RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy13286
(351 letters)
>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 = 501 bits (1292), Expect = e-179
Identities = 218/321 (67%), Positives = 264/321 (82%), Gaps = 1/321 (0%)
Query: 14 LNKLTPAKITSKATLIIVPTRELALQTSQICIELAKHLNVKVMVTTGGTNLRDDIMRIYQ 73
L K+ P +A LI+VPTRELALQTSQ+ L KH + MVTTGGTNLRDDI+R+ +
Sbjct: 80 LEKVKPKLNKIQA-LIMVPTRELALQTSQVVRTLGKHCGISCMVTTGGTNLRDDILRLNE 138
Query: 74 KVHLIIATPGRILDLMDKQVANMDHCKILVLDEADKLLSQDFKGMLDHVISILPHERQIL 133
VH+++ TPGR+LDL ++VA++ C + ++DEADK+LS+DFK +++ ++S LP Q L
Sbjct: 139 TVHILVGTPGRVLDLASRKVADLSDCSLFIMDEADKMLSRDFKTIIEQILSFLPPTHQSL 198
Query: 134 LYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQYYAFVQERQKVHCLNTLFSKLQI 193
L+SATFPLTVK FM KHL PYEINLMEELTLKG+TQYYAFV+ERQK+HCLNTLFSKLQI
Sbjct: 199 LFSATFPLTVKEFMVKHLHKPYEINLMEELTLKGITQYYAFVEERQKLHCLNTLFSKLQI 258
Query: 194 NQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSDLF 253
NQ+IIFCNST RVELLAKKIT+LGY CYY HARM Q RN+VFH+FR G R LVCSDL
Sbjct: 259 NQAIIFCNSTNRVELLAKKITDLGYSCYYSHARMKQQERNKVFHEFRQGKVRTLVCSDLL 318
Query: 254 TRGIDVQAVNVVINFDFPKMAETYLHRIGRSGRYGHLGIAINLITYEDRYALHRIEKELG 313
TRGID+QAVNVVINFDFPK AETYLHRIGRSGR+GHLG+AINLI + DR+ L++IE+ELG
Sbjct: 319 TRGIDIQAVNVVINFDFPKTAETYLHRIGRSGRFGHLGLAINLINWNDRFNLYKIEQELG 378
Query: 314 TEIKSIPKVIDPALYVARPED 334
TEI +IP ID +LYVA ++
Sbjct: 379 TEIAAIPATIDKSLYVAENDE 399
>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 = 451 bits (1164), Expect = e-160
Identities = 115/299 (38%), Positives = 184/299 (61%), Gaps = 3/299 (1%)
Query: 28 LIIVPTRELALQTSQICIELAKHLNVKVMVTTGGTNLRDDIMRIYQKVHLIIATPGRILD 87
L++ PTRELALQ ++ + LA H+++KV GGT+ +D + + +++ TPGR+ D
Sbjct: 93 LMLAPTRELALQIQKVVMALAFHMDIKVHACIGGTSFVEDAEGL-RDAQIVVGTPGRVFD 151
Query: 88 LMDKQVANMDHCKILVLDEADKLLSQDFKGMLDHVISILPHERQILLYSATFPLTVKNFM 147
+ ++ D K+ +LDEAD++LS FK + + ++LP Q++L SAT P V
Sbjct: 152 NIQRRRFRTDKIKMFILDEADEMLSSGFKEQIYQIFTLLPPTTQVVLLSATMPNDVLEVT 211
Query: 148 EKHLKDPYEINLM-EELTLKGVTQYYAFVQERQ-KVHCLNTLFSKLQINQSIIFCNSTQR 205
K +++P I + +ELTL+G+ Q+Y V+E + K CL L+ + + Q++IFCN+ ++
Sbjct: 212 TKFMRNPVRILVKKDELTLEGIKQFYVNVEEEEYKYECLTDLYDSISVTQAVIFCNTRRK 271
Query: 206 VELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSDLFTRGIDVQAVNVV 265
VE L K+ + I++ + Q R+ + +FRSG R L+ +DL RGIDVQ V++V
Sbjct: 272 VEELTTKLRNDKFTVSAIYSDLPQQERDTIMKEFRSGSSRILISTDLLARGIDVQQVSLV 331
Query: 266 INFDFPKMAETYLHRIGRSGRYGHLGIAINLITYEDRYALHRIEKELGTEIKSIPKVID 324
IN+D P E Y+HRIGR GR+G G+AIN +T ED A+ +EK T+I+ +P I
Sbjct: 332 INYDLPANKENYIHRIGRGGRFGRKGVAINFVTNEDVGAMRELEKFYSTQIEELPSDIA 390
>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 = 449 bits (1158), Expect = e-158
Identities = 113/296 (38%), Positives = 180/296 (60%), Gaps = 3/296 (1%)
Query: 28 LIIVPTRELALQTSQICIELAKHLNVKVMVTTGGTNLRDDIMRI-YQKVHLIIATPGRIL 86
L++ PTRELA Q ++ + L ++ GGTN+R ++ ++ + H+I+ TPGR+
Sbjct: 112 LVLAPTRELAQQIQKVVMALGDYMGASCHACIGGTNVRAEVQKLQMEAPHIIVGTPGRVF 171
Query: 87 DLMDKQVANMDHCKILVLDEADKLLSQDFKGMLDHVISILPHERQILLYSATFPLTVKNF 146
D+++++ + + K+ VLDEAD++LS+ FK + + L Q++L SAT P V
Sbjct: 172 DMLNRRYLSPKYIKMFVLDEADEMLSRGFKDQIYDIFQKLNSNTQVVLLSATMPSDVLEV 231
Query: 147 MEKHLKDPYEINLM-EELTLKGVTQYYAFV-QERQKVHCLNTLFSKLQINQSIIFCNSTQ 204
+K ++DP I + EELTL+G+ Q+Y V +E K+ L L+ L I Q++IF N+ +
Sbjct: 232 TKKFMRDPIRILVKKEELTLEGIRQFYINVEREEWKLDTLCDLYETLTITQAVIFINTRR 291
Query: 205 RVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSDLFTRGIDVQAVNV 264
+V+ L +K+ + +H M Q R+ + +FRSG R L+ +DL RGIDVQ V++
Sbjct: 292 KVDWLTEKMHARDFTVSAMHGDMDQKERDVIMREFRSGSSRVLITTDLLARGIDVQQVSL 351
Query: 265 VINFDFPKMAETYLHRIGRSGRYGHLGIAINLITYEDRYALHRIEKELGTEIKSIP 320
VIN+D P E Y+HRIGR GR+G G+AIN++T ED+ L IE T I+ +P
Sbjct: 352 VINYDLPTNRENYIHRIGRGGRFGRKGVAINMVTEEDKRTLRDIETFYNTSIEEMP 407
>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 = 446 bits (1150), Expect = e-157
Identities = 116/309 (37%), Positives = 182/309 (58%), Gaps = 3/309 (0%)
Query: 14 LNKLTPAKITSKATLIIVPTRELALQTSQICIELAKHLNVKVMVTTGGTNLRDDIMRIYQ 73
L L ++A LI+ PTRELA+Q + + L ++NV+ GGTN+ +DI ++
Sbjct: 96 LQCLDIQVRETQA-LILAPTRELAVQIQKGLLALGDYMNVQCHACIGGTNVGEDIRKLDY 154
Query: 74 KVHLIIATPGRILDLMDKQVANMDHCKILVLDEADKLLSQDFKGMLDHVISILPHERQIL 133
H++ TPGR+ D++ ++ K+LVLDEAD++L++ FK + V LP Q++
Sbjct: 155 GQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQVV 214
Query: 134 LYSATFPLTVKNFMEKHLKDPYEINLM-EELTLKGVTQYYAFV-QERQKVHCLNTLFSKL 191
L SAT P + K + DP I + +ELTL+G+ Q++ V +E K L L+ L
Sbjct: 215 LISATLPHEILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTL 274
Query: 192 QINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSD 251
I Q++IFCN+ ++V+ L +K+ E + +H M Q R + +FRSG R L+ +D
Sbjct: 275 TITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTD 334
Query: 252 LFTRGIDVQAVNVVINFDFPKMAETYLHRIGRSGRYGHLGIAINLITYEDRYALHRIEKE 311
++ RG+DV V+++IN+D P E Y+HRIGRSGRYG G+AIN + +D L IE+
Sbjct: 335 VWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAINFVKNDDIRILRDIEQY 394
Query: 312 LGTEIKSIP 320
T+I +P
Sbjct: 395 YSTQIDEMP 403
>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 = 440 bits (1133), Expect = e-155
Identities = 111/324 (34%), Positives = 181/324 (55%), Gaps = 7/324 (2%)
Query: 14 LNKLTPAKITSKATLIIVPTRELALQTSQICIELAKHL-NVKVMVTTGGTNLRDDIMRIY 72
L +L P L++ TRELA Q S+ +K++ NVKV V GG +++ D +
Sbjct: 67 LQQLEPVTGQVSV-LVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEVLK 125
Query: 73 QKV-HLIIATPGRILDLMDKQVANMDHCKILVLDEADKLLSQ-DFKGMLDHVISILPHER 130
+ H+++ TPGRIL L + N+ H K +LDE DK+L Q D + + + + PHE+
Sbjct: 126 KNCPHIVVGTPGRILALARNKSLNLKHIKHFILDECDKMLEQLDMRRDVQEIFRMTPHEK 185
Query: 131 QILLYSATFPLTVKNFMEKHLKDPYEINLME--ELTLKGVTQYYAFVQERQKVHCLNTLF 188
Q++++SAT ++ K ++DP EI + + +LTL G+ QYY +++ +K L L
Sbjct: 186 QVMMFSATLSKEIRPVCRKFMQDPMEIFVDDETKLTLHGLQQYYVKLKDNEKNRKLFDLL 245
Query: 189 SKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLV 248
L+ NQ +IF S QR LA+ + E + IH M Q R + F+ R LV
Sbjct: 246 DVLEFNQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRILV 305
Query: 249 CSDLFTRGIDVQAVNVVINFDFPKMAETYLHRIGRSGRYGHLGIAINLITYE-DRYALHR 307
++LF RG+D++ VN+ N+D P+ ++TYLHR+ R+GR+G G+AI ++ E D L+
Sbjct: 306 ATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKGLAITFVSDENDAKILND 365
Query: 308 IEKELGTEIKSIPKVIDPALYVAR 331
++ I +P ID + Y+ +
Sbjct: 366 VQDRFEVNISELPDEIDISSYIEQ 389
>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 = 377 bits (971), Expect = e-129
Identities = 106/307 (34%), Positives = 161/307 (52%), Gaps = 19/307 (6%)
Query: 28 LIIVPTRELALQTSQICIELAKHL-NVKVMVTTGGTNLRDDIMRIYQKVHLIIATPGRIL 86
L + PT ELALQT ++ ++ K +K+ G L ++I TPG +L
Sbjct: 166 LCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLERGQKI---SEQIVIGTPGTVL 222
Query: 87 DLMDK-QVANMDHCKILVLDEADKLLSQDFKGMLDHVISI---LPHERQILLYSATFPLT 142
D K + + K+ VLDEAD +++ G D I I LP Q+LL+SATF +
Sbjct: 223 DWCSKLKFIDPKKIKVFVLDEADVMIATQ--GHQDQSIRIQRMLPRNCQMLLFSATFEDS 280
Query: 143 VKNFMEKHLKDPYEINLM-EELTLKGVTQYYAFVQER-QKVHCLNTLFSKLQINQSIIFC 200
V F +K + DP I L EE TL + QYY R +K L L+ + I Q++IFC
Sbjct: 281 VWKFAQKVVPDPNVIKLKREEETLDTIKQYYVLCSSRDEKFQALCNLYGAITIAQAMIFC 340
Query: 201 NSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSDLFTRGIDVQ 260
++ + LA ++++ G+ + M R V FR G + LV +++ RGIDV+
Sbjct: 341 HTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFREGKEKVLVTTNVCARGIDVE 400
Query: 261 AVNVVINFDFP------KMAETYLHRIGRSGRYGHLGIAINLITYEDRY-ALHRIEKELG 313
V+VVINFD P ETYLHRIGR+GR+G G+A+N++ + L+RI++
Sbjct: 401 QVSVVINFDLPVDKDGNPDNETYLHRIGRTGRFGKRGLAVNMVDSKHSMNILNRIQEHFN 460
Query: 314 TEIKSIP 320
+I+ +
Sbjct: 461 KKIERLD 467
>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 = 365 bits (940), Expect = e-125
Identities = 109/321 (33%), Positives = 169/321 (52%), Gaps = 20/321 (6%)
Query: 14 LNKLTPAKITSKATLIIVPTRELALQTSQICIELAKHL-NVKVMVTTGGTNLRDDIMRIY 72
L+++ PA + L + PT ELALQT ++ ++ K +K+ G L
Sbjct: 86 LSQVEPANKYPQC-LCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLERGQKI-- 142
Query: 73 QKVHLIIATPGRILDLMDK-QVANMDHCKILVLDEADKLLSQDFKGMLDHVISI---LPH 128
++I TPG +LD K + + K+ VLDEAD +++ +G D I I LP
Sbjct: 143 -SEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIAT--QGHQDQSIRIQRMLPR 199
Query: 129 ERQILLYSATFPLTVKNFMEKHLKDPYEINLM-EELTLKGVTQYYAFVQER-QKVHCLNT 186
Q+LL+SATF +V F +K + DP I L EE TL + QYY R +K L
Sbjct: 200 NCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKREEETLDTIKQYYVLCSSRDEKFQALCN 259
Query: 187 LFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRN 246
L+ + I Q++IFC++ + LA ++++ G+ + M R V FR G +
Sbjct: 260 LYGAITIAQAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFREGKEKV 319
Query: 247 LVCSDLFTRGIDVQAVNVVINFDFP------KMAETYLHRIGRSGRYGHLGIAINLITYE 300
LV +++ RGIDV+ V+VVINFD P ETYLHRIGR+GR+G G+A+N++ +
Sbjct: 320 LVTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRTGRFGKRGLAVNMVDSK 379
Query: 301 DRY-ALHRIEKELGTEIKSIP 320
L+RI++ +I+ +
Sbjct: 380 HSMNILNRIQEHFNKKIERLD 400
>3fho_A ATP-dependent RNA helicase DBP5; mRNA export, ATPase, translation
termination, binding, hydrolase, membrane, mRNA
transport; 2.80A {Schizosaccharomyces pombe}
Length = 508
Score = 328 bits (844), Expect = e-110
Identities = 101/305 (33%), Positives = 163/305 (53%), Gaps = 18/305 (5%)
Query: 28 LIIVPTRELALQTSQICIELAKHLNVKVMVTTGGTNLRDDIMRIYQKVHLIIATPGRILD 87
+ + P+RELA Q + E+ K+ VK + + ++I TPG ++D
Sbjct: 193 ICLAPSRELARQIMDVVTEMGKYTEVKTAFGIKDSVPK----GAKIDAQIVIGTPGTVMD 248
Query: 88 LMDKQVANMDHCKILVLDEADKLLSQDFKGMLDHVISI---LPHERQILLYSATFPLTVK 144
LM ++ + K+ VLDEAD +L Q +G+ D + I LP QI+L+SATF V+
Sbjct: 249 LMKRRQLDARDIKVFVLDEADNMLDQ--QGLGDQSMRIKHLLPRNTQIVLFSATFSERVE 306
Query: 145 NFMEKHLKDPYEINLM-EELTLKGVTQYYAFVQ-ERQKVHCLNTLFSKLQINQSIIFCNS 202
+ E+ + EI L EEL+++G+ Q Y Q E K + L L+ L I QSIIFC
Sbjct: 307 KYAERFAPNANEIRLKTEELSVEGIKQLYMDCQSEEHKYNVLVELYGLLTIGQSIIFCKK 366
Query: 203 TQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSDLFTRGIDVQAV 262
E +A+++T G+ + + A R+ + FR G + LV +++ RGIDV V
Sbjct: 367 KDTAEEIARRMTADGHTVACLTGNLEGAQRDAIMDSFRVGTSKVLVTTNVIARGIDVSQV 426
Query: 263 NVVINFDFPKM------AETYLHRIGRSGRYGHLGIAINLITYEDRY-ALHRIEKELGTE 315
N+V+N+D P +TYLHRIGR+GR+G +G++IN + + + ++ I++
Sbjct: 427 NLVVNYDMPLDQAGRPDPQTYLHRIGRTGRFGRVGVSINFVHDKKSWEEMNAIQEYFQRP 486
Query: 316 IKSIP 320
I +P
Sbjct: 487 ITRVP 491
>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 = 295 bits (758), Expect = 2e-98
Identities = 93/306 (30%), Positives = 163/306 (53%), Gaps = 19/306 (6%)
Query: 28 LIIVPTRELALQTSQICIELAKHLNVKVMVTTGGTNLRDDIMRIYQKVHLIIATPGRILD 87
+ + P+RELA QT ++ E+ K + + + ++ + +I+ TPG +LD
Sbjct: 79 ICLAPSRELARQTLEVVQEMGKFTKITSQLIVPDSFEKNKQIN----AQVIVGTPGTVLD 134
Query: 88 LMDKQVANMDHCKILVLDEADKLLSQDFKGMLDHVISI---LPHERQILLYSATFPLTVK 144
LM +++ + KI VLDEAD +L Q G+ D I + LP + Q++L+SATF V+
Sbjct: 135 LMRRKLMQLQKIKIFVLDEADNMLDQQ--GLGDQCIRVKRFLPKDTQLVLFSATFADAVR 192
Query: 145 NFMEKHLKDPYEINLM-EELTLKGVTQYYAFVQ-ERQKVHCLNTLFSKLQINQSIIFCNS 202
+ +K + + + L E+ + + Q Y + E K L L+ + I SIIF +
Sbjct: 193 QYAKKIVPNANTLELQTNEVNVDAIKQLYMDCKNEADKFDVLTELYGLMTIGSSIIFVAT 252
Query: 203 TQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSDLFTRGIDVQAV 262
+ +L K+ G+ +H + R+R+ DFR G + L+ +++ RGID+ V
Sbjct: 253 KKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDDFREGRSKVLITTNVLARGIDIPTV 312
Query: 263 NVVINFDFPKMA------ETYLHRIGRSGRYGHLGIAINLITYEDRY-ALHRIEKELG-T 314
++V+N+D P +A TY+HRIGR+GR+G G+AI+ + ++ + L I+K G
Sbjct: 313 SMVVNYDLPTLANGQADPATYIHRIGRTGRFGRKGVAISFVHDKNSFNILSAIQKYFGDI 372
Query: 315 EIKSIP 320
E+ +P
Sbjct: 373 EMTRVP 378
>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 = 261 bits (669), Expect = 6e-88
Identities = 58/169 (34%), Positives = 94/169 (55%), Gaps = 1/169 (0%)
Query: 164 TLKGVTQYYAFVQERQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYI 223
+L G+ QYY +++ +K L L L+ NQ +IF S QR LA+ + E + I
Sbjct: 2 SLHGLQQYYVKLKDNEKNRKLFDLLDVLEFNQVVIFVKSVQRCIALAQLLVEQNFPAIAI 61
Query: 224 HARMAQAHRNRVFHDFRSGLCRNLVCSDLFTRGIDVQAVNVVINFDFPKMAETYLHRIGR 283
H M Q R + F+ R LV ++LF RG+D++ VN+ N+D P+ ++TYLHR+ R
Sbjct: 62 HRGMPQEERLSRYQQFKDFQRRILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVAR 121
Query: 284 SGRYGHLGIAINLITYE-DRYALHRIEKELGTEIKSIPKVIDPALYVAR 331
+GR+G G+AI ++ E D L+ ++ I +P ID + Y+ +
Sbjct: 122 AGRFGTKGLAITFVSDENDAKILNDVQDRFEVNISELPDEIDISSYIEQ 170
>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 = 253 bits (649), Expect = 3e-82
Identities = 91/304 (29%), Positives = 163/304 (53%), Gaps = 7/304 (2%)
Query: 14 LNKLTPAKITSKATLIIVPTRELALQTSQICIELAKHLNVKVMVTTGGTNLRDDIMRIYQ 73
+ + +I+ PTRELA+Q + L + N+K+ GG + I + +
Sbjct: 66 IELVNENNGIE--AIILTPTRELAIQVADEIESLKGNKNLKIAKIYGGKAIYPQIKAL-K 122
Query: 74 KVHLIIATPGRILDLMDKQVANMDHCKILVLDEADKLLSQDFKGMLDHVISILPHERQIL 133
++++ TPGRILD +++ N+ + K +LDEAD++L+ F ++ +++ +++IL
Sbjct: 123 NANIVVGTPGRILDHINRGTLNLKNVKYFILDEADEMLNMGFIKDVEKILNACNKDKRIL 182
Query: 134 LYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQYYAFVQERQKVHCLNTLFSKLQI 193
L+SAT P + N +K++ D I + Q Y V E ++ L L K +
Sbjct: 183 LFSATMPREILNLAKKYMGDYSFIKAK---INANIEQSYVEVNENERFEALCRLL-KNKE 238
Query: 194 NQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSDLF 253
++FC + + + LA + ++G+ IH ++Q+ R +V F+ R L+ +D+
Sbjct: 239 FYGLVFCKTKRDTKELASMLRDIGFKAGAIHGDLSQSQREKVIRLFKQKKIRILIATDVM 298
Query: 254 TRGIDVQAVNVVINFDFPKMAETYLHRIGRSGRYGHLGIAINLITYEDRYALHRIEKELG 313
+RGIDV +N VIN+ P+ E+Y+HRIGR+GR G G AI++I + L IE+ +
Sbjct: 299 SRGIDVNDLNCVINYHLPQNPESYMHRIGRTGRAGKKGKAISIINRREYKKLRYIERAMK 358
Query: 314 TEIK 317
+IK
Sbjct: 359 LKIK 362
>1fuk_A Eukaryotic initiation factor 4A; helicase, DEAD-box protein,
translation; 1.75A {Saccharomyces cerevisiae} SCOP:
c.37.1.19
Length = 165
Score = 244 bits (624), Expect = 2e-81
Identities = 66/161 (40%), Positives = 101/161 (62%), Gaps = 1/161 (0%)
Query: 165 LKGVTQYYAFVQERQ-KVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYI 223
L+G+ Q+Y V+E + K CL L+ + + Q++IFCN+ ++VE L K+ + I
Sbjct: 1 LEGIKQFYVNVEEEEYKYECLTDLYDSISVTQAVIFCNTRRKVEELTTKLRNDKFTVSAI 60
Query: 224 HARMAQAHRNRVFHDFRSGLCRNLVCSDLFTRGIDVQAVNVVINFDFPKMAETYLHRIGR 283
++ + Q R+ + +FRSG R L+ +DL RGIDVQ V++VIN+D P E Y+HRIGR
Sbjct: 61 YSDLPQQERDTIMKEFRSGSSRILISTDLLARGIDVQQVSLVINYDLPANKENYIHRIGR 120
Query: 284 SGRYGHLGIAINLITYEDRYALHRIEKELGTEIKSIPKVID 324
GR+G G+AIN +T ED A+ +EK T+I+ +P I
Sbjct: 121 GGRFGRKGVAINFVTNEDVGAMRELEKFYSTQIEELPSDIA 161
>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 = 257 bits (657), Expect = 3e-81
Identities = 77/338 (22%), Positives = 134/338 (39%), Gaps = 29/338 (8%)
Query: 10 QFLYLNKLTPAKITSKATLIIVPTRELALQTSQICIELAKH----LNVKVMVTTGGTNLR 65
Q L K + +I+ PTR+LALQ ++ + GGT+ R
Sbjct: 134 QHLINTKFDSQYMVK--AVIVAPTRDLALQIEAEVKKIHDMNYGLKKYACVSLVGGTDFR 191
Query: 66 DDIMRIY-QKVHLIIATPGRILDLMDKQVANM-DHCKILVLDEADKLLSQDFKGMLDHVI 123
+ ++ + +++IATPGR++D+++K VLDEAD+LL F+ L+ +
Sbjct: 192 AAMNKMNKLRPNIVIATPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLEIGFRDDLETIS 251
Query: 124 SILPHER-------QILLYSATFPLTVKNFMEKHLKDPYEI-----NLMEELTLKGVTQY 171
IL + + LL+SAT V+ + + + E + + Q
Sbjct: 252 GILNEKNSKSADNIKTLLFSATLDDKVQKLANNIMNKKECLFLDTVDKNEPEAHERIDQS 311
Query: 172 YAFVQERQKVHCLNTLFSKLQI------NQSIIFCNSTQRVELLA---KKITELGYCCYY 222
++ K QI ++IIF + + L K +
Sbjct: 312 VVISEKFANSIFAAVEHIKKQIKERDSNYKAIIFAPTVKFTSFLCSILKNEFKKDLPILE 371
Query: 223 IHARMAQAHRNRVFHDFRSGLCRNLVCSDLFTRGIDVQAVNVVINFDFPKMAETYLHRIG 282
H ++ Q R + F+ LVC+D+ RG+D V+ V+ P Y+HRIG
Sbjct: 372 FHGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIG 431
Query: 283 RSGRYGHLGIAINLITYEDRYALHRIEKELGTEIKSIP 320
R+ R G G ++ I ++ + +E I
Sbjct: 432 RTARSGKEGSSVLFICKDELPFVRELEDAKNIVIAKQE 469
>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 = 255 bits (653), Expect = 2e-80
Identities = 77/335 (22%), Positives = 134/335 (40%), Gaps = 29/335 (8%)
Query: 10 QFLYLNKLTPAKITSKATLIIVPTRELALQTSQICIELAKH----LNVKVMVTTGGTNLR 65
Q L K + +I+ PTR+LALQ ++ + GGT+ R
Sbjct: 83 QHLINTKFDSQYMVK--AVIVAPTRDLALQIEAEVKKIHDMNYGLKKYACVSLVGGTDFR 140
Query: 66 DDIMRIY-QKVHLIIATPGRILDLMDKQVANM-DHCKILVLDEADKLLSQDFKGMLDHVI 123
+ ++ + +++IATPGR++D+++K VLDEAD+LL F+ L+ +
Sbjct: 141 AAMNKMNKLRPNIVIATPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLEIGFRDDLETIS 200
Query: 124 SILPHER-------QILLYSATFPLTVKNFMEKHLKDPYEI-----NLMEELTLKGVTQY 171
IL + + LL+SAT V+ + + + E + + Q
Sbjct: 201 GILNEKNSKSADNIKTLLFSATLDDKVQKLANNIMNKKECLFLDTVDKNEPEAHERIDQS 260
Query: 172 YAFVQERQKVHCLNTLFSKLQI------NQSIIFCNSTQRVELLA---KKITELGYCCYY 222
++ K QI ++IIF + + L K +
Sbjct: 261 VVISEKFANSIFAAVEHIKKQIKERDSNYKAIIFAPTVKFTSFLCSILKNEFKKDLPILE 320
Query: 223 IHARMAQAHRNRVFHDFRSGLCRNLVCSDLFTRGIDVQAVNVVINFDFPKMAETYLHRIG 282
H ++ Q R + F+ LVC+D+ RG+D V+ V+ P Y+HRIG
Sbjct: 321 FHGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIG 380
Query: 283 RSGRYGHLGIAINLITYEDRYALHRIEKELGTEIK 317
R+ R G G ++ I ++ + +E I
Sbjct: 381 RTARSGKEGSSVLFICKDELPFVRELEDAKNIVIA 415
>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 = 240 bits (615), Expect = 8e-80
Identities = 53/166 (31%), Positives = 89/166 (53%), Gaps = 7/166 (4%)
Query: 162 ELTLKGVTQYYAFVQERQ-KVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCC 220
LTL + QYY + R+ K L ++ + I Q+IIFC + + + L ++ + G+
Sbjct: 2 MLTLNNIRQYYVLCEHRKDKYQALCNIYGSITIGQAIIFCQTRRNAKWLTVEMIQDGHQV 61
Query: 221 YYIHARMAQAHRNRVFHDFRSGLCRNLVCSDLFTRGIDVQAVNVVINFDFPKMA------ 274
+ + R + FR G + L+ +++ RGIDV+ V +V+NFD P
Sbjct: 62 SLLSGELTVEQRASIIQRFRDGKEKVLITTNVCARGIDVKQVTIVVNFDLPVKQGEEPDY 121
Query: 275 ETYLHRIGRSGRYGHLGIAINLITYEDRYALHRIEKELGTEIKSIP 320
ETYLHRIGR+GR+G G+A N+I ++ +L +I+ + IK +
Sbjct: 122 ETYLHRIGRTGRFGKKGLAFNMIEVDELPSLMKIQDHFNSSIKQLN 167
>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 = 245 bits (628), Expect = 2e-79
Identities = 79/283 (27%), Positives = 139/283 (49%), Gaps = 10/283 (3%)
Query: 28 LIIVPTRELALQTSQICIELAKHLNVKVMVTTGGTNLRDDIMRIYQKVHLIIATPGRILD 87
L++ PTREL Q + ++ ++++ KV GG + I R+ + +++ATPGR+LD
Sbjct: 60 LVVTPTRELTRQVASHIRDIGRYMDTKVAEVYGGMPYKAQINRV-RNADIVVATPGRLLD 118
Query: 88 LMDKQVANMDHCKILVLDEADKLLSQDFKGMLDHVISILPHERQILLYSATFPLTVKNFM 147
L K V ++ +I+++DEAD + F + +++ + + L+SAT P ++ +
Sbjct: 119 LWSKGVIDLSSFEIVIIDEADLMFEMGFIDDIKIILAQTSNRKITGLFSATIPEEIRKVV 178
Query: 148 EKHLKDPYEINLMEELTLKGVTQYYAFVQERQKVHCLNTLFSKLQINQSIIFCNSTQRVE 207
+ + + EI + L V + V++ + + + I+F + RV
Sbjct: 179 KDFITNYEEIEA--CIGLANVEHKFVHVKDDWRSKVQ--ALRENKDKGVIVFVRTRNRVA 234
Query: 208 LLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSDLFTRGIDVQAVNVVIN 267
L + + + Q+ RNR FR G L+ +D+ +RG+D+ V VIN
Sbjct: 235 KLVRL----FDNAIELRGDLPQSVRNRNIDAFREGEYDMLITTDVASRGLDIPLVEKVIN 290
Query: 268 FDFPKMAETYLHRIGRSGRYGHLGIAINLITYEDRYALHRIEK 310
FD P+ TY+HRIGR+GR G G AI I E ++K
Sbjct: 291 FDAPQDLRTYIHRIGRTGRMGRKGEAITFILNEYWL-EKEVKK 332
>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 = 234 bits (600), Expect = 4e-74
Identities = 83/276 (30%), Positives = 147/276 (53%), Gaps = 4/276 (1%)
Query: 28 LIIVPTRELALQTSQICIELAKHLNVKVMVTTGGTNLRDDIMRIYQKVHLIIATPGRILD 87
+I+ PTRELA+Q + A +K+ + GGT+ R I + H++IATPGR+LD
Sbjct: 133 VIVSPTRELAIQIFNEARKFAFESYLKIGIVYGGTSFRHQNECITRGCHVVIATPGRLLD 192
Query: 88 LMDKQVANMDHCKILVLDEADKLLSQDFKGMLDHVIS--ILPHERQILLYSATFPLTVKN 145
+D+ + + +VLDEAD++L F + +++ + E Q L++SATFP ++
Sbjct: 193 FVDRTFITFEDTRFVVLDEADRMLDMGFSEDMRRIMTHVTMRPEHQTLMFSATFPEEIQR 252
Query: 146 FMEKHLKDPYEINL-MEELTLKGVTQYYAFVQERQKVHCLNTLFSKLQINQSIIFCNSTQ 204
+ LK+ + + + V Q V + K L + S+ Q + +I+F + +
Sbjct: 253 MAGEFLKNYVFVAIGIVGGACSDVKQTIYEVNKYAKRSKLIEILSE-QADGTIVFVETKR 311
Query: 205 RVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSDLFTRGIDVQAVNV 264
+ LA ++E + IH Q+ R + DF++G + L+ + + +RG+D++ +
Sbjct: 312 GADFLASFLSEKEFPTTSIHGDRLQSQREQALRDFKNGSMKVLIATSVASRGLDIKNIKH 371
Query: 265 VINFDFPKMAETYLHRIGRSGRYGHLGIAINLITYE 300
VIN+D P + Y+HRIGR+GR G+ G A + E
Sbjct: 372 VINYDMPSKIDDYVHRIGRTGRVGNNGRATSFFDPE 407
>2i4i_A ATP-dependent RNA helicase DDX3X; DEAD, structural genomics, SGC,
structural GE consortium, hydrolase; HET: AMP; 2.20A
{Homo sapiens}
Length = 417
Score = 233 bits (597), Expect = 8e-74
Identities = 88/281 (31%), Positives = 144/281 (51%), Gaps = 6/281 (2%)
Query: 28 LIIVPTRELALQTSQICIELAKHLNVKVMVTTGGTNLRDDIMRIYQKVHLIIATPGRILD 87
L++ PTRELA+Q + + + V+ V GG ++ I + + HL++ATPGR++D
Sbjct: 105 LVLAPTRELAVQIYEEARKFSYRSRVRPCVVYGGADIGQQIRDLERGCHLLVATPGRLVD 164
Query: 88 LMDKQVANMDHCKILVLDEADKLLSQDFKGMLDHVISIL----PHERQILLYSATFPLTV 143
+M++ +D CK LVLDEAD++L F+ + ++ R +++SATFP +
Sbjct: 165 MMERGKIGLDFCKYLVLDEADRMLDMGFEPQIRRIVEQDTMPPKGVRHTMMFSATFPKEI 224
Query: 144 KNFMEKHLKDPYEINL-MEELTLKGVTQYYAFVQERQKVHCLNTLFSKLQINQS-IIFCN 201
+ L + + + T + +TQ +V+E K L L + + ++F
Sbjct: 225 QMLARDFLDEYIFLAVGRVGSTSENITQKVVWVEESDKRSFLLDLLNATGKDSLTLVFVE 284
Query: 202 STQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSDLFTRGIDVQA 261
+ + + L + GY C IH +Q R H FRSG LV + + RG+D+
Sbjct: 285 TKKGADSLEDFLYHEGYACTSIHGDRSQRDREEALHQFRSGKSPILVATAVAARGLDISN 344
Query: 262 VNVVINFDFPKMAETYLHRIGRSGRYGHLGIAINLITYEDR 302
V VINFD P E Y+HRIGR+GR G+LG+A + +
Sbjct: 345 VKHVINFDLPSDIEEYVHRIGRTGRVGNLGLATSFFNERNI 385
>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 = 200 bits (511), Expect = 1e-63
Identities = 92/146 (63%), Positives = 115/146 (78%), Gaps = 2/146 (1%)
Query: 14 LNKLTPAKITSKATLIIVPTRELALQTSQICIELAKHL-NVKVMVTTGGTNLRDDIMRIY 72
L +L K +A ++IVPTRELALQ SQICI+++KH+ KVM TTGGTNLRDDIMR+
Sbjct: 62 LERLDLKKDNIQA-MVIVPTRELALQVSQICIQVSKHMGGAKVMATTGGTNLRDDIMRLD 120
Query: 73 QKVHLIIATPGRILDLMDKQVANMDHCKILVLDEADKLLSQDFKGMLDHVISILPHERQI 132
VH++IATPGRILDL+ K VA +DH +++VLDEADKLLSQDF +++ +I LP RQI
Sbjct: 121 DTVHVVIATPGRILDLIKKGVAKVDHVQMIVLDEADKLLSQDFVQIMEDIILTLPKNRQI 180
Query: 133 LLYSATFPLTVKNFMEKHLKDPYEIN 158
LLYSATFPL+V+ FM HL+ PYEIN
Sbjct: 181 LLYSATFPLSVQKFMNSHLEKPYEIN 206
>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 = 188 bits (479), Expect = 1e-58
Identities = 48/148 (32%), Positives = 85/148 (57%), Gaps = 4/148 (2%)
Query: 14 LNKLTPAKITSKATLIIVPTRELALQTSQICIELAKHL-NVKVMVTTGGTNLRDDIMRIY 72
L+ L ++++ LI+ PTRE+A+Q + + + ++ V GGT L D R+
Sbjct: 83 LDSLVLENLSTQI-LILAPTREIAVQIHSVITAIGIKMEGLECHVFIGGTPLSQDKTRL- 140
Query: 73 QKVHLIIATPGRILDLMDKQVANMDHCKILVLDEADKLLSQ-DFKGMLDHVISILPHERQ 131
+K H+ + +PGRI L++ N ++ +LDEADKLL + F+ ++ + S LP +Q
Sbjct: 141 KKCHIAVGSPGRIKQLIELDYLNPGSIRLFILDEADKLLEEGSFQEQINWIYSSLPASKQ 200
Query: 132 ILLYSATFPLTVKNFMEKHLKDPYEINL 159
+L SAT+P + N + K+++DP + L
Sbjct: 201 MLAVSATYPEFLANALTKYMRDPTFVRL 228
>2hjv_A ATP-dependent RNA helicase DBPA; parallel alpha-beta, hydrolase;
1.95A {Bacillus subtilis}
Length = 163
Score = 179 bits (457), Expect = 3e-56
Identities = 57/160 (35%), Positives = 89/160 (55%)
Query: 161 EELTLKGVTQYYAFVQERQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCC 220
LT + + V+E K L + + IIFC + + V L ++ +LGY C
Sbjct: 3 AGLTTRNIEHAVIQVREENKFSLLKDVLMTENPDSCIIFCRTKEHVNQLTDELDDLGYPC 62
Query: 221 YYIHARMAQAHRNRVFHDFRSGLCRNLVCSDLFTRGIDVQAVNVVINFDFPKMAETYLHR 280
IH M Q R V ++F+ G R LV +D+ RGID++ +++VIN+D P E+Y+HR
Sbjct: 63 DKIHGGMIQEDRFDVMNEFKRGEYRYLVATDVAARGIDIENISLVINYDLPLEKESYVHR 122
Query: 281 IGRSGRYGHLGIAINLITYEDRYALHRIEKELGTEIKSIP 320
GR+GR G+ G AI+ +T ++ L IE+ +G EI+ I
Sbjct: 123 TGRTGRAGNKGKAISFVTAFEKRFLADIEEYIGFEIQKIE 162
>3oiy_A Reverse gyrase helicase domain; topoisomerase, DNA supercoiling,
archaea, isomeras; 2.35A {Thermotoga maritima} PDB:
3p4y_A 3p4x_A*
Length = 414
Score = 183 bits (467), Expect = 1e-54
Identities = 49/330 (14%), Positives = 107/330 (32%), Gaps = 47/330 (14%)
Query: 27 TLIIVPTRELALQTSQICIELAKHLNVKVMVTTGGTNLRDDIMRI----YQKVHLIIATP 82
+ ++ PT L QT + +LA VK+ + H+++ +
Sbjct: 67 SALVFPTVTLVKQTLERLQKLADE-KVKIFGFYSSMKKEEKEKFEKSFEEDDYHILVFST 125
Query: 83 GRILDLMDKQVANMDHCKILVLDEADKLLSQDFKGMLDHVISILPHERQILLYSATFPLT 142
+ +K + + +D+ D +L ++ +P E +S
Sbjct: 126 QFVSKNREK--LSQKRFDFVFVDDVDAVLKASRNIDTLLMMVGIPEEIIRKAFSTIKQGK 183
Query: 143 VKNFMEKHLKDPYEIN------------LMEEL----------TLKGVTQYYAFVQERQK 180
+ + ++ L +L + +T + ++K
Sbjct: 184 IYERPKNLKPGILVVSSATAKPRGIRPLLFRDLLNFTVGRLVSVARNITHVRISSRSKEK 243
Query: 181 VHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFR 240
+ L +F +IF + + + L + + + + + F DF+
Sbjct: 244 LVELLEIFRD----GILIFAQTEEEGKELYEYLKRFK-----FNVGETWSEFEKNFEDFK 294
Query: 241 SGLCRNLVCSDLFT----RGIDV-QAVNVVINFDFPKM--AETYLHRIGRSGR--YGHLG 291
G L+ + RG+D+ + + VI + P TY+ GRS R G L
Sbjct: 295 VGKINILIGVQAYYGKLTRGVDLPERIKYVIFWGTPSGPDVYTYIQASGRSSRILNGVLV 354
Query: 292 IAINLITYEDRYALHRIEKELGTEIKSIPK 321
+++I ED ++ L +
Sbjct: 355 KGVSVIFEEDEEIFESLKTRLLLIAEEEII 384
>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 = 168 bits (427), Expect = 8e-51
Identities = 50/140 (35%), Positives = 85/140 (60%), Gaps = 2/140 (1%)
Query: 28 LIIVPTRELALQTSQICIELAKHLNVKVMVTTGGTNLRDDIMRIYQKVHLIIATPGRILD 87
L++ PTRELALQ ++ + LA H+++KV GGT+ +D + + +++ TPGR+ D
Sbjct: 86 LMLAPTRELALQIQKVVMALAFHMDIKVHACIGGTSFVEDAEGL-RDAQIVVGTPGRVFD 144
Query: 88 LMDKQVANMDHCKILVLDEADKLLSQDFKGMLDHVISILPHERQILLYSATFPLTVKNFM 147
+ ++ D K+ +LDEAD++LS FK + + ++LP Q++L SAT P V
Sbjct: 145 NIQRRRFRTDKIKMFILDEADEMLSSGFKEQIYQIFTLLPPTTQVVLLSATMPNDVLEVT 204
Query: 148 EKHLKDPYEINL-MEELTLK 166
K +++P I + +ELTL+
Sbjct: 205 TKFMRNPVRILVKKDELTLE 224
>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 = 164 bits (418), Expect = 2e-49
Identities = 47/150 (31%), Positives = 87/150 (58%), Gaps = 2/150 (1%)
Query: 14 LNKLTPAKITSKATLIIVPTRELALQTSQICIELAKHLNVKVMVTTGGTNLRDDIMRI-Y 72
L +L ++A L++ PTRELA Q ++ + L ++ GGTN+R+++ ++
Sbjct: 89 LQQLEIEFKETQA-LVLAPTRELAQQIQKVILALGDYMGATCHACIGGTNVRNEMQKLQA 147
Query: 73 QKVHLIIATPGRILDLMDKQVANMDHCKILVLDEADKLLSQDFKGMLDHVISILPHERQI 132
+ H+++ TPGR+ D+++++ + K+ VLDEAD++LS+ FK + + L Q+
Sbjct: 148 EAPHIVVGTPGRVFDMLNRRYLSPKWIKMFVLDEADEMLSRGFKDQIYEIFQKLNTSIQV 207
Query: 133 LLYSATFPLTVKNFMEKHLKDPYEINLMEE 162
+L SAT P V +K ++DP I + +E
Sbjct: 208 VLLSATMPTDVLEVTKKFMRDPIRILVKKE 237
>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 = 162 bits (411), Expect = 1e-47
Identities = 48/140 (34%), Positives = 69/140 (49%), Gaps = 10/140 (7%)
Query: 28 LIIVPTRELALQTSQICIELAKHL-NVKVMVTTGGTNLRDDIMRIYQKVHLIIATPGRIL 86
L + PT ELALQT ++ ++ K +K+ G L ++I TPG +L
Sbjct: 166 LCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLERGQKI---SEQIVIGTPGTVL 222
Query: 87 DLMDKQ-VANMDHCKILVLDEADKLLSQDFKGMLDHVISI---LPHERQILLYSATFPLT 142
D K + K+ VLDEAD +++ +G D I I LP Q+LL+SATF +
Sbjct: 223 DWCSKLKFIDPKKIKVFVLDEADVMIAT--QGHQDQSIRIQRMLPRNCQMLLFSATFEDS 280
Query: 143 VKNFMEKHLKDPYEINLMEE 162
V F +K + DP I L E
Sbjct: 281 VWKFAQKVVPDPNVIKLKRE 300
>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 = 145 bits (367), Expect = 1e-42
Identities = 52/153 (33%), Positives = 75/153 (49%), Gaps = 1/153 (0%)
Query: 166 KGVTQYYAFVQER-QKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIH 224
K + Q+Y + K L L + + +SI+F +RV LA + E G Y+
Sbjct: 2 KKIHQWYYRADDLEHKTALLVHLLKQPEATRSIVFVRKRERVHELANWLREAGINNCYLE 61
Query: 225 ARMAQAHRNRVFHDFRSGLCRNLVCSDLFTRGIDVQAVNVVINFDFPKMAETYLHRIGRS 284
M Q RN G LV +D+ RGID+ V+ V NFD P+ +TYLHRIGR+
Sbjct: 62 GEMVQGKRNEAIKRLTEGRVNVLVATDVAARGIDIPDVSHVFNFDMPRSGDTYLHRIGRT 121
Query: 285 GRYGHLGIAINLITYEDRYALHRIEKELGTEIK 317
R G G AI+L+ D L ++ + + IK
Sbjct: 122 ARAGRKGTAISLVEAHDHLLLGKVGRYIEEPIK 154
>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 = 144 bits (366), Expect = 1e-41
Identities = 54/154 (35%), Positives = 89/154 (57%), Gaps = 4/154 (2%)
Query: 10 QFLYLNKLTPAKITSKATLIIVPTRELALQTSQICIELAKHLNVKVMVTTGGTNLRDDIM 69
+ LY + T LII PTRELA QT ++ ++ K+ + + GG +L+ +
Sbjct: 85 EALYRLQWTSTDGL--GVLIISPTRELAYQTFEVLRKVGKNHDFSAGLIIGGKDLKHEAE 142
Query: 70 RIYQKVHLIIATPGRILDLMDKQVA-NMDHCKILVLDEADKLLSQDFKGMLDHVISILPH 128
RI +++++ TPGR+L MD+ V+ + ++LVLDEAD++L F ++ VI LP
Sbjct: 143 RI-NNINILVCTPGRLLQHMDETVSFHATDLQMLVLDEADRILDMGFADTMNAVIENLPK 201
Query: 129 ERQILLYSATFPLTVKNFMEKHLKDPYEINLMEE 162
+RQ LL+SAT +VK+ LK+P + + E+
Sbjct: 202 KRQTLLFSATQTKSVKDLARLSLKNPEYVWVHEK 235
>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 = 141 bits (358), Expect = 1e-40
Identities = 51/147 (34%), Positives = 83/147 (56%), Gaps = 4/147 (2%)
Query: 14 LNKLTPAKITSKATLIIVPTRELALQTSQICIELAKHL-NVKVMVTTGGTNLRDDIMRIY 72
L +L P L++ TRELA Q S+ +K++ NVKV V GG +++ D +
Sbjct: 73 LQQLEPVTGQVSV-LVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEVLK 131
Query: 73 QKV-HLIIATPGRILDLMDKQVANMDHCKILVLDEADKLLSQ-DFKGMLDHVISILPHER 130
+ H+++ TPGRIL L + N+ H K +LDE DK+L Q D + + + + PHE+
Sbjct: 132 KNCPHIVVGTPGRILALARNKSLNLKHIKHFILDECDKMLEQLDMRRDVQEIFRMTPHEK 191
Query: 131 QILLYSATFPLTVKNFMEKHLKDPYEI 157
Q++++SAT ++ K ++DP EI
Sbjct: 192 QVMMFSATLSKEIRPVCRKFMQDPMEI 218
>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 = 141 bits (358), Expect = 3e-40
Identities = 49/150 (32%), Positives = 79/150 (52%), Gaps = 4/150 (2%)
Query: 10 QFLYLNKLTPAKITSKATLIIVPTRELALQTSQICIELAKHLNVKVMVTTGGTNLRDDIM 69
+ + + P T LI+ PTRELA+QT + EL H + GG+N +
Sbjct: 114 ELIVKLRFMPRNGT--GVLILSPTRELAMQTFGVLKELMTHHVHTYGLIMGGSNRSAEAQ 171
Query: 70 RIYQKVHLIIATPGRILDLMDKQVA-NMDHCKILVLDEADKLLSQDFKGMLDHVISILPH 128
++ +++I+ATPGR+LD M + + LV+DEAD++L F+ L +I +LP
Sbjct: 172 KLGNGINIIVATPGRLLDHMQNTPGFMYKNLQCLVIDEADRILDVGFEEELKQIIKLLPT 231
Query: 129 ERQILLYSATFPLTVKNFMEKHL-KDPYEI 157
RQ +L+SAT V++ L K+P +
Sbjct: 232 RRQTMLFSATQTRKVEDLARISLKKEPLYV 261
>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 = 140 bits (356), Expect = 4e-40
Identities = 50/145 (34%), Positives = 81/145 (55%), Gaps = 2/145 (1%)
Query: 14 LNKLTPAKITSKATLIIVPTRELALQTSQICIELAKHLNVKVMVTTGGTNLRDDIMRIYQ 73
LN L A L++ PTRELA Q S+ L + V+ V GG + + + +
Sbjct: 102 LNALLETPQRLFA-LVLTPTRELAFQISEQFEALGSSIGVQSAVIVGGIDSMSQSLALAK 160
Query: 74 KVHLIIATPGRILDLMDKQVA-NMDHCKILVLDEADKLLSQDFKGMLDHVISILPHERQI 132
K H+IIATPGR++D ++ N+ K LV+DEAD++L+ DF+ +D ++ ++P +R+
Sbjct: 161 KPHIIIATPGRLIDHLENTKGFNLRALKYLVMDEADRILNMDFETEVDKILKVIPRDRKT 220
Query: 133 LLYSATFPLTVKNFMEKHLKDPYEI 157
L+SAT V+ LK+P +
Sbjct: 221 FLFSATMTKKVQKLQRAALKNPVKC 245
>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 = 134 bits (340), Expect = 3e-38
Identities = 42/153 (27%), Positives = 76/153 (49%)
Query: 168 VTQYYAFVQERQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARM 227
+ R ++ L+ L +++++F + E +A+ + LG+ +H +
Sbjct: 6 YEEEAVPAPVRGRLEVLSDLLYVASPDRAMVFTRTKAETEEIAQGLLRLGHPAQALHGDL 65
Query: 228 AQAHRNRVFHDFRSGLCRNLVCSDLFTRGIDVQAVNVVINFDFPKMAETYLHRIGRSGRY 287
+Q R RV FR G R LV +D+ RG+D+ V++V+++ P AE Y HR GR+GR
Sbjct: 66 SQGERERVLGAFRQGEVRVLVATDVAARGLDIPQVDLVVHYRLPDRAEAYQHRSGRTGRA 125
Query: 288 GHLGIAINLITYEDRYALHRIEKELGTEIKSIP 320
G G + L +R + +E+ +G K +
Sbjct: 126 GRGGRVVLLYGPRERRDVEALERAVGRRFKRVN 158
>1q0u_A Bstdead; DEAD protein, RNA binding protein; 1.85A {Geobacillus
stearothermophilus} SCOP: c.37.1.19
Length = 219
Score = 133 bits (336), Expect = 2e-37
Identities = 45/148 (30%), Positives = 84/148 (56%), Gaps = 5/148 (3%)
Query: 14 LNKLTPAKITSKATLIIVPTRELALQTSQICIELAKHL----NVKVMVTTGGTNLRDDIM 69
+ K+ P + +A +I PTRELA Q +++ K + GGT+ + +
Sbjct: 63 MEKIKPERAEVQA-VITAPTRELATQIYHETLKITKFCPKDRMIVARCLIGGTDKQKALE 121
Query: 70 RIYQKVHLIIATPGRILDLMDKQVANMDHCKILVLDEADKLLSQDFKGMLDHVISILPHE 129
++ + H++I TPGRI D + +Q ++ ILV+DEAD +L F +D + + +P +
Sbjct: 122 KLNVQPHIVIGTPGRINDFIREQALDVHTAHILVVDEADLMLDMGFITDVDQIAARMPKD 181
Query: 130 RQILLYSATFPLTVKNFMEKHLKDPYEI 157
Q+L++SAT P +K F++K++++P +
Sbjct: 182 LQMLVFSATIPEKLKPFLKKYMENPTFV 209
>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 = 134 bits (340), Expect = 3e-37
Identities = 43/153 (28%), Positives = 76/153 (49%)
Query: 168 VTQYYAFVQERQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARM 227
+ R ++ L+ L +++++F + E +A+ + LG+ +H M
Sbjct: 3 YEEEAVPAPVRGRLEVLSDLLYVASPDRAMVFTRTKAETEEIAQGLLRLGHPAQALHGDM 62
Query: 228 AQAHRNRVFHDFRSGLCRNLVCSDLFTRGIDVQAVNVVINFDFPKMAETYLHRIGRSGRY 287
+Q R RV FR G R LV +D+ RG+D+ V++V+++ P AE Y HR GR+GR
Sbjct: 63 SQGERERVMGAFRQGEVRVLVATDVAARGLDIPQVDLVVHYRMPDRAEAYQHRSGRTGRA 122
Query: 288 GHLGIAINLITYEDRYALHRIEKELGTEIKSIP 320
G G + L +R + +E+ +G K +
Sbjct: 123 GRGGRVVLLYGPRERRDVEALERAVGRRFKRVN 155
>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 = 131 bits (333), Expect = 3e-37
Identities = 51/146 (34%), Positives = 82/146 (56%), Gaps = 4/146 (2%)
Query: 14 LNKLTPAKITSKA--TLIIVPTRELALQTSQICIELAKHLNVKVMVTTGGTNLRDDIMRI 71
+L P++ + L++ PTRELALQ + +A HL KV+ GGT +
Sbjct: 60 AERLAPSQERGRKPRALVLTPTRELALQVASELTAVAPHL--KVVAVYGGTGYGKQKEAL 117
Query: 72 YQKVHLIIATPGRILDLMDKQVANMDHCKILVLDEADKLLSQDFKGMLDHVISILPHERQ 131
+ ++ATPGR LD + + V ++ ++ VLDEAD++LS F+ ++ ++S P RQ
Sbjct: 118 LRGADAVVATPGRALDYLRQGVLDLSRVEVAVLDEADEMLSMGFEEEVEALLSATPPSRQ 177
Query: 132 ILLYSATFPLTVKNFMEKHLKDPYEI 157
LL+SAT P K E+++K+P I
Sbjct: 178 TLLFSATLPSWAKRLAERYMKNPVLI 203
>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 = 131 bits (332), Expect = 1e-36
Identities = 32/140 (22%), Positives = 65/140 (46%), Gaps = 11/140 (7%)
Query: 28 LIIVPTRELALQTSQICIELAKHLNVKVMVTTGGTNLRDDIMR-IYQKVHLIIATPGRIL 86
LII PTRELA Q + I++++ ++ + +K +++ TP R++
Sbjct: 102 LIISPTRELASQIHRELIKISEGTGFRIHMIHKAAVAAKKFGPKSSKKFDILVTTPNRLI 161
Query: 87 DLM--DKQVANMDHCKILVLDEADKLLSQDFKGM-----LDHVIS-ILPHERQILLYSAT 138
L+ D ++ + LV+DE+DKL + L + H+ + ++SAT
Sbjct: 162 YLLKQDPPGIDLASVEWLVVDESDKLF--EDGKTGFRDQLASIFLACTSHKVRRAMFSAT 219
Query: 139 FPLTVKNFMEKHLKDPYEIN 158
F V+ + + +L + ++
Sbjct: 220 FAYDVEQWCKLNLDNVISVS 239
>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 = 128 bits (325), Expect = 1e-35
Identities = 46/131 (35%), Positives = 71/131 (54%)
Query: 28 LIIVPTRELALQTSQICIELAKHLNVKVMVTTGGTNLRDDIMRIYQKVHLIIATPGRILD 87
L++ PTRELA Q Q+ E + +K GG I + + V + IATPGR++D
Sbjct: 106 LVLAPTRELAQQVQQVAAEYCRACRLKSTCIYGGAPKGPQIRDLERGVEICIATPGRLID 165
Query: 88 LMDKQVANMDHCKILVLDEADKLLSQDFKGMLDHVISILPHERQILLYSATFPLTVKNFM 147
++ N+ LVLDEAD++L F+ + ++ + +RQ L++SAT+P V+
Sbjct: 166 FLECGKTNLRRTTYLVLDEADRMLDMGFEPQIRKIVDQIRPDRQTLMWSATWPKEVRQLA 225
Query: 148 EKHLKDPYEIN 158
E LKD IN
Sbjct: 226 EDFLKDYIHIN 236
>2p6n_A ATP-dependent RNA helicase DDX41; DEAD, structural genomics,
structural genomic consortium, SGC, hydrolase; 2.60A
{Homo sapiens}
Length = 191
Score = 124 bits (314), Expect = 1e-34
Identities = 46/163 (28%), Positives = 68/163 (41%), Gaps = 9/163 (5%)
Query: 147 MEKHLKDPYEINLMEELTLKG--------VTQYYAFVQERQKVHCLNTLFSKLQINQSII 198
M H ++L E V Q +V+E K+ L K +I
Sbjct: 1 MHHHHHHSSGVDLGTENLYFQSMGAASLDVIQEVEYVKEEAKMVYLLECLQKTP-PPVLI 59
Query: 199 FCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSDLFTRGID 258
F V+ + + + G IH Q R + FR G LV +D+ ++G+D
Sbjct: 60 FAEKKADVDAIHEYLLLKGVEAVAIHGGKDQEERTKAIEAFREGKKDVLVATDVASKGLD 119
Query: 259 VQAVNVVINFDFPKMAETYLHRIGRSGRYGHLGIAINLITYED 301
A+ VIN+D P+ E Y+HRIGR+G G+ GIA I
Sbjct: 120 FPAIQHVINYDMPEEIENYVHRIGRTGCSGNTGIATTFINKAC 162
>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 = 123 bits (311), Expect = 9e-34
Identities = 47/131 (35%), Positives = 72/131 (54%), Gaps = 1/131 (0%)
Query: 28 LIIVPTRELALQTSQICIELAKHLNVKVMVTTGGTNLRDDIMRIYQKVHLIIATPGRILD 87
L++ PTRELAL C + + +K + GG N I I + V +IIATPGR+ D
Sbjct: 98 LVLTPTRELALHVEAECSKYSY-KGLKSICIYGGRNRNGQIEDISKGVDIIIATPGRLND 156
Query: 88 LMDKQVANMDHCKILVLDEADKLLSQDFKGMLDHVISILPHERQILLYSATFPLTVKNFM 147
L N+ LV+DEADK+L +F+ + ++ + +RQ ++ SAT+P TV+
Sbjct: 157 LQMNNSVNLRSITYLVIDEADKMLDMEFEPQIRKILLDVRPDRQTVMTSATWPDTVRQLA 216
Query: 148 EKHLKDPYEIN 158
+LKDP +
Sbjct: 217 LSYLKDPMIVY 227
>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 = 123 bits (311), Expect = 2e-33
Identities = 41/135 (30%), Positives = 72/135 (53%), Gaps = 4/135 (2%)
Query: 28 LIIVPTRELALQTSQICIELAKHLNVKVMVTTGGTNLRDDIMRIYQKVHLIIATPGRILD 87
LI+ PTRELA+Q + + + ++ V GG + I + HL++ATPGR++D
Sbjct: 104 LILAPTRELAIQILSESQKFSLNTPLRSCVVYGGADTHSQIREVQMGCHLLVATPGRLVD 163
Query: 88 LMDKQVANMDHCKILVLDEADKLLSQDF----KGMLDHVISILPHERQILLYSATFPLTV 143
++K +++ CK +VLDEAD++L F + +++ RQ L++SATFP +
Sbjct: 164 FIEKNKISLEFCKYIVLDEADRMLDMGFEPQIRKIIEESNMPSGINRQTLMFSATFPKEI 223
Query: 144 KNFMEKHLKDPYEIN 158
+ L + +
Sbjct: 224 QKLAADFLYNYIFMT 238
>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 = 120 bits (304), Expect = 3e-33
Identities = 46/136 (33%), Positives = 69/136 (50%), Gaps = 1/136 (0%)
Query: 168 VTQYYAFVQERQKVHCLNTLFSKLQINQ-SIIFCNSTQRVELLAKKITELGYCCYYIHAR 226
+TQ +V+E K L L + + +++F + + + L + GY C IH
Sbjct: 20 ITQKVVWVEESDKRSFLLDLLNATGKDSLTLVFVETKKGADSLEDFLYHEGYACTSIHGD 79
Query: 227 MAQAHRNRVFHDFRSGLCRNLVCSDLFTRGIDVQAVNVVINFDFPKMAETYLHRIGRSGR 286
+Q R H FRSG LV + + RG+D+ V VINFD P E Y+HRIGR+GR
Sbjct: 80 RSQRDREEALHQFRSGKSPILVATAVAARGLDISNVKHVINFDLPSDIEEYVHRIGRTGR 139
Query: 287 YGHLGIAINLITYEDR 302
G+LG+A + +
Sbjct: 140 VGNLGLATSFFNERNI 155
>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 = 81.8 bits (201), Expect = 3e-17
Identities = 53/322 (16%), Positives = 109/322 (33%), Gaps = 35/322 (10%)
Query: 5 RQEPTQFLYLNKLTPAKITSKATLIIVPTRELALQTSQICIELAKHLNVKVMVTTGGTNL 64
R E + + + L + L + L ++ ++
Sbjct: 188 RSENSPDVRPYVKGIRFEWVRVDLPEIYKEVRKLLREMLRDALKPLAETGLLESSSPDIP 247
Query: 65 RDDIMRIYQKVHLIIATPGRILDLMDKQVANMDHCKILVLDEADKLLSQDFKGMLDHVIS 124
+ +++R Q ++ +A D + + H L L A +LL L I
Sbjct: 248 KKEVLRAGQIINEEMAKGNH-----DLRGLLLYHAMALKLHHAIELLETQGLSALRAYIK 302
Query: 125 ILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQYYAFVQERQKVHCL 184
L E + A+ + D + L Q + K+ L
Sbjct: 303 KLYEEAKAGSTKASKEI---------FSDKRMKKAISLLV-----QAKEIGLDHPKMDKL 348
Query: 185 NTL----FSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIH--------ARMAQAHR 232
+ + Q ++ I+F N + + + ++ + G ++Q +
Sbjct: 349 KEIIREQLQRKQNSKIIVFTNYRETAKKIVNELVKDGIKAKRFVGQASKENDRGLSQREQ 408
Query: 233 NRVFHDFRSGLCRNLVCSDLFTRGIDVQAVNVVINFDFPKMAETYLHRIGRSGRYGHLGI 292
+ +F G LV + + G+DV V++V+ ++ A + R GR+GR+ G
Sbjct: 409 KLILDEFARGEFNVLVATSVGEEGLDVPEVDLVVFYEPVPSAIRSIQRRGRTGRHMP-GR 467
Query: 293 AINLI---TYEDRYALHRIEKE 311
I L+ T ++ Y +KE
Sbjct: 468 VIILMAKGTRDEAYYWSSRQKE 489
Score = 57.9 bits (139), Expect = 2e-09
Identities = 37/299 (12%), Positives = 96/299 (32%), Gaps = 11/299 (3%)
Query: 27 TLIIVPTRELALQTSQICIELAKHLNVKVMVTTGGTNLRDDIMRIYQKVHLIIATPGRIL 86
L++ PT+ L LQ ++ L K++ TG + ++ + + + +I+ATP I
Sbjct: 55 VLMLAPTKPLVLQHAESFRRLFNLPPEKIVALTGEKS-PEERSKAWARAKVIVATPQTIE 113
Query: 87 DLMDKQVANMDHCKILVLDEADKLLSQDFKGMLDHVISILPHERQILLYSATFPLTVKNF 146
+ + +++ ++V DEA + + + ++ +A+ T +
Sbjct: 114 NDLLAGRISLEDVSLIVFDEAHRAVGNYAYVFIAREYKRQAKNPLVIGLTASPGSTPEKI 173
Query: 147 MEKHLKDPYEINLMEELTLKGVTQYYAFVQERQKVHCLNTLFSKLQINQSIIFCNSTQRV 206
ME IN + ++ ++ V+ K + L + + +
Sbjct: 174 ME-------VINNLGIEHIEYRSENSPDVRPYVKGIRFEWVRVDLPEIYKEVRKLLREML 226
Query: 207 ELLAKKITELGYCCYY---IHARMAQAHRNRVFHDFRSGLCRNLVCSDLFTRGIDVQAVN 263
K + E G I + + + G + +
Sbjct: 227 RDALKPLAETGLLESSSPDIPKKEVLRAGQIINEEMAKGNHDLRGLLLYHAMALKLHHAI 286
Query: 264 VVINFDFPKMAETYLHRIGRSGRYGHLGIAINLITYEDRYALHRIEKELGTEIKSIPKV 322
++ Y+ ++ + G + + + + + + PK+
Sbjct: 287 ELLETQGLSALRAYIKKLYEEAKAGSTKASKEIFSDKRMKKAISLLVQAKEIGLDHPKM 345
>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 = 60.9 bits (147), Expect = 3e-10
Identities = 25/116 (21%), Positives = 45/116 (38%), Gaps = 3/116 (2%)
Query: 176 QERQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITE-LGYCCYYIHARMAQAHRNR 234
+V L + + + ++ C L + + E G H M+ R+R
Sbjct: 486 NFDPRVEWLMGYLTSHRSQKVLVICAKAATALQLEQVLREREGIRAAVFHEGMSIIERDR 545
Query: 235 VFHDFRS--GLCRNLVCSDLFTRGIDVQAVNVVINFDFPKMAETYLHRIGRSGRYG 288
F + L+CS++ + G + Q + ++ FD P + RIGR R G
Sbjct: 546 AAAWFAEEDTGAQVLLCSEIGSEGRNFQFASHMVMFDLPFNPDLLEQRIGRLDRIG 601
>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 = 60.3 bits (145), Expect = 4e-10
Identities = 51/338 (15%), Positives = 105/338 (31%), Gaps = 95/338 (28%)
Query: 89 MDKQVANMDHC--KILVLDEADKLLSQDFKGMLDHVISIL-----------PHERQ---- 131
MD + + IL + E + + D K + D SIL
Sbjct: 7 MDFETGEHQYQYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLR 66
Query: 132 ---ILLYSATFPLTVKNFMEKHLKDPYEINLMEEL---TLKGVTQYYAFVQERQKVHCLN 185
LL V+ F+E+ L+ Y+ LM + + ++++R +++ N
Sbjct: 67 LFWTLLSKQE--EMVQKFVEEVLRINYKF-LMSPIKTEQRQPSMMTRMYIEQRDRLYNDN 123
Query: 186 TLFSK------------------LQINQSIIF---------------CNSTQRVELLAKK 212
+F+K L+ ++++ C S + + K
Sbjct: 124 QVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFK 183
Query: 213 I--TELGYC-------------CYYI----HARMAQAHRNRV-FHDFRSGLCRNLVCSDL 252
I L C Y I +R + ++ H ++ L R L+ S
Sbjct: 184 IFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAEL-RRLLKSKP 242
Query: 253 FTRGI----DVQAVNVVINFDFP-KMAET----YLHRIGRSGRYGHLGIAINLITYEDRY 303
+ + +VQ F+ K+ T + + H+ + + +T
Sbjct: 243 YENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDE 302
Query: 304 ALHRIEKELGTEIKSIPKV---IDP---ALYVARPEDM 335
+ K L + +P+ +P ++ D
Sbjct: 303 VKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDG 340
Score = 50.6 bits (120), Expect = 5e-07
Identities = 45/286 (15%), Positives = 89/286 (31%), Gaps = 72/286 (25%)
Query: 46 ELAKHLNV--KVMVTTGGTNLRDDIMRIYQKVHLIIATPGRILDLMDKQVANMDHCKILV 103
+ N+ K+++TT + D + ++ H L
Sbjct: 257 KAWNAFNLSCKILLTTRFKQVTDFLSAATT-----------------THISLDHHSMTLT 299
Query: 104 LDEADKLLSQDFKGMLDHVISILPHE------RQILLYSAT---FPLTVKNFMEKHLK-D 153
DE LL + LD LP E R++ + + + T N+ KH+ D
Sbjct: 300 PDEVKSLLLK----YLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNW--KHVNCD 353
Query: 154 PYE------INLMEELTLKGVTQYYAFV--QERQKV--HCLNTLFSKLQINQSIIFCNST 203
+N++E + + + L+ ++ + + ++ N
Sbjct: 354 KLTTIIESSLNVLEPAEYR--KMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKL 411
Query: 204 QRVELLAKKITELGYCCYYIHARMAQAHRNRV-FHDFRSGLCRNLVCSDLFTRGIDVQAV 262
+ L+ K+ E I+ + N H R++V + D
Sbjct: 412 HKYSLVEKQPKESTISIPSIYLELKVKLENEYALH-------RSIVDHYNIPKTFD---- 460
Query: 263 NVVINFDF-PKMAETYLHRIGRSGRYGHLGIAINLITYEDRYALHR 307
+ D P + Y Y H+G + I + +R L R
Sbjct: 461 ----SDDLIPPYLDQYF--------YSHIGHHLKNIEHPERMTLFR 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 = 59.5 bits (144), Expect = 7e-10
Identities = 58/334 (17%), Positives = 121/334 (36%), Gaps = 82/334 (24%)
Query: 30 IVPTRELALQTSQICIELAK--HLNVKVMVTTGGTNLRDDIMRIYQKVHLIIATPGRILD 87
IVP + LA + E + ++V + TG + +D+ + K +IIAT +
Sbjct: 74 IVPLKALA---EEKFQEFQDWEKIGLRVAMATGDYDSKDEWLG---KYDIIIATAEKFDS 127
Query: 88 LMDKQVANMDHCKILVLDEADKLLSQDFKGMLDHVISILPHERQILLYSATFP------- 140
L+ + + KILV DE + S+D L+ +++ + + QI+ SAT
Sbjct: 128 LLRHGSSWIKDVKILVADEIHLIGSRDRGATLEVILAHMLGKAQIIGLSATIGNPEELAE 187
Query: 141 -LTVKNFM--------EKHLKDPYEINLMEELTLKGVTQYYAFVQERQKVHCLNTLFSKL 191
L + + + + + + + ++ +
Sbjct: 188 WLNAELIVSDWRPVKLRRGVFYQGFV-------------TWEDGSIDRFSSWEELVYDAI 234
Query: 192 -QINQSIIFCNSTQRVELLAKKITE---------------------------------LG 217
+ ++IF N ++ E +A ++++ +
Sbjct: 235 RKKKGALIFVNMRRKAERVALELSKKVKSLLTKPEIRALNELADSLEENPTNEKLAKAIR 294
Query: 218 YCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSDLFTRGIDVQAVNVVIN----FDFPKM 273
+ HA + + R V +FR G+ + +V + + GI+ A V+I + M
Sbjct: 295 GGVAFHHAGLGRDERVLVEENFRKGIIKAVVATPTLSAGINTPAFRVIIRDIWRYSDFGM 354
Query: 274 AE----TYLHRIGRSGR--YGHLGIAINLITYED 301
+GR+GR Y +G I +++ D
Sbjct: 355 ERIPIIEVHQMLGRAGRPKYDEVGEGI-IVSTSD 387
>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 = 57.9 bits (140), Expect = 2e-09
Identities = 54/324 (16%), Positives = 119/324 (36%), Gaps = 58/324 (17%)
Query: 30 IVPTRELALQTSQICIELAK--HLNVKVMVTTGGTNLRDDIMRIYQKVHLIIATPGRILD 87
+VP R LA + K + +++ ++TG RD+ + +I+ T +
Sbjct: 74 VVPLRALA---GEKYESFKKWEKIGLRIGISTGDYESRDEHLG---DCDIIVTTSEKADS 127
Query: 88 LMDKQVANMDHCKILVLDEADKLLSQDFKG-MLDHVISILPHER---QILLYSATFP--L 141
L+ + + + LV+DE LL + +G L+ +++ + +++ SAT P
Sbjct: 128 LIRNRASWIKAVSCLVVDEI-HLLDSEKRGATLEILVTKMRRMNKALRVIGLSATAPNVT 186
Query: 142 TVKNFMEKHLKDPYE--INLMEELTLKGVTQYYAFVQERQKVHCLNTLFSKLQIN--QSI 197
+ +++ + L+E + +G + + + L + +
Sbjct: 187 EIAEWLDADYYVSDWRPVPLVEGVLCEGTLELFDGAFSTSRRVKFEELVEECVAENGGVL 246
Query: 198 IFCNSTQRVELLAKKITE------------------------------LGYCCYYIHARM 227
+F ++ + E A K++ + + HA +
Sbjct: 247 VFESTRRGAEKTAVKLSAITAKYVENEGLEKAILEENEGEMSRKLAECVRKGAAFHHAGL 306
Query: 228 AQAHRNRVFHDFRSGLCRNLVCSDLFTRGIDVQAVNVVI------NFDFPKMAET-YLHR 280
R V FR G + +V + G+++ A V++ + ++ + Y
Sbjct: 307 LNGQRRVVEDAFRRGNIKVVVATPTLAAGVNLPARRVIVRSLYRFDGYSKRIKVSEYKQM 366
Query: 281 IGRSGR--YGHLGIAINLITYEDR 302
GR+GR G AI ++ DR
Sbjct: 367 AGRAGRPGMDERGEAIIIVGKRDR 390
>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 = 53.5 bits (128), Expect = 6e-08
Identities = 45/311 (14%), Positives = 86/311 (27%), Gaps = 64/311 (20%)
Query: 27 TLIIVPTRELALQTSQICIELAKHLNVKVMVTTGGTNLRDDIMRIYQKVHLIIATPGRIL 86
L++ P+ L ++K + + TG + + +T G+ L
Sbjct: 260 VLVLNPSVAATLGFGA---YMSKAHGIDPNIRTGVRTITTG-------APVTYSTYGKFL 309
Query: 87 DLMDKQVANMDHCKILVLDEADKL-LSQDFKGMLDHVISILPHERQILLY--SATFPLTV 143
D I++ DE + + V+ L+ +AT P +
Sbjct: 310 ADGGCSGGAYD---IIICDECHSTDSTTIL--GIGTVLDQAETAGARLVVLATATPPGS- 363
Query: 144 KNFMEKHLKDPYEINLMEELTLKGVTQYYAFVQERQKVHCLNTLFSKLQINQSIIFCNST 203
H L+ G +Y ++ + +IFC+S
Sbjct: 364 --VTVPHPNIEEVA-----LSNTGEIPFYGK----------AIPIEAIRGGRHLIFCHSK 406
Query: 204 QRVELLAKKITELGYCCYYIHARM---AQAHRNRVF------------HDFR----SGLC 244
++ + LA K++ LG + + V DF C
Sbjct: 407 KKCDELAAKLSGLGINAVAYYRGLDVSVIPTIGDVVVVATDALMTGYTGDFDSVIDCNTC 466
Query: 245 RNLVCSDLFTRGIDVQAVNVVINFDFPKMAETYLHRIGRSGRYGHLGIAINLITYEDRYA 304
++ V + A + R GR+GR GI +
Sbjct: 467 VTQTVDFSLDPTFTIETTTVPQD------AVSRSQRRGRTGRGRR-GIYRFV--TPGERP 517
Query: 305 LHRIEKELGTE 315
+ + E
Sbjct: 518 SGMFDSSVLCE 528
>2ykg_A Probable ATP-dependent RNA helicase DDX58; hydrolase, innate
immunity; 2.50A {Homo sapiens} PDB: 3tmi_A*
Length = 696
Score = 53.1 bits (126), Expect = 8e-08
Identities = 45/267 (16%), Positives = 89/267 (33%), Gaps = 35/267 (13%)
Query: 77 LIIATPGRILDLMDKQVANMDHCKILVLDEADKLLSQDFKGMLDHVISILPHERQILLYS 136
LII+ R+ D +D + + DE ++ L+Q F+ L + S+
Sbjct: 323 LIISEHARMKDALDYLKDFFSNVRAAGFDEIEQDLTQRFEEKLQELESVS---------- 372
Query: 137 ATFPLTVKNFMEKHLKDPYEIN-LMEELTLKGVTQYYAFVQERQKVHCLNTLFSKLQINQ 195
++ ++ K L EE L T FV+ R V L
Sbjct: 373 -------RDPSNENPKLEDLCFILQEEYHLNPETITILFVKTRALVDALKNWIEGNPKLS 425
Query: 196 SIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFR-SGLCRNLVCSDLFT 254
+ + +L G + M + + F+ SG L+ + +
Sbjct: 426 FL-------KPGIL------TGRGKTNQNTGMTLPAQKCILDAFKASGDHNILIATSVAD 472
Query: 255 RGIDVQAVNVVINFDFPKMAETYLHRIGRS-GRYGHLGIAINLITYEDRYALHRI-EKEL 312
GID+ N+VI +++ + GR R + + ++ ++ EK +
Sbjct: 473 EGIDIAQCNLVILYEYVGNVIKMIQTRGRGRARGSKCFLLTSNAGVIEKEQINMYKEKMM 532
Query: 313 GTEIKSIPKVIDPALYVARPEDMDRDN 339
I + D A++ + +
Sbjct: 533 NDSILRLQT-WDEAVFREKILHIQTHE 558
>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 = 53.1 bits (126), Expect = 8e-08
Identities = 39/280 (13%), Positives = 88/280 (31%), Gaps = 21/280 (7%)
Query: 61 GTNLRDDIMRIYQKVHLIIATPGRILDLMDKQVANMDHCKILVLDEADKLLSQDFKGMLD 120
+++ RI + + + + D + + L E + L+
Sbjct: 528 QLEDKEEESRICRALFICTEHLRKYNDALIISEDARIIDALSYLTEFFTNVKNGPYTELE 587
Query: 121 HVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQYYAFVQERQK 180
++ E++ L + + T +N + L L + T+ F + R
Sbjct: 588 QHLTAKFQEKEPELIALSKDETNENPKLEELVCI----LDDAYRYNPQTRTLLFAKTRAL 643
Query: 181 VHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFR 240
V L + I I + +L G M + V F+
Sbjct: 644 VSALKKCMEENPILNYI-------KPGVLM------GRGRRDQTTGMTLPSQKGVLDAFK 690
Query: 241 SG-LCRNLVCSDLFTRGIDVQAVNVVINFDFPKMAETYLHRIGRSGRYG--HLGIAINLI 297
+ R L+ + + GID+ N+V+ +++ + GR G + +
Sbjct: 691 TSKDNRLLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQVRGRGRAAGSKCILVTSKTE 750
Query: 298 TYEDRYALHRIEKELGTEIKSIPKVIDPALYVARPEDMDR 337
E+ E+ + ++ I K D + + ++
Sbjct: 751 VVENEKCNRYKEEMMNKAVEKIQK-WDEETFAKKIHNLQM 789
>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 = 52.7 bits (127), Expect = 9e-08
Identities = 35/164 (21%), Positives = 58/164 (35%), Gaps = 16/164 (9%)
Query: 155 YEINLMEELTLKGVTQYYAFVQERQKVHCLNTLFSKLQINQS-IIFCNSTQRVELLAKKI 213
YE+ T + + R K QS II+C S + E + +
Sbjct: 241 YEVRQKPSNTEDFIEDIVKLINGRYK-------------GQSGIIYCFSQKDSEQVTVSL 287
Query: 214 TELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSDLFTRGIDVQAVNVVINFDFPKM 273
LG HA + + V + + + +V + F GID V VI+ K
Sbjct: 288 QNLGIHAGAYHANLEPEDKTTVHRKWSANEIQVVVATVAFGMGIDKPDVRFVIHHSMSKS 347
Query: 274 AETYLHRIGRSGRYGHLGIAINLITYEDRYALHRI--EKELGTE 315
E Y GR+GR I + D + + + + +G +
Sbjct: 348 MENYYQESGRAGRDDMKADCILYYGFGDIFRISSMVVMENVGQQ 391
>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 = 52.3 bits (124), Expect = 1e-07
Identities = 39/282 (13%), Positives = 88/282 (31%), Gaps = 21/282 (7%)
Query: 61 GTNLRDDIMRIYQKVHLIIATPGRILDLMDKQVANMDHCKILVLDEADKLLSQDFKGMLD 120
+++ RI + + + + D + + L E + L+
Sbjct: 528 QLEDKEEESRICRALFICTEHLRKYNDALIISEDARIIDALSYLTEFFTNVKNGPYTELE 587
Query: 121 HVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQYYAFVQERQK 180
++ E++ L + + T +N + L L + T+ F + R
Sbjct: 588 QHLTAKFQEKEPELIALSKDETNENPKLEELVCI----LDDAYRYNPQTRTLLFAKTRAL 643
Query: 181 VHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFR 240
V L + I I + +L G M + V F+
Sbjct: 644 VSALKKCMEENPILNYI-------KPGVLM------GRGRRDQTTGMTLPSQKGVLDAFK 690
Query: 241 SG-LCRNLVCSDLFTRGIDVQAVNVVINFDFPKMAETYLHRIGRSGRYG--HLGIAINLI 297
+ R L+ + + GID+ N+V+ +++ + GR G + +
Sbjct: 691 TSKDNRLLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQVRGRGRAAGSKCILVTSKTE 750
Query: 298 TYEDRYALHRIEKELGTEIKSIPKVIDPALYVARPEDMDRDN 339
E+ E+ + ++ I K D + + ++
Sbjct: 751 VVENEKCNRYKEEMMNKAVEKIQK-WDEETFAKKIHNLQMKE 791
>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 = 51.0 bits (122), Expect = 3e-07
Identities = 49/300 (16%), Positives = 86/300 (28%), Gaps = 64/300 (21%)
Query: 20 AKITSKATLIIVPTRELALQTSQICIELAKHLNVKVMVTTGGTNLRDDI----------- 68
S TLI+VPT LA Q + L V +G +
Sbjct: 129 INELSTPTLIVVPTLALAEQWKE---RLGIFGEEYVGEFSGRIKELKPLTVSTYDSAYVN 185
Query: 69 -MRIYQKVHLII----------------------------ATPGRILDLMDKQVANMDHC 99
++ + L+I AT R + +
Sbjct: 186 AEKLGNRFMLLIFDEVHHLPAESYVQIAQMSIAPFRLGLTATFER---EDGRHEILKEVV 242
Query: 100 KILVLDEADKLLSQDFKGMLDHVISILPHERQILLYSATFPLTVKNFMEKH---LKDPYE 156
V + L+ +P + K F+ L+ +
Sbjct: 243 GGKVFELFPDSLAGKHLAKYTIKRIFVPLAEDERVEYEKREKVYKQFLRARGITLRRAED 302
Query: 157 INLMEELTLKGVTQYYAFVQERQ----------KVHCLNTLFSKLQINQSIIFCNSTQRV 206
N + + Y A + K+ L + + + ++ IIF + V
Sbjct: 303 FNKIVMASGYDERAYEALRAWEEARRIAFNSKNKIRKLREILERHRKDKIIIFTRHNELV 362
Query: 207 ELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSDLFTRGIDVQAVNVVI 266
++K + I R ++ R + FR+G R +V S + GIDV NV +
Sbjct: 363 YRISKV-----FLIPAITHRTSREEREEILEGFRTGRFRAIVSSQVLDEGIDVPDANVGV 417
>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 = 50.3 bits (119), Expect = 5e-07
Identities = 33/224 (14%), Positives = 71/224 (31%), Gaps = 18/224 (8%)
Query: 61 GTNLRDDIMRIYQKVHLIIATPGRILDLMDKQVANMDHCKILVLDEADKLLSQDFKGMLD 120
+++ RI + + + + D + + L E + L+
Sbjct: 287 QLEDKEEESRICRALFICTEHLRKYNDALIISEDARIIDALSYLTEFFTNVKNGPYTELE 346
Query: 121 HVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQYYAFVQERQK 180
++ E++ L + + T +N + L L + T+ F + R
Sbjct: 347 QHLTAKFQEKEPELIALSKDETNENPKLEELVC----ILDDAYRYNPQTRTLLFAKTRAL 402
Query: 181 VHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFR 240
V L + I I + +L G M + V F+
Sbjct: 403 VSALKKCMEENPILNYI-------KPGVLM------GRGRRDQTTGMTLPSQKGVLDAFK 449
Query: 241 SG-LCRNLVCSDLFTRGIDVQAVNVVINFDFPKMAETYLHRIGR 283
+ R L+ + + GID+ N+V+ +++ + GR
Sbjct: 450 TSKDNRLLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQVRGR 493
>3tbk_A RIG-I helicase domain; DECH helicase, ATP binding, hydrolase; HET:
ANP; 2.14A {Mus musculus}
Length = 555
Score = 48.7 bits (115), Expect = 2e-06
Identities = 47/272 (17%), Positives = 92/272 (33%), Gaps = 39/272 (14%)
Query: 77 LIIATPGRILDLMDKQVANMDHCKILVLDEADKLLSQDFKGMLDHVISILPHERQILLYS 136
LII+ ++ D ++ A + DE ++ L++ F+ L+ + +
Sbjct: 314 LIISEDAQMTDALNYLKAFFHDVREAAFDETERELTRRFEEKLEELEKVS---------- 363
Query: 137 ATFPLTVKNFMEKHLKDPYEIN-LMEELTLKGVTQYYAFVQERQKVHCLNTLFSKLQINQ 195
++ ++ K L EE LK T+ FV+ R V L +
Sbjct: 364 -------RDPSNENPKLRDLYLVLQEEYHLKPETKTILFVKTRALVDALKKWIEENPALS 416
Query: 196 SIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFR-SGLCRNLVCSDLFT 254
+ + +L G M + V FR SG L+ + +
Sbjct: 417 FL-------KPGIL------TGRGRTNRATGMTLPAQKCVLEAFRASGDNNILIATSVAD 463
Query: 255 RGIDVQAVNVVINFDFPKMAETYLHRIGRS-GRYGHLGIAINLITYEDRYALHRI-EKEL 312
GID+ N+VI +++ + GR R + + ++ + I EK +
Sbjct: 464 EGIDIAECNLVILYEYVGNVIKMIQTRGRGRARDSKCFLLTSSADVIEKEKANMIKEKIM 523
Query: 313 GTEIKSIPKVIDPALY-----VARPEDMDRDN 339
I + + + E + RD+
Sbjct: 524 NESILRLQTWDEMKFGKTVHRIQVNEKLLRDS 555
>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 = 47.9 bits (115), Expect = 3e-06
Identities = 41/152 (26%), Positives = 71/152 (46%), Gaps = 5/152 (3%)
Query: 171 YYAFVQERQKVHCLNTLFSKLQINQS-IIFCNSTQRVELLAKKITELGY-CCYYIHARMA 228
Y +++ + + L + + Q +S II+CNS +VE A ++ G Y HA +
Sbjct: 214 RYMLMEKFKPLDQLMR-YVQEQRGKSGIIYCNSRAKVEDTAARLQSKGISAAAY-HAGLE 271
Query: 229 QAHRNRVFHDFRSGLCRNLVCSDLFTRGIDVQAVNVVINFDFPKMAETYLHRIGRSGRYG 288
R V F+ + +V + F GI+ V V++FD P+ E+Y GR+GR G
Sbjct: 272 NNVRADVQEKFQRDDLQIVVATVAFGMGINKPNVRFVVHFDIPRNIESYYQETGRAGRDG 331
Query: 289 HLGIAINLITYEDRYALHR-IEKELGTEIKSI 319
A+ D L R +E++ +++ I
Sbjct: 332 LPAEAMLFYDPADMAWLRRCLEEKPQGQLQDI 363
>2va8_A SSO2462, SKI2-type helicase; hydrolase, DNA repair, ATP-bindin
nucleotide-binding; 2.30A {Sulfolobus solfataricus}
Length = 715
Score = 46.3 bits (110), Expect = 1e-05
Identities = 63/359 (17%), Positives = 121/359 (33%), Gaps = 82/359 (22%)
Query: 30 IVPTRELALQTSQICIELAK--HLNVKVMVTTGGTNLRDDIMRIYQKVHLIIATPGRILD 87
+ P R L ++ + + KV +T+G + D + +II T LD
Sbjct: 81 VTPLRALT---NEKYLTFKDWELIGFKVAMTSGDYDTDD---AWLKNYDIIITTY-EKLD 133
Query: 88 -LMDKQVANMDHCKILVLDEADKLLSQDFKGMLDHVISILPHERQILLYSATFP------ 140
L + ++ VLDE L+ +G + ++I R +L SAT
Sbjct: 134 SLWRHRPEWLNEVNYFVLDEL-HYLNDPERGPVVESVTIRAKRRNLLALSATISNYKQIA 192
Query: 141 --LTVKNF--------MEKHLKDPYEINLMEELTLKGVTQYYAFVQERQKVHCLNTLFSK 190
L + + + + P + K T + + L++L
Sbjct: 193 KWLGAEPVATNWRPVPLIEGVIYPERKKKEYNVIFKDNTTKKVHGDDAIIAYTLDSLSKN 252
Query: 191 LQINQSIIFCNSTQRVELLAKKITELGYCCY----------------------------- 221
Q ++F NS + E A KI
Sbjct: 253 ---GQVLVFRNSRKMAESTALKIANYMNFVSLDENALSEILKQLDDIEEGGSDEKELLKS 309
Query: 222 -------YIHARMAQAHRNRVFHDFRSGLCRNLVCSDLFTRGIDVQAVNVVI-------- 266
Y HA +++A R+ + FR + +V + G+++ A V+I
Sbjct: 310 LISKGVAYHHAGLSKALRDLIEEGFRQRKIKVIVATPTLAAGVNLPARTVIIGDIYRFNK 369
Query: 267 ----NFDFPKMAETYLHRIGRSGR--YGHLGIAINLITYEDRYALHRIEKELGTEIKSI 319
+D + E Y GR+GR + +G +I ++ + +K + ++++ I
Sbjct: 370 KIAGYYDEIPIME-YKQMSGRAGRPGFDQIGESI-VVVRDKEDVDRVFKKYVLSDVEPI 426
>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 = 46.6 bits (110), Expect = 1e-05
Identities = 52/261 (19%), Positives = 80/261 (30%), Gaps = 72/261 (27%)
Query: 82 PGRILDLMDK-QVANMDHCKILVLDEADKLLSQDFKGMLDHVISILPHERQILLYSATFP 140
G +DL + A V + AD + + ++ P I
Sbjct: 1629 QGMGMDLYKTSKAAQD------VWNRADNHFKDTYGFSILDIVINNPVNLTIHFGGEKGK 1682
Query: 141 LTVKNFMEKHLKDPYEINLMEELTLKGVTQY---YAFVQERQKVHCLN-TLFSKLQINQS 196
+N+ + + L E K + ++ Y F E+ L+ T F+ Q
Sbjct: 1683 RIRENYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGL---LSATQFT-----QP 1734
Query: 197 IIFCNSTQRVELLAKK--ITE--------LG-YCCYYIHARMAQAHRNRVFHDFRSGLCR 245
+ E L K I LG Y A A V S +
Sbjct: 1735 ALTLMEKAAFEDLKSKGLIPADATFAGHSLGEYA--------ALASLADVM-SIESLV-- 1783
Query: 246 NLVCSDLFTRGIDVQ-AVNVVINFDFPKMAETYLHRIGRSGRYGHLGIAIN------LIT 298
+V F RG+ +Q AV P+ GR + IAIN +
Sbjct: 1784 EVV----FYRGMTMQVAV--------PR---------DELGRSNYGMIAINPGRVAASFS 1822
Query: 299 YED-RYALHRIEKELGT--EI 316
E +Y + R+ K G EI
Sbjct: 1823 QEALQYVVERVGKRTGWLVEI 1843
Score = 34.6 bits (79), Expect = 0.058
Identities = 22/117 (18%), Positives = 32/117 (27%), Gaps = 47/117 (40%)
Query: 3 QAR----QEP----TQFL---------YLNKLTPAKITSKATLIIVPTRELALQTSQICI 45
Q+R + +FL L PA L + +
Sbjct: 404 QSRIPFSERKLKFSNRFLPVASPFHSHLL---VPA----------SDLINKDLVKNNVSF 450
Query: 46 ELAKHLNVKVMVTTGGTNLR-----------DDIMRIYQKVH---LIIATPGRILDL 88
AK + + V T G++LR D I+R V ILD
Sbjct: 451 N-AKDIQIPVYDTFDGSDLRVLSGSISERIVDCIIR--LPVKWETTTQFKATHILDF 504
Score = 34.3 bits (78), Expect = 0.074
Identities = 45/258 (17%), Positives = 78/258 (30%), Gaps = 75/258 (29%)
Query: 33 TRELALQTSQICIELAKH--LNVKVMVTTG----GTNLRDDIMRIYQKVHLIIATPGRIL 86
TR L L H L ++V T + L++ +I L T G
Sbjct: 6 TRPLTLS----------HGSLEHVLLVPTASFFIASQLQEQFNKI-----LPEPTEGFAA 50
Query: 87 DLMDKQVANMDHCKILV---LDEADKLLSQDFKGMLDHVIS-ILPH-ERQIL----LYSA 137
D D+ + LV L L+ G D V++ L E L +++
Sbjct: 51 D--DEPTTPAE----LVGKFLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHAL 104
Query: 138 TFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQYYA--FVQERQKVHCLNT-LFSKLQIN 194
L +N + L E+ + Y + +R N+ LF +
Sbjct: 105 AAKLLQEN--DTTLVKTKEL----------IKNYITARIMAKRPFDKKSNSALFRAVGEG 152
Query: 195 QSIIFC------NSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLV 248
+ + N+ E L +L Y Y F + L+
Sbjct: 153 NAQLVAIFGGQGNTDDYFEELR----DL-YQTY--------HVLVGDLIKFSAETLSELI 199
Query: 249 -----CSDLFTRGIDVQA 261
+FT+G+++
Sbjct: 200 RTTLDAEKVFTQGLNILE 217
>2oca_A DAR protein, ATP-dependent DNA helicase UVSW; ATP-dependant
helicase, T4-bacteriophage, recombination, hydrolase;
2.70A {Enterobacteria phage T4}
Length = 510
Score = 46.1 bits (108), Expect = 1e-05
Identities = 43/291 (14%), Positives = 84/291 (28%), Gaps = 34/291 (11%)
Query: 27 TLIIVPTRELALQTSQICIELAKHLNVKVMVTTGGTNLRDDIMRIYQKVHLIIATPGRIL 86
LIIVPT L Q + ++ + + GG + D G
Sbjct: 160 ILIIVPTTALTTQMADDFVDYRLFSHAMIKKIGGGASKDDKYKND------APVVVGTWQ 213
Query: 87 DLMDKQVANMDHCKILVLDEADKLLSQDFKGMLDHVISILP----------HERQILLYS 136
++ + +++ DE + ++ + + + + I+ Y
Sbjct: 214 TVVKQPKEWFSQFGMMMNDECHLATGKSISSIISGLNNCMFKFGLSGSLRDGKANIMQYV 273
Query: 137 ATFPLTVKNFMEKHLKD-----PYEINLMEELTLKGVTQYYAFV------------QERQ 179
F K L + +IN + T +R
Sbjct: 274 GMFGEIFKPVTTSKLMEDGQVTELKINSIFLRYPDEFTTKLKGKTYQEEIKIITGLSKRN 333
Query: 180 KVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDF 239
K + + + + + + I YY+ + RN +
Sbjct: 334 KWIAKLAIKLAQKDENAFVMFKHVSHGKAIFDLIKNEYDKVYYVSGEVDTETRNIMKTLA 393
Query: 240 RSGLCRNLVCS-DLFTRGIDVQAVNVVINFDFPKMAETYLHRIGRSGRYGH 289
+G +V S +F+ GI V+ ++ V+ K L IGR R
Sbjct: 394 ENGKGIIIVASYGVFSTGISVKNLHHVVLAHGVKSKIIVLQTIGRVLRKHG 444
>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 = 44.0 bits (104), Expect = 2e-05
Identities = 16/101 (15%), Positives = 39/101 (38%), Gaps = 7/101 (6%)
Query: 13 YLNKLTPAKITSKATLIIVPTRELALQTSQICIELAKHLNVKVMVTTGGTNLRDDIMRIY 72
+L+K A K +++V L Q + + +V+ +G T L+ +
Sbjct: 72 HLDKKKKASEPGKV-IVLVNKVLLVEQLFRKEFQPFLKKWYRVIGLSGDTQLKISFPEVV 130
Query: 73 QKVHLIIATPGRILDLMDKQVA------NMDHCKILVLDEA 107
+ +II+T + + + + ++++DE
Sbjct: 131 KSCDIIISTAQILENSLLNLENGEDAGVQLSDFSLIIIDEC 171
>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 = 40.1 bits (94), Expect = 8e-04
Identities = 25/206 (12%), Positives = 53/206 (25%), Gaps = 41/206 (19%)
Query: 80 ATPGR-----ILDLMDKQVANMDHCKILVLDEA--DKLLSQDFK--GMLDHVISILPHER 130
ATP R + L + D L+ ++ ++ V +
Sbjct: 339 ATPLREDNRDTYRYFGNPIYTYS------LRQGIDDGFLA-PYRVHRVISEVDAAGWRPS 391
Query: 131 QILLYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQYYAFVQERQKVHCLNTLFSK 190
+ + + + K + + + K +T + K
Sbjct: 392 KGDVDRFGREIPDGEYQTKDFERVIALKARTDAFAKHLTDFMKRTDRFAK---------- 441
Query: 191 LQINQSIIFCNSTQRVELLAKKITELG---------YCCYYIHARMAQA-HRNRVFHDFR 240
+I+FC + + + + + L Y F +
Sbjct: 442 -----TIVFCVDQEHADEMRRALNNLNSDLSRKHPDYVARVTSEEGKIGKGHLSRFQELE 496
Query: 241 SGLCRNLVCSDLFTRGIDVQAVNVVI 266
+ L S L T G+D V+
Sbjct: 497 TSTPVILTTSQLLTTGVDAPTCKNVV 522
>3rc3_A ATP-dependent RNA helicase SUPV3L1, mitochondrial; SUV3, nucleus,
hydrolase; HET: ANP; 2.08A {Homo sapiens} PDB: 3rc8_A
Length = 677
Score = 39.9 bits (92), Expect = 0.001
Identities = 23/141 (16%), Positives = 47/141 (33%), Gaps = 16/141 (11%)
Query: 195 QSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRS--GLCRNLVCSDL 252
I C S + ++++I G I+ + + F C+ LV +D
Sbjct: 322 GDCIVCFSKNDIYSVSRQIEIRGLESAVIYGSLPPGTKLAQAKKFNDPNDPCKILVATDA 381
Query: 253 FTRGIDVQAVNVVIN----FDFPKMAETYLHRI---------GRSGRYGHLGIAINLITY 299
G+++ ++ + E L I GR+GR+ +T
Sbjct: 382 IGMGLNLSIRRIIFYSLIKPSINEKGERELEPITTSQALQIAGRAGRFSSRF-KEGEVTT 440
Query: 300 EDRYALHRIEKELGTEIKSIP 320
+ L +++ L + I
Sbjct: 441 MNHEDLSLLKEILKRPVDPIR 461
>1nf2_A Phosphatase; structural proteomics, HAD NEW fold, structural
genomics, BSGC structure funded by NIH structure
initiative, PSI; 2.20A {Thermotoga maritima} SCOP:
c.108.1.10
Length = 268
Score = 32.1 bits (74), Expect = 0.21
Identities = 20/111 (18%), Positives = 42/111 (37%), Gaps = 7/111 (6%)
Query: 20 AKITSKATLIIVPTRELALQTSQICIELAKHLNVKVMVTTGGTNLRDDIMRIYQKVHLII 79
A + +I+ ++ + ++ IE K LNV + +
Sbjct: 68 AIVYLPEEGVIL-NEKIPPEVAKDIIEYIKPLNVHWQAYIDDVLYSEKDNEEIKSYARHS 126
Query: 80 ATPGRILDLMDKQVANMDHCKILVLDEADKL------LSQDFKGMLDHVIS 124
R+ + + V+ M K+L++D ++L LS+ FK ++ S
Sbjct: 127 NVDYRVEPNLSELVSKMGTTKLLLIDTPERLDELKEILSERFKDVVKVFKS 177
>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 = 31.2 bits (69), Expect = 0.41
Identities = 17/124 (13%), Positives = 38/124 (30%), Gaps = 10/124 (8%)
Query: 25 KATLIIVPTRELALQTSQICIELAKHLNVKVMVTTGGTNLRDDIMRIYQKVHLIIATPGR 84
LIIVPT L Q + ++ + + GG + +++ T
Sbjct: 158 GKILIIVPTTALTTQMADDFVDYRLFSHAMIKKIGGG---ASKDDKYKNDAPVVVGT--- 211
Query: 85 ILDLMDKQVANMDHCKILVLDEADKLLSQDFKGMLDHVISILPHERQILLYSATFPLTVK 144
++ + +++ DE + ++ L + S +
Sbjct: 212 WQTVVKQPKEWFSQFGMMMNDECHLATGKSISSIISG----LNNCMFKFGLSGSLRDGKA 267
Query: 145 NFME 148
N M+
Sbjct: 268 NIMQ 271
>1nar_A Narbonin; plant SEED protein; 1.80A {Vicia narbonensis} SCOP:
c.1.8.5
Length = 290
Score = 30.5 bits (68), Expect = 0.77
Identities = 19/129 (14%), Positives = 43/129 (33%), Gaps = 29/129 (22%)
Query: 48 AKHLNVKVMVTTGG----------------TNLRDDIMRIYQKVHLIIATPGRILDLMDK 91
+H VKV+++ GG +N ++ + I QK +D+ +
Sbjct: 73 RRHPEVKVVISIGGRGVNTPFDPAEENVWVSNAKESLKLIIQKYSDDSGNLIDGIDIHYE 132
Query: 92 QVANMDHCKILVLDEADKLLSQDFKGMLDHVISILPHERQILLYSATFPLTVKNFMEKHL 151
+ + + L+ L + K D I+++ A ++ + +
Sbjct: 133 HIRSDEPFATLM-----GQLITELKKDDDLNINVVSI--------APSENNSSHYQKLYN 179
Query: 152 KDPYEINLM 160
IN +
Sbjct: 180 AKKDYINWV 188
>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 = 30.2 bits (67), Expect = 1.3
Identities = 20/85 (23%), Positives = 37/85 (43%), Gaps = 10/85 (11%)
Query: 224 HARMAQAHRNRVFHDFRSGLCRNLVCSDLFTRGIDVQAVNVVI----NFDFPKMAET--- 276
H+ + + + F+ G + L ++ F+ G+++ A VV +D +
Sbjct: 511 HSGLLPILKEVIEILFQEGFLKVLFATETFSIGLNMPAKTVVFTSVRKWDGQQFRWVSGG 570
Query: 277 -YLHRIGRSGRYGH--LGIAINLIT 298
Y+ GR+GR G GI I +I
Sbjct: 571 EYIQMSGRAGRRGLDDRGIVIMMID 595
>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 = 30.1 bits (67), Expect = 1.4
Identities = 20/85 (23%), Positives = 37/85 (43%), Gaps = 10/85 (11%)
Query: 224 HARMAQAHRNRVFHDFRSGLCRNLVCSDLFTRGIDVQAVNVVI----NFDFPKMAET--- 276
H+ + + + F+ G + L ++ F+ G+++ A VV +D +
Sbjct: 413 HSGLLPILKEVIEILFQEGFLKVLFATETFSIGLNMPAKTVVFTSVRKWDGQQFRWVSGG 472
Query: 277 -YLHRIGRSGRYGH--LGIAINLIT 298
Y+ GR+GR G GI I +I
Sbjct: 473 EYIQMSGRAGRRGLDDRGIVIMMID 497
>4a4z_A Antiviral helicase SKI2; hydrolase, ATPase, mRNA degradation,
exosome; HET: ANP; 2.40A {Saccharomyces cerevisiae} PDB:
4a4k_A
Length = 997
Score = 30.2 bits (67), Expect = 1.4
Identities = 15/87 (17%), Positives = 29/87 (33%), Gaps = 10/87 (11%)
Query: 224 HARMAQAHRNRVFHDFRSGLCRNLVCSDLFTRGIDVQAVNVVIN----FDF----PKMAE 275
H + + + F G + L ++ F G+++ V+ + D
Sbjct: 406 HGGLLPIVKELIEILFSKGFIKVLFATETFAMGLNLPTRTVIFSSIRKHDGNGLRELTPG 465
Query: 276 TYLHRIGRSGRYGH--LGIAINLITYE 300
+ GR+GR G G I +
Sbjct: 466 EFTQMAGRAGRRGLDSTGTVIVMAYNS 492
>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 = 29.4 bits (66), Expect = 1.9
Identities = 27/206 (13%), Positives = 66/206 (32%), Gaps = 33/206 (16%)
Query: 27 TLIIVPTRELALQTSQICIELAKHL-NVKVMVTTGGTNLRDDIMRIYQKVHLIIATPGRI 85
TL++ PTR + E+ + + V T + + +
Sbjct: 40 TLVLAPTRVVLS-------EMKEAFHGLDVKFHTQAFSAHGS-----GREVIDAMCHA-T 86
Query: 86 LDLMDKQVANMDHCKILVLDEADKLLSQDFKGMLDHVISILPHERQILLYSATFPLTVKN 145
L + + + +++++DEA L +E +L +AT P T
Sbjct: 87 LTYRMLEPTRVVNWEVIIMDEAHFLDPASIAARGWAAHRARANESATILMTATPPGTSDE 146
Query: 146 FMEKHL-KDPYEINLMEELTLKGVTQYYAFVQERQKVHCLNTLFSKLQINQSIIFCNSTQ 204
F + + + ++ E G + ++ ++ T F S +
Sbjct: 147 FPHSNGEIEDVQTDIPSEPWNTG----HDWILADKR----PTA----------WFLPSIR 188
Query: 205 RVELLAKKITELGYCCYYIHARMAQA 230
++A + + G ++ + +
Sbjct: 189 AANVMAASLRKAGKSVVVLNRKTFER 214
>3tr5_A RF-3, peptide chain release factor 3; protein synthesis,
translation; HET: GDP; 2.11A {Coxiella burnetii}
Length = 528
Score = 29.3 bits (66), Expect = 2.1
Identities = 10/43 (23%), Positives = 17/43 (39%), Gaps = 8/43 (18%)
Query: 220 CYYIHARMAQAHRNRVFHDFRSGLCRNLVCSDLFTRGIDVQAV 262
+ I A M HR+R+ R + S + +G+ V
Sbjct: 299 VFKIQANMDPGHRDRI------AFLR--IASGQYQKGMKAYHV 333
>2h5e_A Peptide chain release factor RF-3; beta barrel, translation; HET:
GDP; 2.80A {Escherichia coli} PDB: 2o0f_A 3sfs_W*
3zvo_Y* 3uoq_W*
Length = 529
Score = 29.3 bits (66), Expect = 2.2
Identities = 12/43 (27%), Positives = 19/43 (44%), Gaps = 8/43 (18%)
Query: 220 CYYIHARMAQAHRNRVFHDFRSGLCRNLVCSDLFTRGIDVQAV 262
+ I A M HR+RV R V S + +G+ ++ V
Sbjct: 300 VFKIQANMDPKHRDRV------AFMR--VVSGKYEKGMKLRQV 334
>1rkq_A Hypothetical protein YIDA; two domain structure with beta-alpha
sandwich. stucture contains A magnesium ION., PSI,
protein structure initiative; 1.40A {Escherichia coli}
SCOP: c.108.1.10
Length = 282
Score = 28.6 bits (65), Expect = 3.1
Identities = 16/115 (13%), Positives = 36/115 (31%), Gaps = 13/115 (11%)
Query: 20 AKITSKATLIIVPTRELALQTSQICIELAKHLNVKVMVTTGG----TNLRDDIMRIYQKV 75
A + A V L+ + +L++ + N +++
Sbjct: 74 ALVQKAADGSTVAQTALSYDDYRFLEKLSREVGSHFHALDRTTLYTANRDISYYTVHES- 132
Query: 76 HLIIATPGRILDLMDKQVANMDHCKILVLDEADKL------LSQDFKGMLDHVIS 124
+ P + +K N K++++DE L + Q+ K + S
Sbjct: 133 -FVATIPLVFCEA-EKMDPNTQFLKVMMIDEPAILDQAIARIPQEVKEKYTVLKS 185
>1di6_A MOGA, molybdenum cofactor biosynthetic enzyme; MOCO, MOCO
biosynthesis, gephyrin function; 1.45A {Escherichia
coli} SCOP: c.57.1.1 PDB: 1di7_A
Length = 195
Score = 27.7 bits (62), Expect = 4.4
Identities = 15/66 (22%), Positives = 29/66 (43%), Gaps = 17/66 (25%)
Query: 30 IVPTRELALQTSQICIELAKHLNVKVMVTTGGTNL--RDDIMRIYQKVHLIIATPGRILD 87
++P + ++ Q EL ++ +++TTGGT RD TP L
Sbjct: 46 LIPDEQAIIE--QTLCELVDEMSCHLVLTTGGTGPARRD-------------VTPDATLA 90
Query: 88 LMDKQV 93
+ D+++
Sbjct: 91 VADREM 96
>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 = 28.5 bits (64), Expect = 4.6
Identities = 8/31 (25%), Positives = 14/31 (45%)
Query: 25 KATLIIVPTRELALQTSQICIELAKHLNVKV 55
K +I PT L +Q ++ + A+ V
Sbjct: 100 KRCYVIFPTSLLVIQAAETIRKYAEKAGVGT 130
>2fz4_A DNA repair protein RAD25; RECA-like domain, DNA damage recognition
domain, DNA binding; HET: DNA; 2.40A {Archaeoglobus
fulgidus} SCOP: c.37.1.19
Length = 237
Score = 27.3 bits (61), Expect = 6.4
Identities = 12/44 (27%), Positives = 16/44 (36%), Gaps = 3/44 (6%)
Query: 25 KATLIIVPTRELALQTSQICIELAKHLNVKVMVTTGGTNLRDDI 68
TLI+VPT LA Q + L V +G +
Sbjct: 134 TPTLIVVPTLALAEQWKE---RLGIFGEEYVGEFSGRIKELKPL 174
>2o7a_A Lysozyme; protein folding, protein stability, circular permutant,
hydrolase; HET: SME; 0.84A {Enterobacteria phage T4}
Length = 124
Score = 26.8 bits (59), Expect = 6.6
Identities = 14/63 (22%), Positives = 24/63 (38%), Gaps = 14/63 (22%)
Query: 105 DEADKLLSQDFKGMLDHVISI---------LPHERQILLYSATFPL---TVKNF--MEKH 150
DEA+KL +QD + ++ L R+ L + F + V F +
Sbjct: 3 DEAEKLFNQDVDAAVRGILRNAKLKPVYDSLDAVRRAALINMVFQMGETGVAGFTNSLRM 62
Query: 151 LKD 153
L+
Sbjct: 63 LQQ 65
>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR
complex, HMR, HML, TELO AAA+ domain, structural,
nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}
Length = 318
Score = 27.2 bits (59), Expect = 8.5
Identities = 7/50 (14%), Positives = 21/50 (42%), Gaps = 4/50 (8%)
Query: 70 RIYQKVHLIIATPGRILDLMDKQVANMDHCK----ILVLDEADKLLSQDF 115
+I+ + L+ ++ + N+ K ++++ + LLS+
Sbjct: 100 KIWFAISKENLCGDISLEALNFYITNVPKAKKRKTLILIQNPENLLSEKI 149
>1eex_A Propanediol dehydratase; coenzyme B12, potassium ION, TIM barrel,
lyase; HET: COY; 1.70A {Klebsiella oxytoca} SCOP:
c.1.19.3 PDB: 1dio_A* 1egm_A* 1egv_A* 1iwb_A* 1uc4_A*
1uc5_A* 3auj_A* 1iwp_A* 1mmf_A*
Length = 554
Score = 27.6 bits (61), Expect = 8.5
Identities = 21/76 (27%), Positives = 33/76 (43%), Gaps = 2/76 (2%)
Query: 252 LFTRGIDVQAVNVVINFDFPKMAETYLHRIGRSGRYGHLGIAINLI-TYEDRYALHRIEK 310
L G A ++ +N K+ YLH G + A+N + Y +R++
Sbjct: 477 LAQGGFTDVAQDM-LNIQKAKLTGDYLHTSAIIVGDGQVLSAVNDVNDYAGPATGYRLQG 535
Query: 311 ELGTEIKSIPKVIDPA 326
E EIK+IP +DP
Sbjct: 536 ERWEEIKNIPGALDPN 551
>1jlj_A Gephyrin; globular alpha/beta fold, structural protein; 1.60A {Homo
sapiens} SCOP: c.57.1.1 PDB: 1ihc_A
Length = 189
Score = 26.9 bits (60), Expect = 8.6
Identities = 10/51 (19%), Positives = 21/51 (41%), Gaps = 15/51 (29%)
Query: 45 IELAKHLNVKVMVTTGGTNL--RDDIMRIYQKVHLIIATPGRILDLMDKQV 93
I+ + +++TTGGT RD TP ++++++
Sbjct: 71 IDWCDEKELNLILTTGGTGFAPRD-------------VTPEATKEVIEREA 108
>4g3f_A NF-kappa-beta-inducing kinase; non-RD kinase, protein
serine/threonine kinase, S based drug design, MAP3K14,
transferase; HET: 0WB; 1.64A {Mus musculus} PDB: 4g3g_A*
4g3c_A 4dn5_A*
Length = 336
Score = 27.0 bits (60), Expect = 10.0
Identities = 6/27 (22%), Positives = 11/27 (40%)
Query: 156 EINLMEELTLKGVTQYYAFVQERQKVH 182
E+ L+ + Y V+E V+
Sbjct: 100 ELVACAGLSSPRIVPLYGAVREGPWVN 126
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
0.324 0.138 0.399
Gapped
Lambda K H
0.267 0.0672 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 5,311,861
Number of extensions: 325648
Number of successful extensions: 1166
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1036
Number of HSP's successfully gapped: 102
Length of query: 351
Length of database: 6,701,793
Length adjustment: 94
Effective length of query: 257
Effective length of database: 4,077,219
Effective search space: 1047845283
Effective search space used: 1047845283
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.5 bits)
S2: 58 (26.2 bits)