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= 008345
(569 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 215 bits (548), Expect = 5e-56, Method: Compositional matrix adjust.
Identities = 114/331 (34%), Positives = 197/331 (59%), Gaps = 13/331 (3%)
Query: 25 FESLNLSPNVFRAIKRKGYKVPTPIQRKTMPLILSGA-DVVAMARTGSGKTAAFLVPMLQ 83
F LNLS N+ AI+ KG++ PT IQ K +PL L+ ++VA ARTGSGKTA+F +P+++
Sbjct: 8 FNELNLSDNILNAIRNKGFEKPTDIQXKVIPLFLNDEYNIVAQARTGSGKTASFAIPLIE 67
Query: 84 RLNQHVPQGGVRALILSPTRDLALQTLKFTKELGRYTDLRISLLVGGDSMESQFEELAQN 143
+N++ G+ A+IL+PTR+LA+Q + L +L+I+ + GG ++ Q + L +N
Sbjct: 68 LVNEN---NGIEAIILTPTRELAIQVADEIESLKGNKNLKIAKIYGGKAIYPQIKAL-KN 123
Query: 144 PDIIIATPGRLMHHLSEVEDMSLKSVEYVVFDEADCLFGMGFAEQLHKILGQLSENRQTL 203
+I++ TPGR++ H++ ++LK+V+Y + DEAD GF + + KIL +++++ L
Sbjct: 124 ANIVVGTPGRILDHINR-GTLNLKNVKYFILDEADEXLNXGFIKDVEKILNACNKDKRIL 182
Query: 204 LFSATLPSALAEFAKAGLRDPHLVRLDVDTKISPDLKLAFFTLRQEEKHAALLYMIREHI 263
LFSAT P + AK D ++ KI+ +++ ++ + + E+ AL +++
Sbjct: 183 LFSATXPREILNLAKKYXGDYSFIK----AKINANIEQSYVEVNENERFEALCRLLK--- 235
Query: 264 SSDQQTLIFVSTKHHVEFLNVLFREEGLEPSVCYGDMDQDARKIHVSRFRARKTMFLIVT 323
+ + L+F TK + L R+ G + +GD+ Q R+ + F+ +K LI T
Sbjct: 236 NKEFYGLVFCKTKRDTKELASXLRDIGFKAGAIHGDLSQSQREKVIRLFKQKKIRILIAT 295
Query: 324 DVAARGIDIPLLDNVINWDFPPKPKIFVHRV 354
DV +RGID+ L+ VIN+ P P+ + HR+
Sbjct: 296 DVXSRGIDVNDLNCVINYHLPQNPESYXHRI 326
>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 = 196 bits (499), Expect = 2e-50, Method: Compositional matrix adjust.
Identities = 116/371 (31%), Positives = 197/371 (53%), Gaps = 5/371 (1%)
Query: 24 GFESLNLSPNVFRAIKRKGYKVPTPIQRKTMPLILSGADVVAMARTGSGKTAAFLVPMLQ 83
F+ +NLS ++ R I G++ P+ IQ++ + + G DV+A A++G+GKTA F + +LQ
Sbjct: 15 SFDDMNLSESLLRGIYAYGFEKPSAIQQRAILPCIKGYDVIAQAQSGTGKTATFAISILQ 74
Query: 84 RLNQHVPQGGVRALILSPTRDLALQTLKFTKELGRYTDLRISLLVGGDSMESQFEELA-Q 142
++ + +AL+L+PTR+LA Q K LG Y +GG ++ ++ ++L +
Sbjct: 75 QIELDLK--ATQALVLAPTRELAQQIQKVVMALGDYMGASCHACIGGTNVRAEVQKLQME 132
Query: 143 NPDIIIATPGRLMHHLSEVEDMSLKSVEYVVFDEADCLFGMGFAEQLHKILGQLSENRQT 202
P II+ TPGR+ L+ +S K ++ V DEAD + GF +Q++ I +L+ N Q
Sbjct: 133 APHIIVGTPGRVFDMLNR-RYLSPKYIKMFVLDEADEMLSRGFKDQIYDIFQKLNSNTQV 191
Query: 203 LLFSATLPSALAEFAKAGLRDPHLVRLDVDTKISPDLKLAFFTLRQEEKHAALLYMIREH 262
+L SAT+PS + E K +RDP + + + ++ + + +EE L + E
Sbjct: 192 VLLSATMPSDVLEVTKKFMRDPIRILVKKEELTLEGIRQFYINVEREEWKLDTLCDLYET 251
Query: 263 ISSDQQTLIFVSTKHHVEFLNVLFREEGLEPSVCYGDMDQDARKIHVSRFRARKTMFLIV 322
++ Q +IF++T+ V++L S +GDMDQ R + + FR+ + LI
Sbjct: 252 LTI-TQAVIFINTRRKVDWLTEKMHARDFTVSAMHGDMDQKERDVIMREFRSGSSRVLIT 310
Query: 323 TDVAARGIDIPLLDNVINWDFPPKPKIFVHRVXXXXXXXXXXXXFSFVTSEDMAYLLDLH 382
TD+ ARGID+ + VIN+D P + ++HR+ + VT ED L D+
Sbjct: 311 TDLLARGIDVQQVSLVINYDLPTNRENYIHRIGRGGRFGRKGVAINMVTEEDKRTLRDIE 370
Query: 383 LFLSKPIRAAP 393
F + I P
Sbjct: 371 TFYNTSIEEMP 381
>pdb|3EIQ|A Chain A, Crystal Structure Of Pdcd4-eif4a
pdb|3EIQ|D Chain D, Crystal Structure Of Pdcd4-eif4a
Length = 414
Score = 196 bits (499), Expect = 2e-50, Method: Compositional matrix adjust.
Identities = 116/370 (31%), Positives = 197/370 (53%), Gaps = 5/370 (1%)
Query: 25 FESLNLSPNVFRAIKRKGYKVPTPIQRKTMPLILSGADVVAMARTGSGKTAAFLVPMLQR 84
F+ +NLS ++ R I G++ P+ IQ++ + + G DV+A A++G+GKTA F + +LQ+
Sbjct: 42 FDDMNLSESLLRGIYAYGFEKPSAIQQRAILPCIKGYDVIAQAQSGTGKTATFAISILQQ 101
Query: 85 LNQHVPQGGVRALILSPTRDLALQTLKFTKELGRYTDLRISLLVGGDSMESQFEELA-QN 143
+ + +AL+L+PTR+LA Q K LG Y +GG ++ ++ ++L +
Sbjct: 102 IELDLK--ATQALVLAPTRELAQQIQKVVMALGDYMGASCHACIGGTNVRAEVQKLQMEA 159
Query: 144 PDIIIATPGRLMHHLSEVEDMSLKSVEYVVFDEADCLFGMGFAEQLHKILGQLSENRQTL 203
P II+ TPGR+ L+ +S K ++ V DEAD + GF +Q++ I +L+ N Q +
Sbjct: 160 PHIIVGTPGRVFDMLNR-RYLSPKYIKMFVLDEADEMLSRGFKDQIYDIFQKLNSNTQVV 218
Query: 204 LFSATLPSALAEFAKAGLRDPHLVRLDVDTKISPDLKLAFFTLRQEEKHAALLYMIREHI 263
L SAT+PS + E K +RDP + + + ++ + + +EE L + E +
Sbjct: 219 LLSATMPSDVLEVTKKFMRDPIRILVKKEELTLEGIRQFYINVEREEWKLDTLCDLYETL 278
Query: 264 SSDQQTLIFVSTKHHVEFLNVLFREEGLEPSVCYGDMDQDARKIHVSRFRARKTMFLIVT 323
+ Q +IF++T+ V++L S +GDMDQ R + + FR+ + LI T
Sbjct: 279 TI-TQAVIFINTRRKVDWLTEKMHARDFTVSAMHGDMDQKERDVIMREFRSGSSRVLITT 337
Query: 324 DVAARGIDIPLLDNVINWDFPPKPKIFVHRVXXXXXXXXXXXXFSFVTSEDMAYLLDLHL 383
D+ ARGID+ + VIN+D P + ++HR+ + VT ED L D+
Sbjct: 338 DLLARGIDVQQVSLVINYDLPTNRENYIHRIGRGGRFGRKGVAINMVTEEDKRTLRDIET 397
Query: 384 FLSKPIRAAP 393
F + I P
Sbjct: 398 FYNTSIEEMP 407
>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 = 196 bits (498), Expect = 3e-50, Method: Compositional matrix adjust.
Identities = 119/363 (32%), Positives = 193/363 (53%), Gaps = 10/363 (2%)
Query: 25 FESLNLSPNVFRAIKRKGYKVPTPIQRKTMPLILSGADVVAMARTGSGKTAAFLVPMLQR 84
F S +L + + + GYK+PTPIQ+ ++P+I SG D++A A+TGSGKTAAFL+P+L +
Sbjct: 58 FTSADLRDIIIDNVNKSGYKIPTPIQKCSIPVISSGRDLMACAQTGSGKTAAFLLPILSK 117
Query: 85 L---NQHVPQGGVRALILSPTRDLALQTLKFTKELGRYTDLRISLLVGGDSMESQFEELA 141
L + G + +I+SPTR+LA+Q ++ + L+I ++ GG S Q E +
Sbjct: 118 LLEDPHELELGRPQVVIVSPTRELAIQIFNEARKFAFESYLKIGIVYGGTSFRHQNECIT 177
Query: 142 QNPDIIIATPGRLMHHLSEVEDMSLKSVEYVVFDEADCLFGMGFAEQLHKILGQLS--EN 199
+ ++IATPGRL+ + ++ + +VV DEAD + MGF+E + +I+ ++
Sbjct: 178 RGCHVVIATPGRLLDFVDRTF-ITFEDTRFVVLDEADRMLDMGFSEDMRRIMTHVTMRPE 236
Query: 200 RQTLLFSATLPSALAEFAKAGLRDPHLVRLDVDTKISPDLKLAFFTLRQEEKHAALLYMI 259
QTL+FSAT P + A L++ V + + D+K + + + K + L+ ++
Sbjct: 237 HQTLMFSATFPEEIQRMAGEFLKNYVFVAIGIVGGACSDVKQTIYEVNKYAKRSKLIEIL 296
Query: 260 REHISSDQQTLIFVSTKHHVEFLNVLFREEGLEPSVCYGDMDQDARKIHVSRFRARKTMF 319
E T++FV TK +FL E+ + +GD Q R+ + F+
Sbjct: 297 SEQADG---TIVFVETKRGADFLASFLSEKEFPTTSIHGDRLQSQREQALRDFKNGSMKV 353
Query: 320 LIVTDVAARGIDIPLLDNVINWDFPPKPKIFVHRVXXXXXXXXXXXXFSFVTSE-DMAYL 378
LI T VA+RG+DI + +VIN+D P K +VHR+ SF E D A
Sbjct: 354 LIATSVASRGLDIKNIKHVINYDMPSKIDDYVHRIGRTGRVGNNGRATSFFDPEKDRAIA 413
Query: 379 LDL 381
DL
Sbjct: 414 ADL 416
>pdb|2J0U|A Chain A, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 191 bits (486), Expect = 7e-49, Method: Compositional matrix adjust.
Identities = 112/369 (30%), Positives = 194/369 (52%), Gaps = 4/369 (1%)
Query: 25 FESLNLSPNVFRAIKRKGYKVPTPIQRKTMPLILSGADVVAMARTGSGKTAAFLVPMLQR 84
F+++ L ++ R I G++ P+ IQ++ + I+ G DV+A +++G+GKTA F V +LQ
Sbjct: 3 FDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSVSVLQC 62
Query: 85 LNQHVPQGGVRALILSPTRDLALQTLKFTKELGRYTDLRISLLVGGDSMESQFEELAQNP 144
L+ V + +ALIL+PTR+LA+Q K LG Y +++ +GG ++ +L
Sbjct: 63 LDIQVRE--TQALILAPTRELAVQVQKGLLALGDYMNVQCHACIGGTNVGEDIRKLDYGQ 120
Query: 145 DIIIATPGRLMHHLSEVEDMSLKSVEYVVFDEADCLFGMGFAEQLHKILGQLSENRQTLL 204
++ TPGR+ + + ++++ +V DEAD + GF EQ++ + L Q +L
Sbjct: 121 HVVAGTPGRVFDMIRR-RSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQVVL 179
Query: 205 FSATLPSALAEFAKAGLRDPHLVRLDVDTKISPDLKLAFFTLRQEEKHAALLYMIREHIS 264
SATLP + E + DP + + D +K F + +EE L + + ++
Sbjct: 180 ISATLPHEILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLT 239
Query: 265 SDQQTLIFVSTKHHVEFLNVLFREEGLEPSVCYGDMDQDARKIHVSRFRARKTMFLIVTD 324
Q +IF +TK V++L RE S +GDM Q R+ + FR+ + LI TD
Sbjct: 240 I-TQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTD 298
Query: 325 VAARGIDIPLLDNVINWDFPPKPKIFVHRVXXXXXXXXXXXXFSFVTSEDMAYLLDLHLF 384
V ARG+D+P + +IN+D P ++++HR+ +FV ++D+ L D+ +
Sbjct: 299 VWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAVNFVKNDDIRVLRDIEQY 358
Query: 385 LSKPIRAAP 393
S I P
Sbjct: 359 YSTQIDEMP 367
>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 = 191 bits (486), Expect = 8e-49, Method: Compositional matrix adjust.
Identities = 111/369 (30%), Positives = 194/369 (52%), Gaps = 4/369 (1%)
Query: 25 FESLNLSPNVFRAIKRKGYKVPTPIQRKTMPLILSGADVVAMARTGSGKTAAFLVPMLQR 84
F+++ L ++ R I G++ P+ IQ++ + I+ G DV+A +++G+GKTA F + +LQ
Sbjct: 40 FDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQC 99
Query: 85 LNQHVPQGGVRALILSPTRDLALQTLKFTKELGRYTDLRISLLVGGDSMESQFEELAQNP 144
L+ V + +ALIL+PTR+LA+Q K LG Y +++ +GG ++ +L
Sbjct: 100 LDIQVRE--TQALILAPTRELAVQIQKGLLALGDYMNVQCHACIGGTNVGEDIRKLDYGQ 157
Query: 145 DIIIATPGRLMHHLSEVEDMSLKSVEYVVFDEADCLFGMGFAEQLHKILGQLSENRQTLL 204
++ TPGR+ + + ++++ +V DEAD + GF EQ++ + L Q +L
Sbjct: 158 HVVAGTPGRVFDMIRR-RSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQVVL 216
Query: 205 FSATLPSALAEFAKAGLRDPHLVRLDVDTKISPDLKLAFFTLRQEEKHAALLYMIREHIS 264
SATLP + E + DP + + D +K F + +EE L + + ++
Sbjct: 217 ISATLPHEILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLT 276
Query: 265 SDQQTLIFVSTKHHVEFLNVLFREEGLEPSVCYGDMDQDARKIHVSRFRARKTMFLIVTD 324
Q +IF +TK V++L RE S +GDM Q R+ + FR+ + LI TD
Sbjct: 277 I-TQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTD 335
Query: 325 VAARGIDIPLLDNVINWDFPPKPKIFVHRVXXXXXXXXXXXXFSFVTSEDMAYLLDLHLF 384
V ARG+D+P + +IN+D P ++++HR+ +FV ++D+ L D+ +
Sbjct: 336 VWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAINFVKNDDIRILRDIEQY 395
Query: 385 LSKPIRAAP 393
S I P
Sbjct: 396 YSTQIDEMP 404
>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 = 191 bits (485), Expect = 9e-49, Method: Compositional matrix adjust.
Identities = 111/369 (30%), Positives = 194/369 (52%), Gaps = 4/369 (1%)
Query: 25 FESLNLSPNVFRAIKRKGYKVPTPIQRKTMPLILSGADVVAMARTGSGKTAAFLVPMLQR 84
F+++ L ++ R I G++ P+ IQ++ + I+ G DV+A +++G+GKTA F + +LQ
Sbjct: 40 FDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQC 99
Query: 85 LNQHVPQGGVRALILSPTRDLALQTLKFTKELGRYTDLRISLLVGGDSMESQFEELAQNP 144
L+ V + +ALIL+PTR+LA+Q K LG Y +++ +GG ++ +L
Sbjct: 100 LDIQVRE--TQALILAPTRELAVQIQKGLLALGDYMNVQCHACIGGTNVGEDIRKLDYGQ 157
Query: 145 DIIIATPGRLMHHLSEVEDMSLKSVEYVVFDEADCLFGMGFAEQLHKILGQLSENRQTLL 204
++ TPGR+ + + ++++ +V DEAD + GF EQ++ + L Q +L
Sbjct: 158 HVVAGTPGRVFDMIRR-RSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQVVL 216
Query: 205 FSATLPSALAEFAKAGLRDPHLVRLDVDTKISPDLKLAFFTLRQEEKHAALLYMIREHIS 264
SATLP + E + DP + + D +K F + +EE L + + ++
Sbjct: 217 ISATLPHEILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLT 276
Query: 265 SDQQTLIFVSTKHHVEFLNVLFREEGLEPSVCYGDMDQDARKIHVSRFRARKTMFLIVTD 324
Q +IF +TK V++L RE S +GDM Q R+ + FR+ + LI TD
Sbjct: 277 I-TQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTD 335
Query: 325 VAARGIDIPLLDNVINWDFPPKPKIFVHRVXXXXXXXXXXXXFSFVTSEDMAYLLDLHLF 384
V ARG+D+P + +IN+D P ++++HR+ +FV ++D+ L D+ +
Sbjct: 336 VWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAINFVKNDDIRILRDIEQY 395
Query: 385 LSKPIRAAP 393
S I P
Sbjct: 396 YSTQIDEMP 404
>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 = 191 bits (485), Expect = 9e-49, Method: Compositional matrix adjust.
Identities = 111/369 (30%), Positives = 194/369 (52%), Gaps = 4/369 (1%)
Query: 25 FESLNLSPNVFRAIKRKGYKVPTPIQRKTMPLILSGADVVAMARTGSGKTAAFLVPMLQR 84
F+++ L ++ R I G++ P+ IQ++ + I+ G DV+A +++G+GKTA F + +LQ
Sbjct: 18 FDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQC 77
Query: 85 LNQHVPQGGVRALILSPTRDLALQTLKFTKELGRYTDLRISLLVGGDSMESQFEELAQNP 144
L+ V + +ALIL+PTR+LA+Q K LG Y +++ +GG ++ +L
Sbjct: 78 LDIQVRE--TQALILAPTRELAVQIQKGLLALGDYMNVQCHACIGGTNVGEDIRKLDYGQ 135
Query: 145 DIIIATPGRLMHHLSEVEDMSLKSVEYVVFDEADCLFGMGFAEQLHKILGQLSENRQTLL 204
++ TPGR+ + + ++++ +V DEAD + GF EQ++ + L Q +L
Sbjct: 136 HVVAGTPGRVFDMIRR-RSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQVVL 194
Query: 205 FSATLPSALAEFAKAGLRDPHLVRLDVDTKISPDLKLAFFTLRQEEKHAALLYMIREHIS 264
SATLP + E + DP + + D +K F + +EE L + + ++
Sbjct: 195 ISATLPHEILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLT 254
Query: 265 SDQQTLIFVSTKHHVEFLNVLFREEGLEPSVCYGDMDQDARKIHVSRFRARKTMFLIVTD 324
Q +IF +TK V++L RE S +GDM Q R+ + FR+ + LI TD
Sbjct: 255 I-TQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTD 313
Query: 325 VAARGIDIPLLDNVINWDFPPKPKIFVHRVXXXXXXXXXXXXFSFVTSEDMAYLLDLHLF 384
V ARG+D+P + +IN+D P ++++HR+ +FV ++D+ L D+ +
Sbjct: 314 VWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAINFVKNDDIRILRDIEQY 373
Query: 385 LSKPIRAAP 393
S I P
Sbjct: 374 YSTQIDEMP 382
>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 = 191 bits (485), Expect = 9e-49, Method: Compositional matrix adjust.
Identities = 111/369 (30%), Positives = 194/369 (52%), Gaps = 4/369 (1%)
Query: 25 FESLNLSPNVFRAIKRKGYKVPTPIQRKTMPLILSGADVVAMARTGSGKTAAFLVPMLQR 84
F+++ L ++ R I G++ P+ IQ++ + I+ G DV+A +++G+GKTA F + +LQ
Sbjct: 39 FDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQC 98
Query: 85 LNQHVPQGGVRALILSPTRDLALQTLKFTKELGRYTDLRISLLVGGDSMESQFEELAQNP 144
L+ V + +ALIL+PTR+LA+Q K LG Y +++ +GG ++ +L
Sbjct: 99 LDIQVRE--TQALILAPTRELAVQIQKGLLALGDYMNVQCHACIGGTNVGEDIRKLDYGQ 156
Query: 145 DIIIATPGRLMHHLSEVEDMSLKSVEYVVFDEADCLFGMGFAEQLHKILGQLSENRQTLL 204
++ TPGR+ + + ++++ +V DEAD + GF EQ++ + L Q +L
Sbjct: 157 HVVAGTPGRVFDMIRR-RSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQVVL 215
Query: 205 FSATLPSALAEFAKAGLRDPHLVRLDVDTKISPDLKLAFFTLRQEEKHAALLYMIREHIS 264
SATLP + E + DP + + D +K F + +EE L + + ++
Sbjct: 216 ISATLPHEILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLT 275
Query: 265 SDQQTLIFVSTKHHVEFLNVLFREEGLEPSVCYGDMDQDARKIHVSRFRARKTMFLIVTD 324
Q +IF +TK V++L RE S +GDM Q R+ + FR+ + LI TD
Sbjct: 276 I-TQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTD 334
Query: 325 VAARGIDIPLLDNVINWDFPPKPKIFVHRVXXXXXXXXXXXXFSFVTSEDMAYLLDLHLF 384
V ARG+D+P + +IN+D P ++++HR+ +FV ++D+ L D+ +
Sbjct: 335 VWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAINFVKNDDIRILRDIEQY 394
Query: 385 LSKPIRAAP 393
S I P
Sbjct: 395 YSTQIDEMP 403
>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 = 190 bits (483), Expect = 2e-48, Method: Compositional matrix adjust.
Identities = 118/379 (31%), Positives = 195/379 (51%), Gaps = 9/379 (2%)
Query: 25 FESLNLSPNVFRAIKRKGYKVPTPIQRKTMPLILSGADVVAMARTGSGKTAAFLVPMLQR 84
F+ + L N+ R + G++ P+ IQ++ + I+ G DV+A A++G+GKT F + LQR
Sbjct: 24 FDDMELDENLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAALQR 83
Query: 85 LNQHV--PQGGVRALILSPTRDLALQTLKFTKELGRYTDLRISLLVGGDSMESQFEELAQ 142
++ V PQ AL+L+PTR+LALQ K L + D+++ +GG S E L +
Sbjct: 84 IDTSVKAPQ----ALMLAPTRELALQIQKVVMALAFHMDIKVHACIGGTSFVEDAEGL-R 138
Query: 143 NPDIIIATPGRLMHHLSEVEDMSLKSVEYVVFDEADCLFGMGFAEQLHKILGQLSENRQT 202
+ I++ TPGR+ ++ ++ + DEAD + GF EQ+++I L Q
Sbjct: 139 DAQIVVGTPGRVFDNIQR-RRFRTDKIKMFILDEADEMLSSGFKEQIYQIFTLLPPTTQV 197
Query: 203 LLFSATLPSALAEFAKAGLRDPHLVRLDVDTKISPDLKLAFFTLRQEEKHAALLYMIREH 262
+L SAT+P+ + E +R+P + + D +K + + +EE L + +
Sbjct: 198 VLLSATMPNDVLEVTTKFMRNPVRILVKKDELTLEGIKQFYVNVEEEEYKYECLTDLYDS 257
Query: 263 ISSDQQTLIFVSTKHHVEFLNVLFREEGLEPSVCYGDMDQDARKIHVSRFRARKTMFLIV 322
IS Q +IF +T+ VE L R + S Y D+ Q R + FR+ + LI
Sbjct: 258 ISV-TQAVIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTIMKEFRSGSSRILIS 316
Query: 323 TDVAARGIDIPLLDNVINWDFPPKPKIFVHRVXXXXXXXXXXXXFSFVTSEDMAYLLDLH 382
TD+ ARGID+ + VIN+D P + ++HR+ +FVT+ED+ + +L
Sbjct: 317 TDLLARGIDVQQVSLVINYDLPANKENYIHRIGRGGRFGRKGVAINFVTNEDVGAMRELE 376
Query: 383 LFLSKPIRAAPSEEEVLLD 401
F S I PS+ LL+
Sbjct: 377 KFYSTQIEELPSDIATLLN 395
>pdb|2J0U|B Chain B, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 190 bits (483), Expect = 2e-48, Method: Compositional matrix adjust.
Identities = 112/369 (30%), Positives = 194/369 (52%), Gaps = 4/369 (1%)
Query: 25 FESLNLSPNVFRAIKRKGYKVPTPIQRKTMPLILSGADVVAMARTGSGKTAAFLVPMLQR 84
F+++ L ++ R I G++ P+ IQ++ + I+ G DV+A +++G+GKTA F V +LQ
Sbjct: 3 FDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSVSVLQC 62
Query: 85 LNQHVPQGGVRALILSPTRDLALQTLKFTKELGRYTDLRISLLVGGDSMESQFEELAQNP 144
L+ V + +ALIL+PTR+LA+Q K LG Y +++ +GG ++ +L
Sbjct: 63 LDIQVRE--TQALILAPTRELAVQVQKGLLALGDYMNVQSHACIGGTNVGEDIRKLDYGQ 120
Query: 145 DIIIATPGRLMHHLSEVEDMSLKSVEYVVFDEADCLFGMGFAEQLHKILGQLSENRQTLL 204
++ TPGR+ + + ++++ +V DEAD + GF EQ++ + L Q +L
Sbjct: 121 HVVAGTPGRVFDMIRR-RSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQVVL 179
Query: 205 FSATLPSALAEFAKAGLRDPHLVRLDVDTKISPDLKLAFFTLRQEEKHAALLYMIREHIS 264
SATLP + E + DP + + D +K F + +EE L + + ++
Sbjct: 180 ISATLPHEVLEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLT 239
Query: 265 SDQQTLIFVSTKHHVEFLNVLFREEGLEPSVCYGDMDQDARKIHVSRFRARKTMFLIVTD 324
Q +IF +TK V++L RE S +GDM Q R+ + FR+ + LI TD
Sbjct: 240 I-TQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTD 298
Query: 325 VAARGIDIPLLDNVINWDFPPKPKIFVHRVXXXXXXXXXXXXFSFVTSEDMAYLLDLHLF 384
V ARG+D+P + +IN+D P ++++HR+ +FV ++D+ L D+ +
Sbjct: 299 VWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAVNFVKNDDIRVLRDIEQY 358
Query: 385 LSKPIRAAP 393
S I P
Sbjct: 359 YSTQIDEMP 367
>pdb|2Z0M|A Chain A, Crystal Structure Of Hypothetical Atp-Dependent Rna
Helicase From Sulfolobus Tokodaii
Length = 337
Score = 187 bits (474), Expect = 2e-47, Method: Compositional matrix adjust.
Identities = 114/345 (33%), Positives = 197/345 (57%), Gaps = 23/345 (6%)
Query: 30 LSPNVFRAIKRKGYKVPTPIQRKTMPLILSGADVVAMARTGSGKTAAFLVPMLQRLNQHV 89
++ + +AI+ G+K T +Q KT+PL+L G +VV A+TGSGKTAA+ +P+L+
Sbjct: 1 MNEKIEQAIREMGFKNFTEVQSKTIPLMLQGKNVVVRAKTGSGKTAAYAIPILEL----- 55
Query: 90 PQGGVRALILSPTRDLALQTLKFTKELGRYTDLRISLLVGGDSMESQFEELAQNPDIIIA 149
G+++L+++PTR+L Q +++GRY D +++ + GG ++Q + +N DI++A
Sbjct: 56 ---GMKSLVVTPTRELTRQVASHIRDIGRYMDTKVAEVYGGMPYKAQINRV-RNADIVVA 111
Query: 150 TPGRLMHHLSE-VEDMSLKSVEYVVFDEADCLFGMGFAEQLHKILGQLSENRQTLLFSAT 208
TPGRL+ S+ V D+S S E V+ DEAD +F MGF + + IL Q S + T LFSAT
Sbjct: 112 TPGRLLDLWSKGVIDLS--SFEIVIIDEADLMFEMGFIDDIKIILAQTSNRKITGLFSAT 169
Query: 209 LPSALAEFAKAGLRDPHLVRLDVDTKISPDLKLAFFTLRQEEKHAALLYMIREHISSDQQ 268
+P + + K + + + + +++ F ++ + + + +RE+ D+
Sbjct: 170 IPEEIRKVVKDFITNYEEIEACIGL---ANVEHKFVHVKDDWRSK--VQALREN--KDKG 222
Query: 269 TLIFVSTKHHVEFLNVLFREEGLEPSVCYGDMDQDARKIHVSRFRARKTMFLIVTDVAAR 328
++FV T++ V L LF + +E GD+ Q R ++ FR + LI TDVA+R
Sbjct: 223 VIVFVRTRNRVAKLVRLF-DNAIE---LRGDLPQSVRNRNIDAFREGEYDMLITTDVASR 278
Query: 329 GIDIPLLDNVINWDFPPKPKIFVHRVXXXXXXXXXXXXFSFVTSE 373
G+DIPL++ VIN+D P + ++HR+ +F+ +E
Sbjct: 279 GLDIPLVEKVINFDAPQDLRTYIHRIGRTGRMGRKGEAITFILNE 323
>pdb|1FUU|A Chain A, Yeast Initiation Factor 4a
pdb|1FUU|B Chain B, Yeast Initiation Factor 4a
Length = 394
Score = 184 bits (466), Expect = 1e-46, Method: Compositional matrix adjust.
Identities = 118/379 (31%), Positives = 188/379 (49%), Gaps = 9/379 (2%)
Query: 25 FESLNLSPNVFRAIKRKGYKVPTPIQRKTMPLILSGADVVAMARTGSGKTAAFLVPMLQR 84
F+ L N+ R + G++ P+ IQ++ + I+ G DV+A A++G+GKT F + LQR
Sbjct: 23 FDDXELDENLLRGVFGYGFEEPSAIQQRAIXPIIEGHDVLAQAQSGTGKTGTFSIAALQR 82
Query: 85 LNQHV--PQGGVRALILSPTRDLALQTLKFTKELGRYTDLRISLLVGGDSMESQFEELAQ 142
++ V PQ AL L+PTR+LALQ K L + D+++ +GG S E L +
Sbjct: 83 IDTSVKAPQ----ALXLAPTRELALQIQKVVXALAFHXDIKVHACIGGTSFVEDAEGL-R 137
Query: 143 NPDIIIATPGRLMHHLSEVEDMSLKSVEYVVFDEADCLFGMGFAEQLHKILGQLSENRQT 202
+ I++ TPGR+ ++ ++ + DEAD GF EQ+++I L Q
Sbjct: 138 DAQIVVGTPGRVFDNIQR-RRFRTDKIKXFILDEADEXLSSGFKEQIYQIFTLLPPTTQV 196
Query: 203 LLFSATLPSALAEFAKAGLRDPHLVRLDVDTKISPDLKLAFFTLRQEEKHAALLYMIREH 262
+L SAT P+ + E R+P + + D +K + + +EE L + +
Sbjct: 197 VLLSATXPNDVLEVTTKFXRNPVRILVKKDELTLEGIKQFYVNVEEEEYKYECLTDLYDS 256
Query: 263 ISSDQQTLIFVSTKHHVEFLNVLFREEGLEPSVCYGDMDQDARKIHVSRFRARKTMFLIV 322
IS Q +IF +T+ VE L R + S Y D+ Q R FR+ + LI
Sbjct: 257 ISV-TQAVIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTIXKEFRSGSSRILIS 315
Query: 323 TDVAARGIDIPLLDNVINWDFPPKPKIFVHRVXXXXXXXXXXXXFSFVTSEDMAYLLDLH 382
TD+ ARGID+ + VIN+D P + ++HR+ +FVT+ED+ +L
Sbjct: 316 TDLLARGIDVQQVSLVINYDLPANKENYIHRIGRGGRFGRKGVAINFVTNEDVGAXRELE 375
Query: 383 LFLSKPIRAAPSEEEVLLD 401
F S I PS+ LL+
Sbjct: 376 KFYSTQIEELPSDIATLLN 394
>pdb|2I4I|A Chain A, Crystal Structure Of Human Dead-Box Rna Helicase Ddx3x
Length = 417
Score = 170 bits (430), Expect = 2e-42, Method: Compositional matrix adjust.
Identities = 114/390 (29%), Positives = 193/390 (49%), Gaps = 22/390 (5%)
Query: 25 FESLNLSPNVFRAIKRKGYKVPTPIQRKTMPLILSGADVVAMARTGSGKTAAFLVPMLQR 84
F + + + I+ Y PTP+Q+ +P+I D++A A+TGSGKTAAFL+P+L +
Sbjct: 17 FSDVEMGEIIMGNIELTRYTRPTPVQKHAIPIIKEKRDLMACAQTGSGKTAAFLLPILSQ 76
Query: 85 LNQHVPQGGVRA----------------LILSPTRDLALQTLKFTKELGRYTDLRISLLV 128
+ P +RA L+L+PTR+LA+Q + ++ + +R ++
Sbjct: 77 IYSDGPGEALRAMKENGRYGRRKQYPISLVLAPTRELAVQIYEEARKFSYRSRVRPCVVY 136
Query: 129 GGDSMESQFEELAQNPDIIIATPGRLMHHLSEVEDMSLKSVEYVVFDEADCLFGMGFAEQ 188
GG + Q +L + +++ATPGRL+ + E + L +Y+V DEAD + MGF Q
Sbjct: 137 GGADIGQQIRDLERGCHLLVATPGRLVD-MMERGKIGLDFCKYLVLDEADRMLDMGFEPQ 195
Query: 189 LHKILGQLS----ENRQTLLFSATLPSALAEFAKAGLRDPHLVRLDVDTKISPDLKLAFF 244
+ +I+ Q + R T++FSAT P + A+ L + + + S ++
Sbjct: 196 IRRIVEQDTMPPKGVRHTMMFSATFPKEIQMLARDFLDEYIFLAVGRVGSTSENITQKVV 255
Query: 245 TLRQEEKHAALLYMIREHISSDQQTLIFVSTKHHVEFLNVLFREEGLEPSVCYGDMDQDA 304
+ + +K + LL ++ D TL+FV TK + L EG + +GD Q
Sbjct: 256 WVEESDKRSFLLDLLNA-TGKDSLTLVFVETKKGADSLEDFLYHEGYACTSIHGDRSQRD 314
Query: 305 RKIHVSRFRARKTMFLIVTDVAARGIDIPLLDNVINWDFPPKPKIFVHRVXXXXXXXXXX 364
R+ + +FR+ K+ L+ T VAARG+DI + +VIN+D P + +VHR+
Sbjct: 315 REEALHQFRSGKSPILVATAVAARGLDISNVKHVINFDLPSDIEEYVHRIGRTGRVGNLG 374
Query: 365 XXFSFVTSEDMAYLLDLHLFLSKPIRAAPS 394
SF ++ DL L + + PS
Sbjct: 375 LATSFFNERNINITKDLLDLLVEAKQEVPS 404
>pdb|1S2M|A Chain A, Crystal Structure Of The Dead Box Protein Dhh1p
Length = 400
Score = 168 bits (426), Expect = 6e-42, Method: Compositional matrix adjust.
Identities = 107/371 (28%), Positives = 183/371 (49%), Gaps = 8/371 (2%)
Query: 25 FESLNLSPNVFRAIKRKGYKVPTPIQRKTMPLILSGADVVAMARTGSGKTAAFLVPMLQR 84
FE L + I G++ P+PIQ + +P+ ++G D++A A+ G+GKTAAF++P L++
Sbjct: 23 FEDFYLKRELLMGIFEAGFEKPSPIQEEAIPVAITGRDILARAKNGTGKTAAFVIPTLEK 82
Query: 85 LNQHVPQGGVRALILSPTRDLALQTLKFTKELGRYTDLRISLLVGGDSMESQFEELAQNP 144
+ + + ++ALI+ PTR+LALQT + + LG++ + + GG ++ L +
Sbjct: 83 VKPKLNK--IQALIMVPTRELALQTSQVVRTLGKHCGISCMVTTGGTNLRDDILRLNETV 140
Query: 145 DIIIATPGRLMHHLS-EVEDMSLKSVEYVVFDEADCLFGMGFAEQLHKILGQLSENRQTL 203
I++ TPGR++ S +V D+S S+ + DEAD + F + +IL L Q+L
Sbjct: 141 HILVGTPGRVLDLASRKVADLSDCSL--FIMDEADKMLSRDFKTIIEQILSFLPPTHQSL 198
Query: 204 LFSATLPSALAEFAKAGLRDPHLVRLDVDTKISPDLKLAFFTLRQEEKHAALLYMIREHI 263
LFSAT P + EF L P+ + L + + + F +++ H + I
Sbjct: 199 LFSATFPLTVKEFMVKHLHKPYEINLMEELTLKGITQYYAFVEERQKLHCLNTLFSKLQI 258
Query: 264 SSDQQTLIFVSTKHHVEFLNVLFREEGLEPSVCYGDMDQDARKIHVSRFRARKTMFLIVT 323
+ Q +IF ++ + VE L + G + M Q R FR K L+ +
Sbjct: 259 N---QAIIFCNSTNRVELLAKKITDLGYSCYYSHARMKQQERNKVFHEFRQGKVRTLVCS 315
Query: 324 DVAARGIDIPLLDNVINWDFPPKPKIFVHRVXXXXXXXXXXXXFSFVTSEDMAYLLDLHL 383
D+ RGIDI ++ VIN+DFP + ++HR+ + + D L +
Sbjct: 316 DLLTRGIDIQAVNVVINFDFPKTAETYLHRIGRSGRFGHLGLAINLINWNDRFNLYKIEQ 375
Query: 384 FLSKPIRAAPS 394
L I A P+
Sbjct: 376 ELGTEIAAIPA 386
>pdb|3SQX|A Chain A, Structure Of Mss116p (Nte And C-Tail Double Deletion)
Bound To Ssrna And Amp-Pnp
Length = 512
Score = 165 bits (417), Expect = 6e-41, Method: Compositional matrix adjust.
Identities = 139/474 (29%), Positives = 222/474 (46%), Gaps = 70/474 (14%)
Query: 30 LSPNVFRAIKRKGYKVPTPIQRKTMPLILSGAD--VVAMARTGSGKTAAFLVPMLQRL-- 85
L + +AI R + TP+Q+KT+ ILS D V+A A+TG+GKT AFL+P+ Q L
Sbjct: 28 LDKEIHKAITRMEFPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIFQHLIN 87
Query: 86 NQHVPQGGVRALILSPTRDLALQTLKFTKELGRYTDLRISL-------LVGGDSMESQFE 138
+ Q V+A+I++PTRDLALQ E+ + D+ L LVGG +
Sbjct: 88 TKFDSQYMVKAVIVAPTRDLALQ---IEAEVKKIHDMNYGLKKYACVSLVGGTDFRAAMN 144
Query: 139 ELAQ-NPDIIIATPGRLMHHLSEVEDMSLKSVEYVVFDEADCLFGMGFAEQLHKILGQLS 197
++ + P+I+IATPGRL+ L + + + V+Y V DEAD L +GF + L I G L+
Sbjct: 145 KMNKLRPNIVIATPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLEIGFRDDLETISGILN 204
Query: 198 E-------NRQTLLFSATLPSALAEFAKAGLRDPHLVRLDVDTKISPDLKLAFFTLRQ-- 248
E N +TLLFSATL + + A + + LD K P+ A + Q
Sbjct: 205 EKNSKSADNIKTLLFSATLDDKVQKLANNIMNKKECLFLDTVDKNEPE---AHERIDQSV 261
Query: 249 --EEKHAALLYMIREHI-------SSDQQTLIFVSTKHHVEFLNVLFREE---GLEPSVC 296
EK A ++ EHI S+ + +IF T FL + + E L
Sbjct: 262 VISEKFANSIFAAVEHIKKQIKERDSNYKAIIFAPTVKFTSFLCSILKNEFKKDLPILEF 321
Query: 297 YGDMDQDARKIHVSRFRARKTMFLIVTDVAARGIDIPLLDNVINWDFPPKPKIFVHRVXX 356
+G + Q+ R V RF+ ++ L+ TDV ARG+D P + V+ P + ++HR+
Sbjct: 322 HGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGR 381
Query: 357 XXXXXXXXXXFSFVTSEDMAYLLDL----HLFLSKPIRAAPSEEEVLLDMDGVMSKIDQA 412
F+ +++ ++ +L ++ ++K + PSEE
Sbjct: 382 TARSGKEGSSVLFICKDELPFVRELEDAKNIVIAKQEKYEPSEE---------------- 425
Query: 413 IANGETIYGRFPQTVIDLVSDRVREIIDSSADLNSLQRTCTNAFRLYSKTKPLP 466
V++ V++ +I D L S R+C +R +S+ + LP
Sbjct: 426 ----------IKSEVLEAVTEEPEDISDIVISLISSYRSCIKEYR-FSERRILP 468
>pdb|3SQW|A Chain A, Structure Of Mss116p (Nte Deletion) Bound To Ssrna And
Amp-Pnp
Length = 579
Score = 165 bits (417), Expect = 8e-41, Method: Compositional matrix adjust.
Identities = 140/474 (29%), Positives = 226/474 (47%), Gaps = 70/474 (14%)
Query: 30 LSPNVFRAIKRKGYKVPTPIQRKTMPLILSGAD--VVAMARTGSGKTAAFLVPMLQRL-- 85
L + +AI R + TP+Q+KT+ ILS D V+A A+TG+GKT AFL+P+ Q L
Sbjct: 28 LDKEIHKAITRMEFPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIFQHLIN 87
Query: 86 NQHVPQGGVRALILSPTRDLALQTLKFTKELGRYTDLRISL-------LVGGDSMESQFE 138
+ Q V+A+I++PTRDLALQ E+ + D+ L LVGG +
Sbjct: 88 TKFDSQYMVKAVIVAPTRDLALQ---IEAEVKKIHDMNYGLKKYACVSLVGGTDFRAAMN 144
Query: 139 ELAQ-NPDIIIATPGRLMHHLSEVEDMSLKSVEYVVFDEADCLFGMGFAEQLHKILGQLS 197
++ + P+I+IATPGRL+ L + + + V+Y V DEAD L +GF + L I G L+
Sbjct: 145 KMNKLRPNIVIATPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLEIGFRDDLETISGILN 204
Query: 198 E-------NRQTLLFSATLPSALAEFAKAGLRDPHLVRLDVDTKISPDLKLAFFTLRQ-- 248
E N +TLLFSATL + + A + + LD K P+ A + Q
Sbjct: 205 EKNSKSADNIKTLLFSATLDDKVQKLANNIMNKKECLFLDTVDKNEPE---AHERIDQSV 261
Query: 249 --EEKHAALLYMIREHI-------SSDQQTLIFVSTKHHVEFLNVLFREE---GLEPSVC 296
EK A ++ EHI S+ + +IF T FL + + E L
Sbjct: 262 VISEKFANSIFAAVEHIKKQIKERDSNYKAIIFAPTVKFTSFLCSILKNEFKKDLPILEF 321
Query: 297 YGDMDQDARKIHVSRFRARKTMFLIVTDVAARGIDIPLLDNVINWDFPPKPKIFVHRVXX 356
+G + Q+ R V RF+ ++ L+ TDV ARG+D P + V+ P + ++HR+
Sbjct: 322 HGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGR 381
Query: 357 XXXXXXXXXXFSFVTSEDMAYLLDL----HLFLSKPIRAAPSEEEVLLDMDGVMSKIDQA 412
F+ +++ ++ +L ++ ++K + PSEE + S++ +A
Sbjct: 382 TARSGKEGSSVLFICKDELPFVRELEDAKNIVIAKQEKYEPSEE--------IKSEVLEA 433
Query: 413 IANGETIYGRFPQTVIDLVSDRVREIIDSSADLNSLQRTCTNAFRLYSKTKPLP 466
+ P+ + D+V L S R+C +R +S+ + LP
Sbjct: 434 VTEE-------PEDISDIV-----------ISLISSYRSCIKEYR-FSERRILP 468
>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 = 164 bits (416), Expect = 9e-41, Method: Compositional matrix adjust.
Identities = 139/474 (29%), Positives = 222/474 (46%), Gaps = 70/474 (14%)
Query: 30 LSPNVFRAIKRKGYKVPTPIQRKTMPLILSGAD--VVAMARTGSGKTAAFLVPMLQRL-- 85
L + +AI R + TP+Q+KT+ ILS D V+A A+TG+GKT AFL+P+ Q L
Sbjct: 79 LDKEIHKAITRMEFPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIFQHLIN 138
Query: 86 NQHVPQGGVRALILSPTRDLALQTLKFTKELGRYTDLRISL-------LVGGDSMESQFE 138
+ Q V+A+I++PTRDLALQ E+ + D+ L LVGG +
Sbjct: 139 TKFDSQYMVKAVIVAPTRDLALQ---IEAEVKKIHDMNYGLKKYACVSLVGGTDFRAAMN 195
Query: 139 ELAQ-NPDIIIATPGRLMHHLSEVEDMSLKSVEYVVFDEADCLFGMGFAEQLHKILGQLS 197
++ + P+I+IATPGRL+ L + + + V+Y V DEAD L +GF + L I G L+
Sbjct: 196 KMNKLRPNIVIATPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLEIGFRDDLETISGILN 255
Query: 198 E-------NRQTLLFSATLPSALAEFAKAGLRDPHLVRLDVDTKISPDLKLAFFTLRQ-- 248
E N +TLLFSATL + + A + + LD K P+ A + Q
Sbjct: 256 EKNSKSADNIKTLLFSATLDDKVQKLANNIMNKKECLFLDTVDKNEPE---AHERIDQSV 312
Query: 249 --EEKHAALLYMIREHI-------SSDQQTLIFVSTKHHVEFLNVLFREE---GLEPSVC 296
EK A ++ EHI S+ + +IF T FL + + E L
Sbjct: 313 VISEKFANSIFAAVEHIKKQIKERDSNYKAIIFAPTVKFTSFLCSILKNEFKKDLPILEF 372
Query: 297 YGDMDQDARKIHVSRFRARKTMFLIVTDVAARGIDIPLLDNVINWDFPPKPKIFVHRVXX 356
+G + Q+ R V RF+ ++ L+ TDV ARG+D P + V+ P + ++HR+
Sbjct: 373 HGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGR 432
Query: 357 XXXXXXXXXXFSFVTSEDMAYLLDL----HLFLSKPIRAAPSEEEVLLDMDGVMSKIDQA 412
F+ +++ ++ +L ++ ++K + PSEE
Sbjct: 433 TARSGKEGSSVLFICKDELPFVRELEDAKNIVIAKQEKYEPSEE---------------- 476
Query: 413 IANGETIYGRFPQTVIDLVSDRVREIIDSSADLNSLQRTCTNAFRLYSKTKPLP 466
V++ V++ +I D L S R+C +R +S+ + LP
Sbjct: 477 ----------IKSEVLEAVTEEPEDISDIVISLISSYRSCIKEYR-FSERRILP 519
>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 = 159 bits (402), Expect = 4e-39, Method: Compositional matrix adjust.
Identities = 105/343 (30%), Positives = 189/343 (55%), Gaps = 22/343 (6%)
Query: 25 FESLNLSPNVFRAIKRKGYKVPTPIQRKTMPLILSG--ADVVAMARTGSGKTAAFLVPML 82
FE L L P + + + G+ P+ IQ +PL+L+ +++A +++G+GKTAAF++ ML
Sbjct: 94 FEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVLAML 153
Query: 83 QRLN--QHVPQGGVRALILSPTRDLALQTLKFTKELGR-YTDLRISLLVGGDSMESQFEE 139
++ PQ L LSPT +LALQT K +++G+ Y +L+++ V G+ +E + ++
Sbjct: 154 SQVEPANKYPQ----CLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLE-RGQK 208
Query: 140 LAQNPDIIIATPGRLMHHLSEVEDMSLKSVEYVVFDEADCLFG-MGFAEQLHKILGQLSE 198
+++ I+I TPG ++ S+++ + K ++ V DEAD + G +Q +I L
Sbjct: 209 ISEQ--IVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRMLPR 266
Query: 199 NRQTLLFSATLPSALAEFAKAGLRDPHLVRLDVDTKISPDLKLAF-FTLRQEEKHAALLY 257
N Q LLFSAT ++ +FA+ + DP++++L + + +K + ++EK AL
Sbjct: 267 NCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKREEETLDTIKQYYVLCSSRDEKFQALCN 326
Query: 258 MIREHISSDQQTLIFVSTKHHVEFLNVLFREEGLEPSVCYGDMDQDARKIHVSRFRARKT 317
+ + Q +IF T+ +L +EG + ++ G+M + R + RFR K
Sbjct: 327 LYGAITIA--QAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFREGKE 384
Query: 318 MFLIVTDVAARGIDIPLLDNVINWDFP------PKPKIFVHRV 354
L+ T+V ARGID+ + VIN+D P P + ++HR+
Sbjct: 385 KVLVTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRI 427
>pdb|3G0H|A Chain A, Human Dead-box Rna Helicase Ddx19, In Complex With An
Atp-analogue And Rna
Length = 424
Score = 159 bits (402), Expect = 4e-39, Method: Compositional matrix adjust.
Identities = 105/343 (30%), Positives = 189/343 (55%), Gaps = 22/343 (6%)
Query: 25 FESLNLSPNVFRAIKRKGYKVPTPIQRKTMPLILSG--ADVVAMARTGSGKTAAFLVPML 82
FE L L P + + + G+ P+ IQ +PL+L+ +++A +++G+GKTAAF++ ML
Sbjct: 43 FEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVLAML 102
Query: 83 QRLN--QHVPQGGVRALILSPTRDLALQTLKFTKELGR-YTDLRISLLVGGDSMESQFEE 139
++ PQ L LSPT +LALQT K +++G+ Y +L+++ V G+ +E + ++
Sbjct: 103 SQVEPANKYPQ----CLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLE-RGQK 157
Query: 140 LAQNPDIIIATPGRLMHHLSEVEDMSLKSVEYVVFDEADCLFG-MGFAEQLHKILGQLSE 198
+++ I+I TPG ++ S+++ + K ++ V DEAD + G +Q +I L
Sbjct: 158 ISEQ--IVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRMLPR 215
Query: 199 NRQTLLFSATLPSALAEFAKAGLRDPHLVRLDVDTKISPDLKLAF-FTLRQEEKHAALLY 257
N Q LLFSAT ++ +FA+ + DP++++L + + +K + ++EK AL
Sbjct: 216 NCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKREEETLDTIKQYYVLCSSRDEKFQALCN 275
Query: 258 MIREHISSDQQTLIFVSTKHHVEFLNVLFREEGLEPSVCYGDMDQDARKIHVSRFRARKT 317
+ + Q +IF T+ +L +EG + ++ G+M + R + RFR K
Sbjct: 276 LYGAITIA--QAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFREGKE 333
Query: 318 MFLIVTDVAARGIDIPLLDNVINWDFP------PKPKIFVHRV 354
L+ T+V ARGID+ + VIN+D P P + ++HR+
Sbjct: 334 KVLVTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRI 376
>pdb|3EWS|A Chain A, Human Dead-Box Rna-Helicase Ddx19 In Complex With Adp
pdb|3EWS|B Chain B, Human Dead-Box Rna-Helicase Ddx19 In Complex With Adp
Length = 445
Score = 159 bits (402), Expect = 4e-39, Method: Compositional matrix adjust.
Identities = 105/343 (30%), Positives = 189/343 (55%), Gaps = 22/343 (6%)
Query: 25 FESLNLSPNVFRAIKRKGYKVPTPIQRKTMPLILSG--ADVVAMARTGSGKTAAFLVPML 82
FE L L P + + + G+ P+ IQ +PL+L+ +++A +++G+GKTAAF++ ML
Sbjct: 64 FEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVLAML 123
Query: 83 QRLN--QHVPQGGVRALILSPTRDLALQTLKFTKELGR-YTDLRISLLVGGDSMESQFEE 139
++ PQ L LSPT +LALQT K +++G+ Y +L+++ V G+ +E + ++
Sbjct: 124 SQVEPANKYPQ----CLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLE-RGQK 178
Query: 140 LAQNPDIIIATPGRLMHHLSEVEDMSLKSVEYVVFDEADCLFG-MGFAEQLHKILGQLSE 198
+++ I+I TPG ++ S+++ + K ++ V DEAD + G +Q +I L
Sbjct: 179 ISEQ--IVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRMLPR 236
Query: 199 NRQTLLFSATLPSALAEFAKAGLRDPHLVRLDVDTKISPDLKLAF-FTLRQEEKHAALLY 257
N Q LLFSAT ++ +FA+ + DP++++L + + +K + ++EK AL
Sbjct: 237 NCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKREEETLDTIKQYYVLCSSRDEKFQALCN 296
Query: 258 MIREHISSDQQTLIFVSTKHHVEFLNVLFREEGLEPSVCYGDMDQDARKIHVSRFRARKT 317
+ + Q +IF T+ +L +EG + ++ G+M + R + RFR K
Sbjct: 297 LYGAITIA--QAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFREGKE 354
Query: 318 MFLIVTDVAARGIDIPLLDNVINWDFP------PKPKIFVHRV 354
L+ T+V ARGID+ + VIN+D P P + ++HR+
Sbjct: 355 KVLVTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRI 397
>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 = 159 bits (401), Expect = 5e-39, Method: Compositional matrix adjust.
Identities = 105/343 (30%), Positives = 189/343 (55%), Gaps = 22/343 (6%)
Query: 25 FESLNLSPNVFRAIKRKGYKVPTPIQRKTMPLILSG--ADVVAMARTGSGKTAAFLVPML 82
FE L L P + + + G+ P+ IQ +PL+L+ +++A +++G+GKTAAF++ ML
Sbjct: 27 FEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVLAML 86
Query: 83 QRLN--QHVPQGGVRALILSPTRDLALQTLKFTKELGR-YTDLRISLLVGGDSMESQFEE 139
++ PQ L LSPT +LALQT K +++G+ Y +L+++ V G+ +E + ++
Sbjct: 87 SQVEPANKYPQ----CLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLE-RGQK 141
Query: 140 LAQNPDIIIATPGRLMHHLSEVEDMSLKSVEYVVFDEADCLFG-MGFAEQLHKILGQLSE 198
+++ I+I TPG ++ S+++ + K ++ V DEAD + G +Q +I L
Sbjct: 142 ISEQ--IVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRMLPR 199
Query: 199 NRQTLLFSATLPSALAEFAKAGLRDPHLVRLDVDTKISPDLKLAF-FTLRQEEKHAALLY 257
N Q LLFSAT ++ +FA+ + DP++++L + + +K + ++EK AL
Sbjct: 200 NCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKREEETLDTIKQYYVLCSSRDEKFQALCN 259
Query: 258 MIREHISSDQQTLIFVSTKHHVEFLNVLFREEGLEPSVCYGDMDQDARKIHVSRFRARKT 317
+ + Q +IF T+ +L +EG + ++ G+M + R + RFR K
Sbjct: 260 LYGAITIA--QAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFREGKE 317
Query: 318 MFLIVTDVAARGIDIPLLDNVINWDFP------PKPKIFVHRV 354
L+ T+V ARGID+ + VIN+D P P + ++HR+
Sbjct: 318 KVLVTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRI 360
>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 = 158 bits (399), Expect = 9e-39, Method: Compositional matrix adjust.
Identities = 105/356 (29%), Positives = 184/356 (51%), Gaps = 19/356 (5%)
Query: 25 FESLNLSPNVFRAIKRKGYKVPTPIQRKTMPLILSGA--DVVAMARTGSGKTAAFLVPML 82
F+ L L+P + + I ++ P+ IQ + +PL+L +++A +++G+GKTAAF + ML
Sbjct: 7 FDELGLAPELLKGIYAMKFQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAAFSLTML 66
Query: 83 QRLNQHVPQGGVRALILSPTRDLALQTLKFTKELGRYTDLRISLLVGGDSMESQFEELAQ 142
R+N +A+ L+P+R+LA QTL+ +E+G++T + L+V FE+ Q
Sbjct: 67 TRVNPE--DASPQAICLAPSRELARQTLEVVQEMGKFTKITSQLIV-----PDSFEKNKQ 119
Query: 143 -NPDIIIATPGRLMHHLSEVEDMSLKSVEYVVFDEADCLFGM-GFAEQLHKILGQLSENR 200
N +I+ TPG ++ L + M L+ ++ V DEAD + G +Q ++ L ++
Sbjct: 120 INAQVIVGTPGTVLD-LMRRKLMQLQKIKIFVLDEADNMLDQQGLGDQCIRVKRFLPKDT 178
Query: 201 QTLLFSATLPSALAEFAKAGLRDPHLVRLDVDTKISPDLKLAFFTLRQEEKHAALLYMIR 260
Q +LFSAT A+ ++AK + + + + L + +K + + E +L +
Sbjct: 179 QLVLFSATFADAVRQYAKKIVPNANTLELQTNEVNVDAIKQLYMDCKNEADKFDVLTELY 238
Query: 261 EHISSDQQTLIFVSTKHHVEFLNVLFREEGLEPSVCYGDMDQDARKIHVSRFRARKTMFL 320
+ + ++IFV+TK L + EG E S+ +GD+ R + FR ++ L
Sbjct: 239 -GVMTIGSSIIFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDDFREGRSKVL 297
Query: 321 IVTDVAARGIDIPLLDNVINWDFP------PKPKIFVHRVXXXXXXXXXXXXFSFV 370
I T+V ARGIDIP + V+N+D P P ++HR+ SFV
Sbjct: 298 ITTNVLARGIDIPTVSMVVNYDLPTLANGQADPATYIHRIGRTGRFGRKGVAISFV 353
>pdb|3PEY|A Chain A, S. Cerevisiae Dbp5 Bound To Rna And Adp Bef3
Length = 395
Score = 157 bits (397), Expect = 1e-38, Method: Compositional matrix adjust.
Identities = 105/356 (29%), Positives = 184/356 (51%), Gaps = 19/356 (5%)
Query: 25 FESLNLSPNVFRAIKRKGYKVPTPIQRKTMPLILSGA--DVVAMARTGSGKTAAFLVPML 82
F+ L L+P + + I ++ P+ IQ + +PL+L +++A +++G+GKTAAF + ML
Sbjct: 7 FDELGLAPELLKGIYAMKFQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAAFSLTML 66
Query: 83 QRLNQHVPQGGVRALILSPTRDLALQTLKFTKELGRYTDLRISLLVGGDSMESQFEELAQ 142
R+N +A+ L+P+R+LA QTL+ +E+G++T + L+V FE+ Q
Sbjct: 67 TRVNPE--DASPQAICLAPSRELARQTLEVVQEMGKFTKITSQLIV-----PDSFEKNKQ 119
Query: 143 -NPDIIIATPGRLMHHLSEVEDMSLKSVEYVVFDEADCLFGM-GFAEQLHKILGQLSENR 200
N +I+ TPG ++ L + M L+ ++ V DEAD + G +Q ++ L ++
Sbjct: 120 INAQVIVGTPGTVLD-LMRRKLMQLQKIKIFVLDEADNMLDQQGLGDQCIRVKRFLPKDT 178
Query: 201 QTLLFSATLPSALAEFAKAGLRDPHLVRLDVDTKISPDLKLAFFTLRQEEKHAALLYMIR 260
Q +LFSAT A+ ++AK + + + + L + +K + + E +L +
Sbjct: 179 QLVLFSATFADAVRQYAKKIVPNANTLELQTNEVNVDAIKQLYMDCKNEADKFDVLTELY 238
Query: 261 EHISSDQQTLIFVSTKHHVEFLNVLFREEGLEPSVCYGDMDQDARKIHVSRFRARKTMFL 320
+ + ++IFV+TK L + EG E S+ +GD+ R + FR ++ L
Sbjct: 239 -GLMTIGSSIIFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDDFREGRSKVL 297
Query: 321 IVTDVAARGIDIPLLDNVINWDFP------PKPKIFVHRVXXXXXXXXXXXXFSFV 370
I T+V ARGIDIP + V+N+D P P ++HR+ SFV
Sbjct: 298 ITTNVLARGIDIPTVSMVVNYDLPTLANGQADPATYIHRIGRTGRFGRKGVAISFV 353
>pdb|2PL3|A Chain A, Human Dead-Box Rna Helicase Ddx10, Dead Domain In Complex
With Adp
Length = 236
Score = 152 bits (384), Expect = 4e-37, Method: Compositional matrix adjust.
Identities = 77/205 (37%), Positives = 124/205 (60%), Gaps = 3/205 (1%)
Query: 25 FESLNLSPNVFRAIKRKGYKVPTPIQRKTMPLILSGADVVAMARTGSGKTAAFLVPMLQR 84
F LS + ++ Y++ T IQ++T+ L L G DV+ A+TGSGKT AFLVP+L+
Sbjct: 27 FSDFPLSKKTLKGLQEAQYRLVTEIQKQTIGLALQGKDVLGAAKTGSGKTLAFLVPVLEA 86
Query: 85 LN--QHVPQGGVRALILSPTRDLALQTLKFTKELGRYTDLRISLLVGGDSMESQFEELAQ 142
L Q G+ LI+SPTR+LA QT + +++G+ D L++GG ++ + E +
Sbjct: 87 LYRLQWTSTDGLGVLIISPTRELAYQTFEVLRKVGKNHDFSAGLIIGGKDLKHEAERI-N 145
Query: 143 NPDIIIATPGRLMHHLSEVEDMSLKSVEYVVFDEADCLFGMGFAEQLHKILGQLSENRQT 202
N +I++ TPGRL+ H+ E ++ +V DEAD + MGFA+ ++ ++ L + RQT
Sbjct: 146 NINILVCTPGRLLQHMDETVSFHATDLQMLVLDEADRILDMGFADTMNAVIENLPKKRQT 205
Query: 203 LLFSATLPSALAEFAKAGLRDPHLV 227
LLFSAT ++ + A+ L++P V
Sbjct: 206 LLFSATQTKSVKDLARLSLKNPEYV 230
>pdb|1XTK|A Chain A, Structure Of Decd To Dead Mutation Of Human Uap56
Length = 390
Score = 148 bits (374), Expect = 6e-36, Method: Compositional matrix adjust.
Identities = 98/361 (27%), Positives = 183/361 (50%), Gaps = 9/361 (2%)
Query: 24 GFESLNLSPNVFRAIKRKGYKVPTPIQRKTMPLILSGADVVAMARTGSGKTAAFLVPMLQ 83
GF L P + RAI G++ P+ +Q + +P + G DV+ A++G GKTA F++ LQ
Sbjct: 8 GFRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQ 67
Query: 84 RLNQHVPQGGVRALILSPTRDLALQTLKFTKELGRYT-DLRISLLVGGDSMESQFEELAQ 142
+L G V L++ TR+LA Q K + +Y ++++++ GG S++ E L +
Sbjct: 68 QLEP--VTGQVSVLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEVLKK 125
Query: 143 N-PDIIIATPGRLMHHLSEVEDMSLKSVEYVVFDEADCLF-GMGFAEQLHKILGQLSENR 200
N P I++ TPGR++ L+ + ++LK +++ + DEAD + + + +I +
Sbjct: 126 NCPHIVVGTPGRIL-ALARNKSLNLKHIKHFILDEADKMLEQLDMRRDVQEIFRMTPHEK 184
Query: 201 QTLLFSATLPSALAEFAKAGLRDPHLVRLDVDTKIS-PDLKLAFFTLRQEEKHAALLYMI 259
Q ++FSATL + + ++DP + +D +TK++ L+ + L+ EK+ L ++
Sbjct: 185 QVMMFSATLSKEIRPVCRKFMQDPMEIFVDDETKLTLHGLQQYYVKLKDNEKNRKLFDLL 244
Query: 260 REHISSDQQTLIFVSTKHHVEFLNVLFREEGLEPSVCYGDMDQDARKIHVSRFRARKTMF 319
+ Q +IFV + L L E+ + M Q+ R +F+ +
Sbjct: 245 --DVLEFNQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRI 302
Query: 320 LIVTDVAARGIDIPLLDNVINWDFPPKPKIFVHRVXXXXXXXXXXXXFSFVTSEDMAYLL 379
L+ T++ RG+DI ++ N+D P ++HRV +FV+ E+ A +L
Sbjct: 303 LVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKGLAITFVSDENDAKIL 362
Query: 380 D 380
+
Sbjct: 363 N 363
>pdb|1XTI|A Chain A, Structure Of Wildtype Human Uap56
Length = 391
Score = 147 bits (372), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 97/361 (26%), Positives = 182/361 (50%), Gaps = 9/361 (2%)
Query: 24 GFESLNLSPNVFRAIKRKGYKVPTPIQRKTMPLILSGADVVAMARTGSGKTAAFLVPMLQ 83
GF L P + RAI G++ P+ +Q + +P + G DV+ A++G GKTA F++ LQ
Sbjct: 9 GFRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQ 68
Query: 84 RLNQHVPQGGVRALILSPTRDLALQTLKFTKELGRYT-DLRISLLVGGDSMESQFEELAQ 142
+L G V L++ TR+LA Q K + +Y ++++++ GG S++ E L +
Sbjct: 69 QLEP--VTGQVSVLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEVLKK 126
Query: 143 N-PDIIIATPGRLMHHLSEVEDMSLKSVEYVVFDEADCLF-GMGFAEQLHKILGQLSENR 200
N P I++ TPGR++ L+ + ++LK +++ + DE D + + + +I +
Sbjct: 127 NCPHIVVGTPGRIL-ALARNKSLNLKHIKHFILDECDKMLEQLDMRRDVQEIFRMTPHEK 185
Query: 201 QTLLFSATLPSALAEFAKAGLRDPHLVRLDVDTKIS-PDLKLAFFTLRQEEKHAALLYMI 259
Q ++FSATL + + ++DP + +D +TK++ L+ + L+ EK+ L ++
Sbjct: 186 QVMMFSATLSKEIRPVCRKFMQDPMEIFVDDETKLTLHGLQQYYVKLKDNEKNRKLFDLL 245
Query: 260 REHISSDQQTLIFVSTKHHVEFLNVLFREEGLEPSVCYGDMDQDARKIHVSRFRARKTMF 319
+ Q +IFV + L L E+ + M Q+ R +F+ +
Sbjct: 246 --DVLEFNQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRI 303
Query: 320 LIVTDVAARGIDIPLLDNVINWDFPPKPKIFVHRVXXXXXXXXXXXXFSFVTSEDMAYLL 379
L+ T++ RG+DI ++ N+D P ++HRV +FV+ E+ A +L
Sbjct: 304 LVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKGLAITFVSDENDAKIL 363
Query: 380 D 380
+
Sbjct: 364 N 364
>pdb|1XTJ|A Chain A, Structure Of Human Uap56 In Complex With Adp
Length = 386
Score = 147 bits (372), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 97/361 (26%), Positives = 182/361 (50%), Gaps = 9/361 (2%)
Query: 24 GFESLNLSPNVFRAIKRKGYKVPTPIQRKTMPLILSGADVVAMARTGSGKTAAFLVPMLQ 83
GF L P + RAI G++ P+ +Q + +P + G DV+ A++G GKTA F++ LQ
Sbjct: 9 GFRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQ 68
Query: 84 RLNQHVPQGGVRALILSPTRDLALQTLKFTKELGRYT-DLRISLLVGGDSMESQFEELAQ 142
+L G V L++ TR+LA Q K + +Y ++++++ GG S++ E L +
Sbjct: 69 QLEP--VTGQVSVLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEVLKK 126
Query: 143 N-PDIIIATPGRLMHHLSEVEDMSLKSVEYVVFDEADCLF-GMGFAEQLHKILGQLSENR 200
N P I++ TPGR++ L+ + ++LK +++ + DE D + + + +I +
Sbjct: 127 NCPHIVVGTPGRIL-ALARNKSLNLKHIKHFILDECDKMLEQLDMRRDVQEIFRMTPHEK 185
Query: 201 QTLLFSATLPSALAEFAKAGLRDPHLVRLDVDTKIS-PDLKLAFFTLRQEEKHAALLYMI 259
Q ++FSATL + + ++DP + +D +TK++ L+ + L+ EK+ L ++
Sbjct: 186 QVMMFSATLSKEIRPVCRKFMQDPMEIFVDDETKLTLHGLQQYYVKLKDNEKNRKLFDLL 245
Query: 260 REHISSDQQTLIFVSTKHHVEFLNVLFREEGLEPSVCYGDMDQDARKIHVSRFRARKTMF 319
+ Q +IFV + L L E+ + M Q+ R +F+ +
Sbjct: 246 --DVLEFNQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRI 303
Query: 320 LIVTDVAARGIDIPLLDNVINWDFPPKPKIFVHRVXXXXXXXXXXXXFSFVTSEDMAYLL 379
L+ T++ RG+DI ++ N+D P ++HRV +FV+ E+ A +L
Sbjct: 304 LVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKGLAITFVSDENDAKIL 363
Query: 380 D 380
+
Sbjct: 364 N 364
>pdb|3BER|A Chain A, Human Dead-Box Rna-Helicase Ddx47, Conserved Domain I In
Complex With Amp
Length = 249
Score = 145 bits (365), Expect = 7e-35, Method: Compositional matrix adjust.
Identities = 82/201 (40%), Positives = 128/201 (63%), Gaps = 4/201 (1%)
Query: 25 FESLNLSPNVFRAIKRKGYKVPTPIQRKTMPLILSGADVVAMARTGSGKTAAFLVPMLQR 84
F+ L ++ + A + G+ PT IQ + +PL L G D++ +A TGSGKT AF +P+L
Sbjct: 45 FKDLGVTDVLCEACDQLGWTKPTKIQIEAIPLALQGRDIIGLAETGSGKTGAFALPILNA 104
Query: 85 LNQHVPQGGVRALILSPTRDLALQTLKFTKELGRYTDLRISLLVGG-DSMESQFEELAQN 143
L + PQ + AL+L+PTR+LA Q + + LG ++ +++VGG DSM SQ LA+
Sbjct: 105 LLE-TPQR-LFALVLTPTRELAFQISEQFEALGSSIGVQSAVIVGGIDSM-SQSLALAKK 161
Query: 144 PDIIIATPGRLMHHLSEVEDMSLKSVEYVVFDEADCLFGMGFAEQLHKILGQLSENRQTL 203
P IIIATPGRL+ HL + +L++++Y+V DEAD + M F ++ KIL + +R+T
Sbjct: 162 PHIIIATPGRLIDHLENTKGFNLRALKYLVMDEADRILNMDFETEVDKILKVIPRDRKTF 221
Query: 204 LFSATLPSALAEFAKAGLRDP 224
LFSAT+ + + +A L++P
Sbjct: 222 LFSATMTKKVQKLQRAALKNP 242
>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 = 144 bits (362), Expect = 2e-34, Method: Compositional matrix adjust.
Identities = 82/205 (40%), Positives = 121/205 (59%), Gaps = 12/205 (5%)
Query: 24 GFESLNLSPNVFRAIKRKGYKVPTPIQRKTMPLILSGADVVAMARTGSGKTAAFLVPML- 82
F+ L L P + I Y+ PTPIQ+ +P IL D++A A+TGSGKTAAFL+P++
Sbjct: 24 NFDELKLDPTIRNNILLASYQRPTPIQKNAIPAILEHRDIMACAQTGSGKTAAFLIPIIN 83
Query: 83 ----QRLNQ--HVPQGGVRALILSPTRDLALQTLKFTKELGRYTDLRISLLVGGDSMESQ 136
Q LNQ + + LIL+PTR+LA+Q L +++ T LR ++ GG SQ
Sbjct: 84 HLVCQDLNQQRYSKTAYPKCLILAPTRELAIQILSESQKFSLNTPLRSCVVYGGADTHSQ 143
Query: 137 FEELAQNPDIIIATPGRLMHHLSEVEDMSLKSVEYVVFDEADCLFGMGFAEQLHKILGQL 196
E+ +++ATPGRL+ + E +SL+ +Y+V DEAD + MGF Q+ KI+ +
Sbjct: 144 IREVQMGCHLLVATPGRLVDFI-EKNKISLEFCKYIVLDEADRMLDMGFEPQIRKIIEES 202
Query: 197 SE----NRQTLLFSATLPSALAEFA 217
+ NRQTL+FSAT P + + A
Sbjct: 203 NMPSGINRQTLMFSATFPKEIQKLA 227
>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 = 142 bits (357), Expect = 6e-34, Method: Compositional matrix adjust.
Identities = 82/207 (39%), Positives = 120/207 (57%), Gaps = 6/207 (2%)
Query: 25 FESLNLSPNVFRAIKRKGYKVPTPIQRKTMPLILSGADVVAMARTGSGKTAAFLVPMLQR 84
F+ L P + A+ +G PTPIQ +PL L G D++ ARTG+GKT AF +P+ +R
Sbjct: 3 FKDFPLKPEILEALHGRGLTTPTPIQAAALPLALEGKDLIGQARTGTGKTLAFALPIAER 62
Query: 85 LNQHVPQG-GVRALILSPTRDLALQTLKFTKELGRYTDLRISLLVGGDSMESQFEELAQN 143
L +G RAL+L+PTR+LALQ + + L++ + GG Q E L +
Sbjct: 63 LAPSQERGRKPRALVLTPTRELALQVASELTAVAPH--LKVVAVYGGTGYGKQKEALLRG 120
Query: 144 PDIIIATPGRLMHHLSE-VEDMSLKSVEYVVFDEADCLFGMGFAEQLHKILGQLSENRQT 202
D ++ATPGR + +L + V D+S VE V DEAD + MGF E++ +L +RQT
Sbjct: 121 ADAVVATPGRALDYLRQGVLDLS--RVEVAVLDEADEMLSMGFEEEVEALLSATPPSRQT 178
Query: 203 LLFSATLPSALAEFAKAGLRDPHLVRL 229
LLFSATLPS A+ +++P L+ +
Sbjct: 179 LLFSATLPSWAKRLAERYMKNPVLINV 205
>pdb|3MWJ|A Chain A, Q28e Mutant Of Hera N-Terminal Reca-Like Domain, Apo Form
pdb|3MWJ|B Chain B, Q28e Mutant Of Hera N-Terminal Reca-Like Domain, Apo Form
pdb|3MWK|A Chain A, Q28e Mutant Of Hera N-Terminal Reca-Like Domain, Complex
With 8-Oxo- Amp
pdb|3MWK|B Chain B, Q28e Mutant Of Hera N-Terminal Reca-Like Domain, Complex
With 8-Oxo- Amp
pdb|3MWL|A Chain A, Q28e Mutant Of Hera N-Terminal Reca-Like Domain In Complex
With 8- Oxoadenosine
pdb|3MWL|B Chain B, Q28e Mutant Of Hera N-Terminal Reca-Like Domain In Complex
With 8- Oxoadenosine
pdb|3NBF|A Chain A, Q28e Mutant Of Hera Helicase N-Terminal Domain Bound To
8-Oxo-Adp
pdb|3NBF|B Chain B, Q28e Mutant Of Hera Helicase N-Terminal Domain Bound To
8-Oxo-Adp
pdb|3NBF|C Chain C, Q28e Mutant Of Hera Helicase N-Terminal Domain Bound To
8-Oxo-Adp
pdb|3NBF|D Chain D, Q28e Mutant Of Hera Helicase N-Terminal Domain Bound To
8-Oxo-Adp
pdb|3NEJ|A Chain A, Q28e Mutant Of Hera Rna Helicase N-Terminal Domain -
Perfectly Twinned Hexagonal Form
pdb|3NEJ|B Chain B, Q28e Mutant Of Hera Rna Helicase N-Terminal Domain -
Perfectly Twinned Hexagonal Form
Length = 207
Score = 140 bits (354), Expect = 2e-33, Method: Compositional matrix adjust.
Identities = 81/207 (39%), Positives = 120/207 (57%), Gaps = 6/207 (2%)
Query: 25 FESLNLSPNVFRAIKRKGYKVPTPIQRKTMPLILSGADVVAMARTGSGKTAAFLVPMLQR 84
F+ L P + A+ +G PTPI+ +PL L G D++ ARTG+GKT AF +P+ +R
Sbjct: 3 FKDFPLKPEILEALHGRGLTTPTPIEAAALPLALEGKDLIGQARTGTGKTLAFALPIAER 62
Query: 85 LNQHVPQG-GVRALILSPTRDLALQTLKFTKELGRYTDLRISLLVGGDSMESQFEELAQN 143
L +G RAL+L+PTR+LALQ + + L++ + GG Q E L +
Sbjct: 63 LAPSQERGRKPRALVLTPTRELALQVASELTAVAPH--LKVVAVYGGTGYGKQKEALLRG 120
Query: 144 PDIIIATPGRLMHHLSE-VEDMSLKSVEYVVFDEADCLFGMGFAEQLHKILGQLSENRQT 202
D ++ATPGR + +L + V D+S VE V DEAD + MGF E++ +L +RQT
Sbjct: 121 ADAVVATPGRALDYLRQGVLDLS--RVEVAVLDEADEMLSMGFEEEVEALLSATPPSRQT 178
Query: 203 LLFSATLPSALAEFAKAGLRDPHLVRL 229
LLFSATLPS A+ +++P L+ +
Sbjct: 179 LLFSATLPSWAKRLAERYMKNPVLINV 205
>pdb|4A4D|A Chain A, Crystal Structure Of The N-Terminal Domain Of The Human
Dead-Box Rna Helicase Ddx5 (P68)
Length = 253
Score = 139 bits (351), Expect = 3e-33, Method: Compositional matrix adjust.
Identities = 79/203 (38%), Positives = 116/203 (57%), Gaps = 6/203 (2%)
Query: 25 FESLNLSPNVFRAIKRKGYKVPTPIQRKTMPLILSGADVVAMARTGSGKTAAFLVPMLQR 84
F N NV I R+ + PT IQ + P+ LSG D+V +A+TGSGKT ++L+P +
Sbjct: 45 FYEANFPANVMDVIARQNFTEPTAIQAQGWPVALSGLDMVGVAQTGSGKTLSYLLPAIVH 104
Query: 85 LNQHVP----QGGVRALILSPTRDLALQTLKFTKELGRYTDLRISLLVGGDSMESQFEEL 140
+N H P G L+L+PTR+LA Q + E R L+ + + GG Q +L
Sbjct: 105 IN-HQPFLERGDGPICLVLAPTRELAQQVQQVAAEYCRACRLKSTCIYGGAPKGPQIRDL 163
Query: 141 AQNPDIIIATPGRLMHHLSEVEDMSLKSVEYVVFDEADCLFGMGFAEQLHKILGQLSENR 200
+ +I IATPGRL+ L E +L+ Y+V DEAD + MGF Q+ KI+ Q+ +R
Sbjct: 164 ERGVEICIATPGRLIDFL-ECGKTNLRRTTYLVLDEADRMLDMGFEPQIRKIVDQIRPDR 222
Query: 201 QTLLFSATLPSALAEFAKAGLRD 223
QTL++SAT P + + A+ L+D
Sbjct: 223 QTLMWSATWPKEVRQLAEDFLKD 245
>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 = 139 bits (350), Expect = 4e-33, Method: Compositional matrix adjust.
Identities = 79/203 (38%), Positives = 116/203 (57%), Gaps = 6/203 (2%)
Query: 25 FESLNLSPNVFRAIKRKGYKVPTPIQRKTMPLILSGADVVAMARTGSGKTAAFLVPMLQR 84
F N NV I R+ + PT IQ + P+ LSG D+V +A+TGSGKT ++L+P +
Sbjct: 31 FYEANFPANVMDVIARQNFTEPTAIQAQGWPVALSGLDMVGVAQTGSGKTLSYLLPAIVH 90
Query: 85 LNQHVP----QGGVRALILSPTRDLALQTLKFTKELGRYTDLRISLLVGGDSMESQFEEL 140
+N H P G L+L+PTR+LA Q + E R L+ + + GG Q +L
Sbjct: 91 IN-HQPFLERGDGPICLVLAPTRELAQQVQQVAAEYCRACRLKSTCIYGGAPKGPQIRDL 149
Query: 141 AQNPDIIIATPGRLMHHLSEVEDMSLKSVEYVVFDEADCLFGMGFAEQLHKILGQLSENR 200
+ +I IATPGRL+ L E +L+ Y+V DEAD + MGF Q+ KI+ Q+ +R
Sbjct: 150 ERGVEICIATPGRLIDFL-ECGKTNLRRTTYLVLDEADRMLDMGFEPQIRKIVDQIRPDR 208
Query: 201 QTLLFSATLPSALAEFAKAGLRD 223
QTL++SAT P + + A+ L+D
Sbjct: 209 QTLMWSATWPKEVRQLAEDFLKD 231
>pdb|3LY5|A Chain A, Ddx18 Dead-Domain
pdb|3LY5|B Chain B, Ddx18 Dead-Domain
Length = 262
Score = 139 bits (349), Expect = 6e-33, Method: Compositional matrix adjust.
Identities = 75/195 (38%), Positives = 120/195 (61%), Gaps = 2/195 (1%)
Query: 30 LSPNVFRAIKRKGYKVPTPIQRKTMPLILSGADVVAMARTGSGKTAAFLVPMLQRLNQ-- 87
++ N +AIK G+ T IQ K++ +L G D++A A+TGSGKT AFL+P ++ + +
Sbjct: 61 VNENTLKAIKEMGFTNMTEIQHKSIRPLLEGRDLLAAAKTGSGKTLAFLIPAVELIVKLR 120
Query: 88 HVPQGGVRALILSPTRDLALQTLKFTKELGRYTDLRISLLVGGDSMESQFEELAQNPDII 147
+P+ G LILSPTR+LA+QT KEL + L++GG + ++ ++L +II
Sbjct: 121 FMPRNGTGVLILSPTRELAMQTFGVLKELMTHHVHTYGLIMGGSNRSAEAQKLGNGINII 180
Query: 148 IATPGRLMHHLSEVEDMSLKSVEYVVFDEADCLFGMGFAEQLHKILGQLSENRQTLLFSA 207
+ATPGRL+ H+ K+++ +V DEAD + +GF E+L +I+ L RQT+LFSA
Sbjct: 181 VATPGRLLDHMQNTPGFMYKNLQCLVIDEADRILDVGFEEELKQIIKLLPTRRQTMLFSA 240
Query: 208 TLPSALAEFAKAGLR 222
T + + A+ L+
Sbjct: 241 TQTRKVEDLARISLK 255
>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 = 134 bits (336), Expect = 2e-31, Method: Compositional matrix adjust.
Identities = 75/200 (37%), Positives = 119/200 (59%), Gaps = 6/200 (3%)
Query: 32 PNVFRAIKRKGYKVPTPIQRKTMPLILSGADVVAMARTGSGKTAAFLVPMLQRLNQHV-- 89
P++ ++I R G PTPIQ + P+IL G D++ +A+TG+GKT ++L+P L+
Sbjct: 29 PDLLKSIIRVGILKPTPIQSQAWPIILQGIDLIVVAQTGTGKTLSYLMPGFIHLDSQPIS 88
Query: 90 --PQGGVRALILSPTRDLALQTLKFTKELGRYTDLRISLLVGGDSMESQFEELAQNPDII 147
+ G L+L+PTR+LAL + Y L+ + GG + Q E++++ DII
Sbjct: 89 REQRNGPGMLVLTPTRELALHVEAECSKYS-YKGLKSICIYGGRNRNGQIEDISKGVDII 147
Query: 148 IATPGRLMHHLSEVEDMSLKSVEYVVFDEADCLFGMGFAEQLHKILGQLSENRQTLLFSA 207
IATPGRL + L ++L+S+ Y+V DEAD + M F Q+ KIL + +RQT++ SA
Sbjct: 148 IATPGRL-NDLQMNNSVNLRSITYLVIDEADKMLDMEFEPQIRKILLDVRPDRQTVMTSA 206
Query: 208 TLPSALAEFAKAGLRDPHLV 227
T P + + A + L+DP +V
Sbjct: 207 TWPDTVRQLALSYLKDPMIV 226
>pdb|3FHO|A Chain A, Structure Of S. Pombe Dbp5
pdb|3FHO|B Chain B, Structure Of S. Pombe Dbp5
Length = 508
Score = 133 bits (334), Expect = 3e-31, Method: Compositional matrix adjust.
Identities = 97/361 (26%), Positives = 182/361 (50%), Gaps = 24/361 (6%)
Query: 49 IQRKTMPLILSGA--DVVAMARTGSGKTAAFLVPMLQRLNQHVPQGGVRALILSPTRDLA 106
IQ K +PL+LS +++ +++G+GKTAAF + ML R++ VP+ +A+ L+P+R+LA
Sbjct: 145 IQEKALPLLLSNPPRNMIGQSQSGTGKTAAFALTMLSRVDASVPKP--QAICLAPSRELA 202
Query: 107 LQTLKFTKELGRYTDLRISLLVGGDSMESQFEELAQNPDIIIATPGRLMHHLSEVEDMSL 166
Q + E+G+YT+++ + + DS+ + AQ I+I TPG +M L + +
Sbjct: 203 RQIMDVVTEMGKYTEVKTAFGIK-DSVPKGAKIDAQ---IVIGTPGTVMD-LMKRRQLDA 257
Query: 167 KSVEYVVFDEADCLFGM-GFAEQLHKILGQLSENRQTLLFSATLPSALAEFAKAGLRDPH 225
+ ++ V DEAD + G +Q +I L N Q +LFSAT + ++A+ + +
Sbjct: 258 RDIKVFVLDEADNMLDQQGLGDQSMRIKHLLPRNTQIVLFSATFSERVEKYAERFAPNAN 317
Query: 226 LVRLDVDTKISPDLKLAFFTLRQEEKHAALLYMIREHISSDQQTLIFVSTKHHVEFLNVL 285
+RL + +K + + EE +L + ++ Q ++IF K E +
Sbjct: 318 EIRLKTEELSVEGIKQLYMDCQSEEHKYNVLVELYGLLTIGQ-SIIFCKKKDTAEEIARR 376
Query: 286 FREEGLEPSVCYGDMDQDARKIHVSRFRARKTMFLIVTDVAARGIDIPLLDNVINWDFP- 344
+G + G+++ R + FR + L+ T+V ARGID+ ++ V+N+D P
Sbjct: 377 MTADGHTVACLTGNLEGAQRDAIMDSFRVGTSKVLVTTNVIARGIDVSQVNLVVNYDMPL 436
Query: 345 -----PKPKIFVHRVXXXXXXXXXXXXFSFV----TSEDMAYLLDLHLFLSKPIRAAPSE 395
P P+ ++HR+ +FV + E+M + + + +PI P++
Sbjct: 437 DQAGRPDPQTYLHRIGRTGRFGRVGVSINFVHDKKSWEEMNAIQE---YFQRPITRVPTD 493
Query: 396 E 396
+
Sbjct: 494 D 494
>pdb|3BOR|A Chain A, Crystal Structure Of The Deadc Domain Of Human Translation
Initiation Factor 4a-2
Length = 237
Score = 131 bits (329), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 70/201 (34%), Positives = 121/201 (60%), Gaps = 4/201 (1%)
Query: 25 FESLNLSPNVFRAIKRKGYKVPTPIQRKTMPLILSGADVVAMARTGSGKTAAFLVPMLQR 84
F+ +NL ++ R I G++ P+ IQ++ + + G DV+A A++G+GKTA F + +LQ+
Sbjct: 32 FDDMNLKESLLRGIYAYGFEKPSAIQQRAIIPCIKGYDVIAQAQSGTGKTATFAISILQQ 91
Query: 85 LNQHVPQGGVRALILSPTRDLALQTLKFTKELGRYTDLRISLLVGGDSMESQFEEL-AQN 143
L + +AL+L+PTR+LA Q K LG Y +GG ++ ++ ++L A+
Sbjct: 92 LEIEFKE--TQALVLAPTRELAQQIQKVILALGDYMGATCHACIGGTNVRNEMQKLQAEA 149
Query: 144 PDIIIATPGRLMHHLSEVEDMSLKSVEYVVFDEADCLFGMGFAEQLHKILGQLSENRQTL 203
P I++ TPGR+ L+ +S K ++ V DEAD + GF +Q+++I +L+ + Q +
Sbjct: 150 PHIVVGTPGRVFDMLNR-RYLSPKWIKMFVLDEADEMLSRGFKDQIYEIFQKLNTSIQVV 208
Query: 204 LFSATLPSALAEFAKAGLRDP 224
L SAT+P+ + E K +RDP
Sbjct: 209 LLSATMPTDVLEVTKKFMRDP 229
>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 = 124 bits (311), Expect = 1e-28, Method: Compositional matrix adjust.
Identities = 68/201 (33%), Positives = 113/201 (56%), Gaps = 4/201 (1%)
Query: 25 FESLNLSPNVFRAIKRKGYKVPTPIQRKTMPLILSGADVVAMARTGSGKTAAFLVPMLQR 84
F+ +NLS ++ R I G++ P+ IQ++ + + G DV+A A++G+G TA F + +LQ+
Sbjct: 17 FDDMNLSESLLRGIYAYGFEXPSAIQQRAILPCIXGYDVIAQAQSGTGXTATFAISILQQ 76
Query: 85 LNQHVPQGGVRALILSPTRDLALQTLKFTKELGRYTDLRISLLVGGDSMESQFEEL-AQN 143
+ + +AL+L+PTR+LA Q LG Y +GG ++ ++ + L +
Sbjct: 77 IELDLX--ATQALVLAPTRELAQQIQXVVMALGDYMGASCHACIGGTNVRAEVQXLQMEA 134
Query: 144 PDIIIATPGRLMHHLSEVEDMSLKSVEYVVFDEADCLFGMGFAEQLHKILGQLSENRQTL 203
P II+ TPGR+ L+ +S + V DEAD + GF +Q++ I L+ N Q +
Sbjct: 135 PHIIVGTPGRVFDMLNR-RYLSPXYIXMFVLDEADEMLSRGFXDQIYDIFQXLNSNTQVV 193
Query: 204 LFSATLPSALAEFAKAGLRDP 224
L SAT+PS + E +RDP
Sbjct: 194 LLSATMPSDVLEVTXXFMRDP 214
>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 = 124 bits (310), Expect = 2e-28, Method: Compositional matrix adjust.
Identities = 65/202 (32%), Positives = 118/202 (58%), Gaps = 4/202 (1%)
Query: 25 FESLNLSPNVFRAIKRKGYKVPTPIQRKTMPLILSGADVVAMARTGSGKTAAFLVPMLQR 84
FE L + I G++ P+PIQ +++P+ LSG D++A A+ G+GK+ A+L+P+L+R
Sbjct: 5 FEDYCLKRELLMGIFEMGWEKPSPIQEESIPIALSGRDILARAKNGTGKSGAYLIPLLER 64
Query: 85 LNQHVPQGGVRALILSPTRDLALQTLKFTKELGRYT-DLRISLLVGGDSMESQFEELAQN 143
L+ + + ++A+++ PTR+LALQ + ++ ++ ++ GG ++ L
Sbjct: 65 LD--LKKDNIQAMVIVPTRELALQVSQICIQVSKHMGGAKVMATTGGTNLRDDIMRLDDT 122
Query: 144 PDIIIATPGRLMHHLSEVEDMSLKSVEYVVFDEADCLFGMGFAEQLHKILGQLSENRQTL 203
++IATPGR++ L + + V+ +V DEAD L F + + I+ L +NRQ L
Sbjct: 123 VHVVIATPGRIL-DLIKKGVAKVDHVQMIVLDEADKLLSQDFVQIMEDIILTLPKNRQIL 181
Query: 204 LFSATLPSALAEFAKAGLRDPH 225
L+SAT P ++ +F + L P+
Sbjct: 182 LYSATFPLSVQKFMNSHLEKPY 203
>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 = 119 bits (299), Expect = 4e-27, Method: Compositional matrix adjust.
Identities = 67/202 (33%), Positives = 113/202 (55%), Gaps = 8/202 (3%)
Query: 25 FESLNLSPNVFRAIKRKGYKVPTPIQRKTMPLILSGADVVAMARTGSGKTAAFLVPMLQR 84
F+ + L N+ R + G++ P+ IQ++ + I+ G DV+A A++G+GKT F + LQR
Sbjct: 16 FDDMELDENLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAALQR 75
Query: 85 LNQHV--PQGGVRALILSPTRDLALQTLKFTKELGRYTDLRISLLVGGDSMESQFEELAQ 142
++ V PQ AL+L+PTR+LALQ K L + D+++ +GG S E L +
Sbjct: 76 IDTSVKAPQ----ALMLAPTRELALQIQKVVMALAFHMDIKVHACIGGTSFVEDAEGL-R 130
Query: 143 NPDIIIATPGRLMHHLSEVEDMSLKSVEYVVFDEADCLFGMGFAEQLHKILGQLSENRQT 202
+ I++ TPGR+ ++ ++ + DEAD + GF EQ+++I L Q
Sbjct: 131 DAQIVVGTPGRVFDNIQR-RRFRTDKIKMFILDEADEMLSSGFKEQIYQIFTLLPPTTQV 189
Query: 203 LLFSATLPSALAEFAKAGLRDP 224
+L SAT+P+ + E +R+P
Sbjct: 190 VLLSATMPNDVLEVTTKFMRNP 211
>pdb|1QVA|A Chain A, Yeast Initiation Factor 4a N-Terminal Domain
Length = 223
Score = 117 bits (292), Expect = 3e-26, Method: Compositional matrix adjust.
Identities = 66/202 (32%), Positives = 112/202 (55%), Gaps = 8/202 (3%)
Query: 25 FESLNLSPNVFRAIKRKGYKVPTPIQRKTMPLILSGADVVAMARTGSGKTAAFLVPMLQR 84
F+ + L + R + G++ P+ IQ++ + I+ G DV+A A++G+GKT F + LQR
Sbjct: 23 FDDMELDEQLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAALQR 82
Query: 85 LNQHV--PQGGVRALILSPTRDLALQTLKFTKELGRYTDLRISLLVGGDSMESQFEELAQ 142
++ V PQ AL+L+PTR+LALQ K L + D+++ +GG S E L +
Sbjct: 83 IDTSVKAPQ----ALMLAPTRELALQIQKVVMALAFHMDIKVHACIGGTSFVEDAEGL-R 137
Query: 143 NPDIIIATPGRLMHHLSEVEDMSLKSVEYVVFDEADCLFGMGFAEQLHKILGQLSENRQT 202
+ I++ TPGR+ ++ ++ + DEAD + GF EQ+++I L Q
Sbjct: 138 DAQIVVGTPGRVFDNIQR-RRFRTDKIKMFILDEADEMLSSGFKEQIYQIFTLLPPTTQV 196
Query: 203 LLFSATLPSALAEFAKAGLRDP 224
+L SAT+P+ + E +R+P
Sbjct: 197 VLLSATMPNDVLEVTTKFMRNP 218
>pdb|3FMO|B Chain B, Crystal Structure Of The Nucleoporin Nup214 In Complex
With The Dead- Box Helicase Ddx19
Length = 300
Score = 114 bits (286), Expect = 1e-25, Method: Compositional matrix adjust.
Identities = 70/212 (33%), Positives = 127/212 (59%), Gaps = 13/212 (6%)
Query: 24 GFESLNLSPNVFRAIKRKGYKVPTPIQRKTMPLILS--GADVVAMARTGSGKTAAFLVPM 81
FE L L P + + + G+ P+ IQ +PL+L+ +++A +++G+GKTAAF++ M
Sbjct: 93 SFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVLAM 152
Query: 82 LQRLN--QHVPQGGVRALILSPTRDLALQTLKFTKELGR-YTDLRISLLVGGDSMESQFE 138
L ++ PQ L LSPT +LALQT K +++G+ Y +L+++ V G+ +E + +
Sbjct: 153 LSQVEPANKYPQ----CLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLE-RGQ 207
Query: 139 ELAQNPDIIIATPGRLMHHLSEVEDMSLKSVEYVVFDEADCLFG-MGFAEQLHKILGQLS 197
++++ I+I TPG ++ S+++ + K ++ V DEAD + G +Q +I L
Sbjct: 208 KISE--QIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRMLP 265
Query: 198 ENRQTLLFSATLPSALAEFAKAGLRDPHLVRL 229
N Q LLFSAT ++ +FA+ + DP++++L
Sbjct: 266 RNCQMLLFSATFEDSVWKFAQKVVPDPNVIKL 297
>pdb|3FHC|B Chain B, Crystal Structure Of Human Dbp5 In Complex With Nup214
Length = 235
Score = 114 bits (286), Expect = 1e-25, Method: Compositional matrix adjust.
Identities = 70/211 (33%), Positives = 127/211 (60%), Gaps = 13/211 (6%)
Query: 25 FESLNLSPNVFRAIKRKGYKVPTPIQRKTMPLILS--GADVVAMARTGSGKTAAFLVPML 82
FE L L P + + + G+ P+ IQ +PL+L+ +++A +++G+GKTAAF++ ML
Sbjct: 27 FEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVLAML 86
Query: 83 QRLN--QHVPQGGVRALILSPTRDLALQTLKFTKELGR-YTDLRISLLVGGDSMESQFEE 139
++ PQ L LSPT +LALQT K +++G+ Y +L+++ V G+ +E + ++
Sbjct: 87 SQVEPANKYPQ----CLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLE-RGQK 141
Query: 140 LAQNPDIIIATPGRLMHHLSEVEDMSLKSVEYVVFDEADCLFG-MGFAEQLHKILGQLSE 198
+++ I+I TPG ++ S+++ + K ++ V DEAD + G +Q +I L
Sbjct: 142 ISEQ--IVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRMLPR 199
Query: 199 NRQTLLFSATLPSALAEFAKAGLRDPHLVRL 229
N Q LLFSAT ++ +FA+ + DP++++L
Sbjct: 200 NCQMLLFSATFEDSVWKFAQKVVPDPNVIKL 230
>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 = 113 bits (283), Expect = 3e-25, Method: Compositional matrix adjust.
Identities = 68/209 (32%), Positives = 108/209 (51%), Gaps = 7/209 (3%)
Query: 25 FESLNLSPNVFRAIKRKGYKVPTPIQRKTMPLILSGADVVAMARTGSGKTAAFLVPMLQR 84
F P + AIK + PT IQ + +P L G V ++TG+GKT A+L+P+ ++
Sbjct: 6 FTRFPFQPFIIEAIKTLRFYKPTEIQERIIPGALRGESXVGQSQTGTGKTHAYLLPIXEK 65
Query: 85 LNQHVPQGGVRALILSPTRDLALQ----TLKFTKELGRYTDLRISLLVGGDSMESQFEEL 140
+ + V+A+I +PTR+LA Q TLK TK + + L+GG + E+L
Sbjct: 66 IKPE--RAEVQAVITAPTRELATQIYHETLKITKFCPKDRXIVARCLIGGTDKQKALEKL 123
Query: 141 AQNPDIIIATPGRLMHHLSEVEDMSLKSVEYVVFDEADCLFGMGFAEQLHKILGQLSENR 200
P I+I TPGR+ + E + + + + +V DEAD GF + +I + ++
Sbjct: 124 NVQPHIVIGTPGRINDFIRE-QALDVHTAHILVVDEADLXLDXGFITDVDQIAARXPKDL 182
Query: 201 QTLLFSATLPSALAEFAKAGLRDPHLVRL 229
Q L+FSAT+P L F K +P V +
Sbjct: 183 QXLVFSATIPEKLKPFLKKYXENPTFVHV 211
>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 = 106 bits (264), Expect = 4e-23, Method: Compositional matrix adjust.
Identities = 61/204 (29%), Positives = 112/204 (54%), Gaps = 6/204 (2%)
Query: 24 GFESLNLSPNVFRAIKRKGYKVPTPIQRKTMPLILSGADVVAMARTGSGKTAAFLVPMLQ 83
GF L P + RAI G++ P+ +Q + +P + G DV+ A++G GKTA F++ LQ
Sbjct: 15 GFRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQ 74
Query: 84 RLNQHVPQGGVRALILSPTRDLALQTLKFTKELGRYT-DLRISLLVGGDSMESQFEELAQ 142
+L G V L++ TR+LA Q K + +Y ++++++ GG S++ E L +
Sbjct: 75 QLEP--VTGQVSVLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEVLKK 132
Query: 143 N-PDIIIATPGRLMHHLSEVEDMSLKSVEYVVFDEADCLF-GMGFAEQLHKILGQLSENR 200
N P I++ TPGR++ L+ + ++LK +++ + DE D + + + +I +
Sbjct: 133 NCPHIVVGTPGRIL-ALARNKSLNLKHIKHFILDECDKMLEQLDMRRDVQEIFRMTPHEK 191
Query: 201 QTLLFSATLPSALAEFAKAGLRDP 224
Q ++FSATL + + ++DP
Sbjct: 192 QVMMFSATLSKEIRPVCRKFMQDP 215
>pdb|2KBE|A Chain A, Solution Structure Of Amino-Terminal Domain Of Dbp5p
Length = 226
Score = 105 bits (261), Expect = 8e-23, Method: Compositional matrix adjust.
Identities = 66/198 (33%), Positives = 116/198 (58%), Gaps = 10/198 (5%)
Query: 24 GFESLNLSPNVFRAIKRKGYKVPTPIQRKTMPLILSGA--DVVAMARTGSGKTAAFLVPM 81
F+ L L+P + + I ++ P+ IQ + +PL+L +++A +++G+GKTAAF + M
Sbjct: 23 SFDELGLAPELLKGIYAMKFQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAAFSLTM 82
Query: 82 LQRLNQHVPQGGVRALILSPTRDLALQTLKFTKELGRYTDLRISLLVGGDSMESQFEELA 141
L R+N +A+ L+P+R+LA QTL+ +E+G++T + L+V DS E + A
Sbjct: 83 LTRVNPE--DASPQAICLAPSRELARQTLEVVQEMGKFTKITSQLIV-PDSFEKNKQINA 139
Query: 142 QNPDIIIATPGRLMHHLSEVEDMSLKSVEYVVFDEADCLFG-MGFAEQLHKILGQLSENR 200
Q +I+ TPG ++ L + M L+ ++ V DEAD + G +Q ++ L ++
Sbjct: 140 Q---VIVGTPGTVL-DLMRRKLMQLQKIKIFVLDEADNMLDQQGLGDQCIRVKRFLPKDT 195
Query: 201 QTLLFSATLPSALAEFAK 218
Q +LFSAT A+ ++AK
Sbjct: 196 QLVLFSATFADAVRQYAK 213
>pdb|3DKP|A Chain A, Human Dead-Box Rna-Helicase Ddx52, Conserved Domain I In
Complex With Adp
Length = 245
Score = 105 bits (261), Expect = 9e-23, Method: Compositional matrix adjust.
Identities = 69/186 (37%), Positives = 109/186 (58%), Gaps = 7/186 (3%)
Query: 42 GYKVPTPIQRKTMPLILSGADVVAMARTGSGKTAAFLVPMLQRLNQHVPQGGVRALILSP 101
G+++PTPIQ + +P++L G +++A A TGSGKT AF +P+L +L Q + G RALI+SP
Sbjct: 48 GFQMPTPIQMQAIPVMLHGRELLASAPTGSGKTLAFSIPILMQLKQPANK-GFRALIISP 106
Query: 102 TRDLALQTLKFTKELGRYTDLRISLLVGGDSMESQF-EELAQNPDIIIATPGRLMHHLSE 160
TR+LA Q + ++ T RI ++ +F + ++ DI++ TP RL++ L +
Sbjct: 107 TRELASQIHRELIKISEGTGFRIHMIHKAAVAAKKFGPKSSKKFDILVTTPNRLIYLLKQ 166
Query: 161 -VEDMSLKSVEYVVFDEADCLF---GMGFAEQLHKI-LGQLSENRQTLLFSATLPSALAE 215
+ L SVE++V DE+D LF GF +QL I L S + +FSAT + +
Sbjct: 167 DPPGIDLASVEWLVVDESDKLFEDGKTGFRDQLASIFLACTSHKVRRAMFSATFAYDVEQ 226
Query: 216 FAKAGL 221
+ K L
Sbjct: 227 WCKLNL 232
>pdb|2OXC|A Chain A, Human Dead-Box Rna Helicase Ddx20, Dead Domain In Complex
With Adp
pdb|2OXC|B Chain B, Human Dead-Box Rna Helicase Ddx20, Dead Domain In Complex
With Adp
pdb|3B7G|A Chain A, Human Dead-Box Rna Helicase Ddx20, Conserved Domain I
(Dead) In Complex With Amppnp
(Adenosine-(Beta,Gamma)-Imidotriphosphate)
pdb|3B7G|B Chain B, Human Dead-Box Rna Helicase Ddx20, Conserved Domain I
(Dead) In Complex With Amppnp
(Adenosine-(Beta,Gamma)-Imidotriphosphate)
Length = 230
Score = 103 bits (256), Expect = 4e-22, Method: Compositional matrix adjust.
Identities = 70/208 (33%), Positives = 110/208 (52%), Gaps = 6/208 (2%)
Query: 25 FESLNLSPNVFRAIKRKGYKVPTPIQRKTMPLILSGADVVAMARTGSGKTAAFLVPMLQR 84
FESL LS V ++ G++ P+P+Q K +PL G D++ A++G+GKT F L
Sbjct: 26 FESLLLSRPVLEGLRAAGFERPSPVQLKAIPLGRCGLDLIVQAKSGTGKTCVFSTIALDS 85
Query: 85 LNQHVPQGGVRALILSPTRDLALQTLKFTKELG-RYTDLRISLLVGGDSMESQFEELAQN 143
L + + LIL+PTR++A+Q +G + L + +GG + SQ + +
Sbjct: 86 L--VLENLSTQILILAPTREIAVQIHSVITAIGIKMEGLECHVFIGGTPL-SQDKTRLKK 142
Query: 144 PDIIIATPGRLMHHLSEVEDMSLKSVEYVVFDEADCLFGMG-FAEQLHKILGQLSENRQT 202
I + +PGR+ L E++ ++ S+ + DEAD L G F EQ++ I L ++Q
Sbjct: 143 CHIAVGSPGRI-KQLIELDYLNPGSIRLFILDEADKLLEEGSFQEQINWIYSSLPASKQM 201
Query: 203 LLFSATLPSALAEFAKAGLRDPHLVRLD 230
L SAT P LA +RDP VRL+
Sbjct: 202 LAVSATYPEFLANALTKYMRDPTFVRLN 229
>pdb|1FUK|A Chain A, Crystal Structure Of The Carboxy Terminal Domain Of Yeast
Eif4a
Length = 165
Score = 78.6 bits (192), Expect = 1e-14, Method: Composition-based stats.
Identities = 50/163 (30%), Positives = 79/163 (48%), Gaps = 1/163 (0%)
Query: 239 LKLAFFTLRQEEKHAALLYMIREHISSDQQTLIFVSTKHHVEFLNVLFREEGLEPSVCYG 298
+K + + +EE L + + IS Q +IF +T+ VE L R + S Y
Sbjct: 4 IKQFYVNVEEEEYKYECLTDLYDSISV-TQAVIFCNTRRKVEELTTKLRNDKFTVSAIYS 62
Query: 299 DMDQDARKIHVSRFRARKTMFLIVTDVAARGIDIPLLDNVINWDFPPKPKIFVHRVXXXX 358
D+ Q R + FR+ + LI TD+ ARGID+ + VIN+D P + ++HR+
Sbjct: 63 DLPQQERDTIMKEFRSGSSRILISTDLLARGIDVQQVSLVINYDLPANKENYIHRIGRGG 122
Query: 359 XXXXXXXXFSFVTSEDMAYLLDLHLFLSKPIRAAPSEEEVLLD 401
+FVT+ED+ + +L F S I PS+ LL+
Sbjct: 123 RFGRKGVAINFVTNEDVGAMRELEKFYSTQIEELPSDIATLLN 165
>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 = 70.1 bits (170), Expect = 4e-12, Method: Composition-based stats.
Identities = 42/148 (28%), Positives = 73/148 (49%), Gaps = 2/148 (1%)
Query: 249 EEKHAALLYMIREHISSDQQTLIFVSTKHHVEFLNVLFREEGLEPSVCYGDMDQDARKIH 308
E K A L++++++ ++ ++++FV + V L RE G+ G+M Q R
Sbjct: 15 EHKTALLVHLLKQPEAT--RSIVFVRKRERVHELANWLREAGINNCYLEGEMVQGKRNEA 72
Query: 309 VSRFRARKTMFLIVTDVAARGIDIPLLDNVINWDFPPKPKIFVHRVXXXXXXXXXXXXFS 368
+ R + L+ TDVAARGIDIP + +V N+D P ++HR+ S
Sbjct: 73 IKRLTEGRVNVLVATDVAARGIDIPDVSHVFNFDMPRSGDTYLHRIGRTARAGRKGTAIS 132
Query: 369 FVTSEDMAYLLDLHLFLSKPIRAAPSEE 396
V + D L + ++ +PI+A +E
Sbjct: 133 LVEAHDHLLLGKVGRYIEEPIKARVIDE 160
>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 = 68.2 bits (165), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 41/151 (27%), Positives = 74/151 (49%), Gaps = 1/151 (0%)
Query: 250 EKHAALLYMIREHISSDQQTLIFVSTKHHVEFLNVLFREEGLEPSVCYGDMDQDARKIHV 309
++ A ++Y++ + LIF K V+ ++ +G+E +G DQ+ R +
Sbjct: 38 KEEAKMVYLLECLQKTPPPVLIFAEKKADVDAIHEYLLLKGVEAVAIHGGKDQEERTKAI 97
Query: 310 SRFRARKTMFLIVTDVAARGIDIPLLDNVINWDFPPKPKIFVHRVXXXXXXXXXXXXFSF 369
FR K L+ TDVA++G+D P + +VIN+D P + + +VHR+ +F
Sbjct: 98 EAFREGKKDVLVATDVASKGLDFPAIQHVINYDMPEEIENYVHRIGRTGCSGNTGIATTF 157
Query: 370 VTSE-DMAYLLDLHLFLSKPIRAAPSEEEVL 399
+ D + L+DL L + + P +VL
Sbjct: 158 INKACDESVLMDLKALLLEAKQKVPPVLQVL 188
>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 = 66.2 bits (160), Expect = 5e-11, Method: Compositional matrix adjust.
Identities = 41/129 (31%), Positives = 62/129 (48%)
Query: 266 DQQTLIFVSTKHHVEFLNVLFREEGLEPSVCYGDMDQDARKIHVSRFRARKTMFLIVTDV 325
D TL+FV TK + L EG + +GD Q R+ + +FR+ K+ L+ T V
Sbjct: 46 DSLTLVFVETKKGADSLEDFLYHEGYACTSIHGDRSQRDREEALHQFRSGKSPILVATAV 105
Query: 326 AARGIDIPLLDNVINWDFPPKPKIFVHRVXXXXXXXXXXXXFSFVTSEDMAYLLDLHLFL 385
AARG+DI + +VIN+D P + +VHR+ SF ++ DL L
Sbjct: 106 AARGLDISNVKHVINFDLPSDIEEYVHRIGRTGRVGNLGLATSFFNERNINITKDLLDLL 165
Query: 386 SKPIRAAPS 394
+ + PS
Sbjct: 166 VEAKQEVPS 174
>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 = 65.9 bits (159), Expect = 5e-11, Method: Composition-based stats.
Identities = 36/112 (32%), Positives = 55/112 (49%), Gaps = 6/112 (5%)
Query: 269 TLIFVSTKHHVEFLNVLFREEGLEPSVCYGDMDQDARKIHVSRFRARKTMFLIVTDVAAR 328
++IFV+TK L + EG E S+ +GD+ R + FR ++ LI T+V AR
Sbjct: 39 SIIFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDDFREGRSKVLITTNVLAR 98
Query: 329 GIDIPLLDNVINWDFP------PKPKIFVHRVXXXXXXXXXXXXFSFVTSED 374
GIDIP + V+N+D P P ++HR+ SFV ++
Sbjct: 99 GIDIPTVSXVVNYDLPTLANGQADPATYIHRIGRTGRFGRKGVAISFVHDKN 150
>pdb|3GFP|A Chain A, Structure Of The C-Terminal Domain Of The Dead-Box Protein
Dbp5
Length = 189
Score = 65.9 bits (159), Expect = 5e-11, Method: Composition-based stats.
Identities = 36/112 (32%), Positives = 55/112 (49%), Gaps = 6/112 (5%)
Query: 269 TLIFVSTKHHVEFLNVLFREEGLEPSVCYGDMDQDARKIHVSRFRARKTMFLIVTDVAAR 328
++IFV+TK L + EG E S+ +GD+ R + FR ++ LI T+V AR
Sbjct: 40 SIIFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDDFREGRSKVLITTNVLAR 99
Query: 329 GIDIPLLDNVINWDFP------PKPKIFVHRVXXXXXXXXXXXXFSFVTSED 374
GIDIP + V+N+D P P ++HR+ SFV ++
Sbjct: 100 GIDIPTVSXVVNYDLPTLANGQADPATYIHRIGRTGRFGRKGVAISFVHDKN 151
>pdb|2KBF|A Chain A, Solution Structure Of Carboxyl-Terminal Domain Of Dbp5p
Length = 187
Score = 65.1 bits (157), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 36/108 (33%), Positives = 53/108 (49%), Gaps = 6/108 (5%)
Query: 269 TLIFVSTKHHVEFLNVLFREEGLEPSVCYGDMDQDARKIHVSRFRARKTMFLIVTDVAAR 328
++IFV+TK L + EG E S+ +GD+ R + FR ++ LI T+V AR
Sbjct: 38 SIIFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDDFREGRSKVLITTNVLAR 97
Query: 329 GIDIPLLDNVINWDFP------PKPKIFVHRVXXXXXXXXXXXXFSFV 370
GIDIP + V+N+D P P ++HR+ SFV
Sbjct: 98 GIDIPTVSMVVNYDLPTLANGQADPATYIHRIGRTGRFGRKGVAISFV 145
>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 = 64.7 bits (156), Expect = 1e-10, Method: Composition-based stats.
Identities = 44/153 (28%), Positives = 75/153 (49%), Gaps = 2/153 (1%)
Query: 238 DLKLAFFTLRQEEKHAALLYMIREHISSDQQTLIFVSTKHHVEFLNVLFREEGLEPSVCY 297
+++ A +R+E K + L ++ + +IF TK HV L + G +
Sbjct: 9 NIEHAVIQVREENKFSLLKDVLM--TENPDSCIIFCRTKEHVNQLTDELDDLGYPCDKIH 66
Query: 298 GDMDQDARKIHVSRFRARKTMFLIVTDVAARGIDIPLLDNVINWDFPPKPKIFVHRVXXX 357
G M Q+ R ++ F+ + +L+ TDVAARGIDI + VIN+D P + + +VHR
Sbjct: 67 GGMIQEDRFDVMNEFKRGEYRYLVATDVAARGIDIENISLVINYDLPLEKESYVHRTGRT 126
Query: 358 XXXXXXXXXFSFVTSEDMAYLLDLHLFLSKPIR 390
SFVT+ + +L D+ ++ I+
Sbjct: 127 GRAGNKGKAISFVTAFEKRFLADIEEYIGFEIQ 159
>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 = 62.4 bits (150), Expect = 7e-10, Method: Compositional matrix adjust.
Identities = 37/144 (25%), Positives = 70/144 (48%), Gaps = 11/144 (7%)
Query: 268 QTLIFVSTKHHVEFLNVLFREEGLEPSVCYGDMDQDARKIHVSRFRARKTMFLIVTDVAA 327
Q +IF T+ + ++L V ++G + S+ G++ + R + RFR K LI T+V A
Sbjct: 36 QAIIFCQTRRNAKWLTVEMIQDGHQVSLLSGELTVEQRASIIQRFRDGKEKVLITTNVCA 95
Query: 328 RGIDIPLLDNVINWDFP------PKPKIFVHRVXXXXXXXXXXXXFSFVTSEDMAYLLDL 381
RGID+ + V+N+D P P + ++HR+ F+ + +++ L+ +
Sbjct: 96 RGIDVKQVTIVVNFDLPVKQGEEPDYETYLHRIGRTGRFGKKGLAFNMIEVDELPSLMKI 155
Query: 382 HLFLSKPIRAAPSEEEVLLDMDGV 405
+ I+ +E DMD +
Sbjct: 156 QDHFNSSIKQLNAE-----DMDEI 174
>pdb|3I32|A Chain A, Dimeric Structure Of A Hera Helicase Fragment Including
The C-Terminal Reca Domain, The Dimerization Domain, And
The Rna Binding Domain
Length = 300
Score = 57.8 bits (138), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 28/91 (30%), Positives = 48/91 (52%)
Query: 262 HISSDQQTLIFVSTKHHVEFLNVLFREEGLEPSVCYGDMDQDARKIHVSRFRARKTMFLI 321
+++S + ++F TK E + G +GDM Q R+ + FR + L+
Sbjct: 24 YVASPDRAMVFTRTKAETEEIAQGLLRLGHPAQALHGDMSQGERERVMGAFRQGEVRVLV 83
Query: 322 VTDVAARGIDIPLLDNVINWDFPPKPKIFVH 352
TDVAARG+DIP +D V+++ P + + + H
Sbjct: 84 ATDVAARGLDIPQVDLVVHYRMPDRAEAYQH 114
>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 = 56.6 bits (135), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 53/231 (22%), Positives = 99/231 (42%), Gaps = 41/231 (17%)
Query: 250 EKHAALLYMIREHIS-------SDQQTLIFVSTKHHVEFLNVLFREE---GLEPSVCYGD 299
EK A ++ EHI S+ + +IF T FL + + E L +G
Sbjct: 10 EKFANSIFAAVEHIKKQIKERDSNYKAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGK 69
Query: 300 MDQDARKIHVSRFRARKTMFLIVTDVAARGIDIPLLDNVINWDFPPKPKIFVHRVXXXXX 359
+ Q+ R V RF+ ++ L+ TDV ARG+D P + V+ P + ++HR+
Sbjct: 70 ITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTAR 129
Query: 360 XXXXXXXFSFVTSEDMAYLLDL----HLFLSKPIRAAPSEEEVLLDMDGVMSKIDQAIAN 415
F+ +++ ++ +L ++ ++K + PSEE + S++ +A+
Sbjct: 130 SGKEGSSVLFICKDELPFVRELEDAKNIVIAKQEKYEPSEE--------IKSEVLEAVTE 181
Query: 416 GETIYGRFPQTVIDLVSDRVREIIDSSADLNSLQRTCTNAFRLYSKTKPLP 466
P+ + D+V L S R+C +R +S+ + LP
Sbjct: 182 E-------PEDISDIV-----------ISLISSYRSCIKEYR-FSERRILP 213
>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 = 56.6 bits (135), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 53/231 (22%), Positives = 99/231 (42%), Gaps = 41/231 (17%)
Query: 250 EKHAALLYMIREHIS-------SDQQTLIFVSTKHHVEFLNVLFREE---GLEPSVCYGD 299
EK A ++ EHI S+ + +IF T FL + + E L +G
Sbjct: 10 EKFANSIFAAVEHIKKQIKERDSNYKAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGK 69
Query: 300 MDQDARKIHVSRFRARKTMFLIVTDVAARGIDIPLLDNVINWDFPPKPKIFVHRVXXXXX 359
+ Q+ R V RF+ ++ L+ TDV ARG+D P + V+ P + ++HR+
Sbjct: 70 ITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTAR 129
Query: 360 XXXXXXXFSFVTSEDMAYLLDL----HLFLSKPIRAAPSEEEVLLDMDGVMSKIDQAIAN 415
F+ +++ ++ +L ++ ++K + PSEE + S++ +A+
Sbjct: 130 SGKEGSSVLFICKDELPFVRELEDAKNIVIAKQEKYEPSEE--------IKSEVLEAVTE 181
Query: 416 GETIYGRFPQTVIDLVSDRVREIIDSSADLNSLQRTCTNAFRLYSKTKPLP 466
P+ + D+V L S R+C +R +S+ + LP
Sbjct: 182 E-------PEDISDIV-----------ISLISSYRSCIKEYR-FSERRILP 213
>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 = 56.2 bits (134), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 53/231 (22%), Positives = 99/231 (42%), Gaps = 41/231 (17%)
Query: 250 EKHAALLYMIREHIS-------SDQQTLIFVSTKHHVEFLNVLFREE---GLEPSVCYGD 299
EK A ++ EHI S+ + +IF T FL + + E L +G
Sbjct: 10 EKFANSIFAAVEHIKKQIKERDSNYKAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGK 69
Query: 300 MDQDARKIHVSRFRARKTMFLIVTDVAARGIDIPLLDNVINWDFPPKPKIFVHRVXXXXX 359
+ Q+ R V RF+ ++ L+ TDV ARG+D P + V+ P + ++HR+
Sbjct: 70 ITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTAR 129
Query: 360 XXXXXXXFSFVTSEDMAYLLDL----HLFLSKPIRAAPSEEEVLLDMDGVMSKIDQAIAN 415
F+ +++ ++ +L ++ ++K + PSEE + S++ +A+
Sbjct: 130 SGKEGSSVLFICKDELPFVRELEDAKNIVIAKQEKYEPSEE--------IKSEVLEAVTE 181
Query: 416 GETIYGRFPQTVIDLVSDRVREIIDSSADLNSLQRTCTNAFRLYSKTKPLP 466
P+ + D+V L S R+C +R +S+ + LP
Sbjct: 182 E-------PEDISDIV-----------ISLISSYRSCIKEYR-FSERRILP 213
>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 = 55.5 bits (132), Expect = 8e-08, Method: Compositional matrix adjust.
Identities = 42/175 (24%), Positives = 74/175 (42%), Gaps = 3/175 (1%)
Query: 220 GLRDPHLVRLDVDTKISPDLKLAFFTLRQEEKHAALLYMIREHISSDQQTLIFVSTKHHV 279
G +DP+ + L + + + + +++ H R I+ Q++IF ++ V
Sbjct: 1 GPQDPYEINLMEELTLKGVTQYYAYVTERQKVHCLNTLFSRLQIN---QSIIFCNSSQRV 57
Query: 280 EFLNVLFREEGLEPSVCYGDMDQDARKIHVSRFRARKTMFLIVTDVAARGIDIPLLDNVI 339
E L + G + M Q+ R FR L+ TD+ RGIDI ++ VI
Sbjct: 58 ELLAKKISQLGYSCFYIHAKMRQEHRNRVFHDFRNGLCRNLVCTDLFTRGIDIQAVNVVI 117
Query: 340 NWDFPPKPKIFVHRVXXXXXXXXXXXXFSFVTSEDMAYLLDLHLFLSKPIRAAPS 394
N+DFP + ++HR+ + +T +D L + L I+ PS
Sbjct: 118 NFDFPKLAETYLHRIGRSGRFGHLGLAINLITYDDRFNLKSIEEQLGTEIKPIPS 172
>pdb|3EAQ|A Chain A, Novel Dimerization Motif In The Dead Box Rna Helicase Hera
Form 2, Complete Dimer, Symmetric
pdb|3EAQ|B Chain B, Novel Dimerization Motif In The Dead Box Rna Helicase Hera
Form 2, Complete Dimer, Symmetric
pdb|3EAR|A Chain A, Novel Dimerization Motif In The Dead Box Rna Helicase
Hera: Form 1, Partial Dimer
pdb|3EAR|B Chain B, Novel Dimerization Motif In The Dead Box Rna Helicase
Hera: Form 1, Partial Dimer
pdb|3EAS|A Chain A, Novel Dimerization Motif In The Dead Box Rna Helicase
Hera: Form 1, Complete Dimer, Asymmetric
pdb|3EAS|B Chain B, Novel Dimerization Motif In The Dead Box Rna Helicase
Hera: Form 1, Complete Dimer, Asymmetric
Length = 212
Score = 55.5 bits (132), Expect = 9e-08, Method: Compositional matrix adjust.
Identities = 27/91 (29%), Positives = 48/91 (52%)
Query: 262 HISSDQQTLIFVSTKHHVEFLNVLFREEGLEPSVCYGDMDQDARKIHVSRFRARKTMFLI 321
+++S + ++F TK E + G +GD+ Q R+ + FR + L+
Sbjct: 27 YVASPDRAMVFTRTKAETEEIAQGLLRLGHPAQALHGDLSQGERERVLGAFRQGEVRVLV 86
Query: 322 VTDVAARGIDIPLLDNVINWDFPPKPKIFVH 352
TDVAARG+DIP +D V+++ P + + + H
Sbjct: 87 ATDVAARGLDIPQVDLVVHYRLPDRAEAYQH 117
>pdb|1T5I|A Chain A, Crystal Structure Of The C-Terminal Domain Of Uap56
Length = 172
Score = 47.0 bits (110), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 33/142 (23%), Positives = 62/142 (43%), Gaps = 2/142 (1%)
Query: 239 LKLAFFTLRQEEKHAALLYMIREHISSDQQTLIFVSTKHHVEFLNVLFREEGLEPSVCYG 298
L+ + L+ EK+ L ++ + Q +IFV + L L E+ +
Sbjct: 6 LQQYYVKLKDNEKNRKLFDLL--DVLEFNQVVIFVKSVQRCIALAQLLVEQNFPAIAIHR 63
Query: 299 DMDQDARKIHVSRFRARKTMFLIVTDVAARGIDIPLLDNVINWDFPPKPKIFVHRVXXXX 358
M Q+ R +F+ + L+ T++ RG+DI ++ N+D P ++HRV
Sbjct: 64 GMPQEERLSRYQQFKDFQRRILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVARAG 123
Query: 359 XXXXXXXXFSFVTSEDMAYLLD 380
+FV+ E+ A +L+
Sbjct: 124 RFGTKGLAITFVSDENDAKILN 145
>pdb|1OYY|A Chain A, Structure Of The Recq Catalytic Core Bound To Atp-Gamma-S
Length = 523
Score = 45.8 bits (107), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 74/365 (20%), Positives = 151/365 (41%), Gaps = 33/365 (9%)
Query: 26 ESLNLSPNVFRAIKRK-GYKVPTPIQRKTMPLILSGADVVAMARTGSGKTAAFLVPMLQR 84
E LNL + ++ GY+ P Q + + +LSG D + + TG GK+ + +P L
Sbjct: 5 EVLNLESGAKQVLQETFGYQQFRPGQEEIIDTVLSGRDCLVVMPTGGGKSLCYQIPAL-L 63
Query: 85 LNQHVPQGGVRALILSPTRDLALQTLKFTKELGRYTDLRISLLVGGDSMESQFEELAQ-- 142
LN G+ +++SP L +K + + + + L + E Q E +
Sbjct: 64 LN------GL-TVVVSPLISL----MKDQVDQLQANGVAAACLNSTQTREQQLEVMTGCR 112
Query: 143 --NPDIIIATPGRLMHHLSEVEDMSLKSVEYVVFDEADCL--FGMGFAEQLHKILGQLSE 198
++ P RLM + +E ++ + + DEA C+ +G F + + LGQL +
Sbjct: 113 TGQIRLLYIAPERLMLD-NFLEHLAHWNPVLLAVDEAHCISQWGHDFRPE-YAALGQLRQ 170
Query: 199 NRQTLLFSATLPSALAEFAK-----AGLRDPHLVRLDVDTKISPDLKLAFFTLRQEEKHA 253
TL F A +A + GL DP + + + P+++ + + + +
Sbjct: 171 RFPTLPFMALTATADDTTRQDIVRLLGLNDP---LIQISSFDRPNIR--YMLMEKFKPLD 225
Query: 254 ALLYMIREHISSDQQTLIFVSTKHHVEFLNVLFREEGLEPSVCYGDMDQDARKIHVSRFR 313
L+ ++E + +I+ +++ VE + +G+ + + ++ + R +F+
Sbjct: 226 QLMRYVQEQ--RGKSGIIYCNSRAKVEDTAARLQSKGISAAAYHAGLENNVRADVQEKFQ 283
Query: 314 ARKTMFLIVTDVAARGIDIPLLDNVINWDFPPKPKIFVHRVXXXXXXXXXXXXFSFVTSE 373
++ T GI+ P + V+++D P + + F
Sbjct: 284 RDDLQIVVATVAFGMGINKPNVRFVVHFDIPRNIESYYQETGRAGRDGLPAEAMLFYDPA 343
Query: 374 DMAYL 378
DMA+L
Sbjct: 344 DMAWL 348
>pdb|3TMI|A Chain A, Structural Basis For Rna Recognition And Activation Of
Rig-I
Length = 695
Score = 42.7 bits (99), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 33/122 (27%), Positives = 57/122 (46%), Gaps = 4/122 (3%)
Query: 58 LSGADVVAMARTGSGKTAAFLVPMLQRLNQHVPQGGVRALILSPTRDLALQTLK--FTKE 115
+ G + + A TG GKT L+ L + PQG ++ + + K F+K
Sbjct: 25 MKGKNTIICAPTGCGKTFVSLLICEHHLKK-FPQGQKGKVVFFANQIPVYEQQKSVFSKY 83
Query: 116 LGRYTDLRISLLVGGDSMESQFEELAQNPDIIIATPGRLMHHLSEVEDMSLKSVEYVVFD 175
R+ R++ + G + E++ +N DIII TP L+++L + SL ++FD
Sbjct: 84 FERH-GYRVTGISGATAENVPVEQIVENNDIIILTPQILVNNLKKGTIPSLSIFTLMIFD 142
Query: 176 EA 177
E
Sbjct: 143 EC 144
>pdb|2YKG|A Chain A, Structural Insights Into Rna Recognition By Rig-I
Length = 696
Score = 42.4 bits (98), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 33/122 (27%), Positives = 57/122 (46%), Gaps = 4/122 (3%)
Query: 58 LSGADVVAMARTGSGKTAAFLVPMLQRLNQHVPQGGVRALILSPTRDLALQTLK--FTKE 115
+ G + + A TG GKT L+ L + PQG ++ + + K F+K
Sbjct: 26 MKGKNTIICAPTGCGKTFVSLLICEHHLKK-FPQGQKGKVVFFANQIPVYEQNKSVFSKY 84
Query: 116 LGRYTDLRISLLVGGDSMESQFEELAQNPDIIIATPGRLMHHLSEVEDMSLKSVEYVVFD 175
R+ R++ + G + E++ +N DIII TP L+++L + SL ++FD
Sbjct: 85 FERH-GYRVTGISGATAENVPVEQIVENNDIIILTPQILVNNLKKGTIPSLSIFTLMIFD 143
Query: 176 EA 177
E
Sbjct: 144 EC 145
>pdb|4AY2|A Chain A, Capturing 5' Tri-Phosphorylated Rna Duplex By Rig-I
Length = 687
Score = 42.4 bits (98), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 33/122 (27%), Positives = 57/122 (46%), Gaps = 4/122 (3%)
Query: 58 LSGADVVAMARTGSGKTAAFLVPMLQRLNQHVPQGGVRALILSPTRDLALQTLK--FTKE 115
+ G + + A TG GKT L+ L + PQG ++ + + K F+K
Sbjct: 17 MKGKNTIICAPTGCGKTFVSLLICEHHLKK-FPQGQKGKVVFFANQIPVYEQNKSVFSKY 75
Query: 116 LGRYTDLRISLLVGGDSMESQFEELAQNPDIIIATPGRLMHHLSEVEDMSLKSVEYVVFD 175
R+ R++ + G + E++ +N DIII TP L+++L + SL ++FD
Sbjct: 76 FERH-GYRVTGISGATAENVPVEQIVENNDIIILTPQILVNNLKKGTIPSLSIFTLMIFD 134
Query: 176 EA 177
E
Sbjct: 135 EC 136
>pdb|1OYW|A Chain A, Structure Of The Recq Catalytic Core
Length = 523
Score = 42.0 bits (97), Expect = 9e-04, Method: Compositional matrix adjust.
Identities = 76/346 (21%), Positives = 135/346 (39%), Gaps = 63/346 (18%)
Query: 26 ESLNLSPNVFRAIKRK-GYKVPTPIQRKTMPLILSGADVVAMARTGSGKTAAFLVPMLQR 84
E LNL + ++ GY+ P Q + + +LSG D + + TG GK+ + +P L
Sbjct: 5 EVLNLESGAKQVLQETFGYQQFRPGQEEIIDTVLSGRDCLVVXPTGGGKSLCYQIPAL-L 63
Query: 85 LNQHVPQGGVRALILSPTRDLALQTLKFTKELGRYTDLRISLLVGGDSMESQFE-----E 139
LN G+ +++SP L + + G + + L + E Q E
Sbjct: 64 LN------GL-TVVVSPLISLXKDQVDQLQANG----VAAACLNSTQTREQQLEVXTGCR 112
Query: 140 LAQNPDIIIATPGRL-----MHHLSEVEDMSLKSVEYVVFDEADCL--FGMGFAEQLHKI 192
Q + IA P RL + HL+ + L DEA C+ +G F + +
Sbjct: 113 TGQIRLLYIA-PERLXLDNFLEHLAHWNPVLL------AVDEAHCISQWGHDFRPE-YAA 164
Query: 193 LGQLSENRQTLLFSATLPSALAEFAK-----AGLRDPHL---------VRLDVDTKISPD 238
LGQL + TL F A +A + GL DP + +R + K P
Sbjct: 165 LGQLRQRFPTLPFXALTATADDTTRQDIVRLLGLNDPLIQISSFDRPNIRYXLXEKFKPL 224
Query: 239 LKLAFFTLRQEEKHAALLYMIREHISSDQQTLIFVSTKHHVEFLNVLFREEGLEPSVCYG 298
+L + Q K +I+ +++ VE + +G+ + +
Sbjct: 225 DQLXRYVQEQRGKSG----------------IIYCNSRAKVEDTAARLQSKGISAAAYHA 268
Query: 299 DMDQDARKIHVSRFRARKTMFLIVTDVAARGIDIPLLDNVINWDFP 344
++ + R +F+ ++ T GI+ P + V+++D P
Sbjct: 269 GLENNVRADVQEKFQRDDLQIVVATVAFGXGINKPNVRFVVHFDIP 314
>pdb|4A4Z|A Chain A, Crystal Structure Of The S. Cerevisiae Dexh Helicase Ski2
Bound To Amppnp
Length = 997
Score = 40.8 bits (94), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 44/172 (25%), Positives = 77/172 (44%), Gaps = 24/172 (13%)
Query: 50 QRKTMPLILSGADVVAMARTGSGKT--AAFLVPMLQRLNQHVPQGGVRALILSPTRDLAL 107
Q++ + + G V A T +GKT A + + M R + + SP + L+
Sbjct: 44 QKEAVYHLEQGDSVFVAAHTSAGKTVVAEYAIAMAHR-------NMTKTIYTSPIKALSN 96
Query: 108 QTLKFTKELGRYTDLRISLLVGGDSMESQFEELAQNPD--IIIATPGRLMHHLSEVEDMS 165
Q + KE + D+ I L+ G ++ NPD +I T L L D+
Sbjct: 97 QKFRDFKET--FDDVNIGLITG---------DVQINPDANCLIMTTEILRSMLYRGADL- 144
Query: 166 LKSVEYVVFDEADCLFGMGFAEQLHKILGQLSENRQTLLFSATLPSALAEFA 217
++ VE+V+FDE + +++ L ++ + +L SAT+P+ EFA
Sbjct: 145 IRDVEFVIFDEVHYVNDQDRGVVWEEVIIMLPQHVKFILLSATVPNTY-EFA 195
>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 = 40.8 bits (94), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 36/114 (31%), Positives = 57/114 (50%), Gaps = 6/114 (5%)
Query: 69 TGSGKTAAFLVPMLQRLNQHVPQGGVRALILSPTRDLALQTLKFTKELGRYTDLRISLLV 128
TG GKT ++ RL ++ G + L+L+PT+ L LQ + + L +I L
Sbjct: 32 TGLGKTLIAMMIAEYRLTKY----GGKVLMLAPTKPLVLQHAESFRRLFNLPPEKIVALT 87
Query: 129 GGDSMESQFEELAQNPDIIIATPGRLMHHLSEVEDMSLKSVEYVVFDEADCLFG 182
G S E + + A+ +I+ATP + + L +SL+ V +VFDEA G
Sbjct: 88 GEKSPEERSKAWAR-AKVIVATPQTIENDLL-AGRISLEDVSLIVFDEAHRAVG 139
>pdb|3L9O|A Chain A, Crystal Structure Of Mtr4, A Co-Factor Of The Nuclear
Exosome
Length = 1108
Score = 38.1 bits (87), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 41/171 (23%), Positives = 75/171 (43%), Gaps = 18/171 (10%)
Query: 48 PIQRKTMPLILSGADVVAMARTGSGKTAAFLVPMLQRLNQHVPQGGVRALILSPTRDLAL 107
P Q + I G V+ A T +GKT + Q L + R + SP + AL
Sbjct: 187 PFQDTAISCIDRGESVLVSAHTSAGKTVVAEYAIAQSL-----KNKQRVIYTSPIK--AL 239
Query: 108 QTLKFTKELGRYTDLRISLLVGGDSMESQFEELAQNPDIIIATPGRLMHHLSEVEDMSLK 167
K+ + L + D + L+ G ++ L +I+ + +++ SEV ++
Sbjct: 240 SNQKYRELLAEFGD--VGLMTGDITINPDAGCLVMTTEILRS----MLYRGSEV----MR 289
Query: 168 SVEYVVFDEADCLFGMGFAEQLHKILGQLSENRQTLLFSATLPSALAEFAK 218
V +V+FDE + + + L + + + SAT+P+A+ EFA+
Sbjct: 290 EVAWVIFDEVHYMRDKERGVVWEETIILLPDKVRYVFLSATIPNAM-EFAE 339
>pdb|2XGJ|A Chain A, Structure Of Mtr4, A Dexh Helicase Involved In Nuclear Rna
Processing And Surveillance
pdb|2XGJ|B Chain B, Structure Of Mtr4, A Dexh Helicase Involved In Nuclear Rna
Processing And Surveillance
Length = 1010
Score = 37.7 bits (86), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 41/171 (23%), Positives = 75/171 (43%), Gaps = 18/171 (10%)
Query: 48 PIQRKTMPLILSGADVVAMARTGSGKTAAFLVPMLQRLNQHVPQGGVRALILSPTRDLAL 107
P Q + I G V+ A T +GKT + Q L + R + SP + AL
Sbjct: 89 PFQDTAISCIDRGESVLVSAHTSAGKTVVAEYAIAQSL-----KNKQRVIYTSPIK--AL 141
Query: 108 QTLKFTKELGRYTDLRISLLVGGDSMESQFEELAQNPDIIIATPGRLMHHLSEVEDMSLK 167
K+ + L + D + L+ G ++ L +I+ + +++ SEV ++
Sbjct: 142 SNQKYRELLAEFGD--VGLMTGDITINPDAGCLVMTTEILRS----MLYRGSEV----MR 191
Query: 168 SVEYVVFDEADCLFGMGFAEQLHKILGQLSENRQTLLFSATLPSALAEFAK 218
V +V+FDE + + + L + + + SAT+P+A+ EFA+
Sbjct: 192 EVAWVIFDEVHYMRDKERGVVWEETIILLPDKVRYVFLSATIPNAM-EFAE 241
>pdb|1GM5|A Chain A, Structure Of Recg Bound To Three-Way Dna Junction
Length = 780
Score = 37.7 bits (86), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 77/301 (25%), Positives = 134/301 (44%), Gaps = 45/301 (14%)
Query: 49 IQRKTMPLILSGADVVAMARTGSGKTAAFLVPMLQRLNQHVPQGGVRALILSPTRDLALQ 108
I K M +L G DV GSGKT +V L L+ + + G + + PT LA+Q
Sbjct: 385 ISEKPMNRLLQG-DV------GSGKT---VVAQLAILDNY--EAGFQTAFMVPTSILAIQ 432
Query: 109 TLKFTKELGRYTDLRISLLVGGDSMESQFEELAQN-----PDIIIATPGRLMHHLSEVED 163
+ T E ++ ++LL+G + S+ E++ D++I T H L + ED
Sbjct: 433 HYRRTVESFSKFNIHVALLIGA-TTPSEKEKIKSGLRNGQIDVVIGT-----HALIQ-ED 485
Query: 164 MSLKSVEYVVFDEADCLFGMGFAEQLHKILGQLSENRQTLLFSAT-LPSALAEFAKAGLR 222
+ K++ V+ DE FG+ E L G++ + TL+ SAT +P ++A A G
Sbjct: 486 VHFKNLGLVIIDEQH-RFGVKQREALMN-KGKMVD---TLVMSATPIPRSMA-LAFYGDL 539
Query: 223 DPHLV------RLDVDTKISP--DLKLAFFTLRQEEKHAALLYMIREHISSDQQTLIFVS 274
D ++ R +V T + P + + +RQE +++ I + ++
Sbjct: 540 DVTVIDEMPPGRKEVQTMLVPMDRVNEVYEFVRQEVMRGGQAFIVYPLIEESDK----LN 595
Query: 275 TKHHVEFLNVLFRE--EGLEPSVCYGDMDQDARKIHVSRFRARKTMFLIVTDVAARGIDI 332
K VE L +E + + +G + Q+ + + F + L+ T V GID+
Sbjct: 596 VKSAVEMYEYLSKEVFPEFKLGLMHGRLSQEEKDRVMLEFAEGRYDILVSTTVIEVGIDV 655
Query: 333 P 333
P
Sbjct: 656 P 656
>pdb|4F92|B Chain B, Brr2 Helicase Region S1087l
pdb|4F93|B Chain B, Brr2 Helicase Region S1087l, Mg-Atp
Length = 1724
Score = 35.4 bits (80), Expect = 0.087, Method: Compositional matrix adjust.
Identities = 32/121 (26%), Positives = 58/121 (47%), Gaps = 12/121 (9%)
Query: 41 KGYKVPTPIQRKTMPLIL-SGADVVAMARTGSGKTAAFLVPMLQRLNQHVPQGGV----- 94
+G+K IQ K L + +++ A TG+GKT L+ ML+ + +H+ G
Sbjct: 75 EGFKTLNRIQSKLYRAALETDENLLLCAPTGAGKTNVALMCMLREIGKHINMDGTINVDD 134
Query: 95 -RALILSPTRDLALQTL-KFTKELGRYTDLRISLLVGGDSMESQFEELAQNPDIIIATPG 152
+ + ++P R L + + F K L Y + ++ L G + EE++ II+ TP
Sbjct: 135 FKIIYIAPMRSLVQEMVGSFGKRLATY-GITVAELTGDHQLCK--EEISAT-QIIVCTPE 190
Query: 153 R 153
+
Sbjct: 191 K 191
>pdb|4F91|B Chain B, Brr2 Helicase Region
Length = 1724
Score = 35.4 bits (80), Expect = 0.088, Method: Compositional matrix adjust.
Identities = 32/121 (26%), Positives = 58/121 (47%), Gaps = 12/121 (9%)
Query: 41 KGYKVPTPIQRKTMPLIL-SGADVVAMARTGSGKTAAFLVPMLQRLNQHVPQGGV----- 94
+G+K IQ K L + +++ A TG+GKT L+ ML+ + +H+ G
Sbjct: 75 EGFKTLNRIQSKLYRAALETDENLLLCAPTGAGKTNVALMCMLREIGKHINMDGTINVDD 134
Query: 95 -RALILSPTRDLALQTL-KFTKELGRYTDLRISLLVGGDSMESQFEELAQNPDIIIATPG 152
+ + ++P R L + + F K L Y + ++ L G + EE++ II+ TP
Sbjct: 135 FKIIYIAPMRSLVQEMVGSFGKRLATY-GITVAELTGDHQLCK--EEISAT-QIIVCTPE 190
Query: 153 R 153
+
Sbjct: 191 K 191
>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 = 34.3 bits (77), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 37/156 (23%), Positives = 70/156 (44%), Gaps = 14/156 (8%)
Query: 26 ESLNLSPNVFRAIKRKGYKVPTPIQRKTMPLILSGADVVAMARTGSGKTAAFLVPMLQRL 85
E + P V+ K + Y++ P I +G + + A TGSGKT ++ + +
Sbjct: 235 EGIGKPPPVYETKKARSYQIEL-----AQPAI-NGKNALICAPTGSGKTFVSIL-ICEHH 287
Query: 86 NQHVPQGGVRALILSPTRDLALQTLKFTKELGRYTDLRISLLVGGDSMES----QFEELA 141
Q++P G ++ T+ + + K + ++ R V G S E+ E++
Sbjct: 288 FQNMPAGRKAKVVFLATK---VPVYEQQKNVFKHHFERQGYSVQGISGENFSNVSVEKVI 344
Query: 142 QNPDIIIATPGRLMHHLSEVEDMSLKSVEYVVFDEA 177
++ DII+ TP L++ + SL ++FDE
Sbjct: 345 EDSDIIVVTPQILVNSFEDGTLTSLSIFTLMIFDEC 380
>pdb|4A2Q|A Chain A, Structure Of Duck Rig-I Tandem Cards And Helicase Domain
pdb|4A2Q|B Chain B, Structure Of Duck Rig-I Tandem Cards And Helicase Domain
pdb|4A2Q|D Chain D, Structure Of Duck Rig-I Tandem Cards And Helicase Domain
pdb|4A2Q|E Chain E, Structure Of Duck Rig-I Tandem Cards And Helicase Domain
Length = 797
Score = 33.5 bits (75), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 37/156 (23%), Positives = 70/156 (44%), Gaps = 14/156 (8%)
Query: 26 ESLNLSPNVFRAIKRKGYKVPTPIQRKTMPLILSGADVVAMARTGSGKTAAFLVPMLQRL 85
E + P V+ K + Y++ P I +G + + A TGSGKT ++ + +
Sbjct: 235 EGIGKPPPVYETKKARSYQIEL-----AQPAI-NGKNALICAPTGSGKTFVSIL-ICEHH 287
Query: 86 NQHVPQGGVRALILSPTRDLALQTLKFTKELGRYTDLRISLLVGGDSMES----QFEELA 141
Q++P G ++ T+ + + K + ++ R V G S E+ E++
Sbjct: 288 FQNMPAGRKAKVVFLATK---VPVYEQQKNVFKHHFERQGYSVQGISGENFSNVSVEKVI 344
Query: 142 QNPDIIIATPGRLMHHLSEVEDMSLKSVEYVVFDEA 177
++ DII+ TP L++ + SL ++FDE
Sbjct: 345 EDSDIIVVTPQILVNSFEDGTLTSLSIFTLMIFDEC 380
>pdb|4GL2|A Chain A, Structural Basis For Dsrna Duplex Backbone Recognition By
Mda5
pdb|4GL2|B Chain B, Structural Basis For Dsrna Duplex Backbone Recognition By
Mda5
Length = 699
Score = 33.5 bits (75), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 17/42 (40%), Positives = 24/42 (57%)
Query: 300 MDQDARKIHVSRFRARKTMFLIVTDVAARGIDIPLLDNVINW 341
M Q+ +K +S+FR K LI T VA G+DI + VI +
Sbjct: 448 MTQNEQKEVISKFRTGKINLLIATTVAEEGLDIKECNIVIRY 489
Score = 30.8 bits (68), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 32/137 (23%), Positives = 58/137 (42%), Gaps = 8/137 (5%)
Query: 48 PIQRKTMPLILSGADVVAMARTGSGKTAAFLVPMLQRLNQHVPQGGVRALILSPTRDLAL 107
P Q + L G +++ TG GKT + L++ +I+ + L +
Sbjct: 10 PYQMEVAQPALEGKNIIICLPTGCGKTRVAVYIAKDHLDKKKKASEPGKVIVLVNKVLLV 69
Query: 108 QTLKFTKELGRYTD--LRISLLVGGDSMESQFEELAQNPDIIIATPGRLMHHLSEVED-- 163
+ L F KE + R+ L G ++ F E+ ++ DIII+T L + L +E+
Sbjct: 70 EQL-FRKEFQPFLKKWYRVIGLSGDTQLKISFPEVVKSCDIIISTAQILENSLLNLENGE 128
Query: 164 ---MSLKSVEYVVFDEA 177
+ L ++ DE
Sbjct: 129 DAGVQLSDFSLIIIDEC 145
>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 = 32.3 bits (72), Expect = 0.71, Method: Compositional matrix adjust.
Identities = 69/308 (22%), Positives = 128/308 (41%), Gaps = 40/308 (12%)
Query: 47 TPIQRKTMPLILS------GADVVAMARTGSGKTAAFLVPMLQRLNQHVPQGGVRALILS 100
TP Q + + +LS D + G GKT + ++ H + +L
Sbjct: 605 TPDQAQAINAVLSDMCQPLAMDRLVCGDVGFGKTEVAMRAAFLAVDNHK-----QVAVLV 659
Query: 101 PTRDLALQTLKFTKELGRYTDLRISLLVGGDSMESQFEELAQ----NPDIIIATPGRLMH 156
PT LA Q ++ +RI ++ S + Q + LA+ DI+I T H
Sbjct: 660 PTTLLAQQHYDNFRDRFANWPVRIEMISRFRSAKEQTQILAEVAEGKIDILIGT-----H 714
Query: 157 HLSEVEDMSLKSVEYVVFDEADCLFGMGFAEQLHKILGQLSENRQTLLFSAT-LPSALAE 215
L + D+ K + ++ DE + FG+ E++ + N L +AT +P L
Sbjct: 715 KLLQ-SDVKFKDLGLLIVDE-EHRFGVRHKERIKA----MRANVDILTLTATPIPRTL-N 767
Query: 216 FAKAGLRDPHLVRLDVDTKISPDLKLAFFT-LRQEEKHAALLYMIREHISSDQQTLIFVS 274
A +G+RD ++ P +LA T +R+ + ++RE + Q ++
Sbjct: 768 MAMSGMRDLSII------ATPPARRLAVKTFVREYDSMVVREAILREILRGGQVYYLYND 821
Query: 275 TKH---HVEFLNVLFREEGLEPSVCYGDMDQDARKIHVSRFRARKTMFLIVTDVAARGID 331
++ E L L E + ++ +G M + + ++ F ++ L+ T + GID
Sbjct: 822 VENIQKAAERLAELVPEARI--AIGHGQMRERELERVMNDFHHQRFNVLVCTTIIETGID 879
Query: 332 IPLLDNVI 339
IP + +I
Sbjct: 880 IPTANTII 887
>pdb|3TBK|A Chain A, Mouse Rig-I Atpase Domain
Length = 555
Score = 31.6 bits (70), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 30/119 (25%), Positives = 48/119 (40%), Gaps = 2/119 (1%)
Query: 60 GADVVAMARTGSGKTAAFLVPMLQRLNQH-VPQGGVRALILSPTRDLALQTLKFTKELGR 118
G + + A TG GKT L+ L + Q G + Q F++ R
Sbjct: 19 GKNTIICAPTGCGKTFVSLLICEHHLKKFPCGQKGKVVFFANQIPVYEQQATVFSRYFER 78
Query: 119 YTDLRISLLVGGDSMESQFEELAQNPDIIIATPGRLMHHLSEVEDMSLKSVEYVVFDEA 177
I+ + G S + + ++ DIII TP L+++L+ SL +FDE
Sbjct: 79 L-GYNIASISGATSDSVSVQHIIEDNDIIILTPQILVNNLNNGAIPSLSVFTLXIFDEC 136
>pdb|4I1S|A Chain A, Melanoma Differentiation Associated Protein-5 Helicase
Domain Complex With Inhibitor Non-structural Protein V
Length = 243
Score = 31.6 bits (70), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 30/111 (27%), Positives = 48/111 (43%), Gaps = 17/111 (15%)
Query: 248 QEEKHAALLYMIREHISSDQQT---LIFVSTKHHVEFL------NVLFREEGLEP----- 293
+ EK L I EH + +++ +IF T+ L N F E G++
Sbjct: 129 ENEKLTKLRNTIXEHFTRTEESARGIIFTKTRQSAYALSQWITDNKKFAEVGVKAHHLIG 188
Query: 294 ---SVCYGDMDQDARKIHVSRFRARKTMFLIVTDVAARGIDIPLLDNVINW 341
S + Q+ ++ +S+FR K LI T VA G+DI + VI +
Sbjct: 189 AGHSSEFKPXTQNEQREVISKFRTGKINLLIATTVAEEGLDIKECNIVIRY 239
>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 = 31.6 bits (70), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 30/124 (24%), Positives = 59/124 (47%), Gaps = 8/124 (6%)
Query: 58 LSGADVVAMARTGSGKTAAFLVPMLQRLNQHVPQGGVRALILSPTRDLALQTLKFTKELG 117
++G + + A TGSGKT ++ + + Q++P G ++ T+ + + K +
Sbjct: 20 INGKNALICAPTGSGKTFVSIL-ICEHHFQNMPAGRKAKVVFLATK---VPVYEQQKNVF 75
Query: 118 RYTDLRISLLVGGDSMES----QFEELAQNPDIIIATPGRLMHHLSEVEDMSLKSVEYVV 173
++ R V G S E+ E++ ++ DII+ TP L++ + SL ++
Sbjct: 76 KHHFERQGYSVQGISGENFSNVSVEKVIEDSDIIVVTPQILVNSFEDGTLTSLSIFTLMI 135
Query: 174 FDEA 177
FDE
Sbjct: 136 FDEC 139
>pdb|3B6E|A Chain A, Crystal Structure Of Human Dech-Box Rna Helicase Mda5
(Melanoma Differentiation-Associated Protein 5),
Dech-Domain
Length = 216
Score = 31.2 bits (69), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 33/137 (24%), Positives = 59/137 (43%), Gaps = 8/137 (5%)
Query: 48 PIQRKTMPLILSGADVVAMARTGSGKTAAFLVPMLQRLNQHVPQGGVRALILSPTRDLAL 107
P Q + L G +++ TGSGKT + L++ +I+ + L +
Sbjct: 36 PYQMEVAQPALEGKNIIICLPTGSGKTRVAVYIAKDHLDKKKKASEPGKVIVLVNKVLLV 95
Query: 108 QTLKFTKELGRYTD--LRISLLVGGDSMESQFEELAQNPDIIIATPGRLMHHLSEVED-- 163
+ L F KE + R+ L G ++ F E+ ++ DIII+T L + L +E+
Sbjct: 96 EQL-FRKEFQPFLKKWYRVIGLSGDTQLKISFPEVVKSCDIIISTAQILENSLLNLENGE 154
Query: 164 ---MSLKSVEYVVFDEA 177
+ L ++ DE
Sbjct: 155 DAGVQLSDFSLIIIDEC 171
>pdb|3EOE|A Chain A, Crystal Structure Of Pyruvate Kinase From Toxoplasma
Gondii, 55.M00007
pdb|3EOE|B Chain B, Crystal Structure Of Pyruvate Kinase From Toxoplasma
Gondii, 55.M00007
pdb|3EOE|C Chain C, Crystal Structure Of Pyruvate Kinase From Toxoplasma
Gondii, 55.M00007
pdb|3EOE|D Chain D, Crystal Structure Of Pyruvate Kinase From Toxoplasma
Gondii, 55.M00007
pdb|3GG8|A Chain A, Crystal Structure Of The Toxoplasma Gondii Pyruvate Kinase
N Terminal Truncated
pdb|3GG8|B Chain B, Crystal Structure Of The Toxoplasma Gondii Pyruvate Kinase
N Terminal Truncated
pdb|3GG8|C Chain C, Crystal Structure Of The Toxoplasma Gondii Pyruvate Kinase
N Terminal Truncated
pdb|3GG8|D Chain D, Crystal Structure Of The Toxoplasma Gondii Pyruvate Kinase
N Terminal Truncated
Length = 511
Score = 31.2 bits (69), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 31/136 (22%), Positives = 57/136 (41%), Gaps = 12/136 (8%)
Query: 393 PSEEEVLLDMDGVMSKIDQAIANGETIYGRFPQTVIDLVSDRVREIIDSSADLNSLQRTC 452
P+ E + V+ D + +GET G FP ++ ++ R+ ++ D +L R
Sbjct: 325 PTRAEAADVANAVLDGTDCVMLSGETANGEFPVITVETMA-RICYEAETCVDYPALYRAM 383
Query: 453 TNAFRLYSKTKPLPSKESIRRGKDLPREGLH-PMFKNVLEGGELMALAFSERLKAFRPKQ 511
A P+ ++E++ R E ++ + + E G+ L + +RP Q
Sbjct: 384 CLAV-----PPPISTQEAVARAAVETAECVNAAIILALTETGQTARL-----IAKYRPMQ 433
Query: 512 TILEAEGEAARSKHLQ 527
IL + KHLQ
Sbjct: 434 PILALSASESTIKHLQ 449
>pdb|1GL9|B Chain B, Archaeoglobus Fulgidus Reverse Gyrase Complexed With Adpnp
pdb|1GL9|C Chain C, Archaeoglobus Fulgidus Reverse Gyrase Complexed With Adpnp
Length = 1054
Score = 31.2 bits (69), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 36/147 (24%), Positives = 57/147 (38%), Gaps = 16/147 (10%)
Query: 40 RKGYKVPTPIQRKTMPLILSGADVVAMARTGSGKTAAFLVPMLQRLNQHVPQGGVRALIL 99
RK P IQ+ IL A A TG GKT+ L ++ + G R ++
Sbjct: 51 RKCVGEPRAIQKMWAKRILRKESFAATAPTGVGKTSFGLA-----MSLFLALKGKRCYVI 105
Query: 100 SPTRDLALQTLKFTKELGRYTDLRISLLVG---GDSMESQFEELAQNP---DIIIATPGR 153
PT L +Q + ++ + L+G G + + E QN I+I T
Sbjct: 106 FPTSLLVIQAAETIRKYAEKAGVGTENLIGYYHGRIPKREKENFMQNLRNFKIVITTTQF 165
Query: 154 LMHHLSEVEDMSLKSVEYVVFDEADCL 180
L H E L +++ D+ D +
Sbjct: 166 LSKHYRE-----LGHFDFIFVDDVDAI 187
>pdb|1GKU|B Chain B, Reverse Gyrase From Archaeoglobus Fulgidus
Length = 1054
Score = 30.8 bits (68), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 37/147 (25%), Positives = 58/147 (39%), Gaps = 16/147 (10%)
Query: 40 RKGYKVPTPIQRKTMPLILSGADVVAMARTGSGKTAAFLVPMLQRLNQHVPQGGVRALIL 99
RK P IQ+ IL A A TG GKT+ L ++ + G R ++
Sbjct: 51 RKCVGEPRAIQKMWAKRILRKESFAATAPTGVGKTSFGLA-----MSLFLALKGKRCYVI 105
Query: 100 SPTRDLALQTL----KFTKELGRYTDLRISLLVGG--DSMESQFEELAQNPDIIIATPGR 153
PT L +Q K+ ++ G T+ I G + F + +N I+I T
Sbjct: 106 FPTSLLVIQAAETIRKYAEKAGVGTENLIGYYHGRIPKREKENFMQNLRNFKIVITTTQF 165
Query: 154 LMHHLSEVEDMSLKSVEYVVFDEADCL 180
L H E L +++ D+ D +
Sbjct: 166 LSKHYRE-----LGHFDFIFVDDVDAI 187
>pdb|1D9Z|A Chain A, Crystal Structure Of The Dna Repair Protein Uvrb In
Complex With Atp
Length = 657
Score = 30.8 bits (68), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 20/79 (25%), Positives = 38/79 (48%)
Query: 255 LLYMIREHISSDQQTLIFVSTKHHVEFLNVLFREEGLEPSVCYGDMDQDARKIHVSRFRA 314
L+ IRE + +++TL+ TK E L +E G++ + + ++ R + R
Sbjct: 433 LIGEIRERVERNERTLVTTLTKKMAEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRL 492
Query: 315 RKTMFLIVTDVAARGIDIP 333
K L+ ++ G+DIP
Sbjct: 493 GKYDVLVGINLLREGLDIP 511
>pdb|1D9X|A Chain A, Crystal Structure Of The Dna Repair Protein Uvrb
Length = 658
Score = 30.8 bits (68), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 20/79 (25%), Positives = 38/79 (48%)
Query: 255 LLYMIREHISSDQQTLIFVSTKHHVEFLNVLFREEGLEPSVCYGDMDQDARKIHVSRFRA 314
L+ IRE + +++TL+ TK E L +E G++ + + ++ R + R
Sbjct: 434 LIGEIRERVERNERTLVTTLTKKMAEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRL 493
Query: 315 RKTMFLIVTDVAARGIDIP 333
K L+ ++ G+DIP
Sbjct: 494 GKYDVLVGINLLREGLDIP 512
>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 = 30.4 bits (67), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 20/79 (25%), Positives = 38/79 (48%)
Query: 255 LLYMIREHISSDQQTLIFVSTKHHVEFLNVLFREEGLEPSVCYGDMDQDARKIHVSRFRA 314
L+ IRE + +++TL+ TK E L +E G++ + + ++ R + R
Sbjct: 434 LIGEIRERVERNERTLVTTLTKKMAEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRL 493
Query: 315 RKTMFLIVTDVAARGIDIP 333
K L+ ++ G+DIP
Sbjct: 494 GKYDVLVGINLLREGLDIP 512
>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 = 30.4 bits (67), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 20/79 (25%), Positives = 38/79 (48%)
Query: 255 LLYMIREHISSDQQTLIFVSTKHHVEFLNVLFREEGLEPSVCYGDMDQDARKIHVSRFRA 314
L+ IRE + +++TL+ TK E L +E G++ + + ++ R + R
Sbjct: 434 LIGEIRERVERNERTLVTTLTKKMAEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRL 493
Query: 315 RKTMFLIVTDVAARGIDIP 333
K L+ ++ G+DIP
Sbjct: 494 GKYDVLVGINLLREGLDIP 512
>pdb|1XKS|A Chain A, The Crystal Structure Of The N-Terminal Domain Of Nup133
Reveals A Beta-Propeller Fold Common To Several
Nucleoporins
Length = 450
Score = 30.0 bits (66), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 24/87 (27%), Positives = 42/87 (48%), Gaps = 3/87 (3%)
Query: 41 KGYKVPTPIQRKTMPLILSGADVVAMARTGSGKTAAFLVPMLQRLNQHVPQGGVRAL--I 98
K Y T +Q + L SG+ ++ + SGK ++P Q + + + V +L I
Sbjct: 143 KTYSFLTAVQGGSFILSSSGSQLIRLIPESSGKIHQHILPQGQGMLSGIGR-KVSSLFGI 201
Query: 99 LSPTRDLALQTLKFTKELGRYTDLRIS 125
LSP+ DL L ++ + +E + L S
Sbjct: 202 LSPSSDLTLSSVLWDRERSSFYSLTSS 228
>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 = 30.0 bits (66), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 25/108 (23%), Positives = 49/108 (45%), Gaps = 3/108 (2%)
Query: 245 TLRQEEKHAALLYMIREHISSDQQTLIFVSTKHHVEFL-NVLFREEGLEPSVCYGDMDQD 303
++R+ K + +I E + + IF + + N++ +E E YG++ +
Sbjct: 91 SVRRSGKMIRTMEIIEEALDEGDKIAIFTQFVDMGKIIRNIIEKELNTEVPFLYGELSKK 150
Query: 304 ARKIHVSRFRARKTMFLIVTDVAARGIDIPLL--DNVINWDFPPKPKI 349
R +S+F+ ++ IV V A G I L + VI++D P +
Sbjct: 151 ERDDIISKFQNNPSVKFIVLSVKAGGFGINLTSANRVIHFDRWWNPAV 198
>pdb|1D2M|A Chain A, Uvrb Protein Of Thermus Thermophilus Hb8; A Nucleotide
Excision Repair Enzyme
Length = 665
Score = 29.6 bits (65), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 20/79 (25%), Positives = 35/79 (44%)
Query: 255 LLYMIREHISSDQQTLIFVSTKHHVEFLNVLFREEGLEPSVCYGDMDQDARKIHVSRFRA 314
L+ IRE + ++TL+ V T E L E G+ + ++D R+ + R
Sbjct: 429 LMEGIRERAARGERTLVTVLTVRMAEELTSFLVEHGIRARYLHHELDAFKRQALIRDLRL 488
Query: 315 RKTMFLIVTDVAARGIDIP 333
L+ ++ G+DIP
Sbjct: 489 GHYDCLVGINLLREGLDIP 507
>pdb|1C4O|A Chain A, Crystal Structure Of The Dna Nucleotide Excision Repair
Enzyme Uvrb From Thermus Thermophilus
Length = 664
Score = 29.6 bits (65), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 20/79 (25%), Positives = 35/79 (44%)
Query: 255 LLYMIREHISSDQQTLIFVSTKHHVEFLNVLFREEGLEPSVCYGDMDQDARKIHVSRFRA 314
L+ IRE + ++TL+ V T E L E G+ + ++D R+ + R
Sbjct: 428 LMEGIRERAARGERTLVTVLTVRMAEELTSFLVEHGIRARYLHHELDAFKRQALIRDLRL 487
Query: 315 RKTMFLIVTDVAARGIDIP 333
L+ ++ G+DIP
Sbjct: 488 GHYDCLVGINLLREGLDIP 506
>pdb|1Z6A|A Chain A, Sulfolobus Solfataricus Swi2SNF2 ATPASE CORE DOMAIN
Length = 500
Score = 29.6 bits (65), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 25/108 (23%), Positives = 49/108 (45%), Gaps = 3/108 (2%)
Query: 245 TLRQEEKHAALLYMIREHISSDQQTLIFVSTKHHVEFL-NVLFREEGLEPSVCYGDMDQD 303
++R+ K + +I E + + IF + + N++ +E E YG++ +
Sbjct: 320 SVRRSGKMIRTMEIIEEALDEGDKIAIFTQFVDMGKIIRNIIEKELNTEVPFLYGELSKK 379
Query: 304 ARKIHVSRFRARKTMFLIVTDVAARGIDIPLL--DNVINWDFPPKPKI 349
R +S+F+ ++ IV V A G I L + VI++D P +
Sbjct: 380 ERDDIISKFQNNPSVKFIVLSVKAGGFGINLTSANRVIHFDRWWNPAV 427
>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 = 28.9 bits (63), Expect = 8.7, Method: Compositional matrix adjust.
Identities = 19/69 (27%), Positives = 34/69 (49%), Gaps = 2/69 (2%)
Query: 283 NVLFREEGLEPSVCYGDMDQDARKIHVSRFRARKTMFLIVTDVAARGIDIPLL--DNVIN 340
N++ +E E YG++ + R +S+F+ ++ IV V A G I L + VI+
Sbjct: 359 NIIEKELNTEVPFLYGELSKKERDDIISKFQNNPSVKFIVLSVKAGGFGINLTSANRVIH 418
Query: 341 WDFPPKPKI 349
+D P +
Sbjct: 419 FDRWWNPAV 427
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
0.321 0.136 0.384
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 14,980,363
Number of Sequences: 62578
Number of extensions: 582417
Number of successful extensions: 1739
Number of sequences better than 100.0: 104
Number of HSP's better than 100.0 without gapping: 78
Number of HSP's successfully gapped in prelim test: 26
Number of HSP's that attempted gapping in prelim test: 1488
Number of HSP's gapped (non-prelim): 116
length of query: 569
length of database: 14,973,337
effective HSP length: 104
effective length of query: 465
effective length of database: 8,465,225
effective search space: 3936329625
effective search space used: 3936329625
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 54 (25.4 bits)