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= psy9620
(453 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4A4D|A Chain A, Crystal Structure Of The N-Terminal Domain Of The Human
Dead-Box Rna Helicase Ddx5 (P68)
Length = 253
Score = 207 bits (526), Expect = 1e-53, Method: Compositional matrix adjust.
Identities = 95/159 (59%), Positives = 120/159 (75%), Gaps = 1/159 (0%)
Query: 72 PPFEKNFFHPSPSVLNRSPHEVQAFRDKHQMTLKG-NAPNPITEFAEANFPDYVLKEVKR 130
P FEKNF+ P + R+ EV+ +R ++T++G N P P+ F EANFP V+ + R
Sbjct: 1 PKFEKNFYQEHPDLARRTAQEVETYRRSKEITVRGHNCPKPVLNFYEANFPANVMDVIAR 60
Query: 131 QGFDRPTPIQAQGWPIAMSGSNMVGVAQTGSGKTLAYMLPAIVHINHQSQLKPGDGPIVL 190
Q F PT IQAQGWP+A+SG +MVGVAQTGSGKTL+Y+LPAIVHINHQ L+ GDGPI L
Sbjct: 61 QNFTEPTAIQAQGWPVALSGLDMVGVAQTGSGKTLSYLLPAIVHINHQPFLERGDGPICL 120
Query: 191 VLAPTRELAQQIQEVARDFGSSTYLRSTCVYGGASKGPQ 229
VLAPTRELAQQ+Q+VA ++ + L+STC+YGGA KGPQ
Sbjct: 121 VLAPTRELAQQVQQVAAEYCRACRLKSTCIYGGAPKGPQ 159
Score = 63.9 bits (154), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 26/35 (74%), Positives = 31/35 (88%)
Query: 229 QPDRQVLMWSATWPREVQKLAEDFLDSYIQINIGS 263
+PDRQ LMWSATWP+EV++LAEDFL YI INIG+
Sbjct: 219 RPDRQTLMWSATWPKEVRQLAEDFLKDYIHINIGA 253
>pdb|2I4I|A Chain A, Crystal Structure Of Human Dead-Box Rna Helicase Ddx3x
Length = 417
Score = 195 bits (496), Expect = 4e-50, Method: Compositional matrix adjust.
Identities = 130/398 (32%), Positives = 191/398 (47%), Gaps = 82/398 (20%)
Query: 107 NAPNPITEFAEANFPDYVLKEVKRQGFDRPTPIQAQGWPIAMSGSNMVGVAQTGSGKTLA 166
N P I F++ + ++ ++ + RPTP+Q PI +++ AQTGSGKT A
Sbjct: 9 NCPPHIESFSDVEMGEIIMGNIELTRYTRPTPVQKHAIPIIKEKRDLMACAQTGSGKTAA 68
Query: 167 YMLPAIVHINHQSQLKPGDG----------------PIVLVLAPTRELAQQIQEVARDFG 210
++LP + I PG+ PI LVLAPTRELA QI E AR F
Sbjct: 69 FLLPILSQIYSDG---PGEALRAMKENGRYGRRKQYPISLVLAPTRELAVQIYEEARKFS 125
Query: 211 SSTYLRSTCVYGGASKGPQ---PDRQVLMWSATWPREVQ-----KLAEDFLDSYIQINIG 262
+ +R VYGGA G Q +R + AT R V K+ DF Y+ ++
Sbjct: 126 YRSRVRPCVVYGGADIGQQIRDLERGCHLLVATPGRLVDMMERGKIGLDFC-KYLVLDEA 184
Query: 263 S--LTLSANHNIQQVVE------------------------VCAEHEKENKLFGLLNDIS 296
L + I+++VE + A + +F + +
Sbjct: 185 DRMLDMGFEPQIRRIVEQDTMPPKGVRHTMMFSATFPKEIQMLARDFLDEYIFLAVGRVG 244
Query: 297 SKDEN----------------------------KTIIFAETKRKVDKITKSIQNYGWAAV 328
S EN T++F ETK+ D + + + G+A
Sbjct: 245 STSENITQKVVWVEESDKRSFLLDLLNATGKDSLTLVFVETKKGADSLEDFLYHEGYACT 304
Query: 329 GIHGDKSQQERDYVLKEFRNGRAGILVATDVAARGLDVDDVKFVINFDYPNNSEDYIHRI 388
IHGD+SQ++R+ L +FR+G++ ILVAT VAARGLD+ +VK VINFD P++ E+Y+HRI
Sbjct: 305 SIHGDRSQRDREEALHQFRSGKSPILVATAVAARGLDISNVKHVINFDLPSDIEEYVHRI 364
Query: 389 GRTGRSDNTGTSYTFFTQQNSRQAKDLIDVLTESNHPV 426
GRTGR N G + +FF ++N KDL+D+L E+ V
Sbjct: 365 GRTGRVGNLGLATSFFNERNINITKDLLDLLVEAKQEV 402
>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 = 193 bits (491), Expect = 1e-49, Method: Compositional matrix adjust.
Identities = 121/383 (31%), Positives = 183/383 (47%), Gaps = 68/383 (17%)
Query: 107 NAPNPITEFAEANFPDYVLKEVKRQGFDRPTPIQAQGWPIAMSGSNMVGVAQTGSGKTLA 166
+ P PI F A+ D ++ V + G+ PTPIQ P+ SG +++ AQTGSGKT A
Sbjct: 50 DVPQPIQHFTSADLRDIIIDNVNKSGYKIPTPIQKCSIPVISSGRDLMACAQTGSGKTAA 109
Query: 167 YMLPAIVHINHQSQLKPGDGPIVLVLAPTRELAQQIQEVARDFGSSTYLRSTCVYGGAS- 225
++LP + + P V++++PTRELA QI AR F +YL+ VYGG S
Sbjct: 110 FLLPILSKLLEDPHELELGRPQVVIVSPTRELAIQIFNEARKFAFESYLKIGIVYGGTSF 169
Query: 226 ------------------------------------------------KGPQPDRQVLMW 237
G D + +M
Sbjct: 170 RHQNECITRGCHVVIATPGRLLDFVDRTFITFEDTRFVVLDEADRMLDMGFSEDMRRIMT 229
Query: 238 SATWPREVQKL-------------AEDFLDSYIQINIGSLTLSANHNIQQVVEVCAEHEK 284
T E Q L A +FL +Y+ + IG + A +++Q + ++ K
Sbjct: 230 HVTMRPEHQTLMFSATFPEEIQRMAGEFLKNYVFVAIG-IVGGACSDVKQTIYEVNKYAK 288
Query: 285 ENKLFGLLNDISSKDENKTIIFAETKRKVDKITKSIQNYGWAAVGIHGDKSQQERDYVLK 344
+KL +L S+ + TI+F ETKR D + + + IHGD+ Q +R+ L+
Sbjct: 289 RSKLIEIL----SEQADGTIVFVETKRGADFLASFLSEKEFPTTSIHGDRLQSQREQALR 344
Query: 345 EFRNGRAGILVATDVAARGLDVDDVKFVINFDYPNNSEDYIHRIGRTGRSDNTGTSYTFF 404
+F+NG +L+AT VA+RGLD+ ++K VIN+D P+ +DY+HRIGRTGR N G + +FF
Sbjct: 345 DFKNGSMKVLIATSVASRGLDIKNIKHVINYDMPSKIDDYVHRIGRTGRVGNNGRATSFF 404
Query: 405 TQQNSRQ-AKDLIDVLTESNHPV 426
+ R A DL+ +L S V
Sbjct: 405 DPEKDRAIAADLVKILEGSGQTV 427
>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 = 191 bits (486), Expect = 6e-49, Method: Compositional matrix adjust.
Identities = 88/143 (61%), Positives = 111/143 (77%), Gaps = 1/143 (0%)
Query: 88 RSPHEVQAFRDKHQMTLKG-NAPNPITEFAEANFPDYVLKEVKRQGFDRPTPIQAQGWPI 146
R+ EV+ +R ++T++G N P P+ F EANFP V+ + RQ F PT IQAQGWP+
Sbjct: 3 RTAQEVETYRRSKEITVRGHNCPKPVLNFYEANFPANVMDVIARQNFTEPTAIQAQGWPV 62
Query: 147 AMSGSNMVGVAQTGSGKTLAYMLPAIVHINHQSQLKPGDGPIVLVLAPTRELAQQIQEVA 206
A+SG +MVGVAQTGSGKTL+Y+LPAIVHINHQ L+ GDGPI LVLAPTRELAQQ+Q+VA
Sbjct: 63 ALSGLDMVGVAQTGSGKTLSYLLPAIVHINHQPFLERGDGPICLVLAPTRELAQQVQQVA 122
Query: 207 RDFGSSTYLRSTCVYGGASKGPQ 229
++ + L+STC+YGGA KGPQ
Sbjct: 123 AEYCRACRLKSTCIYGGAPKGPQ 145
Score = 67.0 bits (162), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 28/38 (73%), Positives = 33/38 (86%)
Query: 229 QPDRQVLMWSATWPREVQKLAEDFLDSYIQINIGSLTL 266
+PDRQ LMWSATWP+EV++LAEDFL YI INIG+L L
Sbjct: 205 RPDRQTLMWSATWPKEVRQLAEDFLKDYIHINIGALEL 242
>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 = 143 bits (360), Expect = 2e-34, Method: Compositional matrix adjust.
Identities = 72/160 (45%), Positives = 107/160 (66%), Gaps = 2/160 (1%)
Query: 267 SANHNIQQVVEVCAEHEKENKLFGLLNDISSKDENKTIIFAETKRKVDKITKSIQNYGWA 326
S + NI Q V E +K + L LLN ++ ++ T++F ETK+ D + + + G+A
Sbjct: 15 STSENITQKVVWVEESDKRSFLLDLLN--ATGKDSLTLVFVETKKGADSLEDFLYHEGYA 72
Query: 327 AVGIHGDKSQQERDYVLKEFRNGRAGILVATDVAARGLDVDDVKFVINFDYPNNSEDYIH 386
IHGD+SQ++R+ L +FR+G++ ILVAT VAARGLD+ +VK VINFD P++ E+Y+H
Sbjct: 73 CTSIHGDRSQRDREEALHQFRSGKSPILVATAVAARGLDISNVKHVINFDLPSDIEEYVH 132
Query: 387 RIGRTGRSDNTGTSYTFFTQQNSRQAKDLIDVLTESNHPV 426
RIGRTGR N G + +FF ++N KDL+D+L E+ V
Sbjct: 133 RIGRTGRVGNLGLATSFFNERNINITKDLLDLLVEAKQEV 172
>pdb|2J0U|B Chain B, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 130 bits (327), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 71/186 (38%), Positives = 107/186 (57%), Gaps = 3/186 (1%)
Query: 230 PDRQVLMWSATWPREVQKLAEDFLDSYIQINIGSLTLSANHNIQQVVEVCAEHEKENKLF 289
P QV++ SAT P EV ++ F+ I+I + L+ Q V V E K + L
Sbjct: 173 PATQVVLISATLPHEVLEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWKFDTLC 232
Query: 290 GLLNDISSKDENKTIIFAETKRKVDKITKSIQNYGWAAVGIHGDKSQQERDYVLKEFRNG 349
L + ++ + +IF TKRKVD +T+ ++ + +HGD Q+ER+ ++KEFR+G
Sbjct: 233 DLYDTLTI---TQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSG 289
Query: 350 RAGILVATDVAARGLDVDDVKFVINFDYPNNSEDYIHRIGRTGRSDNTGTSYTFFTQQNS 409
+ +L++TDV ARGLDV V +IN+D PNN E YIHRIGR+GR G + F +
Sbjct: 290 ASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAVNFVKNDDI 349
Query: 410 RQAKDL 415
R +D+
Sbjct: 350 RVLRDI 355
Score = 52.0 bits (123), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 30/113 (26%), Positives = 57/113 (50%), Gaps = 5/113 (4%)
Query: 115 FAEANFPDYVLKEVKRQGFDRPTPIQAQGWPIAMSGSNMVGVAQTGSGKTLAYMLPAIVH 174
F + +L+ + GF++P+ IQ + + G +++ +Q+G+GKT + + +
Sbjct: 3 FDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSVSVLQC 62
Query: 175 INHQSQLKPGDGPIVLVLAPTRELAQQIQEVARDFGSSTYLRSTCVYGGASKG 227
++ Q + L+LAPTRELA Q+Q+ G ++S GG + G
Sbjct: 63 LDIQVRETQA-----LILAPTRELAVQVQKGLLALGDYMNVQSHACIGGTNVG 110
>pdb|2J0U|A Chain A, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 130 bits (326), Expect = 2e-30, Method: Compositional matrix adjust.
Identities = 70/186 (37%), Positives = 107/186 (57%), Gaps = 3/186 (1%)
Query: 230 PDRQVLMWSATWPREVQKLAEDFLDSYIQINIGSLTLSANHNIQQVVEVCAEHEKENKLF 289
P QV++ SAT P E+ ++ F+ I+I + L+ Q V V E K + L
Sbjct: 173 PATQVVLISATLPHEILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWKFDTLC 232
Query: 290 GLLNDISSKDENKTIIFAETKRKVDKITKSIQNYGWAAVGIHGDKSQQERDYVLKEFRNG 349
L + ++ + +IF TKRKVD +T+ ++ + +HGD Q+ER+ ++KEFR+G
Sbjct: 233 DLYDTLTI---TQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSG 289
Query: 350 RAGILVATDVAARGLDVDDVKFVINFDYPNNSEDYIHRIGRTGRSDNTGTSYTFFTQQNS 409
+ +L++TDV ARGLDV V +IN+D PNN E YIHRIGR+GR G + F +
Sbjct: 290 ASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAVNFVKNDDI 349
Query: 410 RQAKDL 415
R +D+
Sbjct: 350 RVLRDI 355
Score = 50.8 bits (120), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 29/113 (25%), Positives = 56/113 (49%), Gaps = 5/113 (4%)
Query: 115 FAEANFPDYVLKEVKRQGFDRPTPIQAQGWPIAMSGSNMVGVAQTGSGKTLAYMLPAIVH 174
F + +L+ + GF++P+ IQ + + G +++ +Q+G+GKT + + +
Sbjct: 3 FDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSVSVLQC 62
Query: 175 INHQSQLKPGDGPIVLVLAPTRELAQQIQEVARDFGSSTYLRSTCVYGGASKG 227
++ Q + L+LAPTRELA Q+Q+ G ++ GG + G
Sbjct: 63 LDIQVRETQA-----LILAPTRELAVQVQKGLLALGDYMNVQCHACIGGTNVG 110
>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 = 129 bits (325), Expect = 2e-30, Method: Compositional matrix adjust.
Identities = 70/186 (37%), Positives = 107/186 (57%), Gaps = 3/186 (1%)
Query: 230 PDRQVLMWSATWPREVQKLAEDFLDSYIQINIGSLTLSANHNIQQVVEVCAEHEKENKLF 289
P QV++ SAT P E+ ++ F+ I+I + L+ Q V V E K + L
Sbjct: 209 PATQVVLISATLPHEILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWKFDTLC 268
Query: 290 GLLNDISSKDENKTIIFAETKRKVDKITKSIQNYGWAAVGIHGDKSQQERDYVLKEFRNG 349
L + ++ + +IF TKRKVD +T+ ++ + +HGD Q+ER+ ++KEFR+G
Sbjct: 269 DLYDTLTI---TQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSG 325
Query: 350 RAGILVATDVAARGLDVDDVKFVINFDYPNNSEDYIHRIGRTGRSDNTGTSYTFFTQQNS 409
+ +L++TDV ARGLDV V +IN+D PNN E YIHRIGR+GR G + F +
Sbjct: 326 ASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAINFVKNDDI 385
Query: 410 RQAKDL 415
R +D+
Sbjct: 386 RILRDI 391
Score = 52.0 bits (123), Expect = 8e-07, Method: Compositional matrix adjust.
Identities = 30/113 (26%), Positives = 56/113 (49%), Gaps = 5/113 (4%)
Query: 115 FAEANFPDYVLKEVKRQGFDRPTPIQAQGWPIAMSGSNMVGVAQTGSGKTLAYMLPAIVH 174
F + +L+ + GF++P+ IQ + + G +++ +Q+G+GKT + + +
Sbjct: 39 FDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQC 98
Query: 175 INHQSQLKPGDGPIVLVLAPTRELAQQIQEVARDFGSSTYLRSTCVYGGASKG 227
++ Q + L+LAPTRELA QIQ+ G ++ GG + G
Sbjct: 99 LDIQVRETQA-----LILAPTRELAVQIQKGLLALGDYMNVQCHACIGGTNVG 146
>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 = 129 bits (325), Expect = 3e-30, Method: Compositional matrix adjust.
Identities = 70/186 (37%), Positives = 107/186 (57%), Gaps = 3/186 (1%)
Query: 230 PDRQVLMWSATWPREVQKLAEDFLDSYIQINIGSLTLSANHNIQQVVEVCAEHEKENKLF 289
P QV++ SAT P E+ ++ F+ I+I + L+ Q V V E K + L
Sbjct: 210 PATQVVLISATLPHEILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWKFDTLC 269
Query: 290 GLLNDISSKDENKTIIFAETKRKVDKITKSIQNYGWAAVGIHGDKSQQERDYVLKEFRNG 349
L + ++ + +IF TKRKVD +T+ ++ + +HGD Q+ER+ ++KEFR+G
Sbjct: 270 DLYDTLTI---TQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSG 326
Query: 350 RAGILVATDVAARGLDVDDVKFVINFDYPNNSEDYIHRIGRTGRSDNTGTSYTFFTQQNS 409
+ +L++TDV ARGLDV V +IN+D PNN E YIHRIGR+GR G + F +
Sbjct: 327 ASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAINFVKNDDI 386
Query: 410 RQAKDL 415
R +D+
Sbjct: 387 RILRDI 392
Score = 52.0 bits (123), Expect = 8e-07, Method: Compositional matrix adjust.
Identities = 30/113 (26%), Positives = 56/113 (49%), Gaps = 5/113 (4%)
Query: 115 FAEANFPDYVLKEVKRQGFDRPTPIQAQGWPIAMSGSNMVGVAQTGSGKTLAYMLPAIVH 174
F + +L+ + GF++P+ IQ + + G +++ +Q+G+GKT + + +
Sbjct: 40 FDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQC 99
Query: 175 INHQSQLKPGDGPIVLVLAPTRELAQQIQEVARDFGSSTYLRSTCVYGGASKG 227
++ Q + L+LAPTRELA QIQ+ G ++ GG + G
Sbjct: 100 LDIQVRETQA-----LILAPTRELAVQIQKGLLALGDYMNVQCHACIGGTNVG 147
>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 = 129 bits (325), Expect = 3e-30, Method: Compositional matrix adjust.
Identities = 70/186 (37%), Positives = 107/186 (57%), Gaps = 3/186 (1%)
Query: 230 PDRQVLMWSATWPREVQKLAEDFLDSYIQINIGSLTLSANHNIQQVVEVCAEHEKENKLF 289
P QV++ SAT P E+ ++ F+ I+I + L+ Q V V E K + L
Sbjct: 188 PATQVVLISATLPHEILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWKFDTLC 247
Query: 290 GLLNDISSKDENKTIIFAETKRKVDKITKSIQNYGWAAVGIHGDKSQQERDYVLKEFRNG 349
L + ++ + +IF TKRKVD +T+ ++ + +HGD Q+ER+ ++KEFR+G
Sbjct: 248 DLYDTLTI---TQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSG 304
Query: 350 RAGILVATDVAARGLDVDDVKFVINFDYPNNSEDYIHRIGRTGRSDNTGTSYTFFTQQNS 409
+ +L++TDV ARGLDV V +IN+D PNN E YIHRIGR+GR G + F +
Sbjct: 305 ASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAINFVKNDDI 364
Query: 410 RQAKDL 415
R +D+
Sbjct: 365 RILRDI 370
Score = 52.0 bits (123), Expect = 8e-07, Method: Compositional matrix adjust.
Identities = 30/113 (26%), Positives = 56/113 (49%), Gaps = 5/113 (4%)
Query: 115 FAEANFPDYVLKEVKRQGFDRPTPIQAQGWPIAMSGSNMVGVAQTGSGKTLAYMLPAIVH 174
F + +L+ + GF++P+ IQ + + G +++ +Q+G+GKT + + +
Sbjct: 18 FDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQC 77
Query: 175 INHQSQLKPGDGPIVLVLAPTRELAQQIQEVARDFGSSTYLRSTCVYGGASKG 227
++ Q + L+LAPTRELA QIQ+ G ++ GG + G
Sbjct: 78 LDIQVRETQA-----LILAPTRELAVQIQKGLLALGDYMNVQCHACIGGTNVG 125
>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 = 129 bits (325), Expect = 3e-30, Method: Compositional matrix adjust.
Identities = 70/186 (37%), Positives = 107/186 (57%), Gaps = 3/186 (1%)
Query: 230 PDRQVLMWSATWPREVQKLAEDFLDSYIQINIGSLTLSANHNIQQVVEVCAEHEKENKLF 289
P QV++ SAT P E+ ++ F+ I+I + L+ Q V V E K + L
Sbjct: 210 PATQVVLISATLPHEILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWKFDTLC 269
Query: 290 GLLNDISSKDENKTIIFAETKRKVDKITKSIQNYGWAAVGIHGDKSQQERDYVLKEFRNG 349
L + ++ + +IF TKRKVD +T+ ++ + +HGD Q+ER+ ++KEFR+G
Sbjct: 270 DLYDTLTI---TQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSG 326
Query: 350 RAGILVATDVAARGLDVDDVKFVINFDYPNNSEDYIHRIGRTGRSDNTGTSYTFFTQQNS 409
+ +L++TDV ARGLDV V +IN+D PNN E YIHRIGR+GR G + F +
Sbjct: 327 ASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAINFVKNDDI 386
Query: 410 RQAKDL 415
R +D+
Sbjct: 387 RILRDI 392
Score = 51.6 bits (122), Expect = 8e-07, Method: Compositional matrix adjust.
Identities = 30/113 (26%), Positives = 56/113 (49%), Gaps = 5/113 (4%)
Query: 115 FAEANFPDYVLKEVKRQGFDRPTPIQAQGWPIAMSGSNMVGVAQTGSGKTLAYMLPAIVH 174
F + +L+ + GF++P+ IQ + + G +++ +Q+G+GKT + + +
Sbjct: 40 FDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQC 99
Query: 175 INHQSQLKPGDGPIVLVLAPTRELAQQIQEVARDFGSSTYLRSTCVYGGASKG 227
++ Q + L+LAPTRELA QIQ+ G ++ GG + G
Sbjct: 100 LDIQVRETQA-----LILAPTRELAVQIQKGLLALGDYMNVQCHACIGGTNVG 147
>pdb|2Z0M|A Chain A, Crystal Structure Of Hypothetical Atp-Dependent Rna
Helicase From Sulfolobus Tokodaii
Length = 337
Score = 128 bits (321), Expect = 7e-30, Method: Compositional matrix adjust.
Identities = 102/347 (29%), Positives = 148/347 (42%), Gaps = 99/347 (28%)
Query: 128 VKRQGFDRPTPIQAQGWPIAMSGSNMVGVAQTGSGKTLAYMLPAIVHINHQSQLKPGDGP 187
++ GF T +Q++ P+ + G N+V A+TGSGKT AY +P I+ + +S
Sbjct: 9 IREMGFKNFTEVQSKTIPLMLQGKNVVVRAKTGSGKTAAYAIP-ILELGMKS-------- 59
Query: 188 IVLVLAPTRELAQQIQEVARDFGSSTYLRSTCVYGGASKGPQ-------------PDRQV 234
LV+ PTREL +Q+ RD G + VYGG Q P R +
Sbjct: 60 --LVVTPTRELTRQVASHIRDIGRYMDTKVAEVYGGMPYKAQINRVRNADIVVATPGRLL 117
Query: 235 LMWS----------------------------------------------ATWPREVQKL 248
+WS AT P E++K+
Sbjct: 118 DLWSKGVIDLSSFEIVIIDEADLMFEMGFIDDIKIILAQTSNRKITGLFSATIPEEIRKV 177
Query: 249 AEDFLDSYIQINIGSLTLSANHNIQQVVEVC-AEHEKENKLFGLLNDISSK----DENK- 302
+DF+ +Y +I E C E+K + +D SK ENK
Sbjct: 178 VKDFITNYEEI-----------------EACIGLANVEHKFVHVKDDWRSKVQALRENKD 220
Query: 303 --TIIFAETKRKVDKITKSIQNYGWAAVGIHGDKSQQERDYVLKEFRNGRAGILVATDVA 360
I+F T+ +V K+ + N A+ + GD Q R+ + FR G +L+ TDVA
Sbjct: 221 KGVIVFVRTRNRVAKLVRLFDN----AIELRGDLPQSVRNRNIDAFREGEYDMLITTDVA 276
Query: 361 ARGLDVDDVKFVINFDYPNNSEDYIHRIGRTGRSDNTGTSYTFFTQQ 407
+RGLD+ V+ VINFD P + YIHRIGRTGR G + TF +
Sbjct: 277 SRGLDIPLVEKVINFDAPQDLRTYIHRIGRTGRMGRKGEAITFILNE 323
>pdb|1S2M|A Chain A, Crystal Structure Of The Dead Box Protein Dhh1p
Length = 400
Score = 128 bits (321), Expect = 7e-30, Method: Compositional matrix adjust.
Identities = 92/344 (26%), Positives = 151/344 (43%), Gaps = 71/344 (20%)
Query: 120 FPDYVLKE-----VKRQGFDRPTPIQAQGWPIAMSGSNMVGVAQTGSGKTLAYMLPAIVH 174
F D+ LK + GF++P+PIQ + P+A++G +++ A+ G+GKT A+++P +
Sbjct: 23 FEDFYLKRELLMGIFEAGFEKPSPIQEEAIPVAITGRDILARAKNGTGKTAAFVIPTL-- 80
Query: 175 INHQSQLKPGDGPI-VLVLAPTRELAQQIQEVARDFGSSTYLRSTCVYGGASKGPQ---- 229
++KP I L++ PTRELA Q +V R G + GG +
Sbjct: 81 ----EKVKPKLNKIQALIMVPTRELALQTSQVVRTLGKHCGISCMVTTGGTNLRDDILRL 136
Query: 230 ----------PDRQVLMWS------------------ATWPREVQKLAEDFLDSYIQINI 261
P R + + S R+ + + E L S++
Sbjct: 137 NETVHILVGTPGRVLDLASRKVADLSDCSLFIMDEADKMLSRDFKTIIEQIL-SFLPPTH 195
Query: 262 GSLTLSANHNIQQVVEVCAEHEKENKLFGLLNDISSKDENKTIIFAETKRK--------- 312
SL SA + V E +H + L+ +++ K + F E ++K
Sbjct: 196 QSLLFSATFPL-TVKEFMVKHLHKPYEINLMEELTLKGITQYYAFVEERQKLHCLNTLFS 254
Query: 313 ----------------VDKITKSIQNYGWAAVGIHGDKSQQERDYVLKEFRNGRAGILVA 356
V+ + K I + G++ H QQER+ V EFR G+ LV
Sbjct: 255 KLQINQAIIFCNSTNRVELLAKKITDLGYSCYYSHARMKQQERNKVFHEFRQGKVRTLVC 314
Query: 357 TDVAARGLDVDDVKFVINFDYPNNSEDYIHRIGRTGRSDNTGTS 400
+D+ RG+D+ V VINFD+P +E Y+HRIGR+GR + G +
Sbjct: 315 SDLLTRGIDIQAVNVVINFDFPKTAETYLHRIGRSGRFGHLGLA 358
>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 = 124 bits (311), Expect = 1e-28, Method: Compositional matrix adjust.
Identities = 98/358 (27%), Positives = 161/358 (44%), Gaps = 69/358 (19%)
Query: 115 FAEANFPDYVLKEVKRQGFDRPTPIQAQGWPIAMSG--SNMVGVAQTGSGKTLAYMLPAI 172
F E +LK + F +P+ IQ + P+ + NM+ +Q+G+GKT A+ L +
Sbjct: 7 FDELGLAPELLKGIYAMKFQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAAFSLTML 66
Query: 173 VHINHQSQLKPGDG-PIVLVLAPTRELAQQIQEVARDFGSSTYLRSTCVYGGA-SKGPQP 230
+N P D P + LAP+RELA+Q EV ++ G T + S + + K Q
Sbjct: 67 TRVN------PEDASPQAICLAPSRELARQTLEVVQEMGKFTKITSQLIVPDSFEKNKQI 120
Query: 231 DRQVLMWSA-----TWPREVQKL----------AEDFLD--------------------- 254
+ QV++ + R++ +L A++ LD
Sbjct: 121 NAQVIVGTPGTVLDLMRRKLMQLQKIKIFVLDEADNMLDQQGLGDQCIRVKRFLPKDTQL 180
Query: 255 ---------------SYIQINIGSLTLSANH-NIQQVVEVCAEHEKENKLFGLLNDI-SS 297
I N +L L N N+ + ++ + + E F +L ++
Sbjct: 181 VLFSATFADAVRQYAKKIVPNANTLELQTNEVNVDAIKQLYMDCKNEADKFDVLTELYGV 240
Query: 298 KDENKTIIFAETKRKVDKITKSIQNYGWAAVGIHGDKSQQERDYVLKEFRNGRAGILVAT 357
+IIF TK+ + + +++ G +HGD QERD ++ +FR GR+ +L+ T
Sbjct: 241 MTIGSSIIFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDDFREGRSKVLITT 300
Query: 358 DVAARGLDVDDVKFVINFDYP---NNSED---YIHRIGRTGRSDNTGTSYTFFTQQNS 409
+V ARG+D+ V V+N+D P N D YIHRIGRTGR G + +F +NS
Sbjct: 301 NVLARGIDIPTVSMVVNYDLPTLANGQADPATYIHRIGRTGRFGRKGVAISFVHDKNS 358
>pdb|3PEY|A Chain A, S. Cerevisiae Dbp5 Bound To Rna And Adp Bef3
Length = 395
Score = 124 bits (311), Expect = 1e-28, Method: Compositional matrix adjust.
Identities = 98/358 (27%), Positives = 161/358 (44%), Gaps = 69/358 (19%)
Query: 115 FAEANFPDYVLKEVKRQGFDRPTPIQAQGWPIAMSG--SNMVGVAQTGSGKTLAYMLPAI 172
F E +LK + F +P+ IQ + P+ + NM+ +Q+G+GKT A+ L +
Sbjct: 7 FDELGLAPELLKGIYAMKFQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAAFSLTML 66
Query: 173 VHINHQSQLKPGDG-PIVLVLAPTRELAQQIQEVARDFGSSTYLRSTCVYGGA-SKGPQP 230
+N P D P + LAP+RELA+Q EV ++ G T + S + + K Q
Sbjct: 67 TRVN------PEDASPQAICLAPSRELARQTLEVVQEMGKFTKITSQLIVPDSFEKNKQI 120
Query: 231 DRQVLMWSA-----TWPREVQKL----------AEDFLD--------------------- 254
+ QV++ + R++ +L A++ LD
Sbjct: 121 NAQVIVGTPGTVLDLMRRKLMQLQKIKIFVLDEADNMLDQQGLGDQCIRVKRFLPKDTQL 180
Query: 255 ---------------SYIQINIGSLTLSANH-NIQQVVEVCAEHEKENKLFGLLNDI-SS 297
I N +L L N N+ + ++ + + E F +L ++
Sbjct: 181 VLFSATFADAVRQYAKKIVPNANTLELQTNEVNVDAIKQLYMDCKNEADKFDVLTELYGL 240
Query: 298 KDENKTIIFAETKRKVDKITKSIQNYGWAAVGIHGDKSQQERDYVLKEFRNGRAGILVAT 357
+IIF TK+ + + +++ G +HGD QERD ++ +FR GR+ +L+ T
Sbjct: 241 MTIGSSIIFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDDFREGRSKVLITT 300
Query: 358 DVAARGLDVDDVKFVINFDYP---NNSED---YIHRIGRTGRSDNTGTSYTFFTQQNS 409
+V ARG+D+ V V+N+D P N D YIHRIGRTGR G + +F +NS
Sbjct: 301 NVLARGIDIPTVSMVVNYDLPTLANGQADPATYIHRIGRTGRFGRKGVAISFVHDKNS 358
>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 = 121 bits (303), Expect = 9e-28, Method: Compositional matrix adjust.
Identities = 69/186 (37%), Positives = 106/186 (56%), Gaps = 14/186 (7%)
Query: 231 DRQVLMWSATWPREVQKLAEDFLDSYIQINIGSLTLSANHNIQQ-VVEVCAEHEKENKLF 289
D+++L++SAT PRE+ LA+ + Y + N NI+Q VEV EN+ F
Sbjct: 178 DKRILLFSATXPREILNLAKKYXGDY-----SFIKAKINANIEQSYVEV-----NENERF 227
Query: 290 GLLNDISSKDENKTIIFAETKRKVDKITKSIQNYGWAAVGIHGDKSQQERDYVLKEFRNG 349
L + E ++F +TKR ++ +++ G+ A IHGD SQ +R+ V++ F+
Sbjct: 228 EALCRLLKNKEFYGLVFCKTKRDTKELASXLRDIGFKAGAIHGDLSQSQREKVIRLFKQK 287
Query: 350 RAGILVATDVAARGLDVDDVKFVINFDYPNNSEDYIHRIGRTGRSDNTGTSYTFFTQQNS 409
+ IL+ATDV +RG+DV+D+ VIN+ P N E Y HRIGRTGR+ G + + N
Sbjct: 288 KIRILIATDVXSRGIDVNDLNCVINYHLPQNPESYXHRIGRTGRAGKKGKAISII---NR 344
Query: 410 RQAKDL 415
R+ K L
Sbjct: 345 REYKKL 350
Score = 74.3 bits (181), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 39/116 (33%), Positives = 64/116 (55%), Gaps = 7/116 (6%)
Query: 115 FAEANFPDYVLKEVKRQGFDRPTPIQAQGWPIAMSGS-NMVGVAQTGSGKTLAYMLPAIV 173
F E N D +L ++ +GF++PT IQ + P+ ++ N+V A+TGSGKT ++ +P I
Sbjct: 8 FNELNLSDNILNAIRNKGFEKPTDIQXKVIPLFLNDEYNIVAQARTGSGKTASFAIPLIE 67
Query: 174 HINHQSQLKPGDGPIVLVLAPTRELAQQIQEVARDFGSSTYLRSTCVYGGASKGPQ 229
+N +G ++L PTRELA Q+ + + L+ +YGG + PQ
Sbjct: 68 LVNEN------NGIEAIILTPTRELAIQVADEIESLKGNKNLKIAKIYGGKAIYPQ 117
>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 = 112 bits (280), Expect = 4e-25, Method: Compositional matrix adjust.
Identities = 67/163 (41%), Positives = 92/163 (56%), Gaps = 5/163 (3%)
Query: 267 SANHNIQQVVEVCAEHEKENKLFGLLNDISSKDENKTIIFAETKRKVDKITKSIQNYGWA 326
+A+ ++ Q VE E E K+ LL + K +IFAE K VD I + + G
Sbjct: 25 AASLDVIQEVEYVKE---EAKMVYLLECLQ-KTPPPVLIFAEKKADVDAIHEYLLLKGVE 80
Query: 327 AVGIHGDKSQQERDYVLKEFRNGRAGILVATDVAARGLDVDDVKFVINFDYPNNSEDYIH 386
AV IHG K Q+ER ++ FR G+ +LVATDVA++GLD ++ VIN+D P E+Y+H
Sbjct: 81 AVAIHGGKDQEERTKAIEAFREGKKDVLVATDVASKGLDFPAIQHVINYDMPEEIENYVH 140
Query: 387 RIGRTGRSDNTGTSYTFFTQQNSRQA-KDLIDVLTESNHPVDP 428
RIGRTG S NTG + TF + DL +L E+ V P
Sbjct: 141 RIGRTGCSGNTGIATTFINKACDESVLMDLKALLLEAKQKVPP 183
>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 = 111 bits (278), Expect = 8e-25, Method: Compositional matrix adjust.
Identities = 70/186 (37%), Positives = 107/186 (57%), Gaps = 3/186 (1%)
Query: 230 PDRQVLMWSATWPREVQKLAEDFLDSYIQINIGSLTLSANHNIQQVVEVCAEHEKENKLF 289
P QV++ SAT P +V ++ F+ + ++I + L+ Q V V E K L
Sbjct: 193 PTTQVVLLSATMPNDVLEVTTKFMRNPVRILVKKDELTLEGIKQFYVNVEEEEYKYECLT 252
Query: 290 GLLNDISSKDENKTIIFAETKRKVDKITKSIQNYGWAAVGIHGDKSQQERDYVLKEFRNG 349
L + IS + +IF T+RKV+++T ++N + I+ D QQERD ++KEFR+G
Sbjct: 253 DLYDSISV---TQAVIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTIMKEFRSG 309
Query: 350 RAGILVATDVAARGLDVDDVKFVINFDYPNNSEDYIHRIGRTGRSDNTGTSYTFFTQQNS 409
+ IL++TD+ ARG+DV V VIN+D P N E+YIHRIGR GR G + F T ++
Sbjct: 310 SSRILISTDLLARGIDVQQVSLVINYDLPANKENYIHRIGRGGRFGRKGVAINFVTNEDV 369
Query: 410 RQAKDL 415
++L
Sbjct: 370 GAMREL 375
Score = 58.5 bits (140), Expect = 8e-09, Method: Compositional matrix adjust.
Identities = 36/132 (27%), Positives = 64/132 (48%), Gaps = 5/132 (3%)
Query: 94 QAFRDKHQMTLKGNAPNPITEFAEANFPDYVLKEVKRQGFDRPTPIQAQGWPIAMSGSNM 153
+ D + ++ N + +F + + +L+ V GF+ P+ IQ + + G ++
Sbjct: 3 EGITDIEESQIQTNYDKVVYKFDDMELDENLLRGVFGYGFEEPSAIQQRAIMPIIEGHDV 62
Query: 154 VGVAQTGSGKTLAYMLPAIVHINHQSQLKPGDGPIVLVLAPTRELAQQIQEVARDFGSST 213
+ AQ+G+GKT + + A+ I+ + P L+LAPTRELA QIQ+V
Sbjct: 63 LAQAQSGTGKTGTFSIAALQRIDTSVK-----APQALMLAPTRELALQIQKVVMALAFHM 117
Query: 214 YLRSTCVYGGAS 225
++ GG S
Sbjct: 118 DIKVHACIGGTS 129
>pdb|3EIQ|A Chain A, Crystal Structure Of Pdcd4-eif4a
pdb|3EIQ|D Chain D, Crystal Structure Of Pdcd4-eif4a
Length = 414
Score = 108 bits (271), Expect = 4e-24, Method: Compositional matrix adjust.
Identities = 65/183 (35%), Positives = 105/183 (57%), Gaps = 3/183 (1%)
Query: 233 QVLMWSATWPREVQKLAEDFLDSYIQINIGSLTLSANHNIQQVVEVCAEHEKENKLFGLL 292
QV++ SAT P +V ++ + F+ I+I + L+ Q + V E K + L L
Sbjct: 216 QVVLLSATMPSDVLEVTKKFMRDPIRILVKKEELTLEGIRQFYINVEREEWKLDTLCDLY 275
Query: 293 NDISSKDENKTIIFAETKRKVDKITKSIQNYGWAAVGIHGDKSQQERDYVLKEFRNGRAG 352
++ + +IF T+RKVD +T+ + + +HGD Q+ERD +++EFR+G +
Sbjct: 276 ETLTI---TQAVIFINTRRKVDWLTEKMHARDFTVSAMHGDMDQKERDVIMREFRSGSSR 332
Query: 353 ILVATDVAARGLDVDDVKFVINFDYPNNSEDYIHRIGRTGRSDNTGTSYTFFTQQNSRQA 412
+L+ TD+ ARG+DV V VIN+D P N E+YIHRIGR GR G + T+++ R
Sbjct: 333 VLITTDLLARGIDVQQVSLVINYDLPTNRENYIHRIGRGGRFGRKGVAINMVTEEDKRTL 392
Query: 413 KDL 415
+D+
Sbjct: 393 RDI 395
Score = 63.9 bits (154), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 37/117 (31%), Positives = 63/117 (53%), Gaps = 7/117 (5%)
Query: 103 TLKGNAPNPITEFAEANFPDYVLKEVKRQGFDRPTPIQAQGWPIAMSGSNMVGVAQTGSG 162
++ N + F + N + +L+ + GF++P+ IQ + + G +++ AQ+G+G
Sbjct: 30 VIESNWNEIVDSFDDMNLSESLLRGIYAYGFEKPSAIQQRAILPCIKGYDVIAQAQSGTG 89
Query: 163 KTLAYMLPAIVHINHQSQLKPGDGPIVLVLAPTRELAQQIQEVARDFGSSTYLRSTC 219
KT + + + I + LK LVLAPTRELAQQIQ+V G Y+ ++C
Sbjct: 90 KTATFAISILQQI--ELDLKATQA---LVLAPTRELAQQIQKVVMALGD--YMGASC 139
>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 = 108 bits (271), Expect = 5e-24, Method: Compositional matrix adjust.
Identities = 61/155 (39%), Positives = 89/155 (57%), Gaps = 9/155 (5%)
Query: 262 GSLTLSANHNIQQVVEVCAEHEKENKLFGLLNDI-SSKDENKTIIFAETKRKVDKITKSI 320
G T + H + QV E ENK F LL D+ +++ + IIF TK V+++T +
Sbjct: 4 GLTTRNIEHAVIQVRE-------ENK-FSLLKDVLMTENPDSCIIFCRTKEHVNQLTDEL 55
Query: 321 QNYGWAAVGIHGDKSQQERDYVLKEFRNGRAGILVATDVAARGLDVDDVKFVINFDYPNN 380
+ G+ IHG Q++R V+ EF+ G LVATDVAARG+D++++ VIN+D P
Sbjct: 56 DDLGYPCDKIHGGMIQEDRFDVMNEFKRGEYRYLVATDVAARGIDIENISLVINYDLPLE 115
Query: 381 SEDYIHRIGRTGRSDNTGTSYTFFTQQNSRQAKDL 415
E Y+HR GRTGR+ N G + +F T R D+
Sbjct: 116 KESYVHRTGRTGRAGNKGKAISFVTAFEKRFLADI 150
>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 = 108 bits (270), Expect = 6e-24, Method: Compositional matrix adjust.
Identities = 65/183 (35%), Positives = 105/183 (57%), Gaps = 3/183 (1%)
Query: 233 QVLMWSATWPREVQKLAEDFLDSYIQINIGSLTLSANHNIQQVVEVCAEHEKENKLFGLL 292
QV++ SAT P +V ++ + F+ I+I + L+ Q + V E K + L L
Sbjct: 190 QVVLLSATMPSDVLEVTKKFMRDPIRILVKKEELTLEGIRQFYINVEREEWKLDTLCDLY 249
Query: 293 NDISSKDENKTIIFAETKRKVDKITKSIQNYGWAAVGIHGDKSQQERDYVLKEFRNGRAG 352
++ + +IF T+RKVD +T+ + + +HGD Q+ERD +++EFR+G +
Sbjct: 250 ETLTI---TQAVIFINTRRKVDWLTEKMHARDFTVSAMHGDMDQKERDVIMREFRSGSSR 306
Query: 353 ILVATDVAARGLDVDDVKFVINFDYPNNSEDYIHRIGRTGRSDNTGTSYTFFTQQNSRQA 412
+L+ TD+ ARG+DV V VIN+D P N E+YIHRIGR GR G + T+++ R
Sbjct: 307 VLITTDLLARGIDVQQVSLVINYDLPTNRENYIHRIGRGGRFGRKGVAINMVTEEDKRTL 366
Query: 413 KDL 415
+D+
Sbjct: 367 RDI 369
Score = 64.7 bits (156), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 37/117 (31%), Positives = 63/117 (53%), Gaps = 7/117 (5%)
Query: 103 TLKGNAPNPITEFAEANFPDYVLKEVKRQGFDRPTPIQAQGWPIAMSGSNMVGVAQTGSG 162
++ N + F + N + +L+ + GF++P+ IQ + + G +++ AQ+G+G
Sbjct: 4 VIESNWNEIVDSFDDMNLSESLLRGIYAYGFEKPSAIQQRAILPCIKGYDVIAQAQSGTG 63
Query: 163 KTLAYMLPAIVHINHQSQLKPGDGPIVLVLAPTRELAQQIQEVARDFGSSTYLRSTC 219
KT + + + I + LK LVLAPTRELAQQIQ+V G Y+ ++C
Sbjct: 64 KTATFAISILQQI--ELDLKATQA---LVLAPTRELAQQIQKVVMALGD--YMGASC 113
>pdb|1XTJ|A Chain A, Structure Of Human Uap56 In Complex With Adp
Length = 386
Score = 107 bits (267), Expect = 1e-23, Method: Compositional matrix adjust.
Identities = 58/188 (30%), Positives = 106/188 (56%), Gaps = 5/188 (2%)
Query: 231 DRQVLMWSATWPREVQKLAEDFLDSYIQINIGSLTLSANHNIQQVVEVCAEHEKENKLFG 290
++QV+M+SAT +E++ + F+ ++I + T H +QQ ++EK KLF
Sbjct: 184 EKQVMMFSATLSKEIRPVCRKFMQDPMEIFVDDETKLTLHGLQQYYVKLKDNEKNRKLFD 243
Query: 291 LLNDISSKDENKTIIFAETKRKVDKITKSIQNYGWAAVGIHGDKSQQERDYVLKEFRNGR 350
LL+ + + N+ +IF ++ ++ + + + + A+ IH Q+ER ++F++ +
Sbjct: 244 LLDVL---EFNQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQ 300
Query: 351 AGILVATDVAARGLDVDDVKFVINFDYPNNSEDYIHRIGRTGRSDNTGTSYTFFTQQNSR 410
ILVAT++ RG+D++ V N+D P +S+ Y+HR+ R GR G + TF + +N
Sbjct: 301 RRILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKGLAITFVSDEND- 359
Query: 411 QAKDLIDV 418
AK L DV
Sbjct: 360 -AKILNDV 366
>pdb|1XTK|A Chain A, Structure Of Decd To Dead Mutation Of Human Uap56
Length = 390
Score = 107 bits (267), Expect = 1e-23, Method: Compositional matrix adjust.
Identities = 58/188 (30%), Positives = 105/188 (55%), Gaps = 5/188 (2%)
Query: 231 DRQVLMWSATWPREVQKLAEDFLDSYIQINIGSLTLSANHNIQQVVEVCAEHEKENKLFG 290
++QV+M+SAT +E++ + F+ ++I + T H +QQ ++EK KLF
Sbjct: 183 EKQVMMFSATLSKEIRPVCRKFMQDPMEIFVDDETKLTLHGLQQYYVKLKDNEKNRKLFD 242
Query: 291 LLNDISSKDENKTIIFAETKRKVDKITKSIQNYGWAAVGIHGDKSQQERDYVLKEFRNGR 350
LL+ + N+ +IF ++ ++ + + + + A+ IH Q+ER ++F++ +
Sbjct: 243 LLDVLEF---NQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQ 299
Query: 351 AGILVATDVAARGLDVDDVKFVINFDYPNNSEDYIHRIGRTGRSDNTGTSYTFFTQQNSR 410
ILVAT++ RG+D++ V N+D P +S+ Y+HR+ R GR G + TF + +N
Sbjct: 300 RRILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKGLAITFVSDEND- 358
Query: 411 QAKDLIDV 418
AK L DV
Sbjct: 359 -AKILNDV 365
>pdb|3FHO|A Chain A, Structure Of S. Pombe Dbp5
pdb|3FHO|B Chain B, Structure Of S. Pombe Dbp5
Length = 508
Score = 107 bits (267), Expect = 1e-23, Method: Compositional matrix adjust.
Identities = 88/339 (25%), Positives = 144/339 (42%), Gaps = 79/339 (23%)
Query: 139 IQAQGWPIAMSG--SNMVGVAQTGSGKTLAYMLPAIVHINHQSQLKPGDGPIVLVLAPTR 196
IQ + P+ +S NM+G +Q+G+GKT A+ L + ++ P + LAP+R
Sbjct: 145 IQEKALPLLLSNPPRNMIGQSQSGTGKTAAFALTMLSRVDASVP-----KPQAICLAPSR 199
Query: 197 ELAQQIQEVARDFGSSTYLRSTC-VYGGASKGPQPDRQVLMWSA---------------- 239
ELA+QI +V + G T +++ + KG + D Q+++ +
Sbjct: 200 ELARQIMDVVTEMGKYTEVKTAFGIKDSVPKGAKIDAQIVIGTPGTVMDLMKRRQLDARD 259
Query: 240 ---------------------------TWPREVQ-------------KLAEDFLDSYIQI 259
PR Q K AE F + +I
Sbjct: 260 IKVFVLDEADNMLDQQGLGDQSMRIKHLLPRNTQIVLFSATFSERVEKYAERFAPNANEI 319
Query: 260 NIGSLTLSANHNIQQVVEVCAEHEKEN---KLFGLLNDISSKDENKTIIFAETKRKVDKI 316
+ + LS Q ++ +E K N +L+GLL ++IIF + K ++I
Sbjct: 320 RLKTEELSVEGIKQLYMDCQSEEHKYNVLVELYGLLTI------GQSIIFCKKKDTAEEI 373
Query: 317 TKSIQNYGWAAVGIHGDKSQQERDYVLKEFRNGRAGILVATDVAARGLDVDDVKFVINFD 376
+ + G + G+ +RD ++ FR G + +LV T+V ARG+DV V V+N+D
Sbjct: 374 ARRMTADGHTVACLTGNLEGAQRDAIMDSFRVGTSKVLVTTNVIARGIDVSQVNLVVNYD 433
Query: 377 YPNNS------EDYIHRIGRTGRSDNTGTSYTFFTQQNS 409
P + + Y+HRIGRTGR G S F + S
Sbjct: 434 MPLDQAGRPDPQTYLHRIGRTGRFGRVGVSINFVHDKKS 472
>pdb|1FUU|A Chain A, Yeast Initiation Factor 4a
pdb|1FUU|B Chain B, Yeast Initiation Factor 4a
Length = 394
Score = 107 bits (267), Expect = 1e-23, Method: Compositional matrix adjust.
Identities = 70/186 (37%), Positives = 105/186 (56%), Gaps = 3/186 (1%)
Query: 230 PDRQVLMWSATWPREVQKLAEDFLDSYIQINIGSLTLSANHNIQQVVEVCAEHEKENKLF 289
P QV++ SAT P +V ++ F + ++I + L+ Q V V E K L
Sbjct: 192 PTTQVVLLSATXPNDVLEVTTKFXRNPVRILVKKDELTLEGIKQFYVNVEEEEYKYECLT 251
Query: 290 GLLNDISSKDENKTIIFAETKRKVDKITKSIQNYGWAAVGIHGDKSQQERDYVLKEFRNG 349
L + IS + +IF T+RKV+++T ++N + I+ D QQERD + KEFR+G
Sbjct: 252 DLYDSISV---TQAVIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTIXKEFRSG 308
Query: 350 RAGILVATDVAARGLDVDDVKFVINFDYPNNSEDYIHRIGRTGRSDNTGTSYTFFTQQNS 409
+ IL++TD+ ARG+DV V VIN+D P N E+YIHRIGR GR G + F T ++
Sbjct: 309 SSRILISTDLLARGIDVQQVSLVINYDLPANKENYIHRIGRGGRFGRKGVAINFVTNEDV 368
Query: 410 RQAKDL 415
++L
Sbjct: 369 GAXREL 374
Score = 58.5 bits (140), Expect = 8e-09, Method: Compositional matrix adjust.
Identities = 36/132 (27%), Positives = 63/132 (47%), Gaps = 5/132 (3%)
Query: 94 QAFRDKHQMTLKGNAPNPITEFAEANFPDYVLKEVKRQGFDRPTPIQAQGWPIAMSGSNM 153
+ D + ++ N + +F + + +L+ V GF+ P+ IQ + + G ++
Sbjct: 2 EGITDIEESQIQTNYDKVVYKFDDXELDENLLRGVFGYGFEEPSAIQQRAIXPIIEGHDV 61
Query: 154 VGVAQTGSGKTLAYMLPAIVHINHQSQLKPGDGPIVLVLAPTRELAQQIQEVARDFGSST 213
+ AQ+G+GKT + + A+ I+ + P L LAPTRELA QIQ+V
Sbjct: 62 LAQAQSGTGKTGTFSIAALQRIDTSVK-----APQALXLAPTRELALQIQKVVXALAFHX 116
Query: 214 YLRSTCVYGGAS 225
++ GG S
Sbjct: 117 DIKVHACIGGTS 128
>pdb|1XTI|A Chain A, Structure Of Wildtype Human Uap56
Length = 391
Score = 107 bits (267), Expect = 1e-23, Method: Compositional matrix adjust.
Identities = 58/188 (30%), Positives = 105/188 (55%), Gaps = 5/188 (2%)
Query: 231 DRQVLMWSATWPREVQKLAEDFLDSYIQINIGSLTLSANHNIQQVVEVCAEHEKENKLFG 290
++QV+M+SAT +E++ + F+ ++I + T H +QQ ++EK KLF
Sbjct: 184 EKQVMMFSATLSKEIRPVCRKFMQDPMEIFVDDETKLTLHGLQQYYVKLKDNEKNRKLFD 243
Query: 291 LLNDISSKDENKTIIFAETKRKVDKITKSIQNYGWAAVGIHGDKSQQERDYVLKEFRNGR 350
LL+ + N+ +IF ++ ++ + + + + A+ IH Q+ER ++F++ +
Sbjct: 244 LLDVLEF---NQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQ 300
Query: 351 AGILVATDVAARGLDVDDVKFVINFDYPNNSEDYIHRIGRTGRSDNTGTSYTFFTQQNSR 410
ILVAT++ RG+D++ V N+D P +S+ Y+HR+ R GR G + TF + +N
Sbjct: 301 RRILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKGLAITFVSDEND- 359
Query: 411 QAKDLIDV 418
AK L DV
Sbjct: 360 -AKILNDV 366
>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 = 104 bits (259), Expect = 1e-22, Method: Compositional matrix adjust.
Identities = 94/367 (25%), Positives = 152/367 (41%), Gaps = 78/367 (21%)
Query: 112 ITEFAEANFPDYVLKEVKRQGFDRPTPIQAQGWPIAMSG--SNMVGVAQTGSGKTLAYML 169
+ F E +L+ V GF+RP+ IQ P+ ++ N++ +Q+G+GKT A++L
Sbjct: 61 VKSFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVL 120
Query: 170 PAIVHINHQSQLKPGDG-PIVLVLAPTRELAQQIQEVARDFGSSTYLRSTCVYGGASKGP 228
+ SQ++P + P L L+PT ELA Q +V G Y Y A +G
Sbjct: 121 AML------SQVEPANKYPQCLCLSPTYELALQTGKVIEQMG-KFYPELKLAY--AVRGN 171
Query: 229 QPDR--------------QVLMWSATW----PREVQKLAEDFLDSYIQI----------- 259
+ +R VL W + P++++ D D I
Sbjct: 172 KLERGQKISEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQ 231
Query: 260 -----NIGSLTLSANHNIQ------------QVVEVCAEHEKENKLFGLLNDISSKDEN- 301
N L SA V+++ E E + + SS+DE
Sbjct: 232 RMLPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKREEETLDTIKQYYVLCSSRDEKF 291
Query: 302 -------------KTIIFAETKRKVDKITKSIQNYGWAAVGIHGDKSQQERDYVLKEFRN 348
+ +IF T++ + + G + G+ ++R V++ FR
Sbjct: 292 QALCNLYGAITIAQAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFRE 351
Query: 349 GRAGILVATDVAARGLDVDDVKFVINFDYP------NNSEDYIHRIGRTGRSDNTGTSYT 402
G+ +LV T+V ARG+DV+ V VINFD P ++E Y+HRIGRTGR G +
Sbjct: 352 GKEKVLVTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRTGRFGKRGLAVN 411
Query: 403 FFTQQNS 409
++S
Sbjct: 412 MVDSKHS 418
>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 = 104 bits (259), Expect = 1e-22, Method: Compositional matrix adjust.
Identities = 94/367 (25%), Positives = 152/367 (41%), Gaps = 78/367 (21%)
Query: 112 ITEFAEANFPDYVLKEVKRQGFDRPTPIQAQGWPIAMSG--SNMVGVAQTGSGKTLAYML 169
+ F E +L+ V GF+RP+ IQ P+ ++ N++ +Q+G+GKT A++L
Sbjct: 24 VKSFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVL 83
Query: 170 PAIVHINHQSQLKPGDG-PIVLVLAPTRELAQQIQEVARDFGSSTYLRSTCVYGGASKGP 228
+ SQ++P + P L L+PT ELA Q +V G Y Y A +G
Sbjct: 84 AML------SQVEPANKYPQCLCLSPTYELALQTGKVIEQMG-KFYPELKLAY--AVRGN 134
Query: 229 QPDR--------------QVLMWSATW----PREVQKLAEDFLDSYIQI----------- 259
+ +R VL W + P++++ D D I
Sbjct: 135 KLERGQKISEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQ 194
Query: 260 -----NIGSLTLSANHNIQ------------QVVEVCAEHEKENKLFGLLNDISSKDEN- 301
N L SA V+++ E E + + SS+DE
Sbjct: 195 RMLPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKREEETLDTIKQYYVLCSSRDEKF 254
Query: 302 -------------KTIIFAETKRKVDKITKSIQNYGWAAVGIHGDKSQQERDYVLKEFRN 348
+ +IF T++ + + G + G+ ++R V++ FR
Sbjct: 255 QALCNLYGAITIAQAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFRE 314
Query: 349 GRAGILVATDVAARGLDVDDVKFVINFDYP------NNSEDYIHRIGRTGRSDNTGTSYT 402
G+ +LV T+V ARG+DV+ V VINFD P ++E Y+HRIGRTGR G +
Sbjct: 315 GKEKVLVTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRTGRFGKRGLAVN 374
Query: 403 FFTQQNS 409
++S
Sbjct: 375 MVDSKHS 381
>pdb|3G0H|A Chain A, Human Dead-box Rna Helicase Ddx19, In Complex With An
Atp-analogue And Rna
Length = 424
Score = 104 bits (259), Expect = 1e-22, Method: Compositional matrix adjust.
Identities = 94/367 (25%), Positives = 152/367 (41%), Gaps = 78/367 (21%)
Query: 112 ITEFAEANFPDYVLKEVKRQGFDRPTPIQAQGWPIAMSG--SNMVGVAQTGSGKTLAYML 169
+ F E +L+ V GF+RP+ IQ P+ ++ N++ +Q+G+GKT A++L
Sbjct: 40 VKSFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVL 99
Query: 170 PAIVHINHQSQLKPGDG-PIVLVLAPTRELAQQIQEVARDFGSSTYLRSTCVYGGASKGP 228
+ SQ++P + P L L+PT ELA Q +V G Y Y A +G
Sbjct: 100 AML------SQVEPANKYPQCLCLSPTYELALQTGKVIEQMG-KFYPELKLAY--AVRGN 150
Query: 229 QPDR--------------QVLMWSATW----PREVQKLAEDFLDSYIQI----------- 259
+ +R VL W + P++++ D D I
Sbjct: 151 KLERGQKISEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQ 210
Query: 260 -----NIGSLTLSANHNIQ------------QVVEVCAEHEKENKLFGLLNDISSKDEN- 301
N L SA V+++ E E + + SS+DE
Sbjct: 211 RMLPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKREEETLDTIKQYYVLCSSRDEKF 270
Query: 302 -------------KTIIFAETKRKVDKITKSIQNYGWAAVGIHGDKSQQERDYVLKEFRN 348
+ +IF T++ + + G + G+ ++R V++ FR
Sbjct: 271 QALCNLYGAITIAQAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFRE 330
Query: 349 GRAGILVATDVAARGLDVDDVKFVINFDYP------NNSEDYIHRIGRTGRSDNTGTSYT 402
G+ +LV T+V ARG+DV+ V VINFD P ++E Y+HRIGRTGR G +
Sbjct: 331 GKEKVLVTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRTGRFGKRGLAVN 390
Query: 403 FFTQQNS 409
++S
Sbjct: 391 MVDSKHS 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 = 104 bits (259), Expect = 1e-22, Method: Compositional matrix adjust.
Identities = 94/367 (25%), Positives = 152/367 (41%), Gaps = 78/367 (21%)
Query: 112 ITEFAEANFPDYVLKEVKRQGFDRPTPIQAQGWPIAMSG--SNMVGVAQTGSGKTLAYML 169
+ F E +L+ V GF+RP+ IQ P+ ++ N++ +Q+G+GKT A++L
Sbjct: 91 VKSFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVL 150
Query: 170 PAIVHINHQSQLKPGDG-PIVLVLAPTRELAQQIQEVARDFGSSTYLRSTCVYGGASKGP 228
+ SQ++P + P L L+PT ELA Q +V G Y Y A +G
Sbjct: 151 AML------SQVEPANKYPQCLCLSPTYELALQTGKVIEQMG-KFYPELKLAY--AVRGN 201
Query: 229 QPDR--------------QVLMWSATW----PREVQKLAEDFLDSYIQI----------- 259
+ +R VL W + P++++ D D I
Sbjct: 202 KLERGQKISEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQ 261
Query: 260 -----NIGSLTLSANHNIQ------------QVVEVCAEHEKENKLFGLLNDISSKDEN- 301
N L SA V+++ E E + + SS+DE
Sbjct: 262 RMLPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKREEETLDTIKQYYVLCSSRDEKF 321
Query: 302 -------------KTIIFAETKRKVDKITKSIQNYGWAAVGIHGDKSQQERDYVLKEFRN 348
+ +IF T++ + + G + G+ ++R V++ FR
Sbjct: 322 QALCNLYGAITIAQAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFRE 381
Query: 349 GRAGILVATDVAARGLDVDDVKFVINFDYP------NNSEDYIHRIGRTGRSDNTGTSYT 402
G+ +LV T+V ARG+DV+ V VINFD P ++E Y+HRIGRTGR G +
Sbjct: 382 GKEKVLVTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRTGRFGKRGLAVN 441
Query: 403 FFTQQNS 409
++S
Sbjct: 442 MVDSKHS 448
>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 = 103 bits (256), Expect = 2e-22, Method: Compositional matrix adjust.
Identities = 52/124 (41%), Positives = 79/124 (63%), Gaps = 5/124 (4%)
Query: 109 PNPITEFAEA--NFPDYVLKEVKRQGFDRPTPIQAQGWPIAMSGSNMVGVAQTGSGKTLA 166
P P F +A +PD +LK + R G +PTPIQ+Q WPI + G +++ VAQTG+GKTL+
Sbjct: 15 PKPTCRFKDAFQQYPD-LLKSIIRVGILKPTPIQSQAWPIILQGIDLIVVAQTGTGKTLS 73
Query: 167 YMLPAIVHINHQS-QLKPGDGPIVLVLAPTRELAQQIQEVARDFGSSTYLRSTCVYGGAS 225
Y++P +H++ Q + +GP +LVL PTRELA ++ + S L+S C+YGG +
Sbjct: 74 YLMPGFIHLDSQPISREQRNGPGMLVLTPTRELALHVEAECSKY-SYKGLKSICIYGGRN 132
Query: 226 KGPQ 229
+ Q
Sbjct: 133 RNGQ 136
Score = 34.3 bits (77), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 14/25 (56%), Positives = 19/25 (76%)
Query: 229 QPDRQVLMWSATWPREVQKLAEDFL 253
+PDRQ +M SATWP V++LA +L
Sbjct: 196 RPDRQTVMTSATWPDTVRQLALSYL 220
>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 = 96.7 bits (239), Expect = 2e-20, Method: Compositional matrix adjust.
Identities = 48/136 (35%), Positives = 76/136 (55%), Gaps = 1/136 (0%)
Query: 292 LNDISSKDE-NKTIIFAETKRKVDKITKSIQNYGWAAVGIHGDKSQQERDYVLKEFRNGR 350
LN + S+ + N++IIF + ++V+ + K I G++ IH Q+ R+ V +FRNG
Sbjct: 35 LNTLFSRLQINQSIIFCNSSQRVELLAKKISQLGYSCFYIHAKMRQEHRNRVFHDFRNGL 94
Query: 351 AGILVATDVAARGLDVDDVKFVINFDYPNNSEDYIHRIGRTGRSDNTGTSYTFFTQQNSR 410
LV TD+ RG+D+ V VINFD+P +E Y+HRIGR+GR + G + T +
Sbjct: 95 CRNLVCTDLFTRGIDIQAVNVVINFDFPKLAETYLHRIGRSGRFGHLGLAINLITYDDRF 154
Query: 411 QAKDLIDVLTESNHPV 426
K + + L P+
Sbjct: 155 NLKSIEEQLGTEIKPI 170
>pdb|1FUK|A Chain A, Crystal Structure Of The Carboxy Terminal Domain Of Yeast
Eif4a
Length = 165
Score = 95.5 bits (236), Expect = 5e-20, Method: Compositional matrix adjust.
Identities = 55/134 (41%), Positives = 83/134 (61%), Gaps = 1/134 (0%)
Query: 283 EKENKLFGLLNDI-SSKDENKTIIFAETKRKVDKITKSIQNYGWAAVGIHGDKSQQERDY 341
E+E + L D+ S + +IF T+RKV+++T ++N + I+ D QQERD
Sbjct: 12 EEEEYKYECLTDLYDSISVTQAVIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDT 71
Query: 342 VLKEFRNGRAGILVATDVAARGLDVDDVKFVINFDYPNNSEDYIHRIGRTGRSDNTGTSY 401
++KEFR+G + IL++TD+ ARG+DV V VIN+D P N E+YIHRIGR GR G +
Sbjct: 72 IMKEFRSGSSRILISTDLLARGIDVQQVSLVINYDLPANKENYIHRIGRGGRFGRKGVAI 131
Query: 402 TFFTQQNSRQAKDL 415
F T ++ ++L
Sbjct: 132 NFVTNEDVGAMREL 145
>pdb|2KBF|A Chain A, Solution Structure Of Carboxyl-Terminal Domain Of Dbp5p
Length = 187
Score = 89.0 bits (219), Expect = 5e-18, Method: Compositional matrix adjust.
Identities = 50/129 (38%), Positives = 74/129 (57%), Gaps = 12/129 (9%)
Query: 287 KLFGLLNDISSKDENKTIIFAETKRKVDKITKSIQNYGWAAVGIHGDKSQQERDYVLKEF 346
+L+GL+ SS IIF TK+ + + +++ G +HGD QERD ++ +F
Sbjct: 28 ELYGLMTIGSS------IIFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDDF 81
Query: 347 RNGRAGILVATDVAARGLDVDDVKFVINFDYP---NNSED---YIHRIGRTGRSDNTGTS 400
R GR+ +L+ T+V ARG+D+ V V+N+D P N D YIHRIGRTGR G +
Sbjct: 82 REGRSKVLITTNVLARGIDIPTVSMVVNYDLPTLANGQADPATYIHRIGRTGRFGRKGVA 141
Query: 401 YTFFTQQNS 409
+F +NS
Sbjct: 142 ISFVHDKNS 150
>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 = 88.2 bits (217), Expect = 9e-18, Method: Compositional matrix adjust.
Identities = 41/124 (33%), Positives = 70/124 (56%)
Query: 285 ENKLFGLLNDISSKDENKTIIFAETKRKVDKITKSIQNYGWAAVGIHGDKSQQERDYVLK 344
E+K L++ + + ++I+F + +V ++ ++ G + G+ Q +R+ +K
Sbjct: 15 EHKTALLVHLLKQPEATRSIVFVRKRERVHELANWLREAGINNCYLEGEMVQGKRNEAIK 74
Query: 345 EFRNGRAGILVATDVAARGLDVDDVKFVINFDYPNNSEDYIHRIGRTGRSDNTGTSYTFF 404
GR +LVATDVAARG+D+ DV V NFD P + + Y+HRIGRT R+ GT+ +
Sbjct: 75 RLTEGRVNVLVATDVAARGIDIPDVSHVFNFDMPRSGDTYLHRIGRTARAGRKGTAISLV 134
Query: 405 TQQN 408
+
Sbjct: 135 EAHD 138
>pdb|3GFP|A Chain A, Structure Of The C-Terminal Domain Of The Dead-Box Protein
Dbp5
Length = 189
Score = 86.3 bits (212), Expect = 3e-17, Method: Compositional matrix adjust.
Identities = 49/146 (33%), Positives = 80/146 (54%), Gaps = 7/146 (4%)
Query: 271 NIQQVVEVCAEHEKENKLFGLLNDISSKDE-NKTIIFAETKRKVDKITKSIQNYGWAAVG 329
N+ + ++ + + E F +L ++ +IIF TK+ + + +++ G
Sbjct: 7 NVDAIKQLYXDCKNEADKFDVLTELYGLXTIGSSIIFVATKKTANVLYGKLKSEGHEVSI 66
Query: 330 IHGDKSQQERDYVLKEFRNGRAGILVATDVAARGLDVDDVKFVINFDYP---NNSED--- 383
+HGD QERD ++ +FR GR+ +L+ T+V ARG+D+ V V+N+D P N D
Sbjct: 67 LHGDLQTQERDRLIDDFREGRSKVLITTNVLARGIDIPTVSXVVNYDLPTLANGQADPAT 126
Query: 384 YIHRIGRTGRSDNTGTSYTFFTQQNS 409
YIHRIGRTGR G + +F +NS
Sbjct: 127 YIHRIGRTGRFGRKGVAISFVHDKNS 152
>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 = 86.3 bits (212), Expect = 3e-17, Method: Compositional matrix adjust.
Identities = 49/146 (33%), Positives = 80/146 (54%), Gaps = 7/146 (4%)
Query: 271 NIQQVVEVCAEHEKENKLFGLLNDISSKDE-NKTIIFAETKRKVDKITKSIQNYGWAAVG 329
N+ + ++ + + E F +L ++ +IIF TK+ + + +++ G
Sbjct: 6 NVDAIKQLYXDCKNEADKFDVLTELYGVXTIGSSIIFVATKKTANVLYGKLKSEGHEVSI 65
Query: 330 IHGDKSQQERDYVLKEFRNGRAGILVATDVAARGLDVDDVKFVINFDYP---NNSED--- 383
+HGD QERD ++ +FR GR+ +L+ T+V ARG+D+ V V+N+D P N D
Sbjct: 66 LHGDLQTQERDRLIDDFREGRSKVLITTNVLARGIDIPTVSXVVNYDLPTLANGQADPAT 125
Query: 384 YIHRIGRTGRSDNTGTSYTFFTQQNS 409
YIHRIGRTGR G + +F +NS
Sbjct: 126 YIHRIGRTGRFGRKGVAISFVHDKNS 151
>pdb|1T5I|A Chain A, Crystal Structure Of The C-Terminal Domain Of Uap56
Length = 172
Score = 85.9 bits (211), Expect = 4e-17, Method: Compositional matrix adjust.
Identities = 48/149 (32%), Positives = 83/149 (55%), Gaps = 5/149 (3%)
Query: 270 HNIQQVVEVCAEHEKENKLFGLLNDISSKDENKTIIFAETKRKVDKITKSIQNYGWAAVG 329
H +QQ ++EK KLF LL+ + N+ +IF ++ ++ + + + + A+
Sbjct: 4 HGLQQYYVKLKDNEKNRKLFDLLDVLEF---NQVVIFVKSVQRCIALAQLLVEQNFPAIA 60
Query: 330 IHGDKSQQERDYVLKEFRNGRAGILVATDVAARGLDVDDVKFVINFDYPNNSEDYIHRIG 389
IH Q+ER ++F++ + ILVAT++ RG+D++ V N+D P +S+ Y+HR+
Sbjct: 61 IHRGMPQEERLSRYQQFKDFQRRILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVA 120
Query: 390 RTGRSDNTGTSYTFFTQQNSRQAKDLIDV 418
R GR G + TF + +N AK L DV
Sbjct: 121 RAGRFGTKGLAITFVSDEND--AKILNDV 147
>pdb|3SQX|A Chain A, Structure Of Mss116p (Nte And C-Tail Double Deletion)
Bound To Ssrna And Amp-Pnp
Length = 512
Score = 83.6 bits (205), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 60/196 (30%), Positives = 98/196 (50%), Gaps = 13/196 (6%)
Query: 233 QVLMWSATWPREVQKLAEDFLDSYIQINIGSLTLS---ANHNIQQVVEVCAEHEKENKLF 289
+ L++SAT +VQKLA + ++ + + ++ + A+ I Q V + + N +F
Sbjct: 215 KTLLFSATLDDKVQKLANNIMNKKECLFLDTVDKNEPEAHERIDQSVVISEKFA--NSIF 272
Query: 290 GLL----NDISSKDEN-KTIIFAETKRKVDKITKSIQN---YGWAAVGIHGDKSQQERDY 341
+ I +D N K IIFA T + + ++N + HG +Q +R
Sbjct: 273 AAVEHIKKQIKERDSNYKAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQNKRTS 332
Query: 342 VLKEFRNGRAGILVATDVAARGLDVDDVKFVINFDYPNNSEDYIHRIGRTGRSDNTGTSY 401
++K F+ +GILV TDV ARG+D +V V+ P+ +YIHRIGRT RS G+S
Sbjct: 333 LVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEGSSV 392
Query: 402 TFFTQQNSRQAKDLID 417
F + ++L D
Sbjct: 393 LFICKDELPFVRELED 408
Score = 46.2 bits (108), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 56/215 (26%), Positives = 99/215 (46%), Gaps = 30/215 (13%)
Query: 126 KEVKRQGFDRPTPIQAQGWPIAMSGSN--MVGVAQTGSGKTLAYMLPAIVHI-----NHQ 178
K + R F TP+Q + +S + ++ A+TG+GKT A+++P H+ + Q
Sbjct: 34 KAITRMEFPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIFQHLINTKFDSQ 93
Query: 179 SQLKPGDGPIVLVLAPTRELAQQIQ-EVAR----DFGSSTYLRSTCVYGGASKGPQPDRQ 233
+K +++APTR+LA QI+ EV + ++G Y + V G +
Sbjct: 94 YMVK------AVIVAPTRDLALQIEAEVKKIHDMNYGLKKYACVSLVGGTDFRAAMNKMN 147
Query: 234 VL---MWSATWPREVQKLAEDFLDSYIQINIGSLTLSANHNIQQVVEVCAEHEKENKLFG 290
L + AT R + D L+ Y + +++E+ + E + G
Sbjct: 148 KLRPNIVIATPGRLI-----DVLEKYSNKFFRFVDYKVLDEADRLLEIGFRDDLET-ISG 201
Query: 291 LLNDISSK--DENKTIIFAET-KRKVDKITKSIQN 322
+LN+ +SK D KT++F+ T KV K+ +I N
Sbjct: 202 ILNEKNSKSADNIKTLLFSATLDDKVQKLANNIMN 236
>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 = 83.2 bits (204), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 60/196 (30%), Positives = 98/196 (50%), Gaps = 13/196 (6%)
Query: 233 QVLMWSATWPREVQKLAEDFLDSYIQINIGSLTLS---ANHNIQQVVEVCAEHEKENKLF 289
+ L++SAT +VQKLA + ++ + + ++ + A+ I Q V + + N +F
Sbjct: 266 KTLLFSATLDDKVQKLANNIMNKKECLFLDTVDKNEPEAHERIDQSVVISEKFA--NSIF 323
Query: 290 GLL----NDISSKDEN-KTIIFAETKRKVDKITKSIQN---YGWAAVGIHGDKSQQERDY 341
+ I +D N K IIFA T + + ++N + HG +Q +R
Sbjct: 324 AAVEHIKKQIKERDSNYKAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQNKRTS 383
Query: 342 VLKEFRNGRAGILVATDVAARGLDVDDVKFVINFDYPNNSEDYIHRIGRTGRSDNTGTSY 401
++K F+ +GILV TDV ARG+D +V V+ P+ +YIHRIGRT RS G+S
Sbjct: 384 LVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEGSSV 443
Query: 402 TFFTQQNSRQAKDLID 417
F + ++L D
Sbjct: 444 LFICKDELPFVRELED 459
Score = 47.0 bits (110), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 59/231 (25%), Positives = 104/231 (45%), Gaps = 30/231 (12%)
Query: 126 KEVKRQGFDRPTPIQAQGWPIAMSGSN--MVGVAQTGSGKTLAYMLPAIVHI-----NHQ 178
K + R F TP+Q + +S + ++ A+TG+GKT A+++P H+ + Q
Sbjct: 85 KAITRMEFPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIFQHLINTKFDSQ 144
Query: 179 SQLKPGDGPIVLVLAPTRELAQQIQ-EVAR----DFGSSTYLRSTCVYGGASKGPQPDRQ 233
+K +++APTR+LA QI+ EV + ++G Y + V G +
Sbjct: 145 YMVK------AVIVAPTRDLALQIEAEVKKIHDMNYGLKKYACVSLVGGTDFRAAMNKMN 198
Query: 234 VL---MWSATWPREVQKLAEDFLDSYIQINIGSLTLSANHNIQQVVEVCAEHEKENKLFG 290
L + AT R + D L+ Y + +++E+ + E + G
Sbjct: 199 KLRPNIVIATPGRLI-----DVLEKYSNKFFRFVDYKVLDEADRLLEIGFRDDLET-ISG 252
Query: 291 LLNDISSK--DENKTIIFAET-KRKVDKITKSIQNYGWAAVGIHGDKSQQE 338
+LN+ +SK D KT++F+ T KV K+ +I N DK++ E
Sbjct: 253 ILNEKNSKSADNIKTLLFSATLDDKVQKLANNIMNKKECLFLDTVDKNEPE 303
>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 = 83.2 bits (204), Expect = 3e-16, Method: Compositional matrix adjust.
Identities = 48/127 (37%), Positives = 66/127 (51%), Gaps = 4/127 (3%)
Query: 107 NAPNPITEFAEANFPDYVLKEVKRQGFDRPTPIQAQGWPIAMSGSNMVGVAQTGSGKTLA 166
+A N I F E + + + RPTPIQ P + +++ AQTGSGKT A
Sbjct: 17 SATNVIENFDELKLDPTIRNNILLASYQRPTPIQKNAIPAILEHRDIMACAQTGSGKTAA 76
Query: 167 YMLPAIVHIN----HQSQLKPGDGPIVLVLAPTRELAQQIQEVARDFGSSTYLRSTCVYG 222
+++P I H+ +Q + P L+LAPTRELA QI ++ F +T LRS VYG
Sbjct: 77 FLIPIINHLVCQDLNQQRYSKTAYPKCLILAPTRELAIQILSESQKFSLNTPLRSCVVYG 136
Query: 223 GASKGPQ 229
GA Q
Sbjct: 137 GADTHSQ 143
Score = 47.0 bits (110), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 20/45 (44%), Positives = 34/45 (75%)
Query: 231 DRQVLMWSATWPREVQKLAEDFLDSYIQINIGSLTLSANHNIQQV 275
+RQ LM+SAT+P+E+QKLA DFL +YI + +G + +++ Q++
Sbjct: 209 NRQTLMFSATFPKEIQKLAADFLYNYIFMTVGRVGSTSDSIKQEI 253
>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 = 83.2 bits (204), Expect = 3e-16, Method: Compositional matrix adjust.
Identities = 48/141 (34%), Positives = 76/141 (53%), Gaps = 8/141 (5%)
Query: 270 HNIQQVVEVCAEHEKENKLFGLLNDISSKDENKTIIFAETKRKVDKITKSIQNYGWAAVG 329
+NI+Q +C EH K +K L N S + IIF +T+R +T + G
Sbjct: 6 NNIRQYYVLC-EHRK-DKYQALCNIYGSITIGQAIIFCQTRRNAKWLTVEMIQDGHQVSL 63
Query: 330 IHGDKSQQERDYVLKEFRNGRAGILVATDVAARGLDVDDVKFVINFDYPN------NSED 383
+ G+ + ++R +++ FR+G+ +L+ T+V ARG+DV V V+NFD P + E
Sbjct: 64 LSGELTVEQRASIIQRFRDGKEKVLITTNVCARGIDVKQVTIVVNFDLPVKQGEEPDYET 123
Query: 384 YIHRIGRTGRSDNTGTSYTFF 404
Y+HRIGRTGR G ++
Sbjct: 124 YLHRIGRTGRFGKKGLAFNMI 144
>pdb|3SQW|A Chain A, Structure Of Mss116p (Nte Deletion) Bound To Ssrna And
Amp-Pnp
Length = 579
Score = 82.4 bits (202), Expect = 5e-16, Method: Compositional matrix adjust.
Identities = 59/185 (31%), Positives = 95/185 (51%), Gaps = 13/185 (7%)
Query: 233 QVLMWSATWPREVQKLAEDFLDSYIQINIGSLTLS---ANHNIQQVVEVCAEHEKENKLF 289
+ L++SAT +VQKLA + ++ + + ++ + A+ I Q V + + N +F
Sbjct: 215 KTLLFSATLDDKVQKLANNIMNKKECLFLDTVDKNEPEAHERIDQSVVISEKFA--NSIF 272
Query: 290 GLL----NDISSKDEN-KTIIFAETKRKVDKITKSIQNYGWAAVGI---HGDKSQQERDY 341
+ I +D N K IIFA T + + ++N + I HG +Q +R
Sbjct: 273 AAVEHIKKQIKERDSNYKAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQNKRTS 332
Query: 342 VLKEFRNGRAGILVATDVAARGLDVDDVKFVINFDYPNNSEDYIHRIGRTGRSDNTGTSY 401
++K F+ +GILV TDV ARG+D +V V+ P+ +YIHRIGRT RS G+S
Sbjct: 333 LVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEGSSV 392
Query: 402 TFFTQ 406
F +
Sbjct: 393 LFICK 397
Score = 47.0 bits (110), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 59/231 (25%), Positives = 104/231 (45%), Gaps = 30/231 (12%)
Query: 126 KEVKRQGFDRPTPIQAQGWPIAMSGSN--MVGVAQTGSGKTLAYMLPAIVHI-----NHQ 178
K + R F TP+Q + +S + ++ A+TG+GKT A+++P H+ + Q
Sbjct: 34 KAITRMEFPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIFQHLINTKFDSQ 93
Query: 179 SQLKPGDGPIVLVLAPTRELAQQIQ-EVAR----DFGSSTYLRSTCVYGGASKGPQPDRQ 233
+K +++APTR+LA QI+ EV + ++G Y + V G +
Sbjct: 94 YMVK------AVIVAPTRDLALQIEAEVKKIHDMNYGLKKYACVSLVGGTDFRAAMNKMN 147
Query: 234 VL---MWSATWPREVQKLAEDFLDSYIQINIGSLTLSANHNIQQVVEVCAEHEKENKLFG 290
L + AT R + D L+ Y + +++E+ + E + G
Sbjct: 148 KLRPNIVIATPGRLI-----DVLEKYSNKFFRFVDYKVLDEADRLLEIGFRDDLET-ISG 201
Query: 291 LLNDISSK--DENKTIIFAET-KRKVDKITKSIQNYGWAAVGIHGDKSQQE 338
+LN+ +SK D KT++F+ T KV K+ +I N DK++ E
Sbjct: 202 ILNEKNSKSADNIKTLLFSATLDDKVQKLANNIMNKKECLFLDTVDKNEPE 252
>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 = 80.5 bits (197), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 35/86 (40%), Positives = 54/86 (62%)
Query: 301 NKTIIFAETKRKVDKITKSIQNYGWAAVGIHGDKSQQERDYVLKEFRNGRAGILVATDVA 360
++ ++F TK + ++I + + G A +HGD SQ ER+ V+ FR G +LVATDVA
Sbjct: 29 DRAMVFTRTKAETEEIAQGLLRLGHPAQALHGDMSQGERERVMGAFRQGEVRVLVATDVA 88
Query: 361 ARGLDVDDVKFVINFDYPNNSEDYIH 386
ARGLD+ V V+++ P+ +E Y H
Sbjct: 89 ARGLDIPQVDLVVHYRMPDRAEAYQH 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 = 79.7 bits (195), Expect = 3e-15, Method: Compositional matrix adjust.
Identities = 36/86 (41%), Positives = 54/86 (62%)
Query: 301 NKTIIFAETKRKVDKITKSIQNYGWAAVGIHGDKSQQERDYVLKEFRNGRAGILVATDVA 360
++ ++F TK + ++I + + G A +HGD SQ ER+ VL FR G +LVATDVA
Sbjct: 32 DRAMVFTRTKAETEEIAQGLLRLGHPAQALHGDLSQGERERVLGAFRQGEVRVLVATDVA 91
Query: 361 ARGLDVDDVKFVINFDYPNNSEDYIH 386
ARGLD+ V V+++ P+ +E Y H
Sbjct: 92 ARGLDIPQVDLVVHYRLPDRAEAYQH 117
>pdb|3DKP|A Chain A, Human Dead-Box Rna-Helicase Ddx52, Conserved Domain I In
Complex With Adp
Length = 245
Score = 77.4 bits (189), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 49/169 (28%), Positives = 82/169 (48%), Gaps = 13/169 (7%)
Query: 92 EVQAFRDKHQMTLKG-NAPNPITEFA----EANFPDYVLKEVKRQGFDRPTPIQAQGWPI 146
++ R+KH++ ++G + P+PI F E +L+ + GF PTPIQ Q P+
Sbjct: 3 KINFLRNKHKIHVQGTDLPDPIATFQQLDQEYKINSRLLQNILDAGFQMPTPIQMQAIPV 62
Query: 147 AMSGSNMVGVAQTGSGKTLAYMLPAIVHINHQSQLKPGDGPIVLVLAPTRELAQQIQEVA 206
+ G ++ A TGSGKTLA+ +P ++ + + G L+++PTRELA QI
Sbjct: 63 MLHGRELLASAPTGSGKTLAFSIPILMQLKQPA----NKGFRALIISPTRELASQIHREL 118
Query: 207 RDFGSSTYLRSTCVYGGASK----GPQPDRQVLMWSATWPREVQKLAED 251
T R ++ A GP+ ++ + T R + L +D
Sbjct: 119 IKISEGTGFRIHMIHKAAVAAKKFGPKSSKKFDILVTTPNRLIYLLKQD 167
>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 = 76.6 bits (187), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 60/197 (30%), Positives = 100/197 (50%), Gaps = 15/197 (7%)
Query: 114 EFAEANFPDYVLKEVKRQGFDRPTPIQAQGWPIAMSGSNMVGVAQTGSGKTLAYMLPAIV 173
EF + +L+ + +G PTPIQA P+A+ G +++G A+TG+GKTLA+ LP I
Sbjct: 2 EFKDFPLKPEILEALHGRGLTTPTPIQAAALPLALEGKDLIGQARTGTGKTLAFALP-IA 60
Query: 174 HINHQSQLKPGDGPIVLVLAPTRELAQQIQEVARDFGS-STYLRSTCVYGGASKGPQPDR 232
SQ + G P LVL PTRELA Q VA + + + +L+ VYGG G Q +
Sbjct: 61 ERLAPSQER-GRKPRALVLTPTRELALQ---VASELTAVAPHLKVVAVYGGTGYGKQ--K 114
Query: 233 QVLMWSATWPREVQKLAEDFLDSYIQINIGSLTLSANHNIQQVVEVCAEHEKENKLFGLL 292
+ L+ A A D+L + +++ + ++ +++ + E E E L
Sbjct: 115 EALLRGADAVVATPGRALDYLRQGV-LDLSRVEVAVLDEADEMLSMGFEEEVEALLS--- 170
Query: 293 NDISSKDENKTIIFAET 309
++ +T++F+ T
Sbjct: 171 ---ATPPSRQTLLFSAT 184
Score = 33.1 bits (74), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 13/32 (40%), Positives = 22/32 (68%)
Query: 230 PDRQVLMWSATWPREVQKLAEDFLDSYIQINI 261
P RQ L++SAT P ++LAE ++ + + IN+
Sbjct: 174 PSRQTLLFSATLPSWAKRLAERYMKNPVLINV 205
>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 = 76.6 bits (187), Expect = 3e-14, Method: Compositional matrix adjust.
Identities = 45/127 (35%), Positives = 66/127 (51%), Gaps = 4/127 (3%)
Query: 295 ISSKDEN-KTIIFAETKRKVDKITKSIQN---YGWAAVGIHGDKSQQERDYVLKEFRNGR 350
I +D N K IIFA T + + ++N + HG +Q +R ++K F+
Sbjct: 27 IKERDSNYKAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQNKRTSLVKRFKKDE 86
Query: 351 AGILVATDVAARGLDVDDVKFVINFDYPNNSEDYIHRIGRTGRSDNTGTSYTFFTQQNSR 410
+GILV TDV ARG+D +V V+ P+ +YIHRIGRT RS G+S F +
Sbjct: 87 SGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEGSSVLFICKDELP 146
Query: 411 QAKDLID 417
++L D
Sbjct: 147 FVRELED 153
>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 = 76.6 bits (187), Expect = 3e-14, Method: Compositional matrix adjust.
Identities = 45/127 (35%), Positives = 66/127 (51%), Gaps = 4/127 (3%)
Query: 295 ISSKDEN-KTIIFAETKRKVDKITKSIQN---YGWAAVGIHGDKSQQERDYVLKEFRNGR 350
I +D N K IIFA T + + ++N + HG +Q +R ++K F+
Sbjct: 27 IKERDSNYKAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQNKRTSLVKRFKKDE 86
Query: 351 AGILVATDVAARGLDVDDVKFVINFDYPNNSEDYIHRIGRTGRSDNTGTSYTFFTQQNSR 410
+GILV TDV ARG+D +V V+ P+ +YIHRIGRT RS G+S F +
Sbjct: 87 SGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEGSSVLFICKDELP 146
Query: 411 QAKDLID 417
++L D
Sbjct: 147 FVRELED 153
>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 = 76.3 bits (186), Expect = 3e-14, Method: Compositional matrix adjust.
Identities = 45/127 (35%), Positives = 66/127 (51%), Gaps = 4/127 (3%)
Query: 295 ISSKDEN-KTIIFAETKRKVDKITKSIQN---YGWAAVGIHGDKSQQERDYVLKEFRNGR 350
I +D N K IIFA T + + ++N + HG +Q +R ++K F+
Sbjct: 27 IKERDSNYKAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQNKRTSLVKRFKKDE 86
Query: 351 AGILVATDVAARGLDVDDVKFVINFDYPNNSEDYIHRIGRTGRSDNTGTSYTFFTQQNSR 410
+GILV TDV ARG+D +V V+ P+ +YIHRIGRT RS G+S F +
Sbjct: 87 SGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEGSSVLFICKDELP 146
Query: 411 QAKDLID 417
++L D
Sbjct: 147 FVRELED 153
>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 = 75.5 bits (184), Expect = 6e-14, Method: Compositional matrix adjust.
Identities = 59/197 (29%), Positives = 100/197 (50%), Gaps = 15/197 (7%)
Query: 114 EFAEANFPDYVLKEVKRQGFDRPTPIQAQGWPIAMSGSNMVGVAQTGSGKTLAYMLPAIV 173
EF + +L+ + +G PTPI+A P+A+ G +++G A+TG+GKTLA+ LP I
Sbjct: 2 EFKDFPLKPEILEALHGRGLTTPTPIEAAALPLALEGKDLIGQARTGTGKTLAFALP-IA 60
Query: 174 HINHQSQLKPGDGPIVLVLAPTRELAQQIQEVARDFGS-STYLRSTCVYGGASKGPQPDR 232
SQ + G P LVL PTRELA Q VA + + + +L+ VYGG G Q +
Sbjct: 61 ERLAPSQER-GRKPRALVLTPTRELALQ---VASELTAVAPHLKVVAVYGGTGYGKQ--K 114
Query: 233 QVLMWSATWPREVQKLAEDFLDSYIQINIGSLTLSANHNIQQVVEVCAEHEKENKLFGLL 292
+ L+ A A D+L + +++ + ++ +++ + E E E L
Sbjct: 115 EALLRGADAVVATPGRALDYLRQGV-LDLSRVEVAVLDEADEMLSMGFEEEVEALLS--- 170
Query: 293 NDISSKDENKTIIFAET 309
++ +T++F+ T
Sbjct: 171 ---ATPPSRQTLLFSAT 184
Score = 33.1 bits (74), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 13/32 (40%), Positives = 22/32 (68%)
Query: 230 PDRQVLMWSATWPREVQKLAEDFLDSYIQINI 261
P RQ L++SAT P ++LAE ++ + + IN+
Sbjct: 174 PSRQTLLFSATLPSWAKRLAERYMKNPVLINV 205
>pdb|2PL3|A Chain A, Human Dead-Box Rna Helicase Ddx10, Dead Domain In Complex
With Adp
Length = 236
Score = 74.7 bits (182), Expect = 9e-14, Method: Compositional matrix adjust.
Identities = 42/123 (34%), Positives = 68/123 (55%), Gaps = 1/123 (0%)
Query: 110 NPITEFAEANFPDYVLKEVKRQGFDRPTPIQAQGWPIAMSGSNMVGVAQTGSGKTLAYML 169
N IT F++ LK ++ + T IQ Q +A+ G +++G A+TGSGKTLA+++
Sbjct: 22 NEITRFSDFPLSKKTLKGLQEAQYRLVTEIQKQTIGLALQGKDVLGAAKTGSGKTLAFLV 81
Query: 170 PAIVHINHQSQLKPGDGPIVLVLAPTRELAQQIQEVARDFGSSTYLRSTCVYGGASKGPQ 229
P + + ++ Q DG VL+++PTRELA Q EV R G + + + GG +
Sbjct: 82 PVLEAL-YRLQWTSTDGLGVLIISPTRELAYQTFEVLRKVGKNHDFSAGLIIGGKDLKHE 140
Query: 230 PDR 232
+R
Sbjct: 141 AER 143
>pdb|3BER|A Chain A, Human Dead-Box Rna-Helicase Ddx47, Conserved Domain I In
Complex With Amp
Length = 249
Score = 74.7 bits (182), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 44/123 (35%), Positives = 65/123 (52%), Gaps = 11/123 (8%)
Query: 107 NAPNPITE------FAEANFPDYVLKEVKRQGFDRPTPIQAQGWPIAMSGSNMVGVAQTG 160
A PI E F + D + + + G+ +PT IQ + P+A+ G +++G+A+TG
Sbjct: 31 EASQPIVEEEETKTFKDLGVTDVLCEACDQLGWTKPTKIQIEAIPLALQGRDIIGLAETG 90
Query: 161 SGKTLAYMLPAIVHINHQSQLKPGDGPIVLVLAPTRELAQQIQEVARDFGSSTYLRSTCV 220
SGKT A+ LP + + L+ LVL PTRELA QI E GSS ++S +
Sbjct: 91 SGKTGAFALPIL-----NALLETPQRLFALVLTPTRELAFQISEQFEALGSSIGVQSAVI 145
Query: 221 YGG 223
GG
Sbjct: 146 VGG 148
>pdb|3LY5|A Chain A, Ddx18 Dead-Domain
pdb|3LY5|B Chain B, Ddx18 Dead-Domain
Length = 262
Score = 65.9 bits (159), Expect = 4e-11, Method: Compositional matrix adjust.
Identities = 36/108 (33%), Positives = 61/108 (56%), Gaps = 1/108 (0%)
Query: 125 LKEVKRQGFDRPTPIQAQGWPIAMSGSNMVGVAQTGSGKTLAYMLPAIVHINHQSQLKPG 184
LK +K GF T IQ + + G +++ A+TGSGKTLA+++PA V + + + P
Sbjct: 66 LKAIKEMGFTNMTEIQHKSIRPLLEGRDLLAAAKTGSGKTLAFLIPA-VELIVKLRFMPR 124
Query: 185 DGPIVLVLAPTRELAQQIQEVARDFGSSTYLRSTCVYGGASKGPQPDR 232
+G VL+L+PTRELA Q V ++ + + GG+++ + +
Sbjct: 125 NGTGVLILSPTRELAMQTFGVLKELMTHHVHTYGLIMGGSNRSAEAQK 172
>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 = 64.7 bits (156), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 39/119 (32%), Positives = 63/119 (52%), Gaps = 11/119 (9%)
Query: 113 TEFAEANFPDYVLKEVKRQGFDRPTPIQAQGWPIAMSGSNMVGVAQTGSGKTLAYMLPAI 172
T+F F ++++ +K F +PT IQ + P A+ G + VG +QTG+GKT AY+LP
Sbjct: 4 TQFTRFPFQPFIIEAIKTLRFYKPTEIQERIIPGALRGESXVGQSQTGTGKTHAYLLPI- 62
Query: 173 VHINHQSQLKPGDGPI-VLVLAPTRELAQQIQ----EVARDFGSSTYLRSTCVYGGASK 226
++KP + ++ APTRELA QI ++ + + + C+ GG K
Sbjct: 63 -----XEKIKPERAEVQAVITAPTRELATQIYHETLKITKFCPKDRXIVARCLIGGTDK 116
>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 = 63.2 bits (152), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 34/108 (31%), Positives = 62/108 (57%), Gaps = 14/108 (12%)
Query: 120 FPDYVLKE-----VKRQGFDRPTPIQAQGWPIAMSGSNMVGVAQTGSGKTLAYMLPAIVH 174
F DY LK + G+++P+PIQ + PIA+SG +++ A+ G+GK+ AY++P +
Sbjct: 5 FEDYCLKRELLMGIFEMGWEKPSPIQEESIPIALSGRDILARAKNGTGKSGAYLIPLLER 64
Query: 175 INHQSQLKPGDGPIVLVLAPTRELAQQIQ----EVARDFGSSTYLRST 218
++ + D +V+ PTRELA Q+ +V++ G + + +T
Sbjct: 65 LDLKK-----DNIQAMVIVPTRELALQVSQICIQVSKHMGGAKVMATT 107
Score = 30.8 bits (68), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 13/30 (43%), Positives = 20/30 (66%)
Query: 231 DRQVLMWSATWPREVQKLAEDFLDSYIQIN 260
+RQ+L++SAT+P VQK L+ +IN
Sbjct: 177 NRQILLYSATFPLSVQKFMNSHLEKPYEIN 206
>pdb|3BOR|A Chain A, Crystal Structure Of The Deadc Domain Of Human Translation
Initiation Factor 4a-2
Length = 237
Score = 62.0 bits (149), Expect = 7e-10, Method: Compositional matrix adjust.
Identities = 37/117 (31%), Positives = 64/117 (54%), Gaps = 7/117 (5%)
Query: 103 TLKGNAPNPITEFAEANFPDYVLKEVKRQGFDRPTPIQAQGWPIAMSGSNMVGVAQTGSG 162
++ N + F + N + +L+ + GF++P+ IQ + + G +++ AQ+G+G
Sbjct: 20 VIESNWNEIVDNFDDMNLKESLLRGIYAYGFEKPSAIQQRAIIPCIKGYDVIAQAQSGTG 79
Query: 163 KTLAYMLPAIVHINHQSQLKPGDGPIVLVLAPTRELAQQIQEVARDFGSSTYLRSTC 219
KT + + I Q +++ + LVLAPTRELAQQIQ+V G Y+ +TC
Sbjct: 80 KTATFA----ISILQQLEIEFKETQ-ALVLAPTRELAQQIQKVILALGD--YMGATC 129
>pdb|2KBE|A Chain A, Solution Structure Of Amino-Terminal Domain Of Dbp5p
Length = 226
Score = 59.7 bits (143), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 39/128 (30%), Positives = 65/128 (50%), Gaps = 10/128 (7%)
Query: 115 FAEANFPDYVLKEVKRQGFDRPTPIQAQGWPIAMSG--SNMVGVAQTGSGKTLAYMLPAI 172
F E +LK + F +P+ IQ + P+ + NM+ +Q+G+GKT A+ L +
Sbjct: 24 FDELGLAPELLKGIYAMKFQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAAFSLTML 83
Query: 173 VHINHQSQLKPGDG-PIVLVLAPTRELAQQIQEVARDFGSSTYLRSTCVYGGA-SKGPQP 230
+N P D P + LAP+RELA+Q EV ++ G T + S + + K Q
Sbjct: 84 TRVN------PEDASPQAICLAPSRELARQTLEVVQEMGKFTKITSQLIVPDSFEKNKQI 137
Query: 231 DRQVLMWS 238
+ QV++ +
Sbjct: 138 NAQVIVGT 145
>pdb|1OYY|A Chain A, Structure Of The Recq Catalytic Core Bound To Atp-Gamma-S
Length = 523
Score = 59.3 bits (142), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 34/122 (27%), Positives = 56/122 (45%)
Query: 283 EKENKLFGLLNDISSKDENKTIIFAETKRKVDKITKSIQNYGWAAVGIHGDKSQQERDYV 342
EK L L+ + + II+ ++ KV+ +Q+ G +A H R V
Sbjct: 219 EKFKPLDQLMRYVQEQRGKSGIIYCNSRAKVEDTAARLQSKGISAAAYHAGLENNVRADV 278
Query: 343 LKEFRNGRAGILVATDVAARGLDVDDVKFVINFDYPNNSEDYIHRIGRTGRSDNTGTSYT 402
++F+ I+VAT G++ +V+FV++FD P N E Y GR GR +
Sbjct: 279 QEKFQRDDLQIVVATVAFGMGINKPNVRFVVHFDIPRNIESYYQETGRAGRDGLPAEAML 338
Query: 403 FF 404
F+
Sbjct: 339 FY 340
>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 = 58.2 bits (139), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 31/90 (34%), Positives = 52/90 (57%), Gaps = 11/90 (12%)
Query: 124 VLKEVKRQGFDRPTPIQAQGWPIAMSGSNMVGVAQTGSGKTLAY---MLPAIVHINHQSQ 180
VL+ ++ GF+RP+P+Q + P+ G +++ A++G+GKT + L ++V N +Q
Sbjct: 35 VLEGLRAAGFERPSPVQLKAIPLGRCGLDLIVQAKSGTGKTCVFSTIALDSLVLENLSTQ 94
Query: 181 LKPGDGPIVLVLAPTRELAQQIQEVARDFG 210
+L+LAPTRE+A QI V G
Sbjct: 95 --------ILILAPTREIAVQIHSVITAIG 116
>pdb|1OYW|A Chain A, Structure Of The Recq Catalytic Core
Length = 523
Score = 57.4 bits (137), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 34/122 (27%), Positives = 55/122 (45%)
Query: 283 EKENKLFGLLNDISSKDENKTIIFAETKRKVDKITKSIQNYGWAAVGIHGDKSQQERDYV 342
EK L L + + II+ ++ KV+ +Q+ G +A H R V
Sbjct: 219 EKFKPLDQLXRYVQEQRGKSGIIYCNSRAKVEDTAARLQSKGISAAAYHAGLENNVRADV 278
Query: 343 LKEFRNGRAGILVATDVAARGLDVDDVKFVINFDYPNNSEDYIHRIGRTGRSDNTGTSYT 402
++F+ I+VAT G++ +V+FV++FD P N E Y GR GR +
Sbjct: 279 QEKFQRDDLQIVVATVAFGXGINKPNVRFVVHFDIPRNIESYYQETGRAGRDGLPAEAXL 338
Query: 403 FF 404
F+
Sbjct: 339 FY 340
Score = 31.6 bits (70), Expect = 0.99, Method: Compositional matrix adjust.
Identities = 14/42 (33%), Positives = 24/42 (57%)
Query: 132 GFDRPTPIQAQGWPIAMSGSNMVGVAQTGSGKTLAYMLPAIV 173
G+ + P Q + +SG + + V TG GK+L Y +PA++
Sbjct: 22 GYQQFRPGQEEIIDTVLSGRDCLVVXPTGGGKSLCYQIPALL 63
>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 = 57.4 bits (137), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 40/129 (31%), Positives = 61/129 (47%), Gaps = 9/129 (6%)
Query: 274 QVVEVCAEHEKENKLFGLLND-ISSKDENKTIIFAETKRKVDKITKSIQNYGWAAVGIHG 332
Q E+ +H K +KL ++ + + K +K I+F + KI + G A G
Sbjct: 334 QAKEIGLDHPKMDKLKEIIREQLQRKQNSKIIVFTNYRETAKKIVNELVKDGIKAKRFVG 393
Query: 333 DKS--------QQERDYVLKEFRNGRAGILVATDVAARGLDVDDVKFVINFDYPNNSEDY 384
S Q+E+ +L EF G +LVAT V GLDV +V V+ ++ ++
Sbjct: 394 QASKENDRGLSQREQKLILDEFARGEFNVLVATSVGEEGLDVPEVDLVVFYEPVPSAIRS 453
Query: 385 IHRIGRTGR 393
I R GRTGR
Sbjct: 454 IQRRGRTGR 462
>pdb|1QVA|A Chain A, Yeast Initiation Factor 4a N-Terminal Domain
Length = 223
Score = 57.4 bits (137), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 36/132 (27%), Positives = 64/132 (48%), Gaps = 5/132 (3%)
Query: 94 QAFRDKHQMTLKGNAPNPITEFAEANFPDYVLKEVKRQGFDRPTPIQAQGWPIAMSGSNM 153
+ D + ++ N + +F + + +L+ V GF+ P+ IQ + + G ++
Sbjct: 2 EGITDIEESQIQTNYQKVVYKFDDMELDEQLLRGVFGYGFEEPSAIQQRAIMPIIEGHDV 61
Query: 154 VGVAQTGSGKTLAYMLPAIVHINHQSQLKPGDGPIVLVLAPTRELAQQIQEVARDFGSST 213
+ AQ+G+GKT + + A+ I+ + P L+LAPTRELA QIQ+V
Sbjct: 62 LAQAQSGTGKTGTFSIAALQRIDTSVK-----APQALMLAPTRELALQIQKVVMALAFHM 116
Query: 214 YLRSTCVYGGAS 225
++ GG S
Sbjct: 117 DIKVHACIGGTS 128
>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 = 57.0 bits (136), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 34/117 (29%), Positives = 57/117 (48%), Gaps = 7/117 (5%)
Query: 103 TLKGNAPNPITEFAEANFPDYVLKEVKRQGFDRPTPIQAQGWPIAMSGSNMVGVAQTGSG 162
++ N + F + N + +L+ + GF+ P+ IQ + + G +++ AQ+G+G
Sbjct: 5 VIESNWNEIVDSFDDMNLSESLLRGIYAYGFEXPSAIQQRAILPCIXGYDVIAQAQSGTG 64
Query: 163 KTLAYMLPAIVHINHQSQLKPGDGPIVLVLAPTRELAQQIQEVARDFGSSTYLRSTC 219
T + + + I LVLAPTRELAQQIQ V G Y+ ++C
Sbjct: 65 XTATFAISILQQIELDLXATQA-----LVLAPTRELAQQIQXVVMALGD--YMGASC 114
>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 = 56.6 bits (135), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 35/122 (28%), Positives = 61/122 (50%), Gaps = 5/122 (4%)
Query: 104 LKGNAPNPITEFAEANFPDYVLKEVKRQGFDRPTPIQAQGWPIAMSGSNMVGVAQTGSGK 163
++ N + +F + + +L+ V GF+ P+ IQ + + G +++ AQ+G+GK
Sbjct: 5 IQTNYDKVVYKFDDMELDENLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGK 64
Query: 164 TLAYMLPAIVHINHQSQLKPGDGPIVLVLAPTRELAQQIQEVARDFGSSTYLRSTCVYGG 223
T + + A+ I+ + P L+LAPTRELA QIQ+V ++ GG
Sbjct: 65 TGTFSIAALQRIDTSVK-----APQALMLAPTRELALQIQKVVMALAFHMDIKVHACIGG 119
Query: 224 AS 225
S
Sbjct: 120 TS 121
>pdb|3FMO|B Chain B, Crystal Structure Of The Nucleoporin Nup214 In Complex
With The Dead- Box Helicase Ddx19
Length = 300
Score = 55.1 bits (131), Expect = 8e-08, Method: Compositional matrix adjust.
Identities = 33/102 (32%), Positives = 54/102 (52%), Gaps = 9/102 (8%)
Query: 112 ITEFAEANFPDYVLKEVKRQGFDRPTPIQAQGWPIAMSG--SNMVGVAQTGSGKTLAYML 169
+ F E +L+ V GF+RP+ IQ P+ ++ N++ +Q+G+GKT A++L
Sbjct: 91 VKSFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVL 150
Query: 170 PAIVHINHQSQLKPGDG-PIVLVLAPTRELAQQIQEVARDFG 210
+ SQ++P + P L L+PT ELA Q +V G
Sbjct: 151 AML------SQVEPANKYPQCLCLSPTYELALQTGKVIEQMG 186
>pdb|3FHC|B Chain B, Crystal Structure Of Human Dbp5 In Complex With Nup214
Length = 235
Score = 54.3 bits (129), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 33/102 (32%), Positives = 54/102 (52%), Gaps = 9/102 (8%)
Query: 112 ITEFAEANFPDYVLKEVKRQGFDRPTPIQAQGWPIAMSG--SNMVGVAQTGSGKTLAYML 169
+ F E +L+ V GF+RP+ IQ P+ ++ N++ +Q+G+GKT A++L
Sbjct: 24 VKSFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVL 83
Query: 170 PAIVHINHQSQLKPGDG-PIVLVLAPTRELAQQIQEVARDFG 210
+ SQ++P + P L L+PT ELA Q +V G
Sbjct: 84 AML------SQVEPANKYPQCLCLSPTYELALQTGKVIEQMG 119
>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 = 53.5 bits (127), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 27/101 (26%), Positives = 51/101 (50%)
Query: 304 IIFAETKRKVDKITKSIQNYGWAAVGIHGDKSQQERDYVLKEFRNGRAGILVATDVAARG 363
II+ +++ +++T S+QN G A H + +++ V +++ ++VAT G
Sbjct: 271 IIYCFSQKDSEQVTVSLQNLGIHAGAYHANLEPEDKTTVHRKWSANEIQVVVATVAFGMG 330
Query: 364 LDVDDVKFVINFDYPNNSEDYIHRIGRTGRSDNTGTSYTFF 404
+D DV+FVI+ + E+Y GR GR D ++
Sbjct: 331 IDKPDVRFVIHHSMSKSMENYYQESGRAGRDDMKADCILYY 371
Score = 37.4 bits (85), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 25/87 (28%), Positives = 40/87 (45%), Gaps = 12/87 (13%)
Query: 133 FDRPTPIQAQGWPIAMSGSNMVGVAQTGSGKTLAYMLPAIVHINHQSQLKPGDGPIVLVL 192
++ P+Q + + M+G + V TG GK+L Y LPA+ DG LV+
Sbjct: 42 LEKFRPLQLETINVTMAGKEVFLVMPTGGGKSLCYQLPALC----------SDG-FTLVI 90
Query: 193 APTRELAQQIQEVARDFG-SSTYLRST 218
P L + V + G S+T L ++
Sbjct: 91 CPLISLMEDQLMVLKQLGISATMLNAS 117
>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 = 52.4 bits (124), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 42/127 (33%), Positives = 68/127 (53%), Gaps = 19/127 (14%)
Query: 118 ANFPDYVLK-EVKRQ----GFDRPTPIQAQGWPIAMSGSNMVGVAQTGSGKTLAYMLPAI 172
+ F D++LK E+ R GF+ P+ +Q + P A+ G +++ A++G GKT ++L +
Sbjct: 14 SGFRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATL 73
Query: 173 VHINHQSQLKPGDGPI-VLVLAPTRELAQQIQEVARDFGSSTYL---RSTCVYGGASKGP 228
QL+P G + VLV+ TRELA QI + F S Y+ + +GG S
Sbjct: 74 ------QQLEPVTGQVSVLVMCHTRELAFQISKEYERF--SKYMPNVKVAVFFGGLS--I 123
Query: 229 QPDRQVL 235
+ D +VL
Sbjct: 124 KKDEEVL 130
>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 = 48.5 bits (114), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 36/133 (27%), Positives = 64/133 (48%), Gaps = 17/133 (12%)
Query: 281 EHEKENKLFGLLNDISSKDEN--KTIIFAETKRKVDKITKSI-QNYGWAAVGIHGDK--- 334
E+EK KL + + ++ E + IIF +T++ +++ I +N +A VG+
Sbjct: 379 ENEKLTKLRNTIMEQYTRTEESARGIIFTKTRQSAYALSQWITENEKFAEVGVKAHHLIG 438
Query: 335 ----------SQQERDYVLKEFRNGRAGILVATDVAARGLDVDDVKFVINFDYPNNSEDY 384
+Q E+ V+ +FR G+ +L+AT VA GLD+ + VI + N
Sbjct: 439 AGHSSEFKPMTQNEQKEVISKFRTGKINLLIATTVAEEGLDIKECNIVIRYGLVTNEIAM 498
Query: 385 IHRIGRTGRSDNT 397
+ GR R+D +
Sbjct: 499 VQARGR-ARADES 510
>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 = 46.2 bits (108), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 31/109 (28%), Positives = 53/109 (48%), Gaps = 5/109 (4%)
Query: 285 ENKLFGLLNDISSKDENKTIIFAETKRKVDKITKSIQNYGWAAVGIHGDKSQQERDYVLK 344
+NK+ L + ++K IIF V +I+K + I S++ER+ +L+
Sbjct: 334 KNKIRKLREILERHRKDKIIIFTRHNELVYRISKV-----FLIPAITHRTSREEREEILE 388
Query: 345 EFRNGRAGILVATDVAARGLDVDDVKFVINFDYPNNSEDYIHRIGRTGR 393
FR GR +V++ V G+DV D + ++ +YI R+GR R
Sbjct: 389 GFRTGRFRAIVSSQVLDEGIDVPDANVGVIMSGSGSAREYIQRLGRILR 437
>pdb|3UWX|B Chain B, Crystal Structure Of Uvra-Uvrb Complex
Length = 683
Score = 45.8 bits (107), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 27/116 (23%), Positives = 56/116 (48%), Gaps = 6/116 (5%)
Query: 286 NKLFGLLNDISSKDENKTIIFAETKRKVDKITKSIQNYGWAAVGIHGDKSQQERDYVLKE 345
+ L G +++ ++E +T++ TK+ + +T ++ G +H + ER ++++
Sbjct: 457 DDLIGEIHERVERNE-RTLVTTLTKKMAEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRD 515
Query: 346 FRNGRAGILVATDVAARGLDVDDVKFVINFD-----YPNNSEDYIHRIGRTGRSDN 396
R G+ +LV ++ GLD+ +V V D + + I IGR R+ N
Sbjct: 516 LRLGKYDVLVGINLLREGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAARNAN 571
>pdb|1D9Z|A Chain A, Crystal Structure Of The Dna Repair Protein Uvrb In
Complex With Atp
Length = 657
Score = 45.4 bits (106), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 27/116 (23%), Positives = 55/116 (47%), Gaps = 6/116 (5%)
Query: 286 NKLFGLLNDISSKDENKTIIFAETKRKVDKITKSIQNYGWAAVGIHGDKSQQERDYVLKE 345
+ L G + + ++E +T++ TK+ + +T ++ G +H + ER ++++
Sbjct: 431 DDLIGEIRERVERNE-RTLVTTLTKKMAEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRD 489
Query: 346 FRNGRAGILVATDVAARGLDVDDVKFVINFD-----YPNNSEDYIHRIGRTGRSDN 396
R G+ +LV ++ GLD+ +V V D + + I IGR R+ N
Sbjct: 490 LRLGKYDVLVGINLLREGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAARNAN 545
>pdb|1D9X|A Chain A, Crystal Structure Of The Dna Repair Protein Uvrb
Length = 658
Score = 45.4 bits (106), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 27/116 (23%), Positives = 55/116 (47%), Gaps = 6/116 (5%)
Query: 286 NKLFGLLNDISSKDENKTIIFAETKRKVDKITKSIQNYGWAAVGIHGDKSQQERDYVLKE 345
+ L G + + ++E +T++ TK+ + +T ++ G +H + ER ++++
Sbjct: 432 DDLIGEIRERVERNE-RTLVTTLTKKMAEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRD 490
Query: 346 FRNGRAGILVATDVAARGLDVDDVKFVINFD-----YPNNSEDYIHRIGRTGRSDN 396
R G+ +LV ++ GLD+ +V V D + + I IGR R+ N
Sbjct: 491 LRLGKYDVLVGINLLREGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAARNAN 546
>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 = 45.4 bits (106), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 27/116 (23%), Positives = 55/116 (47%), Gaps = 6/116 (5%)
Query: 286 NKLFGLLNDISSKDENKTIIFAETKRKVDKITKSIQNYGWAAVGIHGDKSQQERDYVLKE 345
+ L G + + ++E +T++ TK+ + +T ++ G +H + ER ++++
Sbjct: 432 DDLIGEIRERVERNE-RTLVTTLTKKMAEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRD 490
Query: 346 FRNGRAGILVATDVAARGLDVDDVKFVINFD-----YPNNSEDYIHRIGRTGRSDN 396
R G+ +LV ++ GLD+ +V V D + + I IGR R+ N
Sbjct: 491 LRLGKYDVLVGINLLREGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAARNAN 546
>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 = 45.4 bits (106), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 27/116 (23%), Positives = 55/116 (47%), Gaps = 6/116 (5%)
Query: 286 NKLFGLLNDISSKDENKTIIFAETKRKVDKITKSIQNYGWAAVGIHGDKSQQERDYVLKE 345
+ L G + + ++E +T++ TK+ + +T ++ G +H + ER ++++
Sbjct: 432 DDLIGEIRERVERNE-RTLVTTLTKKMAEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRD 490
Query: 346 FRNGRAGILVATDVAARGLDVDDVKFVINFD-----YPNNSEDYIHRIGRTGRSDN 396
R G+ +LV ++ GLD+ +V V D + + I IGR R+ N
Sbjct: 491 LRLGKYDVLVGINLLREGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAARNAN 546
>pdb|3TBK|A Chain A, Mouse Rig-I Atpase Domain
Length = 555
Score = 45.4 bits (106), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 36/113 (31%), Positives = 55/113 (48%), Gaps = 14/113 (12%)
Query: 298 KDENKTIIFAETKRKVDKITKSIQN---YGWAAVGIHGDKSQQER---------DYVLKE 345
K E KTI+F +T+ VD + K I+ + GI + + R VL+
Sbjct: 387 KPETKTILFVKTRALVDALKKWIEENPALSFLKPGILTGRGRTNRATGXTLPAQKCVLEA 446
Query: 346 FR-NGRAGILVATDVAARGLDVDDVKFVINFDYPNNSEDYIHRIGRTGRSDNT 397
FR +G IL+AT VA G+D+ + VI ++Y N I GR GR+ ++
Sbjct: 447 FRASGDNNILIATSVADEGIDIAECNLVILYEYVGNVIKXIQTRGR-GRARDS 498
>pdb|2FZL|A Chain A, Structure Of C-Terminal Domain Of Archaeoglobus Fulgidus
Xpb
Length = 219
Score = 44.7 bits (104), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 31/109 (28%), Positives = 53/109 (48%), Gaps = 5/109 (4%)
Query: 285 ENKLFGLLNDISSKDENKTIIFAETKRKVDKITKSIQNYGWAAVGIHGDKSQQERDYVLK 344
+NK+ L + ++K IIF V +I+K + I S++ER+ +L+
Sbjct: 99 KNKIRKLREILERHRKDKIIIFTRHNELVYRISKV-----FLIPAITHRTSREEREEILE 153
Query: 345 EFRNGRAGILVATDVAARGLDVDDVKFVINFDYPNNSEDYIHRIGRTGR 393
FR GR +V++ V G+DV D + ++ +YI R+GR R
Sbjct: 154 GFRTGRFRAIVSSQVLDEGIDVPDANVGVIMSGSGSAREYIQRLGRILR 202
>pdb|4I1S|A Chain A, Melanoma Differentiation Associated Protein-5 Helicase
Domain Complex With Inhibitor Non-structural Protein V
Length = 243
Score = 42.0 bits (97), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 31/111 (27%), Positives = 55/111 (49%), Gaps = 16/111 (14%)
Query: 281 EHEKENKLFGLLNDISSKDEN--KTIIFAETKRKVDKITKSI-QNYGWAAVGIHGD---- 333
E+EK KL + + ++ E + IIF +T++ +++ I N +A VG+
Sbjct: 129 ENEKLTKLRNTIXEHFTRTEESARGIIFTKTRQSAYALSQWITDNKKFAEVGVKAHHLIG 188
Query: 334 ---------KSQQERDYVLKEFRNGRAGILVATDVAARGLDVDDVKFVINF 375
+Q E+ V+ +FR G+ +L+AT VA GLD+ + VI +
Sbjct: 189 AGHSSEFKPXTQNEQREVISKFRTGKINLLIATTVAEEGLDIKECNIVIRY 239
>pdb|1GM5|A Chain A, Structure Of Recg Bound To Three-Way Dna Junction
Length = 780
Score = 41.6 bits (96), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 26/77 (33%), Positives = 39/77 (50%), Gaps = 3/77 (3%)
Query: 330 IHGDKSQQERDYVLKEFRNGRAGILVATDVAARGLDVDDVKFVINFDYPNNSEDYIHRI- 388
+HG SQ+E+D V+ EF GR ILV+T V G+DV ++ + +H++
Sbjct: 619 MHGRLSQEEKDRVMLEFAEGRYDILVSTTVIEVGIDVPRANVMVIENPERFGLAQLHQLR 678
Query: 389 GRTGRSDNTGTSYTFFT 405
GR GR +Y F
Sbjct: 679 GRVGRGGQ--EAYCFLV 693
>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 = 40.8 bits (94), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 26/117 (22%), Positives = 55/117 (47%), Gaps = 7/117 (5%)
Query: 285 ENKLFGLLNDISSKDE--NKTIIFAETKRKVDKITKSIQNYGWAAVGIHGDKSQQERDYV 342
E ++ L+ +I ++ E + ++ TK+ + +T ++ G +H + ER +
Sbjct: 434 EGQIDDLIGEIQARIERNERVLVTTLTKKMSEDLTDYLKEIGIKVNYLHSEIKTLERIEI 493
Query: 343 LKEFRNGRAGILVATDVAARGLDVDDVKFVINFD-----YPNNSEDYIHRIGRTGRS 394
+++ R G+ +LV ++ GLD+ +V V D + + I IGR R+
Sbjct: 494 IRDLRLGKYDVLVGINLLREGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAARN 550
>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 = 40.8 bits (94), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 26/117 (22%), Positives = 55/117 (47%), Gaps = 7/117 (5%)
Query: 285 ENKLFGLLNDISSKDE--NKTIIFAETKRKVDKITKSIQNYGWAAVGIHGDKSQQERDYV 342
E ++ L+ +I ++ E + ++ TK+ + +T ++ G +H + ER +
Sbjct: 428 EGQIDDLIGEIQARIERNERVLVTTLTKKMSEDLTDYLKEIGIKVNYLHSEIKTLERIEI 487
Query: 343 LKEFRNGRAGILVATDVAARGLDVDDVKFVINFD-----YPNNSEDYIHRIGRTGRS 394
+++ R G+ +LV ++ GLD+ +V V D + + I IGR R+
Sbjct: 488 IRDLRLGKYDVLVGINLLREGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAARN 544
>pdb|4AY2|A Chain A, Capturing 5' Tri-Phosphorylated Rna Duplex By Rig-I
Length = 687
Score = 37.0 bits (84), Expect = 0.024, Method: Compositional matrix adjust.
Identities = 37/150 (24%), Positives = 61/150 (40%), Gaps = 16/150 (10%)
Query: 285 ENKLFGLLNDISSKDENKTIIFAETKRKVDKITKSIQ---NYGWAAVGIHGDKSQQERD- 340
E+ F L + E TI+F +T+ VD + I+ + GI + + ++
Sbjct: 374 EDLCFILQEEYHLNPETITILFVKTRALVDALKNWIEGNPKLSFLKPGILTGRGKTNQNT 433
Query: 341 --------YVLKEFR-NGRAGILVATDVAARGLDVDDVKFVINFDYPNNSEDYIHRIGRT 391
+L F+ +G IL+AT VA G+D+ VI ++Y N I I
Sbjct: 434 GMTLPAQKCILDAFKASGDHNILIATSVADEGIDIAQCNLVILYEYVGN---VIKMIQTR 490
Query: 392 GRSDNTGTSYTFFTQQNSRQAKDLIDVLTE 421
GR G+ T K+ I++ E
Sbjct: 491 GRGRARGSKCFLLTSNAGVIEKEQINMYKE 520
>pdb|3TMI|A Chain A, Structural Basis For Rna Recognition And Activation Of
Rig-I
Length = 695
Score = 37.0 bits (84), Expect = 0.025, Method: Compositional matrix adjust.
Identities = 37/150 (24%), Positives = 61/150 (40%), Gaps = 16/150 (10%)
Query: 285 ENKLFGLLNDISSKDENKTIIFAETKRKVDKITKSIQ---NYGWAAVGIHGDKSQQERD- 340
E+ F L + E TI+F +T+ VD + I+ + GI + + ++
Sbjct: 382 EDLCFILQEEYHLNPETITILFVKTRALVDALKNWIEGNPKLSFLKPGILTGRGKTNQNT 441
Query: 341 --------YVLKEFR-NGRAGILVATDVAARGLDVDDVKFVINFDYPNNSEDYIHRIGRT 391
+L F+ +G IL+AT VA G+D+ VI ++Y N I I
Sbjct: 442 GMTLPAQKCILDAFKASGDHNILIATSVADEGIDIAQCNLVILYEYVGN---VIKMIQTR 498
Query: 392 GRSDNTGTSYTFFTQQNSRQAKDLIDVLTE 421
GR G+ T K+ I++ E
Sbjct: 499 GRGRARGSKCFLLTSNAGVIEKEQINMYKE 528
>pdb|2YKG|A Chain A, Structural Insights Into Rna Recognition By Rig-I
Length = 696
Score = 36.6 bits (83), Expect = 0.027, Method: Compositional matrix adjust.
Identities = 37/150 (24%), Positives = 61/150 (40%), Gaps = 16/150 (10%)
Query: 285 ENKLFGLLNDISSKDENKTIIFAETKRKVDKITKSIQ---NYGWAAVGIHGDKSQQERD- 340
E+ F L + E TI+F +T+ VD + I+ + GI + + ++
Sbjct: 383 EDLCFILQEEYHLNPETITILFVKTRALVDALKNWIEGNPKLSFLKPGILTGRGKTNQNT 442
Query: 341 --------YVLKEFR-NGRAGILVATDVAARGLDVDDVKFVINFDYPNNSEDYIHRIGRT 391
+L F+ +G IL+AT VA G+D+ VI ++Y N I I
Sbjct: 443 GMTLPAQKCILDAFKASGDHNILIATSVADEGIDIAQCNLVILYEYVGN---VIKMIQTR 499
Query: 392 GRSDNTGTSYTFFTQQNSRQAKDLIDVLTE 421
GR G+ T K+ I++ E
Sbjct: 500 GRGRARGSKCFLLTSNAGVIEKEQINMYKE 529
>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 = 36.2 bits (82), Expect = 0.038, Method: Compositional matrix adjust.
Identities = 33/128 (25%), Positives = 60/128 (46%), Gaps = 15/128 (11%)
Query: 281 EHEKENKLFGLLNDISSKD-ENKTIIFAETKRKVDKITKSIQ-----NYGWAAVGIHGDK 334
E+ K +L +L+D + + +T++FA+T+ V + K ++ NY V + +
Sbjct: 611 ENPKLEELVCILDDAYRYNPQTRTLLFAKTRALVSALKKCMEENPILNYIKPGVLMGRGR 670
Query: 335 SQQ-------ERDYVLKEFRNGRAG-ILVATDVAARGLDVDDVKFVINFDYPNNSEDYIH 386
Q + VL F+ + +L+AT VA G+D+ V+ ++Y N I
Sbjct: 671 RDQTTGMTLPSQKGVLDAFKTSKDNRLLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQ 730
Query: 387 RIGRTGRS 394
GR GR+
Sbjct: 731 VRGR-GRA 737
>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 = 36.2 bits (82), Expect = 0.038, Method: Compositional matrix adjust.
Identities = 33/128 (25%), Positives = 60/128 (46%), Gaps = 15/128 (11%)
Query: 281 EHEKENKLFGLLNDISSKD-ENKTIIFAETKRKVDKITKSIQ-----NYGWAAVGIHGDK 334
E+ K +L +L+D + + +T++FA+T+ V + K ++ NY V + +
Sbjct: 611 ENPKLEELVCILDDAYRYNPQTRTLLFAKTRALVSALKKCMEENPILNYIKPGVLMGRGR 670
Query: 335 SQQ-------ERDYVLKEFRNGRAG-ILVATDVAARGLDVDDVKFVINFDYPNNSEDYIH 386
Q + VL F+ + +L+AT VA G+D+ V+ ++Y N I
Sbjct: 671 RDQTTGMTLPSQKGVLDAFKTSKDNRLLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQ 730
Query: 387 RIGRTGRS 394
GR GR+
Sbjct: 731 VRGR-GRA 737
>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 = 35.8 bits (81), Expect = 0.045, Method: Compositional matrix adjust.
Identities = 33/128 (25%), Positives = 60/128 (46%), Gaps = 15/128 (11%)
Query: 281 EHEKENKLFGLLNDISSKD-ENKTIIFAETKRKVDKITKSIQ-----NYGWAAVGIHGDK 334
E+ K +L +L+D + + +T++FA+T+ V + K ++ NY V + +
Sbjct: 370 ENPKLEELVCILDDAYRYNPQTRTLLFAKTRALVSALKKCMEENPILNYIKPGVLMGRGR 429
Query: 335 SQQ-------ERDYVLKEFRNGRAG-ILVATDVAARGLDVDDVKFVINFDYPNNSEDYIH 386
Q + VL F+ + +L+AT VA G+D+ V+ ++Y N I
Sbjct: 430 RDQTTGMTLPSQKGVLDAFKTSKDNRLLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQ 489
Query: 387 RIGRTGRS 394
GR GR+
Sbjct: 490 VRGR-GRA 496
>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 = 33.9 bits (76), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 20/78 (25%), Positives = 39/78 (50%), Gaps = 2/78 (2%)
Query: 327 AVGIHGDKSQQERDYVLKEFRNGRAGILVATDVAARGLDVDDVKFVINFDYPNNSEDYIH 386
A+G HG ++E + V+ +F + R +LV T + G+D+ +I + +H
Sbjct: 842 AIG-HGQMRERELERVMNDFHHQRFNVLVCTTIIETGIDIPTANTIIIERADHFGLAQLH 900
Query: 387 RI-GRTGRSDNTGTSYTF 403
++ GR GRS + ++
Sbjct: 901 QLRGRVGRSHHQAYAWLL 918
>pdb|1Z6A|A Chain A, Sulfolobus Solfataricus Swi2SNF2 ATPASE CORE DOMAIN
Length = 500
Score = 32.3 bits (72), Expect = 0.56, Method: Compositional matrix adjust.
Identities = 19/70 (27%), Positives = 39/70 (55%), Gaps = 8/70 (11%)
Query: 330 IHGDKSQQERDYVLKEFRNGRAGILVATDVAA--RGLDVDDVKFVINFD------YPNNS 381
++G+ S++ERD ++ +F+N + + V A G+++ VI+FD + +
Sbjct: 372 LYGELSKKERDDIISKFQNNPSVKFIVLSVKAGGFGINLTSANRVIHFDRWWNPAVEDQA 431
Query: 382 EDYIHRIGRT 391
D ++RIG+T
Sbjct: 432 TDRVYRIGQT 441
>pdb|1Z63|A Chain A, Sulfolobus Solfataricus Swi2SNF2 ATPASE CORE IN COMPLEX
With Dsdna
pdb|1Z63|B Chain B, Sulfolobus Solfataricus Swi2SNF2 ATPASE CORE IN COMPLEX
With Dsdna
Length = 500
Score = 32.3 bits (72), Expect = 0.61, Method: Compositional matrix adjust.
Identities = 19/70 (27%), Positives = 38/70 (54%), Gaps = 8/70 (11%)
Query: 330 IHGDKSQQERDYVLKEFRNGRAGILVATDVAARGLDVD--DVKFVINFD------YPNNS 381
++G+ S++ERD ++ +F+N + + V A G ++ VI+FD + +
Sbjct: 372 LYGELSKKERDDIISKFQNNPSVKFIVLSVKAGGFGINLTSANRVIHFDRWWNPAVEDQA 431
Query: 382 EDYIHRIGRT 391
D ++RIG+T
Sbjct: 432 TDRVYRIGQT 441
>pdb|2BHR|A Chain A, Dengue Virus Rna Helicase
pdb|2BHR|B Chain B, Dengue Virus Rna Helicase
pdb|2BMF|A Chain A, Dengue Virus Rna Helicase At 2.4a
pdb|2BMF|B Chain B, Dengue Virus Rna Helicase At 2.4a
Length = 451
Score = 32.0 bits (71), Expect = 0.75, Method: Compositional matrix adjust.
Identities = 20/48 (41%), Positives = 28/48 (58%), Gaps = 7/48 (14%)
Query: 160 GSGKTLAYMLPAIVHINHQSQLKPGDGPIVLVLAPTRELAQQIQEVAR 207
G+GKT Y LPAIV + L+ L+LAPTR +A +++E R
Sbjct: 29 GAGKTKRY-LPAIVREAIKRGLR------TLILAPTRVVAAEMEEALR 69
>pdb|1Z5Z|A Chain A, Sulfolobus Solfataricus Swi2SNF2 ATPASE C-Terminal Domain
pdb|1Z5Z|B Chain B, Sulfolobus Solfataricus Swi2SNF2 ATPASE C-Terminal Domain
Length = 271
Score = 32.0 bits (71), Expect = 0.81, Method: Compositional matrix adjust.
Identities = 19/70 (27%), Positives = 38/70 (54%), Gaps = 8/70 (11%)
Query: 330 IHGDKSQQERDYVLKEFRNGRAGILVATDVAARGLDVD--DVKFVINFD------YPNNS 381
++G+ S++ERD ++ +F+N + + V A G ++ VI+FD + +
Sbjct: 143 LYGELSKKERDDIISKFQNNPSVKFIVLSVKAGGFGINLTSANRVIHFDRWWNPAVEDQA 202
Query: 382 EDYIHRIGRT 391
D ++RIG+T
Sbjct: 203 TDRVYRIGQT 212
>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 = 31.6 bits (70), Expect = 0.94, Method: Compositional matrix adjust.
Identities = 24/90 (26%), Positives = 40/90 (44%), Gaps = 9/90 (10%)
Query: 112 ITEFAEANFPDYVLKEVKRQGFDRPTPIQAQGWPIAMSGSNMVGVAQTGSGKTLAYMLPA 171
+ E AE + Y + +K +G + P QA+ SG N++ T +GKTL +
Sbjct: 3 VEELAE-SISSYAVGILKEEGIEELFPPQAEAVEKVFSGKNLLLAMPTAAGKTLLAEMAM 61
Query: 172 IVHINHQSQLKPGDGPIVLVLAPTRELAQQ 201
+ + +K G L + P R LA +
Sbjct: 62 V-----REAIKGGKS---LYVVPLRALAGE 83
>pdb|2GA9|A Chain A, Crystal Structure Of The Heterodimeric Vaccinia Virus
Polyadenylate Polymerase With Bound Atp-Gamma-S
pdb|3ER8|A Chain A, Crystal Structure Of The Heterodimeric Vaccinia Virus Mrna
Polyadenylate Polymerase Complex With Two Fragments Of
Rna
pdb|3ER8|B Chain B, Crystal Structure Of The Heterodimeric Vaccinia Virus Mrna
Polyadenylate Polymerase Complex With Two Fragments Of
Rna
pdb|3ER9|A Chain A, Crystal Structure Of The Heterodimeric Vaccinia Virus Mrna
Polyadenylate Polymerase Complex With Uu And 3'-deoxy
Atp
pdb|3ERC|A Chain A, Crystal Structure Of The Heterodimeric Vaccinia Virus Mrna
Polyadenylate Polymerase With Three Fragments Of Rna And
3'-Deoxy Atp
pdb|3ERC|B Chain B, Crystal Structure Of The Heterodimeric Vaccinia Virus Mrna
Polyadenylate Polymerase With Three Fragments Of Rna And
3'-Deoxy Atp
Length = 297
Score = 30.8 bits (68), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 21/44 (47%), Gaps = 5/44 (11%)
Query: 370 KFVINFDYPNNSEDYIH-----RIGRTGRSDNTGTSYTFFTQQN 408
K V+NFDYPN DY H R ++ T + F QQ+
Sbjct: 246 KVVVNFDYPNQEYDYFHMYFMLRTVYCNKTFPTTKAKVLFLQQS 289
>pdb|4DCG|A Chain A, Vaccinia Methyltransferase Vp39 Mutant D182a Complexed
With M7g And S-Adenosylhomocysteine
Length = 307
Score = 30.8 bits (68), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 21/44 (47%), Gaps = 5/44 (11%)
Query: 370 KFVINFDYPNNSEDYIH-----RIGRTGRSDNTGTSYTFFTQQN 408
K V+NFDYPN DY H R ++ T + F QQ+
Sbjct: 246 KVVVNFDYPNQEYDYFHMYFMLRTVYCNKTFPTTKAKVLFLQQS 289
>pdb|1JTE|A Chain A, Crystal Structure Analysis Of Vp39 F180w Mutant
pdb|1JTF|A Chain A, Crystal Structure Analysis Of Vp39-f180w Mutant And
M7gpppg Complex
Length = 307
Score = 30.8 bits (68), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 21/44 (47%), Gaps = 5/44 (11%)
Query: 370 KFVINFDYPNNSEDYIH-----RIGRTGRSDNTGTSYTFFTQQN 408
K V+NFDYPN DY H R ++ T + F QQ+
Sbjct: 246 KVVVNFDYPNQEYDYFHMYFMLRTVYCNKTFPTTKAKVLFLQQS 289
>pdb|1VPT|A Chain A, As11 Variant Of Vaccinia Virus Protein Vp39 In Complex
With S- Adenosyl-L-Methionine
Length = 348
Score = 30.8 bits (68), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 21/44 (47%), Gaps = 5/44 (11%)
Query: 370 KFVINFDYPNNSEDYIH-----RIGRTGRSDNTGTSYTFFTQQN 408
K V+NFDYPN DY H R ++ T + F QQ+
Sbjct: 261 KVVVNFDYPNQEYDYFHMYFMLRTVYCNKTFPTTKAKVLFLQQS 304
>pdb|1B42|A Chain A, Vaccinia Methyltransferase Vp39 Complexed With M1ade And
S- Adenosylhomocysteine
pdb|3MCT|A Chain A, Vaccinia Methyltransferase Vp39 Complexed With M3cyt And
S- Adenosylhomocysteine
Length = 297
Score = 30.8 bits (68), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 21/44 (47%), Gaps = 5/44 (11%)
Query: 370 KFVINFDYPNNSEDYIH-----RIGRTGRSDNTGTSYTFFTQQN 408
K V+NFDYPN DY H R ++ T + F QQ+
Sbjct: 246 KVVVNFDYPNQEYDYFHMYFMLRTVYCNKTFPTTKAKVLFLQQS 289
>pdb|1EAM|A Chain A, Vaccinia Methyltransferase Vp39 Mutant (Ec: 2.7.7.19)
Length = 307
Score = 30.8 bits (68), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 21/44 (47%), Gaps = 5/44 (11%)
Query: 370 KFVINFDYPNNSEDYIH-----RIGRTGRSDNTGTSYTFFTQQN 408
K V+NFDYPN DY H R ++ T + F QQ+
Sbjct: 246 KVVVNFDYPNQEYDYFHMYFMLRTVYCNKTFPTTKAKVLFLQQS 289
>pdb|1AV6|A Chain A, Vaccinia Methyltransferase Vp39 Complexed With M7g Capped
Rna Hexamer And S-Adenosylhomocysteine
Length = 295
Score = 30.8 bits (68), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 21/44 (47%), Gaps = 5/44 (11%)
Query: 370 KFVINFDYPNNSEDYIH-----RIGRTGRSDNTGTSYTFFTQQN 408
K V+NFDYPN DY H R ++ T + F QQ+
Sbjct: 244 KVVVNFDYPNQEYDYFHMYFMLRTVYCNKTFPTTKAKVLFLQQS 287
>pdb|1EQA|A Chain A, Vaccinia Methyltransferase Vp39 Mutant E233q Complexed
With M7g And S-Adenosylhomocysteine
Length = 297
Score = 30.8 bits (68), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 21/44 (47%), Gaps = 5/44 (11%)
Query: 370 KFVINFDYPNNSEDYIH-----RIGRTGRSDNTGTSYTFFTQQN 408
K V+NFDYPN DY H R ++ T + F QQ+
Sbjct: 246 KVVVNFDYPNQEYDYFHMYFMLRTVYCNKTFPTTKAKVLFLQQS 289
>pdb|1JSZ|A Chain A, Crystal Structure Analysis Of N7,9-Dimethylguanine-Vp39
Complex
pdb|1BKY|A Chain A, Vaccinia Methyltransferase Vp39 Complexed With M1cyt And
S- Adenosylhomocysteine
pdb|3MAG|A Chain A, Vaccinia Methyltransferase Vp39 Complexed With M3ade And
S- Adenosylhomocysteine
Length = 307
Score = 30.8 bits (68), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 21/44 (47%), Gaps = 5/44 (11%)
Query: 370 KFVINFDYPNNSEDYIH-----RIGRTGRSDNTGTSYTFFTQQN 408
K V+NFDYPN DY H R ++ T + F QQ+
Sbjct: 246 KVVVNFDYPNQEYDYFHMYFMLRTVYCNKTFPTTKAKVLFLQQS 289
>pdb|1P39|A Chain A, Dc26 Mutant Of Vaccinia Virus Protein Vp39 In Complex With
S- Adenosylhomocysteine And M7g(5')pppg
pdb|1V39|A Chain A, Dc26 Mutant Of Vaccinia Virus Protein Vp39 In Complex With
S- Adenosylhomocysteine And M7g(5')pppg
pdb|1VP9|A Chain A, Dc26 Mutant Of Vaccinia Virus Protein Vp39 In Complex With
S- Adenosylhomocysteine
pdb|2VP3|A Chain A, Dc26 Mutant Of Vaccinia Virus Protein Vp39 In Complex With
S- Adenosylhomocysteine And M7g(5')pppg
Length = 322
Score = 30.8 bits (68), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 21/44 (47%), Gaps = 5/44 (11%)
Query: 370 KFVINFDYPNNSEDYIH-----RIGRTGRSDNTGTSYTFFTQQN 408
K V+NFDYPN DY H R ++ T + F QQ+
Sbjct: 261 KVVVNFDYPNQEYDYFHMYFMLRTVYCNKTFPTTKAKVLFLQQS 304
>pdb|1VP3|A Chain A, Vaccinia Virus Protein Vp39 In Complex With
S-Adenosylhomocysteine
Length = 348
Score = 30.8 bits (68), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 21/44 (47%), Gaps = 5/44 (11%)
Query: 370 KFVINFDYPNNSEDYIH-----RIGRTGRSDNTGTSYTFFTQQN 408
K V+NFDYPN DY H R ++ T + F QQ+
Sbjct: 261 KVVVNFDYPNQEYDYFHMYFMLRTVYCNKTFPTTKAKVLFLQQS 304
>pdb|2GAF|A Chain A, Crystal Structure Of The Vaccinia Polyadenylate Polymerase
Heterodimer (Apo Form)
Length = 297
Score = 30.4 bits (67), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 21/44 (47%), Gaps = 5/44 (11%)
Query: 370 KFVINFDYPNNSEDYIH-----RIGRTGRSDNTGTSYTFFTQQN 408
K V+NFDYPN DY H R ++ T + F QQ+
Sbjct: 246 KVVVNFDYPNQEYDYFHXYFXLRTVYCNKTFPTTKAKVLFLQQS 289
>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 = 29.3 bits (64), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 24/104 (23%), Positives = 44/104 (42%), Gaps = 7/104 (6%)
Query: 295 ISSKDENKTIIF---AETKRKVDKITKSIQNYGWAAVGIHGDKSQQERDYVLKEFRNGRA 351
++S K ++ A T +++++ + + G A H S ERD F
Sbjct: 498 LTSHRSQKVLVICAKAATALQLEQVLR--EREGIRAAVFHEGXSIIERDRAAAWFAEEDT 555
Query: 352 G--ILVATDVAARGLDVDDVKFVINFDYPNNSEDYIHRIGRTGR 393
G +L+ +++ + G + + FD P N + RIGR R
Sbjct: 556 GAQVLLCSEIGSEGRNFQFASHXVXFDLPFNPDLLEQRIGRLDR 599
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
0.316 0.133 0.394
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,970,490
Number of Sequences: 62578
Number of extensions: 505604
Number of successful extensions: 1600
Number of sequences better than 100.0: 108
Number of HSP's better than 100.0 without gapping: 102
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 1361
Number of HSP's gapped (non-prelim): 159
length of query: 453
length of database: 14,973,337
effective HSP length: 102
effective length of query: 351
effective length of database: 8,590,381
effective search space: 3015223731
effective search space used: 3015223731
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 53 (25.0 bits)