RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy576
(159 letters)
>1fuk_A Eukaryotic initiation factor 4A; helicase, DEAD-box protein,
translation; 1.75A {Saccharomyces cerevisiae} SCOP:
c.37.1.19
Length = 165
Score = 145 bits (367), Expect = 3e-45
Identities = 49/111 (44%), Positives = 74/111 (66%)
Query: 49 VLVFVQSKERAQELYNELIYDGINVDVIHSDRTQKQRDNVVRSFRTGRIWILITTELLGR 108
++F ++ + +EL +L D V I+SD Q++RD +++ FR+G ILI+T+LL R
Sbjct: 33 AVIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTIMKEFRSGSSRILISTDLLAR 92
Query: 109 GIDFRTVRLVVNYDFPSSAISYIHRIGRAGRGGREGKAVTFFTKQDAPLLR 159
GID + V LV+NYD P++ +YIHRIGR GR GR+G A+ F T +D +R
Sbjct: 93 GIDVQQVSLVINYDLPANKENYIHRIGRGGRFGRKGVAINFVTNEDVGAMR 143
>2p6n_A ATP-dependent RNA helicase DDX41; DEAD, structural genomics,
structural genomic consortium, SGC, hydrolase; 2.60A
{Homo sapiens}
Length = 191
Score = 143 bits (362), Expect = 3e-44
Identities = 41/120 (34%), Positives = 65/120 (54%), Gaps = 1/120 (0%)
Query: 41 ILLGIEPPVLVFVQSKERAQELYNELIYDGINVDVIHSDRTQKQRDNVVRSFRTGRIWIL 100
L PPVL+F + K ++ L+ G+ IH + Q++R + +FR G+ +L
Sbjct: 49 CLQKTPPPVLIFAEKKADVDAIHEYLLLKGVEAVAIHGGKDQEERTKAIEAFREGKKDVL 108
Query: 101 ITTELLGRGIDFRTVRLVVNYDFPSSAISYIHRIGRAGRGGREGKAVTFFTK-QDAPLLR 159
+ T++ +G+DF ++ V+NYD P +Y+HRIGR G G G A TF K D +L
Sbjct: 109 VATDVASKGLDFPAIQHVINYDMPEEIENYVHRIGRTGCSGNTGIATTFINKACDESVLM 168
>3fho_A ATP-dependent RNA helicase DBP5; mRNA export, ATPase, translation
termination, binding, hydrolase, membrane, mRNA
transport; 2.80A {Schizosaccharomyces pombe}
Length = 508
Score = 150 bits (381), Expect = 5e-44
Identities = 44/127 (34%), Positives = 66/127 (51%), Gaps = 9/127 (7%)
Query: 42 LLGIEPP--VLVFVQSKERAQELYNELIYDGINVDVIHSDRTQKQRDNVVRSFRTGRIWI 99
L G+ ++F + K+ A+E+ + DG V + + QRD ++ SFR G +
Sbjct: 351 LYGLLTIGQSIIFCKKKDTAEEIARRMTADGHTVACLTGNLEGAQRDAIMDSFRVGTSKV 410
Query: 100 LITTELLGRGIDFRTVRLVVNYDFPSSAI------SYIHRIGRAGRGGREGKAVTFFT-K 152
L+TT ++ RGID V LVVNYD P +Y+HRIGR GR GR G ++ F K
Sbjct: 411 LVTTNVIARGIDVSQVNLVVNYDMPLDQAGRPDPQTYLHRIGRTGRFGRVGVSINFVHDK 470
Query: 153 QDAPLLR 159
+ +
Sbjct: 471 KSWEEMN 477
>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 = 141 bits (358), Expect = 8e-44
Identities = 42/121 (34%), Positives = 66/121 (54%), Gaps = 3/121 (2%)
Query: 42 LLGIEPP--VLVFVQSKERAQELYNELIYDGINVDVIHSDRTQKQRDNVVRSFRTGRIWI 99
LL + V++FV+S +R L L+ IH Q++R + + F+ + I
Sbjct: 25 LLDVLEFNQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRI 84
Query: 100 LITTELLGRGIDFRTVRLVVNYDFPSSAISYIHRIGRAGRGGREGKAVTFFT-KQDAPLL 158
L+ T L GRG+D V + NYD P + +Y+HR+ RAGR G +G A+TF + + DA +L
Sbjct: 85 LVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKGLAITFVSDENDAKIL 144
Query: 159 R 159
Sbjct: 145 N 145
>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 = 141 bits (359), Expect = 9e-44
Identities = 44/121 (36%), Positives = 70/121 (57%), Gaps = 2/121 (1%)
Query: 41 ILLGIEPP--VLVFVQSKERAQELYNELIYDGINVDVIHSDRTQKQRDNVVRSFRTGRIW 98
+L LVFV++K+ A L + L ++G IH DR+Q+ R+ + FR+G+
Sbjct: 39 LLNATGKDSLTLVFVETKKGADSLEDFLYHEGYACTSIHGDRSQRDREEALHQFRSGKSP 98
Query: 99 ILITTELLGRGIDFRTVRLVVNYDFPSSAISYIHRIGRAGRGGREGKAVTFFTKQDAPLL 158
IL+ T + RG+D V+ V+N+D PS Y+HRIGR GR G G A +FF +++ +
Sbjct: 99 ILVATAVAARGLDISNVKHVINFDLPSDIEEYVHRIGRTGRVGNLGLATSFFNERNINIT 158
Query: 159 R 159
+
Sbjct: 159 K 159
>2i4i_A ATP-dependent RNA helicase DDX3X; DEAD, structural genomics, SGC,
structural GE consortium, hydrolase; HET: AMP; 2.20A
{Homo sapiens}
Length = 417
Score = 144 bits (365), Expect = 3e-42
Identities = 44/121 (36%), Positives = 70/121 (57%), Gaps = 2/121 (1%)
Query: 41 ILLGIEPP--VLVFVQSKERAQELYNELIYDGINVDVIHSDRTQKQRDNVVRSFRTGRIW 98
+L LVFV++K+ A L + L ++G IH DR+Q+ R+ + FR+G+
Sbjct: 269 LLNATGKDSLTLVFVETKKGADSLEDFLYHEGYACTSIHGDRSQRDREEALHQFRSGKSP 328
Query: 99 ILITTELLGRGIDFRTVRLVVNYDFPSSAISYIHRIGRAGRGGREGKAVTFFTKQDAPLL 158
IL+ T + RG+D V+ V+N+D PS Y+HRIGR GR G G A +FF +++ +
Sbjct: 329 ILVATAVAARGLDISNVKHVINFDLPSDIEEYVHRIGRTGRVGNLGLATSFFNERNINIT 388
Query: 159 R 159
+
Sbjct: 389 K 389
>2hjv_A ATP-dependent RNA helicase DBPA; parallel alpha-beta, hydrolase;
1.95A {Bacillus subtilis}
Length = 163
Score = 137 bits (347), Expect = 3e-42
Identities = 45/120 (37%), Positives = 66/120 (55%), Gaps = 2/120 (1%)
Query: 42 LLGIEPP--VLVFVQSKERAQELYNELIYDGINVDVIHSDRTQKQRDNVVRSFRTGRIWI 99
+L E P ++F ++KE +L +EL G D IH Q+ R +V+ F+ G
Sbjct: 29 VLMTENPDSCIIFCRTKEHVNQLTDELDDLGYPCDKIHGGMIQEDRFDVMNEFKRGEYRY 88
Query: 100 LITTELLGRGIDFRTVRLVVNYDFPSSAISYIHRIGRAGRGGREGKAVTFFTKQDAPLLR 159
L+ T++ RGID + LV+NYD P SY+HR GR GR G +GKA++F T + L
Sbjct: 89 LVATDVAARGIDIENISLVINYDLPLEKESYVHRTGRTGRAGNKGKAISFVTAFEKRFLA 148
>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 = 137 bits (347), Expect = 4e-42
Identities = 42/116 (36%), Positives = 67/116 (57%), Gaps = 6/116 (5%)
Query: 50 LVFVQSKERAQELYNELIYDGINVDVIHSDRTQKQRDNVVRSFRTGRIWILITTELLGRG 109
++F Q++ A+ L E+I DG V ++ + T +QR ++++ FR G+ +LITT + RG
Sbjct: 38 IIFCQTRRNAKWLTVEMIQDGHQVSLLSGELTVEQRASIIQRFRDGKEKVLITTNVCARG 97
Query: 110 IDFRTVRLVVNYDFPSSAI------SYIHRIGRAGRGGREGKAVTFFTKQDAPLLR 159
ID + V +VVN+D P +Y+HRIGR GR G++G A + P L
Sbjct: 98 IDVKQVTIVVNFDLPVKQGEEPDYETYLHRIGRTGRFGKKGLAFNMIEVDELPSLM 153
>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 = 142 bits (360), Expect = 9e-42
Identities = 50/120 (41%), Positives = 75/120 (62%), Gaps = 2/120 (1%)
Query: 42 LLGIEPP--VLVFVQSKERAQELYNELIYDGINVDVIHSDRTQKQRDNVVRSFRTGRIWI 99
L ++F ++ + +EL +L D V I+SD Q++RD +++ FR+G I
Sbjct: 253 LYDSISVTQAVIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTIMKEFRSGSSRI 312
Query: 100 LITTELLGRGIDFRTVRLVVNYDFPSSAISYIHRIGRAGRGGREGKAVTFFTKQDAPLLR 159
LI+T+LL RGID + V LV+NYD P++ +YIHRIGR GR GR+G A+ F T +D +R
Sbjct: 313 LISTDLLARGIDVQQVSLVINYDLPANKENYIHRIGRGGRFGRKGVAINFVTNEDVGAMR 372
>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 = 141 bits (357), Expect = 3e-41
Identities = 48/120 (40%), Positives = 72/120 (60%), Gaps = 2/120 (1%)
Query: 42 LLGIEPP--VLVFVQSKERAQELYNELIYDGINVDVIHSDRTQKQRDNVVRSFRTGRIWI 99
L ++F+ ++ + L ++ V +H D QK+RD ++R FR+G +
Sbjct: 274 LYETLTITQAVIFINTRRKVDWLTEKMHARDFTVSAMHGDMDQKERDVIMREFRSGSSRV 333
Query: 100 LITTELLGRGIDFRTVRLVVNYDFPSSAISYIHRIGRAGRGGREGKAVTFFTKQDAPLLR 159
LITT+LL RGID + V LV+NYD P++ +YIHRIGR GR GR+G A+ T++D LR
Sbjct: 334 LITTDLLARGIDVQQVSLVINYDLPTNRENYIHRIGRGGRFGRKGVAINMVTEEDKRTLR 393
>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 = 140 bits (354), Expect = 8e-41
Identities = 40/120 (33%), Positives = 64/120 (53%), Gaps = 2/120 (1%)
Query: 42 LLGIEPP--VLVFVQSKERAQELYNELIYDGINVDVIHSDRTQKQRDNVVRSFRTGRIWI 99
L ++F S R + L ++ G + H+ Q++R+ V FR G++
Sbjct: 252 LFSKLQINQAIIFCNSTNRVELLAKKITDLGYSCYYSHARMKQQERNKVFHEFRQGKVRT 311
Query: 100 LITTELLGRGIDFRTVRLVVNYDFPSSAISYIHRIGRAGRGGREGKAVTFFTKQDAPLLR 159
L+ ++LL RGID + V +V+N+DFP +A +Y+HRIGR+GR G G A+ D L
Sbjct: 312 LVCSDLLTRGIDIQAVNVVINFDFPKTAETYLHRIGRSGRFGHLGLAINLINWNDRFNLY 371
>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 = 140 bits (354), Expect = 8e-41
Identities = 42/120 (35%), Positives = 69/120 (57%), Gaps = 2/120 (1%)
Query: 42 LLGIEPP--VLVFVQSKERAQELYNELIYDGINVDVIHSDRTQKQRDNVVRSFRTGRIWI 99
L ++F +K + L ++ V +H D QK+R+++++ FR+G +
Sbjct: 270 LYDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRV 329
Query: 100 LITTELLGRGIDFRTVRLVVNYDFPSSAISYIHRIGRAGRGGREGKAVTFFTKQDAPLLR 159
LI+T++ RG+D V L++NYD P++ YIHRIGR+GR GR+G A+ F D +LR
Sbjct: 330 LISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAINFVKNDDIRILR 389
>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 = 139 bits (354), Expect = 1e-40
Identities = 45/120 (37%), Positives = 65/120 (54%), Gaps = 1/120 (0%)
Query: 41 ILLGIEPPVLVFVQSKERAQELYNELIYDGINVDVIHSDRTQKQRDNVVRSFRTGRIWIL 100
IL +VFV++K A L + L IH DR Q QR+ +R F+ G + +L
Sbjct: 295 ILSEQADGTIVFVETKRGADFLASFLSEKEFPTTSIHGDRLQSQREQALRDFKNGSMKVL 354
Query: 101 ITTELLGRGIDFRTVRLVVNYDFPSSAISYIHRIGRAGRGGREGKAVTFFTK-QDAPLLR 159
I T + RG+D + ++ V+NYD PS Y+HRIGR GR G G+A +FF +D +
Sbjct: 355 IATSVASRGLDIKNIKHVINYDMPSKIDDYVHRIGRTGRVGNNGRATSFFDPEKDRAIAA 414
>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 = 135 bits (342), Expect = 4e-39
Identities = 42/121 (34%), Positives = 66/121 (54%), Gaps = 3/121 (2%)
Query: 42 LLGIEPP--VLVFVQSKERAQELYNELIYDGINVDVIHSDRTQKQRDNVVRSFRTGRIWI 99
LL + V++FV+S +R L L+ IH Q++R + + F+ + I
Sbjct: 244 LLDVLEFNQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRI 303
Query: 100 LITTELLGRGIDFRTVRLVVNYDFPSSAISYIHRIGRAGRGGREGKAVTFFT-KQDAPLL 158
L+ T L GRG+D V + NYD P + +Y+HR+ RAGR G +G A+TF + + DA +L
Sbjct: 304 LVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKGLAITFVSDENDAKIL 363
Query: 159 R 159
Sbjct: 364 N 364
>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 = 135 bits (342), Expect = 6e-39
Identities = 41/127 (32%), Positives = 63/127 (49%), Gaps = 9/127 (7%)
Query: 42 LLGIEPP--VLVFVQSKERAQELYNELIYDGINVDVIHSDRTQKQRDNVVRSFRTGRIWI 99
L G ++F +++ A L EL +G V ++ + +QR V+ FR G+ +
Sbjct: 260 LYGAITIAQAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFREGKEKV 319
Query: 100 LITTELLGRGIDFRTVRLVVNYDFPSSAI------SYIHRIGRAGRGGREGKAVTFFT-K 152
L+TT + RGID V +V+N+D P +Y+HRIGR GR G+ G AV K
Sbjct: 320 LVTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRTGRFGKRGLAVNMVDSK 379
Query: 153 QDAPLLR 159
+L
Sbjct: 380 HSMNILN 386
>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 = 134 bits (339), Expect = 1e-38
Identities = 53/127 (41%), Positives = 75/127 (59%), Gaps = 9/127 (7%)
Query: 42 LLGIEPP--VLVFVQSKERAQELYNELIYDGINVDVIHSDRTQKQRDNVVRSFRTGRIWI 99
L G+ ++FV +K+ A LY +L +G V ++H D ++RD ++ FR GR +
Sbjct: 237 LYGLMTIGSSIIFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDDFREGRSKV 296
Query: 100 LITTELLGRGIDFRTVRLVVNYDFPSSAI------SYIHRIGRAGRGGREGKAVTFFT-K 152
LITT +L RGID TV +VVNYD P+ A +YIHRIGR GR GR+G A++F K
Sbjct: 297 LITTNVLARGIDIPTVSMVVNYDLPTLANGQADPATYIHRIGRTGRFGRKGVAISFVHDK 356
Query: 153 QDAPLLR 159
+L
Sbjct: 357 NSFNILS 363
>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 = 135 bits (341), Expect = 2e-38
Identities = 41/127 (32%), Positives = 63/127 (49%), Gaps = 9/127 (7%)
Query: 42 LLGIEPP--VLVFVQSKERAQELYNELIYDGINVDVIHSDRTQKQRDNVVRSFRTGRIWI 99
L G ++F +++ A L EL +G V ++ + +QR V+ FR G+ +
Sbjct: 327 LYGAITIAQAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFREGKEKV 386
Query: 100 LITTELLGRGIDFRTVRLVVNYDFPSSAI------SYIHRIGRAGRGGREGKAVTFFT-K 152
L+TT + RGID V +V+N+D P +Y+HRIGR GR G+ G AV K
Sbjct: 387 LVTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRTGRFGKRGLAVNMVDSK 446
Query: 153 QDAPLLR 159
+L
Sbjct: 447 HSMNILN 453
>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 = 127 bits (320), Expect = 1e-37
Identities = 40/120 (33%), Positives = 66/120 (55%), Gaps = 2/120 (1%)
Query: 42 LLGIEPP--VLVFVQSKERAQELYNELIYDGINVDVIHSDRTQKQRDNVVRSFRTGRIWI 99
LL + P +VF ++K +E+ L+ G +H D +Q +R+ V+ +FR G + +
Sbjct: 25 LLYVASPDRAMVFTRTKAETEEIAQGLLRLGHPAQALHGDLSQGERERVLGAFRQGEVRV 84
Query: 100 LITTELLGRGIDFRTVRLVVNYDFPSSAISYIHRIGRAGRGGREGKAVTFFTKQDAPLLR 159
L+ T++ RG+D V LVV+Y P A +Y HR GR GR GR G+ V + ++ +
Sbjct: 85 LVATDVAARGLDIPQVDLVVHYRLPDRAEAYQHRSGRTGRAGRGGRVVLLYGPRERRDVE 144
>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 = 124 bits (315), Expect = 3e-37
Identities = 44/120 (36%), Positives = 64/120 (53%), Gaps = 2/120 (1%)
Query: 42 LLGIEPP--VLVFVQSKERAQELYNELIYDGINVDVIHSDRTQKQRDNVVRSFRTGRIWI 99
LL +VFV+ +ER EL N L GIN + + Q +R+ ++ GR+ +
Sbjct: 24 LLKQPEATRSIVFVRKRERVHELANWLREAGINNCYLEGEMVQGKRNEAIKRLTEGRVNV 83
Query: 100 LITTELLGRGIDFRTVRLVVNYDFPSSAISYIHRIGRAGRGGREGKAVTFFTKQDAPLLR 159
L+ T++ RGID V V N+D P S +Y+HRIGR R GR+G A++ D LL
Sbjct: 84 LVATDVAARGIDIPDVSHVFNFDMPRSGDTYLHRIGRTARAGRKGTAISLVEAHDHLLLG 143
>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 = 128 bits (324), Expect = 1e-36
Identities = 45/110 (40%), Positives = 68/110 (61%)
Query: 50 LVFVQSKERAQELYNELIYDGINVDVIHSDRTQKQRDNVVRSFRTGRIWILITTELLGRG 109
LVF ++K +EL + L G IH D +Q QR+ V+R F+ +I ILI T+++ RG
Sbjct: 242 LVFCKTKRDTKELASMLRDIGFKAGAIHGDLSQSQREKVIRLFKQKKIRILIATDVMSRG 301
Query: 110 IDFRTVRLVVNYDFPSSAISYIHRIGRAGRGGREGKAVTFFTKQDAPLLR 159
ID + V+NY P + SY+HRIGR GR G++GKA++ +++ LR
Sbjct: 302 IDVNDLNCVINYHLPQNPESYMHRIGRTGRAGKKGKAISIINRREYKKLR 351
>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 = 124 bits (314), Expect = 8e-36
Identities = 40/120 (33%), Positives = 66/120 (55%), Gaps = 2/120 (1%)
Query: 42 LLGIEPP--VLVFVQSKERAQELYNELIYDGINVDVIHSDRTQKQRDNVVRSFRTGRIWI 99
LL + P +VF ++K +E+ L+ G +H D +Q +R+ V+ +FR G + +
Sbjct: 22 LLYVASPDRAMVFTRTKAETEEIAQGLLRLGHPAQALHGDMSQGERERVMGAFRQGEVRV 81
Query: 100 LITTELLGRGIDFRTVRLVVNYDFPSSAISYIHRIGRAGRGGREGKAVTFFTKQDAPLLR 159
L+ T++ RG+D V LVV+Y P A +Y HR GR GR GR G+ V + ++ +
Sbjct: 82 LVATDVAARGLDIPQVDLVVHYRMPDRAEAYQHRSGRTGRAGRGGRVVLLYGPRERRDVE 141
>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 = 128 bits (324), Expect = 1e-35
Identities = 35/123 (28%), Positives = 58/123 (47%), Gaps = 5/123 (4%)
Query: 42 LLGIEPP--VLVFVQSKERAQELY---NELIYDGINVDVIHSDRTQKQRDNVVRSFRTGR 96
+ + ++F + + L + + H TQ +R ++V+ F+
Sbjct: 333 IKERDSNYKAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQNKRTSLVKRFKKDE 392
Query: 97 IWILITTELLGRGIDFRTVRLVVNYDFPSSAISYIHRIGRAGRGGREGKAVTFFTKQDAP 156
IL+ T++ RG+DF V V+ PS +YIHRIGR R G+EG +V F K + P
Sbjct: 393 SGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEGSSVLFICKDELP 452
Query: 157 LLR 159
+R
Sbjct: 453 FVR 455
>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 = 126 bits (317), Expect = 9e-35
Identities = 36/123 (29%), Positives = 60/123 (48%), Gaps = 5/123 (4%)
Query: 42 LLGIEPP--VLVFVQSKERAQELYNEL---IYDGINVDVIHSDRTQKQRDNVVRSFRTGR 96
+ + ++F + + L + L + + H TQ +R ++V+ F+
Sbjct: 282 IKERDSNYKAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQNKRTSLVKRFKKDE 341
Query: 97 IWILITTELLGRGIDFRTVRLVVNYDFPSSAISYIHRIGRAGRGGREGKAVTFFTKQDAP 156
IL+ T++ RG+DF V V+ PS +YIHRIGR R G+EG +V F K + P
Sbjct: 342 SGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEGSSVLFICKDELP 401
Query: 157 LLR 159
+R
Sbjct: 402 FVR 404
>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 = 114 bits (287), Expect = 2e-31
Identities = 42/120 (35%), Positives = 63/120 (52%), Gaps = 7/120 (5%)
Query: 42 LLGIEPP--VLVFVQSKERAQELYNELIYDGINVDVIHSDRTQKQRDNVVRSFRTGRIWI 99
L V+VFV+++ R +L N + D Q R+ + +FR G +
Sbjct: 214 ALRENKDKGVIVFVRTRNRVAKLVRLFD----NAIELRGDLPQSVRNRNIDAFREGEYDM 269
Query: 100 LITTELLGRGIDFRTVRLVVNYDFPSSAISYIHRIGRAGRGGREGKAVTFFTKQDAPLLR 159
LITT++ RG+D V V+N+D P +YIHRIGR GR GR+G+A+TF + L +
Sbjct: 270 LITTDVASRGLDIPLVEKVINFDAPQDLRTYIHRIGRTGRMGRKGEAITFILN-EYWLEK 328
>3oiy_A Reverse gyrase helicase domain; topoisomerase, DNA supercoiling,
archaea, isomeras; 2.35A {Thermotoga maritima} PDB:
3p4y_A 3p4x_A*
Length = 414
Score = 115 bits (289), Expect = 2e-31
Identities = 33/124 (26%), Positives = 54/124 (43%), Gaps = 14/124 (11%)
Query: 45 IEPPVLVFVQSKERAQELYNELIYDGINVDVIHSDRTQKQRDNVVRSFRTGRIWILITTE 104
+L+F Q++E +ELY L NV S+ + D F+ G+I ILI +
Sbjct: 251 FRDGILIFAQTEEEGKELYEYLKRFKFNVGETWSEFEKNFED-----FKVGKINILIGVQ 305
Query: 105 ----LLGRGIDFR-TVRLVVNYDFPSS--AISYIHRIGRAGRGGREG--KAVTFFTKQDA 155
L RG+D ++ V+ + PS +YI GR+ R K V+ ++D
Sbjct: 306 AYYGKLTRGVDLPERIKYVIFWGTPSGPDVYTYIQASGRSSRILNGVLVKGVSVIFEEDE 365
Query: 156 PLLR 159
+
Sbjct: 366 EIFE 369
Score = 26.6 bits (59), Expect = 3.6
Identities = 10/51 (19%), Positives = 24/51 (47%), Gaps = 4/51 (7%)
Query: 53 VQSKERAQELYNELIYDGINVDVIHSDRTQKQRDNVVRSFRTGRIWILITT 103
Q+ ER Q+L + + + +S +++++ +SF IL+ +
Sbjct: 78 KQTLERLQKL----ADEKVKIFGFYSSMKKEEKEKFEKSFEEDDYHILVFS 124
>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 = 88.7 bits (219), Expect = 2e-21
Identities = 33/112 (29%), Positives = 53/112 (47%), Gaps = 9/112 (8%)
Query: 49 VLVFVQSKERAQELYNELIYDGINVDVIHSDR--------TQKQRDNVVRSFRTGRIWIL 100
++VF +E A+++ NEL+ DGI +Q+++ ++ F G +L
Sbjct: 364 IIVFTNYRETAKKIVNELVKDGIKAKRFVGQASKENDRGLSQREQKLILDEFARGEFNVL 423
Query: 101 ITTELLGRGIDFRTVRLVVNYDFPSSAISYIHRIGRAGRGGREGKAVTFFTK 152
+ T + G+D V LVV Y+ SAI I R GR GR G+ + K
Sbjct: 424 VATSVGEEGLDVPEVDLVVFYEPVPSAIRSIQRRGRTGR-HMPGRVIILMAK 474
>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 = 64.6 bits (156), Expect = 5e-13
Identities = 24/119 (20%), Positives = 45/119 (37%), Gaps = 15/119 (12%)
Query: 49 VLVFVQSKERAQELYNELI----YDGINVDVIH--------SDRTQKQRDNVVRSFRTGR 96
L+F +++ L + + I V+ + T + V+ +F+T +
Sbjct: 634 TLLFAKTRALVSALKKCMEENPILNYIKPGVLMGRGRRDQTTGMTLPSQKGVLDAFKTSK 693
Query: 97 I-WILITTELLGRGIDFRTVRLVVNYDFPSSAISYIHRIGRAGRGGREGKAVTFFTKQD 154
+LI T + GID LVV Y++ + I GR K + +K +
Sbjct: 694 DNRLLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQVRGRGRA--AGSKCILVTSKTE 750
>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 = 64.6 bits (156), Expect = 6e-13
Identities = 24/106 (22%), Positives = 42/106 (39%), Gaps = 13/106 (12%)
Query: 49 VLVFVQSKERAQELYNEL----IYDGINVDVI--------HSDRTQKQRDNVVRSFRTGR 96
L+F +++ L + I + I V+ + T + V+ +F+T +
Sbjct: 393 TLLFAKTRALVSALKKCMEENPILNYIKPGVLMGRGRRDQTTGMTLPSQKGVLDAFKTSK 452
Query: 97 I-WILITTELLGRGIDFRTVRLVVNYDFPSSAISYIHRIGRAGRGG 141
+LI T + GID LVV Y++ + I GR G
Sbjct: 453 DNRLLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQVRGRGRAAG 498
>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 = 63.8 bits (154), Expect = 9e-13
Identities = 23/117 (19%), Positives = 42/117 (35%), Gaps = 15/117 (12%)
Query: 49 VLVFVQSKERAQELYNEL------------IYDGINVDVIHSDRTQKQRDNVVRSFRTGR 96
L+F +++ L + + G + T + V+ +F+T +
Sbjct: 634 TLLFAKTRALVSALKKCMEENPILNYIKPGVLMGRGRRDQTTGMTLPSQKGVLDAFKTSK 693
Query: 97 I-WILITTELLGRGIDFRTVRLVVNYDFPSSAISYIHRIGRAGRGGREGKAVTFFTK 152
+LI T + GID LVV Y++ + I GR K + +K
Sbjct: 694 DNRLLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQVRGRGRA--AGSKCILVTSK 748
>3tbk_A RIG-I helicase domain; DECH helicase, ATP binding, hydrolase; HET:
ANP; 2.14A {Mus musculus}
Length = 555
Score = 62.6 bits (151), Expect = 3e-12
Identities = 27/122 (22%), Positives = 45/122 (36%), Gaps = 15/122 (12%)
Query: 46 EPPVLVFVQSKERAQELYNELIYD------------GINVDVIHSDRTQKQRDNVVRSFR 93
E ++FV+++ L + + G + T + V+ +FR
Sbjct: 389 ETKTILFVKTRALVDALKKWIEENPALSFLKPGILTGRGRTNRATGMTLPAQKCVLEAFR 448
Query: 94 T-GRIWILITTELLGRGIDFRTVRLVVNYDFPSSAISYIHRIGRAGRGGREGKAVTFFTK 152
G ILI T + GID LV+ Y++ + I I GR R+ K +
Sbjct: 449 ASGDNNILIATSVADEGIDIAECNLVILYEYVGNVIKMIQTRGRGRA--RDSKCFLLTSS 506
Query: 153 QD 154
D
Sbjct: 507 AD 508
>2ykg_A Probable ATP-dependent RNA helicase DDX58; hydrolase, innate
immunity; 2.50A {Homo sapiens} PDB: 3tmi_A*
Length = 696
Score = 61.5 bits (148), Expect = 6e-12
Identities = 23/118 (19%), Positives = 46/118 (38%), Gaps = 15/118 (12%)
Query: 50 LVFVQSKERAQELYNEL----IYDGINVDVI--------HSDRTQKQRDNVVRSFR-TGR 96
++FV+++ L N + + ++ ++ T + ++ +F+ +G
Sbjct: 402 ILFVKTRALVDALKNWIEGNPKLSFLKPGILTGRGKTNQNTGMTLPAQKCILDAFKASGD 461
Query: 97 IWILITTELLGRGIDFRTVRLVVNYDFPSSAISYIHRIGRAGRGGREGKAVTFFTKQD 154
ILI T + GID LV+ Y++ + I I GR R K +
Sbjct: 462 HNILIATSVADEGIDIAQCNLVILYEYVGNVIKMIQTRGRGRA--RGSKCFLLTSNAG 517
>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 = 58.5 bits (142), Expect = 6e-11
Identities = 24/109 (22%), Positives = 50/109 (45%)
Query: 51 VFVQSKERAQELYNELIYDGINVDVIHSDRTQKQRDNVVRSFRTGRIWILITTELLGRGI 110
++ S++ ++++ L GI+ H++ + + V R + I +++ T G GI
Sbjct: 272 IYCFSQKDSEQVTVSLQNLGIHAGAYHANLEPEDKTTVHRKWSANEIQVVVATVAFGMGI 331
Query: 111 DFRTVRLVVNYDFPSSAISYIHRIGRAGRGGREGKAVTFFTKQDAPLLR 159
D VR V+++ S +Y GRAGR + + ++ D +
Sbjct: 332 DKPDVRFVIHHSMSKSMENYYQESGRAGRDDMKADCILYYGFGDIFRIS 380
>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 = 56.4 bits (137), Expect = 3e-10
Identities = 32/109 (29%), Positives = 52/109 (47%)
Query: 51 VFVQSKERAQELYNELIYDGINVDVIHSDRTQKQRDNVVRSFRTGRIWILITTELLGRGI 110
++ S+ + ++ L GI+ H+ R +V F+ + I++ T G GI
Sbjct: 241 IYCNSRAKVEDTAARLQSKGISAAAYHAGLENNVRADVQEKFQRDDLQIVVATVAFGMGI 300
Query: 111 DFRTVRLVVNYDFPSSAISYIHRIGRAGRGGREGKAVTFFTKQDAPLLR 159
+ VR VV++D P + SY GRAGR G +A+ F+ D LR
Sbjct: 301 NKPNVRFVVHFDIPRNIESYYQETGRAGRDGLPAEAMLFYDPADMAWLR 349
>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 = 54.3 bits (130), Expect = 2e-09
Identities = 32/132 (24%), Positives = 48/132 (36%), Gaps = 10/132 (7%)
Query: 20 LARMYRETEGAGSPVQAQD-------ETILLGIEPPVLVFVQSKERAQELYNELIYD-GI 71
R+Y+E EG + D + VLV A +L L GI
Sbjct: 470 PERIYQEFEGDNATWWNFDPRVEWLMGYLTSHRSQKVLVICAKAATALQLEQVLREREGI 529
Query: 72 NVDVIHSDRTQKQRDNVVRSFRT--GRIWILITTELLGRGIDFRTVRLVVNYDFPSSAIS 129
V H + +RD F +L+ +E+ G +F+ +V +D P +
Sbjct: 530 RAAVFHEGMSIIERDRAAAWFAEEDTGAQVLLCSEIGSEGRNFQFASHMVMFDLPFNPDL 589
Query: 130 YIHRIGRAGRGG 141
RIGR R G
Sbjct: 590 LEQRIGRLDRIG 601
>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 = 49.1 bits (117), Expect = 1e-07
Identities = 23/106 (21%), Positives = 47/106 (44%), Gaps = 5/106 (4%)
Query: 46 EPPVLVFVQSKERAQELYNELIYDGINVDVIHSDRTQKQRDNVVRSFRTGRIWILITTEL 105
+ +++F + E + + I ++++R+ ++ FRTGR ++++++
Sbjct: 349 KDKIIIFTRHNELVYRISKVF-----LIPAITHRTSREEREEILEGFRTGRFRAIVSSQV 403
Query: 106 LGRGIDFRTVRLVVNYDFPSSAISYIHRIGRAGRGGREGKAVTFFT 151
L GID + V SA YI R+GR R + K +
Sbjct: 404 LDEGIDVPDANVGVIMSGSGSAREYIQRLGRILRPSKGKKEAVLYE 449
>2oca_A DAR protein, ATP-dependent DNA helicase UVSW; ATP-dependant
helicase, T4-bacteriophage, recombination, hydrolase;
2.70A {Enterobacteria phage T4}
Length = 510
Score = 46.4 bits (109), Expect = 8e-07
Identities = 16/103 (15%), Positives = 37/103 (35%), Gaps = 1/103 (0%)
Query: 49 VLVFVQSKERAQELYNELIYDGINVDVIHSDRTQKQRDNVVRSFRTGRIWILITT-ELLG 107
V + + +++ + + V + + + R+ + G+ I++ + +
Sbjct: 350 AFVMFKHVSHGKAIFDLIKNEYDKVYYVSGEVDTETRNIMKTLAENGKGIIIVASYGVFS 409
Query: 108 RGIDFRTVRLVVNYDFPSSAISYIHRIGRAGRGGREGKAVTFF 150
GI + + VV S I + IGR R T +
Sbjct: 410 TGISVKNLHHVVLAHGVKSKIIVLQTIGRVLRKHGSKTIATVW 452
>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 = 41.3 bits (97), Expect = 5e-05
Identities = 35/146 (23%), Positives = 51/146 (34%), Gaps = 39/146 (26%)
Query: 48 PVLVFVQSK----ERAQELYNELIYDGIN--------------------------VDVIH 77
VLVF ++ + A +L N H
Sbjct: 244 GVLVFESTRRGAEKTAVKLSAITAKYVENEGLEKAILEENEGEMSRKLAECVRKGAAFHH 303
Query: 78 SDRTQKQRDNVVRSFRTGRIWILITTELLGRGIDF--RTV--RLVVNYDFPSSAIS---Y 130
+ QR V +FR G I +++ T L G++ R V R + +D S I Y
Sbjct: 304 AGLLNGQRRVVEDAFRRGNIKVVVATPTLAAGVNLPARRVIVRSLYRFDGYSKRIKVSEY 363
Query: 131 IHRIGRAGRGG--REGKAVTFFTKQD 154
GRAGR G G+A+ K+D
Sbjct: 364 KQMAGRAGRPGMDERGEAIIIVGKRD 389
>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 = 41.0 bits (96), Expect = 7e-05
Identities = 30/151 (19%), Positives = 50/151 (33%), Gaps = 43/151 (28%)
Query: 48 PVLVFVQSKERAQ-----------------------ELYNELIYDGIN----------VD 74
L+FV + +A+ EL + L + N V
Sbjct: 239 GALIFVNMRRKAERVALELSKKVKSLLTKPEIRALNELADSLEENPTNEKLAKAIRGGVA 298
Query: 75 VIHSDRTQKQRDNVVRSFRTGRIWILITTELLGRGIDF--RTVRLVVNYDFPSSAISYIH 132
H+ + +R V +FR G I ++ T L GI+ V + + + + I
Sbjct: 299 FHHAGLGRDERVLVEENFRKGIIKAVVATPTLSAGINTPAFRVIIRDIWRYSDFGMERIP 358
Query: 133 R------IGRAGRGG--REGKAVTFFTKQDA 155
+GRAGR G+ + T D
Sbjct: 359 IIEVHQMLGRAGRPKYDEVGEGIIVSTSDDP 389
>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 = 40.4 bits (94), Expect = 1e-04
Identities = 30/128 (23%), Positives = 43/128 (33%), Gaps = 29/128 (22%)
Query: 50 LVFVQSKERAQELYNELIYDGINVDVIHSDRTQKQRDNVVRSFRTGRIWILITTELLGRG 109
L+F SK++ EL +L GIN + T +++ T+ L G
Sbjct: 400 LIFCHSKKKCDELAAKLSGLGINAVAYYRGLDVSV-------IPTIGDVVVVATDALMTG 452
Query: 110 --------IDFRTVRL-VVNYDF-----------PSSAISYIHRIGRAGRGGREGKAVTF 149
ID T V++ P A+S R GR GRG F
Sbjct: 453 YTGDFDSVIDCNTCVTQTVDFSLDPTFTIETTTVPQDAVSRSQRRGRTGRG--RRGIYRF 510
Query: 150 FTKQDAPL 157
T + P
Sbjct: 511 VTPGERPS 518
>1c4o_A DNA nucleotide excision repair enzyme UVRB; uvrabc, helicase,
hypertherm protein, replication; HET: DNA BOG; 1.50A
{Thermus thermophilus} SCOP: c.37.1.19 c.37.1.19 PDB:
1d2m_A*
Length = 664
Score = 37.6 bits (88), Expect = 9e-04
Identities = 32/96 (33%), Positives = 43/96 (44%), Gaps = 5/96 (5%)
Query: 49 VLVFVQSKERAQELYNELIYDGINVDVIHSDRTQKQRDNVVRSFRTGRIWILITTELLGR 108
LV V + A+EL + L+ GI +H + +R ++R R G L+ LL
Sbjct: 442 TLVTVLTVRMAEELTSFLVEHGIRARYLHHELDAFKRQALIRDLRLGHYDCLVGINLLRE 501
Query: 109 GIDFRTVRLVVNYD-----FPSSAISYIHRIGRAGR 139
G+D V LV D F S S I IGRA R
Sbjct: 502 GLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAAR 537
>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 = 37.5 bits (87), Expect = 9e-04
Identities = 21/125 (16%), Positives = 43/125 (34%), Gaps = 23/125 (18%)
Query: 49 VLVFVQSKERAQELYNELIYDGINVDVIHSDRTQKQRDNVVRSFRTGRIWILITTELLGR 108
F+ S A + L G +V V++ +T ++ + + + ++ T++
Sbjct: 180 TAWFLPSIRAANVMAASLRKAGKSVVVLNR-KTFER---EYPTIKQKKPDFILATDIAEM 235
Query: 109 G--IDFRTV----------------RLVVNYDFPSSAISYIHRIGRAGR-GGREGKAVTF 149
G + V ++ + SA S R GR GR R+G + +
Sbjct: 236 GANLCVERVLDCRTAFKPVLVDEGRKVAIKGPLRISASSAAQRRGRIGRNPNRDGDSYYY 295
Query: 150 FTKQD 154
Sbjct: 296 SEPTS 300
>2d7d_A Uvrabc system protein B; helicase, protein-DNA-ADP ternary complex,
hydrolase/DNA complex; HET: ADP; 2.10A {Bacillus
subtilis} PDB: 2nmv_A* 2fdc_A* 1t5l_A 3uwx_B 1d9z_A*
1d9x_A 2d7d_B* 2nmv_B*
Length = 661
Score = 37.1 bits (87), Expect = 0.001
Identities = 33/96 (34%), Positives = 49/96 (51%), Gaps = 5/96 (5%)
Query: 49 VLVFVQSKERAQELYNELIYDGINVDVIHSDRTQKQRDNVVRSFRTGRIWILITTELLGR 108
VLV +K+ +++L + L GI V+ +HS+ +R ++R R G+ +L+ LL
Sbjct: 448 VLVTTLTKKMSEDLTDYLKEIGIKVNYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLRE 507
Query: 109 GIDFRTVRLVVNYD-----FPSSAISYIHRIGRAGR 139
G+D V LV D F S S I IGRA R
Sbjct: 508 GLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAAR 543
>3rc3_A ATP-dependent RNA helicase SUPV3L1, mitochondrial; SUV3, nucleus,
hydrolase; HET: ANP; 2.08A {Homo sapiens} PDB: 3rc8_A
Length = 677
Score = 34.5 bits (78), Expect = 0.010
Identities = 26/135 (19%), Positives = 46/135 (34%), Gaps = 17/135 (12%)
Query: 42 LLGIEPPVLVFVQSKERAQELYNELIYDGINVDVIHSDRTQKQRDNVVRSFRT--GRIWI 99
L + P + SK + ++ G+ VI+ + + F I
Sbjct: 316 LDNLRPGDCIVCFSKNDIYSVSRQIEIRGLESAVIYGSLPPGTKLAQAKKFNDPNDPCKI 375
Query: 100 LITTELLGRGIDFRTVRLV----VNYDFPSSAISYIHRI---------GRAGRGGREGKA 146
L+ T+ +G G++ R++ + + I GRAGR K
Sbjct: 376 LVATDAIGMGLNLSIRRIIFYSLIKPSINEKGERELEPITTSQALQIAGRAGRFSSRFKE 435
Query: 147 --VTFFTKQDAPLLR 159
VT +D LL+
Sbjct: 436 GEVTTMNHEDLSLLK 450
>2va8_A SSO2462, SKI2-type helicase; hydrolase, DNA repair, ATP-bindin
nucleotide-binding; 2.30A {Sulfolobus solfataricus}
Length = 715
Score = 33.6 bits (77), Expect = 0.019
Identities = 21/93 (22%), Positives = 39/93 (41%), Gaps = 13/93 (13%)
Query: 77 HSDRTQKQRDNVVRSFRTGRIWILITTELLGRGIDF--RTV---------RLVVNYDFPS 125
H+ ++ RD + FR +I +++ T L G++ RTV + + Y
Sbjct: 319 HAGLSKALRDLIEEGFRQRKIKVIVATPTLAAGVNLPARTVIIGDIYRFNKKIAGYYDEI 378
Query: 126 SAISYIHRIGRAGRGGR--EGKAVTFFTKQDAP 156
+ Y GRAGR G G+++ ++
Sbjct: 379 PIMEYKQMSGRAGRPGFDQIGESIVVVRDKEDV 411
>3h1t_A Type I site-specific restriction-modification system, R
(restriction) subunit; hydrolase, restriction enzyme
HSDR, ATP-binding; 2.30A {Vibrio vulnificus}
Length = 590
Score = 32.4 bits (74), Expect = 0.043
Identities = 24/103 (23%), Positives = 38/103 (36%), Gaps = 16/103 (15%)
Query: 50 LVFVQSKERAQELYNELIYDGINVDVIHSDRT----------QKQRDNVVRSFRTGRIWI 99
+VF +E A E+ L ++ H D K + + T I
Sbjct: 443 IVFCVDQEHADEMRRALNNLNSDLSRKHPDYVARVTSEEGKIGKGHLSRFQELETSTPVI 502
Query: 100 LITTELLGRGIDFRTVRLVVNYDF--P-SSAISYIHRIGRAGR 139
L T++LL G+D T + VV +S + +GR R
Sbjct: 503 LTTSQLLTTGVDAPTCKNVV---LARVVNSMSEFKQIVGRGTR 542
>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 = 31.8 bits (72), Expect = 0.091
Identities = 21/112 (18%), Positives = 35/112 (31%), Gaps = 23/112 (20%)
Query: 49 VLVFVQSKERAQELYNELIYDGINVDVIHSDRTQKQRDNVVRSFRTGRIWILITTELLGR 108
+ FV S + ++ N L G V + +T + ++TT++
Sbjct: 358 TVWFVPSIKAGNDIANCLRKSGKRVIQLSR-KTFDT---EYPKTKLTDWDFVVTTDISEM 413
Query: 109 G--IDFRTV-------RLVVNYDFPS----------SAISYIHRIGRAGRGG 141
G V + V+ D P + S R GR GR
Sbjct: 414 GANFRAGRVIDPRRCLKPVILTDGPERVILAGPIPVTPASAAQRRGRIGRNP 465
>2v6i_A RNA helicase; membrane, hydrolase, transmembrane, RNA replication,
viral replication, nucleotide-binding; 2.10A {Kokobera
virus} PDB: 2v6j_A
Length = 431
Score = 30.6 bits (69), Expect = 0.20
Identities = 20/108 (18%), Positives = 37/108 (34%), Gaps = 20/108 (18%)
Query: 49 VLVFVQSKERAQELYNELIYDGINVDVIHSDRTQKQRDNVVRSFRTGRIWILITTELLGR 108
+ FV S ++ E+ L G V ++ +T + ++ + +ITT++
Sbjct: 174 TVWFVHSIKQGAEIGTCLQKAGKKVLYLNR-KTFES---EYPKCKSEKWDFVITTDISEM 229
Query: 109 G--IDFRTV----RLVVNYDFPS-------SAISY---IHRIGRAGRG 140
G V + + AI+ R GR GR
Sbjct: 230 GANFKADRVIDPRKTIKPILLDGRVSMQGPIAITPASAAQRRGRIGRN 277
>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 = 30.2 bits (67), Expect = 0.35
Identities = 16/78 (20%), Positives = 27/78 (34%), Gaps = 14/78 (17%)
Query: 79 DRTQKQRDNVVRSFRTGRIWILIT--TELLGRGIDFRTVRLVVNYDFPSSAISYIHRIGR 136
D +D V + R W L++ E++ + F L +NY F S I R
Sbjct: 52 DHIIMSKDAVSGTLRL--FWTLLSKQEEMVQK---FVEEVLRINYKFLMSPIKTEQR--- 103
Query: 137 AGRGGREGKAVTFFTKQD 154
+ ++D
Sbjct: 104 ----QPSMMTRMYIEQRD 117
>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 = 29.8 bits (67), Expect = 0.35
Identities = 20/118 (16%), Positives = 34/118 (28%), Gaps = 33/118 (27%)
Query: 48 PVLVFVQSKERAQELYNELIYDGINVDVIHSDRTQKQRDNVVRSFRTGRIWILIT----- 102
+ FV S + ++ N L G V + +T ++ T +++ T
Sbjct: 190 KTVWFVPSIKAGNDIANCLRKSGKRVIQLSR-KTFDT--EYPKTKLTDWDFVVTTDISEM 246
Query: 103 --TELLGRGIDFRTV-------RLVVNYDFPS----------SAISYIHRIGRAGRGG 141
V + V+ D P + S R GR GR
Sbjct: 247 GAN------FRAGRVIDPRRCLKPVILTDGPERVILAGPIPVTPASAAQRRGRIGRNP 298
>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 = 30.0 bits (67), Expect = 0.40
Identities = 21/131 (16%), Positives = 41/131 (31%), Gaps = 37/131 (28%)
Query: 6 NHTNPALKRRVKSNLARMYRETEGAGSPVQAQDETILLGIEPPVLVFVQSKERAQELYNE 65
+N AL R V A++ G G+ +E L ++LY
Sbjct: 139 KKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEE--L-----------------RDLYQ- 178
Query: 66 LIYDGINVDVIHSDRTQKQRDNVVRSFRTGRIWILITTELLGRGIDFRT------VRLVV 119
Y + D+I + + ++R+ ++ +G++
Sbjct: 179 -TYHVLVGDLI--KFSAETLSELIRTTLD-------AEKVFTQGLNILEWLENPSNTPDK 228
Query: 120 NYDFPSSAISY 130
+Y S IS
Sbjct: 229 DY-LLSIPISC 238
Score = 29.2 bits (65), Expect = 0.57
Identities = 21/108 (19%), Positives = 32/108 (29%), Gaps = 37/108 (34%)
Query: 54 QSKERAQELYNELIYDGINVDVIHSDRTQKQRDNVVRSFRTGRIWILI---TTELLGRGI 110
Q + +LY S + +W + G
Sbjct: 1627 QEQGMGMDLYKT------------SK--------AAQ-----DVWNRADNHFKDTYG--- 1658
Query: 111 DFRTVRLVVNYDFPSSAISYIHRIGRAGRGGREG-KAVTFFTKQDAPL 157
F + +V+N P + IH G G+ RE A+ F T D L
Sbjct: 1659 -FSILDIVINN--PVNL--TIHFGGEKGKRIRENYSAMIFETIVDGKL 1701
>2xgj_A ATP-dependent RNA helicase DOB1; hydrolase-RNA complex, hydrolase,
tramp, exosome, DEAD, nucleotide-binding; HET: ADP;
2.90A {Saccharomyces cerevisiae}
Length = 1010
Score = 29.0 bits (64), Expect = 0.88
Identities = 21/90 (23%), Positives = 34/90 (37%), Gaps = 10/90 (11%)
Query: 77 HSDRTQKQRDNVVRSFRTGRIWILITTELLGRGIDF--RTVRLVVNYDF------PSSAI 128
HS ++ + F+ G + +L TE G++ +TV + S
Sbjct: 413 HSGLLPILKEVIEILFQEGFLKVLFATETFSIGLNMPAKTVVFTSVRKWDGQQFRWVSGG 472
Query: 129 SYIHRIGRAGRGG--REGKAVTFFTKQDAP 156
YI GRAGR G G + ++ P
Sbjct: 473 EYIQMSGRAGRRGLDDRGIVIMMIDEKMEP 502
>3l9o_A ATP-dependent RNA helicase DOB1; REC-A fold,
winged-helix-turn-helix, antiparallel-coiled-COI domain,
ATP-binding, helicase, hydrolase; 3.39A {Saccharomyces
cerevisiae}
Length = 1108
Score = 28.7 bits (63), Expect = 0.89
Identities = 21/90 (23%), Positives = 34/90 (37%), Gaps = 10/90 (11%)
Query: 77 HSDRTQKQRDNVVRSFRTGRIWILITTELLGRGIDF--RTVRLVVNYDF------PSSAI 128
HS ++ + F+ G + +L TE G++ +TV + S
Sbjct: 511 HSGLLPILKEVIEILFQEGFLKVLFATETFSIGLNMPAKTVVFTSVRKWDGQQFRWVSGG 570
Query: 129 SYIHRIGRAGRGG--REGKAVTFFTKQDAP 156
YI GRAGR G G + ++ P
Sbjct: 571 EYIQMSGRAGRRGLDDRGIVIMMIDEKMEP 600
>2eyq_A TRCF, transcription-repair coupling factor; MFD, SF2 ATPase,
hydrolase; HET: EPE; 3.20A {Escherichia coli} SCOP:
b.34.18.1 c.37.1.19 c.37.1.19 c.37.1.19 c.37.1.19
d.315.1.1
Length = 1151
Score = 28.1 bits (63), Expect = 1.6
Identities = 13/50 (26%), Positives = 29/50 (58%), Gaps = 1/50 (2%)
Query: 71 INVDVIHSDRTQKQRDNVVRSFRTGRIWILITT-ELLGRGIDFRTVRLVV 119
+ +++I R+ K++ ++ G+I ILI T +LL + F+ + L++
Sbjct: 681 VRIEMISRFRSAKEQTQILAEVAEGKIDILIGTHKLLQSDVKFKDLGLLI 730
>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 = 28.0 bits (63), Expect = 1.8
Identities = 14/48 (29%), Positives = 27/48 (56%), Gaps = 3/48 (6%)
Query: 59 AQELYNEL---IYDGINVDVIHSDRTQKQRDNVVRSFRTGRIWILITT 103
A E+Y L ++ + ++H +Q+++D V+ F GR IL++T
Sbjct: 599 AVEMYEYLSKEVFPEFKLGLMHGRLSQEEKDRVMLEFAEGRYDILVST 646
>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 = 27.1 bits (60), Expect = 2.7
Identities = 20/111 (18%), Positives = 34/111 (30%), Gaps = 23/111 (20%)
Query: 49 VLVFVQSKERAQELYNELIYDGINVDVIHSDRTQKQRDNVVRSFRTGRIWILITTELLGR 108
+ FV S + E+ L G V ++ ++ D + G +ITT++
Sbjct: 193 TVWFVASVKMGNEIAMCLQRAGKKVIQLNR-KSY---DTEYPKCKNGDWDFVITTDISEM 248
Query: 109 G--IDFRTV-------RLVVNYDFPSSAISY----------IHRIGRAGRG 140
G V + + + I R GR GR
Sbjct: 249 GANFGASRVIDCRKSVKPTILEEGEGRVILGNPSPITSASAAQRRGRVGRN 299
>1z5z_A Helicase of the SNF2/RAD54 family; hydrolase, recombination,
hydrolase-recombination complex; 2.00A {Sulfolobus
solfataricus} SCOP: c.37.1.19
Length = 271
Score = 26.4 bits (59), Expect = 3.9
Identities = 8/48 (16%), Positives = 24/48 (50%), Gaps = 1/48 (2%)
Query: 49 VLVFVQSKERAQELYNELI-YDGINVDVIHSDRTQKQRDNVVRSFRTG 95
+ +F Q + + + N + V ++ + ++K+RD+++ F+
Sbjct: 115 IAIFTQFVDMGKIIRNIIEKELNTEVPFLYGELSKKERDDIISKFQNN 162
>1z63_A Helicase of the SNF2/RAD54 hamily; protein-DNA complex,
hydrolase/DNA complex complex; 3.00A {Sulfolobus
solfataricus} SCOP: c.37.1.19 c.37.1.19 PDB: 1z6a_A
Length = 500
Score = 26.0 bits (58), Expect = 6.8
Identities = 8/49 (16%), Positives = 24/49 (48%), Gaps = 1/49 (2%)
Query: 49 VLVFVQSKERAQELYNELI-YDGINVDVIHSDRTQKQRDNVVRSFRTGR 96
+ +F Q + + + N + V ++ + ++K+RD+++ F+
Sbjct: 344 IAIFTQFVDMGKIIRNIIEKELNTEVPFLYGELSKKERDDIISKFQNNP 392
>1g5h_A Mitochondrial DNA polymerase accessory subunit; intermolecular four
helix bundle, DNA binding protein; 1.95A {Mus musculus}
SCOP: c.51.1.1 d.104.1.1 PDB: 1g5i_A 2g4c_A* 3ikm_B*
Length = 454
Score = 25.8 bits (56), Expect = 8.0
Identities = 11/62 (17%), Positives = 27/62 (43%), Gaps = 10/62 (16%)
Query: 32 SPVQAQDETILLGIEPPVLVFVQSKERAQELYNELIYDGINVDVIHSDRTQKQRDNVVRS 91
+P++ ++ V+ ++ Q L NEL+ +GI+V +S+ ++ +
Sbjct: 337 APIKV-------ALDVGKGPTVELRQVCQGLLNELLENGISVWPGYSE---TVHSSLEQL 386
Query: 92 FR 93
Sbjct: 387 HS 388
>4e15_A Kynurenine formamidase; alpha/beta hydrolase fold,
hydrolase-hydrolase inhibitor COM; HET: SEB; 1.50A
{Drosophila melanogaster} PDB: 4e14_A* 4e11_A
Length = 303
Score = 25.7 bits (56), Expect = 8.8
Identities = 5/53 (9%), Positives = 15/53 (28%), Gaps = 6/53 (11%)
Query: 30 AGSPVQAQDETILLGIEPPVLVFVQSKER------AQELYNELIYDGINVDVI 76
+ SP+ + + + + V + ++ + L G
Sbjct: 220 SVSPMLWEYTDVTVWNSTKIYVVAAEHDSTTFIEQSRHYADVLRKKGYKASFT 272
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
0.322 0.139 0.399
Gapped
Lambda K H
0.267 0.0586 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,430,398
Number of extensions: 141661
Number of successful extensions: 522
Number of sequences better than 10.0: 1
Number of HSP's gapped: 469
Number of HSP's successfully gapped: 73
Length of query: 159
Length of database: 6,701,793
Length adjustment: 86
Effective length of query: 73
Effective length of database: 4,300,587
Effective search space: 313942851
Effective search space used: 313942851
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: 53 (24.5 bits)