BLASTP 2.2.26 [Sep-21-2011]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= 004098
(774 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1OYY|A Chain A, Structure Of The Recq Catalytic Core Bound To Atp-Gamma-S
Length = 523
Score = 155 bits (392), Expect = 8e-38, Method: Compositional matrix adjust.
Identities = 88/220 (40%), Positives = 126/220 (57%), Gaps = 15/220 (6%)
Query: 156 DWEVKVNSLLKKHFGHSSLKNFQKEALSAWLAHHDCLVLAATGSGKSLCFQIPALLTGKV 215
+ E +L++ FG+ + Q+E + L+ DCLV+ TG GKSLC+QIPALL +
Sbjct: 8 NLESGAKQVLQETFGYQQFRPGQEEIIDTVLSGRDCLVVMPTGGGKSLCYQIPALLLNGL 67
Query: 216 VVVISPLISLMHDQCSKLSKHGVTACFLGSGQPDNK---VEQKALRGMYSIIYVCPETVI 272
VV+SPLISLM DQ +L +GV A L S Q + V G ++Y+ PE ++
Sbjct: 68 TVVVSPLISLMKDQVDQLQANGVAAACLNSTQTREQQLEVMTGCRTGQIRLLYIAPERLM 127
Query: 273 RLIKPLQRLAESRGIALFAIDEVHCVSKWGHDFRPDYRRLSVLRENFGANNLKSLKFDIP 332
L L+ LA + L A+DE HC+S+WGHDFRP+Y L LR+ F +P
Sbjct: 128 -LDNFLEHLAHWNPV-LLAVDEAHCISQWGHDFRPEYAALGQLRQRFPT---------LP 176
Query: 333 LMALTATATIQVREDILKSLHMSKGTKFVLTSFFRPNLRF 372
MALTATA R+DI++ L ++ ++SF RPN+R+
Sbjct: 177 FMALTATADDTTRQDIVRLLGLNDPL-IQISSFDRPNIRY 215
Score = 126 bits (317), Expect = 4e-29, Method: Compositional matrix adjust.
Identities = 74/197 (37%), Positives = 111/197 (56%), Gaps = 14/197 (7%)
Query: 516 IIYVPTRKETLSIAKYLCGFGVKAAAYNASLPKSQLRRVHTEFHENKLEVVVATIAFGMG 575
IIY +R + A L G+ AAAY+A L + V +F + L++VVAT+AFGMG
Sbjct: 240 IIYCNSRAKVEDTAARLQSKGISAAAYHAGLENNVRADVQEKFQRDDLQIVVATVAFGMG 299
Query: 576 IDKLNVRRIIHYGWPQSLEAYYQEAGRAGRDGHLADCVLYANLSSMPTLLPSRRSEDQTK 635
I+K NVR ++H+ P+++E+YYQE GRAGRDG A+ +L+ + + M L RR ++
Sbjct: 300 INKPNVRFVVHFDIPRNIESYYQETGRAGRDGLPAEAMLFYDPADMAWL---RRCLEEKP 356
Query: 636 QAYRMLSDCFRYGMN-------TSCCRAKILVEYFGEDFSHEKCQLCDVCVDGPPEMKNL 688
Q L D R+ +N CR +L+ YFGE E C CD+C+D PP+ +
Sbjct: 357 QG--QLQDIERHKLNAMGAFAEAQTCRRLVLLNYFGEG-RQEPCGNCDICLD-PPKQYDG 412
Query: 689 KEEANILMQVIAAYNEQ 705
+A I + I N++
Sbjct: 413 STDAQIALSTIGRVNQR 429
>pdb|1OYW|A Chain A, Structure Of The Recq Catalytic Core
Length = 523
Score = 150 bits (379), Expect = 3e-36, Method: Compositional matrix adjust.
Identities = 86/222 (38%), Positives = 124/222 (55%), Gaps = 15/222 (6%)
Query: 156 DWEVKVNSLLKKHFGHSSLKNFQKEALSAWLAHHDCLVLAATGSGKSLCFQIPALLTGKV 215
+ E +L++ FG+ + Q+E + L+ DCLV+ TG GKSLC+QIPALL +
Sbjct: 8 NLESGAKQVLQETFGYQQFRPGQEEIIDTVLSGRDCLVVXPTGGGKSLCYQIPALLLNGL 67
Query: 216 VVVISPLISLMHDQCSKLSKHGVTACFLGSGQPDNK---VEQKALRGMYSIIYVCPETVI 272
VV+SPLISL DQ +L +GV A L S Q + V G ++Y+ PE +
Sbjct: 68 TVVVSPLISLXKDQVDQLQANGVAAACLNSTQTREQQLEVXTGCRTGQIRLLYIAPER-L 126
Query: 273 RLIKPLQRLAESRGIALFAIDEVHCVSKWGHDFRPDYRRLSVLRENFGANNLKSLKFDIP 332
L L+ LA + L A+DE HC+S+WGHDFRP+Y L LR+ F +P
Sbjct: 127 XLDNFLEHLAHWNPV-LLAVDEAHCISQWGHDFRPEYAALGQLRQRFPT---------LP 176
Query: 333 LMALTATATIQVREDILKSLHMSKGTKFVLTSFFRPNLRFSV 374
ALTATA R+DI++ L ++ ++SF RPN+R+ +
Sbjct: 177 FXALTATADDTTRQDIVRLLGLNDPL-IQISSFDRPNIRYXL 217
Score = 121 bits (304), Expect = 1e-27, Method: Compositional matrix adjust.
Identities = 75/215 (34%), Positives = 114/215 (53%), Gaps = 14/215 (6%)
Query: 498 KPAERLSMLQEPLEDGLTIIYVPTRKETLSIAKYLCGFGVKAAAYNASLPKSQLRRVHTE 557
KP ++L + IIY +R + A L G+ AAAY+A L + V +
Sbjct: 222 KPLDQLXRYVQEQRGKSGIIYCNSRAKVEDTAARLQSKGISAAAYHAGLENNVRADVQEK 281
Query: 558 FHENKLEVVVATIAFGMGIDKLNVRRIIHYGWPQSLEAYYQEAGRAGRDGHLADCVLYAN 617
F + L++VVAT+AFG GI+K NVR ++H+ P+++E+YYQE GRAGRDG A+ L+ +
Sbjct: 282 FQRDDLQIVVATVAFGXGINKPNVRFVVHFDIPRNIESYYQETGRAGRDGLPAEAXLFYD 341
Query: 618 LSSMPTLLPSRRSEDQTKQAYRMLSDCFRYGMN-------TSCCRAKILVEYFGEDFSHE 670
+ L RR ++ Q L D R+ +N CR +L+ YFGE E
Sbjct: 342 PADXAWL---RRCLEEKPQG--QLQDIERHKLNAXGAFAEAQTCRRLVLLNYFGEG-RQE 395
Query: 671 KCQLCDVCVDGPPEMKNLKEEANILMQVIAAYNEQ 705
C CD+C+D PP+ + +A I + I N++
Sbjct: 396 PCGNCDICLD-PPKQYDGSTDAQIALSTIGRVNQR 429
>pdb|2V1X|A Chain A, Crystal Structure Of Human Recq-Like Dna Helicase
pdb|2V1X|B Chain B, Crystal Structure Of Human Recq-Like Dna Helicase
pdb|2WWY|A Chain A, Structure Of Human Recq-Like Helicase In Complex With A
Dna Substrate
pdb|2WWY|B Chain B, Structure Of Human Recq-Like Helicase In Complex With A
Dna Substrate
Length = 591
Score = 144 bits (364), Expect = 2e-34, Method: Compositional matrix adjust.
Identities = 87/246 (35%), Positives = 126/246 (51%), Gaps = 19/246 (7%)
Query: 157 WEVKVNSLLKKHFGHSSLKNFQKEALSAWLAHHDCLVLAATGSGKSLCFQIPALLTGKVV 216
W KV +L+ F + Q E ++ +A + ++ TG GKSLC+Q+PAL +
Sbjct: 28 WSGKVKDILQNVFKLEKFRPLQLETINVTMAGKEVFLVMPTGGGKSLCYQLPALCSDGFT 87
Query: 217 VVISPLISLMHDQCSKLSKHGVTACFLGSGQPDNKV-----EQKALRGMYSIIYVCPETV 271
+VI PLISLM DQ L + G++A L + V E +IYV PE +
Sbjct: 88 LVICPLISLMEDQLMVLKQLGISATMLNASSSKEHVKWVHAEMVNKNSELKLIYVTPEKI 147
Query: 272 IR---LIKPLQRLAESRGIALFAIDEVHCVSKWGHDFRPDYRRLSVLRENFGANNLKSLK 328
+ + L++ E+R A+DEVHC S+WGHDFRPDY+ L +L+ F
Sbjct: 148 AKSKMFMSRLEKAYEARRFTRIAVDEVHCCSQWGHDFRPDYKALGILKRQFP-------- 199
Query: 329 FDIPLMALTATATIQVREDILKSLHMSKGTKFVLTSFFRPNLRFSVKHSKTSSRASYKKD 388
+ L+ LTATAT V D K L + K F SF RPNL + V+ K S+ + +D
Sbjct: 200 -NASLIGLTATATNHVLTDAQKILCIEKCFTFT-ASFNRPNLYYEVRQ-KPSNTEDFIED 256
Query: 389 FCQLID 394
+LI+
Sbjct: 257 IVKLIN 262
Score = 125 bits (315), Expect = 7e-29, Method: Compositional matrix adjust.
Identities = 79/230 (34%), Positives = 126/230 (54%), Gaps = 18/230 (7%)
Query: 489 SFERTDLLNKPAERLSMLQEPLEDGLT-----------IIYVPTRKETLSIAKYLCGFGV 537
SF R +L + ++ S ++ +ED + IIY ++K++ + L G+
Sbjct: 233 SFNRPNLYYEVRQKPSNTEDFIEDIVKLINGRYKGQSGIIYCFSQKDSEQVTVSLQNLGI 292
Query: 538 KAAAYNASLPKSQLRRVHTEFHENKLEVVVATIAFGMGIDKLNVRRIIHYGWPQSLEAYY 597
A AY+A+L VH ++ N+++VVVAT+AFGMGIDK +VR +IH+ +S+E YY
Sbjct: 293 HAGAYHANLEPEDKTTVHRKWSANEIQVVVATVAFGMGIDKPDVRFVIHHSMSKSMENYY 352
Query: 598 QEAGRAGRDGHLADCVLYANLSSMPTLLPSRRSEDQTKQA-YRMLSDCFRYGMNTSCCRA 656
QE+GRAGRD ADC+LY + + E+ +Q Y M+S C N S CR
Sbjct: 353 QESGRAGRDDMKADCILYYGFGDIFRISSMVVMENVGQQKLYEMVSYC----QNISKCRR 408
Query: 657 KILVEYFGEDFSHEKC-QLCD-VCVDGPPEMKNLKEEANILMQVIAAYNE 704
++ ++F E ++ E C ++CD C D E KN+ E L++++ E
Sbjct: 409 VLMAQHFDEVWNSEACNKMCDNCCKDSAFERKNITEYCRDLIKILKQAEE 458
>pdb|1HV8|A Chain A, Crystal Structure Of A Dead Box Protein From The
Hyperthermophile Methanococcus Jannaschii
pdb|1HV8|B Chain B, Crystal Structure Of A Dead Box Protein From The
Hyperthermophile Methanococcus Jannaschii
Length = 367
Score = 58.5 bits (140), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 31/102 (30%), Positives = 53/102 (51%)
Query: 516 IIYVPTRKETLSIAKYLCGFGVKAAAYNASLPKSQLRRVHTEFHENKLEVVVATIAFGMG 575
+++ T+++T +A L G KA A + L +SQ +V F + K+ +++AT G
Sbjct: 242 LVFCKTKRDTKELASXLRDIGFKAGAIHGDLSQSQREKVIRLFKQKKIRILIATDVXSRG 301
Query: 576 IDKLNVRRIIHYGWPQSLEAYYQEAGRAGRDGHLADCVLYAN 617
ID ++ +I+Y PQ+ E+Y GR GR G + N
Sbjct: 302 IDVNDLNCVINYHLPQNPESYXHRIGRTGRAGKKGKAISIIN 343
>pdb|2JGN|A Chain A, Ddx3 Helicase Domain
pdb|2JGN|B Chain B, Ddx3 Helicase Domain
pdb|2JGN|C Chain C, Ddx3 Helicase Domain
Length = 185
Score = 55.1 bits (131), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 31/115 (26%), Positives = 53/115 (46%)
Query: 503 LSMLQEPLEDGLTIIYVPTRKETLSIAKYLCGFGVKAAAYNASLPKSQLRRVHTEFHENK 562
L +L +D LT+++V T+K S+ +L G + + + +F K
Sbjct: 37 LDLLNATGKDSLTLVFVETKKGADSLEDFLYHEGYACTSIHGDRSQRDREEALHQFRSGK 96
Query: 563 LEVVVATIAFGMGIDKLNVRRIIHYGWPQSLEAYYQEAGRAGRDGHLADCVLYAN 617
++VAT G+D NV+ +I++ P +E Y GR GR G+L + N
Sbjct: 97 SPILVATAVAARGLDISNVKHVINFDLPSDIEEYVHRIGRTGRVGNLGLATSFFN 151
>pdb|2I4I|A Chain A, Crystal Structure Of Human Dead-Box Rna Helicase Ddx3x
Length = 417
Score = 54.7 bits (130), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 31/115 (26%), Positives = 53/115 (46%)
Query: 503 LSMLQEPLEDGLTIIYVPTRKETLSIAKYLCGFGVKAAAYNASLPKSQLRRVHTEFHENK 562
L +L +D LT+++V T+K S+ +L G + + + +F K
Sbjct: 267 LDLLNATGKDSLTLVFVETKKGADSLEDFLYHEGYACTSIHGDRSQRDREEALHQFRSGK 326
Query: 563 LEVVVATIAFGMGIDKLNVRRIIHYGWPQSLEAYYQEAGRAGRDGHLADCVLYAN 617
++VAT G+D NV+ +I++ P +E Y GR GR G+L + N
Sbjct: 327 SPILVATAVAARGLDISNVKHVINFDLPSDIEEYVHRIGRTGRVGNLGLATSFFN 381
Score = 30.0 bits (66), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 21/69 (30%), Positives = 32/69 (46%), Gaps = 7/69 (10%)
Query: 146 SCPKEVEIGSDWE----VKVNSLLKKHFGHSSLKNFQKEALSAWLAHHDCLVLAATGSGK 201
+CP +E SD E + N L ++ + + QK A+ D + A TGSGK
Sbjct: 9 NCPPHIESFSDVEMGEIIMGNIELTRYTRPTPV---QKHAIPIIKEKRDLMACAQTGSGK 65
Query: 202 SLCFQIPAL 210
+ F +P L
Sbjct: 66 TAAFLLPIL 74
>pdb|1S2M|A Chain A, Crystal Structure Of The Dead Box Protein Dhh1p
Length = 400
Score = 50.8 bits (120), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 30/115 (26%), Positives = 53/115 (46%)
Query: 503 LSMLQEPLEDGLTIIYVPTRKETLSIAKYLCGFGVKAAAYNASLPKSQLRRVHTEFHENK 562
L+ L L+ II+ + +AK + G +A + + + +V EF + K
Sbjct: 249 LNTLFSKLQINQAIIFCNSTNRVELLAKKITDLGYSCYYSHARMKQQERNKVFHEFRQGK 308
Query: 563 LEVVVATIAFGMGIDKLNVRRIIHYGWPQSLEAYYQEAGRAGRDGHLADCVLYAN 617
+ +V + GID V +I++ +P++ E Y GR+GR GHL + N
Sbjct: 309 VRTLVCSDLLTRGIDIQAVNVVINFDFPKTAETYLHRIGRSGRFGHLGLAINLIN 363
Score = 37.7 bits (86), Expect = 0.026, Method: Compositional matrix adjust.
Identities = 45/186 (24%), Positives = 81/186 (43%), Gaps = 24/186 (12%)
Query: 177 FQKEALSAWLAHHDCLVLAATGSGKSLCFQIPALLTGK--------VVVVISPLISLMHD 228
Q+EA+ + D L A G+GK+ F IP L K +++V + ++L
Sbjct: 47 IQEEAIPVAITGRDILARAKNGTGKTAAFVIPTLEKVKPKLNKIQALIMVPTRELALQTS 106
Query: 229 QCSK-LSKHGVTACFLGSGQPDNKVEQKALRGMYSIIYVCPETVIRLIKPLQRLAESRGI 287
Q + L KH +C + +G + + + L I+ P V+ L +++A+
Sbjct: 107 QVVRTLGKHCGISCMVTTGGTNLRDDILRLNETVHILVGTPGRVLDLAS--RKVADLSDC 164
Query: 288 ALFAIDEVHCVSKWGHDFRPDYRRLSVLRENFGANNLKSLKFDIPLMALTATATIQVRED 347
+LF +DE DF+ ++ +F +SL F +AT + V+E
Sbjct: 165 SLFIMDEAD--KMLSRDFKTIIEQIL----SFLPPTHQSLLF-------SATFPLTVKEF 211
Query: 348 ILKSLH 353
++K LH
Sbjct: 212 MVKHLH 217
>pdb|1XTJ|A Chain A, Structure Of Human Uap56 In Complex With Adp
Length = 386
Score = 50.1 bits (118), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 29/111 (26%), Positives = 54/111 (48%)
Query: 497 NKPAERLSMLQEPLEDGLTIIYVPTRKETLSIAKYLCGFGVKAAAYNASLPKSQLRRVHT 556
N+ +L L + LE +I+V + + +++A+ L A A + +P+ + +
Sbjct: 235 NEKNRKLFDLLDVLEFNQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQ 294
Query: 557 EFHENKLEVVVATIAFGMGIDKLNVRRIIHYGWPQSLEAYYQEAGRAGRDG 607
+F + + ++VAT FG G+D V +Y P+ + Y RAGR G
Sbjct: 295 QFKDFQRRILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGRFG 345
>pdb|1XTI|A Chain A, Structure Of Wildtype Human Uap56
Length = 391
Score = 49.7 bits (117), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 29/111 (26%), Positives = 54/111 (48%)
Query: 497 NKPAERLSMLQEPLEDGLTIIYVPTRKETLSIAKYLCGFGVKAAAYNASLPKSQLRRVHT 556
N+ +L L + LE +I+V + + +++A+ L A A + +P+ + +
Sbjct: 235 NEKNRKLFDLLDVLEFNQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQ 294
Query: 557 EFHENKLEVVVATIAFGMGIDKLNVRRIIHYGWPQSLEAYYQEAGRAGRDG 607
+F + + ++VAT FG G+D V +Y P+ + Y RAGR G
Sbjct: 295 QFKDFQRRILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGRFG 345
>pdb|1T5I|A Chain A, Crystal Structure Of The C-Terminal Domain Of Uap56
Length = 172
Score = 49.7 bits (117), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 29/111 (26%), Positives = 54/111 (48%)
Query: 497 NKPAERLSMLQEPLEDGLTIIYVPTRKETLSIAKYLCGFGVKAAAYNASLPKSQLRRVHT 556
N+ +L L + LE +I+V + + +++A+ L A A + +P+ + +
Sbjct: 16 NEKNRKLFDLLDVLEFNQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQ 75
Query: 557 EFHENKLEVVVATIAFGMGIDKLNVRRIIHYGWPQSLEAYYQEAGRAGRDG 607
+F + + ++VAT FG G+D V +Y P+ + Y RAGR G
Sbjct: 76 QFKDFQRRILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGRFG 126
>pdb|1XTK|A Chain A, Structure Of Decd To Dead Mutation Of Human Uap56
Length = 390
Score = 49.7 bits (117), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 29/111 (26%), Positives = 54/111 (48%)
Query: 497 NKPAERLSMLQEPLEDGLTIIYVPTRKETLSIAKYLCGFGVKAAAYNASLPKSQLRRVHT 556
N+ +L L + LE +I+V + + +++A+ L A A + +P+ + +
Sbjct: 234 NEKNRKLFDLLDVLEFNQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQ 293
Query: 557 EFHENKLEVVVATIAFGMGIDKLNVRRIIHYGWPQSLEAYYQEAGRAGRDG 607
+F + + ++VAT FG G+D V +Y P+ + Y RAGR G
Sbjct: 294 QFKDFQRRILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGRFG 344
>pdb|2DB3|A Chain A, Structural Basis For Rna Unwinding By The Dead-Box Protein
Drosophila Vasa
pdb|2DB3|B Chain B, Structural Basis For Rna Unwinding By The Dead-Box Protein
Drosophila Vasa
pdb|2DB3|C Chain C, Structural Basis For Rna Unwinding By The Dead-Box Protein
Drosophila Vasa
pdb|2DB3|D Chain D, Structural Basis For Rna Unwinding By The Dead-Box Protein
Drosophila Vasa
Length = 434
Score = 49.3 bits (116), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 31/115 (26%), Positives = 59/115 (51%), Gaps = 3/115 (2%)
Query: 496 LNKPAERLSMLQEPLE--DGLTIIYVPTRKETLSIAKYLCGFGVKAAAYNASLPKSQLRR 553
+NK A+R +++ E DG TI++V T++ +A +L + + +SQ +
Sbjct: 283 VNKYAKRSKLIEILSEQADG-TIVFVETKRGADFLASFLSEKEFPTTSIHGDRLQSQREQ 341
Query: 554 VHTEFHENKLEVVVATIAFGMGIDKLNVRRIIHYGWPQSLEAYYQEAGRAGRDGH 608
+F ++V++AT G+D N++ +I+Y P ++ Y GR GR G+
Sbjct: 342 ALRDFKNGSMKVLIATSVASRGLDIKNIKHVINYDMPSKIDDYVHRIGRTGRVGN 396
>pdb|2P6N|A Chain A, Human Dead-box Rna Helicase Ddx41, Helicase Domain
pdb|2P6N|B Chain B, Human Dead-box Rna Helicase Ddx41, Helicase Domain
Length = 191
Score = 48.5 bits (114), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 27/103 (26%), Positives = 49/103 (47%)
Query: 515 TIIYVPTRKETLSIAKYLCGFGVKAAAYNASLPKSQLRRVHTEFHENKLEVVVATIAFGM 574
+I+ + + +I +YL GV+A A + + + + F E K +V+VAT
Sbjct: 57 VLIFAEKKADVDAIHEYLLLKGVEAVAIHGGKDQEERTKAIEAFREGKKDVLVATDVASK 116
Query: 575 GIDKLNVRRIIHYGWPQSLEAYYQEAGRAGRDGHLADCVLYAN 617
G+D ++ +I+Y P+ +E Y GR G G+ + N
Sbjct: 117 GLDFPAIQHVINYDMPEEIENYVHRIGRTGCSGNTGIATTFIN 159
>pdb|2WAX|A Chain A, Structure Of The Human Ddx6 C-Terminal Domain In Complex
With An Edc3-Fdf Peptide
pdb|2WAX|C Chain C, Structure Of The Human Ddx6 C-Terminal Domain In Complex
With An Edc3-Fdf Peptide
pdb|2WAY|A Chain A, Structure Of The Human Ddx6 C-Terminal Domain In Complex
With An Edc3-Fdf Peptide
pdb|2WAY|C Chain C, Structure Of The Human Ddx6 C-Terminal Domain In Complex
With An Edc3-Fdf Peptide
Length = 193
Score = 47.8 bits (112), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 30/108 (27%), Positives = 49/108 (45%)
Query: 503 LSMLQEPLEDGLTIIYVPTRKETLSIAKYLCGFGVKAAAYNASLPKSQLRRVHTEFHENK 562
L+ L L+ +II+ + + +AK + G +A + + RV +F
Sbjct: 35 LNTLFSRLQINQSIIFCNSSQRVELLAKKISQLGYSCFYIHAKMRQEHRNRVFHDFRNGL 94
Query: 563 LEVVVATIAFGMGIDKLNVRRIIHYGWPQSLEAYYQEAGRAGRDGHLA 610
+V T F GID V +I++ +P+ E Y GR+GR GHL
Sbjct: 95 CRNLVCTDLFTRGIDIQAVNVVINFDFPKLAETYLHRIGRSGRFGHLG 142
>pdb|3EAQ|A Chain A, Novel Dimerization Motif In The Dead Box Rna Helicase Hera
Form 2, Complete Dimer, Symmetric
pdb|3EAQ|B Chain B, Novel Dimerization Motif In The Dead Box Rna Helicase Hera
Form 2, Complete Dimer, Symmetric
pdb|3EAR|A Chain A, Novel Dimerization Motif In The Dead Box Rna Helicase
Hera: Form 1, Partial Dimer
pdb|3EAR|B Chain B, Novel Dimerization Motif In The Dead Box Rna Helicase
Hera: Form 1, Partial Dimer
pdb|3EAS|A Chain A, Novel Dimerization Motif In The Dead Box Rna Helicase
Hera: Form 1, Complete Dimer, Asymmetric
pdb|3EAS|B Chain B, Novel Dimerization Motif In The Dead Box Rna Helicase
Hera: Form 1, Complete Dimer, Asymmetric
Length = 212
Score = 45.8 bits (107), Expect = 8e-05, Method: Composition-based stats.
Identities = 26/84 (30%), Positives = 41/84 (48%)
Query: 516 IIYVPTRKETLSIAKYLCGFGVKAAAYNASLPKSQLRRVHTEFHENKLEVVVATIAFGMG 575
+++ T+ ET IA+ L G A A + L + + RV F + ++ V+VAT G
Sbjct: 35 MVFTRTKAETEEIAQGLLRLGHPAQALHGDLSQGERERVLGAFRQGEVRVLVATDVAARG 94
Query: 576 IDKLNVRRIIHYGWPQSLEAYYQE 599
+D V ++HY P EAY
Sbjct: 95 LDIPQVDLVVHYRLPDRAEAYQHR 118
>pdb|3I32|A Chain A, Dimeric Structure Of A Hera Helicase Fragment Including
The C-Terminal Reca Domain, The Dimerization Domain, And
The Rna Binding Domain
Length = 300
Score = 45.8 bits (107), Expect = 9e-05, Method: Compositional matrix adjust.
Identities = 25/82 (30%), Positives = 41/82 (50%)
Query: 515 TIIYVPTRKETLSIAKYLCGFGVKAAAYNASLPKSQLRRVHTEFHENKLEVVVATIAFGM 574
+++ T+ ET IA+ L G A A + + + + RV F + ++ V+VAT
Sbjct: 31 AMVFTRTKAETEEIAQGLLRLGHPAQALHGDMSQGERERVMGAFRQGEVRVLVATDVAAR 90
Query: 575 GIDKLNVRRIIHYGWPQSLEAY 596
G+D V ++HY P EAY
Sbjct: 91 GLDIPQVDLVVHYRMPDRAEAY 112
>pdb|2YJT|D Chain D, Crystal Structure Of E. Coli Dead-Box Protein Srmb Bound
To Regulator Of Ribonuclease Activity A (Rraa)
Length = 170
Score = 45.8 bits (107), Expect = 1e-04, Method: Composition-based stats.
Identities = 29/118 (24%), Positives = 54/118 (45%), Gaps = 1/118 (0%)
Query: 490 FERTDLLNKPAERLSMLQEPLEDGLTIIYVPTRKETLSIAKYLCGFGVKAAAYNASLPKS 549
+ DL +K A + +L++P E +I++V R+ +A +L G+ + +
Sbjct: 9 YRADDLEHKTALLVHLLKQP-EATRSIVFVRKRERVHELANWLREAGINNCYLEGEMVQG 67
Query: 550 QLRRVHTEFHENKLEVVVATIAFGMGIDKLNVRRIIHYGWPQSLEAYYQEAGRAGRDG 607
+ E ++ V+VAT GID +V + ++ P+S + Y GR R G
Sbjct: 68 KRNEAIKRLTEGRVNVLVATDVAARGIDIPDVSHVFNFDMPRSGDTYLHRIGRTARAG 125
>pdb|2Z0M|A Chain A, Crystal Structure Of Hypothetical Atp-Dependent Rna
Helicase From Sulfolobus Tokodaii
Length = 337
Score = 45.1 bits (105), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 31/114 (27%), Positives = 54/114 (47%), Gaps = 5/114 (4%)
Query: 502 RLSMLQEPLEDGLTIIYVPTRKETLSIAKYLCGFGVKAAAYNASLPKSQLRRVHTEFHEN 561
++ L+E + G+ I++V TR +AK + F A LP+S R F E
Sbjct: 211 KVQALRENKDKGV-IVFVRTRNR---VAKLVRLFD-NAIELRGDLPQSVRNRNIDAFREG 265
Query: 562 KLEVVVATIAFGMGIDKLNVRRIIHYGWPQSLEAYYQEAGRAGRDGHLADCVLY 615
+ ++++ T G+D V ++I++ PQ L Y GR GR G + + +
Sbjct: 266 EYDMLITTDVASRGLDIPLVEKVINFDAPQDLRTYIHRIGRTGRMGRKGEAITF 319
Score = 36.6 bits (83), Expect = 0.049, Method: Compositional matrix adjust.
Identities = 19/71 (26%), Positives = 31/71 (43%)
Query: 167 KHFGHSSLKNFQKEALSAWLAHHDCLVLAATGSGKSLCFQIPALLTGKVVVVISPLISLM 226
+ G + Q + + L + +V A TGSGK+ + IP L G +V++P L
Sbjct: 10 REMGFKNFTEVQSKTIPLMLQGKNVVVRAKTGSGKTAAYAIPILELGMKSLVVTPTRELT 69
Query: 227 HDQCSKLSKHG 237
S + G
Sbjct: 70 RQVASHIRDIG 80
>pdb|2HXY|A Chain A, Crystal Structure Of Human Apo-Eif4aiii
pdb|2HXY|B Chain B, Crystal Structure Of Human Apo-Eif4aiii
pdb|2HXY|C Chain C, Crystal Structure Of Human Apo-Eif4aiii
pdb|2HXY|D Chain D, Crystal Structure Of Human Apo-Eif4aiii
Length = 391
Score = 42.4 bits (98), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 26/103 (25%), Positives = 48/103 (46%), Gaps = 4/103 (3%)
Query: 510 LEDGLTI----IYVPTRKETLSIAKYLCGFGVKAAAYNASLPKSQLRRVHTEFHENKLEV 565
L D LTI I+ T+++ + + + ++ + +P+ + + EF V
Sbjct: 249 LYDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRV 308
Query: 566 VVATIAFGMGIDKLNVRRIIHYGWPQSLEAYYQEAGRAGRDGH 608
+++T + G+D V II+Y P + E Y GR+GR G
Sbjct: 309 LISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGR 351
>pdb|2XB2|A Chain A, Crystal Structure Of The Core Mago-Y14-Eif4aiii-Barentsz-
Upf3b Assembly Shows How The Ejc Is Bridged To The Nmd
Machinery
pdb|2XB2|X Chain X, Crystal Structure Of The Core Mago-Y14-Eif4aiii-Barentsz-
Upf3b Assembly Shows How The Ejc Is Bridged To The Nmd
Machinery
Length = 411
Score = 42.4 bits (98), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 26/103 (25%), Positives = 48/103 (46%), Gaps = 4/103 (3%)
Query: 510 LEDGLTI----IYVPTRKETLSIAKYLCGFGVKAAAYNASLPKSQLRRVHTEFHENKLEV 565
L D LTI I+ T+++ + + + ++ + +P+ + + EF V
Sbjct: 271 LYDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRV 330
Query: 566 VVATIAFGMGIDKLNVRRIIHYGWPQSLEAYYQEAGRAGRDGH 608
+++T + G+D V II+Y P + E Y GR+GR G
Sbjct: 331 LISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGR 373
>pdb|2J0Q|A Chain A, The Crystal Structure Of The Exon Junction Complex At 3.2
A Resolution
pdb|2J0Q|B Chain B, The Crystal Structure Of The Exon Junction Complex At 3.2
A Resolution
pdb|2J0S|A Chain A, The Crystal Structure Of The Exon Junction Complex At 2.2
A Resolution
Length = 410
Score = 42.4 bits (98), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 26/103 (25%), Positives = 48/103 (46%), Gaps = 4/103 (3%)
Query: 510 LEDGLTI----IYVPTRKETLSIAKYLCGFGVKAAAYNASLPKSQLRRVHTEFHENKLEV 565
L D LTI I+ T+++ + + + ++ + +P+ + + EF V
Sbjct: 270 LYDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRV 329
Query: 566 VVATIAFGMGIDKLNVRRIIHYGWPQSLEAYYQEAGRAGRDGH 608
+++T + G+D V II+Y P + E Y GR+GR G
Sbjct: 330 LISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGR 372
>pdb|2HYI|C Chain C, Structure Of The Human Exon Junction Complex With A
Trapped Dead-Box Helicase Bound To Rna
pdb|2HYI|I Chain I, Structure Of The Human Exon Junction Complex With A
Trapped Dead-Box Helicase Bound To Rna
pdb|3EX7|C Chain C, The Crystal Structure Of Ejc In Its Transition State
pdb|3EX7|H Chain H, The Crystal Structure Of Ejc In Its Transition State
Length = 413
Score = 42.4 bits (98), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 26/103 (25%), Positives = 48/103 (46%), Gaps = 4/103 (3%)
Query: 510 LEDGLTI----IYVPTRKETLSIAKYLCGFGVKAAAYNASLPKSQLRRVHTEFHENKLEV 565
L D LTI I+ T+++ + + + ++ + +P+ + + EF V
Sbjct: 271 LYDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRV 330
Query: 566 VVATIAFGMGIDKLNVRRIIHYGWPQSLEAYYQEAGRAGRDGH 608
+++T + G+D V II+Y P + E Y GR+GR G
Sbjct: 331 LISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGR 373
>pdb|2J0U|A Chain A, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 42.4 bits (98), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 26/103 (25%), Positives = 48/103 (46%), Gaps = 4/103 (3%)
Query: 510 LEDGLTI----IYVPTRKETLSIAKYLCGFGVKAAAYNASLPKSQLRRVHTEFHENKLEV 565
L D LTI I+ T+++ + + + ++ + +P+ + + EF V
Sbjct: 234 LYDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRV 293
Query: 566 VVATIAFGMGIDKLNVRRIIHYGWPQSLEAYYQEAGRAGRDGH 608
+++T + G+D V II+Y P + E Y GR+GR G
Sbjct: 294 LISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGR 336
>pdb|2J0U|B Chain B, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 42.4 bits (98), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 26/103 (25%), Positives = 48/103 (46%), Gaps = 4/103 (3%)
Query: 510 LEDGLTI----IYVPTRKETLSIAKYLCGFGVKAAAYNASLPKSQLRRVHTEFHENKLEV 565
L D LTI I+ T+++ + + + ++ + +P+ + + EF V
Sbjct: 234 LYDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRV 293
Query: 566 VVATIAFGMGIDKLNVRRIIHYGWPQSLEAYYQEAGRAGRDGH 608
+++T + G+D V II+Y P + E Y GR+GR G
Sbjct: 294 LISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGR 336
>pdb|2HJV|A Chain A, Structure Of The Second Domain (Residues 207-368) Of The
Bacillus Subtilis Yxin Protein
pdb|2HJV|B Chain B, Structure Of The Second Domain (Residues 207-368) Of The
Bacillus Subtilis Yxin Protein
Length = 163
Score = 42.0 bits (97), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 31/126 (24%), Positives = 52/126 (41%), Gaps = 3/126 (2%)
Query: 486 TDRSFERTDLLNKPAERLSMLQEPL---EDGLTIIYVPTRKETLSIAKYLCGFGVKAAAY 542
T R+ E + + + S+L++ L II+ T++ + L G
Sbjct: 6 TTRNIEHAVIQVREENKFSLLKDVLMTENPDSCIIFCRTKEHVNQLTDELDDLGYPCDKI 65
Query: 543 NASLPKSQLRRVHTEFHENKLEVVVATIAFGMGIDKLNVRRIIHYGWPQSLEAYYQEAGR 602
+ + + V EF + +VAT GID N+ +I+Y P E+Y GR
Sbjct: 66 HGGMIQEDRFDVMNEFKRGEYRYLVATDVAARGIDIENISLVINYDLPLEKESYVHRTGR 125
Query: 603 AGRDGH 608
GR G+
Sbjct: 126 TGRAGN 131
>pdb|3LY5|A Chain A, Ddx18 Dead-Domain
pdb|3LY5|B Chain B, Ddx18 Dead-Domain
Length = 262
Score = 40.8 bits (94), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 32/115 (27%), Positives = 47/115 (40%), Gaps = 13/115 (11%)
Query: 167 KHFGHSSLKNFQKEALSAWLAHHDCLVLAATGSGKSLCFQIPAL----------LTGKVV 216
K G +++ Q +++ L D L A TGSGK+L F IPA+ G V
Sbjct: 70 KEMGFTNMTEIQHKSIRPLLEGRDLLAAAKTGSGKTLAFLIPAVELIVKLRFMPRNGTGV 129
Query: 217 VVISPLISLMHDQ---CSKLSKHGVTACFLGSGQPDNKVEQKALRGMYSIIYVCP 268
+++SP L +L H V L G + E + L +II P
Sbjct: 130 LILSPTRELAMQTFGVLKELMTHHVHTYGLIMGGSNRSAEAQKLGNGINIIVATP 184
>pdb|3DKP|A Chain A, Human Dead-Box Rna-Helicase Ddx52, Conserved Domain I In
Complex With Adp
Length = 245
Score = 40.8 bits (94), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 39/140 (27%), Positives = 62/140 (44%), Gaps = 24/140 (17%)
Query: 156 DWEVKVNSLLKKHF---GHSSLKNFQKEALSAWLAHHDCLVLAATGSGKSLCFQIPALLT 212
D E K+NS L ++ G Q +A+ L + L A TGSGK+L F IP L+
Sbjct: 31 DQEYKINSRLLQNILDAGFQMPTPIQMQAIPVMLHGRELLASAPTGSGKTLAFSIPILMQ 90
Query: 213 -------GKVVVVISP---LISLMHDQCSKLSK------HGVTACFLGSGQPDNKVEQKA 256
G ++ISP L S +H + K+S+ H + + + + K +K
Sbjct: 91 LKQPANKGFRALIISPTRELASQIHRELIKISEGTGFRIHMIHKAAVAAKKFGPKSSKK- 149
Query: 257 LRGMYSIIYVCPETVIRLIK 276
+ I+ P +I L+K
Sbjct: 150 ----FDILVTTPNRLIYLLK 165
>pdb|3I5X|A Chain A, Structure Of Mss116p Bound To Ssrna And Amp-Pnp
pdb|3I5Y|A Chain A, Structure Of Mss116p Bound To Ssrna Containing A Single
5-Bru And Amp- Pnp
pdb|3I61|A Chain A, Structure Of Mss116p Bound To Ssrna And Adp-beryllium
Fluoride
pdb|3I62|A Chain A, Structure Of Mss116p Bound To Ssrna And Adp-aluminum
Fluoride
Length = 563
Score = 38.5 bits (88), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 27/110 (24%), Positives = 46/110 (41%), Gaps = 3/110 (2%)
Query: 516 IIYVPTRKET---LSIAKYLCGFGVKAAAYNASLPKSQLRRVHTEFHENKLEVVVATIAF 572
II+ PT K T SI K + ++ + +++ + F +++ ++V T
Sbjct: 343 IIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQNKRTSLVKRFKKDESGILVCTDVG 402
Query: 573 GMGIDKLNVRRIIHYGWPQSLEAYYQEAGRAGRDGHLADCVLYANLSSMP 622
G+D NV ++ G P L Y GR R G VL+ +P
Sbjct: 403 ARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEGSSVLFICKDELP 452
Score = 33.5 bits (75), Expect = 0.47, Method: Compositional matrix adjust.
Identities = 45/170 (26%), Positives = 71/170 (41%), Gaps = 32/170 (18%)
Query: 189 HDCLVLAATGSGKSLCFQIPA---LLTGKV-------VVVISPLISL----------MHD 228
HD + A TG+GK+ F IP L+ K V+++P L +HD
Sbjct: 112 HDVIARAKTGTGKTFAFLIPIFQHLINTKFDSQYMVKAVIVAPTRDLALQIEAEVKKIHD 171
Query: 229 QCSKLSKHGVTACFLGSGQPDNKVEQKALRGMYSIIYVCPETVIRLIKPLQRLAES--RG 286
L K+ AC G D + + + I + T RLI L++ + R
Sbjct: 172 MNYGLKKY---ACVSLVGGTDFRAAMNKMNKLRPNIVIA--TPGRLIDVLEKYSNKFFRF 226
Query: 287 IALFAIDEVHCVSKWGHDFRPDYRRLS-VLRE--NFGANNLKSLKFDIPL 333
+ +DE + + G FR D +S +L E + A+N+K+L F L
Sbjct: 227 VDYKVLDEADRLLEIG--FRDDLETISGILNEKNSKSADNIKTLLFSATL 274
>pdb|2P6R|A Chain A, Crystal Structure Of Superfamily 2 Helicase Hel308 In
Complex With Unwound Dna
pdb|2P6U|A Chain A, Apo Structure Of The Hel308 Superfamily 2 Helicase
Length = 702
Score = 38.5 bits (88), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 28/77 (36%), Positives = 36/77 (46%), Gaps = 9/77 (11%)
Query: 539 AAAYNASLPKSQLRRVHTEFHENKLEVVVATIAFGMGIDKLNVRRII--------HYGWP 590
AA ++A L Q R V F ++VVVAT G++ L RR+I Y
Sbjct: 299 AAFHHAGLLNGQRRVVEDAFRRGNIKVVVATPTLAAGVN-LPARRVIVRSLYRFDGYSKR 357
Query: 591 QSLEAYYQEAGRAGRDG 607
+ Y Q AGRAGR G
Sbjct: 358 IKVSEYKQMAGRAGRPG 374
>pdb|3SQW|A Chain A, Structure Of Mss116p (Nte Deletion) Bound To Ssrna And
Amp-Pnp
Length = 579
Score = 38.5 bits (88), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 27/110 (24%), Positives = 46/110 (41%), Gaps = 3/110 (2%)
Query: 516 IIYVPTRKET---LSIAKYLCGFGVKAAAYNASLPKSQLRRVHTEFHENKLEVVVATIAF 572
II+ PT K T SI K + ++ + +++ + F +++ ++V T
Sbjct: 292 IIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQNKRTSLVKRFKKDESGILVCTDVG 351
Query: 573 GMGIDKLNVRRIIHYGWPQSLEAYYQEAGRAGRDGHLADCVLYANLSSMP 622
G+D NV ++ G P L Y GR R G VL+ +P
Sbjct: 352 ARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEGSSVLFICKDELP 401
Score = 34.3 bits (77), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 45/170 (26%), Positives = 71/170 (41%), Gaps = 32/170 (18%)
Query: 189 HDCLVLAATGSGKSLCFQIPA---LLTGKV-------VVVISPLISL----------MHD 228
HD + A TG+GK+ F IP L+ K V+++P L +HD
Sbjct: 61 HDVIARAKTGTGKTFAFLIPIFQHLINTKFDSQYMVKAVIVAPTRDLALQIEAEVKKIHD 120
Query: 229 QCSKLSKHGVTACFLGSGQPDNKVEQKALRGMYSIIYVCPETVIRLIKPLQRLAES--RG 286
L K+ AC G D + + + I + T RLI L++ + R
Sbjct: 121 MNYGLKKY---ACVSLVGGTDFRAAMNKMNKLRPNIVIA--TPGRLIDVLEKYSNKFFRF 175
Query: 287 IALFAIDEVHCVSKWGHDFRPDYRRLS-VLRE--NFGANNLKSLKFDIPL 333
+ +DE + + G FR D +S +L E + A+N+K+L F L
Sbjct: 176 VDYKVLDEADRLLEIG--FRDDLETISGILNEKNSKSADNIKTLLFSATL 223
>pdb|4DB4|A Chain A, Mss116p Dead-Box Helicase Domain 2 Bound To A Chimaeric
Rna-Dna Duplex
pdb|4DB4|B Chain B, Mss116p Dead-Box Helicase Domain 2 Bound To A Chimaeric
Rna-Dna Duplex
Length = 256
Score = 38.1 bits (87), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 26/115 (22%), Positives = 46/115 (40%), Gaps = 11/115 (9%)
Query: 515 TIIYVPTRKETLSIAKYLCGF-------GVKAAAYNASLPKSQLRRVHTEFHENKLEVVV 567
II+ PT K T +LC + ++ + +++ + F +++ ++V
Sbjct: 36 AIIFAPTVKFT----SFLCSILKNEFKKDLPILEFHGKITQNKRTSLVKRFKKDESGILV 91
Query: 568 ATIAFGMGIDKLNVRRIIHYGWPQSLEAYYQEAGRAGRDGHLADCVLYANLSSMP 622
T G+D NV ++ G P L Y GR R G VL+ +P
Sbjct: 92 CTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEGSSVLFICKDELP 146
>pdb|4DB2|C Chain C, Mss116p Dead-Box Helicase Domain 2 Bound To An Rna Duplex
pdb|4DB2|D Chain D, Mss116p Dead-Box Helicase Domain 2 Bound To An Rna Duplex
Length = 257
Score = 38.1 bits (87), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 26/115 (22%), Positives = 46/115 (40%), Gaps = 11/115 (9%)
Query: 515 TIIYVPTRKETLSIAKYLCGF-------GVKAAAYNASLPKSQLRRVHTEFHENKLEVVV 567
II+ PT K T +LC + ++ + +++ + F +++ ++V
Sbjct: 36 AIIFAPTVKFT----SFLCSILKNEFKKDLPILEFHGKITQNKRTSLVKRFKKDESGILV 91
Query: 568 ATIAFGMGIDKLNVRRIIHYGWPQSLEAYYQEAGRAGRDGHLADCVLYANLSSMP 622
T G+D NV ++ G P L Y GR R G VL+ +P
Sbjct: 92 CTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEGSSVLFICKDELP 146
>pdb|3SQX|A Chain A, Structure Of Mss116p (Nte And C-Tail Double Deletion)
Bound To Ssrna And Amp-Pnp
Length = 512
Score = 38.1 bits (87), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 26/114 (22%), Positives = 46/114 (40%), Gaps = 11/114 (9%)
Query: 516 IIYVPTRKETLSIAKYLCGF-------GVKAAAYNASLPKSQLRRVHTEFHENKLEVVVA 568
II+ PT K T +LC + ++ + +++ + F +++ ++V
Sbjct: 292 IIFAPTVKFT----SFLCSILKNEFKKDLPILEFHGKITQNKRTSLVKRFKKDESGILVC 347
Query: 569 TIAFGMGIDKLNVRRIIHYGWPQSLEAYYQEAGRAGRDGHLADCVLYANLSSMP 622
T G+D NV ++ G P L Y GR R G VL+ +P
Sbjct: 348 TDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEGSSVLFICKDELP 401
Score = 32.7 bits (73), Expect = 0.80, Method: Compositional matrix adjust.
Identities = 45/170 (26%), Positives = 71/170 (41%), Gaps = 32/170 (18%)
Query: 189 HDCLVLAATGSGKSLCFQIPA---LLTGKV-------VVVISPLISL----------MHD 228
HD + A TG+GK+ F IP L+ K V+++P L +HD
Sbjct: 61 HDVIARAKTGTGKTFAFLIPIFQHLINTKFDSQYMVKAVIVAPTRDLALQIEAEVKKIHD 120
Query: 229 QCSKLSKHGVTACFLGSGQPDNKVEQKALRGMYSIIYVCPETVIRLIKPLQRLAES--RG 286
L K+ AC G D + + + I + T RLI L++ + R
Sbjct: 121 MNYGLKKY---ACVSLVGGTDFRAAMNKMNKLRPNIVIA--TPGRLIDVLEKYSNKFFRF 175
Query: 287 IALFAIDEVHCVSKWGHDFRPDYRRLS-VLRE--NFGANNLKSLKFDIPL 333
+ +DE + + G FR D +S +L E + A+N+K+L F L
Sbjct: 176 VDYKVLDEADRLLEIG--FRDDLETISGILNEKNSKSADNIKTLLFSATL 223
>pdb|3PEW|A Chain A, S. Cerevisiae Dbp5 L327v Bound To Rna And Adp Bef3
pdb|3RRM|A Chain A, S. Cerevisiae Dbp5 L327v Bound To Nup159, Gle1 H337r, Ip6
And Adp
pdb|3RRN|A Chain A, S. Cerevisiae Dbp5 L327v Bound To Gle1 H337r And Ip6
Length = 395
Score = 38.1 bits (87), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 26/102 (25%), Positives = 43/102 (42%), Gaps = 6/102 (5%)
Query: 513 GLTIIYVPTRKETLSIAKYLCGFGVKAAAYNASLPKSQLRRVHTEFHENKLEVVVATIAF 572
G +II+V T+K + L G + + + L + R+ +F E + +V++ T
Sbjct: 244 GSSIIFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDDFREGRSKVLITTNVL 303
Query: 573 GMGIDKLNVRRIIHYGWPQSLEA------YYQEAGRAGRDGH 608
GID V +++Y P Y GR GR G
Sbjct: 304 ARGIDIPTVSMVVNYDLPTLANGQADPATYIHRIGRTGRFGR 345
>pdb|4DB2|A Chain A, Mss116p Dead-Box Helicase Domain 2 Bound To An Rna Duplex
pdb|4DB2|B Chain B, Mss116p Dead-Box Helicase Domain 2 Bound To An Rna Duplex
Length = 257
Score = 38.1 bits (87), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 26/115 (22%), Positives = 46/115 (40%), Gaps = 11/115 (9%)
Query: 515 TIIYVPTRKETLSIAKYLCGF-------GVKAAAYNASLPKSQLRRVHTEFHENKLEVVV 567
II+ PT K T +LC + ++ + +++ + F +++ ++V
Sbjct: 36 AIIFAPTVKFT----SFLCSILKNEFKKDLPILEFHGKITQNKRTSLVKRFKKDESGILV 91
Query: 568 ATIAFGMGIDKLNVRRIIHYGWPQSLEAYYQEAGRAGRDGHLADCVLYANLSSMP 622
T G+D NV ++ G P L Y GR R G VL+ +P
Sbjct: 92 CTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEGSSVLFICKDELP 146
>pdb|3PEY|A Chain A, S. Cerevisiae Dbp5 Bound To Rna And Adp Bef3
Length = 395
Score = 38.1 bits (87), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 26/102 (25%), Positives = 43/102 (42%), Gaps = 6/102 (5%)
Query: 513 GLTIIYVPTRKETLSIAKYLCGFGVKAAAYNASLPKSQLRRVHTEFHENKLEVVVATIAF 572
G +II+V T+K + L G + + + L + R+ +F E + +V++ T
Sbjct: 244 GSSIIFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDDFREGRSKVLITTNVL 303
Query: 573 GMGIDKLNVRRIIHYGWPQSLEA------YYQEAGRAGRDGH 608
GID V +++Y P Y GR GR G
Sbjct: 304 ARGIDIPTVSMVVNYDLPTLANGQADPATYIHRIGRTGRFGR 345
>pdb|2KBF|A Chain A, Solution Structure Of Carboxyl-Terminal Domain Of Dbp5p
Length = 187
Score = 38.1 bits (87), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 29/117 (24%), Positives = 50/117 (42%), Gaps = 9/117 (7%)
Query: 500 AERLSMLQEP---LEDGLTIIYVPTRKETLSIAKYLCGFGVKAAAYNASLPKSQLRRVHT 556
A++ +L E + G +II+V T+K + L G + + + L + R+
Sbjct: 20 ADKFDVLTELYGLMTIGSSIIFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLID 79
Query: 557 EFHENKLEVVVATIAFGMGIDKLNVRRIIHYGWPQSLEA------YYQEAGRAGRDG 607
+F E + +V++ T GID V +++Y P Y GR GR G
Sbjct: 80 DFREGRSKVLITTNVLARGIDIPTVSMVVNYDLPTLANGQADPATYIHRIGRTGRFG 136
>pdb|1WRB|A Chain A, Crystal Structure Of The N-Terminal Reca-Like Domain Of
Djvlgb, A Pranarian Vasa-Like Rna Helicase
pdb|1WRB|B Chain B, Crystal Structure Of The N-Terminal Reca-Like Domain Of
Djvlgb, A Pranarian Vasa-Like Rna Helicase
Length = 253
Score = 37.7 bits (86), Expect = 0.022, Method: Compositional matrix adjust.
Identities = 21/59 (35%), Positives = 31/59 (52%), Gaps = 3/59 (5%)
Query: 152 EIGSDWEVKVNSLLKKHFGHSSLKNFQKEALSAWLAHHDCLVLAATGSGKSLCFQIPAL 210
E+ D ++ N LL + + + QK A+ A L H D + A TGSGK+ F IP +
Sbjct: 27 ELKLDPTIRNNILLASYQRPTPI---QKNAIPAILEHRDIMACAQTGSGKTAAFLIPII 82
>pdb|3PEU|A Chain A, S. Cerevisiae Dbp5 L327v C-Terminal Domain Bound To Gle1
H337r And Ip6
pdb|3PEV|A Chain A, S. Cerevisiae Dbp5 L327v C-Terminal Domain Bound To Gle1
And Ip6
Length = 188
Score = 37.0 bits (84), Expect = 0.044, Method: Composition-based stats.
Identities = 28/101 (27%), Positives = 46/101 (45%), Gaps = 6/101 (5%)
Query: 513 GLTIIYVPTRKETLSIAKYLCGFGVKAAAYNASLPKSQLRRVHTEFHENKLEVVVATIAF 572
G +II+V T+K + L G + + + L + R+ +F E + +V++ T
Sbjct: 37 GSSIIFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDDFREGRSKVLITTNVL 96
Query: 573 GMGIDKLNVRRIIHYGWP-----QSLEA-YYQEAGRAGRDG 607
GID V +++Y P Q+ A Y GR GR G
Sbjct: 97 ARGIDIPTVSXVVNYDLPTLANGQADPATYIHRIGRTGRFG 137
>pdb|3GFP|A Chain A, Structure Of The C-Terminal Domain Of The Dead-Box Protein
Dbp5
Length = 189
Score = 37.0 bits (84), Expect = 0.044, Method: Composition-based stats.
Identities = 28/101 (27%), Positives = 46/101 (45%), Gaps = 6/101 (5%)
Query: 513 GLTIIYVPTRKETLSIAKYLCGFGVKAAAYNASLPKSQLRRVHTEFHENKLEVVVATIAF 572
G +II+V T+K + L G + + + L + R+ +F E + +V++ T
Sbjct: 38 GSSIIFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDDFREGRSKVLITTNVL 97
Query: 573 GMGIDKLNVRRIIHYGWP-----QSLEA-YYQEAGRAGRDG 607
GID V +++Y P Q+ A Y GR GR G
Sbjct: 98 ARGIDIPTVSXVVNYDLPTLANGQADPATYIHRIGRTGRFG 138
>pdb|3G0H|A Chain A, Human Dead-box Rna Helicase Ddx19, In Complex With An
Atp-analogue And Rna
Length = 424
Score = 36.6 bits (83), Expect = 0.059, Method: Compositional matrix adjust.
Identities = 29/98 (29%), Positives = 40/98 (40%), Gaps = 6/98 (6%)
Query: 516 IIYVPTRKETLSIAKYLCGFGVKAAAYNASLPKSQLRRVHTEFHENKLEVVVATIAFGMG 575
+I+ TRK +A L G + A + + Q V F E K +V+V T G
Sbjct: 286 MIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFREGKEKVLVTTNVCARG 345
Query: 576 IDKLNVRRIIHYGWP------QSLEAYYQEAGRAGRDG 607
ID V +I++ P E Y GR GR G
Sbjct: 346 IDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRTGRFG 383
>pdb|3EWS|A Chain A, Human Dead-Box Rna-Helicase Ddx19 In Complex With Adp
pdb|3EWS|B Chain B, Human Dead-Box Rna-Helicase Ddx19 In Complex With Adp
Length = 445
Score = 36.6 bits (83), Expect = 0.060, Method: Compositional matrix adjust.
Identities = 29/98 (29%), Positives = 40/98 (40%), Gaps = 6/98 (6%)
Query: 516 IIYVPTRKETLSIAKYLCGFGVKAAAYNASLPKSQLRRVHTEFHENKLEVVVATIAFGMG 575
+I+ TRK +A L G + A + + Q V F E K +V+V T G
Sbjct: 307 MIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFREGKEKVLVTTNVCARG 366
Query: 576 IDKLNVRRIIHYGWP------QSLEAYYQEAGRAGRDG 607
ID V +I++ P E Y GR GR G
Sbjct: 367 IDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRTGRFG 404
>pdb|3FMP|B Chain B, Crystal Structure Of The Nucleoporin Nup214 In Complex
With The Dead- Box Helicase Ddx19
pdb|3FMP|D Chain D, Crystal Structure Of The Nucleoporin Nup214 In Complex
With The Dead- Box Helicase Ddx19
Length = 479
Score = 36.2 bits (82), Expect = 0.068, Method: Compositional matrix adjust.
Identities = 29/98 (29%), Positives = 40/98 (40%), Gaps = 6/98 (6%)
Query: 516 IIYVPTRKETLSIAKYLCGFGVKAAAYNASLPKSQLRRVHTEFHENKLEVVVATIAFGMG 575
+I+ TRK +A L G + A + + Q V F E K +V+V T G
Sbjct: 337 MIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFREGKEKVLVTTNVCARG 396
Query: 576 IDKLNVRRIIHYGWP------QSLEAYYQEAGRAGRDG 607
ID V +I++ P E Y GR GR G
Sbjct: 397 IDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRTGRFG 434
>pdb|3FHT|A Chain A, Crystal Structure Of Human Dbp5 In Complex With Amppnp And
Rna
pdb|3FHT|B Chain B, Crystal Structure Of Human Dbp5 In Complex With Amppnp And
Rna
Length = 412
Score = 36.2 bits (82), Expect = 0.069, Method: Compositional matrix adjust.
Identities = 29/98 (29%), Positives = 40/98 (40%), Gaps = 6/98 (6%)
Query: 516 IIYVPTRKETLSIAKYLCGFGVKAAAYNASLPKSQLRRVHTEFHENKLEVVVATIAFGMG 575
+I+ TRK +A L G + A + + Q V F E K +V+V T G
Sbjct: 270 MIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFREGKEKVLVTTNVCARG 329
Query: 576 IDKLNVRRIIHYGWP------QSLEAYYQEAGRAGRDG 607
ID V +I++ P E Y GR GR G
Sbjct: 330 IDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRTGRFG 367
>pdb|2EYQ|A Chain A, Crystal Structure Of Escherichia Coli Transcription-Repair
Coupling Factor
pdb|2EYQ|B Chain B, Crystal Structure Of Escherichia Coli Transcription-Repair
Coupling Factor
Length = 1151
Score = 35.8 bits (81), Expect = 0.095, Method: Compositional matrix adjust.
Identities = 24/78 (30%), Positives = 34/78 (43%), Gaps = 9/78 (11%)
Query: 538 KAAAYNASLPKSQLRRVHTEFHENKLEVVVATIAFGMGIDKLNVRRII-----HYGWPQS 592
+ A + + + +L RV +FH + V+V T GID II H+G Q
Sbjct: 840 RIAIGHGQMRERELERVMNDFHHQRFNVLVCTTIIETGIDIPTANTIIIERADHFGLAQ- 898
Query: 593 LEAYYQEAGRAGRDGHLA 610
+Q GR GR H A
Sbjct: 899 ---LHQLRGRVGRSHHQA 913
>pdb|3FHO|A Chain A, Structure Of S. Pombe Dbp5
pdb|3FHO|B Chain B, Structure Of S. Pombe Dbp5
Length = 508
Score = 35.4 bits (80), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 26/107 (24%), Positives = 41/107 (38%), Gaps = 6/107 (5%)
Query: 510 LEDGLTIIYVPTRKETLSIAKYLCGFGVKAAAYNASLPKSQLRRVHTEFHENKLEVVVAT 569
L G +II+ + IA+ + G A +L +Q + F +V+V T
Sbjct: 355 LTIGQSIIFCKKKDTAEEIARRMTADGHTVACLTGNLEGAQRDAIMDSFRVGTSKVLVTT 414
Query: 570 IAFGMGIDKLNVRRIIHYGWP------QSLEAYYQEAGRAGRDGHLA 610
GID V +++Y P + Y GR GR G +
Sbjct: 415 NVIARGIDVSQVNLVVNYDMPLDQAGRPDPQTYLHRIGRTGRFGRVG 461
>pdb|2RB4|A Chain A, Crystal Structure Of The Helicase Domain Of Human Ddx25
Rna Helicase
pdb|2RB4|B Chain B, Crystal Structure Of The Helicase Domain Of Human Ddx25
Rna Helicase
Length = 175
Score = 35.4 bits (80), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 26/119 (21%), Positives = 46/119 (38%), Gaps = 6/119 (5%)
Query: 513 GLTIIYVPTRKETLSIAKYLCGFGVKAAAYNASLPKSQLRRVHTEFHENKLEVVVATIAF 572
G II+ TR+ + + G + + + L Q + F + K +V++ T
Sbjct: 35 GQAIIFCQTRRNAKWLTVEMIQDGHQVSLLSGELTVEQRASIIQRFRDGKEKVLITTNVC 94
Query: 573 GMGIDKLNVRRIIHYGWP------QSLEAYYQEAGRAGRDGHLADCVLYANLSSMPTLL 625
GID V ++++ P E Y GR GR G + +P+L+
Sbjct: 95 ARGIDVKQVTIVVNFDLPVKQGEEPDYETYLHRIGRTGRFGKKGLAFNMIEVDELPSLM 153
>pdb|2PL3|A Chain A, Human Dead-Box Rna Helicase Ddx10, Dead Domain In Complex
With Adp
Length = 236
Score = 34.7 bits (78), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 24/71 (33%), Positives = 31/71 (43%), Gaps = 10/71 (14%)
Query: 177 FQKEALSAWLAHHDCLVLAATGSGKSLCFQIPAL----------LTGKVVVVISPLISLM 226
QK+ + L D L A TGSGK+L F +P L G V++ISP L
Sbjct: 51 IQKQTIGLALQGKDVLGAAKTGSGKTLAFLVPVLEALYRLQWTSTDGLGVLIISPTRELA 110
Query: 227 HDQCSKLSKHG 237
+ L K G
Sbjct: 111 YQTFEVLRKVG 121
>pdb|1GM5|A Chain A, Structure Of Recg Bound To Three-Way Dna Junction
Length = 780
Score = 34.7 bits (78), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 25/79 (31%), Positives = 37/79 (46%), Gaps = 3/79 (3%)
Query: 538 KAAAYNASLPKSQLRRVHTEFHENKLEVVVATIAFGMGID--KLNVRRIIHYGWPQSLEA 595
K + L + + RV EF E + +++V+T +GID + NV +I L
Sbjct: 615 KLGLMHGRLSQEEKDRVMLEFAEGRYDILVSTTVIEVGIDVPRANVM-VIENPERFGLAQ 673
Query: 596 YYQEAGRAGRDGHLADCVL 614
+Q GR GR G A C L
Sbjct: 674 LHQLRGRVGRGGQEAYCFL 692
>pdb|3IUY|A Chain A, Crystal Structure Of Ddx53 Dead-Box Domain
pdb|3IUY|B Chain B, Crystal Structure Of Ddx53 Dead-Box Domain
Length = 228
Score = 34.7 bits (78), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 37/152 (24%), Positives = 64/152 (42%), Gaps = 22/152 (14%)
Query: 177 FQKEALSAWLAHHDCLVLAATGSGKSLCFQIPALL------------TGKVVVVISPLIS 224
Q +A L D +V+A TG+GK+L + +P + G ++V++P
Sbjct: 46 IQSQAWPIILQGIDLIVVAQTGTGKTLSYLMPGFIHLDSQPISREQRNGPGMLVLTPTRE 105
Query: 225 L---MHDQCSKLSKHGV-TACFLGSGQPDNKVEQKALRGMYSIIYVCPETVIRLIKPLQR 280
L + +CSK S G+ + C G + ++E + +G+ II P + L +
Sbjct: 106 LALHVEAECSKYSYKGLKSICIYGGRNRNGQIEDIS-KGV-DIIIATPGRLNDL--QMNN 161
Query: 281 LAESRGIALFAIDEVHCVSKWGHDFRPDYRRL 312
R I IDE +F P R++
Sbjct: 162 SVNLRSITYLVIDEAD--KMLDMEFEPQIRKI 191
>pdb|1FUK|A Chain A, Crystal Structure Of The Carboxy Terminal Domain Of Yeast
Eif4a
Length = 165
Score = 33.9 bits (76), Expect = 0.32, Method: Composition-based stats.
Identities = 22/99 (22%), Positives = 42/99 (42%)
Query: 501 ERLSMLQEPLEDGLTIIYVPTRKETLSIAKYLCGFGVKAAAYNASLPKSQLRRVHTEFHE 560
E L+ L + + +I+ TR++ + L +A + LP+ + + EF
Sbjct: 19 ECLTDLYDSISVTQAVIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTIMKEFRS 78
Query: 561 NKLEVVVATIAFGMGIDKLNVRRIIHYGWPQSLEAYYQE 599
++++T GID V +I+Y P + E Y
Sbjct: 79 GSSRILISTDLLARGIDVQQVSLVINYDLPANKENYIHR 117
>pdb|1FUU|A Chain A, Yeast Initiation Factor 4a
pdb|1FUU|B Chain B, Yeast Initiation Factor 4a
Length = 394
Score = 33.5 bits (75), Expect = 0.52, Method: Compositional matrix adjust.
Identities = 19/84 (22%), Positives = 36/84 (42%)
Query: 516 IIYVPTRKETLSIAKYLCGFGVKAAAYNASLPKSQLRRVHTEFHENKLEVVVATIAFGMG 575
+I+ TR++ + L +A + LP+ + + EF ++++T G
Sbjct: 263 VIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTIXKEFRSGSSRILISTDLLARG 322
Query: 576 IDKLNVRRIIHYGWPQSLEAYYQE 599
ID V +I+Y P + E Y
Sbjct: 323 IDVQQVSLVINYDLPANKENYIHR 346
>pdb|2VSO|A Chain A, Crystal Structure Of A Translation Initiation Complex
pdb|2VSO|B Chain B, Crystal Structure Of A Translation Initiation Complex
pdb|2VSX|A Chain A, Crystal Structure Of A Translation Initiation Complex
pdb|2VSX|B Chain B, Crystal Structure Of A Translation Initiation Complex
Length = 395
Score = 33.1 bits (74), Expect = 0.55, Method: Compositional matrix adjust.
Identities = 19/84 (22%), Positives = 36/84 (42%)
Query: 516 IIYVPTRKETLSIAKYLCGFGVKAAAYNASLPKSQLRRVHTEFHENKLEVVVATIAFGMG 575
+I+ TR++ + L +A + LP+ + + EF ++++T G
Sbjct: 264 VIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTIMKEFRSGSSRILISTDLLARG 323
Query: 576 IDKLNVRRIIHYGWPQSLEAYYQE 599
ID V +I+Y P + E Y
Sbjct: 324 IDVQQVSLVINYDLPANKENYIHR 347
>pdb|1VEC|A Chain A, Crystal Structure Of The N-Terminal Domain Of RckP54, A
Human Dead-Box Protein
pdb|1VEC|B Chain B, Crystal Structure Of The N-Terminal Domain Of RckP54, A
Human Dead-Box Protein
Length = 206
Score = 32.3 bits (72), Expect = 0.97, Method: Compositional matrix adjust.
Identities = 30/128 (23%), Positives = 55/128 (42%), Gaps = 12/128 (9%)
Query: 177 FQKEALSAWLAHHDCLVLAATGSGKSLCFQIPAL---------LTGKVVVVISPLISLMH 227
Q+E++ L+ D L A G+GKS + IP L + V+V L +
Sbjct: 29 IQEESIPIALSGRDILARAKNGTGKSGAYLIPLLERLDLKKDNIQAMVIVPTRELALQVS 88
Query: 228 DQCSKLSKH-GVTACFLGSGQPDNKVEQKALRGMYSIIYVCPETVIRLIKPLQRLAESRG 286
C ++SKH G +G + + + L ++ P ++ LIK + +A+
Sbjct: 89 QICIQVSKHMGGAKVMATTGGTNLRDDIMRLDDTVHVVIATPGRILDLIK--KGVAKVDH 146
Query: 287 IALFAIDE 294
+ + +DE
Sbjct: 147 VQMIVLDE 154
>pdb|4GL2|A Chain A, Structural Basis For Dsrna Duplex Backbone Recognition By
Mda5
pdb|4GL2|B Chain B, Structural Basis For Dsrna Duplex Backbone Recognition By
Mda5
Length = 699
Score = 32.3 bits (72), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 37/161 (22%), Positives = 71/161 (44%), Gaps = 34/161 (21%)
Query: 480 PHRDRDTDRS-----FERTDLLNKPAE-------RLSMLQEPLEDGLT--------IIYV 519
P + +TDR FE +L + AE +L+ L+ + + T II+
Sbjct: 348 PLKLDETDRFLMTLFFENNKMLKRLAENPEYENEKLTKLRNTIMEQYTRTEESARGIIFT 407
Query: 520 PTRKETLSIAKYL------CGFGVKA-----AAYNAS---LPKSQLRRVHTEFHENKLEV 565
TR+ ++++++ GVKA A +++ + +++ + V ++F K+ +
Sbjct: 408 KTRQSAYALSQWITENEKFAEVGVKAHHLIGAGHSSEFKPMTQNEQKEVISKFRTGKINL 467
Query: 566 VVATIAFGMGIDKLNVRRIIHYGWPQSLEAYYQEAGRAGRD 606
++AT G+D +I YG + A Q GRA D
Sbjct: 468 LIATTVAEEGLDIKECNIVIRYGLVTNEIAMVQARGRARAD 508
>pdb|2Z6O|A Chain A, Crystal Structure Of The Ufc1, Ufm1 Conjugating Enzyme 1
Length = 172
Score = 32.0 bits (71), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 16/42 (38%), Positives = 22/42 (52%)
Query: 327 LKFDIPLMALTATATIQVREDILKSLHMSKGTKFVLTSFFRP 368
++FDIP+ T I V E K+ M +G K LT F+P
Sbjct: 87 IEFDIPITYPTTAPEIAVPELDGKTAKMYRGGKICLTDHFKP 128
>pdb|2FSF|A Chain A, Escherichia Coli Seca, The Preprotein Translocase Dimeric
Atpase
pdb|2FSF|B Chain B, Escherichia Coli Seca, The Preprotein Translocase Dimeric
Atpase
pdb|2FSH|A Chain A, Complex Seca:amp-Pnp From Escherichia Coli
pdb|2FSH|B Chain B, Complex Seca:amp-Pnp From Escherichia Coli
pdb|2FSI|A Chain A, Complex Seca:adp From Escherichia Coli
pdb|2FSI|B Chain B, Complex Seca:adp From Escherichia Coli
Length = 853
Score = 32.0 bits (71), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 19/58 (32%), Positives = 31/58 (53%), Gaps = 6/58 (10%)
Query: 166 KKHFGHSSLKNFQKEALSAWLAHHDCLVLAATGSGKSLCFQIPAL---LTGKVVVVIS 220
K+ FG +++F + L + + C+ TG GK+L +PA LTGK V V++
Sbjct: 68 KRVFG---MRHFDVQLLGGMVLNERCIAEMRTGEGKTLTATLPAYLNALTGKGVHVVT 122
>pdb|3BXZ|A Chain A, Crystal Structure Of The Isolated Dead Motor Domains From
Escherichia Coli Seca
pdb|3BXZ|B Chain B, Crystal Structure Of The Isolated Dead Motor Domains From
Escherichia Coli Seca
Length = 471
Score = 32.0 bits (71), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 19/58 (32%), Positives = 31/58 (53%), Gaps = 6/58 (10%)
Query: 166 KKHFGHSSLKNFQKEALSAWLAHHDCLVLAATGSGKSLCFQIPAL---LTGKVVVVIS 220
K+ FG +++F + L + + C+ TG GK+L +PA LTGK V V++
Sbjct: 78 KRVFG---MRHFDVQLLGGMVLNERCIAEMRTGEGKTLTATLPAYLNALTGKGVHVVT 132
>pdb|4A4D|A Chain A, Crystal Structure Of The N-Terminal Domain Of The Human
Dead-Box Rna Helicase Ddx5 (P68)
Length = 253
Score = 32.0 bits (71), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 55/236 (23%), Positives = 95/236 (40%), Gaps = 44/236 (18%)
Query: 146 SCPKEVEIGSDWEVKVNSL---LKKHFGHSSLKNFQKEALSAWLAHHDCLVLAATGSGKS 202
+CPK V + N + +++F + Q + L+ D + +A TGSGK+
Sbjct: 37 NCPKPVLNFYEANFPANVMDVIARQNFTEPT--AIQAQGWPVALSGLDMVGVAQTGSGKT 94
Query: 203 LCFQIPALL-----------TGKVVVVISPLISLMHDQCSKLSKHGVTACFLGS-----G 246
L + +PA++ G + +V++P L Q +++ AC L S G
Sbjct: 95 LSYLLPAIVHINHQPFLERGDGPICLVLAPTRELAQ-QVQQVAAEYCRACRLKSTCIYGG 153
Query: 247 QPDNKVEQKALRGMYSIIYVCPETVIRLIKPLQ-RLAESRGIALFAIDEVHCVSKWGHDF 305
P + RG + +C T RLI L+ R +DE + G F
Sbjct: 154 APKGPQIRDLERG----VEICIATPGRLIDFLECGKTNLRRTTYLVLDEADRMLDMG--F 207
Query: 306 RPDYRRLSVLRENFGANNLKSLKFDIPLMALTATATIQVR---EDILKS-LHMSKG 357
P R++ + ++ D + +AT +VR ED LK +H++ G
Sbjct: 208 EPQIRKI-----------VDQIRPDRQTLMWSATWPKEVRQLAEDFLKDYIHINIG 252
>pdb|2VDA|A Chain A, Solution Structure Of The Seca-Signal Peptide Complex
Length = 828
Score = 32.0 bits (71), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 19/58 (32%), Positives = 31/58 (53%), Gaps = 6/58 (10%)
Query: 166 KKHFGHSSLKNFQKEALSAWLAHHDCLVLAATGSGKSLCFQIPAL---LTGKVVVVIS 220
K+ FG +++F + L + + C+ TG GK+L +PA LTGK V V++
Sbjct: 68 KRVFG---MRHFDVQLLGGMVLNERCIAEMRTGEGKTLTATLPAYLNALTGKGVHVVT 122
>pdb|2FWR|A Chain A, Structure Of Archaeoglobus Fulgidis Xpb
pdb|2FWR|B Chain B, Structure Of Archaeoglobus Fulgidis Xpb
pdb|2FWR|C Chain C, Structure Of Archaeoglobus Fulgidis Xpb
pdb|2FWR|D Chain D, Structure Of Archaeoglobus Fulgidis Xpb
Length = 472
Score = 32.0 bits (71), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 21/67 (31%), Positives = 34/67 (50%), Gaps = 4/67 (5%)
Query: 173 SLKNFQKEALSAWLAHHDCLVLAATGSGKS--LCFQIPALLTGKVVVVISPLISLMHDQC 230
SL+++Q++AL WL ++ TGSGK+ I L T ++VV P ++L
Sbjct: 93 SLRDYQEKALERWLVDKRGCIVLPTGSGKTHVAMAAINELSTPTLIVV--PTLALAEQWK 150
Query: 231 SKLSKHG 237
+L G
Sbjct: 151 ERLGIFG 157
>pdb|2K07|A Chain A, Solution Nmr Structure Of Human E2-Like Ubiquitin-Fold
Modifier Conjugating Enzyme 1 (Ufc1). Northeast
Structural Genomics Consortium Target Hr41
Length = 175
Score = 31.6 bits (70), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 16/42 (38%), Positives = 22/42 (52%)
Query: 327 LKFDIPLMALTATATIQVREDILKSLHMSKGTKFVLTSFFRP 368
++FDIP+ T I V E K+ M +G K LT F+P
Sbjct: 82 IEFDIPITYPTTAPEIAVPELDGKTAKMYRGGKICLTDHFKP 123
>pdb|3EIQ|A Chain A, Crystal Structure Of Pdcd4-eif4a
pdb|3EIQ|D Chain D, Crystal Structure Of Pdcd4-eif4a
Length = 414
Score = 31.6 bits (70), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 20/94 (21%), Positives = 39/94 (41%)
Query: 506 LQEPLEDGLTIIYVPTRKETLSIAKYLCGFGVKAAAYNASLPKSQLRRVHTEFHENKLEV 565
L E L +I++ TR++ + + + +A + + + + + EF V
Sbjct: 274 LYETLTITQAVIFINTRRKVDWLTEKMHARDFTVSAMHGDMDQKERDVIMREFRSGSSRV 333
Query: 566 VVATIAFGMGIDKLNVRRIIHYGWPQSLEAYYQE 599
++ T GID V +I+Y P + E Y
Sbjct: 334 LITTDLLARGIDVQQVSLVINYDLPTNRENYIHR 367
>pdb|3FE2|A Chain A, Human Dead-Box Rna Helicase Ddx5 (P68), Conserved Domain I
In Complex With Adp
pdb|3FE2|B Chain B, Human Dead-Box Rna Helicase Ddx5 (P68), Conserved Domain I
In Complex With Adp
Length = 242
Score = 31.2 bits (69), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 55/236 (23%), Positives = 95/236 (40%), Gaps = 44/236 (18%)
Query: 146 SCPKEVEIGSDWEVKVNSL---LKKHFGHSSLKNFQKEALSAWLAHHDCLVLAATGSGKS 202
+CPK V + N + +++F + Q + L+ D + +A TGSGK+
Sbjct: 23 NCPKPVLNFYEANFPANVMDVIARQNFTEPT--AIQAQGWPVALSGLDMVGVAQTGSGKT 80
Query: 203 LCFQIPALL-----------TGKVVVVISPLISLMHDQCSKLSKHGVTACFLGS-----G 246
L + +PA++ G + +V++P L Q +++ AC L S G
Sbjct: 81 LSYLLPAIVHINHQPFLERGDGPICLVLAPTRELAQ-QVQQVAAEYCRACRLKSTCIYGG 139
Query: 247 QPDNKVEQKALRGMYSIIYVCPETVIRLIKPLQ-RLAESRGIALFAIDEVHCVSKWGHDF 305
P + RG + +C T RLI L+ R +DE + G F
Sbjct: 140 APKGPQIRDLERG----VEICIATPGRLIDFLECGKTNLRRTTYLVLDEADRMLDMG--F 193
Query: 306 RPDYRRLSVLRENFGANNLKSLKFDIPLMALTATATIQVR---EDILKS-LHMSKG 357
P R++ + ++ D + +AT +VR ED LK +H++ G
Sbjct: 194 EPQIRKI-----------VDQIRPDRQTLMWSATWPKEVRQLAEDFLKDYIHINIG 238
>pdb|2ZU6|A Chain A, Crystal Structure Of The Eif4a-Pdcd4 Complex
pdb|2ZU6|C Chain C, Crystal Structure Of The Eif4a-Pdcd4 Complex
pdb|2ZU6|D Chain D, Crystal Structure Of The Eif4a-Pdcd4 Complex
pdb|2ZU6|F Chain F, Crystal Structure Of The Eif4a-Pdcd4 Complex
Length = 388
Score = 31.2 bits (69), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 20/94 (21%), Positives = 39/94 (41%)
Query: 506 LQEPLEDGLTIIYVPTRKETLSIAKYLCGFGVKAAAYNASLPKSQLRRVHTEFHENKLEV 565
L E L +I++ TR++ + + + +A + + + + + EF V
Sbjct: 248 LYETLTITQAVIFINTRRKVDWLTEKMHARDFTVSAMHGDMDQKERDVIMREFRSGSSRV 307
Query: 566 VVATIAFGMGIDKLNVRRIIHYGWPQSLEAYYQE 599
++ T GID V +I+Y P + E Y
Sbjct: 308 LITTDLLARGIDVQQVSLVINYDLPTNRENYIHR 341
>pdb|4F92|B Chain B, Brr2 Helicase Region S1087l
pdb|4F93|B Chain B, Brr2 Helicase Region S1087l, Mg-Atp
Length = 1724
Score = 30.8 bits (68), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 33/118 (27%), Positives = 51/118 (43%), Gaps = 12/118 (10%)
Query: 190 DCLVLAATGSGKSLC--FQIPALLTGKV---VVVISPLISLMH----DQCSKLSKHGVTA 240
+ V A TGSGK++C F I +L V I+P+ +L D K
Sbjct: 944 NVFVGAPTGSGKTICAEFAILRMLLQSSEGRCVYITPMEALAEQVYMDWYEKFQDRLNKK 1003
Query: 241 CFLGSGQPDNKVEQKALRGMYSIIYVCPETVIRLIKPLQRLAESRGIALFAIDEVHCV 298
L +G+ ++ L G +II PE L + ++ + I LF +DEVH +
Sbjct: 1004 VVLLTGETSTDLK---LLGKGNIIISTPEKWDILSRRWKQRKNVQNINLFVVDEVHLI 1058
>pdb|4F91|B Chain B, Brr2 Helicase Region
Length = 1724
Score = 30.8 bits (68), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 33/118 (27%), Positives = 51/118 (43%), Gaps = 12/118 (10%)
Query: 190 DCLVLAATGSGKSLC--FQIPALLTGKV---VVVISPLISLMH----DQCSKLSKHGVTA 240
+ V A TGSGK++C F I +L V I+P+ +L D K
Sbjct: 944 NVFVGAPTGSGKTICAEFAILRMLLQSSEGRCVYITPMEALAEQVYMDWYEKFQDRLNKK 1003
Query: 241 CFLGSGQPDNKVEQKALRGMYSIIYVCPETVIRLIKPLQRLAESRGIALFAIDEVHCV 298
L +G+ ++ L G +II PE L + ++ + I LF +DEVH +
Sbjct: 1004 VVLLTGETSTDLK---LLGKGNIIISTPEKWDILSRRWKQRKNVQNINLFVVDEVHLI 1058
>pdb|2FZ4|A Chain A, Crystal Structure Of The N-Terminal Half Of Archaeoglobus
Fulgidus Xpb
Length = 237
Score = 30.8 bits (68), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 21/67 (31%), Positives = 34/67 (50%), Gaps = 4/67 (5%)
Query: 173 SLKNFQKEALSAWLAHHDCLVLAATGSGKS--LCFQIPALLTGKVVVVISPLISLMHDQC 230
SL+++Q++AL WL ++ TGSGK+ I L T ++VV P ++L
Sbjct: 93 SLRDYQEKALERWLVDKRGCIVLPTGSGKTHVAMAAINELSTPTLIVV--PTLALAEQWK 150
Query: 231 SKLSKHG 237
+L G
Sbjct: 151 ERLGIFG 157
>pdb|2FSG|A Chain A, Complex Seca:atp From Escherichia Coli
pdb|2FSG|B Chain B, Complex Seca:atp From Escherichia Coli
Length = 853
Score = 30.4 bits (67), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 19/58 (32%), Positives = 30/58 (51%), Gaps = 6/58 (10%)
Query: 166 KKHFGHSSLKNFQKEALSAWLAHHDCLVLAATGSGKSLCFQIPAL---LTGKVVVVIS 220
K+ FG ++F + L + + C+ TG GK+L +PA LTGK V V++
Sbjct: 68 KRVFG---XRHFDVQLLGGXVLNERCIAEXRTGEGKTLTATLPAYLNALTGKGVHVVT 122
>pdb|2ZJ2|A Chain A, Archaeal Dna Helicase Hjm Apo State In Form 1
pdb|2ZJ5|A Chain A, Archaeal Dna Helicase Hjm Complexed With Adp In Form 1
pdb|2ZJ8|A Chain A, Archaeal Dna Helicase Hjm Apo State In Form 2
pdb|2ZJA|A Chain A, Archaeal Dna Helicase Hjm Complexed With Amppcp In Form 2
Length = 720
Score = 30.0 bits (66), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 38/120 (31%), Positives = 55/120 (45%), Gaps = 21/120 (17%)
Query: 495 LLNKPAER-LSMLQEPLEDGLTIIYVPTRKETLSIAKYLCGFGVKAAAYNASLPKSQLRR 553
LL KP R L+ L + LE+ PT ++ +AK + G GV A ++A L + +
Sbjct: 264 LLTKPEIRALNELADSLEEN------PTNEK---LAKAIRG-GV--AFHHAGLGRDERVL 311
Query: 554 VHTEFHENKLEVVVATIAFGMGIDKLNVRRIIHYGWPQS--------LEAYYQEAGRAGR 605
V F + ++ VVAT GI+ R II W S + +Q GRAGR
Sbjct: 312 VEENFRKGIIKAVVATPTLSAGINTPAFRVIIRDIWRYSDFGMERIPIIEVHQMLGRAGR 371
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.318 0.134 0.398
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 21,482,491
Number of Sequences: 62578
Number of extensions: 843872
Number of successful extensions: 2017
Number of sequences better than 100.0: 71
Number of HSP's better than 100.0 without gapping: 55
Number of HSP's successfully gapped in prelim test: 16
Number of HSP's that attempted gapping in prelim test: 1928
Number of HSP's gapped (non-prelim): 92
length of query: 774
length of database: 14,973,337
effective HSP length: 106
effective length of query: 668
effective length of database: 8,340,069
effective search space: 5571166092
effective search space used: 5571166092
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 55 (25.8 bits)