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= 006272
(652 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 = 204 bits (520), Expect = 9e-53, Method: Compositional matrix adjust.
Identities = 130/335 (38%), Positives = 184/335 (54%), Gaps = 17/335 (5%)
Query: 134 PIQAMTFDMVLDGSDLVGRARTGQGKTLAFVLPILESL-TNGP---TKASKKTG-YGR-- 186
P+Q ++ + DL+ A+TG GKT AF+LPIL + ++GP +A K+ G YGR
Sbjct: 40 PVQKHAIPIIKEKRDLMACAQTGSGKTAAFLLPILSQIYSDGPGEALRAMKENGRYGRRK 99
Query: 187 -APSVLVLLPTRELAKQVHEDFDVYGGAVGLTSCCLYGGAPYHAQEFKLKKGIDVVIGTP 245
P LVL PTRELA Q++E+ + + C +YGGA Q L++G +++ TP
Sbjct: 100 QYPISLVLAPTRELAVQIYEEARKFSYRSRVRPCVVYGGADIGQQIRDLERGCHLLVATP 159
Query: 246 GRIKDHIERGNIDLSSLKFRVLDEADEMLRMGFVEDVELILGKVEDANK--VQTLLFSAT 303
GR+ D +ERG I L K+ VLDEAD ML MGF + I+ + K T++FSAT
Sbjct: 160 GRLVDMMERGKIGLDFCKYLVLDEADRMLDMGFEPQIRRIVEQDTMPPKGVRHTMMFSAT 219
Query: 304 LPSWVKHISTKFLKSDKKTIDLVGNEKMKASTNVRHIVLPCSSSARSQVIPDIIRCYSSG 363
P ++ ++ FL + I L S N+ V+ S + + D++
Sbjct: 220 FPKEIQMLARDFL---DEYIFLAVGRVGSTSENITQKVVWVEESDKRSFLLDLLNATGKD 276
Query: 364 GRTIIFTETKESASQLADLL----PGARALHGDIQQSQREVTLAGFRSGKFMTLVATNVA 419
T++F ETK+ A L D L ++HGD Q RE L FRSGK LVAT VA
Sbjct: 277 SLTLVFVETKKGADSLEDFLYHEGYACTSIHGDRSQRDREEALHQFRSGKSPILVATAVA 336
Query: 420 ARGLDINDVQLIIQCEPPRDVEAYIHRSGRTGRAG 454
ARGLDI++V+ +I + P D+E Y+HR GRTGR G
Sbjct: 337 ARGLDISNVKHVINFDLPSDIEEYVHRIGRTGRVG 371
>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 = 203 bits (516), Expect = 3e-52, Method: Compositional matrix adjust.
Identities = 131/359 (36%), Positives = 194/359 (54%), Gaps = 21/359 (5%)
Query: 105 SEHPNAVSRFRISVPLRE----KLKSKGIESLFPIQAMTFDMVLDGSDLVGRARTGQGKT 160
S+ P + F S LR+ + G + PIQ + ++ G DL+ A+TG GKT
Sbjct: 49 SDVPQPIQHF-TSADLRDIIIDNVNKSGYKIPTPIQKCSIPVISSGRDLMACAQTGSGKT 107
Query: 161 LAFVLPILESLTNGPTKASKKTGYGRAPSVLVLLPTRELAKQVHEDFDVYGGAVGLTSCC 220
AF+LPIL L P + GR P V+++ PTRELA Q+ + + L
Sbjct: 108 AAFLLPILSKLLEDPHELE----LGR-PQVVIVSPTRELAIQIFNEARKFAFESYLKIGI 162
Query: 221 LYGGAPYHAQEFKLKKGIDVVIGTPGRIKDHIERGNIDLSSLKFRVLDEADEMLRMGFVE 280
+YGG + Q + +G VVI TPGR+ D ++R I +F VLDEAD ML MGF E
Sbjct: 163 VYGGTSFRHQNECITRGCHVVIATPGRLLDFVDRTFITFEDTRFVVLDEADRMLDMGFSE 222
Query: 281 DVELILGKVEDANKVQTLLFSATLPSWVKHISTKFLKSDK-KTIDLVGNEKMKASTNVRH 339
D+ I+ V + QTL+FSAT P ++ ++ +FLK+ I +VG A ++V+
Sbjct: 223 DMRRIMTHVTMRPEHQTLMFSATFPEEIQRMAGEFLKNYVFVAIGIVGG----ACSDVKQ 278
Query: 340 IVLPCSSSARSQVIPDIIRCYSSGGRTIIFTETKESASQLADLLPGAR----ALHGDIQQ 395
+ + A+ + +I+ + G TI+F ETK A LA L ++HGD Q
Sbjct: 279 TIYEVNKYAKRSKLIEILSEQADG--TIVFVETKRGADFLASFLSEKEFPTTSIHGDRLQ 336
Query: 396 SQREVTLAGFRSGKFMTLVATNVAARGLDINDVQLIIQCEPPRDVEAYIHRSGRTGRAG 454
SQRE L F++G L+AT+VA+RGLDI +++ +I + P ++ Y+HR GRTGR G
Sbjct: 337 SQREQALRDFKNGSMKVLIATSVASRGLDIKNIKHVINYDMPSKIDDYVHRIGRTGRVG 395
>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 = 199 bits (505), Expect = 6e-51, Method: Compositional matrix adjust.
Identities = 124/354 (35%), Positives = 191/354 (53%), Gaps = 25/354 (7%)
Query: 104 ESEHPNAVSRFRISVPLREKLKSKGIESLFPIQAMTFDMVL-DGSDLVGRARTGQGKTLA 162
E E+ N + +S + +++KG E IQ + L D ++V +ARTG GKT +
Sbjct: 2 EVEYXN-FNELNLSDNILNAIRNKGFEKPTDIQXKVIPLFLNDEYNIVAQARTGSGKTAS 60
Query: 163 FVLPILESLTNGPTKASKKTGYGRAPSVLVLLPTRELAKQVHEDFDVYGGAVGLTSCCLY 222
F +P++E + ++L PTRELA QV ++ + G L +Y
Sbjct: 61 FAIPLIELVNEN-----------NGIEAIILTPTRELAIQVADEIESLKGNKNLKIAKIY 109
Query: 223 GGAPYHAQEFKLKKGIDVVIGTPGRIKDHIERGNIDLSSLKFRVLDEADEMLRMGFVEDV 282
GG + Q K K ++V+GTPGRI DHI RG ++L ++K+ +LDEADE L GF++DV
Sbjct: 110 GGKAIYPQ-IKALKNANIVVGTPGRILDHINRGTLNLKNVKYFILDEADEXLNXGFIKDV 168
Query: 283 ELILGKVEDANKVQTLLFSATLPSWVKHISTKFLKSDKKTIDLVGNEKMKASTNVRHIVL 342
E IL ++ LLFSAT P + +++ K+ D I K K + N+ +
Sbjct: 169 EKILNACNKDKRI--LLFSATXPREILNLAKKY-XGDYSFI------KAKINANIEQSYV 219
Query: 343 PCSSSARSQVIPDIIRCYSSGGRTIIFT--ETKESASQLADLLPGARALHGDIQQSQREV 400
+ + R + + +++ G T +TKE AS L D+ A A+HGD+ QSQRE
Sbjct: 220 EVNENERFEALCRLLKNKEFYGLVFCKTKRDTKELASXLRDIGFKAGAIHGDLSQSQREK 279
Query: 401 TLAGFRSGKFMTLVATNVAARGLDINDVQLIIQCEPPRDVEAYIHRSGRTGRAG 454
+ F+ K L+AT+V +RG+D+ND+ +I P++ E+Y HR GRTGRAG
Sbjct: 280 VIRLFKQKKIRILIATDVXSRGIDVNDLNCVINYHLPQNPESYXHRIGRTGRAG 333
>pdb|2Z0M|A Chain A, Crystal Structure Of Hypothetical Atp-Dependent Rna
Helicase From Sulfolobus Tokodaii
Length = 337
Score = 193 bits (490), Expect = 3e-49, Method: Compositional matrix adjust.
Identities = 118/343 (34%), Positives = 183/343 (53%), Gaps = 29/343 (8%)
Query: 120 LREKLKSKGIESLFPIQAMTFDMVLDGSDLVGRARTGQGKTLAFVLPILESLTNGPTKAS 179
+ + ++ G ++ +Q+ T ++L G ++V RA+TG GKT A+ +PILE
Sbjct: 5 IEQAIREMGFKNFTEVQSKTIPLMLQGKNVVVRAKTGSGKTAAYAIPILEL--------- 55
Query: 180 KKTGYGRAPSVLVLLPTRELAKQVHEDFDVYGGAVGLTSCCLYGGAPYHAQEFKLKKGID 239
LV+ PTREL +QV G + +YGG PY AQ +++ D
Sbjct: 56 -------GMKSLVVTPTRELTRQVASHIRDIGRYMDTKVAEVYGGMPYKAQINRVRNA-D 107
Query: 240 VVIGTPGRIKDHIERGNIDLSSLKFRVLDEADEMLRMGFVEDVELILGKVEDANKVQTLL 299
+V+ TPGR+ D +G IDLSS + ++DEAD M MGF++D+++IL + +N+ T L
Sbjct: 108 IVVATPGRLLDLWSKGVIDLSSFEIVIIDEADLMFEMGFIDDIKIILAQT--SNRKITGL 165
Query: 300 FSATLPSWVKHISTKFLKSDKKTIDLVGNEKMKASTNVRHIVLPCSSSARSQVIPDIIRC 359
FSAT+P ++ + F+ + ++ +G NV H + RS+V +R
Sbjct: 166 FSATIPEEIRKVVKDFITNYEEIEACIG------LANVEHKFVHVKDDWRSKV--QALRE 217
Query: 360 YSSGGRTIIFTETKESASQLADLLPGARALHGDIQQSQREVTLAGFRSGKFMTLVATNVA 419
G I+F T+ ++L L A L GD+ QS R + FR G++ L+ T+VA
Sbjct: 218 NKDKG-VIVFVRTRNRVAKLVRLFDNAIELRGDLPQSVRNRNIDAFREGEYDMLITTDVA 276
Query: 420 ARGLDINDVQLIIQCEPPRDVEAYIHRSGRTGRAGVEAAETIT 462
+RGLDI V+ +I + P+D+ YIHR GRTGR G E IT
Sbjct: 277 SRGLDIPLVEKVINFDAPQDLRTYIHRIGRTGRMG-RKGEAIT 318
>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 = 165 bits (418), Expect = 7e-41, Method: Compositional matrix adjust.
Identities = 92/205 (44%), Positives = 122/205 (59%), Gaps = 11/205 (5%)
Query: 114 FRISVPLREKLKSKGIESLFPIQAMTFDMVLDGSDLVGRARTGQGKTLAFVLPILESLTN 173
F + + E L +G+ + PIQA + L+G DL+G+ARTG GKTLAF LPI E L
Sbjct: 6 FPLKPEILEALHGRGLTTPTPIQAAALPLALEGKDLIGQARTGTGKTLAFALPIAERLAP 65
Query: 174 GPTKASKKTGYGRAPSVLVLLPTRELAKQVHEDFDVYGGAVGLTSCCLYGGAPYHAQEFK 233
+ GR P LVL PTRELA QV + A L +YGG Y Q+
Sbjct: 66 SQER-------GRKPRALVLTPTRELALQVASELTAV--APHLKVVAVYGGTGYGKQKEA 116
Query: 234 LKKGIDVVIGTPGRIKDHIERGNIDLSSLKFRVLDEADEMLRMGFVEDVELILGKVEDAN 293
L +G D V+ TPGR D++ +G +DLS ++ VLDEADEML MGF E+VE +L +
Sbjct: 117 LLRGADAVVATPGRALDYLRQGVLDLSRVEVAVLDEADEMLSMGFEEEVEALLSATPPSR 176
Query: 294 KVQTLLFSATLPSWVKHISTKFLKS 318
QTLLFSATLPSW K ++ +++K+
Sbjct: 177 --QTLLFSATLPSWAKRLAERYMKN 199
>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 = 163 bits (413), Expect = 2e-40, Method: Compositional matrix adjust.
Identities = 91/205 (44%), Positives = 122/205 (59%), Gaps = 11/205 (5%)
Query: 114 FRISVPLREKLKSKGIESLFPIQAMTFDMVLDGSDLVGRARTGQGKTLAFVLPILESLTN 173
F + + E L +G+ + PI+A + L+G DL+G+ARTG GKTLAF LPI E L
Sbjct: 6 FPLKPEILEALHGRGLTTPTPIEAAALPLALEGKDLIGQARTGTGKTLAFALPIAERLAP 65
Query: 174 GPTKASKKTGYGRAPSVLVLLPTRELAKQVHEDFDVYGGAVGLTSCCLYGGAPYHAQEFK 233
+ GR P LVL PTRELA QV + A L +YGG Y Q+
Sbjct: 66 SQER-------GRKPRALVLTPTRELALQVASELTAV--APHLKVVAVYGGTGYGKQKEA 116
Query: 234 LKKGIDVVIGTPGRIKDHIERGNIDLSSLKFRVLDEADEMLRMGFVEDVELILGKVEDAN 293
L +G D V+ TPGR D++ +G +DLS ++ VLDEADEML MGF E+VE +L +
Sbjct: 117 LLRGADAVVATPGRALDYLRQGVLDLSRVEVAVLDEADEMLSMGFEEEVEALLSATPPSR 176
Query: 294 KVQTLLFSATLPSWVKHISTKFLKS 318
QTLLFSATLPSW K ++ +++K+
Sbjct: 177 --QTLLFSATLPSWAKRLAERYMKN 199
>pdb|1S2M|A Chain A, Crystal Structure Of The Dead Box Protein Dhh1p
Length = 400
Score = 155 bits (392), Expect = 7e-38, Method: Compositional matrix adjust.
Identities = 109/353 (30%), Positives = 165/353 (46%), Gaps = 27/353 (7%)
Query: 109 NAVSRFRISVPLREKLKSKGIESLFPIQAMTFDMVLDGSDLVGRARTGQGKTLAFVLPIL 168
N F + L + G E PIQ + + G D++ RA+ G GKT AFV+P L
Sbjct: 21 NTFEDFYLKRELLMGIFEAGFEKPSPIQEEAIPVAITGRDILARAKNGTGKTAAFVIPTL 80
Query: 169 ESLTNGPTKASKKTGYGRAPSVLVLLPTRELAKQVHEDFDVYGGAVGLTSCCLYGGAPYH 228
E + K L+++PTRELA Q + G G++ GG
Sbjct: 81 EKVKPKLNKIQ----------ALIMVPTRELALQTSQVVRTLGKHCGISCMVTTGGTNLR 130
Query: 229 AQEFKLKKGIDVVIGTPGRIKDHIERGNIDLSSLKFRVLDEADEMLRMGFVEDVELILGK 288
+L + + +++GTPGR+ D R DLS ++DEAD+ML F +E IL
Sbjct: 131 DDILRLNETVHILVGTPGRVLDLASRKVADLSDCSLFIMDEADKMLSRDFKTIIEQILSF 190
Query: 289 VEDANKVQTLLFSATLPSWVKHISTKFLKSDKKTIDLVGNEKMKASTNVRHIV-----LP 343
+ + Q+LLFSAT P VK K L + I+L+ +K T V L
Sbjct: 191 LPPTH--QSLLFSATFPLTVKEFMVKHLHKPYE-INLMEELTLKGITQYYAFVEERQKLH 247
Query: 344 CSSS--ARSQVIPDIIRCYSSGGRTIIFTETKESASQLADLLPGARALHGDIQQSQREVT 401
C ++ ++ Q+ II C S+ ++ A ++ DL H ++Q +R
Sbjct: 248 CLNTLFSKLQINQAIIFCNSTNRVELL-------AKKITDLGYSCYYSHARMKQQERNKV 300
Query: 402 LAGFRSGKFMTLVATNVAARGLDINDVQLIIQCEPPRDVEAYIHRSGRTGRAG 454
FR GK TLV +++ RG+DI V ++I + P+ E Y+HR GR+GR G
Sbjct: 301 FHEFRQGKVRTLVCSDLLTRGIDIQAVNVVINFDFPKTAETYLHRIGRSGRFG 353
>pdb|2J0U|B Chain B, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 153 bits (386), Expect = 3e-37, Method: Compositional matrix adjust.
Identities = 112/346 (32%), Positives = 167/346 (48%), Gaps = 23/346 (6%)
Query: 117 SVPLREKL----KSKGIESLFPIQAMTFDMVLDGSDLVGRARTGQGKTLAFVLPILESLT 172
++ LRE L + G E IQ ++ G D++ ++++G GKT F + +L+ L
Sbjct: 5 TMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSVSVLQCLD 64
Query: 173 NGPTKASKKTGYGRAPSVLVLLPTRELAKQVHEDFDVYGGAVGLTSCCLYGGAPYHAQEF 232
R L+L PTRELA QV + G + + S GG
Sbjct: 65 IQV----------RETQALILAPTRELAVQVQKGLLALGDYMNVQSHACIGGTNVGEDIR 114
Query: 233 KLKKGIDVVIGTPGRIKDHIERGNIDLSSLKFRVLDEADEMLRMGFVEDVELILGKVEDA 292
KL G VV GTPGR+ D I R ++ ++K VLDEADEML GF E + + + A
Sbjct: 115 KLDYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPA 174
Query: 293 NKVQTLLFSATLPSWVKHISTKFLKSDKKTIDLVGNEKMKASTNVRHIVLPCSSSARSQV 352
Q +L SATLP V ++ KF+ + LV +++ + V +
Sbjct: 175 T--QVVLISATLPHEVLEMTNKFMTDPIRI--LVKRDELTLEGIKQFFVAVEREEWKFDT 230
Query: 353 IPDIIRCYSSGGRTIIFTETKESASQLADLLPGAR----ALHGDIQQSQREVTLAGFRSG 408
+ D+ + + +IF TK L + + A ++HGD+ Q +RE + FRSG
Sbjct: 231 LCDLYDTLTI-TQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSG 289
Query: 409 KFMTLVATNVAARGLDINDVQLIIQCEPPRDVEAYIHRSGRTGRAG 454
L++T+V ARGLD+ V LII + P + E YIHR GR+GR G
Sbjct: 290 ASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYG 335
>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 = 151 bits (382), Expect = 9e-37, Method: Compositional matrix adjust.
Identities = 109/346 (31%), Positives = 167/346 (48%), Gaps = 23/346 (6%)
Query: 117 SVPLREKL----KSKGIESLFPIQAMTFDMVLDGSDLVGRARTGQGKTLAFVLPILESLT 172
++ LRE L + G E IQ ++ G D++ ++++G GKT F + +L+ L
Sbjct: 42 TMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQCLD 101
Query: 173 NGPTKASKKTGYGRAPSVLVLLPTRELAKQVHEDFDVYGGAVGLTSCCLYGGAPYHAQEF 232
R L+L PTRELA Q+ + G + + GG
Sbjct: 102 IQV----------RETQALILAPTRELAVQIQKGLLALGDYMNVQCHACIGGTNVGEDIR 151
Query: 233 KLKKGIDVVIGTPGRIKDHIERGNIDLSSLKFRVLDEADEMLRMGFVEDVELILGKVEDA 292
KL G VV GTPGR+ D I R ++ ++K VLDEADEML GF E + + + A
Sbjct: 152 KLDYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPA 211
Query: 293 NKVQTLLFSATLPSWVKHISTKFLKSDKKTIDLVGNEKMKASTNVRHIVLPCSSSARSQV 352
+V +L SATLP + ++ KF+ + LV +++ + V +
Sbjct: 212 TQV--VLISATLPHEILEMTNKFMTDPIRI--LVKRDELTLEGIKQFFVAVEREEWKFDT 267
Query: 353 IPDIIRCYSSGGRTIIFTETKESASQLADLLPGAR----ALHGDIQQSQREVTLAGFRSG 408
+ D+ + + +IF TK L + + A ++HGD+ Q +RE + FRSG
Sbjct: 268 LCDLYDTLTIT-QAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSG 326
Query: 409 KFMTLVATNVAARGLDINDVQLIIQCEPPRDVEAYIHRSGRTGRAG 454
L++T+V ARGLD+ V LII + P + E YIHR GR+GR G
Sbjct: 327 ASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYG 372
>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 = 151 bits (382), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 109/346 (31%), Positives = 167/346 (48%), Gaps = 23/346 (6%)
Query: 117 SVPLREKL----KSKGIESLFPIQAMTFDMVLDGSDLVGRARTGQGKTLAFVLPILESLT 172
++ LRE L + G E IQ ++ G D++ ++++G GKT F + +L+ L
Sbjct: 41 TMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQCLD 100
Query: 173 NGPTKASKKTGYGRAPSVLVLLPTRELAKQVHEDFDVYGGAVGLTSCCLYGGAPYHAQEF 232
R L+L PTRELA Q+ + G + + GG
Sbjct: 101 IQV----------RETQALILAPTRELAVQIQKGLLALGDYMNVQCHACIGGTNVGEDIR 150
Query: 233 KLKKGIDVVIGTPGRIKDHIERGNIDLSSLKFRVLDEADEMLRMGFVEDVELILGKVEDA 292
KL G VV GTPGR+ D I R ++ ++K VLDEADEML GF E + + + A
Sbjct: 151 KLDYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPA 210
Query: 293 NKVQTLLFSATLPSWVKHISTKFLKSDKKTIDLVGNEKMKASTNVRHIVLPCSSSARSQV 352
+V +L SATLP + ++ KF+ + LV +++ + V +
Sbjct: 211 TQV--VLISATLPHEILEMTNKFMTDPIRI--LVKRDELTLEGIKQFFVAVEREEWKFDT 266
Query: 353 IPDIIRCYSSGGRTIIFTETKESASQLADLLPGAR----ALHGDIQQSQREVTLAGFRSG 408
+ D+ + + +IF TK L + + A ++HGD+ Q +RE + FRSG
Sbjct: 267 LCDLYDTLTIT-QAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSG 325
Query: 409 KFMTLVATNVAARGLDINDVQLIIQCEPPRDVEAYIHRSGRTGRAG 454
L++T+V ARGLD+ V LII + P + E YIHR GR+GR G
Sbjct: 326 ASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYG 371
>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 = 151 bits (382), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 109/346 (31%), Positives = 167/346 (48%), Gaps = 23/346 (6%)
Query: 117 SVPLREKL----KSKGIESLFPIQAMTFDMVLDGSDLVGRARTGQGKTLAFVLPILESLT 172
++ LRE L + G E IQ ++ G D++ ++++G GKT F + +L+ L
Sbjct: 20 TMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQCLD 79
Query: 173 NGPTKASKKTGYGRAPSVLVLLPTRELAKQVHEDFDVYGGAVGLTSCCLYGGAPYHAQEF 232
R L+L PTRELA Q+ + G + + GG
Sbjct: 80 IQV----------RETQALILAPTRELAVQIQKGLLALGDYMNVQCHACIGGTNVGEDIR 129
Query: 233 KLKKGIDVVIGTPGRIKDHIERGNIDLSSLKFRVLDEADEMLRMGFVEDVELILGKVEDA 292
KL G VV GTPGR+ D I R ++ ++K VLDEADEML GF E + + + A
Sbjct: 130 KLDYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPA 189
Query: 293 NKVQTLLFSATLPSWVKHISTKFLKSDKKTIDLVGNEKMKASTNVRHIVLPCSSSARSQV 352
+V +L SATLP + ++ KF+ + LV +++ + V +
Sbjct: 190 TQV--VLISATLPHEILEMTNKFMTDPIRI--LVKRDELTLEGIKQFFVAVEREEWKFDT 245
Query: 353 IPDIIRCYSSGGRTIIFTETKESASQLADLLPGAR----ALHGDIQQSQREVTLAGFRSG 408
+ D+ + + +IF TK L + + A ++HGD+ Q +RE + FRSG
Sbjct: 246 LCDLYDTLTIT-QAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSG 304
Query: 409 KFMTLVATNVAARGLDINDVQLIIQCEPPRDVEAYIHRSGRTGRAG 454
L++T+V ARGLD+ V LII + P + E YIHR GR+GR G
Sbjct: 305 ASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYG 350
>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 = 151 bits (382), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 109/346 (31%), Positives = 167/346 (48%), Gaps = 23/346 (6%)
Query: 117 SVPLREKL----KSKGIESLFPIQAMTFDMVLDGSDLVGRARTGQGKTLAFVLPILESLT 172
++ LRE L + G E IQ ++ G D++ ++++G GKT F + +L+ L
Sbjct: 42 TMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQCLD 101
Query: 173 NGPTKASKKTGYGRAPSVLVLLPTRELAKQVHEDFDVYGGAVGLTSCCLYGGAPYHAQEF 232
R L+L PTRELA Q+ + G + + GG
Sbjct: 102 IQV----------RETQALILAPTRELAVQIQKGLLALGDYMNVQCHACIGGTNVGEDIR 151
Query: 233 KLKKGIDVVIGTPGRIKDHIERGNIDLSSLKFRVLDEADEMLRMGFVEDVELILGKVEDA 292
KL G VV GTPGR+ D I R ++ ++K VLDEADEML GF E + + + A
Sbjct: 152 KLDYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPA 211
Query: 293 NKVQTLLFSATLPSWVKHISTKFLKSDKKTIDLVGNEKMKASTNVRHIVLPCSSSARSQV 352
+V +L SATLP + ++ KF+ + LV +++ + V +
Sbjct: 212 TQV--VLISATLPHEILEMTNKFMTDPIRI--LVKRDELTLEGIKQFFVAVEREEWKFDT 267
Query: 353 IPDIIRCYSSGGRTIIFTETKESASQLADLLPGAR----ALHGDIQQSQREVTLAGFRSG 408
+ D+ + + +IF TK L + + A ++HGD+ Q +RE + FRSG
Sbjct: 268 LCDLYDTLTIT-QAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSG 326
Query: 409 KFMTLVATNVAARGLDINDVQLIIQCEPPRDVEAYIHRSGRTGRAG 454
L++T+V ARGLD+ V LII + P + E YIHR GR+GR G
Sbjct: 327 ASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYG 372
>pdb|2J0U|A Chain A, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 151 bits (381), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 110/346 (31%), Positives = 166/346 (47%), Gaps = 23/346 (6%)
Query: 117 SVPLREKL----KSKGIESLFPIQAMTFDMVLDGSDLVGRARTGQGKTLAFVLPILESLT 172
++ LRE L + G E IQ ++ G D++ ++++G GKT F + +L+ L
Sbjct: 5 TMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSVSVLQCLD 64
Query: 173 NGPTKASKKTGYGRAPSVLVLLPTRELAKQVHEDFDVYGGAVGLTSCCLYGGAPYHAQEF 232
R L+L PTRELA QV + G + + GG
Sbjct: 65 IQV----------RETQALILAPTRELAVQVQKGLLALGDYMNVQCHACIGGTNVGEDIR 114
Query: 233 KLKKGIDVVIGTPGRIKDHIERGNIDLSSLKFRVLDEADEMLRMGFVEDVELILGKVEDA 292
KL G VV GTPGR+ D I R ++ ++K VLDEADEML GF E + + + A
Sbjct: 115 KLDYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPA 174
Query: 293 NKVQTLLFSATLPSWVKHISTKFLKSDKKTIDLVGNEKMKASTNVRHIVLPCSSSARSQV 352
Q +L SATLP + ++ KF+ + LV +++ + V +
Sbjct: 175 T--QVVLISATLPHEILEMTNKFMTDPIRI--LVKRDELTLEGIKQFFVAVEREEWKFDT 230
Query: 353 IPDIIRCYSSGGRTIIFTETKESASQLADLLPGAR----ALHGDIQQSQREVTLAGFRSG 408
+ D+ + + +IF TK L + + A ++HGD+ Q +RE + FRSG
Sbjct: 231 LCDLYDTLTIT-QAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSG 289
Query: 409 KFMTLVATNVAARGLDINDVQLIIQCEPPRDVEAYIHRSGRTGRAG 454
L++T+V ARGLD+ V LII + P + E YIHR GR+GR G
Sbjct: 290 ASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYG 335
>pdb|3SQX|A Chain A, Structure Of Mss116p (Nte And C-Tail Double Deletion)
Bound To Ssrna And Amp-Pnp
Length = 512
Score = 147 bits (372), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 111/363 (30%), Positives = 176/363 (48%), Gaps = 32/363 (8%)
Query: 132 LFPIQAMTFDMVL--DGSDLVGRARTGQGKTLAFVLPILESLTNGPTKASKKTGYGRAPS 189
L P+Q T +L + D++ RA+TG GKT AF++PI + L N K
Sbjct: 44 LTPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIFQHLINT------KFDSQYMVK 97
Query: 190 VLVLLPTRELAKQVHEDF----DVYGGAVGLTSCCLYGGAPYHAQEFKLKK-GIDVVIGT 244
+++ PTR+LA Q+ + D+ G L GG + A K+ K ++VI T
Sbjct: 98 AVIVAPTRDLALQIEAEVKKIHDMNYGLKKYACVSLVGGTDFRAAMNKMNKLRPNIVIAT 157
Query: 245 PGRIKDHIER-GNIDLSSLKFRVLDEADEMLRMGFVEDVELILGKVEDAN-----KVQTL 298
PGR+ D +E+ N + ++VLDEAD +L +GF +D+E I G + + N ++TL
Sbjct: 158 PGRLIDVLEKYSNKFFRFVDYKVLDEADRLLEIGFRDDLETISGILNEKNSKSADNIKTL 217
Query: 299 LFSATLPSWVKHISTKFL-KSDKKTIDLVGNEKMKASTNVRHIVLPCSSSARS-----QV 352
LFSATL V+ ++ + K + +D V + +A + V+ A S +
Sbjct: 218 LFSATLDDKVQKLANNIMNKKECLFLDTVDKNEPEAHERIDQSVVISEKFANSIFAAVEH 277
Query: 353 IPDIIRCYSSGGRTIIFTETKESASQLADLLPGARA-------LHGDIQQSQREVTLAGF 405
I I+ S + IIF T + S L +L HG I Q++R + F
Sbjct: 278 IKKQIKERDSNYKAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQNKRTSLVKRF 337
Query: 406 RSGKFMTLVATNVAARGLDINDVQLIIQCEPPRDVEAYIHRSGRTGRAGVEAAETITQVS 465
+ + LV T+V ARG+D +V ++Q P ++ YIHR GRT R+G E + +
Sbjct: 338 KKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEGSSVLFICK 397
Query: 466 DSV 468
D +
Sbjct: 398 DEL 400
>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 = 147 bits (372), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 111/363 (30%), Positives = 176/363 (48%), Gaps = 32/363 (8%)
Query: 132 LFPIQAMTFDMVL--DGSDLVGRARTGQGKTLAFVLPILESLTNGPTKASKKTGYGRAPS 189
L P+Q T +L + D++ RA+TG GKT AF++PI + L N K
Sbjct: 95 LTPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIFQHLINT------KFDSQYMVK 148
Query: 190 VLVLLPTRELAKQVHED----FDVYGGAVGLTSCCLYGGAPYHAQEFKLKK-GIDVVIGT 244
+++ PTR+LA Q+ + D+ G L GG + A K+ K ++VI T
Sbjct: 149 AVIVAPTRDLALQIEAEVKKIHDMNYGLKKYACVSLVGGTDFRAAMNKMNKLRPNIVIAT 208
Query: 245 PGRIKDHIER-GNIDLSSLKFRVLDEADEMLRMGFVEDVELILGKVEDAN-----KVQTL 298
PGR+ D +E+ N + ++VLDEAD +L +GF +D+E I G + + N ++TL
Sbjct: 209 PGRLIDVLEKYSNKFFRFVDYKVLDEADRLLEIGFRDDLETISGILNEKNSKSADNIKTL 268
Query: 299 LFSATLPSWVKHISTKFL-KSDKKTIDLVGNEKMKASTNVRHIVLPCSSSARS-----QV 352
LFSATL V+ ++ + K + +D V + +A + V+ A S +
Sbjct: 269 LFSATLDDKVQKLANNIMNKKECLFLDTVDKNEPEAHERIDQSVVISEKFANSIFAAVEH 328
Query: 353 IPDIIRCYSSGGRTIIFTETKESASQLADLLPGARA-------LHGDIQQSQREVTLAGF 405
I I+ S + IIF T + S L +L HG I Q++R + F
Sbjct: 329 IKKQIKERDSNYKAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQNKRTSLVKRF 388
Query: 406 RSGKFMTLVATNVAARGLDINDVQLIIQCEPPRDVEAYIHRSGRTGRAGVEAAETITQVS 465
+ + LV T+V ARG+D +V ++Q P ++ YIHR GRT R+G E + +
Sbjct: 389 KKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEGSSVLFICK 448
Query: 466 DSV 468
D +
Sbjct: 449 DEL 451
>pdb|3SQW|A Chain A, Structure Of Mss116p (Nte Deletion) Bound To Ssrna And
Amp-Pnp
Length = 579
Score = 147 bits (371), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 111/363 (30%), Positives = 176/363 (48%), Gaps = 32/363 (8%)
Query: 132 LFPIQAMTFDMVL--DGSDLVGRARTGQGKTLAFVLPILESLTNGPTKASKKTGYGRAPS 189
L P+Q T +L + D++ RA+TG GKT AF++PI + L N K
Sbjct: 44 LTPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIFQHLINT------KFDSQYMVK 97
Query: 190 VLVLLPTRELAKQVHED----FDVYGGAVGLTSCCLYGGAPYHAQEFKLKK-GIDVVIGT 244
+++ PTR+LA Q+ + D+ G L GG + A K+ K ++VI T
Sbjct: 98 AVIVAPTRDLALQIEAEVKKIHDMNYGLKKYACVSLVGGTDFRAAMNKMNKLRPNIVIAT 157
Query: 245 PGRIKDHIER-GNIDLSSLKFRVLDEADEMLRMGFVEDVELILGKVEDAN-----KVQTL 298
PGR+ D +E+ N + ++VLDEAD +L +GF +D+E I G + + N ++TL
Sbjct: 158 PGRLIDVLEKYSNKFFRFVDYKVLDEADRLLEIGFRDDLETISGILNEKNSKSADNIKTL 217
Query: 299 LFSATLPSWVKHISTKFL-KSDKKTIDLVGNEKMKASTNVRHIVLPCSSSARS-----QV 352
LFSATL V+ ++ + K + +D V + +A + V+ A S +
Sbjct: 218 LFSATLDDKVQKLANNIMNKKECLFLDTVDKNEPEAHERIDQSVVISEKFANSIFAAVEH 277
Query: 353 IPDIIRCYSSGGRTIIFTETKESASQLADLLPGARA-------LHGDIQQSQREVTLAGF 405
I I+ S + IIF T + S L +L HG I Q++R + F
Sbjct: 278 IKKQIKERDSNYKAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQNKRTSLVKRF 337
Query: 406 RSGKFMTLVATNVAARGLDINDVQLIIQCEPPRDVEAYIHRSGRTGRAGVEAAETITQVS 465
+ + LV T+V ARG+D +V ++Q P ++ YIHR GRT R+G E + +
Sbjct: 338 KKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEGSSVLFICK 397
Query: 466 DSV 468
D +
Sbjct: 398 DEL 400
>pdb|3EIQ|A Chain A, Crystal Structure Of Pdcd4-eif4a
pdb|3EIQ|D Chain D, Crystal Structure Of Pdcd4-eif4a
Length = 414
Score = 140 bits (353), Expect = 2e-33, Method: Compositional matrix adjust.
Identities = 102/352 (28%), Positives = 170/352 (48%), Gaps = 22/352 (6%)
Query: 101 ERGESEHPNAVSRFRISVPLREKLKSKGIESLFPIQAMTFDMVLDGSDLVGRARTGQGKT 160
E +E ++ +S L + + G E IQ + G D++ +A++G GKT
Sbjct: 32 ESNWNEIVDSFDDMNLSESLLRGIYAYGFEKPSAIQQRAILPCIKGYDVIAQAQSGTGKT 91
Query: 161 LAFVLPILESLTNGPTKASKKTGYGRAPSVLVLLPTRELAKQVHEDFDVYGGAVGLTSCC 220
F + IL+ + +A LVL PTRELA+Q+ + G +G +
Sbjct: 92 ATFAISILQQIELDL----------KATQALVLAPTRELAQQIQKVVMALGDYMGASCHA 141
Query: 221 LYGGAPYHAQEFKLK-KGIDVVIGTPGRIKDHIERGNIDLSSLKFRVLDEADEMLRMGFV 279
GG A+ KL+ + +++GTPGR+ D + R + +K VLDEADEML GF
Sbjct: 142 CIGGTNVRAEVQKLQMEAPHIIVGTPGRVFDMLNRRYLSPKYIKMFVLDEADEMLSRGFK 201
Query: 280 EDVELILGKVEDANKVQTLLFSATLPSWVKHISTKFLKSDKKTIDLVGNEKMKASTNVRH 339
+ + I K+ + Q +L SAT+PS V ++ KF++ + LV E++ +R
Sbjct: 202 DQIYDIFQKLN--SNTQVVLLSATMPSDVLEVTKKFMRDPIRI--LVKKEELTLE-GIRQ 256
Query: 340 IVLPCS-SSARSQVIPDIIRCYSSGGRTIIFTETKESASQLADLLPG----ARALHGDIQ 394
+ + + D+ + + +IF T+ L + + A+HGD+
Sbjct: 257 FYINVEREEWKLDTLCDLYETLTIT-QAVIFINTRRKVDWLTEKMHARDFTVSAMHGDMD 315
Query: 395 QSQREVTLAGFRSGKFMTLVATNVAARGLDINDVQLIIQCEPPRDVEAYIHR 446
Q +R+V + FRSG L+ T++ ARG+D+ V L+I + P + E YIHR
Sbjct: 316 QKERDVIMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPTNRENYIHR 367
>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 = 140 bits (352), Expect = 3e-33, Method: Compositional matrix adjust.
Identities = 102/352 (28%), Positives = 170/352 (48%), Gaps = 22/352 (6%)
Query: 101 ERGESEHPNAVSRFRISVPLREKLKSKGIESLFPIQAMTFDMVLDGSDLVGRARTGQGKT 160
E +E ++ +S L + + G E IQ + G D++ +A++G GKT
Sbjct: 6 ESNWNEIVDSFDDMNLSESLLRGIYAYGFEKPSAIQQRAILPCIKGYDVIAQAQSGTGKT 65
Query: 161 LAFVLPILESLTNGPTKASKKTGYGRAPSVLVLLPTRELAKQVHEDFDVYGGAVGLTSCC 220
F + IL+ + +A LVL PTRELA+Q+ + G +G +
Sbjct: 66 ATFAISILQQIELDL----------KATQALVLAPTRELAQQIQKVVMALGDYMGASCHA 115
Query: 221 LYGGAPYHAQEFKLK-KGIDVVIGTPGRIKDHIERGNIDLSSLKFRVLDEADEMLRMGFV 279
GG A+ KL+ + +++GTPGR+ D + R + +K VLDEADEML GF
Sbjct: 116 CIGGTNVRAEVQKLQMEAPHIIVGTPGRVFDMLNRRYLSPKYIKMFVLDEADEMLSRGFK 175
Query: 280 EDVELILGKVEDANKVQTLLFSATLPSWVKHISTKFLKSDKKTIDLVGNEKMKASTNVRH 339
+ + I K+ + Q +L SAT+PS V ++ KF++ + LV E++ +R
Sbjct: 176 DQIYDIFQKLN--SNTQVVLLSATMPSDVLEVTKKFMRDPIRI--LVKKEELTLE-GIRQ 230
Query: 340 IVLPCS-SSARSQVIPDIIRCYSSGGRTIIFTETKESASQLADLLPG----ARALHGDIQ 394
+ + + D+ + + +IF T+ L + + A+HGD+
Sbjct: 231 FYINVEREEWKLDTLCDLYETLTIT-QAVIFINTRRKVDWLTEKMHARDFTVSAMHGDMD 289
Query: 395 QSQREVTLAGFRSGKFMTLVATNVAARGLDINDVQLIIQCEPPRDVEAYIHR 446
Q +R+V + FRSG L+ T++ ARG+D+ V L+I + P + E YIHR
Sbjct: 290 QKERDVIMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPTNRENYIHR 341
>pdb|4A4D|A Chain A, Crystal Structure Of The N-Terminal Domain Of The Human
Dead-Box Rna Helicase Ddx5 (P68)
Length = 253
Score = 136 bits (342), Expect = 4e-32, Method: Compositional matrix adjust.
Identities = 76/183 (41%), Positives = 107/183 (58%), Gaps = 7/183 (3%)
Query: 135 IQAMTFDMVLDGSDLVGRARTGQGKTLAFVLPILESLTNGPTKASKKTGYGRAPSVLVLL 194
IQA + + L G D+VG A+TG GKTL+++LP + + + P G P LVL
Sbjct: 69 IQAQGWPVALSGLDMVGVAQTGSGKTLSYLLPAIVHINHQPFLER-----GDGPICLVLA 123
Query: 195 PTRELAKQVHEDFDVYGGAVGLTSCCLYGGAPYHAQEFKLKKGIDVVIGTPGRIKDHIER 254
PTRELA+QV + Y A L S C+YGGAP Q L++G+++ I TPGR+ D +E
Sbjct: 124 PTRELAQQVQQVAAEYCRACRLKSTCIYGGAPKGPQIRDLERGVEICIATPGRLIDFLEC 183
Query: 255 GNIDLSSLKFRVLDEADEMLRMGFVEDVELILGKVEDANKVQTLLFSATLPSWVKHISTK 314
G +L + VLDEAD ML MGF + I+ ++ QTL++SAT P V+ ++
Sbjct: 184 GKTNLRRTTYLVLDEADRMLDMGFEPQIRKIVDQIRPDR--QTLMWSATWPKEVRQLAED 241
Query: 315 FLK 317
FLK
Sbjct: 242 FLK 244
>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 = 136 bits (342), Expect = 4e-32, Method: Compositional matrix adjust.
Identities = 76/183 (41%), Positives = 107/183 (58%), Gaps = 7/183 (3%)
Query: 135 IQAMTFDMVLDGSDLVGRARTGQGKTLAFVLPILESLTNGPTKASKKTGYGRAPSVLVLL 194
IQA + + L G D+VG A+TG GKTL+++LP + + + P G P LVL
Sbjct: 55 IQAQGWPVALSGLDMVGVAQTGSGKTLSYLLPAIVHINHQPFLER-----GDGPICLVLA 109
Query: 195 PTRELAKQVHEDFDVYGGAVGLTSCCLYGGAPYHAQEFKLKKGIDVVIGTPGRIKDHIER 254
PTRELA+QV + Y A L S C+YGGAP Q L++G+++ I TPGR+ D +E
Sbjct: 110 PTRELAQQVQQVAAEYCRACRLKSTCIYGGAPKGPQIRDLERGVEICIATPGRLIDFLEC 169
Query: 255 GNIDLSSLKFRVLDEADEMLRMGFVEDVELILGKVEDANKVQTLLFSATLPSWVKHISTK 314
G +L + VLDEAD ML MGF + I+ ++ QTL++SAT P V+ ++
Sbjct: 170 GKTNLRRTTYLVLDEADRMLDMGFEPQIRKIVDQIRPDR--QTLMWSATWPKEVRQLAED 227
Query: 315 FLK 317
FLK
Sbjct: 228 FLK 230
>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 = 129 bits (325), Expect = 4e-30, Method: Compositional matrix adjust.
Identities = 92/323 (28%), Positives = 158/323 (48%), Gaps = 20/323 (6%)
Query: 128 GIESLFPIQAMTFDMVLDGSDLVGRARTGQGKTLAFVLPILESLTNGPTKASKKTGYGRA 187
G E IQ +++G D++ +A++G GKT F + L+ + +A
Sbjct: 41 GFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAALQRIDTSV----------KA 90
Query: 188 PSVLVLLPTRELAKQVHEDFDVYGGAVGLTSCCLYGGAPYHAQEFKLKKGIDVVIGTPGR 247
P L+L PTRELA Q+ + + + GG + L+ +V+GTPGR
Sbjct: 91 PQALMLAPTRELALQIQKVVMALAFHMDIKVHACIGGTSFVEDAEGLRDA-QIVVGTPGR 149
Query: 248 IKDHIERGNIDLSSLKFRVLDEADEMLRMGFVEDVELILGKVEDANKVQTLLFSATLPSW 307
+ D+I+R +K +LDEADEML GF E + I + +V +L SAT+P+
Sbjct: 150 VFDNIQRRRFRTDKIKMFILDEADEMLSSGFKEQIYQIFTLLPPTTQV--VLLSATMPND 207
Query: 308 VKHISTKFLKSDKKTIDLVGNEKMKASTNVRHIVLPCSSSARSQVIPDIIRCYSSGGRTI 367
V ++TKF+++ + LV +++ + V + + + D+ S + +
Sbjct: 208 VLEVTTKFMRNPVRI--LVKKDELTLEGIKQFYVNVEEEEYKYECLTDLYDSISVT-QAV 264
Query: 368 IFTETKESASQLADLLPGAR----ALHGDIQQSQREVTLAGFRSGKFMTLVATNVAARGL 423
IF T+ +L L + A++ D+ Q +R+ + FRSG L++T++ ARG+
Sbjct: 265 IFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTIMKEFRSGSSRILISTDLLARGI 324
Query: 424 DINDVQLIIQCEPPRDVEAYIHR 446
D+ V L+I + P + E YIHR
Sbjct: 325 DVQQVSLVINYDLPANKENYIHR 347
>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 = 127 bits (319), Expect = 2e-29, Method: Compositional matrix adjust.
Identities = 73/190 (38%), Positives = 106/190 (55%), Gaps = 13/190 (6%)
Query: 134 PIQAMTFDMVLDGSDLVGRARTGQGKTLAFVLPILESLTNGPTKASK--KTGYGRAPSVL 191
PIQ +L+ D++ A+TG GKT AF++PI+ L + KT Y P L
Sbjct: 48 PIQKNAIPAILEHRDIMACAQTGSGKTAAFLIPIINHLVCQDLNQQRYSKTAY---PKCL 104
Query: 192 VLLPTRELAKQVHEDFDVYGGAVGLTSCCLYGGAPYHAQEFKLKKGIDVVIGTPGRIKDH 251
+L PTRELA Q+ + + L SC +YGGA H+Q +++ G +++ TPGR+ D
Sbjct: 105 ILAPTRELAIQILSESQKFSLNTPLRSCVVYGGADTHSQIREVQMGCHLLVATPGRLVDF 164
Query: 252 IERGNIDLSSLKFRVLDEADEMLRMGFVEDVELILGKVEDAN-----KVQTLLFSATLPS 306
IE+ I L K+ VLDEAD ML MGF + I +E++N QTL+FSAT P
Sbjct: 165 IEKNKISLEFCKYIVLDEADRMLDMGFEPQIRKI---IEESNMPSGINRQTLMFSATFPK 221
Query: 307 WVKHISTKFL 316
++ ++ FL
Sbjct: 222 EIQKLAADFL 231
>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 = 126 bits (316), Expect = 5e-29, Method: Compositional matrix adjust.
Identities = 100/319 (31%), Positives = 156/319 (48%), Gaps = 32/319 (10%)
Query: 148 DLVGRARTGQGKTLAFVLPILESLTNGPTKASKKTGYGRAPSVLVLLPTRELAKQVHEDF 207
+++ ++++G GKT AF L +L + P AS P + L P+RELA+Q E
Sbjct: 46 NMIAQSQSGTGKTAAFSLTMLTRV--NPEDAS--------PQAICLAPSRELARQTLEVV 95
Query: 208 DVYGGAVGLTSCCLYGGAPYHAQEFKLKKGID--VVIGTPGRIKDHIERGNIDLSSLKFR 265
G +TS + + F+ K I+ V++GTPG + D + R + L +K
Sbjct: 96 QEMGKFTKITSQLIVPDS------FEKNKQINAQVIVGTPGTVLDLMRRKLMQLQKIKIF 149
Query: 266 VLDEADEMLRMGFVEDVELILGKVEDANKVQTLLFSATLPSWVKHISTKFLKSDKKTIDL 325
VLDEAD ML + D + I K Q +LFSAT V+ + K + + T++L
Sbjct: 150 VLDEADNMLDQQGLGD-QCIRVKRFLPKDTQLVLFSATFADAVRQYAKKIV-PNANTLEL 207
Query: 326 VGNEKMKASTNVRHIVLPCSSSARSQVIPDIIRCYSSGGRTIIFTETKESASQLADLLPG 385
NE + ++ + + C + A + + + G +IIF TK++A+ L L
Sbjct: 208 QTNEVNVDA--IKQLYMDCKNEADKFDVLTELYGVMTIGSSIIFVATKKTANVLYGKLKS 265
Query: 386 ----ARALHGDIQQSQREVTLAGFRSGKFMTLVATNVAARGLDINDVQLIIQCEPPR--- 438
LHGD+Q +R+ + FR G+ L+ TNV ARG+DI V +++ + P
Sbjct: 266 EGHEVSILHGDLQTQERDRLIDDFREGRSKVLITTNVLARGIDIPTVSMVVNYDLPTLAN 325
Query: 439 ---DVEAYIHRSGRTGRAG 454
D YIHR GRTGR G
Sbjct: 326 GQADPATYIHRIGRTGRFG 344
>pdb|3PEY|A Chain A, S. Cerevisiae Dbp5 Bound To Rna And Adp Bef3
Length = 395
Score = 126 bits (316), Expect = 5e-29, Method: Compositional matrix adjust.
Identities = 100/319 (31%), Positives = 156/319 (48%), Gaps = 32/319 (10%)
Query: 148 DLVGRARTGQGKTLAFVLPILESLTNGPTKASKKTGYGRAPSVLVLLPTRELAKQVHEDF 207
+++ ++++G GKT AF L +L + P AS P + L P+RELA+Q E
Sbjct: 46 NMIAQSQSGTGKTAAFSLTMLTRV--NPEDAS--------PQAICLAPSRELARQTLEVV 95
Query: 208 DVYGGAVGLTSCCLYGGAPYHAQEFKLKKGID--VVIGTPGRIKDHIERGNIDLSSLKFR 265
G +TS + + F+ K I+ V++GTPG + D + R + L +K
Sbjct: 96 QEMGKFTKITSQLIVPDS------FEKNKQINAQVIVGTPGTVLDLMRRKLMQLQKIKIF 149
Query: 266 VLDEADEMLRMGFVEDVELILGKVEDANKVQTLLFSATLPSWVKHISTKFLKSDKKTIDL 325
VLDEAD ML + D + I K Q +LFSAT V+ + K + + T++L
Sbjct: 150 VLDEADNMLDQQGLGD-QCIRVKRFLPKDTQLVLFSATFADAVRQYAKKIV-PNANTLEL 207
Query: 326 VGNEKMKASTNVRHIVLPCSSSARSQVIPDIIRCYSSGGRTIIFTETKESASQLADLLPG 385
NE + ++ + + C + A + + + G +IIF TK++A+ L L
Sbjct: 208 QTNEVNVDA--IKQLYMDCKNEADKFDVLTELYGLMTIGSSIIFVATKKTANVLYGKLKS 265
Query: 386 ----ARALHGDIQQSQREVTLAGFRSGKFMTLVATNVAARGLDINDVQLIIQCEPPR--- 438
LHGD+Q +R+ + FR G+ L+ TNV ARG+DI V +++ + P
Sbjct: 266 EGHEVSILHGDLQTQERDRLIDDFREGRSKVLITTNVLARGIDIPTVSMVVNYDLPTLAN 325
Query: 439 ---DVEAYIHRSGRTGRAG 454
D YIHR GRTGR G
Sbjct: 326 GQADPATYIHRIGRTGRFG 344
>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 = 124 bits (310), Expect = 2e-28, Method: Compositional matrix adjust.
Identities = 72/190 (37%), Positives = 108/190 (56%), Gaps = 7/190 (3%)
Query: 128 GIESLFPIQAMTFDMVLDGSDLVGRARTGQGKTLAFVLPILESLTNGPTKASKKTGYGRA 187
GI PIQ+ + ++L G DL+ A+TG GKTL++++P L + P ++ G
Sbjct: 39 GILKPTPIQSQAWPIILQGIDLIVVAQTGTGKTLSYLMPGFIHLDSQPISREQRNG---- 94
Query: 188 PSVLVLLPTRELAKQVHEDFDVYGGAVGLTSCCLYGGAPYHAQEFKLKKGIDVVIGTPGR 247
P +LVL PTRELA V + Y GL S C+YGG + Q + KG+D++I TPGR
Sbjct: 95 PGMLVLTPTRELALHVEAECSKYSYK-GLKSICIYGGRNRNGQIEDISKGVDIIIATPGR 153
Query: 248 IKDHIERGNIDLSSLKFRVLDEADEMLRMGFVEDVELILGKVEDANKVQTLLFSATLPSW 307
+ D +++L S+ + V+DEAD+ML M F + IL V QT++ SAT P
Sbjct: 154 LNDLQMNNSVNLRSITYLVIDEADKMLDMEFEPQIRKILLDVRPDR--QTVMTSATWPDT 211
Query: 308 VKHISTKFLK 317
V+ ++ +LK
Sbjct: 212 VRQLALSYLK 221
>pdb|1FUU|A Chain A, Yeast Initiation Factor 4a
pdb|1FUU|B Chain B, Yeast Initiation Factor 4a
Length = 394
Score = 122 bits (307), Expect = 5e-28, Method: Compositional matrix adjust.
Identities = 91/323 (28%), Positives = 152/323 (47%), Gaps = 20/323 (6%)
Query: 128 GIESLFPIQAMTFDMVLDGSDLVGRARTGQGKTLAFVLPILESLTNGPTKASKKTGYGRA 187
G E IQ +++G D++ +A++G GKT F + L+ + +A
Sbjct: 40 GFEEPSAIQQRAIXPIIEGHDVLAQAQSGTGKTGTFSIAALQRIDTSV----------KA 89
Query: 188 PSVLVLLPTRELAKQVHEDFDVYGGAVGLTSCCLYGGAPYHAQEFKLKKGIDVVIGTPGR 247
P L L PTRELA Q+ + + GG + L+ +V+GTPGR
Sbjct: 90 PQALXLAPTRELALQIQKVVXALAFHXDIKVHACIGGTSFVEDAEGLRDA-QIVVGTPGR 148
Query: 248 IKDHIERGNIDLSSLKFRVLDEADEMLRMGFVEDVELILGKVEDANKVQTLLFSATLPSW 307
+ D+I+R +K +LDEADE L GF E + I + +V +L SAT P+
Sbjct: 149 VFDNIQRRRFRTDKIKXFILDEADEXLSSGFKEQIYQIFTLLPPTTQV--VLLSATXPND 206
Query: 308 VKHISTKFLKSDKKTIDLVGNEKMKASTNVRHIVLPCSSSARSQVIPDIIRCYSSGGRTI 367
V ++TKF ++ + LV +++ + V + + + D+ S + +
Sbjct: 207 VLEVTTKFXRNPVRI--LVKKDELTLEGIKQFYVNVEEEEYKYECLTDLYDSISVT-QAV 263
Query: 368 IFTETKESASQLADLLPGAR----ALHGDIQQSQREVTLAGFRSGKFMTLVATNVAARGL 423
IF T+ +L L + A++ D+ Q +R+ FRSG L++T++ ARG+
Sbjct: 264 IFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTIXKEFRSGSSRILISTDLLARGI 323
Query: 424 DINDVQLIIQCEPPRDVEAYIHR 446
D+ V L+I + P + E YIHR
Sbjct: 324 DVQQVSLVINYDLPANKENYIHR 346
>pdb|1XTK|A Chain A, Structure Of Decd To Dead Mutation Of Human Uap56
Length = 390
Score = 121 bits (304), Expect = 1e-27, Method: Compositional matrix adjust.
Identities = 104/371 (28%), Positives = 174/371 (46%), Gaps = 23/371 (6%)
Query: 103 GESEHPNAVSRFRISVPLREKLKSKGIESLFPIQAMTFDMVLDGSDLVGRARTGQGKTLA 162
G H + F + L + G E +Q + G D++ +A++G GKT
Sbjct: 1 GSPGHMSGFRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAV 60
Query: 163 FVLPILESLTNGPTKASKKTGYGRAPSVLVLLPTRELAKQVHEDFDVYGGAV-GLTSCCL 221
FVL L+ L P TG SVLV+ TRELA Q+ ++++ + + +
Sbjct: 61 FVLATLQQLE--PV-----TG---QVSVLVMCHTRELAFQISKEYERFSKYMPNVKVAVF 110
Query: 222 YGGAPYHAQEFKLKKGI-DVVIGTPGRIKDHIERGNIDLSSLKFRVLDEADEML-RMGFV 279
+GG E LKK +V+GTPGRI +++L +K +LDEAD+ML ++
Sbjct: 111 FGGLSIKKDEEVLKKNCPHIVVGTPGRILALARNKSLNLKHIKHFILDEADKMLEQLDMR 170
Query: 280 EDVELILGKVEDANKVQTLLFSATLPSWVKHISTKFLKSDKKTIDLVGNEKMKASTNVRH 339
DV+ I ++ Q ++FSATL ++ + KF++ + V +E ++
Sbjct: 171 RDVQEIFRMT--PHEKQVMMFSATLSKEIRPVCRKFMQDPMEI--FVDDETKLTLHGLQQ 226
Query: 340 IVLPCSSSARSQVIPDIIRCYSSGGRTIIFTETKESASQLADLLPG----ARALHGDIQQ 395
+ + +++ + D++ + +IF ++ + LA LL A A+H + Q
Sbjct: 227 YYVKLKDNEKNRKLFDLLDVLEFN-QVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQ 285
Query: 396 SQREVTLAGFRSGKFMTLVATNVAARGLDINDVQLIIQCEPPRDVEAYIHRSGRTGRAGV 455
+R F+ + LVATN+ RG+DI V + + P D + Y+HR R GR G
Sbjct: 286 EERLSRYQQFKDFQRRILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGRFGT 345
Query: 456 EAAETITQVSD 466
+ IT VSD
Sbjct: 346 KGL-AITFVSD 355
>pdb|3FHO|A Chain A, Structure Of S. Pombe Dbp5
pdb|3FHO|B Chain B, Structure Of S. Pombe Dbp5
Length = 508
Score = 120 bits (302), Expect = 2e-27, Method: Compositional matrix adjust.
Identities = 93/320 (29%), Positives = 156/320 (48%), Gaps = 34/320 (10%)
Query: 148 DLVGRARTGQGKTLAFVLPILESLTNGPTKASKKTGYGRAPSVLVLLPTRELAKQVHEDF 207
+++G++++G GKT AF L +L + K P + L P+RELA+Q+ +
Sbjct: 160 NMIGQSQSGTGKTAAFALTMLSRVDASVPK----------PQAICLAPSRELARQIMDVV 209
Query: 208 DVYGGAVGL-TSCCLYGGAPYHAQEFKLKKGIDVVIGTPGRIKDHIERGNIDLSSLKFRV 266
G + T+ + P A K +VIGTPG + D ++R +D +K V
Sbjct: 210 TEMGKYTEVKTAFGIKDSVPKGA-----KIDAQIVIGTPGTVMDLMKRRQLDARDIKVFV 264
Query: 267 LDEADEMLRMGFVEDVELILGKVEDANKVQTLLFSATLPSWVKHISTKFLKSDKKTIDLV 326
LDEAD ML + D + + + N Q +LFSAT V+ + +F + I L
Sbjct: 265 LDEADNMLDQQGLGDQSMRIKHLLPRN-TQIVLFSATFSERVEKYAERF-APNANEIRLK 322
Query: 327 GNEKMKASTNVRHIVLPCSSSARSQVIPDIIRCYS--SGGRTIIFTETKESASQLADLLP 384
E + ++ + + C S + ++ Y + G++IIF + K++A ++A +
Sbjct: 323 TEEL--SVEGIKQLYMDCQSEEHKYNV--LVELYGLLTIGQSIIFCKKKDTAEEIARRMT 378
Query: 385 G----ARALHGDIQQSQREVTLAGFRSGKFMTLVATNVAARGLDINDVQLIIQCEPPRDV 440
L G+++ +QR+ + FR G LV TNV ARG+D++ V L++ + P D
Sbjct: 379 ADGHTVACLTGNLEGAQRDAIMDSFRVGTSKVLVTTNVIARGIDVSQVNLVVNYDMPLDQ 438
Query: 441 ------EAYIHRSGRTGRAG 454
+ Y+HR GRTGR G
Sbjct: 439 AGRPDPQTYLHRIGRTGRFG 458
>pdb|1XTJ|A Chain A, Structure Of Human Uap56 In Complex With Adp
Length = 386
Score = 119 bits (299), Expect = 4e-27, Method: Compositional matrix adjust.
Identities = 99/346 (28%), Positives = 166/346 (47%), Gaps = 23/346 (6%)
Query: 128 GIESLFPIQAMTFDMVLDGSDLVGRARTGQGKTLAFVLPILESLTNGPTKASKKTGYGRA 187
G E +Q + G D++ +A++G GKT FVL L+ L P TG
Sbjct: 27 GFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQLE--PV-----TG---Q 76
Query: 188 PSVLVLLPTRELAKQVHEDFDVYGGAV-GLTSCCLYGGAPYHAQEFKLKKGI-DVVIGTP 245
SVLV+ TRELA Q+ ++++ + + + +GG E LKK +V+GTP
Sbjct: 77 VSVLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEVLKKNCPHIVVGTP 136
Query: 246 GRIKDHIERGNIDLSSLKFRVLDEADEML-RMGFVEDVELILGKVEDANKVQTLLFSATL 304
GRI +++L +K +LDE D+ML ++ DV+ I ++ Q ++FSATL
Sbjct: 137 GRILALARNKSLNLKHIKHFILDECDKMLEQLDMRRDVQEIFRMT--PHEKQVMMFSATL 194
Query: 305 PSWVKHISTKFLKSDKKTIDLVGNEKMKASTNVRHIVLPCSSSARSQVIPDIIRCYSSGG 364
++ + KF++ + V +E ++ + + +++ + D++
Sbjct: 195 SKEIRPVCRKFMQDPMEI--FVDDETKLTLHGLQQYYVKLKDNEKNRKLFDLLDVLEFN- 251
Query: 365 RTIIFTETKESASQLADLLPG----ARALHGDIQQSQREVTLAGFRSGKFMTLVATNVAA 420
+ +IF ++ + LA LL A A+H + Q +R F+ + LVATN+
Sbjct: 252 QVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRILVATNLFG 311
Query: 421 RGLDINDVQLIIQCEPPRDVEAYIHRSGRTGRAGVEAAETITQVSD 466
RG+DI V + + P D + Y+HR R GR G + IT VSD
Sbjct: 312 RGMDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKGL-AITFVSD 356
>pdb|1XTI|A Chain A, Structure Of Wildtype Human Uap56
Length = 391
Score = 119 bits (298), Expect = 6e-27, Method: Compositional matrix adjust.
Identities = 99/346 (28%), Positives = 166/346 (47%), Gaps = 23/346 (6%)
Query: 128 GIESLFPIQAMTFDMVLDGSDLVGRARTGQGKTLAFVLPILESLTNGPTKASKKTGYGRA 187
G E +Q + G D++ +A++G GKT FVL L+ L P TG
Sbjct: 27 GFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQLE--PV-----TG---Q 76
Query: 188 PSVLVLLPTRELAKQVHEDFDVYGGAV-GLTSCCLYGGAPYHAQEFKLKKGI-DVVIGTP 245
SVLV+ TRELA Q+ ++++ + + + +GG E LKK +V+GTP
Sbjct: 77 VSVLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEVLKKNCPHIVVGTP 136
Query: 246 GRIKDHIERGNIDLSSLKFRVLDEADEML-RMGFVEDVELILGKVEDANKVQTLLFSATL 304
GRI +++L +K +LDE D+ML ++ DV+ I ++ Q ++FSATL
Sbjct: 137 GRILALARNKSLNLKHIKHFILDECDKMLEQLDMRRDVQEIFRMT--PHEKQVMMFSATL 194
Query: 305 PSWVKHISTKFLKSDKKTIDLVGNEKMKASTNVRHIVLPCSSSARSQVIPDIIRCYSSGG 364
++ + KF++ + V +E ++ + + +++ + D++
Sbjct: 195 SKEIRPVCRKFMQDPMEI--FVDDETKLTLHGLQQYYVKLKDNEKNRKLFDLLDVLEFN- 251
Query: 365 RTIIFTETKESASQLADLLPG----ARALHGDIQQSQREVTLAGFRSGKFMTLVATNVAA 420
+ +IF ++ + LA LL A A+H + Q +R F+ + LVATN+
Sbjct: 252 QVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRILVATNLFG 311
Query: 421 RGLDINDVQLIIQCEPPRDVEAYIHRSGRTGRAGVEAAETITQVSD 466
RG+DI V + + P D + Y+HR R GR G + IT VSD
Sbjct: 312 RGMDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKGL-AITFVSD 356
>pdb|3BER|A Chain A, Human Dead-Box Rna-Helicase Ddx47, Conserved Domain I In
Complex With Amp
Length = 249
Score = 119 bits (297), Expect = 6e-27, Method: Compositional matrix adjust.
Identities = 73/188 (38%), Positives = 101/188 (53%), Gaps = 13/188 (6%)
Query: 135 IQAMTFDMVLDGSDLVGRARTGQGKTLAFVLPILESLTNGPTKASKKTGYGRAPSVLVLL 194
IQ + L G D++G A TG GKT AF LPIL +L P + LVL
Sbjct: 69 IQIEAIPLALQGRDIIGLAETGSGKTGAFALPILNALLETPQRLF----------ALVLT 118
Query: 195 PTRELAKQVHEDFDVYGGAVGLTSCCLYGGAPYHAQEFKLKKGIDVVIGTPGRIKDHIER 254
PTRELA Q+ E F+ G ++G+ S + GG +Q L K ++I TPGR+ DH+E
Sbjct: 119 PTRELAFQISEQFEALGSSIGVQSAVIVGGIDSMSQSLALAKKPHIIIATPGRLIDHLEN 178
Query: 255 GN-IDLSSLKFRVLDEADEMLRMGFVEDVELILGKVEDANKVQTLLFSATLPSWVKHIST 313
+L +LK+ V+DEAD +L M F +V+ IL + K T LFSAT+ V+ +
Sbjct: 179 TKGFNLRALKYLVMDEADRILNMDFETEVDKILKVIPRDRK--TFLFSATMTKKVQKLQR 236
Query: 314 KFLKSDKK 321
LK+ K
Sbjct: 237 AALKNPVK 244
>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 = 110 bits (274), Expect = 3e-24, Method: Compositional matrix adjust.
Identities = 107/329 (32%), Positives = 150/329 (45%), Gaps = 49/329 (14%)
Query: 148 DLVGRARTGQGKTLAFVLPILESLTNGPTKASKKTGYGRAPSVLVLLPTRELAKQ---VH 204
+L+ ++++G GKT AFVL +L S+ + P L L PT ELA Q V
Sbjct: 133 NLIAQSQSGTGKTAAFVLAML----------SQVEPANKYPQCLCLSPTYELALQTGKVI 182
Query: 205 EDFDVYGGAVGLTSCCLYGGAPYHAQEFKLKKGI----DVVIGTPGRIKDHIERGN-IDL 259
E + + L Y + KL++G +VIGTPG + D + ID
Sbjct: 183 EQMGKFYPELKLA---------YAVRGNKLERGQKISEQIVIGTPGTVLDWCSKLKFIDP 233
Query: 260 SSLKFRVLDEADEMLRMGFVEDVELILGKVEDANKVQTLLFSATLPSWVKHISTKFLKSD 319
+K VLDEAD M+ +D + + ++ N Q LLFSAT V + K + D
Sbjct: 234 KKIKVFVLDEADVMIATQGHQDQSIRIQRMLPRN-CQMLLFSATFEDSVWKFAQKVV-PD 291
Query: 320 KKTIDLVGNEKMKASTNVRHIVLPCSSSARSQVIPDIIRCYSSGGRTI----IFTETKES 375
I L E+ T ++ VL S + Q + C G TI IF T+++
Sbjct: 292 PNVIKL-KREEETLDTIKQYYVLCSSRDEKFQAL-----CNLYGAITIAQAMIFCHTRKT 345
Query: 376 ASQLADLLPG----ARALHGDIQQSQREVTLAGFRSGKFMTLVATNVAARGLDINDVQLI 431
AS LA L L G++ QR + FR GK LV TNV ARG+D+ V ++
Sbjct: 346 ASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFREGKEKVLVTTNVCARGIDVEQVSVV 405
Query: 432 IQCEPPRDV------EAYIHRSGRTGRAG 454
I + P D E Y+HR GRTGR G
Sbjct: 406 INFDLPVDKDGNPDNETYLHRIGRTGRFG 434
>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 = 110 bits (274), Expect = 3e-24, Method: Compositional matrix adjust.
Identities = 107/330 (32%), Positives = 150/330 (45%), Gaps = 49/330 (14%)
Query: 147 SDLVGRARTGQGKTLAFVLPILESLTNGPTKASKKTGYGRAPSVLVLLPTRELAKQ---V 203
+L+ ++++G GKT AFVL +L S+ + P L L PT ELA Q V
Sbjct: 65 QNLIAQSQSGTGKTAAFVLAML----------SQVEPANKYPQCLCLSPTYELALQTGKV 114
Query: 204 HEDFDVYGGAVGLTSCCLYGGAPYHAQEFKLKKGI----DVVIGTPGRIKDHIERGN-ID 258
E + + L Y + KL++G +VIGTPG + D + ID
Sbjct: 115 IEQMGKFYPELKLA---------YAVRGNKLERGQKISEQIVIGTPGTVLDWCSKLKFID 165
Query: 259 LSSLKFRVLDEADEMLRMGFVEDVELILGKVEDANKVQTLLFSATLPSWVKHISTKFLKS 318
+K VLDEAD M+ +D + + ++ N Q LLFSAT V + K +
Sbjct: 166 PKKIKVFVLDEADVMIATQGHQDQSIRIQRMLPRN-CQMLLFSATFEDSVWKFAQKVV-P 223
Query: 319 DKKTIDLVGNEKMKASTNVRHIVLPCSSSARSQVIPDIIRCYSSGGRTI----IFTETKE 374
D I L E+ T ++ VL S + Q + C G TI IF T++
Sbjct: 224 DPNVIKL-KREEETLDTIKQYYVLCSSRDEKFQAL-----CNLYGAITIAQAMIFCHTRK 277
Query: 375 SASQLADLLPG----ARALHGDIQQSQREVTLAGFRSGKFMTLVATNVAARGLDINDVQL 430
+AS LA L L G++ QR + FR GK LV TNV ARG+D+ V +
Sbjct: 278 TASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFREGKEKVLVTTNVCARGIDVEQVSV 337
Query: 431 IIQCEPPRDV------EAYIHRSGRTGRAG 454
+I + P D E Y+HR GRTGR G
Sbjct: 338 VINFDLPVDKDGNPDNETYLHRIGRTGRFG 367
>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 = 110 bits (274), Expect = 3e-24, Method: Compositional matrix adjust.
Identities = 107/329 (32%), Positives = 150/329 (45%), Gaps = 49/329 (14%)
Query: 148 DLVGRARTGQGKTLAFVLPILESLTNGPTKASKKTGYGRAPSVLVLLPTRELAKQ---VH 204
+L+ ++++G GKT AFVL +L S+ + P L L PT ELA Q V
Sbjct: 103 NLIAQSQSGTGKTAAFVLAML----------SQVEPANKYPQCLCLSPTYELALQTGKVI 152
Query: 205 EDFDVYGGAVGLTSCCLYGGAPYHAQEFKLKKGI----DVVIGTPGRIKDHIERGN-IDL 259
E + + L Y + KL++G +VIGTPG + D + ID
Sbjct: 153 EQMGKFYPELKLA---------YAVRGNKLERGQKISEQIVIGTPGTVLDWCSKLKFIDP 203
Query: 260 SSLKFRVLDEADEMLRMGFVEDVELILGKVEDANKVQTLLFSATLPSWVKHISTKFLKSD 319
+K VLDEAD M+ +D + + ++ N Q LLFSAT V + K + D
Sbjct: 204 KKIKVFVLDEADVMIATQGHQDQSIRIQRMLPRN-CQMLLFSATFEDSVWKFAQKVV-PD 261
Query: 320 KKTIDLVGNEKMKASTNVRHIVLPCSSSARSQVIPDIIRCYSSGGRTI----IFTETKES 375
I L E+ T ++ VL S + Q + C G TI IF T+++
Sbjct: 262 PNVIKL-KREEETLDTIKQYYVLCSSRDEKFQAL-----CNLYGAITIAQAMIFCHTRKT 315
Query: 376 ASQLADLLPG----ARALHGDIQQSQREVTLAGFRSGKFMTLVATNVAARGLDINDVQLI 431
AS LA L L G++ QR + FR GK LV TNV ARG+D+ V ++
Sbjct: 316 ASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFREGKEKVLVTTNVCARGIDVEQVSVV 375
Query: 432 IQCEPPRDV------EAYIHRSGRTGRAG 454
I + P D E Y+HR GRTGR G
Sbjct: 376 INFDLPVDKDGNPDNETYLHRIGRTGRFG 404
>pdb|3G0H|A Chain A, Human Dead-box Rna Helicase Ddx19, In Complex With An
Atp-analogue And Rna
Length = 424
Score = 109 bits (273), Expect = 4e-24, Method: Compositional matrix adjust.
Identities = 107/329 (32%), Positives = 150/329 (45%), Gaps = 49/329 (14%)
Query: 148 DLVGRARTGQGKTLAFVLPILESLTNGPTKASKKTGYGRAPSVLVLLPTRELAKQ---VH 204
+L+ ++++G GKT AFVL +L S+ + P L L PT ELA Q V
Sbjct: 82 NLIAQSQSGTGKTAAFVLAML----------SQVEPANKYPQCLCLSPTYELALQTGKVI 131
Query: 205 EDFDVYGGAVGLTSCCLYGGAPYHAQEFKLKKGI----DVVIGTPGRIKDHIERGN-IDL 259
E + + L Y + KL++G +VIGTPG + D + ID
Sbjct: 132 EQMGKFYPELKLA---------YAVRGNKLERGQKISEQIVIGTPGTVLDWCSKLKFIDP 182
Query: 260 SSLKFRVLDEADEMLRMGFVEDVELILGKVEDANKVQTLLFSATLPSWVKHISTKFLKSD 319
+K VLDEAD M+ +D + + ++ N Q LLFSAT V + K + D
Sbjct: 183 KKIKVFVLDEADVMIATQGHQDQSIRIQRMLPRN-CQMLLFSATFEDSVWKFAQKVV-PD 240
Query: 320 KKTIDLVGNEKMKASTNVRHIVLPCSSSARSQVIPDIIRCYSSGGRTI----IFTETKES 375
I L E+ T ++ VL S + Q + C G TI IF T+++
Sbjct: 241 PNVIKL-KREEETLDTIKQYYVLCSSRDEKFQAL-----CNLYGAITIAQAMIFCHTRKT 294
Query: 376 ASQLADLLPG----ARALHGDIQQSQREVTLAGFRSGKFMTLVATNVAARGLDINDVQLI 431
AS LA L L G++ QR + FR GK LV TNV ARG+D+ V ++
Sbjct: 295 ASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFREGKEKVLVTTNVCARGIDVEQVSVV 354
Query: 432 IQCEPPRDV------EAYIHRSGRTGRAG 454
I + P D E Y+HR GRTGR G
Sbjct: 355 INFDLPVDKDGNPDNETYLHRIGRTGRFG 383
>pdb|2PL3|A Chain A, Human Dead-Box Rna Helicase Ddx10, Dead Domain In Complex
With Adp
Length = 236
Score = 99.8 bits (247), Expect = 4e-21, Method: Compositional matrix adjust.
Identities = 73/220 (33%), Positives = 115/220 (52%), Gaps = 15/220 (6%)
Query: 104 ESEHPNAVSRFRISVPLREK----LKSKGIESLFPIQAMTFDMVLDGSDLVGRARTGQGK 159
E + N ++RF PL +K L+ + IQ T + L G D++G A+TG GK
Sbjct: 17 EKINVNEITRFS-DFPLSKKTLKGLQEAQYRLVTEIQKQTIGLALQGKDVLGAAKTGSGK 75
Query: 160 TLAFVLPILESLTNGPTKASKKTGYGRAPSVLVLLPTRELAKQVHEDFDVYGGAVGLTSC 219
TLAF++P+LE+L ++ G VL++ PTRELA Q E G ++
Sbjct: 76 TLAFLVPVLEALYRLQWTSTDGLG------VLIISPTRELAYQTFEVLRKVGKNHDFSAG 129
Query: 220 CLYGGAPYHAQEFKLKKGIDVVIGTPGRIKDHI-ERGNIDLSSLKFRVLDEADEMLRMGF 278
+ GG + ++ I++++ TPGR+ H+ E + + L+ VLDEAD +L MGF
Sbjct: 130 LIIGGKDLKHEAERI-NNINILVCTPGRLLQHMDETVSFHATDLQMLVLDEADRILDMGF 188
Query: 279 VEDVELILGKVEDANKVQTLLFSATLPSWVKHISTKFLKS 318
+ + ++ + K QTLLFSAT VK ++ LK+
Sbjct: 189 ADTMNAVIENL--PKKRQTLLFSATQTKSVKDLARLSLKN 226
>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 = 96.7 bits (239), Expect = 3e-20, Method: Compositional matrix adjust.
Identities = 52/125 (41%), Positives = 70/125 (56%), Gaps = 4/125 (3%)
Query: 334 STNVRHIVLPCSSSARSQVIPDIIRCYSSGGRTIIFTETKESASQLADLLP----GARAL 389
S N+ V+ S + + D++ T++F ETK+ A L D L ++
Sbjct: 17 SENITQKVVWVEESDKRSFLLDLLNATGKDSLTLVFVETKKGADSLEDFLYHEGYACTSI 76
Query: 390 HGDIQQSQREVTLAGFRSGKFMTLVATNVAARGLDINDVQLIIQCEPPRDVEAYIHRSGR 449
HGD Q RE L FRSGK LVAT VAARGLDI++V+ +I + P D+E Y+HR GR
Sbjct: 77 HGDRSQRDREEALHQFRSGKSPILVATAVAARGLDISNVKHVINFDLPSDIEEYVHRIGR 136
Query: 450 TGRAG 454
TGR G
Sbjct: 137 TGRVG 141
>pdb|3BOR|A Chain A, Crystal Structure Of The Deadc Domain Of Human Translation
Initiation Factor 4a-2
Length = 237
Score = 95.9 bits (237), Expect = 6e-20, Method: Compositional matrix adjust.
Identities = 65/195 (33%), Positives = 101/195 (51%), Gaps = 13/195 (6%)
Query: 124 LKSKGIESLFPIQAMTFDMVLDGSDLVGRARTGQGKTLAFVLPILESLTNGPTKASKKTG 183
+ + G E IQ + G D++ +A++G GKT F + IL+ L K+T
Sbjct: 45 IYAYGFEKPSAIQQRAIIPCIKGYDVIAQAQSGTGKTATFAISILQQLE----IEFKET- 99
Query: 184 YGRAPSVLVLLPTRELAKQVHEDFDVYGGAVGLTSCCLYGGAPYHAQEFKLK-KGIDVVI 242
LVL PTRELA+Q+ + G +G T GG + KL+ + +V+
Sbjct: 100 -----QALVLAPTRELAQQIQKVILALGDYMGATCHACIGGTNVRNEMQKLQAEAPHIVV 154
Query: 243 GTPGRIKDHIERGNIDLSSLKFRVLDEADEMLRMGFVEDVELILGKVEDANKVQTLLFSA 302
GTPGR+ D + R + +K VLDEADEML GF + + I K+ + +Q +L SA
Sbjct: 155 GTPGRVFDMLNRRYLSPKWIKMFVLDEADEMLSRGFKDQIYEIFQKLNTS--IQVVLLSA 212
Query: 303 TLPSWVKHISTKFLK 317
T+P+ V ++ KF++
Sbjct: 213 TMPTDVLEVTKKFMR 227
>pdb|3LY5|A Chain A, Ddx18 Dead-Domain
pdb|3LY5|B Chain B, Ddx18 Dead-Domain
Length = 262
Score = 94.0 bits (232), Expect = 2e-19, Method: Compositional matrix adjust.
Identities = 66/197 (33%), Positives = 107/197 (54%), Gaps = 9/197 (4%)
Query: 124 LKSKGIESLFPIQAMTFDMVLDGSDLVGRARTGQGKTLAFVLPILESLTNGPTKASKKTG 183
+K G ++ IQ + +L+G DL+ A+TG GKTLAF++P +E + + + G
Sbjct: 69 IKEMGFTNMTEIQHKSIRPLLEGRDLLAAAKTGSGKTLAFLIPAVELIVK--LRFMPRNG 126
Query: 184 YGRAPSVLVLLPTRELAKQVHEDFDVYGGAVGLTSCCLYGGAPYHAQEFKLKKGIDVVIG 243
G VL+L PTRELA Q T + GG+ A+ KL GI++++
Sbjct: 127 TG----VLILSPTRELAMQTFGVLKELMTHHVHTYGLIMGGSNRSAEAQKLGNGINIIVA 182
Query: 244 TPGRIKDHIERG-NIDLSSLKFRVLDEADEMLRMGFVEDVELILGKVEDANKVQTLLFSA 302
TPGR+ DH++ +L+ V+DEAD +L +GF E+++ I+ + + QT+LFSA
Sbjct: 183 TPGRLLDHMQNTPGFMYKNLQCLVIDEADRILDVGFEEELKQIIKLL--PTRRQTMLFSA 240
Query: 303 TLPSWVKHISTKFLKSD 319
T V+ ++ LK +
Sbjct: 241 TQTRKVEDLARISLKKE 257
>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 = 92.8 bits (229), Expect = 5e-19, Method: Compositional matrix adjust.
Identities = 68/215 (31%), Positives = 106/215 (49%), Gaps = 19/215 (8%)
Query: 107 HPNAVSRFRISVPLREKLKSKGIESLFPIQAMTFDMVLDGSDLVGRARTGQGKTLAFVLP 166
P +S P+ E L++ G E P+Q + G DL+ +A++G GKT F
Sbjct: 22 EPADFESLLLSRPVLEGLRAAGFERPSPVQLKAIPLGRCGLDLIVQAKSGTGKTCVFSTI 81
Query: 167 ILESLT--NGPTKASKKTGYGRAPSVLVLLPTRELAKQVHEDFDVYGGAV-GLTSCCLYG 223
L+SL N T+ +L+L PTRE+A Q+H G + GL G
Sbjct: 82 ALDSLVLENLSTQ------------ILILAPTREIAVQIHSVITAIGIKMEGLECHVFIG 129
Query: 224 GAPYHAQEFKLKKGIDVVIGTPGRIKDHIERGNIDLSSLKFRVLDEADEMLRMG-FVEDV 282
G P + +LKK + +G+PGRIK IE ++ S++ +LDEAD++L G F E +
Sbjct: 130 GTPLSQDKTRLKK-CHIAVGSPGRIKQLIELDYLNPGSIRLFILDEADKLLEEGSFQEQI 188
Query: 283 ELILGKVEDANKVQTLLFSATLPSWVKHISTKFLK 317
I + + Q L SAT P ++ + TK+++
Sbjct: 189 NWIYSSLPASK--QMLAVSATYPEFLANALTKYMR 221
>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 = 90.5 bits (223), Expect = 3e-18, Method: Compositional matrix adjust.
Identities = 68/211 (32%), Positives = 101/211 (47%), Gaps = 16/211 (7%)
Query: 112 SRFRISVPLREKLKSKGIESLFPIQAMTFDMVLDGSDLVGRARTGQGKTLAFVLPILESL 171
+RF + E +K+ IQ L G VG+++TG GKT A++LPI E +
Sbjct: 7 TRFPFQPFIIEAIKTLRFYKPTEIQERIIPGALRGESXVGQSQTGTGKTHAYLLPIXEKI 66
Query: 172 TNGPTKASKKTGYGRAPSVLVLLPTRELAKQV-HEDFDVYGGAVG---LTSCCLYGGAPY 227
P +A + ++ PTRELA Q+ HE + + + CL GG
Sbjct: 67 --KPERAEVQA--------VITAPTRELATQIYHETLKITKFCPKDRXIVARCLIGGTDK 116
Query: 228 HAQEFKLKKGIDVVIGTPGRIKDHIERGNIDLSSLKFRVLDEADEMLRMGFVEDVELILG 287
KL +VIGTPGRI D I +D+ + V+DEAD L GF+ DV+ I
Sbjct: 117 QKALEKLNVQPHIVIGTPGRINDFIREQALDVHTAHILVVDEADLXLDXGFITDVDQIAA 176
Query: 288 KVEDANKVQTLLFSATLPSWVKHISTKFLKS 318
+ +Q L+FSAT+P +K K+ ++
Sbjct: 177 RX--PKDLQXLVFSATIPEKLKPFLKKYXEN 205
>pdb|1QVA|A Chain A, Yeast Initiation Factor 4a N-Terminal Domain
Length = 223
Score = 90.5 bits (223), Expect = 3e-18, Method: Compositional matrix adjust.
Identities = 59/191 (30%), Positives = 96/191 (50%), Gaps = 13/191 (6%)
Query: 128 GIESLFPIQAMTFDMVLDGSDLVGRARTGQGKTLAFVLPILESLTNGPTKASKKTGYGRA 187
G E IQ +++G D++ +A++G GKT F + L+ + +A
Sbjct: 40 GFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAALQRIDTSV----------KA 89
Query: 188 PSVLVLLPTRELAKQVHEDFDVYGGAVGLTSCCLYGGAPYHAQEFKLKKGIDVVIGTPGR 247
P L+L PTRELA Q+ + + + GG + L+ +V+GTPGR
Sbjct: 90 PQALMLAPTRELALQIQKVVMALAFHMDIKVHACIGGTSFVEDAEGLRDA-QIVVGTPGR 148
Query: 248 IKDHIERGNIDLSSLKFRVLDEADEMLRMGFVEDVELILGKVEDANKVQTLLFSATLPSW 307
+ D+I+R +K +LDEADEML GF E + I + +V +L SAT+P+
Sbjct: 149 VFDNIQRRRFRTDKIKMFILDEADEMLSSGFKEQIYQIFTLLPPTTQV--VLLSATMPND 206
Query: 308 VKHISTKFLKS 318
V ++TKF+++
Sbjct: 207 VLEVTTKFMRN 217
>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 = 90.1 bits (222), Expect = 3e-18, Method: Compositional matrix adjust.
Identities = 59/191 (30%), Positives = 96/191 (50%), Gaps = 13/191 (6%)
Query: 128 GIESLFPIQAMTFDMVLDGSDLVGRARTGQGKTLAFVLPILESLTNGPTKASKKTGYGRA 187
G E IQ +++G D++ +A++G GKT F + L+ + +A
Sbjct: 33 GFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAALQRIDTSV----------KA 82
Query: 188 PSVLVLLPTRELAKQVHEDFDVYGGAVGLTSCCLYGGAPYHAQEFKLKKGIDVVIGTPGR 247
P L+L PTRELA Q+ + + + GG + L+ +V+GTPGR
Sbjct: 83 PQALMLAPTRELALQIQKVVMALAFHMDIKVHACIGGTSFVEDAEGLRDA-QIVVGTPGR 141
Query: 248 IKDHIERGNIDLSSLKFRVLDEADEMLRMGFVEDVELILGKVEDANKVQTLLFSATLPSW 307
+ D+I+R +K +LDEADEML GF E + I + +V +L SAT+P+
Sbjct: 142 VFDNIQRRRFRTDKIKMFILDEADEMLSSGFKEQIYQIFTLLPPTTQV--VLLSATMPND 199
Query: 308 VKHISTKFLKS 318
V ++TKF+++
Sbjct: 200 VLEVTTKFMRN 210
>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 = 87.8 bits (216), Expect = 2e-17, Method: Compositional matrix adjust.
Identities = 71/195 (36%), Positives = 99/195 (50%), Gaps = 23/195 (11%)
Query: 128 GIESLFPIQAMTFDMVLDGSDLVGRARTGQGKTLAFVLPILESLTNGPTKASKKTGYGRA 187
G E PIQ + + L G D++ RA+ G GK+ A+++P+LE L KK
Sbjct: 22 GWEKPSPIQEESIPIALSGRDILARAKNGTGKSGAYLIPLLERLD------LKKDNI--- 72
Query: 188 PSVLVLLPTRELAKQVHE-DFDVYGGAVGLTSCCLYGGAPYHAQEFKLKKGIDVVIGTPG 246
+V++PTRELA QV + V G GG +L + VVI TPG
Sbjct: 73 -QAMVIVPTRELALQVSQICIQVSKHMGGAKVMATTGGTNLRDDIMRLDDTVHVVIATPG 131
Query: 247 RIKDHIERGNIDLSSLKFRVLDEADEMLRMGFV---EDVELILGKVEDANKVQTLLFSAT 303
RI D I++G + ++ VLDEAD++L FV ED+ L L K N+ Q LL+SAT
Sbjct: 132 RILDLIKKGVAKVDHVQMIVLDEADKLLSQDFVQIMEDIILTLPK----NR-QILLYSAT 186
Query: 304 LPSWVKHISTKFLKS 318
P V+ KF+ S
Sbjct: 187 FPLSVQ----KFMNS 197
>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 = 86.7 bits (213), Expect = 4e-17, Method: Compositional matrix adjust.
Identities = 45/125 (36%), Positives = 71/125 (56%), Gaps = 5/125 (4%)
Query: 334 STNVRHIVLPCSSSARSQVIPDIIRCYSSGGRTIIFTETKESASQLADLLPG----ARAL 389
+ N+ H V+ + ++ D++ + IIF TKE +QL D L +
Sbjct: 7 TRNIEHAVIQVREENKFSLLKDVLMT-ENPDSCIIFCRTKEHVNQLTDELDDLGYPCDKI 65
Query: 390 HGDIQQSQREVTLAGFRSGKFMTLVATNVAARGLDINDVQLIIQCEPPRDVEAYIHRSGR 449
HG + Q R + F+ G++ LVAT+VAARG+DI ++ L+I + P + E+Y+HR+GR
Sbjct: 66 HGGMIQEDRFDVMNEFKRGEYRYLVATDVAARGIDIENISLVINYDLPLEKESYVHRTGR 125
Query: 450 TGRAG 454
TGRAG
Sbjct: 126 TGRAG 130
>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 = 85.9 bits (211), Expect = 6e-17, Method: Compositional matrix adjust.
Identities = 62/218 (28%), Positives = 101/218 (46%), Gaps = 13/218 (5%)
Query: 101 ERGESEHPNAVSRFRISVPLREKLKSKGIESLFPIQAMTFDMVLDGSDLVGRARTGQGKT 160
E +E ++ +S L + + G E IQ + G D++ +A++G G T
Sbjct: 7 ESNWNEIVDSFDDMNLSESLLRGIYAYGFEXPSAIQQRAILPCIXGYDVIAQAQSGTGXT 66
Query: 161 LAFVLPILESLTNGPTKASKKTGYGRAPSVLVLLPTRELAKQVHEDFDVYGGAVGLTSCC 220
F + IL+ + A LVL PTRELA+Q+ G +G +
Sbjct: 67 ATFAISILQQIELDLX----------ATQALVLAPTRELAQQIQXVVMALGDYMGASCHA 116
Query: 221 LYGGAPYHAQEFKLK-KGIDVVIGTPGRIKDHIERGNIDLSSLKFRVLDEADEMLRMGFV 279
GG A+ L+ + +++GTPGR+ D + R + + VLDEADEML GF
Sbjct: 117 CIGGTNVRAEVQXLQMEAPHIIVGTPGRVFDMLNRRYLSPXYIXMFVLDEADEMLSRGFX 176
Query: 280 EDVELILGKVEDANKVQTLLFSATLPSWVKHISTKFLK 317
+ + I + + Q +L SAT+PS V ++ F++
Sbjct: 177 DQIYDIFQXLN--SNTQVVLLSATMPSDVLEVTXXFMR 212
>pdb|3DKP|A Chain A, Human Dead-Box Rna-Helicase Ddx52, Conserved Domain I In
Complex With Adp
Length = 245
Score = 80.1 bits (196), Expect = 3e-15, Method: Compositional matrix adjust.
Identities = 61/207 (29%), Positives = 103/207 (49%), Gaps = 22/207 (10%)
Query: 114 FRISVPLREKLKSKGIESLFPIQAMTFDMVLDGSDLVGRARTGQGKTLAFVLPILESLTN 173
++I+ L + + G + PIQ ++L G +L+ A TG GKTLAF +PIL L
Sbjct: 34 YKINSRLLQNILDAGFQMPTPIQMQAIPVMLHGRELLASAPTGSGKTLAFSIPILMQLKQ 93
Query: 174 GPTKASKKTGYGRAPSVLVLLPTRELAKQVHEDFDVYGGAVGLTSCCLYGGAPYHAQEF- 232
K + L++ PTRELA Q+H + G ++ A A++F
Sbjct: 94 PANKGFR---------ALIISPTRELASQIHRELIKISEGTGFRIHMIHKAA-VAAKKFG 143
Query: 233 -KLKKGIDVVIGTPGRIKDHIERG--NIDLSSLKFRVLDEADEML---RMGFVEDVELIL 286
K K D+++ TP R+ +++ IDL+S+++ V+DE+D++ + GF + + I
Sbjct: 144 PKSSKKFDILVTTPNRLIYLLKQDPPGIDLASVEWLVVDESDKLFEDGKTGFRDQLASIF 203
Query: 287 GKVEDANKVQTLLFSATLP----SWVK 309
++KV+ +FSAT W K
Sbjct: 204 LACT-SHKVRRAMFSATFAYDVEQWCK 229
>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 = 77.8 bits (190), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 47/109 (43%), Positives = 63/109 (57%), Gaps = 5/109 (4%)
Query: 342 LPCSSSARSQVIPDIIRCYSSGGRTIIFT----ETKESASQLADLLPGARALHGDIQQSQ 397
+P R +V+ D++ +S R ++FT ET+E A L L A+ALHGD+ Q +
Sbjct: 11 VPAPVRGRLEVLSDLLYV-ASPDRAMVFTRTKAETEEIAQGLLRLGHPAQALHGDLSQGE 69
Query: 398 REVTLAGFRSGKFMTLVATNVAARGLDINDVQLIIQCEPPRDVEAYIHR 446
RE L FR G+ LVAT+VAARGLDI V L++ P EAY HR
Sbjct: 70 RERVLGAFRQGEVRVLVATDVAARGLDIPQVDLVVHYRLPDRAEAYQHR 118
>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 = 77.8 bits (190), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 64/216 (29%), Positives = 105/216 (48%), Gaps = 15/216 (6%)
Query: 105 SEHPNAVSRFRISVPLREKLKSKGIESLFPIQAMTFDMVLDGSDLVGRARTGQGKTLAFV 164
S H + F + L + G E +Q + G D++ +A++G GKT FV
Sbjct: 10 SIHSSGFRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFV 69
Query: 165 LPILESLTNGPTKASKKTGYGRAPSVLVLLPTRELAKQVHEDFDVYGGAV-GLTSCCLYG 223
L L+ L P TG SVLV+ TRELA Q+ ++++ + + + +G
Sbjct: 70 LATLQQLE--PV-----TG---QVSVLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFG 119
Query: 224 GAPYHAQEFKLKKGI-DVVIGTPGRIKDHIERGNIDLSSLKFRVLDEADEML-RMGFVED 281
G E LKK +V+GTPGRI +++L +K +LDE D+ML ++ D
Sbjct: 120 GLSIKKDEEVLKKNCPHIVVGTPGRILALARNKSLNLKHIKHFILDECDKMLEQLDMRRD 179
Query: 282 VELILGKVEDANKVQTLLFSATLPSWVKHISTKFLK 317
V+ I ++ Q ++FSATL ++ + KF++
Sbjct: 180 VQEIFRMT--PHEKQVMMFSATLSKEIRPVCRKFMQ 213
>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 = 77.4 bits (189), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 46/109 (42%), Positives = 63/109 (57%), Gaps = 5/109 (4%)
Query: 342 LPCSSSARSQVIPDIIRCYSSGGRTIIFT----ETKESASQLADLLPGARALHGDIQQSQ 397
+P R +V+ D++ +S R ++FT ET+E A L L A+ALHGD+ Q +
Sbjct: 8 VPAPVRGRLEVLSDLL-YVASPDRAMVFTRTKAETEEIAQGLLRLGHPAQALHGDMSQGE 66
Query: 398 REVTLAGFRSGKFMTLVATNVAARGLDINDVQLIIQCEPPRDVEAYIHR 446
RE + FR G+ LVAT+VAARGLDI V L++ P EAY HR
Sbjct: 67 RERVMGAFRQGEVRVLVATDVAARGLDIPQVDLVVHYRMPDRAEAYQHR 115
>pdb|2KBF|A Chain A, Solution Structure Of Carboxyl-Terminal Domain Of Dbp5p
Length = 187
Score = 71.6 bits (174), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 42/128 (32%), Positives = 65/128 (50%), Gaps = 10/128 (7%)
Query: 337 VRHIVLPCSSSARSQVIPDIIRCYSSGGRTIIFTETKESASQLADLLPG----ARALHGD 392
++ + + C + A + + + G +IIF TK++A+ L L LHGD
Sbjct: 9 IKQLYMDCKNEADKFDVLTELYGLMTIGSSIIFVATKKTANVLYGKLKSEGHEVSILHGD 68
Query: 393 IQQSQREVTLAGFRSGKFMTLVATNVAARGLDINDVQLIIQCEPPR------DVEAYIHR 446
+Q +R+ + FR G+ L+ TNV ARG+DI V +++ + P D YIHR
Sbjct: 69 LQTQERDRLIDDFREGRSKVLITTNVLARGIDIPTVSMVVNYDLPTLANGQADPATYIHR 128
Query: 447 SGRTGRAG 454
GRTGR G
Sbjct: 129 IGRTGRFG 136
>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 = 69.7 bits (169), Expect = 5e-12, Method: Compositional matrix adjust.
Identities = 38/93 (40%), Positives = 54/93 (58%), Gaps = 4/93 (4%)
Query: 366 TIIFTETKESASQLAD--LLPG--ARALHGDIQQSQREVTLAGFRSGKFMTLVATNVAAR 421
+IF E K + + LL G A A+HG Q +R + FR GK LVAT+VA++
Sbjct: 57 VLIFAEKKADVDAIHEYLLLKGVEAVAIHGGKDQEERTKAIEAFREGKKDVLVATDVASK 116
Query: 422 GLDINDVQLIIQCEPPRDVEAYIHRSGRTGRAG 454
GLD +Q +I + P ++E Y+HR GRTG +G
Sbjct: 117 GLDFPAIQHVINYDMPEEIENYVHRIGRTGCSG 149
>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 = 68.9 bits (167), Expect = 9e-12, Method: Compositional matrix adjust.
Identities = 40/101 (39%), Positives = 54/101 (53%), Gaps = 10/101 (9%)
Query: 364 GRTIIFTETKESASQLADLLPG----ARALHGDIQQSQREVTLAGFRSGKFMTLVATNVA 419
G +IIF TK++A+ L L LHGD+Q +R+ + FR G+ L+ TNV
Sbjct: 37 GSSIIFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDDFREGRSKVLITTNVL 96
Query: 420 ARGLDINDVQLIIQCEPPR------DVEAYIHRSGRTGRAG 454
ARG+DI V ++ + P D YIHR GRTGR G
Sbjct: 97 ARGIDIPTVSXVVNYDLPTLANGQADPATYIHRIGRTGRFG 137
>pdb|3GFP|A Chain A, Structure Of The C-Terminal Domain Of The Dead-Box Protein
Dbp5
Length = 189
Score = 68.9 bits (167), Expect = 9e-12, Method: Compositional matrix adjust.
Identities = 40/101 (39%), Positives = 54/101 (53%), Gaps = 10/101 (9%)
Query: 364 GRTIIFTETKESASQLADLLPG----ARALHGDIQQSQREVTLAGFRSGKFMTLVATNVA 419
G +IIF TK++A+ L L LHGD+Q +R+ + FR G+ L+ TNV
Sbjct: 38 GSSIIFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDDFREGRSKVLITTNVL 97
Query: 420 ARGLDINDVQLIIQCEPPR------DVEAYIHRSGRTGRAG 454
ARG+DI V ++ + P D YIHR GRTGR G
Sbjct: 98 ARGIDIPTVSXVVNYDLPTLANGQADPATYIHRIGRTGRFG 138
>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 = 68.2 bits (165), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 37/94 (39%), Positives = 53/94 (56%), Gaps = 4/94 (4%)
Query: 365 RTIIFTETKESASQLADLLPGAR----ALHGDIQQSQREVTLAGFRSGKFMTLVATNVAA 420
R+I+F +E +LA+ L A L G++ Q +R + G+ LVAT+VAA
Sbjct: 32 RSIVFVRKRERVHELANWLREAGINNCYLEGEMVQGKRNEAIKRLTEGRVNVLVATDVAA 91
Query: 421 RGLDINDVQLIIQCEPPRDVEAYIHRSGRTGRAG 454
RG+DI DV + + PR + Y+HR GRT RAG
Sbjct: 92 RGIDIPDVSHVFNFDMPRSGDTYLHRIGRTARAG 125
>pdb|2KBE|A Chain A, Solution Structure Of Amino-Terminal Domain Of Dbp5p
Length = 226
Score = 67.0 bits (162), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 54/171 (31%), Positives = 83/171 (48%), Gaps = 19/171 (11%)
Query: 148 DLVGRARTGQGKTLAFVLPILESLTNGPTKASKKTGYGRAPSVLVLLPTRELAKQVHEDF 207
+++ ++++G GKT AF L +L + P AS P + L P+RELA+Q E
Sbjct: 63 NMIAQSQSGTGKTAAFSLTMLTRV--NPEDAS--------PQAICLAPSRELARQTLEVV 112
Query: 208 DVYGGAVGLTSCCLYGGAPYHAQEFKLKKGID--VVIGTPGRIKDHIERGNIDLSSLKFR 265
G +TS + + F+ K I+ V++GTPG + D + R + L +K
Sbjct: 113 QEMGKFTKITSQLIVPDS------FEKNKQINAQVIVGTPGTVLDLMRRKLMQLQKIKIF 166
Query: 266 VLDEADEMLRMGFVEDVELILGKVEDANKVQTLLFSATLPSWVKHISTKFL 316
VLDEAD ML + D + I K Q +LFSAT V+ + K +
Sbjct: 167 VLDEADNMLDQQGLGD-QCIRVKRFLPKDTQLVLFSATFADAVRQYAKKIV 216
>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 = 65.1 bits (157), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 46/138 (33%), Positives = 68/138 (49%), Gaps = 18/138 (13%)
Query: 331 MKASTNVRHIVLPCSSSA-RSQVIPDIIRCYSSG--GRTIIFTETKESASQL-ADLLPGA 386
M N+R + C + Q + +I Y S G+ IIF +T+ +A L +++
Sbjct: 2 MLTLNNIRQYYVLCEHRKDKYQALCNI---YGSITIGQAIIFCQTRRNAKWLTVEMIQDG 58
Query: 387 RA---LHGDIQQSQREVTLAGFRSGKFMTLVATNVAARGLDINDVQLII-------QCEP 436
L G++ QR + FR GK L+ TNV ARG+D+ V +++ Q E
Sbjct: 59 HQVSLLSGELTVEQRASIIQRFRDGKEKVLITTNVCARGIDVKQVTIVVNFDLPVKQGEE 118
Query: 437 PRDVEAYIHRSGRTGRAG 454
P D E Y+HR GRTGR G
Sbjct: 119 P-DYETYLHRIGRTGRFG 135
>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 = 61.2 bits (147), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 34/107 (31%), Positives = 54/107 (50%), Gaps = 7/107 (6%)
Query: 348 ARSQVIPDIIRCYSSGGRTIIFTETKESASQLADLLPGARALHGDIQQSQREVTLAGFRS 407
+R Q+ II C SS ++ A +++ L +H ++Q R FR+
Sbjct: 40 SRLQINQSIIFCNSSQRVELL-------AKKISQLGYSCFYIHAKMRQEHRNRVFHDFRN 92
Query: 408 GKFMTLVATNVAARGLDINDVQLIIQCEPPRDVEAYIHRSGRTGRAG 454
G LV T++ RG+DI V ++I + P+ E Y+HR GR+GR G
Sbjct: 93 GLCRNLVCTDLFTRGIDIQAVNVVINFDFPKLAETYLHRIGRSGRFG 139
>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 = 61.2 bits (147), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 36/114 (31%), Positives = 55/114 (48%), Gaps = 7/114 (6%)
Query: 362 SGGRTIIFTETKESASQLADLLPGARA-------LHGDIQQSQREVTLAGFRSGKFMTLV 414
S + IIF T + S L +L HG I Q++R + F+ + LV
Sbjct: 32 SNYKAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQNKRTSLVKRFKKDESGILV 91
Query: 415 ATNVAARGLDINDVQLIIQCEPPRDVEAYIHRSGRTGRAGVEAAETITQVSDSV 468
T+V ARG+D +V ++Q P ++ YIHR GRT R+G E + + D +
Sbjct: 92 CTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEGSSVLFICKDEL 145
>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 = 61.2 bits (147), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 36/114 (31%), Positives = 55/114 (48%), Gaps = 7/114 (6%)
Query: 362 SGGRTIIFTETKESASQLADLLPGARA-------LHGDIQQSQREVTLAGFRSGKFMTLV 414
S + IIF T + S L +L HG I Q++R + F+ + LV
Sbjct: 32 SNYKAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQNKRTSLVKRFKKDESGILV 91
Query: 415 ATNVAARGLDINDVQLIIQCEPPRDVEAYIHRSGRTGRAGVEAAETITQVSDSV 468
T+V ARG+D +V ++Q P ++ YIHR GRT R+G E + + D +
Sbjct: 92 CTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEGSSVLFICKDEL 145
>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 = 61.2 bits (147), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 36/114 (31%), Positives = 55/114 (48%), Gaps = 7/114 (6%)
Query: 362 SGGRTIIFTETKESASQLADLLPGARA-------LHGDIQQSQREVTLAGFRSGKFMTLV 414
S + IIF T + S L +L HG I Q++R + F+ + LV
Sbjct: 32 SNYKAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQNKRTSLVKRFKKDESGILV 91
Query: 415 ATNVAARGLDINDVQLIIQCEPPRDVEAYIHRSGRTGRAGVEAAETITQVSDSV 468
T+V ARG+D +V ++Q P ++ YIHR GRT R+G E + + D +
Sbjct: 92 CTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEGSSVLFICKDEL 145
>pdb|3FMO|B Chain B, Crystal Structure Of The Nucleoporin Nup214 In Complex
With The Dead- Box Helicase Ddx19
Length = 300
Score = 56.6 bits (135), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 55/177 (31%), Positives = 81/177 (45%), Gaps = 28/177 (15%)
Query: 148 DLVGRARTGQGKTLAFVLPILESLTNGPTKASKKTGYGRAPSVLVLLPTRELAKQ---VH 204
+L+ ++++G GKT AFVL +L S+ + P L L PT ELA Q V
Sbjct: 133 NLIAQSQSGTGKTAAFVLAML----------SQVEPANKYPQCLCLSPTYELALQTGKVI 182
Query: 205 EDFDVYGGAVGLTSCCLYGGAPYHAQEFKLKKGI----DVVIGTPGRIKDHIERGN-IDL 259
E + + L Y + KL++G +VIGTPG + D + ID
Sbjct: 183 EQMGKFYPELKLA---------YAVRGNKLERGQKISEQIVIGTPGTVLDWCSKLKFIDP 233
Query: 260 SSLKFRVLDEADEMLRMGFVEDVELILGKVEDANKVQTLLFSATLPSWVKHISTKFL 316
+K VLDEAD M+ +D + + ++ N Q LLFSAT V + K +
Sbjct: 234 KKIKVFVLDEADVMIATQGHQDQSIRIQRMLPRN-CQMLLFSATFEDSVWKFAQKVV 289
>pdb|1T5I|A Chain A, Crystal Structure Of The C-Terminal Domain Of Uap56
Length = 172
Score = 56.2 bits (134), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 36/107 (33%), Positives = 53/107 (49%), Gaps = 5/107 (4%)
Query: 364 GRTIIFTETKESASQLADLLPG----ARALHGDIQQSQREVTLAGFRSGKFMTLVATNVA 419
+ +IF ++ + LA LL A A+H + Q +R F+ + LVATN+
Sbjct: 32 NQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRILVATNLF 91
Query: 420 ARGLDINDVQLIIQCEPPRDVEAYIHRSGRTGRAGVEAAETITQVSD 466
RG+DI V + + P D + Y+HR R GR G + IT VSD
Sbjct: 92 GRGMDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKGL-AITFVSD 137
>pdb|3FHC|B Chain B, Crystal Structure Of Human Dbp5 In Complex With Nup214
Length = 235
Score = 56.2 bits (134), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 59/192 (30%), Positives = 86/192 (44%), Gaps = 29/192 (15%)
Query: 147 SDLVGRARTGQGKTLAFVLPILESLTNGPTKASKKTGYGRAPSVLVLLPTRELAKQ---V 203
+L+ ++++G GKT AFVL +L S+ + P L L PT ELA Q V
Sbjct: 65 QNLIAQSQSGTGKTAAFVLAML----------SQVEPANKYPQCLCLSPTYELALQTGKV 114
Query: 204 HEDFDVYGGAVGLTSCCLYGGAPYHAQEFKLKKGI----DVVIGTPGRIKDHIERGN-ID 258
E + + L Y + KL++G +VIGTPG + D + ID
Sbjct: 115 IEQMGKFYPELKLA---------YAVRGNKLERGQKISEQIVIGTPGTVLDWCSKLKFID 165
Query: 259 LSSLKFRVLDEADEMLRMGFVEDVELILGKVEDANKVQTLLFSATLPSWVKHISTKFLKS 318
+K VLDEAD M+ +D + + ++ N Q LLFSAT V + K +
Sbjct: 166 PKKIKVFVLDEADVMIATQGHQDQSIRIQRMLPRN-CQMLLFSATFEDSVWKFAQKVV-P 223
Query: 319 DKKTIDLVGNEK 330
D I L E+
Sbjct: 224 DPNVIKLKREEE 235
>pdb|1FUK|A Chain A, Crystal Structure Of The Carboxy Terminal Domain Of Yeast
Eif4a
Length = 165
Score = 55.1 bits (131), Expect = 1e-07, Method: Composition-based stats.
Identities = 28/86 (32%), Positives = 48/86 (55%), Gaps = 4/86 (4%)
Query: 365 RTIIFTETKESASQLADLLPGAR----ALHGDIQQSQREVTLAGFRSGKFMTLVATNVAA 420
+ +IF T+ +L L + A++ D+ Q +R+ + FRSG L++T++ A
Sbjct: 32 QAVIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTIMKEFRSGSSRILISTDLLA 91
Query: 421 RGLDINDVQLIIQCEPPRDVEAYIHR 446
RG+D+ V L+I + P + E YIHR
Sbjct: 92 RGIDVQQVSLVINYDLPANKENYIHR 117
>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 = 53.9 bits (128), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 84/382 (21%), Positives = 150/382 (39%), Gaps = 72/382 (18%)
Query: 124 LKSKGIESLFPIQAMTFDMVLDGSDLVGRARTGQGKT-LAFVLPILESLTNGPTKASKKT 182
LK +GIE LFP QA + V G +L+ T GKT LA + + E++ G +
Sbjct: 18 LKEEGIEELFPPQAEAVEKVFSGKNLLLAMPTAAGKTLLAEMAMVREAIKGGKS------ 71
Query: 183 GYGRAPSVLVLLPTRELAKQVHEDFDVY---GGAVGLTSCCLYGGAPYHAQEFKLKKGID 239
L ++P R LA + +E F + G +G+++ Y +++ L D
Sbjct: 72 --------LYVVPLRALAGEKYESFKKWEKIGLRIGIST------GDYESRDEHLGD-CD 116
Query: 240 VVIGTPGRIKDHIERGNIDLSSLKFRVLDEADEMLRMGFVEDVELILGKVEDANK-VQTL 298
+++ T + I + ++ V+DE + +E+++ K+ NK ++ +
Sbjct: 117 IIVTTSEKADSLIRNRASWIKAVSCLVVDEIHLLDSEKRGATLEILVTKMRRMNKALRVI 176
Query: 299 LFSATLPS---WVKHISTKFLKSDKKTIDLVGNEKMKASTNVRHIVLPCSSSARSQVIPD 355
SAT P+ + + + SD + + LV E + + S+S R +
Sbjct: 177 GLSATAPNVTEIAEWLDADYYVSDWRPVPLV--EGVLCEGTLELFDGAFSTSRRVKFEEL 234
Query: 356 IIRCYSSGGRTIIFTETKESASQLADLL-------------------------------- 383
+ C + G ++F T+ A + A L
Sbjct: 235 VEECVAENGGVLVFESTRRGAEKTAVKLSAITAKYVENEGLEKAILEENEGEMSRKLAEC 294
Query: 384 --PGARALHGDIQQSQREVTLAGFRSGKFMTLVATNVAARGLDINDVQLIIQCEPPRD-- 439
GA H + QR V FR G +VAT A G+++ ++I++ D
Sbjct: 295 VRKGAAFHHAGLLNGQRRVVEDAFRRGNIKVVVATPTLAAGVNLPARRVIVRSLYRFDGY 354
Query: 440 -----VEAYIHRSGRTGRAGVE 456
V Y +GR GR G++
Sbjct: 355 SKRIKVSEYKQMAGRAGRPGMD 376
>pdb|1GM5|A Chain A, Structure Of Recg Bound To Three-Way Dna Junction
Length = 780
Score = 53.1 bits (126), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 82/336 (24%), Positives = 130/336 (38%), Gaps = 78/336 (23%)
Query: 155 TGQGKTLAFVLPILESLTNGPTKASKKTGYGRAPSVLVLLPTRELAKQVH----EDFDVY 210
G GKT+ L IL++ G A ++PT LA Q + E F +
Sbjct: 398 VGSGKTVVAQLAILDNYEAGFQTA-------------FMVPTSILAIQHYRRTVESFSKF 444
Query: 211 GGAVGLTSCCLYGGAPYHAQEFKLKKG-----IDVVIGTPGRIKDHIERGNIDLSSLKFR 265
V L GA +++ K+K G IDVVIGT I++ + N+ L +
Sbjct: 445 NIHVALLI-----GATTPSEKEKIKSGLRNGQIDVVIGTHALIQEDVHFKNLGLVII--- 496
Query: 266 VLDEADEMLRMGFVEDVELILGKVEDANKVQTLLFSAT---------------------L 304
DE R G V+ E ++ K V TL+ SAT +
Sbjct: 497 -----DEQHRFG-VKQREALMNK---GKMVDTLVMSATPIPRSMALAFYGDLDVTVIDEM 547
Query: 305 PSWVKHISTKFLKSDK--KTIDLVGNEKMKASTNVRHIVLPCSSSARSQVIPDIIRCYSS 362
P K + T + D+ + + V E M+ IV P + + + Y
Sbjct: 548 PPGRKEVQTMLVPMDRVNEVYEFVRQEVMRGGQAF--IVYPLIEESDKLNVKSAVEMYEY 605
Query: 363 GGRTIIFTETKESASQLADLLPGARALHGDIQQSQREVTLAGFRSGKFMTLVATNVAARG 422
+ + F E K +HG + Q +++ + F G++ LV+T V G
Sbjct: 606 LSKEV-FPEFKLGL------------MHGRLSQEEKDRVMLEFAEGRYDILVSTTVIEVG 652
Query: 423 LDINDVQLIIQCEPPRDVEAYIHR-SGRTGRAGVEA 457
+D+ +++ P R A +H+ GR GR G EA
Sbjct: 653 IDVPRANVMVIENPERFGLAQLHQLRGRVGRGGQEA 688
>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 = 50.8 bits (120), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 35/104 (33%), Positives = 50/104 (48%), Gaps = 12/104 (11%)
Query: 361 SSGGRTIIFTETKESASQLADLLP----------GARALHGDIQQSQRE--VTLAGFRSG 408
+ I+FT +E+A ++ + L G + D SQRE + L F G
Sbjct: 359 KQNSKIIVFTNYRETAKKIVNELVKDGIKAKRFVGQASKENDRGLSQREQKLILDEFARG 418
Query: 409 KFMTLVATNVAARGLDINDVQLIIQCEPPRDVEAYIHRSGRTGR 452
+F LVAT+V GLD+ +V L++ EP I R GRTGR
Sbjct: 419 EFNVLVATSVGEEGLDVPEVDLVVFYEPVPSAIRSIQRRGRTGR 462
>pdb|4I1S|A Chain A, Melanoma Differentiation Associated Protein-5 Helicase
Domain Complex With Inhibitor Non-structural Protein V
Length = 243
Score = 46.6 bits (109), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 31/90 (34%), Positives = 45/90 (50%), Gaps = 20/90 (22%)
Query: 363 GGRTIIFTETKESASQLADLLP--------GARALH-----------GDIQQSQREVTLA 403
R IIFT+T++SA L+ + G +A H Q QREV ++
Sbjct: 150 SARGIIFTKTRQSAYALSQWITDNKKFAEVGVKAHHLIGAGHSSEFKPXTQNEQREV-IS 208
Query: 404 GFRSGKFMTLVATNVAARGLDINDVQLIIQ 433
FR+GK L+AT VA GLDI + ++I+
Sbjct: 209 KFRTGKINLLIATTVAEEGLDIKECNIVIR 238
>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 = 45.8 bits (107), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 30/106 (28%), Positives = 53/106 (50%), Gaps = 19/106 (17%)
Query: 346 SSARSQVIPDIIRCYSSGGRTIIFTETKESASQLADLLP--------GARALH------- 390
+ R+ ++ R S R IIFT+T++SA L+ + G +A H
Sbjct: 384 TKLRNTIMEQYTRTEESA-RGIIFTKTRQSAYALSQWITENEKFAEVGVKAHHLIGAGHS 442
Query: 391 ---GDIQQSQREVTLAGFRSGKFMTLVATNVAARGLDINDVQLIIQ 433
+ Q++++ ++ FR+GK L+AT VA GLDI + ++I+
Sbjct: 443 SEFKPMTQNEQKEVISKFRTGKINLLIATTVAEEGLDIKECNIVIR 488
>pdb|1OYY|A Chain A, Structure Of The Recq Catalytic Core Bound To Atp-Gamma-S
Length = 523
Score = 45.4 bits (106), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 77/350 (22%), Positives = 143/350 (40%), Gaps = 57/350 (16%)
Query: 128 GIESLFPIQAMTFDMVLDGSDLVGRARTGQGKTLAFVLPILESLTNGPTKASKKTGYGRA 187
G + P Q D VL G D + TG GK+L + +P L L NG T
Sbjct: 22 GYQQFRPGQEEIIDTVLSGRDCLVVMPTGGGKSLCYQIPAL--LLNGLT----------- 68
Query: 188 PSVLVLLPTRELAKQVHEDFDVYGGAVGLTSCCLYGGAPYHAQEFKLKKG-----IDVVI 242
+V+ P L K + A G+ + CL Q+ ++ G I ++
Sbjct: 69 ---VVVSPLISLMKDQVDQLQ----ANGVAAACL-NSTQTREQQLEVMTGCRTGQIRLLY 120
Query: 243 GTPGRIK-----DHIERGNIDLSSLKFRVLDEADEMLRMGFVEDVELI-LGKVEDANKVQ 296
P R+ +H+ N L ++ DEA + + G E LG++ +
Sbjct: 121 IAPERLMLDNFLEHLAHWNPVLLAV-----DEAHCISQWGHDFRPEYAALGQLR--QRFP 173
Query: 297 TLLF---SATLPSWVKHISTKFLKSDKKTIDLVGNEKMKASTNVRHIVLPCSSSARSQVI 353
TL F +AT + + L + I + ++ N+R++++ + + +
Sbjct: 174 TLPFMALTATADDTTRQDIVRLLGLNDPLIQISSFDR----PNIRYMLM-----EKFKPL 224
Query: 354 PDIIRCYSS--GGRTIIFTETK----ESASQLADLLPGARALHGDIQQSQREVTLAGFRS 407
++R G II+ ++ ++A++L A A H ++ + R F+
Sbjct: 225 DQLMRYVQEQRGKSGIIYCNSRAKVEDTAARLQSKGISAAAYHAGLENNVRADVQEKFQR 284
Query: 408 GKFMTLVATNVAARGLDINDVQLIIQCEPPRDVEAYIHRSGRTGRAGVEA 457
+VAT G++ +V+ ++ + PR++E+Y +GR GR G+ A
Sbjct: 285 DDLQIVVATVAFGMGINKPNVRFVVHFDIPRNIESYYQETGRAGRDGLPA 334
>pdb|3UWX|B Chain B, Crystal Structure Of Uvra-Uvrb Complex
Length = 683
Score = 45.1 bits (105), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 38/123 (30%), Positives = 60/123 (48%), Gaps = 12/123 (9%)
Query: 365 RTIIFTETKESASQLADLLPGA----RALHGDIQQSQREVTLAGFRSGKFMTLVATNVAA 420
RT++ T TK+ A L D L A LH +I+ +R + R GK+ LV N+
Sbjct: 472 RTLVTTLTKKMAEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLR 531
Query: 421 RGLDINDVQLIIQCEPPRDVEAYIHRSGRT-----GRAGVEAAETITQVSDSVIPAFKSA 475
GLDI +V L+ + D E ++ RS R+ GRA A + +D++ + + A
Sbjct: 532 EGLDIPEVSLVAILDA--DKEGFL-RSERSLIQTIGRAARNANGHVIMYADTITKSMEIA 588
Query: 476 AEE 478
+E
Sbjct: 589 IQE 591
>pdb|2FDC|A Chain A, Structural Basis Of Dna Damage Recognition And Processing
By Uvrb: Crystal Structure Of A UvrbDNA COMPLEX
pdb|2FDC|B Chain B, Structural Basis Of Dna Damage Recognition And Processing
By Uvrb: Crystal Structure Of A UvrbDNA COMPLEX
Length = 658
Score = 45.1 bits (105), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 38/123 (30%), Positives = 60/123 (48%), Gaps = 12/123 (9%)
Query: 365 RTIIFTETKESASQLADLLPGA----RALHGDIQQSQREVTLAGFRSGKFMTLVATNVAA 420
RT++ T TK+ A L D L A LH +I+ +R + R GK+ LV N+
Sbjct: 447 RTLVTTLTKKMAEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLR 506
Query: 421 RGLDINDVQLIIQCEPPRDVEAYIHRSGRT-----GRAGVEAAETITQVSDSVIPAFKSA 475
GLDI +V L+ + D E ++ RS R+ GRA A + +D++ + + A
Sbjct: 507 EGLDIPEVSLVAILDA--DKEGFL-RSERSLIQTIGRAARNANGHVIMYADTITKSMEIA 563
Query: 476 AEE 478
+E
Sbjct: 564 IQE 566
>pdb|1D9Z|A Chain A, Crystal Structure Of The Dna Repair Protein Uvrb In
Complex With Atp
Length = 657
Score = 45.1 bits (105), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 38/123 (30%), Positives = 60/123 (48%), Gaps = 12/123 (9%)
Query: 365 RTIIFTETKESASQLADLLPGA----RALHGDIQQSQREVTLAGFRSGKFMTLVATNVAA 420
RT++ T TK+ A L D L A LH +I+ +R + R GK+ LV N+
Sbjct: 446 RTLVTTLTKKMAEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLR 505
Query: 421 RGLDINDVQLIIQCEPPRDVEAYIHRSGRT-----GRAGVEAAETITQVSDSVIPAFKSA 475
GLDI +V L+ + D E ++ RS R+ GRA A + +D++ + + A
Sbjct: 506 EGLDIPEVSLVAILDA--DKEGFL-RSERSLIQTIGRAARNANGHVIMYADTITKSMEIA 562
Query: 476 AEE 478
+E
Sbjct: 563 IQE 565
>pdb|1D9X|A Chain A, Crystal Structure Of The Dna Repair Protein Uvrb
Length = 658
Score = 45.1 bits (105), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 38/123 (30%), Positives = 60/123 (48%), Gaps = 12/123 (9%)
Query: 365 RTIIFTETKESASQLADLLPGA----RALHGDIQQSQREVTLAGFRSGKFMTLVATNVAA 420
RT++ T TK+ A L D L A LH +I+ +R + R GK+ LV N+
Sbjct: 447 RTLVTTLTKKMAEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLR 506
Query: 421 RGLDINDVQLIIQCEPPRDVEAYIHRSGRT-----GRAGVEAAETITQVSDSVIPAFKSA 475
GLDI +V L+ + D E ++ RS R+ GRA A + +D++ + + A
Sbjct: 507 EGLDIPEVSLVAILDA--DKEGFL-RSERSLIQTIGRAARNANGHVIMYADTITKSMEIA 563
Query: 476 AEE 478
+E
Sbjct: 564 IQE 566
>pdb|1T5L|A Chain A, Crystal Structure Of The Dna Repair Protein Uvrb Point
Mutant Y96a Revealing A Novel Fold For Domain 2
pdb|1T5L|B Chain B, Crystal Structure Of The Dna Repair Protein Uvrb Point
Mutant Y96a Revealing A Novel Fold For Domain 2
Length = 658
Score = 45.1 bits (105), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 38/123 (30%), Positives = 60/123 (48%), Gaps = 12/123 (9%)
Query: 365 RTIIFTETKESASQLADLLPGA----RALHGDIQQSQREVTLAGFRSGKFMTLVATNVAA 420
RT++ T TK+ A L D L A LH +I+ +R + R GK+ LV N+
Sbjct: 447 RTLVTTLTKKMAEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLR 506
Query: 421 RGLDINDVQLIIQCEPPRDVEAYIHRSGRT-----GRAGVEAAETITQVSDSVIPAFKSA 475
GLDI +V L+ + D E ++ RS R+ GRA A + +D++ + + A
Sbjct: 507 EGLDIPEVSLVAILDA--DKEGFL-RSERSLIQTIGRAARNANGHVIMYADTITKSMEIA 563
Query: 476 AEE 478
+E
Sbjct: 564 IQE 566
>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 = 43.5 bits (101), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 33/126 (26%), Positives = 57/126 (45%), Gaps = 8/126 (6%)
Query: 329 EKMKASTNVRHIVLPCSSSARSQVIPDIIRCYSSGGRTIIFTETKESASQLAD--LLPGA 386
E ++A R I + R + +I+ + + IIFT E +++ L+P
Sbjct: 318 EALRAWEEARRIAFNSKNKIRK--LREILERHRKD-KIIIFTRHNELVYRISKVFLIP-- 372
Query: 387 RALHGDIQQSQREVTLAGFRSGKFMTLVATNVAARGLDINDVQLIIQCEPPRDVEAYIHR 446
A+ + +RE L GFR+G+F +V++ V G+D+ D + + YI R
Sbjct: 373 -AITHRTSREEREEILEGFRTGRFRAIVSSQVLDEGIDVPDANVGVIMSGSGSAREYIQR 431
Query: 447 SGRTGR 452
GR R
Sbjct: 432 LGRILR 437
>pdb|2FZL|A Chain A, Structure Of C-Terminal Domain Of Archaeoglobus Fulgidus
Xpb
Length = 219
Score = 43.1 bits (100), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 34/131 (25%), Positives = 58/131 (44%), Gaps = 8/131 (6%)
Query: 324 DLVGNEKMKASTNVRHIVLPCSSSARSQVIPDIIRCYSSGGRTIIFTETKESASQLAD-- 381
D E ++A R I + R + +I+ + + IIFT E +++
Sbjct: 78 DERAYEALRAWEEARRIAFNSKNKIRK--LREILERHRKD-KIIIFTRHNELVYRISKVF 134
Query: 382 LLPGARALHGDIQQSQREVTLAGFRSGKFMTLVATNVAARGLDINDVQLIIQCEPPRDVE 441
L+P A+ + +RE L GFR+G+F +V++ V G+D+ D + +
Sbjct: 135 LIP---AITHRTSREEREEILEGFRTGRFRAIVSSQVLDEGIDVPDANVGVIMSGSGSAR 191
Query: 442 AYIHRSGRTGR 452
YI R GR R
Sbjct: 192 EYIQRLGRILR 202
>pdb|1OYW|A Chain A, Structure Of The Recq Catalytic Core
Length = 523
Score = 42.7 bits (99), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 25/99 (25%), Positives = 49/99 (49%), Gaps = 4/99 (4%)
Query: 363 GGRTIIFTETK----ESASQLADLLPGARALHGDIQQSQREVTLAGFRSGKFMTLVATNV 418
G II+ ++ ++A++L A A H ++ + R F+ +VAT
Sbjct: 236 GKSGIIYCNSRAKVEDTAARLQSKGISAAAYHAGLENNVRADVQEKFQRDDLQIVVATVA 295
Query: 419 AARGLDINDVQLIIQCEPPRDVEAYIHRSGRTGRAGVEA 457
G++ +V+ ++ + PR++E+Y +GR GR G+ A
Sbjct: 296 FGXGINKPNVRFVVHFDIPRNIESYYQETGRAGRDGLPA 334
Score = 31.2 bits (69), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 19/49 (38%), Positives = 24/49 (48%), Gaps = 2/49 (4%)
Query: 128 GIESLFPIQAMTFDMVLDGSDLVGRARTGQGKTLAFVLPILESLTNGPT 176
G + P Q D VL G D + TG GK+L + +P L L NG T
Sbjct: 22 GYQQFRPGQEEIIDTVLSGRDCLVVXPTGGGKSLCYQIPAL--LLNGLT 68
>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 = 42.0 bits (97), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 72/280 (25%), Positives = 122/280 (43%), Gaps = 31/280 (11%)
Query: 189 SVLVLLPTRELAKQVHEDF-DVYGG-AVGLTSCCLYGGAPYHAQEF-KLKKG-IDVVIGT 244
V VL+PT LA+Q +++F D + V + + A Q ++ +G ID++IGT
Sbjct: 654 QVAVLVPTTLLAQQHYDNFRDRFANWPVRIEMISRFRSAKEQTQILAEVAEGKIDILIGT 713
Query: 245 PGRIKDHIERGNIDLSSLKFRVLDEADEMLRMGFVEDVELILGKVEDANKVQTLLFSATL 304
++ ++ L ++DE R G V E I K AN V L +AT
Sbjct: 714 HKLLQ-----SDVKFKDLGLLIVDEEH---RFG-VRHKERI--KAMRAN-VDILTLTATP 761
Query: 305 PSWVKHISTKFLKSDKKTIDLVGNEKMKASTNVRHIVLPCSSSARSQVIPDIIRCYSSGG 364
+++ ++ D I ++ T VR S R ++ +I+R GG
Sbjct: 762 IPRTLNMAMSGMR-DLSIIATPPARRLAVKTFVREY---DSMVVREAILREILR----GG 813
Query: 365 RTIIFTE----TKESASQLADLLPGARAL--HGDIQQSQREVTLAGFRSGKFMTLVATNV 418
+ +++A +LA+L+P AR HG +++ + E + F +F LV T +
Sbjct: 814 QVYYLYNDVENIQKAAERLAELVPEARIAIGHGQMRERELERVMNDFHHQRFNVLVCTTI 873
Query: 419 AARGLDINDVQLIIQCEPPRDVEAYIHR-SGRTGRAGVEA 457
G+DI II A +H+ GR GR+ +A
Sbjct: 874 IETGIDIPTANTIIIERADHFGLAQLHQLRGRVGRSHHQA 913
>pdb|2M3D|A Chain A, Nmr Structure Of The Guct Domain From Human Dead Box
Polypeptide 21
Length = 95
Score = 41.6 bits (96), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 25/71 (35%), Positives = 36/71 (50%)
Query: 500 GYTEIKSRSLLSSLEDHVTVVLEAGKPIYTPSFAFGVLRRFLPEEKVELVKGMALTADGN 559
G T + RSL++S VT++L+ + S+A+ L+ L EE VKGM
Sbjct: 5 GATSVDQRSLINSNVGFVTMILQCSIEMPNISYAWKELKEQLGEEIDSKVKGMVFLKGKL 64
Query: 560 GAVFDVPVADL 570
G FDVP A +
Sbjct: 65 GVCFDVPTASV 75
>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 = 40.4 bits (93), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 28/112 (25%), Positives = 52/112 (46%), Gaps = 7/112 (6%)
Query: 353 IPDIIRCYS---SGGRTIIFTETKESASQ----LADLLPGARALHGDIQQSQREVTLAGF 405
I DI++ + G II+ +++ + Q L +L A A H +++ + +
Sbjct: 254 IEDIVKLINGRYKGQSGIIYCFSQKDSEQVTVSLQNLGIHAGAYHANLEPEDKTTVHRKW 313
Query: 406 RSGKFMTLVATNVAARGLDINDVQLIIQCEPPRDVEAYIHRSGRTGRAGVEA 457
+ + +VAT G+D DV+ +I + +E Y SGR GR ++A
Sbjct: 314 SANEIQVVVATVAFGMGIDKPDVRFVIHHSMSKSMENYYQESGRAGRDDMKA 365
>pdb|3V4R|A Chain A, Crystal Structure Of A Uvrb Dimer-Dna Complex
pdb|3V4R|B Chain B, Crystal Structure Of A Uvrb Dimer-Dna Complex
Length = 667
Score = 40.4 bits (93), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 35/123 (28%), Positives = 56/123 (45%), Gaps = 12/123 (9%)
Query: 365 RTIIFTETKESASQLADLLP----GARALHGDIQQSQREVTLAGFRSGKFMTLVATNVAA 420
R ++ T TK+ + L D L LH +I+ +R + R GK+ LV N+
Sbjct: 453 RVLVTTLTKKMSEDLTDYLKEIGIKVNYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLR 512
Query: 421 RGLDINDVQLIIQCEPPRDVEAYIHRSGRT-----GRAGVEAAETITQVSDSVIPAFKSA 475
GLDI +V L+ + D E ++ RS R+ GRA A + +D + + + A
Sbjct: 513 EGLDIPEVSLVAILDA--DKEGFL-RSERSLIQTIGRAARNAEGRVIMYADKITKSMEIA 569
Query: 476 AEE 478
E
Sbjct: 570 INE 572
>pdb|2D7D|A Chain A, Structural Insights Into The Cryptic Dna Dependent Atp-Ase
Activity Of Uvrb
pdb|2NMV|A Chain A, Damage Detection By The Uvrabc Pathway: Crystal Structure
Of Uvrb Bound To Fluorescein-Adducted Dna
Length = 661
Score = 40.4 bits (93), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 35/123 (28%), Positives = 56/123 (45%), Gaps = 12/123 (9%)
Query: 365 RTIIFTETKESASQLADLLP----GARALHGDIQQSQREVTLAGFRSGKFMTLVATNVAA 420
R ++ T TK+ + L D L LH +I+ +R + R GK+ LV N+
Sbjct: 447 RVLVTTLTKKMSEDLTDYLKEIGIKVNYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLR 506
Query: 421 RGLDINDVQLIIQCEPPRDVEAYIHRSGRT-----GRAGVEAAETITQVSDSVIPAFKSA 475
GLDI +V L+ + D E ++ RS R+ GRA A + +D + + + A
Sbjct: 507 EGLDIPEVSLVAILDA--DKEGFL-RSERSLIQTIGRAARNAEGRVIMYADKITKSMEIA 563
Query: 476 AEE 478
E
Sbjct: 564 INE 566
>pdb|2VA8|A Chain A, Dna Repair Helicase Hel308
pdb|2VA8|B Chain B, Dna Repair Helicase Hel308
Length = 715
Score = 37.7 bits (86), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 92/416 (22%), Positives = 166/416 (39%), Gaps = 100/416 (24%)
Query: 122 EKLKSKGIESLFPIQAMTFDM-VLDGSDLVGRARTGQGKTLAFVLPILESLTNGPTKASK 180
E +K +GI+ L P Q +L+G+ L+ + TG GKTL + I+ L KA
Sbjct: 21 EIIKKRGIKKLNPPQTEAVKKGLLEGNRLLLTSPTGSGKTLIAEMGIISFLLKNGGKA-- 78
Query: 181 KTGYGRAPSVLVLLPTRELAKQVH---EDFDVYGGAVGLTSCCLYGGAPYHAQEFKLKKG 237
+ + P R L + + +D+++ G V +TS Y + L K
Sbjct: 79 ----------IYVTPLRALTNEKYLTFKDWELIGFKVAMTS------GDYDTDDAWL-KN 121
Query: 238 IDVVIGTPGRIKDHIERGNID-LSSLKFRVLDE---ADEMLRMGFVEDVELILGKVEDAN 293
D++I T ++ D + R + L+ + + VLDE ++ R VE V + A
Sbjct: 122 YDIIITTYEKL-DSLWRHRPEWLNEVNYFVLDELHYLNDPERGPVVESVTI------RAK 174
Query: 294 KVQTLLFSATLPSW---VKHISTKFLKSDKKTIDLVGN----EKMKASTNVRHIVLPCSS 346
+ L SAT+ ++ K + + + ++ + + L+ E+ K NV + ++
Sbjct: 175 RRNLLALSATISNYKQIAKWLGAEPVATNWRPVPLIEGVIYPERKKKEYNV---IFKDNT 231
Query: 347 SARSQ----VIPDIIRCYSSGGRTIIFTETKESA-------------------------S 377
+ + +I + S G+ ++F +++ A
Sbjct: 232 TKKVHGDDAIIAYTLDSLSKNGQVLVFRNSRKMAESTALKIANYMNFVSLDENALSEILK 291
Query: 378 QLADLLPGA-------RAL--------HGDIQQSQREVTLAGFRSGKFMTLVAT------ 416
QL D+ G ++L H + ++ R++ GFR K +VAT
Sbjct: 292 QLDDIEEGGSDEKELLKSLISKGVAYHHAGLSKALRDLIEEGFRQRKIKVIVATPTLAAG 351
Query: 417 -NVAARGLDINDV----QLIIQCEPPRDVEAYIHRSGRTGRAGVEA-AETITQVSD 466
N+ AR + I D+ + I + Y SGR GR G + E+I V D
Sbjct: 352 VNLPARTVIIGDIYRFNKKIAGYYDEIPIMEYKQMSGRAGRPGFDQIGESIVVVRD 407
>pdb|2E29|A Chain A, Solution Structure Of The Guct Domain From Human Atp-
Dependent Rna Helicase Ddx50, Dead Box Protein 50
Length = 92
Score = 37.4 bits (85), Expect = 0.030, Method: Compositional matrix adjust.
Identities = 23/70 (32%), Positives = 34/70 (48%)
Query: 500 GYTEIKSRSLLSSLEDHVTVVLEAGKPIYTPSFAFGVLRRFLPEEKVELVKGMALTADGN 559
G + + RSL++S + VT+ LE+ + I S A+ L R L V + M L
Sbjct: 4 GSSGFEPRSLITSDKGFVTMTLESLEEIQDVSCAWKELNRKLSSNAVSQITRMCLLKGNM 63
Query: 560 GAVFDVPVAD 569
G FDVP +
Sbjct: 64 GVCFDVPTTE 73
>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 = 34.3 bits (77), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 45/164 (27%), Positives = 71/164 (43%), Gaps = 31/164 (18%)
Query: 309 KHISTKFLKSDKKTIDLVGNEKMKASTNVRHIVLPCSSSARSQVIPDIIRCYSSGGRTII 368
+H++ KF +K +L+ K + + N + L C ++ D R Y+ RT++
Sbjct: 588 QHLTAKF---QEKEPELIALSKDETNENPKLEELVC-------ILDDAYR-YNPQTRTLL 636
Query: 369 FTETKESASQLADLL----------PGARALHGDIQQ-------SQREVTLAGFRSGK-F 410
F +T+ S L + PG G Q SQ+ V L F++ K
Sbjct: 637 FAKTRALVSALKKCMEENPILNYIKPGVLMGRGRRDQTTGMTLPSQKGV-LDAFKTSKDN 695
Query: 411 MTLVATNVAARGLDINDVQLIIQCEPPRDVEAYIHRSGRTGRAG 454
L+AT+VA G+DI L++ E +V I GR GRA
Sbjct: 696 RLLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQVRGR-GRAA 738
>pdb|4A2W|A Chain A, Structure Of Full-Length Duck Rig-I
pdb|4A2W|B Chain B, Structure Of Full-Length Duck Rig-I
Length = 936
Score = 34.3 bits (77), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 45/164 (27%), Positives = 71/164 (43%), Gaps = 31/164 (18%)
Query: 309 KHISTKFLKSDKKTIDLVGNEKMKASTNVRHIVLPCSSSARSQVIPDIIRCYSSGGRTII 368
+H++ KF +K +L+ K + + N + L C ++ D R Y+ RT++
Sbjct: 588 QHLTAKF---QEKEPELIALSKDETNENPKLEELVC-------ILDDAYR-YNPQTRTLL 636
Query: 369 FTETKESASQLADLL----------PGARALHGDIQQ-------SQREVTLAGFRSGK-F 410
F +T+ S L + PG G Q SQ+ V L F++ K
Sbjct: 637 FAKTRALVSALKKCMEENPILNYIKPGVLMGRGRRDQTTGMTLPSQKGV-LDAFKTSKDN 695
Query: 411 MTLVATNVAARGLDINDVQLIIQCEPPRDVEAYIHRSGRTGRAG 454
L+AT+VA G+DI L++ E +V I GR GRA
Sbjct: 696 RLLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQVRGR-GRAA 738
>pdb|4AY2|A Chain A, Capturing 5' Tri-Phosphorylated Rna Duplex By Rig-I
Length = 687
Score = 33.9 bits (76), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 33/105 (31%), Positives = 47/105 (44%), Gaps = 18/105 (17%)
Query: 366 TIIFTETK----------ESASQLADLLPGARALHGDIQQSQ------REVTLAGFR-SG 408
TI+F +T+ E +L+ L PG G Q+ ++ L F+ SG
Sbjct: 392 TILFVKTRALVDALKNWIEGNPKLSFLKPGILTGRGKTNQNTGMTLPAQKCILDAFKASG 451
Query: 409 KFMTLVATNVAARGLDINDVQLIIQCEPPRDVEAYIHRSGRTGRA 453
L+AT+VA G+DI L+I E +V I GR GRA
Sbjct: 452 DHNILIATSVADEGIDIAQCNLVILYEYVGNVIKMIQTRGR-GRA 495
>pdb|2YKG|A Chain A, Structural Insights Into Rna Recognition By Rig-I
Length = 696
Score = 33.9 bits (76), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 33/105 (31%), Positives = 47/105 (44%), Gaps = 18/105 (17%)
Query: 366 TIIFTETK----------ESASQLADLLPGARALHGDIQQSQ------REVTLAGFR-SG 408
TI+F +T+ E +L+ L PG G Q+ ++ L F+ SG
Sbjct: 401 TILFVKTRALVDALKNWIEGNPKLSFLKPGILTGRGKTNQNTGMTLPAQKCILDAFKASG 460
Query: 409 KFMTLVATNVAARGLDINDVQLIIQCEPPRDVEAYIHRSGRTGRA 453
L+AT+VA G+DI L+I E +V I GR GRA
Sbjct: 461 DHNILIATSVADEGIDIAQCNLVILYEYVGNVIKMIQTRGR-GRA 504
>pdb|3TMI|A Chain A, Structural Basis For Rna Recognition And Activation Of
Rig-I
Length = 695
Score = 33.9 bits (76), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 33/105 (31%), Positives = 47/105 (44%), Gaps = 18/105 (17%)
Query: 366 TIIFTETK----------ESASQLADLLPGARALHGDIQQSQ------REVTLAGFR-SG 408
TI+F +T+ E +L+ L PG G Q+ ++ L F+ SG
Sbjct: 400 TILFVKTRALVDALKNWIEGNPKLSFLKPGILTGRGKTNQNTGMTLPAQKCILDAFKASG 459
Query: 409 KFMTLVATNVAARGLDINDVQLIIQCEPPRDVEAYIHRSGRTGRA 453
L+AT+VA G+DI L+I E +V I GR GRA
Sbjct: 460 DHNILIATSVADEGIDIAQCNLVILYEYVGNVIKMIQTRGR-GRA 503
>pdb|4A2P|A Chain A, Structure Of Duck Rig-I Helicase Domain
pdb|4A36|A Chain A, Structure Of Duck Rig-I Helicase Domain Bound To 19-Mer
Dsrna And Atp Transition State Analogue
pdb|4A36|B Chain B, Structure Of Duck Rig-I Helicase Domain Bound To 19-Mer
Dsrna And Atp Transition State Analogue
Length = 556
Score = 33.5 bits (75), Expect = 0.35, Method: Compositional matrix adjust.
Identities = 45/164 (27%), Positives = 71/164 (43%), Gaps = 31/164 (18%)
Query: 309 KHISTKFLKSDKKTIDLVGNEKMKASTNVRHIVLPCSSSARSQVIPDIIRCYSSGGRTII 368
+H++ KF +K +L+ K + + N + L C ++ D R Y+ RT++
Sbjct: 347 QHLTAKF---QEKEPELIALSKDETNENPKLEELVC-------ILDDAYR-YNPQTRTLL 395
Query: 369 FTETKESASQLADLL----------PGARALHGDIQQ-------SQREVTLAGFRSGK-F 410
F +T+ S L + PG G Q SQ+ V L F++ K
Sbjct: 396 FAKTRALVSALKKCMEENPILNYIKPGVLMGRGRRDQTTGMTLPSQKGV-LDAFKTSKDN 454
Query: 411 MTLVATNVAARGLDINDVQLIIQCEPPRDVEAYIHRSGRTGRAG 454
L+AT+VA G+DI L++ E +V I GR GRA
Sbjct: 455 RLLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQVRGR-GRAA 497
>pdb|3TBK|A Chain A, Mouse Rig-I Atpase Domain
Length = 555
Score = 33.1 bits (74), Expect = 0.47, Method: Compositional matrix adjust.
Identities = 35/121 (28%), Positives = 53/121 (43%), Gaps = 18/121 (14%)
Query: 365 RTIIFTETK----------ESASQLADLLPGARALHGDIQQSQ------REVTLAGFR-S 407
+TI+F +T+ E L+ L PG G ++ ++ L FR S
Sbjct: 391 KTILFVKTRALVDALKKWIEENPALSFLKPGILTGRGRTNRATGXTLPAQKCVLEAFRAS 450
Query: 408 GKFMTLVATNVAARGLDINDVQLIIQCEPPRDVEAYIHRSGRTGRAGVEAAETITQVSDS 467
G L+AT+VA G+DI + L+I E +V I GR GRA +T +D
Sbjct: 451 GDNNILIATSVADEGIDIAECNLVILYEYVGNVIKXIQTRGR-GRARDSKCFLLTSSADV 509
Query: 468 V 468
+
Sbjct: 510 I 510
>pdb|1NKT|A Chain A, Crystal Structure Of The Seca Protein Translocation Atpase
From Mycobacterium Tuberculosis Complex With Adpbs
pdb|1NKT|B Chain B, Crystal Structure Of The Seca Protein Translocation Atpase
From Mycobacterium Tuberculosis Complex With Adpbs
pdb|1NL3|A Chain A, Crystal Structure Of The Seca Protein Translocation Atpase
From Mycobacterium Tuberculosis In Apo Form
pdb|1NL3|B Chain B, Crystal Structure Of The Seca Protein Translocation Atpase
From Mycobacterium Tuberculosis In Apo Form
Length = 922
Score = 32.0 bits (71), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 24/79 (30%), Positives = 35/79 (44%), Gaps = 8/79 (10%)
Query: 352 VIPDIIRCYSSGGRTIIFTETKESASQLADLLPGARALHGDIQQSQRE-----VTLAGFR 406
V+ D+ Y+ G +I T + E + L+ R H + E + +AG R
Sbjct: 449 VVDDVAERYAKGQPVLIGTTSVERSEYLSRQFTKRRIPHNVLNAKYHEQEATIIAVAGRR 508
Query: 407 SGKFMTLVATNVAARGLDI 425
G VATN+A RG DI
Sbjct: 509 GG---VTVATNMAGRGTDI 524
>pdb|3JUX|A Chain A, Structure Of The Translocation Atpase Seca From Thermotoga
Maritima
Length = 822
Score = 32.0 bits (71), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 20/88 (22%), Positives = 39/88 (44%), Gaps = 2/88 (2%)
Query: 340 IVLPCSSSARSQVIPDIIRCYSSGGRTIIFTETKESASQLADLLPGARALHG--DIQQSQ 397
+V +++ +I + Y G ++ T + E + L+ +L H + + +
Sbjct: 451 LVFRTQKEKYEKIVEEIEKRYKKGQPVLVGTTSIEKSELLSSMLKKKGIPHQVLNAKYHE 510
Query: 398 REVTLAGFRSGKFMTLVATNVAARGLDI 425
+E + K M +ATN+A RG DI
Sbjct: 511 KEAEIVAKAGQKGMVTIATNMAGRGTDI 538
>pdb|3DIN|A Chain A, Crystal Structure Of The Protein-Translocation Complex
Formed By The Secy Channel And The Seca Atpase
pdb|3DIN|B Chain B, Crystal Structure Of The Protein-Translocation Complex
Formed By The Secy Channel And The Seca Atpase
Length = 871
Score = 32.0 bits (71), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 20/88 (22%), Positives = 39/88 (44%), Gaps = 2/88 (2%)
Query: 340 IVLPCSSSARSQVIPDIIRCYSSGGRTIIFTETKESASQLADLLPGARALHG--DIQQSQ 397
+V +++ +I + Y G ++ T + E + L+ +L H + + +
Sbjct: 451 LVFRTQKEKYEKIVEEIEKRYKKGQPVLVGTTSIEKSELLSSMLKKKGIPHQVLNAKYHE 510
Query: 398 REVTLAGFRSGKFMTLVATNVAARGLDI 425
+E + K M +ATN+A RG DI
Sbjct: 511 KEAEIVAKAGQKGMVTIATNMAGRGTDI 538
>pdb|1M6N|A Chain A, Crystal Structure Of The Seca Translocation Atpase From
Bacillus Subtilis
pdb|1M74|A Chain A, Crystal Structure Of Mg-Adp-Bound Seca From Bacillus
Subtilis
Length = 802
Score = 30.8 bits (68), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 42/162 (25%), Positives = 68/162 (41%), Gaps = 34/162 (20%)
Query: 126 SKGIESLFP--IQAMTFDMVLDGSDLVGRARTGQGKTLAFVLPI-LESLTNGPTKASKKT 182
S+ + +FP +Q M + DG+ + +TG+GKTL LP+ L +LT
Sbjct: 73 SRRVTGMFPFKVQLMGGVALHDGN--IAEMKTGEGKTLTSTLPVYLNALT---------- 120
Query: 183 GYGRAPSVLVL---LPTRELAKQVHEDFDVYGGAVGLTSCCLYGGAPYHAQEFKLKKGID 239
G+ V+ + L +R+ A+Q+ + F+ G VGL + A D
Sbjct: 121 --GKGVHVVTVNEYLASRD-AEQMGKIFEFLGLTVGLNLNSMSKDEKREAY------AAD 171
Query: 240 VVIGTPGRIKDHIERGNIDLSS-------LKFRVLDEADEML 274
+ T + R N+ L L F V+DE D +L
Sbjct: 172 ITYSTNNELGFDYLRDNMVLYKEQMVQRPLHFAVIDEVDSIL 213
>pdb|3JV2|A Chain A, Crystal Structure Of B. Subtilis Seca With Bound Peptide
pdb|3JV2|B Chain B, Crystal Structure Of B. Subtilis Seca With Bound Peptide
Length = 783
Score = 30.4 bits (67), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 42/162 (25%), Positives = 68/162 (41%), Gaps = 34/162 (20%)
Query: 126 SKGIESLFP--IQAMTFDMVLDGSDLVGRARTGQGKTLAFVLPI-LESLTNGPTKASKKT 182
S+ + +FP +Q M + DG+ + +TG+GKTL LP+ L +LT
Sbjct: 76 SRRVTGMFPFKVQLMGGVALHDGN--IAEMKTGEGKTLTSTLPVYLNALT---------- 123
Query: 183 GYGRAPSVLVL---LPTRELAKQVHEDFDVYGGAVGLTSCCLYGGAPYHAQEFKLKKGID 239
G+ V+ + L +R+ A+Q+ + F+ G VGL + A D
Sbjct: 124 --GKGVHVVTVNEYLASRD-AEQMGKIFEFLGLTVGLNLNSMSKDEKREAY------AAD 174
Query: 240 VVIGTPGRIKDHIERGNIDLSS-------LKFRVLDEADEML 274
+ T + R N+ L L F V+DE D +L
Sbjct: 175 ITYSTNNELGFDYLRDNMVLYKEQMVQRPLHFAVIDEVDSIL 216
>pdb|2DPN|A Chain A, Crystal Structure Of The Glycerol Kinase From Thermus
Thermophilus Hb8
pdb|2DPN|B Chain B, Crystal Structure Of The Glycerol Kinase From Thermus
Thermophilus Hb8
Length = 495
Score = 30.4 bits (67), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 18/52 (34%), Positives = 29/52 (55%), Gaps = 1/52 (1%)
Query: 100 QERGESEHPNAVSRFRISVPLREKLKSKGIESLFPIQ-AMTFDMVLDGSDLV 150
++ G+ H V + R + PL E L++KG+E LF + + FD G+ LV
Sbjct: 89 RKTGKPLHNAIVWQDRRTTPLCEALRAKGLEPLFRERTGLLFDPYFSGTKLV 140
>pdb|3DL8|A Chain A, Structure Of The Complex Of Aquifex Aeolicus Secyeg And
Bacillus Subtilis Seca
pdb|3DL8|B Chain B, Structure Of The Complex Of Aquifex Aeolicus Secyeg And
Bacillus Subtilis Seca
Length = 779
Score = 30.4 bits (67), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 42/162 (25%), Positives = 68/162 (41%), Gaps = 34/162 (20%)
Query: 126 SKGIESLFP--IQAMTFDMVLDGSDLVGRARTGQGKTLAFVLPI-LESLTNGPTKASKKT 182
S+ + +FP +Q M + DG+ + +TG+GKTL LP+ L +LT
Sbjct: 73 SRRVTGMFPFKVQLMGGVALHDGN--IAEMKTGEGKTLTSTLPVYLNALT---------- 120
Query: 183 GYGRAPSVLVL---LPTRELAKQVHEDFDVYGGAVGLTSCCLYGGAPYHAQEFKLKKGID 239
G+ V+ + L +R+ A+Q+ + F+ G VGL + A D
Sbjct: 121 --GKGVHVVTVNEYLASRD-AEQMGKIFEFLGLTVGLNLNSMSKDEKREAY------AAD 171
Query: 240 VVIGTPGRIKDHIERGNIDLSS-------LKFRVLDEADEML 274
+ T + R N+ L L F V+DE D +L
Sbjct: 172 ITYSTNNELGFDYLRDNMVLYKEQMVQRPLHFAVIDEVDSIL 213
>pdb|2IBM|A Chain A, A Novel Dimer Interface And Conformational Changes
Revealed By An X- Ray Structure Of B. Subtilis Seca
pdb|2IBM|B Chain B, A Novel Dimer Interface And Conformational Changes
Revealed By An X- Ray Structure Of B. Subtilis Seca
Length = 780
Score = 30.4 bits (67), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 42/162 (25%), Positives = 68/162 (41%), Gaps = 34/162 (20%)
Query: 126 SKGIESLFP--IQAMTFDMVLDGSDLVGRARTGQGKTLAFVLPI-LESLTNGPTKASKKT 182
S+ + +FP +Q M + DG+ + +TG+GKTL LP+ L +LT
Sbjct: 73 SRRVTGMFPFKVQLMGGVALHDGN--IAEMKTGEGKTLTSTLPVYLNALT---------- 120
Query: 183 GYGRAPSVLVL---LPTRELAKQVHEDFDVYGGAVGLTSCCLYGGAPYHAQEFKLKKGID 239
G+ V+ + L +R+ A+Q+ + F+ G VGL + A D
Sbjct: 121 --GKGVHVVTVNEYLASRD-AEQMGKIFEFLGLTVGLNLNSMSKDEKREAY------AAD 171
Query: 240 VVIGTPGRIKDHIERGNIDLSS-------LKFRVLDEADEML 274
+ T + R N+ L L F V+DE D +L
Sbjct: 172 ITYSTNNELGFDYLRDNMVLYKEQMVQRPLHFAVIDEVDSIL 213
>pdb|1TF2|A Chain A, Crystal Structure Of Seca:adp In An Open Conformation From
Bacillus Subtilis
pdb|1TF5|A Chain A, Crystal Structure Of Seca In An Open Conformation From
Bacillus Subtilis
Length = 844
Score = 30.4 bits (67), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 42/162 (25%), Positives = 68/162 (41%), Gaps = 34/162 (20%)
Query: 126 SKGIESLFP--IQAMTFDMVLDGSDLVGRARTGQGKTLAFVLPI-LESLTNGPTKASKKT 182
S+ + +FP +Q M + DG+ + +TG+GKTL LP+ L +LT
Sbjct: 76 SRRVTGMFPFKVQLMGGVALHDGN--IAEMKTGEGKTLTSTLPVYLNALT---------- 123
Query: 183 GYGRAPSVLVL---LPTRELAKQVHEDFDVYGGAVGLTSCCLYGGAPYHAQEFKLKKGID 239
G+ V+ + L +R+ A+Q+ + F+ G VGL + A D
Sbjct: 124 --GKGVHVVTVNEYLASRD-AEQMGKIFEFLGLTVGLNLNSMSKDEKREAY------AAD 174
Query: 240 VVIGTPGRIKDHIERGNIDLSS-------LKFRVLDEADEML 274
+ T + R N+ L L F V+DE D +L
Sbjct: 175 ITYSTNNELGFDYLRDNMVLYKEQMVQRPLHFAVIDEVDSIL 216
>pdb|3IQM|A Chain A, Active Site Mutants Of B. Subtilis Seca
Length = 802
Score = 29.3 bits (64), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 41/162 (25%), Positives = 68/162 (41%), Gaps = 34/162 (20%)
Query: 126 SKGIESLFP--IQAMTFDMVLDGSDLVGRARTGQGKTLAFVLPI-LESLTNGPTKASKKT 182
S+ + +FP +Q M + DG+ + +TG+GKTL LP+ L +LT
Sbjct: 73 SRRVTGMFPFKVQLMGGVALHDGN--IAEMKTGEGKTLTSTLPVYLNALT---------- 120
Query: 183 GYGRAPSVLVL---LPTRELAKQVHEDFDVYGGAVGLTSCCLYGGAPYHAQEFKLKKGID 239
G+ V+ + L +R+ A+Q+ + F+ G VGL + A D
Sbjct: 121 --GKGVHVVTVNEYLASRD-AEQMGKIFEFLGLTVGLNLNSMSKDEKREAY------AAD 171
Query: 240 VVIGTPGRIKDHIERGNIDLSS-------LKFRVLDEADEML 274
+ T + R N+ L L F V+D+ D +L
Sbjct: 172 ITYSTNNELGFDYLRDNMVLYKEQMVQRPLHFAVIDQVDSIL 213
>pdb|3IQY|A Chain A, Active Site Mutants Of B. Subtilis Seca
Length = 841
Score = 29.3 bits (64), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 41/162 (25%), Positives = 68/162 (41%), Gaps = 34/162 (20%)
Query: 126 SKGIESLFP--IQAMTFDMVLDGSDLVGRARTGQGKTLAFVLPI-LESLTNGPTKASKKT 182
S+ + +FP +Q M + DG+ + +TG+GKTL LP+ L +LT
Sbjct: 73 SRRVTGMFPFKVQLMGGVALHDGN--IAEMKTGEGKTLTSTLPVYLNALT---------- 120
Query: 183 GYGRAPSVLVL---LPTRELAKQVHEDFDVYGGAVGLTSCCLYGGAPYHAQEFKLKKGID 239
G+ V+ + L +R+ A+Q+ + F+ G VGL + A D
Sbjct: 121 --GKGVHVVTVNEYLASRD-AEQMGKIFEFLGLTVGLNLNSMSKDEKREAY------AAD 171
Query: 240 VVIGTPGRIKDHIERGNIDLSS-------LKFRVLDEADEML 274
+ T + R N+ L L F V+D+ D +L
Sbjct: 172 ITYSTNNELGFDYLRDNMVLYKEQMVQRPLHFAVIDQVDSIL 213
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 0.134 0.378
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 14,106,306
Number of Sequences: 62578
Number of extensions: 546931
Number of successful extensions: 1639
Number of sequences better than 100.0: 108
Number of HSP's better than 100.0 without gapping: 83
Number of HSP's successfully gapped in prelim test: 25
Number of HSP's that attempted gapping in prelim test: 1368
Number of HSP's gapped (non-prelim): 125
length of query: 652
length of database: 14,973,337
effective HSP length: 105
effective length of query: 547
effective length of database: 8,402,647
effective search space: 4596247909
effective search space used: 4596247909
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 55 (25.8 bits)