RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy11867
(399 letters)
>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 = 516 bits (1330), Expect = 0.0
Identities = 221/380 (58%), Positives = 292/380 (76%), Gaps = 5/380 (1%)
Query: 18 KPDDLIDVLSNVNLKQADTPSPTEDAKPAPSSPDSSAPGNKDEEDKPLSVAEKSLLQKIV 77
+ + + LSN++LK+ T A ++A K +E++ A +SLL K++
Sbjct: 12 EQEAAAESLSNLHLKEEKIKPDTNGA-----VVKTNANAEKTDEEEKEDRAAQSLLNKLI 66
Query: 78 RRGLIESKQELEIQRKDPHSPLYSVKTFEALHLKPELLKGVYEMGFYAPSKIQETALPTL 137
R L+++ ++E+ ++DP+SPLYSVK+FE L LKP+LL+GVY MGF PSKIQE ALP +
Sbjct: 67 RSNLVDNTNQVEVLQRDPNSPLYSVKSFEELRLKPQLLQGVYAMGFNRPSKIQENALPLM 126
Query: 138 LADPPHNMIAQSQSGTGKTAAFTLTMLSRVNPSIQEPQVLCLAPTYELAIQIGEVVAKMG 197
LA+PP N+IAQSQSGTGKTAAF L MLS+V P+ + PQ LCL+PTYELA+Q G+V+ +MG
Sbjct: 127 LAEPPQNLIAQSQSGTGKTAAFVLAMLSQVEPANKYPQCLCLSPTYELALQTGKVIEQMG 186
Query: 198 KHITDLSVRYAVRGENLERNKKITEQIIIGTPGKVLDWGLKYRFFDLSKIKVFVLDEADV 257
K +L + YAVRG LER +KI+EQI+IGTPG VLDW K +F D KIKVFVLDEADV
Sbjct: 187 KFYPELKLAYAVRGNKLERGQKISEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADV 246
Query: 258 MIATQGHQDFSIRIQKRLPSDCQIMLFSATYDKEVMEFAQDMVPNPLIIKLKREEESLDN 317
MIATQGHQD SIRIQ+ LP +CQ++LFSAT++ V +FAQ +VP+P +IKLKREEE+LD
Sbjct: 247 MIATQGHQDQSIRIQRMLPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKREEETLDT 306
Query: 318 IKQHYVMCKNIDEKFEAVSNIYGVVTIGQAMIFCHTRKTAAWLAEKMSKEGLNVGLLSGE 377
IKQ+YV+C + DEKF+A+ N+YG +TI QAMIFCHTRKTA+WLA ++SKEG V LLSGE
Sbjct: 307 IKQYYVLCSSRDEKFQALCNLYGAITIAQAMIFCHTRKTASWLAAELSKEGHQVALLSGE 366
Query: 378 LTVEQRLSILDRFREGEFKI 397
+ VEQR ++++RFREG+ K+
Sbjct: 367 MMVEQRAAVIERFREGKEKV 386
>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 = 491 bits (1267), Expect = e-174
Identities = 205/318 (64%), Positives = 262/318 (82%)
Query: 80 GLIESKQELEIQRKDPHSPLYSVKTFEALHLKPELLKGVYEMGFYAPSKIQETALPTLLA 139
L+++ ++E+ ++DP+SPLYSVK+FE L LKP+LL+GVY MGF PSKIQE ALP +LA
Sbjct: 2 NLVDNTNQVEVLQRDPNSPLYSVKSFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLA 61
Query: 140 DPPHNMIAQSQSGTGKTAAFTLTMLSRVNPSIQEPQVLCLAPTYELAIQIGEVVAKMGKH 199
+PP N+IAQSQSGTGKTAAF L MLS+V P+ + PQ LCL+PTYELA+Q G+V+ +MGK
Sbjct: 62 EPPQNLIAQSQSGTGKTAAFVLAMLSQVEPANKYPQCLCLSPTYELALQTGKVIEQMGKF 121
Query: 200 ITDLSVRYAVRGENLERNKKITEQIIIGTPGKVLDWGLKYRFFDLSKIKVFVLDEADVMI 259
+L + YAVRG LER +KI+EQI+IGTPG VLDW K +F D KIKVFVLDEADVMI
Sbjct: 122 YPELKLAYAVRGNKLERGQKISEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMI 181
Query: 260 ATQGHQDFSIRIQKRLPSDCQIMLFSATYDKEVMEFAQDMVPNPLIIKLKREEESLDNIK 319
ATQGHQD SIRIQ+ LP +CQ++LFSAT++ V +FAQ +VP+P +IKLKREEE+LD IK
Sbjct: 182 ATQGHQDQSIRIQRMLPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKREEETLDTIK 241
Query: 320 QHYVMCKNIDEKFEAVSNIYGVVTIGQAMIFCHTRKTAAWLAEKMSKEGLNVGLLSGELT 379
Q+YV+C + DEKF+A+ N+YG +TI QAMIFCHTRKTA+WLA ++SKEG V LLSGE+
Sbjct: 242 QYYVLCSSRDEKFQALCNLYGAITIAQAMIFCHTRKTASWLAAELSKEGHQVALLSGEMM 301
Query: 380 VEQRLSILDRFREGEFKI 397
VEQR ++++RFREG+ K+
Sbjct: 302 VEQRAAVIERFREGKEKV 319
>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 = 440 bits (1135), Expect = e-154
Identities = 150/298 (50%), Positives = 205/298 (68%), Gaps = 3/298 (1%)
Query: 100 YSVKTFEALHLKPELLKGVYEMGFYAPSKIQETALPTLLADPPHNMIAQSQSGTGKTAAF 159
K+F+ L L PELLKG+Y M F PSKIQE ALP LL +PP NMIAQSQSGTGKTAAF
Sbjct: 2 AMAKSFDELGLAPELLKGIYAMKFQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAAF 61
Query: 160 TLTMLSRVNPSIQEPQVLCLAPTYELAIQIGEVVAKMGKHITDLSVRYAVRGENLERNKK 219
+LTML+RVNP PQ +CLAP+ ELA Q EVV +MGK T ++ + V E+NK+
Sbjct: 62 SLTMLTRVNPEDASPQAICLAPSRELARQTLEVVQEMGKF-TKITSQLIVPDSF-EKNKQ 119
Query: 220 ITEQIIIGTPGKVLDWGLKYRFFDLSKIKVFVLDEADVMIATQGHQDFSIRIQKRLPSDC 279
I Q+I+GTPG VLD ++ + L KIK+FVLDEAD M+ QG D IR+++ LP D
Sbjct: 120 INAQVIVGTPGTVLDL-MRRKLMQLQKIKIFVLDEADNMLDQQGLGDQCIRVKRFLPKDT 178
Query: 280 QIMLFSATYDKEVMEFAQDMVPNPLIIKLKREEESLDNIKQHYVMCKNIDEKFEAVSNIY 339
Q++LFSAT+ V ++A+ +VPN ++L+ E ++D IKQ Y+ CKN +KF+ ++ +Y
Sbjct: 179 QLVLFSATFADAVRQYAKKIVPNANTLELQTNEVNVDAIKQLYMDCKNEADKFDVLTELY 238
Query: 340 GVVTIGQAMIFCHTRKTAAWLAEKMSKEGLNVGLLSGELTVEQRLSILDRFREGEFKI 397
G++TIG ++IF T+KTA L K+ EG V +L G+L ++R ++D FREG K+
Sbjct: 239 GLMTIGSSIIFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDDFREGRSKV 296
>3fho_A ATP-dependent RNA helicase DBP5; mRNA export, ATPase, translation
termination, binding, hydrolase, membrane, mRNA
transport; 2.80A {Schizosaccharomyces pombe}
Length = 508
Score = 439 bits (1131), Expect = e-152
Identities = 133/270 (49%), Positives = 185/270 (68%), Gaps = 3/270 (1%)
Query: 128 KIQETALPTLLADPPHNMIAQSQSGTGKTAAFTLTMLSRVNPSIQEPQVLCLAPTYELAI 187
KIQE ALP LL++PP NMI QSQSGTGKTAAF LTMLSRV+ S+ +PQ +CLAP+ ELA
Sbjct: 144 KIQEKALPLLLSNPPRNMIGQSQSGTGKTAAFALTMLSRVDASVPKPQAICLAPSRELAR 203
Query: 188 QIGEVVAKMGKHITDLSVRYAVRGENLERNKKITEQIIIGTPGKVLDWGLKYRFFDLSKI 247
QI +VV +MGK+ T++ + ++ + KI QI+IGTPG V+D +K R D I
Sbjct: 204 QIMDVVTEMGKY-TEVKTAFGIKDSVP-KGAKIDAQIVIGTPGTVMDL-MKRRQLDARDI 260
Query: 248 KVFVLDEADVMIATQGHQDFSIRIQKRLPSDCQIMLFSATYDKEVMEFAQDMVPNPLIIK 307
KVFVLDEAD M+ QG D S+RI+ LP + QI+LFSAT+ + V ++A+ PN I+
Sbjct: 261 KVFVLDEADNMLDQQGLGDQSMRIKHLLPRNTQIVLFSATFSERVEKYAERFAPNANEIR 320
Query: 308 LKREEESLDNIKQHYVMCKNIDEKFEAVSNIYGVVTIGQAMIFCHTRKTAAWLAEKMSKE 367
LK EE S++ IKQ Y+ C++ + K+ + +YG++TIGQ++IFC + TA +A +M+ +
Sbjct: 321 LKTEELSVEGIKQLYMDCQSEEHKYNVLVELYGLLTIGQSIIFCKKKDTAEEIARRMTAD 380
Query: 368 GLNVGLLSGELTVEQRLSILDRFREGEFKI 397
G V L+G L QR +I+D FR G K+
Sbjct: 381 GHTVACLTGNLEGAQRDAIMDSFRVGTSKV 410
>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 = 385 bits (992), Expect = e-134
Identities = 166/294 (56%), Positives = 219/294 (74%), Gaps = 5/294 (1%)
Query: 18 KPDDLIDVLSNVNLKQADTPSPTEDAKPAPSSPDSSAPGNKDEEDKPLSVAEKSLLQKIV 77
+ + + LSN++LK+ T A ++A K +E++ A +SLL K++
Sbjct: 12 EQEAAAESLSNLHLKEEKIKPDTNGA-----VVKTNANAEKTDEEEKEDRAAQSLLNKLI 66
Query: 78 RRGLIESKQELEIQRKDPHSPLYSVKTFEALHLKPELLKGVYEMGFYAPSKIQETALPTL 137
R L+++ ++E+ ++DP+SPLYSVK+FE L LKP+LL+GVY MGF PSKIQE ALP +
Sbjct: 67 RSNLVDNTNQVEVLQRDPNSPLYSVKSFEELRLKPQLLQGVYAMGFNRPSKIQENALPLM 126
Query: 138 LADPPHNMIAQSQSGTGKTAAFTLTMLSRVNPSIQEPQVLCLAPTYELAIQIGEVVAKMG 197
LA+PP N+IAQSQSGTGKTAAF L MLS+V P+ + PQ LCL+PTYELA+Q G+V+ +MG
Sbjct: 127 LAEPPQNLIAQSQSGTGKTAAFVLAMLSQVEPANKYPQCLCLSPTYELALQTGKVIEQMG 186
Query: 198 KHITDLSVRYAVRGENLERNKKITEQIIIGTPGKVLDWGLKYRFFDLSKIKVFVLDEADV 257
K +L + YAVRG LER +KI+EQI+IGTPG VLDW K +F D KIKVFVLDEADV
Sbjct: 187 KFYPELKLAYAVRGNKLERGQKISEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADV 246
Query: 258 MIATQGHQDFSIRIQKRLPSDCQIMLFSATYDKEVMEFAQDMVPNPLIIKLKRE 311
MIATQGHQD SIRIQ+ LP +CQ++LFSAT++ V +FAQ +VP+P +IKLKRE
Sbjct: 247 MIATQGHQDQSIRIQRMLPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKRE 300
>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 = 321 bits (824), Expect = e-107
Identities = 110/317 (34%), Positives = 185/317 (58%), Gaps = 8/317 (2%)
Query: 84 SKQELEIQRKDPHS-PLYSVKTFEALHLKPELLKGVYEMGFYAPSKIQETALPTLLADPP 142
S+ +I+ + V F+ + L LL+GV+ GF PS IQ+ A+ ++
Sbjct: 1 SEGITDIEESQIQTNYDKVVYKFDDMELDENLLRGVFGYGFEEPSAIQQRAIMPIIEG-- 58
Query: 143 HNMIAQSQSGTGKTAAFTLTMLSRVNPSIQEPQVLCLAPTYELAIQIGEVVAKMGKHITD 202
H+++AQ+QSGTGKT F++ L R++ S++ PQ L LAPT ELA+QI +VV + H D
Sbjct: 59 HDVLAQAQSGTGKTGTFSIAALQRIDTSVKAPQALMLAPTRELALQIQKVVMALAFH-MD 117
Query: 203 LSVRYAVRGENLERNKKITE--QIIIGTPGKVLDWGLKYRFFDLSKIKVFVLDEADVMIA 260
+ V + G + + + QI++GTPG+V D ++ R F KIK+F+LDEAD M+
Sbjct: 118 IKVHACIGGTSFVEDAEGLRDAQIVVGTPGRVFDN-IQRRRFRTDKIKMFILDEADEML- 175
Query: 261 TQGHQDFSIRIQKRLPSDCQIMLFSATYDKEVMEFAQDMVPNPLIIKLKREEESLDNIKQ 320
+ G ++ +I LP Q++L SAT +V+E + NP+ I +K++E +L+ IKQ
Sbjct: 176 SSGFKEQIYQIFTLLPPTTQVVLLSATMPNDVLEVTTKFMRNPVRILVKKDELTLEGIKQ 235
Query: 321 HYVMCKNIDEKFEAVSNIYGVVTIGQAMIFCHTRKTAAWLAEKMSKEGLNVGLLSGELTV 380
YV + + K+E ++++Y +++ QA+IFC+TR+ L K+ + V + +L
Sbjct: 236 FYVNVEEEEYKYECLTDLYDSISVTQAVIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQ 295
Query: 381 EQRLSILDRFREGEFKI 397
++R +I+ FR G +I
Sbjct: 296 QERDTIMKEFRSGSSRI 312
>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 = 312 bits (802), Expect = e-104
Identities = 107/301 (35%), Positives = 176/301 (58%), Gaps = 9/301 (2%)
Query: 101 SVKTFEALHLKPELLKGVYEMGFYAPSKIQETALPTLLADPPHNMIAQSQSGTGKTAAFT 160
V +F+ ++L LL+G+Y GF PS IQ+ A+ + +++IAQ+QSGTGKTA F
Sbjct: 38 IVDSFDDMNLSESLLRGIYAYGFEKPSAIQQRAILPCIKG--YDVIAQAQSGTGKTATFA 95
Query: 161 LTMLSRVNPSIQEPQVLCLAPTYELAIQIGEVVAKMGKHITDLSVRYAVRGENLERN--- 217
+++L ++ ++ Q L LAPT ELA QI +VV +G + S + G N+
Sbjct: 96 ISILQQIELDLKATQALVLAPTRELAQQIQKVVMALGDY-MGASCHACIGGTNVRAEVQK 154
Query: 218 -KKITEQIIIGTPGKVLDWGLKYRFFDLSKIKVFVLDEADVMIATQGHQDFSIRIQKRLP 276
+ II+GTPG+V D L R+ IK+FVLDEAD M+ ++G +D I ++L
Sbjct: 155 LQMEAPHIIVGTPGRVFDM-LNRRYLSPKYIKMFVLDEADEML-SRGFKDQIYDIFQKLN 212
Query: 277 SDCQIMLFSATYDKEVMEFAQDMVPNPLIIKLKREEESLDNIKQHYVMCKNIDEKFEAVS 336
S+ Q++L SAT +V+E + + +P+ I +K+EE +L+ I+Q Y+ + + K + +
Sbjct: 213 SNTQVVLLSATMPSDVLEVTKKFMRDPIRILVKKEELTLEGIRQFYINVEREEWKLDTLC 272
Query: 337 NIYGVVTIGQAMIFCHTRKTAAWLAEKMSKEGLNVGLLSGELTVEQRLSILDRFREGEFK 396
++Y +TI QA+IF +TR+ WL EKM V + G++ ++R I+ FR G +
Sbjct: 273 DLYETLTITQAVIFINTRRKVDWLTEKMHARDFTVSAMHGDMDQKERDVIMREFRSGSSR 332
Query: 397 I 397
+
Sbjct: 333 V 333
>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 = 294 bits (756), Expect = 4e-97
Identities = 103/300 (34%), Positives = 179/300 (59%), Gaps = 8/300 (2%)
Query: 101 SVKTFEALHLKPELLKGVYEMGFYAPSKIQETALPTLLADPPHNMIAQSQSGTGKTAAFT 160
TF+ + L+ +LL+G+Y GF PS IQ+ A+ ++ ++IAQSQSGTGKTA F+
Sbjct: 35 VTPTFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKG--RDVIAQSQSGTGKTATFS 92
Query: 161 LTMLSRVNPSIQEPQVLCLAPTYELAIQIGEVVAKMGKHITDLSVRYAVRGENLERNKKI 220
+++L ++ ++E Q L LAPT ELA+QI + + +G + ++ + G N+ + +
Sbjct: 93 ISVLQCLDIQVRETQALILAPTRELAVQIQKGLLALGDY-MNVQCHACIGGTNVGEDIRK 151
Query: 221 TE---QIIIGTPGKVLDWGLKYRFFDLSKIKVFVLDEADVMIATQGHQDFSIRIQKRLPS 277
+ ++ GTPG+V D ++ R IK+ VLDEAD M+ +G ++ + + LP
Sbjct: 152 LDYGQHVVAGTPGRVFDM-IRRRSLRTRAIKMLVLDEADEML-NKGFKEQIYDVYRYLPP 209
Query: 278 DCQIMLFSATYDKEVMEFAQDMVPNPLIIKLKREEESLDNIKQHYVMCKNIDEKFEAVSN 337
Q++L SAT E++E + +P+ I +KR+E +L+ IKQ +V + + KF+ + +
Sbjct: 210 ATQVVLISATLPHEILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWKFDTLCD 269
Query: 338 IYGVVTIGQAMIFCHTRKTAAWLAEKMSKEGLNVGLLSGELTVEQRLSILDRFREGEFKI 397
+Y +TI QA+IFC+T++ WL EKM + V + G++ ++R SI+ FR G ++
Sbjct: 270 LYDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRV 329
>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 = 287 bits (736), Expect = 2e-94
Identities = 84/299 (28%), Positives = 157/299 (52%), Gaps = 9/299 (3%)
Query: 104 TFEALHLKPELLKGVYEMGFYAPSKIQETALPTLLADPPHNMIAQSQSGTGKTAAFTLTM 163
F LKPELL+ + + GF PS++Q +P + +++ Q++SG GKTA F L
Sbjct: 9 GFRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILG--MDVLCQAKSGMGKTAVFVLAT 66
Query: 164 LSRVNPSIQEPQVLCLAPTYELAIQIGEVVAKMGKHITDLSVRYAVRGENLERN----KK 219
L ++ P + VL + T ELA QI + + K++ ++ V G +++++ KK
Sbjct: 67 LQQLEPVTGQVSVLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEVLKK 126
Query: 220 ITEQIIIGTPGKVLDWGLKYRFFDLSKIKVFVLDEADVMIATQGHQDFSIRIQKRLPSDC 279
I++GTPG++L + + +L IK F+LDE D M+ + I + P +
Sbjct: 127 NCPHIVVGTPGRILAL-ARNKSLNLKHIKHFILDECDKMLEQLDMRRDVQEIFRMTPHEK 185
Query: 280 QIMLFSATYDKEVMEFAQDMVPNPLIIKLKREEE-SLDNIKQHYVMCKNIDEKFEAVSNI 338
Q+M+FSAT KE+ + + +P+ I + E + +L ++Q+YV K+ +EK + ++
Sbjct: 186 QVMMFSATLSKEIRPVCRKFMQDPMEIFVDDETKLTLHGLQQYYVKLKD-NEKNRKLFDL 244
Query: 339 YGVVTIGQAMIFCHTRKTAAWLAEKMSKEGLNVGLLSGELTVEQRLSILDRFREGEFKI 397
V+ Q +IF + + LA+ + ++ + + E+RLS +F++ + +I
Sbjct: 245 LDVLEFNQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRI 303
>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 = 283 bits (726), Expect = 1e-92
Identities = 100/297 (33%), Positives = 160/297 (53%), Gaps = 10/297 (3%)
Query: 104 TFEALHLKPELLKGVYEMGFYAPSKIQETALPTLLADPPHNMIAQSQSGTGKTAAFTLTM 163
TFE +LK ELL G++E GF PS IQE A+P + +++A++++GTGKTAAF +
Sbjct: 22 TFEDFYLKRELLMGIFEAGFEKPSPIQEEAIPVAITG--RDILARAKNGTGKTAAFVIPT 79
Query: 164 LSRVNPSIQEPQVLCLAPTYELAIQIGEVVAKMGKHITDLSVRYAVRGENLERNKKITE- 222
L +V P + + Q L + PT ELA+Q +VV +GKH +S G NL +
Sbjct: 80 LEKVKPKLNKIQALIMVPTRELALQTSQVVRTLGKHC-GISCMVTTGGTNLRDDILRLNE 138
Query: 223 --QIIIGTPGKVLDWGLKYRFFDLSKIKVFVLDEADVMIATQGHQDFSIRIQKRLPSDCQ 280
I++GTPG+VLD + DLS +F++DEAD M+ ++ + +I LP Q
Sbjct: 139 TVHILVGTPGRVLD-LASRKVADLSDCSLFIMDEADKML-SRDFKTIIEQILSFLPPTHQ 196
Query: 281 IMLFSATYDKEVMEFAQDMVPNPLIIKLKREEESLDNIKQHYVMCKNIDEKFEAVSNIYG 340
+LFSAT+ V EF + P I L E +L I Q+Y + +K ++ ++
Sbjct: 197 SLLFSATFPLTVKEFMVKHLHKPYEINLME-ELTLKGITQYYAFVEE-RQKLHCLNTLFS 254
Query: 341 VVTIGQAMIFCHTRKTAAWLAEKMSKEGLNVGLLSGELTVEQRLSILDRFREGEFKI 397
+ I QA+IFC++ LA+K++ G + + ++R + FR+G+ +
Sbjct: 255 KLQINQAIIFCNSTNRVELLAKKITDLGYSCYYSHARMKQQERNKVFHEFRQGKVRT 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 = 230 bits (588), Expect = 1e-72
Identities = 85/301 (28%), Positives = 151/301 (50%), Gaps = 17/301 (5%)
Query: 101 SVKTFEALHLKPELLKGVYEMGFYAPSKIQETALPTLLADPPHNMIAQSQSGTGKTAAFT 160
F L+L +L + GF P+ IQ +P L D +N++AQ+++G+GKTA+F
Sbjct: 4 EYMNFNELNLSDNILNAIRNKGFEKPTDIQMKVIPLFLNDE-YNIVAQARTGSGKTASFA 62
Query: 161 LTMLSRVNPSIQEPQVLCLAPTYELAIQIGEVVAKMGKH--ITDLSVRYAVRGENLERNK 218
+ ++ VN + + + L PT ELAIQ+ + + + + + + Y G+ +
Sbjct: 63 IPLIELVNEN-NGIEAIILTPTRELAIQVADEIESLKGNKNLKIAKI-YG--GKAIYPQI 118
Query: 219 KITE--QIIIGTPGKVLDWGLKYRFFDLSKIKVFVLDEADVMIATQGHQDFSIRIQKRLP 276
K + I++GTPG++LD + +L +K F+LDEAD M+ G +I
Sbjct: 119 KALKNANIVVGTPGRILDH-INRGTLNLKNVKYFILDEADEML-NMGFIKDVEKILNACN 176
Query: 277 SDCQIMLFSATYDKEVMEFAQDMVPNPLIIKLKREEESLDNIKQHYVMCKNIDEKFEAVS 336
D +I+LFSAT +E++ A+ + + IK K NI+Q YV + +FEA+
Sbjct: 177 KDKRILLFSATMPREILNLAKKYMGDYSFIKAKINA----NIEQSYVEVNENE-RFEALC 231
Query: 337 NIYGVVTIGQAMIFCHTRKTAAWLAEKMSKEGLNVGLLSGELTVEQRLSILDRFREGEFK 396
+ ++FC T++ LA + G G + G+L+ QR ++ F++ + +
Sbjct: 232 RLLKNKEF-YGLVFCKTKRDTKELASMLRDIGFKAGAIHGDLSQSQREKVIRLFKQKKIR 290
Query: 397 I 397
I
Sbjct: 291 I 291
>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 = 213 bits (544), Expect = 9e-68
Identities = 83/218 (38%), Positives = 133/218 (61%), Gaps = 7/218 (3%)
Query: 101 SVKTFEALHLKPELLKGVYEMGFYAPSKIQETALPTLLADPPHNMIAQSQSGTGKTAAFT 160
V F+ + L LL+GV+ GF PS IQ+ A+ ++ H+++AQ+QSGTGKT F+
Sbjct: 12 VVYKFDDMELDENLLRGVFGYGFEEPSAIQQRAIMPIIEG--HDVLAQAQSGTGKTGTFS 69
Query: 161 LTMLSRVNPSIQEPQVLCLAPTYELAIQIGEVVAKMGKHITDLSVRYAVRGENLERNKKI 220
+ L R++ S++ PQ L LAPT ELA+QI +VV + H+ D+ V + G + + +
Sbjct: 70 IAALQRIDTSVKAPQALMLAPTRELALQIQKVVMALAFHM-DIKVHACIGGTSFVEDAEG 128
Query: 221 TE--QIIIGTPGKVLDWGLKYRFFDLSKIKVFVLDEADVMIATQGHQDFSIRIQKRLPSD 278
QI++GTPG+V D ++ R F KIK+F+LDEAD M+ + G ++ +I LP
Sbjct: 129 LRDAQIVVGTPGRVFDN-IQRRRFRTDKIKMFILDEADEML-SSGFKEQIYQIFTLLPPT 186
Query: 279 CQIMLFSATYDKEVMEFAQDMVPNPLIIKLKREEESLD 316
Q++L SAT +V+E + NP+ I +K++E +L+
Sbjct: 187 TQVVLLSATMPNDVLEVTTKFMRNPVRILVKKDELTLE 224
>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 = 221 bits (564), Expect = 9e-67
Identities = 82/344 (23%), Positives = 152/344 (44%), Gaps = 31/344 (9%)
Query: 84 SKQELEIQRKDPHSPLYSVKTFEALHLKPELLKGVYEMGFYAPSKIQETALPTLLADPPH 143
S + + + ++D + E L E+ K + M F + +Q+ + +L+ H
Sbjct: 2 SSKLIHVPKEDNSKEVTLDSLLEEGVLDKEIHKAITRMEFPGLTPVQQKTIKPILSSEDH 61
Query: 144 NMIAQSQSGTGKTAAFTLTMLSRVNPSIQEP----QVLCLAPTYELAIQIGEVVAKMGKH 199
++IA++++GTGKT AF + + + + + + + +APT +LA+QI V K+
Sbjct: 62 DVIARAKTGTGKTFAFLIPIFQHLINTKFDSQYMVKAVIVAPTRDLALQIEAEVKKIHDM 121
Query: 200 ---ITDLSVRYAVRGENLERN----KKITEQIIIGTPGKVLDWGLKYRFFDLSKIKVFVL 252
+ + V G + K+ I+I TPG+++D KY + VL
Sbjct: 122 NYGLKKYACVSLVGGTDFRAAMNKMNKLRPNIVIATPGRLIDVLEKYSNKFFRFVDYKVL 181
Query: 253 DEADVMIATQGHQDFSIRIQKRLP-------SDCQIMLFSATYDKEVMEFAQDMVPNPLI 305
DEAD ++ G +D I L + + +LFSAT D +V + A +++
Sbjct: 182 DEADRLL-EIGFRDDLETISGILNEKNSKSADNIKTLLFSATLDDKVQKLANNIMNKKEC 240
Query: 306 IKL----KREEESLDNIKQHYVMCKNIDEKF-----EAVSNIYGVVTIGQAMIFCHTRKT 356
+ L K E E+ + I Q V+ + I + +A+IF T K
Sbjct: 241 LFLDTVDKNEPEAHERIDQSVVISEKFANSIFAAVEHIKKQIKERDSNYKAIIFAPTVKF 300
Query: 357 AAWLAEKMSKE---GLNVGLLSGELTVEQRLSILDRFREGEFKI 397
++L + E L + G++T +R S++ RF++ E I
Sbjct: 301 TSFLCSILKNEFKKDLPILEFHGKITQNKRTSLVKRFKKDESGI 344
>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 = 209 bits (535), Expect = 2e-66
Identities = 61/208 (29%), Positives = 106/208 (50%), Gaps = 5/208 (2%)
Query: 104 TFEALHLKPELLKGVYEMGFYAPSKIQETALPTLLADPPHNMIAQSQSGTGKTAAFTLTM 163
FE+L L +L+G+ GF PS +Q A+P ++I Q++SGTGKT F+
Sbjct: 25 DFESLLLSRPVLEGLRAAGFERPSPVQLKAIPLGRCG--LDLIVQAKSGTGKTCVFSTIA 82
Query: 164 LSRVNPSIQEPQVLCLAPTYELAIQIGEVVAKMGKHITDLSVRYAVRGENLERNKKITE- 222
L + Q+L LAPT E+A+QI V+ +G + L + G L ++K +
Sbjct: 83 LDSLVLENLSTQILILAPTREIAVQIHSVITAIGIKMEGLECHVFIGGTPLSQDKTRLKK 142
Query: 223 -QIIIGTPGKVLDWGLKYRFFDLSKIKVFVLDEADVMIATQGHQDFSIRIQKRLPSDCQI 281
I +G+PG++ ++ + + I++F+LDEAD ++ Q+ I LP+ Q+
Sbjct: 143 CHIAVGSPGRIKQL-IELDYLNPGSIRLFILDEADKLLEEGSFQEQINWIYSSLPASKQM 201
Query: 282 MLFSATYDKEVMEFAQDMVPNPLIIKLK 309
+ SATY + + + +P ++L
Sbjct: 202 LAVSATYPEFLANALTKYMRDPTFVRLN 229
>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 = 217 bits (554), Expect = 2e-65
Identities = 84/399 (21%), Positives = 164/399 (41%), Gaps = 39/399 (9%)
Query: 32 KQADTPSPTEDAKPAPSSPDSSAPGNKDEEDKPLSVAEKSLLQKIVRRGLIESKQELEIQ 91
D + + +S+ N +P + + + + + + + +
Sbjct: 3 LYNDGNRDQRNFGRNQRNNNSNRYRNSRFNSRPRTRSREDDDEVHFDKT--TFSKLIHVP 60
Query: 92 RKDPHSPLYSVKTFEALHLKPELLKGVYEMGFYAPSKIQETALPTLLADPPHNMIAQSQS 151
++D + E L E+ K + M F + +Q+ + +L+ H++IA++++
Sbjct: 61 KEDNSKEVTLDSLLEEGVLDKEIHKAITRMEFPGLTPVQQKTIKPILSSEDHDVIARAKT 120
Query: 152 GTGKTAAFTLTMLSRVNPSIQEP----QVLCLAPTYELAIQIGEVVAKMGKH---ITDLS 204
GTGKT AF + + + + + + + +APT +LA+QI V K+ + +
Sbjct: 121 GTGKTFAFLIPIFQHLINTKFDSQYMVKAVIVAPTRDLALQIEAEVKKIHDMNYGLKKYA 180
Query: 205 VRYAVRGENLERN----KKITEQIIIGTPGKVLDWGLKYRFFDLSKIKVFVLDEADVMIA 260
V G + K+ I+I TPG+++D KY + VLDEAD ++
Sbjct: 181 CVSLVGGTDFRAAMNKMNKLRPNIVIATPGRLIDVLEKYSNKFFRFVDYKVLDEADRLL- 239
Query: 261 TQGHQDF--SIR-IQKRLP-------SDCQIMLFSATYDKEVMEFAQDMVPNPLIIKL-- 308
F + I L + + +LFSAT D +V + A +++ + L
Sbjct: 240 ---EIGFRDDLETISGILNEKNSKSADNIKTLLFSATLDDKVQKLANNIMNKKECLFLDT 296
Query: 309 --KREEESLDNIKQHYVMCKNIDEKF-----EAVSNIYGVVTIGQAMIFCHTRKTAAWLA 361
K E E+ + I Q V+ + I + +A+IF T K ++L
Sbjct: 297 VDKNEPEAHERIDQSVVISEKFANSIFAAVEHIKKQIKERDSNYKAIIFAPTVKFTSFLC 356
Query: 362 EKMSKE---GLNVGLLSGELTVEQRLSILDRFREGEFKI 397
+ E L + G++T +R S++ RF++ E I
Sbjct: 357 SILKNEFKKDLPILEFHGKITQNKRTSLVKRFKKDESGI 395
>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 = 210 bits (538), Expect = 2e-65
Identities = 68/293 (23%), Positives = 128/293 (43%), Gaps = 29/293 (9%)
Query: 110 LKPELLKGVYEMGFYAPSKIQETALPTLLADPPHNMIAQSQSGTGKTAAFTLTMLSRVNP 169
+ ++ + + EMGF +++Q +P +L N++ ++++G+GKTAA+ + +L
Sbjct: 1 MNEKIEQAIREMGFKNFTEVQSKTIPLMLQG--KNVVVRAKTGSGKTAAYAIPILEL--- 55
Query: 170 SIQEPQVLCLAPTYELAIQIGEVVAKMGKHITDLSVRYAVR--GENLERNKKITE--QII 225
+ L + PT EL Q+ + +G++ + + A G + I+
Sbjct: 56 ---GMKSLVVTPTRELTRQVASHIRDIGRY---MDTKVAEVYGGMPYKAQINRVRNADIV 109
Query: 226 IGTPGKVLDWGLKYRFFDLSKIKVFVLDEADVMIATQGHQDFSIRIQKRLPSDCQIMLFS 285
+ TPG++LD DLS ++ ++DEAD+M G D I + + LFS
Sbjct: 110 VATPGRLLDL-WSKGVIDLSSFEIVIIDEADLMF-EMGFIDDIKIILAQTSNRKITGLFS 167
Query: 286 ATYDKEVMEFAQDMVPNPLIIKLKREEESLDNIKQHYVMCKNIDEKFEAVSNIYGVVTIG 345
AT +E+ + +D + N I+ L N++ +V + + + +
Sbjct: 168 ATIPEEIRKVVKDFITNYEEIEACI---GLANVEHKFVH---VKDDWRSKVQALRENKDK 221
Query: 346 QAMIFCHTRKTAAWLAEKMSK-EGLNVGLLSGELTVEQRLSILDRFREGEFKI 397
++F TR A L L G+L R +D FREGE+ +
Sbjct: 222 GVIVFVRTRNRVAKLVRLFDNAIELR-----GDLPQSVRNRNIDAFREGEYDM 269
>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 = 207 bits (528), Expect = 3e-65
Identities = 78/215 (36%), Positives = 127/215 (59%), Gaps = 9/215 (4%)
Query: 101 SVKTFEALHLKPELLKGVYEMGFYAPSKIQETALPTLLADPPHNMIAQSQSGTGKTAAFT 160
V F+ ++LK LL+G+Y GF PS IQ+ A+ + +++IAQ+QSGTGKTA F
Sbjct: 28 IVDNFDDMNLKESLLRGIYAYGFEKPSAIQQRAIIPCIKG--YDVIAQAQSGTGKTATFA 85
Query: 161 LTMLSRVNPSIQEPQVLCLAPTYELAIQIGEVVAKMGKHITDLSVRYAVRGENLERN--- 217
+++L ++ +E Q L LAPT ELA QI +V+ +G ++ + + G N+
Sbjct: 86 ISILQQLEIEFKETQALVLAPTRELAQQIQKVILALGDYM-GATCHACIGGTNVRNEMQK 144
Query: 218 -KKITEQIIIGTPGKVLDWGLKYRFFDLSKIKVFVLDEADVMIATQGHQDFSIRIQKRLP 276
+ I++GTPG+V D L R+ IK+FVLDEAD M+ ++G +D I ++L
Sbjct: 145 LQAEAPHIVVGTPGRVFDM-LNRRYLSPKWIKMFVLDEADEML-SRGFKDQIYEIFQKLN 202
Query: 277 SDCQIMLFSATYDKEVMEFAQDMVPNPLIIKLKRE 311
+ Q++L SAT +V+E + + +P+ I +K+E
Sbjct: 203 TSIQVVLLSATMPTDVLEVTKKFMRDPIRILVKKE 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 = 200 bits (512), Expect = 3e-63
Identities = 67/206 (32%), Positives = 113/206 (54%), Gaps = 7/206 (3%)
Query: 104 TFEALHLKPELLKGVYEMGFYAPSKIQETALPTLLADPPHNMIAQSQSGTGKTAAFTLTM 163
FE LK ELL G++EMG+ PS IQE ++P L+ +++A++++GTGK+ A+ + +
Sbjct: 4 EFEDYCLKRELLMGIFEMGWEKPSPIQEESIPIALSG--RDILARAKNGTGKSGAYLIPL 61
Query: 164 LSRVNPSIQEPQVLCLAPTYELAIQIGEVVAKMGKHITDLSVRYAVRGENLE---RNKKI 220
L R++ Q + + PT ELA+Q+ ++ ++ KH+ V G NL
Sbjct: 62 LERLDLKKDNIQAMVIVPTRELALQVSQICIQVSKHMGGAKVMATTGGTNLRDDIMRLDD 121
Query: 221 TEQIIIGTPGKVLDWGLKYRFFDLSKIKVFVLDEADVMIATQGHQDFSIRIQKRLPSDCQ 280
T ++I TPG++LD +K + +++ VLDEAD ++ +Q I LP + Q
Sbjct: 122 TVHVVIATPGRILDL-IKKGVAKVDHVQMIVLDEADKLL-SQDFVQIMEDIILTLPKNRQ 179
Query: 281 IMLFSATYDKEVMEFAQDMVPNPLII 306
I+L+SAT+ V +F + P I
Sbjct: 180 ILLYSATFPLSVQKFMNSHLEKPYEI 205
>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 = 200 bits (512), Expect = 5e-63
Identities = 64/208 (30%), Positives = 110/208 (52%), Gaps = 7/208 (3%)
Query: 104 TFEALHLKPELLKGVYEMGFYAPSKIQETALPTLLADPPHNMIAQSQSGTGKTAAFTLTM 163
F LKPELL+ + + GF PS++Q +P + +++ Q++SG GKTA F L
Sbjct: 15 GFRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILG--MDVLCQAKSGMGKTAVFVLAT 72
Query: 164 LSRVNPSIQEPQVLCLAPTYELAIQIGEVVAKMGKHITDLSVRYAVRGENLERN----KK 219
L ++ P + VL + T ELA QI + + K++ ++ V G +++++ KK
Sbjct: 73 LQQLEPVTGQVSVLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEVLKK 132
Query: 220 ITEQIIIGTPGKVLDWGLKYRFFDLSKIKVFVLDEADVMIATQGHQDFSIRIQKRLPSDC 279
I++GTPG++L + + +L IK F+LDE D M+ + I + P +
Sbjct: 133 NCPHIVVGTPGRILAL-ARNKSLNLKHIKHFILDECDKMLEQLDMRRDVQEIFRMTPHEK 191
Query: 280 QIMLFSATYDKEVMEFAQDMVPNPLIIK 307
Q+M+FSAT KE+ + + +P+ I
Sbjct: 192 QVMMFSATLSKEIRPVCRKFMQDPMEIF 219
>1q0u_A Bstdead; DEAD protein, RNA binding protein; 1.85A {Geobacillus
stearothermophilus} SCOP: c.37.1.19
Length = 219
Score = 186 bits (474), Expect = 2e-57
Identities = 63/217 (29%), Positives = 113/217 (52%), Gaps = 10/217 (4%)
Query: 101 SVKTFEALHLKPELLKGVYEMGFYAPSKIQETALPTLLADPPHNMIAQSQSGTGKTAAFT 160
+ F +P +++ + + FY P++IQE +P L +M+ QSQ+GTGKT A+
Sbjct: 2 AETQFTRFPFQPFIIEAIKTLRFYKPTEIQERIIPGALRG--ESMVGQSQTGTGKTHAYL 59
Query: 161 LTMLSRVNPSIQEPQVLCLAPTYELAIQIGEVVAKMGKHITD---LSVRYAVRGENLERN 217
L ++ ++ P E Q + APT ELA QI K+ K + R + G + ++
Sbjct: 60 LPIMEKIKPERAEVQAVITAPTRELATQIYHETLKITKFCPKDRMIVARCLIGGTDKQKA 119
Query: 218 KKITE---QIIIGTPGKVLDWGLKYRFFDLSKIKVFVLDEADVMIATQGHQDFSIRIQKR 274
+ I+IGTPG++ D+ ++ + D+ + V+DEAD+M+ G +I R
Sbjct: 120 LEKLNVQPHIVIGTPGRINDF-IREQALDVHTAHILVVDEADLML-DMGFITDVDQIAAR 177
Query: 275 LPSDCQIMLFSATYDKEVMEFAQDMVPNPLIIKLKRE 311
+P D Q+++FSAT +++ F + + NP + +
Sbjct: 178 MPKDLQMLVFSATIPEKLKPFLKKYMENPTFVHVLEH 214
>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 = 178 bits (453), Expect = 2e-54
Identities = 71/214 (33%), Positives = 114/214 (53%), Gaps = 15/214 (7%)
Query: 104 TFEALHLKPELLKGVYEMGFYAPSKIQETALPTLLADPPHNMIAQSQSGTGKTAAFTLTM 163
F+ LKPE+L+ ++ G P+ IQ ALP L ++I Q+++GTGKT AF L +
Sbjct: 2 EFKDFPLKPEILEALHGRGLTTPTPIQAAALPLALEG--KDLIGQARTGTGKTLAFALPI 59
Query: 164 LSRVNPSIQE---PQVLCLAPTYELAIQIGEVVAKMGKHITDLSV----RYAVRGENLER 216
R+ PS + P+ L L PT ELA+Q+ + + H+ ++V Y + E L R
Sbjct: 60 AERLAPSQERGRKPRALVLTPTRELALQVASELTAVAPHLKVVAVYGGTGYGKQKEALLR 119
Query: 217 NKKITEQIIIGTPGKVLDWGLKYRFFDLSKIKVFVLDEADVMIATQGHQDFSIRIQKRLP 276
++ TPG+ LD+ L+ DLS+++V VLDEAD M+ + G ++ + P
Sbjct: 120 GA----DAVVATPGRALDY-LRQGVLDLSRVEVAVLDEADEML-SMGFEEEVEALLSATP 173
Query: 277 SDCQIMLFSATYDKEVMEFAQDMVPNPLIIKLKR 310
Q +LFSAT A+ + NP++I + +
Sbjct: 174 PSRQTLLFSATLPSWAKRLAERYMKNPVLINVIK 207
>3oiy_A Reverse gyrase helicase domain; topoisomerase, DNA supercoiling,
archaea, isomeras; 2.35A {Thermotoga maritima} PDB:
3p4y_A 3p4x_A*
Length = 414
Score = 179 bits (457), Expect = 1e-52
Identities = 43/318 (13%), Positives = 96/318 (30%), Gaps = 45/318 (14%)
Query: 106 EALHLKPELLKGVYEMGFYAPSKIQETALPTLLADPPHNMIAQSQSGTGKTAAFTLTMLS 165
E + + + + Q ++ + + +G GKT +T L
Sbjct: 2 EFWNEYEDFRSFFKKKFGKDLTGYQRLWAKRIVQG--KSFTMVAPTGVGKTTFGMMTALW 59
Query: 166 RVNPSIQEPQVLCLAPTYELAIQIGEVVAKMGKHITDLSVRY-----AVRGENLERNKKI 220
+ + + PT L Q E + K+ + Y + + + ++
Sbjct: 60 LAR---KGKKSALVFPTVTLVKQTLERLQKLADEKVKIFGFYSSMKKEEKEKFEKSFEED 116
Query: 221 TEQIIIGTPGKVLDWGLKYRFFDLSKIKVFVLDEADVMIATQGHQDFSIRIQKRLPSDCQ 280
I++ + V + +D+ D ++ ++ + +P +
Sbjct: 117 DYHILVFSTQFVSK---NREKLSQKRFDFVFVDDVDAVLKA-SRNIDTLLMMVGIPEEII 172
Query: 281 IMLFSATYDKEVMEFAQDMVPNPLIIKL---------------------KREEESLDNIK 319
FS ++ E +++ P L++ R NI
Sbjct: 173 RKAFSTIKQGKIYERPKNLKPGILVVSSATAKPRGIRPLLFRDLLNFTVGRLVSVARNIT 232
Query: 320 QHYVMCKNIDEKFEAVSNIYGVVTIGQAMIFCHTRKTAAWLAEKMSKEGLNVGLLSGELT 379
+ ++ EK + I+ +IF T + L E + + NVG E
Sbjct: 233 HVRISSRS-KEKLVELLEIFR----DGILIFAQTEEEGKELYEYLKRFKFNVGETWSE-- 285
Query: 380 VEQRLSILDRFREGEFKI 397
+ F+ G+ I
Sbjct: 286 ---FEKNFEDFKVGKINI 300
>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 = 170 bits (432), Expect = 7e-51
Identities = 68/231 (29%), Positives = 111/231 (48%), Gaps = 13/231 (5%)
Query: 83 ESKQELEIQRKDPHSPLYSVKTFEALHLKPELLKGVYEMGFYAPSKIQETALPTLLADPP 142
+ + + P KTF+ L + L + ++G+ P+KIQ A+P L
Sbjct: 23 MEEHDSPTEASQPIVEEEETKTFKDLGVTDVLCEACDQLGWTKPTKIQIEAIPLALQG-- 80
Query: 143 HNMIAQSQSGTGKTAAFTLTMLSRVNPSIQEPQVLCLAPTYELAIQIGEVVAKMGKHITD 202
++I +++G+GKT AF L +L+ + + Q L L PT ELA QI E +G I
Sbjct: 81 RDIIGLAETGSGKTGAFALPILNALLETPQRLFALVLTPTRELAFQISEQFEALGSSI-G 139
Query: 203 LSVRYAVRGENLERNKKITEQ---IIIGTPGKVLDWGLKYRFFDLSKIKVFVLDEADVMI 259
+ V G + + III TPG+++D + F+L +K V+DEAD ++
Sbjct: 140 VQSAVIVGGIDSMSQSLALAKKPHIIIATPGRLIDHLENTKGFNLRALKYLVMDEADRIL 199
Query: 260 ATQGHQDFSI---RIQKRLPSDCQIMLFSATYDKEVMEFAQDMVPNPLIIK 307
+ DF +I K +P D + LFSAT K+V + + + NP+
Sbjct: 200 ----NMDFETEVDKILKVIPRDRKTFLFSATMTKKVQKLQRAALKNPVKCA 246
>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 = 168 bits (428), Expect = 3e-48
Identities = 76/327 (23%), Positives = 149/327 (45%), Gaps = 32/327 (9%)
Query: 87 ELEIQRKDPHSPLYSVKTFEALHLKPELLKGVYEMGFYAPSKIQETALPTLLADPPHNMI 146
+++ D P ++ F + L+ ++ V + G+ P+ IQ+ ++P + + +++
Sbjct: 43 PVKVTGSDVPQP---IQHFTSADLRDIIIDNVNKSGYKIPTPIQKCSIPVISSG--RDLM 97
Query: 147 AQSQSGTGKTAAFTLTMLSRVN-----PSIQEPQVLCLAPTYELAIQIGEVVAKMGKHIT 201
A +Q+G+GKTAAF L +LS++ + PQV+ ++PT ELAIQI K
Sbjct: 98 ACAQTGSGKTAAFLLPILSKLLEDPHELELGRPQVVIVSPTRELAIQIFNEARKFAFE-- 155
Query: 202 DLSVRYAV------RGENLERNKKITEQIIIGTPGKVLDWGLKYRFFDLSKIKVFVLDEA 255
++ + E + ++I TPG++LD+ + F + VLDEA
Sbjct: 156 -SYLKIGIVYGGTSFRHQNECITRGCH-VVIATPGRLLDF-VDRTFITFEDTRFVVLDEA 212
Query: 256 DVMIATQGHQDFSIRIQK-----RLPSDCQIMLFSATYDKEVMEFAQDMVPNPLIIKLKR 310
D M+ FS +++ + + Q ++FSAT+ +E+ A + + N + + +
Sbjct: 213 DRML----DMGFSEDMRRIMTHVTMRPEHQTLMFSATFPEEIQRMAGEFLKNYVFVAIGI 268
Query: 311 EEESLDNIKQHYVMCKNIDEKFEAVSNIYGVVTIGQAMIFCHTRKTAAWLAEKMSKEGLN 370
+ ++KQ K + I ++F T++ A +LA +S++
Sbjct: 269 VGGACSDVKQTIYEVNK-YAKRSKLIEILS-EQADGTIVFVETKRGADFLASFLSEKEFP 326
Query: 371 VGLLSGELTVEQRLSILDRFREGEFKI 397
+ G+ QR L F+ G K+
Sbjct: 327 TTSIHGDRLQSQREQALRDFKNGSMKV 353
>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 = 155 bits (394), Expect = 2e-45
Identities = 60/238 (25%), Positives = 113/238 (47%), Gaps = 16/238 (6%)
Query: 83 ESKQELEIQRKDPHSPLYSVKTFEALHLKPELLKGVYEMGFYAPSKIQETALPTLLADPP 142
E + + + + + F L + LKG+ E + ++IQ+ + L
Sbjct: 5 ERESISRLMQNYEKINVNEITRFSDFPLSKKTLKGLQEAQYRLVTEIQKQTIGLALQG-- 62
Query: 143 HNMIAQSQSGTGKTAAFTLTMLSRVNPSIQEPQ----VLCLAPTYELAIQIGEVVAKMGK 198
+++ +++G+GKT AF + +L + VL ++PT ELA Q EV+ K+GK
Sbjct: 63 KDVLGAAKTGSGKTLAFLVPVLEALYRLQWTSTDGLGVLIISPTRELAYQTFEVLRKVGK 122
Query: 199 HITDLSVRYAVRGENLERNKKITE--QIIIGTPGKVLDWGLKYRFFDLSKIKVFVLDEAD 256
+ D S + G++L+ + I++ TPG++L + F + +++ VLDEAD
Sbjct: 123 N-HDFSAGLIIGGKDLKHEAERINNINILVCTPGRLLQHMDETVSFHATDLQMLVLDEAD 181
Query: 257 VMIATQGHQDFSI---RIQKRLPSDCQIMLFSATYDKEVMEFAQDMVPNPLIIKLKRE 311
++ F+ + + LP Q +LFSAT K V + A+ + NP + + +
Sbjct: 182 RIL----DMGFADTMNAVIENLPKKRQTLLFSATQTKSVKDLARLSLKNPEYVWVHEK 235
>2i4i_A ATP-dependent RNA helicase DDX3X; DEAD, structural genomics, SGC,
structural GE consortium, hydrolase; HET: AMP; 2.20A
{Homo sapiens}
Length = 417
Score = 160 bits (407), Expect = 2e-45
Identities = 81/343 (23%), Positives = 149/343 (43%), Gaps = 47/343 (13%)
Query: 87 ELEIQRKDPHSPLYSVKTFEALHLKPELLKGVYEMGFYAPSKIQETALPTLLADPPHNMI 146
+E + +++F + + ++ + + P+ +Q+ A+P + +++
Sbjct: 2 MVEATGNNCPPH---IESFSDVEMGEIIMGNIELTRYTRPTPVQKHAIPIIKEK--RDLM 56
Query: 147 AQSQSGTGKTAAFTLTMLSRVN------------------PSIQEPQVLCLAPTYELAIQ 188
A +Q+G+GKTAAF L +LS++ Q P L LAPT ELA+Q
Sbjct: 57 ACAQTGSGKTAAFLLPILSQIYSDGPGEALRAMKENGRYGRRKQYPISLVLAPTRELAVQ 116
Query: 189 IGEVVAKMGKHITDLSVRYAV------RGENLERNKKITEQIIIGTPGKVLDWGLKYRFF 242
I E K VR V G+ + ++ +++ TPG+++D ++
Sbjct: 117 IYEEARKFSYR---SRVRPCVVYGGADIGQQIRDLERGCH-LLVATPGRLVDM-MERGKI 171
Query: 243 DLSKIKVFVLDEADVMIATQGHQDFSIRIQK-----RLPSDC--QIMLFSATYDKEVMEF 295
L K VLDEAD M+ F +I++ +P M+FSAT+ KE+
Sbjct: 172 GLDFCKYLVLDEADRML----DMGFEPQIRRIVEQDTMPPKGVRHTMMFSATFPKEIQML 227
Query: 296 AQDMVPNPLIIKLKREEESLDNIKQHYVMCKNIDEKFEAVSNI-YGVVTIGQAMIFCHTR 354
A+D + + + + R + +NI Q V + +K + ++ ++F T+
Sbjct: 228 ARDFLDEYIFLAVGRVGSTSENITQKVVWVEE-SDKRSFLLDLLNATGKDSLTLVFVETK 286
Query: 355 KTAAWLAEKMSKEGLNVGLLSGELTVEQRLSILDRFREGEFKI 397
K A L + + EG + G+ + R L +FR G+ I
Sbjct: 287 KGADSLEDFLYHEGYACTSIHGDRSQRDREEALHQFRSGKSPI 329
>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 = 143 bits (362), Expect = 2e-40
Identities = 63/262 (24%), Positives = 115/262 (43%), Gaps = 14/262 (5%)
Query: 55 PGNKDEEDKPLSVAEKSLLQKIVRRGLIESKQELEIQRKDPHSPLYSVKTFEAL--HLKP 112
+ + V + + + + + +F +L +
Sbjct: 4 HHHHSSGVDLGTENLYFQSMNNVEKPDNDEDESEVPSLPLGLTGAFEDTSFASLCNLVNE 63
Query: 113 ELLKGVYEMGFYAPSKIQETALPTLLADPPHNMIAQSQSGTGKTAAFTLTMLSRVNPSIQ 172
LK + EMGF ++IQ ++ LL +++A +++G+GKT AF + + +
Sbjct: 64 NTLKAIKEMGFTNMTEIQHKSIRPLLEG--RDLLAAAKTGSGKTLAFLIPAVELIVKLRF 121
Query: 173 EPQ----VLCLAPTYELAIQIGEVVAKMGKHITDLSVRYAVRGENLERNKKITEQ---II 225
P+ VL L+PT ELA+Q V+ ++ H + + G N + II
Sbjct: 122 MPRNGTGVLILSPTRELAMQTFGVLKELMTH-HVHTYGLIMGGSNRSAEAQKLGNGINII 180
Query: 226 IGTPGKVLDWGLKYRFFDLSKIKVFVLDEADVMIATQGHQDFSIRIQKRLPSDCQIMLFS 285
+ TPG++LD F ++ V+DEAD ++ G ++ +I K LP+ Q MLFS
Sbjct: 181 VATPGRLLDHMQNTPGFMYKNLQCLVIDEADRILD-VGFEEELKQIIKLLPTRRQTMLFS 239
Query: 286 ATYDKEVMEFAQD-MVPNPLII 306
AT ++V + A+ + PL +
Sbjct: 240 ATQTRKVEDLARISLKKEPLYV 261
>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 = 141 bits (359), Expect = 5e-40
Identities = 68/257 (26%), Positives = 122/257 (47%), Gaps = 34/257 (13%)
Query: 87 ELEIQRKDPHSPLYSVKTFEALHLKPELLKGVYEMGFYAPSKIQETALPTLLADPPHNMI 146
+ + D + ++ F+ L L P + + + P+ IQ+ A+P +L +++
Sbjct: 8 PVSVTGPDYSAT-NVIENFDELKLDPTIRNNILLASYQRPTPIQKNAIPAILEH--RDIM 64
Query: 147 AQSQSGTGKTAAFTLTMLSRVNP---------SIQEPQVLCLAPTYELAIQIGEVVAKMG 197
A +Q+G+GKTAAF + +++ + P+ L LAPT ELAIQI K
Sbjct: 65 ACAQTGSGKTAAFLIPIINHLVCQDLNQQRYSKTAYPKCLILAPTRELAIQILSESQKFS 124
Query: 198 KHITDLSVRYAV------RGENLERNKKITEQIIIGTPGKVLDWGLKYRFFDLSKIKVFV 251
+ +R V + + +++ TPG+++D+ ++ L K V
Sbjct: 125 LN---TPLRSCVVYGGADTHSQIREVQMGCH-LLVATPGRLVDF-IEKNKISLEFCKYIV 179
Query: 252 LDEADVMIATQGHQDFSIRIQK-----RLPS--DCQIMLFSATYDKEVMEFAQDMVPNPL 304
LDEAD M+ F +I+K +PS + Q ++FSAT+ KE+ + A D + N +
Sbjct: 180 LDEADRML----DMGFEPQIRKIIEESNMPSGINRQTLMFSATFPKEIQKLAADFLYNYI 235
Query: 305 IIKLKREEESLDNIKQH 321
+ + R + D+IKQ
Sbjct: 236 FMTVGRVGSTSDSIKQE 252
>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 = 140 bits (356), Expect = 1e-39
Identities = 54/238 (22%), Positives = 107/238 (44%), Gaps = 25/238 (10%)
Query: 85 KQELEIQRKDPHSPLYSVKTFEALH----LKPELLKGVYEMGFYAPSKIQETALPTLLAD 140
K ++ +Q D P + TF+ L + LL+ + + GF P+ IQ A+P +L
Sbjct: 10 KHKIHVQGTDLPDP---IATFQQLDQEYKINSRLLQNILDAGFQMPTPIQMQAIPVMLHG 66
Query: 141 PPHNMIAQSQSGTGKTAAFTLTMLSRVN-PSIQEPQVLCLAPTYELAIQIGEVVAKMGKH 199
++A + +G+GKT AF++ +L ++ P+ + + L ++PT ELA QI + K+ +
Sbjct: 67 --RELLASAPTGSGKTLAFSIPILMQLKQPANKGFRALIISPTRELASQIHRELIKISEG 124
Query: 200 ITDLSVRYAV------RGENLERNKKITEQIIIGTPGKVLD-WGLKYRFFDLSKIKVFVL 252
R + + I++ TP +++ DL+ ++ V+
Sbjct: 125 ---TGFRIHMIHKAAVAAKKFGPKSSKKFDILVTTPNRLIYLLKQDPPGIDLASVEWLVV 181
Query: 253 DEADVMIATQG----HQDFSIRIQKRLPSDCQIMLFSATYDKEVMEFAQDMVPNPLII 306
DE+D + Q SI + +FSAT+ +V ++ + + N + +
Sbjct: 182 DESDKLFEDGKTGFRDQLASI-FLACTSHKVRRAMFSATFAYDVEQWCKLNLDNVISV 238
>3iuy_A Probable ATP-dependent RNA helicase DDX53; REC-A-like, DEAD-BOX,
structural genomics, structural genomi consortium, SGC,
ATP-binding, hydrolase; HET: AMP; 2.40A {Homo sapiens}
Length = 228
Score = 137 bits (348), Expect = 1e-38
Identities = 62/223 (27%), Positives = 102/223 (45%), Gaps = 32/223 (14%)
Query: 102 VKTF-EALHLKPELLKGVYEMGFYAPSKIQETALPTLLADPPHNMIAQSQSGTGKTAAFT 160
F +A P+LLK + +G P+ IQ A P +L ++I +Q+GTGKT ++
Sbjct: 18 TCRFKDAFQQYPDLLKSIIRVGILKPTPIQSQAWPIILQG--IDLIVVAQTGTGKTLSYL 75
Query: 161 LTMLSRVN--PSIQE----PQVLCLAPTYELAIQIGEVVAKMGKHITDLSVRYAV----- 209
+ ++ P +E P +L L PT ELA+ + +K ++
Sbjct: 76 MPGFIHLDSQPISREQRNGPGMLVLTPTRELALHVEAECSKYSY----KGLKSICIYGGR 131
Query: 210 -RGENLERNKKITEQIIIGTPGKVLDWGLKYRFFDLSKIKVFVLDEADVMIATQGHQD-- 266
R +E K + III TPG++ D +L I V+DEAD M+ D
Sbjct: 132 NRNGQIEDISKGVD-IIIATPGRLNDL-QMNNSVNLRSITYLVIDEADKML------DME 183
Query: 267 FSIRIQK---RLPSDCQIMLFSATYDKEVMEFAQDMVPNPLII 306
F +I+K + D Q ++ SAT+ V + A + +P+I+
Sbjct: 184 FEPQIRKILLDVRPDRQTVMTSATWPDTVRQLALSYLKDPMIV 226
>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 = 133 bits (337), Expect = 6e-37
Identities = 64/236 (27%), Positives = 114/236 (48%), Gaps = 32/236 (13%)
Query: 87 ELEIQRKDPHSPLYSVKTFEALHLKPELLKGVYEMGFYAPSKIQETALPTLLADPPHNMI 146
E+ ++ + P V F + ++ + F P+ IQ P L+ +M+
Sbjct: 16 EITVRGHNCPKP---VLNFYEANFPANVMDVIARQNFTEPTAIQAQGWPVALSG--LDMV 70
Query: 147 AQSQSGTGKTAAFTLTMLSRVN--PSIQE---PQVLCLAPTYELAIQIGEVVAKMGKHIT 201
+Q+G+GKT ++ L + +N P ++ P L LAPT ELA Q+ +V A+ +
Sbjct: 71 GVAQTGSGKTLSYLLPAIVHINHQPFLERGDGPICLVLAPTRELAQQVQQVAAEYCRA-- 128
Query: 202 DLSVRYAV------RGENLERNKKITEQIIIGTPGKVLDWGLKYRFFDLSKIKVFVLDEA 255
++ +G + ++ E I I TPG+++D+ L+ +L + VLDEA
Sbjct: 129 -CRLKSTCIYGGAPKGPQIRDLERGVE-ICIATPGRLIDF-LECGKTNLRRTTYLVLDEA 185
Query: 256 DVMIATQGHQD--F--SIR-IQKRLPSDCQIMLFSATYDKEVMEFAQDMVPNPLII 306
D M+ D F IR I ++ D Q +++SAT+ KEV + A+D + + + I
Sbjct: 186 DRML------DMGFEPQIRKIVDQIRPDRQTLMWSATWPKEVRQLAEDFLKDYIHI 235
>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 = 118 bits (298), Expect = 5e-32
Identities = 47/86 (54%), Positives = 68/86 (79%)
Query: 312 EESLDNIKQHYVMCKNIDEKFEAVSNIYGVVTIGQAMIFCHTRKTAAWLAEKMSKEGLNV 371
+L+NI+Q+YV+C++ +K++A+ NIYG +TIGQA+IFC TR+ A WL +M ++G V
Sbjct: 2 MLTLNNIRQYYVLCEHRKDKYQALCNIYGSITIGQAIIFCQTRRNAKWLTVEMIQDGHQV 61
Query: 372 GLLSGELTVEQRLSILDRFREGEFKI 397
LLSGELTVEQR SI+ RFR+G+ K+
Sbjct: 62 SLLSGELTVEQRASIIQRFRDGKEKV 87
>1fuk_A Eukaryotic initiation factor 4A; helicase, DEAD-box protein,
translation; 1.75A {Saccharomyces cerevisiae} SCOP:
c.37.1.19
Length = 165
Score = 107 bits (270), Expect = 3e-28
Identities = 26/83 (31%), Positives = 49/83 (59%)
Query: 315 LDNIKQHYVMCKNIDEKFEAVSNIYGVVTIGQAMIFCHTRKTAAWLAEKMSKEGLNVGLL 374
L+ IKQ YV + + K+E ++++Y +++ QA+IFC+TR+ L K+ + V +
Sbjct: 1 LEGIKQFYVNVEEEEYKYECLTDLYDSISVTQAVIFCNTRRKVEELTTKLRNDKFTVSAI 60
Query: 375 SGELTVEQRLSILDRFREGEFKI 397
+L ++R +I+ FR G +I
Sbjct: 61 YSDLPQQERDTIMKEFRSGSSRI 83
>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 = 103 bits (258), Expect = 2e-26
Identities = 20/84 (23%), Positives = 44/84 (52%), Gaps = 1/84 (1%)
Query: 314 SLDNIKQHYVMCKNIDEKFEAVSNIYGVVTIGQAMIFCHTRKTAAWLAEKMSKEGLNVGL 373
SL ++Q+YV K+ +EK + ++ V+ Q +IF + + LA+ + ++
Sbjct: 2 SLHGLQQYYVKLKD-NEKNRKLFDLLDVLEFNQVVIFVKSVQRCIALAQLLVEQNFPAIA 60
Query: 374 LSGELTVEQRLSILDRFREGEFKI 397
+ + E+RLS +F++ + +I
Sbjct: 61 IHRGMPQEERLSRYQQFKDFQRRI 84
>2hjv_A ATP-dependent RNA helicase DBPA; parallel alpha-beta, hydrolase;
1.95A {Bacillus subtilis}
Length = 163
Score = 89.9 bits (224), Expect = 1e-21
Identities = 16/87 (18%), Positives = 38/87 (43%), Gaps = 1/87 (1%)
Query: 311 EEESLDNIKQHYVMCKNIDEKFEAVSNIYGVVTIGQAMIFCHTRKTAAWLAEKMSKEGLN 370
+ NI+ + + + KF + ++ +IFC T++ L +++ G
Sbjct: 3 AGLTTRNIEHAVIQVRE-ENKFSLLKDVLMTENPDSCIIFCRTKEHVNQLTDELDDLGYP 61
Query: 371 VGLLSGELTVEQRLSILDRFREGEFKI 397
+ G + E R +++ F+ GE++
Sbjct: 62 CDKIHGGMIQEDRFDVMNEFKRGEYRY 88
>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 = 69.9 bits (172), Expect = 2e-14
Identities = 17/81 (20%), Positives = 35/81 (43%)
Query: 317 NIKQHYVMCKNIDEKFEAVSNIYGVVTIGQAMIFCHTRKTAAWLAEKMSKEGLNVGLLSG 376
I Q Y +++ K + ++ ++++F R+ LA + + G+N L G
Sbjct: 3 KIHQWYYRADDLEHKTALLVHLLKQPEATRSIVFVRKRERVHELANWLREAGINNCYLEG 62
Query: 377 ELTVEQRLSILDRFREGEFKI 397
E+ +R + R EG +
Sbjct: 63 EMVQGKRNEAIKRLTEGRVNV 83
>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 = 67.7 bits (166), Expect = 3e-13
Identities = 19/85 (22%), Positives = 41/85 (48%), Gaps = 1/85 (1%)
Query: 313 ESLDNIKQHYVMCKNIDEKFEAVSNIYGVVTIGQAMIFCHTRKTAAWLAEKMSKEGLNVG 372
+ ++ V + E +S++ V + +AM+F T+ +A+ + + G
Sbjct: 1 DEPVTYEEEAVPAPVRG-RLEVLSDLLYVASPDRAMVFTRTKAETEEIAQGLLRLGHPAQ 59
Query: 373 LLSGELTVEQRLSILDRFREGEFKI 397
L G+L+ +R +L FR+GE ++
Sbjct: 60 ALHGDLSQGERERVLGAFRQGEVRV 84
>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 = 68.2 bits (167), Expect = 4e-13
Identities = 17/81 (20%), Positives = 40/81 (49%), Gaps = 1/81 (1%)
Query: 317 NIKQHYVMCKNIDEKFEAVSNIYGVVTIGQAMIFCHTRKTAAWLAEKMSKEGLNVGLLSG 376
++ V + E +S++ V + +AM+F T+ +A+ + + G L G
Sbjct: 2 TYEEEAVPAPV-RGRLEVLSDLLYVASPDRAMVFTRTKAETEEIAQGLLRLGHPAQALHG 60
Query: 377 ELTVEQRLSILDRFREGEFKI 397
+++ +R ++ FR+GE ++
Sbjct: 61 DMSQGERERVMGAFRQGEVRV 81
>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 = 63.9 bits (155), Expect = 3e-11
Identities = 54/282 (19%), Positives = 92/282 (32%), Gaps = 54/282 (19%)
Query: 114 LLKGVYEMGFYAPSKIQETALPTLLADPP----------HNMIAQSQSGTGKTAAFTLTM 163
+GV + + P + ET + + + + +G+GK+
Sbjct: 194 CTRGVAKAVDFVPVESMETTMRSPVFTDNSSPPAVPQSFQVAHLHAPTGSGKSTKVPAAY 253
Query: 164 LSRVNPSIQEPQVLCLAPTYELAIQIGEVVAK-MGKHITDLSVRYAVRGENLERNKKITE 222
++ +VL L P+ + G ++K G +R VR
Sbjct: 254 AAQ------GYKVLVLNPSVAATLGFGAYMSKAHGIDPN---IRTGVR------TITTGA 298
Query: 223 QIIIGTPGKVLDWGLKYRFFDLSKIKVFVLDEADVMIATQGHQDFSIRIQKRLPSDCQIM 282
+ T GK L G + + DE +T ++ Q ++
Sbjct: 299 PVTYSTYGKFLADGGC----SGGAYDIIICDECHSTDSTTILGIGTVLDQAETAGARLVV 354
Query: 283 LFSATYDKEVMEFAQDMVPNPLIIKLKREEESLD--NIKQHYVMCKNIDEKFEAVSNIYG 340
L +AT V VP+P I EE +L Y I+
Sbjct: 355 LATATPPGSVT------VPHPNI-----EEVALSNTGEIPFYGKAIPIE----------- 392
Query: 341 VVTIGQAMIFCHTRKTAAWLAEKMSKEGLNVGLLSGELTVEQ 382
+ G+ +IFCH++K LA K+S G+N L V
Sbjct: 393 AIRGGRHLIFCHSKKKCDELAAKLSGLGINAVAYYRGLDVSV 434
>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 = 56.4 bits (136), Expect = 8e-09
Identities = 56/339 (16%), Positives = 103/339 (30%), Gaps = 74/339 (21%)
Query: 110 LKPELLKGVYEMGFYAPSKIQETALPTLLADPPHNMIAQSQSGTGKTAAFTLTMLSRVNP 169
+ + + E G Q A+ + + N++ + GKT + M+
Sbjct: 10 ISSYAVGILKEEGIEELFPPQAEAVEKVFSG--KNLLLAMPTAAGKTLLAEMAMVREA-- 65
Query: 170 SIQEPQVLCLAPTYELAIQIGEVVAKMGKHITDLSVRYAVRGENLERNKKITEQIIIGTP 229
I+ + L + P LA + E K K L + + II+ T
Sbjct: 66 -IKGGKSLYVVPLRALAGEKYESFKKWEKI--GLRIGISTGDYESRDEHLGDCDIIVTTS 122
Query: 230 GKVLDWGLKYRFFDLSKIKVFVLDE----AD--------VMIATQGHQDFSIRIQKRLPS 277
K D ++ R + + V+DE +++ ++ +R+
Sbjct: 123 EK-ADSLIRNRASWIKAVSCLVVDEIHLLDSEKRGATLEILVT---------KM-RRMNK 171
Query: 278 DCQIMLFSAT---YDK-----EVMEFAQDMVPNPLIIKLKREEESLDNIKQHYVMCKNID 329
+++ SAT + + + D P PL+ + E
Sbjct: 172 ALRVIGLSATAPNVTEIAEWLDADYYVSDWRPVPLVEGVLCEGTLELFDGAFSTSR---R 228
Query: 330 EKFEAVSNIYGVVTIG-QAMIFCHTRK----TAAWLAEKMSKEGLN-------------- 370
KFE + + V ++F TR+ TA L+ +K N
Sbjct: 229 VKFEEL--VEECVAENGGVLVFESTRRGAEKTAVKLSAITAKYVENEGLEKAILEENEGE 286
Query: 371 ------------VGLLSGELTVEQRLSILDRFREGEFKI 397
L QR + D FR G K+
Sbjct: 287 MSRKLAECVRKGAAFHHAGLLNGQRRVVEDAFRRGNIKV 325
>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 = 55.6 bits (134), Expect = 1e-08
Identities = 48/278 (17%), Positives = 91/278 (32%), Gaps = 27/278 (9%)
Query: 106 EALHLKPELLKGVYEMGFYAPSKIQETALPTLLADPPHNMIAQSQSGTGKTAAFTLTMLS 165
+ L + + + E G + Q AL + + + N + + +GKT + M+
Sbjct: 4 DELRVDERIKSTLKERGIESFYPPQAEALKSGILEG-KNALISIPTASGKTLIAEIAMVH 62
Query: 166 RVNPSIQEPQVLCLAPTYELAIQIGEVVAKMGKHITDLSVRYAVRGENLERNKKITEQII 225
R+ + + + P LA + + K L V A + + II
Sbjct: 63 RILTQGG--KAVYIVPLKALAEEKFQEFQDWEK--IGLRVAMATGDYDSKDEWLGKYDII 118
Query: 226 IGTPGKVLDWGLKYRFFD-LSKIKVFVLDEADVMIATQGHQDFSIRIQKRLPSDCQIMLF 284
I T K D L + +K+ V DE +I ++ I + QI+
Sbjct: 119 IATAEK-FD-SLLRHGSSWIKDVKILVADEIH-LIGSRDRGATLEVILAHMLGKAQIIGL 175
Query: 285 SAT---YDK-----EVMEFAQDMVPNPLIIKLKREEESLDNIKQHYVMCKNIDEKFEAVS 336
SAT ++ D P L + + + ++A+
Sbjct: 176 SATIGNPEELAEWLNAELIVSDWRPVKLRRGVFYQGFVTWEDGSIDRFSSWEELVYDAIR 235
Query: 337 NIYGVVTIGQAMIFCHTRK----TAAWLAEKMSKEGLN 370
A+IF + R+ A L++K+
Sbjct: 236 KK------KGALIFVNMRRKAERVALELSKKVKSLLTK 267
>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 = 53.3 bits (127), Expect = 9e-08
Identities = 62/428 (14%), Positives = 121/428 (28%), Gaps = 124/428 (28%)
Query: 7 WIAATKNTSALKPDDLIDVLSNVNLKQADTPSPTEDAKPAPSSPDSSAPGNKDEEDKPLS 66
W+ S P+ ++++L + L Q D + S S+ L
Sbjct: 186 WLNLKNCNS---PETVLEMLQKL-LYQIDPNWT------SRSDHSSNIKLRIHSIQAELR 235
Query: 67 VAEKSLLQKIVRRGLIESKQELEIQRKDPHSPLYSVKTFEALHLKPELLKGVYEMGFYAP 126
+ L K L+ + + + + K + A +L
Sbjct: 236 ---RLLKSKPYENCLL-------VLL-N----VQNAKAWNAFNLS--------------- 265
Query: 127 SKI----QETALPTLLADPPHNMIAQSQSGTGKTAAFTLTMLSR-VNPSIQE--PQVLCL 179
KI + + L+ I+ T ++L + ++ Q+ +VL
Sbjct: 266 CKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTT 325
Query: 180 APTYELAI-QIGEVVAKMGKHITDLSVRYAVRGENLERNKKITEQIIIGTPGKVLDWG-L 237
P + I E + + + N ++ I E + VL+
Sbjct: 326 NP---RRLSIIAESIRDGLATWD----NW--KHVNCDKLTTIIESSL-----NVLEPAEY 371
Query: 238 KYRFFDLSKIKVFVLDEADVMIATQGHQDFSIRIQKRLPSDCQIMLFSATYDKEVMEFAQ 297
+ F LS VF I P+ +++ +VM
Sbjct: 372 RKMFDRLS---VF---PPSAHI----------------PTILLSLIWFDVIKSDVMVVVN 409
Query: 298 DMVPNPLI-----------------IKLKREEE-SL-DNIKQHYVMCKNIDEKFEAVSNI 338
+ L+ +K+K E E +L +I HY + K D +
Sbjct: 410 KLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYL 469
Query: 339 ---------YGVVTIGQA-------MIFCHTRKTAAWLAEKMSKEGLNVGLLSGELTVEQ 382
+ + I M+F R +L +K+ + L Q
Sbjct: 470 DQYFYSHIGHHLKNIEHPERMTLFRMVFLDFR----FLEQKIRHDSTAWNASGSILNTLQ 525
Query: 383 RLSILDRF 390
+L +
Sbjct: 526 QLKFYKPY 533
Score = 49.1 bits (116), Expect = 2e-06
Identities = 51/353 (14%), Positives = 106/353 (30%), Gaps = 98/353 (27%)
Query: 58 KDEEDKPLSVAEKSLLQKIVRRGLIESKQELEIQRKDPHSPLYSVKTFEALHLKPELLKG 117
KD +D P S+ K + I+ KD S + F L K E +
Sbjct: 36 KDVQDMPKSILSKEEIDHII-------------MSKDAVSGTLRL--FWTLLSKQE--EM 78
Query: 118 VYEMGFYAPSKIQETALPTLLADPPHNMIAQS-QSGTGKTAAFTLTMLSRVNPSIQEPQV 176
V + F E L + + ++ + + T + + + + QV
Sbjct: 79 VQK--FV------EEVL-----RINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQV 125
Query: 177 LCLAPTYELAIQIGEVVAKMGKHITDLSVRYAVRGENLERNKKITEQIIIGTPGK-VL-- 233
Y ++ + L R A+ L K + ++G+ GK +
Sbjct: 126 F---AKYNVSRL---------QPYLKL--RQALL--ELRPAKNVLIDGVLGS-GKTWVAL 168
Query: 234 ----DWGLKYRFFDLSKIKVFVL-----DEADVMIATQGHQDFSIRIQKRLPSDCQIML- 283
+ ++ + K+F L + + ++ Q +I S
Sbjct: 169 DVCLSYKVQCKMDF----KIFWLNLKNCNSPETVLEML--QKLLYQIDPNWTSRSDHSSN 222
Query: 284 ----FSATYDKEVMEFAQDMVPNPLIIKLKREEESLDNIKQHYVMCKNIDEKFEAVSNIY 339
+ + N L++ L N++ F I
Sbjct: 223 IKLRIHSIQAELRRLLKSKPYENCLLV--------LLNVQN-----AKAWNAFNLSCKI- 268
Query: 340 GVVTIGQAMIFCHTRKT--AAWLAEKMSKEGLNVGLLSGELTVEQRLSILDRF 390
++T TR +L+ + +++ S LT ++ S+L ++
Sbjct: 269 -LLT---------TRFKQVTDFLSAATTTH-ISLDHHSMTLTPDEVKSLLLKY 310
Score = 37.1 bits (85), Expect = 0.010
Identities = 53/290 (18%), Positives = 92/290 (31%), Gaps = 79/290 (27%)
Query: 3 SLSDWIAATKNTSALKPDDLIDVLSNVNLKQADTPSPTEDAK--------PAPSSPDSSA 54
S+ D +A N + D L ++ +L + P E K P P +
Sbjct: 336 SIRDGLATWDNWKHVNCDKLTTIIE-SSLNVLE---PAEYRKMFDRLSVFP----PSAHI 387
Query: 55 P--------GNKDEEDKPLSVAE---KSLLQKIVRRGLI-------ESKQELEIQRKDPH 96
P + + D + V + SL++K + I E K +LE H
Sbjct: 388 PTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLE-NEYALH 446
Query: 97 SPL---YSV-KTFEALHLKPELLKGVYEMGFYAPSKIQETALPTLLADPPHNMIAQSQSG 152
+ Y++ KTF++ L P L Y FY S I H++
Sbjct: 447 RSIVDHYNIPKTFDSDDLIPPYLDQ-Y---FY--SHI------------GHHLKNIEH-- 486
Query: 153 TGKTAAFTLTMLS-R-VNPSIQEPQVLCLAPTYELAIQIGEVVAKMGKHITDLSVRYAVR 210
+ F + L R + I+ A L + +I D +Y
Sbjct: 487 PERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQ--QLKFYKPYICDNDPKYERL 544
Query: 211 GENLERNKKITEQIIIGTPGKVLDWGLKYRFFDLSKIKVF-----VLDEA 255
+ E+ +I ++ DL +I + + +EA
Sbjct: 545 VNAILDFLPKIEENLI-----------CSKYTDLLRIALMAEDEAIFEEA 583
>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 = 52.5 bits (125), Expect = 1e-07
Identities = 37/192 (19%), Positives = 73/192 (38%), Gaps = 6/192 (3%)
Query: 143 HNMIAQSQSGTGKTAAFTLTMLSRVNPSIQEPQVLCLAPTYELAIQIGEVVAKMGKHITD 202
N + +G GKT + R+ +VL LAPT L +Q E ++ +
Sbjct: 24 TNCLIVLPTGLGKTLIAMMIAEYRLTK--YGGKVLMLAPTKPLVLQHAESFRRLFNLPPE 81
Query: 203 LSVRYAVRGENLERNKKITE-QIIIGTPGKVLDWGLKYRFFDLSKIKVFVLDEADVMIAT 261
V ER+K ++I+ TP + + L L + + V DEA +
Sbjct: 82 KIVALTGEKSPEERSKAWARAKVIVATPQTIEND-LLAGRISLEDVSLIVFDEAHRAVG- 139
Query: 262 QGHQDFSIRIQKRLPSDCQIMLFSATYDKEVMEFAQDMVPNPLIIKLKREEESLDNIKQH 321
F R KR + ++ +A+ E +++ N I ++ E+ +++ +
Sbjct: 140 NYAYVFIAREYKRQAKNPLVIGLTASPGST-PEKIMEVINNLGIEHIEYRSENSPDVRPY 198
Query: 322 YVMCKNIDEKFE 333
+ + +
Sbjct: 199 VKGIRFEWVRVD 210
Score = 45.2 bits (106), Expect = 2e-05
Identities = 37/227 (16%), Positives = 77/227 (33%), Gaps = 25/227 (11%)
Query: 183 YELAIQIGEVVAKMGKHITDLSVRYAVRGENLERNKKITEQIIIGTPGKVLDWGLK---- 238
+L EV + + + D A G + I ++ ++ + + K
Sbjct: 209 VDLPEIYKEVRKLLREMLRDALKPLAETGLLESSSPDIPKKEVLRAGQIINEEMAKGNHD 268
Query: 239 YRFFDLSKIKVFVLDEADVMIATQGHQDFSIRIQKRLPSDCQIMLFSATYDKEVMEFAQD 298
R L L A ++ TQG K+L + + A+ ++
Sbjct: 269 LRGLLLYHAMALKLHHAIELLETQGLSAL-RAYIKKLYEEAKAGSTKAS---------KE 318
Query: 299 MVPNPLIIKLKREEESLDNIKQHYVMCKNIDEKFEAVSNIYGVVTIGQAMIFCHTRKTAA 358
+ + + K I + +D+ E + + ++F + R+TA
Sbjct: 319 IFSDKRMKKAISLLVQAKEIGLDHPK---MDKLKEIIREQLQRKQNSKIIVFTNYRETAK 375
Query: 359 WLAEKMSKEGLNVGLLSG--------ELTVEQRLSILDRFREGEFKI 397
+ ++ K+G+ G L+ ++ ILD F GEF +
Sbjct: 376 KIVNELVKDGIKAKRFVGQASKENDRGLSQREQKLILDEFARGEFNV 422
>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 = 51.0 bits (122), Expect = 3e-07
Identities = 37/264 (14%), Positives = 84/264 (31%), Gaps = 50/264 (18%)
Query: 144 NMIAQSQS-------GTGKTAAFTLTMLSRVNPSIQEPQVLCLAPTYELAIQIGEVVAKM 196
+M+ + + G GKT F +L+ + + + L LAPT + ++ E +
Sbjct: 3 HMLKKGMTTVLDFHPGAGKTRRFLPQILA--ECARRRLRTLVLAPTRVVLSEMKEAFHGL 60
Query: 197 GKHITDLSVRYAVRGENLERNKKITEQIIIGTPGKVLDWGLKYRFFD---LSKIKVFVLD 253
V++ + + + + I L YR + + +V ++D
Sbjct: 61 -------DVKFHTQAFSAHGSGREV--IDAMCHAT-----LTYRMLEPTRVVNWEVIIMD 106
Query: 254 EADVMIATQGHQDFSIRIQKRLPSDCQIMLFSATYDKEVMEFAQDMVPNPLIIKLKREEE 313
EA + + ++ +L +AT EF N I +
Sbjct: 107 EAHFLDPASI-AARGWAAHRARANESATILMTATPPGTSDEF---PHSNGEIEDV----- 157
Query: 314 SLDNIKQHYVMCKNIDEKFEAVSNIYGVVTIGQAMIFCHTRKTAAWLAEKMSKEGLNVGL 373
Q + + + + + F + + A +A + K G +V +
Sbjct: 158 ------QTDIPSEPWNTGHDWILA-----DKRPTAWFLPSIRAANVMAASLRKAGKSVVV 206
Query: 374 LSGELTVEQRLSILDRFREGEFKI 397
L+ + ++ +
Sbjct: 207 LNRKT----FEREYPTIKQKKPDF 226
>2whx_A Serine protease/ntpase/helicase NS3; transcription, hydrolase,
ATP-binding, reticulum, nucleotidyltransferase,
multifunctional enzyme; HET: ADP; 2.20A {Dengue virus 4}
PDB: 2vbc_A 2wzq_A
Length = 618
Score = 48.4 bits (115), Expect = 3e-06
Identities = 39/267 (14%), Positives = 83/267 (31%), Gaps = 46/267 (17%)
Query: 122 GFYAPSKIQETALPTLLADPPHNMIAQSQ-------SGTGKTAAFTLTMLSRVNPSIQEP 174
G Y + Q + + ++ + + G GKT +++ +
Sbjct: 159 GDYVSAITQAERIGEPDYEVDEDIFRKKRLTIMDLHPGAGKTKRILPSIVRE--ALKRRL 216
Query: 175 QVLCLAPTYELAIQIGEVVAKMGKHITDLSVRYAVRGENLERNKKITEQIIIGTPGKVLD 234
+ L LAPT +A A+M + + L +RY ++ + E + +
Sbjct: 217 RTLILAPTRVVA-------AEMEEALRGLPIRYQTPA--VKSDHTGREIVDLMCHA---- 263
Query: 235 WGLKYRFF---DLSKIKVFVLDEADVMIATQGHQDFSIRIQKRLPSDCQIMLFSATYDKE 291
R + + V+DEA + + + +AT
Sbjct: 264 -TFTTRLLSSTRVPNYNLIVMDEAHFTDPCSV-AARGYISTRVEMGEAAAIFMTATPPGS 321
Query: 292 VMEFAQDMVPNPLIIKLKREEESLDNIKQHYVMCKNIDEKFEAVSNIYGVVTIGQAMIFC 351
F Q P ++ E + ++ + + ++ G+ + F
Sbjct: 322 TDPFPQSNSP------IEDIEREIP--ERSWNTGFDWITDYQ-----------GKTVWFV 362
Query: 352 HTRKTAAWLAEKMSKEGLNVGLLSGEL 378
+ K +A + K G V LS +
Sbjct: 363 PSIKAGNDIANCLRKSGKRVIQLSRKT 389
>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 = 45.3 bits (106), Expect = 3e-05
Identities = 31/201 (15%), Positives = 67/201 (33%), Gaps = 14/201 (6%)
Query: 143 HNMIAQSQSGTGKT--AAFTLTMLSRVNPSIQEPQVLCLAPTYELAIQIGEVVAK-MGKH 199
N + + +G+GKT + + P+ ++ +V+ LA + Q V +
Sbjct: 23 KNALICAPTGSGKTFVSILICEHHFQNMPAGRKAKVVFLATKVPVYEQQKNVFKHHFERQ 82
Query: 200 ITDLSVRYAVRGENLERNKKITE-QIIIGTPGKVLDWGLKYRFFDLSKIKVFVLDEADVM 258
+ N+ K I + II+ TP +++ LS + + DE
Sbjct: 83 GYSVQGISGENFSNVSVEKVIEDSDIIVVTPQILVNSFEDGTLTSLSIFTLMIFDECHNT 142
Query: 259 IA----TQGHQDFSIRIQKRLPSDCQIMLFSATYDKEVMEFAQDMVPNPLIIKLKREEES 314
+ + QI+ +A+ + ++ I+ S
Sbjct: 143 TGNHPYNVLMTRYLEQKFNSASQLPQILGLTASVGVGNAKNIEET------IEHICSLCS 196
Query: 315 LDNIKQHYVMCKNIDEKFEAV 335
+I+ + +NI E +
Sbjct: 197 YLDIQAISTVRENIQELQRFM 217
Score = 30.3 bits (67), Expect = 1.1
Identities = 17/99 (17%), Positives = 38/99 (38%), Gaps = 12/99 (12%)
Query: 309 KREEESLDNIKQHYVMCKNIDEKFEAVSNIYGVVTIGQAMIFCHTRKTAAWLAEKMSK-- 366
++E E + K ++E + + Y + ++F TR + L + M +
Sbjct: 355 EKEPELIALSKDETNENPKLEELVCILDDAYRYNPQTRTLLFAKTRALVSALKKCMEENP 414
Query: 367 --EGLNVGLLSG--------ELTVEQRLSILDRFREGEF 395
+ G+L G +T+ + +LD F+ +
Sbjct: 415 ILNYIKPGVLMGRGRRDQTTGMTLPSQKGVLDAFKTSKD 453
>2ykg_A Probable ATP-dependent RNA helicase DDX58; hydrolase, innate
immunity; 2.50A {Homo sapiens} PDB: 3tmi_A*
Length = 696
Score = 45.4 bits (106), Expect = 3e-05
Identities = 34/197 (17%), Positives = 64/197 (32%), Gaps = 5/197 (2%)
Query: 143 HNMIAQSQSGTGKTAAFTLTMLS--RVNPSIQEPQVLCLAPTYELAIQIGEVVAK-MGKH 199
N I + +G GKT L + P Q+ +V+ A + Q V +K +H
Sbjct: 29 KNTIICAPTGCGKTFVSLLICEHHLKKFPQGQKGKVVFFANQIPVYEQNKSVFSKYFERH 88
Query: 200 ITDLSVRYAVRGENLERNKKITE-QIIIGTPGKVLDWGLKYRFFDLSKIKVFVLDEADVM 258
++ EN+ + + III TP +++ K LS + + DE
Sbjct: 89 GYRVTGISGATAENVPVEQIVENNDIIILTPQILVNNLKKGTIPSLSIFTLMIFDECHNT 148
Query: 259 IATQGHQDFSIRIQKRLPSDCQIMLFSATYDKEVMEFAQDMVPNPLIIKLKREEESLDNI 318
+ + L + + + + + SLD
Sbjct: 149 SKQHPYNMIMFNYLDQKLGGSSGPLPQVIGLTASVGVGDAKTTDEALDYICKLCASLD-A 207
Query: 319 KQHYVMCKNIDEKFEAV 335
+ N++E + V
Sbjct: 208 SVIATVKHNLEELEQVV 224
>2jlq_A Serine protease subunit NS3; ribonucleoprotein, nucleotide-binding,
viral nucleoprotein, endoplasmic reticulum, helicase,
hydrolase; 1.67A {Dengue virus 4} PDB: 2jly_A* 2jls_A*
2jlu_A 2jlv_A* 2jlw_A 2jlx_A* 2jlz_A* 2jlr_A* 2bmf_A
2bhr_A
Length = 451
Score = 44.5 bits (105), Expect = 4e-05
Identities = 39/230 (16%), Positives = 77/230 (33%), Gaps = 39/230 (16%)
Query: 152 GTGKTAAFTLTMLSRVNPSIQEPQVLCLAPTYELAIQIGEVVAKMGKHITDLSVRYAVRG 211
G GKT +++ ++ + L LAPT +A A+M + + L +RY
Sbjct: 29 GAGKTKRILPSIVRE--ALLRRLRTLILAPTRVVA-------AEMEEALRGLPIRYQTPA 79
Query: 212 ENLERNKKITEQIIIGTPGKVLDWGLKYRFFD---LSKIKVFVLDEADVMIATQGHQDFS 268
++ + E + + R + + V+DEA
Sbjct: 80 --VKSDHTGREIVDLMCHA-----TFTTRLLSSTRVPNYNLIVMDEAHFTDPCSV-AARG 131
Query: 269 IRIQKRLPSDCQIMLFSATYDKEVMEFAQDMVPNPLIIKLKREEESLDNIKQHYVMCKNI 328
+ + + +AT F Q P I ++RE ++
Sbjct: 132 YISTRVEMGEAAAIFMTATPPGSTDPFPQSNSP---IEDIEREIPE-----------RSW 177
Query: 329 DEKFEAVSNIYGVVTIGQAMIFCHTRKTAAWLAEKMSKEGLNVGLLSGEL 378
+ F+ +++ G+ + F + K +A + K G V LS +
Sbjct: 178 NTGFDWITD-----YQGKTVWFVPSIKAGNDIANCLRKSGKRVIQLSRKT 222
>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 = 44.6 bits (104), Expect = 5e-05
Identities = 33/229 (14%), Positives = 73/229 (31%), Gaps = 17/229 (7%)
Query: 143 HNMIAQSQSGTGKT--AAFTLTMLSRVNPSIQEPQVLCLAPTYELAIQIGEVVAK-MGKH 199
N + + +G+GKT + + P+ ++ +V+ LA + Q V +
Sbjct: 264 KNALICAPTGSGKTFVSILICEHHFQNMPAGRKAKVVFLATKVPVYEQQKNVFKHHFERQ 323
Query: 200 ITDLSVRYAVRGENLERNKKITE-QIIIGTPGKVLDWGLKYRFFDLSKIKVFVLDEADVM 258
+ N+ K I + II+ TP +++ LS + + DE
Sbjct: 324 GYSVQGISGENFSNVSVEKVIEDSDIIVVTPQILVNSFEDGTLTSLSIFTLMIFDECHNT 383
Query: 259 IATQGHQDFSIRIQKRLPSDCQIMLFSATYDKEVMEFAQDMVPNPLIIKLKREEESLDNI 318
+ L + + + + K EE++++I
Sbjct: 384 TGNHPYNVL-----------MTRYLEQKFNSASQLPQILGLTASVGVGNAKNIEETIEHI 432
Query: 319 KQ--HYVMCKNIDEKFEAVSNIYGVVTIGQAMIFCHTRKTAAWLAEKMS 365
Y+ + I E + + + + + R+ A +S
Sbjct: 433 CSLCSYLDIQAISTVRENIQELQRFMNKPEIDVRLVKRRIHNPFAAIIS 481
Score = 29.6 bits (65), Expect = 2.2
Identities = 19/124 (15%), Positives = 44/124 (35%), Gaps = 21/124 (16%)
Query: 293 MEFAQDMVPNPLIIKLKREEESLDNIKQHYVMCKNIDEKF---------EAVSNIYGVVT 343
+ V N +L++ + K+ ++ + DE + + Y
Sbjct: 571 LTEFFTNVKNGPYTELEQHLTAKFQEKEPELIALSKDETNENPKLEELVCILDDAYRYNP 630
Query: 344 IGQAMIFCHTRKTAAWLAEKMSK----EGLNVGLLSG--------ELTVEQRLSILDRFR 391
+ ++F TR + L + M + + G+L G +T+ + +LD F+
Sbjct: 631 QTRTLLFAKTRALVSALKKCMEENPILNYIKPGVLMGRGRRDQTTGMTLPSQKGVLDAFK 690
Query: 392 EGEF 395
+
Sbjct: 691 TSKD 694
>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 = 44.3 bits (104), Expect = 6e-05
Identities = 59/395 (14%), Positives = 107/395 (27%), Gaps = 161/395 (40%)
Query: 5 SDWIAATKNTSALKPDDLIDVLSNVNLKQADTPSPTEDAKPAPSSPDSSAPGNKDEEDKP 64
+ + A++ L+ + +L P PTE +D+P
Sbjct: 25 ASFFIASQ----LQ-EQFNKIL----------PEPTEGF---------------AADDEP 54
Query: 65 LSVAEKSLLQKIVRRGLIESK-----------------QELE---IQRKDPHSPLYSVKT 104
+ AE L+ K + G + S E E ++ D H+ +
Sbjct: 55 TTPAE--LVGKFL--GYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQ 110
Query: 105 FEALHL--KPELLKGVYEMGFYAPSKIQETALPTLLADPPHNMIAQSQSGTGKTAA-F-- 159
L EL+K A + + L G + A F
Sbjct: 111 ENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRA--------VGEGNAQLVAIFGG 162
Query: 160 ---TLTMLSRVNPSIQEPQVLCLAPTYELAIQIGEVVAKMGKHITDLSVRYAVRGENLER 216
T +++ L TY + + +++ + +++L
Sbjct: 163 QGNTDDYF----EELRD-----LYQTYHVLVG--DLIKFSAETLSELI-------RTTLD 204
Query: 217 NKKITEQIIIGTPGKVLDWGLKYRFFDLSKIKVFVLDEADVMIATQGHQDFSIRIQKRLP 276
+K+ Q + +L+W L+ +D+
Sbjct: 205 AEKVFTQGL-----NILEW----------------LENPS----NTPDKDY--------- 230
Query: 277 SDCQIMLFSATYDKEVMEFAQDMVPNPLIIKLKREEESLDNIKQ--HY-VMCKNID-EKF 332
L S + PLI + Q HY V K +
Sbjct: 231 ------LLSIP------------ISCPLI-----------GVIQLAHYVVTAKLLGFTPG 261
Query: 333 EAVSNIYGVVTIGQAMIFCHTRKTAAWLAEKMSKE 367
E S + G Q ++ TA +AE S E
Sbjct: 262 ELRSYLKGATGHSQGLV------TAVAIAETDSWE 290
>3tbk_A RIG-I helicase domain; DECH helicase, ATP binding, hydrolase; HET:
ANP; 2.14A {Mus musculus}
Length = 555
Score = 44.1 bits (103), Expect = 7e-05
Identities = 34/205 (16%), Positives = 72/205 (35%), Gaps = 21/205 (10%)
Query: 143 HNMIAQSQSGTGKTAAFTLTMLSRVN--PSIQEPQVLCLAPTYELAIQIGEVVAKM---- 196
N I + +G GKT L + P Q+ +V+ A + Q V ++
Sbjct: 20 KNTIICAPTGCGKTFVSLLICEHHLKKFPCGQKGKVVFFANQIPVYEQQATVFSRYFERL 79
Query: 197 GKHITDLSVRYAVRGENLERNKKITE-QIIIGTPGKVLDWGLKYRFFDLSKIKVFVLDEA 255
G +I +S +++ I + III TP +++ LS + + DE
Sbjct: 80 GYNIASISGAT---SDSVSVQHIIEDNDIIILTPQILVNNLNNGAIPSLSVFTLMIFDEC 136
Query: 256 DVMIATQGHQD-----FSIRIQKRLPSDCQIMLFSATYDKEVMEFAQDMVPNPLIIKLKR 310
+ ++ + Q++ +A+ + A++ + + +
Sbjct: 137 HNTSKNHPYNQIMFRYLDHKLGESRDPLPQVVGLTASVGVGDAKTAEEA-----MQHICK 191
Query: 311 EEESLDNIKQHYVMCKNIDEKFEAV 335
+LD + N+ E + V
Sbjct: 192 LCAALD-ASVIATVRDNVAELEQVV 215
>2v6i_A RNA helicase; membrane, hydrolase, transmembrane, RNA replication,
viral replication, nucleotide-binding; 2.10A {Kokobera
virus} PDB: 2v6j_A
Length = 431
Score = 43.3 bits (102), Expect = 8e-05
Identities = 37/233 (15%), Positives = 72/233 (30%), Gaps = 45/233 (19%)
Query: 152 GTGKTAAFTLTMLSRVNPSIQEPQVLCLAPTYELAIQIGEVVAK-MGKHITDLSVRYAVR 210
G GKT ++ + + + LAPT VVA M + + +RY
Sbjct: 12 GAGKTRRVLPQLVRE--AVKKRLRTVILAPT--------RVVASEMYEALRGEPIRYMTP 61
Query: 211 GENLERNKKITEQIIIGTPGKVLDWGLKYRFF---DLSKIKVFVLDEADVMIATQGHQDF 267
++ + E + + + ++++DEA +
Sbjct: 62 A--VQSERTGNEIVDFMCHS-----TFTMKLLQGVRVPNYNLYIMDEAHFLDPASV-AAR 113
Query: 268 SIRIQKRLPSDCQIMLFSATYDKEVMEFAQDMVPNPLIIKLKREEESLDNIKQHYVMCKN 327
+ D + +AT F P + EE +
Sbjct: 114 GYIETRVSMGDAGAIFMTATPPGTTEAFPPSNSP------IIDEETRIP----------- 156
Query: 328 IDEKFEAVSNIYGVVT--IGQAMIFCHTRKTAAWLAEKMSKEGLNVGLLSGEL 378
+A ++ Y +T G+ + F H+ K A + + K G V L+ +
Sbjct: 157 ----DKAWNSGYEWITEFDGRTVWFVHSIKQGAEIGTCLQKAGKKVLYLNRKT 205
>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 = 43.3 bits (102), Expect = 9e-05
Identities = 17/117 (14%), Positives = 42/117 (35%), Gaps = 8/117 (6%)
Query: 284 FSATYDKEVMEFAQDMVPNPLIIKLKREE---ESLDNIKQHYVMCKNIDEKFEAVSNIYG 340
+ + + N +++ +E E+L ++ + N K + I
Sbjct: 286 YKQFLRARGITLRRAEDFNKIVMASGYDERAYEALRAWEEARRIAFNSKNKIRKLREILE 345
Query: 341 VVTIGQAMIFCHTRKTAAWLAEKMSKEGLNVGLLSGELTVEQRLSILDRFREGEFKI 397
+ +IF + +++ + ++ + E+R IL+ FR G F+
Sbjct: 346 RHRKDKIIIFTRHNELVYRISKV-----FLIPAITHRTSREEREEILEGFRTGRFRA 397
>2z83_A Helicase/nucleoside triphosphatase; hydrolase, membrane,
nucleotide-binding, RNA replication, transmembrane,
viral protein; 1.80A {Japanese encephalitis virus} PDB:
2v8o_A 2qeq_A
Length = 459
Score = 42.9 bits (101), Expect = 1e-04
Identities = 42/253 (16%), Positives = 77/253 (30%), Gaps = 50/253 (19%)
Query: 138 LADPPHNMIAQSQS-------GTGKTAAFTLTMLSRVNPSIQEPQVLCLAPTYELAIQIG 190
+ NM+ + Q G+GKT ++ Q + LAPT
Sbjct: 10 MGRGSPNMLRKRQMTVLDLHPGSGKTRKILPQIIKD--AIQQRLRTAVLAPT-------- 59
Query: 191 EVVAK-MGKHITDLSVRYAVRGENLERNKKITEQIIIGTPGKVLDWGLKYRFF----DLS 245
VVA M + + L VRY +R + E + + + +
Sbjct: 60 RVVAAEMAEALRGLPVRYQTSAV--QREHQGNEIVDVMCHATLT------HRLMSPNRVP 111
Query: 246 KIKVFVLDEADVMIATQGHQDFSIRIQKRLPSDCQIMLFSATYDKEVMEFAQDMVPNPLI 305
+FV+DEA I + L + + +AT F P
Sbjct: 112 NYNLFVMDEAHFTDPASIAARGYIATKVELG-EAAAIFMTATPPGTTDPFPDSNAP---- 166
Query: 306 IKLKREEESLDNIKQHYVMCKNIDEKFEAVSNIYGVVTIGQAMIFCHTRKTAAWLAEKMS 365
++E I ++ + + G+ + F + K +A +
Sbjct: 167 -IHDLQDE--------------IPDRAWSSGYEWITEYAGKTVWFVASVKMGNEIAMCLQ 211
Query: 366 KEGLNVGLLSGEL 378
+ G V L+ +
Sbjct: 212 RAGKKVIQLNRKS 224
>2p6n_A ATP-dependent RNA helicase DDX41; DEAD, structural genomics,
structural genomic consortium, SGC, hydrolase; 2.60A
{Homo sapiens}
Length = 191
Score = 41.5 bits (98), Expect = 2e-04
Identities = 14/107 (13%), Positives = 33/107 (30%), Gaps = 5/107 (4%)
Query: 294 EFAQDMVP---NPLIIKLKREEESLDNIKQHYVMCKNIDEKFEAVSNIYGVVTIGQAMIF 350
+ + + ++ Q K + K + +IF
Sbjct: 3 HHHHHSSGVDLGTENLYFQSMGAASLDVIQEVEYVKE-EAKMVYLLECLQKTP-PPVLIF 60
Query: 351 CHTRKTAAWLAEKMSKEGLNVGLLSGELTVEQRLSILDRFREGEFKI 397
+ + E + +G+ + G E+R ++ FREG+ +
Sbjct: 61 AEKKADVDAIHEYLLLKGVEAVAIHGGKDQEERTKAIEAFREGKKDV 107
>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 = 40.3 bits (95), Expect = 3e-04
Identities = 19/82 (23%), Positives = 35/82 (42%)
Query: 316 DNIKQHYVMCKNIDEKFEAVSNIYGVVTIGQAMIFCHTRKTAAWLAEKMSKEGLNVGLLS 375
+NI Q V + D++ + + ++F T+K A L + + EG +
Sbjct: 18 ENITQKVVWVEESDKRSFLLDLLNATGKDSLTLVFVETKKGADSLEDFLYHEGYACTSIH 77
Query: 376 GELTVEQRLSILDRFREGEFKI 397
G+ + R L +FR G+ I
Sbjct: 78 GDRSQRDREEALHQFRSGKSPI 99
>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 = 41.6 bits (97), Expect = 4e-04
Identities = 11/67 (16%), Positives = 26/67 (38%), Gaps = 1/67 (1%)
Query: 329 DEKFEAVSNIYGVVTIGQAMIFCHTRKTAAWLAEKM-SKEGLNVGLLSGELTVEQRLSIL 387
D + E + + ++ C TA L + + +EG+ + +++ +R
Sbjct: 488 DPRVEWLMGYLTSHRSQKVLVICAKAATALQLEQVLREREGIRAAVFHEGMSIIERDRAA 547
Query: 388 DRFREGE 394
F E +
Sbjct: 548 AWFAEED 554
>2va8_A SSO2462, SKI2-type helicase; hydrolase, DNA repair, ATP-bindin
nucleotide-binding; 2.30A {Sulfolobus solfataricus}
Length = 715
Score = 39.7 bits (93), Expect = 0.002
Identities = 66/328 (20%), Positives = 116/328 (35%), Gaps = 77/328 (23%)
Query: 106 EALHLKPELLKGVYEMGFYAPSKIQETALPTLLADPPHNMIAQSQSGTGKTAAFTLTMLS 165
E L L +++ + + G + Q A+ L + + ++ S +G+GKT + ++S
Sbjct: 11 EDLKLPSNVIEIIKKRGIKKLNPPQTEAVKKGLLEG-NRLLLTSPTGSGKTLIAEMGIIS 69
Query: 166 RVNPSIQEPQ--VLCLAPTYELAIQIGEVV------AKMGKHITDLSVRYAVRGENLERN 217
+ + + + P L E +G + S Y L+
Sbjct: 70 F----LLKNGGKAIYVTPLRALT---NEKYLTFKDWELIGFKVAMTSGDYDTDDAWLKNY 122
Query: 218 KKITEQIIIGTPGKVLDWGLKYRFFD-LSKIKVFVLDE----AD--------VMIATQGH 264
III T K LD L + L+++ FVLDE D +
Sbjct: 123 -----DIIITTYEK-LD-SLWRHRPEWLNEVNYFVLDELHYLNDPERGPVVESVTI---- 171
Query: 265 QDFSIRIQKRLPSDCQIMLFSAT---YDKEVME------FAQDMVPNPLIIKLKREEESL 315
R ++R ++ SAT Y ++ + A + P PLI + E
Sbjct: 172 -----RAKRR-----NLLALSATISNYK-QIAKWLGAEPVATNWRPVPLIEGVIYPERKK 220
Query: 316 DNIKQHYVMCKNIDEKFEAVSNIYGVVTI-----GQAMIFCHTRK----TAAWLAEKMSK 366
+ + + N +K I GQ ++F ++RK TA +A M+
Sbjct: 221 K--EYNVIFKDNTTKKVHGDDAIIAYTLDSLSKNGQVLVFRNSRKMAESTALKIANYMNF 278
Query: 367 EGLNVGLLSGELTVEQRLSILDRFREGE 394
L+ E + + L LD EG
Sbjct: 279 VSLD------ENALSEILKQLDDIEEGG 300
>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 = 39.2 bits (90), Expect = 0.002
Identities = 22/121 (18%), Positives = 44/121 (36%), Gaps = 4/121 (3%)
Query: 143 HNMIAQSQSGTGKT--AAFTLTMLSRVNPSIQEPQVLCLAPTYELAIQIGEVVAK-MGKH 199
N + + +G+GKT + + P+ ++ +V+ LA + Q V +
Sbjct: 264 KNALICAPTGSGKTFVSILICEHHFQNMPAGRKAKVVFLATKVPVYEQQKNVFKHHFERQ 323
Query: 200 ITDLSVRYAVRGENLERNKKITE-QIIIGTPGKVLDWGLKYRFFDLSKIKVFVLDEADVM 258
+ N+ K I + II+ TP +++ LS + + DE
Sbjct: 324 GYSVQGISGENFSNVSVEKVIEDSDIIVVTPQILVNSFEDGTLTSLSIFTLMIFDECHNT 383
Query: 259 I 259
Sbjct: 384 T 384
>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 = 38.4 bits (90), Expect = 0.004
Identities = 27/180 (15%), Positives = 64/180 (35%), Gaps = 40/180 (22%)
Query: 240 RFFDLSKIKVFVLDEADVMIATQGHQDF-----SIRIQKRLPSDCQIMLFSATYDKEVME 294
+ ++ + +DE + GH DF ++ I KR + ++ +AT V+
Sbjct: 159 KAYEARRFTRIAVDEVHC-CSQWGH-DFRPDYKALGILKRQFPNASLIGLTATATNHVL- 215
Query: 295 FAQDMV-----PNPLIIK------------LKREEESLDNIKQHYVMCKNIDEKFEAVSN 337
D ++ + D I+ + K I+ +++ S
Sbjct: 216 --TDAQKILCIEKCFTFTASFNRPNLYYEVRQKPSNTEDFIED---IVKLINGRYKGQSG 270
Query: 338 IYGVVTIGQAMIFCHTRKTAAWLAEKMSKEGLNVGLLSGELTVEQRLSILDRFREGEFKI 397
I I+C ++K + + + G++ G L E + ++ ++ E ++
Sbjct: 271 I----------IYCFSQKDSEQVTVSLQNLGIHAGAYHANLEPEDKTTVHRKWSANEIQV 320
>1zy8_K Pyruvate dehydrogenase protein X component, mitochondrial; human,
dihydrolipoamide dehydrogenase, dihydrolipoyl
dehydrogenase; HET: FAD; 2.59A {Homo sapiens}
Length = 229
Score = 32.8 bits (75), Expect = 0.13
Identities = 13/74 (17%), Positives = 22/74 (29%), Gaps = 12/74 (16%)
Query: 24 DVLSNVNLKQADTPSPTEDAKPAPSSPDSSAPGNKDE-EDKPLSVAEKSLLQKIVRRGLI 82
D L V LKQ + + ++P + +P P V + + G
Sbjct: 162 DALKLVQLKQTGKITESRPTPAPTATPTAPSPLQATSGPSYPRPV-----IPPVSTPGQP 216
Query: 83 ESKQELEIQRKDPH 96
+ L H
Sbjct: 217 NAVGTL------EH 224
>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 = 32.1 bits (74), Expect = 0.37
Identities = 39/186 (20%), Positives = 72/186 (38%), Gaps = 48/186 (25%)
Query: 237 LKYRFFD-LSKIKV--FVLDEADVMIATQGH------QDF-----SIR-IQKRLPSDCQI 281
+ F + L+ +DEA H DF ++ +++R P
Sbjct: 127 MLDNFLEHLAHWNPVLLAVDEA--------HCISQWGHDFRPEYAALGQLRQRFP-TLPF 177
Query: 282 MLFSATYDKEVMEFAQDMV-----PNPLIIKLKREEESLD--NIKQHYVMCKNIDEKFEA 334
M +AT D QD+V +PLI S D NI Y + EKF+
Sbjct: 178 MALTATADDTT---RQDIVRLLGLNDPLIQI-----SSFDRPNI--RY----MLMEKFKP 223
Query: 335 VSNIYGVVTI--GQA-MIFCHTRKTAAWLAEKMSKEGLNVGLLSGELTVEQRLSILDRFR 391
+ + V G++ +I+C++R A ++ +G++ L R + ++F+
Sbjct: 224 LDQLMRYVQEQRGKSGIIYCNSRAKVEDTAARLQSKGISAAAYHAGLENNVRADVQEKFQ 283
Query: 392 EGEFKI 397
+ +I
Sbjct: 284 RDDLQI 289
>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 = 31.1 bits (71), Expect = 0.72
Identities = 12/46 (26%), Positives = 20/46 (43%), Gaps = 4/46 (8%)
Query: 352 HTRKTAAWLAEKMSKEGLNVGLLSGELTVEQRLSILDRFREGEFKI 397
H R+T + K ++V LL G T ++ I R G+ +
Sbjct: 433 HYRRTVESFS----KFNIHVALLIGATTPSEKEKIKSGLRNGQIDV 474
Score = 29.9 bits (68), Expect = 1.8
Identities = 15/46 (32%), Positives = 26/46 (56%), Gaps = 3/46 (6%)
Query: 355 KTAAWLAEKMSKE---GLNVGLLSGELTVEQRLSILDRFREGEFKI 397
K+A + E +SKE +GL+ G L+ E++ ++ F EG + I
Sbjct: 597 KSAVEMYEYLSKEVFPEFKLGLMHGRLSQEEKDRVMLEFAEGRYDI 642
>2y4o_A Phenylacetate-coenzyme A ligase; phenylacetic acid degradation
pathway; HET: DLL; 1.90A {Burkholderia cenocepacia}
Length = 443
Score = 30.7 bits (70), Expect = 0.78
Identities = 6/38 (15%), Positives = 20/38 (52%), Gaps = 2/38 (5%)
Query: 174 PQVLCLAPTYELAIQIGEVVAKMGKHITDLSVRYAVRG 211
P+++ + P+Y + + + + + G + S++ + G
Sbjct: 185 PKIILVTPSY--MLNLIDEMVRQGMDPAESSLKIGIFG 220
>2y27_A Phenylacetate-coenzyme A ligase; phenylacetic acid degradation
pathway; HET: MSE PG4 ATP; 1.60A {Burkholderia
cenocepacia} PDB: 2y4n_A*
Length = 437
Score = 30.7 bits (70), Expect = 0.92
Identities = 8/38 (21%), Positives = 18/38 (47%), Gaps = 2/38 (5%)
Query: 174 PQVLCLAPTYELAIQIGEVVAKMGKHITDLSVRYAVRG 211
P ++ + P+Y + I + + + G S+R + G
Sbjct: 183 PDIIMVTPSY--MLSIADEIERQGLDPVQSSLRIGIFG 218
>3qov_A Phenylacetate-coenzyme A ligase; acetyl-COA synthetase-like,
structural genomics, joint cente structural genomics,
JCSG; HET: MSE ADP COA; 2.20A {Bacteroides
thetaiotaomicron} PDB: 3s89_A*
Length = 436
Score = 30.3 bits (69), Expect = 1.1
Identities = 10/38 (26%), Positives = 18/38 (47%), Gaps = 2/38 (5%)
Query: 174 PQVLCLAPTYELAIQIGEVVAKMGKHITDLSVRYAVRG 211
L P+Y AI++ EV + G + +++ V G
Sbjct: 179 TTALHAIPSY--AIRLAEVFQEEGIDPRETTLKTLVIG 214
>1j3b_A ATP-dependent phosphoenolpyruvate carboxykinase; adenosine
triphosphate, T thermophilus; 2.00A {Thermus
thermophilus} SCOP: c.91.1.1 c.109.1.1 PDB: 1xkv_A*
2pc9_A*
Length = 529
Score = 29.6 bits (67), Expect = 2.2
Identities = 12/47 (25%), Positives = 16/47 (34%), Gaps = 5/47 (10%)
Query: 345 GQAMIFCHTRKTAAWLAEKMSKEG-----LNVGLLSGELTVEQRLSI 386
G + H A L EK+ K +N G G V R +
Sbjct: 395 GAPFLPMHPGVYARMLGEKIRKHAPRVYLVNTGWTGGPYGVGYRFPL 441
>3dmn_A Putative DNA helicase; APC89291.2, lactobacillus plantarum WCFS1,
STR genomics, PSI-2, midwest center for structural
genomics; HET: MSE; 1.66A {Lactobacillus plantarum}
Length = 174
Score = 28.6 bits (64), Expect = 2.6
Identities = 14/123 (11%), Positives = 38/123 (30%), Gaps = 31/123 (25%)
Query: 290 KEVMEFAQDMVPN-------------PLIIKLKREEESLDNIKQHYVMCKNIDEKFEAVS 336
+++ +F ++++ N P ++ E +D + + + + A+
Sbjct: 9 QQITDFTKEILVNGEAVTAFDRQGDLPNVVVTPNFEAGVDQVVDQ-LAMNDSERDTTAI- 66
Query: 337 NIYGVVTIGQAMIFCHTRKTAAWLAEKMSKEGLNVGLLSGE-LTVEQRLSILDRFREG-- 393
+ L + + G V L+ E + + ++ F
Sbjct: 67 -------------IGKSLAECEALTKALKARGEQVTLIQTENQRLAPGVIVVPSFLAKGL 113
Query: 394 EFK 396
EF
Sbjct: 114 EFD 116
>2qby_B CDC6 homolog 3, cell division control protein 6 homolog 3;
winged-helix domain, helix-turn-helix, AAA+ ATPase
domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A
{Sulfolobus solfataricus}
Length = 384
Score = 29.0 bits (64), Expect = 2.6
Identities = 26/200 (13%), Positives = 62/200 (31%), Gaps = 18/200 (9%)
Query: 135 PTLLADPPHNMIAQSQSGTGKTAAFTLTMLSRVNPSIQEPQVLCLAPTYELAIQIGEVVA 194
+ + + + +GTGKT E + + ++ V
Sbjct: 38 YFVKNEVKFSNLFLGLTGTGKTFV--------SKYIFNEIEEVKKEDEEYKDVKQAYV-- 87
Query: 195 KMGKHITDLSVRYAVRGENLERNKKITEQIIIGTPGKVLDWGLKYRFFDLSKIKVFVLDE 254
+ + K+T + + ++ K + + + LDE
Sbjct: 88 NCREVGGTPQAVLS------SLAGKLTGFSVPKHGINLGEYIDKIKNGTRNIRAIIYLDE 141
Query: 255 ADVMIATQGHQDFSIRIQKRLPSDCQIMLFSATYD-KEVMEFAQDMVPNPLIIKLKREEE 313
D ++ +G ++ R ++ +++ S + ++ ME P +I + E
Sbjct: 142 VDTLVKRRGGDIVLYQLL-RSDANISVIMISNDINVRDYMEPRVLSSLGPSVIFKPYDAE 200
Query: 314 SLDNIKQHYVMCKNIDEKFE 333
L I Y I ++
Sbjct: 201 QLKFILSKYAEYGLIKGTYD 220
>3mop_K IRAK-2, interleukin-1 receptor-associated kinase-like 2; death
domain complex, helical symmetry, single-stranded HELI
assembly; 3.40A {Homo sapiens}
Length = 111
Score = 27.8 bits (61), Expect = 2.8
Identities = 13/54 (24%), Positives = 21/54 (38%), Gaps = 8/54 (14%)
Query: 7 WIAATKNTSALKPDDLIDVLSNVNLKQA-----DTPSPTEDAKPAPSSPDSSAP 55
W + + L+D+L + L +A + E P P+ PDS P
Sbjct: 61 WWWGMRQATV---QQLVDLLCRLELYRAAQIILNWKPAPEIRCPIPAFPDSVKP 111
>3k8k_A Alpha-amylase, SUSG; alpha8/BETA8 barrel, CBM, beta-sandwich,
membrane protein; 2.20A {Bacteroides thetaiotaomicron}
PDB: 3k8m_A* 3k8l_A*
Length = 669
Score = 28.9 bits (65), Expect = 3.4
Identities = 12/52 (23%), Positives = 19/52 (36%), Gaps = 2/52 (3%)
Query: 89 EIQRKDPHSPLYSVKTFEAL-HLKPELLKGVYEMGFYAPSKIQETALPTLLA 139
Q+ D HS L + L + P L +G ++ QE + A
Sbjct: 555 ADQQADTHSLLNIYFSLTRLRNTYPALAEGNMTK-HSVYNESQEKDYKPIAA 605
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 27.8 bits (61), Expect = 4.9
Identities = 7/29 (24%), Positives = 12/29 (41%), Gaps = 3/29 (10%)
Query: 191 EVVAKMGKHITDLSVRYAVRGENLERNKK 219
E K K + + + E +E+NK
Sbjct: 111 EWREKAKKDLEE---WNQRQSEQVEKNKI 136
>3of4_A Nitroreductase; structural genomics, joint center for structural
genomics, J protein structure initiative, PSI-biology,
oxidoreductase; HET: FMN UNL FAD; 1.90A {Idiomarina
loihiensis}
Length = 209
Score = 27.5 bits (61), Expect = 6.4
Identities = 5/28 (17%), Positives = 10/28 (35%)
Query: 100 YSVKTFEALHLKPELLKGVYEMGFYAPS 127
Y+ F H+ ++L + S
Sbjct: 12 YATADFSGAHITDDVLDKLLNTTRLTAS 39
>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 = 27.7 bits (62), Expect = 7.8
Identities = 39/274 (14%), Positives = 86/274 (31%), Gaps = 60/274 (21%)
Query: 152 GTGKTAAFTLTMLSRVNPSIQEPQVLCLAPTYELAIQIGEVVAKMGKHITDLSVRYAVRG 211
G GKT + + + +++ + + PT L IQ E + K + +
Sbjct: 81 GVGKT---SFGLAMSLFLALKGKRCYVIFPTSLLVIQAAETIRKYAEKAGVGTENLIGYY 137
Query: 212 ENLERNKKITEQ--------IIIGTPGKVLDWGLKYRFFD-LSKIKVFVLDEADVMIATQ 262
++ I+I T + + + L +D+ D ++
Sbjct: 138 HGRIPKREKENFMQNLRNFKIVITTTQFL------SKHYRELGHFDFIFVDDVDAILKAS 191
Query: 263 GHQDFSIR--------IQKRLPS--DCQIMLFSATYDKEVMEFAQDMVPNPLIIKLKRE- 311
+ D + K +M+ +AT K +L R+
Sbjct: 192 KNVDKLLHLLGFHYDLKTKSWVGEARGCLMVSTATAKKGKK------------AELFRQL 239
Query: 312 --------EESLDNIKQHYVMCKNIDEKFEAVSNIYGVVTIGQAMIFCHTRKTAAWLAEK 363
++ N++ V ++I + G +I+ T + A + E
Sbjct: 240 LNFDIGSSRITVRNVEDVAVNDESISTLSSIL-EKLG----TGGIIYARTGEEAEEIYES 294
Query: 364 MSKEGLNVGLLSGELTVEQRLSILDRFREGEFKI 397
+ K +G+++ + ++F EGE
Sbjct: 295 L-KNKFRIGIVT-----ATKKGDYEKFVEGEIDH 322
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
0.316 0.133 0.374
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: 5,950,331
Number of extensions: 362638
Number of successful extensions: 1042
Number of sequences better than 10.0: 1
Number of HSP's gapped: 876
Number of HSP's successfully gapped: 93
Length of query: 399
Length of database: 6,701,793
Length adjustment: 96
Effective length of query: 303
Effective length of database: 4,021,377
Effective search space: 1218477231
Effective search space used: 1218477231
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 58 (26.8 bits)