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= psy12977
(226 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3DKP|A Chain A, Human Dead-Box Rna-Helicase Ddx52, Conserved Domain I In
Complex With Adp
Length = 245
Score = 228 bits (580), Expect = 2e-60, Method: Compositional matrix adjust.
Identities = 101/178 (56%), Positives = 135/178 (75%)
Query: 49 GRQIFACAPTGSGKTAAFLIPIIHSLRGPKNLGFRAVIVCPTRELAKQTYNETVRLSEGL 108
GR++ A APTGSGKT AF IPI+ L+ P N GFRA+I+ PTRELA Q + E +++SEG
Sbjct: 66 GRELLASAPTGSGKTLAFSIPILMQLKQPANKGFRALIISPTRELASQIHRELIKISEGT 125
Query: 109 GLRAHVIGKIQQAAEKFGPRSAQKFDVLITTPNKLVYLLQMDPPALNLANVEWLIVDESD 168
G R H+I K AA+KFGP+S++KFD+L+TTPN+L+YLL+ DPP ++LA+VEWL+VDESD
Sbjct: 126 GFRIHMIHKAAVAAKKFGPKSSKKFDILVTTPNRLIYLLKQDPPGIDLASVEWLVVDESD 185
Query: 169 KLFEAGVRGFRDQLAVIYAACSGPNLKRGMFSATHTEDVAKWCRRKLKRRVQINVGLR 226
KLFE G GFRDQLA I+ AC+ ++R MFSAT DV +WC+ L + +++G R
Sbjct: 186 KLFEDGKTGFRDQLASIFLACTSHKVRRAMFSATFAYDVEQWCKLNLDNVISVSIGAR 243
>pdb|3LY5|A Chain A, Ddx18 Dead-Domain
pdb|3LY5|B Chain B, Ddx18 Dead-Domain
Length = 262
Score = 79.7 bits (195), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 63/179 (35%), Positives = 93/179 (51%), Gaps = 21/179 (11%)
Query: 49 GRQIFACAPTGSGKTAAFLIP---IIHSLR-GPKNLGFRAVIVCPTRELAKQTYNETVRL 104
GR + A A TGSGKT AFLIP +I LR P+N G +I+ PTRELA QT+ L
Sbjct: 91 GRDLLAAAKTGSGKTLAFLIPAVELIVKLRFMPRN-GTGVLILSPTRELAMQTFG---VL 146
Query: 105 SEGLGLRAHVIGKIQQAAEKFGPRSAQKF----DVLITTPNKLVYLLQMDPPALNLANVE 160
E + H G I + + AQK ++++ TP +L+ +Q + P N++
Sbjct: 147 KELMTHHVHTYGLIMGGSNRSA--EAQKLGNGINIIVATPGRLLDHMQ-NTPGFMYKNLQ 203
Query: 161 WLIVDESDKLFEAGVRGFRDQLAVIYAACSGPNLKRGM-FSATHTEDVAKWCRRKLKRR 218
L++DE+D++ + GF ++L I P ++ M FSAT T V R LK+
Sbjct: 204 CLVIDEADRILDV---GFEEELKQIIKLL--PTRRQTMLFSATQTRKVEDLARISLKKE 257
>pdb|2Z0M|A Chain A, Crystal Structure Of Hypothetical Atp-Dependent Rna
Helicase From Sulfolobus Tokodaii
Length = 337
Score = 79.3 bits (194), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 59/179 (32%), Positives = 95/179 (53%), Gaps = 18/179 (10%)
Query: 33 FKHF-EPHFTITYLSPLGRQIFACAPTGSGKTAAFLIPIIHSLRGPKNLGFRAVIVCPTR 91
FK+F E L G+ + A TGSGKTAA+ IPI+ LG ++++V PTR
Sbjct: 14 FKNFTEVQSKTIPLMLQGKNVVVRAKTGSGKTAAYAIPILE-------LGMKSLVVTPTR 66
Query: 92 ELAKQTYNETVRLSEGLGLR-AHVIGKIQQAAEKFGPRSAQKFDVLITTPNKLVYLLQMD 150
EL +Q + + + + A V G + A+ R+A D+++ TP +L+ L
Sbjct: 67 ELTRQVASHIRDIGRYMDTKVAEVYGGMPYKAQINRVRNA---DIVVATPGRLLDLWS-- 121
Query: 151 PPALNLANVEWLIVDESDKLFEAGVRGFRDQLAVIYAACSGPNLKRGMFSATHTEDVAK 209
++L++ E +I+DE+D +FE GF D + +I A S + G+FSAT E++ K
Sbjct: 122 KGVIDLSSFEIVIIDEADLMFEM---GFIDDIKIILAQTSNRKIT-GLFSATIPEEIRK 176
>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 = 78.2 bits (191), Expect = 3e-15, Method: Compositional matrix adjust.
Identities = 62/187 (33%), Positives = 96/187 (51%), Gaps = 19/187 (10%)
Query: 50 RQIFACAPTGSGKTAAFLIPIIHSL--------RGPKNLGFRAVIVCPTRELAKQTYNET 101
R I ACA TGSGKTAAFLIPII+ L R K + +I+ PTRELA Q +E+
Sbjct: 61 RDIMACAQTGSGKTAAFLIPIINHLVCQDLNQQRYSKTAYPKCLILAPTRELAIQILSES 120
Query: 102 VRLSEGLGLRAHVIGKIQQAAEKFGPRSAQK-FDVLITTPNKLVYLLQMDPPALNLANVE 160
+ S LR+ V+ + R Q +L+ TP +LV ++ + ++L +
Sbjct: 121 QKFSLNTPLRSCVVYGGADTHSQI--REVQMGCHLLVATPGRLVDFIEKN--KISLEFCK 176
Query: 161 WLIVDESDKLFEAGVRGFRDQLAVIYAAC---SGPNLKRGMFSATHTEDVAKWCRRKLKR 217
++++DE+D++ + GF Q+ I SG N + MFSAT +++ K L
Sbjct: 177 YIVLDEADRMLDM---GFEPQIRKIIEESNMPSGINRQTLMFSATFPKEIQKLAADFLYN 233
Query: 218 RVQINVG 224
+ + VG
Sbjct: 234 YIFMTVG 240
>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 = 77.8 bits (190), Expect = 5e-15, Method: Compositional matrix adjust.
Identities = 57/183 (31%), Positives = 92/183 (50%), Gaps = 13/183 (7%)
Query: 49 GRQIFACAPTGSGKTAAFLIPIIHS-LRGPKNLGF---RAVIVCPTRELAKQTYNETVRL 104
GR + ACA TGSGKTAAFL+PI+ L P L + VIV PTRELA Q +NE +
Sbjct: 93 GRDLMACAQTGSGKTAAFLLPILSKLLEDPHELELGRPQVVIVSPTRELAIQIFNEARKF 152
Query: 105 SEGLGLRAHVI--GKIQQAAEKFGPRSAQKFDVLITTPNKLVYLLQMDPPALNLANVEWL 162
+ L+ ++ G + + R V+I TP +L+ + D + + ++
Sbjct: 153 AFESYLKIGIVYGGTSFRHQNECITRGCH---VVIATPGRLLDFV--DRTFITFEDTRFV 207
Query: 163 IVDESDKLFEAGVRGFRDQLAVIYAACSGPNLKRGMFSATHTEDVAKWCRRKLKRRVQIN 222
++DE+D++ + G D ++ P + MFSAT E++ + LK V +
Sbjct: 208 VLDEADRMLDMGFS--EDMRRIMTHVTMRPEHQTLMFSATFPEEIQRMAGEFLKNYVFVA 265
Query: 223 VGL 225
+G+
Sbjct: 266 IGI 268
>pdb|3BER|A Chain A, Human Dead-Box Rna-Helicase Ddx47, Conserved Domain I In
Complex With Amp
Length = 249
Score = 75.9 bits (185), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 58/177 (32%), Positives = 95/177 (53%), Gaps = 11/177 (6%)
Query: 49 GRQIFACAPTGSGKTAAFLIPIIHS-LRGPKNLGFRAVIVCPTRELAKQTYNETVRLSEG 107
GR I A TGSGKT AF +PI+++ L P+ L A+++ PTRELA Q + L
Sbjct: 80 GRDIIGLAETGSGKTGAFALPILNALLETPQRL--FALVLTPTRELAFQISEQFEALGSS 137
Query: 108 LGLRAHVI-GKIQQAAEKFGPRSAQKFDVLITTPNKLVYLLQMDPPALNLANVEWLIVDE 166
+G+++ VI G I ++ A+K ++I TP +L+ L+ + NL +++L++DE
Sbjct: 138 IGVQSAVIVGGIDSMSQSLA--LAKKPHIIIATPGRLIDHLE-NTKGFNLRALKYLVMDE 194
Query: 167 SDKLFEAGVRGFRDQLAVIYAACSGPNLKRGMFSATHTEDVAKWCRRKLKRRVQINV 223
+D++ D++ + + K +FSAT T+ V K R LK V+ V
Sbjct: 195 ADRILNMDFETEVDKILKVIPR----DRKTFLFSATMTKKVQKLQRAALKNPVKCAV 247
>pdb|2PL3|A Chain A, Human Dead-Box Rna Helicase Ddx10, Dead Domain In Complex
With Adp
Length = 236
Score = 70.9 bits (172), Expect = 6e-13, Method: Compositional matrix adjust.
Identities = 53/176 (30%), Positives = 91/176 (51%), Gaps = 20/176 (11%)
Query: 49 GRQIFACAPTGSGKTAAFLIPIIHS---LRGPKNLGFRAVIVCPTRELAKQTYNETVRLS 105
G+ + A TGSGKT AFL+P++ + L+ G +I+ PTRELA QT+ ++
Sbjct: 62 GKDVLGAAKTGSGKTLAFLVPVLEALYRLQWTSTDGLGVLIISPTRELAYQTFEVLRKVG 121
Query: 106 EGLGLRAHVI--GK-IQQAAEKFGPRSAQKFDVLITTPNKLVYLLQMDPP-ALNLANVEW 161
+ A +I GK ++ AE+ ++L+ TP +L L MD + + +++
Sbjct: 122 KNHDFSAGLIIGGKDLKHEAERIN-----NINILVCTPGRL--LQHMDETVSFHATDLQM 174
Query: 162 LIVDESDKLFEAGVRGFRDQLAVIYAACSGPNLKRG-MFSATHTEDVAKWCRRKLK 216
L++DE+D++ + GF D + + P ++ +FSAT T+ V R LK
Sbjct: 175 LVLDEADRILDM---GFADTMNAVIENL--PKKRQTLLFSATQTKSVKDLARLSLK 225
>pdb|3SQX|A Chain A, Structure Of Mss116p (Nte And C-Tail Double Deletion)
Bound To Ssrna And Amp-Pnp
Length = 512
Score = 68.9 bits (167), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 60/189 (31%), Positives = 92/189 (48%), Gaps = 21/189 (11%)
Query: 45 LSPLGRQIFACAPTGSGKTAAFLIPIIHSLRGPK---NLGFRAVIVCPTRELAKQTYNET 101
LS + A A TG+GKT AFLIPI L K +AVIV PTR+LA Q E
Sbjct: 56 LSSEDHDVIARAKTGTGKTFAFLIPIFQHLINTKFDSQYMVKAVIVAPTRDLALQIEAEV 115
Query: 102 VRLSE-GLGLRAH-----VIGKIQQAAEKFGPRSAQKFDVLITTPNKLVYLLQMDPPALN 155
++ + GL+ + V G +AA + + +++I TP +L+ +L+
Sbjct: 116 KKIHDMNYGLKKYACVSLVGGTDFRAA--MNKMNKLRPNIVIATPGRLIDVLEKYSNKF- 172
Query: 156 LANVEWLIVDESDKLFEAGVRGFRDQLAVIYA------ACSGPNLKRGMFSATHTEDVAK 209
V++ ++DE+D+L E GFRD L I + S N+K +FSAT + V K
Sbjct: 173 FRFVDYKVLDEADRLLEI---GFRDDLETISGILNEKNSKSADNIKTLLFSATLDDKVQK 229
Query: 210 WCRRKLKRR 218
+ ++
Sbjct: 230 LANNIMNKK 238
>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 = 68.9 bits (167), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 60/189 (31%), Positives = 92/189 (48%), Gaps = 21/189 (11%)
Query: 45 LSPLGRQIFACAPTGSGKTAAFLIPIIHSLRGPK---NLGFRAVIVCPTRELAKQTYNET 101
LS + A A TG+GKT AFLIPI L K +AVIV PTR+LA Q E
Sbjct: 107 LSSEDHDVIARAKTGTGKTFAFLIPIFQHLINTKFDSQYMVKAVIVAPTRDLALQIEAEV 166
Query: 102 VRLSE-GLGLRAH-----VIGKIQQAAEKFGPRSAQKFDVLITTPNKLVYLLQMDPPALN 155
++ + GL+ + V G +AA + + +++I TP +L+ +L+
Sbjct: 167 KKIHDMNYGLKKYACVSLVGGTDFRAA--MNKMNKLRPNIVIATPGRLIDVLEKYSNKF- 223
Query: 156 LANVEWLIVDESDKLFEAGVRGFRDQLAVIYA------ACSGPNLKRGMFSATHTEDVAK 209
V++ ++DE+D+L E GFRD L I + S N+K +FSAT + V K
Sbjct: 224 FRFVDYKVLDEADRLLEI---GFRDDLETISGILNEKNSKSADNIKTLLFSATLDDKVQK 280
Query: 210 WCRRKLKRR 218
+ ++
Sbjct: 281 LANNIMNKK 289
>pdb|3SQW|A Chain A, Structure Of Mss116p (Nte Deletion) Bound To Ssrna And
Amp-Pnp
Length = 579
Score = 68.9 bits (167), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 60/189 (31%), Positives = 92/189 (48%), Gaps = 21/189 (11%)
Query: 45 LSPLGRQIFACAPTGSGKTAAFLIPIIHSLRGPK---NLGFRAVIVCPTRELAKQTYNET 101
LS + A A TG+GKT AFLIPI L K +AVIV PTR+LA Q E
Sbjct: 56 LSSEDHDVIARAKTGTGKTFAFLIPIFQHLINTKFDSQYMVKAVIVAPTRDLALQIEAEV 115
Query: 102 VRLSE-GLGLRAH-----VIGKIQQAAEKFGPRSAQKFDVLITTPNKLVYLLQMDPPALN 155
++ + GL+ + V G +AA + + +++I TP +L+ +L+
Sbjct: 116 KKIHDMNYGLKKYACVSLVGGTDFRAA--MNKMNKLRPNIVIATPGRLIDVLEKYSNKF- 172
Query: 156 LANVEWLIVDESDKLFEAGVRGFRDQLAVIYA------ACSGPNLKRGMFSATHTEDVAK 209
V++ ++DE+D+L E GFRD L I + S N+K +FSAT + V K
Sbjct: 173 FRFVDYKVLDEADRLLEI---GFRDDLETISGILNEKNSKSADNIKTLLFSATLDDKVQK 229
Query: 210 WCRRKLKRR 218
+ ++
Sbjct: 230 LANNIMNKK 238
>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 = 68.2 bits (165), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 52/164 (31%), Positives = 86/164 (52%), Gaps = 12/164 (7%)
Query: 51 QIFACAPTGSGKTAAFLIPIIHSLRGPKNLGFRAVIVCPTRELAKQTYNETVRLSEGLGL 110
I A A TGSGKTA+F IP+I + +N G A+I+ PTRELA Q +E L L
Sbjct: 46 NIVAQARTGSGKTASFAIPLIELVN--ENNGIEAIILTPTRELAIQVADEIESLKGNKNL 103
Query: 111 RAHVIGKIQQAAEKFGP-RSAQKFDVLITTPNKLVYLLQMDPPALNLANVEWLIVDESDK 169
+ I KI + ++ + ++++ TP ++ L ++ LNL NV++ I+DE+D+
Sbjct: 104 K---IAKIYGGKAIYPQIKALKNANIVVGTPGRI--LDHINRGTLNLKNVKYFILDEADE 158
Query: 170 LFEAGVRGFRDQLAVIYAACSGPNLKRGMFSATHTEDVAKWCRR 213
GF + I AC+ + + +FSAT ++ ++
Sbjct: 159 XLNX---GFIKDVEKILNACN-KDKRILLFSATXPREILNLAKK 198
>pdb|2I4I|A Chain A, Crystal Structure Of Human Dead-Box Rna Helicase Ddx3x
Length = 417
Score = 66.2 bits (160), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 58/198 (29%), Positives = 96/198 (48%), Gaps = 32/198 (16%)
Query: 50 RQIFACAPTGSGKTAAFLIPII---------HSLRGPKNLGFR--------AVIVCPTRE 92
R + ACA TGSGKTAAFL+PI+ +LR K G ++++ PTRE
Sbjct: 53 RDLMACAQTGSGKTAAFLLPILSQIYSDGPGEALRAMKENGRYGRRKQYPISLVLAPTRE 112
Query: 93 LAKQTYNETVRLSEGLGLRAHVIGKIQQAAEKFGPRSAQK-FDVLITTPNKLVYLLQMDP 151
LA Q Y E + S +R V+ ++ R ++ +L+ TP +LV +++
Sbjct: 113 LAVQIYEEARKFSYRSRVRPCVVYGGADIGQQI--RDLERGCHLLVATPGRLVDMMERGK 170
Query: 152 PALNLANVEWLIVDESDKLFEAGVRGFRDQLAVIYAACSGPNLKRG-----MFSATHTED 206
L+ ++L++DE+D++ + GF Q+ I + P +G MFSAT ++
Sbjct: 171 IGLDFC--KYLVLDEADRMLDM---GFEPQIRRIVEQDTMP--PKGVRHTMMFSATFPKE 223
Query: 207 VAKWCRRKLKRRVQINVG 224
+ R L + + VG
Sbjct: 224 IQMLARDFLDEYIFLAVG 241
>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 = 65.1 bits (157), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 49/172 (28%), Positives = 87/172 (50%), Gaps = 18/172 (10%)
Query: 49 GRQIFACAPTGSGKTAAFLIPIIHSLRGPKNLGFRAVIVCPTRELAKQTYNETVRLSEGL 108
G + TG+GKT A+L+PI ++ P+ +AVI PTRELA Q Y+ET+++++
Sbjct: 41 GESXVGQSQTGTGKTHAYLLPIXEKIK-PERAEVQAVITAPTRELATQIYHETLKITKFC 99
Query: 109 GLRAHVIGKI-------QQAAEKFGPRSAQKFDVLITTPNKLVYLLQMDPPALNLANVEW 161
++ + Q+A EK + ++I TP ++ ++ AL++
Sbjct: 100 PKDRXIVARCLIGGTDKQKALEKLNVQP----HIVIGTPGRINDFIREQ--ALDVHTAHI 153
Query: 162 LIVDESDKLFEAGVRGFRDQLAVIYAACSGPNLKRGMFSATHTEDVAKWCRR 213
L+VDE+D + G DQ+ AA +L+ +FSAT E + + ++
Sbjct: 154 LVVDEADLXLDXGFITDVDQI----AARXPKDLQXLVFSATIPEKLKPFLKK 201
>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 = 64.7 bits (156), Expect = 4e-11, Method: Compositional matrix adjust.
Identities = 56/178 (31%), Positives = 90/178 (50%), Gaps = 13/178 (7%)
Query: 49 GRQIFACAPTGSGKTAAFLIPIIHSLRGPKNLGF--RAVIVCPTRELAKQTYNETVRLSE 106
G+ + A TG+GKT AF +PI L + G RA+++ PTRELA Q +E ++
Sbjct: 38 GKDLIGQARTGTGKTLAFALPIAERLAPSQERGRKPRALVLTPTRELALQVASELTAVAP 97
Query: 107 GLGLRAHVIGKIQQAAEKFGPRSAQKFDVLITTPNK-LVYLLQMDPPALNLANVEWLIVD 165
L + A G ++ R A D ++ TP + L YL Q L+L+ VE ++D
Sbjct: 98 HLKVVAVYGGTGYGKQKEALLRGA---DAVVATPGRALDYLRQG---VLDLSRVEVAVLD 151
Query: 166 ESDKLFEAGVRGFRDQLAVIYAACSGPNLKRGMFSATHTEDVAKWCRRKLKRRVQINV 223
E+D++ GF +++ + +A P+ + +FSAT + R +K V INV
Sbjct: 152 EADEMLSM---GFEEEVEALLSATP-PSRQTLLFSATLPSWAKRLAERYMKNPVLINV 205
>pdb|3MWJ|A Chain A, Q28e Mutant Of Hera N-Terminal Reca-Like Domain, Apo Form
pdb|3MWJ|B Chain B, Q28e Mutant Of Hera N-Terminal Reca-Like Domain, Apo Form
pdb|3MWK|A Chain A, Q28e Mutant Of Hera N-Terminal Reca-Like Domain, Complex
With 8-Oxo- Amp
pdb|3MWK|B Chain B, Q28e Mutant Of Hera N-Terminal Reca-Like Domain, Complex
With 8-Oxo- Amp
pdb|3MWL|A Chain A, Q28e Mutant Of Hera N-Terminal Reca-Like Domain In Complex
With 8- Oxoadenosine
pdb|3MWL|B Chain B, Q28e Mutant Of Hera N-Terminal Reca-Like Domain In Complex
With 8- Oxoadenosine
pdb|3NBF|A Chain A, Q28e Mutant Of Hera Helicase N-Terminal Domain Bound To
8-Oxo-Adp
pdb|3NBF|B Chain B, Q28e Mutant Of Hera Helicase N-Terminal Domain Bound To
8-Oxo-Adp
pdb|3NBF|C Chain C, Q28e Mutant Of Hera Helicase N-Terminal Domain Bound To
8-Oxo-Adp
pdb|3NBF|D Chain D, Q28e Mutant Of Hera Helicase N-Terminal Domain Bound To
8-Oxo-Adp
pdb|3NEJ|A Chain A, Q28e Mutant Of Hera Rna Helicase N-Terminal Domain -
Perfectly Twinned Hexagonal Form
pdb|3NEJ|B Chain B, Q28e Mutant Of Hera Rna Helicase N-Terminal Domain -
Perfectly Twinned Hexagonal Form
Length = 207
Score = 64.7 bits (156), Expect = 4e-11, Method: Compositional matrix adjust.
Identities = 56/178 (31%), Positives = 90/178 (50%), Gaps = 13/178 (7%)
Query: 49 GRQIFACAPTGSGKTAAFLIPIIHSLRGPKNLGF--RAVIVCPTRELAKQTYNETVRLSE 106
G+ + A TG+GKT AF +PI L + G RA+++ PTRELA Q +E ++
Sbjct: 38 GKDLIGQARTGTGKTLAFALPIAERLAPSQERGRKPRALVLTPTRELALQVASELTAVAP 97
Query: 107 GLGLRAHVIGKIQQAAEKFGPRSAQKFDVLITTPNK-LVYLLQMDPPALNLANVEWLIVD 165
L + A G ++ R A D ++ TP + L YL Q L+L+ VE ++D
Sbjct: 98 HLKVVAVYGGTGYGKQKEALLRGA---DAVVATPGRALDYLRQG---VLDLSRVEVAVLD 151
Query: 166 ESDKLFEAGVRGFRDQLAVIYAACSGPNLKRGMFSATHTEDVAKWCRRKLKRRVQINV 223
E+D++ GF +++ + +A P+ + +FSAT + R +K V INV
Sbjct: 152 EADEMLSM---GFEEEVEALLSATP-PSRQTLLFSATLPSWAKRLAERYMKNPVLINV 205
>pdb|1S2M|A Chain A, Crystal Structure Of The Dead Box Protein Dhh1p
Length = 400
Score = 62.8 bits (151), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 50/175 (28%), Positives = 84/175 (48%), Gaps = 8/175 (4%)
Query: 49 GRQIFACAPTGSGKTAAFLIPIIHSLRGPKNLGFRAVIVCPTRELAKQTYNETVRLSEGL 108
GR I A A G+GKTAAF+IP + ++ PK +A+I+ PTRELA QT L +
Sbjct: 58 GRDILARAKNGTGKTAAFVIPTLEKVK-PKLNKIQALIMVPTRELALQTSQVVRTLGKHC 116
Query: 109 GLRAHVIGKIQQAAEKFGPRSAQKFDVLITTPNKLVYLLQMDPPALNLANVEWLIVDESD 168
G+ V + R + +L+ TP +++ L +L++ I+DE+D
Sbjct: 117 GISCMVTTGGTNLRDDI-LRLNETVHILVGTPGRVLDLASR--KVADLSDCSLFIMDEAD 173
Query: 169 KLFEAGVRGFRDQLAVIYAACSGPNLKRGMFSATHTEDVAKWCRRKLKRRVQINV 223
K+ + +Q+ P + +FSAT V ++ + L + +IN+
Sbjct: 174 KMLSRDFKTIIEQILSFLP----PTHQSLLFSATFPLTVKEFMVKHLHKPYEINL 224
>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 = 61.6 bits (148), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 53/187 (28%), Positives = 88/187 (47%), Gaps = 25/187 (13%)
Query: 49 GRQIFACAPTGSGKTAAFLIP-IIHSLRGP---KNLGFRAVIVCPTRELAKQTYNETVRL 104
G + A TGSGKT ++L+P I+H P + G +++ PTRELA+Q
Sbjct: 66 GLDMVGVAQTGSGKTLSYLLPAIVHINHQPFLERGDGPICLVLAPTRELAQQVQQVAAEY 125
Query: 105 SEGLGLRAHVIGKIQQAAEKFGP--RSAQK-FDVLITTPNKLVYLLQMDPPALNLANVEW 161
L++ I GP R ++ ++ I TP +L+ L+ NL +
Sbjct: 126 CRACRLKSTCI----YGGAPKGPQIRDLERGVEICIATPGRLIDFLECG--KTNLRRTTY 179
Query: 162 LIVDESDKL----FEAGVRGFRDQLAVIYAACSGPNLKRGMFSATHTEDVAKWCRRKLKR 217
L++DE+D++ FE +R DQ+ P+ + M+SAT ++V + LK
Sbjct: 180 LVLDEADRMLDMGFEPQIRKIVDQIR--------PDRQTLMWSATWPKEVRQLAEDFLKD 231
Query: 218 RVQINVG 224
+ IN+G
Sbjct: 232 YIHINIG 238
>pdb|4A4D|A Chain A, Crystal Structure Of The N-Terminal Domain Of The Human
Dead-Box Rna Helicase Ddx5 (P68)
Length = 253
Score = 61.2 bits (147), Expect = 5e-10, Method: Compositional matrix adjust.
Identities = 53/187 (28%), Positives = 88/187 (47%), Gaps = 25/187 (13%)
Query: 49 GRQIFACAPTGSGKTAAFLIP-IIHSLRGP---KNLGFRAVIVCPTRELAKQTYNETVRL 104
G + A TGSGKT ++L+P I+H P + G +++ PTRELA+Q
Sbjct: 80 GLDMVGVAQTGSGKTLSYLLPAIVHINHQPFLERGDGPICLVLAPTRELAQQVQQVAAEY 139
Query: 105 SEGLGLRAHVIGKIQQAAEKFGP--RSAQK-FDVLITTPNKLVYLLQMDPPALNLANVEW 161
L++ I GP R ++ ++ I TP +L+ L+ NL +
Sbjct: 140 CRACRLKSTCI----YGGAPKGPQIRDLERGVEICIATPGRLIDFLECG--KTNLRRTTY 193
Query: 162 LIVDESDKL----FEAGVRGFRDQLAVIYAACSGPNLKRGMFSATHTEDVAKWCRRKLKR 217
L++DE+D++ FE +R DQ+ P+ + M+SAT ++V + LK
Sbjct: 194 LVLDEADRMLDMGFEPQIRKIVDQIR--------PDRQTLMWSATWPKEVRQLAEDFLKD 245
Query: 218 RVQINVG 224
+ IN+G
Sbjct: 246 YIHINIG 252
>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 = 58.5 bits (140), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 47/175 (26%), Positives = 88/175 (50%), Gaps = 9/175 (5%)
Query: 49 GRQIFACAPTGSGKTAAFLIPIIHSLRGPKNLGFRAVIVCPTRELAKQTYNETVRLSEGL 108
GR I A A G+GK+ A+LIP++ L K+ +A+++ PTRELA Q +++S+ +
Sbjct: 40 GRDILARAKNGTGKSGAYLIPLLERLDLKKD-NIQAMVIVPTRELALQVSQICIQVSKHM 98
Query: 109 GLRAHVIGKIQQAAEKFG-PRSAQKFDVLITTPNKLVYLLQMDPPALNLANVEWLIVDES 167
G A V+ + R V+I TP +++ L++ ++ +V+ +++DE+
Sbjct: 99 G-GAKVMATTGGTNLRDDIMRLDDTVHVVIATPGRILDLIKKGVAKVD--HVQMIVLDEA 155
Query: 168 DKLFEAGVRGFRDQLAVIYAACSGPNLKRGMFSATHTEDVAKWCRRKLKRRVQIN 222
DKL + + + N + ++SAT V K+ L++ +IN
Sbjct: 156 DKLLSQDFVQIMEDIILTLPK----NRQILLYSATFPLSVQKFMNSHLEKPYEIN 206
>pdb|2OXC|A Chain A, Human Dead-Box Rna Helicase Ddx20, Dead Domain In Complex
With Adp
pdb|2OXC|B Chain B, Human Dead-Box Rna Helicase Ddx20, Dead Domain In Complex
With Adp
pdb|3B7G|A Chain A, Human Dead-Box Rna Helicase Ddx20, Conserved Domain I
(Dead) In Complex With Amppnp
(Adenosine-(Beta,Gamma)-Imidotriphosphate)
pdb|3B7G|B Chain B, Human Dead-Box Rna Helicase Ddx20, Conserved Domain I
(Dead) In Complex With Amppnp
(Adenosine-(Beta,Gamma)-Imidotriphosphate)
Length = 230
Score = 58.2 bits (139), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 54/176 (30%), Positives = 93/176 (52%), Gaps = 16/176 (9%)
Query: 47 PLGR---QIFACAPTGSGKTAAFLIPIIHSLRGPKNLGFRAVIVCPTRELAKQTYNETVR 103
PLGR + A +G+GKT F + SL +NL + +I+ PTRE+A Q ++
Sbjct: 56 PLGRCGLDLIVQAKSGTGKTCVFSTIALDSLV-LENLSTQILILAPTREIAVQIHSVITA 114
Query: 104 LSEGL-GLRAHV-IGKIQQAAEKFGPRSAQKFDVLITTPNKLVYLLQMDPPALNLANVEW 161
+ + GL HV IG + +K +K + + +P ++ L+++D LN ++
Sbjct: 115 IGIKMEGLECHVFIGGTPLSQDK---TRLKKCHIAVGSPGRIKQLIELD--YLNPGSIRL 169
Query: 162 LIVDESDKLFEAGVRGFRDQLAVIYAACSGPNLKRGM-FSATHTEDVAKWCRRKLK 216
I+DE+DKL E G F++Q+ IY+ S P K+ + SAT+ E +A + ++
Sbjct: 170 FILDEADKLLEEG--SFQEQINWIYS--SLPASKQMLAVSATYPEFLANALTKYMR 221
>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 = 57.8 bits (138), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 48/179 (26%), Positives = 89/179 (49%), Gaps = 19/179 (10%)
Query: 49 GRQIFACAPTGSGKTAAFLIPIIHSLRGPKNLGFRAVIVCPTRELAKQTYNETVRLSEGL 108
G + A A +G+GKTA F I I+ + +A+++ PTRELA+Q + L + +
Sbjct: 51 GYDVIAQAQSGTGKTATFAISILQQIELDLK-ATQALVLAPTRELAQQIQKVVMALGDYM 109
Query: 109 GLRAHV-IGKIQQAAEKFGPRSAQKFD-----VLITTPNKLVYLLQMDPPALNLANVEWL 162
G H IG AE QK +++ TP ++ +L + L+ ++
Sbjct: 110 GASCHACIGGTNVRAE------VQKLQMEAPHIIVGTPGRVFDML--NRRYLSPKYIKMF 161
Query: 163 IVDESDKLFEAGVRGFRDQLAVIYAACSGPNLKRGMFSATHTEDVAKWCRRKLKRRVQI 221
++DE+D++ RGF+DQ+ I+ + N + + SAT DV + ++ ++ ++I
Sbjct: 162 VLDEADEMLS---RGFKDQIYDIFQKLNS-NTQVVLLSATMPSDVLEVTKKFMRDPIRI 216
>pdb|3EIQ|A Chain A, Crystal Structure Of Pdcd4-eif4a
pdb|3EIQ|D Chain D, Crystal Structure Of Pdcd4-eif4a
Length = 414
Score = 57.8 bits (138), Expect = 5e-09, Method: Compositional matrix adjust.
Identities = 48/179 (26%), Positives = 89/179 (49%), Gaps = 19/179 (10%)
Query: 49 GRQIFACAPTGSGKTAAFLIPIIHSLRGPKNLGFRAVIVCPTRELAKQTYNETVRLSEGL 108
G + A A +G+GKTA F I I+ + +A+++ PTRELA+Q + L + +
Sbjct: 77 GYDVIAQAQSGTGKTATFAISILQQIELDLK-ATQALVLAPTRELAQQIQKVVMALGDYM 135
Query: 109 GLRAHV-IGKIQQAAEKFGPRSAQKFD-----VLITTPNKLVYLLQMDPPALNLANVEWL 162
G H IG AE QK +++ TP ++ +L + L+ ++
Sbjct: 136 GASCHACIGGTNVRAE------VQKLQMEAPHIIVGTPGRVFDML--NRRYLSPKYIKMF 187
Query: 163 IVDESDKLFEAGVRGFRDQLAVIYAACSGPNLKRGMFSATHTEDVAKWCRRKLKRRVQI 221
++DE+D++ RGF+DQ+ I+ + N + + SAT DV + ++ ++ ++I
Sbjct: 188 VLDEADEMLS---RGFKDQIYDIFQKLNS-NTQVVLLSATMPSDVLEVTKKFMRDPIRI 242
>pdb|3BOR|A Chain A, Crystal Structure Of The Deadc Domain Of Human Translation
Initiation Factor 4a-2
Length = 237
Score = 57.8 bits (138), Expect = 5e-09, Method: Compositional matrix adjust.
Identities = 45/178 (25%), Positives = 90/178 (50%), Gaps = 13/178 (7%)
Query: 49 GRQIFACAPTGSGKTAAFLIPIIHSLRGPKNLGFR---AVIVCPTRELAKQTYNETVRLS 105
G + A A +G+GKTA F I I+ L + F+ A+++ PTRELA+Q + L
Sbjct: 67 GYDVIAQAQSGTGKTATFAISILQQLE----IEFKETQALVLAPTRELAQQIQKVILALG 122
Query: 106 EGLGLRAHVIGKIQQAAEKFGPRSAQKFDVLITTPNKLVYLLQMDPPALNLANVEWLIVD 165
+ +G H + A+ +++ TP ++ +L + L+ ++ ++D
Sbjct: 123 DYMGATCHACIGGTNVRNEMQKLQAEAPHIVVGTPGRVFDML--NRRYLSPKWIKMFVLD 180
Query: 166 ESDKLFEAGVRGFRDQLAVIYAACSGPNLKRGMFSATHTEDVAKWCRRKLKRRVQINV 223
E+D++ RGF+DQ+ I+ + +++ + SAT DV + ++ ++ ++I V
Sbjct: 181 EADEMLS---RGFKDQIYEIFQKLN-TSIQVVLLSATMPTDVLEVTKKFMRDPIRILV 234
>pdb|1XTK|A Chain A, Structure Of Decd To Dead Mutation Of Human Uap56
Length = 390
Score = 57.0 bits (136), Expect = 9e-09, Method: Compositional matrix adjust.
Identities = 51/185 (27%), Positives = 93/185 (50%), Gaps = 21/185 (11%)
Query: 48 LGRQIFACAPTGSGKTAAFLIPIIHSLRGPKNLGFRAVIVCPTRELAKQTYNETVRLSEG 107
LG + A +G GKTA F++ + L P +++C TRELA Q E R S+
Sbjct: 43 LGMDVLCQAKSGMGKTAVFVLATLQQLE-PVTGQVSVLVMCHTRELAFQISKEYERFSKY 101
Query: 108 L-GLRAHV------IGKIQQAAEKFGPRSAQKFDVLITTPNKLVYLLQMDPPALNLANVE 160
+ ++ V I K ++ +K P +++ TP +++ L + +LNL +++
Sbjct: 102 MPNVKVAVFFGGLSIKKDEEVLKKNCPH------IVVGTPGRILALAR--NKSLNLKHIK 153
Query: 161 WLIVDESDKLFEAGVRGFRDQLAVIYAACSGPNLKR-GMFSATHTEDVAKWCRRKLKRRV 219
I+DE+DK+ E R + I+ P+ K+ MFSAT ++++ CR+ ++ +
Sbjct: 154 HFILDEADKMLEQ--LDMRRDVQEIFRMT--PHEKQVMMFSATLSKEIRPVCRKFMQDPM 209
Query: 220 QINVG 224
+I V
Sbjct: 210 EIFVD 214
>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 = 57.0 bits (136), Expect = 9e-09, Method: Compositional matrix adjust.
Identities = 51/184 (27%), Positives = 92/184 (50%), Gaps = 21/184 (11%)
Query: 48 LGRQIFACAPTGSGKTAAFLIPIIHSLRGPKNLGFRAVIVCPTRELAKQTYNETVRLSEG 107
LG + A +G GKTA F++ + L P +++C TRELA Q E R S+
Sbjct: 50 LGMDVLCQAKSGMGKTAVFVLATLQQLE-PVTGQVSVLVMCHTRELAFQISKEYERFSKY 108
Query: 108 L-GLRAHV------IGKIQQAAEKFGPRSAQKFDVLITTPNKLVYLLQMDPPALNLANVE 160
+ ++ V I K ++ +K P +++ TP +++ L + +LNL +++
Sbjct: 109 MPNVKVAVFFGGLSIKKDEEVLKKNCPH------IVVGTPGRILALAR--NKSLNLKHIK 160
Query: 161 WLIVDESDKLFEAGVRGFRDQLAVIYAACSGPNLKR-GMFSATHTEDVAKWCRRKLKRRV 219
I+DE DK+ E R + I+ P+ K+ MFSAT ++++ CR+ ++ +
Sbjct: 161 HFILDECDKMLEQ--LDMRRDVQEIFRM--TPHEKQVMMFSATLSKEIRPVCRKFMQDPM 216
Query: 220 QINV 223
+I V
Sbjct: 217 EIFV 220
>pdb|1XTJ|A Chain A, Structure Of Human Uap56 In Complex With Adp
Length = 386
Score = 56.2 bits (134), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 51/185 (27%), Positives = 92/185 (49%), Gaps = 21/185 (11%)
Query: 48 LGRQIFACAPTGSGKTAAFLIPIIHSLRGPKNLGFRAVIVCPTRELAKQTYNETVRLSEG 107
LG + A +G GKTA F++ + L P +++C TRELA Q E R S+
Sbjct: 44 LGMDVLCQAKSGMGKTAVFVLATLQQLE-PVTGQVSVLVMCHTRELAFQISKEYERFSKY 102
Query: 108 L-GLRAHV------IGKIQQAAEKFGPRSAQKFDVLITTPNKLVYLLQMDPPALNLANVE 160
+ ++ V I K ++ +K P +++ TP +++ L + +LNL +++
Sbjct: 103 MPNVKVAVFFGGLSIKKDEEVLKKNCPH------IVVGTPGRILALAR--NKSLNLKHIK 154
Query: 161 WLIVDESDKLFEAGVRGFRDQLAVIYAACSGPNLKR-GMFSATHTEDVAKWCRRKLKRRV 219
I+DE DK+ E R + I+ P+ K+ MFSAT ++++ CR+ ++ +
Sbjct: 155 HFILDECDKMLEQ--LDMRRDVQEIFRMT--PHEKQVMMFSATLSKEIRPVCRKFMQDPM 210
Query: 220 QINVG 224
+I V
Sbjct: 211 EIFVD 215
>pdb|1XTI|A Chain A, Structure Of Wildtype Human Uap56
Length = 391
Score = 56.2 bits (134), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 51/185 (27%), Positives = 92/185 (49%), Gaps = 21/185 (11%)
Query: 48 LGRQIFACAPTGSGKTAAFLIPIIHSLRGPKNLGFRAVIVCPTRELAKQTYNETVRLSEG 107
LG + A +G GKTA F++ + L P +++C TRELA Q E R S+
Sbjct: 44 LGMDVLCQAKSGMGKTAVFVLATLQQLE-PVTGQVSVLVMCHTRELAFQISKEYERFSKY 102
Query: 108 L-GLRAHV------IGKIQQAAEKFGPRSAQKFDVLITTPNKLVYLLQMDPPALNLANVE 160
+ ++ V I K ++ +K P +++ TP +++ L + +LNL +++
Sbjct: 103 MPNVKVAVFFGGLSIKKDEEVLKKNCPH------IVVGTPGRILALAR--NKSLNLKHIK 154
Query: 161 WLIVDESDKLFEAGVRGFRDQLAVIYAACSGPNLKR-GMFSATHTEDVAKWCRRKLKRRV 219
I+DE DK+ E R + I+ P+ K+ MFSAT ++++ CR+ ++ +
Sbjct: 155 HFILDECDKMLEQ--LDMRRDVQEIFRMT--PHEKQVMMFSATLSKEIRPVCRKFMQDPM 210
Query: 220 QINVG 224
+I V
Sbjct: 211 EIFVD 215
>pdb|1QVA|A Chain A, Yeast Initiation Factor 4a N-Terminal Domain
Length = 223
Score = 54.3 bits (129), Expect = 6e-08, Method: Compositional matrix adjust.
Identities = 47/180 (26%), Positives = 87/180 (48%), Gaps = 19/180 (10%)
Query: 49 GRQIFACAPTGSGKTAAFLIPIIH----SLRGPKNLGFRAVIVCPTRELAKQTYNETVRL 104
G + A A +G+GKT F I + S++ P+ A+++ PTRELA Q + L
Sbjct: 58 GHDVLAQAQSGTGKTGTFSIAALQRIDTSVKAPQ-----ALMLAPTRELALQIQKVVMAL 112
Query: 105 SEGLGLRAHV-IGKIQQAAEKFGPRSAQKFDVLITTPNKLVYLLQMDPPALNLANVEWLI 163
+ + ++ H IG + G R AQ +++ TP ++ +Q ++ I
Sbjct: 113 AFHMDIKVHACIGGTSFVEDAEGLRDAQ---IVVGTPGRVFDNIQR--RRFRTDKIKMFI 167
Query: 164 VDESDKLFEAGVRGFRDQLAVIYAACSGPNLKRGMFSATHTEDVAKWCRRKLKRRVQINV 223
+DE+D++ + GF++Q+ I+ P + + SAT DV + + ++ V+I V
Sbjct: 168 LDEADEMLSS---GFKEQIYQIFTLLP-PTTQVVLLSATMPNDVLEVTTKFMRNPVRILV 223
>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 = 53.9 bits (128), Expect = 7e-08, Method: Compositional matrix adjust.
Identities = 47/180 (26%), Positives = 87/180 (48%), Gaps = 19/180 (10%)
Query: 49 GRQIFACAPTGSGKTAAFLIPIIH----SLRGPKNLGFRAVIVCPTRELAKQTYNETVRL 104
G + A A +G+GKT F I + S++ P+ A+++ PTRELA Q + L
Sbjct: 51 GHDVLAQAQSGTGKTGTFSIAALQRIDTSVKAPQ-----ALMLAPTRELALQIQKVVMAL 105
Query: 105 SEGLGLRAHV-IGKIQQAAEKFGPRSAQKFDVLITTPNKLVYLLQMDPPALNLANVEWLI 163
+ + ++ H IG + G R AQ +++ TP ++ +Q ++ I
Sbjct: 106 AFHMDIKVHACIGGTSFVEDAEGLRDAQ---IVVGTPGRVFDNIQR--RRFRTDKIKMFI 160
Query: 164 VDESDKLFEAGVRGFRDQLAVIYAACSGPNLKRGMFSATHTEDVAKWCRRKLKRRVQINV 223
+DE+D++ + GF++Q+ I+ P + + SAT DV + + ++ V+I V
Sbjct: 161 LDEADEMLSS---GFKEQIYQIFTLLP-PTTQVVLLSATMPNDVLEVTTKFMRNPVRILV 216
>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 = 53.5 bits (127), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 46/178 (25%), Positives = 86/178 (48%), Gaps = 19/178 (10%)
Query: 49 GRQIFACAPTGSGKTAAFLIPIIH----SLRGPKNLGFRAVIVCPTRELAKQTYNETVRL 104
G + A A +G+GKT F I + S++ P+ A+++ PTRELA Q + L
Sbjct: 59 GHDVLAQAQSGTGKTGTFSIAALQRIDTSVKAPQ-----ALMLAPTRELALQIQKVVMAL 113
Query: 105 SEGLGLRAHV-IGKIQQAAEKFGPRSAQKFDVLITTPNKLVYLLQMDPPALNLANVEWLI 163
+ + ++ H IG + G R AQ +++ TP ++ +Q ++ I
Sbjct: 114 AFHMDIKVHACIGGTSFVEDAEGLRDAQ---IVVGTPGRVFDNIQR--RRFRTDKIKMFI 168
Query: 164 VDESDKLFEAGVRGFRDQLAVIYAACSGPNLKRGMFSATHTEDVAKWCRRKLKRRVQI 221
+DE+D++ + GF++Q+ I+ P + + SAT DV + + ++ V+I
Sbjct: 169 LDEADEMLSS---GFKEQIYQIFTLLP-PTTQVVLLSATMPNDVLEVTTKFMRNPVRI 222
>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 = 52.4 bits (124), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 46/176 (26%), Positives = 84/176 (47%), Gaps = 9/176 (5%)
Query: 49 GRQIFACAPTGSGKTAAFLIPIIHSLRGPKNLGFRAVIVCPTRELAKQTYNETVRLSEGL 108
G + A A +G+G TA F I I+ + +A+++ PTRELA+Q + L + +
Sbjct: 52 GYDVIAQAQSGTGXTATFAISILQQIE-LDLXATQALVLAPTRELAQQIQXVVMALGDYM 110
Query: 109 GLRAHV-IGKIQQAAEKFGPRSAQKFDVLITTPNKLVYLLQMDPPALNLANVEWLIVDES 167
G H IG AE + +++ TP ++ +L + L+ + ++DE+
Sbjct: 111 GASCHACIGGTNVRAE-VQXLQMEAPHIIVGTPGRVFDML--NRRYLSPXYIXMFVLDEA 167
Query: 168 DKLFEAGVRGFRDQLAVIYAACSGPNLKRGMFSATHTEDVAKWCRRKLKRRVQINV 223
D++ RGF DQ+ I+ + N + + SAT DV + ++ ++I V
Sbjct: 168 DEMLS---RGFXDQIYDIFQXLNS-NTQVVLLSATMPSDVLEVTXXFMRDPIRILV 219
>pdb|3PEY|A Chain A, S. Cerevisiae Dbp5 Bound To Rna And Adp Bef3
Length = 395
Score = 49.7 bits (117), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 39/164 (23%), Positives = 86/164 (52%), Gaps = 11/164 (6%)
Query: 50 RQIFACAPTGSGKTAAFLIPIIHSLRGPKNLGFRAVIVCPTRELAKQTYNETVRLSEGLG 109
R + A + +G+GKTAAF + ++ + P++ +A+ + P+RELA+QT + +
Sbjct: 45 RNMIAQSQSGTGKTAAFSLTMLTRV-NPEDASPQAICLAPSRELARQTLEVVQEMGKFTK 103
Query: 110 LRAHVIGKIQQAAEKFGPRSAQKFDVLITTPNKLVYLLQMDPPALNLANVEWLIVDESDK 169
+ + +I + + EK +AQ V++ TP ++ L++ + L ++ ++DE+D
Sbjct: 104 ITSQLI--VPDSFEKNKQINAQ---VIVGTPGTVLDLMRR--KLMQLQKIKIFVLDEADN 156
Query: 170 LFEAGVRGFRDQLAVIYAACSGPNLKRGMFSATHTEDVAKWCRR 213
+ + +G DQ + + + +FSAT + V ++ ++
Sbjct: 157 MLDQ--QGLGDQCIRVKRFLP-KDTQLVLFSATFADAVRQYAKK 197
>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 = 49.7 bits (117), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 39/164 (23%), Positives = 86/164 (52%), Gaps = 11/164 (6%)
Query: 50 RQIFACAPTGSGKTAAFLIPIIHSLRGPKNLGFRAVIVCPTRELAKQTYNETVRLSEGLG 109
R + A + +G+GKTAAF + ++ + P++ +A+ + P+RELA+QT + +
Sbjct: 45 RNMIAQSQSGTGKTAAFSLTMLTRV-NPEDASPQAICLAPSRELARQTLEVVQEMGKFTK 103
Query: 110 LRAHVIGKIQQAAEKFGPRSAQKFDVLITTPNKLVYLLQMDPPALNLANVEWLIVDESDK 169
+ + +I + + EK +AQ V++ TP ++ L++ + L ++ ++DE+D
Sbjct: 104 ITSQLI--VPDSFEKNKQINAQ---VIVGTPGTVLDLMRR--KLMQLQKIKIFVLDEADN 156
Query: 170 LFEAGVRGFRDQLAVIYAACSGPNLKRGMFSATHTEDVAKWCRR 213
+ + +G DQ + + + +FSAT + V ++ ++
Sbjct: 157 MLDQ--QGLGDQCIRVKRFLP-KDTQLVLFSATFADAVRQYAKK 197
>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 = 49.3 bits (116), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 52/180 (28%), Positives = 87/180 (48%), Gaps = 27/180 (15%)
Query: 49 GRQIFACAPTGSGKTAAFLIP-IIHSLRGP----KNLGFRAVIVCPTRELAKQTYNETVR 103
G + A TG+GKT ++L+P IH P + G +++ PTRELA E +
Sbjct: 57 GIDLIVVAQTGTGKTLSYLMPGFIHLDSQPISREQRNGPGMLVLTPTRELALHVEAECSK 116
Query: 104 LSEGLGLRAHVI-------GKIQQAAEKFGPRSAQKFDVLITTPNKLVYLLQMDPPALNL 156
S GL++ I G+I+ + + D++I TP +L LQM+ ++NL
Sbjct: 117 YSYK-GLKSICIYGGRNRNGQIEDIS--------KGVDIIIATPGRL-NDLQMNN-SVNL 165
Query: 157 ANVEWLIVDESDKLFEAGVRGFRDQLAVIYAACSGPNLKRGMFSATHTEDVAKWCRRKLK 216
++ +L++DE+DK+ + F Q+ I P+ + M SAT + V + LK
Sbjct: 166 RSITYLVIDEADKMLDM---EFEPQIRKILLDVR-PDRQTVMTSATWPDTVRQLALSYLK 221
>pdb|2KBE|A Chain A, Solution Structure Of Amino-Terminal Domain Of Dbp5p
Length = 226
Score = 48.9 bits (115), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 39/164 (23%), Positives = 86/164 (52%), Gaps = 11/164 (6%)
Query: 50 RQIFACAPTGSGKTAAFLIPIIHSLRGPKNLGFRAVIVCPTRELAKQTYNETVRLSEGLG 109
R + A + +G+GKTAAF + ++ + P++ +A+ + P+RELA+QT + +
Sbjct: 62 RNMIAQSQSGTGKTAAFSLTMLTRV-NPEDASPQAICLAPSRELARQTLEVVQEMGKFTK 120
Query: 110 LRAHVIGKIQQAAEKFGPRSAQKFDVLITTPNKLVYLLQMDPPALNLANVEWLIVDESDK 169
+ + +I + + EK +AQ V++ TP ++ L++ + L ++ ++DE+D
Sbjct: 121 ITSQLI--VPDSFEKNKQINAQ---VIVGTPGTVLDLMRRK--LMQLQKIKIFVLDEADN 173
Query: 170 LFEAGVRGFRDQLAVIYAACSGPNLKRGMFSATHTEDVAKWCRR 213
+ + +G DQ + + + +FSAT + V ++ ++
Sbjct: 174 MLDQ--QGLGDQCIRVKRFLPK-DTQLVLFSATFADAVRQYAKK 214
>pdb|2J0U|B Chain B, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 48.9 bits (115), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 37/145 (25%), Positives = 74/145 (51%), Gaps = 21/145 (14%)
Query: 49 GRQIFACAPTGSGKTAAFLIPIIHSLRGPKNLGFR---AVIVCPTRELAKQTYNETVRLS 105
GR + A + +G+GKTA F + ++ L ++ R A+I+ PTRELA Q + L
Sbjct: 38 GRDVIAQSQSGTGKTATFSVSVLQCL----DIQVRETQALILAPTRELAVQVQKGLLALG 93
Query: 106 EGLGLRAHVIGKIQQAAEKFGPRSAQKFD----VLITTPNKLVYLLQMDPPALNLANVEW 161
+ + +++H E +K D V+ TP ++ +++ +L ++
Sbjct: 94 DYMNVQSHACIGGTNVGEDI-----RKLDYGQHVVAGTPGRVFDMIRR--RSLRTRAIKM 146
Query: 162 LIVDESDKLFEAGVRGFRDQLAVIY 186
L++DE+D++ +GF++Q+ +Y
Sbjct: 147 LVLDEADEMLN---KGFKEQIYDVY 168
>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 = 48.5 bits (114), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 38/145 (26%), Positives = 73/145 (50%), Gaps = 21/145 (14%)
Query: 49 GRQIFACAPTGSGKTAAFLIPIIHSLRGPKNLGFR---AVIVCPTRELAKQTYNETVRLS 105
GR + A + +G+GKTA F I ++ L ++ R A+I+ PTRELA Q + L
Sbjct: 74 GRDVIAQSQSGTGKTATFSISVLQCL----DIQVRETQALILAPTRELAVQIQKGLLALG 129
Query: 106 EGLGLRAHVIGKIQQAAEKFGPRSAQKFD----VLITTPNKLVYLLQMDPPALNLANVEW 161
+ + ++ H E +K D V+ TP ++ +++ +L ++
Sbjct: 130 DYMNVQCHACIGGTNVGEDI-----RKLDYGQHVVAGTPGRVFDMIRR--RSLRTRAIKM 182
Query: 162 LIVDESDKLFEAGVRGFRDQLAVIY 186
L++DE+D++ +GF++Q+ +Y
Sbjct: 183 LVLDEADEMLN---KGFKEQIYDVY 204
>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 = 48.5 bits (114), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 38/145 (26%), Positives = 73/145 (50%), Gaps = 21/145 (14%)
Query: 49 GRQIFACAPTGSGKTAAFLIPIIHSLRGPKNLGFR---AVIVCPTRELAKQTYNETVRLS 105
GR + A + +G+GKTA F I ++ L ++ R A+I+ PTRELA Q + L
Sbjct: 75 GRDVIAQSQSGTGKTATFSISVLQCL----DIQVRETQALILAPTRELAVQIQKGLLALG 130
Query: 106 EGLGLRAHVIGKIQQAAEKFGPRSAQKFD----VLITTPNKLVYLLQMDPPALNLANVEW 161
+ + ++ H E +K D V+ TP ++ +++ +L ++
Sbjct: 131 DYMNVQCHACIGGTNVGEDI-----RKLDYGQHVVAGTPGRVFDMIRR--RSLRTRAIKM 183
Query: 162 LIVDESDKLFEAGVRGFRDQLAVIY 186
L++DE+D++ +GF++Q+ +Y
Sbjct: 184 LVLDEADEMLN---KGFKEQIYDVY 205
>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 = 48.5 bits (114), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 38/145 (26%), Positives = 73/145 (50%), Gaps = 21/145 (14%)
Query: 49 GRQIFACAPTGSGKTAAFLIPIIHSLRGPKNLGFR---AVIVCPTRELAKQTYNETVRLS 105
GR + A + +G+GKTA F I ++ L ++ R A+I+ PTRELA Q + L
Sbjct: 75 GRDVIAQSQSGTGKTATFSISVLQCL----DIQVRETQALILAPTRELAVQIQKGLLALG 130
Query: 106 EGLGLRAHVIGKIQQAAEKFGPRSAQKFD----VLITTPNKLVYLLQMDPPALNLANVEW 161
+ + ++ H E +K D V+ TP ++ +++ +L ++
Sbjct: 131 DYMNVQCHACIGGTNVGEDI-----RKLDYGQHVVAGTPGRVFDMIRR--RSLRTRAIKM 183
Query: 162 LIVDESDKLFEAGVRGFRDQLAVIY 186
L++DE+D++ +GF++Q+ +Y
Sbjct: 184 LVLDEADEMLN---KGFKEQIYDVY 205
>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 = 48.5 bits (114), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 38/145 (26%), Positives = 73/145 (50%), Gaps = 21/145 (14%)
Query: 49 GRQIFACAPTGSGKTAAFLIPIIHSLRGPKNLGFR---AVIVCPTRELAKQTYNETVRLS 105
GR + A + +G+GKTA F I ++ L ++ R A+I+ PTRELA Q + L
Sbjct: 53 GRDVIAQSQSGTGKTATFSISVLQCL----DIQVRETQALILAPTRELAVQIQKGLLALG 108
Query: 106 EGLGLRAHVIGKIQQAAEKFGPRSAQKFD----VLITTPNKLVYLLQMDPPALNLANVEW 161
+ + ++ H E +K D V+ TP ++ +++ +L ++
Sbjct: 109 DYMNVQCHACIGGTNVGEDI-----RKLDYGQHVVAGTPGRVFDMIRR--RSLRTRAIKM 161
Query: 162 LIVDESDKLFEAGVRGFRDQLAVIY 186
L++DE+D++ +GF++Q+ +Y
Sbjct: 162 LVLDEADEMLN---KGFKEQIYDVY 183
>pdb|2J0U|A Chain A, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 48.1 bits (113), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 37/145 (25%), Positives = 73/145 (50%), Gaps = 21/145 (14%)
Query: 49 GRQIFACAPTGSGKTAAFLIPIIHSLRGPKNLGFR---AVIVCPTRELAKQTYNETVRLS 105
GR + A + +G+GKTA F + ++ L ++ R A+I+ PTRELA Q + L
Sbjct: 38 GRDVIAQSQSGTGKTATFSVSVLQCL----DIQVRETQALILAPTRELAVQVQKGLLALG 93
Query: 106 EGLGLRAHVIGKIQQAAEKFGPRSAQKFD----VLITTPNKLVYLLQMDPPALNLANVEW 161
+ + ++ H E +K D V+ TP ++ +++ +L ++
Sbjct: 94 DYMNVQCHACIGGTNVGEDI-----RKLDYGQHVVAGTPGRVFDMIRR--RSLRTRAIKM 146
Query: 162 LIVDESDKLFEAGVRGFRDQLAVIY 186
L++DE+D++ +GF++Q+ +Y
Sbjct: 147 LVLDEADEMLN---KGFKEQIYDVY 168
>pdb|3FHO|A Chain A, Structure Of S. Pombe Dbp5
pdb|3FHO|B Chain B, Structure Of S. Pombe Dbp5
Length = 508
Score = 48.1 bits (113), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 49/178 (27%), Positives = 84/178 (47%), Gaps = 29/178 (16%)
Query: 45 LSPLGRQIFACAPTGSGKTAAFLIPIIHSLRG--PKNLGFRAVIVCPTRELAKQTYNETV 102
LS R + + +G+GKTAAF + ++ + PK +A+ + P+RELA+Q +
Sbjct: 154 LSNPPRNMIGQSQSGTGKTAAFALTMLSRVDASVPKP---QAICLAPSRELARQIMDVVT 210
Query: 103 RLSEGLGLRAHVIGKIQQAAEKFG-----PRSAQKFD--VLITTPNKLVYLLQMDPPALN 155
+ GK + FG P+ A K D ++I TP ++ L M L+
Sbjct: 211 EM-----------GKYTEVKTAFGIKDSVPKGA-KIDAQIVIGTPGTVMDL--MKRRQLD 256
Query: 156 LANVEWLIVDESDKLFEAGVRGFRDQLAVIYAACSGPNLKRGMFSATHTEDVAKWCRR 213
+++ ++DE+D + + +G DQ I N + +FSAT +E V K+ R
Sbjct: 257 ARDIKVFVLDEADNMLDQ--QGLGDQSMRIKHLLP-RNTQIVLFSATFSERVEKYAER 311
>pdb|1FUU|A Chain A, Yeast Initiation Factor 4a
pdb|1FUU|B Chain B, Yeast Initiation Factor 4a
Length = 394
Score = 47.4 bits (111), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 46/178 (25%), Positives = 81/178 (45%), Gaps = 19/178 (10%)
Query: 49 GRQIFACAPTGSGKTAAFLIPIIH----SLRGPKNLGFRAVIVCPTRELAKQTYNETVRL 104
G + A A +G+GKT F I + S++ P+ A+ + PTRELA Q L
Sbjct: 58 GHDVLAQAQSGTGKTGTFSIAALQRIDTSVKAPQ-----ALXLAPTRELALQIQKVVXAL 112
Query: 105 SEGLGLRAHV-IGKIQQAAEKFGPRSAQKFDVLITTPNKLVYLLQMDPPALNLANVEWLI 163
+ ++ H IG + G R AQ +++ TP ++ +Q ++ I
Sbjct: 113 AFHXDIKVHACIGGTSFVEDAEGLRDAQ---IVVGTPGRVFDNIQR--RRFRTDKIKXFI 167
Query: 164 VDESDKLFEAGVRGFRDQLAVIYAACSGPNLKRGMFSATHTEDVAKWCRRKLKRRVQI 221
+DE+D+ + GF++Q+ I+ P + + SAT DV + + + V+I
Sbjct: 168 LDEADEXLSS---GFKEQIYQIFTLLP-PTTQVVLLSATXPNDVLEVTTKFXRNPVRI 221
>pdb|2ZJ2|A Chain A, Archaeal Dna Helicase Hjm Apo State In Form 1
pdb|2ZJ5|A Chain A, Archaeal Dna Helicase Hjm Complexed With Adp In Form 1
pdb|2ZJ8|A Chain A, Archaeal Dna Helicase Hjm Apo State In Form 2
pdb|2ZJA|A Chain A, Archaeal Dna Helicase Hjm Complexed With Amppcp In Form 2
Length = 720
Score = 44.7 bits (104), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 50/170 (29%), Positives = 77/170 (45%), Gaps = 18/170 (10%)
Query: 49 GRQIFACAPTGSGKTAAFLIPIIHSLRGPKNLGFRAVIVCPTRELAKQTYNETVRLSEGL 108
G+ PT SGKT I ++H + G +AV + P + LA++ + E + E +
Sbjct: 39 GKNALISIPTASGKTLIAEIAMVHRIL---TQGGKAVYIVPLKALAEEKFQE-FQDWEKI 94
Query: 109 GLR-AHVIGKIQQAAEKFGPRSAQKFDVLITTPNKLVYLLQMDPPALNLANVEWLIVDES 167
GLR A G E G K+D++I T K LL+ + +V+ L+ DE
Sbjct: 95 GLRVAMATGDYDSKDEWLG-----KYDIIIATAEKFDSLLRHGSSWIK--DVKILVADE- 146
Query: 168 DKLFEAGVRGFRDQLAVIYAACSGPNLKRGMFSAT--HTEDVAKWCRRKL 215
+ G R L VI A G G+ SAT + E++A+W +L
Sbjct: 147 --IHLIGSRDRGATLEVILAHMLGKAQIIGL-SATIGNPEELAEWLNAEL 193
>pdb|2VA8|A Chain A, Dna Repair Helicase Hel308
pdb|2VA8|B Chain B, Dna Repair Helicase Hel308
Length = 715
Score = 42.0 bits (97), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 38/120 (31%), Positives = 58/120 (48%), Gaps = 14/120 (11%)
Query: 49 GRQIFACAPTGSGKTAAFLIPIIHSLRGPKNLGFRAVIVCPTRELAKQTYNETVRLSEGL 108
G ++ +PTGSGKT + II L KN G +A+ V P R L + Y T + E +
Sbjct: 46 GNRLLLTSPTGSGKTLIAEMGIISFLL--KN-GGKAIYVTPLRALTNEKY-LTFKDWELI 101
Query: 109 GLRAHVIGKIQQAAEKFGPRSA--QKFDVLITTPNKLVYLLQMDPPALNLANVEWLIVDE 166
G K+ + + A + +D++ITT KL L + P LN V + ++DE
Sbjct: 102 GF------KVAMTSGDYDTDDAWLKNYDIIITTYEKLDSLWRHRPEWLN--EVNYFVLDE 153
>pdb|4F91|B Chain B, Brr2 Helicase Region
Length = 1724
Score = 35.8 bits (81), Expect = 0.022, Method: Compositional matrix adjust.
Identities = 36/124 (29%), Positives = 56/124 (45%), Gaps = 23/124 (18%)
Query: 52 IFACAPTGSGKTA----AFLIPIIHSLRGPKNLGFRAVIVCPTRELAKQTYNETV----- 102
+F APTGSGKT A L ++ S G R V + P LA+Q Y +
Sbjct: 945 VFVGAPTGSGKTICAEFAILRMLLQSSEG------RCVYITPMEALAEQVYMDWYEKFQD 998
Query: 103 RLSEGLGLRAHVIGKIQQAAEKFGPRSAQKFDVLITTPNKLVYLLQMDPPALNLANVEWL 162
RL++ + L + G+ + G K +++I+TP K L + N+ N+
Sbjct: 999 RLNKKVVL---LTGETSTDLKLLG-----KGNIIISTPEKWDILSRRWKQRKNVQNINLF 1050
Query: 163 IVDE 166
+VDE
Sbjct: 1051 VVDE 1054
Score = 29.6 bits (65), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 14/55 (25%), Positives = 26/55 (47%), Gaps = 7/55 (12%)
Query: 49 GRQIFACAPTGSGKTAAFLIPIIHSLRGPKNL-------GFRAVIVCPTRELAKQ 96
+ CAPTG+GKT L+ ++ + N+ F+ + + P R L ++
Sbjct: 95 DENLLLCAPTGAGKTNVALMCMLREIGKHINMDGTINVDDFKIIYIAPMRSLVQE 149
>pdb|3FHC|B Chain B, Crystal Structure Of Human Dbp5 In Complex With Nup214
Length = 235
Score = 35.8 bits (81), Expect = 0.022, Method: Compositional matrix adjust.
Identities = 46/184 (25%), Positives = 83/184 (45%), Gaps = 30/184 (16%)
Query: 50 RQIFACAPTGSGKTAAFLIPIIHSLRGPKNLGFRAVIVCPTRELAKQT---YNETVRLSE 106
+ + A + +G+GKTAAF++ ++ + P N + + + PT ELA QT + +
Sbjct: 65 QNLIAQSQSGTGKTAAFVLAMLSQVE-PANKYPQCLCLSPTYELALQTGKVIEQMGKFYP 123
Query: 107 GLGLRAHVIGKIQQAAEKFGPRSAQKFDVLITTPNKLV----YLLQMDPPALNLANVEWL 162
L L V G + +K + ++I TP ++ L +DP ++
Sbjct: 124 ELKLAYAVRGNKLERGQKISEQ------IVIGTPGTVLDWCSKLKFIDP-----KKIKVF 172
Query: 163 IVDESDKLFEAGVRGFRDQLAVIYAACSGPNLKRGMFSATHTEDVAKWCRR--------K 214
++DE+D + +G +DQ I N + +FSAT + V K+ ++ K
Sbjct: 173 VLDEADVMI--ATQGHQDQSIRIQRMLPR-NCQMLLFSATFEDSVWKFAQKVVPDPNVIK 229
Query: 215 LKRR 218
LKR
Sbjct: 230 LKRE 233
>pdb|4F92|B Chain B, Brr2 Helicase Region S1087l
pdb|4F93|B Chain B, Brr2 Helicase Region S1087l, Mg-Atp
Length = 1724
Score = 35.8 bits (81), Expect = 0.022, Method: Compositional matrix adjust.
Identities = 36/124 (29%), Positives = 56/124 (45%), Gaps = 23/124 (18%)
Query: 52 IFACAPTGSGKTA----AFLIPIIHSLRGPKNLGFRAVIVCPTRELAKQTYNETV----- 102
+F APTGSGKT A L ++ S G R V + P LA+Q Y +
Sbjct: 945 VFVGAPTGSGKTICAEFAILRMLLQSSEG------RCVYITPMEALAEQVYMDWYEKFQD 998
Query: 103 RLSEGLGLRAHVIGKIQQAAEKFGPRSAQKFDVLITTPNKLVYLLQMDPPALNLANVEWL 162
RL++ + L + G+ + G K +++I+TP K L + N+ N+
Sbjct: 999 RLNKKVVL---LTGETSTDLKLLG-----KGNIIISTPEKWDILSRRWKQRKNVQNINLF 1050
Query: 163 IVDE 166
+VDE
Sbjct: 1051 VVDE 1054
Score = 29.6 bits (65), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 14/55 (25%), Positives = 26/55 (47%), Gaps = 7/55 (12%)
Query: 49 GRQIFACAPTGSGKTAAFLIPIIHSLRGPKNL-------GFRAVIVCPTRELAKQ 96
+ CAPTG+GKT L+ ++ + N+ F+ + + P R L ++
Sbjct: 95 DENLLLCAPTGAGKTNVALMCMLREIGKHINMDGTINVDDFKIIYIAPMRSLVQE 149
>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 = 35.4 bits (80), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 46/184 (25%), Positives = 83/184 (45%), Gaps = 30/184 (16%)
Query: 50 RQIFACAPTGSGKTAAFLIPIIHSLRGPKNLGFRAVIVCPTRELAKQT---YNETVRLSE 106
+ + A + +G+GKTAAF++ ++ + P N + + + PT ELA QT + +
Sbjct: 65 QNLIAQSQSGTGKTAAFVLAMLSQVE-PANKYPQCLCLSPTYELALQTGKVIEQMGKFYP 123
Query: 107 GLGLRAHVIGKIQQAAEKFGPRSAQKFDVLITTPNKLV----YLLQMDPPALNLANVEWL 162
L L V G + +K + ++I TP ++ L +DP + +
Sbjct: 124 ELKLAYAVRGNKLERGQKISEQ------IVIGTPGTVLDWCSKLKFIDPKKIKV-----F 172
Query: 163 IVDESDKLFEAGVRGFRDQLAVIYAACSGPNLKRGMFSATHTEDVAKWCRR--------K 214
++DE+D + +G +DQ I N + +FSAT + V K+ ++ K
Sbjct: 173 VLDEADVMI--ATQGHQDQSIRIQRMLPR-NCQMLLFSATFEDSVWKFAQKVVPDPNVIK 229
Query: 215 LKRR 218
LKR
Sbjct: 230 LKRE 233
>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 = 35.4 bits (80), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 46/184 (25%), Positives = 83/184 (45%), Gaps = 30/184 (16%)
Query: 50 RQIFACAPTGSGKTAAFLIPIIHSLRGPKNLGFRAVIVCPTRELAKQT---YNETVRLSE 106
+ + A + +G+GKTAAF++ ++ + P N + + + PT ELA QT + +
Sbjct: 102 QNLIAQSQSGTGKTAAFVLAMLSQVE-PANKYPQCLCLSPTYELALQTGKVIEQMGKFYP 160
Query: 107 GLGLRAHVIGKIQQAAEKFGPRSAQKFDVLITTPNKLV----YLLQMDPPALNLANVEWL 162
L L V G + +K + ++I TP ++ L +DP + +
Sbjct: 161 ELKLAYAVRGNKLERGQKISEQ------IVIGTPGTVLDWCSKLKFIDPKKIKV-----F 209
Query: 163 IVDESDKLFEAGVRGFRDQLAVIYAACSGPNLKRGMFSATHTEDVAKWCRR--------K 214
++DE+D + +G +DQ I N + +FSAT + V K+ ++ K
Sbjct: 210 VLDEADVMI--ATQGHQDQSIRIQRMLPR-NCQMLLFSATFEDSVWKFAQKVVPDPNVIK 266
Query: 215 LKRR 218
LKR
Sbjct: 267 LKRE 270
>pdb|3G0H|A Chain A, Human Dead-box Rna Helicase Ddx19, In Complex With An
Atp-analogue And Rna
Length = 424
Score = 35.4 bits (80), Expect = 0.028, Method: Compositional matrix adjust.
Identities = 42/171 (24%), Positives = 79/171 (46%), Gaps = 22/171 (12%)
Query: 50 RQIFACAPTGSGKTAAFLIPIIHSLRGPKNLGFRAVIVCPTRELAKQT---YNETVRLSE 106
+ + A + +G+GKTAAF++ ++ + P N + + + PT ELA QT + +
Sbjct: 81 QNLIAQSQSGTGKTAAFVLAMLSQVE-PANKYPQCLCLSPTYELALQTGKVIEQMGKFYP 139
Query: 107 GLGLRAHVIGKIQQAAEKFGPRSAQKFDVLITTPNKLV----YLLQMDPPALNLANVEWL 162
L L V G + +K + ++I TP ++ L +DP + +
Sbjct: 140 ELKLAYAVRGNKLERGQKISEQ------IVIGTPGTVLDWCSKLKFIDPKKIKV-----F 188
Query: 163 IVDESDKLFEAGVRGFRDQLAVIYAACSGPNLKRGMFSATHTEDVAKWCRR 213
++DE+D + +G +DQ I N + +FSAT + V K+ ++
Sbjct: 189 VLDEADVMI--ATQGHQDQSIRIQRMLPR-NCQMLLFSATFEDSVWKFAQK 236
>pdb|3FMO|B Chain B, Crystal Structure Of The Nucleoporin Nup214 In Complex
With The Dead- Box Helicase Ddx19
Length = 300
Score = 35.4 bits (80), Expect = 0.028, Method: Compositional matrix adjust.
Identities = 46/184 (25%), Positives = 83/184 (45%), Gaps = 30/184 (16%)
Query: 50 RQIFACAPTGSGKTAAFLIPIIHSLRGPKNLGFRAVIVCPTRELAKQT---YNETVRLSE 106
+ + A + +G+GKTAAF++ ++ + P N + + + PT ELA QT + +
Sbjct: 132 QNLIAQSQSGTGKTAAFVLAMLSQVE-PANKYPQCLCLSPTYELALQTGKVIEQMGKFYP 190
Query: 107 GLGLRAHVIGKIQQAAEKFGPRSAQKFDVLITTPNKLV----YLLQMDPPALNLANVEWL 162
L L V G + +K + ++I TP ++ L +DP + +
Sbjct: 191 ELKLAYAVRGNKLERGQKISEQ------IVIGTPGTVLDWCSKLKFIDPKKIKV-----F 239
Query: 163 IVDESDKLFEAGVRGFRDQLAVIYAACSGPNLKRGMFSATHTEDVAKWCRR--------K 214
++DE+D + +G +DQ I N + +FSAT + V K+ ++ K
Sbjct: 240 VLDEADVMI--ATQGHQDQSIRIQRMLPR-NCQMLLFSATFEDSVWKFAQKVVPDPNVIK 296
Query: 215 LKRR 218
LKR
Sbjct: 297 LKRE 300
>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 = 35.4 bits (80), Expect = 0.029, Method: Compositional matrix adjust.
Identities = 46/184 (25%), Positives = 83/184 (45%), Gaps = 30/184 (16%)
Query: 50 RQIFACAPTGSGKTAAFLIPIIHSLRGPKNLGFRAVIVCPTRELAKQT---YNETVRLSE 106
+ + A + +G+GKTAAF++ ++ + P N + + + PT ELA QT + +
Sbjct: 132 QNLIAQSQSGTGKTAAFVLAMLSQVE-PANKYPQCLCLSPTYELALQTGKVIEQMGKFYP 190
Query: 107 GLGLRAHVIGKIQQAAEKFGPRSAQKFDVLITTPNKLV----YLLQMDPPALNLANVEWL 162
L L V G + +K + ++I TP ++ L +DP + +
Sbjct: 191 ELKLAYAVRGNKLERGQKISEQ------IVIGTPGTVLDWCSKLKFIDPKKIKV-----F 239
Query: 163 IVDESDKLFEAGVRGFRDQLAVIYAACSGPNLKRGMFSATHTEDVAKWCRR--------K 214
++DE+D + +G +DQ I N + +FSAT + V K+ ++ K
Sbjct: 240 VLDEADVMI--ATQGHQDQSIRIQRMLPR-NCQMLLFSATFEDSVWKFAQKVVPDPNVIK 296
Query: 215 LKRR 218
LKR
Sbjct: 297 LKRE 300
>pdb|3P1U|A Chain A, Crystal Structure Of A Susd Homolog (Bdi_0600) From
Parabacteroides Distasonis Atcc 8503 At 2.05 A
Resolution
pdb|3P1U|B Chain B, Crystal Structure Of A Susd Homolog (Bdi_0600) From
Parabacteroides Distasonis Atcc 8503 At 2.05 A
Resolution
Length = 529
Score = 31.6 bits (70), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 30/141 (21%), Positives = 56/141 (39%), Gaps = 28/141 (19%)
Query: 85 VIVCPTRELAKQTYNETVRLSEGLGLRAHVIGKIQQAAEKFGPRSAQKFDVLITTPNKLV 144
+++ E K Y T+ + + H + AA+KFGP +++
Sbjct: 85 IVIRSLTEKDKDAYANTIAFARIWRVYVHTL-----AADKFGPXPFPAYEI--------- 130
Query: 145 YLLQMDPPALNLANVEWLIVDESDKLFEAGVRGFRDQLAVIYAACSGPNLKRGMFSATHT 204
++ +PP +L + I DE + +A + GF D I++ +
Sbjct: 131 --VEANPPYKSLKD----IYDEYFRELDAAINGFNDSAQPIFSDAG--------IDLIYK 176
Query: 205 EDVAKWCRRKLKRRVQINVGL 225
DV+KW R R+++ V L
Sbjct: 177 NDVSKWKRFANSLRLRLAVRL 197
>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 = 30.4 bits (67), Expect = 0.90, Method: Compositional matrix adjust.
Identities = 34/123 (27%), Positives = 49/123 (39%), Gaps = 11/123 (8%)
Query: 49 GRQIFACAPTGSGKT-AAFLIPIIHSLRGPKNLGFRAVIVCPTRELAKQTYNETVRLSEG 107
G+ CAPTGSGKT + LI H P + V + + +Q N E
Sbjct: 22 GKNALICAPTGSGKTFVSILICEHHFQNMPAGRKAKVVFLATKVPVYEQQKNVFKHHFER 81
Query: 108 LGLRAHVIGKIQQAAEKFGPRSAQKF----DVLITTPNKLVYLLQMDPPALNLANVEWLI 163
G I + E F S +K D+++ TP LV + D +L+ +I
Sbjct: 82 QGYSVQGI-----SGENFSNVSVEKVIEDSDIIVVTPQILVNSFE-DGTLTSLSIFTLMI 135
Query: 164 VDE 166
DE
Sbjct: 136 FDE 138
>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 = 29.6 bits (65), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 34/123 (27%), Positives = 49/123 (39%), Gaps = 11/123 (8%)
Query: 49 GRQIFACAPTGSGKT-AAFLIPIIHSLRGPKNLGFRAVIVCPTRELAKQTYNETVRLSEG 107
G+ CAPTGSGKT + LI H P + V + + +Q N E
Sbjct: 263 GKNALICAPTGSGKTFVSILICEHHFQNMPAGRKAKVVFLATKVPVYEQQKNVFKHHFER 322
Query: 108 LGLRAHVIGKIQQAAEKFGPRSAQKF----DVLITTPNKLVYLLQMDPPALNLANVEWLI 163
G I + E F S +K D+++ TP LV + D +L+ +I
Sbjct: 323 QGYSVQGI-----SGENFSNVSVEKVIEDSDIIVVTPQILVNSFE-DGTLTSLSIFTLMI 376
Query: 164 VDE 166
DE
Sbjct: 377 FDE 379
>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 = 29.6 bits (65), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 34/123 (27%), Positives = 49/123 (39%), Gaps = 11/123 (8%)
Query: 49 GRQIFACAPTGSGKT-AAFLIPIIHSLRGPKNLGFRAVIVCPTRELAKQTYNETVRLSEG 107
G+ CAPTGSGKT + LI H P + V + + +Q N E
Sbjct: 263 GKNALICAPTGSGKTFVSILICEHHFQNMPAGRKAKVVFLATKVPVYEQQKNVFKHHFER 322
Query: 108 LGLRAHVIGKIQQAAEKFGPRSAQKF----DVLITTPNKLVYLLQMDPPALNLANVEWLI 163
G I + E F S +K D+++ TP LV + D +L+ +I
Sbjct: 323 QGYSVQGI-----SGENFSNVSVEKVIEDSDIIVVTPQILVNSFE-DGTLTSLSIFTLMI 376
Query: 164 VDE 166
DE
Sbjct: 377 FDE 379
>pdb|1GKU|B Chain B, Reverse Gyrase From Archaeoglobus Fulgidus
Length = 1054
Score = 28.9 bits (63), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 30/126 (23%), Positives = 57/126 (45%), Gaps = 17/126 (13%)
Query: 54 ACAPTGSGKTA-AFLIPIIHSLRGPKNLGFRAVIVCPTRELAKQTYNETVRLSEGLG--- 109
A APTG GKT+ + + +L+G R ++ PT L Q + +E G
Sbjct: 76 ATAPTGVGKTSFGLAMSLFLALKGK-----RCYVIFPTSLLVIQAAETIRKYAEKAGVGT 130
Query: 110 --LRAHVIGKIQQAAEKFGPRSAQKFDVLITTPNKLVYLLQMDPPALNLANVEWLIVDES 167
L + G+I + ++ ++ + F ++ITT L + L + +++ VD+
Sbjct: 131 ENLIGYYHGRIPKREKENFMQNLRNFKIVITTTQFLSKHYR------ELGHFDFIFVDDV 184
Query: 168 DKLFEA 173
D + +A
Sbjct: 185 DAILKA 190
>pdb|1GM5|A Chain A, Structure Of Recg Bound To Three-Way Dna Junction
Length = 780
Score = 28.9 bits (63), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 34/116 (29%), Positives = 52/116 (44%), Gaps = 16/116 (13%)
Query: 59 GSGKTAAFLIPIIHSLRGPKNLGFRAVIVCPTRELAKQTYNETVRLSEGLGLR-AHVIGK 117
GSGKT + I+ + GF+ + PT LA Q Y TV + A +IG
Sbjct: 399 GSGKTVVAQLAILDNYEA----GFQTAFMVPTSILAIQHYRRTVESFSKFNIHVALLIGA 454
Query: 118 I---QQAAEKFGPRSAQKFDVLITTPNKLVYLLQMDPPALNLANVEWLIVDESDKL 170
++ K G R+ Q DV+I T L+Q D ++ N+ +I+DE +
Sbjct: 455 TTPSEKEKIKSGLRNGQ-IDVVIGTHA----LIQED---VHFKNLGLVIIDEQHRF 502
>pdb|1GL9|B Chain B, Archaeoglobus Fulgidus Reverse Gyrase Complexed With Adpnp
pdb|1GL9|C Chain C, Archaeoglobus Fulgidus Reverse Gyrase Complexed With Adpnp
Length = 1054
Score = 28.9 bits (63), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 30/126 (23%), Positives = 57/126 (45%), Gaps = 17/126 (13%)
Query: 54 ACAPTGSGKTA-AFLIPIIHSLRGPKNLGFRAVIVCPTRELAKQTYNETVRLSEGLG--- 109
A APTG GKT+ + + +L+G R ++ PT L Q + +E G
Sbjct: 76 ATAPTGVGKTSFGLAMSLFLALKGK-----RCYVIFPTSLLVIQAAETIRKYAEKAGVGT 130
Query: 110 --LRAHVIGKIQQAAEKFGPRSAQKFDVLITTPNKLVYLLQMDPPALNLANVEWLIVDES 167
L + G+I + ++ ++ + F ++ITT L + L + +++ VD+
Sbjct: 131 ENLIGYYHGRIPKREKENFMQNLRNFKIVITTTQFLSKHYR------ELGHFDFIFVDDV 184
Query: 168 DKLFEA 173
D + +A
Sbjct: 185 DAILKA 190
>pdb|1BG3|A Chain A, Rat Brain Hexokinase Type I Complex With Glucose And
Inhibitor Glucose-6-Phosphate
pdb|1BG3|B Chain B, Rat Brain Hexokinase Type I Complex With Glucose And
Inhibitor Glucose-6-Phosphate
Length = 918
Score = 28.5 bits (62), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 19/56 (33%), Positives = 26/56 (46%), Gaps = 7/56 (12%)
Query: 28 VSNSIFKHFEPHF------TITYLSPLGRQIFACAPTGSGKTAAFLIPIIHSLRGP 77
V +++K PHF T+ LSP F + GSGK AA + + LRG
Sbjct: 860 VDGTLYK-LHPHFSRIMHQTVKELSPKCTVSFLLSEDGSGKGAALITAVGVRLRGD 914
>pdb|3TMI|A Chain A, Structural Basis For Rna Recognition And Activation Of
Rig-I
Length = 695
Score = 28.5 bits (62), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 16/53 (30%), Positives = 27/53 (50%), Gaps = 3/53 (5%)
Query: 26 AVVSNSIFKHFEP-HFTITYLSPL--GRQIFACAPTGSGKTAAFLIPIIHSLR 75
+V +++ F+P ++ + P G+ CAPTG GKT L+ H L+
Sbjct: 1 SVSDTNLYSPFKPRNYQLELALPAMKGKNTIICAPTGCGKTFVSLLICEHHLK 53
>pdb|3P4X|A Chain A, Helicase Domain Of Reverse Gyrase From Thermotoga Maritima
pdb|3P4X|B Chain B, Helicase Domain Of Reverse Gyrase From Thermotoga Maritima
Length = 413
Score = 28.5 bits (62), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 18/58 (31%), Positives = 28/58 (48%), Gaps = 4/58 (6%)
Query: 49 GRQIFACAPTGSGKTAAFLIPIIHSLRGPKNLGFRAVIVCPTRELAKQTYNETVRLSE 106
G+ APTG GKT ++ + R K ++ +V PT L KQT +L++
Sbjct: 35 GKSFTMVAPTGVGKTTFGMMTALWLARKGK----KSALVFPTVTLVKQTLERLQKLAD 88
>pdb|3P4Y|A Chain A, Helicase Domain Of Reverse Gyrase From Thermotoga Maritima
- P2 Form
Length = 415
Score = 28.5 bits (62), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 18/58 (31%), Positives = 28/58 (48%), Gaps = 4/58 (6%)
Query: 49 GRQIFACAPTGSGKTAAFLIPIIHSLRGPKNLGFRAVIVCPTRELAKQTYNETVRLSE 106
G+ APTG GKT ++ + R K ++ +V PT L KQT +L++
Sbjct: 37 GKSFTMVAPTGVGKTTFGMMTALWLARKGK----KSALVFPTVTLVKQTLERLQKLAD 90
>pdb|3OIY|A Chain A, Helicase Domain Of Reverse Gyrase From Thermotoga Maritima
pdb|3OIY|B Chain B, Helicase Domain Of Reverse Gyrase From Thermotoga Maritima
Length = 414
Score = 28.5 bits (62), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 18/58 (31%), Positives = 28/58 (48%), Gaps = 4/58 (6%)
Query: 49 GRQIFACAPTGSGKTAAFLIPIIHSLRGPKNLGFRAVIVCPTRELAKQTYNETVRLSE 106
G+ APTG GKT ++ + R K ++ +V PT L KQT +L++
Sbjct: 36 GKSFTMVAPTGVGKTTFGMMTALWLARKGK----KSALVFPTVTLVKQTLERLQKLAD 89
>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 = 28.5 bits (62), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 13/41 (31%), Positives = 23/41 (56%), Gaps = 7/41 (17%)
Query: 49 GRQIFACAPTGSGKTAAFLIPIIHSLRGPKNLGFRAVIVCP 89
G+++F PTG GK+ + +P + S GF +++CP
Sbjct: 59 GKEVFLVMPTGGGKSLCYQLPALCS------DGF-TLVICP 92
>pdb|2YKG|A Chain A, Structural Insights Into Rna Recognition By Rig-I
Length = 696
Score = 28.1 bits (61), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 34/121 (28%), Positives = 53/121 (43%), Gaps = 7/121 (5%)
Query: 49 GRQIFACAPTGSGKTAAFLIPIIHSLRG-PKNLGFRAVIVCPTRELAKQTYNETVRLSEG 107
G+ CAPTG GKT L+ H L+ P+ + V + +Q + + E
Sbjct: 28 GKNTIICAPTGCGKTFVSLLICEHHLKKFPQGQKGKVVFFANQIPVYEQNKSVFSKYFER 87
Query: 108 LGLRAHVIGKIQQAAEKFG-PRSAQKFDVLITTPNKLVYLLQMDP-PALNLANVEWLIVD 165
G R V G AE + + D++I TP LV L+ P+L++ + +I D
Sbjct: 88 HGYR--VTGISGATAENVPVEQIVENNDIIILTPQILVNNLKKGTIPSLSIFTL--MIFD 143
Query: 166 E 166
E
Sbjct: 144 E 144
>pdb|4AY2|A Chain A, Capturing 5' Tri-Phosphorylated Rna Duplex By Rig-I
Length = 687
Score = 28.1 bits (61), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 34/121 (28%), Positives = 53/121 (43%), Gaps = 7/121 (5%)
Query: 49 GRQIFACAPTGSGKTAAFLIPIIHSLRG-PKNLGFRAVIVCPTRELAKQTYNETVRLSEG 107
G+ CAPTG GKT L+ H L+ P+ + V + +Q + + E
Sbjct: 19 GKNTIICAPTGCGKTFVSLLICEHHLKKFPQGQKGKVVFFANQIPVYEQNKSVFSKYFER 78
Query: 108 LGLRAHVIGKIQQAAEKFG-PRSAQKFDVLITTPNKLVYLLQMDP-PALNLANVEWLIVD 165
G R V G AE + + D++I TP LV L+ P+L++ + +I D
Sbjct: 79 HGYR--VTGISGATAENVPVEQIVENNDIIILTPQILVNNLKKGTIPSLSIFTL--MIFD 134
Query: 166 E 166
E
Sbjct: 135 E 135
>pdb|3TBK|A Chain A, Mouse Rig-I Atpase Domain
Length = 555
Score = 28.1 bits (61), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 12/27 (44%), Positives = 15/27 (55%)
Query: 49 GRQIFACAPTGSGKTAAFLIPIIHSLR 75
G+ CAPTG GKT L+ H L+
Sbjct: 19 GKNTIICAPTGCGKTFVSLLICEHHLK 45
>pdb|4DDT|A Chain A, Thermotoga Maritima Reverse Gyrase, C2 Form 2
pdb|4DDU|A Chain A, Thermotoga Maritima Reverse Gyrase, C2 Form 1
pdb|4DDV|A Chain A, Thermotoga Maritima Reverse Gyrase, Triclinic Form
pdb|4DDV|B Chain B, Thermotoga Maritima Reverse Gyrase, Triclinic Form
pdb|4DDW|A Chain A, Thermotoga Maritima Reverse Gyrase, C-centered
Orthorhombic Form
pdb|4DDX|A Chain A, Thermotoga Maritima Reverse Gyrase, Primitive Monoclinic
Form
pdb|4DDX|B Chain B, Thermotoga Maritima Reverse Gyrase, Primitive Monoclinic
Form
Length = 1104
Score = 27.7 bits (60), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 18/58 (31%), Positives = 28/58 (48%), Gaps = 4/58 (6%)
Query: 49 GRQIFACAPTGSGKTAAFLIPIIHSLRGPKNLGFRAVIVCPTRELAKQTYNETVRLSE 106
G+ APTG GKT ++ + R G ++ +V PT L KQT +L++
Sbjct: 93 GKSFTMVAPTGVGKTTFGMMTALWLARK----GKKSALVFPTVTLVKQTLERLQKLAD 146
>pdb|3B6E|A Chain A, Crystal Structure Of Human Dech-Box Rna Helicase Mda5
(Melanoma Differentiation-Associated Protein 5),
Dech-Domain
Length = 216
Score = 27.3 bits (59), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 10/15 (66%), Positives = 11/15 (73%)
Query: 49 GRQIFACAPTGSGKT 63
G+ I C PTGSGKT
Sbjct: 48 GKNIIICLPTGSGKT 62
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
0.325 0.140 0.415
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,149,355
Number of Sequences: 62578
Number of extensions: 238463
Number of successful extensions: 748
Number of sequences better than 100.0: 72
Number of HSP's better than 100.0 without gapping: 33
Number of HSP's successfully gapped in prelim test: 39
Number of HSP's that attempted gapping in prelim test: 654
Number of HSP's gapped (non-prelim): 74
length of query: 226
length of database: 14,973,337
effective HSP length: 95
effective length of query: 131
effective length of database: 9,028,427
effective search space: 1182723937
effective search space used: 1182723937
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 50 (23.9 bits)