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= 013392
(444 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3LY5|A Chain A, Ddx18 Dead-Domain
pdb|3LY5|B Chain B, Ddx18 Dead-Domain
Length = 262
Score = 159 bits (403), Expect = 2e-39, Method: Compositional matrix adjust.
Identities = 95/241 (39%), Positives = 144/241 (59%), Gaps = 38/241 (15%)
Query: 15 FASCSFSSLGLHSTLCDQLRER-------LGFEAPTKVQAQAIPVILSGRHVLVNAATGT 67
F SF+SL C+ + E +GF T++Q ++I +L GR +L A TG+
Sbjct: 49 FEDTSFASL------CNLVNENTLKAIKEMGFTNMTEIQHKSIRPLLEGRDLLAAAKTGS 102
Query: 68 GKTVAYLAPIINHLQS--YSPRIDRSSGTFALVLVPTRELCLQVYEILHKLL-HRFHWIV 124
GKT+A+L P + + + PR +GT L+L PTREL +Q + +L +L+ H H
Sbjct: 103 GKTLAFLIPAVELIVKLRFMPR----NGTGVLILSPTRELAMQTFGVLKELMTHHVHTY- 157
Query: 125 PGYVMGGENRSKEKARLRKGISILVATPGRLLDHLKHTSSFLHTNLRWIIFDEADRILEL 184
G +MGG NRS E +L GI+I+VATPGRLLDH+++T F++ NL+ ++ DEADRIL++
Sbjct: 158 -GLIMGGSNRSAEAQKLGNGINIIVATPGRLLDHMQNTPGFMYKNLQCLVIDEADRILDV 216
Query: 185 GFGKEIEEILDILGSRNIGSIGEGNEVSNVKRQNLLLSATLNEKVNHLAKISLET-PVLI 243
GF +E+++I+ +L +R RQ +L SAT KV LA+ISL+ P+ +
Sbjct: 217 GFEEELKQIIKLLPTR---------------RQTMLFSATQTRKVEDLARISLKKEPLYV 261
Query: 244 G 244
G
Sbjct: 262 G 262
>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 = 147 bits (370), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 116/415 (27%), Positives = 188/415 (45%), Gaps = 78/415 (18%)
Query: 20 FSSLGLHSTLCDQLRERLGFEAPTKVQAQAIPVILSGRHVLVNAATGTGKTVAYLAPIIN 79
F+S L + D + + G++ PT +Q +IPVI SGR ++ A TG+GKT A+L PI++
Sbjct: 58 FTSADLRDIIIDNV-NKSGYKIPTPIQKCSIPVISSGRDLMACAQTGSGKTAAFLLPILS 116
Query: 80 HL--QSYSPRIDRSSGTFALVLVPTRELCLQVYEILHKLLHRFHWIVPGYVMGGENRSKE 137
L + + R +++ PTREL +Q++ K + + G V GG + +
Sbjct: 117 KLLEDPHELELGRPQ---VVIVSPTRELAIQIFNEARKFAFESYLKI-GIVYGGTSFRHQ 172
Query: 138 KARLRKGISILVATPGRLLDHLKHTSSFLHTNLRWIIFDEADRILELGFGKEIEEILDIL 197
+ +G +++ATPGRLLD + T + R+++ DEADR+L++GF +++ I+ +
Sbjct: 173 NECITRGCHVVIATPGRLLDFVDRTF-ITFEDTRFVVLDEADRMLDMGFSEDMRRIMTHV 231
Query: 198 GSRNIGSIGEGNEVSNVKRQNLLLSATLNEKVNHLAKISLETPVLIGLDEKKLPEDKSHV 257
R + Q L+ SAT E++ +A L+ V + +
Sbjct: 232 TMRP-------------EHQTLMFSATFPEEIQRMAGEFLKNYVFVAIG----------- 267
Query: 258 RFGSLESDVKEEVEHPSTTMRSTTEDFKLPAQLVQRYVKVPCGSRLAVLLSILKHLFDTE 317
G SDVK+ + V +Y K S+L +LS E
Sbjct: 268 IVGGACSDVKQTIYE------------------VNKYAKR---SKLIEILS--------E 298
Query: 318 VSQKLVVFFSTCDAVDFHYSLLSEFQWSPHSQPDMELKQLFLRCKTFRLHGNMKQEDRRT 377
+ +VF T DF S LSE ++ T +HG+ Q R
Sbjct: 299 QADGTIVFVETKRGADFLASFLSEKEFP-----------------TTSIHGDRLQSQREQ 341
Query: 378 TFGAFKTEKKALLLSTDVAARGLDFPKVKCIIQYDSAGEATEYVHRYLKHLPVGN 432
FK +L++T VA+RGLD +K +I YD + +YVHR + VGN
Sbjct: 342 ALRDFKNGSMKVLIATSVASRGLDIKNIKHVINYDMPSKIDDYVHRIGRTGRVGN 396
>pdb|2I4I|A Chain A, Crystal Structure Of Human Dead-Box Rna Helicase Ddx3x
Length = 417
Score = 142 bits (358), Expect = 3e-34, Method: Compositional matrix adjust.
Identities = 121/437 (27%), Positives = 197/437 (45%), Gaps = 90/437 (20%)
Query: 19 SFSSLGLHSTLCDQLRERLGFEAPTKVQAQAIPVILSGRHVLVNAATGTGKTVAYLAPII 78
SFS + + + + E + PT VQ AIP+I R ++ A TG+GKT A+L PI+
Sbjct: 16 SFSDVEMGEIIMGNI-ELTRYTRPTPVQKHAIPIIKEKRDLMACAQTGSGKTAAFLLPIL 74
Query: 79 NHLQSYSP----RIDRSSGTF--------ALVLVPTRELCLQVYEILHKLLHRFHWIVPG 126
+ + S P R + +G + +LVL PTREL +Q+YE K +R + P
Sbjct: 75 SQIYSDGPGEALRAMKENGRYGRRKQYPISLVLAPTRELAVQIYEEARKFSYRSR-VRPC 133
Query: 127 YVMGGENRSKEKARLRKGISILVATPGRLLDHLKHTSSFLHTNLRWIIFDEADRILELGF 186
V GG + ++ L +G +LVATPGRL+D ++ L ++++ DEADR+L++GF
Sbjct: 134 VVYGGADIGQQIRDLERGCHLLVATPGRLVDMMERGKIGLDF-CKYLVLDEADRMLDMGF 192
Query: 187 GKEIEEIL--DILGSRNIGSIGEGNEVSNVKRQNLLLSATLNEKVNHLAKISLETPVLIG 244
+I I+ D + + + R ++ SAT +++ LA+ L+ + +
Sbjct: 193 EPQIRRIVEQDTMPPKGV-------------RHTMMFSATFPKEIQMLARDFLDEYIFLA 239
Query: 245 LDEKKLPEDKSHVRFGSLESDVKEEVEHPSTTMRSTTEDFKLPAQLVQRYVKVPCGSRLA 304
+ R G ST+E+ + Q+ V V + +
Sbjct: 240 VG-----------RVG------------------STSEN------ITQKVVWVEESDKRS 264
Query: 305 VLLSILKHLFDTEVSQKLVVFFSTCDAVDFHYSLLSEFQWSPHSQPDMELKQLFLRCKTF 364
LL +L ++ +VF T D L ++ C +
Sbjct: 265 FLLDLLNATGKDSLT---LVFVETKKGADSLEDFLYHEGYA---------------CTS- 305
Query: 365 RLHGNMKQEDRRTTFGAFKTEKKALLLSTDVAARGLDFPKVKCIIQYDSAGEATEYVHRY 424
+HG+ Q DR F++ K +L++T VAARGLD VK +I +D + EYVHR
Sbjct: 306 -IHGDRSQRDREEALHQFRSGKSPILVATAVAARGLDISNVKHVINFDLPSDIEEYVHRI 364
Query: 425 LKHLPVGNF-----YFN 436
+ VGN +FN
Sbjct: 365 GRTGRVGNLGLATSFFN 381
>pdb|3BER|A Chain A, Human Dead-Box Rna-Helicase Ddx47, Conserved Domain I In
Complex With Amp
Length = 249
Score = 139 bits (351), Expect = 2e-33, Method: Compositional matrix adjust.
Identities = 82/223 (36%), Positives = 125/223 (56%), Gaps = 23/223 (10%)
Query: 19 SFSSLGLHSTLCDQLRERLGFEAPTKVQAQAIPVILSGRHVLVNAATGTGKTVAYLAPII 78
+F LG+ LC+ ++LG+ PTK+Q +AIP+ L GR ++ A TG+GKT A+ PI+
Sbjct: 44 TFKDLGVTDVLCEAC-DQLGWTKPTKIQIEAIPLALQGRDIIGLAETGSGKTGAFALPIL 102
Query: 79 NHLQSYSPRIDRSSGTFALVLVPTRELCLQVYEILHKLLHRFHWIVPGYVMGGENRSKEK 138
N L R+ FALVL PTREL Q+ E L + ++GG + +
Sbjct: 103 NALLETPQRL------FALVLTPTRELAFQISEQFEALGSSIG-VQSAVIVGGIDSMSQS 155
Query: 139 ARLRKGISILVATPGRLLDHLKHTSSFLHTNLRWIIFDEADRILELGFGKEIEEILDILG 198
L K I++ATPGRL+DHL++T F L++++ DEADRIL + F E+++IL ++
Sbjct: 156 LALAKKPHIIIATPGRLIDHLENTKGFNLRALKYLVMDEADRILNMDFETEVDKILKVI- 214
Query: 199 SRNIGSIGEGNEVSNVKRQNLLLSATLNEKVNHLAKISLETPV 241
R+ R+ L SAT+ +KV L + +L+ PV
Sbjct: 215 PRD--------------RKTFLFSATMTKKVQKLQRAALKNPV 243
>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 = 137 bits (346), Expect = 8e-33, Method: Compositional matrix adjust.
Identities = 119/396 (30%), Positives = 183/396 (46%), Gaps = 63/396 (15%)
Query: 36 RLGFEAPTKVQAQAIPVILSGRH--VLVNAATGTGKTVAYLAPIINHLQSYSPRIDRSSG 93
R+ F T VQ + I ILS V+ A TGTGKT A+L PI HL + + D
Sbjct: 89 RMEFPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIFQHL--INTKFDSQYM 146
Query: 94 TFALVLVPTRELCLQVYEILHKLLHRFHWIVPGY----VMGGENRSKEKARLRK-GISIL 148
A+++ PTR+L LQ+ E K +H ++ + Y ++GG + ++ K +I+
Sbjct: 147 VKAVIVAPTRDLALQI-EAEVKKIHDMNYGLKKYACVSLVGGTDFRAAMNKMNKLRPNIV 205
Query: 149 VATPGRLLDHLKHTSSFLHTNLRWIIFDEADRILELGFGKEIEEILDILGSRNIGSIGEG 208
+ATPGRL+D L+ S+ + + + DEADR+LE+GF ++E I IL +N S
Sbjct: 206 IATPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLEIGFRDDLETISGILNEKNSKS---- 261
Query: 209 NEVSNVKRQNLLLSATLNEKVNHLAKISLETPVLIGLDEKKLPEDKSHVRFGSLESDVKE 268
N+K LL SATL++KV LA + + LD E ++H R
Sbjct: 262 --ADNIK--TLLFSATLDDKVQKLANNIMNKKECLFLDTVDKNEPEAHERIDQ------- 310
Query: 269 EVEHPSTTMRSTTEDFKLPAQLVQRYVKVPCGSRLAVLLSILKHLFDTEVSQKLVVFFST 328
S + +E F S A + I K + + + + K ++F T
Sbjct: 311 -----SVVI---SEKF--------------ANSIFAAVEHIKKQIKERDSNYKAIIFAPT 348
Query: 329 CDAVDFHYSLL-SEFQWSPHSQPDMELKQLFLRCKTFRLHGNMKQEDRRTTFGAFKTEKK 387
F S+L +EF+ P +E HG + Q R + FK ++
Sbjct: 349 VKFTSFLCSILKNEFK---KDLPILE------------FHGKITQNKRTSLVKRFKKDES 393
Query: 388 ALLLSTDVAARGLDFPKVKCIIQYDSAGEATEYVHR 423
+L+ TDV ARG+DFP V ++Q E Y+HR
Sbjct: 394 GILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHR 429
>pdb|3SQX|A Chain A, Structure Of Mss116p (Nte And C-Tail Double Deletion)
Bound To Ssrna And Amp-Pnp
Length = 512
Score = 137 bits (346), Expect = 8e-33, Method: Compositional matrix adjust.
Identities = 119/396 (30%), Positives = 183/396 (46%), Gaps = 63/396 (15%)
Query: 36 RLGFEAPTKVQAQAIPVILSGRH--VLVNAATGTGKTVAYLAPIINHLQSYSPRIDRSSG 93
R+ F T VQ + I ILS V+ A TGTGKT A+L PI HL + + D
Sbjct: 38 RMEFPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIFQHL--INTKFDSQYM 95
Query: 94 TFALVLVPTRELCLQVYEILHKLLHRFHWIVPGY----VMGGENRSKEKARLRK-GISIL 148
A+++ PTR+L LQ+ E K +H ++ + Y ++GG + ++ K +I+
Sbjct: 96 VKAVIVAPTRDLALQI-EAEVKKIHDMNYGLKKYACVSLVGGTDFRAAMNKMNKLRPNIV 154
Query: 149 VATPGRLLDHLKHTSSFLHTNLRWIIFDEADRILELGFGKEIEEILDILGSRNIGSIGEG 208
+ATPGRL+D L+ S+ + + + DEADR+LE+GF ++E I IL +N S
Sbjct: 155 IATPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLEIGFRDDLETISGILNEKNSKS---- 210
Query: 209 NEVSNVKRQNLLLSATLNEKVNHLAKISLETPVLIGLDEKKLPEDKSHVRFGSLESDVKE 268
N+K LL SATL++KV LA + + LD E ++H R
Sbjct: 211 --ADNIK--TLLFSATLDDKVQKLANNIMNKKECLFLDTVDKNEPEAHERIDQ------- 259
Query: 269 EVEHPSTTMRSTTEDFKLPAQLVQRYVKVPCGSRLAVLLSILKHLFDTEVSQKLVVFFST 328
S + +E F S A + I K + + + + K ++F T
Sbjct: 260 -----SVVI---SEKF--------------ANSIFAAVEHIKKQIKERDSNYKAIIFAPT 297
Query: 329 CDAVDFHYSLL-SEFQWSPHSQPDMELKQLFLRCKTFRLHGNMKQEDRRTTFGAFKTEKK 387
F S+L +EF+ P +E HG + Q R + FK ++
Sbjct: 298 VKFTSFLCSILKNEFK---KDLPILE------------FHGKITQNKRTSLVKRFKKDES 342
Query: 388 ALLLSTDVAARGLDFPKVKCIIQYDSAGEATEYVHR 423
+L+ TDV ARG+DFP V ++Q E Y+HR
Sbjct: 343 GILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHR 378
>pdb|3SQW|A Chain A, Structure Of Mss116p (Nte Deletion) Bound To Ssrna And
Amp-Pnp
Length = 579
Score = 137 bits (346), Expect = 1e-32, Method: Compositional matrix adjust.
Identities = 119/396 (30%), Positives = 183/396 (46%), Gaps = 63/396 (15%)
Query: 36 RLGFEAPTKVQAQAIPVILSGRH--VLVNAATGTGKTVAYLAPIINHLQSYSPRIDRSSG 93
R+ F T VQ + I ILS V+ A TGTGKT A+L PI HL + + D
Sbjct: 38 RMEFPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIFQHL--INTKFDSQYM 95
Query: 94 TFALVLVPTRELCLQVYEILHKLLHRFHWIVPGY----VMGGENRSKEKARLRK-GISIL 148
A+++ PTR+L LQ+ E K +H ++ + Y ++GG + ++ K +I+
Sbjct: 96 VKAVIVAPTRDLALQI-EAEVKKIHDMNYGLKKYACVSLVGGTDFRAAMNKMNKLRPNIV 154
Query: 149 VATPGRLLDHLKHTSSFLHTNLRWIIFDEADRILELGFGKEIEEILDILGSRNIGSIGEG 208
+ATPGRL+D L+ S+ + + + DEADR+LE+GF ++E I IL +N S
Sbjct: 155 IATPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLEIGFRDDLETISGILNEKNSKS---- 210
Query: 209 NEVSNVKRQNLLLSATLNEKVNHLAKISLETPVLIGLDEKKLPEDKSHVRFGSLESDVKE 268
N+K LL SATL++KV LA + + LD E ++H R
Sbjct: 211 --ADNIK--TLLFSATLDDKVQKLANNIMNKKECLFLDTVDKNEPEAHERIDQ------- 259
Query: 269 EVEHPSTTMRSTTEDFKLPAQLVQRYVKVPCGSRLAVLLSILKHLFDTEVSQKLVVFFST 328
S + +E F S A + I K + + + + K ++F T
Sbjct: 260 -----SVVI---SEKF--------------ANSIFAAVEHIKKQIKERDSNYKAIIFAPT 297
Query: 329 CDAVDFHYSLL-SEFQWSPHSQPDMELKQLFLRCKTFRLHGNMKQEDRRTTFGAFKTEKK 387
F S+L +EF+ P +E HG + Q R + FK ++
Sbjct: 298 VKFTSFLCSILKNEFK---KDLPILE------------FHGKITQNKRTSLVKRFKKDES 342
Query: 388 ALLLSTDVAARGLDFPKVKCIIQYDSAGEATEYVHR 423
+L+ TDV ARG+DFP V ++Q E Y+HR
Sbjct: 343 GILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHR 378
>pdb|2PL3|A Chain A, Human Dead-Box Rna Helicase Ddx10, Dead Domain In Complex
With Adp
Length = 236
Score = 132 bits (333), Expect = 3e-31, Method: Compositional matrix adjust.
Identities = 78/206 (37%), Positives = 118/206 (57%), Gaps = 19/206 (9%)
Query: 43 TKVQAQAIPVILSGRHVLVNAATGTGKTVAYLAPIINHLQSYSPRIDRSSGTFALVLVPT 102
T++Q Q I + L G+ VL A TG+GKT+A+L P++ L Y + + G L++ PT
Sbjct: 49 TEIQKQTIGLALQGKDVLGAAKTGSGKTLAFLVPVLEAL--YRLQWTSTDGLGVLIISPT 106
Query: 103 RELCLQVYEILHKLLHRFHWIVPGYVMGGENRSKEKARLRKGISILVATPGRLLDHLKHT 162
REL Q +E+L K+ + H G ++GG++ E R+ I+ILV TPGRLL H+ T
Sbjct: 107 RELAYQTFEVLRKV-GKNHDFSAGLIIGGKDLKHEAERI-NNINILVCTPGRLLQHMDET 164
Query: 163 SSFLHTNLRWIIFDEADRILELGFGKEIEEILDILGSRNIGSIGEGNEVSNVKRQNLLLS 222
SF T+L+ ++ DEADRIL++GF + +++ L KRQ LL S
Sbjct: 165 VSFHATDLQMLVLDEADRILDMGFADTMNAVIENLPK---------------KRQTLLFS 209
Query: 223 ATLNEKVNHLAKISLETPVLIGLDEK 248
AT + V LA++SL+ P + + EK
Sbjct: 210 ATQTKSVKDLARLSLKNPEYVWVHEK 235
>pdb|1S2M|A Chain A, Crystal Structure Of The Dead Box Protein Dhh1p
Length = 400
Score = 124 bits (312), Expect = 8e-29, Method: Compositional matrix adjust.
Identities = 108/403 (26%), Positives = 171/403 (42%), Gaps = 80/403 (19%)
Query: 38 GFEAPTKVQAQAIPVILSGRHVLVNAATGTGKTVAYLAPIINHLQSYSPRIDRSSGTFAL 97
GFE P+ +Q +AIPV ++GR +L A GTGKT A++ P L+ P++++ AL
Sbjct: 40 GFEKPSPIQEEAIPVAITGRDILARAKNGTGKTAAFVIPT---LEKVKPKLNKIQ---AL 93
Query: 98 VLVPTRELCLQVYEILHKLLHRFHWIVPGYVMGGENRSKEKARLRKGISILVATPGRLLD 157
++VPTREL LQ +++ + L + I GG N + RL + + ILV TPGR+LD
Sbjct: 94 IMVPTRELALQTSQVV-RTLGKHCGISCMVTTGGTNLRDDILRLNETVHILVGTPGRVLD 152
Query: 158 HLKHTSSFLHTNLRWIIFDEADRILELGFGKEIEEILDILGSRNIGSIGEGNEVSNVKRQ 217
+ L ++ I DEAD++L F IE+IL L + Q
Sbjct: 153 LASRKVADL-SDCSLFIMDEADKMLSRDFKTIIEQILSFLPPTH---------------Q 196
Query: 218 NLLLSATLNEKVNHLAKISLETPVLIGLDEKKLPEDKSHVRFGSLESDVKEEVEHPSTTM 277
+LL SAT V L P I L E+ T+
Sbjct: 197 SLLFSATFPLTVKEFMVKHLHKPYEINLMEE--------------------------LTL 230
Query: 278 RSTTEDFKLPAQLVQRYVKVPCGSRLAVLLSILKHLFDTEVSQKLVVFFSTCDAVDFHYS 337
+ T+ + V+ K+ C L LF + ++F ++ + V+
Sbjct: 231 KGITQYYA----FVEERQKLHC----------LNTLFSKLQINQAIIFCNSTNRVELLAK 276
Query: 338 LLSEFQWSPHSQPDMELKQLFLRCKTFRLHGNMKQEDRRTTFGAFKTEKKALLLSTDVAA 397
+++ +S + H MKQ++R F F+ K L+ +D+
Sbjct: 277 KITDLGYS-----------------CYYSHARMKQQERNKVFHEFRQGKVRTLVCSDLLT 319
Query: 398 RGLDFPKVKCIIQYDSAGEATEYVHRYLKHLPVGNFYFNIPLI 440
RG+D V +I +D A Y+HR + G+ I LI
Sbjct: 320 RGIDIQAVNVVINFDFPKTAETYLHRIGRSGRFGHLGLAINLI 362
>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 = 123 bits (308), Expect = 2e-28, Method: Compositional matrix adjust.
Identities = 108/411 (26%), Positives = 178/411 (43%), Gaps = 98/411 (23%)
Query: 19 SFSSLGLHSTLCDQLRERLGFEAPTKVQAQAIPVILSGRH-VLVNAATGTGKTVAYLAPI 77
+F+ L L + + +R + GFE PT +Q + IP+ L+ + ++ A TG+GKT ++ P+
Sbjct: 7 NFNELNLSDNILNAIRNK-GFEKPTDIQXKVIPLFLNDEYNIVAQARTGSGKTASFAIPL 65
Query: 78 INHLQSYSPRIDRSSGTFALVLVPTRELCLQVYEILHKLLHRFHWIVPGYVMGGENRSKE 137
I ++ ++G A++L PTREL +QV + + L + + + GG+ +
Sbjct: 66 I-------ELVNENNGIEAIILTPTRELAIQVADEIESLKGNKNLKI-AKIYGGKAIYPQ 117
Query: 138 KARLRKGISILVATPGRLLDHLKHTSSFLHTNLRWIIFDEADRILELGFGKEIEEILDIL 197
L K +I+V TPGR+LDH+ + L N+++ I DEAD L GF K++E+IL+
Sbjct: 118 IKAL-KNANIVVGTPGRILDHINRGTLNLK-NVKYFILDEADEXLNXGFIKDVEKILN-- 173
Query: 198 GSRNIGSIGEGNEVSNVKRQNLLLSATLNEKVNHLAKISLETPVLIGLDEKKLPEDKSHV 257
N ++ LL SAT ++ +LA KK D S +
Sbjct: 174 -------------ACNKDKRILLFSATXPREILNLA--------------KKYXGDYSFI 206
Query: 258 RFGSLESDVKEEVEHPSTTMRSTTEDFKLPAQLVQRYVKVPCGSRLAVLLSILKHLFDTE 317
+ K+ A + Q YV+V R L +LK+
Sbjct: 207 K-------------------------AKINANIEQSYVEVNENERFEALCRLLKN----- 236
Query: 318 VSQKLVVFFSTCDAVDFHYSLLSEFQWSPHSQPDMELKQL--FLRCKTFR---LHGNMKQ 372
EF + + K+L LR F+ +HG++ Q
Sbjct: 237 ----------------------KEFYGLVFCKTKRDTKELASXLRDIGFKAGAIHGDLSQ 274
Query: 373 EDRRTTFGAFKTEKKALLLSTDVAARGLDFPKVKCIIQYDSAGEATEYVHR 423
R FK +K +L++TDV +RG+D + C+I Y Y HR
Sbjct: 275 SQREKVIRLFKQKKIRILIATDVXSRGIDVNDLNCVINYHLPQNPESYXHR 325
>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 = 123 bits (308), Expect = 2e-28, Method: Compositional matrix adjust.
Identities = 107/416 (25%), Positives = 182/416 (43%), Gaps = 81/416 (19%)
Query: 9 ETVKEIFASCSFSSLGLHSTLCDQLRERLGFEAPTKVQAQAIPVILSGRHVLVNAATGTG 68
ET +E+ + +F ++GL L + GFE P+ +Q +AI I+ GR V+ + +GTG
Sbjct: 7 ETSEEVDVTPTFDTMGLREDLLRGIYA-YGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTG 65
Query: 69 KTVAYLAPIINHLQSYSPRIDRSSGTFALVLVPTRELCLQVYEILHKLLHRFHWIVPGYV 128
KT + ++ L + T AL+L PTREL +Q+ + L L + +
Sbjct: 66 KTATFSISVLQCLDI------QVRETQALILAPTRELAVQIQKGLLA-LGDYMNVQCHAC 118
Query: 129 MGGENRSKEKARLRKGISILVATPGRLLDHLKHTSSFLHTN-LRWIIFDEADRILELGFG 187
+GG N ++ +L G ++ TPGR+ D ++ S L T ++ ++ DEAD +L GF
Sbjct: 119 IGGTNVGEDIRKLDYGQHVVAGTPGRVFDMIRRRS--LRTRAIKMLVLDEADEMLNKGFK 176
Query: 188 KEIEEILDILGSRNIGSIGEGNEVSNVKRQNLLLSATLNEKVNHLAKISLETPVLIGLDE 247
++I ++ L Q +L+SATL ++ + + P+ I +
Sbjct: 177 EQIYDVYRYLPPAT---------------QVVLISATLPHEILEMTNKFMTDPIRILVKR 221
Query: 248 KKLPEDKSHVRFGSLESDVKEEVEHPSTTMRSTTEDFKLPAQLVQRYVKVPCGSRLAVLL 307
+L + F ++E E++K
Sbjct: 222 DELTLEGIKQFFVAVER-----------------EEWKFDT------------------- 245
Query: 308 SILKHLFDTEVSQKLVVFFSTCDAVDFHYSLLSEFQWSPHSQPDMELKQLFLRCKTFRLH 367
L L+DT + V+F +T VD+ + E ++ S +H
Sbjct: 246 --LCDLYDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSS-----------------MH 286
Query: 368 GNMKQEDRRTTFGAFKTEKKALLLSTDVAARGLDFPKVKCIIQYDSAGEATEYVHR 423
G+M Q++R + F++ +L+STDV ARGLD P+V II YD Y+HR
Sbjct: 287 GDMPQKERESIMKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHR 342
>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 = 122 bits (307), Expect = 3e-28, Method: Compositional matrix adjust.
Identities = 107/416 (25%), Positives = 182/416 (43%), Gaps = 81/416 (19%)
Query: 9 ETVKEIFASCSFSSLGLHSTLCDQLRERLGFEAPTKVQAQAIPVILSGRHVLVNAATGTG 68
ET +E+ + +F ++GL L + GFE P+ +Q +AI I+ GR V+ + +GTG
Sbjct: 28 ETSEEVDVTPTFDTMGLREDLLRGIYA-YGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTG 86
Query: 69 KTVAYLAPIINHLQSYSPRIDRSSGTFALVLVPTRELCLQVYEILHKLLHRFHWIVPGYV 128
KT + ++ L + T AL+L PTREL +Q+ + L L + +
Sbjct: 87 KTATFSISVLQCLDI------QVRETQALILAPTRELAVQIQKGLLA-LGDYMNVQCHAC 139
Query: 129 MGGENRSKEKARLRKGISILVATPGRLLDHLKHTSSFLHTN-LRWIIFDEADRILELGFG 187
+GG N ++ +L G ++ TPGR+ D ++ S L T ++ ++ DEAD +L GF
Sbjct: 140 IGGTNVGEDIRKLDYGQHVVAGTPGRVFDMIRRRS--LRTRAIKMLVLDEADEMLNKGFK 197
Query: 188 KEIEEILDILGSRNIGSIGEGNEVSNVKRQNLLLSATLNEKVNHLAKISLETPVLIGLDE 247
++I ++ L Q +L+SATL ++ + + P+ I +
Sbjct: 198 EQIYDVYRYLPPAT---------------QVVLISATLPHEILEMTNKFMTDPIRILVKR 242
Query: 248 KKLPEDKSHVRFGSLESDVKEEVEHPSTTMRSTTEDFKLPAQLVQRYVKVPCGSRLAVLL 307
+L + F ++E E++K
Sbjct: 243 DELTLEGIKQFFVAVER-----------------EEWK---------------------F 264
Query: 308 SILKHLFDTEVSQKLVVFFSTCDAVDFHYSLLSEFQWSPHSQPDMELKQLFLRCKTFRLH 367
L L+DT + V+F +T VD+ + E ++ S +H
Sbjct: 265 DTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSS-----------------MH 307
Query: 368 GNMKQEDRRTTFGAFKTEKKALLLSTDVAARGLDFPKVKCIIQYDSAGEATEYVHR 423
G+M Q++R + F++ +L+STDV ARGLD P+V II YD Y+HR
Sbjct: 308 GDMPQKERESIMKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHR 363
>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 = 122 bits (307), Expect = 3e-28, Method: Compositional matrix adjust.
Identities = 107/416 (25%), Positives = 182/416 (43%), Gaps = 81/416 (19%)
Query: 9 ETVKEIFASCSFSSLGLHSTLCDQLRERLGFEAPTKVQAQAIPVILSGRHVLVNAATGTG 68
ET +E+ + +F ++GL L + GFE P+ +Q +AI I+ GR V+ + +GTG
Sbjct: 29 ETSEEVDVTPTFDTMGLREDLLRGIYA-YGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTG 87
Query: 69 KTVAYLAPIINHLQSYSPRIDRSSGTFALVLVPTRELCLQVYEILHKLLHRFHWIVPGYV 128
KT + ++ L + T AL+L PTREL +Q+ + L L + +
Sbjct: 88 KTATFSISVLQCLDI------QVRETQALILAPTRELAVQIQKGLLA-LGDYMNVQCHAC 140
Query: 129 MGGENRSKEKARLRKGISILVATPGRLLDHLKHTSSFLHTN-LRWIIFDEADRILELGFG 187
+GG N ++ +L G ++ TPGR+ D ++ S L T ++ ++ DEAD +L GF
Sbjct: 141 IGGTNVGEDIRKLDYGQHVVAGTPGRVFDMIRRRS--LRTRAIKMLVLDEADEMLNKGFK 198
Query: 188 KEIEEILDILGSRNIGSIGEGNEVSNVKRQNLLLSATLNEKVNHLAKISLETPVLIGLDE 247
++I ++ L Q +L+SATL ++ + + P+ I +
Sbjct: 199 EQIYDVYRYLPPAT---------------QVVLISATLPHEILEMTNKFMTDPIRILVKR 243
Query: 248 KKLPEDKSHVRFGSLESDVKEEVEHPSTTMRSTTEDFKLPAQLVQRYVKVPCGSRLAVLL 307
+L + F ++E E++K
Sbjct: 244 DELTLEGIKQFFVAVER-----------------EEWK---------------------F 265
Query: 308 SILKHLFDTEVSQKLVVFFSTCDAVDFHYSLLSEFQWSPHSQPDMELKQLFLRCKTFRLH 367
L L+DT + V+F +T VD+ + E ++ S +H
Sbjct: 266 DTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSS-----------------MH 308
Query: 368 GNMKQEDRRTTFGAFKTEKKALLLSTDVAARGLDFPKVKCIIQYDSAGEATEYVHR 423
G+M Q++R + F++ +L+STDV ARGLD P+V II YD Y+HR
Sbjct: 309 GDMPQKERESIMKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHR 364
>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 = 122 bits (307), Expect = 3e-28, Method: Compositional matrix adjust.
Identities = 107/416 (25%), Positives = 182/416 (43%), Gaps = 81/416 (19%)
Query: 9 ETVKEIFASCSFSSLGLHSTLCDQLRERLGFEAPTKVQAQAIPVILSGRHVLVNAATGTG 68
ET +E+ + +F ++GL L + GFE P+ +Q +AI I+ GR V+ + +GTG
Sbjct: 29 ETSEEVDVTPTFDTMGLREDLLRGIYA-YGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTG 87
Query: 69 KTVAYLAPIINHLQSYSPRIDRSSGTFALVLVPTRELCLQVYEILHKLLHRFHWIVPGYV 128
KT + ++ L + T AL+L PTREL +Q+ + L L + +
Sbjct: 88 KTATFSISVLQCLDI------QVRETQALILAPTRELAVQIQKGLLA-LGDYMNVQCHAC 140
Query: 129 MGGENRSKEKARLRKGISILVATPGRLLDHLKHTSSFLHTN-LRWIIFDEADRILELGFG 187
+GG N ++ +L G ++ TPGR+ D ++ S L T ++ ++ DEAD +L GF
Sbjct: 141 IGGTNVGEDIRKLDYGQHVVAGTPGRVFDMIRRRS--LRTRAIKMLVLDEADEMLNKGFK 198
Query: 188 KEIEEILDILGSRNIGSIGEGNEVSNVKRQNLLLSATLNEKVNHLAKISLETPVLIGLDE 247
++I ++ L Q +L+SATL ++ + + P+ I +
Sbjct: 199 EQIYDVYRYLPPAT---------------QVVLISATLPHEILEMTNKFMTDPIRILVKR 243
Query: 248 KKLPEDKSHVRFGSLESDVKEEVEHPSTTMRSTTEDFKLPAQLVQRYVKVPCGSRLAVLL 307
+L + F ++E E++K
Sbjct: 244 DELTLEGIKQFFVAVER-----------------EEWK---------------------F 265
Query: 308 SILKHLFDTEVSQKLVVFFSTCDAVDFHYSLLSEFQWSPHSQPDMELKQLFLRCKTFRLH 367
L L+DT + V+F +T VD+ + E ++ S +H
Sbjct: 266 DTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSS-----------------MH 308
Query: 368 GNMKQEDRRTTFGAFKTEKKALLLSTDVAARGLDFPKVKCIIQYDSAGEATEYVHR 423
G+M Q++R + F++ +L+STDV ARGLD P+V II YD Y+HR
Sbjct: 309 GDMPQKERESIMKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHR 364
>pdb|2J0U|B Chain B, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 120 bits (301), Expect = 2e-27, Method: Compositional matrix adjust.
Identities = 106/406 (26%), Positives = 176/406 (43%), Gaps = 81/406 (19%)
Query: 19 SFSSLGLHSTLCDQLRERLGFEAPTKVQAQAIPVILSGRHVLVNAATGTGKTVAYLAPII 78
+F ++GL L + GFE P+ +Q +AI I+ GR V+ + +GTGKT + ++
Sbjct: 2 TFDTMGLREDLLRGIYA-YGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSVSVL 60
Query: 79 NHLQSYSPRIDRSSGTFALVLVPTRELCLQVYEILHKLLHRFHWIVPGYVMGGENRSKEK 138
L + T AL+L PTREL +QV + L L + + +GG N ++
Sbjct: 61 QCLDI------QVRETQALILAPTRELAVQVQKGLLA-LGDYMNVQSHACIGGTNVGEDI 113
Query: 139 ARLRKGISILVATPGRLLDHLKHTSSFLHTN-LRWIIFDEADRILELGFGKEIEEILDIL 197
+L G ++ TPGR+ D ++ S L T ++ ++ DEAD +L GF ++I ++ L
Sbjct: 114 RKLDYGQHVVAGTPGRVFDMIRRRS--LRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYL 171
Query: 198 GSRNIGSIGEGNEVSNVKRQNLLLSATLNEKVNHLAKISLETPVLIGLDEKKLPEDKSHV 257
Q +L+SATL +V + + P+ I + +L +
Sbjct: 172 PPAT---------------QVVLISATLPHEVLEMTNKFMTDPIRILVKRDELTLEGIKQ 216
Query: 258 RFGSLESDVKEEVEHPSTTMRSTTEDFKLPAQLVQRYVKVPCGSRLAVLLSILKHLFDTE 317
F ++E E++K L L+DT
Sbjct: 217 FFVAVER-----------------EEWK---------------------FDTLCDLYDTL 238
Query: 318 VSQKLVVFFSTCDAVDFHYSLLSEFQWSPHSQPDMELKQLFLRCKTFRLHGNMKQEDRRT 377
+ V+F +T VD+ + E ++ S +HG+M Q++R +
Sbjct: 239 TITQAVIFCNTKRKVDWLTEKMREANFTVSS-----------------MHGDMPQKERES 281
Query: 378 TFGAFKTEKKALLLSTDVAARGLDFPKVKCIIQYDSAGEATEYVHR 423
F++ +L+STDV ARGLD P+V II YD Y+HR
Sbjct: 282 IMKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHR 327
>pdb|2J0U|A Chain A, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 119 bits (298), Expect = 3e-27, Method: Compositional matrix adjust.
Identities = 105/406 (25%), Positives = 176/406 (43%), Gaps = 81/406 (19%)
Query: 19 SFSSLGLHSTLCDQLRERLGFEAPTKVQAQAIPVILSGRHVLVNAATGTGKTVAYLAPII 78
+F ++GL L + GFE P+ +Q +AI I+ GR V+ + +GTGKT + ++
Sbjct: 2 TFDTMGLREDLLRGIYA-YGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSVSVL 60
Query: 79 NHLQSYSPRIDRSSGTFALVLVPTRELCLQVYEILHKLLHRFHWIVPGYVMGGENRSKEK 138
L + T AL+L PTREL +QV + L L + + +GG N ++
Sbjct: 61 QCLDI------QVRETQALILAPTRELAVQVQKGLLA-LGDYMNVQCHACIGGTNVGEDI 113
Query: 139 ARLRKGISILVATPGRLLDHLKHTSSFLHTN-LRWIIFDEADRILELGFGKEIEEILDIL 197
+L G ++ TPGR+ D ++ S L T ++ ++ DEAD +L GF ++I ++ L
Sbjct: 114 RKLDYGQHVVAGTPGRVFDMIRRRS--LRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYL 171
Query: 198 GSRNIGSIGEGNEVSNVKRQNLLLSATLNEKVNHLAKISLETPVLIGLDEKKLPEDKSHV 257
Q +L+SATL ++ + + P+ I + +L +
Sbjct: 172 PPAT---------------QVVLISATLPHEILEMTNKFMTDPIRILVKRDELTLEGIKQ 216
Query: 258 RFGSLESDVKEEVEHPSTTMRSTTEDFKLPAQLVQRYVKVPCGSRLAVLLSILKHLFDTE 317
F ++E E++K L L+DT
Sbjct: 217 FFVAVER-----------------EEWK---------------------FDTLCDLYDTL 238
Query: 318 VSQKLVVFFSTCDAVDFHYSLLSEFQWSPHSQPDMELKQLFLRCKTFRLHGNMKQEDRRT 377
+ V+F +T VD+ + E ++ S +HG+M Q++R +
Sbjct: 239 TITQAVIFCNTKRKVDWLTEKMREANFTVSS-----------------MHGDMPQKERES 281
Query: 378 TFGAFKTEKKALLLSTDVAARGLDFPKVKCIIQYDSAGEATEYVHR 423
F++ +L+STDV ARGLD P+V II YD Y+HR
Sbjct: 282 IMKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHR 327
>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 = 119 bits (297), Expect = 4e-27, Method: Compositional matrix adjust.
Identities = 80/231 (34%), Positives = 120/231 (51%), Gaps = 38/231 (16%)
Query: 36 RLGFEAPTKVQAQAIPVILSGRHVLVNAATGTGKTVAYLAPIINHLQSYSPRIDRSSGTF 95
R F PT +QAQ PV LSG ++ A TG+GKT++YL P I H+ ++ P ++R G
Sbjct: 46 RQNFTEPTAIQAQGWPVALSGLDMVGVAQTGSGKTLSYLLPAIVHI-NHQPFLERGDGPI 104
Query: 96 ALVLVPTRELCLQVYEILHKLLHRFHWIVPGYVMGGENRSKEKARLRKGISILVATPGRL 155
LVL PTREL QV ++ + R + + GG + + L +G+ I +ATPGRL
Sbjct: 105 CLVLAPTRELAQQVQQVAAEYC-RACRLKSTCIYGGAPKGPQIRDLERGVEICIATPGRL 163
Query: 156 LDHLKHTSSFLHTNLR---WIIFDEADRILELGFGKEIEEILDILGSRNIGSIGEGNEVS 212
+D L+ TNLR +++ DEADR+L++GF +I +I+D +
Sbjct: 164 IDFLECGK----TNLRRTTYLVLDEADRMLDMGFEPQIRKIVDQI--------------- 204
Query: 213 NVKRQNLLLSATLNEKVNHLAKISLETPVLIGLDEKKLPEDKSHVRFGSLE 263
RQ L+ SAT ++V LA+ L +D H+ G+LE
Sbjct: 205 RPDRQTLMWSATWPKEVRQLAEDFL--------------KDYIHINIGALE 241
>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 = 118 bits (296), Expect = 6e-27, Method: Compositional matrix adjust.
Identities = 79/239 (33%), Positives = 118/239 (49%), Gaps = 33/239 (13%)
Query: 38 GFEAPTKVQAQAIPVILSGRHVLVNAATGTGKTVAYLAPIINHLQSYSPRIDRSSGTF-- 95
++ PT +Q AIP IL R ++ A TG+GKT A+L PIINHL R S T
Sbjct: 42 SYQRPTPIQKNAIPAILEHRDIMACAQTGSGKTAAFLIPIINHLVCQDLNQQRYSKTAYP 101
Query: 96 -ALVLVPTRELCLQVYEILHKLLHRFHWIVP---GYVMGGENRSKEKARLRKGISILVAT 151
L+L PTREL +Q+ K F P V GG + + ++ G +LVAT
Sbjct: 102 KCLILAPTRELAIQILSESQK----FSLNTPLRSCVVYGGADTHSQIREVQMGCHLLVAT 157
Query: 152 PGRLLDHLKHTSSFLHTNLRWIIFDEADRILELGFGKEIEEILDILGSRNIGSIGEGNEV 211
PGRL+D ++ L ++I+ DEADR+L++GF +I +I++ E N
Sbjct: 158 PGRLVDFIEKNKISLEF-CKYIVLDEADRMLDMGFEPQIRKIIE-----------ESNMP 205
Query: 212 SNVKRQNLLLSATLNEKVNHLAKISLETPVLIGLDEKKLPEDKSHVRFGSLESDVKEEV 270
S + RQ L+ SAT +++ LA L + + + R GS +K+E+
Sbjct: 206 SGINRQTLMFSATFPKEIQKLAADFLYNYIFMTVG-----------RVGSTSDSIKQEI 253
>pdb|4A4D|A Chain A, Crystal Structure Of The N-Terminal Domain Of The Human
Dead-Box Rna Helicase Ddx5 (P68)
Length = 253
Score = 118 bits (295), Expect = 8e-27, Method: Compositional matrix adjust.
Identities = 74/202 (36%), Positives = 111/202 (54%), Gaps = 24/202 (11%)
Query: 36 RLGFEAPTKVQAQAIPVILSGRHVLVNAATGTGKTVAYLAPIINHLQSYSPRIDRSSGTF 95
R F PT +QAQ PV LSG ++ A TG+GKT++YL P I H+ ++ P ++R G
Sbjct: 60 RQNFTEPTAIQAQGWPVALSGLDMVGVAQTGSGKTLSYLLPAIVHI-NHQPFLERGDGPI 118
Query: 96 ALVLVPTRELCLQVYEILHKLLHRFHWIVPGYVMGGENRSKEKARLRKGISILVATPGRL 155
LVL PTREL QV ++ + R + + GG + + L +G+ I +ATPGRL
Sbjct: 119 CLVLAPTRELAQQVQQVAAEYC-RACRLKSTCIYGGAPKGPQIRDLERGVEICIATPGRL 177
Query: 156 LDHLKHTSSFLHTNLR---WIIFDEADRILELGFGKEIEEILDILGSRNIGSIGEGNEVS 212
+D L+ TNLR +++ DEADR+L++GF +I +I+D +
Sbjct: 178 IDFLECGK----TNLRRTTYLVLDEADRMLDMGFEPQIRKIVDQI--------------- 218
Query: 213 NVKRQNLLLSATLNEKVNHLAK 234
RQ L+ SAT ++V LA+
Sbjct: 219 RPDRQTLMWSATWPKEVRQLAE 240
>pdb|2GXQ|A Chain A, Hera N-Terminal Domain In Complex With Amp, Crystal Form 1
pdb|2GXS|A Chain A, Hera N-Terminal Domain In Complex With Amp, Crystal Form 2
pdb|2GXS|B Chain B, Hera N-Terminal Domain In Complex With Amp, Crystal Form 2
pdb|2GXU|A Chain A, Hera N-Terminal Domain In Complex With Orthophosphate,
Crystal Form 1
Length = 207
Score = 117 bits (292), Expect = 2e-26, Method: Compositional matrix adjust.
Identities = 80/224 (35%), Positives = 111/224 (49%), Gaps = 23/224 (10%)
Query: 20 FSSLGLHSTLCDQLRERLGFEAPTKVQAQAIPVILSGRHVLVNAATGTGKTVAYLAPIIN 79
F L + + L R G PT +QA A+P+ L G+ ++ A TGTGKT+A+ PI
Sbjct: 3 FKDFPLKPEILEALHGR-GLTTPTPIQAAALPLALEGKDLIGQARTGTGKTLAFALPIAE 61
Query: 80 HLQSYSPRIDRSSGTFALVLVPTRELCLQVYEILHKLLHRFHWIVPGYVMGGENRSKEKA 139
L +P +R ALVL PTREL LQV L + + V GG K+K
Sbjct: 62 RL---APSQERGRKPRALVLTPTRELALQVASELTAVAPHLKVVA---VYGGTGYGKQKE 115
Query: 140 RLRKGISILVATPGRLLDHLKHTSSFLHTNLRWIIFDEADRILELGFGKEIEEILDILGS 199
L +G +VATPGR LD+L+ L + + + DEAD +L +GF +E+E +L
Sbjct: 116 ALLRGADAVVATPGRALDYLRQGVLDL-SRVEVAVLDEADEMLSMGFEEEVEALLS---- 170
Query: 200 RNIGSIGEGNEVSNVKRQNLLLSATLNEKVNHLAKISLETPVLI 243
+ RQ LL SATL LA+ ++ PVLI
Sbjct: 171 -----------ATPPSRQTLLFSATLPSWAKRLAERYMKNPVLI 203
>pdb|3MWJ|A Chain A, Q28e Mutant Of Hera N-Terminal Reca-Like Domain, Apo Form
pdb|3MWJ|B Chain B, Q28e Mutant Of Hera N-Terminal Reca-Like Domain, Apo Form
pdb|3MWK|A Chain A, Q28e Mutant Of Hera N-Terminal Reca-Like Domain, Complex
With 8-Oxo- Amp
pdb|3MWK|B Chain B, Q28e Mutant Of Hera N-Terminal Reca-Like Domain, Complex
With 8-Oxo- Amp
pdb|3MWL|A Chain A, Q28e Mutant Of Hera N-Terminal Reca-Like Domain In Complex
With 8- Oxoadenosine
pdb|3MWL|B Chain B, Q28e Mutant Of Hera N-Terminal Reca-Like Domain In Complex
With 8- Oxoadenosine
pdb|3NBF|A Chain A, Q28e Mutant Of Hera Helicase N-Terminal Domain Bound To
8-Oxo-Adp
pdb|3NBF|B Chain B, Q28e Mutant Of Hera Helicase N-Terminal Domain Bound To
8-Oxo-Adp
pdb|3NBF|C Chain C, Q28e Mutant Of Hera Helicase N-Terminal Domain Bound To
8-Oxo-Adp
pdb|3NBF|D Chain D, Q28e Mutant Of Hera Helicase N-Terminal Domain Bound To
8-Oxo-Adp
pdb|3NEJ|A Chain A, Q28e Mutant Of Hera Rna Helicase N-Terminal Domain -
Perfectly Twinned Hexagonal Form
pdb|3NEJ|B Chain B, Q28e Mutant Of Hera Rna Helicase N-Terminal Domain -
Perfectly Twinned Hexagonal Form
Length = 207
Score = 115 bits (288), Expect = 5e-26, Method: Compositional matrix adjust.
Identities = 79/224 (35%), Positives = 111/224 (49%), Gaps = 23/224 (10%)
Query: 20 FSSLGLHSTLCDQLRERLGFEAPTKVQAQAIPVILSGRHVLVNAATGTGKTVAYLAPIIN 79
F L + + L R G PT ++A A+P+ L G+ ++ A TGTGKT+A+ PI
Sbjct: 3 FKDFPLKPEILEALHGR-GLTTPTPIEAAALPLALEGKDLIGQARTGTGKTLAFALPIAE 61
Query: 80 HLQSYSPRIDRSSGTFALVLVPTRELCLQVYEILHKLLHRFHWIVPGYVMGGENRSKEKA 139
L +P +R ALVL PTREL LQV L + + V GG K+K
Sbjct: 62 RL---APSQERGRKPRALVLTPTRELALQVASELTAVAPHLKVVA---VYGGTGYGKQKE 115
Query: 140 RLRKGISILVATPGRLLDHLKHTSSFLHTNLRWIIFDEADRILELGFGKEIEEILDILGS 199
L +G +VATPGR LD+L+ L + + + DEAD +L +GF +E+E +L
Sbjct: 116 ALLRGADAVVATPGRALDYLRQGVLDL-SRVEVAVLDEADEMLSMGFEEEVEALLS---- 170
Query: 200 RNIGSIGEGNEVSNVKRQNLLLSATLNEKVNHLAKISLETPVLI 243
+ RQ LL SATL LA+ ++ PVLI
Sbjct: 171 -----------ATPPSRQTLLFSATLPSWAKRLAERYMKNPVLI 203
>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 = 114 bits (286), Expect = 8e-26, Method: Compositional matrix adjust.
Identities = 74/208 (35%), Positives = 115/208 (55%), Gaps = 18/208 (8%)
Query: 36 RLGFEAPTKVQAQAIPVILSGRHVLVNAATGTGKTVAYLAPIINHLQSYSPRIDRSSGTF 95
R+G PT +Q+QA P+IL G ++V A TGTGKT++YL P HL S ++ +G
Sbjct: 37 RVGILKPTPIQSQAWPIILQGIDLIVVAQTGTGKTLSYLMPGFIHLDSQPISREQRNGPG 96
Query: 96 ALVLVPTRELCLQVYEILHKLLHRFHWIVPGYVMGGENRSKEKARLRKGISILVATPGRL 155
LVL PTREL L V K + + + + GG NR+ + + KG+ I++ATPGRL
Sbjct: 97 MLVLTPTRELALHVEAECSK--YSYKGLKSICIYGGRNRNGQIEDISKGVDIIIATPGRL 154
Query: 156 LDHLKHTSSFLHTNLRWIIFDEADRILELGFGKEIEEILDILGSRNIGSIGEGNEVSNVK 215
D L+ +S ++ +++ DEAD++L++ F +I +IL L R
Sbjct: 155 ND-LQMNNSVNLRSITYLVIDEADKMLDMEFEPQIRKIL--LDVRP-------------D 198
Query: 216 RQNLLLSATLNEKVNHLAKISLETPVLI 243
RQ ++ SAT + V LA L+ P+++
Sbjct: 199 RQTVMTSATWPDTVRQLALSYLKDPMIV 226
>pdb|3EIQ|A Chain A, Crystal Structure Of Pdcd4-eif4a
pdb|3EIQ|D Chain D, Crystal Structure Of Pdcd4-eif4a
Length = 414
Score = 104 bits (259), Expect = 1e-22, Method: Compositional matrix adjust.
Identities = 106/406 (26%), Positives = 174/406 (42%), Gaps = 82/406 (20%)
Query: 19 SFSSLGLHSTLCDQLRERLGFEAPTKVQAQAIPVILSGRHVLVNAATGTGKTVAYLAPII 78
SF + L +L + GFE P+ +Q +AI + G V+ A +GTGKT + I+
Sbjct: 41 SFDDMNLSESLLRGIYA-YGFEKPSAIQQRAILPCIKGYDVIAQAQSGTGKTATFAISIL 99
Query: 79 NHLQSYSPRIDRSSGTFALVLVPTRELCLQVYEILHKLLHRFHWIVPGYVMGGENRSKEK 138
++ +D + T ALVL PTREL Q+ +++ L + +GG N E
Sbjct: 100 QQIE-----LDLKA-TQALVLAPTRELAQQIQKVVMA-LGDYMGASCHACIGGTNVRAEV 152
Query: 139 ARLR-KGISILVATPGRLLDHLKHTSSFLHTN-LRWIIFDEADRILELGFGKEIEEILDI 196
+L+ + I+V TPGR+ D L +L ++ + DEAD +L GF +I +I
Sbjct: 153 QKLQMEAPHIIVGTPGRVFDMLNR--RYLSPKYIKMFVLDEADEMLSRGFKDQIYDIFQK 210
Query: 197 LGSRNIGSIGEGNEVSNVKRQNLLLSATLNEKVNHLAKISLETPVLIGLDEKKLPEDKSH 256
L S Q +LLSAT+ V + K + P+ I + +++L
Sbjct: 211 LNSNT---------------QVVLLSATMPSDVLEVTKKFMRDPIRILVKKEEL------ 249
Query: 257 VRFGSLESDVKEEVEHPSTTMRSTTEDFKLPAQLVQRYVKVPCGSRLAVLLSILKHLFDT 316
+LE + Q Y+ V R L L L++T
Sbjct: 250 ----TLEG-------------------------IRQFYINV---EREEWKLDTLCDLYET 277
Query: 317 EVSQKLVVFFSTCDAVDFHYSLLSEFQWSPHSQPDMELKQLFLRCKTFRLHGNMKQEDRR 376
+ V+F +T VD+ L+E M + + +HG+M Q++R
Sbjct: 278 LTITQAVIFINTRRKVDW----LTE---------KMHARDFTVSA----MHGDMDQKERD 320
Query: 377 TTFGAFKTEKKALLLSTDVAARGLDFPKVKCIIQYDSAGEATEYVH 422
F++ +L++TD+ ARG+D +V +I YD Y+H
Sbjct: 321 VIMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPTNRENYIH 366
>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 = 103 bits (256), Expect = 2e-22, Method: Compositional matrix adjust.
Identities = 103/406 (25%), Positives = 172/406 (42%), Gaps = 82/406 (20%)
Query: 19 SFSSLGLHSTLCDQLRERLGFEAPTKVQAQAIPVILSGRHVLVNAATGTGKTVAYLAPII 78
SF + L +L + GFE P+ +Q +AI + G V+ A +GTGKT + I+
Sbjct: 15 SFDDMNLSESLLRGIYA-YGFEKPSAIQQRAILPCIKGYDVIAQAQSGTGKTATFAISIL 73
Query: 79 NHLQSYSPRIDRSSGTFALVLVPTRELCLQVYEILHKLLHRFHWIVPGYVMGGENRSKEK 138
++ +D + T ALVL PTREL Q+ +++ L + +GG N E
Sbjct: 74 QQIE-----LDLKA-TQALVLAPTRELAQQIQKVVMA-LGDYMGASCHACIGGTNVRAEV 126
Query: 139 ARLR-KGISILVATPGRLLDHLKHTSSFLHTN-LRWIIFDEADRILELGFGKEIEEILDI 196
+L+ + I+V TPGR+ D L +L ++ + DEAD +L GF +I +I
Sbjct: 127 QKLQMEAPHIIVGTPGRVFDMLNR--RYLSPKYIKMFVLDEADEMLSRGFKDQIYDIFQK 184
Query: 197 LGSRNIGSIGEGNEVSNVKRQNLLLSATLNEKVNHLAKISLETPVLIGLDEKKLPEDKSH 256
L S Q +LLSAT+ V + K + P+ I + +++L
Sbjct: 185 LNSNT---------------QVVLLSATMPSDVLEVTKKFMRDPIRILVKKEEL------ 223
Query: 257 VRFGSLESDVKEEVEHPSTTMRSTTEDFKLPAQLVQRYVKVPCGSRLAVLLSILKHLFDT 316
+LE + Q Y+ V R L L L++T
Sbjct: 224 ----TLEG-------------------------IRQFYINV---EREEWKLDTLCDLYET 251
Query: 317 EVSQKLVVFFSTCDAVDFHYSLLSEFQWSPHSQPDMELKQLFLRCKTFRLHGNMKQEDRR 376
+ V+F +T VD+ + ++ + +HG+M Q++R
Sbjct: 252 LTITQAVIFINTRRKVDWLTEKMHARDFTVSA-----------------MHGDMDQKERD 294
Query: 377 TTFGAFKTEKKALLLSTDVAARGLDFPKVKCIIQYDSAGEATEYVH 422
F++ +L++TD+ ARG+D +V +I YD Y+H
Sbjct: 295 VIMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPTNRENYIH 340
>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 = 102 bits (253), Expect = 5e-22, Method: Compositional matrix adjust.
Identities = 68/204 (33%), Positives = 103/204 (50%), Gaps = 22/204 (10%)
Query: 37 LGFEAPTKVQAQAIPVILSGRHVLVNAATGTGKTVAYLAPIINHLQSYSPRIDRSSGTFA 96
+G+E P+ +Q ++IP+ LSGR +L A GTGK+ AYL P++ L I A
Sbjct: 21 MGWEKPSPIQEESIPIALSGRDILARAKNGTGKSGAYLIPLLERLDLKKDNIQ------A 74
Query: 97 LVLVPTRELCLQVYEILHKLLHRFHWIVPGYVMGGENRSKEKARLRKGISILVATPGRLL 156
+V+VPTREL LQV +I ++ GG N + RL + +++ATPGR+L
Sbjct: 75 MVIVPTRELALQVSQICIQVSKHMGGAKVMATTGGTNLRDDIMRLDDTVHVVIATPGRIL 134
Query: 157 DHLKHTSSFLHTNLRWIIFDEADRILELGFGKEIEEILDILGSRNIGSIGEGNEVSNVKR 216
D +K + + +++ I+ DEAD++L F + +E+I+ L R
Sbjct: 135 DLIKKGVAKVD-HVQMIVLDEADKLLSQDFVQIMEDIILTLPK---------------NR 178
Query: 217 QNLLLSATLNEKVNHLAKISLETP 240
Q LL SAT V LE P
Sbjct: 179 QILLYSATFPLSVQKFMNSHLEKP 202
>pdb|1XTK|A Chain A, Structure Of Decd To Dead Mutation Of Human Uap56
Length = 390
Score = 97.4 bits (241), Expect = 1e-20, Method: Compositional matrix adjust.
Identities = 96/394 (24%), Positives = 172/394 (43%), Gaps = 91/394 (23%)
Query: 38 GFEAPTKVQAQAIPVILSGRHVLVNAATGTGKTVAYLAPIINHLQSYSPRIDRSSGTFAL 97
GFE P++VQ + IP + G VL A +G GKT ++ + L+ + ++ L
Sbjct: 26 GFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQLEPVTGQVS------VL 79
Query: 98 VLVPTRELCLQVYEILHKLLHRFHWIVP----GYVMGGENRSKEKARLRKGIS-ILVATP 152
V+ TREL Q+ K RF +P GG + K++ L+K I+V TP
Sbjct: 80 VMCHTRELAFQI----SKEYERFSKYMPNVKVAVFFGGLSIKKDEEVLKKNCPHIVVGTP 135
Query: 153 GRLLDHLKHTSSFLHTNLRWIIFDEADRILE-LGFGKEIEEILDILGSRNIGSIGEGNEV 211
GR+L L S +++ I DEAD++LE L ++++EI +
Sbjct: 136 GRIL-ALARNKSLNLKHIKHFILDEADKMLEQLDMRRDVQEIF---------------RM 179
Query: 212 SNVKRQNLLLSATLNEKVNHLAKISLETPVLIGLDEKKLPEDKSHVRFGSLESDVKEEVE 271
+ ++Q ++ SATL++++ + + ++ P+ I +D D++ + L+
Sbjct: 180 TPHEKQVMMFSATLSKEIRPVCRKFMQDPMEIFVD------DETKLTLHGLQ-------- 225
Query: 272 HPSTTMRSTTEDFKLPAQLVQRYVKVPCGSRLAVLLSILKHLFDTEVSQKLVVFFSTCDA 331
Q YVK L D E ++KL F D
Sbjct: 226 --------------------QYYVK----------------LKDNEKNRKL---FDLLDV 246
Query: 332 VDFHYSLLSEFQWSPHSQPDMELKQLFLRCK--TFRLHGNMKQEDRRTTFGAFKTEKKAL 389
++F+ ++ + Q + L QL + +H M QE+R + + FK ++ +
Sbjct: 247 LEFNQVVI----FVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRI 302
Query: 390 LLSTDVAARGLDFPKVKCIIQYDSAGEATEYVHR 423
L++T++ RG+D +V YD ++ Y+HR
Sbjct: 303 LVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHR 336
>pdb|1XTI|A Chain A, Structure Of Wildtype Human Uap56
Length = 391
Score = 95.9 bits (237), Expect = 4e-20, Method: Compositional matrix adjust.
Identities = 95/394 (24%), Positives = 171/394 (43%), Gaps = 91/394 (23%)
Query: 38 GFEAPTKVQAQAIPVILSGRHVLVNAATGTGKTVAYLAPIINHLQSYSPRIDRSSGTFAL 97
GFE P++VQ + IP + G VL A +G GKT ++ + L+ + ++ L
Sbjct: 27 GFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQLEPVTGQVS------VL 80
Query: 98 VLVPTRELCLQVYEILHKLLHRFHWIVP----GYVMGGENRSKEKARLRKGIS-ILVATP 152
V+ TREL Q+ K RF +P GG + K++ L+K I+V TP
Sbjct: 81 VMCHTRELAFQI----SKEYERFSKYMPNVKVAVFFGGLSIKKDEEVLKKNCPHIVVGTP 136
Query: 153 GRLLDHLKHTSSFLHTNLRWIIFDEADRILE-LGFGKEIEEILDILGSRNIGSIGEGNEV 211
GR+L L S +++ I DE D++LE L ++++EI +
Sbjct: 137 GRIL-ALARNKSLNLKHIKHFILDECDKMLEQLDMRRDVQEIF---------------RM 180
Query: 212 SNVKRQNLLLSATLNEKVNHLAKISLETPVLIGLDEKKLPEDKSHVRFGSLESDVKEEVE 271
+ ++Q ++ SATL++++ + + ++ P+ I +D D++ + L+
Sbjct: 181 TPHEKQVMMFSATLSKEIRPVCRKFMQDPMEIFVD------DETKLTLHGLQ-------- 226
Query: 272 HPSTTMRSTTEDFKLPAQLVQRYVKVPCGSRLAVLLSILKHLFDTEVSQKLVVFFSTCDA 331
Q YVK L D E ++KL F D
Sbjct: 227 --------------------QYYVK----------------LKDNEKNRKL---FDLLDV 247
Query: 332 VDFHYSLLSEFQWSPHSQPDMELKQLFLRCK--TFRLHGNMKQEDRRTTFGAFKTEKKAL 389
++F+ ++ + Q + L QL + +H M QE+R + + FK ++ +
Sbjct: 248 LEFNQVVI----FVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRI 303
Query: 390 LLSTDVAARGLDFPKVKCIIQYDSAGEATEYVHR 423
L++T++ RG+D +V YD ++ Y+HR
Sbjct: 304 LVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHR 337
>pdb|1XTJ|A Chain A, Structure Of Human Uap56 In Complex With Adp
Length = 386
Score = 95.5 bits (236), Expect = 5e-20, Method: Compositional matrix adjust.
Identities = 95/394 (24%), Positives = 171/394 (43%), Gaps = 91/394 (23%)
Query: 38 GFEAPTKVQAQAIPVILSGRHVLVNAATGTGKTVAYLAPIINHLQSYSPRIDRSSGTFAL 97
GFE P++VQ + IP + G VL A +G GKT ++ + L+ + ++ L
Sbjct: 27 GFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQLEPVTGQVS------VL 80
Query: 98 VLVPTRELCLQVYEILHKLLHRFHWIVP----GYVMGGENRSKEKARLRKGIS-ILVATP 152
V+ TREL Q+ K RF +P GG + K++ L+K I+V TP
Sbjct: 81 VMCHTRELAFQI----SKEYERFSKYMPNVKVAVFFGGLSIKKDEEVLKKNCPHIVVGTP 136
Query: 153 GRLLDHLKHTSSFLHTNLRWIIFDEADRILE-LGFGKEIEEILDILGSRNIGSIGEGNEV 211
GR+L L S +++ I DE D++LE L ++++EI +
Sbjct: 137 GRIL-ALARNKSLNLKHIKHFILDECDKMLEQLDMRRDVQEIF---------------RM 180
Query: 212 SNVKRQNLLLSATLNEKVNHLAKISLETPVLIGLDEKKLPEDKSHVRFGSLESDVKEEVE 271
+ ++Q ++ SATL++++ + + ++ P+ I +D D++ + L+
Sbjct: 181 TPHEKQVMMFSATLSKEIRPVCRKFMQDPMEIFVD------DETKLTLHGLQ-------- 226
Query: 272 HPSTTMRSTTEDFKLPAQLVQRYVKVPCGSRLAVLLSILKHLFDTEVSQKLVVFFSTCDA 331
Q YVK L D E ++KL F D
Sbjct: 227 --------------------QYYVK----------------LKDNEKNRKL---FDLLDV 247
Query: 332 VDFHYSLLSEFQWSPHSQPDMELKQLFLRCK--TFRLHGNMKQEDRRTTFGAFKTEKKAL 389
++F+ ++ + Q + L QL + +H M QE+R + + FK ++ +
Sbjct: 248 LEFNQVVI----FVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRI 303
Query: 390 LLSTDVAARGLDFPKVKCIIQYDSAGEATEYVHR 423
L++T++ RG+D +V YD ++ Y+HR
Sbjct: 304 LVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHR 337
>pdb|2Z0M|A Chain A, Crystal Structure Of Hypothetical Atp-Dependent Rna
Helicase From Sulfolobus Tokodaii
Length = 337
Score = 89.0 bits (219), Expect = 5e-18, Method: Compositional matrix adjust.
Identities = 69/210 (32%), Positives = 105/210 (50%), Gaps = 31/210 (14%)
Query: 25 LHSTLCDQLRERLGFEAPTKVQAQAIPVILSGRHVLVNAATGTGKTVAYLAPIINHLQSY 84
++ + +RE +GF+ T+VQ++ IP++L G++V+V A TG+GKT AY PI+
Sbjct: 1 MNEKIEQAIRE-MGFKNFTEVQSKTIPLMLQGKNVVVRAKTGSGKTAAYAIPIL------ 53
Query: 85 SPRIDRSSGTFALVLVPTRELCLQVYEILHKLLHRFHWIVPGYVMGGENRSKEKARLRKG 144
G +LV+ PTREL QV + + R+ V GG + R+R
Sbjct: 54 ------ELGMKSLVVTPTRELTRQVASHIRD-IGRYMDTKVAEVYGGMPYKAQINRVRNA 106
Query: 145 ISILVATPGRLLDHLKHTSSFLHTNLRWIIFDEADRILELGFGKEIEEILDILGSRNIGS 204
I+VATPGRLLD L ++ +I DEAD + E+GF +I+ IL +R I
Sbjct: 107 -DIVVATPGRLLD-LWSKGVIDLSSFEIVIIDEADLMFEMGFIDDIKIILAQTSNRKITG 164
Query: 205 IGEGNEVSNVKRQNLLLSATLNEKVNHLAK 234
L SAT+ E++ + K
Sbjct: 165 ---------------LFSATIPEEIRKVVK 179
Score = 50.8 bits (120), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 22/58 (37%), Positives = 36/58 (62%)
Query: 366 LHGNMKQEDRRTTFGAFKTEKKALLLSTDVAARGLDFPKVKCIIQYDSAGEATEYVHR 423
L G++ Q R AF+ + +L++TDVA+RGLD P V+ +I +D+ + Y+HR
Sbjct: 246 LRGDLPQSVRNRNIDAFREGEYDMLITTDVASRGLDIPLVEKVINFDAPQDLRTYIHR 303
>pdb|3DKP|A Chain A, Human Dead-Box Rna-Helicase Ddx52, Conserved Domain I In
Complex With Adp
Length = 245
Score = 88.6 bits (218), Expect = 7e-18, Method: Compositional matrix adjust.
Identities = 56/153 (36%), Positives = 83/153 (54%), Gaps = 14/153 (9%)
Query: 38 GFEAPTKVQAQAIPVILSGRHVLVNAATGTGKTVAYLAPIINHLQSYSPRIDRSSGTFAL 97
GF+ PT +Q QAIPV+L GR +L +A TG+GKT+A+ PI+ L+ + + G AL
Sbjct: 48 GFQMPTPIQMQAIPVMLHGRELLASAPTGSGKTLAFSIPILMQLKQPA-----NKGFRAL 102
Query: 98 VLVPTRELCLQVYEILHKLLH----RFHWIVPGYVMGGENRSKEKARLRKGISILVATPG 153
++ PTREL Q++ L K+ R H I V + K K ILV TP
Sbjct: 103 IISPTRELASQIHRELIKISEGTGFRIHMIHKAAVAAKKFGPKSS----KKFDILVTTPN 158
Query: 154 RLLDHLKHTSSFLH-TNLRWIIFDEADRILELG 185
RL+ LK + ++ W++ DE+D++ E G
Sbjct: 159 RLIYLLKQDPPGIDLASVEWLVVDESDKLFEDG 191
>pdb|1QDE|A Chain A, Crystal Structure Of The Atpase Domain Of Translation
Initiation Factor 4a From Saccharomyces Cerevisiae-The
Prototype Of The Dead Box Protein Family
Length = 224
Score = 88.2 bits (217), Expect = 8e-18, Method: Compositional matrix adjust.
Identities = 69/207 (33%), Positives = 99/207 (47%), Gaps = 26/207 (12%)
Query: 38 GFEAPTKVQAQAIPVILSGRHVLVNAATGTGKTVAYLAPIINHLQSYSPRIDRS-SGTFA 96
GFE P+ +Q +AI I+ G VL A +GTGKT + I LQ RID S A
Sbjct: 33 GFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFS---IAALQ----RIDTSVKAPQA 85
Query: 97 LVLVPTRELCLQVYEILHKLLHRFHWIVPGYVMGGENRSKEKARLRKGISILVATPGRLL 156
L+L PTREL LQ+ +++ L FH + + G E A + I+V TPGR+
Sbjct: 86 LMLAPTRELALQIQKVVMAL--AFHMDIKVHACIGGTSFVEDAEGLRDAQIVVGTPGRVF 143
Query: 157 DHLKHTSSFLHTNLRWIIFDEADRILELGFGKEIEEILDILGSRNIGSIGEGNEVSNVKR 216
D+++ F ++ I DEAD +L GF ++I +I +L
Sbjct: 144 DNIQR-RRFRTDKIKMFILDEADEMLSSGFKEQIYQIFTLLPPTT--------------- 187
Query: 217 QNLLLSATLNEKVNHLAKISLETPVLI 243
Q +LLSAT+ V + + PV I
Sbjct: 188 QVVLLSATMPNDVLEVTTKFMRNPVRI 214
>pdb|1QVA|A Chain A, Yeast Initiation Factor 4a N-Terminal Domain
Length = 223
Score = 88.2 bits (217), Expect = 8e-18, Method: Compositional matrix adjust.
Identities = 69/207 (33%), Positives = 99/207 (47%), Gaps = 26/207 (12%)
Query: 38 GFEAPTKVQAQAIPVILSGRHVLVNAATGTGKTVAYLAPIINHLQSYSPRIDRS-SGTFA 96
GFE P+ +Q +AI I+ G VL A +GTGKT + I LQ RID S A
Sbjct: 40 GFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFS---IAALQ----RIDTSVKAPQA 92
Query: 97 LVLVPTRELCLQVYEILHKLLHRFHWIVPGYVMGGENRSKEKARLRKGISILVATPGRLL 156
L+L PTREL LQ+ +++ L FH + + G E A + I+V TPGR+
Sbjct: 93 LMLAPTRELALQIQKVVMAL--AFHMDIKVHACIGGTSFVEDAEGLRDAQIVVGTPGRVF 150
Query: 157 DHLKHTSSFLHTNLRWIIFDEADRILELGFGKEIEEILDILGSRNIGSIGEGNEVSNVKR 216
D+++ F ++ I DEAD +L GF ++I +I +L
Sbjct: 151 DNIQR-RRFRTDKIKMFILDEADEMLSSGFKEQIYQIFTLLPPTT--------------- 194
Query: 217 QNLLLSATLNEKVNHLAKISLETPVLI 243
Q +LLSAT+ V + + PV I
Sbjct: 195 QVVLLSATMPNDVLEVTTKFMRNPVRI 221
>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 = 88.2 bits (217), Expect = 9e-18, Method: Compositional matrix adjust.
Identities = 70/214 (32%), Positives = 103/214 (48%), Gaps = 26/214 (12%)
Query: 38 GFEAPTKVQAQAIPVILSGRHVLVNAATGTGKTVAYLAPIINHLQSYSPRIDRS-SGTFA 96
GFE P+ +Q +AI I+ G VL A +GTGKT + I LQ RID S A
Sbjct: 41 GFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFS---IAALQ----RIDTSVKAPQA 93
Query: 97 LVLVPTRELCLQVYEILHKLLHRFHWIVPGYVMGGENRSKEKARLRKGISILVATPGRLL 156
L+L PTREL LQ+ +++ L FH + + G E A + I+V TPGR+
Sbjct: 94 LMLAPTRELALQIQKVVMAL--AFHMDIKVHACIGGTSFVEDAEGLRDAQIVVGTPGRVF 151
Query: 157 DHLKHTSSFLHTNLRWIIFDEADRILELGFGKEIEEILDILGSRNIGSIGEGNEVSNVKR 216
D+++ F ++ I DEAD +L GF ++I +I +L
Sbjct: 152 DNIQR-RRFRTDKIKMFILDEADEMLSSGFKEQIYQIFTLLPPTT--------------- 195
Query: 217 QNLLLSATLNEKVNHLAKISLETPVLIGLDEKKL 250
Q +LLSAT+ V + + PV I + + +L
Sbjct: 196 QVVLLSATMPNDVLEVTTKFMRNPVRILVKKDEL 229
Score = 45.8 bits (107), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 18/57 (31%), Positives = 33/57 (57%)
Query: 366 LHGNMKQEDRRTTFGAFKTEKKALLLSTDVAARGLDFPKVKCIIQYDSAGEATEYVH 422
++ ++ Q++R T F++ +L+STD+ ARG+D +V +I YD Y+H
Sbjct: 290 IYSDLPQQERDTIMKEFRSGSSRILISTDLLARGIDVQQVSLVINYDLPANKENYIH 346
>pdb|1Q0U|A Chain A, Crystal Structure Of The Bstdead N-Terminal Domain
pdb|1Q0U|B Chain B, Crystal Structure Of The Bstdead N-Terminal Domain
Length = 219
Score = 86.7 bits (213), Expect = 2e-17, Method: Compositional matrix adjust.
Identities = 66/231 (28%), Positives = 108/231 (46%), Gaps = 26/231 (11%)
Query: 16 ASCSFSSLGLHSTLCDQLRERLGFEAPTKVQAQAIPVILSGRHVLVNAATGTGKTVAYLA 75
A F+ + + ++ L F PT++Q + IP L G + + TGTGKT AYL
Sbjct: 2 AETQFTRFPFQPFIIEAIKT-LRFYKPTEIQERIIPGALRGESXVGQSQTGTGKTHAYLL 60
Query: 76 PIINHLQSYSPRIDRSSGTFALVLVPTRELCLQVY-EILH--KLLHRFHWIVPGYVMGGE 132
PI ++ + A++ PTREL Q+Y E L K + IV ++GG
Sbjct: 61 PIXEKIKPERAEVQ------AVITAPTRELATQIYHETLKITKFCPKDRXIVARCLIGGT 114
Query: 133 NRSKEKARLRKGISILVATPGRLLDHLKHTSSFLHTNLRWIIFDEADRILELGFGKEIEE 192
++ K +L I++ TPGR+ D ++ + +HT ++ DEAD L+ GF ++++
Sbjct: 115 DKQKALEKLNVQPHIVIGTPGRINDFIREQALDVHTA-HILVVDEADLXLDXGFITDVDQ 173
Query: 193 ILDILGSRNIGSIGEGNEVSNVKRQNLLLSATLNEKVNHLAKISLETPVLI 243
I +R + Q L+ SAT+ EK+ K E P +
Sbjct: 174 I----AARXPKDL-----------QXLVFSATIPEKLKPFLKKYXENPTFV 209
>pdb|1FUU|A Chain A, Yeast Initiation Factor 4a
pdb|1FUU|B Chain B, Yeast Initiation Factor 4a
Length = 394
Score = 85.1 bits (209), Expect = 7e-17, Method: Compositional matrix adjust.
Identities = 59/161 (36%), Positives = 83/161 (51%), Gaps = 11/161 (6%)
Query: 38 GFEAPTKVQAQAIPVILSGRHVLVNAATGTGKTVAYLAPIINHLQSYSPRIDRS-SGTFA 96
GFE P+ +Q +AI I+ G VL A +GTGKT + I LQ RID S A
Sbjct: 40 GFEEPSAIQQRAIXPIIEGHDVLAQAQSGTGKTGTFS---IAALQ----RIDTSVKAPQA 92
Query: 97 LVLVPTRELCLQVYEILHKLLHRFHWIVPGYVMGGENRSKEKARLRKGISILVATPGRLL 156
L L PTREL LQ+ +++ L FH + + G E A + I+V TPGR+
Sbjct: 93 LXLAPTRELALQIQKVVXALA--FHXDIKVHACIGGTSFVEDAEGLRDAQIVVGTPGRVF 150
Query: 157 DHLKHTSSFLHTNLRWIIFDEADRILELGFGKEIEEILDIL 197
D+++ F ++ I DEAD L GF ++I +I +L
Sbjct: 151 DNIQR-RRFRTDKIKXFILDEADEXLSSGFKEQIYQIFTLL 190
Score = 45.1 bits (105), Expect = 9e-05, Method: Compositional matrix adjust.
Identities = 18/57 (31%), Positives = 33/57 (57%)
Query: 366 LHGNMKQEDRRTTFGAFKTEKKALLLSTDVAARGLDFPKVKCIIQYDSAGEATEYVH 422
++ ++ Q++R T F++ +L+STD+ ARG+D +V +I YD Y+H
Sbjct: 289 IYSDLPQQERDTIXKEFRSGSSRILISTDLLARGIDVQQVSLVINYDLPANKENYIH 345
>pdb|3BOR|A Chain A, Crystal Structure Of The Deadc Domain Of Human Translation
Initiation Factor 4a-2
Length = 237
Score = 82.8 bits (203), Expect = 3e-16, Method: Compositional matrix adjust.
Identities = 66/210 (31%), Positives = 97/210 (46%), Gaps = 30/210 (14%)
Query: 38 GFEAPTKVQAQAIPVILSGRHVLVNAATGTGKTVAYLAPIINHLQSYSPRIDRSSGTFAL 97
GFE P+ +Q +AI + G V+ A +GTGKT + I+ L+ T AL
Sbjct: 49 GFEKPSAIQQRAIIPCIKGYDVIAQAQSGTGKTATFAISILQQLEI------EFKETQAL 102
Query: 98 VLVPTRELCLQVYEILHKLLHRFHWIVPGYVMGGENRSKEKARLR-KGISILVATPGRLL 156
VL PTREL Q+ +++ L + +GG N E +L+ + I+V TPGR+
Sbjct: 103 VLAPTRELAQQIQKVILA-LGDYMGATCHACIGGTNVRNEMQKLQAEAPHIVVGTPGRVF 161
Query: 157 DHLKHTSSFLHTNLRWI---IFDEADRILELGFGKEIEEILDILGSRNIGSIGEGNEVSN 213
D L + + +WI + DEAD +L GF +I EI L N
Sbjct: 162 DMLNRR----YLSPKWIKMFVLDEADEMLSRGFKDQIYEIFQKL---------------N 202
Query: 214 VKRQNLLLSATLNEKVNHLAKISLETPVLI 243
Q +LLSAT+ V + K + P+ I
Sbjct: 203 TSIQVVLLSATMPTDVLEVTKKFMRDPIRI 232
>pdb|2OXC|A Chain A, Human Dead-Box Rna Helicase Ddx20, Dead Domain In Complex
With Adp
pdb|2OXC|B Chain B, Human Dead-Box Rna Helicase Ddx20, Dead Domain In Complex
With Adp
pdb|3B7G|A Chain A, Human Dead-Box Rna Helicase Ddx20, Conserved Domain I
(Dead) In Complex With Amppnp
(Adenosine-(Beta,Gamma)-Imidotriphosphate)
pdb|3B7G|B Chain B, Human Dead-Box Rna Helicase Ddx20, Conserved Domain I
(Dead) In Complex With Amppnp
(Adenosine-(Beta,Gamma)-Imidotriphosphate)
Length = 230
Score = 78.6 bits (192), Expect = 6e-15, Method: Compositional matrix adjust.
Identities = 60/180 (33%), Positives = 95/180 (52%), Gaps = 20/180 (11%)
Query: 20 FSSLGLHSTLCDQLRERLGFEAPTKVQAQAIPVILSGRHVLVNAATGTGKTVAYLAPIIN 79
F SL L + + LR GFE P+ VQ +AIP+ G ++V A +GTGKT + ++
Sbjct: 26 FESLLLSRPVLEGLRAA-GFERPSPVQLKAIPLGRCGLDLIVQAKSGTGKTCVFSTIALD 84
Query: 80 HLQSYSPRIDRSSGTFALVLVPTRELCLQVYEILHKLLHRFHWIVPGYVMGGENRSKEKA 139
L + + T L+L PTRE+ +Q++ ++ + + + +GG S++K
Sbjct: 85 SL------VLENLSTQILILAPTREIAVQIHSVITAIGIKMEGLECHVFIGGTPLSQDKT 138
Query: 140 RLRKGISILVATPGRL-----LDHLKHTSSFLHTNLRWIIFDEADRILELG-FGKEIEEI 193
RL+K I V +PGR+ LD+L S +R I DEAD++LE G F ++I I
Sbjct: 139 RLKK-CHIAVGSPGRIKQLIELDYLNPGS------IRLFILDEADKLLEEGSFQEQINWI 191
>pdb|2G9N|A Chain A, Structure Of The Dead Domain Of Human Eukaryotic
Initiation Factor 4a, Eif4a
pdb|2G9N|B Chain B, Structure Of The Dead Domain Of Human Eukaryotic
Initiation Factor 4a, Eif4a
Length = 221
Score = 74.7 bits (182), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 63/226 (27%), Positives = 99/226 (43%), Gaps = 25/226 (11%)
Query: 19 SFSSLGLHSTLCDQLRERLGFEAPTKVQAQAIPVILSGRHVLVNAATGTGKTVAYLAPII 78
SF + L +L + GFE P+ +Q +AI + G V+ A +GTG T + I+
Sbjct: 16 SFDDMNLSESLLRGIYA-YGFEXPSAIQQRAILPCIXGYDVIAQAQSGTGXTATFAISIL 74
Query: 79 NHLQSYSPRIDRSSGTFALVLVPTRELCLQVYEILHKLLHRFHWIVPGYVMGGENRSKEK 138
++ +D + T ALVL PTREL Q+ ++ L + G R++ +
Sbjct: 75 QQIE-----LDLXA-TQALVLAPTRELAQQIQXVVMALGDYMGASCHACIGGTNVRAEVQ 128
Query: 139 ARLRKGISILVATPGRLLDHLKHTSSFLHTN-LRWIIFDEADRILELGFGKEIEEILDIL 197
+ I+V TPGR+ D L +L + + DEAD +L GF +I +I L
Sbjct: 129 XLQMEAPHIIVGTPGRVFDMLNR--RYLSPXYIXMFVLDEADEMLSRGFXDQIYDIFQXL 186
Query: 198 GSRNIGSIGEGNEVSNVKRQNLLLSATLNEKVNHLAKISLETPVLI 243
N Q +LLSAT+ V + + P+ I
Sbjct: 187 ---------------NSNTQVVLLSATMPSDVLEVTXXFMRDPIRI 217
>pdb|1T6N|A Chain A, Crystal Structure Of The N-Terminal Domain Of Human Uap56
pdb|1T6N|B Chain B, Crystal Structure Of The N-Terminal Domain Of Human Uap56
Length = 220
Score = 74.3 bits (181), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 58/212 (27%), Positives = 103/212 (48%), Gaps = 32/212 (15%)
Query: 38 GFEAPTKVQAQAIPVILSGRHVLVNAATGTGKTVAYLAPIINHLQSYSPRIDRSSGTFAL 97
GFE P++VQ + IP + G VL A +G GKT ++ + L+ + ++ L
Sbjct: 33 GFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQLEPVTGQVS------VL 86
Query: 98 VLVPTRELCLQVYEILHKLLHRFHWIVP----GYVMGGENRSKEKARLRKGIS-ILVATP 152
V+ TREL Q+ K RF +P GG + K++ L+K I+V TP
Sbjct: 87 VMCHTRELAFQI----SKEYERFSKYMPNVKVAVFFGGLSIKKDEEVLKKNCPHIVVGTP 142
Query: 153 GRLLDHLKHTSSFLHTNLRWIIFDEADRILE-LGFGKEIEEILDILGSRNIGSIGEGNEV 211
GR+L L S +++ I DE D++LE L ++++EI +
Sbjct: 143 GRILA-LARNKSLNLKHIKHFILDECDKMLEQLDMRRDVQEIF---------------RM 186
Query: 212 SNVKRQNLLLSATLNEKVNHLAKISLETPVLI 243
+ ++Q ++ SATL++++ + + ++ P+ I
Sbjct: 187 TPHEKQVMMFSATLSKEIRPVCRKFMQDPMEI 218
>pdb|2KBE|A Chain A, Solution Structure Of Amino-Terminal Domain Of Dbp5p
Length = 226
Score = 66.2 bits (160), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 60/231 (25%), Positives = 109/231 (47%), Gaps = 45/231 (19%)
Query: 14 IFASCSFSSLGLHSTLCDQLRERLGFEAPTKVQAQAIPVILSG--RHVLVNAATGTGKTV 71
++++ SF LGL L + + F+ P+K+Q +A+P++L R+++ + +GTGKT
Sbjct: 18 LYSAKSFDELGLAPELLKGIYA-MKFQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTA 76
Query: 72 AYLAPIINHL--QSYSPRIDRSSGTFALVLVPTRELCLQVYEILHKLLHRFHWIVPGYVM 129
A+ ++ + + SP+ A+ L P+REL Q E++ + + +F I ++
Sbjct: 77 AFSLTMLTRVNPEDASPQ--------AICLAPSRELARQTLEVVQE-MGKFTKITSQLIV 127
Query: 130 GGENRSKEKARLRKGISILVATPGRLLDHLKHTSSFLHTNLRWIIFDEADRILELGFGKE 189
S EK + + ++V TPG +LD ++ L ++ + DEAD +L+
Sbjct: 128 PD---SFEKNK-QINAQVIVGTPGTVLDLMRRKLMQLQ-KIKIFVLDEADNMLD------ 176
Query: 190 IEEILDILGSRNIGSIGEGNEVSNVKR------QNLLLSATLNEKVNHLAK 234
G G++ VKR Q +L SAT + V AK
Sbjct: 177 --------------QQGLGDQCIRVKRFLPKDTQLVLFSATFADAVRQYAK 213
>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 = 63.5 bits (153), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 60/226 (26%), Positives = 105/226 (46%), Gaps = 45/226 (19%)
Query: 19 SFSSLGLHSTLCDQLRERLGFEAPTKVQAQAIPVILSG--RHVLVNAATGTGKTVAYLAP 76
SF LGL L + + F+ P+K+Q +A+P++L R+++ + +GTGKT A+
Sbjct: 6 SFDELGLAPELLKGIYA-MKFQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAAFSLT 64
Query: 77 IINHL--QSYSPRIDRSSGTFALVLVPTRELCLQVYEILHKLLHRFHWIVPGYVMGGENR 134
++ + + SP+ A+ L P+REL Q E++ + + +F I ++
Sbjct: 65 MLTRVNPEDASPQ--------AICLAPSRELARQTLEVVQE-MGKFTKITSQLIVPD--- 112
Query: 135 SKEKARLRKGISILVATPGRLLDHLKHTSSFLHTNLRWIIFDEADRILELGFGKEIEEIL 194
S EK + + ++V TPG +LD ++ L ++ + DEAD +L+
Sbjct: 113 SFEKNK-QINAQVIVGTPGTVLDLMRRKLMQLQ-KIKIFVLDEADNMLD----------- 159
Query: 195 DILGSRNIGSIGEGNEVSNVKR------QNLLLSATLNEKVNHLAK 234
G G++ VKR Q +L SAT + V AK
Sbjct: 160 ---------QQGLGDQCIRVKRFLPKDTQLVLFSATFADAVRQYAK 196
Score = 46.2 bits (108), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 21/64 (32%), Positives = 38/64 (59%), Gaps = 6/64 (9%)
Query: 366 LHGNMKQEDRRTTFGAFKTEKKALLLSTDVAARGLDFPKVKCIIQYD----SAGEA--TE 419
LHG+++ ++R F+ + +L++T+V ARG+D P V ++ YD + G+A
Sbjct: 273 LHGDLQTQERDRLIDDFREGRSKVLITTNVLARGIDIPTVSMVVNYDLPTLANGQADPAT 332
Query: 420 YVHR 423
Y+HR
Sbjct: 333 YIHR 336
>pdb|3PEY|A Chain A, S. Cerevisiae Dbp5 Bound To Rna And Adp Bef3
Length = 395
Score = 63.5 bits (153), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 60/226 (26%), Positives = 105/226 (46%), Gaps = 45/226 (19%)
Query: 19 SFSSLGLHSTLCDQLRERLGFEAPTKVQAQAIPVILSG--RHVLVNAATGTGKTVAYLAP 76
SF LGL L + + F+ P+K+Q +A+P++L R+++ + +GTGKT A+
Sbjct: 6 SFDELGLAPELLKGIYA-MKFQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAAFSLT 64
Query: 77 IINHL--QSYSPRIDRSSGTFALVLVPTRELCLQVYEILHKLLHRFHWIVPGYVMGGENR 134
++ + + SP+ A+ L P+REL Q E++ + + +F I ++
Sbjct: 65 MLTRVNPEDASPQ--------AICLAPSRELARQTLEVVQE-MGKFTKITSQLIVPD--- 112
Query: 135 SKEKARLRKGISILVATPGRLLDHLKHTSSFLHTNLRWIIFDEADRILELGFGKEIEEIL 194
S EK + + ++V TPG +LD ++ L ++ + DEAD +L+
Sbjct: 113 SFEKNK-QINAQVIVGTPGTVLDLMRRKLMQLQ-KIKIFVLDEADNMLD----------- 159
Query: 195 DILGSRNIGSIGEGNEVSNVKR------QNLLLSATLNEKVNHLAK 234
G G++ VKR Q +L SAT + V AK
Sbjct: 160 ---------QQGLGDQCIRVKRFLPKDTQLVLFSATFADAVRQYAK 196
Score = 46.2 bits (108), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 21/64 (32%), Positives = 38/64 (59%), Gaps = 6/64 (9%)
Query: 366 LHGNMKQEDRRTTFGAFKTEKKALLLSTDVAARGLDFPKVKCIIQYD----SAGEA--TE 419
LHG+++ ++R F+ + +L++T+V ARG+D P V ++ YD + G+A
Sbjct: 273 LHGDLQTQERDRLIDDFREGRSKVLITTNVLARGIDIPTVSMVVNYDLPTLANGQADPAT 332
Query: 420 YVHR 423
Y+HR
Sbjct: 333 YIHR 336
>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 = 62.0 bits (149), Expect = 6e-10, Method: Compositional matrix adjust.
Identities = 29/67 (43%), Positives = 41/67 (61%)
Query: 366 LHGNMKQEDRRTTFGAFKTEKKALLLSTDVAARGLDFPKVKCIIQYDSAGEATEYVHRYL 425
+HG QE+R AF+ KK +L++TDVA++GLDFP ++ +I YD E YVHR
Sbjct: 84 IHGGKDQEERTKAIEAFREGKKDVLVATDVASKGLDFPAIQHVINYDMPEEIENYVHRIG 143
Query: 426 KHLPVGN 432
+ GN
Sbjct: 144 RTGCSGN 150
>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 = 59.3 bits (142), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 43/137 (31%), Positives = 61/137 (44%), Gaps = 17/137 (12%)
Query: 307 LSILKHLFDTEVSQKLVVFFSTCDAVDFHYSLLSEFQWSPHSQPDMELKQLFLRCKTFRL 366
S+LK + TE ++F T + H + L++ EL L C ++
Sbjct: 23 FSLLKDVLMTENPDSCIIFCRTKE----HVNQLTD-----------ELDDLGYPCD--KI 65
Query: 367 HGNMKQEDRRTTFGAFKTEKKALLLSTDVAARGLDFPKVKCIIQYDSAGEATEYVHRYLK 426
HG M QEDR FK + L++TDVAARG+D + +I YD E YVHR +
Sbjct: 66 HGGMIQEDRFDVMNEFKRGEYRYLVATDVAARGIDIENISLVINYDLPLEKESYVHRTGR 125
Query: 427 HLPVGNFYFNIPLIVCF 443
GN I + F
Sbjct: 126 TGRAGNKGKAISFVTAF 142
>pdb|3FHC|B Chain B, Crystal Structure Of Human Dbp5 In Complex With Nup214
Length = 235
Score = 58.5 bits (140), Expect = 6e-09, Method: Compositional matrix adjust.
Identities = 55/242 (22%), Positives = 110/242 (45%), Gaps = 42/242 (17%)
Query: 14 IFASCSFSSLGLHSTLCDQLRERLGFEAPTKVQAQAIPVILS--GRHVLVNAATGTGKTV 71
+++ SF L L L + +GF P+K+Q A+P++L+ ++++ + +GTGKT
Sbjct: 21 LYSVKSFEELRLKPQLLQGVYA-MGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTA 79
Query: 72 AYLAPIINHLQSYS--PRIDRSSGTFALVLVPTRELCLQVYEILHKLLHRFHWIVPGYVM 129
A++ +++ ++ + P+ L L PT EL LQ +++ ++ + + Y +
Sbjct: 80 AFVLAMLSQVEPANKYPQ--------CLCLSPTYELALQTGKVIEQMGKFYPELKLAYAV 131
Query: 130 GGENRSKEKARLRKGISILVATPGRLLDHLKHTSSFLHTNLRWIIFDEADRILELGFGKE 189
G N+ + ++ + I++ TPG +LD ++ + DEAD +
Sbjct: 132 RG-NKLERGQKISE--QIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVM-------- 180
Query: 190 IEEILDILGSRNIGSIGEGNEVSNVKR------QNLLLSATLNEKVNHLAKISLETPVLI 243
I + G ++ ++R Q LL SAT + V A+ + P +I
Sbjct: 181 ------------IATQGHQDQSIRIQRMLPRNCQMLLFSATFEDSVWKFAQKVVPDPNVI 228
Query: 244 GL 245
L
Sbjct: 229 KL 230
>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 = 58.2 bits (139), Expect = 9e-09, Method: Compositional matrix adjust.
Identities = 55/242 (22%), Positives = 110/242 (45%), Gaps = 42/242 (17%)
Query: 14 IFASCSFSSLGLHSTLCDQLRERLGFEAPTKVQAQAIPVILS--GRHVLVNAATGTGKTV 71
+++ SF L L L + +GF P+K+Q A+P++L+ ++++ + +GTGKT
Sbjct: 58 LYSVKSFEELRLKPQLLQGVYA-MGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTA 116
Query: 72 AYLAPIINHLQSYS--PRIDRSSGTFALVLVPTRELCLQVYEILHKLLHRFHWIVPGYVM 129
A++ +++ ++ + P+ L L PT EL LQ +++ ++ + + Y +
Sbjct: 117 AFVLAMLSQVEPANKYPQ--------CLCLSPTYELALQTGKVIEQMGKFYPELKLAYAV 168
Query: 130 GGENRSKEKARLRKGISILVATPGRLLDHLKHTSSFLHTNLRWIIFDEADRILELGFGKE 189
G N+ + ++ + I++ TPG +LD ++ + DEAD +
Sbjct: 169 RG-NKLERGQKISE--QIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVM-------- 217
Query: 190 IEEILDILGSRNIGSIGEGNEVSNVKR------QNLLLSATLNEKVNHLAKISLETPVLI 243
I + G ++ ++R Q LL SAT + V A+ + P +I
Sbjct: 218 ------------IATQGHQDQSIRIQRMLPRNCQMLLFSATFEDSVWKFAQKVVPDPNVI 265
Query: 244 GL 245
L
Sbjct: 266 KL 267
Score = 38.1 bits (87), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 17/47 (36%), Positives = 27/47 (57%)
Query: 366 LHGNMKQEDRRTTFGAFKTEKKALLLSTDVAARGLDFPKVKCIIQYD 412
L G M E R F+ K+ +L++T+V ARG+D +V +I +D
Sbjct: 333 LSGEMMVEQRAAVIERFREGKEKVLVTTNVCARGIDVEQVSVVINFD 379
>pdb|3G0H|A Chain A, Human Dead-box Rna Helicase Ddx19, In Complex With An
Atp-analogue And Rna
Length = 424
Score = 58.2 bits (139), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 55/242 (22%), Positives = 110/242 (45%), Gaps = 42/242 (17%)
Query: 14 IFASCSFSSLGLHSTLCDQLRERLGFEAPTKVQAQAIPVILS--GRHVLVNAATGTGKTV 71
+++ SF L L L + +GF P+K+Q A+P++L+ ++++ + +GTGKT
Sbjct: 37 LYSVKSFEELRLKPQLLQGVYA-MGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTA 95
Query: 72 AYLAPIINHLQSYS--PRIDRSSGTFALVLVPTRELCLQVYEILHKLLHRFHWIVPGYVM 129
A++ +++ ++ + P+ L L PT EL LQ +++ ++ + + Y +
Sbjct: 96 AFVLAMLSQVEPANKYPQ--------CLCLSPTYELALQTGKVIEQMGKFYPELKLAYAV 147
Query: 130 GGENRSKEKARLRKGISILVATPGRLLDHLKHTSSFLHTNLRWIIFDEADRILELGFGKE 189
G N+ + ++ + I++ TPG +LD ++ + DEAD +
Sbjct: 148 RG-NKLERGQKISE--QIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVM-------- 196
Query: 190 IEEILDILGSRNIGSIGEGNEVSNVKR------QNLLLSATLNEKVNHLAKISLETPVLI 243
I + G ++ ++R Q LL SAT + V A+ + P +I
Sbjct: 197 ------------IATQGHQDQSIRIQRMLPRNCQMLLFSATFEDSVWKFAQKVVPDPNVI 244
Query: 244 GL 245
L
Sbjct: 245 KL 246
Score = 37.7 bits (86), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 17/47 (36%), Positives = 27/47 (57%)
Query: 366 LHGNMKQEDRRTTFGAFKTEKKALLLSTDVAARGLDFPKVKCIIQYD 412
L G M E R F+ K+ +L++T+V ARG+D +V +I +D
Sbjct: 312 LSGEMMVEQRAAVIERFREGKEKVLVTTNVCARGIDVEQVSVVINFD 358
>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 = 58.2 bits (139), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 55/242 (22%), Positives = 110/242 (45%), Gaps = 42/242 (17%)
Query: 14 IFASCSFSSLGLHSTLCDQLRERLGFEAPTKVQAQAIPVILS--GRHVLVNAATGTGKTV 71
+++ SF L L L + +GF P+K+Q A+P++L+ ++++ + +GTGKT
Sbjct: 21 LYSVKSFEELRLKPQLLQGVYA-MGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTA 79
Query: 72 AYLAPIINHLQSYS--PRIDRSSGTFALVLVPTRELCLQVYEILHKLLHRFHWIVPGYVM 129
A++ +++ ++ + P+ L L PT EL LQ +++ ++ + + Y +
Sbjct: 80 AFVLAMLSQVEPANKYPQ--------CLCLSPTYELALQTGKVIEQMGKFYPELKLAYAV 131
Query: 130 GGENRSKEKARLRKGISILVATPGRLLDHLKHTSSFLHTNLRWIIFDEADRILELGFGKE 189
G N+ + ++ + I++ TPG +LD ++ + DEAD +
Sbjct: 132 RG-NKLERGQKISE--QIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVM-------- 180
Query: 190 IEEILDILGSRNIGSIGEGNEVSNVKR------QNLLLSATLNEKVNHLAKISLETPVLI 243
I + G ++ ++R Q LL SAT + V A+ + P +I
Sbjct: 181 ------------IATQGHQDQSIRIQRMLPRNCQMLLFSATFEDSVWKFAQKVVPDPNVI 228
Query: 244 GL 245
L
Sbjct: 229 KL 230
Score = 38.1 bits (87), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 17/47 (36%), Positives = 27/47 (57%)
Query: 366 LHGNMKQEDRRTTFGAFKTEKKALLLSTDVAARGLDFPKVKCIIQYD 412
L G M E R F+ K+ +L++T+V ARG+D +V +I +D
Sbjct: 296 LSGEMMVEQRAAVIERFREGKEKVLVTTNVCARGIDVEQVSVVINFD 342
>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 = 58.2 bits (139), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 28/68 (41%), Positives = 39/68 (57%)
Query: 366 LHGNMKQEDRRTTFGAFKTEKKALLLSTDVAARGLDFPKVKCIIQYDSAGEATEYVHRYL 425
+HG+ Q DR F++ K +L++T VAARGLD VK +I +D + EYVHR
Sbjct: 76 IHGDRSQRDREEALHQFRSGKSPILVATAVAARGLDISNVKHVINFDLPSDIEEYVHRIG 135
Query: 426 KHLPVGNF 433
+ VGN
Sbjct: 136 RTGRVGNL 143
>pdb|3FMO|B Chain B, Crystal Structure Of The Nucleoporin Nup214 In Complex
With The Dead- Box Helicase Ddx19
Length = 300
Score = 57.8 bits (138), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 55/242 (22%), Positives = 110/242 (45%), Gaps = 42/242 (17%)
Query: 14 IFASCSFSSLGLHSTLCDQLRERLGFEAPTKVQAQAIPVILS--GRHVLVNAATGTGKTV 71
+++ SF L L L + +GF P+K+Q A+P++L+ ++++ + +GTGKT
Sbjct: 88 LYSVKSFEELRLKPQLLQGVYA-MGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTA 146
Query: 72 AYLAPIINHLQSYS--PRIDRSSGTFALVLVPTRELCLQVYEILHKLLHRFHWIVPGYVM 129
A++ +++ ++ + P+ L L PT EL LQ +++ ++ + + Y +
Sbjct: 147 AFVLAMLSQVEPANKYPQ--------CLCLSPTYELALQTGKVIEQMGKFYPELKLAYAV 198
Query: 130 GGENRSKEKARLRKGISILVATPGRLLDHLKHTSSFLHTNLRWIIFDEADRILELGFGKE 189
G N+ + ++ + I++ TPG +LD ++ + DEAD +
Sbjct: 199 RG-NKLERGQKISE--QIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVM-------- 247
Query: 190 IEEILDILGSRNIGSIGEGNEVSNVKR------QNLLLSATLNEKVNHLAKISLETPVLI 243
I + G ++ ++R Q LL SAT + V A+ + P +I
Sbjct: 248 ------------IATQGHQDQSIRIQRMLPRNCQMLLFSATFEDSVWKFAQKVVPDPNVI 295
Query: 244 GL 245
L
Sbjct: 296 KL 297
>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 = 57.8 bits (138), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 55/242 (22%), Positives = 110/242 (45%), Gaps = 42/242 (17%)
Query: 14 IFASCSFSSLGLHSTLCDQLRERLGFEAPTKVQAQAIPVILS--GRHVLVNAATGTGKTV 71
+++ SF L L L + +GF P+K+Q A+P++L+ ++++ + +GTGKT
Sbjct: 88 LYSVKSFEELRLKPQLLQGVYA-MGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTA 146
Query: 72 AYLAPIINHLQSYS--PRIDRSSGTFALVLVPTRELCLQVYEILHKLLHRFHWIVPGYVM 129
A++ +++ ++ + P+ L L PT EL LQ +++ ++ + + Y +
Sbjct: 147 AFVLAMLSQVEPANKYPQ--------CLCLSPTYELALQTGKVIEQMGKFYPELKLAYAV 198
Query: 130 GGENRSKEKARLRKGISILVATPGRLLDHLKHTSSFLHTNLRWIIFDEADRILELGFGKE 189
G N+ + ++ + I++ TPG +LD ++ + DEAD +
Sbjct: 199 RG-NKLERGQKISE--QIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVM-------- 247
Query: 190 IEEILDILGSRNIGSIGEGNEVSNVKR------QNLLLSATLNEKVNHLAKISLETPVLI 243
I + G ++ ++R Q LL SAT + V A+ + P +I
Sbjct: 248 ------------IATQGHQDQSIRIQRMLPRNCQMLLFSATFEDSVWKFAQKVVPDPNVI 295
Query: 244 GL 245
L
Sbjct: 296 KL 297
Score = 38.1 bits (87), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 17/47 (36%), Positives = 27/47 (57%)
Query: 366 LHGNMKQEDRRTTFGAFKTEKKALLLSTDVAARGLDFPKVKCIIQYD 412
L G M E R F+ K+ +L++T+V ARG+D +V +I +D
Sbjct: 363 LSGEMMVEQRAAVIERFREGKEKVLVTTNVCARGIDVEQVSVVINFD 409
>pdb|3FHO|A Chain A, Structure Of S. Pombe Dbp5
pdb|3FHO|B Chain B, Structure Of S. Pombe Dbp5
Length = 508
Score = 57.0 bits (136), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 48/194 (24%), Positives = 99/194 (51%), Gaps = 30/194 (15%)
Query: 44 KVQAQAIPVILSG--RHVLVNAATGTGKTVAYLAPIINHLQSYSPRIDRSSGTFALVLVP 101
K+Q +A+P++LS R+++ + +GTGKT A+ +++ + + P+ A+ L P
Sbjct: 144 KIQEKALPLLLSNPPRNMIGQSQSGTGKTAAFALTMLSRVDASVPKPQ------AICLAP 197
Query: 102 TRELCLQVYEILHKLLHRFHWIVPGYVMGGENRSKEKARLRKGISILVATPGRLLDHLKH 161
+REL Q+ +++ + + ++ + + G ++ + A++ I++ TPG ++D +K
Sbjct: 198 SRELARQIMDVVTE-MGKYTEVKTAF--GIKDSVPKGAKI--DAQIVIGTPGTVMDLMKR 252
Query: 162 TSSFLHTNLRWIIFDEADRIL-ELGFGKEIEEILDILGSRNIGSIGEGNEVSNVKRQNLL 220
+++ + DEAD +L + G G + I +L RN Q +L
Sbjct: 253 -RQLDARDIKVFVLDEADNMLDQQGLGDQSMRIKHLL-PRNT--------------QIVL 296
Query: 221 LSATLNEKVNHLAK 234
SAT +E+V A+
Sbjct: 297 FSATFSERVEKYAE 310
Score = 38.5 bits (88), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 20/64 (31%), Positives = 34/64 (53%), Gaps = 6/64 (9%)
Query: 366 LHGNMKQEDRRTTFGAFKTEKKALLLSTDVAARGLDFPKVKCIIQY----DSAG--EATE 419
L GN++ R +F+ +L++T+V ARG+D +V ++ Y D AG +
Sbjct: 387 LTGNLEGAQRDAIMDSFRVGTSKVLVTTNVIARGIDVSQVNLVVNYDMPLDQAGRPDPQT 446
Query: 420 YVHR 423
Y+HR
Sbjct: 447 YLHR 450
>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 = 57.0 bits (136), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 25/57 (43%), Positives = 35/57 (61%)
Query: 366 LHGNMKQEDRRTTFGAFKTEKKALLLSTDVAARGLDFPKVKCIIQYDSAGEATEYVH 422
LHG+M Q +R GAF+ + +L++TDVAARGLD P+V ++ Y A Y H
Sbjct: 58 LHGDMSQGERERVMGAFRQGEVRVLVATDVAARGLDIPQVDLVVHYRMPDRAEAYQH 114
>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 = 55.1 bits (131), Expect = 8e-08, Method: Compositional matrix adjust.
Identities = 24/57 (42%), Positives = 35/57 (61%)
Query: 366 LHGNMKQEDRRTTFGAFKTEKKALLLSTDVAARGLDFPKVKCIIQYDSAGEATEYVH 422
LHG++ Q +R GAF+ + +L++TDVAARGLD P+V ++ Y A Y H
Sbjct: 61 LHGDLSQGERERVLGAFRQGEVRVLVATDVAARGLDIPQVDLVVHYRLPDRAEAYQH 117
>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 = 53.1 bits (126), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 36/126 (28%), Positives = 57/126 (45%), Gaps = 16/126 (12%)
Query: 299 CGSRLAVLLSILKHLFDTEVSQKLVVFFSTCDAVDFHYSLL-SEFQWSPHSQPDMELKQL 357
S A + I K + + + + K ++F T F S+L +EF+ P +E
Sbjct: 13 ANSIFAAVEHIKKQIKERDSNYKAIIFAPTVKFTSFLCSILKNEFK---KDLPILEF--- 66
Query: 358 FLRCKTFRLHGNMKQEDRRTTFGAFKTEKKALLLSTDVAARGLDFPKVKCIIQYDSAGEA 417
HG + Q R + FK ++ +L+ TDV ARG+DFP V ++Q E
Sbjct: 67 ---------HGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSEL 117
Query: 418 TEYVHR 423
Y+HR
Sbjct: 118 ANYIHR 123
>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 = 53.1 bits (126), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 36/126 (28%), Positives = 57/126 (45%), Gaps = 16/126 (12%)
Query: 299 CGSRLAVLLSILKHLFDTEVSQKLVVFFSTCDAVDFHYSLL-SEFQWSPHSQPDMELKQL 357
S A + I K + + + + K ++F T F S+L +EF+ P +E
Sbjct: 13 ANSIFAAVEHIKKQIKERDSNYKAIIFAPTVKFTSFLCSILKNEFK---KDLPILEF--- 66
Query: 358 FLRCKTFRLHGNMKQEDRRTTFGAFKTEKKALLLSTDVAARGLDFPKVKCIIQYDSAGEA 417
HG + Q R + FK ++ +L+ TDV ARG+DFP V ++Q E
Sbjct: 67 ---------HGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSEL 117
Query: 418 TEYVHR 423
Y+HR
Sbjct: 118 ANYIHR 123
>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 = 53.1 bits (126), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 36/126 (28%), Positives = 57/126 (45%), Gaps = 16/126 (12%)
Query: 299 CGSRLAVLLSILKHLFDTEVSQKLVVFFSTCDAVDFHYSLL-SEFQWSPHSQPDMELKQL 357
S A + I K + + + + K ++F T F S+L +EF+ P +E
Sbjct: 13 ANSIFAAVEHIKKQIKERDSNYKAIIFAPTVKFTSFLCSILKNEFK---KDLPILEF--- 66
Query: 358 FLRCKTFRLHGNMKQEDRRTTFGAFKTEKKALLLSTDVAARGLDFPKVKCIIQYDSAGEA 417
HG + Q R + FK ++ +L+ TDV ARG+DFP V ++Q E
Sbjct: 67 ---------HGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSEL 117
Query: 418 TEYVHR 423
Y+HR
Sbjct: 118 ANYIHR 123
>pdb|1FUK|A Chain A, Crystal Structure Of The Carboxy Terminal Domain Of Yeast
Eif4a
Length = 165
Score = 45.8 bits (107), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 18/57 (31%), Positives = 33/57 (57%)
Query: 366 LHGNMKQEDRRTTFGAFKTEKKALLLSTDVAARGLDFPKVKCIIQYDSAGEATEYVH 422
++ ++ Q++R T F++ +L+STD+ ARG+D +V +I YD Y+H
Sbjct: 60 IYSDLPQQERDTIMKEFRSGSSRILISTDLLARGIDVQQVSLVINYDLPANKENYIH 116
>pdb|2KBF|A Chain A, Solution Structure Of Carboxyl-Terminal Domain Of Dbp5p
Length = 187
Score = 45.8 bits (107), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 21/64 (32%), Positives = 38/64 (59%), Gaps = 6/64 (9%)
Query: 366 LHGNMKQEDRRTTFGAFKTEKKALLLSTDVAARGLDFPKVKCIIQYD----SAGEA--TE 419
LHG+++ ++R F+ + +L++T+V ARG+D P V ++ YD + G+A
Sbjct: 65 LHGDLQTQERDRLIDDFREGRSKVLITTNVLARGIDIPTVSMVVNYDLPTLANGQADPAT 124
Query: 420 YVHR 423
Y+HR
Sbjct: 125 YIHR 128
>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 = 45.4 bits (106), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 21/64 (32%), Positives = 38/64 (59%), Gaps = 6/64 (9%)
Query: 366 LHGNMKQEDRRTTFGAFKTEKKALLLSTDVAARGLDFPKVKCIIQYD----SAGEA--TE 419
LHG+++ ++R F+ + +L++T+V ARG+D P V ++ YD + G+A
Sbjct: 66 LHGDLQTQERDRLIDDFREGRSKVLITTNVLARGIDIPTVSXVVNYDLPTLANGQADPAT 125
Query: 420 YVHR 423
Y+HR
Sbjct: 126 YIHR 129
>pdb|3GFP|A Chain A, Structure Of The C-Terminal Domain Of The Dead-Box Protein
Dbp5
Length = 189
Score = 45.4 bits (106), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 21/64 (32%), Positives = 38/64 (59%), Gaps = 6/64 (9%)
Query: 366 LHGNMKQEDRRTTFGAFKTEKKALLLSTDVAARGLDFPKVKCIIQYD----SAGEA--TE 419
LHG+++ ++R F+ + +L++T+V ARG+D P V ++ YD + G+A
Sbjct: 67 LHGDLQTQERDRLIDDFREGRSKVLITTNVLARGIDIPTVSXVVNYDLPTLANGQADPAT 126
Query: 420 YVHR 423
Y+HR
Sbjct: 127 YIHR 130
>pdb|1T5I|A Chain A, Crystal Structure Of The C-Terminal Domain Of Uap56
Length = 172
Score = 45.1 bits (105), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 30/113 (26%), Positives = 56/113 (49%), Gaps = 9/113 (7%)
Query: 313 LFDTEVSQKLVVFFSTCDAVDFHYSLLSEFQWSPHSQPDMELKQLFLRCK--TFRLHGNM 370
L D E ++KL F D ++F+ ++ + Q + L QL + +H M
Sbjct: 13 LKDNEKNRKL---FDLLDVLEFNQVVI----FVKSVQRCIALAQLLVEQNFPAIAIHRGM 65
Query: 371 KQEDRRTTFGAFKTEKKALLLSTDVAARGLDFPKVKCIIQYDSAGEATEYVHR 423
QE+R + + FK ++ +L++T++ RG+D +V YD ++ Y+HR
Sbjct: 66 PQEERLSRYQQFKDFQRRILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHR 118
>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 = 45.1 bits (105), Expect = 9e-05, Method: Compositional matrix adjust.
Identities = 28/88 (31%), Positives = 41/88 (46%), Gaps = 2/88 (2%)
Query: 353 ELKQLFLRCKTFRLHGNMKQEDRRTTFGAFKTEKKALLLSTDVAARGLDFPKVKCIIQYD 412
++ QL C F +H M+QE R F F+ L+ TD+ RG+D V +I +D
Sbjct: 63 KISQLGYSC--FYIHAKMRQEHRNRVFHDFRNGLCRNLVCTDLFTRGIDIQAVNVVINFD 120
Query: 413 SAGEATEYVHRYLKHLPVGNFYFNIPLI 440
A Y+HR + G+ I LI
Sbjct: 121 FPKLAETYLHRIGRSGRFGHLGLAINLI 148
>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 = 41.6 bits (96), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 23/75 (30%), Positives = 33/75 (44%)
Query: 366 LHGNMKQEDRRTTFGAFKTEKKALLLSTDVAARGLDFPKVKCIIQYDSAGEATEYVHRYL 425
L G M Q R + +L++TDVAARG+D P V + +D Y+HR
Sbjct: 60 LEGEMVQGKRNEAIKRLTEGRVNVLVATDVAARGIDIPDVSHVFNFDMPRSGDTYLHRIG 119
Query: 426 KHLPVGNFYFNIPLI 440
+ G I L+
Sbjct: 120 RTARAGRKGTAISLV 134
>pdb|3TMI|A Chain A, Structural Basis For Rna Recognition And Activation Of
Rig-I
Length = 695
Score = 37.4 bits (85), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 32/130 (24%), Positives = 59/130 (45%), Gaps = 6/130 (4%)
Query: 49 AIPVILSGRHVLVNAATGTGKTVAYLAPIINHLQSYSPRIDRSSGTFALVLVPTRELCLQ 108
A+P + G++ ++ A TG GKT L +HL+ + P+ + F +P E Q
Sbjct: 21 ALPA-MKGKNTIICAPTGCGKTFVSLLICEHHLKKF-PQGQKGKVVFFANQIPVYE---Q 75
Query: 109 VYEILHKLLHRFHWIVPGYVMGGENRSKEKARLRKGISILVATPGRLLDHLKHTSSFLHT 168
+ K R + V G + G + ++ + I++ TP L+++LK + +
Sbjct: 76 QKSVFSKYFERHGYRVTG-ISGATAENVPVEQIVENNDIIILTPQILVNNLKKGTIPSLS 134
Query: 169 NLRWIIFDEA 178
+IFDE
Sbjct: 135 IFTLMIFDEC 144
>pdb|4AY2|A Chain A, Capturing 5' Tri-Phosphorylated Rna Duplex By Rig-I
Length = 687
Score = 37.4 bits (85), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 32/130 (24%), Positives = 59/130 (45%), Gaps = 6/130 (4%)
Query: 49 AIPVILSGRHVLVNAATGTGKTVAYLAPIINHLQSYSPRIDRSSGTFALVLVPTRELCLQ 108
A+P + G++ ++ A TG GKT L +HL+ + P+ + F +P E Q
Sbjct: 13 ALPA-MKGKNTIICAPTGCGKTFVSLLICEHHLKKF-PQGQKGKVVFFANQIPVYE---Q 67
Query: 109 VYEILHKLLHRFHWIVPGYVMGGENRSKEKARLRKGISILVATPGRLLDHLKHTSSFLHT 168
+ K R + V G + G + ++ + I++ TP L+++LK + +
Sbjct: 68 NKSVFSKYFERHGYRVTG-ISGATAENVPVEQIVENNDIIILTPQILVNNLKKGTIPSLS 126
Query: 169 NLRWIIFDEA 178
+IFDE
Sbjct: 127 IFTLMIFDEC 136
>pdb|2YKG|A Chain A, Structural Insights Into Rna Recognition By Rig-I
Length = 696
Score = 37.4 bits (85), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 32/130 (24%), Positives = 59/130 (45%), Gaps = 6/130 (4%)
Query: 49 AIPVILSGRHVLVNAATGTGKTVAYLAPIINHLQSYSPRIDRSSGTFALVLVPTRELCLQ 108
A+P + G++ ++ A TG GKT L +HL+ + P+ + F +P E Q
Sbjct: 22 ALPA-MKGKNTIICAPTGCGKTFVSLLICEHHLKKF-PQGQKGKVVFFANQIPVYE---Q 76
Query: 109 VYEILHKLLHRFHWIVPGYVMGGENRSKEKARLRKGISILVATPGRLLDHLKHTSSFLHT 168
+ K R + V G + G + ++ + I++ TP L+++LK + +
Sbjct: 77 NKSVFSKYFERHGYRVTG-ISGATAENVPVEQIVENNDIIILTPQILVNNLKKGTIPSLS 135
Query: 169 NLRWIIFDEA 178
+IFDE
Sbjct: 136 IFTLMIFDEC 145
>pdb|1OYW|A Chain A, Structure Of The Recq Catalytic Core
Length = 523
Score = 35.0 bits (79), Expect = 0.088, Method: Compositional matrix adjust.
Identities = 20/56 (35%), Positives = 28/56 (50%)
Query: 23 LGLHSTLCDQLRERLGFEAPTKVQAQAIPVILSGRHVLVNAATGTGKTVAYLAPII 78
L L S L+E G++ Q + I +LSGR LV TG GK++ Y P +
Sbjct: 7 LNLESGAKQVLQETFGYQQFRPGQEEIIDTVLSGRDCLVVXPTGGGKSLCYQIPAL 62
>pdb|1OYY|A Chain A, Structure Of The Recq Catalytic Core Bound To
Atp-Gamma-S
Length = 523
Score = 34.7 bits (78), Expect = 0.099, Method: Compositional matrix adjust.
Identities = 20/56 (35%), Positives = 28/56 (50%)
Query: 23 LGLHSTLCDQLRERLGFEAPTKVQAQAIPVILSGRHVLVNAATGTGKTVAYLAPII 78
L L S L+E G++ Q + I +LSGR LV TG GK++ Y P +
Sbjct: 7 LNLESGAKQVLQETFGYQQFRPGQEEIIDTVLSGRDCLVVMPTGGGKSLCYQIPAL 62
>pdb|4A2P|A Chain A, Structure Of Duck Rig-I Helicase Domain
pdb|4A36|A Chain A, Structure Of Duck Rig-I Helicase Domain Bound To 19-Mer
Dsrna And Atp Transition State Analogue
pdb|4A36|B Chain B, Structure Of Duck Rig-I Helicase Domain Bound To 19-Mer
Dsrna And Atp Transition State Analogue
Length = 556
Score = 33.5 bits (75), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 47/175 (26%), Positives = 76/175 (43%), Gaps = 29/175 (16%)
Query: 49 AIPVILSGRHVLVNAATGTGKTVAYLAPIINHLQSYSPRIDRSSGTFALVLVPTRELCLQ 108
A P I +G++ L+ A TG+GKT + +H Q+ P ++ F VP
Sbjct: 16 AQPAI-NGKNALICAPTGSGKTFVSILICEHHFQNM-PAGRKAKVVFLATKVP------- 66
Query: 109 VYEILHKLLHRFHWIVPGY-VMG--GENRSKEKA-RLRKGISILVATPGRLLDHLKHTSS 164
VYE K + + H+ GY V G GEN S ++ + I+V TP L++ + +
Sbjct: 67 VYE-QQKNVFKHHFERQGYSVQGISGENFSNVSVEKVIEDSDIIVVTPQILVNSFEDGTL 125
Query: 165 FLHTNLRWIIFDEA-------------DRILELGF--GKEIEEILDILGSRNIGS 204
+ +IFDE R LE F ++ +IL + S +G+
Sbjct: 126 TSLSIFTLMIFDECHNTTGNHPYNVLMTRYLEQKFNSASQLPQILGLTASVGVGN 180
>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 = 33.5 bits (75), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 15/42 (35%), Positives = 24/42 (57%)
Query: 370 MKQEDRRTTFGAFKTEKKALLLSTDVAARGLDFPKVKCIIQY 411
M Q +++ F+T K LL++T VA GLD + +I+Y
Sbjct: 448 MTQNEQKEVISKFRTGKINLLIATTVAEEGLDIKECNIVIRY 489
>pdb|4A2W|A Chain A, Structure Of Full-Length Duck Rig-I
pdb|4A2W|B Chain B, Structure Of Full-Length Duck Rig-I
Length = 936
Score = 33.5 bits (75), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 47/175 (26%), Positives = 76/175 (43%), Gaps = 29/175 (16%)
Query: 49 AIPVILSGRHVLVNAATGTGKTVAYLAPIINHLQSYSPRIDRSSGTFALVLVPTRELCLQ 108
A P I +G++ L+ A TG+GKT + +H Q+ P ++ F VP
Sbjct: 257 AQPAI-NGKNALICAPTGSGKTFVSILICEHHFQNM-PAGRKAKVVFLATKVP------- 307
Query: 109 VYEILHKLLHRFHWIVPGY-VMG--GENRSKEKA-RLRKGISILVATPGRLLDHLKHTSS 164
VYE K + + H+ GY V G GEN S ++ + I+V TP L++ + +
Sbjct: 308 VYE-QQKNVFKHHFERQGYSVQGISGENFSNVSVEKVIEDSDIIVVTPQILVNSFEDGTL 366
Query: 165 FLHTNLRWIIFDEA-------------DRILELGF--GKEIEEILDILGSRNIGS 204
+ +IFDE R LE F ++ +IL + S +G+
Sbjct: 367 TSLSIFTLMIFDECHNTTGNHPYNVLMTRYLEQKFNSASQLPQILGLTASVGVGN 421
>pdb|4A2Q|A Chain A, Structure Of Duck Rig-I Tandem Cards And Helicase Domain
pdb|4A2Q|B Chain B, Structure Of Duck Rig-I Tandem Cards And Helicase Domain
pdb|4A2Q|D Chain D, Structure Of Duck Rig-I Tandem Cards And Helicase Domain
pdb|4A2Q|E Chain E, Structure Of Duck Rig-I Tandem Cards And Helicase Domain
Length = 797
Score = 33.1 bits (74), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 39/133 (29%), Positives = 62/133 (46%), Gaps = 14/133 (10%)
Query: 49 AIPVILSGRHVLVNAATGTGKTVAYLAPIINHLQSYSPRIDRSSGTFALVLVPTRELCLQ 108
A P I +G++ L+ A TG+GKT + +H Q+ P ++ F VP
Sbjct: 257 AQPAI-NGKNALICAPTGSGKTFVSILICEHHFQNM-PAGRKAKVVFLATKVP------- 307
Query: 109 VYEILHKLLHRFHWIVPGY-VMG--GENRSKEKA-RLRKGISILVATPGRLLDHLKHTSS 164
VYE K + + H+ GY V G GEN S ++ + I+V TP L++ + +
Sbjct: 308 VYE-QQKNVFKHHFERQGYSVQGISGENFSNVSVEKVIEDSDIIVVTPQILVNSFEDGTL 366
Query: 165 FLHTNLRWIIFDE 177
+ +IFDE
Sbjct: 367 TSLSIFTLMIFDE 379
>pdb|4I1S|A Chain A, Melanoma Differentiation Associated Protein-5 Helicase
Domain Complex With Inhibitor Non-structural Protein V
Length = 243
Score = 32.3 bits (72), Expect = 0.48, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 23/40 (57%)
Query: 372 QEDRRTTFGAFKTEKKALLLSTDVAARGLDFPKVKCIIQY 411
Q ++R F+T K LL++T VA GLD + +I+Y
Sbjct: 200 QNEQREVISKFRTGKINLLIATTVAEEGLDIKECNIVIRY 239
>pdb|1GM5|A Chain A, Structure Of Recg Bound To Three-Way Dna Junction
Length = 780
Score = 32.0 bits (71), Expect = 0.73, Method: Compositional matrix adjust.
Identities = 15/55 (27%), Positives = 28/55 (50%)
Query: 355 KQLFLRCKTFRLHGNMKQEDRRTTFGAFKTEKKALLLSTDVAARGLDFPKVKCII 409
K++F K +HG + QE++ F + +L+ST V G+D P+ ++
Sbjct: 608 KEVFPEFKLGLMHGRLSQEEKDRVMLEFAEGRYDILVSTTVIEVGIDVPRANVMV 662
>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 = 31.6 bits (70), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 14/52 (26%), Positives = 25/52 (48%)
Query: 372 QEDRRTTFGAFKTEKKALLLSTDVAARGLDFPKVKCIIQYDSAGEATEYVHR 423
+E+R F+T + ++S+ V G+D P + +G A EY+ R
Sbjct: 380 REEREEILEGFRTGRFRAIVSSQVLDEGIDVPDANVGVIMSGSGSAREYIQR 431
>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 = 31.2 bits (69), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 30/106 (28%), Positives = 51/106 (48%), Gaps = 19/106 (17%)
Query: 11 VKEIFASCSFSSLGLHSTLCDQLRERLGFEAPTKVQAQAIPVILSGRHVLVNAATGTGKT 70
V+E+ S S ++G+ L+E G E QA+A+ + SG+++L+ T GKT
Sbjct: 3 VEELAESISSYAVGI-------LKEE-GIEELFPPQAEAVEKVFSGKNLLLAMPTAAGKT 54
Query: 71 -VAYLAPIINHLQSYSPRIDRSSGTFALVLVPTRELCLQVYEILHK 115
+A +A + ++ G +L +VP R L + YE K
Sbjct: 55 LLAEMAMVREAIK----------GGKSLYVVPLRALAGEKYESFKK 90
>pdb|2FZL|A Chain A, Structure Of C-Terminal Domain Of Archaeoglobus Fulgidus
Xpb
Length = 219
Score = 31.2 bits (69), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 14/52 (26%), Positives = 25/52 (48%)
Query: 372 QEDRRTTFGAFKTEKKALLLSTDVAARGLDFPKVKCIIQYDSAGEATEYVHR 423
+E+R F+T + ++S+ V G+D P + +G A EY+ R
Sbjct: 145 REEREEILEGFRTGRFRAIVSSQVLDEGIDVPDANVGVIMSGSGSAREYIQR 196
>pdb|1E9R|A Chain A, Bacterial Conjugative Coupling Protein Trwbdeltan70.
Trigonal Form In Complex With Sulphate.
pdb|1E9R|B Chain B, Bacterial Conjugative Coupling Protein Trwbdeltan70.
Trigonal Form In Complex With Sulphate.
pdb|1E9R|D Chain D, Bacterial Conjugative Coupling Protein Trwbdeltan70.
Trigonal Form In Complex With Sulphate.
pdb|1E9R|E Chain E, Bacterial Conjugative Coupling Protein Trwbdeltan70.
Trigonal Form In Complex With Sulphate.
pdb|1E9R|F Chain F, Bacterial Conjugative Coupling Protein Trwbdeltan70.
Trigonal Form In Complex With Sulphate.
pdb|1E9R|G Chain G, Bacterial Conjugative Coupling Protein Trwbdeltan70.
Trigonal Form In Complex With Sulphate.
pdb|1E9S|A Chain A, Bacterial Conjugative Coupling Protein Trwbdeltan70.
Unbound Monoclinic Form.
pdb|1E9S|B Chain B, Bacterial Conjugative Coupling Protein Trwbdeltan70.
Unbound Monoclinic Form.
pdb|1E9S|D Chain D, Bacterial Conjugative Coupling Protein Trwbdeltan70.
Unbound Monoclinic Form.
pdb|1E9S|E Chain E, Bacterial Conjugative Coupling Protein Trwbdeltan70.
Unbound Monoclinic Form.
pdb|1E9S|F Chain F, Bacterial Conjugative Coupling Protein Trwbdeltan70.
Unbound Monoclinic Form.
pdb|1E9S|G Chain G, Bacterial Conjugative Coupling Protein Trwbdeltan70.
Unbound Monoclinic Form.
pdb|1E9S|H Chain H, Bacterial Conjugative Coupling Protein Trwbdeltan70.
Unbound Monoclinic Form.
pdb|1E9S|I Chain I, Bacterial Conjugative Coupling Protein Trwbdeltan70.
Unbound Monoclinic Form.
pdb|1E9S|J Chain J, Bacterial Conjugative Coupling Protein Trwbdeltan70.
Unbound Monoclinic Form.
pdb|1E9S|K Chain K, Bacterial Conjugative Coupling Protein Trwbdeltan70.
Unbound Monoclinic Form.
pdb|1E9S|L Chain L, Bacterial Conjugative Coupling Protein Trwbdeltan70.
Unbound Monoclinic Form.
pdb|1E9S|M Chain M, Bacterial Conjugative Coupling Protein Trwbdeltan70.
Unbound Monoclinic Form.
pdb|1GKI|A Chain A, Plasmid Coupling Protein Trwb In Complex With Adp And
Mg2+.
pdb|1GKI|B Chain B, Plasmid Coupling Protein Trwb In Complex With Adp And
Mg2+.
pdb|1GKI|D Chain D, Plasmid Coupling Protein Trwb In Complex With Adp And
Mg2+.
pdb|1GKI|E Chain E, Plasmid Coupling Protein Trwb In Complex With Adp And
Mg2+.
pdb|1GKI|F Chain F, Plasmid Coupling Protein Trwb In Complex With Adp And
Mg2+.
pdb|1GKI|G Chain G, Plasmid Coupling Protein Trwb In Complex With Adp And
Mg2+.
pdb|1GL7|A Chain A, Plasmid Coupling Protein Trwb In Complex With The Non-
Hydrolisable Atp-Analogue Adpnp.
pdb|1GL7|B Chain B, Plasmid Coupling Protein Trwb In Complex With The Non-
Hydrolisable Atp-Analogue Adpnp.
pdb|1GL7|D Chain D, Plasmid Coupling Protein Trwb In Complex With The Non-
Hydrolisable Atp-Analogue Adpnp.
pdb|1GL7|E Chain E, Plasmid Coupling Protein Trwb In Complex With The Non-
Hydrolisable Atp-Analogue Adpnp.
pdb|1GL7|F Chain F, Plasmid Coupling Protein Trwb In Complex With The Non-
Hydrolisable Atp-Analogue Adpnp.
pdb|1GL7|G Chain G, Plasmid Coupling Protein Trwb In Complex With The Non-
Hydrolisable Atp-Analogue Adpnp
Length = 437
Score = 31.2 bits (69), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 16/39 (41%), Positives = 23/39 (58%), Gaps = 2/39 (5%)
Query: 35 ERLGFEAPTKVQAQAIPVILSG--RHVLVNAATGTGKTV 71
+R+ E +V +P+ RH+LVN ATGTGK+V
Sbjct: 30 KRMTREKAKQVTVAGVPMPRDAEPRHLLVNGATGTGKSV 68
>pdb|1GL6|A Chain A, Plasmid Coupling Protein Trwb In Complex With The Non-
Hydrolysable Gtp Analogue Gdpnp
pdb|1GL6|B Chain B, Plasmid Coupling Protein Trwb In Complex With The Non-
Hydrolysable Gtp Analogue Gdpnp
pdb|1GL6|D Chain D, Plasmid Coupling Protein Trwb In Complex With The Non-
Hydrolysable Gtp Analogue Gdpnp
pdb|1GL6|E Chain E, Plasmid Coupling Protein Trwb In Complex With The Non-
Hydrolysable Gtp Analogue Gdpnp
pdb|1GL6|F Chain F, Plasmid Coupling Protein Trwb In Complex With The Non-
Hydrolysable Gtp Analogue Gdpnp
pdb|1GL6|G Chain G, Plasmid Coupling Protein Trwb In Complex With The Non-
Hydrolysable Gtp Analogue Gdpnp
Length = 436
Score = 31.2 bits (69), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 16/39 (41%), Positives = 23/39 (58%), Gaps = 2/39 (5%)
Query: 35 ERLGFEAPTKVQAQAIPVILSG--RHVLVNAATGTGKTV 71
+R+ E +V +P+ RH+LVN ATGTGK+V
Sbjct: 29 KRMTREKAKQVTVAGVPMPRDAEPRHLLVNGATGTGKSV 67
>pdb|1WP9|A Chain A, Crystal Structure Of Pyrococcus Furiosus Hef Helicase
Domain
pdb|1WP9|B Chain B, Crystal Structure Of Pyrococcus Furiosus Hef Helicase
Domain
pdb|1WP9|C Chain C, Crystal Structure Of Pyrococcus Furiosus Hef Helicase
Domain
pdb|1WP9|D Chain D, Crystal Structure Of Pyrococcus Furiosus Hef Helicase
Domain
pdb|1WP9|E Chain E, Crystal Structure Of Pyrococcus Furiosus Hef Helicase
Domain
pdb|1WP9|F Chain F, Crystal Structure Of Pyrococcus Furiosus Hef Helicase
Domain
Length = 494
Score = 29.3 bits (64), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 15/64 (23%), Positives = 30/64 (46%), Gaps = 3/64 (4%)
Query: 369 NMKQEDRRTTFGAFKTEKKALLLSTDVAARGLDFPKVKCIIQYDSAGEATEYVHRY---L 425
+ Q +++ F + +L++T V GLD P+V ++ Y+ A + R
Sbjct: 402 GLSQREQKLILDEFARGEFNVLVATSVGEEGLDVPEVDLVVFYEPVPSAIRSIQRRGRTG 461
Query: 426 KHLP 429
+H+P
Sbjct: 462 RHMP 465
>pdb|2VA8|A Chain A, Dna Repair Helicase Hel308
pdb|2VA8|B Chain B, Dna Repair Helicase Hel308
Length = 715
Score = 29.3 bits (64), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 38/159 (23%), Positives = 70/159 (44%), Gaps = 20/159 (12%)
Query: 22 SLGLHSTLCDQLRERLGFEAPTKVQAQAIPV-ILSGRHVLVNAATGTGKTVAYLAPIINH 80
L L S + + +++R G + Q +A+ +L G +L+ + TG+GKT+ II+
Sbjct: 12 DLKLPSNVIEIIKKR-GIKKLNPPQTEAVKKGLLEGNRLLLTSPTGSGKTLIAEMGIISF 70
Query: 81 LQSYSPRIDRSSGTFALVLVPTRELCLQVYEILHKLLHRFHWIVPGY--VMGGENRSKEK 138
L +G A+ + P R L + Y L W + G+ M + +
Sbjct: 71 LL--------KNGGKAIYVTPLRALTNEKY------LTFKDWELIGFKVAMTSGDYDTDD 116
Query: 139 ARLRKGISILVATPGRLLDHLKHTSSFLHTNLRWIIFDE 177
A L K I++ T +L +H +L+ + + + DE
Sbjct: 117 AWL-KNYDIIITTYEKLDSLWRHRPEWLN-EVNYFVLDE 153
>pdb|3TBK|A Chain A, Mouse Rig-I Atpase Domain
Length = 555
Score = 28.9 bits (63), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 27/122 (22%), Positives = 52/122 (42%), Gaps = 5/122 (4%)
Query: 56 GRHVLVNAATGTGKTVAYLAPIINHLQSYSPRIDRSSGTFALVLVPTRELCLQVYEILHK 115
G++ ++ A TG GKT L +HL+ + P + F +P E Q + +
Sbjct: 19 GKNTIICAPTGCGKTFVSLLICEHHLKKF-PCGQKGKVVFFANQIPVYE---QQATVFSR 74
Query: 116 LLHRFHWIVPGYVMGGENRSKEKARLRKGISILVATPGRLLDHLKHTSSFLHTNLRWIIF 175
R + + + G + S + + I++ TP L+++L + + + IF
Sbjct: 75 YFERLGYNIAS-ISGATSDSVSVQHIIEDNDIIILTPQILVNNLNNGAIPSLSVFTLXIF 133
Query: 176 DE 177
DE
Sbjct: 134 DE 135
>pdb|2IUU|A Chain A, P. Aeruginosa Ftsk Motor Domain, Hexamer
pdb|2IUU|B Chain B, P. Aeruginosa Ftsk Motor Domain, Hexamer
pdb|2IUU|C Chain C, P. Aeruginosa Ftsk Motor Domain, Hexamer
pdb|2IUU|D Chain D, P. Aeruginosa Ftsk Motor Domain, Hexamer
pdb|2IUU|E Chain E, P. Aeruginosa Ftsk Motor Domain, Hexamer
pdb|2IUU|F Chain F, P. Aeruginosa Ftsk Motor Domain, Hexamer
Length = 491
Score = 28.5 bits (62), Expect = 8.5, Method: Compositional matrix adjust.
Identities = 19/60 (31%), Positives = 32/60 (53%), Gaps = 6/60 (10%)
Query: 58 HVLVNAATGTGKTVAYLAPIINHLQSYSPRIDRSSGTFALVLVPTRELCLQVYEILHKLL 117
H+LV TG+GK+V A +++ L +P R L+++ + L L +YE + LL
Sbjct: 216 HLLVAGTTGSGKSVGVNAMLLSILFKSTPSEAR------LIMIDPKMLELSIYEGIPHLL 269
>pdb|2IUT|A Chain A, P. Aeruginosa Ftsk Motor Domain, Dimeric
pdb|2IUT|B Chain B, P. Aeruginosa Ftsk Motor Domain, Dimeric
Length = 574
Score = 28.1 bits (61), Expect = 9.1, Method: Compositional matrix adjust.
Identities = 19/60 (31%), Positives = 32/60 (53%), Gaps = 6/60 (10%)
Query: 58 HVLVNAATGTGKTVAYLAPIINHLQSYSPRIDRSSGTFALVLVPTRELCLQVYEILHKLL 117
H+LV TG+GK+V A +++ L +P R L+++ + L L +YE + LL
Sbjct: 216 HLLVAGTTGSGKSVGVNAMLLSILFKSTPSEAR------LIMIDPKMLELSIYEGIPHLL 269
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
0.322 0.137 0.401
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,706,184
Number of Sequences: 62578
Number of extensions: 522584
Number of successful extensions: 1696
Number of sequences better than 100.0: 89
Number of HSP's better than 100.0 without gapping: 73
Number of HSP's successfully gapped in prelim test: 16
Number of HSP's that attempted gapping in prelim test: 1463
Number of HSP's gapped (non-prelim): 124
length of query: 444
length of database: 14,973,337
effective HSP length: 102
effective length of query: 342
effective length of database: 8,590,381
effective search space: 2937910302
effective search space used: 2937910302
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 53 (25.0 bits)