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= 013962
(433 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2I4I|A Chain A, Crystal Structure Of Human Dead-Box Rna Helicase Ddx3x
Length = 417
Score = 298 bits (764), Expect = 3e-81, Method: Compositional matrix adjust.
Identities = 162/382 (42%), Positives = 232/382 (60%), Gaps = 26/382 (6%)
Query: 1 MKDIEFHEYTRPTSIQAQAMPVALSGRDLLGCAETGSGKTAAFTIPMIQHCVAQTP---- 56
M +IE YTRPT +Q A+P+ RDL+ CA+TGSGKTAAF +P++ + P
Sbjct: 27 MGNIELTRYTRPTPVQKHAIPIIKEKRDLMACAQTGSGKTAAFLLPILSQIYSDGPGEAL 86
Query: 57 --------VGR-GDGPLALVLAPTRELAQQIEKEVKALSRSLDSFKTAIVVGGTNIAEQR 107
GR P++LVLAPTRELA QI +E + S + +V GG +I +Q
Sbjct: 87 RAMKENGRYGRRKQYPISLVLAPTRELAVQIYEEARKFSYR-SRVRPCVVYGGADIGQQI 145
Query: 108 SELRGGVSIVVATPGRFLDHLQQGNTSLSRVSFVILDEADRMLDMGFEPQIREVMQN--L 165
+L G ++VATPGR +D +++G L +++LDEADRMLDMGFEPQIR +++ +
Sbjct: 146 RDLERGCHLLVATPGRLVDMMERGKIGLDFCKYLVLDEADRMLDMGFEPQIRRIVEQDTM 205
Query: 166 PDK--HQTLLFSATMPVEIEALAQEYLTDPVQVKVGKVSSPTANVIQILEKVSENEKVDR 223
P K T++FSAT P EI+ LA+++L + + + VG+V S + N+ Q KV E+ D+
Sbjct: 206 PPKGVRHTMMFSATFPKEIQMLARDFLDEYIFLAVGRVGSTSENITQ---KVVWVEESDK 262
Query: 224 XXXXXXXXXXXXXKSCHPFPLTIVFVERKTRCDEVSEALVAEGLHAVALHGGRNQSDRES 283
S LT+VFVE K D + + L EG ++HG R+Q DRE
Sbjct: 263 RSFLLDLLNATGKDS-----LTLVFVETKKGADSLEDFLYHEGYACTSIHGDRSQRDREE 317
Query: 284 ALRDFRNGSTNILVATDVASRGLDVMGVAHVVNLDLPKTVEDYVHRIGRTGRGGSMGQAT 343
AL FR+G + ILVAT VA+RGLD+ V HV+N DLP +E+YVHRIGRTGR G++G AT
Sbjct: 318 ALHQFRSGKSPILVATAVAARGLDISNVKHVINFDLPSDIEEYVHRIGRTGRVGNLGLAT 377
Query: 344 SFYTDRDMLLVAQIKKAIVDAE 365
SF+ +R++ + + +V+A+
Sbjct: 378 SFFNERNINITKDLLDLLVEAK 399
>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 = 268 bits (684), Expect = 6e-72, Method: Compositional matrix adjust.
Identities = 150/360 (41%), Positives = 216/360 (60%), Gaps = 22/360 (6%)
Query: 9 YTRPTSIQAQAMPVALSGRDLLGCAETGSGKTAAFTIPMIQHCVA---QTPVGRGDGPLA 65
Y PT IQ ++PV SGRDL+ CA+TGSGKTAAF +P++ + + +GR P
Sbjct: 76 YKIPTPIQKCSIPVISSGRDLMACAQTGSGKTAAFLLPILSKLLEDPHELELGR---PQV 132
Query: 66 LVLAPTRELAQQIEKEVKALSRSLDSF-KTAIVVGGTNIAEQRSELRGGVSIVVATPGRF 124
++++PTRELA QI E + + +S+ K IV GGT+ Q + G +V+ATPGR
Sbjct: 133 VIVSPTRELAIQIFNEARKFA--FESYLKIGIVYGGTSFRHQNECITRGCHVVIATPGRL 190
Query: 125 LDHLQQGNTSLSRVSFVILDEADRMLDMGFEPQIREVMQN--LPDKHQTLLFSATMPVEI 182
LD + + + FV+LDEADRMLDMGF +R +M + + +HQTL+FSAT P EI
Sbjct: 191 LDFVDRTFITFEDTRFVVLDEADRMLDMGFSEDMRRIMTHVTMRPEHQTLMFSATFPEEI 250
Query: 183 EALAQEYLTDPVQVKVGKVSSPTANVIQILEKVSENEKVDRXXXXXXXXXXXXXKSCHPF 242
+ +A E+L + V V +G V ++V Q + +V++ K +
Sbjct: 251 QRMAGEFLKNYVFVAIGIVGGACSDVKQTIYEVNKYAKRSKLIEILSEQADG-------- 302
Query: 243 PLTIVFVERKTRCDEVSEALVAEGLHAVALHGGRNQSDRESALRDFRNGSTNILVATDVA 302
TIVFVE K D ++ L + ++HG R QS RE ALRDF+NGS +L+AT VA
Sbjct: 303 --TIVFVETKRGADFLASFLSEKEFPTTSIHGDRLQSQREQALRDFKNGSMKVLIATSVA 360
Query: 303 SRGLDVMGVAHVVNLDLPKTVEDYVHRIGRTGRGGSMGQATSFY-TDRDMLLVAQIKKAI 361
SRGLD+ + HV+N D+P ++DYVHRIGRTGR G+ G+ATSF+ ++D + A + K +
Sbjct: 361 SRGLDIKNIKHVINYDMPSKIDDYVHRIGRTGRVGNNGRATSFFDPEKDRAIAADLVKIL 420
>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 = 211 bits (538), Expect = 5e-55, Method: Compositional matrix adjust.
Identities = 131/353 (37%), Positives = 193/353 (54%), Gaps = 23/353 (6%)
Query: 9 YTRPTSIQAQAMPVALSGR-DLLGCAETGSGKTAAFTIPMIQHCVAQTPVGRGDGPLALV 67
+ +PT IQ + +P+ L+ +++ A TGSGKTA+F IP+I+ V +G A++
Sbjct: 26 FEKPTDIQXKVIPLFLNDEYNIVAQARTGSGKTASFAIPLIE------LVNENNGIEAII 79
Query: 68 LAPTRELAQQIEKEVKALSRSLDSFKTAIVVGGTNIAEQRSELRGGVSIVVATPGRFLDH 127
L PTRELA Q+ E+++L + + K A + GG I Q L+ +IVV TPGR LDH
Sbjct: 80 LTPTRELAIQVADEIESL-KGNKNLKIAKIYGGKAIYPQIKALKNA-NIVVGTPGRILDH 137
Query: 128 LQQGNTSLSRVSFVILDEADRMLDMGFEPQIREVMQNLPDKHQTLLFSATMPVEIEALAQ 187
+ +G +L V + ILDEAD L+ GF + +++ + LLFSAT P EI LA+
Sbjct: 138 INRGTLNLKNVKYFILDEADEXLNXGFIKDVEKILNACNKDKRILLFSATXPREILNLAK 197
Query: 188 EYLTDPVQVKVGKVSSPTANVIQILEKVSENEKVDRXXXXXXXXXXXXXKSCHPFPLTIV 247
+Y D +K + AN+ Q +V+ENE+ + K+ + L V
Sbjct: 198 KYXGDYSFIK----AKINANIEQSYVEVNENERFE--------ALCRLLKNKEFYGL--V 243
Query: 248 FVERKTRCDEVSEALVAEGLHAVALHGGRNQSDRESALRDFRNGSTNILVATDVASRGLD 307
F + K E++ L G A A+HG +QS RE +R F+ IL+ATDV SRG+D
Sbjct: 244 FCKTKRDTKELASXLRDIGFKAGAIHGDLSQSQREKVIRLFKQKKIRILIATDVXSRGID 303
Query: 308 VMGVAHVVNLDLPKTVEDYVHRIGRTGRGGSMGQATSFYTDRDMLLVAQIKKA 360
V + V+N LP+ E Y HRIGRTGR G G+A S R+ + I++A
Sbjct: 304 VNDLNCVINYHLPQNPESYXHRIGRTGRAGKKGKAISIINRREYKKLRYIERA 356
>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 = 211 bits (537), Expect = 7e-55, Method: Compositional matrix adjust.
Identities = 122/365 (33%), Positives = 205/365 (56%), Gaps = 26/365 (7%)
Query: 1 MKDIEFHEYTRPTSIQAQAMPVALSGRDLLGCAETGSGKTAAFTIPMIQHCVAQTPVGRG 60
++ I + + +P++IQ +A+ + GRD++ +++G+GKTA F+I ++Q Q +
Sbjct: 50 LRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQCLDIQVRETQ- 108
Query: 61 DGPLALVLAPTRELAQQIEKEVKALSRSLDSFKTAIVVGGTNIAEQRSELRGGVSIVVAT 120
AL+LAPTRELA QI+K + AL ++ + +GGTN+ E +L G +V T
Sbjct: 109 ----ALILAPTRELAVQIQKGLLALGDYMN-VQCHACIGGTNVGEDIRKLDYGQHVVAGT 163
Query: 121 PGRFLDHLQQGNTSLSRVSFVILDEADRMLDMGFEPQIREVMQNLPDKHQTLLFSATMPV 180
PGR D +++ + + ++LDEAD ML+ GF+ QI +V + LP Q +L SAT+P
Sbjct: 164 PGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQVVLISATLPH 223
Query: 181 EIEALAQEYLTDPVQVKVGKVSSPTANVIQILEKVSENE-KVDRXXXXXXXXXXXXXKSC 239
EI + +++TDP+++ V + + Q V E K D C
Sbjct: 224 EILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWKFDTL--------------C 269
Query: 240 HPF-PLTI----VFVERKTRCDEVSEALVAEGLHAVALHGGRNQSDRESALRDFRNGSTN 294
+ LTI +F K + D ++E + ++HG Q +RES +++FR+G++
Sbjct: 270 DLYDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASR 329
Query: 295 ILVATDVASRGLDVMGVAHVVNLDLPKTVEDYVHRIGRTGRGGSMGQATSFYTDRDMLLV 354
+L++TDV +RGLDV V+ ++N DLP E Y+HRIGR+GR G G A +F + D+ ++
Sbjct: 330 VLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAINFVKNDDIRIL 389
Query: 355 AQIKK 359
I++
Sbjct: 390 RDIEQ 394
>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 = 211 bits (536), Expect = 8e-55, Method: Compositional matrix adjust.
Identities = 122/365 (33%), Positives = 205/365 (56%), Gaps = 26/365 (7%)
Query: 1 MKDIEFHEYTRPTSIQAQAMPVALSGRDLLGCAETGSGKTAAFTIPMIQHCVAQTPVGRG 60
++ I + + +P++IQ +A+ + GRD++ +++G+GKTA F+I ++Q Q +
Sbjct: 49 LRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQCLDIQVRETQ- 107
Query: 61 DGPLALVLAPTRELAQQIEKEVKALSRSLDSFKTAIVVGGTNIAEQRSELRGGVSIVVAT 120
AL+LAPTRELA QI+K + AL ++ + +GGTN+ E +L G +V T
Sbjct: 108 ----ALILAPTRELAVQIQKGLLALGDYMN-VQCHACIGGTNVGEDIRKLDYGQHVVAGT 162
Query: 121 PGRFLDHLQQGNTSLSRVSFVILDEADRMLDMGFEPQIREVMQNLPDKHQTLLFSATMPV 180
PGR D +++ + + ++LDEAD ML+ GF+ QI +V + LP Q +L SAT+P
Sbjct: 163 PGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQVVLISATLPH 222
Query: 181 EIEALAQEYLTDPVQVKVGKVSSPTANVIQILEKVSENE-KVDRXXXXXXXXXXXXXKSC 239
EI + +++TDP+++ V + + Q V E K D C
Sbjct: 223 EILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWKFDTL--------------C 268
Query: 240 HPF-PLTI----VFVERKTRCDEVSEALVAEGLHAVALHGGRNQSDRESALRDFRNGSTN 294
+ LTI +F K + D ++E + ++HG Q +RES +++FR+G++
Sbjct: 269 DLYDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASR 328
Query: 295 ILVATDVASRGLDVMGVAHVVNLDLPKTVEDYVHRIGRTGRGGSMGQATSFYTDRDMLLV 354
+L++TDV +RGLDV V+ ++N DLP E Y+HRIGR+GR G G A +F + D+ ++
Sbjct: 329 VLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAINFVKNDDIRIL 388
Query: 355 AQIKK 359
I++
Sbjct: 389 RDIEQ 393
>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 = 211 bits (536), Expect = 8e-55, Method: Compositional matrix adjust.
Identities = 122/365 (33%), Positives = 205/365 (56%), Gaps = 26/365 (7%)
Query: 1 MKDIEFHEYTRPTSIQAQAMPVALSGRDLLGCAETGSGKTAAFTIPMIQHCVAQTPVGRG 60
++ I + + +P++IQ +A+ + GRD++ +++G+GKTA F+I ++Q Q +
Sbjct: 50 LRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQCLDIQVRETQ- 108
Query: 61 DGPLALVLAPTRELAQQIEKEVKALSRSLDSFKTAIVVGGTNIAEQRSELRGGVSIVVAT 120
AL+LAPTRELA QI+K + AL ++ + +GGTN+ E +L G +V T
Sbjct: 109 ----ALILAPTRELAVQIQKGLLALGDYMN-VQCHACIGGTNVGEDIRKLDYGQHVVAGT 163
Query: 121 PGRFLDHLQQGNTSLSRVSFVILDEADRMLDMGFEPQIREVMQNLPDKHQTLLFSATMPV 180
PGR D +++ + + ++LDEAD ML+ GF+ QI +V + LP Q +L SAT+P
Sbjct: 164 PGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQVVLISATLPH 223
Query: 181 EIEALAQEYLTDPVQVKVGKVSSPTANVIQILEKVSENE-KVDRXXXXXXXXXXXXXKSC 239
EI + +++TDP+++ V + + Q V E K D C
Sbjct: 224 EILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWKFDTL--------------C 269
Query: 240 HPF-PLTI----VFVERKTRCDEVSEALVAEGLHAVALHGGRNQSDRESALRDFRNGSTN 294
+ LTI +F K + D ++E + ++HG Q +RES +++FR+G++
Sbjct: 270 DLYDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASR 329
Query: 295 ILVATDVASRGLDVMGVAHVVNLDLPKTVEDYVHRIGRTGRGGSMGQATSFYTDRDMLLV 354
+L++TDV +RGLDV V+ ++N DLP E Y+HRIGR+GR G G A +F + D+ ++
Sbjct: 330 VLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAINFVKNDDIRIL 389
Query: 355 AQIKK 359
I++
Sbjct: 390 RDIEQ 394
>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 = 210 bits (535), Expect = 1e-54, Method: Compositional matrix adjust.
Identities = 122/365 (33%), Positives = 205/365 (56%), Gaps = 26/365 (7%)
Query: 1 MKDIEFHEYTRPTSIQAQAMPVALSGRDLLGCAETGSGKTAAFTIPMIQHCVAQTPVGRG 60
++ I + + +P++IQ +A+ + GRD++ +++G+GKTA F+I ++Q Q +
Sbjct: 28 LRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQCLDIQVRETQ- 86
Query: 61 DGPLALVLAPTRELAQQIEKEVKALSRSLDSFKTAIVVGGTNIAEQRSELRGGVSIVVAT 120
AL+LAPTRELA QI+K + AL ++ + +GGTN+ E +L G +V T
Sbjct: 87 ----ALILAPTRELAVQIQKGLLALGDYMN-VQCHACIGGTNVGEDIRKLDYGQHVVAGT 141
Query: 121 PGRFLDHLQQGNTSLSRVSFVILDEADRMLDMGFEPQIREVMQNLPDKHQTLLFSATMPV 180
PGR D +++ + + ++LDEAD ML+ GF+ QI +V + LP Q +L SAT+P
Sbjct: 142 PGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQVVLISATLPH 201
Query: 181 EIEALAQEYLTDPVQVKVGKVSSPTANVIQILEKVSENE-KVDRXXXXXXXXXXXXXKSC 239
EI + +++TDP+++ V + + Q V E K D C
Sbjct: 202 EILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWKFDTL--------------C 247
Query: 240 HPF-PLTI----VFVERKTRCDEVSEALVAEGLHAVALHGGRNQSDRESALRDFRNGSTN 294
+ LTI +F K + D ++E + ++HG Q +RES +++FR+G++
Sbjct: 248 DLYDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASR 307
Query: 295 ILVATDVASRGLDVMGVAHVVNLDLPKTVEDYVHRIGRTGRGGSMGQATSFYTDRDMLLV 354
+L++TDV +RGLDV V+ ++N DLP E Y+HRIGR+GR G G A +F + D+ ++
Sbjct: 308 VLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAINFVKNDDIRIL 367
Query: 355 AQIKK 359
I++
Sbjct: 368 RDIEQ 372
>pdb|2J0U|A Chain A, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 209 bits (532), Expect = 2e-54, Method: Compositional matrix adjust.
Identities = 120/365 (32%), Positives = 205/365 (56%), Gaps = 26/365 (7%)
Query: 1 MKDIEFHEYTRPTSIQAQAMPVALSGRDLLGCAETGSGKTAAFTIPMIQHCVAQTPVGRG 60
++ I + + +P++IQ +A+ + GRD++ +++G+GKTA F++ ++Q Q +
Sbjct: 13 LRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSVSVLQCLDIQVRETQ- 71
Query: 61 DGPLALVLAPTRELAQQIEKEVKALSRSLDSFKTAIVVGGTNIAEQRSELRGGVSIVVAT 120
AL+LAPTRELA Q++K + AL ++ + +GGTN+ E +L G +V T
Sbjct: 72 ----ALILAPTRELAVQVQKGLLALGDYMN-VQCHACIGGTNVGEDIRKLDYGQHVVAGT 126
Query: 121 PGRFLDHLQQGNTSLSRVSFVILDEADRMLDMGFEPQIREVMQNLPDKHQTLLFSATMPV 180
PGR D +++ + + ++LDEAD ML+ GF+ QI +V + LP Q +L SAT+P
Sbjct: 127 PGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQVVLISATLPH 186
Query: 181 EIEALAQEYLTDPVQVKVGKVSSPTANVIQILEKVSENE-KVDRXXXXXXXXXXXXXKSC 239
EI + +++TDP+++ V + + Q V E K D C
Sbjct: 187 EILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWKFDTL--------------C 232
Query: 240 HPF-PLTI----VFVERKTRCDEVSEALVAEGLHAVALHGGRNQSDRESALRDFRNGSTN 294
+ LTI +F K + D ++E + ++HG Q +RES +++FR+G++
Sbjct: 233 DLYDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASR 292
Query: 295 ILVATDVASRGLDVMGVAHVVNLDLPKTVEDYVHRIGRTGRGGSMGQATSFYTDRDMLLV 354
+L++TDV +RGLDV V+ ++N DLP E Y+HRIGR+GR G G A +F + D+ ++
Sbjct: 293 VLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAVNFVKNDDIRVL 352
Query: 355 AQIKK 359
I++
Sbjct: 353 RDIEQ 357
>pdb|2J0U|B Chain B, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 209 bits (531), Expect = 3e-54, Method: Compositional matrix adjust.
Identities = 119/365 (32%), Positives = 206/365 (56%), Gaps = 26/365 (7%)
Query: 1 MKDIEFHEYTRPTSIQAQAMPVALSGRDLLGCAETGSGKTAAFTIPMIQHCVAQTPVGRG 60
++ I + + +P++IQ +A+ + GRD++ +++G+GKTA F++ ++Q Q +
Sbjct: 13 LRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSVSVLQCLDIQVRETQ- 71
Query: 61 DGPLALVLAPTRELAQQIEKEVKALSRSLDSFKTAIVVGGTNIAEQRSELRGGVSIVVAT 120
AL+LAPTRELA Q++K + AL ++ ++ +GGTN+ E +L G +V T
Sbjct: 72 ----ALILAPTRELAVQVQKGLLALGDYMN-VQSHACIGGTNVGEDIRKLDYGQHVVAGT 126
Query: 121 PGRFLDHLQQGNTSLSRVSFVILDEADRMLDMGFEPQIREVMQNLPDKHQTLLFSATMPV 180
PGR D +++ + + ++LDEAD ML+ GF+ QI +V + LP Q +L SAT+P
Sbjct: 127 PGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQVVLISATLPH 186
Query: 181 EIEALAQEYLTDPVQVKVGKVSSPTANVIQILEKVSENE-KVDRXXXXXXXXXXXXXKSC 239
E+ + +++TDP+++ V + + Q V E K D C
Sbjct: 187 EVLEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWKFDTL--------------C 232
Query: 240 HPF-PLTI----VFVERKTRCDEVSEALVAEGLHAVALHGGRNQSDRESALRDFRNGSTN 294
+ LTI +F K + D ++E + ++HG Q +RES +++FR+G++
Sbjct: 233 DLYDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASR 292
Query: 295 ILVATDVASRGLDVMGVAHVVNLDLPKTVEDYVHRIGRTGRGGSMGQATSFYTDRDMLLV 354
+L++TDV +RGLDV V+ ++N DLP E Y+HRIGR+GR G G A +F + D+ ++
Sbjct: 293 VLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAVNFVKNDDIRVL 352
Query: 355 AQIKK 359
I++
Sbjct: 353 RDIEQ 357
>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 = 196 bits (499), Expect = 2e-50, Method: Compositional matrix adjust.
Identities = 95/201 (47%), Positives = 134/201 (66%), Gaps = 1/201 (0%)
Query: 1 MKDIEFHEYTRPTSIQAQAMPVALSGRDLLGCAETGSGKTAAFTIPMIQHCVAQTPVGRG 60
M I +T PT+IQAQ PVALSG D++G A+TGSGKT ++ +P I H Q + RG
Sbjct: 41 MDVIARQNFTEPTAIQAQGWPVALSGLDMVGVAQTGSGKTLSYLLPAIVHINHQPFLERG 100
Query: 61 DGPLALVLAPTRELAQQIEKEVKALSRSLDSFKTAIVVGGTNIAEQRSELRGGVSIVVAT 120
DGP+ LVLAPTRELAQQ+++ R+ K+ + GG Q +L GV I +AT
Sbjct: 101 DGPICLVLAPTRELAQQVQQVAAEYCRAC-RLKSTCIYGGAPKGPQIRDLERGVEICIAT 159
Query: 121 PGRFLDHLQQGNTSLSRVSFVILDEADRMLDMGFEPQIREVMQNLPDKHQTLLFSATMPV 180
PGR +D L+ G T+L R ++++LDEADRMLDMGFEPQIR+++ + QTL++SAT P
Sbjct: 160 PGRLIDFLECGKTNLRRTTYLVLDEADRMLDMGFEPQIRKIVDQIRPDRQTLMWSATWPK 219
Query: 181 EIEALAQEYLTDPVQVKVGKV 201
E+ LA+++L D + + +G +
Sbjct: 220 EVRQLAEDFLKDYIHINIGAL 240
>pdb|4A4D|A Chain A, Crystal Structure Of The N-Terminal Domain Of The Human
Dead-Box Rna Helicase Ddx5 (P68)
Length = 253
Score = 196 bits (498), Expect = 2e-50, Method: Compositional matrix adjust.
Identities = 95/199 (47%), Positives = 133/199 (66%), Gaps = 1/199 (0%)
Query: 1 MKDIEFHEYTRPTSIQAQAMPVALSGRDLLGCAETGSGKTAAFTIPMIQHCVAQTPVGRG 60
M I +T PT+IQAQ PVALSG D++G A+TGSGKT ++ +P I H Q + RG
Sbjct: 55 MDVIARQNFTEPTAIQAQGWPVALSGLDMVGVAQTGSGKTLSYLLPAIVHINHQPFLERG 114
Query: 61 DGPLALVLAPTRELAQQIEKEVKALSRSLDSFKTAIVVGGTNIAEQRSELRGGVSIVVAT 120
DGP+ LVLAPTRELAQQ+++ R+ K+ + GG Q +L GV I +AT
Sbjct: 115 DGPICLVLAPTRELAQQVQQVAAEYCRAC-RLKSTCIYGGAPKGPQIRDLERGVEICIAT 173
Query: 121 PGRFLDHLQQGNTSLSRVSFVILDEADRMLDMGFEPQIREVMQNLPDKHQTLLFSATMPV 180
PGR +D L+ G T+L R ++++LDEADRMLDMGFEPQIR+++ + QTL++SAT P
Sbjct: 174 PGRLIDFLECGKTNLRRTTYLVLDEADRMLDMGFEPQIRKIVDQIRPDRQTLMWSATWPK 233
Query: 181 EIEALAQEYLTDPVQVKVG 199
E+ LA+++L D + + +G
Sbjct: 234 EVRQLAEDFLKDYIHINIG 252
>pdb|1S2M|A Chain A, Crystal Structure Of The Dead Box Protein Dhh1p
Length = 400
Score = 196 bits (498), Expect = 2e-50, Method: Compositional matrix adjust.
Identities = 112/353 (31%), Positives = 179/353 (50%), Gaps = 16/353 (4%)
Query: 9 YTRPTSIQAQAMPVALSGRDLLGCAETGSGKTAAFTIPMIQHCVAQTPVGRGDGPLALVL 68
+ +P+ IQ +A+PVA++GRD+L A+ G+GKTAAF IP ++ + + AL++
Sbjct: 41 FEKPSPIQEEAIPVAITGRDILARAKNGTGKTAAFVIPTLEKVKPKL-----NKIQALIM 95
Query: 69 APTRELAQQIEKEVKALSRSLDSFKTAIVVGGTNIAEQRSELRGGVSIVVATPGRFLDHL 128
PTRELA Q + V+ L + + GGTN+ + L V I+V TPGR LD
Sbjct: 96 VPTRELALQTSQVVRTLGKHC-GISCMVTTGGTNLRDDILRLNETVHILVGTPGRVLDLA 154
Query: 129 QQGNTSLSRVSFVILDEADRMLDMGFEPQIREVMQNLPDKHQTLLFSATMPVEIEALAQE 188
+ LS S I+DEAD+ML F+ I +++ LP HQ+LLFSAT P+ ++ +
Sbjct: 155 SRKVADLSDCSLFIMDEADKMLSRDFKTIIEQILSFLPPTHQSLLFSATFPLTVKEFMVK 214
Query: 189 YLTDPVQVKVGKVSSPTANVIQILEKVSENEKVDRXXXXXXXXXXXXXKSCHPFPLTIVF 248
+L P ++ + + + + Q V E +K+ I+F
Sbjct: 215 HLHKPYEINLMEELT-LKGITQYYAFVEERQKLHCLNTLFSKLQINQ---------AIIF 264
Query: 249 VERKTRCDEVSEALVAEGLHAVALHGGRNQSDRESALRDFRNGSTNILVATDVASRGLDV 308
R + +++ + G H Q +R +FR G LV +D+ +RG+D+
Sbjct: 265 CNSTNRVELLAKKITDLGYSCYYSHARMKQQERNKVFHEFRQGKVRTLVCSDLLTRGIDI 324
Query: 309 MGVAHVVNLDLPKTVEDYVHRIGRTGRGGSMGQATSFYTDRDMLLVAQIKKAI 361
V V+N D PKT E Y+HRIGR+GR G +G A + D + +I++ +
Sbjct: 325 QAVNVVINFDFPKTAETYLHRIGRSGRFGHLGLAINLINWNDRFNLYKIEQEL 377
>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 = 186 bits (473), Expect = 1e-47, Method: Compositional matrix adjust.
Identities = 112/335 (33%), Positives = 183/335 (54%), Gaps = 27/335 (8%)
Query: 1 MKDIEFHEYTRPTSIQAQAMPVALSGRDLLGCAETGSGKTAAFTIPMIQHCVAQTPVGRG 60
++ I + + +P++IQ +A+ + G D++ A++G+GKTA F I ++Q +
Sbjct: 26 LRGIYAYGFEKPSAIQQRAILPCIKGYDVIAQAQSGTGKTATFAISILQQIELDLKATQ- 84
Query: 61 DGPLALVLAPTRELAQQIEKEVKALSRSLDSFKTAIVVGGTNIAEQRSELR-GGVSIVVA 119
ALVLAPTRELAQQI+K V AL + + A +GGTN+ + +L+ I+V
Sbjct: 85 ----ALVLAPTRELAQQIQKVVMALGDYMGASCHA-CIGGTNVRAEVQKLQMEAPHIIVG 139
Query: 120 TPGRFLDHLQQGNTSLSRVSFVILDEADRMLDMGFEPQIREVMQNLPDKHQTLLFSATMP 179
TPGR D L + S + +LDEAD ML GF+ QI ++ Q L Q +L SATMP
Sbjct: 140 TPGRVFDMLNRRYLSPKYIKMFVLDEADEMLSRGFKDQIYDIFQKLNSNTQVVLLSATMP 199
Query: 180 VEIEALAQEYLTDPVQVKVGKVSSPTANVIQILEKVSENE-KVDRXXXXXXXXXXXXXKS 238
++ + ++++ DP+++ V K + Q V E K+D
Sbjct: 200 SDVLEVTKKFMRDPIRILVKKEELTLEGIRQFYINVEREEWKLDTL-------------- 245
Query: 239 CHPF-PLTI----VFVERKTRCDEVSEALVAEGLHAVALHGGRNQSDRESALRDFRNGST 293
C + LTI +F+ + + D ++E + A A+HG +Q +R+ +R+FR+GS+
Sbjct: 246 CDLYETLTITQAVIFINTRRKVDWLTEKMHARDFTVSAMHGDMDQKERDVIMREFRSGSS 305
Query: 294 NILVATDVASRGLDVMGVAHVVNLDLPKTVEDYVH 328
+L+ TD+ +RG+DV V+ V+N DLP E+Y+H
Sbjct: 306 RVLITTDLLARGIDVQQVSLVINYDLPTNRENYIH 340
>pdb|3EIQ|A Chain A, Crystal Structure Of Pdcd4-eif4a
pdb|3EIQ|D Chain D, Crystal Structure Of Pdcd4-eif4a
Length = 414
Score = 186 bits (473), Expect = 2e-47, Method: Compositional matrix adjust.
Identities = 112/335 (33%), Positives = 183/335 (54%), Gaps = 27/335 (8%)
Query: 1 MKDIEFHEYTRPTSIQAQAMPVALSGRDLLGCAETGSGKTAAFTIPMIQHCVAQTPVGRG 60
++ I + + +P++IQ +A+ + G D++ A++G+GKTA F I ++Q +
Sbjct: 52 LRGIYAYGFEKPSAIQQRAILPCIKGYDVIAQAQSGTGKTATFAISILQQIELDLKATQ- 110
Query: 61 DGPLALVLAPTRELAQQIEKEVKALSRSLDSFKTAIVVGGTNIAEQRSELR-GGVSIVVA 119
ALVLAPTRELAQQI+K V AL + + A +GGTN+ + +L+ I+V
Sbjct: 111 ----ALVLAPTRELAQQIQKVVMALGDYMGASCHA-CIGGTNVRAEVQKLQMEAPHIIVG 165
Query: 120 TPGRFLDHLQQGNTSLSRVSFVILDEADRMLDMGFEPQIREVMQNLPDKHQTLLFSATMP 179
TPGR D L + S + +LDEAD ML GF+ QI ++ Q L Q +L SATMP
Sbjct: 166 TPGRVFDMLNRRYLSPKYIKMFVLDEADEMLSRGFKDQIYDIFQKLNSNTQVVLLSATMP 225
Query: 180 VEIEALAQEYLTDPVQVKVGKVSSPTANVIQILEKVSENE-KVDRXXXXXXXXXXXXXKS 238
++ + ++++ DP+++ V K + Q V E K+D
Sbjct: 226 SDVLEVTKKFMRDPIRILVKKEELTLEGIRQFYINVEREEWKLDTL-------------- 271
Query: 239 CHPFP-LTI----VFVERKTRCDEVSEALVAEGLHAVALHGGRNQSDRESALRDFRNGST 293
C + LTI +F+ + + D ++E + A A+HG +Q +R+ +R+FR+GS+
Sbjct: 272 CDLYETLTITQAVIFINTRRKVDWLTEKMHARDFTVSAMHGDMDQKERDVIMREFRSGSS 331
Query: 294 NILVATDVASRGLDVMGVAHVVNLDLPKTVEDYVH 328
+L+ TD+ +RG+DV V+ V+N DLP E+Y+H
Sbjct: 332 RVLITTDLLARGIDVQQVSLVINYDLPTNRENYIH 366
>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 = 182 bits (462), Expect = 3e-46, Method: Compositional matrix adjust.
Identities = 120/351 (34%), Positives = 191/351 (54%), Gaps = 15/351 (4%)
Query: 9 YTRPTSIQAQAMPVALSGRDLLGCAETGSGKTAAFTIPMIQHCVAQTPVGRGDGPLALVL 68
+ P++IQ +A+ + G D+L A++G+GKT F+I +Q T V P AL+L
Sbjct: 42 FEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAALQRI--DTSVK---APQALML 96
Query: 69 APTRELAQQIEKEVKALSRSLDSFKTAIVVGGTNIAEQRSELRGGVSIVVATPGRFLDHL 128
APTRELA QI+K V AL+ +D K +GGT+ E LR IVV TPGR D++
Sbjct: 97 APTRELALQIQKVVMALAFHMD-IKVHACIGGTSFVEDAEGLRDA-QIVVGTPGRVFDNI 154
Query: 129 QQGNTSLSRVSFVILDEADRMLDMGFEPQIREVMQNLPDKHQTLLFSATMPVEIEALAQE 188
Q+ ++ ILDEAD ML GF+ QI ++ LP Q +L SATMP ++ + +
Sbjct: 155 QRRRFRTDKIKMFILDEADEMLSSGFKEQIYQIFTLLPPTTQVVLLSATMPNDVLEVTTK 214
Query: 189 YLTDPVQVKVGKVSSPTANVIQILEKVSENEKVDRXXXXXXXXXXXXXKSCHPFPLTIVF 248
++ +PV++ V K + Q V E E ++F
Sbjct: 215 FMRNPVRILVKKDELTLEGIKQFYVNVEEEE--------YKYECLTDLYDSISVTQAVIF 266
Query: 249 VERKTRCDEVSEALVAEGLHAVALHGGRNQSDRESALRDFRNGSTNILVATDVASRGLDV 308
+ + +E++ L + A++ Q +R++ +++FR+GS+ IL++TD+ +RG+DV
Sbjct: 267 CNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTIMKEFRSGSSRILISTDLLARGIDV 326
Query: 309 MGVAHVVNLDLPKTVEDYVHRIGRTGRGGSMGQATSFYTDRDMLLVAQIKK 359
V+ V+N DLP E+Y+HRIGR GR G G A +F T+ D+ + +++K
Sbjct: 327 QQVSLVINYDLPANKENYIHRIGRGGRFGRKGVAINFVTNEDVGAMRELEK 377
>pdb|2Z0M|A Chain A, Crystal Structure Of Hypothetical Atp-Dependent Rna
Helicase From Sulfolobus Tokodaii
Length = 337
Score = 181 bits (460), Expect = 6e-46, Method: Compositional matrix adjust.
Identities = 120/347 (34%), Positives = 185/347 (53%), Gaps = 32/347 (9%)
Query: 13 TSIQAQAMPVALSGRDLLGCAETGSGKTAAFTIPMIQHCVAQTPVGRGDGPLALVLAPTR 72
T +Q++ +P+ L G++++ A+TGSGKTAA+ IP+++ G +LV+ PTR
Sbjct: 18 TEVQSKTIPLMLQGKNVVVRAKTGSGKTAAYAIPILEL-----------GMKSLVVTPTR 66
Query: 73 ELAQQIEKEVKALSRSLDSFKTAIVVGGTNIAEQRSELRGGVSIVVATPGRFLDHLQQGN 132
EL +Q+ ++ + R +D+ K A V GG Q + +R IVVATPGR LD +G
Sbjct: 67 ELTRQVASHIRDIGRYMDT-KVAEVYGGMPYKAQINRVRNA-DIVVATPGRLLDLWSKGV 124
Query: 133 TSLSRVSFVILDEADRMLDMGFEPQIREVMQNLPDKHQTLLFSATMPVEIEALAQEYLTD 192
LS VI+DEAD M +MGF I+ ++ ++ T LFSAT+P EI + ++++T+
Sbjct: 125 IDLSSFEIVIIDEADLMFEMGFIDDIKIILAQTSNRKITGLFSATIPEEIRKVVKDFITN 184
Query: 193 PVQVKVGKVSSPTANVIQILEKVSENEKVDRXXXXXXXXXXXXXKSCHPFPLTIVFVERK 252
++ + ANV V ++ + K IVFV +
Sbjct: 185 YEEI---EACIGLANVEHKFVHVKDDWR-----SKVQALRENKDKGV------IVFVRTR 230
Query: 253 TRCDEVSEALVAEGLHAVALHGGRNQSDRESALRDFRNGSTNILVATDVASRGLDVMGVA 312
R + LV +A+ L G QS R + FR G ++L+ TDVASRGLD+ V
Sbjct: 231 NRVAK----LVRLFDNAIELRGDLPQSVRNRNIDAFREGEYDMLITTDVASRGLDIPLVE 286
Query: 313 HVVNLDLPKTVEDYVHRIGRTGRGGSMGQATSFYTDRDMLLVAQIKK 359
V+N D P+ + Y+HRIGRTGR G G+A +F + + L ++KK
Sbjct: 287 KVINFDAPQDLRTYIHRIGRTGRMGRKGEAITFILN-EYWLEKEVKK 332
>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 = 181 bits (459), Expect = 7e-46, Method: Compositional matrix adjust.
Identities = 95/216 (43%), Positives = 136/216 (62%), Gaps = 9/216 (4%)
Query: 3 DIEFHEYTRPTSIQAQAMPVALSGRDLLGCAETGSGKTAAFTIPMIQHCVAQ----TPVG 58
+I Y RPT IQ A+P L RD++ CA+TGSGKTAAF IP+I H V Q
Sbjct: 37 NILLASYQRPTPIQKNAIPAILEHRDIMACAQTGSGKTAAFLIPIINHLVCQDLNQQRYS 96
Query: 59 RGDGPLALVLAPTRELAQQIEKEVKALSRSLDSFKTAIVVGGTNIAEQRSELRGGVSIVV 118
+ P L+LAPTRELA QI E + S + ++ +V GG + Q E++ G ++V
Sbjct: 97 KTAYPKCLILAPTRELAIQILSESQKFSLN-TPLRSCVVYGGADTHSQIREVQMGCHLLV 155
Query: 119 ATPGRFLDHLQQGNTSLSRVSFVILDEADRMLDMGFEPQIREVMQ--NLPD--KHQTLLF 174
ATPGR +D +++ SL +++LDEADRMLDMGFEPQIR++++ N+P QTL+F
Sbjct: 156 ATPGRLVDFIEKNKISLEFCKYIVLDEADRMLDMGFEPQIRKIIEESNMPSGINRQTLMF 215
Query: 175 SATMPVEIEALAQEYLTDPVQVKVGKVSSPTANVIQ 210
SAT P EI+ LA ++L + + + VG+V S + ++ Q
Sbjct: 216 SATFPKEIQKLAADFLYNYIFMTVGRVGSTSDSIKQ 251
>pdb|1XTK|A Chain A, Structure Of Decd To Dead Mutation Of Human Uap56
Length = 390
Score = 179 bits (455), Expect = 2e-45, Method: Compositional matrix adjust.
Identities = 109/346 (31%), Positives = 186/346 (53%), Gaps = 19/346 (5%)
Query: 9 YTRPTSIQAQAMPVALSGRDLLGCAETGSGKTAAFTIPMIQHCVAQTPVGRGDGPLA-LV 67
+ P+ +Q + +P A+ G D+L A++G GKTA F + +Q PV G ++ LV
Sbjct: 27 FEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQL---EPVT---GQVSVLV 80
Query: 68 LAPTRELAQQIEKEVKALSRSLDSFKTAIVVGGTNIAEQRSELRGGV-SIVVATPGRFLD 126
+ TRELA QI KE + S+ + + K A+ GG +I + L+ IVV TPGR L
Sbjct: 81 MCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEVLKKNCPHIVVGTPGRILA 140
Query: 127 HLQQGNTSLSRVSFVILDEADRMLD-MGFEPQIREVMQNLPDKHQTLLFSATMPVEIEAL 185
+ + +L + ILDEAD+ML+ + ++E+ + P + Q ++FSAT+ EI +
Sbjct: 141 LARNKSLNLKHIKHFILDEADKMLEQLDMRRDVQEIFRMTPHEKQVMMFSATLSKEIRPV 200
Query: 186 AQEYLTDPVQVKVGKVSSPTANVIQ-ILEKVSENEKVDRXXXXXXXXXXXXXKSCHPFPL 244
++++ DP+++ V + T + +Q K+ +NEK + F
Sbjct: 201 CRKFMQDPMEIFVDDETKLTLHGLQQYYVKLKDNEKNRKLFDLLDVLE---------FNQ 251
Query: 245 TIVFVERKTRCDEVSEALVAEGLHAVALHGGRNQSDRESALRDFRNGSTNILVATDVASR 304
++FV+ RC +++ LV + A+A+H G Q +R S + F++ ILVAT++ R
Sbjct: 252 VVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRILVATNLFGR 311
Query: 305 GLDVMGVAHVVNLDLPKTVEDYVHRIGRTGRGGSMGQATSFYTDRD 350
G+D+ V N D+P+ + Y+HR+ R GR G+ G A +F +D +
Sbjct: 312 GMDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKGLAITFVSDEN 357
>pdb|1XTJ|A Chain A, Structure Of Human Uap56 In Complex With Adp
Length = 386
Score = 178 bits (452), Expect = 5e-45, Method: Compositional matrix adjust.
Identities = 108/346 (31%), Positives = 185/346 (53%), Gaps = 19/346 (5%)
Query: 9 YTRPTSIQAQAMPVALSGRDLLGCAETGSGKTAAFTIPMIQHCVAQTPVGRGDGPLA-LV 67
+ P+ +Q + +P A+ G D+L A++G GKTA F + +Q PV G ++ LV
Sbjct: 28 FEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQL---EPVT---GQVSVLV 81
Query: 68 LAPTRELAQQIEKEVKALSRSLDSFKTAIVVGGTNIAEQRSELRGGV-SIVVATPGRFLD 126
+ TRELA QI KE + S+ + + K A+ GG +I + L+ IVV TPGR L
Sbjct: 82 MCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEVLKKNCPHIVVGTPGRILA 141
Query: 127 HLQQGNTSLSRVSFVILDEADRMLD-MGFEPQIREVMQNLPDKHQTLLFSATMPVEIEAL 185
+ + +L + ILDE D+ML+ + ++E+ + P + Q ++FSAT+ EI +
Sbjct: 142 LARNKSLNLKHIKHFILDECDKMLEQLDMRRDVQEIFRMTPHEKQVMMFSATLSKEIRPV 201
Query: 186 AQEYLTDPVQVKVGKVSSPTANVIQ-ILEKVSENEKVDRXXXXXXXXXXXXXKSCHPFPL 244
++++ DP+++ V + T + +Q K+ +NEK + F
Sbjct: 202 CRKFMQDPMEIFVDDETKLTLHGLQQYYVKLKDNEKNRKLFDLLDVLE---------FNQ 252
Query: 245 TIVFVERKTRCDEVSEALVAEGLHAVALHGGRNQSDRESALRDFRNGSTNILVATDVASR 304
++FV+ RC +++ LV + A+A+H G Q +R S + F++ ILVAT++ R
Sbjct: 253 VVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRILVATNLFGR 312
Query: 305 GLDVMGVAHVVNLDLPKTVEDYVHRIGRTGRGGSMGQATSFYTDRD 350
G+D+ V N D+P+ + Y+HR+ R GR G+ G A +F +D +
Sbjct: 313 GMDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKGLAITFVSDEN 358
>pdb|1XTI|A Chain A, Structure Of Wildtype Human Uap56
Length = 391
Score = 178 bits (451), Expect = 6e-45, Method: Compositional matrix adjust.
Identities = 108/346 (31%), Positives = 185/346 (53%), Gaps = 19/346 (5%)
Query: 9 YTRPTSIQAQAMPVALSGRDLLGCAETGSGKTAAFTIPMIQHCVAQTPVGRGDGPLA-LV 67
+ P+ +Q + +P A+ G D+L A++G GKTA F + +Q PV G ++ LV
Sbjct: 28 FEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQL---EPVT---GQVSVLV 81
Query: 68 LAPTRELAQQIEKEVKALSRSLDSFKTAIVVGGTNIAEQRSELRGGV-SIVVATPGRFLD 126
+ TRELA QI KE + S+ + + K A+ GG +I + L+ IVV TPGR L
Sbjct: 82 MCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEVLKKNCPHIVVGTPGRILA 141
Query: 127 HLQQGNTSLSRVSFVILDEADRMLD-MGFEPQIREVMQNLPDKHQTLLFSATMPVEIEAL 185
+ + +L + ILDE D+ML+ + ++E+ + P + Q ++FSAT+ EI +
Sbjct: 142 LARNKSLNLKHIKHFILDECDKMLEQLDMRRDVQEIFRMTPHEKQVMMFSATLSKEIRPV 201
Query: 186 AQEYLTDPVQVKVGKVSSPTANVIQ-ILEKVSENEKVDRXXXXXXXXXXXXXKSCHPFPL 244
++++ DP+++ V + T + +Q K+ +NEK + F
Sbjct: 202 CRKFMQDPMEIFVDDETKLTLHGLQQYYVKLKDNEKNRKLFDLLDVLE---------FNQ 252
Query: 245 TIVFVERKTRCDEVSEALVAEGLHAVALHGGRNQSDRESALRDFRNGSTNILVATDVASR 304
++FV+ RC +++ LV + A+A+H G Q +R S + F++ ILVAT++ R
Sbjct: 253 VVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRILVATNLFGR 312
Query: 305 GLDVMGVAHVVNLDLPKTVEDYVHRIGRTGRGGSMGQATSFYTDRD 350
G+D+ V N D+P+ + Y+HR+ R GR G+ G A +F +D +
Sbjct: 313 GMDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKGLAITFVSDEN 358
>pdb|1FUU|A Chain A, Yeast Initiation Factor 4a
pdb|1FUU|B Chain B, Yeast Initiation Factor 4a
Length = 394
Score = 172 bits (435), Expect = 4e-43, Method: Compositional matrix adjust.
Identities = 117/343 (34%), Positives = 180/343 (52%), Gaps = 15/343 (4%)
Query: 9 YTRPTSIQAQAMPVALSGRDLLGCAETGSGKTAAFTIPMIQHCVAQTPVGRGDGPLALVL 68
+ P++IQ +A+ + G D+L A++G+GKT F+I +Q T V P AL L
Sbjct: 41 FEEPSAIQQRAIXPIIEGHDVLAQAQSGTGKTGTFSIAALQRI--DTSVK---APQALXL 95
Query: 69 APTRELAQQIEKEVKALSRSLDSFKTAIVVGGTNIAEQRSELRGGVSIVVATPGRFLDHL 128
APTRELA QI+K V AL+ D K +GGT+ E LR IVV TPGR D++
Sbjct: 96 APTRELALQIQKVVXALAFHXD-IKVHACIGGTSFVEDAEGLRDA-QIVVGTPGRVFDNI 153
Query: 129 QQGNTSLSRVSFVILDEADRMLDMGFEPQIREVMQNLPDKHQTLLFSATMPVEIEALAQE 188
Q+ ++ ILDEAD L GF+ QI ++ LP Q +L SAT P ++ + +
Sbjct: 154 QRRRFRTDKIKXFILDEADEXLSSGFKEQIYQIFTLLPPTTQVVLLSATXPNDVLEVTTK 213
Query: 189 YLTDPVQVKVGKVSSPTANVIQILEKVSENEKVDRXXXXXXXXXXXXXKSCHPFPLTIVF 248
+ +PV++ V K + Q V E E ++F
Sbjct: 214 FXRNPVRILVKKDELTLEGIKQFYVNVEEEE--------YKYECLTDLYDSISVTQAVIF 265
Query: 249 VERKTRCDEVSEALVAEGLHAVALHGGRNQSDRESALRDFRNGSTNILVATDVASRGLDV 308
+ + +E++ L + A++ Q +R++ ++FR+GS+ IL++TD+ +RG+DV
Sbjct: 266 CNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTIXKEFRSGSSRILISTDLLARGIDV 325
Query: 309 MGVAHVVNLDLPKTVEDYVHRIGRTGRGGSMGQATSFYTDRDM 351
V+ V+N DLP E+Y+HRIGR GR G G A +F T+ D+
Sbjct: 326 QQVSLVINYDLPANKENYIHRIGRGGRFGRKGVAINFVTNEDV 368
>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 = 168 bits (425), Expect = 7e-42, Method: Compositional matrix adjust.
Identities = 92/191 (48%), Positives = 119/191 (62%), Gaps = 5/191 (2%)
Query: 10 TRPTSIQAQAMPVALSGRDLLGCAETGSGKTAAFTIPMIQHCVAQTPVGRGDGPLALVLA 69
T PT IQA A+P+AL G+DL+G A TG+GKT AF +P+ + RG P ALVL
Sbjct: 22 TTPTPIQAAALPLALEGKDLIGQARTGTGKTLAFALPIAERLAPSQ--ERGRKPRALVLT 79
Query: 70 PTRELAQQIEKEVKALSRSLDSFKTAIVVGGTNIAEQRSELRGGVSIVVATPGRFLDHLQ 129
PTRELA Q+ E+ A++ L K V GGT +Q+ L G VVATPGR LD+L+
Sbjct: 80 PTRELALQVASELTAVAPHL---KVVAVYGGTGYGKQKEALLRGADAVVATPGRALDYLR 136
Query: 130 QGNTSLSRVSFVILDEADRMLDMGFEPQIREVMQNLPDKHQTLLFSATMPVEIEALAQEY 189
QG LSRV +LDEAD ML MGFE ++ ++ P QTLLFSAT+P + LA+ Y
Sbjct: 137 QGVLDLSRVEVAVLDEADEMLSMGFEEEVEALLSATPPSRQTLLFSATLPSWAKRLAERY 196
Query: 190 LTDPVQVKVGK 200
+ +PV + V K
Sbjct: 197 MKNPVLINVIK 207
>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 = 166 bits (421), Expect = 2e-41, Method: Compositional matrix adjust.
Identities = 91/191 (47%), Positives = 119/191 (62%), Gaps = 5/191 (2%)
Query: 10 TRPTSIQAQAMPVALSGRDLLGCAETGSGKTAAFTIPMIQHCVAQTPVGRGDGPLALVLA 69
T PT I+A A+P+AL G+DL+G A TG+GKT AF +P+ + RG P ALVL
Sbjct: 22 TTPTPIEAAALPLALEGKDLIGQARTGTGKTLAFALPIAERLAPSQ--ERGRKPRALVLT 79
Query: 70 PTRELAQQIEKEVKALSRSLDSFKTAIVVGGTNIAEQRSELRGGVSIVVATPGRFLDHLQ 129
PTRELA Q+ E+ A++ L K V GGT +Q+ L G VVATPGR LD+L+
Sbjct: 80 PTRELALQVASELTAVAPHL---KVVAVYGGTGYGKQKEALLRGADAVVATPGRALDYLR 136
Query: 130 QGNTSLSRVSFVILDEADRMLDMGFEPQIREVMQNLPDKHQTLLFSATMPVEIEALAQEY 189
QG LSRV +LDEAD ML MGFE ++ ++ P QTLLFSAT+P + LA+ Y
Sbjct: 137 QGVLDLSRVEVAVLDEADEMLSMGFEEEVEALLSATPPSRQTLLFSATLPSWAKRLAERY 196
Query: 190 LTDPVQVKVGK 200
+ +PV + V K
Sbjct: 197 MKNPVLINVIK 207
>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 = 152 bits (383), Expect = 4e-37, Method: Compositional matrix adjust.
Identities = 113/376 (30%), Positives = 192/376 (51%), Gaps = 30/376 (7%)
Query: 1 MKDIEFHEYTRPTSIQAQAMPVALSG--RDLLGCAETGSGKTAAFTIPMIQHCVAQTPVG 58
+K I ++ +P+ IQ +A+P+ L R+++ +++G+GKTAAF++ M+ T V
Sbjct: 17 LKGIYAMKFQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAAFSLTML------TRVN 70
Query: 59 RGDG-PLALVLAPTRELAQQIEKEVKALSRSLDSFKTAIVVGGTNIAEQRSELRGGVSIV 117
D P A+ LAP+RELA+Q + V+ + + + ++V + E+ ++ ++
Sbjct: 71 PEDASPQAICLAPSRELARQTLEVVQEMGK-FTKITSQLIVPDS--FEKNKQINA--QVI 125
Query: 118 VATPGRFLDHLQQGNTSLSRVSFVILDEADRMLDM-GFEPQIREVMQNLPDKHQTLLFSA 176
V TPG LD +++ L ++ +LDEAD MLD G Q V + LP Q +LFSA
Sbjct: 126 VGTPGTVLDLMRRKLMQLQKIKIFVLDEADNMLDQQGLGDQCIRVKRFLPKDTQLVLFSA 185
Query: 177 TMPVEIEALAQEYLTDPVQVKVGKVSSPTANVIQILEKVSENEKVDRXXXXXXXXXXXXX 236
T + A++ + + +++ + + + I+ L +NE D+
Sbjct: 186 TFADAVRQYAKKIVPNANTLEL-QTNEVNVDAIKQLYMDCKNE-ADKFDVLTELYGVMTI 243
Query: 237 KSCHPFPLTIVFVERKTRCDEVSEALVAEGLHAVALHGGRNQSDRESALRDFRNGSTNIL 296
S +I+FV K + + L +EG LHG +R+ + DFR G + +L
Sbjct: 244 GS------SIIFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDDFREGRSKVL 297
Query: 297 VATDVASRGLDVMGVAHVVNLDLPKTVE------DYVHRIGRTGRGGSMGQATSFYTDRD 350
+ T+V +RG+D+ V+ VVN DLP Y+HRIGRTGR G G A SF D++
Sbjct: 298 ITTNVLARGIDIPTVSMVVNYDLPTLANGQADPATYIHRIGRTGRFGRKGVAISFVHDKN 357
Query: 351 ML-LVAQIKKAIVDAE 365
+++ I+K D E
Sbjct: 358 SFNILSAIQKYFGDIE 373
>pdb|3PEY|A Chain A, S. Cerevisiae Dbp5 Bound To Rna And Adp Bef3
Length = 395
Score = 152 bits (383), Expect = 4e-37, Method: Compositional matrix adjust.
Identities = 113/376 (30%), Positives = 192/376 (51%), Gaps = 30/376 (7%)
Query: 1 MKDIEFHEYTRPTSIQAQAMPVALSG--RDLLGCAETGSGKTAAFTIPMIQHCVAQTPVG 58
+K I ++ +P+ IQ +A+P+ L R+++ +++G+GKTAAF++ M+ T V
Sbjct: 17 LKGIYAMKFQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAAFSLTML------TRVN 70
Query: 59 RGDG-PLALVLAPTRELAQQIEKEVKALSRSLDSFKTAIVVGGTNIAEQRSELRGGVSIV 117
D P A+ LAP+RELA+Q + V+ + + + ++V + E+ ++ ++
Sbjct: 71 PEDASPQAICLAPSRELARQTLEVVQEMGK-FTKITSQLIVPDS--FEKNKQINA--QVI 125
Query: 118 VATPGRFLDHLQQGNTSLSRVSFVILDEADRMLDM-GFEPQIREVMQNLPDKHQTLLFSA 176
V TPG LD +++ L ++ +LDEAD MLD G Q V + LP Q +LFSA
Sbjct: 126 VGTPGTVLDLMRRKLMQLQKIKIFVLDEADNMLDQQGLGDQCIRVKRFLPKDTQLVLFSA 185
Query: 177 TMPVEIEALAQEYLTDPVQVKVGKVSSPTANVIQILEKVSENEKVDRXXXXXXXXXXXXX 236
T + A++ + + +++ + + + I+ L +NE D+
Sbjct: 186 TFADAVRQYAKKIVPNANTLEL-QTNEVNVDAIKQLYMDCKNE-ADKFDVLTELYGLMTI 243
Query: 237 KSCHPFPLTIVFVERKTRCDEVSEALVAEGLHAVALHGGRNQSDRESALRDFRNGSTNIL 296
S +I+FV K + + L +EG LHG +R+ + DFR G + +L
Sbjct: 244 GS------SIIFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDDFREGRSKVL 297
Query: 297 VATDVASRGLDVMGVAHVVNLDLPKTVE------DYVHRIGRTGRGGSMGQATSFYTDRD 350
+ T+V +RG+D+ V+ VVN DLP Y+HRIGRTGR G G A SF D++
Sbjct: 298 ITTNVLARGIDIPTVSMVVNYDLPTLANGQADPATYIHRIGRTGRFGRKGVAISFVHDKN 357
Query: 351 ML-LVAQIKKAIVDAE 365
+++ I+K D E
Sbjct: 358 SFNILSAIQKYFGDIE 373
>pdb|3BER|A Chain A, Human Dead-Box Rna-Helicase Ddx47, Conserved Domain I In
Complex With Amp
Length = 249
Score = 152 bits (383), Expect = 5e-37, Method: Compositional matrix adjust.
Identities = 79/191 (41%), Positives = 127/191 (66%), Gaps = 7/191 (3%)
Query: 9 YTRPTSIQAQAMPVALSGRDLLGCAETGSGKTAAFTIPMIQHCVAQTPVGRGDGPLALVL 68
+T+PT IQ +A+P+AL GRD++G AETGSGKT AF +P++ + + +TP ALVL
Sbjct: 63 WTKPTKIQIEAIPLALQGRDIIGLAETGSGKTGAFALPIL-NALLETP----QRLFALVL 117
Query: 69 APTRELAQQIEKEVKALSRSLDSFKTAIVVGGTNIAEQRSELRGGVSIVVATPGRFLDHL 128
PTRELA QI ++ +AL S+ ++A++VGG + Q L I++ATPGR +DHL
Sbjct: 118 TPTRELAFQISEQFEALGSSI-GVQSAVIVGGIDSMSQSLALAKKPHIIIATPGRLIDHL 176
Query: 129 QQGN-TSLSRVSFVILDEADRMLDMGFEPQIREVMQNLPDKHQTLLFSATMPVEIEALAQ 187
+ +L + ++++DEADR+L+M FE ++ ++++ +P +T LFSATM +++ L +
Sbjct: 177 ENTKGFNLRALKYLVMDEADRILNMDFETEVDKILKVIPRDRKTFLFSATMTKKVQKLQR 236
Query: 188 EYLTDPVQVKV 198
L +PV+ V
Sbjct: 237 AALKNPVKCAV 247
>pdb|3SQX|A Chain A, Structure Of Mss116p (Nte And C-Tail Double Deletion)
Bound To Ssrna And Amp-Pnp
Length = 512
Score = 149 bits (375), Expect = 4e-36, Method: Compositional matrix adjust.
Identities = 113/374 (30%), Positives = 189/374 (50%), Gaps = 25/374 (6%)
Query: 8 EYTRPTSIQAQAMPVALSG--RDLLGCAETGSGKTAAFTIPMIQHCVAQTPVGRGDGPLA 65
E+ T +Q + + LS D++ A+TG+GKT AF IP+ QH + T A
Sbjct: 40 EFPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIFQHLI-NTKFDSQYMVKA 98
Query: 66 LVLAPTRELAQQIEKEVKA---LSRSLDSFKTAIVVGGTNI---AEQRSELRGGVSIVVA 119
+++APTR+LA QIE EVK ++ L + +VGGT+ + ++LR +IV+A
Sbjct: 99 VIVAPTRDLALQIEAEVKKIHDMNYGLKKYACVSLVGGTDFRAAMNKMNKLRP--NIVIA 156
Query: 120 TPGRFLDHLQQGNTSLSR-VSFVILDEADRMLDMGFEPQIREVMQNLPDKH-------QT 171
TPGR +D L++ + R V + +LDEADR+L++GF + + L +K+ +T
Sbjct: 157 TPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLEIGFRDDLETISGILNEKNSKSADNIKT 216
Query: 172 LLFSATMPVEIEALAQEYLTDPVQVKVGKV--SSPTANVIQILEKVSENEKVDRXXXXXX 229
LLFSAT+ +++ LA + + + V + P A+ +I + V +EK
Sbjct: 217 LLFSATLDDKVQKLANNIMNKKECLFLDTVDKNEPEAHE-RIDQSVVISEKFANSIFAAV 275
Query: 230 XXXXXXXKSCHPFPLTIVF---VERKTRCDEVSEALVAEGLHAVALHGGRNQSDRESALR 286
K I+F V+ + + + + L + HG Q+ R S ++
Sbjct: 276 EHIKKQIKERDSNYKAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQNKRTSLVK 335
Query: 287 DFRNGSTNILVATDVASRGLDVMGVAHVVNLDLPKTVEDYVHRIGRTGRGGSMGQATSFY 346
F+ + ILV TDV +RG+D V V+ + +P + +Y+HRIGRT R G G + F
Sbjct: 336 RFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEGSSVLFI 395
Query: 347 TDRDMLLVAQIKKA 360
++ V +++ A
Sbjct: 396 CKDELPFVRELEDA 409
>pdb|3SQW|A Chain A, Structure Of Mss116p (Nte Deletion) Bound To Ssrna And
Amp-Pnp
Length = 579
Score = 148 bits (374), Expect = 5e-36, Method: Compositional matrix adjust.
Identities = 113/374 (30%), Positives = 189/374 (50%), Gaps = 25/374 (6%)
Query: 8 EYTRPTSIQAQAMPVALSG--RDLLGCAETGSGKTAAFTIPMIQHCVAQTPVGRGDGPLA 65
E+ T +Q + + LS D++ A+TG+GKT AF IP+ QH + T A
Sbjct: 40 EFPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIFQHLI-NTKFDSQYMVKA 98
Query: 66 LVLAPTRELAQQIEKEVKA---LSRSLDSFKTAIVVGGTNI---AEQRSELRGGVSIVVA 119
+++APTR+LA QIE EVK ++ L + +VGGT+ + ++LR +IV+A
Sbjct: 99 VIVAPTRDLALQIEAEVKKIHDMNYGLKKYACVSLVGGTDFRAAMNKMNKLRP--NIVIA 156
Query: 120 TPGRFLDHLQQGNTSLSR-VSFVILDEADRMLDMGFEPQIREVMQNLPDKH-------QT 171
TPGR +D L++ + R V + +LDEADR+L++GF + + L +K+ +T
Sbjct: 157 TPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLEIGFRDDLETISGILNEKNSKSADNIKT 216
Query: 172 LLFSATMPVEIEALAQEYLTDPVQVKVGKV--SSPTANVIQILEKVSENEKVDRXXXXXX 229
LLFSAT+ +++ LA + + + V + P A+ +I + V +EK
Sbjct: 217 LLFSATLDDKVQKLANNIMNKKECLFLDTVDKNEPEAHE-RIDQSVVISEKFANSIFAAV 275
Query: 230 XXXXXXXKSCHPFPLTIVF---VERKTRCDEVSEALVAEGLHAVALHGGRNQSDRESALR 286
K I+F V+ + + + + L + HG Q+ R S ++
Sbjct: 276 EHIKKQIKERDSNYKAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQNKRTSLVK 335
Query: 287 DFRNGSTNILVATDVASRGLDVMGVAHVVNLDLPKTVEDYVHRIGRTGRGGSMGQATSFY 346
F+ + ILV TDV +RG+D V V+ + +P + +Y+HRIGRT R G G + F
Sbjct: 336 RFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEGSSVLFI 395
Query: 347 TDRDMLLVAQIKKA 360
++ V +++ A
Sbjct: 396 CKDELPFVRELEDA 409
>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 = 148 bits (374), Expect = 5e-36, Method: Compositional matrix adjust.
Identities = 113/374 (30%), Positives = 189/374 (50%), Gaps = 25/374 (6%)
Query: 8 EYTRPTSIQAQAMPVALSG--RDLLGCAETGSGKTAAFTIPMIQHCVAQTPVGRGDGPLA 65
E+ T +Q + + LS D++ A+TG+GKT AF IP+ QH + T A
Sbjct: 91 EFPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIFQHLI-NTKFDSQYMVKA 149
Query: 66 LVLAPTRELAQQIEKEVKA---LSRSLDSFKTAIVVGGTNI---AEQRSELRGGVSIVVA 119
+++APTR+LA QIE EVK ++ L + +VGGT+ + ++LR +IV+A
Sbjct: 150 VIVAPTRDLALQIEAEVKKIHDMNYGLKKYACVSLVGGTDFRAAMNKMNKLRP--NIVIA 207
Query: 120 TPGRFLDHLQQGNTSLSR-VSFVILDEADRMLDMGFEPQIREVMQNLPDKH-------QT 171
TPGR +D L++ + R V + +LDEADR+L++GF + + L +K+ +T
Sbjct: 208 TPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLEIGFRDDLETISGILNEKNSKSADNIKT 267
Query: 172 LLFSATMPVEIEALAQEYLTDPVQVKVGKV--SSPTANVIQILEKVSENEKVDRXXXXXX 229
LLFSAT+ +++ LA + + + V + P A+ +I + V +EK
Sbjct: 268 LLFSATLDDKVQKLANNIMNKKECLFLDTVDKNEPEAHE-RIDQSVVISEKFANSIFAAV 326
Query: 230 XXXXXXXKSCHPFPLTIVF---VERKTRCDEVSEALVAEGLHAVALHGGRNQSDRESALR 286
K I+F V+ + + + + L + HG Q+ R S ++
Sbjct: 327 EHIKKQIKERDSNYKAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQNKRTSLVK 386
Query: 287 DFRNGSTNILVATDVASRGLDVMGVAHVVNLDLPKTVEDYVHRIGRTGRGGSMGQATSFY 346
F+ + ILV TDV +RG+D V V+ + +P + +Y+HRIGRT R G G + F
Sbjct: 387 RFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEGSSVLFI 446
Query: 347 TDRDMLLVAQIKKA 360
++ V +++ A
Sbjct: 447 CKDELPFVRELEDA 460
>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 = 147 bits (370), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 79/190 (41%), Positives = 116/190 (61%), Gaps = 5/190 (2%)
Query: 11 RPTSIQAQAMPVALSGRDLLGCAETGSGKTAAFTIPMIQHCVAQTPVGRG--DGPLALVL 68
+PT IQ+QA P+ L G DL+ A+TG+GKT ++ +P H +Q P+ R +GP LVL
Sbjct: 42 KPTPIQSQAWPIILQGIDLIVVAQTGTGKTLSYLMPGFIHLDSQ-PISREQRNGPGMLVL 100
Query: 69 APTRELAQQIEKEVKALSRSLDSFKTAIVVGGTNIAEQRSELRGGVSIVVATPGRFLDHL 128
PTRELA +E E S K+ + GG N Q ++ GV I++ATPGR D
Sbjct: 101 TPTRELALHVEAECSKYSYK--GLKSICIYGGRNRNGQIEDISKGVDIIIATPGRLNDLQ 158
Query: 129 QQGNTSLSRVSFVILDEADRMLDMGFEPQIREVMQNLPDKHQTLLFSATMPVEIEALAQE 188
+ +L ++++++DEAD+MLDM FEPQIR+++ ++ QT++ SAT P + LA
Sbjct: 159 MNNSVNLRSITYLVIDEADKMLDMEFEPQIRKILLDVRPDRQTVMTSATWPDTVRQLALS 218
Query: 189 YLTDPVQVKV 198
YL DP+ V V
Sbjct: 219 YLKDPMIVYV 228
>pdb|3FHO|A Chain A, Structure Of S. Pombe Dbp5
pdb|3FHO|B Chain B, Structure Of S. Pombe Dbp5
Length = 508
Score = 146 bits (369), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 108/354 (30%), Positives = 171/354 (48%), Gaps = 47/354 (13%)
Query: 15 IQAQAMPVALSG--RDLLGCAETGSGKTAAFTIPMIQHCVAQTPVGRGDGPLALVLAPTR 72
IQ +A+P+ LS R+++G +++G+GKTAAF + M+ A P P A+ LAP+R
Sbjct: 145 IQEKALPLLLSNPPRNMIGQSQSGTGKTAAFALTMLSRVDASVP-----KPQAICLAPSR 199
Query: 73 ELAQQIEKEVKALSRSLDSFKTAI-----VVGGTNIAEQRSELRGGVSIVVATPGRFLDH 127
ELA+QI V + + + KTA V G I Q IV+ TPG +D
Sbjct: 200 ELARQIMDVVTEMGKYTE-VKTAFGIKDSVPKGAKIDAQ---------IVIGTPGTVMDL 249
Query: 128 LQQGNTSLSRVSFVILDEADRMLDM-GFEPQIREVMQNLPDKHQTLLFSATMPVEIEALA 186
+++ + +LDEAD MLD G Q + LP Q +LFSAT +E A
Sbjct: 250 MKRRQLDARDIKVFVLDEADNMLDQQGLGDQSMRIKHLLPRNTQIVLFSATFSERVEKYA 309
Query: 187 QEYLTDPVQVKVGKVSSPTANVIQILEKVSENEKVDRXXXXXXXXXXXXXKSCHPFPL-- 244
+ + +P AN I++ + E + + + L
Sbjct: 310 ERF-------------APNANEIRLKTEELSVEGIKQLYMDCQSEEHKYNVLVELYGLLT 356
Query: 245 ---TIVFVERKTRCDEVSEALVAEGLHAVALHGGRNQSDRESALRDFRNGSTNILVATDV 301
+I+F ++K +E++ + A+G L G + R++ + FR G++ +LV T+V
Sbjct: 357 IGQSIIFCKKKDTAEEIARRMTADGHTVACLTGNLEGAQRDAIMDSFRVGTSKVLVTTNV 416
Query: 302 ASRGLDVMGVAHVVNLDLP------KTVEDYVHRIGRTGRGGSMGQATSFYTDR 349
+RG+DV V VVN D+P + Y+HRIGRTGR G +G + +F D+
Sbjct: 417 IARGIDVSQVNLVVNYDMPLDQAGRPDPQTYLHRIGRTGRFGRVGVSINFVHDK 470
>pdb|2PL3|A Chain A, Human Dead-Box Rna Helicase Ddx10, Dead Domain In Complex
With Adp
Length = 236
Score = 135 bits (340), Expect = 4e-32, Method: Compositional matrix adjust.
Identities = 75/199 (37%), Positives = 124/199 (62%), Gaps = 4/199 (2%)
Query: 1 MKDIEFHEYTRPTSIQAQAMPVALSGRDLLGCAETGSGKTAAFTIPMIQHCVAQTPVGRG 60
+K ++ +Y T IQ Q + +AL G+D+LG A+TGSGKT AF +P+++ + +
Sbjct: 37 LKGLQEAQYRLVTEIQKQTIGLALQGKDVLGAAKTGSGKTLAFLVPVLE-ALYRLQWTST 95
Query: 61 DGPLALVLAPTRELAQQIEKEVKALSRSLDSFKTAIVVGGTNIAEQRSELRGGVSIVVAT 120
DG L+++PTRELA Q + ++ + ++ D F +++GG ++ + +E ++I+V T
Sbjct: 96 DGLGVLIISPTRELAYQTFEVLRKVGKNHD-FSAGLIIGGKDLKHE-AERINNINILVCT 153
Query: 121 PGRFLDHLQQG-NTSLSRVSFVILDEADRMLDMGFEPQIREVMQNLPDKHQTLLFSATMP 179
PGR L H+ + + + + ++LDEADR+LDMGF + V++NLP K QTLLFSAT
Sbjct: 154 PGRLLQHMDETVSFHATDLQMLVLDEADRILDMGFADTMNAVIENLPKKRQTLLFSATQT 213
Query: 180 VEIEALAQEYLTDPVQVKV 198
++ LA+ L +P V V
Sbjct: 214 KSVKDLARLSLKNPEYVWV 232
>pdb|3LY5|A Chain A, Ddx18 Dead-Domain
pdb|3LY5|B Chain B, Ddx18 Dead-Domain
Length = 262
Score = 133 bits (335), Expect = 1e-31, Method: Compositional matrix adjust.
Identities = 75/189 (39%), Positives = 124/189 (65%), Gaps = 5/189 (2%)
Query: 1 MKDIEFHEYTRPTSIQAQAMPVALSGRDLLGCAETGSGKTAAFTIPMIQHCVAQTPVGRG 60
+K I+ +T T IQ +++ L GRDLL A+TGSGKT AF IP ++ V + R
Sbjct: 66 LKAIKEMGFTNMTEIQHKSIRPLLEGRDLLAAAKTGSGKTLAFLIPAVELIVKLRFMPR- 124
Query: 61 DGPLALVLAPTRELAQQIEKEVKAL-SRSLDSFKTAIVVGGTNIAEQRSELRGGVSIVVA 119
+G L+L+PTRELA Q +K L + + ++ +++GG+N + + +L G++I+VA
Sbjct: 125 NGTGVLILSPTRELAMQTFGVLKELMTHHVHTY--GLIMGGSNRSAEAQKLGNGINIIVA 182
Query: 120 TPGRFLDHLQQGNTSLSR-VSFVILDEADRMLDMGFEPQIREVMQNLPDKHQTLLFSATM 178
TPGR LDH+Q + + + +++DEADR+LD+GFE +++++++ LP + QT+LFSAT
Sbjct: 183 TPGRLLDHMQNTPGFMYKNLQCLVIDEADRILDVGFEEELKQIIKLLPTRRQTMLFSATQ 242
Query: 179 PVEIEALAQ 187
++E LA+
Sbjct: 243 TRKVEDLAR 251
>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 = 133 bits (334), Expect = 2e-31, Method: Compositional matrix adjust.
Identities = 106/353 (30%), Positives = 167/353 (47%), Gaps = 38/353 (10%)
Query: 9 YTRPTSIQAQAMPVALSG--RDLLGCAETGSGKTAAFTIPMIQHCVAQTPVGRGDGPLAL 66
+ RP+ IQ A+P+ L+ ++L+ +++G+GKTAAF + M+ P + P L
Sbjct: 112 FNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVLAMLSQV---EPANKY--PQCL 166
Query: 67 VLAPTRELAQQIEKEVKALSRSLDSFKTAIVVGGTNIAEQRSELRGGVSIVVATPGRFLD 126
L+PT ELA Q K ++ + + K A V G + +R + + IV+ TPG LD
Sbjct: 167 CLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKL--ERGQ-KISEQIVIGTPGTVLD 223
Query: 127 HLQQGN-TSLSRVSFVILDEADRML-DMGFEPQIREVMQNLPDKHQTLLFSATMPVEIEA 184
+ ++ +LDEAD M+ G + Q + + LP Q LLFSAT +
Sbjct: 224 WCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRMLPRNCQMLLFSATFEDSVWK 283
Query: 185 LAQEYLTDPVQVKVGKVSSPTANVIQILEKVSENEKVDRXXXXXXXXXXXXXKSCHPF-P 243
AQ+ + DP NVI++ + + + + C+ +
Sbjct: 284 FAQKVVPDP-------------NVIKLKREEETLDTIKQYYVLCSSRDEKFQALCNLYGA 330
Query: 244 LTI----VFVERKTRCDEVSEALVAEGLHAVALHGGRNQSDRESA-LRDFRNGSTNILVA 298
+TI +F + ++ L EG H VAL G ++ +A + FR G +LV
Sbjct: 331 ITIAQAMIFCHTRKTASWLAAELSKEG-HQVALLSGEMMVEQRAAVIERFREGKEKVLVT 389
Query: 299 TDVASRGLDVMGVAHVVNLDLP------KTVEDYVHRIGRTGRGGSMGQATSF 345
T+V +RG+DV V+ V+N DLP E Y+HRIGRTGR G G A +
Sbjct: 390 TNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRTGRFGKRGLAVNM 442
>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 = 132 bits (333), Expect = 3e-31, Method: Compositional matrix adjust.
Identities = 107/354 (30%), Positives = 167/354 (47%), Gaps = 42/354 (11%)
Query: 9 YTRPTSIQAQAMPVALSG--RDLLGCAETGSGKTAAFTIPMIQHCVAQTPVGRGDGPLAL 66
+ RP+ IQ A+P+ L+ ++L+ +++G+GKTAAF + M+ P + P L
Sbjct: 82 FNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVLAMLSQV---EPANKY--PQCL 136
Query: 67 VLAPTRELAQQIEKEVKALSRSLDSFKTAIVVGGTNI--AEQRSELRGGVSIVVATPGRF 124
L+PT ELA Q K ++ + + K A V G + ++ SE IV+ TPG
Sbjct: 137 CLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLERGQKISE-----QIVIGTPGTV 191
Query: 125 LDHLQQGN-TSLSRVSFVILDEADRML-DMGFEPQIREVMQNLPDKHQTLLFSATMPVEI 182
LD + ++ +LDEAD M+ G + Q + + LP Q LLFSAT +
Sbjct: 192 LDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRMLPRNCQMLLFSATFEDSV 251
Query: 183 EALAQEYLTDPVQVKVGKVSSPTANVIQILEKVSENEKVDRXXXXXXXXXXXXXKSCHPF 242
AQ+ + DP NVI++ + + + + C+ +
Sbjct: 252 WKFAQKVVPDP-------------NVIKLKREEETLDTIKQYYVLCSSRDEKFQALCNLY 298
Query: 243 -PLTI----VFVERKTRCDEVSEALVAEGLHAVALHGGRNQSDRESA-LRDFRNGSTNIL 296
+TI +F + ++ L EG H VAL G ++ +A + FR G +L
Sbjct: 299 GAITIAQAMIFCHTRKTASWLAAELSKEG-HQVALLSGEMMVEQRAAVIERFREGKEKVL 357
Query: 297 VATDVASRGLDVMGVAHVVNLDLP------KTVEDYVHRIGRTGRGGSMGQATS 344
V T+V +RG+DV V+ V+N DLP E Y+HRIGRTGR G G A +
Sbjct: 358 VTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRTGRFGKRGLAVN 411
>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 = 132 bits (333), Expect = 3e-31, Method: Compositional matrix adjust.
Identities = 107/354 (30%), Positives = 167/354 (47%), Gaps = 42/354 (11%)
Query: 9 YTRPTSIQAQAMPVALS--GRDLLGCAETGSGKTAAFTIPMIQHCVAQTPVGRGDGPLAL 66
+ RP+ IQ A+P+ L+ ++L+ +++G+GKTAAF + M+ P + P L
Sbjct: 45 FNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVLAMLSQV---EPANKY--PQCL 99
Query: 67 VLAPTRELAQQIEKEVKALSRSLDSFKTAIVVGGTNI--AEQRSELRGGVSIVVATPGRF 124
L+PT ELA Q K ++ + + K A V G + ++ SE IV+ TPG
Sbjct: 100 CLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLERGQKISE-----QIVIGTPGTV 154
Query: 125 LDHLQQGN-TSLSRVSFVILDEADRML-DMGFEPQIREVMQNLPDKHQTLLFSATMPVEI 182
LD + ++ +LDEAD M+ G + Q + + LP Q LLFSAT +
Sbjct: 155 LDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRMLPRNCQMLLFSATFEDSV 214
Query: 183 EALAQEYLTDPVQVKVGKVSSPTANVIQILEKVSENEKVDRXXXXXXXXXXXXXKSCHPF 242
AQ+ + DP NVI++ + + + + C+ +
Sbjct: 215 WKFAQKVVPDP-------------NVIKLKREEETLDTIKQYYVLCSSRDEKFQALCNLY 261
Query: 243 -PLTI----VFVERKTRCDEVSEALVAEGLHAVALHGGRNQSDRESA-LRDFRNGSTNIL 296
+TI +F + ++ L EG H VAL G ++ +A + FR G +L
Sbjct: 262 GAITIAQAMIFCHTRKTASWLAAELSKEG-HQVALLSGEMMVEQRAAVIERFREGKEKVL 320
Query: 297 VATDVASRGLDVMGVAHVVNLDLP------KTVEDYVHRIGRTGRGGSMGQATS 344
V T+V +RG+DV V+ V+N DLP E Y+HRIGRTGR G G A +
Sbjct: 321 VTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRTGRFGKRGLAVN 374
>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 = 132 bits (333), Expect = 3e-31, Method: Compositional matrix adjust.
Identities = 64/188 (34%), Positives = 110/188 (58%), Gaps = 5/188 (2%)
Query: 9 YTRPTSIQAQAMPVALSGRDLLGCAETGSGKTAAFTIPMIQHCVAQTPVGRGDGPLALVL 68
+ +P+ IQ +++P+ALSGRD+L A+ G+GK+ A+ IP+++ + D A+V+
Sbjct: 23 WEKPSPIQEESIPIALSGRDILARAKNGTGKSGAYLIPLLERLDL-----KKDNIQAMVI 77
Query: 69 APTRELAQQIEKEVKALSRSLDSFKTAIVVGGTNIAEQRSELRGGVSIVVATPGRFLDHL 128
PTRELA Q+ + +S+ + K GGTN+ + L V +V+ATPGR LD +
Sbjct: 78 VPTRELALQVSQICIQVSKHMGGAKVMATTGGTNLRDDIMRLDDTVHVVIATPGRILDLI 137
Query: 129 QQGNTSLSRVSFVILDEADRMLDMGFEPQIREVMQNLPDKHQTLLFSATMPVEIEALAQE 188
++G + V ++LDEAD++L F + +++ LP Q LL+SAT P+ ++
Sbjct: 138 KKGVAKVDHVQMIVLDEADKLLSQDFVQIMEDIILTLPKNRQILLYSATFPLSVQKFMNS 197
Query: 189 YLTDPVQV 196
+L P ++
Sbjct: 198 HLEKPYEI 205
>pdb|3G0H|A Chain A, Human Dead-box Rna Helicase Ddx19, In Complex With An
Atp-analogue And Rna
Length = 424
Score = 132 bits (333), Expect = 3e-31, Method: Compositional matrix adjust.
Identities = 106/353 (30%), Positives = 167/353 (47%), Gaps = 38/353 (10%)
Query: 9 YTRPTSIQAQAMPVALS--GRDLLGCAETGSGKTAAFTIPMIQHCVAQTPVGRGDGPLAL 66
+ RP+ IQ A+P+ L+ ++L+ +++G+GKTAAF + M+ P + P L
Sbjct: 61 FNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVLAMLSQV---EPANKY--PQCL 115
Query: 67 VLAPTRELAQQIEKEVKALSRSLDSFKTAIVVGGTNIAEQRSELRGGVSIVVATPGRFLD 126
L+PT ELA Q K ++ + + K A V G + +R + + IV+ TPG LD
Sbjct: 116 CLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKL--ERGQ-KISEQIVIGTPGTVLD 172
Query: 127 HLQQGN-TSLSRVSFVILDEADRML-DMGFEPQIREVMQNLPDKHQTLLFSATMPVEIEA 184
+ ++ +LDEAD M+ G + Q + + LP Q LLFSAT +
Sbjct: 173 WCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRMLPRNCQMLLFSATFEDSVWK 232
Query: 185 LAQEYLTDPVQVKVGKVSSPTANVIQILEKVSENEKVDRXXXXXXXXXXXXXKSCHPF-P 243
AQ+ + DP NVI++ + + + + C+ +
Sbjct: 233 FAQKVVPDP-------------NVIKLKREEETLDTIKQYYVLCSSRDEKFQALCNLYGA 279
Query: 244 LTI----VFVERKTRCDEVSEALVAEGLHAVALHGGRNQSDRESA-LRDFRNGSTNILVA 298
+TI +F + ++ L EG H VAL G ++ +A + FR G +LV
Sbjct: 280 ITIAQAMIFCHTRKTASWLAAELSKEG-HQVALLSGEMMVEQRAAVIERFREGKEKVLVT 338
Query: 299 TDVASRGLDVMGVAHVVNLDLP------KTVEDYVHRIGRTGRGGSMGQATSF 345
T+V +RG+DV V+ V+N DLP E Y+HRIGRTGR G G A +
Sbjct: 339 TNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRTGRFGKRGLAVNM 391
>pdb|3BOR|A Chain A, Crystal Structure Of The Deadc Domain Of Human Translation
Initiation Factor 4a-2
Length = 237
Score = 130 bits (327), Expect = 2e-30, Method: Compositional matrix adjust.
Identities = 74/201 (36%), Positives = 118/201 (58%), Gaps = 7/201 (3%)
Query: 1 MKDIEFHEYTRPTSIQAQAMPVALSGRDLLGCAETGSGKTAAFTIPMIQHCVAQTPVGRG 60
++ I + + +P++IQ +A+ + G D++ A++G+GKTA F I ++Q + +
Sbjct: 42 LRGIYAYGFEKPSAIQQRAIIPCIKGYDVIAQAQSGTGKTATFAISILQQLEIEFKETQ- 100
Query: 61 DGPLALVLAPTRELAQQIEKEVKALSRSLDSFKTAIVVGGTNIAEQRSELRG-GVSIVVA 119
ALVLAPTRELAQQI+K + AL + + A +GGTN+ + +L+ IVV
Sbjct: 101 ----ALVLAPTRELAQQIQKVILALGDYMGATCHA-CIGGTNVRNEMQKLQAEAPHIVVG 155
Query: 120 TPGRFLDHLQQGNTSLSRVSFVILDEADRMLDMGFEPQIREVMQNLPDKHQTLLFSATMP 179
TPGR D L + S + +LDEAD ML GF+ QI E+ Q L Q +L SATMP
Sbjct: 156 TPGRVFDMLNRRYLSPKWIKMFVLDEADEMLSRGFKDQIYEIFQKLNTSIQVVLLSATMP 215
Query: 180 VEIEALAQEYLTDPVQVKVGK 200
++ + ++++ DP+++ V K
Sbjct: 216 TDVLEVTKKFMRDPIRILVKK 236
>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 = 130 bits (326), Expect = 2e-30, Method: Compositional matrix adjust.
Identities = 61/122 (50%), Positives = 85/122 (69%)
Query: 244 LTIVFVERKTRCDEVSEALVAEGLHAVALHGGRNQSDRESALRDFRNGSTNILVATDVAS 303
LT+VFVE K D + + L EG ++HG R+Q DRE AL FR+G + ILVAT VA+
Sbjct: 48 LTLVFVETKKGADSLEDFLYHEGYACTSIHGDRSQRDREEALHQFRSGKSPILVATAVAA 107
Query: 304 RGLDVMGVAHVVNLDLPKTVEDYVHRIGRTGRGGSMGQATSFYTDRDMLLVAQIKKAIVD 363
RGLD+ V HV+N DLP +E+YVHRIGRTGR G++G ATSF+ +R++ + + +V+
Sbjct: 108 RGLDISNVKHVINFDLPSDIEEYVHRIGRTGRVGNLGLATSFFNERNINITKDLLDLLVE 167
Query: 364 AE 365
A+
Sbjct: 168 AK 169
>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 = 129 bits (323), Expect = 4e-30, Method: Compositional matrix adjust.
Identities = 76/194 (39%), Positives = 113/194 (58%), Gaps = 7/194 (3%)
Query: 7 HEYTRPTSIQAQAMPVALSGRDLLGCAETGSGKTAAFTIPMIQHCVAQTPVGRGDGPLAL 66
+ + P++IQ +A+ + G D+L A++G+GKT F+I +Q T V P AL
Sbjct: 32 YGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAALQRI--DTSV---KAPQAL 86
Query: 67 VLAPTRELAQQIEKEVKALSRSLDSFKTAIVVGGTNIAEQRSELRGGVSIVVATPGRFLD 126
+LAPTRELA QI+K V AL+ +D K +GGT+ E LR IVV TPGR D
Sbjct: 87 MLAPTRELALQIQKVVMALAFHMD-IKVHACIGGTSFVEDAEGLRDA-QIVVGTPGRVFD 144
Query: 127 HLQQGNTSLSRVSFVILDEADRMLDMGFEPQIREVMQNLPDKHQTLLFSATMPVEIEALA 186
++Q+ ++ ILDEAD ML GF+ QI ++ LP Q +L SATMP ++ +
Sbjct: 145 NIQRRRFRTDKIKMFILDEADEMLSSGFKEQIYQIFTLLPPTTQVVLLSATMPNDVLEVT 204
Query: 187 QEYLTDPVQVKVGK 200
+++ +PV++ V K
Sbjct: 205 TKFMRNPVRILVKK 218
>pdb|1QVA|A Chain A, Yeast Initiation Factor 4a N-Terminal Domain
Length = 223
Score = 127 bits (319), Expect = 1e-29, Method: Compositional matrix adjust.
Identities = 75/192 (39%), Positives = 112/192 (58%), Gaps = 7/192 (3%)
Query: 7 HEYTRPTSIQAQAMPVALSGRDLLGCAETGSGKTAAFTIPMIQHCVAQTPVGRGDGPLAL 66
+ + P++IQ +A+ + G D+L A++G+GKT F+I +Q T V P AL
Sbjct: 39 YGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAALQRI--DTSV---KAPQAL 93
Query: 67 VLAPTRELAQQIEKEVKALSRSLDSFKTAIVVGGTNIAEQRSELRGGVSIVVATPGRFLD 126
+LAPTRELA QI+K V AL+ +D K +GGT+ E LR IVV TPGR D
Sbjct: 94 MLAPTRELALQIQKVVMALAFHMD-IKVHACIGGTSFVEDAEGLRDA-QIVVGTPGRVFD 151
Query: 127 HLQQGNTSLSRVSFVILDEADRMLDMGFEPQIREVMQNLPDKHQTLLFSATMPVEIEALA 186
++Q+ ++ ILDEAD ML GF+ QI ++ LP Q +L SATMP ++ +
Sbjct: 152 NIQRRRFRTDKIKMFILDEADEMLSSGFKEQIYQIFTLLPPTTQVVLLSATMPNDVLEVT 211
Query: 187 QEYLTDPVQVKV 198
+++ +PV++ V
Sbjct: 212 TKFMRNPVRILV 223
>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 = 119 bits (299), Expect = 2e-27, Method: Compositional matrix adjust.
Identities = 51/103 (49%), Positives = 74/103 (71%)
Query: 243 PLTIVFVERKTRCDEVSEALVAEGLHAVALHGGRNQSDRESALRDFRNGSTNILVATDVA 302
P ++F E+K D + E L+ +G+ AVA+HGG++Q +R A+ FR G ++LVATDVA
Sbjct: 55 PPVLIFAEKKADVDAIHEYLLLKGVEAVAIHGGKDQEERTKAIEAFREGKKDVLVATDVA 114
Query: 303 SRGLDVMGVAHVVNLDLPKTVEDYVHRIGRTGRGGSMGQATSF 345
S+GLD + HV+N D+P+ +E+YVHRIGRTG G+ G AT+F
Sbjct: 115 SKGLDFPAIQHVINYDMPEEIENYVHRIGRTGCSGNTGIATTF 157
>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 = 116 bits (290), Expect = 3e-26, Method: Compositional matrix adjust.
Identities = 71/199 (35%), Positives = 109/199 (54%), Gaps = 7/199 (3%)
Query: 1 MKDIEFHEYTRPTSIQAQAMPVALSGRDLLGCAETGSGKTAAFTIPMIQHCVAQTPVGRG 60
++ I + + P++IQ +A+ + G D++ A++G+G TA F I ++Q +
Sbjct: 27 LRGIYAYGFEXPSAIQQRAILPCIXGYDVIAQAQSGTGXTATFAISILQQIELDLXATQ- 85
Query: 61 DGPLALVLAPTRELAQQIEKEVKALSRSLDSFKTAIVVGGTNI-AEQRSELRGGVSIVVA 119
ALVLAPTRELAQQI+ V AL + + A +GGTN+ AE + I+V
Sbjct: 86 ----ALVLAPTRELAQQIQXVVMALGDYMGASCHA-CIGGTNVRAEVQXLQMEAPHIIVG 140
Query: 120 TPGRFLDHLQQGNTSLSRVSFVILDEADRMLDMGFEPQIREVMQNLPDKHQTLLFSATMP 179
TPGR D L + S + +LDEAD ML GF QI ++ Q L Q +L SATMP
Sbjct: 141 TPGRVFDMLNRRYLSPXYIXMFVLDEADEMLSRGFXDQIYDIFQXLNSNTQVVLLSATMP 200
Query: 180 VEIEALAQEYLTDPVQVKV 198
++ + ++ DP+++ V
Sbjct: 201 SDVLEVTXXFMRDPIRILV 219
>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 = 109 bits (272), Expect = 3e-24, Method: Compositional matrix adjust.
Identities = 64/193 (33%), Positives = 109/193 (56%), Gaps = 9/193 (4%)
Query: 9 YTRPTSIQAQAMPVALSGRDLLGCAETGSGKTAAFTIPMIQHCVAQTPVGRGDGPLA-LV 67
+ P+ +Q + +P A+ G D+L A++G GKTA F + +Q PV G ++ LV
Sbjct: 34 FEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQL---EPV---TGQVSVLV 87
Query: 68 LAPTRELAQQIEKEVKALSRSLDSFKTAIVVGGTNIAEQRSELRGGV-SIVVATPGRFLD 126
+ TRELA QI KE + S+ + + K A+ GG +I + L+ IVV TPGR L
Sbjct: 88 MCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEVLKKNCPHIVVGTPGRILA 147
Query: 127 HLQQGNTSLSRVSFVILDEADRMLD-MGFEPQIREVMQNLPDKHQTLLFSATMPVEIEAL 185
+ + +L + ILDE D+ML+ + ++E+ + P + Q ++FSAT+ EI +
Sbjct: 148 LARNKSLNLKHIKHFILDECDKMLEQLDMRRDVQEIFRMTPHEKQVMMFSATLSKEIRPV 207
Query: 186 AQEYLTDPVQVKV 198
++++ DP+++ V
Sbjct: 208 CRKFMQDPMEIFV 220
>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 = 101 bits (251), Expect = 1e-21, Method: Compositional matrix adjust.
Identities = 62/196 (31%), Positives = 106/196 (54%), Gaps = 17/196 (8%)
Query: 9 YTRPTSIQAQAMPVALSGRDLLGCAETGSGKTAAFTIPMIQHCVAQTPVGRGDGPLALVL 68
+ RP+ +Q +A+P+ G DL+ A++G+GKT F+ + V + + L+L
Sbjct: 44 FERPSPVQLKAIPLGRCGLDLIVQAKSGTGKTCVFSTIALDSLVLENLSTQ-----ILIL 98
Query: 69 APTRELAQQIEKEVKALSRSLDSFKTAIVVGGTNIAEQRSELRGGVSIVVATPGRF---- 124
APTRE+A QI + A+ ++ + + +GGT +++ ++ L+ I V +PGR
Sbjct: 99 APTREIAVQIHSVITAIGIKMEGLECHVFIGGTPLSQDKTRLK-KCHIAVGSPGRIKQLI 157
Query: 125 -LDHLQQGNTSLSRVSFVILDEADRMLDMG-FEPQIREVMQNLPDKHQTLLFSATMPVEI 182
LD+L G+ + ILDEAD++L+ G F+ QI + +LP Q L SAT P +
Sbjct: 158 ELDYLNPGS-----IRLFILDEADKLLEEGSFQEQINWIYSSLPASKQMLAVSATYPEFL 212
Query: 183 EALAQEYLTDPVQVKV 198
+Y+ DP V++
Sbjct: 213 ANALTKYMRDPTFVRL 228
>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 = 98.6 bits (244), Expect = 5e-21, Method: Compositional matrix adjust.
Identities = 59/193 (30%), Positives = 104/193 (53%), Gaps = 8/193 (4%)
Query: 9 YTRPTSIQAQAMPVALSGRDLLGCAETGSGKTAAFTIPMIQHCVAQTPVGRGDGPLALVL 68
+ +PT IQ + +P AL G +G ++TG+GKT A+ +P+ + + R + A++
Sbjct: 24 FYKPTEIQERIIPGALRGESXVGQSQTGTGKTHAYLLPIXEKIKPE----RAEV-QAVIT 78
Query: 69 APTRELAQQIEKEVKALSRSLDSFKTAI---VVGGTNIAEQRSELRGGVSIVVATPGRFL 125
APTRELA QI E +++ + + ++GGT+ + +L IV+ TPGR
Sbjct: 79 APTRELATQIYHETLKITKFCPKDRXIVARCLIGGTDKQKALEKLNVQPHIVIGTPGRIN 138
Query: 126 DHLQQGNTSLSRVSFVILDEADRMLDMGFEPQIREVMQNLPDKHQTLLFSATMPVEIEAL 185
D +++ + +++DEAD LD GF + ++ P Q L+FSAT+P +++
Sbjct: 139 DFIREQALDVHTAHILVVDEADLXLDXGFITDVDQIAARXPKDLQXLVFSATIPEKLKPF 198
Query: 186 AQEYLTDPVQVKV 198
++Y +P V V
Sbjct: 199 LKKYXENPTFVHV 211
>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 = 97.1 bits (240), Expect = 2e-20, Method: Compositional matrix adjust.
Identities = 47/117 (40%), Positives = 70/117 (59%)
Query: 245 TIVFVERKTRCDEVSEALVAEGLHAVALHGGRNQSDRESALRDFRNGSTNILVATDVASR 304
+IVFV ++ R E++ L G++ L G Q R A++ G N+LVATDVA+R
Sbjct: 33 SIVFVRKRERVHELANWLREAGINNCYLEGEMVQGKRNEAIKRLTEGRVNVLVATDVAAR 92
Query: 305 GLDVMGVAHVVNLDLPKTVEDYVHRIGRTGRGGSMGQATSFYTDRDMLLVAQIKKAI 361
G+D+ V+HV N D+P++ + Y+HRIGRT R G G A S D LL+ ++ + I
Sbjct: 93 GIDIPDVSHVFNFDMPRSGDTYLHRIGRTARAGRKGTAISLVEAHDHLLLGKVGRYI 149
>pdb|3DKP|A Chain A, Human Dead-Box Rna-Helicase Ddx52, Conserved Domain I In
Complex With Adp
Length = 245
Score = 95.5 bits (236), Expect = 5e-20, Method: Compositional matrix adjust.
Identities = 66/205 (32%), Positives = 109/205 (53%), Gaps = 18/205 (8%)
Query: 9 YTRPTSIQAQAMPVALSGRDLLGCAETGSGKTAAFTIPMIQHCVAQTPVGRGDGPLALVL 68
+ PT IQ QA+PV L GR+LL A TGSGKT AF+IP++ + P +G AL++
Sbjct: 49 FQMPTPIQMQAIPVMLHGRELLASAPTGSGKTLAFSIPILMQL--KQPANKGFR--ALII 104
Query: 69 APTRELAQQIEKEVKALSRSLDSFKTAIV----VGGTNIAEQRSELRGGVSIVVATPGRF 124
+PTRELA QI +E+ +S F+ ++ V + S+ I+V TP R
Sbjct: 105 SPTRELASQIHRELIKISEG-TGFRIHMIHKAAVAAKKFGPKSSK---KFDILVTTPNRL 160
Query: 125 LDHLQQG--NTSLSRVSFVILDEADRMLD---MGFEPQIREV-MQNLPDKHQTLLFSATM 178
+ L+Q L+ V ++++DE+D++ + GF Q+ + + K + +FSAT
Sbjct: 161 IYLLKQDPPGIDLASVEWLVVDESDKLFEDGKTGFRDQLASIFLACTSHKVRRAMFSATF 220
Query: 179 PVEIEALAQEYLTDPVQVKVGKVSS 203
++E + L + + V +G +S
Sbjct: 221 AYDVEQWCKLNLDNVISVSIGARNS 245
>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 = 94.7 bits (234), Expect = 9e-20, Method: Compositional matrix adjust.
Identities = 47/116 (40%), Positives = 69/116 (59%)
Query: 246 IVFVERKTRCDEVSEALVAEGLHAVALHGGRNQSDRESALRDFRNGSTNILVATDVASRG 305
I+F K +++++ L G +HGG Q DR + +F+ G LVATDVA+RG
Sbjct: 39 IIFCRTKEHVNQLTDELDDLGYPCDKIHGGMIQEDRFDVMNEFKRGEYRYLVATDVAARG 98
Query: 306 LDVMGVAHVVNLDLPKTVEDYVHRIGRTGRGGSMGQATSFYTDRDMLLVAQIKKAI 361
+D+ ++ V+N DLP E YVHR GRTGR G+ G+A SF T + +A I++ I
Sbjct: 99 IDIENISLVINYDLPLEKESYVHRTGRTGRAGNKGKAISFVTAFEKRFLADIEEYI 154
>pdb|2KBE|A Chain A, Solution Structure Of Amino-Terminal Domain Of Dbp5p
Length = 226
Score = 85.9 bits (211), Expect = 4e-17, Method: Compositional matrix adjust.
Identities = 60/182 (32%), Positives = 101/182 (55%), Gaps = 15/182 (8%)
Query: 1 MKDIEFHEYTRPTSIQAQAMPVALSG--RDLLGCAETGSGKTAAFTIPMIQHCVAQTPVG 58
+K I ++ +P+ IQ +A+P+ L R+++ +++G+GKTAAF++ M+ T V
Sbjct: 34 LKGIYAMKFQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAAFSLTML------TRVN 87
Query: 59 RGDG-PLALVLAPTRELAQQIEKEVKALSRSLDSFKTAIVVGGTNIAEQRSELRGGVSIV 117
D P A+ LAP+RELA+Q + V+ + + + ++V + E+ ++ V +
Sbjct: 88 PEDASPQAICLAPSRELARQTLEVVQEMGK-FTKITSQLIVPDS--FEKNKQINAQV--I 142
Query: 118 VATPGRFLDHLQQGNTSLSRVSFVILDEADRMLD-MGFEPQIREVMQNLPDKHQTLLFSA 176
V TPG LD +++ L ++ +LDEAD MLD G Q V + LP Q +LFSA
Sbjct: 143 VGTPGTVLDLMRRKLMQLQKIKIFVLDEADNMLDQQGLGDQCIRVKRFLPKDTQLVLFSA 202
Query: 177 TM 178
T
Sbjct: 203 TF 204
>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 = 85.9 bits (211), Expect = 4e-17, Method: Compositional matrix adjust.
Identities = 40/117 (34%), Positives = 61/117 (52%)
Query: 245 TIVFVERKTRCDEVSEALVAEGLHAVALHGGRNQSDRESALRDFRNGSTNILVATDVASR 304
+I+F R + +++ + G +H Q R DFRNG LV TD+ +R
Sbjct: 47 SIIFCNSSQRVELLAKKISQLGYSCFYIHAKMRQEHRNRVFHDFRNGLCRNLVCTDLFTR 106
Query: 305 GLDVMGVAHVVNLDLPKTVEDYVHRIGRTGRGGSMGQATSFYTDRDMLLVAQIKKAI 361
G+D+ V V+N D PK E Y+HRIGR+GR G +G A + T D + I++ +
Sbjct: 107 GIDIQAVNVVINFDFPKLAETYLHRIGRSGRFGHLGLAINLITYDDRFNLKSIEEQL 163
>pdb|3FMO|B Chain B, Crystal Structure Of The Nucleoporin Nup214 In Complex
With The Dead- Box Helicase Ddx19
Length = 300
Score = 85.5 bits (210), Expect = 5e-17, Method: Compositional matrix adjust.
Identities = 61/196 (31%), Positives = 100/196 (51%), Gaps = 12/196 (6%)
Query: 9 YTRPTSIQAQAMPVALS--GRDLLGCAETGSGKTAAFTIPMIQHCVAQTPVGRGDGPLAL 66
+ RP+ IQ A+P+ L+ ++L+ +++G+GKTAAF + M+ P + P L
Sbjct: 112 FNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVLAMLSQV---EPANKY--PQCL 166
Query: 67 VLAPTRELAQQIEKEVKALSRSLDSFKTAIVVGGTNIAEQRSELRGGVSIVVATPGRFLD 126
L+PT ELA Q K ++ + + K A V G + +R + + IV+ TPG LD
Sbjct: 167 CLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKL--ERGQ-KISEQIVIGTPGTVLD 223
Query: 127 HLQQGN-TSLSRVSFVILDEADRML-DMGFEPQIREVMQNLPDKHQTLLFSATMPVEIEA 184
+ ++ +LDEAD M+ G + Q + + LP Q LLFSAT +
Sbjct: 224 WCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRMLPRNCQMLLFSATFEDSVWK 283
Query: 185 LAQEYLTDPVQVKVGK 200
AQ+ + DP +K+ +
Sbjct: 284 FAQKVVPDPNVIKLKR 299
>pdb|3FHC|B Chain B, Crystal Structure Of Human Dbp5 In Complex With Nup214
Length = 235
Score = 84.3 bits (207), Expect = 1e-16, Method: Compositional matrix adjust.
Identities = 61/196 (31%), Positives = 100/196 (51%), Gaps = 12/196 (6%)
Query: 9 YTRPTSIQAQAMPVALS--GRDLLGCAETGSGKTAAFTIPMIQHCVAQTPVGRGDGPLAL 66
+ RP+ IQ A+P+ L+ ++L+ +++G+GKTAAF + M+ P + P L
Sbjct: 45 FNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVLAMLSQV---EPANKY--PQCL 99
Query: 67 VLAPTRELAQQIEKEVKALSRSLDSFKTAIVVGGTNIAEQRSELRGGVSIVVATPGRFLD 126
L+PT ELA Q K ++ + + K A V G + +R + + IV+ TPG LD
Sbjct: 100 CLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKL--ERGQ-KISEQIVIGTPGTVLD 156
Query: 127 HLQQGN-TSLSRVSFVILDEADRML-DMGFEPQIREVMQNLPDKHQTLLFSATMPVEIEA 184
+ ++ +LDEAD M+ G + Q + + LP Q LLFSAT +
Sbjct: 157 WCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRMLPRNCQMLLFSATFEDSVWK 216
Query: 185 LAQEYLTDPVQVKVGK 200
AQ+ + DP +K+ +
Sbjct: 217 FAQKVVPDPNVIKLKR 232
>pdb|2KBF|A Chain A, Solution Structure Of Carboxyl-Terminal Domain Of Dbp5p
Length = 187
Score = 82.8 bits (203), Expect = 3e-16, Method: Compositional matrix adjust.
Identities = 47/128 (36%), Positives = 70/128 (54%), Gaps = 7/128 (5%)
Query: 245 TIVFVERKTRCDEVSEALVAEGLHAVALHGGRNQSDRESALRDFRNGSTNILVATDVASR 304
+I+FV K + + L +EG LHG +R+ + DFR G + +L+ T+V +R
Sbjct: 38 SIIFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDDFREGRSKVLITTNVLAR 97
Query: 305 GLDVMGVAHVVNLDLPKTVE------DYVHRIGRTGRGGSMGQATSFYTDRDML-LVAQI 357
G+D+ V+ VVN DLP Y+HRIGRTGR G G A SF D++ +++ I
Sbjct: 98 GIDIPTVSMVVNYDLPTLANGQADPATYIHRIGRTGRFGRKGVAISFVHDKNSFNILSAI 157
Query: 358 KKAIVDAE 365
+K D E
Sbjct: 158 QKYFGDIE 165
>pdb|3GFP|A Chain A, Structure Of The C-Terminal Domain Of The Dead-Box Protein
Dbp5
Length = 189
Score = 82.8 bits (203), Expect = 4e-16, Method: Compositional matrix adjust.
Identities = 47/128 (36%), Positives = 70/128 (54%), Gaps = 7/128 (5%)
Query: 245 TIVFVERKTRCDEVSEALVAEGLHAVALHGGRNQSDRESALRDFRNGSTNILVATDVASR 304
+I+FV K + + L +EG LHG +R+ + DFR G + +L+ T+V +R
Sbjct: 40 SIIFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDDFREGRSKVLITTNVLAR 99
Query: 305 GLDVMGVAHVVNLDLPKTVE------DYVHRIGRTGRGGSMGQATSFYTDRDML-LVAQI 357
G+D+ V+ VVN DLP Y+HRIGRTGR G G A SF D++ +++ I
Sbjct: 100 GIDIPTVSXVVNYDLPTLANGQADPATYIHRIGRTGRFGRKGVAISFVHDKNSFNILSAI 159
Query: 358 KKAIVDAE 365
+K D E
Sbjct: 160 QKYFGDIE 167
>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 = 82.4 bits (202), Expect = 4e-16, Method: Compositional matrix adjust.
Identities = 47/128 (36%), Positives = 70/128 (54%), Gaps = 7/128 (5%)
Query: 245 TIVFVERKTRCDEVSEALVAEGLHAVALHGGRNQSDRESALRDFRNGSTNILVATDVASR 304
+I+FV K + + L +EG LHG +R+ + DFR G + +L+ T+V +R
Sbjct: 39 SIIFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDDFREGRSKVLITTNVLAR 98
Query: 305 GLDVMGVAHVVNLDLPKTVE------DYVHRIGRTGRGGSMGQATSFYTDRDML-LVAQI 357
G+D+ V+ VVN DLP Y+HRIGRTGR G G A SF D++ +++ I
Sbjct: 99 GIDIPTVSXVVNYDLPTLANGQADPATYIHRIGRTGRFGRKGVAISFVHDKNSFNILSAI 158
Query: 358 KKAIVDAE 365
+K D E
Sbjct: 159 QKYFGDIE 166
>pdb|1T5I|A Chain A, Crystal Structure Of The C-Terminal Domain Of Uap56
Length = 172
Score = 81.6 bits (200), Expect = 8e-16, Method: Compositional matrix adjust.
Identities = 38/109 (34%), Positives = 64/109 (58%)
Query: 242 FPLTIVFVERKTRCDEVSEALVAEGLHAVALHGGRNQSDRESALRDFRNGSTNILVATDV 301
F ++FV+ RC +++ LV + A+A+H G Q +R S + F++ ILVAT++
Sbjct: 31 FNQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRILVATNL 90
Query: 302 ASRGLDVMGVAHVVNLDLPKTVEDYVHRIGRTGRGGSMGQATSFYTDRD 350
RG+D+ V N D+P+ + Y+HR+ R GR G+ G A +F +D +
Sbjct: 91 FGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKGLAITFVSDEN 139
>pdb|1OYY|A Chain A, Structure Of The Recq Catalytic Core Bound To Atp-Gamma-S
Length = 523
Score = 75.9 bits (185), Expect = 4e-14, Method: Compositional matrix adjust.
Identities = 86/369 (23%), Positives = 150/369 (40%), Gaps = 57/369 (15%)
Query: 16 QAQAMPVALSGRDLLGCAETGSGKTAAFTIPMIQHCVAQTPVGRGDGPLALVLAPTRELA 75
Q + + LSGRD L TG GK+ + IP + + G L +V++P L
Sbjct: 30 QEEIIDTVLSGRDCLVVMPTGGGKSLCYQIPAL--------LLNG---LTVVVSPLISLM 78
Query: 76 QQIEKEVKALSRSLDSFKTAIVVGGTNIAEQRSELRGG-----VSIVVATPGR-----FL 125
+ +++A + A + T EQ+ E+ G + ++ P R FL
Sbjct: 79 KDQVDQLQA------NGVAAACLNSTQTREQQLEVMTGCRTGQIRLLYIAPERLMLDNFL 132
Query: 126 DHLQQGNTSLSRVSFVILDEADRMLDMG--FEPQIREVMQNLPDKHQTLLFSATMPVEIE 183
+HL N L + +DEA + G F P+ + Q L + TL F A +
Sbjct: 133 EHLAHWNPVL-----LAVDEAHCISQWGHDFRPEYAALGQ-LRQRFPTLPFMALTATADD 186
Query: 184 ALAQEY-----LTDPVQVKVGKVSSPTANVIQILEKVSENEKVDRXXXXXXXXXXXXXKS 238
Q+ L DP+ +++ P + ++EK +++ R
Sbjct: 187 TTRQDIVRLLGLNDPL-IQISSFDRPNIRYM-LMEKFKPLDQLMRYVQEQRGKS------ 238
Query: 239 CHPFPLTIVFVERKTRCDEVSEALVAEGLHAVALHGGRNQSDRESALRDFRNGSTNILVA 298
I++ + + ++ + L ++G+ A A H G + R F+ I+VA
Sbjct: 239 ------GIIYCNSRAKVEDTAARLQSKGISAAAYHAGLENNVRADVQEKFQRDDLQIVVA 292
Query: 299 TDVASRGLDVMGVAHVVNLDLPKTVEDYVHRIGRTGRGGSMGQATSFYTDRDMLLVAQIK 358
T G++ V VV+ D+P+ +E Y GR GR G +A FY DM A ++
Sbjct: 293 TVAFGMGINKPNVRFVVHFDIPRNIESYYQETGRAGRDGLPAEAMLFYDPADM---AWLR 349
Query: 359 KAIVDAESG 367
+ + + G
Sbjct: 350 RCLEEKPQG 358
>pdb|1OYW|A Chain A, Structure Of The Recq Catalytic Core
Length = 523
Score = 73.6 bits (179), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 85/369 (23%), Positives = 147/369 (39%), Gaps = 57/369 (15%)
Query: 16 QAQAMPVALSGRDLLGCAETGSGKTAAFTIPMIQHCVAQTPVGRGDGPLALVLAPTRELA 75
Q + + LSGRD L TG GK+ + IP + + G L +V++P L
Sbjct: 30 QEEIIDTVLSGRDCLVVXPTGGGKSLCYQIPAL--------LLNG---LTVVVSPLISLX 78
Query: 76 QQIEKEVKALSRSLDSFKTAIVVGGTNIAEQRSELRGG-----VSIVVATPGR-----FL 125
+ +++A + A + T EQ+ E+ G + ++ P R FL
Sbjct: 79 KDQVDQLQA------NGVAAACLNSTQTREQQLEVXTGCRTGQIRLLYIAPERLXLDNFL 132
Query: 126 DHLQQGNTSLSRVSFVILDEADRMLDMG--FEPQIREVMQNLPDKHQTLLFSATMPVEIE 183
+HL N L + +DEA + G F P+ + Q L + TL F A +
Sbjct: 133 EHLAHWNPVL-----LAVDEAHCISQWGHDFRPEYAALGQ-LRQRFPTLPFXALTATADD 186
Query: 184 ALAQEY-----LTDPVQVKVGKVSSPTANVIQILEKVSENEKVDRXXXXXXXXXXXXXKS 238
Q+ L DP+ +++ P + EK +++ R
Sbjct: 187 TTRQDIVRLLGLNDPL-IQISSFDRPNIRY-XLXEKFKPLDQLXRYVQEQRGKS------ 238
Query: 239 CHPFPLTIVFVERKTRCDEVSEALVAEGLHAVALHGGRNQSDRESALRDFRNGSTNILVA 298
I++ + + ++ + L ++G+ A A H G + R F+ I+VA
Sbjct: 239 ------GIIYCNSRAKVEDTAARLQSKGISAAAYHAGLENNVRADVQEKFQRDDLQIVVA 292
Query: 299 TDVASRGLDVMGVAHVVNLDLPKTVEDYVHRIGRTGRGGSMGQATSFYTDRDMLLVAQIK 358
T G++ V VV+ D+P+ +E Y GR GR G +A FY D A ++
Sbjct: 293 TVAFGXGINKPNVRFVVHFDIPRNIESYYQETGRAGRDGLPAEAXLFYDPADX---AWLR 349
Query: 359 KAIVDAESG 367
+ + + G
Sbjct: 350 RCLEEKPQG 358
>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 = 70.9 bits (172), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 32/94 (34%), Positives = 52/94 (55%)
Query: 267 LHAVALHGGRNQSDRESALRDFRNGSTNILVATDVASRGLDVMGVAHVVNLDLPKTVEDY 326
L + HG Q+ R S ++ F+ + ILV TDV +RG+D V V+ + +P + +Y
Sbjct: 61 LPILEFHGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANY 120
Query: 327 VHRIGRTGRGGSMGQATSFYTDRDMLLVAQIKKA 360
+HRIGRT R G G + F ++ V +++ A
Sbjct: 121 IHRIGRTARSGKEGSSVLFICKDELPFVRELEDA 154
>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 = 70.9 bits (172), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 32/94 (34%), Positives = 52/94 (55%)
Query: 267 LHAVALHGGRNQSDRESALRDFRNGSTNILVATDVASRGLDVMGVAHVVNLDLPKTVEDY 326
L + HG Q+ R S ++ F+ + ILV TDV +RG+D V V+ + +P + +Y
Sbjct: 61 LPILEFHGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANY 120
Query: 327 VHRIGRTGRGGSMGQATSFYTDRDMLLVAQIKKA 360
+HRIGRT R G G + F ++ V +++ A
Sbjct: 121 IHRIGRTARSGKEGSSVLFICKDELPFVRELEDA 154
>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 = 70.9 bits (172), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 32/94 (34%), Positives = 52/94 (55%)
Query: 267 LHAVALHGGRNQSDRESALRDFRNGSTNILVATDVASRGLDVMGVAHVVNLDLPKTVEDY 326
L + HG Q+ R S ++ F+ + ILV TDV +RG+D V V+ + +P + +Y
Sbjct: 61 LPILEFHGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANY 120
Query: 327 VHRIGRTGRGGSMGQATSFYTDRDMLLVAQIKKA 360
+HRIGRT R G G + F ++ V +++ A
Sbjct: 121 IHRIGRTARSGKEGSSVLFICKDELPFVRELEDA 154
>pdb|1FUK|A Chain A, Crystal Structure Of The Carboxy Terminal Domain Of Yeast
Eif4a
Length = 165
Score = 70.9 bits (172), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 40/114 (35%), Positives = 74/114 (64%)
Query: 246 IVFVERKTRCDEVSEALVAEGLHAVALHGGRNQSDRESALRDFRNGSTNILVATDVASRG 305
++F + + +E++ L + A++ Q +R++ +++FR+GS+ IL++TD+ +RG
Sbjct: 34 VIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTIMKEFRSGSSRILISTDLLARG 93
Query: 306 LDVMGVAHVVNLDLPKTVEDYVHRIGRTGRGGSMGQATSFYTDRDMLLVAQIKK 359
+DV V+ V+N DLP E+Y+HRIGR GR G G A +F T+ D+ + +++K
Sbjct: 94 IDVQQVSLVINYDLPANKENYIHRIGRGGRFGRKGVAINFVTNEDVGAMRELEK 147
>pdb|2RB4|A Chain A, Crystal Structure Of The Helicase Domain Of Human Ddx25
Rna Helicase
pdb|2RB4|B Chain B, Crystal Structure Of The Helicase Domain Of Human Ddx25
Rna Helicase
Length = 175
Score = 68.9 bits (167), Expect = 5e-12, Method: Compositional matrix adjust.
Identities = 37/103 (35%), Positives = 54/103 (52%), Gaps = 6/103 (5%)
Query: 246 IVFVERKTRCDEVSEALVAEGLHAVALHGGRNQSDRESALRDFRNGSTNILVATDVASRG 305
I+F + + ++ ++ +G L G R S ++ FR+G +L+ T+V +RG
Sbjct: 38 IIFCQTRRNAKWLTVEMIQDGHQVSLLSGELTVEQRASIIQRFRDGKEKVLITTNVCARG 97
Query: 306 LDVMGVAHVVNLDLPKT------VEDYVHRIGRTGRGGSMGQA 342
+DV V VVN DLP E Y+HRIGRTGR G G A
Sbjct: 98 IDVKQVTIVVNFDLPVKQGEEPDYETYLHRIGRTGRFGKKGLA 140
>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 = 68.9 bits (167), Expect = 5e-12, Method: Compositional matrix adjust.
Identities = 37/84 (44%), Positives = 49/84 (58%)
Query: 245 TIVFVERKTRCDEVSEALVAEGLHAVALHGGRNQSDRESALRDFRNGSTNILVATDVASR 304
+VF K +E+++ L+ G A ALHG +Q +RE L FR G +LVATDVA+R
Sbjct: 34 AMVFTRTKAETEEIAQGLLRLGHPAQALHGDLSQGERERVLGAFRQGEVRVLVATDVAAR 93
Query: 305 GLDVMGVAHVVNLDLPKTVEDYVH 328
GLD+ V VV+ LP E Y H
Sbjct: 94 GLDIPQVDLVVHYRLPDRAEAYQH 117
>pdb|3I32|A Chain A, Dimeric Structure Of A Hera Helicase Fragment Including
The C-Terminal Reca Domain, The Dimerization Domain, And
The Rna Binding Domain
Length = 300
Score = 68.2 bits (165), Expect = 8e-12, Method: Compositional matrix adjust.
Identities = 35/83 (42%), Positives = 49/83 (59%)
Query: 246 IVFVERKTRCDEVSEALVAEGLHAVALHGGRNQSDRESALRDFRNGSTNILVATDVASRG 305
+VF K +E+++ L+ G A ALHG +Q +RE + FR G +LVATDVA+RG
Sbjct: 32 MVFTRTKAETEEIAQGLLRLGHPAQALHGDMSQGERERVMGAFRQGEVRVLVATDVAARG 91
Query: 306 LDVMGVAHVVNLDLPKTVEDYVH 328
LD+ V VV+ +P E Y H
Sbjct: 92 LDIPQVDLVVHYRMPDRAEAYQH 114
>pdb|2V1X|A Chain A, Crystal Structure Of Human Recq-Like Dna Helicase
pdb|2V1X|B Chain B, Crystal Structure Of Human Recq-Like Dna Helicase
pdb|2WWY|A Chain A, Structure Of Human Recq-Like Helicase In Complex With A
Dna Substrate
pdb|2WWY|B Chain B, Structure Of Human Recq-Like Helicase In Complex With A
Dna Substrate
Length = 591
Score = 47.4 bits (111), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 26/112 (23%), Positives = 51/112 (45%)
Query: 246 IVFVERKTRCDEVSEALVAEGLHAVALHGGRNQSDRESALRDFRNGSTNILVATDVASRG 305
I++ + ++V+ +L G+HA A H D+ + R + ++VAT G
Sbjct: 271 IIYCFSQKDSEQVTVSLQNLGIHAGAYHANLEPEDKTTVHRKWSANEIQVVVATVAFGMG 330
Query: 306 LDVMGVAHVVNLDLPKTVEDYVHRIGRTGRGGSMGQATSFYTDRDMLLVAQI 357
+D V V++ + K++E+Y GR GR +Y D+ ++ +
Sbjct: 331 IDKPDVRFVIHHSMSKSMENYYQESGRAGRDDMKADCILYYGFGDIFRISSM 382
>pdb|1GM5|A Chain A, Structure Of Recg Bound To Three-Way Dna Junction
Length = 780
Score = 47.0 bits (110), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 85/347 (24%), Positives = 148/347 (42%), Gaps = 52/347 (14%)
Query: 7 HEYTRPTSIQAQAMPVALSGRDLLGCAETGSGKTAAFTIPMIQHCVAQTPVGRGDGPLAL 66
H+ R I + M L G + GSGKT + ++ + A G
Sbjct: 377 HQEIRNDMISEKPMNRLLQG-------DVGSGKTVVAQLAILDNYEA--------GFQTA 421
Query: 67 VLAPTRELA-QQIEKEVKALSRSLDSFKTAIVVGGTNIAEQ---RSELRGG-VSIVVATP 121
+ PT LA Q + V++ S+ + A+++G T +E+ +S LR G + +V+ T
Sbjct: 422 FMVPTSILAIQHYRRTVESFSKF--NIHVALLIGATTPSEKEKIKSGLRNGQIDVVIGTH 479
Query: 122 GRFLDHLQQGNTSLSRVSFVILDEADRMLDMGFEPQIREVMQNLPDKHQTLLFSATMPVE 181
L Q + + VI+DE R F + RE + N TL+ SAT P+
Sbjct: 480 A-----LIQEDVHFKNLGLVIIDEQHR-----FGVKQREALMNKGKMVDTLVMSAT-PIP 528
Query: 182 IEALAQEYLTDPVQVKVGKVSSPTANVIQILEKVSENEKVDRXXXXXXXXXXXXXKSCHP 241
++A + D + V V P +Q + + ++V+ ++
Sbjct: 529 -RSMALAFYGD-LDVTVIDEMPPGRKEVQTM--LVPMDRVNEVYEFVRQEVMRGGQAFIV 584
Query: 242 FPLTIVFVERKTRCD-----EVSEALVAEGLHAVAL---HGGRNQSDRESALRDFRNGST 293
+PL +E + + E+ E L E L HG +Q +++ + +F G
Sbjct: 585 YPL----IEESDKLNVKSAVEMYEYLSKEVFPEFKLGLMHGRLSQEEKDRVMLEFAEGRY 640
Query: 294 NILVATDVASRGLDVMGVAHVVNLDLPKTVE-DYVHRI-GRTGRGGS 338
+ILV+T V G+DV A+V+ ++ P+ +H++ GR GRGG
Sbjct: 641 DILVSTTVIEVGIDV-PRANVMVIENPERFGLAQLHQLRGRVGRGGQ 686
>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 = 45.1 bits (105), Expect = 9e-05, Method: Compositional matrix adjust.
Identities = 33/99 (33%), Positives = 48/99 (48%), Gaps = 10/99 (10%)
Query: 246 IVFVERKTRCDEVSEALVAEGLHAVALHG--------GRNQSDRESALRDFRNGSTNILV 297
IVF + ++ LV +G+ A G G +Q +++ L +F G N+LV
Sbjct: 365 IVFTNYRETAKKIVNELVKDGIKAKRFVGQASKENDRGLSQREQKLILDEFARGEFNVLV 424
Query: 298 ATDVASRGLDVMGVAHVVNLD-LPKTVEDYVHRIGRTGR 335
AT V GLDV V VV + +P + + R GRTGR
Sbjct: 425 ATSVGEEGLDVPEVDLVVFYEPVPSAIRS-IQRRGRTGR 462
Score = 42.7 bits (99), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 36/115 (31%), Positives = 55/115 (47%), Gaps = 11/115 (9%)
Query: 35 TGSGKTAAFTIPMIQHCVAQTPVGRGDGPLALVLAPTRELAQQIEKEVKALSRSLDSFKT 94
TG GKT +I +A+ + + G + L+LAPT+ L Q ++ R +
Sbjct: 32 TGLGKT------LIAMMIAEYRLTKYGGKV-LMLAPTKPLVLQ---HAESFRRLFNLPPE 81
Query: 95 AIV-VGGTNIAEQRSELRGGVSIVVATPGRFLDHLQQGNTSLSRVSFVILDEADR 148
IV + G E+RS+ ++VATP + L G SL VS ++ DEA R
Sbjct: 82 KIVALTGEKSPEERSKAWARAKVIVATPQTIENDLLAGRISLEDVSLIVFDEAHR 136
>pdb|1D2M|A Chain A, Uvrb Protein Of Thermus Thermophilus Hb8; A Nucleotide
Excision Repair Enzyme
Length = 665
Score = 40.4 bits (93), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 30/100 (30%), Positives = 47/100 (47%), Gaps = 7/100 (7%)
Query: 255 CDEVSEALVAEGLHAVALHGGRNQSDRESALRDFRNGSTNILVATDVASRGLDVMGVAHV 314
+E++ LV G+ A LH + R++ +RD R G + LV ++ GLD+ V+ V
Sbjct: 453 AEELTSFLVEHGIRARYLHHELDAFKRQALIRDLRLGHYDCLVGINLLREGLDIPEVSLV 512
Query: 315 VNLDLPK-----TVEDYVHRIGRTGRGGSMGQATSFYTDR 349
LD K + + IGR R + G+ Y DR
Sbjct: 513 AILDADKEGFLRSERSLIQTIGRAAR-NARGE-VWLYADR 550
>pdb|1C4O|A Chain A, Crystal Structure Of The Dna Nucleotide Excision Repair
Enzyme Uvrb From Thermus Thermophilus
Length = 664
Score = 40.4 bits (93), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 30/100 (30%), Positives = 47/100 (47%), Gaps = 7/100 (7%)
Query: 255 CDEVSEALVAEGLHAVALHGGRNQSDRESALRDFRNGSTNILVATDVASRGLDVMGVAHV 314
+E++ LV G+ A LH + R++ +RD R G + LV ++ GLD+ V+ V
Sbjct: 452 AEELTSFLVEHGIRARYLHHELDAFKRQALIRDLRLGHYDCLVGINLLREGLDIPEVSLV 511
Query: 315 VNLDLPK-----TVEDYVHRIGRTGRGGSMGQATSFYTDR 349
LD K + + IGR R + G+ Y DR
Sbjct: 512 AILDADKEGFLRSERSLIQTIGRAAR-NARGE-VWLYADR 549
>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 = 40.0 bits (92), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 41/150 (27%), Positives = 63/150 (42%), Gaps = 23/150 (15%)
Query: 7 HEYTRPTSIQAQAMPVALSGRDLLGCAETGSGKTAAFTIPMIQHCVAQTPVGRGDGPLAL 66
+E + S Q + A++G++ L CA TGSGKT +I + +H P GR +
Sbjct: 244 YETKKARSYQIELAQPAINGKNALICAPTGSGKTFV-SILICEHHFQNMPAGR---KAKV 299
Query: 67 VLAPTRELAQQIEKEVKALSRSLDSFKTAIVVGGTNIAEQRSELRGGVS---------IV 117
V T+ + +K V FK G ++ E VS I+
Sbjct: 300 VFLATKVPVYEQQKNV---------FKHHFERQGYSVQGISGENFSNVSVEKVIEDSDII 350
Query: 118 VATPGRFLDHLQQGN-TSLSRVSFVILDEA 146
V TP ++ + G TSLS + +I DE
Sbjct: 351 VVTPQILVNSFEDGTLTSLSIFTLMIFDEC 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 = 39.7 bits (91), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 41/150 (27%), Positives = 63/150 (42%), Gaps = 23/150 (15%)
Query: 7 HEYTRPTSIQAQAMPVALSGRDLLGCAETGSGKTAAFTIPMIQHCVAQTPVGRGDGPLAL 66
+E + S Q + A++G++ L CA TGSGKT +I + +H P GR +
Sbjct: 244 YETKKARSYQIELAQPAINGKNALICAPTGSGKTFV-SILICEHHFQNMPAGR---KAKV 299
Query: 67 VLAPTRELAQQIEKEVKALSRSLDSFKTAIVVGGTNIAEQRSELRGGVS---------IV 117
V T+ + +K V FK G ++ E VS I+
Sbjct: 300 VFLATKVPVYEQQKNV---------FKHHFERQGYSVQGISGENFSNVSVEKVIEDSDII 350
Query: 118 VATPGRFLDHLQQGN-TSLSRVSFVILDEA 146
V TP ++ + G TSLS + +I DE
Sbjct: 351 VVTPQILVNSFEDGTLTSLSIFTLMIFDEC 380
>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 = 38.9 bits (89), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 40/142 (28%), Positives = 62/142 (43%), Gaps = 9/142 (6%)
Query: 8 EYTRPTSIQAQAMPVALSGRDLLGCAETGSGKTAAFTIPMIQHCVAQTPVGRGDGPLALV 67
E + S Q + A++G++ L CA TGSGKT +I + +H P GR + L
Sbjct: 4 ETKKARSYQIELAQPAINGKNALICAPTGSGKTFV-SILICEHHFQNMPAGRKAKVVFLA 62
Query: 68 L-APTRELAQQIEKEVKALSRSLDSFKTAIVVGGTNIAEQRSE-LRGGVSIVVATPGRFL 125
P E + + K R S + + G N + E + I+V TP +
Sbjct: 63 TKVPVYEQQKNVFKH--HFERQGYSVQG---ISGENFSNVSVEKVIEDSDIIVVTPQILV 117
Query: 126 DHLQQGN-TSLSRVSFVILDEA 146
+ + G TSLS + +I DE
Sbjct: 118 NSFEDGTLTSLSIFTLMIFDEC 139
>pdb|3TMI|A Chain A, Structural Basis For Rna Recognition And Activation Of
Rig-I
Length = 695
Score = 38.1 bits (87), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 34/150 (22%), Positives = 68/150 (45%), Gaps = 15/150 (10%)
Query: 3 DIEFHEYTRPTSIQAQAMPVALSGRDLLGCAETGSGKTAAFTIPMIQHCVAQTPVGRGDG 62
D + +P + Q + A+ G++ + CA TG GKT ++ + +H + + P G+ G
Sbjct: 4 DTNLYSPFKPRNYQLELALPAMKGKNTIICAPTGCGKTFV-SLLICEHHLKKFPQGQ-KG 61
Query: 63 PLALVLAPTRELAQQI---EKEVKALSRSLD--SFKTAIVVGGTNIAEQRSELRGGVSIV 117
+ A QI E++ S+ + ++ + G T ++ I+
Sbjct: 62 KVVF-------FANQIPVYEQQKSVFSKYFERHGYRVTGISGATAENVPVEQIVENNDII 114
Query: 118 VATPGRFLDHLQQGNT-SLSRVSFVILDEA 146
+ TP +++L++G SLS + +I DE
Sbjct: 115 ILTPQILVNNLKKGTIPSLSIFTLMIFDEC 144
Score = 30.8 bits (68), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 19/58 (32%), Positives = 28/58 (48%), Gaps = 3/58 (5%)
Query: 290 NGSTNILVATDVASRGLDVMGVAHVVNLDLPKTVEDYVHRIGRTGRGGSMGQATSFYT 347
+G NIL+AT VA G+D+ V+ L + V + + I GRG + G T
Sbjct: 458 SGDHNILIATSVADEGIDIAQCNLVI---LYEYVGNVIKMIQTRGRGRARGSKCFLLT 512
>pdb|3TBK|A Chain A, Mouse Rig-I Atpase Domain
Length = 555
Score = 37.7 bits (86), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 35/142 (24%), Positives = 63/142 (44%), Gaps = 15/142 (10%)
Query: 11 RPTSIQAQAMPVALSGRDLLGCAETGSGKTAAFTIPMIQHCVAQTPVGRGDGPLALVLAP 70
+P + Q + A G++ + CA TG GKT ++ + +H + + P G+ G +
Sbjct: 4 KPRNYQLELALPAKKGKNTIICAPTGCGKTFV-SLLICEHHLKKFPCGQ-KGKVVF---- 57
Query: 71 TRELAQQI---EKEVKALSRSLD--SFKTAIVVGGTNIAEQRSELRGGVSIVVATPGRFL 125
A QI E++ SR + + A + G T+ + + I++ TP +
Sbjct: 58 ---FANQIPVYEQQATVFSRYFERLGYNIASISGATSDSVSVQHIIEDNDIIILTPQILV 114
Query: 126 DHLQQGNT-SLSRVSFVILDEA 146
++L G SLS + I DE
Sbjct: 115 NNLNNGAIPSLSVFTLXIFDEC 136
Score = 31.2 bits (69), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 30/109 (27%), Positives = 49/109 (44%), Gaps = 16/109 (14%)
Query: 241 PFPLTIVFVERKTRCDEVSEALV---AEGLHAVALHGGRNQSDR---------ESALRDF 288
P TI+FV+ + D + + + A + GR +++R + L F
Sbjct: 388 PETKTILFVKTRALVDALKKWIEENPALSFLKPGILTGRGRTNRATGXTLPAQKCVLEAF 447
Query: 289 R-NGSTNILVATDVASRGLDVMGVAHVVNLDLPKTVEDYVHRIGRTGRG 336
R +G NIL+AT VA G+D+ V+ L + V + + I GRG
Sbjct: 448 RASGDNNILIATSVADEGIDIAECNLVI---LYEYVGNVIKXIQTRGRG 493
>pdb|3DMQ|A Chain A, Crystal Structure Of Rapa, A Swi2SNF2 PROTEIN THAT
Recycles Rna Polymerase During Transcription
pdb|3DMQ|B Chain B, Crystal Structure Of Rapa, A Swi2SNF2 PROTEIN THAT
Recycles Rna Polymerase During Transcription
Length = 968
Score = 37.4 bits (85), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 25/80 (31%), Positives = 38/80 (47%), Gaps = 5/80 (6%)
Query: 265 EGLHAVALHGGRNQSDRESALRDFRNGST--NILVATDVASRGLDVMGVAHVVNLDLPKT 322
EG+ A H G + +R+ A F T +L+ +++ S G + +H V DLP
Sbjct: 527 EGIRAAVFHEGXSIIERDRAAAWFAEEDTGAQVLLCSEIGSEGRNFQFASHXVXFDLPFN 586
Query: 323 VEDYVHRIGRTGRGGSMGQA 342
+ RIGR R +GQA
Sbjct: 587 PDLLEQRIGRLDR---IGQA 603
>pdb|2YKG|A Chain A, Structural Insights Into Rna Recognition By Rig-I
Length = 696
Score = 37.4 bits (85), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 34/150 (22%), Positives = 67/150 (44%), Gaps = 15/150 (10%)
Query: 3 DIEFHEYTRPTSIQAQAMPVALSGRDLLGCAETGSGKTAAFTIPMIQHCVAQTPVGRGDG 62
D + +P + Q + A+ G++ + CA TG GKT ++ + +H + + P G+ G
Sbjct: 5 DTNLYSPFKPRNYQLELALPAMKGKNTIICAPTGCGKTFV-SLLICEHHLKKFPQGQ-KG 62
Query: 63 PLALVLAPTRELAQQI---EKEVKALSRSLD--SFKTAIVVGGTNIAEQRSELRGGVSIV 117
+ A QI E+ S+ + ++ + G T ++ I+
Sbjct: 63 KVVF-------FANQIPVYEQNKSVFSKYFERHGYRVTGISGATAENVPVEQIVENNDII 115
Query: 118 VATPGRFLDHLQQGNT-SLSRVSFVILDEA 146
+ TP +++L++G SLS + +I DE
Sbjct: 116 ILTPQILVNNLKKGTIPSLSIFTLMIFDEC 145
Score = 30.8 bits (68), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 19/58 (32%), Positives = 28/58 (48%), Gaps = 3/58 (5%)
Query: 290 NGSTNILVATDVASRGLDVMGVAHVVNLDLPKTVEDYVHRIGRTGRGGSMGQATSFYT 347
+G NIL+AT VA G+D+ V+ L + V + + I GRG + G T
Sbjct: 459 SGDHNILIATSVADEGIDIAQCNLVI---LYEYVGNVIKMIQTRGRGRARGSKCFLLT 513
>pdb|1D9Z|A Chain A, Crystal Structure Of The Dna Repair Protein Uvrb In
Complex With Atp
Length = 657
Score = 37.4 bits (85), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 26/99 (26%), Positives = 44/99 (44%), Gaps = 5/99 (5%)
Query: 245 TIVFVERKTRCDEVSEALVAEGLHAVALHGGRNQSDRESALRDFRNGSTNILVATDVASR 304
T+V K +++++ L G+ LH +R +RD R G ++LV ++
Sbjct: 447 TLVTTLTKKMAEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLRE 506
Query: 305 GLDVMGVAHVVNLDLPK-----TVEDYVHRIGRTGRGGS 338
GLD+ V+ V LD K + + IGR R +
Sbjct: 507 GLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAARNAN 545
>pdb|1D9X|A Chain A, Crystal Structure Of The Dna Repair Protein Uvrb
Length = 658
Score = 37.4 bits (85), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 26/99 (26%), Positives = 44/99 (44%), Gaps = 5/99 (5%)
Query: 245 TIVFVERKTRCDEVSEALVAEGLHAVALHGGRNQSDRESALRDFRNGSTNILVATDVASR 304
T+V K +++++ L G+ LH +R +RD R G ++LV ++
Sbjct: 448 TLVTTLTKKMAEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLRE 507
Query: 305 GLDVMGVAHVVNLDLPK-----TVEDYVHRIGRTGRGGS 338
GLD+ V+ V LD K + + IGR R +
Sbjct: 508 GLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAARNAN 546
>pdb|1T5L|A Chain A, Crystal Structure Of The Dna Repair Protein Uvrb Point
Mutant Y96a Revealing A Novel Fold For Domain 2
pdb|1T5L|B Chain B, Crystal Structure Of The Dna Repair Protein Uvrb Point
Mutant Y96a Revealing A Novel Fold For Domain 2
Length = 658
Score = 37.0 bits (84), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 26/99 (26%), Positives = 44/99 (44%), Gaps = 5/99 (5%)
Query: 245 TIVFVERKTRCDEVSEALVAEGLHAVALHGGRNQSDRESALRDFRNGSTNILVATDVASR 304
T+V K +++++ L G+ LH +R +RD R G ++LV ++
Sbjct: 448 TLVTTLTKKMAEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLRE 507
Query: 305 GLDVMGVAHVVNLDLPK-----TVEDYVHRIGRTGRGGS 338
GLD+ V+ V LD K + + IGR R +
Sbjct: 508 GLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAARNAN 546
>pdb|2FDC|A Chain A, Structural Basis Of Dna Damage Recognition And Processing
By Uvrb: Crystal Structure Of A UvrbDNA COMPLEX
pdb|2FDC|B Chain B, Structural Basis Of Dna Damage Recognition And Processing
By Uvrb: Crystal Structure Of A UvrbDNA COMPLEX
Length = 658
Score = 37.0 bits (84), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 26/99 (26%), Positives = 44/99 (44%), Gaps = 5/99 (5%)
Query: 245 TIVFVERKTRCDEVSEALVAEGLHAVALHGGRNQSDRESALRDFRNGSTNILVATDVASR 304
T+V K +++++ L G+ LH +R +RD R G ++LV ++
Sbjct: 448 TLVTTLTKKMAEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLRE 507
Query: 305 GLDVMGVAHVVNLDLPK-----TVEDYVHRIGRTGRGGS 338
GLD+ V+ V LD K + + IGR R +
Sbjct: 508 GLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAARNAN 546
>pdb|3UWX|B Chain B, Crystal Structure Of Uvra-Uvrb Complex
Length = 683
Score = 37.0 bits (84), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 26/99 (26%), Positives = 44/99 (44%), Gaps = 5/99 (5%)
Query: 245 TIVFVERKTRCDEVSEALVAEGLHAVALHGGRNQSDRESALRDFRNGSTNILVATDVASR 304
T+V K +++++ L G+ LH +R +RD R G ++LV ++
Sbjct: 473 TLVTTLTKKMAEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLRE 532
Query: 305 GLDVMGVAHVVNLDLPK-----TVEDYVHRIGRTGRGGS 338
GLD+ V+ V LD K + + IGR R +
Sbjct: 533 GLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAARNAN 571
>pdb|4AY2|A Chain A, Capturing 5' Tri-Phosphorylated Rna Duplex By Rig-I
Length = 687
Score = 37.0 bits (84), Expect = 0.022, Method: Compositional matrix adjust.
Identities = 33/142 (23%), Positives = 65/142 (45%), Gaps = 15/142 (10%)
Query: 11 RPTSIQAQAMPVALSGRDLLGCAETGSGKTAAFTIPMIQHCVAQTPVGRGDGPLALVLAP 70
+P + Q + A+ G++ + CA TG GKT ++ + +H + + P G+ G +
Sbjct: 4 KPRNYQLELALPAMKGKNTIICAPTGCGKTFV-SLLICEHHLKKFPQGQ-KGKVVF---- 57
Query: 71 TRELAQQI---EKEVKALSRSLD--SFKTAIVVGGTNIAEQRSELRGGVSIVVATPGRFL 125
A QI E+ S+ + ++ + G T ++ I++ TP +
Sbjct: 58 ---FANQIPVYEQNKSVFSKYFERHGYRVTGISGATAENVPVEQIVENNDIIILTPQILV 114
Query: 126 DHLQQGNT-SLSRVSFVILDEA 146
++L++G SLS + +I DE
Sbjct: 115 NNLKKGTIPSLSIFTLMIFDEC 136
Score = 30.8 bits (68), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 19/58 (32%), Positives = 28/58 (48%), Gaps = 3/58 (5%)
Query: 290 NGSTNILVATDVASRGLDVMGVAHVVNLDLPKTVEDYVHRIGRTGRGGSMGQATSFYT 347
+G NIL+AT VA G+D+ V+ L + V + + I GRG + G T
Sbjct: 450 SGDHNILIATSVADEGIDIAQCNLVI---LYEYVGNVIKMIQTRGRGRARGSKCFLLT 504
>pdb|2P6R|A Chain A, Crystal Structure Of Superfamily 2 Helicase Hel308 In
Complex With Unwound Dna
pdb|2P6U|A Chain A, Apo Structure Of The Hel308 Superfamily 2 Helicase
Length = 702
Score = 35.8 bits (81), Expect = 0.043, Method: Compositional matrix adjust.
Identities = 34/135 (25%), Positives = 57/135 (42%), Gaps = 23/135 (17%)
Query: 16 QAQAMPVALSGRDLLGCAETGSGKTAAFTIPMIQHCVAQTPVGRGDGPLALVLAPTRELA 75
QA+A+ SG++LL T +GKT + M++ + G +L + P R LA
Sbjct: 30 QAEAVEKVFSGKNLLLAMPTAAGKTLLAEMAMVREAI--------KGGKSLYVVPLRALA 81
Query: 76 QQIEKEVKALSRSLDSFKTAIVVG-----GTNIAEQRSELRGGVSIVVATPGRFLDHLQQ 130
+ +SFK +G T E R E G I+V T + ++
Sbjct: 82 GE----------KYESFKKWEKIGLRIGISTGDYESRDEHLGDCDIIVTTSEKADSLIRN 131
Query: 131 GNTSLSRVSFVILDE 145
+ + VS +++DE
Sbjct: 132 RASWIKAVSCLVVDE 146
>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 = 35.0 bits (79), Expect = 0.073, Method: Compositional matrix adjust.
Identities = 15/42 (35%), Positives = 24/42 (57%)
Query: 278 QSDRESALRDFRNGSTNILVATDVASRGLDVMGVAHVVNLDL 319
Q++++ + FR G N+L+AT VA GLD+ V+ L
Sbjct: 450 QNEQKEVISKFRTGKINLLIATTVAEEGLDIKECNIVIRYGL 491
>pdb|2ZJO|A Chain A, Crystal Structure Of Hepatitis C Virus Ns3 Helicase With A
Novel Inhibitor
Length = 482
Score = 34.7 bits (78), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 14/34 (41%), Positives = 22/34 (64%)
Query: 246 IVFVERKTRCDEVSEALVAEGLHAVALHGGRNQS 279
++F K +CDE++ L A G+HAVA + G + S
Sbjct: 210 LIFCHSKKKCDELAAKLSALGIHAVAYYRGLDVS 243
>pdb|3V4R|A Chain A, Crystal Structure Of A Uvrb Dimer-Dna Complex
pdb|3V4R|B Chain B, Crystal Structure Of A Uvrb Dimer-Dna Complex
Length = 667
Score = 34.3 bits (77), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 24/92 (26%), Positives = 40/92 (43%), Gaps = 5/92 (5%)
Query: 252 KTRCDEVSEALVAEGLHAVALHGGRNQSDRESALRDFRNGSTNILVATDVASRGLDVMGV 311
K +++++ L G+ LH +R +RD R G ++LV ++ GLD+ V
Sbjct: 461 KKMSEDLTDYLKEIGIKVNYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLREGLDIPEV 520
Query: 312 AHVVNLDLPK-----TVEDYVHRIGRTGRGGS 338
+ V LD K + + IGR R
Sbjct: 521 SLVAILDADKEGFLRSERSLIQTIGRAARNAE 552
>pdb|2D7D|A Chain A, Structural Insights Into The Cryptic Dna Dependent Atp-Ase
Activity Of Uvrb
pdb|2NMV|A Chain A, Damage Detection By The Uvrabc Pathway: Crystal Structure
Of Uvrb Bound To Fluorescein-Adducted Dna
Length = 661
Score = 34.3 bits (77), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 24/92 (26%), Positives = 40/92 (43%), Gaps = 5/92 (5%)
Query: 252 KTRCDEVSEALVAEGLHAVALHGGRNQSDRESALRDFRNGSTNILVATDVASRGLDVMGV 311
K +++++ L G+ LH +R +RD R G ++LV ++ GLD+ V
Sbjct: 455 KKMSEDLTDYLKEIGIKVNYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLREGLDIPEV 514
Query: 312 AHVVNLDLPK-----TVEDYVHRIGRTGRGGS 338
+ V LD K + + IGR R
Sbjct: 515 SLVAILDADKEGFLRSERSLIQTIGRAARNAE 546
>pdb|4F92|B Chain B, Brr2 Helicase Region S1087l
pdb|4F93|B Chain B, Brr2 Helicase Region S1087l, Mg-Atp
Length = 1724
Score = 33.9 bits (76), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 39/159 (24%), Positives = 66/159 (41%), Gaps = 24/159 (15%)
Query: 6 FHEYTRPTSIQAQAMPVAL-SGRDLLGCAETGSGKTAAFTIPMI----QHCVAQTPVGRG 60
F + IQ++ AL + +LL CA TG+GKT + M+ +H +
Sbjct: 74 FEGFKTLNRIQSKLYRAALETDENLLLCAPTGAGKTNVALMCMLREIGKHINMDGTINVD 133
Query: 61 DGPLALVLAPTRELAQQIEKEVKALSRSLDSFKTAIVVGGTNIAEQRSELR------GGV 114
D + + +AP R L Q++ + SF + G +AE + +
Sbjct: 134 DFKI-IYIAPMRSLVQEM----------VGSFGKRLATYGITVAELTGDHQLCKEEISAT 182
Query: 115 SIVVATPGRFLDHLQQG--NTSLSRVSFVILDEADRMLD 151
I+V TP ++ ++G T V +ILDE + D
Sbjct: 183 QIIVCTPEKWDIITRKGGERTYTQLVRLIILDEIHLLHD 221
>pdb|1A1V|A Chain A, Hepatitis C Virus Ns3 Helicase Domain Complexed With
Single Stranded Sdna
Length = 476
Score = 33.9 bits (76), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 14/34 (41%), Positives = 23/34 (67%)
Query: 246 IVFVERKTRCDEVSEALVAEGLHAVALHGGRNQS 279
++F K +CDE++ LVA G++AVA + G + S
Sbjct: 200 LIFCHSKKKCDELAAKLVALGINAVAYYRGLDVS 233
>pdb|4F91|B Chain B, Brr2 Helicase Region
Length = 1724
Score = 33.9 bits (76), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 39/159 (24%), Positives = 66/159 (41%), Gaps = 24/159 (15%)
Query: 6 FHEYTRPTSIQAQAMPVAL-SGRDLLGCAETGSGKTAAFTIPMI----QHCVAQTPVGRG 60
F + IQ++ AL + +LL CA TG+GKT + M+ +H +
Sbjct: 74 FEGFKTLNRIQSKLYRAALETDENLLLCAPTGAGKTNVALMCMLREIGKHINMDGTINVD 133
Query: 61 DGPLALVLAPTRELAQQIEKEVKALSRSLDSFKTAIVVGGTNIAEQRSELR------GGV 114
D + + +AP R L Q++ + SF + G +AE + +
Sbjct: 134 DFKI-IYIAPMRSLVQEM----------VGSFGKRLATYGITVAELTGDHQLCKEEISAT 182
Query: 115 SIVVATPGRFLDHLQQG--NTSLSRVSFVILDEADRMLD 151
I+V TP ++ ++G T V +ILDE + D
Sbjct: 183 QIIVCTPEKWDIITRKGGERTYTQLVRLIILDEIHLLHD 221
>pdb|1HEI|A Chain A, Structure Of The Hepatitis C Virus Rna Helicase Domain
pdb|1HEI|B Chain B, Structure Of The Hepatitis C Virus Rna Helicase Domain
Length = 451
Score = 33.9 bits (76), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 14/34 (41%), Positives = 23/34 (67%)
Query: 246 IVFVERKTRCDEVSEALVAEGLHAVALHGGRNQS 279
++F K +CDE++ LVA G++AVA + G + S
Sbjct: 186 LIFCHSKKKCDELAAKLVALGINAVAYYRGLDVS 219
>pdb|4I1S|A Chain A, Melanoma Differentiation Associated Protein-5 Helicase
Domain Complex With Inhibitor Non-structural Protein V
Length = 243
Score = 33.9 bits (76), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 15/42 (35%), Positives = 23/42 (54%)
Query: 278 QSDRESALRDFRNGSTNILVATDVASRGLDVMGVAHVVNLDL 319
Q+++ + FR G N+L+AT VA GLD+ V+ L
Sbjct: 200 QNEQREVISKFRTGKINLLIATTVAEEGLDIKECNIVIRYGL 241
>pdb|1JR6|A Chain A, Solution Structure Of An Engineered Arginine-Rich
Subdomain 2 Of The Hepatitis C Virus Ns3 Rna Helicase
pdb|1ONB|A Chain A, Solution Structure Of An Engineered Arginine-Rich
Subdomain 2 Of The Hepatitis C Virus Ns3 Rna Helicase
Length = 142
Score = 33.5 bits (75), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 21/61 (34%), Positives = 33/61 (54%), Gaps = 7/61 (11%)
Query: 246 IVFVERKTRCDEVSEALVAEGLHAVALHGGRNQSDRESALRDFRNGSTNILVATDVASRG 305
++F K +CDE++ LVA G++AVA + G + S + NG ++VATD G
Sbjct: 43 LIFCHSKKKCDELAAKLVALGINAVAYYRGLDVSVIPT------NGDV-VVVATDALMTG 95
Query: 306 L 306
Sbjct: 96 F 96
>pdb|4A4Z|A Chain A, Crystal Structure Of The S. Cerevisiae Dexh Helicase Ski2
Bound To Amppnp
Length = 997
Score = 33.1 bits (74), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 37/168 (22%), Positives = 64/168 (38%), Gaps = 22/168 (13%)
Query: 14 SIQAQAMPVALSGRDLLGCAETGSGKT--AAFTIPMIQHCVAQTPVGRGDGPLALVLAPT 71
+ Q +A+ G + A T +GKT A + I M + +T + +P
Sbjct: 42 TFQKEAVYHLEQGDSVFVAAHTSAGKTVVAEYAIAMAHRNMTKT----------IYTSPI 91
Query: 72 RELAQQIEKEVKALSRSLDSFKTAIVVGGTNIAEQRSELRGGVSIVVATPGRFLDHLQQG 131
+ L+ Q + + + D ++ G I + ++ T L +G
Sbjct: 92 KALSNQ---KFRDFKETFDDVNIGLITGDVQINPD-------ANCLIMTTEILRSMLYRG 141
Query: 132 NTSLSRVSFVILDEADRMLDMGFEPQIREVMQNLPDKHQTLLFSATMP 179
+ V FVI DE + D EV+ LP + +L SAT+P
Sbjct: 142 ADLIRDVEFVIFDEVHYVNDQDRGVVWEEVIIMLPQHVKFILLSATVP 189
>pdb|8OHM|A Chain A, Crystal Structure Of Rna Helicase From Genotype 1b
Hepatitis C Virus: Mechanism Of Unwinding Duplex Rna
Length = 435
Score = 32.7 bits (73), Expect = 0.44, Method: Compositional matrix adjust.
Identities = 14/34 (41%), Positives = 22/34 (64%)
Query: 246 IVFVERKTRCDEVSEALVAEGLHAVALHGGRNQS 279
++F K +CDE++ L A GL+AVA + G + S
Sbjct: 176 LIFCHSKKKCDELAAKLSALGLNAVAYYRGLDVS 209
>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 = 32.0 bits (71), Expect = 0.67, Method: Compositional matrix adjust.
Identities = 19/56 (33%), Positives = 29/56 (51%)
Query: 128 LQQGNTSLSRVSFVILDEADRMLDMGFEPQIREVMQNLPDKHQTLLFSATMPVEIE 183
L +G+ + V++VI DE M D E + LPDK + + SAT+P +E
Sbjct: 183 LYRGSEVMREVAWVIFDEVHYMRDKERGVVWEETIILLPDKVRYVFLSATIPNAME 238
>pdb|2F55|A Chain A, Two Hepatitis C Virus Ns3 Helicase Domains Complexed With
The Same Strand Of Dna
pdb|2F55|B Chain B, Two Hepatitis C Virus Ns3 Helicase Domains Complexed With
The Same Strand Of Dna
pdb|2F55|C Chain C, Two Hepatitis C Virus Ns3 Helicase Domains Complexed With
The Same Strand Of Dna
Length = 435
Score = 31.6 bits (70), Expect = 0.81, Method: Compositional matrix adjust.
Identities = 13/34 (38%), Positives = 21/34 (61%)
Query: 246 IVFVERKTRCDEVSEALVAEGLHAVALHGGRNQS 279
++F K +CDE++ L GL+AVA + G + S
Sbjct: 176 LIFCHSKKKCDELAAKLTGLGLNAVAYYRGLDVS 209
>pdb|3L9O|A Chain A, Crystal Structure Of Mtr4, A Co-Factor Of The Nuclear
Exosome
Length = 1108
Score = 31.6 bits (70), Expect = 0.81, Method: Compositional matrix adjust.
Identities = 19/56 (33%), Positives = 29/56 (51%)
Query: 128 LQQGNTSLSRVSFVILDEADRMLDMGFEPQIREVMQNLPDKHQTLLFSATMPVEIE 183
L +G+ + V++VI DE M D E + LPDK + + SAT+P +E
Sbjct: 281 LYRGSEVMREVAWVIFDEVHYMRDKERGVVWEETIILLPDKVRYVFLSATIPNAME 336
>pdb|2FWR|A Chain A, Structure Of Archaeoglobus Fulgidis Xpb
pdb|2FWR|B Chain B, Structure Of Archaeoglobus Fulgidis Xpb
pdb|2FWR|C Chain C, Structure Of Archaeoglobus Fulgidis Xpb
pdb|2FWR|D Chain D, Structure Of Archaeoglobus Fulgidis Xpb
Length = 472
Score = 31.6 bits (70), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 17/59 (28%), Positives = 29/59 (49%)
Query: 277 NQSDRESALRDFRNGSTNILVATDVASRGLDVMGVAHVVNLDLPKTVEDYVHRIGRTGR 335
++ +RE L FR G +V++ V G+DV V + + +Y+ R+GR R
Sbjct: 379 SREEREEILEGFRTGRFRAIVSSQVLDEGIDVPDANVGVIMSGSGSAREYIQRLGRILR 437
>pdb|3KQL|A Chain A, Three Conformational Snapshots Of The Hepatitis C Virus
Ns3 Helicase Reveal A Ratchet Translocation Mechanism
pdb|3KQL|B Chain B, Three Conformational Snapshots Of The Hepatitis C Virus
Ns3 Helicase Reveal A Ratchet Translocation Mechanism
pdb|3KQN|A Chain A, Three Conformational Snapshots Of The Hepatitis C Virus
Ns3 Helicase Reveal A Ratchet Translocation Mechanism
pdb|3KQU|A Chain A, Three Conformational Snapshots Of The Hepatitis C Virus
Ns3 Helicase Reveal A Ratchet Translocation Mechanism
pdb|3KQU|B Chain B, Three Conformational Snapshots Of The Hepatitis C Virus
Ns3 Helicase Reveal A Ratchet Translocation Mechanism
pdb|3KQU|C Chain C, Three Conformational Snapshots Of The Hepatitis C Virus
Ns3 Helicase Reveal A Ratchet Translocation Mechanism
pdb|3KQU|D Chain D, Three Conformational Snapshots Of The Hepatitis C Virus
Ns3 Helicase Reveal A Ratchet Translocation Mechanism
pdb|3KQU|E Chain E, Three Conformational Snapshots Of The Hepatitis C Virus
Ns3 Helicase Reveal A Ratchet Translocation Mechanism
pdb|3KQU|F Chain F, Three Conformational Snapshots Of The Hepatitis C Virus
Ns3 Helicase Reveal A Ratchet Translocation Mechanism
Length = 437
Score = 31.2 bits (69), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 13/34 (38%), Positives = 21/34 (61%)
Query: 246 IVFVERKTRCDEVSEALVAEGLHAVALHGGRNQS 279
++F K +CDE++ L GL+AVA + G + S
Sbjct: 177 LIFCHSKKKCDELAAKLSGLGLNAVAYYRGLDVS 210
>pdb|3KQH|A Chain A, Three Conformational Snapshots Of The Hepatitis C Virus
Ns3 Helicase Reveal A Ratchet Translocation Mechanism
pdb|3KQH|B Chain B, Three Conformational Snapshots Of The Hepatitis C Virus
Ns3 Helicase Reveal A Ratchet Translocation Mechanism
pdb|3KQK|A Chain A, Three Conformational Snapshots Of The Hepatitis C Virus
Ns3 Helicase Reveal A Ratchet Translocation Mechanism
pdb|3KQK|B Chain B, Three Conformational Snapshots Of The Hepatitis C Virus
Ns3 Helicase Reveal A Ratchet Translocation Mechanism
Length = 436
Score = 31.2 bits (69), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 13/34 (38%), Positives = 21/34 (61%)
Query: 246 IVFVERKTRCDEVSEALVAEGLHAVALHGGRNQS 279
++F K +CDE++ L GL+AVA + G + S
Sbjct: 177 LIFCHSKKKCDELAAKLSGLGLNAVAYYRGLDVS 210
>pdb|2VA8|A Chain A, Dna Repair Helicase Hel308
pdb|2VA8|B Chain B, Dna Repair Helicase Hel308
Length = 715
Score = 30.8 bits (68), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 31/128 (24%), Positives = 52/128 (40%), Gaps = 12/128 (9%)
Query: 24 LSGRDLLGCAETGSGKTAAFTIPMIQHCVAQTPVGRGDGPLALVLAPTRELAQQIEKEVK 83
L G LL + TGSGKT + +I + +G A+ + P R L EK +
Sbjct: 44 LEGNRLLLTSPTGSGKTLIAEMGIISFLLK-------NGGKAIYVTPLRALTN--EKYLT 94
Query: 84 ALSRSLDSFKTAIVVGGTNIAEQRSELRGGVSIVVATPGRFLDHLQQGNTSLSRVSFVIL 143
L FK A+ G + + + I++ T + + L+ V++ +L
Sbjct: 95 FKDWELIGFKVAMTSGDYDTDDAWLK---NYDIIITTYEKLDSLWRHRPEWLNEVNYFVL 151
Query: 144 DEADRMLD 151
DE + D
Sbjct: 152 DELHYLND 159
>pdb|2FZL|A Chain A, Structure Of C-Terminal Domain Of Archaeoglobus Fulgidus
Xpb
Length = 219
Score = 30.4 bits (67), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 17/59 (28%), Positives = 29/59 (49%)
Query: 277 NQSDRESALRDFRNGSTNILVATDVASRGLDVMGVAHVVNLDLPKTVEDYVHRIGRTGR 335
++ +RE L FR G +V++ V G+DV V + + +Y+ R+GR R
Sbjct: 144 SREEREEILEGFRTGRFRAIVSSQVLDEGIDVPDANVGVIMSGSGSAREYIQRLGRILR 202
>pdb|4A92|A Chain A, Full-Length Hcv Ns3-4a Protease-Helicase In Complex With A
Macrocyclic Protease Inhibitor.
pdb|4A92|B Chain B, Full-Length Hcv Ns3-4a Protease-Helicase In Complex With A
Macrocyclic Protease Inhibitor
Length = 666
Score = 30.0 bits (66), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 12/34 (35%), Positives = 21/34 (61%)
Query: 246 IVFVERKTRCDEVSEALVAEGLHAVALHGGRNQS 279
++F K +CDE++ L G++AVA + G + S
Sbjct: 400 LIFCHSKKKCDELAAKLSGLGINAVAYYRGLDVS 433
>pdb|1CU1|A Chain A, Crystal Structure Of An Enzyme Complex From Hepatitis C
Virus
pdb|1CU1|B Chain B, Crystal Structure Of An Enzyme Complex From Hepatitis C
Virus
Length = 645
Score = 30.0 bits (66), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 12/34 (35%), Positives = 21/34 (61%)
Query: 246 IVFVERKTRCDEVSEALVAEGLHAVALHGGRNQS 279
++F K +CDE++ L G++AVA + G + S
Sbjct: 379 LIFCHSKKKCDELAAKLSGLGINAVAYYRGLDVS 412
>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 = 30.0 bits (66), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 18/60 (30%), Positives = 28/60 (46%), Gaps = 1/60 (1%)
Query: 249 VERKTRCDEVSEALVAEGLHAVALHGGRNQSDRESALRDFRNGSTNILVATDVASRGLDV 308
VE + E LV E A+ HG + + E + DF + N+LV T + G+D+
Sbjct: 822 VENIQKAAERLAELVPEARIAIG-HGQMRERELERVMNDFHHQRFNVLVCTTIIETGIDI 880
>pdb|4B75|A Chain A, Discovery Of An Allosteric Mechanism For The Regulation Of
Hcv Ns3 Protein Function
pdb|4B75|B Chain B, Discovery Of An Allosteric Mechanism For The Regulation Of
Hcv Ns3 Protein Function
Length = 666
Score = 30.0 bits (66), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 12/34 (35%), Positives = 21/34 (61%)
Query: 246 IVFVERKTRCDEVSEALVAEGLHAVALHGGRNQS 279
++F K +CDE++ L G++AVA + G + S
Sbjct: 400 LIFCHSKKKCDELAAKLSGLGINAVAYYRGLDVS 433
>pdb|3O8B|A Chain A, Visualizing Atp-Dependent Rna Translocation By The Ns3
Helicase From Hcv
pdb|3O8B|B Chain B, Visualizing Atp-Dependent Rna Translocation By The Ns3
Helicase From Hcv
pdb|3O8C|A Chain A, Visualizing Atp-Dependent Rna Translocation By The Ns3
Helicase From Hcv
pdb|3O8C|B Chain B, Visualizing Atp-Dependent Rna Translocation By The Ns3
Helicase From Hcv
pdb|3O8D|A Chain A, Visualizing Atp-Dependent Rna Translocation By The Ns3
Helicase From Hcv
pdb|3O8D|B Chain B, Visualizing Atp-Dependent Rna Translocation By The Ns3
Helicase From Hcv
pdb|3O8R|A Chain A, Visualizing Atp-Dependent Rna Translocation By The Ns3
Helicase From Hcv
pdb|3O8R|B Chain B, Visualizing Atp-Dependent Rna Translocation By The Ns3
Helicase From Hcv
pdb|4B71|A Chain A, Discovery Of An Allosteric Mechanism For The Regulation Of
Hcv Ns3 Protein Function
pdb|4B71|B Chain B, Discovery Of An Allosteric Mechanism For The Regulation Of
Hcv Ns3 Protein Function
pdb|4B73|A Chain A, Discovery Of An Allosteric Mechanism For The Regulation Of
Hcv Ns3 Protein Function
pdb|4B73|B Chain B, Discovery Of An Allosteric Mechanism For The Regulation Of
Hcv Ns3 Protein Function
pdb|4B74|A Chain A, Discovery Of An Allosteric Mechanism For The Regulation Of
Hcv Ns3 Protein Function
pdb|4B74|B Chain B, Discovery Of An Allosteric Mechanism For The Regulation Of
Hcv Ns3 Protein Function
pdb|4B76|A Chain A, Discovery Of An Allosteric Mechanism For The Regulation Of
Hcv Ns3 Protein Function
pdb|4B76|B Chain B, Discovery Of An Allosteric Mechanism For The Regulation Of
Hcv Ns3 Protein Function
Length = 666
Score = 30.0 bits (66), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 12/34 (35%), Positives = 21/34 (61%)
Query: 246 IVFVERKTRCDEVSEALVAEGLHAVALHGGRNQS 279
++F K +CDE++ L G++AVA + G + S
Sbjct: 400 LIFCHSKKKCDELAAKLSGLGINAVAYYRGLDVS 433
>pdb|4B6E|A Chain A, Discovery Of An Allosteric Mechanism For The Regulation Of
Hcv Ns3 Protein Function
pdb|4B6E|B Chain B, Discovery Of An Allosteric Mechanism For The Regulation Of
Hcv Ns3 Protein Function
pdb|4B6F|A Chain A, Discovery Of An Allosteric Mechanism For The Regulation Of
Hcv Ns3 Protein Function
pdb|4B6F|B Chain B, Discovery Of An Allosteric Mechanism For The Regulation Of
Hcv Ns3 Protein Function
Length = 683
Score = 30.0 bits (66), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 12/34 (35%), Positives = 21/34 (61%)
Query: 246 IVFVERKTRCDEVSEALVAEGLHAVALHGGRNQS 279
++F K +CDE++ L G++AVA + G + S
Sbjct: 400 LIFCHSKKKCDELAAKLSGLGINAVAYYRGLDVS 433
>pdb|3S9A|A Chain A, Russell's Viper Venom Serine Proteinase, Rvv-V
(Closed-Form)
pdb|3S9B|A Chain A, Russell's Viper Venom Serine Proteinase, Rvv-V (Open-Form)
pdb|3S9C|A Chain A, Russell's Viper Venom Serine Proteinase, Rvv-V In Complex
With The Fragment (Residues 1533-1546) Of Human Factor V
pdb|3SBK|A Chain A, Russell's Viper Venom Serine Proteinase, Rvv-V
(Ppack-Bound Form)
Length = 234
Score = 28.5 bits (62), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 18/53 (33%), Positives = 23/53 (43%), Gaps = 3/53 (5%)
Query: 2 KDIEFHEYTRPTSIQAQAMPVALSGRDL-LG--CAETGSGKTAAFTIPMIQHC 51
KDI RP + PV+L R +G C G GK + T P + HC
Sbjct: 87 KDIMLIRLRRPVTYSTHIAPVSLPSRSRGVGSRCRIMGWGKISTTTYPDVPHC 139
>pdb|3U44|A Chain A, Crystal Structure Of Addab-Dna Complex
pdb|3U4Q|A Chain A, Structure Of Addab-Dna Complex At 2.8 Angstroms
Length = 1232
Score = 28.1 bits (61), Expect = 9.9, Method: Compositional matrix adjust.
Identities = 15/42 (35%), Positives = 21/42 (50%)
Query: 13 TSIQAQAMPVALSGRDLLGCAETGSGKTAAFTIPMIQHCVAQ 54
T Q + +G+D+L A GSGKTA MI+ A+
Sbjct: 10 TWTDDQWNAIVSTGQDILVAAAAGSGKTAVLVERMIRKITAE 51
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
0.317 0.132 0.368
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,740,986
Number of Sequences: 62578
Number of extensions: 397121
Number of successful extensions: 1125
Number of sequences better than 100.0: 122
Number of HSP's better than 100.0 without gapping: 103
Number of HSP's successfully gapped in prelim test: 19
Number of HSP's that attempted gapping in prelim test: 847
Number of HSP's gapped (non-prelim): 143
length of query: 433
length of database: 14,973,337
effective HSP length: 102
effective length of query: 331
effective length of database: 8,590,381
effective search space: 2843416111
effective search space used: 2843416111
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 53 (25.0 bits)