Q RE+A+H F++ K +LVATAVA+RGLDI ++HVIN
Sbjct: 61 SLEDFLYHEGYACTSIHGDRSQRDREEALHQFRSGKSPILVATAVAARGLDISNVKHVIN 120
Query: 593 YDLPQEIDEYVHRIGRTGRVGNKGRATSFYDPDQDGAIAKDLVRILEQAGQPVPEFLK 650
+DLP +I+EYVHRIGRTGRVGN G ATSF++ +++ I KDL+ +L +A Q VP +L+
Sbjct: 121 FDLPSDIEEYVHRIGRTGRVGNLGLATSFFN-ERNINITKDLLDLLVEAKQEVPSWLE 177
>2p6n_A ATP-dependent RNA helicase DDX41; DEAD, structural genomics,
structural genomic consortium, SGC, hydrolase; 2.60A
{Homo sapiens}
Length = 191
Score = 263 bits (675), Expect = 1e-84
Identities = 72/170 (42%), Positives = 101/170 (59%), Gaps = 1/170 (0%)
Query: 481 IAVGIIGGASTDVVQTILEVPKQQKKKKLLELLREKDEDGVIVFVSTIRNADFIACYLCE 540
+ +G AS DV+Q + V ++ K LLE L++ V++F + D I YL
Sbjct: 18 LYFQSMGAASLDVIQEVEYVKEEAKMVYLLECLQKTP-PPVLIFAEKKADVDAIHEYLLL 76
Query: 541 TEIATTSIHGSRLQSQREQAIHDFKTKKMKVLVATAVASRGLDIKGIRHVINYDLPQEID 600
+ +IHG + Q +R +AI F+ K VLVAT VAS+GLD I+HVINYD+P+EI+
Sbjct: 77 KGVEAVAIHGGKDQEERTKAIEAFREGKKDVLVATDVASKGLDFPAIQHVINYDMPEEIE 136
Query: 601 EYVHRIGRTGRVGNKGRATSFYDPDQDGAIAKDLVRILEQAGQPVPEFLK 650
YVHRIGRTG GN G AT+F + D ++ DL +L +A Q VP L+
Sbjct: 137 NYVHRIGRTGCSGNTGIATTFINKACDESVLMDLKALLLEAKQKVPPVLQ 186
>2z0m_A 337AA long hypothetical ATP-dependent RNA helicase DEAD;
ATP-binding, hydrolase, nucleotide-binding, RNA binding
protein, structural genomics; 1.90A {Sulfolobus
tokodaii}
Length = 337
Score = 252 bits (647), Expect = 3e-78
Identities = 83/229 (36%), Positives = 119/229 (51%), Gaps = 20/229 (8%)
Query: 400 KGCNILVATMGRLKDILDRGRISLASVRFVVLDEADRMLDMGFLGDIQHVMQHSTMPDVA 459
+ +I+VAT GRL D+ +G I L+S V++DEAD M +MGF+ DI+ ++
Sbjct: 104 RNADIVVATPGRLLDLWSKGVIDLSSFEIVIIDEADLMFEMGFIDDIKIILAQ--TS--N 159
Query: 460 NRQTLMFSATFPETIQ-------KNYIFIAVGIIGGASTDVVQTILEVPKQQKKKKLLEL 512
+ T +FSAT PE I+ NY I I +V + V + ++
Sbjct: 160 RKITGLFSATIPEEIRKVVKDFITNYEEIEACI---GLANVEHKFVHVKD--DWRSKVQA 214
Query: 513 LREKDEDGVIVFVSTIRNADFIACYLCETEIATTSIHGSRLQSQREQAIHDFKTKKMKVL 572
LRE + GVIVFV T + + G QS R + I F+ + +L
Sbjct: 215 LRENKDKGVIVFVRTRNRVAKLVRLF----DNAIELRGDLPQSVRNRNIDAFREGEYDML 270
Query: 573 VATAVASRGLDIKGIRHVINYDLPQEIDEYVHRIGRTGRVGNKGRATSF 621
+ T VASRGLDI + VIN+D PQ++ Y+HRIGRTGR+G KG A +F
Sbjct: 271 ITTDVASRGLDIPLVEKVINFDAPQDLRTYIHRIGRTGRMGRKGEAITF 319
Score = 219 bits (560), Expect = 1e-65
Identities = 62/197 (31%), Positives = 101/197 (51%), Gaps = 23/197 (11%)
Query: 205 LREILVKNLKKSNYTKPTPIQKYAIPAGLEGRDLMGCAQTGSGKTAAFLIPIMHHLLESP 264
+ E + + +++ + T +Q IP L+G++++ A+TGSGKTAA+ IPI+
Sbjct: 1 MNEKIEQAIREMGFKNFTEVQSKTIPLMLQGKNVVVRAKTGSGKTAAYAIPILEL----- 55
Query: 265 GELVTGYCAQPEVIICAPTRELVMQIHEVACKYAYSSVLKICLHYGGASSMHFNRQLE-- 322
+ ++ PTREL Q+ K+ YGG + Q+
Sbjct: 56 ---------GMKSLVVTPTRELTRQVASHIRDIGRYMDTKVAEVYGGMP---YKAQINRV 103
Query: 323 KGCNILVATMGRLKDILDRGRISLASVRFVVLDEADRMLDMGFLGDIQHVMQHSTMPDVA 382
+ +I+VAT GRL D+ +G I L+S V++DEAD M +MGF+ DI+ ++
Sbjct: 104 RNADIVVATPGRLLDLWSKGVIDLSSFEIVIIDEADLMFEMGFIDDIKIILAQ--TS--N 159
Query: 383 NRQTLMFSATFPETIQK 399
+ T +FSAT PE I+K
Sbjct: 160 RKITGLFSATIPEEIRK 176
>3ber_A Probable ATP-dependent RNA helicase DDX47; DEAD, AMP, structural
genomics, structural GEN consortium, SGC, ATP-binding,
hydrolase; HET: AMP PGE; 1.40A {Homo sapiens}
Length = 249
Score = 241 bits (618), Expect = 2e-75
Identities = 82/244 (33%), Positives = 137/244 (56%), Gaps = 19/244 (7%)
Query: 163 SEDNLFSSGIQTGINFSGWENVEVKVSGDNPPRPIE------SFESAGLREILVKNLKKS 216
+ SSG+ G ++++E S +PI +F+ G+ ++L + +
Sbjct: 2 HHHHHHSSGVDLGTENLYFQSMEEHDSPTEASQPIVEEEETKTFKDLGVTDVLCEACDQL 61
Query: 217 NYTKPTPIQKYAIPAGLEGRDLMGCAQTGSGKTAAFLIPIMHHLLESPGELVTGYCAQPE 276
+TKPT IQ AIP L+GRD++G A+TGSGKT AF +PI++ LLE+P +
Sbjct: 62 GWTKPTKIQIEAIPLALQGRDIIGLAETGSGKTGAFALPILNALLETP--------QRLF 113
Query: 277 VIICAPTRELVMQIHEVACKYAYSSVLKICLHYGGASSMHFNRQLEKGCNILVATMGRLK 336
++ PTREL QI E S ++ + GG SM + L K +I++AT GRL
Sbjct: 114 ALVLTPTRELAFQISEQFEALGSSIGVQSAVIVGGIDSMSQSLALAKKPHIIIATPGRLI 173
Query: 337 DILDRGR-ISLASVRFVVLDEADRMLDMGFLGDIQHVMQHSTMPDVANRQTLMFSATFPE 395
D L+ + +L +++++V+DEADR+L+M F ++ +++ +P +R+T +FSAT +
Sbjct: 174 DHLENTKGFNLRALKYLVMDEADRILNMDFETEVDKILKV--IP--RDRKTFLFSATMTK 229
Query: 396 TIQK 399
+QK
Sbjct: 230 KVQK 233
Score = 105 bits (264), Expect = 1e-25
Identities = 28/79 (35%), Positives = 53/79 (67%), Gaps = 5/79 (6%)
Query: 399 KKGCNILVATMGRLKDILDRGR-ISLASVRFVVLDEADRMLDMGFLGDIQHVMQHSTMPD 457
K +I++AT GRL D L+ + +L +++++V+DEADR+L+M F ++ +++ +P
Sbjct: 159 AKKPHIIIATPGRLIDHLENTKGFNLRALKYLVMDEADRILNMDFETEVDKILKV--IP- 215
Query: 458 VANRQTLMFSATFPETIQK 476
+R+T +FSAT + +QK
Sbjct: 216 -RDRKTFLFSATMTKKVQK 233
>1hv8_A Putative ATP-dependent RNA helicase MJ0669; RNA-binding protein,
ATPase, RNA binding protein; 3.00A {Methanocaldococcus
jannaschii} SCOP: c.37.1.19 c.37.1.19
Length = 367
Score = 244 bits (625), Expect = 9e-75
Identities = 92/256 (35%), Positives = 147/256 (57%), Gaps = 22/256 (8%)
Query: 400 KGCNILVATMGRLKDILDRGRISLASVRFVVLDEADRMLDMGFLGDIQHVMQHSTMPDVA 459
K NI+V T GR+ D ++RG ++L +V++ +LDEAD ML+MGF+ D++ ++
Sbjct: 122 KNANIVVGTPGRILDHINRGTLNLKNVKYFILDEADEMLNMGFIKDVEKILNA--CNK-- 177
Query: 460 NRQTLMFSATFPETI-------QKNYIFIAVGIIGGASTDVVQTILEVPKQQKKKKLLEL 512
+++ L+FSAT P I +Y FI + ++ Q+ +EV + ++ + L L
Sbjct: 178 DKRILLFSATMPREILNLAKKYMGDYSFIKAK----INANIEQSYVEVNENERFEALCRL 233
Query: 513 LREKDEDGVIVFVSTIRNADFIACYLCETEIATTSIHGSRLQSQREQAIHDFKTKKMKVL 572
L+ K+ G +VF T R+ +A L + +IHG QSQRE+ I FK KK+++L
Sbjct: 234 LKNKEFYG-LVFCKTKRDTKELASMLRDIGFKAGAIHGDLSQSQREKVIRLFKQKKIRIL 292
Query: 573 VATAVASRGLDIKGIRHVINYDLPQEIDEYVHRIGRTGRVGNKGRATSFYDPDQDGAIAK 632
+AT V SRG+D+ + VINY LPQ + Y+HRIGRTGR G KG+A S + +
Sbjct: 293 IATDVMSRGIDVNDLNCVINYHLPQNPESYMHRIGRTGRAGKKGKAISIINRRE-----Y 347
Query: 633 DLVRILEQA-GQPVPE 647
+R +E+A + +
Sbjct: 348 KKLRYIERAMKLKIKK 363
Score = 213 bits (545), Expect = 4e-63
Identities = 69/204 (33%), Positives = 112/204 (54%), Gaps = 19/204 (9%)
Query: 199 SFESAGLREILVKNLKKSNYTKPTPIQKYAIPAGLEGR-DLMGCAQTGSGKTAAFLIPIM 257
+F L + ++ ++ + KPT IQ IP L +++ A+TGSGKTA+F IP++
Sbjct: 7 NFNELNLSDNILNAIRNKGFEKPTDIQMKVIPLFLNDEYNIVAQARTGSGKTASFAIPLI 66
Query: 258 HHLLESPGELVTGYCAQPEVIICAPTRELVMQIHEVACKYAYSSVLKICLHYGGASSMHF 317
+ E+ G E II PTREL +Q+ + + LKI YGG +
Sbjct: 67 ELVNENNG---------IEAIILTPTRELAIQVADEIESLKGNKNLKIAKIYGGKA---I 114
Query: 318 NRQLE--KGCNILVATMGRLKDILDRGRISLASVRFVVLDEADRMLDMGFLGDIQHVMQH 375
Q++ K NI+V T GR+ D ++RG ++L +V++ +LDEAD ML+MGF+ D++ ++
Sbjct: 115 YPQIKALKNANIVVGTPGRILDHINRGTLNLKNVKYFILDEADEMLNMGFIKDVEKILNA 174
Query: 376 STMPDVANRQTLMFSATFPETIQK 399
+++ L+FSAT P I
Sbjct: 175 --CNK--DKRILLFSATMPREILN 194
>2pl3_A Probable ATP-dependent RNA helicase DDX10; DEAD, structural
genomics, structural genomic consortium, SGC, hydrolase;
HET: ADP; 2.15A {Homo sapiens}
Length = 236
Score = 231 bits (591), Expect = 1e-71
Identities = 72/210 (34%), Positives = 105/210 (50%), Gaps = 10/210 (4%)
Query: 191 DNPPRPIESFESAGLREILVKNLKKSNYTKPTPIQKYAIPAGLEGRDLMGCAQTGSGKTA 250
I F L + +K L+++ Y T IQK I L+G+D++G A+TGSGKT
Sbjct: 18 KINVNEITRFSDFPLSKKTLKGLQEAQYRLVTEIQKQTIGLALQGKDVLGAAKTGSGKTL 77
Query: 251 AFLIPIMHHLLESPGELVTGYCAQPEVIICAPTRELVMQIHEVACKYAYSSVLKICLHYG 310
AFL+P++ L G +I +PTREL Q EV K + L G
Sbjct: 78 AFLVPVLEALYRLQWTSTDGLGV----LIISPTRELAYQTFEVLRKVGKNHDFSAGLIIG 133
Query: 311 GASSMHFNRQLEKGCNILVATMGRLKDILDRGR-ISLASVRFVVLDEADRMLDMGFLGDI 369
G + + NILV T GRL +D ++ +VLDEADR+LDMGF +
Sbjct: 134 GK-DLKHEAERINNINILVCTPGRLLQHMDETVSFHATDLQMLVLDEADRILDMGFADTM 192
Query: 370 QHVMQHSTMPDVANRQTLMFSATFPETIQK 399
V+++ +P RQTL+FSAT ++++
Sbjct: 193 NAVIEN--LP--KKRQTLLFSATQTKSVKD 218
Score = 100 bits (252), Expect = 4e-24
Identities = 32/84 (38%), Positives = 48/84 (57%), Gaps = 5/84 (5%)
Query: 394 PETIQKKGCNILVATMGRLKDILDRGR-ISLASVRFVVLDEADRMLDMGFLGDIQHVMQH 452
E + NILV T GRL +D ++ +VLDEADR+LDMGF + V+++
Sbjct: 139 HEAERINNINILVCTPGRLLQHMDETVSFHATDLQMLVLDEADRILDMGFADTMNAVIEN 198
Query: 453 STMPDVANRQTLMFSATFPETIQK 476
+P RQTL+FSAT ++++
Sbjct: 199 --LP--KKRQTLLFSATQTKSVKD 218
>2gxq_A Heat resistant RNA dependent ATPase; RNA helicase, atomic
resolution, AMP complex, ribosome biogenesis,
thermophilic, hydrolase; HET: AMP; 1.20A {Thermus
thermophilus HB27} PDB: 2gxs_A* 2gxu_A 3mwj_A 3mwk_A*
3mwl_A* 3nbf_A* 3nej_A
Length = 207
Score = 227 bits (581), Expect = 2e-70
Identities = 75/205 (36%), Positives = 111/205 (54%), Gaps = 19/205 (9%)
Query: 199 SFESAGLREILVKNLKKSNYTKPTPIQKYAIPAGLEGRDLMGCAQTGSGKTAAFLIPIMH 258
F+ L+ +++ L T PTPIQ A+P LEG+DL+G A+TG+GKT AF +PI
Sbjct: 2 EFKDFPLKPEILEALHGRGLTTPTPIQAAALPLALEGKDLIGQARTGTGKTLAFALPIAE 61
Query: 259 HLLESPGELVTGYCAQPEVIICAPTRELVMQIHEVACKYA-YSSVLKICLHYGGASSMHF 317
L S +P ++ PTREL +Q+ A + V+ + YGG +
Sbjct: 62 RLAPSQERG-----RKPRALVLTPTRELALQVASELTAVAPHLKVVAV---YGGTG---Y 110
Query: 318 NRQ---LEKGCNILVATMGRLKDILDRGRISLASVRFVVLDEADRMLDMGFLGDIQHVMQ 374
+Q L +G + +VAT GR D L +G + L+ V VLDEAD ML MGF +++ ++
Sbjct: 111 GKQKEALLRGADAVVATPGRALDYLRQGVLDLSRVEVAVLDEADEMLSMGFEEEVEALLS 170
Query: 375 HSTMPDVANRQTLMFSATFPETIQK 399
P +RQTL+FSAT P ++
Sbjct: 171 A--TP--PSRQTLLFSATLPSWAKR 191
Score = 111 bits (279), Expect = 5e-28
Identities = 32/78 (41%), Positives = 47/78 (60%), Gaps = 4/78 (5%)
Query: 399 KKGCNILVATMGRLKDILDRGRISLASVRFVVLDEADRMLDMGFLGDIQHVMQHSTMPDV 458
+G + +VAT GR D L +G + L+ V VLDEAD ML MGF +++ ++ P
Sbjct: 118 LRGADAVVATPGRALDYLRQGVLDLSRVEVAVLDEADEMLSMGFEEEVEALLSA--TP-- 173
Query: 459 ANRQTLMFSATFPETIQK 476
+RQTL+FSAT P ++
Sbjct: 174 PSRQTLLFSATLPSWAKR 191
>3fho_A ATP-dependent RNA helicase DBP5; mRNA export, ATPase, translation
termination, binding, hydrolase, membrane, mRNA
transport; 2.80A {Schizosaccharomyces pombe}
Length = 508
Score = 233 bits (597), Expect = 4e-69
Identities = 69/270 (25%), Positives = 117/270 (43%), Gaps = 32/270 (11%)
Query: 398 QKKGCNILVATMGRLKDILDRGRISLASVRFVVLDEADRMLDM-GFLGDIQHVMQHSTMP 456
K I++ T G + D++ R ++ ++ VLDEAD MLD G + +P
Sbjct: 232 AKIDAQIVIGTPGTVMDLMKRRQLDARDIKVFVLDEADNMLDQQGLGDQSMRIKHL--LP 289
Query: 457 DVANRQTLMFSATFPETI-------QKNYIFIAVGIIGGASTDVVQTI----LEVPKQQK 505
N Q ++FSATF E + N I + V+ I ++ ++
Sbjct: 290 R--NTQIVLFSATFSERVEKYAERFAPNANEIRLK----TEELSVEGIKQLYMDCQSEEH 343
Query: 506 K-KKLLELLREKDEDGVIVFVSTIRNADFIACYLCETEIATTSIHGSRLQSQREQAIHDF 564
K L+EL I+F A+ IA + + G+ +QR+ + F
Sbjct: 344 KYNVLVELYGLLTIGQSIIFCKKKDTAEEIARRMTADGHTVACLTGNLEGAQRDAIMDSF 403
Query: 565 KTKKMKVLVATAVASRGLDIKGIRHVINYDLPQEIDE------YVHRIGRTGRVGNKGRA 618
+ KVLV T V +RG+D+ + V+NYD+P + Y+HRIGRTGR G G +
Sbjct: 404 RVGTSKVLVTTNVIARGIDVSQVNLVVNYDMPLDQAGRPDPQTYLHRIGRTGRFGRVGVS 463
Query: 619 TSFYDPDQDGAIAKDLVRILEQA-GQPVPE 647
+F + + + +++ +P+
Sbjct: 464 INFVHDKKS----WEEMNAIQEYFQRPITR 489
Score = 185 bits (471), Expect = 3e-51
Identities = 53/179 (29%), Positives = 91/179 (50%), Gaps = 19/179 (10%)
Query: 224 IQKYAIPAGLEG--RDLMGCAQTGSGKTAAFLIPIMHHLLESPGELVTGYCAQPEVIICA 281
IQ+ A+P L R+++G +Q+G+GKTAAF + ++ + S + P+ I A
Sbjct: 145 IQEKALPLLLSNPPRNMIGQSQSGTGKTAAFALTMLSRVDASVPK--------PQAICLA 196
Query: 282 PTRELVMQIHEVACKYAYSSVLKICLHYGGASSMHFNRQLEKGCNILVATMGRLKDILDR 341
P+REL QI +V + ++ +G S+ + + I++ T G + D++ R
Sbjct: 197 PSRELARQIMDVVTEMG--KYTEVKTAFGIKDSV--PKGAKIDAQIVIGTPGTVMDLMKR 252
Query: 342 GRISLASVRFVVLDEADRMLDM-GFLGDIQHVMQHSTMPDVANRQTLMFSATFPETIQK 399
++ ++ VLDEAD MLD G + +P N Q ++FSATF E ++K
Sbjct: 253 RQLDARDIKVFVLDEADNMLDQQGLGDQSMRIKHL--LPR--NTQIVLFSATFSERVEK 307
>1s2m_A Putative ATP-dependent RNA helicase DHH1; ATP-binding, RNA-binding,
RNA binding protein; 2.10A {Saccharomyces cerevisiae}
SCOP: c.37.1.19 c.37.1.19 PDB: 2wax_A* 2way_A
Length = 400
Score = 230 bits (589), Expect = 4e-69
Identities = 69/263 (26%), Positives = 122/263 (46%), Gaps = 27/263 (10%)
Query: 399 KKGCNILVATMGRLKDILDRGRISLASVRFVVLDEADRMLDMGFLGDIQHVMQHSTMPDV 458
+ +ILV T GR+ D+ R L+ ++DEAD+ML F I+ ++ +P
Sbjct: 137 NETVHILVGTPGRVLDLASRKVADLSDCSLFIMDEADKMLSRDFKTIIEQILSF--LP-- 192
Query: 459 ANRQTLMFSATFPETI-------QKNYIFIAV-------GIIGGASTDVVQTILEVPKQQ 504
Q+L+FSATFP T+ I + GI Q V ++Q
Sbjct: 193 PTHQSLLFSATFPLTVKEFMVKHLHKPYEINLMEELTLKGI--------TQYYAFVEERQ 244
Query: 505 KKKKLLELLREKDEDGVIVFVSTIRNADFIACYLCETEIATTSIHGSRLQSQREQAIHDF 564
K L L + + I+F ++ + +A + + + H Q +R + H+F
Sbjct: 245 KLHCLNTLFSKLQINQAIIFCNSTNRVELLAKKITDLGYSCYYSHARMKQQERNKVFHEF 304
Query: 565 KTKKMKVLVATAVASRGLDIKGIRHVINYDLPQEIDEYVHRIGRTGRVGNKGRATSFYDP 624
+ K++ LV + + +RG+DI+ + VIN+D P+ + Y+HRIGR+GR G+ G A + +
Sbjct: 305 RQGKVRTLVCSDLLTRGIDIQAVNVVINFDFPKTAETYLHRIGRSGRFGHLGLAINLINW 364
Query: 625 DQDGAIAKDLVRILEQAGQPVPE 647
+ + + + L +P
Sbjct: 365 NDRFNL-YKIEQELGTEIAAIPA 386
Score = 206 bits (527), Expect = 3e-60
Identities = 64/211 (30%), Positives = 108/211 (51%), Gaps = 12/211 (5%)
Query: 189 SGDNPPRPIESFESAGLREILVKNLKKSNYTKPTPIQKYAIPAGLEGRDLMGCAQTGSGK 248
+ D +FE L+ L+ + ++ + KP+PIQ+ AIP + GRD++ A+ G+GK
Sbjct: 12 TDDVLNTKGNTFEDFYLKRELLMGIFEAGFEKPSPIQEEAIPVAITGRDILARAKNGTGK 71
Query: 249 TAAFLIPIMHHLLESPGELVTGYCAQPEVIICAPTRELVMQIHEVACKYAYSSVLKICLH 308
TAAF+IP + + + + +I PTREL +Q +V + +
Sbjct: 72 TAAFVIPTLEKVKPKLNK--------IQALIMVPTRELALQTSQVVRTLGKHCGISCMVT 123
Query: 309 YGGASSMHFNRQLEKGCNILVATMGRLKDILDRGRISLASVRFVVLDEADRMLDMGFLGD 368
GG + +L + +ILV T GR+ D+ R L+ ++DEAD+ML F
Sbjct: 124 TGGTNLRDDILRLNETVHILVGTPGRVLDLASRKVADLSDCSLFIMDEADKMLSRDFKTI 183
Query: 369 IQHVMQHSTMPDVANRQTLMFSATFPETIQK 399
I+ ++ +P Q+L+FSATFP T+++
Sbjct: 184 IEQILSF--LP--PTHQSLLFSATFPLTVKE 210
>1q0u_A Bstdead; DEAD protein, RNA binding protein; 1.85A {Geobacillus
stearothermophilus} SCOP: c.37.1.19
Length = 219
Score = 219 bits (560), Expect = 2e-67
Identities = 64/205 (31%), Positives = 100/205 (48%), Gaps = 16/205 (7%)
Query: 199 SFESAGLREILVKNLKKSNYTKPTPIQKYAIPAGLEGRDLMGCAQTGSGKTAAFLIPIMH 258
F + +++ +K + KPT IQ+ IP L G ++G +QTG+GKT A+L+PIM
Sbjct: 5 QFTRFPFQPFIIEAIKTLRFYKPTEIQERIIPGALRGESMVGQSQTGTGKTHAYLLPIME 64
Query: 259 HLLESPGELVTGYCAQPEVIICAPTRELVMQIHEVACKYAYSSVLKICLH----YGGASS 314
+ E + +I APTREL QI+ K + GG
Sbjct: 65 KIKPERAE--------VQAVITAPTRELATQIYHETLKITKFCPKDRMIVARCLIGGTDK 116
Query: 315 MHFNRQLEKGCNILVATMGRLKDILDRGRISLASVRFVVLDEADRMLDMGFLGDIQHVMQ 374
+L +I++ T GR+ D + + + + +V+DEAD MLDMGF+ D+ +
Sbjct: 117 QKALEKLNVQPHIVIGTPGRINDFIREQALDVHTAHILVVDEADLMLDMGFITDVDQIAA 176
Query: 375 HSTMPDVANRQTLMFSATFPETIQK 399
MP + Q L+FSAT PE ++
Sbjct: 177 R--MPK--DLQMLVFSATIPEKLKP 197
Score = 109 bits (275), Expect = 2e-27
Identities = 27/78 (34%), Positives = 44/78 (56%), Gaps = 4/78 (5%)
Query: 399 KKGCNILVATMGRLKDILDRGRISLASVRFVVLDEADRMLDMGFLGDIQHVMQHSTMPDV 458
+I++ T GR+ D + + + + +V+DEAD MLDMGF+ D+ + MP
Sbjct: 124 NVQPHIVIGTPGRINDFIREQALDVHTAHILVVDEADLMLDMGFITDVDQIAAR--MPK- 180
Query: 459 ANRQTLMFSATFPETIQK 476
+ Q L+FSAT PE ++
Sbjct: 181 -DLQMLVFSATIPEKLKP 197
>3ly5_A ATP-dependent RNA helicase DDX18; alpha-beta, structural genomics,
structural genomics consort ATP-binding, hydrolase,
nucleotide-binding, RNA-B; 2.80A {Homo sapiens}
Length = 262
Score = 221 bits (564), Expect = 3e-67
Identities = 74/221 (33%), Positives = 113/221 (51%), Gaps = 11/221 (4%)
Query: 182 ENVEVKVSGDNPPRPIESFES--AGLREILVKNLKKSNYTKPTPIQKYAIPAGLEGRDLM 239
V G SF S + E +K +K+ +T T IQ +I LEGRDL+
Sbjct: 36 SEVPSLPLGLTGAFEDTSFASLCNLVNENTLKAIKEMGFTNMTEIQHKSIRPLLEGRDLL 95
Query: 240 GCAQTGSGKTAAFLIPIMHHLLESPGELVTGYCAQPEVIICAPTRELVMQIHEVACKYAY 299
A+TGSGKT AFLIP + +++ G +I +PTREL MQ V +
Sbjct: 96 AAAKTGSGKTLAFLIPAVELIVKLRFMPRNGTGV----LILSPTRELAMQTFGVLKELMT 151
Query: 300 SSVLKICLHYGGASSMHFNRQLEKGCNILVATMGRLKDILDRGR-ISLASVRFVVLDEAD 358
V L GG++ ++L G NI+VAT GRL D + +++ +V+DEAD
Sbjct: 152 HHVHTYGLIMGGSNRSAEAQKLGNGINIIVATPGRLLDHMQNTPGFMYKNLQCLVIDEAD 211
Query: 359 RMLDMGFLGDIQHVMQHSTMPDVANRQTLMFSATFPETIQK 399
R+LD+GF +++ +++ +P RQT++FSAT ++
Sbjct: 212 RILDVGFEEELKQIIKL--LP--TRRQTMLFSATQTRKVED 248
Score = 93.5 bits (233), Expect = 2e-21
Identities = 28/79 (35%), Positives = 48/79 (60%), Gaps = 5/79 (6%)
Query: 399 KKGCNILVATMGRLKDILDRGR-ISLASVRFVVLDEADRMLDMGFLGDIQHVMQHSTMPD 457
G NI+VAT GRL D + +++ +V+DEADR+LD+GF +++ +++ +P
Sbjct: 174 GNGINIIVATPGRLLDHMQNTPGFMYKNLQCLVIDEADRILDVGFEEELKQIIKL--LP- 230
Query: 458 VANRQTLMFSATFPETIQK 476
RQT++FSAT ++
Sbjct: 231 -TRRQTMLFSATQTRKVED 248
>3eiq_A Eukaryotic initiation factor 4A-I; PDCD4, anti-oncogene, apoptosis,
cell cycle, nucleus, phosph RNA-binding, ATP-binding,
helicase, hydrolase; 3.50A {Homo sapiens}
Length = 414
Score = 225 bits (575), Expect = 6e-67
Identities = 73/253 (28%), Positives = 126/253 (49%), Gaps = 17/253 (6%)
Query: 397 IQKKGCNILVATMGRLKDILDRGRISLASVRFVVLDEADRMLDMGFLGDIQHVMQHSTMP 456
+Q + +I+V T GR+ D+L+R +S ++ VLDEAD ML GF I + Q +
Sbjct: 155 LQMEAPHIIVGTPGRVFDMLNRRYLSPKYIKMFVLDEADEMLSRGFKDQIYDIFQK--LN 212
Query: 457 DVANRQTLMFSATFPETI-------QKNYIFIAVGIIGGASTDVVQTILEVPK-QQKKKK 508
N Q ++ SAT P + ++ I I V + Q + V + + K
Sbjct: 213 S--NTQVVLLSATMPSDVLEVTKKFMRDPIRILVKKEELTLEGIRQFYINVEREEWKLDT 270
Query: 509 LLELLREKDEDGVIVFVSTIRNADFIACYLCETEIATTSIHGSRLQSQREQAIHDFKTKK 568
L +L ++F++T R D++ + + +++HG Q +R+ + +F++
Sbjct: 271 LCDLYETLTITQAVIFINTRRKVDWLTEKMHARDFTVSAMHGDMDQKERDVIMREFRSGS 330
Query: 569 MKVLVATAVASRGLDIKGIRHVINYDLPQEIDEYVHRIGRTGRVGNKGRATSFYDPDQDG 628
+VL+ T + +RG+D++ + VINYDLP + Y+HRIGR GR G KG A + +
Sbjct: 331 SRVLITTDLLARGIDVQQVSLVINYDLPTNRENYIHRIGRGGRFGRKGVAINMVTEED-- 388
Query: 629 AIAKDLVRILEQA 641
K +R +E
Sbjct: 389 ---KRTLRDIETF 398
Score = 197 bits (504), Expect = 8e-57
Identities = 62/207 (29%), Positives = 101/207 (48%), Gaps = 19/207 (9%)
Query: 197 IESFESAGLREILVKNLKKSNYTKPTPIQKYAIPAGLEGRDLMGCAQTGSGKTAAFLIPI 256
++SF+ L E L++ + + KP+ IQ+ AI ++G D++ AQ+G+GKTA F I I
Sbjct: 39 VDSFDDMNLSESLLRGIYAYGFEKPSAIQQRAILPCIKGYDVIAQAQSGTGKTATFAISI 98
Query: 257 MHHLLESPGELVTGYCAQPEVIICAPTRELVMQIHEVACKYAYSSVLKICLHYGGASSMH 316
+ + + ++ APTREL QI +V GG +
Sbjct: 99 LQQIELDLKA--------TQALVLAPTRELAQQIQKVVMALGDYMGASCHACIGGTN--- 147
Query: 317 FNRQLEK----GCNILVATMGRLKDILDRGRISLASVRFVVLDEADRMLDMGFLGDIQHV 372
+++K +I+V T GR+ D+L+R +S ++ VLDEAD ML GF I +
Sbjct: 148 VRAEVQKLQMEAPHIIVGTPGRVFDMLNRRYLSPKYIKMFVLDEADEMLSRGFKDQIYDI 207
Query: 373 MQHSTMPDVANRQTLMFSATFPETIQK 399
Q + N Q ++ SAT P + +
Sbjct: 208 FQK--LNS--NTQVVLLSATMPSDVLE 230
>1fuu_A Yeast initiation factor 4A; IF4A, helicase, DEAD-box protein,
translation; 2.50A {Saccharomyces cerevisiae} SCOP:
c.37.1.19 PDB: 2vso_A* 2vsx_A*
Length = 394
Score = 224 bits (573), Expect = 6e-67
Identities = 65/234 (27%), Positives = 115/234 (49%), Gaps = 12/234 (5%)
Query: 400 KGCNILVATMGRLKDILDRGRISLASVRFVVLDEADRMLDMGFLGDIQHVMQHSTMPDVA 459
+ I+V T GR+ D + R R ++ +LDEAD ML GF I + +P
Sbjct: 137 RDAQIVVGTPGRVFDNIQRRRFRTDKIKMFILDEADEMLSSGFKEQIYQIFTL--LPP-- 192
Query: 460 NRQTLMFSATFPETI-------QKNYIFIAVGIIGGASTDVVQTILEVPKQQKK-KKLLE 511
Q ++ SAT P + +N + I V + Q + V +++ K + L +
Sbjct: 193 TTQVVLLSATMPNDVLEVTTKFMRNPVRILVKKDELTLEGIKQFYVNVEEEEYKYECLTD 252
Query: 512 LLREKDEDGVIVFVSTIRNADFIACYLCETEIATTSIHGSRLQSQREQAIHDFKTKKMKV 571
L ++F +T R + + L + ++I+ Q +R+ + +F++ ++
Sbjct: 253 LYDSISVTQAVIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTIMKEFRSGSSRI 312
Query: 572 LVATAVASRGLDIKGIRHVINYDLPQEIDEYVHRIGRTGRVGNKGRATSFYDPD 625
L++T + +RG+D++ + VINYDLP + Y+HRIGR GR G KG A +F +
Sbjct: 313 LISTDLLARGIDVQQVSLVINYDLPANKENYIHRIGRGGRFGRKGVAINFVTNE 366
Score = 203 bits (518), Expect = 5e-59
Identities = 64/220 (29%), Positives = 104/220 (47%), Gaps = 17/220 (7%)
Query: 182 ENVEVKVSGDNPPRPIESFESAGLREILVKNLKKSNYTKPTPIQKYAIPAGLEGRDLMGC 241
++E N + + F+ L E L++ + + +P+ IQ+ AI +EG D++
Sbjct: 5 TDIEESQIQTNYDKVVYKFDDMELDENLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQ 64
Query: 242 AQTGSGKTAAFLIPIMHHLLESPGELVTGYCAQPEVIICAPTRELVMQIHEVACKYAYSS 301
AQ+G+GKT F I + + S P+ ++ APTREL +QI +V A+
Sbjct: 65 AQSGTGKTGTFSIAALQRIDTSVKA--------PQALMLAPTRELALQIQKVVMALAFHM 116
Query: 302 VLKICLHYGGASSMHFNRQLE--KGCNILVATMGRLKDILDRGRISLASVRFVVLDEADR 359
+K+ GG S F E + I+V T GR+ D + R R ++ +LDEAD
Sbjct: 117 DIKVHACIGGTS---FVEDAEGLRDAQIVVGTPGRVFDNIQRRRFRTDKIKMFILDEADE 173
Query: 360 MLDMGFLGDIQHVMQHSTMPDVANRQTLMFSATFPETIQK 399
ML GF I + +P Q ++ SAT P + +
Sbjct: 174 MLSSGFKEQIYQIFTL--LPP--TTQVVLLSATMPNDVLE 209
>2j0s_A ATP-dependent RNA helicase DDX48; mRNA processing, phosphorylation,
rRNA processing, mRNA splicing, mRNA transport; HET:
ANP; 2.21A {Homo sapiens} SCOP: c.37.1.19 c.37.1.19 PDB:
2j0q_A* 2hyi_C* 3ex7_C* 2xb2_A* 2hxy_A 2j0u_A 2j0u_B
2zu6_A
Length = 410
Score = 224 bits (574), Expect = 7e-67
Identities = 73/235 (31%), Positives = 120/235 (51%), Gaps = 12/235 (5%)
Query: 399 KKGCNILVATMGRLKDILDRGRISLASVRFVVLDEADRMLDMGFLGDIQHVMQHSTMPDV 458
G +++ T GR+ D++ R + +++ +VLDEAD ML+ GF I V ++ +P
Sbjct: 153 DYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRY--LPP- 209
Query: 459 ANRQTLMFSATFPETI-------QKNYIFIAVGIIGGASTDVVQTILEVPK-QQKKKKLL 510
Q ++ SAT P I + I I V + Q + V + + K L
Sbjct: 210 -ATQVVLISATLPHEILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWKFDTLC 268
Query: 511 ELLREKDEDGVIVFVSTIRNADFIACYLCETEIATTSIHGSRLQSQREQAIHDFKTKKMK 570
+L ++F +T R D++ + E +S+HG Q +RE + +F++ +
Sbjct: 269 DLYDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASR 328
Query: 571 VLVATAVASRGLDIKGIRHVINYDLPQEIDEYVHRIGRTGRVGNKGRATSFYDPD 625
VL++T V +RGLD+ + +INYDLP + Y+HRIGR+GR G KG A +F D
Sbjct: 329 VLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAINFVKND 383
Score = 203 bits (518), Expect = 8e-59
Identities = 64/215 (29%), Positives = 111/215 (51%), Gaps = 12/215 (5%)
Query: 185 EVKVSGDNPPRPIESFESAGLREILVKNLKKSNYTKPTPIQKYAIPAGLEGRDLMGCAQT 244
+V+ +F++ GLRE L++ + + KP+ IQ+ AI ++GRD++ +Q+
Sbjct: 24 KVEFETSEEVDVTPTFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQS 83
Query: 245 GSGKTAAFLIPIMHHLLESPGELVTGYCAQPEVIICAPTRELVMQIHEVACKYAYSSVLK 304
G+GKTA F I ++ L E + +I APTREL +QI + ++
Sbjct: 84 GTGKTATFSISVLQCLDIQVRE--------TQALILAPTRELAVQIQKGLLALGDYMNVQ 135
Query: 305 ICLHYGGASSMHFNRQLEKGCNILVATMGRLKDILDRGRISLASVRFVVLDEADRMLDMG 364
GG + R+L+ G +++ T GR+ D++ R + +++ +VLDEAD ML+ G
Sbjct: 136 CHACIGGTNVGEDIRKLDYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKG 195
Query: 365 FLGDIQHVMQHSTMPDVANRQTLMFSATFPETIQK 399
F I V ++ +P Q ++ SAT P I +
Sbjct: 196 FKEQIYDVYRY--LPP--ATQVVLISATLPHEILE 226
>1xti_A Probable ATP-dependent RNA helicase P47; alpha-beta fold, gene
regulation; 1.95A {Homo sapiens} SCOP: c.37.1.19
c.37.1.19 PDB: 1xtj_A* 1xtk_A
Length = 391
Score = 222 bits (569), Expect = 2e-66
Identities = 73/262 (27%), Positives = 131/262 (50%), Gaps = 13/262 (4%)
Query: 395 ETIQKKGCNILVATMGRLKDILDRGRISLASVRFVVLDEADRMLD-MGFLGDIQHVMQHS 453
E ++K +I+V T GR+ + ++L ++ +LDE D+ML+ + D+Q + +
Sbjct: 122 EVLKKNCPHIVVGTPGRILALARNKSLNLKHIKHFILDECDKMLEQLDMRRDVQEIFRM- 180
Query: 454 TMPDVANRQTLMFSATFPETI-------QKNYIFIAVGIIGGASTD-VVQTILEVPKQQK 505
P +Q +MFSAT + I ++ + I V + + Q +++ +K
Sbjct: 181 -TP--HEKQVMMFSATLSKEIRPVCRKFMQDPMEIFVDDETKLTLHGLQQYYVKLKDNEK 237
Query: 506 KKKLLELLREKDEDGVIVFVSTIRNADFIACYLCETEIATTSIHGSRLQSQREQAIHDFK 565
+KL +LL + + V++FV +++ +A L E +IH Q +R FK
Sbjct: 238 NRKLFDLLDVLEFNQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFK 297
Query: 566 TKKMKVLVATAVASRGLDIKGIRHVINYDLPQEIDEYVHRIGRTGRVGNKGRATSFYDPD 625
+ ++LVAT + RG+DI+ + NYD+P++ D Y+HR+ R GR G KG A +F +
Sbjct: 298 DFQRRILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKGLAITFVSDE 357
Query: 626 QDGAIAKDLVRILEQAGQPVPE 647
D I D+ E +P+
Sbjct: 358 NDAKILNDVQDRFEVNISELPD 379
Score = 186 bits (475), Expect = 6e-53
Identities = 55/204 (26%), Positives = 101/204 (49%), Gaps = 15/204 (7%)
Query: 199 SFESAGLREILVKNLKKSNYTKPTPIQKYAIPAGLEGRDLMGCAQTGSGKTAAFLIPIMH 258
F L+ L++ + + P+ +Q IP + G D++ A++G GKTA F++ +
Sbjct: 9 GFRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQ 68
Query: 259 HLLESPGELVTGYCAQPEVIICAPTRELVMQIHEVACKYA-YSSVLKICLHYGGASSMHF 317
L G+ V++ TREL QI + +++ Y +K+ + +GG S
Sbjct: 69 QLEPVTGQ--------VSVLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKD 120
Query: 318 NRQLEKGC-NILVATMGRLKDILDRGRISLASVRFVVLDEADRMLD-MGFLGDIQHVMQH 375
L+K C +I+V T GR+ + ++L ++ +LDE D+ML+ + D+Q + +
Sbjct: 121 EEVLKKNCPHIVVGTPGRILALARNKSLNLKHIKHFILDECDKMLEQLDMRRDVQEIFRM 180
Query: 376 STMPDVANRQTLMFSATFPETIQK 399
P +Q +MFSAT + I+
Sbjct: 181 --TP--HEKQVMMFSATLSKEIRP 200
>1vec_A ATP-dependent RNA helicase P54; DEAD-box protein, RNA binding
protein; HET: TLA; 2.01A {Homo sapiens} SCOP: c.37.1.19
Length = 206
Score = 208 bits (533), Expect = 2e-63
Identities = 61/202 (30%), Positives = 114/202 (56%), Gaps = 13/202 (6%)
Query: 199 SFESAGLREILVKNLKKSNYTKPTPIQKYAIPAGLEGRDLMGCAQTGSGKTAAFLIPIMH 258
FE L+ L+ + + + KP+PIQ+ +IP L GRD++ A+ G+GK+ A+LIP++
Sbjct: 4 EFEDYCLKRELLMGIFEMGWEKPSPIQEESIPIALSGRDILARAKNGTGKSGAYLIPLLE 63
Query: 259 HLLESPGELVTGYCAQPEVIICAPTRELVMQIHEVACKYA-YSSVLKICLHYGGASSMHF 317
L + ++ PTREL +Q+ ++ + + + K+ GG +
Sbjct: 64 RLDLKKDN--------IQAMVIVPTRELALQVSQICIQVSKHMGGAKVMATTGGTNLRDD 115
Query: 318 NRQLEKGCNILVATMGRLKDILDRGRISLASVRFVVLDEADRMLDMGFLGDIQHVMQHST 377
+L+ ++++AT GR+ D++ +G + V+ +VLDEAD++L F+ ++ ++
Sbjct: 116 IMRLDDTVHVVIATPGRILDLIKKGVAKVDHVQMIVLDEADKLLSQDFVQIMEDIILT-- 173
Query: 378 MPDVANRQTLMFSATFPETIQK 399
+P NRQ L++SATFP ++QK
Sbjct: 174 LPK--NRQILLYSATFPLSVQK 193
Score = 104 bits (262), Expect = 1e-25
Identities = 27/78 (34%), Positives = 50/78 (64%), Gaps = 4/78 (5%)
Query: 399 KKGCNILVATMGRLKDILDRGRISLASVRFVVLDEADRMLDMGFLGDIQHVMQHSTMPDV 458
++++AT GR+ D++ +G + V+ +VLDEAD++L F+ ++ ++ +P
Sbjct: 120 DDTVHVVIATPGRILDLIKKGVAKVDHVQMIVLDEADKLLSQDFVQIMEDIILT--LPK- 176
Query: 459 ANRQTLMFSATFPETIQK 476
NRQ L++SATFP ++QK
Sbjct: 177 -NRQILLYSATFPLSVQK 193
>3pey_A ATP-dependent RNA helicase DBP5; RECA, DEAD-BOX, ATPase, helicase,
mRNA-export, nuclear pore, hydrolase-RNA complex; HET:
ADP; 1.40A {Saccharomyces cerevisiae} PDB: 3pew_A*
3pex_A* 3pez_A* 3rrm_A* 3rrn_A* 2kbe_A 3gfp_A 2kbf_A
3pev_A* 3peu_A*
Length = 395
Score = 211 bits (539), Expect = 5e-62
Identities = 72/259 (27%), Positives = 120/259 (46%), Gaps = 23/259 (8%)
Query: 398 QKKGCNILVATMGRLKDILDRGRISLASVRFVVLDEADRMLDM-GFLGDIQHVMQHSTMP 456
++ ++V T G + D++ R + L ++ VLDEAD MLD G V + +P
Sbjct: 118 KQINAQVIVGTPGTVLDLMRRKLMQLQKIKIFVLDEADNMLDQQGLGDQCIRVKRF--LP 175
Query: 457 DVANRQTLMFSATFPETI-------QKNYIFIAVGIIGGASTDVVQTILEVPKQQKK-KK 508
+ Q ++FSATF + + N + + + Q ++ + K
Sbjct: 176 K--DTQLVLFSATFADAVRQYAKKIVPNANTLELQTNEVNVDAIKQLYMDCKNEADKFDV 233
Query: 509 LLELLREKDEDGVIVFVSTIRNADFIACYLCETEIATTSIHGSRLQSQREQAIHDFKTKK 568
L EL I+FV+T + A+ + L + +HG +R++ I DF+ +
Sbjct: 234 LTELYGLMTIGSSIIFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDDFREGR 293
Query: 569 MKVLVATAVASRGLDIKGIRHVINYDLPQEIDE------YVHRIGRTGRVGNKGRATSFY 622
KVL+ T V +RG+DI + V+NYDLP + Y+HRIGRTGR G KG A SF
Sbjct: 294 SKVLITTNVLARGIDIPTVSMVVNYDLPTLANGQADPATYIHRIGRTGRFGRKGVAISFV 353
Query: 623 DPDQDGAIAKDLVRILEQA 641
+++ +++
Sbjct: 354 HDKNS----FNILSAIQKY 368
Score = 186 bits (476), Expect = 4e-53
Identities = 56/207 (27%), Positives = 100/207 (48%), Gaps = 21/207 (10%)
Query: 197 IESFESAGLREILVKNLKKSNYTKPTPIQKYAIPAGLEG--RDLMGCAQTGSGKTAAFLI 254
+SF+ GL L+K + + KP+ IQ+ A+P L R+++ +Q+G+GKTAAF +
Sbjct: 4 AKSFDELGLAPELLKGIYAMKFQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAAFSL 63
Query: 255 PIMHHLLESPGELVTGYCAQPEVIICAPTRELVMQIHEVACKYA-YSSVLKICLHYGGAS 313
++ + P+ I AP+REL Q EV + ++ + +
Sbjct: 64 TMLTRVNPEDAS--------PQAICLAPSRELARQTLEVVQEMGKFTKITSQLIVPDSFE 115
Query: 314 SMHFNRQLEKGCNILVATMGRLKDILDRGRISLASVRFVVLDEADRMLDM-GFLGDIQHV 372
+ + ++V T G + D++ R + L ++ VLDEAD MLD G V
Sbjct: 116 -----KNKQINAQVIVGTPGTVLDLMRRKLMQLQKIKIFVLDEADNMLDQQGLGDQCIRV 170
Query: 373 MQHSTMPDVANRQTLMFSATFPETIQK 399
+ +P + Q ++FSATF + +++
Sbjct: 171 KRF--LPK--DTQLVLFSATFADAVRQ 193
>3fht_A ATP-dependent RNA helicase DDX19B; DBP5, DEAD-box helicase, RNA
dependent ATPase, mRNA export, nucleocytoplasmic
transport, NUP214, CAN; HET: ANP; 2.20A {Homo sapiens}
PDB: 3ews_A* 3g0h_A* 3fhc_B
Length = 412
Score = 204 bits (522), Expect = 2e-59
Identities = 70/260 (26%), Positives = 118/260 (45%), Gaps = 24/260 (9%)
Query: 398 QKKGCNILVATMGRLKDILDRGR-ISLASVRFVVLDEADRMLD-MGFLGDIQHVMQHSTM 455
QK I++ T G + D + + I ++ VLDEAD M+ G + + +
Sbjct: 140 QKISEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRM--L 197
Query: 456 PDVANRQTLMFSATFPETIQ---KNYIFIAVGIIGGASTDVVQTI----LEVPKQQKK-K 507
P N Q L+FSATF +++ + + I + + TI + + +K +
Sbjct: 198 PR--NCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKREEETLDTIKQYYVLCSSRDEKFQ 255
Query: 508 KLLELLREKDEDGVIVFVSTIRNADFIACYLCETEIATTSIHGSRLQSQREQAIHDFKTK 567
L L ++F T + A ++A L + + G + QR I F+
Sbjct: 256 ALCNLYGAITIAQAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFREG 315
Query: 568 KMKVLVATAVASRGLDIKGIRHVINYDLPQEIDE------YVHRIGRTGRVGNKGRATSF 621
K KVLV T V +RG+D++ + VIN+DLP + D Y+HRIGRTGR G +G A +
Sbjct: 316 KEKVLVTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRTGRFGKRGLAVNM 375
Query: 622 YDPDQDGAIAKDLVRILEQA 641
D +++ +++
Sbjct: 376 VDSKHS----MNILNRIQEH 391
Score = 189 bits (483), Expect = 8e-54
Identities = 58/223 (26%), Positives = 108/223 (48%), Gaps = 23/223 (10%)
Query: 185 EVKVSGDNPPRP---IESFESAGLREILVKNLKKSNYTKPTPIQKYAIPAGLEG--RDLM 239
+V+V +P P ++SFE L+ L++ + + +P+ IQ+ A+P L ++L+
Sbjct: 9 QVEVLQRDPNSPLYSVKSFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLI 68
Query: 240 GCAQTGSGKTAAFLIPIMHHLLESPGELVTGYCAQPEVIICAPTRELVMQIHEVACKYA- 298
+Q+G+GKTAAF++ ++ + + P+ + +PT EL +Q +V +
Sbjct: 69 AQSQSGTGKTAAFVLAMLSQVEPANKY--------PQCLCLSPTYELALQTGKVIEQMGK 120
Query: 299 YSSVLKICLHYGGASSMHFNRQLEKGCNILVATMGRLKDILDRGR-ISLASVRFVVLDEA 357
+ LK+ G R + I++ T G + D + + I ++ VLDEA
Sbjct: 121 FYPELKLAYAVRGNK---LERGQKISEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEA 177
Query: 358 DRMLD-MGFLGDIQHVMQHSTMPDVANRQTLMFSATFPETIQK 399
D M+ G + + +P N Q L+FSATF +++ K
Sbjct: 178 DVMIATQGHQDQSIRIQRM--LP--RNCQMLLFSATFEDSVWK 216
>3bor_A Human initiation factor 4A-II; translation initiation, DEAD BOX,
structural genomics, helic binding, HOST-virus
interaction, hydrolase; 1.85A {Homo sapiens} PDB:
2g9n_A*
Length = 237
Score = 195 bits (498), Expect = 4e-58
Identities = 64/218 (29%), Positives = 108/218 (49%), Gaps = 13/218 (5%)
Query: 183 NVEVKVSGDNPPRPIESFESAGLREILVKNLKKSNYTKPTPIQKYAIPAGLEGRDLMGCA 242
+ V N +++F+ L+E L++ + + KP+ IQ+ AI ++G D++ A
Sbjct: 15 YFQGGVIESNWNEIVDNFDDMNLKESLLRGIYAYGFEKPSAIQQRAIIPCIKGYDVIAQA 74
Query: 243 QTGSGKTAAFLIPIMHHLLESPGELVTGYCAQPEVIICAPTRELVMQIHEVACKYAYSSV 302
Q+G+GKTA F I I+ L E + ++ APTREL QI +V
Sbjct: 75 QSGTGKTATFAISILQQLEIEFKE--------TQALVLAPTRELAQQIQKVILALGDYMG 126
Query: 303 LKICLHYGGASSMHFNRQLE-KGCNILVATMGRLKDILDRGRISLASVRFVVLDEADRML 361
GG + + ++L+ + +I+V T GR+ D+L+R +S ++ VLDEAD ML
Sbjct: 127 ATCHACIGGTNVRNEMQKLQAEAPHIVVGTPGRVFDMLNRRYLSPKWIKMFVLDEADEML 186
Query: 362 DMGFLGDIQHVMQHSTMPDVANRQTLMFSATFPETIQK 399
GF I + Q + + Q ++ SAT P + +
Sbjct: 187 SRGFKDQIYEIFQK--LNT--SIQVVLLSATMPTDVLE 220
Score = 97.3 bits (243), Expect = 6e-23
Identities = 27/80 (33%), Positives = 44/80 (55%), Gaps = 4/80 (5%)
Query: 397 IQKKGCNILVATMGRLKDILDRGRISLASVRFVVLDEADRMLDMGFLGDIQHVMQHSTMP 456
+Q + +I+V T GR+ D+L+R +S ++ VLDEAD ML GF I + Q +
Sbjct: 145 LQAEAPHIVVGTPGRVFDMLNRRYLSPKWIKMFVLDEADEMLSRGFKDQIYEIFQK--LN 202
Query: 457 DVANRQTLMFSATFPETIQK 476
+ Q ++ SAT P + +
Sbjct: 203 T--SIQVVLLSATMPTDVLE 220
>2oxc_A Probable ATP-dependent RNA helicase DDX20; DEAD, structural
genomics, structural genomics consortium, SGC,
hydrolase; HET: ADP; 1.30A {Homo sapiens} PDB: 3b7g_A*
Length = 230
Score = 195 bits (497), Expect = 4e-58
Identities = 63/215 (29%), Positives = 107/215 (49%), Gaps = 19/215 (8%)
Query: 189 SGDNPPRPIESFESAGLREILVKNLKKSNYTKPTPIQKYAIPAGLEGRDLMGCAQTGSGK 248
+GD FES L +++ L+ + + +P+P+Q AIP G G DL+ A++G+GK
Sbjct: 15 TGDVLLAEPADFESLLLSRPVLEGLRAAGFERPSPVQLKAIPLGRCGLDLIVQAKSGTGK 74
Query: 249 TAAFLIPIMHHLLESPGELVTGYCAQPEVIICAPTRELVMQIHEVACKYA-YSSVLKICL 307
T F + L+ +++I APTRE+ +QIH V L+ +
Sbjct: 75 TCVFSTIALDSLVLENLS--------TQILILAPTREIAVQIHSVITAIGIKMEGLECHV 126
Query: 308 HYGGASSMHFNRQLE--KGCNILVATMGRLKDILDRGRISLASVRFVVLDEADRMLDMG- 364
GG ++ K C+I V + GR+K +++ ++ S+R +LDEAD++L+ G
Sbjct: 127 FIGGTP---LSQDKTRLKKCHIAVGSPGRIKQLIELDYLNPGSIRLFILDEADKLLEEGS 183
Query: 365 FLGDIQHVMQHSTMPDVANRQTLMFSATFPETIQK 399
F I + +P ++Q L SAT+PE +
Sbjct: 184 FQEQINWIYSS--LPA--SKQMLAVSATYPEFLAN 214
Score = 95.8 bits (239), Expect = 2e-22
Identities = 26/78 (33%), Positives = 45/78 (57%), Gaps = 5/78 (6%)
Query: 400 KGCNILVATMGRLKDILDRGRISLASVRFVVLDEADRMLDMG-FLGDIQHVMQHSTMPDV 458
K C+I V + GR+K +++ ++ S+R +LDEAD++L+ G F I + +P
Sbjct: 141 KKCHIAVGSPGRIKQLIELDYLNPGSIRLFILDEADKLLEEGSFQEQINWIYSS--LPA- 197
Query: 459 ANRQTLMFSATFPETIQK 476
++Q L SAT+PE +
Sbjct: 198 -SKQMLAVSATYPEFLAN 214
>1qde_A EIF4A, translation initiation factor 4A; DEAD box protein family,
gene regulation; 2.00A {Saccharomyces cerevisiae} SCOP:
c.37.1.19 PDB: 1qva_A
Length = 224
Score = 194 bits (496), Expect = 5e-58
Identities = 62/205 (30%), Positives = 99/205 (48%), Gaps = 17/205 (8%)
Query: 197 IESFESAGLREILVKNLKKSNYTKPTPIQKYAIPAGLEGRDLMGCAQTGSGKTAAFLIPI 256
+ F+ L E L++ + + +P+ IQ+ AI +EG D++ AQ+G+GKT F I
Sbjct: 13 VYKFDDMELDENLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAA 72
Query: 257 MHHLLESPGELVTGYCAQPEVIICAPTRELVMQIHEVACKYAYSSVLKICLHYGGASSMH 316
+ + S P+ ++ APTREL +QI +V A+ +K+ GG S
Sbjct: 73 LQRIDTSVKA--------PQALMLAPTRELALQIQKVVMALAFHMDIKVHACIGGTS--- 121
Query: 317 FNRQLE--KGCNILVATMGRLKDILDRGRISLASVRFVVLDEADRMLDMGFLGDIQHVMQ 374
F E + I+V T GR+ D + R R ++ +LDEAD ML GF I +
Sbjct: 122 FVEDAEGLRDAQIVVGTPGRVFDNIQRRRFRTDKIKMFILDEADEMLSSGFKEQIYQIFT 181
Query: 375 HSTMPDVANRQTLMFSATFPETIQK 399
+P Q ++ SAT P + +
Sbjct: 182 L--LPP--TTQVVLLSATMPNDVLE 202
Score = 94.9 bits (237), Expect = 3e-22
Identities = 24/77 (31%), Positives = 37/77 (48%), Gaps = 4/77 (5%)
Query: 400 KGCNILVATMGRLKDILDRGRISLASVRFVVLDEADRMLDMGFLGDIQHVMQHSTMPDVA 459
+ I+V T GR+ D + R R ++ +LDEAD ML GF I + +P
Sbjct: 130 RDAQIVVGTPGRVFDNIQRRRFRTDKIKMFILDEADEMLSSGFKEQIYQIFTL--LPP-- 185
Query: 460 NRQTLMFSATFPETIQK 476
Q ++ SAT P + +
Sbjct: 186 TTQVVLLSATMPNDVLE 202
>3fmp_B ATP-dependent RNA helicase DDX19B; nuclear porin, nuclear pore
complex, nucleocytoplasmic trans mRNA export, protein
interaction, beta-propeller; HET: ADP; 3.19A {Homo
sapiens}
Length = 479
Score = 201 bits (513), Expect = 2e-57
Identities = 71/265 (26%), Positives = 117/265 (44%), Gaps = 20/265 (7%)
Query: 398 QKKGCNILVATMGRLKDILDRGR-ISLASVRFVVLDEADRMLD-MGFLGDIQHVMQHSTM 455
QK I++ T G + D + + I ++ VLDEAD M+ G + + +
Sbjct: 207 QKISEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRM--L 264
Query: 456 PDVANRQTLMFSATFPETIQ---KNYIFIAVGIIGGASTDVVQTI----LEVPKQQKK-K 507
P N Q L+FSATF +++ + + I + + TI + + +K +
Sbjct: 265 P--RNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKREEETLDTIKQYYVLCSSRDEKFQ 322
Query: 508 KLLELLREKDEDGVIVFVSTIRNADFIACYLCETEIATTSIHGSRLQSQREQAIHDFKTK 567
L L ++F T + A ++A L + + G + QR I F+
Sbjct: 323 ALCNLYGAITIAQAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFREG 382
Query: 568 KMKVLVATAVASRGLDIKGIRHVINYDLPQEIDE------YVHRIGRTGRVGNKGRATSF 621
K KVLV T V +RG+D++ + VIN+DLP + D Y+HRIGRTGR G +G A +
Sbjct: 383 KEKVLVTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRTGRFGKRGLAVNM 442
Query: 622 YDPDQDGAIAKDLVRILEQAGQPVP 646
D I + + + +
Sbjct: 443 VDSKHSMNILNRIQEHFNKKIERLD 467
Score = 189 bits (483), Expect = 3e-53
Identities = 64/252 (25%), Positives = 118/252 (46%), Gaps = 24/252 (9%)
Query: 157 PKDVDQSEDNLFSSGIQTGINFSGWEN-VEVKVSGDNPPRPIES---FESAGLREILVKN 212
D ++ ED S + I + +N +V+V +P P+ S FE L+ L++
Sbjct: 47 KTDEEEKEDRAAQSLLNKLIRSNLVDNTNQVEVLQRDPNSPLYSVKSFEELRLKPQLLQG 106
Query: 213 LKKSNYTKPTPIQKYAIPAGLEG--RDLMGCAQTGSGKTAAFLIPIMHHLLESPGELVTG 270
+ + +P+ IQ+ A+P L ++L+ +Q+G+GKTAAF++ ++ + +
Sbjct: 107 VYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVLAMLSQVEPANKY---- 162
Query: 271 YCAQPEVIICAPTRELVMQIHEVACKYA-YSSVLKICLHYGGASSMHFNRQLEKGCNILV 329
P+ + +PT EL +Q +V + + LK+ G R + I++
Sbjct: 163 ----PQCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNK---LERGQKISEQIVI 215
Query: 330 ATMGRLKDILDRGR-ISLASVRFVVLDEADRMLD-MGFLGDIQHVMQHSTMPDVANRQTL 387
T G + D + + I ++ VLDEAD M+ G + + +P N Q L
Sbjct: 216 GTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRM--LP--RNCQML 271
Query: 388 MFSATFPETIQK 399
+FSATF +++ K
Sbjct: 272 LFSATFEDSVWK 283
>1t6n_A Probable ATP-dependent RNA helicase; RECA-like fold, PRE-mRNA
processing protein; HET: FLC; 1.94A {Homo sapiens} SCOP:
c.37.1.19
Length = 220
Score = 191 bits (488), Expect = 7e-57
Identities = 55/204 (26%), Positives = 101/204 (49%), Gaps = 15/204 (7%)
Query: 199 SFESAGLREILVKNLKKSNYTKPTPIQKYAIPAGLEGRDLMGCAQTGSGKTAAFLIPIMH 258
F L+ L++ + + P+ +Q IP + G D++ A++G GKTA F++ +
Sbjct: 15 GFRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQ 74
Query: 259 HLLESPGELVTGYCAQPEVIICAPTRELVMQIHEVACKYA-YSSVLKICLHYGGASSMHF 317
L G+ V++ TREL QI + +++ Y +K+ + +GG S
Sbjct: 75 QLEPVTGQ--------VSVLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKD 126
Query: 318 NRQLEKGC-NILVATMGRLKDILDRGRISLASVRFVVLDEADRMLD-MGFLGDIQHVMQH 375
L+K C +I+V T GR+ + ++L ++ +LDE D+ML+ + D+Q + +
Sbjct: 127 EEVLKKNCPHIVVGTPGRILALARNKSLNLKHIKHFILDECDKMLEQLDMRRDVQEIFRM 186
Query: 376 STMPDVANRQTLMFSATFPETIQK 399
P +Q +MFSAT + I+
Sbjct: 187 --TPH--EKQVMMFSATLSKEIRP 206
Score = 95.0 bits (237), Expect = 3e-22
Identities = 24/83 (28%), Positives = 45/83 (54%), Gaps = 5/83 (6%)
Query: 395 ETIQKKGCNILVATMGRLKDILDRGRISLASVRFVVLDEADRMLD-MGFLGDIQHVMQHS 453
E ++K +I+V T GR+ + ++L ++ +LDE D+ML+ + D+Q + +
Sbjct: 128 EVLKKNCPHIVVGTPGRILALARNKSLNLKHIKHFILDECDKMLEQLDMRRDVQEIFRM- 186
Query: 454 TMPDVANRQTLMFSATFPETIQK 476
P +Q +MFSAT + I+
Sbjct: 187 -TPH--EKQVMMFSATLSKEIRP 206
>3fmo_B ATP-dependent RNA helicase DDX19B; nuclear porin, nuclear pore
complex, nucleocytoplasmic trans mRNA export, protein
interaction, beta-propeller; HET: ADP; 2.51A {Homo
sapiens}
Length = 300
Score = 190 bits (485), Expect = 2e-55
Identities = 58/248 (23%), Positives = 119/248 (47%), Gaps = 20/248 (8%)
Query: 157 PKDVDQSEDNLFSSGIQTGINFSGWENVEVKVSGDNPPRPIESFESAGLREILVKNLKKS 216
+ D++ +L + I++ + + + ++ ++P ++SFE L+ L++ +
Sbjct: 51 EEKEDRAAQSLLNKLIRSNLVDNTNQVEVLQRDPNSPLYSVKSFEELRLKPQLLQGVYAM 110
Query: 217 NYTKPTPIQKYAIPAGLEG--RDLMGCAQTGSGKTAAFLIPIMHHLLESPGELVTGYCAQ 274
+ +P+ IQ+ A+P L ++L+ +Q+G+GKTAAF++ ++ + +
Sbjct: 111 GFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVLAMLSQVEPANKY-------- 162
Query: 275 PEVIICAPTRELVMQIHEVACKYA-YSSVLKICLHYGGASSMHFNRQLEKGCNILVATMG 333
P+ + +PT EL +Q +V + + LK+ G R + I++ T G
Sbjct: 163 PQCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNK---LERGQKISEQIVIGTPG 219
Query: 334 RLKDILDRGR-ISLASVRFVVLDEADRMLD-MGFLGDIQHVMQHSTMPDVANRQTLMFSA 391
+ D + + I ++ VLDEAD M+ G + + +P N Q L+FSA
Sbjct: 220 TVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRM--LPR--NCQMLLFSA 275
Query: 392 TFPETIQK 399
TF +++ K
Sbjct: 276 TFEDSVWK 283
Score = 85.9 bits (213), Expect = 1e-18
Identities = 25/81 (30%), Positives = 40/81 (49%), Gaps = 6/81 (7%)
Query: 398 QKKGCNILVATMGRLKDILDRGR-ISLASVRFVVLDEADRMLD-MGFLGDIQHVMQHSTM 455
QK I++ T G + D + + I ++ VLDEAD M+ G + + +
Sbjct: 207 QKISEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRM--L 264
Query: 456 PDVANRQTLMFSATFPETIQK 476
P N Q L+FSATF +++ K
Sbjct: 265 PR--NCQMLLFSATFEDSVWK 283
>2yjt_D ATP-dependent RNA helicase SRMB, regulator of ribonuclease activity
A; hydrolase inhibitor-hydrolase complex, DEAD box RNA
helicase; 2.90A {Escherichia coli}
Length = 170
Score = 167 bits (426), Expect = 8e-49
Identities = 49/135 (36%), Positives = 70/135 (51%), Gaps = 1/135 (0%)
Query: 492 DVVQTILEVPKQQKKKKLLE-LLREKDEDGVIVFVSTIRNADFIACYLCETEIATTSIHG 550
+ Q + K LL LL++ + IVFV +A +L E I + G
Sbjct: 3 KIHQWYYRADDLEHKTALLVHLLKQPEATRSIVFVRKRERVHELANWLREAGINNCYLEG 62
Query: 551 SRLQSQREQAIHDFKTKKMKVLVATAVASRGLDIKGIRHVINYDLPQEIDEYVHRIGRTG 610
+Q +R +AI ++ VLVAT VA+RG+DI + HV N+D+P+ D Y+HRIGRT
Sbjct: 63 EMVQGKRNEAIKRLTEGRVNVLVATDVAARGIDIPDVSHVFNFDMPRSGDTYLHRIGRTA 122
Query: 611 RVGNKGRATSFYDPD 625
R G KG A S +
Sbjct: 123 RAGRKGTAISLVEAH 137
>2hjv_A ATP-dependent RNA helicase DBPA; parallel alpha-beta, hydrolase;
1.95A {Bacillus subtilis}
Length = 163
Score = 154 bits (393), Expect = 3e-44
Identities = 54/154 (35%), Positives = 85/154 (55%), Gaps = 6/154 (3%)
Query: 495 QTILEVPKQQKKKKLLELLREKDEDGVIVFVSTIRNADFIACYLCETEIATTSIHGSRLQ 554
+++V ++ K L ++L ++ D I+F T + + + L + IHG +Q
Sbjct: 12 HAVIQVREENKFSLLKDVLMTENPDSCIIFCRTKEHVNQLTDELDDLGYPCDKIHGGMIQ 71
Query: 555 SQREQAIHDFKTKKMKVLVATAVASRGLDIKGIRHVINYDLPQEIDEYVHRIGRTGRVGN 614
R +++FK + + LVAT VA+RG+DI+ I VINYDLP E + YVHR GRTGR GN
Sbjct: 72 EDRFDVMNEFKRGEYRYLVATDVAARGIDIENISLVINYDLPLEKESYVHRTGRTGRAGN 131
Query: 615 KGRATSFYDPDQDGAIAKDLVRILEQA-GQPVPE 647
KG+A SF + K + +E+ G + +
Sbjct: 132 KGKAISFVTAFE-----KRFLADIEEYIGFEIQK 160
>1t5i_A C_terminal domain of A probable ATP-dependent RNA helicase;
RECA-like fold, PRE-mRNA processing protein; 1.90A {Homo
sapiens} SCOP: c.37.1.19
Length = 172
Score = 147 bits (373), Expect = 2e-41
Identities = 47/153 (30%), Positives = 80/153 (52%)
Query: 495 QTILEVPKQQKKKKLLELLREKDEDGVIVFVSTIRNADFIACYLCETEIATTSIHGSRLQ 554
Q +++ +K +KL +LL + + V++FV +++ +A L E +IH Q
Sbjct: 8 QYYVKLKDNEKNRKLFDLLDVLEFNQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQ 67
Query: 555 SQREQAIHDFKTKKMKVLVATAVASRGLDIKGIRHVINYDLPQEIDEYVHRIGRTGRVGN 614
+R FK + ++LVAT + RG+DI+ + NYD+P++ D Y+HR+ R GR G
Sbjct: 68 EERLSRYQQFKDFQRRILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGRFGT 127
Query: 615 KGRATSFYDPDQDGAIAKDLVRILEQAGQPVPE 647
KG A +F + D I D+ E +P+
Sbjct: 128 KGLAITFVSDENDAKILNDVQDRFEVNISELPD 160
>3eaq_A Heat resistant RNA dependent ATPase; DEAD box RNA helicase, dimer,
ATP-binding, helicase, hydrolase, nucleotide-binding;
2.30A {Thermus thermophilus} PDB: 3ear_A 3eas_A
Length = 212
Score = 147 bits (372), Expect = 9e-41
Identities = 51/156 (32%), Positives = 77/156 (49%), Gaps = 6/156 (3%)
Query: 493 VVQTILEVPKQQKKKKLLELLREKDEDGVIVFVSTIRNADFIACYLCETEIATTSIHGSR 552
+ + P + + + L +LL D +VF T + IA L ++HG
Sbjct: 6 YEEEAVPAPVRGRLEVLSDLLYVASPDRAMVFTRTKAETEEIAQGLLRLGHPAQALHGDL 65
Query: 553 LQSQREQAIHDFKTKKMKVLVATAVASRGLDIKGIRHVINYDLPQEIDEYVHRIGRTGRV 612
Q +RE+ + F+ +++VLVAT VA+RGLDI + V++Y LP + Y HR GRTGR
Sbjct: 66 SQGERERVLGAFRQGEVRVLVATDVAARGLDIPQVDLVVHYRLPDRAEAYQHRSGRTGRA 125
Query: 613 GNKGRATSFYDPDQDGAIAKDLVRILEQA-GQPVPE 647
G GR Y P + + V LE+A G+
Sbjct: 126 GRGGRVVLLYGPRE-----RRDVEALERAVGRRFKR 156
>3i32_A Heat resistant RNA dependent ATPase; RNA helicase, dimer, RNA
recognition motif, ATP-BIND helicase,
nucleotide-binding; 2.80A {Thermus thermophilus}
Length = 300
Score = 146 bits (371), Expect = 1e-39
Identities = 49/149 (32%), Positives = 75/149 (50%), Gaps = 5/149 (3%)
Query: 493 VVQTILEVPKQQKKKKLLELLREKDEDGVIVFVSTIRNADFIACYLCETEIATTSIHGSR 552
+ + P + + + L +LL D +VF T + IA L ++HG
Sbjct: 3 YEEEAVPAPVRGRLEVLSDLLYVASPDRAMVFTRTKAETEEIAQGLLRLGHPAQALHGDM 62
Query: 553 LQSQREQAIHDFKTKKMKVLVATAVASRGLDIKGIRHVINYDLPQEIDEYVHRIGRTGRV 612
Q +RE+ + F+ +++VLVAT VA+RGLDI + V++Y +P + Y HR GRTGR
Sbjct: 63 SQGERERVMGAFRQGEVRVLVATDVAARGLDIPQVDLVVHYRMPDRAEAYQHRSGRTGRA 122
Query: 613 GNKGRATSFYDPDQDGAIAKDLVRILEQA 641
G GR Y P + + V LE+A
Sbjct: 123 GRGGRVVLLYGPRE-----RRDVEALERA 146
>1fuk_A Eukaryotic initiation factor 4A; helicase, DEAD-box protein,
translation; 1.75A {Saccharomyces cerevisiae} SCOP:
c.37.1.19
Length = 165
Score = 132 bits (335), Expect = 4e-36
Identities = 36/124 (29%), Positives = 69/124 (55%)
Query: 502 KQQKKKKLLELLREKDEDGVIVFVSTIRNADFIACYLCETEIATTSIHGSRLQSQREQAI 561
++ K + L +L ++F +T R + + L + ++I+ Q +R+ +
Sbjct: 14 EEYKYECLTDLYDSISVTQAVIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTIM 73
Query: 562 HDFKTKKMKVLVATAVASRGLDIKGIRHVINYDLPQEIDEYVHRIGRTGRVGNKGRATSF 621
+F++ ++L++T + +RG+D++ + VINYDLP + Y+HRIGR GR G KG A +F
Sbjct: 74 KEFRSGSSRILISTDLLARGIDVQQVSLVINYDLPANKENYIHRIGRGGRFGRKGVAINF 133
Query: 622 YDPD 625
+
Sbjct: 134 VTNE 137
>2rb4_A ATP-dependent RNA helicase DDX25; rossmann fold, structural
genomics, structural consortium, SGC, alternative
initiation, ATP-binding, devel protein; 2.80A {Homo
sapiens}
Length = 175
Score = 126 bits (318), Expect = 8e-34
Identities = 43/138 (31%), Positives = 68/138 (49%), Gaps = 7/138 (5%)
Query: 495 QTILEVPKQQKK-KKLLELLREKDEDGVIVFVSTIRNADFIACYLCETEIATTSIHGSRL 553
Q + ++ K + L + I+F T RNA ++ + + + + G
Sbjct: 10 QYYVLCEHRKDKYQALCNIYGSITIGQAIIFCQTRRNAKWLTVEMIQDGHQVSLLSGELT 69
Query: 554 QSQREQAIHDFKTKKMKVLVATAVASRGLDIKGIRHVINYDLP------QEIDEYVHRIG 607
QR I F+ K KVL+ T V +RG+D+K + V+N+DLP + + Y+HRIG
Sbjct: 70 VEQRASIIQRFRDGKEKVLITTNVCARGIDVKQVTIVVNFDLPVKQGEEPDYETYLHRIG 129
Query: 608 RTGRVGNKGRATSFYDPD 625
RTGR G KG A + + D
Sbjct: 130 RTGRFGKKGLAFNMIEVD 147
>1wp9_A ATP-dependent RNA helicase, putative; ATPase, DNA replication, DNA
repair, DNA recombina hydrolase; 2.90A {Pyrococcus
furiosus} SCOP: c.37.1.19 c.37.1.19
Length = 494
Score = 101 bits (253), Expect = 6e-23
Identities = 75/473 (15%), Positives = 136/473 (28%), Gaps = 84/473 (17%)
Query: 215 KSNYTKPTPIQKYAIPAGLEGRDLMGCAQTGSGKTAA-----------------FLIP-- 255
+ + +P Q+ + + TG GKT L P
Sbjct: 4 RRDLIQPRIYQEVIYAKCK-ETNCLIVLPTGLGKTLIAMMIAEYRLTKYGGKVLMLAPTK 62
Query: 256 --------IMHHLLESPGELVTGYC------------AQPEVIICAPTRELVMQIHEVAC 295
L P E + A+ +VI+ P + +
Sbjct: 63 PLVLQHAESFRRLFNLPPEKIVALTGEKSPEERSKAWARAKVIVATPQT-IENDLLAGRI 121
Query: 296 KYAYSSVLKI--CLH----YGGASSMHFNRQLEKGCNILV--ATMGRLKDILDRGRISLA 347
S++ Y ++ K ++ A+ G + + +L
Sbjct: 122 SLEDVSLIVFDEAHRAVGNYAYVFIAREYKRQAKNPLVIGLTASPGSTPEKIMEVINNLG 181
Query: 348 SVRFVVLDEADRMLDMGFLGDIQHVMQHSTMPDVANRQTLMFSATFPETIQKKGCNILVA 407
E + G ++ + L+ +L +
Sbjct: 182 IEHIEYRSENSPDVRPYVKGIRFEWVRVDLPEIYKEVRKLLREMLRDALKPLAETGLLES 241
Query: 408 TMGRL-----------------KDILDRGRISLASVRFVVLDEADRMLDMGFLGDIQHVM 450
+ + K D + L + L A +L+ L ++ +
Sbjct: 242 SSPDIPKKEVLRAGQIINEEMAKGNHDLRGLLLYHAMALKLHHAIELLETQGLSALRAYI 301
Query: 451 QHSTMPDVANRQTLMFSATFPETIQKNYIFIAVGIIGGASTDVVQTILEVPKQQKKKKLL 510
+ A + ++K + + L+ PK K K+++
Sbjct: 302 KKLYEEAKAGSTKASKEIFSDKRMKKAISLL---------VQAKEIGLDHPKMDKLKEII 352
Query: 511 -ELLREKDEDGVIVFVSTIRNADFIACYLCETEIATTSIHG------SRLQSQREQ--AI 561
E L+ K +IVF + A I L + I G R SQREQ +
Sbjct: 353 REQLQRKQNSKIIVFTNYRETAKKIVNELVKDGIKAKRFVGQASKENDRGLSQREQKLIL 412
Query: 562 HDFKTKKMKVLVATAVASRGLDIKGIRHVINYDLPQEIDEYVHRIGRTGRVGN 614
+F + VLVAT+V GLD+ + V+ Y+ + R GRTGR
Sbjct: 413 DEFARGEFNVLVATSVGEEGLDVPEVDLVVFYEPVPSAIRSIQRRGRTGRHMP 465
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis,
programmed cell death; HET: DTP; 6.90A {Drosophila
melanogaster} PDB: 3iz8_A*
Length = 1221
Score = 91.8 bits (227), Expect = 3e-19
Identities = 99/603 (16%), Positives = 174/603 (28%), Gaps = 208/603 (34%)
Query: 154 LYIPKDVDQSEDNLF-------SSGIQTGI------NFSGWENVEVKVSGDNPPRPIESF 200
+ + KD LF +Q + N+ + +K P +
Sbjct: 54 IIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINY-KFLMSPIKTEQRQPSMMTRMY 112
Query: 201 ESAGLREIL---VKNLKKSNYTKPTPIQKY------AIPAG---LEGRDLMGCAQTGSGK 248
R+ L + K N ++ P K PA ++G + GSGK
Sbjct: 113 IEQ--RDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDG---VL----GSGK 163
Query: 249 TAAFLIPIMHHLLESPGELVTGYCAQPEVIICAPTRELVMQIH--EVACKYAYSSVLKIC 306
T + C +V +I + + +VL++
Sbjct: 164 TW----------------VALDVCLSYKVQCKMD-----FKIFWLNLKNCNSPETVLEML 202
Query: 307 --LHYGGASSMHFNRQLEKGCNILVATMGRLKDILDRGRISLASVRF----VVLDEADRM 360
L Y + + R+ I R L S + +VL
Sbjct: 203 QKLLY------QIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLL----- 251
Query: 361 LDMGFLGDIQHVMQHSTMPDVANRQTL-MFSATFPETIQKKGCNILVATMGRLKDILDRG 419
+V N + F+ C IL+ T R K + D
Sbjct: 252 -------------------NVQNAKAWNAFNL---------SCKILLTT--RFKQVTD-- 279
Query: 420 RISLASVRFVVLDEADRMLD----MGFLGDIQHVMQHSTMPDVA---NRQTL-MFSAT-- 469
+S A+ + LD L L + +P N + L + + +
Sbjct: 280 FLSAATTTHISLDHHSMTLTPDEVKSLLLKYLD-CRPQDLPREVLTTNPRRLSIIAESIR 338
Query: 470 -FPETIQ--KNYIFIAVGIIGGASTDVVQTILEV--PKQQKK---------------KKL 509
T K+ + T ++++ L V P + +K L
Sbjct: 339 DGLATWDNWKHVNCDKL-------TTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTIL 391
Query: 510 LELL-REKDEDGVIVFVSTIRNADFIACYLCETEIATTSIHG----SRLQSQREQAIHDF 564
L L+ + + V+V V+ + + E+ T SI +++ + E A+H
Sbjct: 392 LSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKES---TISIPSIYLELKVKLENEYALH-- 446
Query: 565 KTKKMKVLVATAVASRGLDIKGIRHVINYDL-PQEIDEYVHR-IGRTGRVGNKGRATSFY 622
+ +V + D + DL P +D+Y + IG + N
Sbjct: 447 -----RSIVDHYNIPKTFD--------SDDLIPPYLDQYFYSHIGH--HLKNIEHPERM- 490
Query: 623 DPDQDGAIAKDLVRILEQAGQPVPEFLKFGGGGGGYGRGGDAFGARDIRHDPDAAPVWGG 682
L R++ FL F F + IRHD A W
Sbjct: 491 ----------TLFRMV---------FLDFR------------FLEQKIRHDSTA---WNA 516
Query: 683 SGA 685
SG+
Sbjct: 517 SGS 519
Score = 47.9 bits (113), Expect = 1e-05
Identities = 31/170 (18%), Positives = 56/170 (32%), Gaps = 32/170 (18%)
Query: 450 MQHSTMPDVANRQTLMFSATFPETIQKNYIFIAV-----GIIGGASTDVVQTILEVP-KQ 503
Q+ + L + F + N+ V I+ S + + I+
Sbjct: 14 HQYQ------YKDIL---SVFEDAFVDNFDCKDVQDMPKSIL---SKEEIDHIIMSKDAV 61
Query: 504 QKKKKLLELLREKDEDGVIVFVSTI--RNADFIACYLCETEIATTSIHGSRLQSQREQAI 561
+L L K E+ V FV + N F+ + +TE S+ QR++
Sbjct: 62 SGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPI-KTEQRQPSMMTRMYIEQRDRLY 120
Query: 562 HDFKT-KKMKVLVATAVASRGLDIKGIRHVINYDLPQEIDEYVHRIGRTG 610
+D + K V SR +R + +L + + G G
Sbjct: 121 NDNQVFAKYNV-------SRLQPYLKLRQAL-LELRPAKNVLID--GVLG 160
Score = 42.9 bits (100), Expect = 3e-04
Identities = 52/415 (12%), Positives = 109/415 (26%), Gaps = 139/415 (33%)
Query: 11 VDQVVEAEVIEV--------------EVTE-VKTGHVHVVRVEEAVVAMATEVTAEVVAL 55
+ V A+ +VT+ + + ++ + + + ++
Sbjct: 250 LLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLK 309
Query: 56 AMGMEVEMEVVEAVTEEKIG--HVRVVRAILRPD-SRFSSGGGGGGDRGNSKPGDWMCSC 112
+ + E + + ++ +R + + D W
Sbjct: 310 YLDCRPQDLPREVL---TTNPRRLSIIAESIRDGLATW--------DN-------WK--- 348
Query: 113 GASNFAK----RDACFKCSEPKPEGAGGGAPGGADGAPFDPAKPPLYI-PKDVDQSEDNL 167
N K ++ EP E FD L + P L
Sbjct: 349 -HVNCDKLTTIIESSLNVLEP-AE----------YRKMFD----RLSVFPPSAHIPTILL 392
Query: 168 FSSGIQTGINFSGWENVEVKVSGDNPPRPIESFESAGLREILVKNLKKSNYT-------- 219
+ W +V + + L + K K+S +
Sbjct: 393 ---SLI-------WFDVIK----SDVMVVVNKLHKYSL---VEKQPKESTISIPSIYLEL 435
Query: 220 KPTP----------IQKYAIPAGLEGRDLMGCAQTGSGKTAAFLIPIMHHLLE-SPGELV 268
K + Y IP + DL+ + I HHL E +
Sbjct: 436 KVKLENEYALHRSIVDHYNIPKTFDSDDLI--PPYLDQYFYSH---IGHHLKNIEHPERM 490
Query: 269 TGYCAQPEV----------II--------CAPTRELVMQIHEVACKY-AYSSVLKICLHY 309
T + V I + Q+ Y Y + Y
Sbjct: 491 TLF---RMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQLK----FYKPY--ICDNDPKY 541
Query: 310 GGASS--MHFNRQLEKGCNILVATMGRLKDILDRGRISLASVRFVVLDEADRMLD 362
+ + F ++E+ N++ + + D+L RI+L + + +EA + +
Sbjct: 542 ERLVNAILDFLPKIEE--NLICS---KYTDLL---RIALMAEDEAIFEEAHKQVQ 588
Score = 35.6 bits (81), Expect = 0.058
Identities = 55/347 (15%), Positives = 101/347 (29%), Gaps = 97/347 (27%)
Query: 178 FSGWENVEVKVSGDNP-------PRPIESFESAGLREILV--KNLKKSNYTKPTPIQKYA 228
+ + + D P PR + + +R+ L N K N K T I + +
Sbjct: 307 LLKYLDCRPQ---DLPREVLTTNPRRLSII-AESIRDGLATWDNWKHVNCDKLTTIIESS 362
Query: 229 IPAGLEGRDLMGCAQTGSGKTAAFL--IPIMHHLLESPGELVTGYCAQPEVIICAPTREL 286
+ LE + + + F I LL +I +
Sbjct: 363 LNV-LEPAEYRKMFD----RLSVFPPSAHIPTILLS--------------LIWFDVIKSD 403
Query: 287 VMQIHEVACKYAYSSVLKICLHYGGASSMHFNRQLEKGCNILVATMGRL-KDILDRGRIS 345
VM + K S+++ S+ + LE + L + I+D I
Sbjct: 404 VMVV---VNKLHKYSLVE-KQPKESTISIP-SIYLELKVKL--ENEYALHRSIVDHYNIP 456
Query: 346 LASVRFVVLDEADRMLDMGFLGDIQHVMQHSTMPDVANRQTLMFSATFPET--IQKK--- 400
F D LD F H+ H + R TL F F + +++K
Sbjct: 457 KT---FDSDDLIPPYLDQYFY---SHIGHHLKNIEHPERMTL-FRMVFLDFRFLEQKIRH 509
Query: 401 GCNILVATMGRLKDILD----RGRISLASVRFVVLDEADRMLDMGFLGDIQHVMQHSTMP 456
A+ L + + I ++ +R+++ I
Sbjct: 510 DSTAWNASGSILNTLQQLKFYKPYICDNDPKY------ERLVN-----AILD-------- 550
Query: 457 DVANRQTLMFSATFPETIQKNYIFIAVGIIGGASTDVVQTILEVPKQ 503
F I++N +I TD+++ L +
Sbjct: 551 -------------FLPKIEEN-------LICSKYTDLLRIALMAEDE 577
>4a2q_A RIG-I, retinoic acid inducible protein I; hydrolase, superfamily 2
RNA helicase, ATP and dsRNA binding antiviral signalling
pathway; 3.40A {Anas platyrhynchos}
Length = 797
Score = 77.3 bits (189), Expect = 7e-15
Identities = 46/281 (16%), Positives = 83/281 (29%), Gaps = 12/281 (4%)
Query: 158 KDVDQSEDNLFSSGIQTGINFSGWENVEVKVSGDNPPRPIESFESAGLREILVKNLKKSN 217
+ D EDN + + S + P S E + K
Sbjct: 186 ELWDIREDNAKDVDSEMTDASEDCLEASMTYSEEAEPDDNLSENLGSAAEGIGKPPPVYE 245
Query: 218 YTKPTPIQKYAIPAGLEGRDLMGCAQTGSGKTAAFLIPIMHHLLESPGELVTGYCAQPEV 277
K Q + G++ + CA TGSGKT ++ HH P + +V
Sbjct: 246 TKKARSYQIELAQPAINGKNALICAPTGSGKTFVSILICEHHFQNMPAG------RKAKV 299
Query: 278 IICAPTRELVMQIHEVACKYAYSSVLKICLHYGGASSMHFNRQLEKGCNILVATMGRLKD 337
+ A + Q V + + G S ++ + +I+V T L +
Sbjct: 300 VFLATKVPVYEQQKNVFKHHFERQGYSVQGISGENFSNVSVEKVIEDSDIIVVTPQILVN 359
Query: 338 ILDRGRI-SLASVRFVVLDEADRMLDMGFLGDIQHVMQHSTMPDVANR-QTLMFSATFPE 395
+ G + SL+ ++ DE + + Q L +A+
Sbjct: 360 SFEDGTLTSLSIFTLMIFDECHNTTGNHPYNVLMTRYLEQKFNSASQLPQILGLTASVG- 418
Query: 396 TIQKKGCNILVATMGRLKDILDRGRISLASVRFVVLDEADR 436
+ T+ + + I S + E R
Sbjct: 419 ---VGNAKNIEETIEHICSLCSYLDIQAISTVRENIQELQR 456
Score = 61.9 bits (149), Expect = 4e-10
Identities = 28/129 (21%), Positives = 52/129 (40%), Gaps = 14/129 (10%)
Query: 501 PKQQKKKKLLEL-LREKDEDGVIVFVSTIRNADFIACYLCETE----IATTSIHG----- 550
PK ++ +L+ R + ++F T + + E I + G
Sbjct: 613 PKLEELVCILDDAYRYNPQTRTLLFAKTRALVSALKKCMEENPILNYIKPGVLMGRGRRD 672
Query: 551 -SRLQSQREQ--AIHDFKTKKM-KVLVATAVASRGLDIKGIRHVINYDLPQEIDEYVHRI 606
+ + Q + FKT K ++L+AT+VA G+DI V+ Y+ + + +
Sbjct: 673 QTTGMTLPSQKGVLDAFKTSKDNRLLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQVR 732
Query: 607 GRTGRVGNK 615
GR G+K
Sbjct: 733 GRGRAAGSK 741
>2ykg_A Probable ATP-dependent RNA helicase DDX58; hydrolase, innate
immunity; 2.50A {Homo sapiens} PDB: 3tmi_A*
Length = 696
Score = 75.8 bits (185), Expect = 2e-14
Identities = 37/209 (17%), Positives = 71/209 (33%), Gaps = 9/209 (4%)
Query: 220 KPTPIQKYAIPAGLEGRDLMGCAQTGSGKTAAFLIPIMHHLLESPGELVTGYCAQPEVII 279
KP Q ++G++ + CA TG GKT L+ HHL + P + +V+
Sbjct: 13 KPRNYQLELALPAMKGKNTIICAPTGCGKTFVSLLICEHHLKKFPQG------QKGKVVF 66
Query: 280 CAPTRELVMQIHEVACKYAYSSVLKICLHYGGASSMHFNRQLEKGCNILVATMGRLKDIL 339
A + Q V KY ++ G + Q+ + +I++ T L + L
Sbjct: 67 FANQIPVYEQNKSVFSKYFERHGYRVTGISGATAENVPVEQIVENNDIIILTPQILVNNL 126
Query: 340 DRGRI-SLASVRFVVLDEADRMLDMGFLGDIQHVMQHSTMPDVANRQTLMFSATFPETIQ 398
+G I SL+ ++ DE I + + + T ++
Sbjct: 127 KKGTIPSLSIFTLMIFDECHNTSKQHPYNMIMFNYLDQKLGGSSGPLPQVIGLT--ASVG 184
Query: 399 KKGCNILVATMGRLKDILDRGRISLASVR 427
+ + + S+ +
Sbjct: 185 VGDAKTTDEALDYICKLCASLDASVIATV 213
Score = 60.8 bits (146), Expect = 9e-10
Identities = 28/129 (21%), Positives = 46/129 (35%), Gaps = 14/129 (10%)
Query: 501 PKQQK-KKKLLELLREKDEDGVIVFVSTIRNADFIACYLCETE----------IATTSIH 549
PK + L E E I+FV T D + ++ +
Sbjct: 380 PKLEDLCFILQEEYHLNPETITILFVKTRALVDALKNWIEGNPKLSFLKPGILTGRGKTN 439
Query: 550 GSRLQSQREQ--AIHDFKTK-KMKVLVATAVASRGLDIKGIRHVINYDLPQEIDEYVHRI 606
+ + Q + FK +L+AT+VA G+DI VI Y+ + + +
Sbjct: 440 QNTGMTLPAQKCILDAFKASGDHNILIATSVADEGIDIAQCNLVILYEYVGNVIKMIQTR 499
Query: 607 GRTGRVGNK 615
GR G+K
Sbjct: 500 GRGRARGSK 508
>4a2w_A RIG-I, retinoic acid inducible protein I; hydrolase, superfamily 2
RNA helicase, ATP and dsRNA binding antiviral signalling
pathway; 3.70A {Anas platyrhynchos}
Length = 936
Score = 73.8 bits (180), Expect = 1e-13
Identities = 44/269 (16%), Positives = 79/269 (29%), Gaps = 12/269 (4%)
Query: 161 DQSEDNLFSSGIQTGINFSGWENVEVKVSGDNPPRPIESFESAGLREILVKNLKKSNYTK 220
D EDN + + S + P S E + K K
Sbjct: 189 DIREDNAKDVDSEMTDASEDCLEASMTYSEEAEPDDNLSENLGSAAEGIGKPPPVYETKK 248
Query: 221 PTPIQKYAIPAGLEGRDLMGCAQTGSGKTAAFLIPIMHHLLESPGELVTGYCAQPEVIIC 280
Q + G++ + CA TGSGKT ++ HH P + +V+
Sbjct: 249 ARSYQIELAQPAINGKNALICAPTGSGKTFVSILICEHHFQNMPAG------RKAKVVFL 302
Query: 281 APTRELVMQIHEVACKYAYSSVLKICLHYGGASSMHFNRQLEKGCNILVATMGRLKDILD 340
A + Q V + + G S ++ + +I+V T L + +
Sbjct: 303 ATKVPVYEQQKNVFKHHFERQGYSVQGISGENFSNVSVEKVIEDSDIIVVTPQILVNSFE 362
Query: 341 RGRI-SLASVRFVVLDEADRMLDMGFLGDIQHVMQHSTMPDVANR-QTLMFSATFPETIQ 398
G + SL+ ++ DE + + Q L +A+
Sbjct: 363 DGTLTSLSIFTLMIFDECHNTTGNHPYNVLMTRYLEQKFNSASQLPQILGLTASVG---- 418
Query: 399 KKGCNILVATMGRLKDILDRGRISLASVR 427
+ T+ + + I S
Sbjct: 419 VGNAKNIEETIEHICSLCSYLDIQAISTV 447
Score = 62.7 bits (151), Expect = 3e-10
Identities = 26/129 (20%), Positives = 48/129 (37%), Gaps = 14/129 (10%)
Query: 501 PKQQK-KKKLLELLREKDEDGVIVFVSTIRNADFIACYLCETEI------------ATTS 547
PK ++ L + R + ++F T + + E I
Sbjct: 613 PKLEELVCILDDAYRYNPQTRTLLFAKTRALVSALKKCMEENPILNYIKPGVLMGRGRRD 672
Query: 548 IHGSRLQSQREQAIHDFKTKKM-KVLVATAVASRGLDIKGIRHVINYDLPQEIDEYVHRI 606
++ + FKT K ++L+AT+VA G+DI V+ Y+ + + +
Sbjct: 673 QTTGMTLPSQKGVLDAFKTSKDNRLLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQVR 732
Query: 607 GRTGRVGNK 615
GR G+K
Sbjct: 733 GRGRAAGSK 741
>3dmq_A RNA polymerase-associated protein RAPA; SWF2/SNF2, transcription
factor, RNA polymerase recycling, activator,
ATP-binding, DNA-binding; 3.20A {Escherichia coli K12}
Length = 968
Score = 73.6 bits (180), Expect = 1e-13
Identities = 31/151 (20%), Positives = 55/151 (36%), Gaps = 6/151 (3%)
Query: 502 KQQKKKKLLELLREKDEDGVIVFVSTIRNADFIACYLCETE-IATTSIHGSRLQSQREQA 560
+ + L+ L V+V + A + L E E I H +R++A
Sbjct: 487 FDPRVEWLMGYLTSHRSQKVLVICAKAATALQLEQVLREREGIRAAVFHEGMSIIERDRA 546
Query: 561 IHDFKTKK--MKVLVATAVASRGLDIKGIRHVINYDLPQEIDEYVHRIGRTGRVGNKG-- 616
F + +VL+ + + S G + + H++ +DLP D RIGR R+G
Sbjct: 547 AAWFAEEDTGAQVLLCSEIGSEGRNFQFASHMVMFDLPFNPDLLEQRIGRLDRIGQAHDI 606
Query: 617 RATSFYDPDQ-DGAIAKDLVRILEQAGQPVP 646
+ Y + + L+ P
Sbjct: 607 QIHVPYLEKTAQSVLVRWYHEGLDAFEHTCP 637
>3b6e_A Interferon-induced helicase C domain-containing P; DECH, DEXD/H
RNA-binding helicase, innate immunity, IFIH1, S
genomics; 1.60A {Homo sapiens}
Length = 216
Score = 69.1 bits (169), Expect = 2e-13
Identities = 31/158 (19%), Positives = 57/158 (36%), Gaps = 13/158 (8%)
Query: 207 EILVKNLKKSNYTKPTPIQKYAIPAGLEGRDLMGCAQTGSGKTA-AFLIPIMHHLLESPG 265
E + + P Q LEG++++ C TGSGKT A I HL +
Sbjct: 20 ENVAARASPEPELQLRPYQMEVAQPALEGKNIIICLPTGSGKTRVAVYI-AKDHLDKKKK 78
Query: 266 ELVTGYCAQPEVIICAPTRELVMQIHEVACKYAYSSVLKICLHYGGASSMHFNRQLEKGC 325
G +VI+ LV Q+ + ++ G ++ K C
Sbjct: 79 ASEPG-----KVIVLVNKVLLVEQLFRKEFQPFLKKWYRVIGLSGDTQLKISFPEVVKSC 133
Query: 326 NILVAT------MGRLKDILDRGRISLASVRFVVLDEA 357
+I+++T + + + L+ +++DE
Sbjct: 134 DIIISTAQILENSLLNLENGEDAGVQLSDFSLIIIDEC 171
>4a2p_A RIG-I, retinoic acid inducible protein I; hydrolase, superfamily 2
RNA helicase, ATP and dsRNA binding antiviral signalling
pathway; 3.00A {Anas platyrhynchos} PDB: 4a36_A*
Length = 556
Score = 69.6 bits (169), Expect = 1e-12
Identities = 31/211 (14%), Positives = 64/211 (30%), Gaps = 14/211 (6%)
Query: 220 KPTPIQKYAIPAGLEGRDLMGCAQTGSGKT--AAFLIPIMHHLLESPGELVTGYCAQPEV 277
K Q + G++ + CA TGSGKT + + + + + +V
Sbjct: 7 KARSYQIELAQPAINGKNALICAPTGSGKTFVSILICEHHFQNMPAGR--------KAKV 58
Query: 278 IICAPTRELVMQIHEVACKYAYSSVLKICLHYGGASSMHFNRQLEKGCNILVATMGRLKD 337
+ A + Q V + + G S ++ + +I+V T L +
Sbjct: 59 VFLATKVPVYEQQKNVFKHHFERQGYSVQGISGENFSNVSVEKVIEDSDIIVVTPQILVN 118
Query: 338 ILDRGRI-SLASVRFVVLDEADRMLDMGFLGDIQHVMQHSTMPDVANRQTLMFSATFPET 396
+ G + SL+ ++ DE +M + L +
Sbjct: 119 SFEDGTLTSLSIFTLMIFDECHNTTGN---HPYNVLMTRYLEQKFNSASQLPQILGLTAS 175
Query: 397 IQKKGCNILVATMGRLKDILDRGRISLASVR 427
+ + T+ + + I S
Sbjct: 176 VGVGNAKNIEETIEHICSLCSYLDIQAISTV 206
Score = 64.2 bits (155), Expect = 8e-11
Identities = 27/127 (21%), Positives = 49/127 (38%), Gaps = 15/127 (11%)
Query: 499 EVPKQQKKKKLLELLREKDEDG-VIVFVSTIRNADFIACYLCETEIA----------TTS 547
E PK ++ +L+ + ++F T + + E I
Sbjct: 370 ENPKLEELVCILDDAYRYNPQTRTLLFAKTRALVSALKKCMEENPILNYIKPGVLMGRGR 429
Query: 548 IHGSRLQSQREQ--AIHDFKTKKM-KVLVATAVASRGLDIKGIRHVINYDLPQEIDEYVH 604
+ + Q + FKT K ++L+AT+VA G+DI V+ Y+ + + +
Sbjct: 430 RDQTTGMTLPSQKGVLDAFKTSKDNRLLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQ 489
Query: 605 RIGRTGR 611
GR GR
Sbjct: 490 VRGR-GR 495
>2fwr_A DNA repair protein RAD25; DNA unwinding, XPB, DNA binding protein;
HET: DNA; 2.60A {Archaeoglobus fulgidus} SCOP: c.37.1.19
c.37.1.19 PDB: 2fzl_A*
Length = 472
Score = 66.4 bits (162), Expect = 1e-11
Identities = 63/418 (15%), Positives = 122/418 (29%), Gaps = 73/418 (17%)
Query: 219 TKPTPIQKYAIPAGLEGRDLMGCAQTGSGKTAAFLIPIMHHLLESPGELVTGYCA----Q 274
Q+ A+ L + TGSGKT A
Sbjct: 92 ISLRDYQEKALERWLVDKRGCIVLPTGSGKT------------------HVAMAAINELS 133
Query: 275 PEVIICAPTRELVMQIHEVACKYAYSSVLKICLHYGGASSMHFNRQLEKGCNILVATMGR 334
+I PT L Q E + + G + + V+T
Sbjct: 134 TPTLIVVPTLALAEQWKERLGIF---GEEYVGEFSGRIKELK---------PLTVSTYDS 181
Query: 335 LKDILDRGRISLASVRFVVLDEADRMLDMGFLGDIQHVMQHSTMPDVANRQTLMFSATFP 394
++ ++ DE + ++ L +ATF
Sbjct: 182 AYVNAEK---LGNRFMLLIFDEVHHLPAESYV---------QIAQMSIAPFRLGLTATFE 229
Query: 395 ETIQKKGCNILVATMG-----RLKDILDRGRISLASVRFVVLDEADRMLDMGFLGDIQHV 449
+ IL +G D L ++ +++ + + L + +
Sbjct: 230 REDGRHE--ILKEVVGGKVFELFPDSLAGKHLAKYTIKRIFVP-----LAEDERVEYEKR 282
Query: 450 MQHSTMPDVANRQTLMFSATFPETIQKNYIFIAVGIIGGASTDVVQTILEVPKQQKKKKL 509
+ A TL + F + + + A + + K +KL
Sbjct: 283 EKVYKQFLRARGITLRRAEDFNKIVMASGYDERAYEALRAWEEARRIAFNSKN--KIRKL 340
Query: 510 LELLREKDEDGVIVFVSTIRNADFIACYLCETEIATTSIHGSRLQSQREQAIHDFKTKKM 569
E+L +D +I+F I+ +I + +RE+ + F+T +
Sbjct: 341 REILERHRKDKIIIFTRHNELVYRISKVFL-----IPAITHRTSREEREEILEGFRTGRF 395
Query: 570 KVLVATAVASRGLDIKGIRHVI---NYDLPQEIDEYVHRIGRTGRVG-NKGRATSFYD 623
+ +V++ V G+D+ + + EY+ R+GR R K A Y+
Sbjct: 396 RAIVSSQVLDEGIDVPDANVGVIMSGSGSAR---EYIQRLGRILRPSKGKKEAV-LYE 449
>3tbk_A RIG-I helicase domain; DECH helicase, ATP binding, hydrolase; HET:
ANP; 2.14A {Mus musculus}
Length = 555
Score = 64.9 bits (157), Expect = 4e-11
Identities = 36/204 (17%), Positives = 66/204 (32%), Gaps = 9/204 (4%)
Query: 225 QKYAIPAGLEGRDLMGCAQTGSGKTAAFLIPIMHHLLESPGELVTGYCAQPEVIICAPTR 284
Q +G++ + CA TG GKT L+ HHL + P + +V+ A
Sbjct: 9 QLELALPAKKGKNTIICAPTGCGKTFVSLLICEHHLKKFPCG------QKGKVVFFANQI 62
Query: 285 ELVMQIHEVACKYAYSSVLKICLHYGGASSMHFNRQLEKGCNILVATMGRLKDILDRGRI 344
+ Q V +Y I G S + + + +I++ T L + L+ G I
Sbjct: 63 PVYEQQATVFSRYFERLGYNIASISGATSDSVSVQHIIEDNDIIILTPQILVNNLNNGAI 122
Query: 345 -SLASVRFVVLDEADRMLDMGFLGDIQHVMQHSTMPDVANRQTLMFSATFPETIQKKGCN 403
SL+ ++ DE I + + + + T
Sbjct: 123 PSLSVFTLMIFDECHNTSKNHPYNQIMFRYLDHKLGESRDPLPQVVGLTASVG--VGDAK 180
Query: 404 ILVATMGRLKDILDRGRISLASVR 427
M + + S+ +
Sbjct: 181 TAEEAMQHICKLCAALDASVIATV 204
Score = 63.4 bits (153), Expect = 1e-10
Identities = 30/127 (23%), Positives = 48/127 (37%), Gaps = 15/127 (11%)
Query: 499 EVPKQQK-KKKLLELLREKDEDGVIVFVSTIRNADFIACYLCETE----------IATTS 547
E PK + L E K E I+FV T D + ++ E
Sbjct: 369 ENPKLRDLYLVLQEEYHLKPETKTILFVKTRALVDALKKWIEENPALSFLKPGILTGRGR 428
Query: 548 IHGSRLQSQREQ--AIHDFKTK-KMKVLVATAVASRGLDIKGIRHVINYDLPQEIDEYVH 604
+ + + Q + F+ +L+AT+VA G+DI VI Y+ + + +
Sbjct: 429 TNRATGMTLPAQKCVLEAFRASGDNNILIATSVADEGIDIAECNLVILYEYVGNVIKMIQ 488
Query: 605 RIGRTGR 611
GR GR
Sbjct: 489 TRGR-GR 494
>2zj8_A DNA helicase, putative SKI2-type helicase; RECA fold, ATP-binding,
hydrolase, nucleotide- binding; 2.00A {Pyrococcus
furiosus} PDB: 2zj5_A* 2zj2_A 2zja_A*
Length = 720
Score = 64.9 bits (158), Expect = 5e-11
Identities = 75/460 (16%), Positives = 151/460 (32%), Gaps = 91/460 (19%)
Query: 201 ESAGLREILVKNLKKSNYTKPTPIQKYAIPAGL-EGRDLMGCAQTGSGKTAAFLIPIMHH 259
+ + E + LK+ P Q A+ +G+ EG++ + T SGKT I ++H
Sbjct: 4 DELRVDERIKSTLKERGIESFYPPQAEALKSGILEGKNALISIPTASGKTLIAEIAMVHR 63
Query: 260 LLESPGELVTGYCAQPEVIICAPTRELVMQIHEVACKYAYSSVLKICLHYGGASSMHFNR 319
+L G + + P + L + + + L++ + G S
Sbjct: 64 ILTQGG----------KAVYIVPLKALAEEKFQEFQDWEKIG-LRVAMATGDYDS---KD 109
Query: 320 QLEKGCNILVATMGRLKDILDRGRISLASVRFVVLDEADRMLDMGFLGDIQHVMQHSTMP 379
+ +I++AT + +L G + V+ +V DE ++ G V+ +
Sbjct: 110 EWLGKYDIIIATAEKFDSLLRHGSSWIKDVKILVADEI-HLIGSRDRGATLEVILAHMLG 168
Query: 380 DVANRQTLMFSATFPETIQKKGCNILVATMGRLKDI---LDRGRISLASVRFVVLDEADR 436
Q + SAT N +++ L+ I + R V L
Sbjct: 169 KA---QIIGLSATIG--------NP--------EELAEWLNAELIV-SDWRPVKLRRG-- 206
Query: 437 MLDMGFLGDIQHVMQH-STMPDVA------NRQTLMFSATFPETIQKNYIFIAVGIIGGA 489
+ GF+ + S+ ++ + L+F + +
Sbjct: 207 VFYQGFVTWEDGSIDRFSSWEELVYDAIRKKKGALIFVNMRRKAER-------------V 253
Query: 490 STDVVQTILEVPKQQKKKKLLELLREKDEDGVIVFVSTIRNADFIACYLCETEIATTSIH 549
+ ++ + + + + + + L EL +E N L + + H
Sbjct: 254 ALELSKKVKSLLTKPEIRALNELADSLEE--------NPTNEK-----LAKAIRGGVAFH 300
Query: 550 GSRLQSQREQAIHD-FKTKKMKVLVATAVASRGLD-------IKGIRHVINYD--LPQEI 599
+ L + + F+ +K +VAT S G++ I+ I Y + I
Sbjct: 301 HAGLGRDERVLVEENFRKGIIKAVVATPTLSAGINTPAFRVIIRDIWR---YSDFGMERI 357
Query: 600 D--EYVHRIGRTGRVG--NKGRATSFYDPDQDGAIAKDLV 635
E +GR GR G D + +
Sbjct: 358 PIIEVHQMLGRAGRPKYDEVGEGIIVSTSDDPREVMNHYI 397
>2oca_A DAR protein, ATP-dependent DNA helicase UVSW; ATP-dependant
helicase, T4-bacteriophage, recombination, hydrolase;
2.70A {Enterobacteria phage T4}
Length = 510
Score = 64.2 bits (155), Expect = 6e-11
Identities = 57/405 (14%), Positives = 125/405 (30%), Gaps = 65/405 (16%)
Query: 220 KPTPIQKYAIPAGLEGRDLMGCAQTGSGKTAAFLIPIMHHLLESPGELVTGYCAQPEVII 279
+P QK A+ GL R + T +G++ + ++L + +++I
Sbjct: 113 EPHWYQKDAVFEGLVNRRRILNLPTSAGRSLIQALLARYYL----------ENYEGKILI 162
Query: 280 CAPTRELVMQIHEVACKYAYSSVLKICLHYGGASSMHFNRQLEKGCNILVATMGRLKDIL 339
PT L Q+ + Y S I GG + +K N +G + ++
Sbjct: 163 IVPTTALTTQMADDFVDYRLFSHAMIKKIGGG------ASKDDKYKNDAPVVVGTWQTVV 216
Query: 340 DRGRISLASVRFVVLDEADRMLDMGFLGDIQHVMQHSTMPDVANRQTLMFSATFPETIQK 399
+ + + ++ DE + + +I
Sbjct: 217 KQPKEWFSQFGMMMNDEC-----------------------------HLATGKSISSIIS 247
Query: 400 KGCNILVATMGRLKDILDRGRISLASVRFVVLDEADRMLDMGFLGDIQHVMQHSTMPDVA 459
N + + +S + +A+ M +G G+I + S + +
Sbjct: 248 GLNNCMF-----------KFGLSGSLRD----GKANIMQYVGMFGEIFKPVTTSKLME-- 290
Query: 460 NRQTLMFSATFPETIQKNYIFIAVGIIGGASTDVVQTILEVPKQQKKKKLLELLREKDED 519
+ + + G + ++ I + K+ K L + + ++
Sbjct: 291 --DGQVTELKINSIFLRYPDEFTTKLKGKTYQEEIKIITGLSKRNKWIAKLAIKLAQKDE 348
Query: 520 GVIVFVSTIRNADFIACYLCETEIATTSIHGSRLQSQREQAIHDFKTKKMKVLVAT-AVA 578
V + + I + + G R + K ++VA+ V
Sbjct: 349 NAFVMFKHVSHGKAIFDLIKNEYDKVYYVSGEVDTETRNIMKTLAENGKGIIIVASYGVF 408
Query: 579 SRGLDIKGIRHVINYDLPQEIDEYVHRIGRTGRVGNKGRATSFYD 623
S G+ +K + HV+ + + IGR R + +D
Sbjct: 409 STGISVKNLHHVVLAHGVKSKIIVLQTIGRVLRKHGSKTIATVWD 453
>1n0z_A ZNF265; zinc finger, RNA splicing, transcription; NMR {Homo
sapiens} SCOP: g.41.11.1
Length = 45
Score = 55.3 bits (133), Expect = 2e-10
Identities = 15/43 (34%), Positives = 19/43 (44%), Gaps = 3/43 (6%)
Query: 94 GGGGGDRGNSKPGDWMC---SCGASNFAKRDACFKCSEPKPEG 133
G GDW+C CG NFA+R +C +C K G
Sbjct: 1 GSMSTKNFRVSDGDWICPDKKCGNVNFARRTSCDRCGREKTTG 43
>3o8b_A HCV NS3 protease/helicase; ntpase, RNA, translocation, protein-RNA
compl protease/ntpase/helicase, hydrolase; 1.95A
{Hepatitis c virus} PDB: 3o8c_A* 3o8d_A* 3o8r_A* 4a92_A*
1cu1_A 2zjo_A* 1a1v_A* 1hei_A 3kqn_A* 3kql_A* 3kqu_A*
3kqh_A 3kqk_A 8ohm_A 2f55_A 1jr6_A 1onb_A
Length = 666
Score = 62.7 bits (152), Expect = 2e-10
Identities = 44/247 (17%), Positives = 72/247 (29%), Gaps = 52/247 (21%)
Query: 400 KGCNILVATMGRLKDILDRGRISLASVRFVVLDEADRMLDMGFLGDIQHVMQHSTMPDVA 459
G + +T G+ L G S + ++ DE D + I V+ +
Sbjct: 296 TGAPVTYSTYGKF---LADGGCSGGAYDIIICDECHST-DSTTILGIGTVLDQAET---- 347
Query: 460 NRQTLMF--SATFPETIQKNYIFIAVGIIGGASTDVVQTILEVPKQQKKKKLLELLREKD 517
L+ +AT P ++ + I + I K +E +R
Sbjct: 348 AGARLVVLATATPPGSV-----TVPHPNIEEVALSNTGEIPF----YGKAIPIEAIRGGR 398
Query: 518 EDGVIVFVSTIRNADFIACYLCETEIATTSIHGSRLQSQREQAIHDFKTKKMKVLVATAV 577
++F + + D +A L I + + S T V+VAT
Sbjct: 399 H---LIFCHSKKKCDELAAKLSGLGINAVAYYRGLDVSV-------IPTIGDVVVVATDA 448
Query: 578 ASRGLDIKGIRHVI----------NYDL-----------PQEIDEYVHRIGRTGRVGNKG 616
G VI ++ L PQ+ R GRTGR G
Sbjct: 449 LMTGYTG-DFDSVIDCNTCVTQTVDFSLDPTFTIETTTVPQDAVSRSQRRGRTGRGRR-G 506
Query: 617 RATSFYD 623
Sbjct: 507 IYRFVTP 513
Score = 46.2 bits (109), Expect = 3e-05
Identities = 29/194 (14%), Positives = 60/194 (30%), Gaps = 36/194 (18%)
Query: 206 REILVKNLKKSNYTKPTPIQKYAIPAGLEGRDLMGCAQTGSGKTAAFLIPIMHHLLESPG 265
+ V++++ + + + A TGSGK+ +P
Sbjct: 203 DFVPVESMETTMRSPVFTDNSSPPAVPQSFQVAHLHAPTGSGKSTK--VP--AAYAAQ-- 256
Query: 266 ELVTGYCAQPEVIICAPTRELVMQIH-EVACKYAYSSVLKICLHYGGASSMHFNRQLEKG 324
GY +V++ P+ + ++ H + R + G
Sbjct: 257 ----GY----KVLVLNPSVAATLGFGAYMSKA-----------HGIDPNIRTGVRTITTG 297
Query: 325 CNILVATMGRLKDILDRGRISLASVRFVVLDEADRMLDMGFLGDIQHVMQHSTMPDVANR 384
+ +T G+ L G S + ++ DE D + I V+ +
Sbjct: 298 APVTYSTYGKF---LADGGCSGGAYDIIICDECHST-DSTTILGIGTVLDQAET----AG 349
Query: 385 QTLMF--SATFPET 396
L+ +AT P +
Sbjct: 350 ARLVVLATATPPGS 363
>2va8_A SSO2462, SKI2-type helicase; hydrolase, DNA repair, ATP-bindin
nucleotide-binding; 2.30A {Sulfolobus solfataricus}
Length = 715
Score = 59.7 bits (145), Expect = 2e-09
Identities = 41/167 (24%), Positives = 67/167 (40%), Gaps = 18/167 (10%)
Query: 191 DNPPRPIESFESAGLREILVKNLKKSNYTKPTPIQKYAIPAGL-EGRDLMGCAQTGSGKT 249
+ PIE L +++ +KK K P Q A+ GL EG L+ + TGSGKT
Sbjct: 4 ELEWMPIEDL---KLPSNVIEIIKKRGIKKLNPPQTEAVKKGLLEGNRLLLTSPTGSGKT 60
Query: 250 AAFLIPIMHHLLESPGELVTGYCAQPEVIICAPTRELVMQIHEVACKYAYSSVLKICLHY 309
+ I+ LL++ G + I P R L + + + K+ +
Sbjct: 61 LIAEMGIISFLLKNGG----------KAIYVTPLRALTNEKYLTFKDWELIG-FKVAMTS 109
Query: 310 GGASSMHFNRQLEKGCNILVATMGRLKDILDRGRISLASVRFVVLDE 356
G + + K +I++ T +L + L V + VLDE
Sbjct: 110 GDYDT---DDAWLKNYDIIITTYEKLDSLWRHRPEWLNEVNYFVLDE 153
Score = 30.9 bits (70), Expect = 1.7
Identities = 49/295 (16%), Positives = 87/295 (29%), Gaps = 85/295 (28%)
Query: 392 TFPETIQKKGCNILVATMGRLKDILDRGRISLASVRFVVLDE----AD------------ 435
+ K +I++ T +L + L V + VLDE D
Sbjct: 112 YDTDDAWLKNYDIIITTYEKLDSLWRHRPEWLNEVNYFVLDELHYLNDPERGPVVESVTI 171
Query: 436 RMLDMGFLGDIQHVMQHS-TMP---DVAN--RQTLMFSATF-PETIQKNYIFIAVGIIGG 488
R L + S T+ +A + + P + + I+
Sbjct: 172 RAKRRNLLA-----L--SATISNYKQIAKWLGAEP-VATNWRPVPLIEGVIYPERK---K 220
Query: 489 ASTDVVQTILEVPKQQKKKKLLELLREKDEDG--VIVFVSTIRNADFIACYLCETEIATT 546
+V+ K ++ + V+VF ++ + A+ A + +
Sbjct: 221 KEYNVIFKDNTTKKVHGDDAIIAYTLDSLSKNGQVLVFRNSRKMAESTALKIAN-YMNFV 279
Query: 547 SIHGSRLQSQREQ-----------------------AIH--------------DFKTKKM 569
S+ + L +Q A H F+ +K+
Sbjct: 280 SLDENALSEILKQLDDIEEGGSDEKELLKSLISKGVAYHHAGLSKALRDLIEEGFRQRKI 339
Query: 570 KVLVATAVASRGLD-------IKGIRH----VINYDLPQEIDEYVHRIGRTGRVG 613
KV+VAT + G++ I I + Y I EY GR GR G
Sbjct: 340 KVIVATPTLAAGVNLPARTVIIGDIYRFNKKIAGYYDEIPIMEYKQMSGRAGRPG 394
>1oyw_A RECQ helicase, ATP-dependent DNA helicase; winged helix,
helix-turn-helix, ATP binding, Zn(2+) binding,
hydrolase; 1.80A {Escherichia coli} SCOP: a.4.5.43
c.37.1.19 c.37.1.19 PDB: 1oyy_A*
Length = 523
Score = 59.1 bits (144), Expect = 3e-09
Identities = 38/146 (26%), Positives = 69/146 (47%), Gaps = 6/146 (4%)
Query: 500 VPKQQKKKKLLELLREKDEDGVIVFVSTIRNADFIACYLCETEIATTSIHGSRLQSQREQ 559
+ K + +L+ ++E+ I++ ++ + A L I+ + H + R
Sbjct: 218 MEKFKPLDQLMRYVQEQRGKSGIIYCNSRAKVEDTAARLQSKGISAAAYHAGLENNVRAD 277
Query: 560 AIHDFKTKKMKVLVATAVA-SRGLDIKGIRHVINYDLPQEIDEYVHRIGRTGRVGNKGRA 618
F+ ++++VAT VA G++ +R V+++D+P+ I+ Y GR GR G A
Sbjct: 278 VQEKFQRDDLQIVVAT-VAFGMGINKPNVRFVVHFDIPRNIESYYQETGRAGRDGLPAEA 336
Query: 619 TSFYDPDQDGAIAKDLVRILEQAGQP 644
FYDP D A + R LE+ Q
Sbjct: 337 MLFYDP-ADMAWLR---RCLEEKPQG 358
>2p6r_A Afuhel308 helicase; protein-DNA complex, SF2 helicase, archaeal
helicase, DNA repair,, DNA binding protein/DNA complex;
3.00A {Archaeoglobus fulgidus} SCOP: a.4.5.43 a.289.1.2
c.37.1.19 c.37.1.19 PDB: 2p6u_A
Length = 702
Score = 58.3 bits (141), Expect = 6e-09
Identities = 29/153 (18%), Positives = 59/153 (38%), Gaps = 15/153 (9%)
Query: 204 GLREILVKNLKKSNYTKPTPIQKYAIPAGLEGRDLMGCAQTGSGKTAAFLIPIMHHLLES 263
+ V LK+ + P Q A+ G++L+ T +GKT + ++ ++
Sbjct: 9 SISSYAVGILKEEGIEELFPPQAEAVEKVFSGKNLLLAMPTAAGKTLLAEMAMVREAIKG 68
Query: 264 PGELVTGYCAQPEVIICAPTRELVMQIHEVACKYAYSSVLKICLHYGGASSMHFNRQLEK 323
+ + P R L + +E K+ L+I + G S +
Sbjct: 69 -----------GKSLYVVPLRALAGEKYESFKKWEKIG-LRIGISTGDYES---RDEHLG 113
Query: 324 GCNILVATMGRLKDILDRGRISLASVRFVVLDE 356
C+I+V T + ++ + +V +V+DE
Sbjct: 114 DCDIIVTTSEKADSLIRNRASWIKAVSCLVVDE 146
Score = 37.1 bits (86), Expect = 0.019
Identities = 50/285 (17%), Positives = 92/285 (32%), Gaps = 82/285 (28%)
Query: 394 PETIQKKGCNILVATMGRLKDILDRGRISLASVRFVVLDEADRMLDMGFLGD-------- 445
C+I+V T + ++ + +V +V+DE + L
Sbjct: 107 SRDEHLGDCDIIVTTSEKADSLIRNRASWIKAVSCLVVDE------IHLLDSEKRGATLE 160
Query: 446 --IQHVMQHSTMPDVANRQTLMFSATFPETIQKNYIFIA------------------VGI 485
+ + + + + + SAT P N IA G+
Sbjct: 161 ILVTKMRRMNKAL-----RVIGLSATAP-----NVTEIAEWLDADYYVSDWRPVPLVEGV 210
Query: 486 IGGASTDVVQTILEVPKQQKKKKLLELLREKDEDGVIVFVSTIRNADFIACYLCET---- 541
+ + ++ ++ K ++L+E ++ GV+VF ST R A+ A L
Sbjct: 211 LCEGTLELFDGAFSTSRRVKFEELVEECVAENG-GVLVFESTRRGAEKTAVKLSAITAKY 269
Query: 542 -----------EIATTSI---------------HGSRLQSQREQAIHDFKTKKMKVLVAT 575
E + H L QR F+ +KV+VAT
Sbjct: 270 VENEGLEKAILEENEGEMSRKLAECVRKGAAFHHAGLLNGQRRVVEDAFRRGNIKVVVAT 329
Query: 576 AVASRGLD-------IKGIRHVINYDLPQEIDEYVHRIGRTGRVG 613
+ G++ ++ + Y ++ EY GR GR G
Sbjct: 330 PTLAAGVNLPARRVIVRSLYRFDGYSKRIKVSEYKQMAGRAGRPG 374
>3gj8_B Nuclear pore complex protein NUP153; G protein, GDP, RAN, zinc
finger, acetylation, cytoplasm, GTP-binding, HOST-virus
interaction; HET: GDP; 1.82A {Rattus norvegicus} PDB:
3gj4_B*
Length = 92
Score = 51.1 bits (121), Expect = 2e-08
Identities = 15/47 (31%), Positives = 16/47 (34%), Gaps = 1/47 (2%)
Query: 86 PDSRFSSGGGGGGDRGNSKPGDWMCS-CGASNFAKRDACFKCSEPKP 131
SGG G D+ G W C C N A C C KP
Sbjct: 44 VPVSLPSGGCLGLDKFKKPEGSWDCEVCLVQNKADSTKCIACESAKP 90
Score = 41.5 bits (96), Expect = 5e-05
Identities = 11/43 (25%), Positives = 14/43 (32%), Gaps = 1/43 (2%)
Query: 103 SKPGDWMCS-CGASNFAKRDACFKCSEPKPEGAGGGAPGGADG 144
G W C C SN A+ C C+ KP +
Sbjct: 4 GSVGSWECPVCCVSNKAEDSRCVSCTSEKPGLVSASSSNSVPV 46
>1yks_A Genome polyprotein [contains: flavivirin protease NS3 catalytic
subunit]; helicase, flavivirus, DEAD-BOX, ATPase,
rtpase, hydrolase; 1.80A {Yellow fever virus} SCOP:
c.37.1.14 c.37.1.14 PDB: 1ymf_A*
Length = 440
Score = 54.8 bits (132), Expect = 6e-08
Identities = 36/242 (14%), Positives = 72/242 (29%), Gaps = 50/242 (20%)
Query: 404 ILVATMGRLKDILDRGRISLASVRFVVLDEADRMLDMGFLGDIQHVMQHSTMPDVANRQT 463
I L + + + +++DEA + + + A T
Sbjct: 79 IDAMCHATLTYRMLEPT-RVVNWEVIIMDEAHFLDPASIAA-RGWAAHRARANESA---T 133
Query: 464 LMFSATFPETIQKNYIFIAVGIIGGASTDVVQTILEVPKQQKK------KKLLELLREKD 517
++ +AT P G S + + E+ Q + +
Sbjct: 134 ILMTATPP----------------GTSDEFPHSNGEIEDVQTDIPSEPWNTGHDWILADK 177
Query: 518 EDGVIVFVSTIRNADFIACYLCETEIATTSIHGSRLQSQREQAIHDFKTKKMKVLVATAV 577
F+ +IR A+ +A L + + ++ E+ K KK ++AT +
Sbjct: 178 RP-TAWFLPSIRAANVMAASLRKAGKSVVVLNRK----TFEREYPTIKQKKPDFILATDI 232
Query: 578 ASRGLDIKGIRHVI--NYDLPQEIDE--------------YVHRIGRTGRVG-NKGRATS 620
A G ++ + V+ + + R GR+G N R
Sbjct: 233 AEMGANL-CVERVLDCRTAFKPVLVDEGRKVAIKGPLRISASSAAQRRGRIGRNPNRDGD 291
Query: 621 FY 622
Y
Sbjct: 292 SY 293
Score = 43.3 bits (102), Expect = 2e-04
Identities = 27/153 (17%), Positives = 50/153 (32%), Gaps = 26/153 (16%)
Query: 242 AQTGSGKTAAFLIPIMHHLLESPGELVTGYCAQPEVIICAPTRELVMQIHEVACKYAYSS 301
G+GKT FL P L + ++ APTR ++ E+ +
Sbjct: 15 FHPGAGKTRRFL----------PQILAECARRRLRTLVLAPTRVVLS---EMKEAFHGLD 61
Query: 302 VLKICLHYGGASSMHFNRQLEKGCNILVATMGRLKDILDRGRISLASVRFVVLDEADRML 361
V H S+ R++ I L + + + +++DEA +
Sbjct: 62 V---KFHTQAFSAHGSGREV-----IDAMCHATLTYRMLEPT-RVVNWEVIIMDEAHFLD 112
Query: 362 DMGFLGDIQHVMQHSTMPDVANRQTLMFSATFP 394
+ + A T++ +AT P
Sbjct: 113 PASIAA-RGWAAHRARANESA---TILMTATPP 141
>2lk0_A RNA-binding protein 5; zinc finger; NMR {Homo sapiens} PDB: 2lk1_A*
Length = 32
Score = 45.8 bits (108), Expect = 4e-07
Identities = 12/27 (44%), Positives = 17/27 (62%), Gaps = 1/27 (3%)
Query: 107 DWMCS-CGASNFAKRDACFKCSEPKPE 132
DW+C+ C +NF KR CF+C K +
Sbjct: 5 DWLCNKCCLNNFRKRLKCFRCGADKFD 31
>3gj7_B Nuclear pore complex protein NUP153; G protein, GDP, RAN, zinc
finger, acetylation, cytoplasm, GTP-binding, HOST-virus
interaction; HET: GDP; 1.93A {Rattus norvegicus} PDB:
2k0c_A 3ch5_B* 3gj6_B*
Length = 98
Score = 47.6 bits (112), Expect = 5e-07
Identities = 16/47 (34%), Positives = 19/47 (40%), Gaps = 1/47 (2%)
Query: 86 PDSRFSSGGGGGGDRGNSKPGDWMCS-CGASNFAKRDACFKCSEPKP 131
D S+ G G GD+ G W C C N + C C PKP
Sbjct: 51 SDKPASTSGTGFGDKFKPAIGTWDCDTCLVQNKPEAVKCVACETPKP 97
Score = 41.4 bits (96), Expect = 7e-05
Identities = 13/52 (25%), Positives = 14/52 (26%), Gaps = 2/52 (3%)
Query: 103 SKPGDWMCS-CGASNFAKRDACFKCSEPKPEGAGGGAPGGADGAPFDPAKPP 153
S W C C N + C C K A G P KP
Sbjct: 5 SAGSSWQCDTCLLQNKVTDNKCIACQAAKL-PLKETAKQTGIGTPSKSDKPA 55
>2v1x_A ATP-dependent DNA helicase Q1; DNA strand annealing, mismatch
repair, nucleotide-binding, DNA-binding, polymorphism,
nuclear protein, ATPase; HET: ADP; 2.00A {Homo sapiens}
PDB: 2wwy_A*
Length = 591
Score = 51.1 bits (123), Expect = 9e-07
Identities = 31/149 (20%), Positives = 60/149 (40%), Gaps = 24/149 (16%)
Query: 500 VPKQQKKKKLLELL------REKDEDGVIVFVSTIRNADFIACYLCETEIATTSIHGSRL 553
K + +E + R K + G I++ + ++++ + L I + H +
Sbjct: 244 RQKPSNTEDFIEDIVKLINGRYKGQSG-IIYCFSQKDSEQVTVSLQNLGIHAGAYHANLE 302
Query: 554 QSQREQAIHDFKTKKMKVLVATAVASRGLDIKGI-----RHVINYDLPQEIDEYVHRIGR 608
+ + +++V+VAT VA G+ GI R VI++ + + ++ Y GR
Sbjct: 303 PEDKTTVHRKWSANEIQVVVAT-VAF-GM---GIDKPDVRFVIHHSMSKSMENYYQESGR 357
Query: 609 TGRVGNKGRATSFYDPDQDGAIAKDLVRI 637
GR K +Y D+ RI
Sbjct: 358 AGRDDMKADCILYYGF-------GDIFRI 379
>2k1p_A Zinc finger RAN-binding domain-containing protein 2; ZNF265, RNA
binding, ranbp2, RBZ, ZIS, alternative splicing,
metal-binding, mRNA processing; NMR {Homo sapiens} PDB:
3g9y_A
Length = 33
Score = 44.2 bits (104), Expect = 1e-06
Identities = 12/30 (40%), Positives = 15/30 (50%), Gaps = 1/30 (3%)
Query: 103 SKPGDWMCS-CGASNFAKRDACFKCSEPKP 131
S DW C C N+A+R C C+ PK
Sbjct: 2 SSANDWQCKTCSNVNWARRSECNMCNTPKY 31
>2v6i_A RNA helicase; membrane, hydrolase, transmembrane, RNA replication,
viral replication, nucleotide-binding; 2.10A {Kokobera
virus} PDB: 2v6j_A
Length = 431
Score = 44.8 bits (106), Expect = 7e-05
Identities = 37/244 (15%), Positives = 69/244 (28%), Gaps = 50/244 (20%)
Query: 395 ETIQKKGCNILVATMGRL-KDILDRGRISLASVRFVVLDEA-----DRMLDMGFLGDIQH 448
++ + + +L R + + ++DEA + G++
Sbjct: 64 QSERTGNEIVDFMCHSTFTMKLLQGVR--VPNYNLYIMDEAHFLDPASVAARGYI----- 116
Query: 449 VMQHSTMPDVANRQTLMFSATFPETIQKNYIFIAVGIIGGASTDVVQTILEVPKQQKKKK 508
+M D + +AT P T A D I +
Sbjct: 117 -ETRVSMGDAG---AIFMTATPPGTT------EAFPPSNSPIIDEETRIPDKAWNSG--- 163
Query: 509 LLELLREKDEDGVIVFVSTIRNADFIACYLCETEIATTSIHGSRLQSQREQAIHDFKTKK 568
E + E D + FV +I+ I L + ++ + E K++K
Sbjct: 164 -YEWITEFDGR-TVWFVHSIKQGAEIGTCLQKAGKKVLYLNR-KTF---ESEYPKCKSEK 217
Query: 569 MKVLVATAVASRGLDIKGIRHVI-------NYDLPQEIDEYV----------HRIGRTGR 611
++ T ++ G + VI L + R GR GR
Sbjct: 218 WDFVITTDISEMGANF-KADRVIDPRKTIKPILLDGRVSMQGPIAITPASAAQRRGRIGR 276
Query: 612 VGNK 615
K
Sbjct: 277 NPEK 280
>2jlq_A Serine protease subunit NS3; ribonucleoprotein, nucleotide-binding,
viral nucleoprotein, endoplasmic reticulum, helicase,
hydrolase; 1.67A {Dengue virus 4} PDB: 2jly_A* 2jls_A*
2jlu_A 2jlv_A* 2jlw_A 2jlx_A* 2jlz_A* 2jlr_A* 2bmf_A
2bhr_A
Length = 451
Score = 44.5 bits (105), Expect = 8e-05
Identities = 35/263 (13%), Positives = 71/263 (26%), Gaps = 54/263 (20%)
Query: 403 NILVATMGRL-KDILDRGRISLASVRFVVLDEA-----DRMLDMGFLGDIQHVMQHSTMP 456
+ + +L R + + +V+DEA + G++
Sbjct: 89 IVDLMCHATFTTRLLSSTR--VPNYNLIVMDEAHFTDPCSVAARGYISTRV--------E 138
Query: 457 DVANRQTLMFSATFPETIQKNYIFIAVGIIGGASTDVVQTILEVPKQQKKKKLLELLREK 516
M +AT P + F S ++ I ++ + + +
Sbjct: 139 MGEAAAIFM-TATPPGS---TDPFPQ-------SNSPIEDIEREIPERSWNTGFDWITDY 187
Query: 517 DEDGVIVFVSTIRNADFIACYLCETEIATTSIHGSRLQSQREQAIHDFKTKKMKVLVATA 576
+ FV +I+ + IA L ++ + + + K +V T
Sbjct: 188 QGK-TVWFVPSIKAGNDIANCLRKSGKRVIQLSR-KTF---DTEYPKTKLTDWDFVVTTD 242
Query: 577 VASRGLDIKGIRHVI----------NYDLPQEIDEYV----------HRIGRTGRVGNKG 616
++ G + VI D P+ + R GR GR
Sbjct: 243 ISEMGANF-RAGRVIDPRRCLKPVILTDGPERVILAGPIPVTPASAAQRRGRIGRNP-AQ 300
Query: 617 RATSFYDPDQDGAIAKDLVRILE 639
+ +D E
Sbjct: 301 EDDQYVFSGDPLKNDEDHAHWTE 323
Score = 41.0 bits (96), Expect = 0.001
Identities = 21/153 (13%), Positives = 42/153 (27%), Gaps = 29/153 (18%)
Query: 223 PIQKYAIPAGLEGRDLMGCAQTGSGKTAAFLIPIMHHLLESPGELVTGYCAQPEVIICAP 282
P + + R + G+GKT L P + + +I AP
Sbjct: 7 PDYEVDEDIFRKKRLTIMDLHPGAGKTKRIL----------PSIVREALLRRLRTLILAP 56
Query: 283 TRELVMQIHEVACKYAYSSVLKICLHYGGASSMHFNRQLEKGCNILVATMGRL-KDILDR 341
TR + ++ E + + + +L
Sbjct: 57 TRVVAAEMEEALRGL-----------PIRYQTPAVKSDHTGREIVDLMCHATFTTRLLSS 105
Query: 342 GRISLASVRFVVLDEA-----DRMLDMGFLGDI 369
R + + +V+DEA + G++
Sbjct: 106 TR--VPNYNLIVMDEAHFTDPCSVAARGYISTR 136
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl RED beta-ketoacyl
synthase, dehydratase; 4.00A {Saccharomyces cerevisiae}
Length = 2006
Score = 43.9 bits (103), Expect = 2e-04
Identities = 46/275 (16%), Positives = 84/275 (30%), Gaps = 75/275 (27%)
Query: 283 TRELVMQIHEVACKYAYS----SVLKICLHYGGASSMHFNRQLEKGCNILVATMGRLKDI 338
T + + A + S+L I ++ ++HF + KG I + +
Sbjct: 1638 TSKAAQDVWNRADNHFKDTYGFSILDIVINNPVNLTIHFGGE--KGKRIRENYSAMIFET 1695
Query: 339 LDRGRISLASVRFVVLDEADRML----DMGFLGDIQHVMQHSTMPDVANRQ---TLMFSA 391
+ G++ + F ++E + G L +T Q TLM A
Sbjct: 1696 IVDGKLKTEKI-FKEINEHSTSYTFRSEKGLL--------SAT----QFTQPALTLMEKA 1742
Query: 392 TFPETIQKKGCNI----------------LVATMG--RLKDILD----RGRISLASVRFV 429
F E ++ KG I L + ++ +++ RG V
Sbjct: 1743 AF-EDLKSKG-LIPADATFAGHSLGEYAALASLADVMSIESLVEVVFYRGM---TMQVAV 1797
Query: 430 VLDEADR-MLDMGFL--GDIQHVMQHSTMPDVANRQTLMFSATFPETIQK-NY------I 479
DE R M + G + + V R ++ NY
Sbjct: 1798 PRDELGRSNYGMIAINPGRVAASFSQEALQYVVER----VGKRTGWLVEIVNYNVENQQY 1853
Query: 480 FIAVGIIGGASTDVVQTILEVPKQQKKKK--LLEL 512
+ G + T+ V K +K ++EL
Sbjct: 1854 -----VAAG-DLRALDTVTNVLNFIKLQKIDIIEL 1882
Score = 43.1 bits (101), Expect = 4e-04
Identities = 44/289 (15%), Positives = 83/289 (28%), Gaps = 112/289 (38%)
Query: 320 QLEKGCNILVATMGRLKDILDRGRISLASVRFVVLDEADRML--DMGFLGDIQHVMQHST 377
Q E+G MG D+ + + + V + AD GF I ++ ++
Sbjct: 1627 Q-EQG-------MG--MDLYK----TSKAAQ-DVWNRADNHFKDTYGF--SILDIVINN- 1668
Query: 378 MPDVANRQTLMFSATFPETIQKKGCNILVATMGRLKDILDRGRISLASVRFVVLDEADRM 437
P T+ F +KG I + + + G++ + F ++E
Sbjct: 1669 -P---VNLTIHFGG-------EKGKRIRENYSAMIFETIVDGKLKTEKI-FKEINEHSTS 1716
Query: 438 L----DMGFLGDIQH--------------VMQ-------------HS------------T 454
+ G L Q ++ HS
Sbjct: 1717 YTFRSEKGLLSATQFTQPALTLMEKAAFEDLKSKGLIPADATFAGHSLGEYAALASLADV 1776
Query: 455 MP--D----VANR-QTLMFSATFPETIQKNYIFIAVG---IIGGASTDVVQTILE----- 499
M V R T+ + E + NY IA+ + S + +Q ++E
Sbjct: 1777 MSIESLVEVVFYRGMTMQVAVPRDELGRSNYGMIAINPGRVAASFSQEALQYVVERVGKR 1836
Query: 500 -----------VPKQQ-----KKK------KLLELLREKDEDGVIVFVS 526
V QQ + +L ++ + D + + S
Sbjct: 1837 TGWLVEIVNYNVENQQYVAAGDLRALDTVTNVLNFIKLQKIDIIELQKS 1885
Score = 33.5 bits (76), Expect = 0.27
Identities = 43/292 (14%), Positives = 84/292 (28%), Gaps = 100/292 (34%)
Query: 421 ISLASVRFVVLDEADRMLDMGFLGDIQHVM-----QHSTMPDVANRQTLMFSATFPETIQ 475
+ S R + L G ++HV+ +A++ F+ PE
Sbjct: 1 MDAYSTRPLTLSH----------GSLEHVLLVPTASFF----IASQLQEQFNKILPE--- 43
Query: 476 KNYIFIAVGIIGGASTDVVQTILEVPKQQKKKKLLELL--------REKDEDGVIVFVST 527
T+ + EL+ + V F
Sbjct: 44 --------------PTE------GFAADDEPTTPAELVGKFLGYVSSLVEPSKVGQFDQV 83
Query: 528 IRNA--DFIACYLCETEIATTSIHG--SRLQSQREQAIHDFKTKKMKVLVATAVASRGLD 583
+ +F CYL + IH ++L + + + K K L+ + +R +
Sbjct: 84 LNLCLTEFENCYLEGND-----IHALAAKLLQENDTTL-----VKTKELIKNYITARIMA 133
Query: 584 IKGIRHVINYDLPQEIDEYVHRI----GRTGRVGNKG------RATSFYDPDQDGAIAKD 633
+ N L + + E ++ G G+ GN R Y + D
Sbjct: 134 KRPFDKKSNSALFRAVGEGNAQLVAIFG--GQ-GNTDDYFEELR--DLYQTYH--VLVGD 186
Query: 634 LVR----ILEQAGQPVPEFLKFGGGGGGYGRGGDAFGARDIR---HDPDAAP 678
L++ L + + + K + +G +I +P P
Sbjct: 187 LIKFSAETLSELIRTTLDAEKV------FTQG------LNILEWLENPSNTP 226
Score = 31.6 bits (71), Expect = 1.3
Identities = 40/230 (17%), Positives = 67/230 (29%), Gaps = 84/230 (36%)
Query: 154 LY----IPKDV-DQSEDNLFSS-GIQTGINFSGWENVEVKVSGDNPPRPIESFESAGLRE 207
LY +DV ++++++ + G FS + V +NP F +
Sbjct: 1635 LYKTSKAAQDVWNRADNHFKDTYG------FSILDIVI-----NNPVNLTIHFGGEKGKR 1683
Query: 208 ILVKNLKKSNYTKPTPIQKYAIPAGLEGRDLMGCAQTGSGKTAAFLIPIMHHL----LES 263
I + NY+ + G KT I H S
Sbjct: 1684 I------RENYSAMI----FETIV------------DGKLKTEKIFKEINEHSTSYTFRS 1721
Query: 264 P-GEL-VTGYCAQP-----EVIICAPTREL----VMQIHEVACKYA------YSSVLKIC 306
G L T + QP E A +L ++ +A Y++ L
Sbjct: 1722 EKGLLSATQF-TQPALTLMEK---AAFEDLKSKGLIPADAT---FAGHSLGEYAA-L-AS 1772
Query: 307 LHYGGASSMHFNRQLEKGCNILVATMGRL------KDILDRGRISLASVR 350
L A M +E +V G +D L R + ++
Sbjct: 1773 L----ADVMSIESLVE-----VVFYRGMTMQVAVPRDELGRSNYGMIAIN 1813
Score = 28.9 bits (64), Expect = 7.8
Identities = 26/176 (14%), Positives = 49/176 (27%), Gaps = 71/176 (40%)
Query: 199 SFESAGLREILVKNLKKSNYTKPTPIQKYAIPAGLEGRDLMGCAQTGSGKTAAFLIPIMH 258
S ES + +V + + A+P GR G G+ AA
Sbjct: 1778 SIESL-VE--VVF--YRGMTMQ------VAVPRDELGRSNYGMIAINPGRVAASF----- 1821
Query: 259 HLLESPGELVTGYCAQPEVIICAPTRELVMQIHEVACKYAYSSVLKICLHYGGASSMHFN 318
E + + + T LV E+ +N
Sbjct: 1822 -----SQEALQYVVER----VGKRTGWLV----EIVN---------------------YN 1847
Query: 319 ---RQ---------LEKGCNILVATMGRLKDILDRGRISLASVRF-VVLDEADRML 361
+Q L+ N+L + + +I + ++ + L+E + L
Sbjct: 1848 VENQQYVAAGDLRALDTVTNVL--------NFIKLQKIDIIELQKSLSLEEVEGHL 1895
Score = 28.9 bits (64), Expect = 8.6
Identities = 14/73 (19%), Positives = 28/73 (38%), Gaps = 9/73 (12%)
Query: 581 GLDIKGIRHVINYDLPQEIDEYVHRIGRTGRVGNKGRATSFYDPDQDGAIAKDLVRILEQ 640
G I I VIN P + +H G G+ + + ++ DG + + +I ++
Sbjct: 1658 GFSILDI--VINN--PVNL--TIHFGGEKGKRIRENYSAMIFETIVDGKLKTE--KIFKE 1709
Query: 641 AGQPVPEFLKFGG 653
+ + F
Sbjct: 1710 INEHSTSYT-FRS 1721
Score = 28.9 bits (64), Expect = 8.8
Identities = 16/95 (16%), Positives = 36/95 (37%), Gaps = 18/95 (18%)
Query: 2 GSTSEVSPPVDQVVEAEVIEVEVTEVKTGHVHVVRVEEA---VVAMATEVTAEVVALA-- 56
G T +V+ P D++ + + + G V +EA VV + T +V +
Sbjct: 1790 GMTMQVAVPRDELGRSNY---GMIAINPGRVAASFSQEALQYVVERVGKRTGWLVEIVNY 1846
Query: 57 --MGMEV----EMEVVEAVTEE----KIGHVRVVR 81
+ ++ ++ VT K+ + ++
Sbjct: 1847 NVENQQYVAAGDLRALDTVTNVLNFIKLQKIDIIE 1881
>2z83_A Helicase/nucleoside triphosphatase; hydrolase, membrane,
nucleotide-binding, RNA replication, transmembrane,
viral protein; 1.80A {Japanese encephalitis virus} PDB:
2v8o_A 2qeq_A
Length = 459
Score = 41.0 bits (96), Expect = 0.001
Identities = 34/260 (13%), Positives = 72/260 (27%), Gaps = 59/260 (22%)
Query: 385 QTLMFSATFPETIQKKGCNILVATMGRL-KDILDRGRISLASVRFVVLDEADRM--LDMG 441
+ + + + + + V L ++ R + + V+DEA +
Sbjct: 73 LPVRYQTSAVQREHQGNEIVDVMCHATLTHRLMSPNR--VPNYNLFVMDEAHFTDPASIA 130
Query: 442 FLGDIQHVMQHSTMPDVANRQTLMFSATFPETIQKNYIFIAVGIIGGASTDVVQTILEVP 501
G I ++ + M +AT P G + + +
Sbjct: 131 ARGYIATKVELGEAAAI-----FM-TATPP----------------GTTDPFPDSNAPIH 168
Query: 502 KQQK------KKKLLELLREKDEDGVIVFVSTIRNADFIACYLCETEIATTSIHGSRLQS 555
Q E + E + FV++++ + IA L ++ +
Sbjct: 169 DLQDEIPDRAWSSGYEWITEYAGK-TVWFVASVKMGNEIAMCLQRAGKKVIQLNR-KSY- 225
Query: 556 QREQAIHDFKTKKMKVLVATAVASRGLDIKGIRHVI----------NYDLPQEIDEYVH- 604
+ K ++ T ++ G + G VI + +
Sbjct: 226 --DTEYPKCKNGDWDFVITTDISEMGANF-GASRVIDCRKSVKPTILEEGEGRVILGNPS 282
Query: 605 ---------RIGRTGRVGNK 615
R GR GR N+
Sbjct: 283 PITSASAAQRRGRVGRNPNQ 302
>2whx_A Serine protease/ntpase/helicase NS3; transcription, hydrolase,
ATP-binding, reticulum, nucleotidyltransferase,
multifunctional enzyme; HET: ADP; 2.20A {Dengue virus 4}
PDB: 2vbc_A 2wzq_A
Length = 618
Score = 41.1 bits (96), Expect = 0.001
Identities = 30/216 (13%), Positives = 59/216 (27%), Gaps = 50/216 (23%)
Query: 423 LASVRFVVLDE-----ADRMLDMGFLGDIQHVMQHSTMPDVANRQTLMFSATFPETIQKN 477
+ + +V+DE + G++ M +AT P +
Sbjct: 275 VPNYNLIVMDEAHFTDPCSVAARGYISTRV--------EMGEAAAIFM-TATPPGST--- 322
Query: 478 YIFIAVGIIGGASTDVVQTILEVPKQQKKKKLLELLREKDEDGVIVFVSTIRNADFIACY 537
D+ + I E + + + + FV +I+ + IA
Sbjct: 323 ---DPFPQSNSPIEDIEREIPERSWNTG----FDWITDYQGK-TVWFVPSIKAGNDIANC 374
Query: 538 LCETEIATTSIHGSRLQSQREQAIHDFKTKKMKVLVATAVASRGLDIKGIRHVI------ 591
L ++ + + + K +V T ++ G + VI
Sbjct: 375 LRKSGKRVIQLSR-KTF---DTEYPKTKLTDWDFVVTTDISEMGANF-RAGRVIDPRRCL 429
Query: 592 ----NYDLPQEIDEYV----------HRIGRTGRVG 613
D P+ + R GR GR
Sbjct: 430 KPVILTDGPERVILAGPIPVTPASAAQRRGRIGRNP 465
Score = 31.1 bits (70), Expect = 1.4
Identities = 20/143 (13%), Positives = 41/143 (28%), Gaps = 29/143 (20%)
Query: 234 EGRDLMGCAQTGSGKTAAFLIPIMHHLLESPGELVTGYCAQPEVIICAPTRELVMQIHEV 293
+ R + G+GKT L I+ + +I APTR V
Sbjct: 185 KKRLTIMDLHPGAGKTKRILPSIVRE----------ALKRRLRTLILAPTR--------V 226
Query: 294 ACKYAYSSVLKICLHYGGASSMHFNRQLEKGCNILVATMGRL-KDILDRGRISLASVRFV 352
++ + + Y + + + +L R + + +
Sbjct: 227 VAAEMEEALRGLPIRY---QTPAVKSDHTGREIVDLMCHATFTTRLLSSTR--VPNYNLI 281
Query: 353 VLDE-----ADRMLDMGFLGDIQ 370
V+DE + G++
Sbjct: 282 VMDEAHFTDPCSVAARGYISTRV 304
>2ebv_A Nuclear pore complex protein NUP153; ZF-ranbp domain, nucleoporin
NUP153, 153 kDa nucleoporin, structural genomics,
NPPSFA; NMR {Homo sapiens}
Length = 57
Score = 36.2 bits (83), Expect = 0.002
Identities = 16/42 (38%), Positives = 21/42 (50%), Gaps = 1/42 (2%)
Query: 91 SSGGGGGGDRGNSKPGDWMCS-CGASNFAKRDACFKCSEPKP 131
++G G GD+ G W CS C SN A+ + C C KP
Sbjct: 15 TTGTLGFGDKFKRPIGSWECSVCCVSNNAEDNKCVSCMSEKP 56
>2xgj_A ATP-dependent RNA helicase DOB1; hydrolase-RNA complex, hydrolase,
tramp, exosome, DEAD, nucleotide-binding; HET: ADP;
2.90A {Saccharomyces cerevisiae}
Length = 1010
Score = 40.2 bits (93), Expect = 0.002
Identities = 41/175 (23%), Positives = 64/175 (36%), Gaps = 30/175 (17%)
Query: 223 PIQKYAIPAGLEGRDLMGCAQTGSGKT--AAFLIPIMHHLLESPGELVTGYCAQPEVIIC 280
P Q AI G ++ A T +GKT A + I L+ + VI
Sbjct: 89 PFQDTAISCIDRGESVLVSAHTSAGKTVVAEYAI---AQSLK----------NKQRVIYT 135
Query: 281 APTRELVMQIHEVACKYAYSSVLKICLHYGGASSMHFNRQLEKGCNILVATMGRLKDILD 340
+P + L Q KY ++ +G M + + LV T L+ +L
Sbjct: 136 SPIKALSNQ------KYR-----ELLAEFGDVGLMTGDITINPDAGCLVMTTEILRSMLY 184
Query: 341 RGRISLASVRFVVLDEADRMLDMGFLGDIQHVMQHSTMPDVANRQTLMFSATFPE 395
RG + V +V+ DE M D + + +PD + + SAT P
Sbjct: 185 RGSEVMREVAWVIFDEVHYMRDKERGVVWEETIIL--LPD--KVRYVFLSATIPN 235
Score = 29.4 bits (65), Expect = 5.4
Identities = 26/97 (26%), Positives = 38/97 (39%), Gaps = 10/97 (10%)
Query: 549 HGSRLQSQREQAIHDFKTKKMKVLVATAVASRGLDIKGIRHVI----NYD----LPQEID 600
H L +E F+ +KVL AT S GL++ V +D
Sbjct: 413 HSGLLPILKEVIEILFQEGFLKVLFATETFSIGLNMPAKTVVFTSVRKWDGQQFRWVSGG 472
Query: 601 EYVHRIGRTGRVG--NKGRATSFYDPDQDGAIAKDLV 635
EY+ GR GR G ++G D + +AK +V
Sbjct: 473 EYIQMSGRAGRRGLDDRGIVIMMIDEKMEPQVAKGMV 509
>1rif_A DAR protein, DNA helicase UVSW; bacteriophage, RECG, SF2, DNA
binding protein; HET: DNA; 2.00A {Enterobacteria phage
T4} SCOP: c.37.1.23
Length = 282
Score = 39.3 bits (90), Expect = 0.003
Identities = 33/225 (14%), Positives = 63/225 (28%), Gaps = 28/225 (12%)
Query: 143 DGAPFDPAKPPLYIPKDVDQSEDNLFSSGIQTGINFSGWENVEVKVSGDNPPRPIESFES 202
DG F+P + L G G + E
Sbjct: 34 DGYRFNPRFRYGNWDGRIR-----LLDYNRLLPFGLVGQIKKFCDNFGYKAWIDPQINEK 88
Query: 203 AGLREILVKNLKKSNYTK-------PTPIQKYAIPAGLEGRDLMGCAQTGSGKTAAFLIP 255
L P QK A+ GL R + T +G++ +
Sbjct: 89 EELSRKDFDEWLSKLEIYSGNKRIEPHWYQKDAVFEGLVNRRRILNLPTSAGRSLIQALL 148
Query: 256 IMHHLLESPGELVTGYCAQPEVIICAPTRELVMQIHEVACKYAYSSVLKICLHYGGASSM 315
++L + +++I PT L Q+ + Y S I GG
Sbjct: 149 ARYYL----------ENYEGKILIIVPTTALTTQMADDFVDYRLFSHAMIKKIGGG---A 195
Query: 316 HFNRQLEKGCNILVATMGRLKDILDRGRISLASVRFVVLDEADRM 360
+ + + ++V T + ++ + + + ++ DE
Sbjct: 196 SKDDKYKNDAPVVVGTW---QTVVKQPKEWFSQFGMMMNDECHLA 237
>3l9o_A ATP-dependent RNA helicase DOB1; REC-A fold,
winged-helix-turn-helix, antiparallel-coiled-COI domain,
ATP-binding, helicase, hydrolase; 3.39A {Saccharomyces
cerevisiae}
Length = 1108
Score = 39.8 bits (92), Expect = 0.004
Identities = 39/175 (22%), Positives = 61/175 (34%), Gaps = 30/175 (17%)
Query: 223 PIQKYAIPAGLEGRDLMGCAQTGSGKT--AAFLIPIMHHLLESPGELVTGYCAQPEVIIC 280
P Q AI G ++ A T +GKT A + I L+ + VI
Sbjct: 187 PFQDTAISCIDRGESVLVSAHTSAGKTVVAEYAI---AQSLK----------NKQRVIYT 233
Query: 281 APTRELVMQIHEVACKYAYSSVLKICLHYGGASSMHFNRQLEKGCNILVATMGRLKDILD 340
+P + L Q KY ++ +G M + + LV T L+ +L
Sbjct: 234 SPIKALSNQ------KYR-----ELLAEFGDVGLMTGDITINPDAGCLVMTTEILRSMLY 282
Query: 341 RGRISLASVRFVVLDEADRMLDMGFLGDIQHVMQHSTMPDVANRQTLMFSATFPE 395
RG + V +V+ DE M D + + + + SAT P
Sbjct: 283 RGSEVMREVAWVIFDEVHYMRDKERGVVWEETIILLP----DKVRYVFLSATIPN 333
Score = 29.0 bits (64), Expect = 7.4
Identities = 26/97 (26%), Positives = 38/97 (39%), Gaps = 10/97 (10%)
Query: 549 HGSRLQSQREQAIHDFKTKKMKVLVATAVASRGLDIKGIRHVI----NYD----LPQEID 600
H L +E F+ +KVL AT S GL++ V +D
Sbjct: 511 HSGLLPILKEVIEILFQEGFLKVLFATETFSIGLNMPAKTVVFTSVRKWDGQQFRWVSGG 570
Query: 601 EYVHRIGRTGRVG--NKGRATSFYDPDQDGAIAKDLV 635
EY+ GR GR G ++G D + +AK +V
Sbjct: 571 EYIQMSGRAGRRGLDDRGIVIMMIDEKMEPQVAKGMV 607
>1gku_B Reverse gyrase, TOP-RG; topoisomerase, DNA supercoiling, archaea,
helicase; 2.7A {Archaeoglobus fulgidus} SCOP: c.37.1.16
c.37.1.16 e.10.1.1 PDB: 1gl9_B*
Length = 1054
Score = 37.7 bits (88), Expect = 0.013
Identities = 35/148 (23%), Positives = 50/148 (33%), Gaps = 21/148 (14%)
Query: 220 KPTPIQKYAIPAGLEGRDLMGCAQTGSGKTAAFLIPIMHHLLESPGELVTGYCAQPEVII 279
+P IQK L A TG GKT+ F + M L G+ +
Sbjct: 56 EPRAIQKMWAKRILRKESFAATAPTGVGKTS-FGL-AMSLFLALKGK---------RCYV 104
Query: 280 CAPTRELVMQIHEVACKYAYSSVLKICLHYGGASSMHFNRQLEKGC------NILVATMG 333
PT LV+Q E KYA + + G R+ E I++ T
Sbjct: 105 IFPTSLLVIQAAETIRKYAEKAGVGTENLIGYYHGRIPKREKENFMQNLRNFKIVITTTQ 164
Query: 334 RLKDILDRGRISLASVRFVVLDEADRML 361
L L F+ +D+ D +L
Sbjct: 165 FLSKHYRE----LGHFDFIFVDDVDAIL 188
>3h1t_A Type I site-specific restriction-modification system, R
(restriction) subunit; hydrolase, restriction enzyme
HSDR, ATP-binding; 2.30A {Vibrio vulnificus}
Length = 590
Score = 36.7 bits (85), Expect = 0.029
Identities = 59/449 (13%), Positives = 117/449 (26%), Gaps = 108/449 (24%)
Query: 191 DNPPRPIESFES-AGLREILVKNLKKSNYTKPTPIQKYAIPAGLEGRD------------ 237
+ + F + L + L + + T + Y +G R
Sbjct: 134 TGEEQLLSRFPTPDELFKRLCGDEGIKDEDLDTLLSPYHHVSGYSPRYYQQIAINRAVQS 193
Query: 238 --------LMGCAQTGSGKT--AAFLIPIMHHLLESPGELVTGYCAQPEVIICAPTRELV 287
L+ A TG+GKT A + L S TG +P ++ A LV
Sbjct: 194 VLQGKKRSLITMA-TGTGKTVVAFQIS----WKLWSARWNRTGDYRKPRILFLADRNVLV 248
Query: 288 MQIHEVACKYAYSSVLKICLHYGGASSMHFNRQLEKGCNILVAT----MGRLKDILDRGR 343
+G A ++ K I A +
Sbjct: 249 DD--------PKDKTFTP---FGDARHKIEGGKVVKSREIYFAIYQSIASDERRPGLYKE 297
Query: 344 ISLASVRFVVLDEADRMLDMGFLGDIQHVMQH----------STMPDVANRQTLMFSATF 393
+++DE R + + ++++ +T NR T +
Sbjct: 298 FPQDFFDLIIIDECHRGSARDN-SNWREILEYFEPAFQIGMTATPLREDNRDTYRY---- 352
Query: 394 PETIQKKGCNILVATMGRLKDILDRGRISLASVRFVVLDEADRMLDMGFLGDIQHVMQHS 453
+ T L+ +D G + + V + G+
Sbjct: 353 --------FGNPIYTY-SLRQGIDDGFL----APYRVHRVISEVDAAGW---------RP 390
Query: 454 TMPDVANRQTLMFSATFPETIQKNYIFIAVGIIGGASTDVVQTILEVPKQQKKKKLLELL 513
+ DV + + + I + K L + +
Sbjct: 391 SKGDVDRFGREIPDGEYQTKDFERVIAL---------KARTDAFA--------KHLTDFM 433
Query: 514 REKDEDG-VIVFVSTIRNADFIACYLCETEIATTSIHGSRL-------QSQREQAIHDFK 565
+ D IVF +AD + L + H + + + F+
Sbjct: 434 KRTDRFAKTIVFCVDQEHADEMRRALNNLNSDLSRKHPDYVARVTSEEGKIGKGHLSRFQ 493
Query: 566 TKKMKVL-VATAVA--SRGLDIKGIRHVI 591
+ + T + G+D ++V+
Sbjct: 494 ELETSTPVILTTSQLLTTGVDAPTCKNVV 522
>2ebq_A Nuclear pore complex protein NUP153; ZF-ranbp domain, nucleoporin
NUP153, 153 kDa nucleoporin, structural genomics,
NPPSFA; NMR {Homo sapiens}
Length = 47
Score = 32.0 bits (72), Expect = 0.044
Identities = 11/36 (30%), Positives = 13/36 (36%), Gaps = 1/36 (2%)
Query: 97 GGDRGNSKPGDWMCS-CGASNFAKRDACFKCSEPKP 131
G + G W C C N + C C PKP
Sbjct: 1 GSSGSSGVIGTWDCDTCLVQNKPEAIKCVACETPKP 36
>2wv9_A Flavivirin protease NS2B regulatory subunit, FLAV protease NS3
catalytic subunit; nucleotide-binding, capsid protein;
2.75A {Murray valley encephalitis virus}
Length = 673
Score = 33.8 bits (77), Expect = 0.20
Identities = 17/121 (14%), Positives = 37/121 (30%), Gaps = 25/121 (20%)
Query: 515 EKDEDGVIVFVSTIRNADFIACYLCETEIATTSIHGSRLQSQREQAIHDFKTKKMKVLVA 574
+ FV++++ ++ IA L ++ + + K ++
Sbjct: 407 TDYAGKTVWFVASVKMSNEIAQCLQRAGKRVIQLNR-KSY---DTEYPKCKNGDWDFVIT 462
Query: 575 TAVASRGLDIKGIRHVI----------NYDLPQEIDEYVH----------RIGRTGRVGN 614
T ++ G + G VI + + V R GR GR +
Sbjct: 463 TDISEMGANF-GASRVIDCRKSVKPTILDEGEGRVILSVPSAITSASAAQRRGRVGRNPS 521
Query: 615 K 615
+
Sbjct: 522 Q 522
>2eyq_A TRCF, transcription-repair coupling factor; MFD, SF2 ATPase,
hydrolase; HET: EPE; 3.20A {Escherichia coli} SCOP:
b.34.18.1 c.37.1.19 c.37.1.19 c.37.1.19 c.37.1.19
d.315.1.1
Length = 1151
Score = 33.8 bits (78), Expect = 0.21
Identities = 23/78 (29%), Positives = 39/78 (50%), Gaps = 7/78 (8%)
Query: 512 LLREKDEDGVIVF----VSTI-RNADFIACYLCETEIATTSIHGSRLQSQREQAIHDFKT 566
+LRE G + + V I + A+ +A + E IA HG + + E+ ++DF
Sbjct: 805 ILREILRGGQVYYLYNDVENIQKAAERLAELVPEARIAI--GHGQMRERELERVMNDFHH 862
Query: 567 KKMKVLVATAVASRGLDI 584
++ VLV T + G+DI
Sbjct: 863 QRFNVLVCTTIIETGIDI 880
>4a4z_A Antiviral helicase SKI2; hydrolase, ATPase, mRNA degradation,
exosome; HET: ANP; 2.40A {Saccharomyces cerevisiae} PDB:
4a4k_A
Length = 997
Score = 32.9 bits (74), Expect = 0.40
Identities = 36/181 (19%), Positives = 65/181 (35%), Gaps = 34/181 (18%)
Query: 223 PIQKYAIPAGLEGRDLMGCAQTGSGKT--AAFLIPIMHHLLESPGELVTGYCAQPEVIIC 280
QK A+ +G + A T +GKT A + I + I
Sbjct: 42 TFQKEAVYHLEQGDSVFVAAHTSAGKTVVAEYAI---AMAHR----------NMTKTIYT 88
Query: 281 APTRELVMQI-HEVACKYAYSSVLKICLHYGGASSMHFNRQLEKGCNILVATMGRLKDIL 339
+P + L Q + + ++ + + Q+ N L+ T L+ +L
Sbjct: 89 SPIKALSNQKFRDFKETFDDVNI----------GLITGDVQINPDANCLIMTTEILRSML 138
Query: 340 DRGRISLASVRFVVLDEADRMLD--MGFLGDIQHVMQHSTMPDVANRQTLMFSATFPETI 397
RG + V FV+ DE + D G + + +M + + ++ SAT P T
Sbjct: 139 YRGADLIRDVEFVIFDEVHYVNDQDRGVVWEEVIIMLPQ------HVKFILLSATVPNTY 192
Query: 398 Q 398
+
Sbjct: 193 E 193
>2wfw_A ARC; ATP-binding protein, proteasomal atpases, PAN, AAA,
ATP-binding, nucleotide-binding; 1.60A {Rhodococcus
erythropolis} PDB: 3fp9_A
Length = 153
Score = 31.5 bits (71), Expect = 0.44
Identities = 15/54 (27%), Positives = 25/54 (46%), Gaps = 4/54 (7%)
Query: 51 EVVALAMGMEV----EMEVVEAVTEEKIGHVRVVRAILRPDSRFSSGGGGGGDR 100
+ LA+G V + +VEA T E++G + +R +L R G +R
Sbjct: 40 DTDTLALGQTVRLNEALTIVEAGTYEQVGEISTLREVLDDGLRALVVGHADEER 93
>1e9r_A Conjugal transfer protein TRWB; coupling protein, bacterial
conjugation, F1-ATPase-like quaternary structure, ring
helicases; 2.4A {Escherichia coli} SCOP: c.37.1.11 PDB:
1e9s_A 1gki_A* 1gl7_A* 1gl6_A*
Length = 437
Score = 32.2 bits (73), Expect = 0.53
Identities = 17/84 (20%), Positives = 32/84 (38%), Gaps = 13/84 (15%)
Query: 211 KNLKKSNYTKPTPIQ--KYAIPAGLEGRDLMGCAQTGSGKTAAFLIPIMHHLLESP---- 264
LK+ K + +P E R L+ TG+GK+ L + + L
Sbjct: 27 GKLKRMTREKAKQVTVAGVPMPRDAEPRHLLVNGATGTGKS-VLLRELAYTGLLRGDRMV 85
Query: 265 -----GELVTGYCAQPEVIICAPT 283
G++++ + + + II P
Sbjct: 86 IVDPNGDMLSKF-GRDKDIILNPY 108
>4a15_A XPD helicase, ATP-dependent DNA helicase TA0057; hydrolase,
nucleotide excision repair,; 2.20A {Thermoplasma
acidophilum} PDB: 2vsf_A*
Length = 620
Score = 32.4 bits (74), Expect = 0.64
Identities = 11/59 (18%), Positives = 21/59 (35%), Gaps = 10/59 (16%)
Query: 234 EGRDLMGCAQTGSGKTAAFLIPIMHHLLESPGELVTGYCAQPEVIICAPTRELVMQIHE 292
+ + + TGSGKT L + + E + +V+ T Q+ +
Sbjct: 21 KSYGVALESPTGSGKTIMALKSALQYSSER----------KLKVLYLVRTNSQEEQVIK 69
>3h0g_L DNA-directed RNA polymerases I, II, and III subunit rpabc4;
transcription, multi-protein complex, DNA- binding,
magnesium; 3.65A {Schizosaccharomyces pombe}
Length = 63
Score = 28.3 bits (63), Expect = 1.5
Identities = 10/39 (25%), Positives = 17/39 (43%), Gaps = 1/39 (2%)
Query: 91 SSGGGGGGDRGNSKPGDWMCS-CGASNFAKRDACFKCSE 128
+S GG + ++C+ CGA N + +C E
Sbjct: 5 TSTGGTAFNPPRPATMIYLCADCGARNTIQAKEVIRCRE 43
>2w00_A HSDR, R.ECOR124I; ATP-binding, DNA-binding, restriction system,
helicase, HYDR R.ECOR124I, nucleotide-binding; HET: ATP;
2.6A {Escherichia coli} PDB: 2y3t_A* 2w74_B*
Length = 1038
Score = 31.0 bits (70), Expect = 1.8
Identities = 27/124 (21%), Positives = 48/124 (38%), Gaps = 28/124 (22%)
Query: 244 TGSGKT-----AAFLIPIMHHLLESPGELVTGYCAQPEVIICAPTRELVMQIHEVACKYA 298
TGSGKT AA L E +V ++L Q + +++
Sbjct: 309 TGSGKTLTSFKAARL------ATELDF--------IDKVFFVVDRKDLDYQTMKEYQRFS 354
Query: 299 YSSVLKICLHYGGASSMHFNRQLEKGCN-ILVATMGRLKDILDRGR-ISLASVRFVVL-D 355
SV ++ R L+K N I+V T+ +L +++ + + + + V + D
Sbjct: 355 PDSVNGS------ENTAGLKRNLDKDDNKIIVTTIQKLNNLMKAESDLPVYNQQVVFIFD 408
Query: 356 EADR 359
E R
Sbjct: 409 ECHR 412
>2wjy_A Regulator of nonsense transcripts 1; nonsense mediated decay,
zinc-finger, ATP-binding, metal-BIN UPF2, UPF1,
helicase, hydrolase; 2.50A {Homo sapiens} PDB: 2wjv_A
2iyk_A
Length = 800
Score = 30.7 bits (69), Expect = 1.9
Identities = 21/95 (22%), Positives = 33/95 (34%), Gaps = 10/95 (10%)
Query: 198 ESFESAGLREILVKNLKKSNYTKPTPIQKYAIPAGLEGRDLMGCAQTGSGKTAAFLIPIM 257
E ++ L K Q YA+ L+ + G+GKT I+
Sbjct: 334 HEVEDVIIKCQLPKRFTAQGLPDLNHSQVYAVKTVLQRPLSLIQGPPGTGKTVT-SATIV 392
Query: 258 HHLLESPGELVTGYCAQPEVIICAPTRELVMQIHE 292
+HL V++CAP+ V Q+ E
Sbjct: 393 YHLA---------RQGNGPVLVCAPSNIAVDQLTE 418
>2g76_A 3-PGDH, D-3-phosphoglycerate dehydrogenase; oxidoreductase,
phosphoglycerate dehydrogenase deficiency, S metabolism,
2-hydroxyacid dehydrogenases; HET: NAD; 1.70A {Homo
sapiens}
Length = 335
Score = 30.2 bits (69), Expect = 1.9
Identities = 11/62 (17%), Positives = 22/62 (35%), Gaps = 8/62 (12%)
Query: 549 HGSRLQSQREQAIHDFKTKKMKVLVATAVASRGLDI---KGIRHVINYDLPQE-----ID 600
H S + E KVL++ ++ I G++ V +L +E +
Sbjct: 7 HSSGVDLGTENLYFQSMANLRKVLISDSLDPCCRKILQDGGLQVVEKQNLSKEELIAELQ 66
Query: 601 EY 602
+
Sbjct: 67 DC 68
>3rc3_A ATP-dependent RNA helicase SUPV3L1, mitochondrial; SUV3, nucleus,
hydrolase; HET: ANP; 2.08A {Homo sapiens} PDB: 3rc8_A
Length = 677
Score = 30.3 bits (67), Expect = 2.4
Identities = 14/70 (20%), Positives = 25/70 (35%), Gaps = 15/70 (21%)
Query: 223 PIQKYAIPAGLEGRDLMGCAQTGSGKTAAFLIPIMHHLLESPGELVTGYCAQPEVIICAP 282
P Y ++ + + T SGKT +H ++ Y + + C P
Sbjct: 143 PPNWYPDARAMQRKIIFHSGPTNSGKT--------YHAIQK-------YFSAKSGVYCGP 187
Query: 283 TRELVMQIHE 292
+ L +I E
Sbjct: 188 LKLLAHEIFE 197
>3ln6_A Glutathione biosynthesis bifunctional protein GSH; gamma-glutamyl
cysteine ligase domain, ATP-grAsp domain, HYB enzyme;
2.95A {Streptococcus agalactiae serogroup V}
Length = 750
Score = 30.3 bits (68), Expect = 3.0
Identities = 9/68 (13%), Positives = 22/68 (32%), Gaps = 7/68 (10%)
Query: 587 IRHVINYDLPQEIDEYVHRIGRTGRVGNKGRATSFYDPDQDGAIAKDLV-------RILE 639
+ VI + E+ + + + + + +D I + +IL+
Sbjct: 434 LFDVIQKGVNFEVLDEQDQFLKLWHNSHIEYVKNGNMTSKDNYIVPLAMANKVVTKKILD 493
Query: 640 QAGQPVPE 647
+ P P
Sbjct: 494 EKHFPTPF 501
>1twf_L ABC10-alpha, DNA-directed RNA polymerases I, II, and III 7.7 K
polypeptide; transcription, mRNA, multiprotein complex;
HET: UTP; 2.30A {Saccharomyces cerevisiae} SCOP:
g.41.9.2 PDB: 1i3q_L 1i6h_L 1k83_L* 1nik_L 1nt9_L 1pqv_L
1r5u_L 1r9s_L* 1r9t_L* 1sfo_L* 1twa_L* 1twc_L* 1i50_L*
1twg_L* 1twh_L* 1wcm_L 1y1v_L 1y1w_L 1y1y_L 1y77_L* ...
Length = 70
Score = 27.5 bits (61), Expect = 3.0
Identities = 4/41 (9%), Positives = 14/41 (34%), Gaps = 3/41 (7%)
Query: 91 SSGGGGGGDRGNSKPGD--WMCS-CGASNFAKRDACFKCSE 128
++ ++ ++C+ C + R +C +
Sbjct: 10 TNLDAAAAGTSQARTATLKYICAECSSKLSLSRTDAVRCKD 50
>1gm5_A RECG; helicase, replication restart; HET: DNA ADP; 3.24A
{Thermotoga maritima} SCOP: a.24.21.1 b.40.4.9 c.37.1.19
c.37.1.19
Length = 780
Score = 29.9 bits (68), Expect = 3.4
Identities = 9/31 (29%), Positives = 19/31 (61%), Gaps = 2/31 (6%)
Query: 548 IHGSRLQSQ-REQAIHDFKTKKMKVLVATAV 577
+HG RL + +++ + +F + +LV+T V
Sbjct: 619 MHG-RLSQEEKDRVMLEFAEGRYDILVSTTV 648
>1a8l_A Protein disulfide oxidoreductase; PDI, thioredoxin fold; 1.90A
{Pyrococcus furiosus} SCOP: c.47.1.2 c.47.1.2 PDB:
1j08_A
Length = 226
Score = 29.3 bits (65), Expect = 3.4
Identities = 15/124 (12%), Positives = 37/124 (29%), Gaps = 5/124 (4%)
Query: 182 ENVEVKVSGDNPPRPIESFESAGLREILVKNLKKSNYTKPTPIQKYAIPAGLEGRDLMGC 241
+ + ++ + P E + + + + K ++ + +PAG E +
Sbjct: 53 DKLSYEIVDFDTPEGKELAKRYRIDRAPATTITQDG--KDFGVRYFGLPAGHEFAAFLED 110
Query: 242 AQTGSGKTAAFLIPIMHHLLESPGELVTGYCAQPEVIICAPTRELVMQIHEVACKYAYSS 301
S + + + ++ P C V H+ A + +
Sbjct: 111 IVDVSREETNLMDETKQAIRNIDQDVRILVFVTPT---CPYCPLAVRMAHKFAIENTKAG 167
Query: 302 VLKI 305
KI
Sbjct: 168 KGKI 171
>3oqs_A Importin subunit alpha-2; importin alpha, karyopherin alpha,
nuclear localisation SIGN recognition, chloride
intracellular channel 4, CLIC4 NLS; 2.00A {Mus musculus}
PDB: 3rz9_A 3rzx_A 1q1s_C 1q1t_C 3tpo_A 3knd_A 1ejy_I
1iq1_C 1ejl_I 1pjn_B 1pjm_B 3q5u_A 3fey_C 3fex_C 1ial_A
1y2a_C 3btr_C 3l3q_A* 3ve6_A 2c1m_A ...
Length = 510
Score = 29.6 bits (66), Expect = 4.0
Identities = 23/92 (25%), Positives = 34/92 (36%), Gaps = 13/92 (14%)
Query: 187 KVSGDNPPRPIESFESAGLREILVKNLKKSNYTKPTPIQKYAIPAGLEGRDLMGCAQTGS 246
K+ PI++ AGL V L K++ + IQ + A L A S
Sbjct: 83 KLLSREKQPPIDNIIRAGLIPKFVSFLGKTDCSP---IQFESAWA------LTNIASGTS 133
Query: 247 GKTAAFL----IPIMHHLLESPGELVTGYCAQ 274
+T A + IP LL SP ++
Sbjct: 134 EQTKAVVDGGAIPAFISLLASPHAHISEQAVW 165
>3m89_A FTSZ/tubulin-related protein; partition, TUBZ, GTP-binding,
nucleotide-BIND structural protein; HET: GSP; 2.00A
{Bacillus thuringiensis} PDB: 3m8k_A 2xka_A* 2xkb_A*
Length = 427
Score = 28.7 bits (63), Expect = 6.8
Identities = 25/124 (20%), Positives = 42/124 (33%), Gaps = 16/124 (12%)
Query: 565 KTKKMKVLVATAVASRGLDIKGIRHVINYDLPQEIDEYVHRIGRTGRVGNKGRATSFYDP 624
+ AV D+ ++++I D +H G G T +DP
Sbjct: 66 FSNGTTCYPTLAVNFAESDMMHLQNIIKEDR-------IHFDGLKGAARTPSVVTDLFDP 118
Query: 625 DQDGAIAKDLVRILEQAGQPVPE---------FLKFGGGGGGYGRGGDAFGARDIRHDPD 675
+ + L ++ ++ G+ FL G GGG G G + + IR
Sbjct: 119 ETNPNANGYLDKLAQELGRKFTNEEGEVIVDQFLICLGAGGGVGTGWGSLVLQLIREQFF 178
Query: 676 AAPV 679
PV
Sbjct: 179 PCPV 182
>1w5s_A Origin recognition complex subunit 2 ORC2; replication, CDC6, DNA
replication initiation, DNA BIND protein, AAA+ ATPase;
HET: ADP; 2.4A {Aeropyrum pernix} SCOP: a.4.5.11
c.37.1.20 PDB: 1w5t_A*
Length = 412
Score = 28.3 bits (62), Expect = 8.5
Identities = 21/126 (16%), Positives = 37/126 (29%), Gaps = 8/126 (6%)
Query: 249 TAAFLIPIMHHLLESPGELVTGYCAQPEVIICAPTRELVMQIHEVA------CKYAYSSV 302
+L ++ S ++ G + + + V ++ E A K AY +
Sbjct: 35 ARIYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVNA 94
Query: 303 LKICLHYGGASSMHFNRQLEKGCNILVATMGRLKDILDRGRISLASVRFVVLDEADRMLD 362
Y S + RQ + A + L V+LDE ML
Sbjct: 95 FNAPNLYTILSLIV--RQTGYPIQVRGAPALDILKALVDNLYVENHYLLVILDEFQSMLS 152
Query: 363 MGFLGD 368
+
Sbjct: 153 SPRIAA 158
>3or1_B Sulfite reductase beta; dissimilatory sulfite reductase, sulfate
reduction, oxidored sulfite reduction; HET: SRM; 1.76A
{Desulfovibrio gigas} PDB: 3or2_B* 2v4j_B* 2xsj_B*
Length = 386
Score = 28.5 bits (64), Expect = 8.5
Identities = 16/99 (16%), Positives = 31/99 (31%), Gaps = 12/99 (12%)
Query: 266 ELVTGYCAQPEVIICAPTRELVMQIHEVACKYAYSSVLKI-------CLH-YGGASSMHF 317
E + C P + PT ++ + I C + Y ++
Sbjct: 216 ENLAELCEIPLAVAACPTA--AVKPITAEVNGQKVKSVAINNDRCMYCGNCYTMCPALPL 273
Query: 318 NRQLEKGCNILVATMGRLKDILDRGRISLASVRFVVLDE 356
+ G I+V G++ + + S V FV +
Sbjct: 274 SDGTGDGIAIMVG--GKISNRIKVPSFSKVVVAFVPNEP 310
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.318 0.136 0.401
Gapped
Lambda K H
0.267 0.0478 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 11,100,210
Number of extensions: 732350
Number of successful extensions: 2765
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2530
Number of HSP's successfully gapped: 172
Length of query: 693
Length of database: 6,701,793
Length adjustment: 100
Effective length of query: 593
Effective length of database: 3,909,693
Effective search space: 2318447949
Effective search space used: 2318447949
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 61 (27.9 bits)