RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy1548
(448 letters)
>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 = 458 bits (1180), Expect = e-160
Identities = 269/420 (64%), Positives = 299/420 (71%), Gaps = 78/420 (18%)
Query: 73 AYVSIHSSGFRDFLLKPEILRAIVDCWRILVATNLFGRGMDIERVNIVFNYDMPEDSDTY 132
SSGFRDFLLKPE+LRAIVDC F +++ I
Sbjct: 1 GSPGHMSSGFRDFLLKPELLRAIVDCG--------FEHPSEVQHECIP------------ 40
Query: 133 LHRVARAGRFGTKAVLGMDILCQAKSGMGKTAVFVLATLQQLETTDSNVYVLVMCHTREL 192
+A+LGMD+LCQAKSGMGKTAVFVLATLQQLE V VLVMCHTREL
Sbjct: 41 ------------QAILGMDVLCQAKSGMGKTAVFVLATLQQLEPVTGQVSVLVMCHTREL 88
Query: 193 AFQISKEYERFSKYMSNIKVGVFFGGLPIQKDEEYLKTHNPQIVVGTPGRILALVRNKKL 252
AFQISKEYERFSKYM N+KV VFFGGL I+KDEE LK + P IVVGTPGRILAL RNK L
Sbjct: 89 AFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEVLKKNCPHIVVGTPGRILALARNKSL 148
Query: 253 NLSLLKHFILDECDKMLEQLEMRRDVQEIFRSSPHTKQVMMFSATLSKEIRPVCKKFMHD 312
NL +KHFILDECDKMLEQL+MRRDVQEIFR +PH KQVMMFSATLSKEIRPVC+KFM D
Sbjct: 149 NLKHIKHFILDECDKMLEQLDMRRDVQEIFRMTPHEKQVMMFSATLSKEIRPVCRKFMQD 208
Query: 313 PMEVYVDDEAKLTLHGLQQHYVKLKENEKNKKLFELLDVLEFNQVVIFVKSVTRCIALST 372
PME++VDDE KLTLHGLQQ+YVKLK+NEKN+KLF+LLDVLEFNQVVIFVKSV RCIAL+
Sbjct: 209 PMEIFVDDETKLTLHGLQQYYVKLKDNEKNRKLFDLLDVLEFNQVVIFVKSVQRCIALAQ 268
Query: 373 LLSEQNFPAVSIHRGMTQEERLKKYQEFKDF----------------------------- 403
LL EQNFPA++IHRGM QEERL +YQ+FKDF
Sbjct: 269 LLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRILVATNLFGRGMDIERVNIAFNYDMP 328
Query: 404 -----------------HKGLAITFASDENDAKILNNVQDRFDVSISELPDEIDLSTYIE 446
KGLAITF SDENDAKILN+VQDRF+V+ISELPDEID+S+YIE
Sbjct: 329 EDSDTYLHRVARAGRFGTKGLAITFVSDENDAKILNDVQDRFEVNISELPDEIDISSYIE 388
>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 = 365 bits (940), Expect = e-124
Identities = 115/426 (26%), Positives = 177/426 (41%), Gaps = 84/426 (19%)
Query: 67 QKEVKGAYVSIHSSGFRDFLLKPEILRAIVDCWRILVATNLFGRGMDIERVNIVFNYDMP 126
+ ++ + F DF LK E+L I + F + I+ I
Sbjct: 8 TRPQTDDVLNTKGNTFEDFYLKRELLMGIFEAG--------FEKPSPIQEEAIPV----- 54
Query: 127 EDSDTYLHRVARAGRFGTKAVLGMDILCQAKSGMGKTAVFVLATLQQLETTDSNVYVLVM 186
A+ G DIL +AK+G GKTA FV+ TL++++ + + L+M
Sbjct: 55 -------------------AITGRDILARAKNGTGKTAAFVIPTLEKVKPKLNKIQALIM 95
Query: 187 CHTRELAFQISKEYERFSKYMSNIKVGVFFGGLPIQKDEEYLKTHNPQIVVGTPGRILAL 246
TRELA Q S+ K+ I V GG ++ D L I+VGTPGR+L L
Sbjct: 96 VPTRELALQTSQVVRTLGKHC-GISCMVTTGGTNLRDDILRLN-ETVHILVGTPGRVLDL 153
Query: 247 VRNKKLNLSLLKHFILDECDKMLEQLEMRRDVQEIFRSSPHTKQVMMFSATLSKEIRPVC 306
K +LS FI+DE DKML + + + +++I P T Q ++FSAT ++
Sbjct: 154 ASRKVADLSDCSLFIMDEADKMLSR-DFKTIIEQILSFLPPTHQSLLFSATFPLTVKEFM 212
Query: 307 KKFMHDPMEVYVDDEAKLTLHGLQQHYVKLKENEKNKKLFELLDVLEFNQVVIFVKSVTR 366
K +H P E+ + +E LTL G+ Q+Y ++E +K L L L+ NQ +IF S R
Sbjct: 213 VKHLHKPYEINLMEE--LTLKGITQYYAFVEERQKLHCLNTLFSKLQINQAIIFCNSTNR 270
Query: 367 CIALSTLLSEQNFPAVSIHRGMTQEERLKKYQEFKDF----------------------- 403
L+ +++ + H M Q+ER K + EF+
Sbjct: 271 VELLAKKITDLGYSCYYSHARMKQQERNKVFHEFRQGKVRTLVCSDLLTRGIDIQAVNVV 330
Query: 404 -----------------------HKGLAITFASDENDAKILNNVQDRFDVSISELPDEID 440
H GLAI + D L ++ I+ +P ID
Sbjct: 331 INFDFPKTAETYLHRIGRSGRFGHLGLAINLINWN-DRFNLYKIEQELGTEIAAIPATID 389
Query: 441 LSTYIE 446
S Y+
Sbjct: 390 KSLYVA 395
>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 = 314 bits (808), Expect = e-107
Identities = 171/250 (68%), Positives = 188/250 (75%), Gaps = 32/250 (12%)
Query: 69 EVKGAYVSIHSSGFRDFLLKPEILRAIVDCWRILVATNLFGRGMDIERVNIVFNYDMPED 128
+VKG+YVSIHSSGFRDFLLKPE+LRAIVDC F +++ I
Sbjct: 3 DVKGSYVSIHSSGFRDFLLKPELLRAIVDCG--------FEHPSEVQHECIPQ------- 47
Query: 129 SDTYLHRVARAGRFGTKAVLGMDILCQAKSGMGKTAVFVLATLQQLETTDSNVYVLVMCH 188
A+LGMD+LCQAKSGMGKTAVFVLATLQQLE V VLVMCH
Sbjct: 48 -----------------AILGMDVLCQAKSGMGKTAVFVLATLQQLEPVTGQVSVLVMCH 90
Query: 189 TRELAFQISKEYERFSKYMSNIKVGVFFGGLPIQKDEEYLKTHNPQIVVGTPGRILALVR 248
TRELAFQISKEYERFSKYM N+KV VFFGGL I+KDEE LK + P IVVGTPGRILAL R
Sbjct: 91 TRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEVLKKNCPHIVVGTPGRILALAR 150
Query: 249 NKKLNLSLLKHFILDECDKMLEQLEMRRDVQEIFRSSPHTKQVMMFSATLSKEIRPVCKK 308
NK LNL +KHFILDECDKMLEQL+MRRDVQEIFR +PH KQVMMFSATLSKEIRPVC+K
Sbjct: 151 NKSLNLKHIKHFILDECDKMLEQLDMRRDVQEIFRMTPHEKQVMMFSATLSKEIRPVCRK 210
Query: 309 FMHDPMEVYV 318
FM DPME++V
Sbjct: 211 FMQDPMEIFV 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 = 261 bits (670), Expect = 5e-86
Identities = 71/260 (27%), Positives = 110/260 (42%), Gaps = 34/260 (13%)
Query: 60 AGDALAKQKEVKGAYVSIHSSGFRDFLLKPEILRAIVDCWRILVATNLFGRGMDIERVNI 119
L+ + G + + F LL +L + F R ++ I
Sbjct: 4 TAQDLSSPRTRTGDVLLAEPADFESLLLSRPVLEGLRAAG--------FERPSPVQLKAI 55
Query: 120 VFNYDMPEDSDTYLHRVARAGRFGTKAVLGMDILCQAKSGMGKTAVFVLATLQQLETTDS 179
G+D++ QAKSG GKT VF L L +
Sbjct: 56 PL------------------------GRCGLDLIVQAKSGTGKTCVFSTIALDSLVLENL 91
Query: 180 NVYVLVMCHTRELAFQISKEYERFSKYMSNIKVGVFFGGLPIQKDEEYLKTHNPQIVVGT 239
+ +L++ TRE+A QI M ++ VF GG P+ +D+ LK I VG+
Sbjct: 92 STQILILAPTREIAVQIHSVITAIGIKMEGLECHVFIGGTPLSQDKTRLK--KCHIAVGS 149
Query: 240 PGRILALVRNKKLNLSLLKHFILDECDKMLEQLEMRRDVQEIFRSSPHTKQVMMFSATLS 299
PGRI L+ LN ++ FILDE DK+LE+ + + I+ S P +KQ++ SAT
Sbjct: 150 PGRIKQLIELDYLNPGSIRLFILDEADKLLEEGSFQEQINWIYSSLPASKQMLAVSATYP 209
Query: 300 KEIRPVCKKFMHDPMEVYVD 319
+ + K+M DP V ++
Sbjct: 210 EFLANALTKYMRDPTFVRLN 229
>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 = 261 bits (670), Expect = 2e-83
Identities = 99/335 (29%), Positives = 161/335 (48%), Gaps = 51/335 (15%)
Query: 149 GMDILCQAKSGMGKTAVFVLATLQQLETTDSNVYVLVMCHTRELAFQISKEYERFSKYMS 208
G D++ QA+SG GKTA F ++ LQQ+E LV+ TRELA QI K YM
Sbjct: 77 GYDVIAQAQSGTGKTATFAISILQQIELDLKATQALVLAPTRELAQQIQKVVMALGDYM- 135
Query: 209 NIKVGVFFGGLPIQKDEEYLKTHNPQIVVGTPGRILALVRNKKLNLSLLKHFILDECDKM 268
GG ++ + + L+ P I+VGTPGR+ ++ + L+ +K F+LDE D+M
Sbjct: 136 GASCHACIGGTNVRAEVQKLQMEAPHIIVGTPGRVFDMLNRRYLSPKYIKMFVLDEADEM 195
Query: 269 LEQLEMRRDVQEIFRSSPHTKQVMMFSATLSKEIRPVCKKFMHDPMEVYVDDEAKLTLHG 328
L + + + +IF+ QV++ SAT+ ++ V KKFM DP+ + V E +LTL G
Sbjct: 196 LSR-GFKDQIYDIFQKLNSNTQVVLLSATMPSDVLEVTKKFMRDPIRILVKKE-ELTLEG 253
Query: 329 LQQHYVKL-KENEKNKKLFELLDVLEFNQVVIFVKSVTRCIALSTLLSEQNFPAVSIHRG 387
++Q Y+ + +E K L +L + L Q VIF+ + + L+ + ++F ++H
Sbjct: 254 IRQFYINVEREEWKLDTLCDLYETLTITQAVIFINTRRKVDWLTEKMHARDFTVSAMHGD 313
Query: 388 MTQEERLKKYQEFK----------------------------DF---------------- 403
M Q+ER +EF+ D
Sbjct: 314 MDQKERDVIMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPTNRENYIHRIGRGGR 373
Query: 404 --HKGLAITFASDENDAKILNNVQDRFDVSISELP 436
KG+AI + E D + L +++ ++ SI E+P
Sbjct: 374 FGRKGVAINMVT-EEDKRTLRDIETFYNTSIEEMP 407
Score = 81.5 bits (202), Expect = 6e-17
Identities = 23/48 (47%), Positives = 37/48 (77%)
Query: 100 RILVATNLFGRGMDIERVNIVFNYDMPEDSDTYLHRVARAGRFGTKAV 147
R+L+ T+L RG+D+++V++V NYD+P + + Y+HR+ R GRFG K V
Sbjct: 332 RVLITTDLLARGIDVQQVSLVINYDLPTNRENYIHRIGRGGRFGRKGV 379
>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 = 260 bits (667), Expect = 3e-83
Identities = 106/339 (31%), Positives = 165/339 (48%), Gaps = 53/339 (15%)
Query: 149 GMDILCQAKSGMGKTAVFVLATLQQLETTDSNVYVLVMCHTRELAFQISKEYERFSKYMS 208
G D+L QA+SG GKT F +A LQ+++T+ L++ TRELA QI K + +M
Sbjct: 58 GHDVLAQAQSGTGKTGTFSIAALQRIDTSVKAPQALMLAPTRELALQIQKVVMALAFHM- 116
Query: 209 NIKVGVFFGGLPIQKDEEYLKTHNPQIVVGTPGRILALVRNKKLNLSLLKHFILDECDKM 268
+IKV GG +D E L+ + QIVVGTPGR+ ++ ++ +K FILDE D+M
Sbjct: 117 DIKVHACIGGTSFVEDAEGLR--DAQIVVGTPGRVFDNIQRRRFRTDKIKMFILDEADEM 174
Query: 269 LEQLEMRRDVQEIFRSSPHTKQVMMFSATLSKEIRPVCKKFMHDPMEVYVDDEAKLTLHG 328
L + + +IF P T QV++ SAT+ ++ V KFM +P+ + V + +LTL G
Sbjct: 175 LSS-GFKEQIYQIFTLLPPTTQVVLLSATMPNDVLEVTTKFMRNPVRILVKKD-ELTLEG 232
Query: 329 LQQHYVKLKENE-KNKKLFELLDVLEFNQVVIFVKSVTRCIALSTLLSEQNFPAVSIHRG 387
++Q YV ++E E K + L +L D + Q VIF + + L+T L F +I+
Sbjct: 233 IKQFYVNVEEEEYKYECLTDLYDSISVTQAVIFCNTRRKVEELTTKLRNDKFTVSAIYSD 292
Query: 388 MTQEERLKKYQEFK----------------------------DF---------------- 403
+ Q+ER +EF+ D
Sbjct: 293 LPQQERDTIMKEFRSGSSRILISTDLLARGIDVQQVSLVINYDLPANKENYIHRIGRGGR 352
Query: 404 --HKGLAITFASDENDAKILNNVQDRFDVSISELPDEID 440
KG+AI F ++E D + ++ + I ELP +I
Sbjct: 353 FGRKGVAINFVTNE-DVGAMRELEKFYSTQIEELPSDIA 390
Score = 82.2 bits (204), Expect = 3e-17
Identities = 24/48 (50%), Positives = 38/48 (79%)
Query: 100 RILVATNLFGRGMDIERVNIVFNYDMPEDSDTYLHRVARAGRFGTKAV 147
RIL++T+L RG+D+++V++V NYD+P + + Y+HR+ R GRFG K V
Sbjct: 311 RILISTDLLARGIDVQQVSLVINYDLPANKENYIHRIGRGGRFGRKGV 358
>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 = 254 bits (652), Expect = 7e-81
Identities = 100/335 (29%), Positives = 158/335 (47%), Gaps = 52/335 (15%)
Query: 149 GMDILCQAKSGMGKTAVFVLATLQQLETTDSNVYVLVMCHTRELAFQISKEYERFSKYMS 208
G D++ Q++SG GKTA F ++ LQ L+ L++ TRELA QI K YM
Sbjct: 74 GRDVIAQSQSGTGKTATFSISVLQCLDIQVRETQALILAPTRELAVQIQKGLLALGDYM- 132
Query: 209 NIKVGVFFGGLPIQKDEEYLKTHNPQIVVGTPGRILALVRNKKLNLSLLKHFILDECDKM 268
N++ GG + +D L + +V GTPGR+ ++R + L +K +LDE D+M
Sbjct: 133 NVQCHACIGGTNVGEDIRKLD-YGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEM 191
Query: 269 LEQLEMRRDVQEIFRSSPHTKQVMMFSATLSKEIRPVCKKFMHDPMEVYVDDEAKLTLHG 328
L + + + +++R P QV++ SATL EI + KFM DP+ + V + +LTL G
Sbjct: 192 LNK-GFKEQIYDVYRYLPPATQVVLISATLPHEILEMTNKFMTDPIRILVKRD-ELTLEG 249
Query: 329 LQQHYVKL-KENEKNKKLFELLDVLEFNQVVIFVKSVTRCIALSTLLSEQNFPAVSIHRG 387
++Q +V + +E K L +L D L Q VIF + + L+ + E NF S+H
Sbjct: 250 IKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGD 309
Query: 388 MTQEERLKKYQEFK----------------------------DF---------------- 403
M Q+ER +EF+ D
Sbjct: 310 MPQKERESIMKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGR 369
Query: 404 --HKGLAITFASDENDAKILNNVQDRFDVSISELP 436
KG+AI F ++ D +IL +++ + I E+P
Sbjct: 370 YGRKGVAINFVKND-DIRILRDIEQYYSTQIDEMP 403
Score = 80.3 bits (199), Expect = 1e-16
Identities = 20/48 (41%), Positives = 39/48 (81%)
Query: 100 RILVATNLFGRGMDIERVNIVFNYDMPEDSDTYLHRVARAGRFGTKAV 147
R+L++T+++ RG+D+ +V+++ NYD+P + + Y+HR+ R+GR+G K V
Sbjct: 328 RVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGV 375
>3fho_A ATP-dependent RNA helicase DBP5; mRNA export, ATPase, translation
termination, binding, hydrolase, membrane, mRNA
transport; 2.80A {Schizosaccharomyces pombe}
Length = 508
Score = 251 bits (643), Expect = 2e-78
Identities = 67/253 (26%), Positives = 120/253 (47%), Gaps = 8/253 (3%)
Query: 151 DILCQAKSGMGKTAVFVLATLQQLETTDSNVYVLVMCHTRELAFQISKEYERFSKYMSNI 210
+++ Q++SG GKTA F L L +++ + + + +RELA QI KY
Sbjct: 160 NMIGQSQSGTGKTAAFALTMLSRVDASVPKPQAICLAPSRELARQIMDVVTEMGKYT--- 216
Query: 211 KVGVFFGGLPIQKDEEYLKTHNPQIVVGTPGRILALVRNKKLNLSLLKHFILDECDKMLE 270
+V FG K + QIV+GTPG ++ L++ ++L+ +K F+LDE D ML+
Sbjct: 217 EVKTAFGIKDSVPKG--AK-IDAQIVIGTPGTVMDLMKRRQLDARDIKVFVLDEADNMLD 273
Query: 271 QLEMRRDVQEIFRSSPHTKQVMMFSATLSKEIRPVCKKFMHDPMEVYVDDEAKLTLHGLQ 330
Q + I P Q+++FSAT S+ + ++F + E+ + E +L++ G++
Sbjct: 274 QQGLGDQSMRIKHLLPRNTQIVLFSATFSERVEKYAERFAPNANEIRLKTE-ELSVEGIK 332
Query: 331 QHYVKLK-ENEKNKKLFELLDVLEFNQVVIFVKSVTRCIALSTLLSEQNFPAVSIHRGMT 389
Q Y+ + E K L EL +L Q +IF K ++ ++ + +
Sbjct: 333 QLYMDCQSEEHKYNVLVELYGLLTIGQSIIFCKKKDTAEEIARRMTADGHTVACLTGNLE 392
Query: 390 QEERLKKYQEFKD 402
+R F+
Sbjct: 393 GAQRDAIMDSFRV 405
Score = 83.4 bits (207), Expect = 2e-17
Identities = 27/54 (50%), Positives = 35/54 (64%), Gaps = 6/54 (11%)
Query: 100 RILVATNLFGRGMDIERVNIVFNYDMP------EDSDTYLHRVARAGRFGTKAV 147
++LV TN+ RG+D+ +VN+V NYDMP D TYLHR+ R GRFG V
Sbjct: 409 KVLVTTNVIARGIDVSQVNLVVNYDMPLDQAGRPDPQTYLHRIGRTGRFGRVGV 462
>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 = 239 bits (613), Expect = 5e-75
Identities = 72/254 (28%), Positives = 124/254 (48%), Gaps = 7/254 (2%)
Query: 151 DILCQAKSGMGKTAVFVLATLQQLETTDSNVYVLVMCHTRELAFQISKEYERFSKYMSNI 210
+++ Q++SG GKTA FVLA L Q+E + L + T ELA Q K E+ K+ +
Sbjct: 66 NLIAQSQSGTGKTAAFVLAMLSQVEPANKYPQCLCLSPTYELALQTGKVIEQMGKFYPEL 125
Query: 211 KVGVFFGGLPIQKDEEYLKTHNPQIVVGTPGRIL-ALVRNKKLNLSLLKHFILDECDKML 269
K+ G +++ ++ + QIV+GTPG +L + K ++ +K F+LDE D M+
Sbjct: 126 KLAYAVRGNKLERGQK----ISEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMI 181
Query: 270 EQLEMRRDVQEIFRSSPHTKQVMMFSATLSKEIRPVCKKFMHDPMEVYVDDEAKLTLHGL 329
+ I R P Q+++FSAT + +K + DP + + E + TL +
Sbjct: 182 ATQGHQDQSIRIQRMLPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKRE-EETLDTI 240
Query: 330 QQHYVKLK-ENEKNKKLFELLDVLEFNQVVIFVKSVTRCIALSTLLSEQNFPAVSIHRGM 388
+Q+YV +EK + L L + Q +IF + L+ LS++ + M
Sbjct: 241 KQYYVLCSSRDEKFQALCNLYGAITIAQAMIFCHTRKTASWLAAELSKEGHQVALLSGEM 300
Query: 389 TQEERLKKYQEFKD 402
E+R + F++
Sbjct: 301 MVEQRAAVIERFRE 314
Score = 75.7 bits (187), Expect = 4e-15
Identities = 25/54 (46%), Positives = 38/54 (70%), Gaps = 6/54 (11%)
Query: 100 RILVATNLFGRGMDIERVNIVFNYDMPEDSD------TYLHRVARAGRFGTKAV 147
++LV TN+ RG+D+E+V++V N+D+P D D TYLHR+ R GRFG + +
Sbjct: 318 KVLVTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRTGRFGKRGL 371
Score = 34.8 bits (81), Expect = 0.052
Identities = 13/41 (31%), Positives = 21/41 (51%), Gaps = 4/41 (9%)
Query: 404 HKGLAITFASDENDAKILNNVQDRFDVSISELP----DEID 440
+GLA+ ++ ILN +Q+ F+ I L DEI+
Sbjct: 368 KRGLAVNMVDSKHSMNILNRIQEHFNKKIERLDTDDLDEIE 408
>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 = 238 bits (610), Expect = 8e-74
Identities = 72/254 (28%), Positives = 124/254 (48%), Gaps = 7/254 (2%)
Query: 151 DILCQAKSGMGKTAVFVLATLQQLETTDSNVYVLVMCHTRELAFQISKEYERFSKYMSNI 210
+++ Q++SG GKTA FVLA L Q+E + L + T ELA Q K E+ K+ +
Sbjct: 133 NLIAQSQSGTGKTAAFVLAMLSQVEPANKYPQCLCLSPTYELALQTGKVIEQMGKFYPEL 192
Query: 211 KVGVFFGGLPIQKDEEYLKTHNPQIVVGTPGRIL-ALVRNKKLNLSLLKHFILDECDKML 269
K+ G +++ ++ + QIV+GTPG +L + K ++ +K F+LDE D M+
Sbjct: 193 KLAYAVRGNKLERGQK----ISEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMI 248
Query: 270 EQLEMRRDVQEIFRSSPHTKQVMMFSATLSKEIRPVCKKFMHDPMEVYVDDEAKLTLHGL 329
+ I R P Q+++FSAT + +K + DP + + E + TL +
Sbjct: 249 ATQGHQDQSIRIQRMLPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKRE-EETLDTI 307
Query: 330 QQHYVKLK-ENEKNKKLFELLDVLEFNQVVIFVKSVTRCIALSTLLSEQNFPAVSIHRGM 388
+Q+YV +EK + L L + Q +IF + L+ LS++ + M
Sbjct: 308 KQYYVLCSSRDEKFQALCNLYGAITIAQAMIFCHTRKTASWLAAELSKEGHQVALLSGEM 367
Query: 389 TQEERLKKYQEFKD 402
E+R + F++
Sbjct: 368 MVEQRAAVIERFRE 381
Score = 76.2 bits (188), Expect = 4e-15
Identities = 25/54 (46%), Positives = 38/54 (70%), Gaps = 6/54 (11%)
Query: 100 RILVATNLFGRGMDIERVNIVFNYDMPEDSD------TYLHRVARAGRFGTKAV 147
++LV TN+ RG+D+E+V++V N+D+P D D TYLHR+ R GRFG + +
Sbjct: 385 KVLVTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRTGRFGKRGL 438
Score = 35.4 bits (82), Expect = 0.034
Identities = 13/41 (31%), Positives = 21/41 (51%), Gaps = 4/41 (9%)
Query: 404 HKGLAITFASDENDAKILNNVQDRFDVSISELP----DEID 440
+GLA+ ++ ILN +Q+ F+ I L DEI+
Sbjct: 435 KRGLAVNMVDSKHSMNILNRIQEHFNKKIERLDTDDLDEIE 475
>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 = 231 bits (592), Expect = 4e-72
Identities = 66/253 (26%), Positives = 120/253 (47%), Gaps = 8/253 (3%)
Query: 151 DILCQAKSGMGKTAVFVLATLQQLETTDSNVYVLVMCHTRELAFQISKEYERFSKYMSNI 210
+++ Q++SG GKTA F L L ++ D++ + + +RELA Q + + K+
Sbjct: 46 NMIAQSQSGTGKTAAFSLTMLTRVNPEDASPQAICLAPSRELARQTLEVVQEMGKFTKIT 105
Query: 211 KVGVFFGGLPIQKDEEYLKTHNPQIVVGTPGRILALVRNKKLNLSLLKHFILDECDKMLE 270
+ K N Q++VGTPG +L L+R K + L +K F+LDE D ML+
Sbjct: 106 SQLIVPDSFEKNKQ------INAQVIVGTPGTVLDLMRRKLMQLQKIKIFVLDEADNMLD 159
Query: 271 QLEMRRDVQEIFRSSPHTKQVMMFSATLSKEIRPVCKKFMHDPMEVYVDDEAKLTLHGLQ 330
Q + + R P Q+++FSAT + +R KK + + + + ++ + ++
Sbjct: 160 QQGLGDQCIRVKRFLPKDTQLVLFSATFADAVRQYAKKIVPNANTLELQTN-EVNVDAIK 218
Query: 331 QHYVKLK-ENEKNKKLFELLDVLEFNQVVIFVKSVTRCIALSTLLSEQNFPAVSIHRGMT 389
Q Y+ K E +K L EL ++ +IFV + L L + +H +
Sbjct: 219 QLYMDCKNEADKFDVLTELYGLMTIGSSIIFVATKKTANVLYGKLKSEGHEVSILHGDLQ 278
Query: 390 QEERLKKYQEFKD 402
+ER + +F++
Sbjct: 279 TQERDRLIDDFRE 291
Score = 74.9 bits (185), Expect = 7e-15
Identities = 25/54 (46%), Positives = 35/54 (64%), Gaps = 6/54 (11%)
Query: 100 RILVATNLFGRGMDIERVNIVFNYDMP------EDSDTYLHRVARAGRFGTKAV 147
++L+ TN+ RG+DI V++V NYD+P D TY+HR+ R GRFG K V
Sbjct: 295 KVLITTNVLARGIDIPTVSMVVNYDLPTLANGQADPATYIHRIGRTGRFGRKGV 348
Score = 29.4 bits (67), Expect = 2.6
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 404 HKGLAITFASDENDAKILNNVQDRF-DVSISELP-DEIDL 441
KG+AI+F D+N IL+ +Q F D+ ++ +P D+ D
Sbjct: 345 RKGVAISFVHDKNSFNILSAIQKYFGDIEMTRVPTDDWDE 384
>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 = 202 bits (516), Expect = 1e-61
Identities = 70/256 (27%), Positives = 122/256 (47%), Gaps = 24/256 (9%)
Query: 149 GMDILCQAKSGMGKTAVFVLATLQQLETTDSNVYVLVMCHTRELAFQISKEYERFSKYMS 208
G +++ +AK+G GKTA + + L+ + LV+ TREL Q++ +YM
Sbjct: 31 GKNVVVRAKTGSGKTAAYAIPILEL------GMKSLVVTPTRELTRQVASHIRDIGRYM- 83
Query: 209 NIKVGVFFGGLPIQKDEEYLKTHNPQIVVGTPGRILALVRNKKLNLSLLKHFILDECDKM 268
+ KV +GG+P + ++ N IVV TPGR+L L ++LS + I+DE D M
Sbjct: 84 DTKVAEVYGGMPYKAQINRVR--NADIVVATPGRLLDLWSKGVIDLSSFEIVIIDEADLM 141
Query: 269 LEQLEM--RRDVQEIFRSSPHTKQVMMFSATLSKEIRPVCKKFMHDPMEVYVDDEAKLTL 326
EM D++ I + + K +FSAT+ +EIR V K F+ + E+ + L
Sbjct: 142 ---FEMGFIDDIKIILAQTSNRKITGLFSATIPEEIRKVVKDFITNYEEIEA----CIGL 194
Query: 327 HGLQQHYVKLKENEKNKKLFELLDVLEFNQVVIFVKSVTRCIALSTLLSEQNFPAVSIHR 386
++ +V +K + + + L + V++FV+ TR L A+ +
Sbjct: 195 ANVEHKFVHVK--DDWRSKVQALRENKDKGVIVFVR--TRNRVAK--LVRLFDNAIELRG 248
Query: 387 GMTQEERLKKYQEFKD 402
+ Q R + F++
Sbjct: 249 DLPQSVRNRNIDAFRE 264
Score = 66.4 bits (163), Expect = 3e-12
Identities = 20/44 (45%), Positives = 29/44 (65%)
Query: 100 RILVATNLFGRGMDIERVNIVFNYDMPEDSDTYLHRVARAGRFG 143
+L+ T++ RG+DI V V N+D P+D TY+HR+ R GR G
Sbjct: 268 DMLITTDVASRGLDIPLVEKVINFDAPQDLRTYIHRIGRTGRMG 311
>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 = 202 bits (517), Expect = 2e-61
Identities = 87/254 (34%), Positives = 141/254 (55%), Gaps = 15/254 (5%)
Query: 151 DILCQAKSGMGKTAVFVLATLQQLETTDSNVYVLVMCHTRELAFQISKEYERFSKYMSNI 210
+I+ QA++G GKTA F + ++ + ++ + +++ TRELA Q++ E E N+
Sbjct: 46 NIVAQARTGSGKTASFAIPLIELVNE-NNGIEAIILTPTRELAIQVADEIESLKGNK-NL 103
Query: 211 KVGVFFGGLPIQKDEEYLKTHNPQIVVGTPGRILALVRNKKLNLSLLKHFILDECDKMLE 270
K+ +GG I + LK N IVVGTPGRIL + LNL +K+FILDE D+M
Sbjct: 104 KIAKIYGGKAIYPQIKALK--NANIVVGTPGRILDHINRGTLNLKNVKYFILDEADEM-- 159
Query: 271 QLEM--RRDVQEIFRSSPHTKQVMMFSATLSKEIRPVCKKFMHDPMEVYVDDEAKLTLHG 328
L M +DV++I + K++++FSAT+ +EI + KK+M D + A +
Sbjct: 160 -LNMGFIKDVEKILNACNKDKRILLFSATMPREILNLAKKYMGDYSFIKAKINANIE--- 215
Query: 329 LQQHYVKLKENEKNKKLFELLDVLEFNQVVIFVKSVTRCIALSTLLSEQNFPAVSIHRGM 388
Q YV++ ENE+ + L LL EF ++F K+ L+++L + F A +IH +
Sbjct: 216 --QSYVEVNENERFEALCRLLKNKEF-YGLVFCKTKRDTKELASMLRDIGFKAGAIHGDL 272
Query: 389 TQEERLKKYQEFKD 402
+Q +R K + FK
Sbjct: 273 SQSQREKVIRLFKQ 286
Score = 66.0 bits (162), Expect = 5e-12
Identities = 21/46 (45%), Positives = 34/46 (73%)
Query: 100 RILVATNLFGRGMDIERVNIVFNYDMPEDSDTYLHRVARAGRFGTK 145
RIL+AT++ RG+D+ +N V NY +P++ ++Y+HR+ R GR G K
Sbjct: 290 RILIATDVMSRGIDVNDLNCVINYHLPQNPESYMHRIGRTGRAGKK 335
>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 = 196 bits (501), Expect = 1e-60
Identities = 66/173 (38%), Positives = 97/173 (56%), Gaps = 2/173 (1%)
Query: 149 GMDILCQAKSGMGKTAVFVLATLQQLETTDSNVYVLVMCHTRELAFQISKEYERFSKYMS 208
G D++ QA+SG GKTA F ++ LQQLE LV+ TRELA QI K YM
Sbjct: 67 GYDVIAQAQSGTGKTATFAISILQQLEIEFKETQALVLAPTRELAQQIQKVILALGDYM- 125
Query: 209 NIKVGVFFGGLPIQKDEEYLKTHNPQIVVGTPGRILALVRNKKLNLSLLKHFILDECDKM 268
GG ++ + + L+ P IVVGTPGR+ ++ + L+ +K F+LDE D+M
Sbjct: 126 GATCHACIGGTNVRNEMQKLQAEAPHIVVGTPGRVFDMLNRRYLSPKWIKMFVLDEADEM 185
Query: 269 LEQLEMRRDVQEIFRSSPHTKQVMMFSATLSKEIRPVCKKFMHDPMEVYVDDE 321
L + + + EIF+ + QV++ SAT+ ++ V KKFM DP+ + V E
Sbjct: 186 LSR-GFKDQIYEIFQKLNTSIQVVLLSATMPTDVLEVTKKFMRDPIRILVKKE 237
>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 = 191 bits (489), Expect = 3e-59
Identities = 52/168 (30%), Positives = 94/168 (55%), Gaps = 2/168 (1%)
Query: 149 GMDILCQAKSGMGKTAVFVLATLQQLETTDSNVYVLVMCHTRELAFQISKEYERFSKYMS 208
G DIL +AK+G GK+ +++ L++L+ N+ +V+ TRELA Q+S+ + SK+M
Sbjct: 40 GRDILARAKNGTGKSGAYLIPLLERLDLKKDNIQAMVIVPTRELALQVSQICIQVSKHMG 99
Query: 209 NIKVGVFFGGLPIQKDEEYLKTHNPQIVVGTPGRILALVRNKKLNLSLLKHFILDECDKM 268
KV GG ++ D L +V+ TPGRIL L++ + ++ +LDE DK+
Sbjct: 100 GAKVMATTGGTNLRDDIMRLD-DTVHVVIATPGRILDLIKKGVAKVDHVQMIVLDEADKL 158
Query: 269 LEQLEMRRDVQEIFRSSPHTKQVMMFSATLSKEIRPVCKKFMHDPMEV 316
L Q + + +++I + P +Q++++SAT ++ + P E+
Sbjct: 159 LSQ-DFVQIMEDIILTLPKNRQILLYSATFPLSVQKFMNSHLEKPYEI 205
>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 = 191 bits (487), Expect = 1e-58
Identities = 69/178 (38%), Positives = 104/178 (58%), Gaps = 5/178 (2%)
Query: 149 GMDILCQAKSGMGKTAVFVLATLQQLETTDSNVYVLVMCHTRELAFQISKEYERFSKYMS 208
G D+L QA+SG GKT F +A LQ+++T+ L++ TRELA QI K + +M
Sbjct: 51 GHDVLAQAQSGTGKTGTFSIAALQRIDTSVKAPQALMLAPTRELALQIQKVVMALAFHM- 109
Query: 209 NIKVGVFFGGLPIQKDEEYLKTHNPQIVVGTPGRILALVRNKKLNLSLLKHFILDECDKM 268
+IKV GG +D E L+ + QIVVGTPGR+ ++ ++ +K FILDE D+M
Sbjct: 110 DIKVHACIGGTSFVEDAEGLR--DAQIVVGTPGRVFDNIQRRRFRTDKIKMFILDEADEM 167
Query: 269 LEQLEMRRDVQEIFRSSPHTKQVMMFSATLSKEIRPVCKKFMHDPMEVYVDDEAKLTL 326
L + + +IF P T QV++ SAT+ ++ V KFM +P+ + V + +LTL
Sbjct: 168 LSS-GFKEQIYQIFTLLPPTTQVVLLSATMPNDVLEVTTKFMRNPVRILVKKD-ELTL 223
>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 = 200 bits (511), Expect = 2e-58
Identities = 60/295 (20%), Positives = 117/295 (39%), Gaps = 34/295 (11%)
Query: 149 GMDILCQAKSGMGKTAVFVLATLQQLETT----DSNVYVLVMCHTRELAFQISKEYERFS 204
D++ +AK+G GKT F++ Q L T V +++ TR+LA QI E ++
Sbjct: 60 DHDVIARAKTGTGKTFAFLIPIFQHLINTKFDSQYMVKAVIVAPTRDLALQIEAEVKKIH 119
Query: 205 KY---MSNIKVGVFFGGLPIQKDEEYLKTHNPQIVVGTPGRILALVRNKKLNL-SLLKHF 260
+ GG + + P IV+ TPGR++ ++ + +
Sbjct: 120 DMNYGLKKYACVSLVGGTDFRAAMNKMNKLRPNIVIATPGRLIDVLEKYSNKFFRFVDYK 179
Query: 261 ILDECDKMLEQLEM--RRDVQEIFRSSP-------HTKQVMMFSATLSKEIRPVCKKFMH 311
+LDE D++ LE+ R D++ I + ++FSATL +++ + M+
Sbjct: 180 VLDEADRL---LEIGFRDDLETISGILNEKNSKSADNIKTLLFSATLDDKVQKLANNIMN 236
Query: 312 DPMEVYV---DDEAKLTLHGLQQHYVKLKENEKNKKLF------ELLDVLEFNQVVIFVK 362
+++ D + Q V ++ + ++ + + +IF
Sbjct: 237 KKECLFLDTVDKNEPEAHERIDQSVVISEKFANSIFAAVEHIKKQIKERDSNYKAIIFAP 296
Query: 363 SVTRCIALSTLLSEQN---FPAVSIHRGMTQEERLKKYQEFKDFHKGLAITFASD 414
+V L ++L + P + H +TQ +R + FK I +D
Sbjct: 297 TVKFTSFLCSILKNEFKKDLPILEFHGKITQNKRTSLVKRFKK--DESGILVCTD 349
Score = 68.3 bits (167), Expect = 2e-12
Identities = 20/51 (39%), Positives = 30/51 (58%), Gaps = 4/51 (7%)
Query: 101 ILVATNLFGRGMDIERVNIVFNYDMPEDSDTYLHRV---ARAGRFGTKAVL 148
ILV T++ RGMD V+ V +P + Y+HR+ AR+G+ G +VL
Sbjct: 344 ILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEG-SSVL 393
>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 = 199 bits (508), Expect = 3e-58
Identities = 60/295 (20%), Positives = 117/295 (39%), Gaps = 34/295 (11%)
Query: 149 GMDILCQAKSGMGKTAVFVLATLQQLETT----DSNVYVLVMCHTRELAFQISKEYERFS 204
D++ +AK+G GKT F++ Q L T V +++ TR+LA QI E ++
Sbjct: 111 DHDVIARAKTGTGKTFAFLIPIFQHLINTKFDSQYMVKAVIVAPTRDLALQIEAEVKKIH 170
Query: 205 KY---MSNIKVGVFFGGLPIQKDEEYLKTHNPQIVVGTPGRILALVRNKKLNL-SLLKHF 260
+ GG + + P IV+ TPGR++ ++ + +
Sbjct: 171 DMNYGLKKYACVSLVGGTDFRAAMNKMNKLRPNIVIATPGRLIDVLEKYSNKFFRFVDYK 230
Query: 261 ILDECDKMLEQLEM--RRDVQEIFRSSP-------HTKQVMMFSATLSKEIRPVCKKFMH 311
+LDE D++ LE+ R D++ I + ++FSATL +++ + M+
Sbjct: 231 VLDEADRL---LEIGFRDDLETISGILNEKNSKSADNIKTLLFSATLDDKVQKLANNIMN 287
Query: 312 DPMEVYV---DDEAKLTLHGLQQHYVKLKENEKNKKLF------ELLDVLEFNQVVIFVK 362
+++ D + Q V ++ + ++ + + +IF
Sbjct: 288 KKECLFLDTVDKNEPEAHERIDQSVVISEKFANSIFAAVEHIKKQIKERDSNYKAIIFAP 347
Query: 363 SVTRCIALSTLLSEQN---FPAVSIHRGMTQEERLKKYQEFKDFHKGLAITFASD 414
+V L ++L + P + H +TQ +R + FK I +D
Sbjct: 348 TVKFTSFLCSILKNEFKKDLPILEFHGKITQNKRTSLVKRFKK--DESGILVCTD 400
Score = 68.7 bits (168), Expect = 1e-12
Identities = 20/51 (39%), Positives = 30/51 (58%), Gaps = 4/51 (7%)
Query: 101 ILVATNLFGRGMDIERVNIVFNYDMPEDSDTYLHRV---ARAGRFGTKAVL 148
ILV T++ RGMD V+ V +P + Y+HR+ AR+G+ G +VL
Sbjct: 395 ILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEG-SSVL 444
>1q0u_A Bstdead; DEAD protein, RNA binding protein; 1.85A {Geobacillus
stearothermophilus} SCOP: c.37.1.19
Length = 219
Score = 187 bits (477), Expect = 3e-57
Identities = 57/175 (32%), Positives = 95/175 (54%), Gaps = 9/175 (5%)
Query: 149 GMDILCQAKSGMGKTAVFVLATLQQLETTDSNVYVLVMCHTRELAFQISKEYERFSKYMS 208
G ++ Q+++G GKT ++L +++++ + V ++ TRELA QI E + +K+
Sbjct: 41 GESMVGQSQTGTGKTHAYLLPIMEKIKPERAEVQAVITAPTRELATQIYHETLKITKFCP 100
Query: 209 N---IKVGVFFGGLPIQKDEEYLKTHNPQIVVGTPGRILALVRNKKLNLSLLKHFILDEC 265
I GG QK E L P IV+GTPGRI +R + L++ ++DE
Sbjct: 101 KDRMIVARCLIGGTDKQKALEKLN-VQPHIVIGTPGRINDFIREQALDVHTAHILVVDEA 159
Query: 266 DKMLEQLEM--RRDVQEIFRSSPHTKQVMMFSATLSKEIRPVCKKFMHDPMEVYV 318
D M L+M DV +I P Q+++FSAT+ ++++P KK+M +P V+V
Sbjct: 160 DLM---LDMGFITDVDQIAARMPKDLQMLVFSATIPEKLKPFLKKYMENPTFVHV 211
>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 = 188 bits (478), Expect = 2e-56
Identities = 53/172 (30%), Positives = 88/172 (51%), Gaps = 5/172 (2%)
Query: 151 DILCQAKSGMGKTAVFVLATLQQLETTDSNVYVLVMCHTRELAFQISKEYERFSKYMSNI 210
+++ Q++SG GKTA FVLA L Q+E + L + T ELA Q K E+ K+ +
Sbjct: 133 NLIAQSQSGTGKTAAFVLAMLSQVEPANKYPQCLCLSPTYELALQTGKVIEQMGKFYPEL 192
Query: 211 KVGVFFGGLPIQKDEEYLKTHNPQIVVGTPGRIL-ALVRNKKLNLSLLKHFILDECDKML 269
K+ G +++ ++ + QIV+GTPG +L + K ++ +K F+LDE D M+
Sbjct: 193 KLAYAVRGNKLERGQK----ISEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMI 248
Query: 270 EQLEMRRDVQEIFRSSPHTKQVMMFSATLSKEIRPVCKKFMHDPMEVYVDDE 321
+ I R P Q+++FSAT + +K + DP + + E
Sbjct: 249 ATQGHQDQSIRIQRMLPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKRE 300
>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 = 177 bits (451), Expect = 6e-51
Identities = 75/261 (28%), Positives = 133/261 (50%), Gaps = 14/261 (5%)
Query: 149 GMDILCQAKSGMGKTAVFVLATLQQLETTDSNV-----YVLVMCHTRELAFQISKEYERF 203
G D++ A++G GKTA F+L L +L + V+++ TRELA QI E +F
Sbjct: 93 GRDLMACAQTGSGKTAAFLLPILSKLLEDPHELELGRPQVVIVSPTRELAIQIFNEARKF 152
Query: 204 SKYMSNIKVGVFFGGLPIQKDEEYLKTHNPQIVVGTPGRILALVRNKKLNLSLLKHFILD 263
+ + S +K+G+ +GG + E + +V+ TPGR+L V + + +LD
Sbjct: 153 A-FESYLKIGIVYGGTSFRHQNECIT-RGCHVVIATPGRLLDFVDRTFITFEDTRFVVLD 210
Query: 264 ECDKMLE---QLEMRRDVQEIFRSSPHTKQVMMFSATLSKEIRPVCKKFMHDPMEVYVDD 320
E D+ML+ +MRR + + + Q +MFSAT +EI+ + +F+ + + V +
Sbjct: 211 EADRMLDMGFSEDMRRIMTHV--TMRPEHQTLMFSATFPEEIQRMAGEFLKNYVFVAI-G 267
Query: 321 EAKLTLHGLQQHYVKLKENEKNKKLFELLDVLEFNQVVIFVKSVTRCIALSTLLSEQNFP 380
++Q ++ + K KL E+L + ++FV++ L++ LSE+ FP
Sbjct: 268 IVGGACSDVKQTIYEVNKYAKRSKLIEILSEQA-DGTIVFVETKRGADFLASFLSEKEFP 326
Query: 381 AVSIHRGMTQEERLKKYQEFK 401
SIH Q +R + ++FK
Sbjct: 327 TTSIHGDRLQSQREQALRDFK 347
Score = 65.6 bits (161), Expect = 9e-12
Identities = 21/45 (46%), Positives = 30/45 (66%)
Query: 101 ILVATNLFGRGMDIERVNIVFNYDMPEDSDTYLHRVARAGRFGTK 145
+L+AT++ RG+DI+ + V NYDMP D Y+HR+ R GR G
Sbjct: 353 VLIATSVASRGLDIKNIKHVINYDMPSKIDDYVHRIGRTGRVGNN 397
>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 = 167 bits (425), Expect = 1e-49
Identities = 56/175 (32%), Positives = 94/175 (53%), Gaps = 12/175 (6%)
Query: 149 GMDILCQAKSGMGKTAVFVLATLQQLETTDSN---VYVLVMCHTRELAFQISKEYERFSK 205
G D++ QA++G GKT F L ++L + LV+ TRELA Q++ E +
Sbjct: 38 GKDLIGQARTGTGKTLAFALPIAERLAPSQERGRKPRALVLTPTRELALQVASELTAVAP 97
Query: 206 YMSNIKVGVFFGGLPIQKDEEYLKTHNPQIVVGTPGRILALVRNKKLNLSLLKHFILDEC 265
++ KV +GG K +E L VV TPGR L +R L+LS ++ +LDE
Sbjct: 98 HL---KVVAVYGGTGYGKQKEALL-RGADAVVATPGRALDYLRQGVLDLSRVEVAVLDEA 153
Query: 266 DKMLEQLEM--RRDVQEIFRSSPHTKQVMMFSATLSKEIRPVCKKFMHDPMEVYV 318
D+ML M +V+ + ++P ++Q ++FSATL + + +++M +P+ + V
Sbjct: 154 DEMLS---MGFEEEVEALLSATPPSRQTLLFSATLPSWAKRLAERYMKNPVLINV 205
>2i4i_A ATP-dependent RNA helicase DDX3X; DEAD, structural genomics, SGC,
structural GE consortium, hydrolase; HET: AMP; 2.20A
{Homo sapiens}
Length = 417
Score = 170 bits (434), Expect = 1e-48
Identities = 76/275 (27%), Positives = 134/275 (48%), Gaps = 25/275 (9%)
Query: 149 GMDILCQAKSGMGKTAVFVL---------ATLQQLETTDSNV---------YVLVMCHTR 190
D++ A++G GKTA F+L + L N LV+ TR
Sbjct: 52 KRDLMACAQTGSGKTAAFLLPILSQIYSDGPGEALRAMKENGRYGRRKQYPISLVLAPTR 111
Query: 191 ELAFQISKEYERFSKYMSNIKVGVFFGGLPIQKDEEYLKTHNPQIVVGTPGRILALVRNK 250
ELA QI +E +FS Y S ++ V +GG I + L+ ++V TPGR++ ++
Sbjct: 112 ELAVQIYEEARKFS-YRSRVRPCVVYGGADIGQQIRDLE-RGCHLLVATPGRLVDMMERG 169
Query: 251 KLNLSLLKHFILDECDKMLE---QLEMRRDVQEIFRSSPHTKQVMMFSATLSKEIRPVCK 307
K+ L K+ +LDE D+ML+ + ++RR V++ + MMFSAT KEI+ + +
Sbjct: 170 KIGLDFCKYLVLDEADRMLDMGFEPQIRRIVEQDTMPPKGVRHTMMFSATFPKEIQMLAR 229
Query: 308 KFMHDPMEVYVDDEAKLTLHGLQQHYVKLKENEKNKKLFELLDVLEFNQ-VVIFVKSVTR 366
F+ + + + V T + Q V ++E++K L +LL+ + ++FV++
Sbjct: 230 DFLDEYIFLAV-GRVGSTSENITQKVVWVEESDKRSFLLDLLNATGKDSLTLVFVETKKG 288
Query: 367 CIALSTLLSEQNFPAVSIHRGMTQEERLKKYQEFK 401
+L L + + SIH +Q +R + +F+
Sbjct: 289 ADSLEDFLYHEGYACTSIHGDRSQRDREEALHQFR 323
Score = 65.6 bits (161), Expect = 9e-12
Identities = 22/45 (48%), Positives = 29/45 (64%)
Query: 101 ILVATNLFGRGMDIERVNIVFNYDMPEDSDTYLHRVARAGRFGTK 145
ILVAT + RG+DI V V N+D+P D + Y+HR+ R GR G
Sbjct: 329 ILVATAVAARGLDISNVKHVINFDLPSDIEEYVHRIGRTGRVGNL 373
>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 = 162 bits (412), Expect = 2e-47
Identities = 56/175 (32%), Positives = 99/175 (56%), Gaps = 4/175 (2%)
Query: 146 AVLGMDILCQAKSGMGKTAVFVLATLQQLETTDSNVYVLVMCHTRELAFQISKEYERFSK 205
A+ G DI+ A++G GKT F L L L T ++ LV+ TRELAFQIS+++E
Sbjct: 77 ALQGRDIIGLAETGSGKTGAFALPILNALLETPQRLFALVLTPTRELAFQISEQFEALGS 136
Query: 206 YMSNIKVGVFFGGLPIQKDEEYLKTHNPQIVVGTPGRILALVRNKK-LNLSLLKHFILDE 264
+ ++ V GG+ L P I++ TPGR++ + N K NL LK+ ++DE
Sbjct: 137 SI-GVQSAVIVGGIDSMSQSLALAKK-PHIIIATPGRLIDHLENTKGFNLRALKYLVMDE 194
Query: 265 CDKMLEQLEMRRDVQEIFRSSPHTKQVMMFSATLSKEIRPVCKKFMHDPMEVYVD 319
D++L ++ +V +I + P ++ +FSAT++K+++ + + + +P++ V
Sbjct: 195 ADRILN-MDFETEVDKILKVIPRDRKTFLFSATMTKKVQKLQRAALKNPVKCAVS 248
>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 = 159 bits (405), Expect = 3e-47
Identities = 100/168 (59%), Positives = 115/168 (68%), Gaps = 46/168 (27%)
Query: 325 TLHGLQQHYVKLKENEKNKKLFELLDVLEFNQVVIFVKSVTRCIALSTLLSEQNFPAVSI 384
+LHGLQQ+YVKLK+NEKN+KLF+LLDVLEFNQVVIFVKSV RCIAL+ LL EQNFPA++I
Sbjct: 2 SLHGLQQYYVKLKDNEKNRKLFDLLDVLEFNQVVIFVKSVQRCIALAQLLVEQNFPAIAI 61
Query: 385 HRGMTQEERLKKYQEFKDF----------------------------------------- 403
HRGM QEERL +YQ+FKDF
Sbjct: 62 HRGMPQEERLSRYQQFKDFQRRILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVAR 121
Query: 404 -----HKGLAITFASDENDAKILNNVQDRFDVSISELPDEIDLSTYIE 446
KGLAITF SDENDAKILN+VQDRF+V+ISELPDEID+S+YIE
Sbjct: 122 AGRFGTKGLAITFVSDENDAKILNDVQDRFEVNISELPDEIDISSYIE 169
Score = 104 bits (261), Expect = 2e-26
Identities = 45/48 (93%), Positives = 46/48 (95%)
Query: 100 RILVATNLFGRGMDIERVNIVFNYDMPEDSDTYLHRVARAGRFGTKAV 147
RILVATNLFGRGMDIERVNI FNYDMPEDSDTYLHRVARAGRFGTK +
Sbjct: 83 RILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKGL 130
>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 = 154 bits (391), Expect = 2e-44
Identities = 46/176 (26%), Positives = 87/176 (49%), Gaps = 7/176 (3%)
Query: 149 GMDILCQAKSGMGKTAVFVLATLQQLETTDSN-VYVLVMCHTRELAFQISKEYERFSKYM 207
G ++L A +G GKT F + L QL+ + L++ TRELA QI +E + S+
Sbjct: 66 GRELLASAPTGSGKTLAFSIPILMQLKQPANKGFRALIISPTRELASQIHRELIKISEG- 124
Query: 208 SNIKVGVFFGGLPIQKDEEYLKTHNPQIVVGTPGRILALVRNKK--LNLSLLKHFILDEC 265
+ ++ + K + I+V TP R++ L++ ++L+ ++ ++DE
Sbjct: 125 TGFRIHMIHKAAVAAKKFGPKSSKKFDILVTTPNRLIYLLKQDPPGIDLASVEWLVVDES 184
Query: 266 DKMLEQLEM--RRDVQEIFRS-SPHTKQVMMFSATLSKEIRPVCKKFMHDPMEVYV 318
DK+ E + R + IF + + H + MFSAT + ++ CK + + + V +
Sbjct: 185 DKLFEDGKTGFRDQLASIFLACTSHKVRRAMFSATFAYDVEQWCKLNLDNVISVSI 240
>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 = 152 bits (386), Expect = 9e-44
Identities = 52/182 (28%), Positives = 97/182 (53%), Gaps = 9/182 (4%)
Query: 146 AVLGMDILCQAKSGMGKTAVFVLATLQQLE----TTDSNVYVLVMCHTRELAFQISKEYE 201
A+ G D+L AK+G GKT F++ L+ L T+ + VL++ TRELA+Q +
Sbjct: 59 ALQGKDVLGAAKTGSGKTLAFLVPVLEALYRLQWTSTDGLGVLIISPTRELAYQTFEVLR 118
Query: 202 RFSKYMSNIKVGVFFGGLPIQKDEEYLKTHNPQIVVGTPGRILALVRNKK-LNLSLLKHF 260
+ K G+ GG ++ + E + N I+V TPGR+L + + + L+
Sbjct: 119 KVGKNHD-FSAGLIIGGKDLKHEAERIN--NINILVCTPGRLLQHMDETVSFHATDLQML 175
Query: 261 ILDECDKMLEQLEMRRDVQEIFRSSPHTKQVMMFSATLSKEIRPVCKKFMHDPMEVYVDD 320
+LDE D++L+ + + + + P +Q ++FSAT +K ++ + + + +P V+V +
Sbjct: 176 VLDEADRILD-MGFADTMNAVIENLPKKRQTLLFSATQTKSVKDLARLSLKNPEYVWVHE 234
Query: 321 EA 322
+A
Sbjct: 235 KA 236
>3oiy_A Reverse gyrase helicase domain; topoisomerase, DNA supercoiling,
archaea, isomeras; 2.35A {Thermotoga maritima} PDB:
3p4y_A 3p4x_A*
Length = 414
Score = 146 bits (371), Expect = 7e-40
Identities = 44/280 (15%), Positives = 88/280 (31%), Gaps = 46/280 (16%)
Query: 149 GMDILCQAKSGMGKTAVFVLATLQQLETTDSNVYVLVMCHTRELAFQISKEYERFSKYMS 208
G A +G+GKT ++ L ++ T L Q + ++ +
Sbjct: 36 GKSFTMVAPTGVGKTTFGMMTALWLA---RKGKKSALVFPTVTLVKQTLERLQKLADE-- 90
Query: 209 NIKVGVFFGGLPIQKDEEYLK---THNPQIVVGTPGRILALVRN-KKLNLSLLKHFILDE 264
+K+ F+ + ++ E++ K + I+V + + +N +KL+ +D+
Sbjct: 91 KVKIFGFYSSMKKEEKEKFEKSFEEDDYHILVFSTQF---VSKNREKLSQKRFDFVFVDD 147
Query: 265 CDKMLEQLEM--RRDVQEIFRSSPHTKQVMMFSATLSKEIRPVCKKFMHDPMEVYVDDE- 321
D +L+ D + P FS +I K + V
Sbjct: 148 VDAVLK---ASRNIDTLLMMVGIPEEIIRKAFSTIKQGKIYERPKNLKPGILVVSSATAK 204
Query: 322 ----AKLTLHGLQ---------------QHYVKLKENEKNKKLFELLDVLEFNQVVIFVK 362
L L + + EK +L E+ + ++IF +
Sbjct: 205 PRGIRPLLFRDLLNFTVGRLVSVARNITHVRISSRSKEKLVELLEIFR----DGILIFAQ 260
Query: 363 SVTRCIALSTLLSEQNFPAVSIHRGMTQEERLKKYQEFKD 402
+ L L F E K +++FK
Sbjct: 261 TEEEGKELYEYLKRFKFNVGETWS-----EFEKNFEDFKV 295
Score = 47.4 bits (113), Expect = 5e-06
Identities = 14/51 (27%), Positives = 21/51 (41%), Gaps = 7/51 (13%)
Query: 100 RILVAT----NLFGRGMDI-ERVNIVFNYDMPEDSD--TYLHRVARAGRFG 143
IL+ RG+D+ ER+ V + P D TY+ R+ R
Sbjct: 299 NILIGVQAYYGKLTRGVDLPERIKYVIFWGTPSGPDVYTYIQASGRSSRIL 349
>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 = 136 bits (346), Expect = 5e-38
Identities = 50/178 (28%), Positives = 86/178 (48%), Gaps = 14/178 (7%)
Query: 149 GMDILCQAKSGMGKTAVFVLATLQQLE------TTDSNVYVLVMCHTRELAFQISKEYER 202
G+D++ A++G GKT +++ L+ + +LV+ TRELA + E +
Sbjct: 57 GIDLIVVAQTGTGKTLSYLMPGFIHLDSQPISREQRNGPGMLVLTPTRELALHVEAECSK 116
Query: 203 FSKYMSNIKVGVFFGGLPIQKDEEYLKTHNPQIVVGTPGRILALVRNKKLNLSLLKHFIL 262
+S +K +GG E + I++ TPGR+ L N +NL + + ++
Sbjct: 117 YSY--KGLKSICIYGGRNRNGQIEDIS-KGVDIIIATPGRLNDLQMNNSVNLRSITYLVI 173
Query: 263 DECDKMLEQLEM--RRDVQEIFRSSPHTKQVMMFSATLSKEIRPVCKKFMHDPMEVYV 318
DE DKML+ M +++I +Q +M SAT +R + ++ DPM VYV
Sbjct: 174 DEADKMLD---MEFEPQIRKILLDVRPDRQTVMTSATWPDTVRQLALSYLKDPMIVYV 228
>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 = 136 bits (344), Expect = 2e-37
Identities = 54/182 (29%), Positives = 96/182 (52%), Gaps = 14/182 (7%)
Query: 149 GMDILCQAKSGMGKTAVFVLATLQQLETTDSNV---------YVLVMCHTRELAFQISKE 199
DI+ A++G GKTA F++ + L D N L++ TRELA QI E
Sbjct: 60 HRDIMACAQTGSGKTAAFLIPIINHLVCQDLNQQRYSKTAYPKCLILAPTRELAIQILSE 119
Query: 200 YERFSKYMSNIKVGVFFGGLPIQKDEEYLKTHNPQIVVGTPGRILALVRNKKLNLSLLKH 259
++FS + ++ V +GG ++ ++V TPGR++ + K++L K+
Sbjct: 120 SQKFSLN-TPLRSCVVYGGADTHSQIREVQ-MGCHLLVATPGRLVDFIEKNKISLEFCKY 177
Query: 260 FILDECDKMLE---QLEMRRDVQEIFRSSPHTKQVMMFSATLSKEIRPVCKKFMHDPMEV 316
+LDE D+ML+ + ++R+ ++E S +Q +MFSAT KEI+ + F+++ + +
Sbjct: 178 IVLDEADRMLDMGFEPQIRKIIEESNMPSGINRQTLMFSATFPKEIQKLAADFLYNYIFM 237
Query: 317 YV 318
V
Sbjct: 238 TV 239
>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 = 130 bits (330), Expect = 2e-35
Identities = 45/177 (25%), Positives = 87/177 (49%), Gaps = 9/177 (5%)
Query: 146 AVLGMDILCQAKSGMGKTAVFVLATLQQLETTDSN----VYVLVMCHTRELAFQISKEYE 201
+ G D+L AK+G GKT F++ ++ + VL++ TRELA Q +
Sbjct: 88 LLEGRDLLAAAKTGSGKTLAFLIPAVELIVKLRFMPRNGTGVLILSPTRELAMQTFGVLK 147
Query: 202 RFSKYMSNIKVGVFFGGLPIQKDEEYLKTHNPQIVVGTPGRILALVRNKK-LNLSLLKHF 260
+ G+ GG + + L + I+V TPGR+L ++N L+
Sbjct: 148 ELMTHHV-HTYGLIMGGSNRSAEAQKLG-NGINIIVATPGRLLDHMQNTPGFMYKNLQCL 205
Query: 261 ILDECDKMLEQLEMRRDVQEIFRSSPHTKQVMMFSATLSKEIRPVCKK-FMHDPMEV 316
++DE D++L+ + ++++I + P +Q M+FSAT ++++ + + +P+ V
Sbjct: 206 VIDEADRILD-VGFEEELKQIIKLLPTRRQTMLFSATQTRKVEDLARISLKKEPLYV 261
>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 = 8e-35
Identities = 47/177 (26%), Positives = 85/177 (48%), Gaps = 12/177 (6%)
Query: 149 GMDILCQAKSGMGKTAVFVLATLQQLETTDSNV-----YVLVMCHTRELAFQISKEYERF 203
G+D++ A++G GKT ++L + + LV+ TRELA Q+ + +
Sbjct: 66 GLDMVGVAQTGSGKTLSYLLPAIVHINHQPFLERGDGPICLVLAPTRELAQQVQQVAAEY 125
Query: 204 SKYMSNIKVGVFFGGLPIQKDEEYLKTHNPQIVVGTPGRILALVRNKKLNLSLLKHFILD 263
+K +GG P L+ +I + TPGR++ + K NL + +LD
Sbjct: 126 C-RACRLKSTCIYGGAPKGPQIRDLE-RGVEICIATPGRLIDFLECGKTNLRRTTYLVLD 183
Query: 264 ECDKMLEQLEM--RRDVQEIFRSSPHTKQVMMFSATLSKEIRPVCKKFMHDPMEVYV 318
E D+M L+M +++I +Q +M+SAT KE+R + + F+ D + + +
Sbjct: 184 EADRM---LDMGFEPQIRKIVDQIRPDRQTLMWSATWPKEVRQLAEDFLKDYIHINI 237
>1fuk_A Eukaryotic initiation factor 4A; helicase, DEAD-box protein,
translation; 1.75A {Saccharomyces cerevisiae} SCOP:
c.37.1.19
Length = 165
Score = 109 bits (274), Expect = 2e-28
Identities = 37/162 (22%), Positives = 61/162 (37%), Gaps = 48/162 (29%)
Query: 326 LHGLQQHYVKLKENE-KNKKLFELLDVLEFNQVVIFVKSVTRCIALSTLLSEQNFPAVSI 384
L G++Q YV ++E E K + L +L D + Q VIF + + L+T L F +I
Sbjct: 1 LEGIKQFYVNVEEEEYKYECLTDLYDSISVTQAVIFCNTRRKVEELTTKLRNDKFTVSAI 60
Query: 385 HRGMTQEERLKKYQEFKDF----------------------------------------- 403
+ + Q+ER +EF+
Sbjct: 61 YSDLPQQERDTIMKEFRSGSSRILISTDLLARGIDVQQVSLVINYDLPANKENYIHRIGR 120
Query: 404 -----HKGLAITFASDENDAKILNNVQDRFDVSISELPDEID 440
KG+AI F ++E D + ++ + I ELP +I
Sbjct: 121 GGRFGRKGVAINFVTNE-DVGAMRELEKFYSTQIEELPSDIA 161
Score = 92.6 bits (231), Expect = 2e-22
Identities = 24/48 (50%), Positives = 38/48 (79%)
Query: 100 RILVATNLFGRGMDIERVNIVFNYDMPEDSDTYLHRVARAGRFGTKAV 147
RIL++T+L RG+D+++V++V NYD+P + + Y+HR+ R GRFG K V
Sbjct: 82 RILISTDLLARGIDVQQVSLVINYDLPANKENYIHRIGRGGRFGRKGV 129
>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 = 76.1 bits (188), Expect = 2e-16
Identities = 24/54 (44%), Positives = 37/54 (68%), Gaps = 6/54 (11%)
Query: 100 RILVATNLFGRGMDIERVNIVFNYDMP------EDSDTYLHRVARAGRFGTKAV 147
++L+ TN+ RG+D+++V IV N+D+P D +TYLHR+ R GRFG K +
Sbjct: 86 KVLITTNVCARGIDVKQVTIVVNFDLPVKQGEEPDYETYLHRIGRTGRFGKKGL 139
Score = 69.9 bits (172), Expect = 3e-14
Identities = 18/82 (21%), Positives = 38/82 (46%), Gaps = 1/82 (1%)
Query: 322 AKLTLHGLQQHYVKLK-ENEKNKKLFELLDVLEFNQVVIFVKSVTRCIALSTLLSEQNFP 380
+ LTL+ ++Q+YV + +K + L + + Q +IF ++ L+ + +
Sbjct: 1 SMLTLNNIRQYYVLCEHRKDKYQALCNIYGSITIGQAIIFCQTRRNAKWLTVEMIQDGHQ 60
Query: 381 AVSIHRGMTQEERLKKYQEFKD 402
+ +T E+R Q F+D
Sbjct: 61 VSLLSGELTVEQRASIIQRFRD 82
Score = 31.8 bits (73), Expect = 0.25
Identities = 14/41 (34%), Positives = 20/41 (48%), Gaps = 5/41 (12%)
Query: 404 HKGLAITFASDENDAKILNNVQDRFDVSISELP----DEID 440
KGLA + + L +QD F+ SI +L DEI+
Sbjct: 136 KKGLAFNMIEVD-ELPSLMKIQDHFNSSIKQLNAEDMDEIE 175
>2hjv_A ATP-dependent RNA helicase DBPA; parallel alpha-beta, hydrolase;
1.95A {Bacillus subtilis}
Length = 163
Score = 73.3 bits (181), Expect = 1e-15
Identities = 23/46 (50%), Positives = 34/46 (73%)
Query: 100 RILVATNLFGRGMDIERVNIVFNYDMPEDSDTYLHRVARAGRFGTK 145
R LVAT++ RG+DIE +++V NYD+P + ++Y+HR R GR G K
Sbjct: 87 RYLVATDVAARGIDIENISLVINYDLPLEKESYVHRTGRTGRAGNK 132
Score = 67.2 bits (165), Expect = 2e-13
Identities = 21/79 (26%), Positives = 37/79 (46%)
Query: 324 LTLHGLQQHYVKLKENEKNKKLFELLDVLEFNQVVIFVKSVTRCIALSTLLSEQNFPAVS 383
LT ++ ++++E K L ++L + +IF ++ L+ L + +P
Sbjct: 5 LTTRNIEHAVIQVREENKFSLLKDVLMTENPDSCIIFCRTKEHVNQLTDELDDLGYPCDK 64
Query: 384 IHRGMTQEERLKKYQEFKD 402
IH GM QE+R EFK
Sbjct: 65 IHGGMIQEDRFDVMNEFKR 83
>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 = 66.4 bits (163), Expect = 3e-13
Identities = 28/48 (58%), Positives = 35/48 (72%), Gaps = 3/48 (6%)
Query: 100 RILVATNLFGRGMDIERVNIVFNYDMPEDSDTYLHRV---ARAGRFGT 144
+LVAT++ RG+DI V+ VFN+DMP DTYLHR+ ARAGR GT
Sbjct: 82 NVLVATDVAARGIDIPDVSHVFNFDMPRSGDTYLHRIGRTARAGRKGT 129
Score = 49.9 bits (120), Expect = 2e-07
Identities = 16/73 (21%), Positives = 27/73 (36%)
Query: 330 QQHYVKLKENEKNKKLFELLDVLEFNQVVIFVKSVTRCIALSTLLSEQNFPAVSIHRGMT 389
Q +Y K L LL E + ++FV+ R L+ L E + M
Sbjct: 6 QWYYRADDLEHKTALLVHLLKQPEATRSIVFVRKRERVHELANWLREAGINNCYLEGEMV 65
Query: 390 QEERLKKYQEFKD 402
Q +R + + +
Sbjct: 66 QGKRNEAIKRLTE 78
>2p6n_A ATP-dependent RNA helicase DDX41; DEAD, structural genomics,
structural genomic consortium, SGC, hydrolase; 2.60A
{Homo sapiens}
Length = 191
Score = 66.1 bits (162), Expect = 6e-13
Identities = 19/45 (42%), Positives = 29/45 (64%)
Query: 101 ILVATNLFGRGMDIERVNIVFNYDMPEDSDTYLHRVARAGRFGTK 145
+LVAT++ +G+D + V NYDMPE+ + Y+HR+ R G G
Sbjct: 107 VLVATDVASKGLDFPAIQHVINYDMPEEIENYVHRIGRTGCSGNT 151
Score = 65.0 bits (159), Expect = 1e-12
Identities = 26/100 (26%), Positives = 37/100 (37%), Gaps = 7/100 (7%)
Query: 309 FMHDPMEVYVDDE------AKLTLHGLQQHYVKLKENEKNKKLFELLDVLEFNQVVIFVK 362
H V + E + Q +KE K L E L V+IF +
Sbjct: 4 HHHHSSGVDLGTENLYFQSMGAASLDVIQEVEYVKEEAKMVYLLECLQKTP-PPVLIFAE 62
Query: 363 SVTRCIALSTLLSEQNFPAVSIHRGMTQEERLKKYQEFKD 402
A+ L + AV+IH G QEER K + F++
Sbjct: 63 KKADVDAIHEYLLLKGVEAVAIHGGKDQEERTKAIEAFRE 102
>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 = 65.8 bits (161), Expect = 1e-12
Identities = 20/44 (45%), Positives = 32/44 (72%)
Query: 100 RILVATNLFGRGMDIERVNIVFNYDMPEDSDTYLHRVARAGRFG 143
R+LVAT++ RG+DI +V++V +Y +P+ ++ Y HR R GR G
Sbjct: 83 RVLVATDVAARGLDIPQVDLVVHYRLPDRAEAYQHRSGRTGRAG 126
Score = 47.3 bits (113), Expect = 2e-06
Identities = 14/73 (19%), Positives = 33/73 (45%)
Query: 330 QQHYVKLKENEKNKKLFELLDVLEFNQVVIFVKSVTRCIALSTLLSEQNFPAVSIHRGMT 389
++ V + + L +LL V ++ ++F ++ ++ L PA ++H ++
Sbjct: 7 EEEAVPAPVRGRLEVLSDLLYVASPDRAMVFTRTKAETEEIAQGLLRLGHPAQALHGDLS 66
Query: 390 QEERLKKYQEFKD 402
Q ER + F+
Sbjct: 67 QGERERVLGAFRQ 79
>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 = 64.5 bits (158), Expect = 2e-12
Identities = 22/45 (48%), Positives = 29/45 (64%)
Query: 101 ILVATNLFGRGMDIERVNIVFNYDMPEDSDTYLHRVARAGRFGTK 145
ILVAT + RG+DI V V N+D+P D + Y+HR+ R GR G
Sbjct: 99 ILVATAVAARGLDISNVKHVINFDLPSDIEEYVHRIGRTGRVGNL 143
Score = 56.4 bits (137), Expect = 1e-09
Identities = 17/73 (23%), Positives = 36/73 (49%), Gaps = 1/73 (1%)
Query: 330 QQHYVKLKENEKNKKLFELLDVLEFNQ-VVIFVKSVTRCIALSTLLSEQNFPAVSIHRGM 388
Q V ++E++K L +LL+ + ++FV++ +L L + + SIH
Sbjct: 21 TQKVVWVEESDKRSFLLDLLNATGKDSLTLVFVETKKGADSLEDFLYHEGYACTSIHGDR 80
Query: 389 TQEERLKKYQEFK 401
+Q +R + +F+
Sbjct: 81 SQRDREEALHQFR 93
>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 = 65.9 bits (161), Expect = 4e-12
Identities = 21/47 (44%), Positives = 32/47 (68%), Gaps = 3/47 (6%)
Query: 101 ILVATNLFGRGMDIERVNIVFNYDMPEDSDTYLHRV---ARAGRFGT 144
+LVAT++ RG+DI +V++V +Y MP+ ++ Y HR RAGR G
Sbjct: 81 VLVATDVAARGLDIPQVDLVVHYRMPDRAEAYQHRSGRTGRAGRGGR 127
Score = 46.3 bits (110), Expect = 8e-06
Identities = 15/73 (20%), Positives = 33/73 (45%)
Query: 330 QQHYVKLKENEKNKKLFELLDVLEFNQVVIFVKSVTRCIALSTLLSEQNFPAVSIHRGMT 389
++ V + + L +LL V ++ ++F ++ ++ L PA ++H M+
Sbjct: 4 EEEAVPAPVRGRLEVLSDLLYVASPDRAMVFTRTKAETEEIAQGLLRLGHPAQALHGDMS 63
Query: 390 QEERLKKYQEFKD 402
Q ER + F+
Sbjct: 64 QGERERVMGAFRQ 76
>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 = 67.2 bits (163), Expect = 5e-12
Identities = 61/446 (13%), Positives = 128/446 (28%), Gaps = 120/446 (26%)
Query: 62 DALAKQKEVKGAYVSIHS-SGF----------RDFLLKPEILRAIVDCW----------- 99
AL + + V I G + ++ ++ I W
Sbjct: 142 QALLELR--PAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIF--WLNLKNCNSPET 197
Query: 100 RILVATNLFGR--GMDIERVNIVFNYDMP-EDSDTYLHRVARAGRFG-----------TK 145
+ + L + R + N + L R+ ++ + K
Sbjct: 198 VLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAK 257
Query: 146 AVLGMDILCQAKSGMGKTAVFVLATLQQLETTDS----NVYVLVMCHTRELAFQISKEYE 201
A ++ C+ +L T + + TD + + H +
Sbjct: 258 AWNAFNLSCK-----------ILLTTRFKQVTDFLSAATTTHISLDHHSM-TLTPDEVKS 305
Query: 202 RFSKYMSNIKVGVFFGGLPIQKDEEYLKTHNPQIVVGTPGRILALVRN--------KKLN 253
KY + LP + + T NP+ + I +R+ K +N
Sbjct: 306 LLLKY-----LDCRPQDLPRE-----VLTTNPRRL----SIIAESIRDGLATWDNWKHVN 351
Query: 254 LSLLKHFILDECDKMLEQLEMRRDVQE--IFRSSPH-TKQVMMF--SATLSKEIRPVCKK 308
L I++ +LE E R+ +F S H ++ + ++ V K
Sbjct: 352 CDKLTT-IIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNK 410
Query: 309 FMHDPMEVYVDDEAKLTLHGLQQHYVKLKENEK--NKKLFELLDVLEFNQVVIFVKSVTR 366
+ E+ +++ + ENE ++ + + +N + +
Sbjct: 411 LHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVD-----HYN--------IPK 457
Query: 367 CIALSTLLSEQN----FPAVSIHRGMTQEERLKKYQEFK----DFHKGLAITFASDENDA 418
L+ + + H + E ++ F+ DF F +
Sbjct: 458 TFDSDDLIPPYLDQYFYSHIGHH--LKNIEHPERMTLFRMVFLDFR------FL----EQ 505
Query: 419 KILNNVQDRFDVSISELPDEIDLSTY 444
KI + ++ S S L L Y
Sbjct: 506 KI-RHDSTAWNASGSILNTLQQLKFY 530
Score = 63.3 bits (153), Expect = 9e-11
Identities = 36/224 (16%), Positives = 78/224 (34%), Gaps = 56/224 (25%)
Query: 248 RNKKLNLSLLKHFILD-ECDKMLEQLE---MRRDVQEIFRSSPHTKQV-MMFSATLSKEI 302
+ K + F+ + +C + + + + ++ I S +F LSK+
Sbjct: 17 QYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQE 76
Query: 303 RPVCKKFMHDPMEVYVDDEAKLTLHGLQQHY--------VKLKENEKNKKLF-ELLDVLE 353
V +KF+ + L+ +Y + ++ +++ E D L
Sbjct: 77 EMV-QKFVEE---------------VLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRL- 119
Query: 354 FNQVVIFVK-SVTR---CIALSTLLSE-QNFPAVSIHRGMT------------QEERLKK 396
+N +F K +V+R + L L E + V I G+ +++
Sbjct: 120 YNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLID-GVLGSGKTWVALDVCLSYKVQC 178
Query: 397 YQEFKDFHKGLAITFA---SDENDAKILNNVQDRFDVSISELPD 437
+FK F + S E ++L + + D + + D
Sbjct: 179 KMDFKIFW----LNLKNCNSPETVLEMLQKLLYQIDPNWTSRSD 218
Score = 46.4 bits (109), Expect = 2e-05
Identities = 35/214 (16%), Positives = 69/214 (32%), Gaps = 42/214 (19%)
Query: 43 LLDYEDEENTEQIVADGAGDALAKQKEVKGAYVSIHSSGFRDFLLKPEIL----RAIVDC 98
+ + + +V +L + K+ K + +SI S + + +K E R+IVD
Sbjct: 395 IWFDVIKSDVMVVVNKLHKYSLVE-KQPKESTISIP-SIYLELKVKLENEYALHRSIVDH 452
Query: 99 WRILVATNLFGRGMDIERVNIVFNYDMPEDSDTY-LHRVARAGRFG--TKAVLGMDILCQ 155
+ I + +++ + L + R L L +
Sbjct: 453 YNIPKTFDSDDLIPPYLD-QYFYSHIG------HHLKNIEHPERMTLFRMVFLDFRFL-E 504
Query: 156 AK---SGMGKTAV-FVLATLQQLETTDSNVYVLVMCHTRELAFQISKEYERF-------- 203
K A +L TLQQL+ Y+ E ++ F
Sbjct: 505 QKIRHDSTAWNASGSILNTLQQLKFYKP--YICDNDPKYE---RLVNAILDFLPKIEENL 559
Query: 204 --SKYMSNIKVGVFFGGLPIQKDEEYLKTHNPQI 235
SKY +++ + +DE + + Q+
Sbjct: 560 ICSKYTDLLRIALMA------EDEAIFEEAHKQV 587
Score = 29.4 bits (65), Expect = 2.8
Identities = 26/137 (18%), Positives = 40/137 (29%), Gaps = 57/137 (41%)
Query: 17 NVFL---FFRAFIRFSSSFPHSKMADNDDLLD---YED-----EENTEQIVADGAGDALA 65
VFL F IR S+ ++ + + L Y+ + E++V
Sbjct: 495 MVFLDFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLVNA------- 547
Query: 66 KQKEVKGAYVSIHSSGFRDFLLKPEILRAIVDCWRILVATNLF-GRGMDIERVNIVFNYD 124
DFL K E NL + D+ + I
Sbjct: 548 ----------------ILDFLPKIE--------------ENLICSKYTDL--LRIAL--- 572
Query: 125 MPEDSDTYL--HR-VAR 138
M ED + H+ V R
Sbjct: 573 MAEDEAIFEEAHKQVQR 589
>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 = 66.0 bits (160), Expect = 7e-12
Identities = 28/196 (14%), Positives = 73/196 (37%), Gaps = 9/196 (4%)
Query: 145 KAVLGMDILCQAKSGMGKTAVFVLATLQQLETTDSNVYVLVMCHTRELAFQISKEYERFS 204
+ L +G+GKT + ++ +L V L++ T+ L Q ++ + R
Sbjct: 19 AKCKETNCLIVLPTGLGKTLIAMMIAEYRLTKYGGKV--LMLAPTKPLVLQHAESFRRLF 76
Query: 205 KYMSNIKVGVFFGGLPIQKDEEYLKTHNPQIVVGTPGRILALVRNKKLNLSLLKHFILDE 264
K+ G ++ + +++V TP I + +++L + + DE
Sbjct: 77 NL-PPEKIVALTGEKSPEERSKAWARA--KVIVATPQTIENDLLAGRISLEDVSLIVFDE 133
Query: 265 CDKMLEQLEMRRDVQEIFRSSPHTKQVMMFSATLS---KEIRPVCKKFMHDPMEVYVDDE 321
+ + +E R + + V+ +A+ ++I V + +E ++
Sbjct: 134 AHRAVGNYAYVFIAREYKRQAKN-PLVIGLTASPGSTPEKIMEVINNLGIEHIEYRSENS 192
Query: 322 AKLTLHGLQQHYVKLK 337
+ + + ++
Sbjct: 193 PDVRPYVKGIRFEWVR 208
Score = 46.3 bits (109), Expect = 1e-05
Identities = 14/51 (27%), Positives = 26/51 (50%)
Query: 100 RILVATNLFGRGMDIERVNIVFNYDMPEDSDTYLHRVARAGRFGTKAVLGM 150
+LVAT++ G+D+ V++V Y+ + + R R GR V+ +
Sbjct: 421 NVLVATSVGEEGLDVPEVDLVVFYEPVPSAIRSIQRRGRTGRHMPGRVIIL 471
Score = 32.5 bits (73), Expect = 0.29
Identities = 21/128 (16%), Positives = 42/128 (32%), Gaps = 12/128 (9%)
Query: 287 HTKQVMMFSATLSKEIRPVCKKFMHDPMEVYVDDEAKLTLHGLQQHYVKLKENEKNKKLF 346
T+ + A + K E++ D K + L Q ++ K KL
Sbjct: 290 ETQGLSALRAYIKKLYEEAKAGSTKASKEIFSDKRMKKAISLLVQAKEIGLDHPKMDKLK 349
Query: 347 ELLDVL----EFNQVVIFVKSVTRCIALSTLLSEQNFPAVSIH--------RGMTQEERL 394
E++ + +++++F + L + A RG++Q E+
Sbjct: 350 EIIREQLQRKQNSKIIVFTNYRETAKKIVNELVKDGIKAKRFVGQASKENDRGLSQREQK 409
Query: 395 KKYQEFKD 402
EF
Sbjct: 410 LILDEFAR 417
>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 = 57.2 bits (138), Expect = 6e-09
Identities = 40/269 (14%), Positives = 100/269 (37%), Gaps = 43/269 (15%)
Query: 149 GMDILCQAKSGMGKTAVFVLATLQQLETTDSN-VYVLVMCHTRELAFQISKEYERFSKYM 207
G + L + GKT + +A + ++ T VY++ + LA + +E++ + K
Sbjct: 39 GKNALISIPTASGKTLIAEIAMVHRILTQGGKAVYIV---PLKALAEEKFQEFQDWEKI- 94
Query: 208 SNIKVGVFFGGLPIQKDEEYLKTHNPQIVVGTPGRILALVRNKKLNLSLLKHFILDECDK 267
++V + G + + I++ T + +L+R+ + +K + DE
Sbjct: 95 -GLRVAMATGDYDSKDEW----LGKYDIIIATAEKFDSLLRHGSSWIKDVKILVADEI-H 148
Query: 268 MLEQLEMRRDVQE--IFRSSPHTKQVMMFSATLS--KEI-------------RPVCKKFM 310
++ + R E + + + + SAT+ +E+ RPV
Sbjct: 149 LIGSRD-RGATLEVILAHMLGKAQIIGL-SATIGNPEELAEWLNAELIVSDWRPV----- 201
Query: 311 HDPMEVYVDDEAKLTLHGLQQHYVKLKENEKNKKLFELLDVLEFNQVVIFVKSVTRCIAL 370
+ V + +T + + + + +++ + + +IFV + +
Sbjct: 202 --KLRRGVFYQGFVTWE---DGSID-RFSSWEELVYDA--IRKKKGALIFVNMRRKAERV 253
Query: 371 STLLSEQNFPAVSIHRGMTQEERLKKYQE 399
+ LS++ ++ E +E
Sbjct: 254 ALELSKKVKSLLTKPEIRALNELADSLEE 282
>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 = 52.7 bits (126), Expect = 2e-07
Identities = 26/135 (19%), Positives = 43/135 (31%), Gaps = 27/135 (20%)
Query: 261 ILDECDK-MLEQLEMRRDVQEIFRSSPHTKQVMMFSATLSKEIRPVCKKFMHDPMEVYVD 319
+ + D + + +I ++P + F K IR + + E VD
Sbjct: 1645 VWNRADNHFKDTYGFS--ILDIVINNPVNLTIH-FGGEKGKRIR---ENYSAMIFETIVD 1698
Query: 320 DEAKLTLHGLQQHYVKLKE-NEKNKKL-FE----LLDVLEFNQVVIFVKSVTRCIALSTL 373
G + KE NE + F LL +F Q + + A L
Sbjct: 1699 --------GKLKTEKIFKEINEHSTSYTFRSEKGLLSATQFTQPALTLMEK---AAFEDL 1747
Query: 374 LSEQNFPAVSI---H 385
S+ PA + H
Sbjct: 1748 KSKGLIPADATFAGH 1762
Score = 47.4 bits (112), Expect = 9e-06
Identities = 67/383 (17%), Positives = 123/383 (32%), Gaps = 117/383 (30%)
Query: 21 FFRAFIRFSSSFPHSKMADNDDLLDYEDEENTEQIVAD--GAGDALAKQKEVKGAYVSIH 78
+ A R + P K +++ L E N Q+VA G G+ +E++ Y +
Sbjct: 126 YITA--RIMAKRPFDKKSNSA-LFRAVGEGNA-QLVAIFGGQGNTDDYFEELRDLY-QTY 180
Query: 79 SSGFRDFL------LKPEILRAIVDCWRILVATNLFGRGMDIERVNIVFNYDMPED--SD 130
D + L E++R +D +F +G++I + P +
Sbjct: 181 HVLVGDLIKFSAETLS-ELIRTTLDA------EKVFTQGLNILEW-----LENPSNTPDK 228
Query: 131 TYLHRVA---------RAGRFGTKA-VLGM------DILCQAKSGMGK---TAVFVLA-- 169
YL + + + A +LG L + +G + TAV +
Sbjct: 229 DYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYL-KGATGHSQGLVTAVAIAETD 287
Query: 170 TLQQLETTDSNVYVL-----VMCH----TRELAFQISKEYERFSK----YMSNIKVGVFF 216
+ + + + V C+ L I ++ ++ M +I
Sbjct: 288 SWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSIS----- 342
Query: 217 GGLPIQKDEEYLKTHN---P--------------QIVV-GTPGRILALVRNKKLNLSLLK 258
L ++ ++Y+ N P +VV G P +L LNL+L K
Sbjct: 343 -NLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPP---QSLYG---LNLTLRK 395
Query: 259 HFILDECDKMLEQLEMRRDVQEIFRSSPHTKQVMMFSAT-LSKEIRPVCKKFMHDPMEVY 317
D Q R P +++ + FS L PV F H
Sbjct: 396 AKAPSGLD----Q---SR--------IPFSERKLKFSNRFL-----PVASPF-HSH---L 431
Query: 318 VDDEAKLTLHGLQQHYVKLKENE 340
+ + L L ++ V +
Sbjct: 432 LVPASDLINKDLVKNNVSFNAKD 454
Score = 45.8 bits (108), Expect = 3e-05
Identities = 31/130 (23%), Positives = 49/130 (37%), Gaps = 43/130 (33%)
Query: 1 VEESRS--SQEKLSCGSGNVFLFFRAFIRFSSSFPHSKMADNDDLLDYEDEENTEQIVAD 58
+++SR S+ KL N FL +S F HS LL ++ I D
Sbjct: 402 LDQSRIPFSERKLKFS--NRFL------PVASPF-HS------HLL----VPASDLINKD 442
Query: 59 GAGDALA-KQKEVKGAYVSIHS----SGFRDFLLKPEILRAIVDC-------WRILV--- 103
+ ++ K+++ + ++ S R L I IVDC W
Sbjct: 443 LVKNNVSFNAKDIQ---IPVYDTFDGSDLRV--LSGSISERIVDCIIRLPVKWETTTQFK 497
Query: 104 ATNL--FGRG 111
AT++ FG G
Sbjct: 498 ATHILDFGPG 507
>2va8_A SSO2462, SKI2-type helicase; hydrolase, DNA repair, ATP-bindin
nucleotide-binding; 2.30A {Sulfolobus solfataricus}
Length = 715
Score = 50.5 bits (121), Expect = 8e-07
Identities = 45/240 (18%), Positives = 86/240 (35%), Gaps = 47/240 (19%)
Query: 161 GKTAVFVLATLQQLETTDSN-VYVLVMCHTRELAFQISKEYERFSKYMSNIKVGVFFGGL 219
GKT + + + L +YV + R L + ++ + KV + G
Sbjct: 58 GKTLIAEMGIISFLLKNGGKAIYVTPL---RALTNEKYLTFKDWELI--GFKVAMTSGDY 112
Query: 220 PIQKDEEYLKTHNPQIVVGTPGRILALVRNKKLNLSLLKHFILDECDKMLEQLEMRRD-- 277
N I++ T ++ +L R++ L+ + +F+LDE L D
Sbjct: 113 DTDDAW----LKNYDIIITTYEKLDSLWRHRPEWLNEVNYFVLDE-------LHYLNDPE 161
Query: 278 ---VQEIFRSSPHTKQVMMFSATLS--KEI-------------RPVCKKFMHDPMEVYV- 318
V E + ++ SAT+S K+I RPV P+ V
Sbjct: 162 RGPVVESVTIRAKRRNLLALSATISNYKQIAKWLGAEPVATNWRPV-------PLIEGVI 214
Query: 319 -DDEAKLTLHGLQQHYVKLKENEKNKKLFELLDVL-EFNQVVIFVKSVTRCIALSTLLSE 376
+ K + + + K + + + LD L + QV++F S + + ++
Sbjct: 215 YPERKKKEYNVIFKDNTTKKVHGDDAIIAYTLDSLSKNGQVLVFRNSRKMAESTALKIAN 274
>3tbk_A RIG-I helicase domain; DECH helicase, ATP binding, hydrolase; HET:
ANP; 2.14A {Mus musculus}
Length = 555
Score = 47.6 bits (112), Expect = 5e-06
Identities = 24/154 (15%), Positives = 53/154 (34%), Gaps = 7/154 (4%)
Query: 145 KAVLGMDILCQAKSGMGKTAVFVLATLQQLETTDSNVY--VLVMCHTRELAFQISKEYER 202
A G + + A +G GKT V +L L+ V+ + + Q + + R
Sbjct: 15 PAKKGKNTIICAPTGCGKTFVSLLICEHHLKKFPCGQKGKVVFFANQIPVYEQQATVFSR 74
Query: 203 FSKYMSNIKVGVFFGGL-PIQKDEEYLKTHNPQIVVGTPGRIL-ALVRNKKLNLSLLKHF 260
+ + + + G + ++ + I++ TP ++ L +LS+
Sbjct: 75 YFERLG-YNIASISGATSDSVSVQHIIEDN--DIIILTPQILVNNLNNGAIPSLSVFTLM 131
Query: 261 ILDECDKMLEQLEMRRDVQEIFRSSPHTKQVMMF 294
I DEC + + + + +
Sbjct: 132 IFDECHNTSKNHPYNQIMFRYLDHKLGESRDPLP 165
Score = 37.6 bits (86), Expect = 0.009
Identities = 13/49 (26%), Positives = 22/49 (44%)
Query: 100 RILVATNLFGRGMDIERVNIVFNYDMPEDSDTYLHRVARAGRFGTKAVL 148
IL+AT++ G+DI N+V Y+ + + R +K L
Sbjct: 454 NILIATSVADEGIDIAECNLVILYEYVGNVIKMIQTRGRGRARDSKCFL 502
>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 = 47.7 bits (113), Expect = 6e-06
Identities = 41/251 (16%), Positives = 70/251 (27%), Gaps = 55/251 (21%)
Query: 149 GMDILCQAKSGMGKTAVFVLATLQQLETTDSNVYVLVMCHTRELAFQISKEYERFSKYMS 208
A +G GK+ A Q VLV+ + F YMS
Sbjct: 232 FQVAHLHAPTGSGKSTKVPAAYAAQ------GYKVLVLNPSVAAT-------LGFGAYMS 278
Query: 209 ---NIKVGVFFGGLPIQKDEEYLKTHNPQIVVGTPGRILALVRNKKLNLSLLKHFILDEC 265
I + G T + T G+ LA + + I DEC
Sbjct: 279 KAHGIDPNIRTGV--------RTITTGAPVTYSTYGKFLA---DGGCSGGAYDIIICDEC 327
Query: 266 DKM-LEQLEMRRDVQEIFRSSPHTKQVMMFSATLSKEI---RPVCKKFMHDPMEVYVDDE 321
+ V + ++ V+ +AT + P ++ +
Sbjct: 328 HSTDSTTILGIGTVLDQAETAGARLVVLA-TATPPGSVTVPHPNIEEV-ALSNTGEIPFY 385
Query: 322 AKLTLHGLQQHYVKLKENEKNKKLFELLDVLEFNQVVIFVKSVTRCIALSTLLSEQNFPA 381
K ++ + + +IF S +C L+ LS A
Sbjct: 386 GKAIP----------------------IEAIRGGRHLIFCHSKKKCDELAAKLSGLGINA 423
Query: 382 VSIHRGMTQEE 392
V+ +RG+
Sbjct: 424 VAYYRGLDVSV 434
>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 = 47.3 bits (111), Expect = 8e-06
Identities = 53/341 (15%), Positives = 98/341 (28%), Gaps = 49/341 (14%)
Query: 145 KAVLGMDILCQAKSGMGKTAVFVLATLQQLET--TDSNVYVLVMCHTRELAFQISKEYER 202
A+ G + L A +G GKT V +L + V+ + + Q
Sbjct: 259 PAINGKNALICAPTGSGKTFVSILICEHHFQNMPAGRKAKVVFLATKVPVYEQQ---KNV 315
Query: 203 FSKYMSNIKVGVFFGGLPIQKDEEYLKTH--NPQIVVGTPGRIL-ALVRNKKLNLSLLKH 259
F + + G ++ + I+V TP ++ + +LS+
Sbjct: 316 FKHHF-ERQGYSVQGISGENFSNVSVEKVIEDSDIIVVTPQILVNSFEDGTLTSLSIFTL 374
Query: 260 FILDECDKML----EQLEMRRDVQEIFRSSPHTKQVMMFSATL----------------- 298
I DEC + M R +++ F S+ Q++ +A++
Sbjct: 375 MIFDECHNTTGNHPYNVLMTRYLEQKFNSASQLPQILGLTASVGVGNAKNIEETIEHICS 434
Query: 299 ------------SKEIRPVCKKFMHDPMEVYVDDEAKLTLHGLQQHYVKLKENEKNKKLF 346
+E ++FM+ P + ++ + E E +
Sbjct: 435 LCSYLDIQAISTVRENIQELQRFMNKPEIDVRLVKRRIHNPFAAIISNLMSETEALMRTI 494
Query: 347 ELLDVLEFNQVVIFVKS------VTRCIALSTLLSEQNFPAVSIHRGMTQE-ERLKKYQE 399
+D L N F V L E I R + E L+KY +
Sbjct: 495 AYVDTLSQNSKKDFGTQNYEHWIVVTQRKCRLLQLEDKEEESRICRALFICTEHLRKYND 554
Query: 400 FKDFHKGLAITFASDENDAKILNNVQDRFDVSISELPDEID 440
+ I A N + L +
Sbjct: 555 ALIISEDARIIDALSYLTEFFTNVKNGPYTELEQHLTAKFQ 595
Score = 41.9 bits (97), Expect = 4e-04
Identities = 14/77 (18%), Positives = 33/77 (42%), Gaps = 6/77 (7%)
Query: 78 HSSGFRDFLLKPEILRAIVDCWR------ILVATNLFGRGMDIERVNIVFNYDMPEDSDT 131
+ + + ++D ++ +L+AT++ G+DI + N+V Y+ +
Sbjct: 668 RGRRDQTTGMTLPSQKGVLDAFKTSKDNRLLIATSVADEGIDIVQCNLVVLYEYSGNVTK 727
Query: 132 YLHRVARAGRFGTKAVL 148
+ R G+K +L
Sbjct: 728 MIQVRGRGRAAGSKCIL 744
>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 = 47.1 bits (112), Expect = 1e-05
Identities = 50/255 (19%), Positives = 100/255 (39%), Gaps = 57/255 (22%)
Query: 149 GMDILCQAKSGMGKTAVFVLATLQQLETTDSNVYVLVMCHTRELAFQISKEYERFSKYMS 208
G ++L + GKT + +A +++ ++YV+ + R LA + + ++++ K
Sbjct: 40 GKNLLLAMPTAAGKTLLAEMAMVREAIKGGKSLYVVPL---RALAGEKYESFKKWEKI-- 94
Query: 209 NIKVGVFFGGLPIQKDEEYLKTHNPQIVVGTPGRILALVRNKKLNLSLLKHFILDEC--- 265
+++G+ G + + + I+V T + +L+RN+ + + ++DE
Sbjct: 95 GLRIGISTGDYESRDEH----LGDCDIIVTTSEKADSLIRNRASWIKAVSCLVVDEIHLL 150
Query: 266 -DKM----LEQL--EMRRDVQEIFRSSPHTKQVMMFSATLS--KEI-------------R 303
+ LE L +MRR + + +V+ SAT EI R
Sbjct: 151 DSEKRGATLEILVTKMRRMNKAL--------RVIGLSATAPNVTEIAEWLDADYYVSDWR 202
Query: 304 PVCKKFMHDPMEVYVDDEAKLTLHGLQQHYVKLKENEKNKKLFELLD--VLEFNQVVIFV 361
PV P+ V E L + + + K EL++ V E V++F
Sbjct: 203 PV-------PLVEGVLCEGTL------ELFDGAFSTSRRVKFEELVEECVAENGGVLVFE 249
Query: 362 KSVTRCIALSTLLSE 376
+ + LS
Sbjct: 250 STRRGAEKTAVKLSA 264
>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 = 44.8 bits (106), Expect = 2e-05
Identities = 30/132 (22%), Positives = 51/132 (38%), Gaps = 15/132 (11%)
Query: 145 KAVLGMDILCQAKSGMGKTAVFVLATLQQLETTDSNVY---VLVMCHTRELAFQ-ISKEY 200
A+ G +I+ +G GKT V V L+ V+V+ + L Q KE+
Sbjct: 44 PALEGKNIIICLPTGSGKTRVAVYIAKDHLDKKKKASEPGKVIVLVNKVLLVEQLFRKEF 103
Query: 201 ERFSKYMSNIKVGVFFGGLPIQKD-EEYLKTHNPQIVVGTPGRIL------ALVRNKKLN 253
+ F K +V G ++ E +K+ I++ T + + +
Sbjct: 104 QPFLKKW--YRVIGLSGDTQLKISFPEVVKSC--DIIISTAQILENSLLNLENGEDAGVQ 159
Query: 254 LSLLKHFILDEC 265
LS I+DEC
Sbjct: 160 LSDFSLIIIDEC 171
>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 = 45.7 bits (107), Expect = 2e-05
Identities = 30/179 (16%), Positives = 64/179 (35%), Gaps = 9/179 (5%)
Query: 145 KAVLGMDILCQAKSGMGKTAVFVLATLQQLET--TDSNVYVLVMCHTRELAFQISKEYER 202
A+ G + L A +G GKT V +L + V+ + + Q ++
Sbjct: 259 PAINGKNALICAPTGSGKTFVSILICEHHFQNMPAGRKAKVVFLATKVPVYEQQKNVFKH 318
Query: 203 FSKYMSNIKVGVFFGGLPIQKDEEYLKTHNPQIVVGTPGRIL-ALVRNKKLNLSLLKHFI 261
+ G+ E+ ++ I+V TP ++ + +LS+ I
Sbjct: 319 HFERQGYSVQGISGENFSNVSVEKVIEDS--DIIVVTPQILVNSFEDGTLTSLSIFTLMI 376
Query: 262 LDECDKMLEQLE----MRRDVQEIFRSSPHTKQVMMFSATLSKEIRPVCKKFMHDPMEV 316
DEC M R +++ F S+ Q++ +A++ ++ + +
Sbjct: 377 FDECHNTTGNHPYNVLMTRYLEQKFNSASQLPQILGLTASVGVGNAKNIEETIEHICSL 435
Score = 39.2 bits (90), Expect = 0.003
Identities = 14/77 (18%), Positives = 33/77 (42%), Gaps = 6/77 (7%)
Query: 78 HSSGFRDFLLKPEILRAIVDCWR------ILVATNLFGRGMDIERVNIVFNYDMPEDSDT 131
+ + + ++D ++ +L+AT++ G+DI + N+V Y+ +
Sbjct: 668 RGRRDQTTGMTLPSQKGVLDAFKTSKDNRLLIATSVADEGIDIVQCNLVVLYEYSGNVTK 727
Query: 132 YLHRVARAGRFGTKAVL 148
+ R G+K +L
Sbjct: 728 MIQVRGRGRAAGSKCIL 744
>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 = 44.9 bits (105), Expect = 4e-05
Identities = 24/181 (13%), Positives = 57/181 (31%), Gaps = 13/181 (7%)
Query: 145 KAVLGMDILCQAKSGMGKT--AVFVLATLQQLETTDSNVYVLVMCHTRELAFQISKEYER 202
A+ G + L A +G GKT ++ + Q V+ + + Q +
Sbjct: 18 PAINGKNALICAPTGSGKTFVSILICEHHFQNMPAGRKAKVVFLATKVPVYEQ---QKNV 74
Query: 203 FSKYMSNIKVGVFFGGLPIQKDEEYLKTH--NPQIVVGTPGRIL-ALVRNKKLNLSLLKH 259
F + + G ++ + I+V TP ++ + +LS+
Sbjct: 75 FKHHF-ERQGYSVQGISGENFSNVSVEKVIEDSDIIVVTPQILVNSFEDGTLTSLSIFTL 133
Query: 260 FILDECDKMLEQLEMRRDVQEIFRSSPHTKQ----VMMFSATLSKEIRPVCKKFMHDPME 315
I DEC + ++ ++ +A++ ++ +
Sbjct: 134 MIFDECHNTTGNHPYNVLMTRYLEQKFNSASQLPQILGLTASVGVGNAKNIEETIEHICS 193
Query: 316 V 316
+
Sbjct: 194 L 194
Score = 38.8 bits (89), Expect = 0.003
Identities = 14/49 (28%), Positives = 26/49 (53%)
Query: 100 RILVATNLFGRGMDIERVNIVFNYDMPEDSDTYLHRVARAGRFGTKAVL 148
R+L+AT++ G+DI + N+V Y+ + + R G+K +L
Sbjct: 455 RLLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQVRGRGRAAGSKCIL 503
>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 = 43.5 bits (102), Expect = 1e-04
Identities = 22/165 (13%), Positives = 52/165 (31%), Gaps = 9/165 (5%)
Query: 258 KHFILDECDKMLEQLEMRRDVQEIFRSSPHTKQVMMFSATLSKEIRPVCKKFMHDPMEVY 317
+ + D+ + R+ + + P +++ L + + K
Sbjct: 401 QELVSMLMDRHGTSRVLFRNTRNGVKGFPK-RELHTIKLPLPTQYQTAIKVSGIMGARKS 459
Query: 318 VDDEAKLTLHGLQ-------QHYVKLKENEKNKKLFELLDVLEFNQVVIFVKSVTRCIAL 370
+D A+ L+ + + + + + L L +V++ + L
Sbjct: 460 AEDRARDMLYPERIYQEFEGDNATWWNFDPRVEWLMGYLTSHRSQKVLVICAKAATALQL 519
Query: 371 -STLLSEQNFPAVSIHRGMTQEERLKKYQEFKDFHKGLAITFASD 414
L + A H GM+ ER + F + G + S+
Sbjct: 520 EQVLREREGIRAAVFHEGMSIIERDRAAAWFAEEDTGAQVLLCSE 564
Score = 35.8 bits (82), Expect = 0.029
Identities = 9/46 (19%), Positives = 22/46 (47%)
Query: 100 RILVATNLFGRGMDIERVNIVFNYDMPEDSDTYLHRVARAGRFGTK 145
++L+ + + G + + + + +D+P + D R+ R R G
Sbjct: 558 QVLLCSEIGSEGRNFQFASHMVMFDLPFNPDLLEQRIGRLDRIGQA 603
>2ykg_A Probable ATP-dependent RNA helicase DDX58; hydrolase, innate
immunity; 2.50A {Homo sapiens} PDB: 3tmi_A*
Length = 696
Score = 43.0 bits (100), Expect = 2e-04
Identities = 24/127 (18%), Positives = 49/127 (38%), Gaps = 5/127 (3%)
Query: 145 KAVLGMDILCQAKSGMGKTAVFVLATLQQLETT--DSNVYVLVMCHTRELAFQISKEYER 202
A+ G + + A +G GKT V +L L+ V+ + + Q + +
Sbjct: 24 PAMKGKNTIICAPTGCGKTFVSLLICEHHLKKFPQGQKGKVVFFANQIPVYEQNKSVFSK 83
Query: 203 FSKYMSNIKVGVFFGGLPIQKDEEYLKTHNPQIVVGTPGRIL-ALVRNKKLNLSLLKHFI 261
+ + G+ E+ ++ + I++ TP ++ L + +LS+ I
Sbjct: 84 YFERHGYRVTGISGATAENVPVEQIVENN--DIIILTPQILVNNLKKGTIPSLSIFTLMI 141
Query: 262 LDECDKM 268
DEC
Sbjct: 142 FDECHNT 148
Score = 40.7 bits (94), Expect = 9e-04
Identities = 14/49 (28%), Positives = 24/49 (48%)
Query: 100 RILVATNLFGRGMDIERVNIVFNYDMPEDSDTYLHRVARAGRFGTKAVL 148
IL+AT++ G+DI + N+V Y+ + + R G+K L
Sbjct: 463 NILIATSVADEGIDIAQCNLVILYEYVGNVIKMIQTRGRGRARGSKCFL 511
>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 = 37.5 bits (87), Expect = 0.008
Identities = 24/109 (22%), Positives = 31/109 (28%), Gaps = 27/109 (24%)
Query: 159 GMGKT--AVFVLATLQQLETTDSNVYVLVMCHTRELAFQISKEYERFSKYMSNIKVGVFF 216
G GKT A+ + L L++ T LA Q + F VG F
Sbjct: 118 GSGKTHVAMAAINELSTP--------TLIVVPTLALAEQWKERLGIF----GEEYVGEFS 165
Query: 217 GGLPIQKDEEYLKTHNPQIVVGTPGRILALVRNKKLNLSLLKHFILDEC 265
G + K + V T LL I DE
Sbjct: 166 GRIKELKP----------LTVSTYDSAYVNAEKLGNRFMLL---IFDEV 201
>3lvh_D LCB, clathrin light chain B; SELF assembly, coated PIT,
cytoplasmic vesicle, membrane, Ca structural protein;
9.00A {Bos taurus}
Length = 205
Score = 32.6 bits (73), Expect = 0.19
Identities = 9/33 (27%), Positives = 13/33 (39%)
Query: 37 MADNDDLLDYEDEENTEQIVADGAGDALAKQKE 69
MAD+ + E D A LA+Q+
Sbjct: 1 MADDFGFFSSSESGAPEAAEEDPAAAFLAQQES 33
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna; HET:
CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 31.5 bits (70), Expect = 0.27
Identities = 10/40 (25%), Positives = 17/40 (42%), Gaps = 10/40 (25%)
Query: 376 EQNFPAVSIHRGMTQEERLKKYQEFKDFHKGLAITFASDE 415
E+ ++ + + LK Y + D LAI A+ E
Sbjct: 18 EKQ----ALKK---LQASLKLYAD--DSAPALAIK-ATME 47
Score = 29.5 bits (65), Expect = 1.4
Identities = 6/26 (23%), Positives = 11/26 (42%), Gaps = 5/26 (19%)
Query: 221 IQKDEEYLKTHNPQIVVGTPGRILAL 246
++K + LK + P LA+
Sbjct: 22 LKKLQASLKLYADD---SAPA--LAI 42
>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 = 32.0 bits (73), Expect = 0.31
Identities = 26/112 (23%), Positives = 36/112 (32%), Gaps = 33/112 (29%)
Query: 159 GMGKT--AVFVLATLQQLETTDSNVYVLVMCHTRELAFQISKEYERFSKYMSNIKVGVFF 216
G GKT A+ + L L++ T LA Q ER + VG F
Sbjct: 118 GSGKTHVAMAAINELST--------PTLIVVPTLALAEQW---KERLGIF-GEEYVGEFS 165
Query: 217 GGLPIQKDEEYLKTHNPQIVVGTPGRILALVRNKKLNLSLLKHF---ILDEC 265
G K+ + + V T + N + L F I DE
Sbjct: 166 GR---IKELK-------PLTVST---YDSAYVNAE---KLGNRFMLLIFDEV 201
>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 = 31.7 bits (73), Expect = 0.55
Identities = 19/49 (38%), Positives = 29/49 (59%), Gaps = 4/49 (8%)
Query: 100 RILVATNLFGRGMDIERVNI--VFNYDMPEDSDTYLHRVARAGRFGTKA 146
+I+VAT F GM I + N+ V ++D+P + ++Y RAGR G A
Sbjct: 288 QIVVATVAF--GMGINKPNVRFVVHFDIPRNIESYYQETGRAGRDGLPA 334
>3i9v_6 NADH-quinone oxidoreductase subunit 6; electron transport,
respiratory chain, cell flavoprotein, FMN, iron,
iron-sulfur, membrane; HET: FMN; 3.10A {Thermus
thermophilus} PDB: 2ybb_6* 2fug_6* 3iam_6* 3ias_6*
3m9s_6*
Length = 181
Score = 30.1 bits (68), Expect = 0.99
Identities = 15/37 (40%), Positives = 23/37 (62%), Gaps = 3/37 (8%)
Query: 280 EIFRSSPHTKQVMMFSATLSKEIRPVCKKF---MHDP 313
E+FR+SP VM+ + LSK++ PV ++ M DP
Sbjct: 66 EVFRASPRQADVMIVAGRLSKKMAPVMRRVWEQMPDP 102
>2e0n_A Precorrin-2 C20-methyltransferase; cobalt-factor II, tetrapyrrole,
S-adenosylmethi transferase; HET: SAH; 2.00A
{Chlorobaculum tepidum} PDB: 2e0k_A*
Length = 259
Score = 30.0 bits (68), Expect = 1.2
Identities = 10/47 (21%), Positives = 16/47 (34%)
Query: 347 ELLDVLEFNQVVIFVKSVTRCIALSTLLSEQNFPAVSIHRGMTQEER 393
EL L + V+ +K T L + L P + + E
Sbjct: 165 ELERALVTHSTVVVMKLSTVRDELVSFLERYAKPFLYAEKVGMAGEF 211
>2dnl_A Cytoplasmic polyadenylation element binding protein 3; RRM domain,
RBD, structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 114
Score = 28.8 bits (64), Expect = 1.6
Identities = 22/110 (20%), Positives = 35/110 (31%), Gaps = 17/110 (15%)
Query: 214 VFFGGLPIQKDEEYLKTHNPQ---IVVGTPGRILALVRNKKLNLSLLKHFILDECDKMLE 270
VF GGLP DE+ + + +VV P + + + L +++
Sbjct: 11 VFVGGLPPDIDEDEITASFRRFGPLVVDWPHKAESKSYFPPKGYAFLLFQEESSVQALID 70
Query: 271 QLEMRRDVQEIFRSSP--HTKQVMMFSATLSKEIRPVCKK---FMHDPME 315
+ SSP K V +IRP F+ D
Sbjct: 71 ACLEEDGKLYLCVSSPTIKDKPV---------QIRPWNLSDSDFVMDSGP 111
>1yfb_A Transition state regulatory protein ABRB; , homodimer,
bioinformatics, swapped-hairpin barrel, transcription;
NMR {Bacillus subtilis} SCOP: b.129.1.3 PDB: 1ysf_A
2k1n_A* 1z0r_A 2ro4_A 2fy9_A 2ro3_A
Length = 59
Score = 26.7 bits (59), Expect = 3.2
Identities = 9/22 (40%), Positives = 12/22 (54%)
Query: 300 KEIRPVCKKFMHDPMEVYVDDE 321
E+R D +E+YVDDE
Sbjct: 28 IELRRTLGIAEKDALEIYVDDE 49
>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 = 29.1 bits (66), Expect = 3.7
Identities = 25/86 (29%), Positives = 35/86 (40%), Gaps = 11/86 (12%)
Query: 159 GMGKTAVFVLATLQQLETTDSNVYVLVMCHTRELAFQISKEYERFSKYMS--NIKVGVFF 216
G GKT V LA L ++ M T LA Q Y R + S NI V +
Sbjct: 399 GSGKTVVAQLAILD---NYEAGFQTAFMVPTSILAIQ---HYRRTVESFSKFNIHVALLI 452
Query: 217 GGLPI-QKDE--EYLKTHNPQIVVGT 239
G +K++ L+ +V+GT
Sbjct: 453 GATTPSEKEKIKSGLRNGQIDVVIGT 478
>3sm9_A Mglur3, metabotropic glutamate receptor 3; structural genomics,
structural genomics consortium, SGC, CE membrane,
G-protein coupled receptor; HET: Z99; 2.26A {Homo
sapiens}
Length = 479
Score = 29.0 bits (65), Expect = 3.9
Identities = 12/44 (27%), Positives = 18/44 (40%), Gaps = 2/44 (4%)
Query: 383 SIHRGMTQEERLKKYQEFKDFHKGLAITFASDE--NDAKILNNV 424
I+ T E + E + + A+ FA DE D +L V
Sbjct: 21 PINEKGTGTEECGRINEDRGIQRLEAMLFAIDEINKDDYLLPGV 64
>2e4u_A Metabotropic glutamate receptor 3; G-protein-coupled receptor,
neuron, central nerve system, SI protein; HET: NAG GLU;
2.35A {Rattus norvegicus} PDB: 2e4v_A* 2e4w_A* 2e4x_A*
2e4y_A*
Length = 555
Score = 28.6 bits (64), Expect = 5.2
Identities = 12/44 (27%), Positives = 18/44 (40%), Gaps = 2/44 (4%)
Query: 383 SIHRGMTQEERLKKYQEFKDFHKGLAITFASDE--NDAKILNNV 424
I+ T E + E + + A+ FA DE D +L V
Sbjct: 22 PINEKGTGTEECGRINEDRGIQRLEAMLFAIDEINKDNYLLPGV 65
>4a15_A XPD helicase, ATP-dependent DNA helicase TA0057; hydrolase,
nucleotide excision repair,; 2.20A {Thermoplasma
acidophilum} PDB: 2vsf_A*
Length = 620
Score = 28.5 bits (64), Expect = 5.5
Identities = 14/58 (24%), Positives = 22/58 (37%), Gaps = 2/58 (3%)
Query: 149 GMDILCQAKSGMGKTAVFVLATLQQLETTDSNVYVLVMCHTRELAFQISKEYERFSKY 206
+ ++ +G GKT + + + LQ V LV T Q+ KE S
Sbjct: 22 SYGVALESPTGSGKTIMALKSALQYSSERKLKVLYLV--RTNSQEEQVIKELRSLSST 77
>2odr_C Phosphoseryl-tRNA synthetase; phosphoserine tRNA synthetase class
II, ligase; 3.23A {Methanococcus maripaludis}
Length = 701
Score = 28.4 bits (63), Expect = 6.0
Identities = 24/166 (14%), Positives = 49/166 (29%), Gaps = 33/166 (19%)
Query: 298 LSKEIRPVCKKFMHDPMEV-YVDDEAKLTLHGLQQHYVKLKENEKNKKLFELLDVLEFNQ 356
L+KE+ C K ++ + + + E E+ K LL N+
Sbjct: 390 LTKELIESCVKNKDLKSPCELAIEKTFSFGKTKKNVKINIFEKEEGKN---LLGPSILNE 446
Query: 357 VVIFVKSVTRCIALSTLLSEQNFPAVSIHRGMTQEERLKKYQEFKD--------FHKGLA 408
+ ++ + N + +EE ++ K + L
Sbjct: 447 IYVY---------------DGNVIGIPESFDGVKEEFKDFLEKGKSEGVATGIRYIDALC 491
Query: 409 ITFASDENDAKILNNVQDRFDVSISELPDEIDLST------YIEGR 448
S +A + N + + V I +I+L I +
Sbjct: 492 FKITSKLEEAFVSNTTEFKVKVPIVRSLSDINLKIDDIALKQIMSK 537
>1zsy_A Mitochondrial 2-enoyl thioester reductase; medium-chain
dehydrogenase/reductase, oxidoreductase, 2-ENOY
thioester reductase; 1.75A {Homo sapiens} PDB: 2vcy_A
Length = 357
Score = 28.0 bits (63), Expect = 6.1
Identities = 10/65 (15%), Positives = 18/65 (27%), Gaps = 8/65 (12%)
Query: 212 VGVFFGGLPIQKDEEYLKTHNPQIVVGTPGRILALVRNKKLNLSLLKHFILDECDKMLEQ 271
G + ++ K H+P + L+R +L L + LE
Sbjct: 292 RGFWLS--------QWKKDHSPDQFKELILTLCDLIRRGQLTAPACSQVPLQDYQSALEA 343
Query: 272 LEMRR 276
Sbjct: 344 SMKPF 348
>2w1t_A Spovt, stage V sporulation protein T; transcription, transcription
regulation, repressor, activator, DNA-binding; 2.60A
{Bacillus subtilis} PDB: 2w1t_B 2ro5_A
Length = 178
Score = 27.6 bits (61), Expect = 6.6
Identities = 10/27 (37%), Positives = 16/27 (59%)
Query: 300 KEIRPVCKKFMHDPMEVYVDDEAKLTL 326
KEIR + DP+E++VD + + L
Sbjct: 20 KEIRRTLRIREGDPLEIFVDRDGDVIL 46
>3lfx_A Uncharacterized protein; CAS1, DNAse, prokaryotic immune system,
structural genomics, protein structure initiative; 2.70A
{Thermotoga maritima}
Length = 319
Score = 27.8 bits (62), Expect = 8.3
Identities = 20/141 (14%), Positives = 49/141 (34%), Gaps = 12/141 (8%)
Query: 316 VYVDDEAKLTLHGLQQHYVKLKENEKNKKLFELLDVLEFNQVVIFVKSVTRC----IALS 371
VY+ L ++ + K + ++D+ F +V + + + I +
Sbjct: 4 VYLFSSGTLKRKA-NTICLETESGRKYIPVENVMDIKVFGEVDLNKRFLEFLSQKRIPIH 62
Query: 372 TLLSEQNFPAVSIHRGM--TQEERLKKYQEFKDFHKGL----AITFASDENDAKILNNVQ 425
E + R + LK+ + + + K + I S +N L +
Sbjct: 63 FFNREGYYVGTFYPREYLNSGFLILKQAEHYINQEKRMLIAREIVSRSFQNMVDFLKKRK 122
Query: 426 DRFDVSISELPDEIDLSTYIE 446
R D S++ + + ++ +
Sbjct: 123 VRAD-SLTRYKKKAEEASNVS 142
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
0.321 0.136 0.388
Gapped
Lambda K H
0.267 0.0443 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 6,841,365
Number of extensions: 426355
Number of successful extensions: 1270
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1122
Number of HSP's successfully gapped: 148
Length of query: 448
Length of database: 6,701,793
Length adjustment: 97
Effective length of query: 351
Effective length of database: 3,993,456
Effective search space: 1401703056
Effective search space used: 1401703056
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 59 (27.2 bits)