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= 042003
(248 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2I4I|A Chain A, Crystal Structure Of Human Dead-Box Rna Helicase Ddx3x
Length = 417
Score = 120 bits (301), Expect = 8e-28, Method: Compositional matrix adjust.
Identities = 76/219 (34%), Positives = 114/219 (52%), Gaps = 3/219 (1%)
Query: 32 DLSKFSCDILISTPXXXXXXXXXXXXXXSRVEYLVLDEADKLFEVGNLLKHIDPVVKACS 91
DL + C +L++TP +YLVLDEAD++ ++G + V +
Sbjct: 147 DLER-GCHLLVATPGRLVDMMERGKIGLDFCKYLVLDEADRMLDMGFEPQIRRIVEQDTM 205
Query: 92 NPSIVRS--LFSATLPDFVEELARSIMHDAVRVIVGRKNTASESIKQKLVFAGSEEGKLL 149
P VR +FSAT P ++ LAR + + + + VGR + SE+I QK+V+ + +
Sbjct: 206 PPKGVRHTMMFSATFPKEIQMLARDFLDEYIFLAVGRVGSTSENITQKVVWVEESDKRSF 265
Query: 150 ALRQSFAESLNPPVLIFVQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAG 209
L A + L+FV++K+ A L L +G IH D SQ RE A+ FR+G
Sbjct: 266 LLDLLNATGKDSLTLVFVETKKGADSLEDFLYHEGYACTSIHGDRSQRDREEALHQFRSG 325
Query: 210 KTWVLIATDVIARGMDFKGVNCVINYDFPDSGAAYIHRI 248
K+ +L+AT V ARG+D V VIN+D P Y+HRI
Sbjct: 326 KSPILVATAVAARGLDISNVKHVINFDLPSDIEEYVHRI 364
>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 = 110 bits (274), Expect = 9e-25, Method: Compositional matrix adjust.
Identities = 71/217 (32%), Positives = 108/217 (49%), Gaps = 18/217 (8%)
Query: 37 SCDILISTPXXXXXXXXXXXXXXSRVEYLVLDEADKLFEVGNLLKHIDPVVKACSNPSIV 96
+ +I++ TP V+Y +LDEAD+ G +K ++ ++ AC+ +
Sbjct: 123 NANIVVGTPGRILDHINRGTLNLKNVKYFILDEADEXLNXG-FIKDVEKILNACNKDKRI 181
Query: 97 RSLFSATLPDFVEELARSIMHDAVRVIVGRKNTASESIKQKLVFAGSEEG-----KLLAL 151
LFSAT P + LA+ D + K + +I+Q V E +LL
Sbjct: 182 -LLFSATXPREILNLAKKYXGDYSFI----KAKINANIEQSYVEVNENERFEALCRLLKN 236
Query: 152 RQSFAESLNPPVLIFVQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGKT 211
++ + L+F ++K KEL L G +AG IH DLSQ+QRE + F+ K
Sbjct: 237 KEFYG-------LVFCKTKRDTKELASXLRDIGFKAGAIHGDLSQSQREKVIRLFKQKKI 289
Query: 212 WVLIATDVIARGMDFKGVNCVINYDFPDSGAAYIHRI 248
+LIATDV +RG+D +NCVINY P + +Y HRI
Sbjct: 290 RILIATDVXSRGIDVNDLNCVINYHLPQNPESYXHRI 326
>pdb|2J0U|B Chain B, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 106 bits (264), Expect = 1e-23, Method: Compositional matrix adjust.
Identities = 64/193 (33%), Positives = 98/193 (50%), Gaps = 14/193 (7%)
Query: 62 VEYLVLDEADKLFEVG------NLLKHIDPVVKACSNPSIVRSLFSATLPDFVEELARSI 115
++ LVLDEAD++ G ++ +++ P + L SATLP V E+
Sbjct: 144 IKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQVV--------LISATLPHEVLEMTNKF 195
Query: 116 MHDAVRVIVGRKNTASESIKQKLVFAGSEEGKLLALRQSFAESLNPPVLIFVQSKERAKE 175
M D +R++V R E IKQ V EE K L + +IF +K +
Sbjct: 196 MTDPIRILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDW 255
Query: 176 LYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARGMDFKGVNCVINY 235
L ++ +H D+ Q +RE+ + +FR+G + VLI+TDV ARG+D V+ +INY
Sbjct: 256 LTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWARGLDVPQVSLIINY 315
Query: 236 DFPDSGAAYIHRI 248
D P++ YIHRI
Sbjct: 316 DLPNNRELYIHRI 328
>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 = 106 bits (264), Expect = 1e-23, Method: Compositional matrix adjust.
Identities = 63/193 (32%), Positives = 98/193 (50%), Gaps = 14/193 (7%)
Query: 62 VEYLVLDEADKLFEVG------NLLKHIDPVVKACSNPSIVRSLFSATLPDFVEELARSI 115
++ LVLDEAD++ G ++ +++ P + L SATLP + E+
Sbjct: 181 IKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQVV--------LISATLPHEILEMTNKF 232
Query: 116 MHDAVRVIVGRKNTASESIKQKLVFAGSEEGKLLALRQSFAESLNPPVLIFVQSKERAKE 175
M D +R++V R E IKQ V EE K L + +IF +K +
Sbjct: 233 MTDPIRILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDW 292
Query: 176 LYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARGMDFKGVNCVINY 235
L ++ +H D+ Q +RE+ + +FR+G + VLI+TDV ARG+D V+ +INY
Sbjct: 293 LTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWARGLDVPQVSLIINY 352
Query: 236 DFPDSGAAYIHRI 248
D P++ YIHRI
Sbjct: 353 DLPNNRELYIHRI 365
>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 = 106 bits (264), Expect = 1e-23, Method: Compositional matrix adjust.
Identities = 63/193 (32%), Positives = 98/193 (50%), Gaps = 14/193 (7%)
Query: 62 VEYLVLDEADKLFEVG------NLLKHIDPVVKACSNPSIVRSLFSATLPDFVEELARSI 115
++ LVLDEAD++ G ++ +++ P + L SATLP + E+
Sbjct: 181 IKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQVV--------LISATLPHEILEMTNKF 232
Query: 116 MHDAVRVIVGRKNTASESIKQKLVFAGSEEGKLLALRQSFAESLNPPVLIFVQSKERAKE 175
M D +R++V R E IKQ V EE K L + +IF +K +
Sbjct: 233 MTDPIRILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDW 292
Query: 176 LYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARGMDFKGVNCVINY 235
L ++ +H D+ Q +RE+ + +FR+G + VLI+TDV ARG+D V+ +INY
Sbjct: 293 LTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWARGLDVPQVSLIINY 352
Query: 236 DFPDSGAAYIHRI 248
D P++ YIHRI
Sbjct: 353 DLPNNRELYIHRI 365
>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 = 106 bits (264), Expect = 1e-23, Method: Compositional matrix adjust.
Identities = 63/193 (32%), Positives = 98/193 (50%), Gaps = 14/193 (7%)
Query: 62 VEYLVLDEADKLFEVG------NLLKHIDPVVKACSNPSIVRSLFSATLPDFVEELARSI 115
++ LVLDEAD++ G ++ +++ P + L SATLP + E+
Sbjct: 180 IKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQVV--------LISATLPHEILEMTNKF 231
Query: 116 MHDAVRVIVGRKNTASESIKQKLVFAGSEEGKLLALRQSFAESLNPPVLIFVQSKERAKE 175
M D +R++V R E IKQ V EE K L + +IF +K +
Sbjct: 232 MTDPIRILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDW 291
Query: 176 LYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARGMDFKGVNCVINY 235
L ++ +H D+ Q +RE+ + +FR+G + VLI+TDV ARG+D V+ +INY
Sbjct: 292 LTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWARGLDVPQVSLIINY 351
Query: 236 DFPDSGAAYIHRI 248
D P++ YIHRI
Sbjct: 352 DLPNNRELYIHRI 364
>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 = 106 bits (264), Expect = 2e-23, Method: Compositional matrix adjust.
Identities = 63/193 (32%), Positives = 98/193 (50%), Gaps = 14/193 (7%)
Query: 62 VEYLVLDEADKLFEVG------NLLKHIDPVVKACSNPSIVRSLFSATLPDFVEELARSI 115
++ LVLDEAD++ G ++ +++ P + L SATLP + E+
Sbjct: 159 IKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQVV--------LISATLPHEILEMTNKF 210
Query: 116 MHDAVRVIVGRKNTASESIKQKLVFAGSEEGKLLALRQSFAESLNPPVLIFVQSKERAKE 175
M D +R++V R E IKQ V EE K L + +IF +K +
Sbjct: 211 MTDPIRILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDW 270
Query: 176 LYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARGMDFKGVNCVINY 235
L ++ +H D+ Q +RE+ + +FR+G + VLI+TDV ARG+D V+ +INY
Sbjct: 271 LTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWARGLDVPQVSLIINY 330
Query: 236 DFPDSGAAYIHRI 248
D P++ YIHRI
Sbjct: 331 DLPNNRELYIHRI 343
>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 = 105 bits (263), Expect = 2e-23, Method: Compositional matrix adjust.
Identities = 73/254 (28%), Positives = 121/254 (47%), Gaps = 9/254 (3%)
Query: 1 LATQTTRECKKLAKGNKFQIKLMKKELVRSTDLSKFSCDILISTPXXXXXXXXXXXXXXS 60
LA QT +++ K K +L+ + + + +++ TP
Sbjct: 87 LARQTLEVVQEMGKFTKITSQLIVPDSFEKN--KQINAQVIVGTPGTVLDLMRRKLMQLQ 144
Query: 61 RVEYLVLDEADKLFEVGNLLKHIDPVVKACSNPSIVRSLFSATLPDFVEELARSIMHDAV 120
+++ VLDEAD + + L V + + + LFSAT D V + A+ I+ +A
Sbjct: 145 KIKIFVLDEADNMLDQQGLGDQCIRVKRFLPKDTQL-VLFSATFADAVRQYAKKIVPNAN 203
Query: 121 RVIVGRKNTASESIKQKLVFAGSEEGKLLALRQSFAESLNPPVLIFVQSKERAKELYGEL 180
+ + ++IKQ + +E K L + + +IFV +K+ A LYG+L
Sbjct: 204 TLELQTNEVNVDAIKQLYMDCKNEADKFDVLTELYGVMTIGSSIIFVATKKTANVLYGKL 263
Query: 181 AFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARGMDFKGVNCVINYDFPD- 239
+G ++H DL +R+ +DDFR G++ VLI T+V+ARG+D V+ V+NYD P
Sbjct: 264 KSEGHEVSILHGDLQTQERDRLIDDFREGRSKVLITTNVLARGIDIPTVSMVVNYDLPTL 323
Query: 240 -----SGAAYIHRI 248
A YIHRI
Sbjct: 324 ANGQADPATYIHRI 337
>pdb|3PEY|A Chain A, S. Cerevisiae Dbp5 Bound To Rna And Adp Bef3
Length = 395
Score = 105 bits (263), Expect = 2e-23, Method: Compositional matrix adjust.
Identities = 73/254 (28%), Positives = 121/254 (47%), Gaps = 9/254 (3%)
Query: 1 LATQTTRECKKLAKGNKFQIKLMKKELVRSTDLSKFSCDILISTPXXXXXXXXXXXXXXS 60
LA QT +++ K K +L+ + + + +++ TP
Sbjct: 87 LARQTLEVVQEMGKFTKITSQLIVPDSFEKN--KQINAQVIVGTPGTVLDLMRRKLMQLQ 144
Query: 61 RVEYLVLDEADKLFEVGNLLKHIDPVVKACSNPSIVRSLFSATLPDFVEELARSIMHDAV 120
+++ VLDEAD + + L V + + + LFSAT D V + A+ I+ +A
Sbjct: 145 KIKIFVLDEADNMLDQQGLGDQCIRVKRFLPKDTQL-VLFSATFADAVRQYAKKIVPNAN 203
Query: 121 RVIVGRKNTASESIKQKLVFAGSEEGKLLALRQSFAESLNPPVLIFVQSKERAKELYGEL 180
+ + ++IKQ + +E K L + + +IFV +K+ A LYG+L
Sbjct: 204 TLELQTNEVNVDAIKQLYMDCKNEADKFDVLTELYGLMTIGSSIIFVATKKTANVLYGKL 263
Query: 181 AFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARGMDFKGVNCVINYDFPD- 239
+G ++H DL +R+ +DDFR G++ VLI T+V+ARG+D V+ V+NYD P
Sbjct: 264 KSEGHEVSILHGDLQTQERDRLIDDFREGRSKVLITTNVLARGIDIPTVSMVVNYDLPTL 323
Query: 240 -----SGAAYIHRI 248
A YIHRI
Sbjct: 324 ANGQADPATYIHRI 337
>pdb|2J0U|A Chain A, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 105 bits (263), Expect = 2e-23, Method: Compositional matrix adjust.
Identities = 63/193 (32%), Positives = 98/193 (50%), Gaps = 14/193 (7%)
Query: 62 VEYLVLDEADKLFEVG------NLLKHIDPVVKACSNPSIVRSLFSATLPDFVEELARSI 115
++ LVLDEAD++ G ++ +++ P + L SATLP + E+
Sbjct: 144 IKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQVV--------LISATLPHEILEMTNKF 195
Query: 116 MHDAVRVIVGRKNTASESIKQKLVFAGSEEGKLLALRQSFAESLNPPVLIFVQSKERAKE 175
M D +R++V R E IKQ V EE K L + +IF +K +
Sbjct: 196 MTDPIRILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDW 255
Query: 176 LYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARGMDFKGVNCVINY 235
L ++ +H D+ Q +RE+ + +FR+G + VLI+TDV ARG+D V+ +INY
Sbjct: 256 LTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWARGLDVPQVSLIINY 315
Query: 236 DFPDSGAAYIHRI 248
D P++ YIHRI
Sbjct: 316 DLPNNRELYIHRI 328
>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 = 105 bits (262), Expect = 2e-23, Method: Compositional matrix adjust.
Identities = 64/207 (30%), Positives = 103/207 (49%), Gaps = 2/207 (0%)
Query: 40 ILISTPXXXXXXXXXXXXXXSRVEYLVLDEADKLFEVGNLLKHIDPVVKACSNPSIVRSL 99
I++ TP +++ +LDEAD++ G K + P+ L
Sbjct: 142 IVVGTPGRVFDNIQRRRFRTDKIKMFILDEADEMLSSG--FKEQIYQIFTLLPPTTQVVL 199
Query: 100 FSATLPDFVEELARSIMHDAVRVIVGRKNTASESIKQKLVFAGSEEGKLLALRQSFAESL 159
SAT+P+ V E+ M + VR++V + E IKQ V EE K L +
Sbjct: 200 LSATMPNDVLEVTTKFMRNPVRILVKKDELTLEGIKQFYVNVEEEEYKYECLTDLYDSIS 259
Query: 160 NPPVLIFVQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDV 219
+IF ++ + +EL +L D I+SDL Q +R+ + +FR+G + +LI+TD+
Sbjct: 260 VTQAVIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTIMKEFRSGSSRILISTDL 319
Query: 220 IARGMDFKGVNCVINYDFPDSGAAYIH 246
+ARG+D + V+ VINYD P + YIH
Sbjct: 320 LARGIDVQQVSLVINYDLPANKENYIH 346
>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 = 104 bits (259), Expect = 5e-23, Method: Compositional matrix adjust.
Identities = 63/207 (30%), Positives = 103/207 (49%), Gaps = 2/207 (0%)
Query: 40 ILISTPXXXXXXXXXXXXXXSRVEYLVLDEADKLFEVGNLLKHIDPVVKACSNPSIVRSL 99
I++ TP ++ VLDEAD++ G + D K SN +V L
Sbjct: 136 IIVGTPGRVFDMLNRRYLSPKYIKMFVLDEADEMLSRGFKDQIYDIFQKLNSNTQVV--L 193
Query: 100 FSATLPDFVEELARSIMHDAVRVIVGRKNTASESIKQKLVFAGSEEGKLLALRQSFAESL 159
SAT+P V E+ + M D +R++V ++ E I+Q + EE KL L +
Sbjct: 194 LSATMPSDVLEVTKKFMRDPIRILVKKEELTLEGIRQFYINVEREEWKLDTLCDLYETLT 253
Query: 160 NPPVLIFVQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDV 219
+IF+ ++ + L ++ +H D+ Q +R+ + +FR+G + VLI TD+
Sbjct: 254 ITQAVIFINTRRKVDWLTEKMHARDFTVSAMHGDMDQKERDVIMREFRSGSSRVLITTDL 313
Query: 220 IARGMDFKGVNCVINYDFPDSGAAYIH 246
+ARG+D + V+ VINYD P + YIH
Sbjct: 314 LARGIDVQQVSLVINYDLPTNRENYIH 340
>pdb|3EIQ|A Chain A, Crystal Structure Of Pdcd4-eif4a
pdb|3EIQ|D Chain D, Crystal Structure Of Pdcd4-eif4a
Length = 414
Score = 103 bits (258), Expect = 7e-23, Method: Compositional matrix adjust.
Identities = 63/207 (30%), Positives = 103/207 (49%), Gaps = 2/207 (0%)
Query: 40 ILISTPXXXXXXXXXXXXXXSRVEYLVLDEADKLFEVGNLLKHIDPVVKACSNPSIVRSL 99
I++ TP ++ VLDEAD++ G + D K SN +V L
Sbjct: 162 IIVGTPGRVFDMLNRRYLSPKYIKMFVLDEADEMLSRGFKDQIYDIFQKLNSNTQVV--L 219
Query: 100 FSATLPDFVEELARSIMHDAVRVIVGRKNTASESIKQKLVFAGSEEGKLLALRQSFAESL 159
SAT+P V E+ + M D +R++V ++ E I+Q + EE KL L +
Sbjct: 220 LSATMPSDVLEVTKKFMRDPIRILVKKEELTLEGIRQFYINVEREEWKLDTLCDLYETLT 279
Query: 160 NPPVLIFVQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDV 219
+IF+ ++ + L ++ +H D+ Q +R+ + +FR+G + VLI TD+
Sbjct: 280 ITQAVIFINTRRKVDWLTEKMHARDFTVSAMHGDMDQKERDVIMREFRSGSSRVLITTDL 339
Query: 220 IARGMDFKGVNCVINYDFPDSGAAYIH 246
+ARG+D + V+ VINYD P + YIH
Sbjct: 340 LARGIDVQQVSLVINYDLPTNRENYIH 366
>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 = 99.0 bits (245), Expect = 2e-21, Method: Compositional matrix adjust.
Identities = 73/258 (28%), Positives = 118/258 (45%), Gaps = 20/258 (7%)
Query: 1 LATQTTRECKKLAKGNKFQIKLM--KKELVRSTDLSKFSCDILISTPXXXXXXXXXXXXX 58
LA Q E +K A + +I ++ + C ++I+TP
Sbjct: 141 LAIQIFNEARKFAFESYLKIGIVYGGTSFRHQNECITRGCHVVIATPGRLLDFVDRTFIT 200
Query: 59 XSRVEYLVLDEADKLFEVG------NLLKHIDPVVKACSNPSIVRSLFSATLPDFVEELA 112
++VLDEAD++ ++G ++ H+ P +FSAT P+ ++ +A
Sbjct: 201 FEDTRFVVLDEADRMLDMGFSEDMRRIMTHV------TMRPEHQTLMFSATFPEEIQRMA 254
Query: 113 RSIMHDAVRVIVGRKNTASESIKQKL--VFAGSEEGKLLALRQSFAESLNPPVLIFVQSK 170
+ + V V +G A +KQ + V ++ KL+ + A+ ++FV++K
Sbjct: 255 GEFLKNYVFVAIGIVGGACSDVKQTIYEVNKYAKRSKLIEILSEQADG----TIVFVETK 310
Query: 171 ERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARGMDFKGVN 230
A L L+ IH D Q+QRE A+ DF+ G VLIAT V +RG+D K +
Sbjct: 311 RGADFLASFLSEKEFPTTSIHGDRLQSQREQALRDFKNGSMKVLIATSVASRGLDIKNIK 370
Query: 231 CVINYDFPDSGAAYIHRI 248
VINYD P Y+HRI
Sbjct: 371 HVINYDMPSKIDDYVHRI 388
>pdb|1FUU|A Chain A, Yeast Initiation Factor 4a
pdb|1FUU|B Chain B, Yeast Initiation Factor 4a
Length = 394
Score = 98.6 bits (244), Expect = 3e-21, Method: Compositional matrix adjust.
Identities = 63/207 (30%), Positives = 99/207 (47%), Gaps = 2/207 (0%)
Query: 40 ILISTPXXXXXXXXXXXXXXSRVEYLVLDEADKLFEVGNLLKHIDPVVKACSNPSIVRSL 99
I++ TP +++ +LDEAD+ G K + P+ L
Sbjct: 141 IVVGTPGRVFDNIQRRRFRTDKIKXFILDEADEXLSSG--FKEQIYQIFTLLPPTTQVVL 198
Query: 100 FSATLPDFVEELARSIMHDAVRVIVGRKNTASESIKQKLVFAGSEEGKLLALRQSFAESL 159
SAT P+ V E+ + VR++V + E IKQ V EE K L +
Sbjct: 199 LSATXPNDVLEVTTKFXRNPVRILVKKDELTLEGIKQFYVNVEEEEYKYECLTDLYDSIS 258
Query: 160 NPPVLIFVQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDV 219
+IF ++ + +EL +L D I+SDL Q +R+ +FR+G + +LI+TD+
Sbjct: 259 VTQAVIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTIXKEFRSGSSRILISTDL 318
Query: 220 IARGMDFKGVNCVINYDFPDSGAAYIH 246
+ARG+D + V+ VINYD P + YIH
Sbjct: 319 LARGIDVQQVSLVINYDLPANKENYIH 345
>pdb|3FHO|A Chain A, Structure Of S. Pombe Dbp5
pdb|3FHO|B Chain B, Structure Of S. Pombe Dbp5
Length = 508
Score = 96.3 bits (238), Expect = 1e-20, Method: Compositional matrix adjust.
Identities = 71/227 (31%), Positives = 105/227 (46%), Gaps = 19/227 (8%)
Query: 34 SKFSCDILISTPXXXXXXXXXXXXXXSRVEYLVLDEADKLFEVGNL------LKHIDPVV 87
+K I+I TP ++ VLDEAD + + L +KH+ P
Sbjct: 232 AKIDAQIVIGTPGTVMDLMKRRQLDARDIKVFVLDEADNMLDQQGLGDQSMRIKHLLP-- 289
Query: 88 KACSNPSIVRSLFSATLPDFVEELARSIMHDAVRVIVGRKNTASESIKQKLVFAGSEEGK 147
N IV LFSAT + VE+ A +A + + + + E IKQ + SEE K
Sbjct: 290 ---RNTQIV--LFSATFSERVEKYAERFAPNANEIRLKTEELSVEGIKQLYMDCQSEEHK 344
Query: 148 LLALRQSFAESLNPPVLIFVQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFR 207
L + + +IF + K+ A+E+ + DG + +L QR+ +D FR
Sbjct: 345 YNVLVELYGLLTIGQSIIFCKKKDTAEEIARRMTADGHTVACLTGNLEGAQRDAIMDSFR 404
Query: 208 AGKTWVLIATDVIARGMDFKGVNCVINYDFPDSGAA------YIHRI 248
G + VL+ T+VIARG+D VN V+NYD P A Y+HRI
Sbjct: 405 VGTSKVLVTTNVIARGIDVSQVNLVVNYDMPLDQAGRPDPQTYLHRI 451
>pdb|2Z0M|A Chain A, Crystal Structure Of Hypothetical Atp-Dependent Rna
Helicase From Sulfolobus Tokodaii
Length = 337
Score = 89.7 bits (221), Expect = 1e-18, Method: Compositional matrix adjust.
Identities = 67/215 (31%), Positives = 110/215 (51%), Gaps = 18/215 (8%)
Query: 37 SCDILISTPXXXXXXXXXXXXXXSRVEYLVLDEADKLFEVGNLLKHIDPVVKACSNPSIV 96
+ DI+++TP S E +++DEAD +FE+G + I ++ SN I
Sbjct: 105 NADIVVATPGRLLDLWSKGVIDLSSFEIVIIDEADLMFEMG-FIDDIKIILAQTSNRKIT 163
Query: 97 RSLFSATLPDFVEELARSIM--HDAVRVIVGRKNTASESIKQKLVFAGSE-EGKLLALRQ 153
LFSAT+P+ + ++ + + ++ + +G N ++ K V + K+ ALR
Sbjct: 164 -GLFSATIPEEIRKVVKDFITNYEEIEACIGLAN-----VEHKFVHVKDDWRSKVQALR- 216
Query: 154 SFAESLNPPVLIFVQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWV 213
E+ + V++FV+++ R +L FD A + DL Q+ R +D FR G+ +
Sbjct: 217 ---ENKDKGVIVFVRTRNRVAKLV--RLFDN--AIELRGDLPQSVRNRNIDAFREGEYDM 269
Query: 214 LIATDVIARGMDFKGVNCVINYDFPDSGAAYIHRI 248
LI TDV +RG+D V VIN+D P YIHRI
Sbjct: 270 LITTDVASRGLDIPLVEKVINFDAPQDLRTYIHRI 304
>pdb|1S2M|A Chain A, Crystal Structure Of The Dead Box Protein Dhh1p
Length = 400
Score = 87.4 bits (215), Expect = 6e-18, Method: Compositional matrix adjust.
Identities = 61/212 (28%), Positives = 94/212 (44%), Gaps = 4/212 (1%)
Query: 37 SCDILISTPXXXXXXXXXXXXXXSRVEYLVLDEADKLFEVGNLLKHIDPVVKACSNPSIV 96
+ IL+ TP S ++DEADK+ K I + + P+
Sbjct: 139 TVHILVGTPGRVLDLASRKVADLSDCSLFIMDEADKMLSRD--FKTIIEQILSFLPPTHQ 196
Query: 97 RSLFSATLPDFVEELARSIMHDAVRVIVGRKNTASESIKQKLVFAGSEEGKLLALRQSFA 156
LFSAT P V+E +H + + + T + I Q F E KL L F+
Sbjct: 197 SLLFSATFPLTVKEFMVKHLHKPYEINLMEELTL-KGITQYYAFV-EERQKLHCLNTLFS 254
Query: 157 ESLNPPVLIFVQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIA 216
+ +IF S R + L ++ G H+ + Q +R +FR GK L+
Sbjct: 255 KLQINQAIIFCNSTNRVELLAKKITDLGYSCYYSHARMKQQERNKVFHEFRQGKVRTLVC 314
Query: 217 TDVIARGMDFKGVNCVINYDFPDSGAAYIHRI 248
+D++ RG+D + VN VIN+DFP + Y+HRI
Sbjct: 315 SDLLTRGIDIQAVNVVINFDFPKTAETYLHRI 346
>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 = 85.5 bits (210), Expect = 2e-17, Method: Compositional matrix adjust.
Identities = 42/105 (40%), Positives = 61/105 (58%), Gaps = 1/105 (0%)
Query: 144 EEGKLLALRQSFAESLNPPVLIFVQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAV 203
EE K++ L + ++ PPVLIF + K ++ L G+ A IH Q +R A+
Sbjct: 39 EEAKMVYLLECLQKT-PPPVLIFAEKKADVDAIHEYLLLKGVEAVAIHGGKDQEERTKAI 97
Query: 204 DDFRAGKTWVLIATDVIARGMDFKGVNCVINYDFPDSGAAYIHRI 248
+ FR GK VL+ATDV ++G+DF + VINYD P+ Y+HRI
Sbjct: 98 EAFREGKKDVLVATDVASKGLDFPAIQHVINYDMPEEIENYVHRI 142
>pdb|2KBF|A Chain A, Solution Structure Of Carboxyl-Terminal Domain Of Dbp5p
Length = 187
Score = 85.1 bits (209), Expect = 3e-17, Method: Compositional matrix adjust.
Identities = 46/123 (37%), Positives = 69/123 (56%), Gaps = 6/123 (4%)
Query: 132 ESIKQKLVFAGSEEGKLLALRQSFAESLNPPVLIFVQSKERAKELYGELAFDGIRAGVIH 191
++IKQ + +E K L + + +IFV +K+ A LYG+L +G ++H
Sbjct: 7 DAIKQLYMDCKNEADKFDVLTELYGLMTIGSSIIFVATKKTANVLYGKLKSEGHEVSILH 66
Query: 192 SDLSQTQRENAVDDFRAGKTWVLIATDVIARGMDFKGVNCVINYDFPD------SGAAYI 245
DL +R+ +DDFR G++ VLI T+V+ARG+D V+ V+NYD P A YI
Sbjct: 67 GDLQTQERDRLIDDFREGRSKVLITTNVLARGIDIPTVSMVVNYDLPTLANGQADPATYI 126
Query: 246 HRI 248
HRI
Sbjct: 127 HRI 129
>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 = 84.7 bits (208), Expect = 4e-17, Method: Compositional matrix adjust.
Identities = 74/262 (28%), Positives = 119/262 (45%), Gaps = 22/262 (8%)
Query: 1 LATQTTRECKKLAKGNKFQIKLMKKELVRSTDL---SKFSCDILISTPXXXXXXXXXXX- 56
LA QT + +++ K F +L VR L K S I+I TP
Sbjct: 107 LALQTGKVIEQMGK---FYPELKLAYAVRGNKLERGQKISEQIVIGTPGTVLDWCSKLKF 163
Query: 57 XXXSRVEYLVLDEADKLFEVGNLLKHIDPVVKA----CSNPSIVRSLFSATLPDFVEELA 112
+++ VLDEAD + H D ++ N ++ LFSAT D V + A
Sbjct: 164 IDPKKIKVFVLDEADVMIATQG---HQDQSIRIQRMLPRNCQML--LFSATFEDSVWKFA 218
Query: 113 RSIMHDAVRVIVGRKNTASESIKQKLVFAGSEEGKLLALRQSFAESLNPPVLIFVQSKER 172
+ ++ D + + R+ ++IKQ V S + K AL + +IF +++
Sbjct: 219 QKVVPDPNVIKLKREEETLDTIKQYYVLCSSRDEKFQALCNLYGAITIAQAMIFCHTRKT 278
Query: 173 AKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARGMDFKGVNCV 232
A L EL+ +G + ++ ++ QR ++ FR GK VL+ T+V ARG+D + V+ V
Sbjct: 279 ASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFREGKEKVLVTTNVCARGIDVEQVSVV 338
Query: 233 INYDFP------DSGAAYIHRI 248
IN+D P Y+HRI
Sbjct: 339 INFDLPVDKDGNPDNETYLHRI 360
>pdb|3G0H|A Chain A, Human Dead-box Rna Helicase Ddx19, In Complex With An
Atp-analogue And Rna
Length = 424
Score = 84.7 bits (208), Expect = 5e-17, Method: Compositional matrix adjust.
Identities = 74/262 (28%), Positives = 119/262 (45%), Gaps = 22/262 (8%)
Query: 1 LATQTTRECKKLAKGNKFQIKLMKKELVRSTDL---SKFSCDILISTPXXXXXXXXXXX- 56
LA QT + +++ K F +L VR L K S I+I TP
Sbjct: 123 LALQTGKVIEQMGK---FYPELKLAYAVRGNKLERGQKISEQIVIGTPGTVLDWCSKLKF 179
Query: 57 XXXSRVEYLVLDEADKLFEVGNLLKHIDPVVKA----CSNPSIVRSLFSATLPDFVEELA 112
+++ VLDEAD + H D ++ N ++ LFSAT D V + A
Sbjct: 180 IDPKKIKVFVLDEADVMIATQG---HQDQSIRIQRMLPRNCQML--LFSATFEDSVWKFA 234
Query: 113 RSIMHDAVRVIVGRKNTASESIKQKLVFAGSEEGKLLALRQSFAESLNPPVLIFVQSKER 172
+ ++ D + + R+ ++IKQ V S + K AL + +IF +++
Sbjct: 235 QKVVPDPNVIKLKREEETLDTIKQYYVLCSSRDEKFQALCNLYGAITIAQAMIFCHTRKT 294
Query: 173 AKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARGMDFKGVNCV 232
A L EL+ +G + ++ ++ QR ++ FR GK VL+ T+V ARG+D + V+ V
Sbjct: 295 ASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFREGKEKVLVTTNVCARGIDVEQVSVV 354
Query: 233 INYDFP------DSGAAYIHRI 248
IN+D P Y+HRI
Sbjct: 355 INFDLPVDKDGNPDNETYLHRI 376
>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 = 84.3 bits (207), Expect = 5e-17, Method: Compositional matrix adjust.
Identities = 74/262 (28%), Positives = 119/262 (45%), Gaps = 22/262 (8%)
Query: 1 LATQTTRECKKLAKGNKFQIKLMKKELVRSTDL---SKFSCDILISTPXXXXXXXXXXX- 56
LA QT + +++ K F +L VR L K S I+I TP
Sbjct: 144 LALQTGKVIEQMGK---FYPELKLAYAVRGNKLERGQKISEQIVIGTPGTVLDWCSKLKF 200
Query: 57 XXXSRVEYLVLDEADKLFEVGNLLKHIDPVVKA----CSNPSIVRSLFSATLPDFVEELA 112
+++ VLDEAD + H D ++ N ++ LFSAT D V + A
Sbjct: 201 IDPKKIKVFVLDEADVMIATQG---HQDQSIRIQRMLPRNCQML--LFSATFEDSVWKFA 255
Query: 113 RSIMHDAVRVIVGRKNTASESIKQKLVFAGSEEGKLLALRQSFAESLNPPVLIFVQSKER 172
+ ++ D + + R+ ++IKQ V S + K AL + +IF +++
Sbjct: 256 QKVVPDPNVIKLKREEETLDTIKQYYVLCSSRDEKFQALCNLYGAITIAQAMIFCHTRKT 315
Query: 173 AKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARGMDFKGVNCV 232
A L EL+ +G + ++ ++ QR ++ FR GK VL+ T+V ARG+D + V+ V
Sbjct: 316 ASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFREGKEKVLVTTNVCARGIDVEQVSVV 375
Query: 233 INYDFP------DSGAAYIHRI 248
IN+D P Y+HRI
Sbjct: 376 INFDLPVDKDGNPDNETYLHRI 397
>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 = 84.3 bits (207), Expect = 5e-17, Method: Compositional matrix adjust.
Identities = 74/262 (28%), Positives = 119/262 (45%), Gaps = 22/262 (8%)
Query: 1 LATQTTRECKKLAKGNKFQIKLMKKELVRSTDL---SKFSCDILISTPXXXXXXXXXXX- 56
LA QT + +++ K F +L VR L K S I+I TP
Sbjct: 174 LALQTGKVIEQMGK---FYPELKLAYAVRGNKLERGQKISEQIVIGTPGTVLDWCSKLKF 230
Query: 57 XXXSRVEYLVLDEADKLFEVGNLLKHIDPVVKA----CSNPSIVRSLFSATLPDFVEELA 112
+++ VLDEAD + H D ++ N ++ LFSAT D V + A
Sbjct: 231 IDPKKIKVFVLDEADVMIATQG---HQDQSIRIQRMLPRNCQML--LFSATFEDSVWKFA 285
Query: 113 RSIMHDAVRVIVGRKNTASESIKQKLVFAGSEEGKLLALRQSFAESLNPPVLIFVQSKER 172
+ ++ D + + R+ ++IKQ V S + K AL + +IF +++
Sbjct: 286 QKVVPDPNVIKLKREEETLDTIKQYYVLCSSRDEKFQALCNLYGAITIAQAMIFCHTRKT 345
Query: 173 AKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARGMDFKGVNCV 232
A L EL+ +G + ++ ++ QR ++ FR GK VL+ T+V ARG+D + V+ V
Sbjct: 346 ASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFREGKEKVLVTTNVCARGIDVEQVSVV 405
Query: 233 INYDFP------DSGAAYIHRI 248
IN+D P Y+HRI
Sbjct: 406 INFDLPVDKDGNPDNETYLHRI 427
>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 = 84.0 bits (206), Expect = 8e-17, Method: Compositional matrix adjust.
Identities = 47/130 (36%), Positives = 69/130 (53%), Gaps = 6/130 (4%)
Query: 125 GRKNTASESIKQKLVFAGSEEGKLLALRQSFAESLNPPVLIFVQSKERAKELYGELAFDG 184
G ++IKQ +E K L + + +IFV +K+ A LYG+L +G
Sbjct: 1 GANEVNVDAIKQLYXDCKNEADKFDVLTELYGVXTIGSSIIFVATKKTANVLYGKLKSEG 60
Query: 185 IRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARGMDFKGVNCVINYDFPD----- 239
++H DL +R+ +DDFR G++ VLI T+V+ARG+D V+ V+NYD P
Sbjct: 61 HEVSILHGDLQTQERDRLIDDFREGRSKVLITTNVLARGIDIPTVSXVVNYDLPTLANGQ 120
Query: 240 -SGAAYIHRI 248
A YIHRI
Sbjct: 121 ADPATYIHRI 130
>pdb|3GFP|A Chain A, Structure Of The C-Terminal Domain Of The Dead-Box Protein
Dbp5
Length = 189
Score = 84.0 bits (206), Expect = 8e-17, Method: Compositional matrix adjust.
Identities = 46/123 (37%), Positives = 68/123 (55%), Gaps = 6/123 (4%)
Query: 132 ESIKQKLVFAGSEEGKLLALRQSFAESLNPPVLIFVQSKERAKELYGELAFDGIRAGVIH 191
++IKQ +E K L + + +IFV +K+ A LYG+L +G ++H
Sbjct: 9 DAIKQLYXDCKNEADKFDVLTELYGLXTIGSSIIFVATKKTANVLYGKLKSEGHEVSILH 68
Query: 192 SDLSQTQRENAVDDFRAGKTWVLIATDVIARGMDFKGVNCVINYDFPD------SGAAYI 245
DL +R+ +DDFR G++ VLI T+V+ARG+D V+ V+NYD P A YI
Sbjct: 69 GDLQTQERDRLIDDFREGRSKVLITTNVLARGIDIPTVSXVVNYDLPTLANGQADPATYI 128
Query: 246 HRI 248
HRI
Sbjct: 129 HRI 131
>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 = 82.4 bits (202), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 46/122 (37%), Positives = 67/122 (54%)
Query: 127 KNTASESIKQKLVFAGSEEGKLLALRQSFAESLNPPVLIFVQSKERAKELYGELAFDGIR 186
+ + SE+I QK+V+ + + L A + L+FV++K+ A L L +G
Sbjct: 13 QGSTSENITQKVVWVEESDKRSFLLDLLNATGKDSLTLVFVETKKGADSLEDFLYHEGYA 72
Query: 187 AGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARGMDFKGVNCVINYDFPDSGAAYIH 246
IH D SQ RE A+ FR+GK+ +L+AT V ARG+D V VIN+D P Y+H
Sbjct: 73 CTSIHGDRSQRDREEALHQFRSGKSPILVATAVAARGLDISNVKHVINFDLPSDIEEYVH 132
Query: 247 RI 248
RI
Sbjct: 133 RI 134
>pdb|1XTK|A Chain A, Structure Of Decd To Dead Mutation Of Human Uap56
Length = 390
Score = 80.9 bits (198), Expect = 6e-16, Method: Compositional matrix adjust.
Identities = 58/219 (26%), Positives = 98/219 (44%), Gaps = 7/219 (3%)
Query: 33 LSKFSCDILISTPXXXXXXXXXXXXXXSRVEYLVLDEADKLFEVGNLLKHIDPVVKACSN 92
L K I++ TP +++ +LDEADK+ E ++ + + + + +
Sbjct: 123 LKKNCPHIVVGTPGRILALARNKSLNLKHIKHFILDEADKMLEQLDMRRDVQEIFRMTPH 182
Query: 93 PSIVRSLFSATLPDFVEELARSIMHDAVRVIVGRKNTAS-ESIKQKLVFAGSEEG--KLL 149
V +FSATL + + R M D + + V + + ++Q V E KL
Sbjct: 183 EKQV-MMFSATLSKEIRPVCRKFMQDPMEIFVDDETKLTLHGLQQYYVKLKDNEKNRKLF 241
Query: 150 ALRQSFAESLNPPVLIFVQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAG 209
L + V+IFV+S +R L L A IH + Q +R + F+
Sbjct: 242 DLLDVLEFN---QVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDF 298
Query: 210 KTWVLIATDVIARGMDFKGVNCVINYDFPDSGAAYIHRI 248
+ +L+AT++ RGMD + VN NYD P+ Y+HR+
Sbjct: 299 QRRILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRV 337
>pdb|1FUK|A Chain A, Crystal Structure Of The Carboxy Terminal Domain Of Yeast
Eif4a
Length = 165
Score = 79.7 bits (195), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 42/115 (36%), Positives = 64/115 (55%)
Query: 132 ESIKQKLVFAGSEEGKLLALRQSFAESLNPPVLIFVQSKERAKELYGELAFDGIRAGVIH 191
E IKQ V EE K L + +IF ++ + +EL +L D I+
Sbjct: 2 EGIKQFYVNVEEEEYKYECLTDLYDSISVTQAVIFCNTRRKVEELTTKLRNDKFTVSAIY 61
Query: 192 SDLSQTQRENAVDDFRAGKTWVLIATDVIARGMDFKGVNCVINYDFPDSGAAYIH 246
SDL Q +R+ + +FR+G + +LI+TD++ARG+D + V+ VINYD P + YIH
Sbjct: 62 SDLPQQERDTIMKEFRSGSSRILISTDLLARGIDVQQVSLVINYDLPANKENYIH 116
>pdb|1XTI|A Chain A, Structure Of Wildtype Human Uap56
Length = 391
Score = 79.3 bits (194), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 57/219 (26%), Positives = 97/219 (44%), Gaps = 7/219 (3%)
Query: 33 LSKFSCDILISTPXXXXXXXXXXXXXXSRVEYLVLDEADKLFEVGNLLKHIDPVVKACSN 92
L K I++ TP +++ +LDE DK+ E ++ + + + + +
Sbjct: 124 LKKNCPHIVVGTPGRILALARNKSLNLKHIKHFILDECDKMLEQLDMRRDVQEIFRMTPH 183
Query: 93 PSIVRSLFSATLPDFVEELARSIMHDAVRVIVGRKNTAS-ESIKQKLVFAGSEEG--KLL 149
V +FSATL + + R M D + + V + + ++Q V E KL
Sbjct: 184 EKQV-MMFSATLSKEIRPVCRKFMQDPMEIFVDDETKLTLHGLQQYYVKLKDNEKNRKLF 242
Query: 150 ALRQSFAESLNPPVLIFVQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAG 209
L + V+IFV+S +R L L A IH + Q +R + F+
Sbjct: 243 DLLDVLEFN---QVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDF 299
Query: 210 KTWVLIATDVIARGMDFKGVNCVINYDFPDSGAAYIHRI 248
+ +L+AT++ RGMD + VN NYD P+ Y+HR+
Sbjct: 300 QRRILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRV 338
>pdb|1XTJ|A Chain A, Structure Of Human Uap56 In Complex With Adp
Length = 386
Score = 79.3 bits (194), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 57/219 (26%), Positives = 97/219 (44%), Gaps = 7/219 (3%)
Query: 33 LSKFSCDILISTPXXXXXXXXXXXXXXSRVEYLVLDEADKLFEVGNLLKHIDPVVKACSN 92
L K I++ TP +++ +LDE DK+ E ++ + + + + +
Sbjct: 124 LKKNCPHIVVGTPGRILALARNKSLNLKHIKHFILDECDKMLEQLDMRRDVQEIFRMTPH 183
Query: 93 PSIVRSLFSATLPDFVEELARSIMHDAVRVIVGRKNTAS-ESIKQKLVFAGSEEG--KLL 149
V +FSATL + + R M D + + V + + ++Q V E KL
Sbjct: 184 EKQV-MMFSATLSKEIRPVCRKFMQDPMEIFVDDETKLTLHGLQQYYVKLKDNEKNRKLF 242
Query: 150 ALRQSFAESLNPPVLIFVQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAG 209
L + V+IFV+S +R L L A IH + Q +R + F+
Sbjct: 243 DLLDVLEFN---QVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDF 299
Query: 210 KTWVLIATDVIARGMDFKGVNCVINYDFPDSGAAYIHRI 248
+ +L+AT++ RGMD + VN NYD P+ Y+HR+
Sbjct: 300 QRRILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRV 338
>pdb|3SQX|A Chain A, Structure Of Mss116p (Nte And C-Tail Double Deletion)
Bound To Ssrna And Amp-Pnp
Length = 512
Score = 77.8 bits (190), Expect = 6e-15, Method: Compositional matrix adjust.
Identities = 84/273 (30%), Positives = 127/273 (46%), Gaps = 25/273 (9%)
Query: 1 LATQTTRECKKLAKGNKFQIKLMKKELVRSTD-------LSKFSCDILISTPXXXXXXXX 53
LA Q E KK+ N K LV TD ++K +I+I+TP
Sbjct: 107 LALQIEAEVKKIHDMNYGLKKYACVSLVGGTDFRAAMNKMNKLRPNIVIATPGRLIDVLE 166
Query: 54 XXXXXXSR-VEYLVLDEADKLFEVG--NLLKHIDPVVKACSNPS---IVRSLFSATLPDF 107
R V+Y VLDEAD+L E+G + L+ I ++ ++ S I LFSATL D
Sbjct: 167 KYSNKFFRFVDYKVLDEADRLLEIGFRDDLETISGILNEKNSKSADNIKTLLFSATLDDK 226
Query: 108 VEELARSIMHDA----VRVIVGRKNTASESIKQKLV----FAGSEEGKLLALRQSFAE-S 158
V++LA +IM+ + + + A E I Q +V FA S + +++ E
Sbjct: 227 VQKLANNIMNKKECLFLDTVDKNEPEAHERIDQSVVISEKFANSIFAAVEHIKKQIKERD 286
Query: 159 LNPPVLIFVQSKERAKELYGELAFDGIRAGVI---HSDLSQTQRENAVDDFRAGKTWVLI 215
N +IF + + L L + + I H ++Q +R + V F+ ++ +L+
Sbjct: 287 SNYKAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQNKRTSLVKRFKKDESGILV 346
Query: 216 ATDVIARGMDFKGVNCVINYDFPDSGAAYIHRI 248
TDV ARGMDF V+ V+ P A YIHRI
Sbjct: 347 CTDVGARGMDFPNVHEVLQIGVPSELANYIHRI 379
>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 = 77.8 bits (190), Expect = 6e-15, Method: Compositional matrix adjust.
Identities = 84/273 (30%), Positives = 127/273 (46%), Gaps = 25/273 (9%)
Query: 1 LATQTTRECKKLAKGNKFQIKLMKKELVRSTD-------LSKFSCDILISTPXXXXXXXX 53
LA Q E KK+ N K LV TD ++K +I+I+TP
Sbjct: 158 LALQIEAEVKKIHDMNYGLKKYACVSLVGGTDFRAAMNKMNKLRPNIVIATPGRLIDVLE 217
Query: 54 XXXXXXSR-VEYLVLDEADKLFEVG--NLLKHIDPVVKACSNPS---IVRSLFSATLPDF 107
R V+Y VLDEAD+L E+G + L+ I ++ ++ S I LFSATL D
Sbjct: 218 KYSNKFFRFVDYKVLDEADRLLEIGFRDDLETISGILNEKNSKSADNIKTLLFSATLDDK 277
Query: 108 VEELARSIMHDA----VRVIVGRKNTASESIKQKLV----FAGSEEGKLLALRQSFAE-S 158
V++LA +IM+ + + + A E I Q +V FA S + +++ E
Sbjct: 278 VQKLANNIMNKKECLFLDTVDKNEPEAHERIDQSVVISEKFANSIFAAVEHIKKQIKERD 337
Query: 159 LNPPVLIFVQSKERAKELYGELAFDGIRAGVI---HSDLSQTQRENAVDDFRAGKTWVLI 215
N +IF + + L L + + I H ++Q +R + V F+ ++ +L+
Sbjct: 338 SNYKAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQNKRTSLVKRFKKDESGILV 397
Query: 216 ATDVIARGMDFKGVNCVINYDFPDSGAAYIHRI 248
TDV ARGMDF V+ V+ P A YIHRI
Sbjct: 398 CTDVGARGMDFPNVHEVLQIGVPSELANYIHRI 430
>pdb|3SQW|A Chain A, Structure Of Mss116p (Nte Deletion) Bound To Ssrna And
Amp-Pnp
Length = 579
Score = 77.4 bits (189), Expect = 7e-15, Method: Compositional matrix adjust.
Identities = 84/273 (30%), Positives = 127/273 (46%), Gaps = 25/273 (9%)
Query: 1 LATQTTRECKKLAKGNKFQIKLMKKELVRSTD-------LSKFSCDILISTPXXXXXXXX 53
LA Q E KK+ N K LV TD ++K +I+I+TP
Sbjct: 107 LALQIEAEVKKIHDMNYGLKKYACVSLVGGTDFRAAMNKMNKLRPNIVIATPGRLIDVLE 166
Query: 54 XXXXXXSR-VEYLVLDEADKLFEVG--NLLKHIDPVVKACSNPS---IVRSLFSATLPDF 107
R V+Y VLDEAD+L E+G + L+ I ++ ++ S I LFSATL D
Sbjct: 167 KYSNKFFRFVDYKVLDEADRLLEIGFRDDLETISGILNEKNSKSADNIKTLLFSATLDDK 226
Query: 108 VEELARSIMHDA----VRVIVGRKNTASESIKQKLV----FAGSEEGKLLALRQSFAE-S 158
V++LA +IM+ + + + A E I Q +V FA S + +++ E
Sbjct: 227 VQKLANNIMNKKECLFLDTVDKNEPEAHERIDQSVVISEKFANSIFAAVEHIKKQIKERD 286
Query: 159 LNPPVLIFVQSKERAKELYGELAFDGIRAGVI---HSDLSQTQRENAVDDFRAGKTWVLI 215
N +IF + + L L + + I H ++Q +R + V F+ ++ +L+
Sbjct: 287 SNYKAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQNKRTSLVKRFKKDESGILV 346
Query: 216 ATDVIARGMDFKGVNCVINYDFPDSGAAYIHRI 248
TDV ARGMDF V+ V+ P A YIHRI
Sbjct: 347 CTDVGARGMDFPNVHEVLQIGVPSELANYIHRI 379
>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 = 70.9 bits (172), Expect = 6e-13, Method: Compositional matrix adjust.
Identities = 34/83 (40%), Positives = 49/83 (59%)
Query: 164 LIFVQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARG 223
++F ++K +E+ L G A +H DLSQ +RE + FR G+ VL+ATDV ARG
Sbjct: 35 MVFTRTKAETEEIAQGLLRLGHPAQALHGDLSQGERERVLGAFRQGEVRVLVATDVAARG 94
Query: 224 MDFKGVNCVINYDFPDSGAAYIH 246
+D V+ V++Y PD AY H
Sbjct: 95 LDIPQVDLVVHYRLPDRAEAYQH 117
>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 = 70.5 bits (171), Expect = 8e-13, Method: Compositional matrix adjust.
Identities = 33/83 (39%), Positives = 49/83 (59%)
Query: 164 LIFVQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARG 223
++F ++K +E+ L G A +H D+SQ +RE + FR G+ VL+ATDV ARG
Sbjct: 32 MVFTRTKAETEEIAQGLLRLGHPAQALHGDMSQGERERVMGAFRQGEVRVLVATDVAARG 91
Query: 224 MDFKGVNCVINYDFPDSGAAYIH 246
+D V+ V++Y PD AY H
Sbjct: 92 LDIPQVDLVVHYRMPDRAEAYQH 114
>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 = 69.3 bits (168), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 34/85 (40%), Positives = 49/85 (57%)
Query: 164 LIFVQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARG 223
++FV+ +ER EL L GI + ++ Q +R A+ G+ VL+ATDV ARG
Sbjct: 34 IVFVRKRERVHELANWLREAGINNCYLEGEMVQGKRNEAIKRLTEGRVNVLVATDVAARG 93
Query: 224 MDFKGVNCVINYDFPDSGAAYIHRI 248
+D V+ V N+D P SG Y+HRI
Sbjct: 94 IDIPDVSHVFNFDMPRSGDTYLHRI 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 = 68.9 bits (167), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 36/106 (33%), Positives = 53/106 (50%)
Query: 143 SEEGKLLALRQSFAESLNPPVLIFVQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENA 202
+E K+ L F+ +IF S +R + L +++ G IH+ + Q R
Sbjct: 27 TERQKVHCLNTLFSRLQINQSIIFCNSSQRVELLAKKISQLGYSCFYIHAKMRQEHRNRV 86
Query: 203 VDDFRAGKTWVLIATDVIARGMDFKGVNCVINYDFPDSGAAYIHRI 248
DFR G L+ TD+ RG+D + VN VIN+DFP Y+HRI
Sbjct: 87 FHDFRNGLCRNLVCTDLFTRGIDIQAVNVVINFDFPKLAETYLHRI 132
>pdb|2RB4|A Chain A, Crystal Structure Of The Helicase Domain Of Human Ddx25
Rna Helicase
pdb|2RB4|B Chain B, Crystal Structure Of The Helicase Domain Of Human Ddx25
Rna Helicase
Length = 175
Score = 68.2 bits (165), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 41/122 (33%), Positives = 61/122 (50%), Gaps = 6/122 (4%)
Query: 133 SIKQKLVFAGSEEGKLLALRQSFAESLNPPVLIFVQSKERAKELYGELAFDGIRAGVIHS 192
+I+Q V + K AL + +IF Q++ AK L E+ DG + ++
Sbjct: 7 NIRQYYVLCEHRKDKYQALCNIYGSITIGQAIIFCQTRRNAKWLTVEMIQDGHQVSLLSG 66
Query: 193 DLSQTQRENAVDDFRAGKTWVLIATDVIARGMDFKGVNCVINYDFPDSGA------AYIH 246
+L+ QR + + FR GK VLI T+V ARG+D K V V+N+D P Y+H
Sbjct: 67 ELTVEQRASIIQRFRDGKEKVLITTNVCARGIDVKQVTIVVNFDLPVKQGEEPDYETYLH 126
Query: 247 RI 248
RI
Sbjct: 127 RI 128
>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 = 68.2 bits (165), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 36/104 (34%), Positives = 55/104 (52%)
Query: 144 EEGKLLALRQSFAESLNPPVLIFVQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAV 203
EE K L+ +IF ++KE +L EL G IH + Q R + +
Sbjct: 19 EENKFSLLKDVLMTENPDSCIIFCRTKEHVNQLTDELDDLGYPCDKIHGGMIQEDRFDVM 78
Query: 204 DDFRAGKTWVLIATDVIARGMDFKGVNCVINYDFPDSGAAYIHR 247
++F+ G+ L+ATDV ARG+D + ++ VINYD P +Y+HR
Sbjct: 79 NEFKRGEYRYLVATDVAARGIDIENISLVINYDLPLEKESYVHR 122
>pdb|3DKP|A Chain A, Human Dead-Box Rna-Helicase Ddx52, Conserved Domain I In
Complex With Adp
Length = 245
Score = 60.1 bits (144), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 41/136 (30%), Positives = 70/136 (51%), Gaps = 7/136 (5%)
Query: 1 LATQTTRECKKLAKGNKFQIKLMKKELVRSTDLSKFSC---DILISTPXXXXXXXXXXXX 57
LA+Q RE K+++G F+I ++ K V + S DIL++TP
Sbjct: 110 LASQIHRELIKISEGTGFRIHMIHKAAVAAKKFGPKSSKKFDILVTTPNRLIYLLKQDPP 169
Query: 58 X--XSRVEYLVLDEADKLFEVG--NLLKHIDPVVKACSNPSIVRSLFSATLPDFVEELAR 113
+ VE+LV+DE+DKLFE G + + AC++ + R++FSAT VE+ +
Sbjct: 170 GIDLASVEWLVVDESDKLFEDGKTGFRDQLASIFLACTSHKVRRAMFSATFAYDVEQWCK 229
Query: 114 SIMHDAVRVIVGRKNT 129
+ + + V +G +N+
Sbjct: 230 LNLDNVISVSIGARNS 245
>pdb|1T5I|A Chain A, Crystal Structure Of The C-Terminal Domain Of Uap56
Length = 172
Score = 59.7 bits (143), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 30/86 (34%), Positives = 46/86 (53%)
Query: 163 VLIFVQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIAR 222
V+IFV+S +R L L A IH + Q +R + F+ + +L+AT++ R
Sbjct: 34 VVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRILVATNLFGR 93
Query: 223 GMDFKGVNCVINYDFPDSGAAYIHRI 248
GMD + VN NYD P+ Y+HR+
Sbjct: 94 GMDIERVNIAFNYDMPEDSDTYLHRV 119
>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 = 54.7 bits (130), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 30/107 (28%), Positives = 58/107 (54%), Gaps = 4/107 (3%)
Query: 35 KFSCDILISTPXXXXXXXXXXXXXXSRVEYLVLDEADKLFEVGNLLKHIDPVVKACSNPS 94
+ C +L++TP +Y+VLDEAD++ ++G I +++ + PS
Sbjct: 148 QMGCHLLVATPGRLVDFIEKNKISLEFCKYIVLDEADRMLDMG-FEPQIRKIIEESNMPS 206
Query: 95 IVRS---LFSATLPDFVEELARSIMHDAVRVIVGRKNTASESIKQKL 138
+ +FSAT P +++LA +++ + + VGR + S+SIKQ++
Sbjct: 207 GINRQTLMFSATFPKEIQKLAADFLYNYIFMTVGRVGSTSDSIKQEI 253
>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 = 53.5 bits (127), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 24/58 (41%), Positives = 35/58 (60%)
Query: 191 HSDLSQTQRENAVDDFRAGKTWVLIATDVIARGMDFKGVNCVINYDFPDSGAAYIHRI 248
H ++Q +R + V F+ ++ +L+ TDV ARGMDF V+ V+ P A YIHRI
Sbjct: 67 HGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRI 124
>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 = 53.5 bits (127), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 24/58 (41%), Positives = 35/58 (60%)
Query: 191 HSDLSQTQRENAVDDFRAGKTWVLIATDVIARGMDFKGVNCVINYDFPDSGAAYIHRI 248
H ++Q +R + V F+ ++ +L+ TDV ARGMDF V+ V+ P A YIHRI
Sbjct: 67 HGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRI 124
>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 = 53.5 bits (127), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 24/58 (41%), Positives = 35/58 (60%)
Query: 191 HSDLSQTQRENAVDDFRAGKTWVLIATDVIARGMDFKGVNCVINYDFPDSGAAYIHRI 248
H ++Q +R + V F+ ++ +L+ TDV ARGMDF V+ V+ P A YIHRI
Sbjct: 67 HGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRI 124
>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 = 47.8 bits (112), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 32/105 (30%), Positives = 51/105 (48%), Gaps = 8/105 (7%)
Query: 151 LRQSFAESLNPPVLIFVQSKERAKELYGELAFDGIRAGVI------HSDLSQTQRENAV- 203
+R+ N +++F +E AK++ EL DGI+A +D +QRE +
Sbjct: 352 IREQLQRKQNSKIIVFTNYRETAKKIVNELVKDGIKAKRFVGQASKENDRGLSQREQKLI 411
Query: 204 -DDFRAGKTWVLIATDVIARGMDFKGVNCVINYDFPDSGAAYIHR 247
D+F G+ VL+AT V G+D V+ V+ Y+ S I R
Sbjct: 412 LDEFARGEFNVLVATSVGEEGLDVPEVDLVVFYEPVPSAIRSIQR 456
>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 = 42.7 bits (99), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 29/88 (32%), Positives = 45/88 (51%), Gaps = 2/88 (2%)
Query: 37 SCDILISTPXXXXXXXXXXXXXXSRVEYLVLDEADKLFEVGNLLKHIDPVVKACSNPSIV 96
D +++TP SRVE VLDEAD++ +G + ++ ++ A + PS
Sbjct: 120 GADAVVATPGRALDYLRQGVLDLSRVEVAVLDEADEMLSMG-FEEEVEALLSA-TPPSRQ 177
Query: 97 RSLFSATLPDFVEELARSIMHDAVRVIV 124
LFSATLP + + LA M + V + V
Sbjct: 178 TLLFSATLPSWAKRLAERYMKNPVLINV 205
>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 = 42.7 bits (99), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 29/88 (32%), Positives = 45/88 (51%), Gaps = 2/88 (2%)
Query: 37 SCDILISTPXXXXXXXXXXXXXXSRVEYLVLDEADKLFEVGNLLKHIDPVVKACSNPSIV 96
D +++TP SRVE VLDEAD++ +G + ++ ++ A + PS
Sbjct: 120 GADAVVATPGRALDYLRQGVLDLSRVEVAVLDEADEMLSMG-FEEEVEALLSA-TPPSRQ 177
Query: 97 RSLFSATLPDFVEELARSIMHDAVRVIV 124
LFSATLP + + LA M + V + V
Sbjct: 178 TLLFSATLPSWAKRLAERYMKNPVLINV 205
>pdb|4A4D|A Chain A, Crystal Structure Of The N-Terminal Domain Of The Human
Dead-Box Rna Helicase Ddx5 (P68)
Length = 253
Score = 40.4 bits (93), Expect = 9e-04, Method: Compositional matrix adjust.
Identities = 26/90 (28%), Positives = 42/90 (46%), Gaps = 8/90 (8%)
Query: 39 DILISTPXXXXXXXXXXXXXXSRVEYLVLDEADKLFEVG---NLLKHIDPVVKACSNPSI 95
+I I+TP R YLVLDEAD++ ++G + K +D + P
Sbjct: 168 EICIATPGRLIDFLECGKTNLRRTTYLVLDEADRMLDMGFEPQIRKIVDQI-----RPDR 222
Query: 96 VRSLFSATLPDFVEELARSIMHDAVRVIVG 125
++SAT P V +LA + D + + +G
Sbjct: 223 QTLMWSATWPKEVRQLAEDFLKDYIHINIG 252
>pdb|3P4X|A Chain A, Helicase Domain Of Reverse Gyrase From Thermotoga Maritima
pdb|3P4X|B Chain B, Helicase Domain Of Reverse Gyrase From Thermotoga Maritima
Length = 413
Score = 40.4 bits (93), Expect = 9e-04, Method: Compositional matrix adjust.
Identities = 45/174 (25%), Positives = 71/174 (40%), Gaps = 30/174 (17%)
Query: 78 NLLKHIDPVVKACSNPSIVRSLFSATLPDFVEELARSIMHDAVRVIVGRKNTASESIKQK 137
NL I V A + P +R L + D + VGR + + +I
Sbjct: 189 NLKPGILVVSSATAKPRGIRPL---------------LFRDLLNFTVGRLVSVARNITHV 233
Query: 138 LVFAGSEEGKLLALRQSFAESLNPPVLIFVQSKERAKELYGELAFDGIRAGVIHSDLSQT 197
+ + S+E KL+ L + F + +LIF Q++E KELY L G S+
Sbjct: 234 RISSRSKE-KLVELLEIFRDG----ILIFAQTEEEGKELYEYLKRFKFNVGETWSEF--- 285
Query: 198 QRENAVDDFRAGKTWVLIATDV----IARGMDF-KGVNCVINYDFPDSGAAYIH 246
E +DF+ GK +LI + RG+D + + VI + P Y +
Sbjct: 286 --EKNFEDFKVGKINILIGVQAYYGKLTRGVDLPERIKYVIFWGTPSGPDVYTY 337
>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 = 40.4 bits (93), Expect = 9e-04, Method: Compositional matrix adjust.
Identities = 26/90 (28%), Positives = 42/90 (46%), Gaps = 8/90 (8%)
Query: 39 DILISTPXXXXXXXXXXXXXXSRVEYLVLDEADKLFEVG---NLLKHIDPVVKACSNPSI 95
+I I+TP R YLVLDEAD++ ++G + K +D + P
Sbjct: 154 EICIATPGRLIDFLECGKTNLRRTTYLVLDEADRMLDMGFEPQIRKIVDQI-----RPDR 208
Query: 96 VRSLFSATLPDFVEELARSIMHDAVRVIVG 125
++SAT P V +LA + D + + +G
Sbjct: 209 QTLMWSATWPKEVRQLAEDFLKDYIHINIG 238
>pdb|3P4Y|A Chain A, Helicase Domain Of Reverse Gyrase From Thermotoga Maritima
- P2 Form
Length = 415
Score = 40.4 bits (93), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 45/174 (25%), Positives = 71/174 (40%), Gaps = 30/174 (17%)
Query: 78 NLLKHIDPVVKACSNPSIVRSLFSATLPDFVEELARSIMHDAVRVIVGRKNTASESIKQK 137
NL I V A + P +R L + D + VGR + + +I
Sbjct: 191 NLKPGILVVSSATAKPRGIRPL---------------LFRDLLNFTVGRLVSVARNITHV 235
Query: 138 LVFAGSEEGKLLALRQSFAESLNPPVLIFVQSKERAKELYGELAFDGIRAGVIHSDLSQT 197
+ + S+E KL+ L + F + +LIF Q++E KELY L G S+
Sbjct: 236 RISSRSKE-KLVELLEIFRDG----ILIFAQTEEEGKELYEYLKRFKFNVGETWSEF--- 287
Query: 198 QRENAVDDFRAGKTWVLIATDV----IARGMDF-KGVNCVINYDFPDSGAAYIH 246
E +DF+ GK +LI + RG+D + + VI + P Y +
Sbjct: 288 --EKNFEDFKVGKINILIGVQAYYGKLTRGVDLPERIKYVIFWGTPSGPDVYTY 339
>pdb|3OIY|A Chain A, Helicase Domain Of Reverse Gyrase From Thermotoga Maritima
pdb|3OIY|B Chain B, Helicase Domain Of Reverse Gyrase From Thermotoga Maritima
Length = 414
Score = 40.4 bits (93), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 45/174 (25%), Positives = 71/174 (40%), Gaps = 30/174 (17%)
Query: 78 NLLKHIDPVVKACSNPSIVRSLFSATLPDFVEELARSIMHDAVRVIVGRKNTASESIKQK 137
NL I V A + P +R L + D + VGR + + +I
Sbjct: 190 NLKPGILVVSSATAKPRGIRPL---------------LFRDLLNFTVGRLVSVARNITHV 234
Query: 138 LVFAGSEEGKLLALRQSFAESLNPPVLIFVQSKERAKELYGELAFDGIRAGVIHSDLSQT 197
+ + S+E KL+ L + F + +LIF Q++E KELY L G S+
Sbjct: 235 RISSRSKE-KLVELLEIFRDG----ILIFAQTEEEGKELYEYLKRFKFNVGETWSEF--- 286
Query: 198 QRENAVDDFRAGKTWVLIATDV----IARGMDF-KGVNCVINYDFPDSGAAYIH 246
E +DF+ GK +LI + RG+D + + VI + P Y +
Sbjct: 287 --EKNFEDFKVGKINILIGVQAYYGKLTRGVDLPERIKYVIFWGTPSGPDVYTY 338
>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 = 40.0 bits (92), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 30/96 (31%), Positives = 45/96 (46%), Gaps = 9/96 (9%)
Query: 32 DLSKFSCDILISTPXXXXXXXXXXXXXXSRVEYLVLDEADKLFEVGNLLKHIDPVVKAC- 90
D+SK DI+I+TP + YLV+DEADK+ ++ +P ++
Sbjct: 139 DISK-GVDIIIATPGRLNDLQMNNSVNLRSITYLVIDEADKMLDM-----EFEPQIRKIL 192
Query: 91 --SNPSIVRSLFSATLPDFVEELARSIMHDAVRVIV 124
P + SAT PD V +LA S + D + V V
Sbjct: 193 LDVRPDRQTVMTSATWPDTVRQLALSYLKDPMIVYV 228
>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 = 39.7 bits (91), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 33/111 (29%), Positives = 50/111 (45%), Gaps = 19/111 (17%)
Query: 144 EEGKLLALRQSFAESLNPPV-----LIFVQSKERAKELYG------ELAFDGIRA----G 188
E KL LR + E +IF ++++ A L + A G++A G
Sbjct: 379 ENEKLTKLRNTIMEQYTRTEESARGIIFTKTRQSAYALSQWITENEKFAEVGVKAHHLIG 438
Query: 189 VIHSD----LSQTQRENAVDDFRAGKTWVLIATDVIARGMDFKGVNCVINY 235
HS ++Q +++ + FR GK +LIAT V G+D K N VI Y
Sbjct: 439 AGHSSEFKPMTQNEQKEVISKFRTGKINLLIATTVAEEGLDIKECNIVIRY 489
>pdb|1GM5|A Chain A, Structure Of Recg Bound To Three-Way Dna Junction
Length = 780
Score = 39.7 bits (91), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 22/79 (27%), Positives = 43/79 (54%), Gaps = 3/79 (3%)
Query: 173 AKELYGELA---FDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARGMDFKGV 229
A E+Y L+ F + G++H LSQ +++ + +F G+ +L++T VI G+D
Sbjct: 599 AVEMYEYLSKEVFPEFKLGLMHGRLSQEEKDRVMLEFAEGRYDILVSTTVIEVGIDVPRA 658
Query: 230 NCVINYDFPDSGAAYIHRI 248
N ++ + G A +H++
Sbjct: 659 NVMVIENPERFGLAQLHQL 677
>pdb|1D9Z|A Chain A, Crystal Structure Of The Dna Repair Protein Uvrb In
Complex With Atp
Length = 657
Score = 39.3 bits (90), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 23/82 (28%), Positives = 40/82 (48%)
Query: 160 NPPVLIFVQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDV 219
N L+ +K+ A++L L GI+ +HS++ +R + D R GK VL+ ++
Sbjct: 444 NERTLVTTLTKKMAEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGINL 503
Query: 220 IARGMDFKGVNCVINYDFPDSG 241
+ G+D V+ V D G
Sbjct: 504 LREGLDIPEVSLVAILDADKEG 525
>pdb|1D9X|A Chain A, Crystal Structure Of The Dna Repair Protein Uvrb
Length = 658
Score = 39.3 bits (90), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 23/82 (28%), Positives = 40/82 (48%)
Query: 160 NPPVLIFVQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDV 219
N L+ +K+ A++L L GI+ +HS++ +R + D R GK VL+ ++
Sbjct: 445 NERTLVTTLTKKMAEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGINL 504
Query: 220 IARGMDFKGVNCVINYDFPDSG 241
+ G+D V+ V D G
Sbjct: 505 LREGLDIPEVSLVAILDADKEG 526
>pdb|3UWX|B Chain B, Crystal Structure Of Uvra-Uvrb Complex
Length = 683
Score = 39.3 bits (90), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 23/82 (28%), Positives = 40/82 (48%)
Query: 160 NPPVLIFVQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDV 219
N L+ +K+ A++L L GI+ +HS++ +R + D R GK VL+ ++
Sbjct: 470 NERTLVTTLTKKMAEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGINL 529
Query: 220 IARGMDFKGVNCVINYDFPDSG 241
+ G+D V+ V D G
Sbjct: 530 LREGLDIPEVSLVAILDADKEG 551
>pdb|2FDC|A Chain A, Structural Basis Of Dna Damage Recognition And Processing
By Uvrb: Crystal Structure Of A UvrbDNA COMPLEX
pdb|2FDC|B Chain B, Structural Basis Of Dna Damage Recognition And Processing
By Uvrb: Crystal Structure Of A UvrbDNA COMPLEX
Length = 658
Score = 39.3 bits (90), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 23/82 (28%), Positives = 40/82 (48%)
Query: 160 NPPVLIFVQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDV 219
N L+ +K+ A++L L GI+ +HS++ +R + D R GK VL+ ++
Sbjct: 445 NERTLVTTLTKKMAEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGINL 504
Query: 220 IARGMDFKGVNCVINYDFPDSG 241
+ G+D V+ V D G
Sbjct: 505 LREGLDIPEVSLVAILDADKEG 526
>pdb|1T5L|A Chain A, Crystal Structure Of The Dna Repair Protein Uvrb Point
Mutant Y96a Revealing A Novel Fold For Domain 2
pdb|1T5L|B Chain B, Crystal Structure Of The Dna Repair Protein Uvrb Point
Mutant Y96a Revealing A Novel Fold For Domain 2
Length = 658
Score = 39.3 bits (90), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 23/82 (28%), Positives = 40/82 (48%)
Query: 160 NPPVLIFVQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDV 219
N L+ +K+ A++L L GI+ +HS++ +R + D R GK VL+ ++
Sbjct: 445 NERTLVTTLTKKMAEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGINL 504
Query: 220 IARGMDFKGVNCVINYDFPDSG 241
+ G+D V+ V D G
Sbjct: 505 LREGLDIPEVSLVAILDADKEG 526
>pdb|3V4R|A Chain A, Crystal Structure Of A Uvrb Dimer-Dna Complex
pdb|3V4R|B Chain B, Crystal Structure Of A Uvrb Dimer-Dna Complex
Length = 667
Score = 39.3 bits (90), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 23/82 (28%), Positives = 41/82 (50%)
Query: 160 NPPVLIFVQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDV 219
N VL+ +K+ +++L L GI+ +HS++ +R + D R GK VL+ ++
Sbjct: 451 NERVLVTTLTKKMSEDLTDYLKEIGIKVNYLHSEIKTLERIEIIRDLRLGKYDVLVGINL 510
Query: 220 IARGMDFKGVNCVINYDFPDSG 241
+ G+D V+ V D G
Sbjct: 511 LREGLDIPEVSLVAILDADKEG 532
>pdb|2D7D|A Chain A, Structural Insights Into The Cryptic Dna Dependent Atp-Ase
Activity Of Uvrb
pdb|2NMV|A Chain A, Damage Detection By The Uvrabc Pathway: Crystal Structure
Of Uvrb Bound To Fluorescein-Adducted Dna
Length = 661
Score = 39.3 bits (90), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 23/82 (28%), Positives = 41/82 (50%)
Query: 160 NPPVLIFVQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDV 219
N VL+ +K+ +++L L GI+ +HS++ +R + D R GK VL+ ++
Sbjct: 445 NERVLVTTLTKKMSEDLTDYLKEIGIKVNYLHSEIKTLERIEIIRDLRLGKYDVLVGINL 504
Query: 220 IARGMDFKGVNCVINYDFPDSG 241
+ G+D V+ V D G
Sbjct: 505 LREGLDIPEVSLVAILDADKEG 526
>pdb|4DDT|A Chain A, Thermotoga Maritima Reverse Gyrase, C2 Form 2
pdb|4DDU|A Chain A, Thermotoga Maritima Reverse Gyrase, C2 Form 1
pdb|4DDV|A Chain A, Thermotoga Maritima Reverse Gyrase, Triclinic Form
pdb|4DDV|B Chain B, Thermotoga Maritima Reverse Gyrase, Triclinic Form
pdb|4DDW|A Chain A, Thermotoga Maritima Reverse Gyrase, C-centered
Orthorhombic Form
pdb|4DDX|A Chain A, Thermotoga Maritima Reverse Gyrase, Primitive Monoclinic
Form
pdb|4DDX|B Chain B, Thermotoga Maritima Reverse Gyrase, Primitive Monoclinic
Form
Length = 1104
Score = 38.9 bits (89), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 36/129 (27%), Positives = 59/129 (45%), Gaps = 15/129 (11%)
Query: 115 IMHDAVRVIVGRKNTASESIKQKLVFAGSEEGKLLALRQSFAESLNPPVLIFVQSKERAK 174
+ D + VGR + + +I + + S+E KL+ L + F + +LIF Q++E K
Sbjct: 269 LFRDLLNFTVGRLVSVARNITHVRISSRSKE-KLVELLEIFRDG----ILIFAQTEEEGK 323
Query: 175 ELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDV----IARGMDF-KGV 229
ELY L G S+ E +DF+ GK +LI + RG+D + +
Sbjct: 324 ELYEYLKRFKFNVGETWSEF-----EKNFEDFKVGKINILIGVQAYYGKLTRGVDLPERI 378
Query: 230 NCVINYDFP 238
VI + P
Sbjct: 379 KYVIFWGTP 387
>pdb|4I1S|A Chain A, Melanoma Differentiation Associated Protein-5 Helicase
Domain Complex With Inhibitor Non-structural Protein V
Length = 243
Score = 37.7 bits (86), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 33/111 (29%), Positives = 48/111 (43%), Gaps = 19/111 (17%)
Query: 144 EEGKLLALRQSFAESLNPPV-----LIFVQSKERAKEL------YGELAFDGIRA----G 188
E KL LR + E +IF ++++ A L + A G++A G
Sbjct: 129 ENEKLTKLRNTIXEHFTRTEESARGIIFTKTRQSAYALSQWITDNKKFAEVGVKAHHLIG 188
Query: 189 VIHSD----LSQTQRENAVDDFRAGKTWVLIATDVIARGMDFKGVNCVINY 235
HS +Q ++ + FR GK +LIAT V G+D K N VI Y
Sbjct: 189 AGHSSEFKPXTQNEQREVISKFRTGKINLLIATTVAEEGLDIKECNIVIRY 239
>pdb|3BOR|A Chain A, Crystal Structure Of The Deadc Domain Of Human Translation
Initiation Factor 4a-2
Length = 237
Score = 36.6 bits (83), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 25/88 (28%), Positives = 41/88 (46%), Gaps = 2/88 (2%)
Query: 40 ILISTPXXXXXXXXXXXXXXSRVEYLVLDEADKLFEVGNLLKHIDPVVKACSNPSIVRSL 99
I++ TP ++ VLDEAD++ G I + + N SI L
Sbjct: 152 IVVGTPGRVFDMLNRRYLSPKWIKMFVLDEADEMLSRG-FKDQIYEIFQKL-NTSIQVVL 209
Query: 100 FSATLPDFVEELARSIMHDAVRVIVGRK 127
SAT+P V E+ + M D +R++V ++
Sbjct: 210 LSATMPTDVLEVTKKFMRDPIRILVKKE 237
>pdb|1D2M|A Chain A, Uvrb Protein Of Thermus Thermophilus Hb8; A Nucleotide
Excision Repair Enzyme
Length = 665
Score = 36.2 bits (82), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 21/70 (30%), Positives = 35/70 (50%)
Query: 163 VLIFVQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIAR 222
L+ V + A+EL L GIRA +H +L +R+ + D R G L+ +++
Sbjct: 443 TLVTVLTVRMAEELTSFLVEHGIRARYLHHELDAFKRQALIRDLRLGHYDCLVGINLLRE 502
Query: 223 GMDFKGVNCV 232
G+D V+ V
Sbjct: 503 GLDIPEVSLV 512
>pdb|1C4O|A Chain A, Crystal Structure Of The Dna Nucleotide Excision Repair
Enzyme Uvrb From Thermus Thermophilus
Length = 664
Score = 36.2 bits (82), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 21/70 (30%), Positives = 35/70 (50%)
Query: 163 VLIFVQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIAR 222
L+ V + A+EL L GIRA +H +L +R+ + D R G L+ +++
Sbjct: 442 TLVTVLTVRMAEELTSFLVEHGIRARYLHHELDAFKRQALIRDLRLGHYDCLVGINLLRE 501
Query: 223 GMDFKGVNCV 232
G+D V+ V
Sbjct: 502 GLDIPEVSLV 511
>pdb|1OYW|A Chain A, Structure Of The Recq Catalytic Core
Length = 523
Score = 36.2 bits (82), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 18/81 (22%), Positives = 38/81 (46%)
Query: 164 LIFVQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARG 223
+I+ S+ + ++ L GI A H+ L R + + F+ +++AT G
Sbjct: 240 IIYCNSRAKVEDTAARLQSKGISAAAYHAGLENNVRADVQEKFQRDDLQIVVATVAFGXG 299
Query: 224 MDFKGVNCVINYDFPDSGAAY 244
++ V V+++D P + +Y
Sbjct: 300 INKPNVRFVVHFDIPRNIESY 320
>pdb|1OYY|A Chain A, Structure Of The Recq Catalytic Core Bound To Atp-Gamma-S
Length = 523
Score = 36.2 bits (82), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 18/81 (22%), Positives = 38/81 (46%)
Query: 164 LIFVQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARG 223
+I+ S+ + ++ L GI A H+ L R + + F+ +++AT G
Sbjct: 240 IIYCNSRAKVEDTAARLQSKGISAAAYHAGLENNVRADVQEKFQRDDLQIVVATVAFGMG 299
Query: 224 MDFKGVNCVINYDFPDSGAAY 244
++ V V+++D P + +Y
Sbjct: 300 INKPNVRFVVHFDIPRNIESY 320
>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 = 35.4 bits (80), Expect = 0.027, Method: Compositional matrix adjust.
Identities = 25/85 (29%), Positives = 37/85 (43%), Gaps = 2/85 (2%)
Query: 40 ILISTPXXXXXXXXXXXXXXSRVEYLVLDEADKLFEVGNLLKHIDPVVKACSNPSIVRSL 99
I++ TP + VLDEAD++ G + D SN +V L
Sbjct: 137 IIVGTPGRVFDMLNRRYLSPXYIXMFVLDEADEMLSRGFXDQIYDIFQXLNSNTQVV--L 194
Query: 100 FSATLPDFVEELARSIMHDAVRVIV 124
SAT+P V E+ M D +R++V
Sbjct: 195 LSATMPSDVLEVTXXFMRDPIRILV 219
>pdb|2EYQ|A Chain A, Crystal Structure Of Escherichia Coli Transcription-Repair
Coupling Factor
pdb|2EYQ|B Chain B, Crystal Structure Of Escherichia Coli Transcription-Repair
Coupling Factor
Length = 1151
Score = 35.0 bits (79), Expect = 0.040, Method: Compositional matrix adjust.
Identities = 21/82 (25%), Positives = 40/82 (48%), Gaps = 1/82 (1%)
Query: 167 VQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARGMDF 226
V++ ++A E EL + R + H + + + E ++DF + VL+ T +I G+D
Sbjct: 822 VENIQKAAERLAELVPEA-RIAIGHGQMRERELERVMNDFHHQRFNVLVCTTIIETGIDI 880
Query: 227 KGVNCVINYDFPDSGAAYIHRI 248
N +I G A +H++
Sbjct: 881 PTANTIIIERADHFGLAQLHQL 902
>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 = 35.0 bits (79), Expect = 0.044, Method: Compositional matrix adjust.
Identities = 21/92 (22%), Positives = 40/92 (43%), Gaps = 1/92 (1%)
Query: 33 LSKFSCDILISTPXXXXXXXXXXXXXXSRVEYLVLDEADKLFEVGNLLKHIDPVVKACSN 92
L K I++ TP +++ +LDE DK+ E ++ + + + + +
Sbjct: 130 LKKNCPHIVVGTPGRILALARNKSLNLKHIKHFILDECDKMLEQLDMRRDVQEIFRMTPH 189
Query: 93 PSIVRSLFSATLPDFVEELARSIMHDAVRVIV 124
V +FSATL + + R M D + + V
Sbjct: 190 EKQV-MMFSATLSKEIRPVCRKFMQDPMEIFV 220
>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 = 33.5 bits (75), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 23/95 (24%), Positives = 40/95 (42%), Gaps = 2/95 (2%)
Query: 38 CDILISTPXXXXXXXXXXXXXXSRVEYLVLDEADKLFEVGNLLKHIDPVVKACSNPSIVR 97
I++ TP +++ +LDEAD++ G K + P+
Sbjct: 132 AQIVVGTPGRVFDNIQRRRFRTDKIKMFILDEADEMLSSG--FKEQIYQIFTLLPPTTQV 189
Query: 98 SLFSATLPDFVEELARSIMHDAVRVIVGRKNTASE 132
L SAT+P+ V E+ M + VR++V + E
Sbjct: 190 VLLSATMPNDVLEVTTKFMRNPVRILVKKDELTLE 224
>pdb|1QVA|A Chain A, Yeast Initiation Factor 4a N-Terminal Domain
Length = 223
Score = 33.1 bits (74), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 22/87 (25%), Positives = 38/87 (43%), Gaps = 2/87 (2%)
Query: 38 CDILISTPXXXXXXXXXXXXXXSRVEYLVLDEADKLFEVGNLLKHIDPVVKACSNPSIVR 97
I++ TP +++ +LDEAD++ G K + P+
Sbjct: 139 AQIVVGTPGRVFDNIQRRRFRTDKIKMFILDEADEMLSSG--FKEQIYQIFTLLPPTTQV 196
Query: 98 SLFSATLPDFVEELARSIMHDAVRVIV 124
L SAT+P+ V E+ M + VR++V
Sbjct: 197 VLLSATMPNDVLEVTTKFMRNPVRILV 223
>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 = 32.3 bits (72), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 24/86 (27%), Positives = 36/86 (41%), Gaps = 3/86 (3%)
Query: 38 CDILISTPXXXXXXXXXXXXXXSRVEYLVLDEADKLFEVGNLLKHIDPVVKACSNPSIVR 97
C I + +P + +LDEADKL E G+ + I+ + S P+ +
Sbjct: 143 CHIAVGSPGRIKQLIELDYLNPGSIRLFILDEADKLLEEGSFQEQINWIYS--SLPASKQ 200
Query: 98 SL-FSATLPDFVEELARSIMHDAVRV 122
L SAT P+F+ M D V
Sbjct: 201 MLAVSATYPEFLANALTKYMRDPTFV 226
>pdb|2V1X|A Chain A, Crystal Structure Of Human Recq-Like Dna Helicase
pdb|2V1X|B Chain B, Crystal Structure Of Human Recq-Like Dna Helicase
pdb|2WWY|A Chain A, Structure Of Human Recq-Like Helicase In Complex With A
Dna Substrate
pdb|2WWY|B Chain B, Structure Of Human Recq-Like Helicase In Complex With A
Dna Substrate
Length = 591
Score = 31.6 bits (70), Expect = 0.40, Method: Compositional matrix adjust.
Identities = 20/81 (24%), Positives = 38/81 (46%)
Query: 164 LIFVQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARG 223
+I+ S++ ++++ L GI AG H++L + + A + V++AT G
Sbjct: 271 IIYCFSQKDSEQVTVSLQNLGIHAGAYHANLEPEDKTTVHRKWSANEIQVVVATVAFGMG 330
Query: 224 MDFKGVNCVINYDFPDSGAAY 244
+D V VI++ S Y
Sbjct: 331 IDKPDVRFVIHHSMSKSMENY 351
>pdb|3BER|A Chain A, Human Dead-Box Rna-Helicase Ddx47, Conserved Domain I In
Complex With Amp
Length = 249
Score = 31.2 bits (69), Expect = 0.50, Method: Compositional matrix adjust.
Identities = 20/64 (31%), Positives = 39/64 (60%), Gaps = 4/64 (6%)
Query: 62 VEYLVLDEADKLFEVGNLLKHIDPVVKACSNPSIVRS-LFSATLPDFVEELARSIMHDAV 120
++YLV+DEAD++ + + +D ++K P ++ LFSAT+ V++L R+ + + V
Sbjct: 187 LKYLVMDEADRILNM-DFETEVDKILKVI--PRDRKTFLFSATMTKKVQKLQRAALKNPV 243
Query: 121 RVIV 124
+ V
Sbjct: 244 KCAV 247
>pdb|2FZL|A Chain A, Structure Of C-Terminal Domain Of Archaeoglobus Fulgidus
Xpb
Length = 219
Score = 31.2 bits (69), Expect = 0.59, Method: Compositional matrix adjust.
Identities = 14/54 (25%), Positives = 27/54 (50%)
Query: 195 SQTQRENAVDDFRAGKTWVLIATDVIARGMDFKGVNCVINYDFPDSGAAYIHRI 248
S+ +RE ++ FR G+ ++++ V+ G+D N + S YI R+
Sbjct: 144 SREEREEILEGFRTGRFRAIVSSQVLDEGIDVPDANVGVIMSGSGSAREYIQRL 197
>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 = 30.8 bits (68), Expect = 0.77, Method: Compositional matrix adjust.
Identities = 14/54 (25%), Positives = 27/54 (50%)
Query: 195 SQTQRENAVDDFRAGKTWVLIATDVIARGMDFKGVNCVINYDFPDSGAAYIHRI 248
S+ +RE ++ FR G+ ++++ V+ G+D N + S YI R+
Sbjct: 379 SREEREEILEGFRTGRFRAIVSSQVLDEGIDVPDANVGVIMSGSGSAREYIQRL 432
>pdb|3DMQ|A Chain A, Crystal Structure Of Rapa, A Swi2SNF2 PROTEIN THAT
Recycles Rna Polymerase During Transcription
pdb|3DMQ|B Chain B, Crystal Structure Of Rapa, A Swi2SNF2 PROTEIN THAT
Recycles Rna Polymerase During Transcription
Length = 968
Score = 30.8 bits (68), Expect = 0.78, Method: Compositional matrix adjust.
Identities = 17/58 (29%), Positives = 30/58 (51%), Gaps = 2/58 (3%)
Query: 183 DGIRAGVIHSDLSQTQRENAVDDFRAGKT--WVLIATDVIARGMDFKGVNCVINYDFP 238
+GIRA V H S +R+ A F T VL+ +++ + G +F+ + + +D P
Sbjct: 527 EGIRAAVFHEGXSIIERDRAAAWFAEEDTGAQVLLCSEIGSEGRNFQFASHXVXFDLP 584
>pdb|2PL3|A Chain A, Human Dead-Box Rna Helicase Ddx10, Dead Domain In Complex
With Adp
Length = 236
Score = 30.4 bits (67), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 38/136 (27%), Positives = 58/136 (42%), Gaps = 18/136 (13%)
Query: 1 LATQTTRECKKLAKGNKFQIKL------MKKELVRSTDLSKFSCDILISTPXXXXXXXXX 54
LA QT +K+ K + F L +K E R ++ +IL+ TP
Sbjct: 109 LAYQTFEVLRKVGKNHDFSAGLIIGGKDLKHEAERINNI-----NILVCTPGRLLQHMDE 163
Query: 55 XXX-XXSRVEYLVLDEADKLFEVGNLLKHIDPVVKACSNPSIVRS--LFSATLPDFVEEL 111
+ ++ LVLDEAD++ ++G D + N R LFSAT V++L
Sbjct: 164 TVSFHATDLQMLVLDEADRILDMG----FADTMNAVIENLPKKRQTLLFSATQTKSVKDL 219
Query: 112 ARSIMHDAVRVIVGRK 127
AR + + V V K
Sbjct: 220 ARLSLKNPEYVWVHEK 235
>pdb|2AWD|A Chain A, Crystal Structure Of Lacc From Enterococcus Faecalis
pdb|2AWD|B Chain B, Crystal Structure Of Lacc From Enterococcus Faecalis
pdb|2F02|A Chain A, Crystal Structure Of Lacc From Enterococcus Faecalis In
Complex With Atp
pdb|2F02|B Chain B, Crystal Structure Of Lacc From Enterococcus Faecalis In
Complex With Atp
Length = 323
Score = 29.3 bits (64), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 18/64 (28%), Positives = 34/64 (53%), Gaps = 3/64 (4%)
Query: 75 EVGNLLKHIDPVVKACSNPSIVRSLFSATLPDFVEELARSIMHDAVRVIVGRKNTASESI 134
E+ N L++ D ++K +I SL DF +EL + V+V++ +T+ +S+
Sbjct: 115 EISNFLENFDQLIKQAEIVTISGSLAKGLPSDFYQELVQKAHAQEVKVLL---DTSGDSL 171
Query: 135 KQKL 138
+Q L
Sbjct: 172 RQVL 175
>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 = 29.3 bits (64), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 31/121 (25%), Positives = 54/121 (44%), Gaps = 13/121 (10%)
Query: 1 LATQTTRECKKLAK---GNKFQIKL----MKKELVRSTDLSKFSCDILISTPXXXXXXXX 53
LA Q ++ C +++K G K ++ +++R D + ++I+TP
Sbjct: 83 LALQVSQICIQVSKHMGGAKVMATTGGTNLRDDIMRLDD----TVHVVIATPGRILDLIK 138
Query: 54 XXXXXXSRVEYLVLDEADKLFEVGNLLKHIDPVVKACSNPSIVRSLFSATLPDFVEELAR 113
V+ +VLDEADKL + D ++ N I+ L+SAT P V++
Sbjct: 139 KGVAKVDHVQMIVLDEADKLLSQDFVQIMEDIILTLPKNRQIL--LYSATFPLSVQKFMN 196
Query: 114 S 114
S
Sbjct: 197 S 197
>pdb|2KBE|A Chain A, Solution Structure Of Amino-Terminal Domain Of Dbp5p
Length = 226
Score = 28.5 bits (62), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 27/119 (22%), Positives = 50/119 (42%), Gaps = 3/119 (2%)
Query: 1 LATQTTRECKKLAKGNKFQIKLMKKELVRSTDLSKFSCDILISTPXXXXXXXXXXXXXXS 60
LA QT +++ K K +L+ + + + +++ TP
Sbjct: 104 LARQTLEVVQEMGKFTKITSQLIVPDSFEKN--KQINAQVIVGTPGTVLDLMRRKLMQLQ 161
Query: 61 RVEYLVLDEADKLFEVGNLLKHIDPVVKACSNPSIVRSLFSATLPDFVEELARSIMHDA 119
+++ VLDEAD + + L V + + + LFSAT D V + A+ I+ +A
Sbjct: 162 KIKIFVLDEADNMLDQQGLGDQCIRVKRFLPKDTQL-VLFSATFADAVRQYAKKIVPNA 219
>pdb|3LY5|A Chain A, Ddx18 Dead-Domain
pdb|3LY5|B Chain B, Ddx18 Dead-Domain
Length = 262
Score = 28.5 bits (62), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 33/117 (28%), Positives = 56/117 (47%), Gaps = 7/117 (5%)
Query: 1 LATQTTRECKKLAKGNKFQIKLMKKELVRSTDLSKFS--CDILISTPXXXXXXXXXXXXX 58
LA QT K+L + L+ RS + K +I+++TP
Sbjct: 138 LAMQTFGVLKELMTHHVHTYGLIMGGSNRSAEAQKLGNGINIIVATPGRLLDHMQNTPGF 197
Query: 59 XSR-VEYLVLDEADKLFEVGNLLKHIDPVVKACSNPSIVRS-LFSATLPDFVEELAR 113
+ ++ LV+DEAD++ +VG + + ++K P+ ++ LFSAT VE+LAR
Sbjct: 198 MYKNLQCLVIDEADRILDVG-FEEELKQIIKLL--PTRRQTMLFSATQTRKVEDLAR 251
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
0.320 0.135 0.380
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,247,576
Number of Sequences: 62578
Number of extensions: 220473
Number of successful extensions: 766
Number of sequences better than 100.0: 88
Number of HSP's better than 100.0 without gapping: 73
Number of HSP's successfully gapped in prelim test: 15
Number of HSP's that attempted gapping in prelim test: 643
Number of HSP's gapped (non-prelim): 97
length of query: 248
length of database: 14,973,337
effective HSP length: 96
effective length of query: 152
effective length of database: 8,965,849
effective search space: 1362809048
effective search space used: 1362809048
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 50 (23.9 bits)