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= psy576
(159 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 84.0 bits (206), Expect = 3e-17, Method: Compositional matrix adjust.
Identities = 40/110 (36%), Positives = 64/110 (58%)
Query: 50 LVFVQSKERAQELYNELIYDGINVDVIHSDRTQKQRDNVVRSFRTGRIWILITTELLGRG 109
++F ++ + +EL +L D V I+SD Q++RD +++ FR+G ILI+T+LL RG
Sbjct: 264 VIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTIMKEFRSGSSRILISTDLLARG 323
Query: 110 IDFRTVRLVVNYDFPSSAISYIHXXXXXXXXXXXXKAVTFFTKQDAPLLR 159
ID + V LV+NYD P++ +YIH A+ F T +D +R
Sbjct: 324 IDVQQVSLVINYDLPANKENYIHRIGRGGRFGRKGVAINFVTNEDVGAMR 373
>pdb|1FUK|A Chain A, Crystal Structure Of The Carboxy Terminal Domain Of Yeast
Eif4a
Length = 165
Score = 84.0 bits (206), Expect = 4e-17, Method: Compositional matrix adjust.
Identities = 40/110 (36%), Positives = 64/110 (58%)
Query: 50 LVFVQSKERAQELYNELIYDGINVDVIHSDRTQKQRDNVVRSFRTGRIWILITTELLGRG 109
++F ++ + +EL +L D V I+SD Q++RD +++ FR+G ILI+T+LL RG
Sbjct: 34 VIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTIMKEFRSGSSRILISTDLLARG 93
Query: 110 IDFRTVRLVVNYDFPSSAISYIHXXXXXXXXXXXXKAVTFFTKQDAPLLR 159
ID + V LV+NYD P++ +YIH A+ F T +D +R
Sbjct: 94 IDVQQVSLVINYDLPANKENYIHRIGRGGRFGRKGVAINFVTNEDVGAMR 143
>pdb|1FUU|A Chain A, Yeast Initiation Factor 4a
pdb|1FUU|B Chain B, Yeast Initiation Factor 4a
Length = 394
Score = 81.6 bits (200), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 40/110 (36%), Positives = 62/110 (56%)
Query: 50 LVFVQSKERAQELYNELIYDGINVDVIHSDRTQKQRDNVVRSFRTGRIWILITTELLGRG 109
++F ++ + +EL +L D V I+SD Q++RD + + FR+G ILI+T+LL RG
Sbjct: 263 VIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTIXKEFRSGSSRILISTDLLARG 322
Query: 110 IDFRTVRLVVNYDFPSSAISYIHXXXXXXXXXXXXKAVTFFTKQDAPLLR 159
ID + V LV+NYD P++ +YIH A+ F T +D R
Sbjct: 323 IDVQQVSLVINYDLPANKENYIHRIGRGGRFGRKGVAINFVTNEDVGAXR 372
>pdb|3EIQ|A Chain A, Crystal Structure Of Pdcd4-eif4a
pdb|3EIQ|D Chain D, Crystal Structure Of Pdcd4-eif4a
Length = 414
Score = 77.0 bits (188), Expect = 4e-15, Method: Compositional matrix adjust.
Identities = 38/110 (34%), Positives = 61/110 (55%)
Query: 50 LVFVQSKERAQELYNELIYDGINVDVIHSDRTQKQRDNVVRSFRTGRIWILITTELLGRG 109
++F+ ++ + L ++ V +H D QK+RD ++R FR+G +LITT+LL RG
Sbjct: 284 VIFINTRRKVDWLTEKMHARDFTVSAMHGDMDQKERDVIMREFRSGSSRVLITTDLLARG 343
Query: 110 IDFRTVRLVVNYDFPSSAISYIHXXXXXXXXXXXXKAVTFFTKQDAPLLR 159
ID + V LV+NYD P++ +YIH A+ T++D LR
Sbjct: 344 IDVQQVSLVINYDLPTNRENYIHRIGRGGRFGRKGVAINMVTEEDKRTLR 393
>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 = 77.0 bits (188), Expect = 4e-15, Method: Compositional matrix adjust.
Identities = 38/110 (34%), Positives = 61/110 (55%)
Query: 50 LVFVQSKERAQELYNELIYDGINVDVIHSDRTQKQRDNVVRSFRTGRIWILITTELLGRG 109
++F+ ++ + L ++ V +H D QK+RD ++R FR+G +LITT+LL RG
Sbjct: 258 VIFINTRRKVDWLTEKMHARDFTVSAMHGDMDQKERDVIMREFRSGSSRVLITTDLLARG 317
Query: 110 IDFRTVRLVVNYDFPSSAISYIHXXXXXXXXXXXXKAVTFFTKQDAPLLR 159
ID + V LV+NYD P++ +YIH A+ T++D LR
Sbjct: 318 IDVQQVSLVINYDLPTNRENYIHRIGRGGRFGRKGVAINMVTEEDKRTLR 367
>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 = 76.6 bits (187), Expect = 5e-15, Method: Compositional matrix adjust.
Identities = 38/89 (42%), Positives = 55/89 (61%), Gaps = 6/89 (6%)
Query: 50 LVFVQSKERAQELYNELIYDGINVDVIHSDRTQKQRDNVVRSFRTGRIWILITTELLGRG 109
++FV +K+ A LY +L +G V ++H D ++RD ++ FR GR +LITT +L RG
Sbjct: 247 IIFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDDFREGRSKVLITTNVLARG 306
Query: 110 IDFRTVRLVVNYDFPSSA------ISYIH 132
ID TV +VVNYD P+ A +YIH
Sbjct: 307 IDIPTVSMVVNYDLPTLANGQADPATYIH 335
>pdb|3PEY|A Chain A, S. Cerevisiae Dbp5 Bound To Rna And Adp Bef3
Length = 395
Score = 76.6 bits (187), Expect = 5e-15, Method: Compositional matrix adjust.
Identities = 38/89 (42%), Positives = 55/89 (61%), Gaps = 6/89 (6%)
Query: 50 LVFVQSKERAQELYNELIYDGINVDVIHSDRTQKQRDNVVRSFRTGRIWILITTELLGRG 109
++FV +K+ A LY +L +G V ++H D ++RD ++ FR GR +LITT +L RG
Sbjct: 247 IIFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDDFREGRSKVLITTNVLARG 306
Query: 110 IDFRTVRLVVNYDFPSSA------ISYIH 132
ID TV +VVNYD P+ A +YIH
Sbjct: 307 IDIPTVSMVVNYDLPTLANGQADPATYIH 335
>pdb|2KBF|A Chain A, Solution Structure Of Carboxyl-Terminal Domain Of Dbp5p
Length = 187
Score = 74.7 bits (182), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 38/89 (42%), Positives = 55/89 (61%), Gaps = 6/89 (6%)
Query: 50 LVFVQSKERAQELYNELIYDGINVDVIHSDRTQKQRDNVVRSFRTGRIWILITTELLGRG 109
++FV +K+ A LY +L +G V ++H D ++RD ++ FR GR +LITT +L RG
Sbjct: 39 IIFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDDFREGRSKVLITTNVLARG 98
Query: 110 IDFRTVRLVVNYDFPSSA------ISYIH 132
ID TV +VVNYD P+ A +YIH
Sbjct: 99 IDIPTVSMVVNYDLPTLANGQADPATYIH 127
>pdb|2I4I|A Chain A, Crystal Structure Of Human Dead-Box Rna Helicase Ddx3x
Length = 417
Score = 74.7 bits (182), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 36/111 (32%), Positives = 60/111 (54%)
Query: 44 GIEPPVLVFVQSKERAQELYNELIYDGINVDVIHSDRTQKQRDNVVRSFRTGRIWILITT 103
G + LVFV++K+ A L + L ++G IH DR+Q+ R+ + FR+G+ IL+ T
Sbjct: 274 GKDSLTLVFVETKKGADSLEDFLYHEGYACTSIHGDRSQRDREEALHQFRSGKSPILVAT 333
Query: 104 ELLGRGIDFRTVRLVVNYDFPSSAISYIHXXXXXXXXXXXXKAVTFFTKQD 154
+ RG+D V+ V+N+D PS Y+H A +FF +++
Sbjct: 334 AVAARGLDISNVKHVINFDLPSDIEEYVHRIGRTGRVGNLGLATSFFNERN 384
>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 = 74.3 bits (181), Expect = 3e-14, Method: Compositional matrix adjust.
Identities = 36/111 (32%), Positives = 60/111 (54%)
Query: 44 GIEPPVLVFVQSKERAQELYNELIYDGINVDVIHSDRTQKQRDNVVRSFRTGRIWILITT 103
G + LVFV++K+ A L + L ++G IH DR+Q+ R+ + FR+G+ IL+ T
Sbjct: 44 GKDSLTLVFVETKKGADSLEDFLYHEGYACTSIHGDRSQRDREEALHQFRSGKSPILVAT 103
Query: 104 ELLGRGIDFRTVRLVVNYDFPSSAISYIHXXXXXXXXXXXXKAVTFFTKQD 154
+ RG+D V+ V+N+D PS Y+H A +FF +++
Sbjct: 104 AVAARGLDISNVKHVINFDLPSDIEEYVHRIGRTGRVGNLGLATSFFNERN 154
>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 = 73.6 bits (179), Expect = 5e-14, Method: Compositional matrix adjust.
Identities = 31/106 (29%), Positives = 54/106 (50%)
Query: 47 PPVLVFVQSKERAQELYNELIYDGINVDVIHSDRTQKQRDNVVRSFRTGRIWILITTELL 106
PPVL+F + K ++ L+ G+ IH + Q++R + +FR G+ +L+ T++
Sbjct: 55 PPVLIFAEKKADVDAIHEYLLLKGVEAVAIHGGKDQEERTKAIEAFREGKKDVLVATDVA 114
Query: 107 GRGIDFRTVRLVVNYDFPSSAISYIHXXXXXXXXXXXXKAVTFFTK 152
+G+DF ++ V+NYD P +Y+H A TF K
Sbjct: 115 SKGLDFPAIQHVINYDMPEEIENYVHRIGRTGCSGNTGIATTFINK 160
>pdb|3GFP|A Chain A, Structure Of The C-Terminal Domain Of The Dead-Box Protein
Dbp5
Length = 189
Score = 73.2 bits (178), Expect = 5e-14, Method: Compositional matrix adjust.
Identities = 38/89 (42%), Positives = 54/89 (60%), Gaps = 6/89 (6%)
Query: 50 LVFVQSKERAQELYNELIYDGINVDVIHSDRTQKQRDNVVRSFRTGRIWILITTELLGRG 109
++FV +K+ A LY +L +G V ++H D ++RD ++ FR GR +LITT +L RG
Sbjct: 41 IIFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDDFREGRSKVLITTNVLARG 100
Query: 110 IDFRTVRLVVNYDFPSSA------ISYIH 132
ID TV VVNYD P+ A +YIH
Sbjct: 101 IDIPTVSXVVNYDLPTLANGQADPATYIH 129
>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 = 73.2 bits (178), Expect = 6e-14, Method: Compositional matrix adjust.
Identities = 38/89 (42%), Positives = 54/89 (60%), Gaps = 6/89 (6%)
Query: 50 LVFVQSKERAQELYNELIYDGINVDVIHSDRTQKQRDNVVRSFRTGRIWILITTELLGRG 109
++FV +K+ A LY +L +G V ++H D ++RD ++ FR GR +LITT +L RG
Sbjct: 40 IIFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDDFREGRSKVLITTNVLARG 99
Query: 110 IDFRTVRLVVNYDFPSSA------ISYIH 132
ID TV VVNYD P+ A +YIH
Sbjct: 100 IDIPTVSXVVNYDLPTLANGQADPATYIH 128
>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 = 70.1 bits (170), Expect = 5e-13, Method: Compositional matrix adjust.
Identities = 37/110 (33%), Positives = 56/110 (50%)
Query: 50 LVFVQSKERAQELYNELIYDGINVDVIHSDRTQKQRDNVVRSFRTGRIWILITTELLGRG 109
LVF ++K +EL + L G IH D +Q QR+ V+R F+ +I ILI T++ RG
Sbjct: 242 LVFCKTKRDTKELASXLRDIGFKAGAIHGDLSQSQREKVIRLFKQKKIRILIATDVXSRG 301
Query: 110 IDFRTVRLVVNYDFPSSAISYIHXXXXXXXXXXXXKAVTFFTKQDAPLLR 159
ID + V+NY P + SY H KA++ +++ LR
Sbjct: 302 IDVNDLNCVINYHLPQNPESYXHRIGRTGRAGKKGKAISIINRREYKKLR 351
>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 = 68.9 bits (167), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 34/101 (33%), Positives = 52/101 (51%)
Query: 50 LVFVQSKERAQELYNELIYDGINVDVIHSDRTQKQRDNVVRSFRTGRIWILITTELLGRG 109
+VFV++K A L + L IH DR Q QR+ +R F+ G + +LI T + RG
Sbjct: 304 IVFVETKRGADFLASFLSEKEFPTTSIHGDRLQSQREQALRDFKNGSMKVLIATSVASRG 363
Query: 110 IDFRTVRLVVNYDFPSSAISYIHXXXXXXXXXXXXKAVTFF 150
+D + ++ V+NYD PS Y+H +A +FF
Sbjct: 364 LDIKNIKHVINYDMPSKIDDYVHRIGRTGRVGNNGRATSFF 404
>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 = 68.2 bits (165), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 37/112 (33%), Positives = 56/112 (50%), Gaps = 2/112 (1%)
Query: 42 LLGIEPP--VLVFVQSKERAQELYNELIYDGINVDVIHSDRTQKQRDNVVRSFRTGRIWI 99
+L E P ++F ++KE +L +EL G D IH Q+ R +V+ F+ G
Sbjct: 29 VLMTENPDSCIIFCRTKEHVNQLTDELDDLGYPCDKIHGGMIQEDRFDVMNEFKRGEYRY 88
Query: 100 LITTELLGRGIDFRTVRLVVNYDFPSSAISYIHXXXXXXXXXXXXKAVTFFT 151
L+ T++ RGID + LV+NYD P SY+H KA++F T
Sbjct: 89 LVATDVAARGIDIENISLVINYDLPLEKESYVHRTGRTGRAGNKGKAISFVT 140
>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 = 65.9 bits (159), Expect = 9e-12, Method: Compositional matrix adjust.
Identities = 36/111 (32%), Positives = 61/111 (54%), Gaps = 4/111 (3%)
Query: 26 ETEGAGSPVQAQDETI--LLGIEPP--VLVFVQSKERAQELYNELIYDGINVDVIHSDRT 81
E E +PV+ + E + LL + P +VF ++K +E+ L+ G +H D +
Sbjct: 4 EEEAVPAPVRGRLEVLSDLLYVASPDRAMVFTRTKAETEEIAQGLLRLGHPAQALHGDMS 63
Query: 82 QKQRDNVVRSFRTGRIWILITTELLGRGIDFRTVRLVVNYDFPSSAISYIH 132
Q +R+ V+ +FR G + +L+ T++ RG+D V LVV+Y P A +Y H
Sbjct: 64 QGERERVMGAFRQGEVRVLVATDVAARGLDIPQVDLVVHYRMPDRAEAYQH 114
>pdb|3EAQ|A Chain A, Novel Dimerization Motif In The Dead Box Rna Helicase Hera
Form 2, Complete Dimer, Symmetric
pdb|3EAQ|B Chain B, Novel Dimerization Motif In The Dead Box Rna Helicase Hera
Form 2, Complete Dimer, Symmetric
pdb|3EAR|A Chain A, Novel Dimerization Motif In The Dead Box Rna Helicase
Hera: Form 1, Partial Dimer
pdb|3EAR|B Chain B, Novel Dimerization Motif In The Dead Box Rna Helicase
Hera: Form 1, Partial Dimer
pdb|3EAS|A Chain A, Novel Dimerization Motif In The Dead Box Rna Helicase
Hera: Form 1, Complete Dimer, Asymmetric
pdb|3EAS|B Chain B, Novel Dimerization Motif In The Dead Box Rna Helicase
Hera: Form 1, Complete Dimer, Asymmetric
Length = 212
Score = 65.5 bits (158), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 36/111 (32%), Positives = 61/111 (54%), Gaps = 4/111 (3%)
Query: 26 ETEGAGSPVQAQDETI--LLGIEPP--VLVFVQSKERAQELYNELIYDGINVDVIHSDRT 81
E E +PV+ + E + LL + P +VF ++K +E+ L+ G +H D +
Sbjct: 7 EEEAVPAPVRGRLEVLSDLLYVASPDRAMVFTRTKAETEEIAQGLLRLGHPAQALHGDLS 66
Query: 82 QKQRDNVVRSFRTGRIWILITTELLGRGIDFRTVRLVVNYDFPSSAISYIH 132
Q +R+ V+ +FR G + +L+ T++ RG+D V LVV+Y P A +Y H
Sbjct: 67 QGERERVLGAFRQGEVRVLVATDVAARGLDIPQVDLVVHYRLPDRAEAYQH 117
>pdb|2J0U|A Chain A, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 65.1 bits (157), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 33/110 (30%), Positives = 57/110 (51%)
Query: 50 LVFVQSKERAQELYNELIYDGINVDVIHSDRTQKQRDNVVRSFRTGRIWILITTELLGRG 109
++F +K + L ++ V +H D QK+R+++++ FR+G +LI+T++ RG
Sbjct: 244 VIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWARG 303
Query: 110 IDFRTVRLVVNYDFPSSAISYIHXXXXXXXXXXXXKAVTFFTKQDAPLLR 159
+D V L++NYD P++ YIH AV F D +LR
Sbjct: 304 LDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAVNFVKNDDIRVLR 353
>pdb|2J0U|B Chain B, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 65.1 bits (157), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 33/110 (30%), Positives = 57/110 (51%)
Query: 50 LVFVQSKERAQELYNELIYDGINVDVIHSDRTQKQRDNVVRSFRTGRIWILITTELLGRG 109
++F +K + L ++ V +H D QK+R+++++ FR+G +LI+T++ RG
Sbjct: 244 VIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWARG 303
Query: 110 IDFRTVRLVVNYDFPSSAISYIHXXXXXXXXXXXXKAVTFFTKQDAPLLR 159
+D V L++NYD P++ YIH AV F D +LR
Sbjct: 304 LDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAVNFVKNDDIRVLR 353
>pdb|1S2M|A Chain A, Crystal Structure Of The Dead Box Protein Dhh1p
Length = 400
Score = 65.1 bits (157), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 28/83 (33%), Positives = 50/83 (60%)
Query: 50 LVFVQSKERAQELYNELIYDGINVDVIHSDRTQKQRDNVVRSFRTGRIWILITTELLGRG 109
++F S R + L ++ G + H+ Q++R+ V FR G++ L+ ++LL RG
Sbjct: 262 IIFCNSTNRVELLAKKITDLGYSCYYSHARMKQQERNKVFHEFRQGKVRTLVCSDLLTRG 321
Query: 110 IDFRTVRLVVNYDFPSSAISYIH 132
ID + V +V+N+DFP +A +Y+H
Sbjct: 322 IDIQAVNVVINFDFPKTAETYLH 344
>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 = 65.1 bits (157), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 34/109 (31%), Positives = 53/109 (48%)
Query: 50 LVFVQSKERAQELYNELIYDGINVDVIHSDRTQKQRDNVVRSFRTGRIWILITTELLGRG 109
+VFV+ +ER EL N L GIN + + Q +R+ ++ GR+ +L+ T++ RG
Sbjct: 34 IVFVRKRERVHELANWLREAGINNCYLEGEMVQGKRNEAIKRLTEGRVNVLVATDVAARG 93
Query: 110 IDFRTVRLVVNYDFPSSAISYIHXXXXXXXXXXXXKAVTFFTKQDAPLL 158
ID V V N+D P S +Y+H A++ D LL
Sbjct: 94 IDIPDVSHVFNFDMPRSGDTYLHRIGRTARAGRKGTAISLVEAHDHLLL 142
>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 = 65.1 bits (157), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 32/110 (29%), Positives = 57/110 (51%)
Query: 50 LVFVQSKERAQELYNELIYDGINVDVIHSDRTQKQRDNVVRSFRTGRIWILITTELLGRG 109
++F +K + L ++ V +H D QK+R+++++ FR+G +LI+T++ RG
Sbjct: 280 VIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWARG 339
Query: 110 IDFRTVRLVVNYDFPSSAISYIHXXXXXXXXXXXXKAVTFFTKQDAPLLR 159
+D V L++NYD P++ YIH A+ F D +LR
Sbjct: 340 LDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAINFVKNDDIRILR 389
>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 = 65.1 bits (157), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 32/110 (29%), Positives = 57/110 (51%)
Query: 50 LVFVQSKERAQELYNELIYDGINVDVIHSDRTQKQRDNVVRSFRTGRIWILITTELLGRG 109
++F +K + L ++ V +H D QK+R+++++ FR+G +LI+T++ RG
Sbjct: 281 VIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWARG 340
Query: 110 IDFRTVRLVVNYDFPSSAISYIHXXXXXXXXXXXXKAVTFFTKQDAPLLR 159
+D V L++NYD P++ YIH A+ F D +LR
Sbjct: 341 LDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAINFVKNDDIRILR 390
>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 = 65.1 bits (157), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 32/110 (29%), Positives = 57/110 (51%)
Query: 50 LVFVQSKERAQELYNELIYDGINVDVIHSDRTQKQRDNVVRSFRTGRIWILITTELLGRG 109
++F +K + L ++ V +H D QK+R+++++ FR+G +LI+T++ RG
Sbjct: 281 VIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWARG 340
Query: 110 IDFRTVRLVVNYDFPSSAISYIHXXXXXXXXXXXXKAVTFFTKQDAPLLR 159
+D V L++NYD P++ YIH A+ F D +LR
Sbjct: 341 LDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAINFVKNDDIRILR 390
>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 = 64.7 bits (156), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 32/110 (29%), Positives = 57/110 (51%)
Query: 50 LVFVQSKERAQELYNELIYDGINVDVIHSDRTQKQRDNVVRSFRTGRIWILITTELLGRG 109
++F +K + L ++ V +H D QK+R+++++ FR+G +LI+T++ RG
Sbjct: 259 VIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWARG 318
Query: 110 IDFRTVRLVVNYDFPSSAISYIHXXXXXXXXXXXXKAVTFFTKQDAPLLR 159
+D V L++NYD P++ YIH A+ F D +LR
Sbjct: 319 LDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAINFVKNDDIRILR 368
>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 = 63.5 bits (153), Expect = 5e-11, Method: Compositional matrix adjust.
Identities = 29/75 (38%), Positives = 49/75 (65%)
Query: 50 LVFVQSKERAQELYNELIYDGINVDVIHSDRTQKQRDNVVRSFRTGRIWILITTELLGRG 109
++F Q++ A+ L E+I DG V ++ + T +QR ++++ FR G+ +LITT + RG
Sbjct: 38 IIFCQTRRNAKWLTVEMIQDGHQVSLLSGELTVEQRASIIQRFRDGKEKVLITTNVCARG 97
Query: 110 IDFRTVRLVVNYDFP 124
ID + V +VVN+D P
Sbjct: 98 IDVKQVTIVVNFDLP 112
>pdb|3FHO|A Chain A, Structure Of S. Pombe Dbp5
pdb|3FHO|B Chain B, Structure Of S. Pombe Dbp5
Length = 508
Score = 63.5 bits (153), Expect = 5e-11, Method: Compositional matrix adjust.
Identities = 29/75 (38%), Positives = 44/75 (58%)
Query: 50 LVFVQSKERAQELYNELIYDGINVDVIHSDRTQKQRDNVVRSFRTGRIWILITTELLGRG 109
++F + K+ A+E+ + DG V + + QRD ++ SFR G +L+TT ++ RG
Sbjct: 361 IIFCKKKDTAEEIARRMTADGHTVACLTGNLEGAQRDAIMDSFRVGTSKVLVTTNVIARG 420
Query: 110 IDFRTVRLVVNYDFP 124
ID V LVVNYD P
Sbjct: 421 IDVSQVNLVVNYDMP 435
>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 = 62.4 bits (150), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 29/83 (34%), Positives = 47/83 (56%)
Query: 50 LVFVQSKERAQELYNELIYDGINVDVIHSDRTQKQRDNVVRSFRTGRIWILITTELLGRG 109
++F S +R + L ++ G + IH+ Q+ R+ V FR G L+ T+L RG
Sbjct: 48 IIFCNSSQRVELLAKKISQLGYSCFYIHAKMRQEHRNRVFHDFRNGLCRNLVCTDLFTRG 107
Query: 110 IDFRTVRLVVNYDFPSSAISYIH 132
ID + V +V+N+DFP A +Y+H
Sbjct: 108 IDIQAVNVVINFDFPKLAETYLH 130
>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 = 55.5 bits (132), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 25/76 (32%), Positives = 43/76 (56%)
Query: 49 VLVFVQSKERAQELYNELIYDGINVDVIHSDRTQKQRDNVVRSFRTGRIWILITTELLGR 108
++F +++ A L EL +G V ++ + +QR V+ FR G+ +L+TT + R
Sbjct: 336 AMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFREGKEKVLVTTNVCAR 395
Query: 109 GIDFRTVRLVVNYDFP 124
GID V +V+N+D P
Sbjct: 396 GIDVEQVSVVINFDLP 411
>pdb|1XTI|A Chain A, Structure Of Wildtype Human Uap56
Length = 391
Score = 55.5 bits (132), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 33/111 (29%), Positives = 54/111 (48%), Gaps = 1/111 (0%)
Query: 49 VLVFVQSKERAQELYNELIYDGINVDVIHSDRTQKQRDNVVRSFRTGRIWILITTELLGR 108
V++FV+S +R L L+ IH Q++R + + F+ + IL+ T L GR
Sbjct: 253 VVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRILVATNLFGR 312
Query: 109 GIDFRTVRLVVNYDFPSSAISYIHXXXXXXXXXXXXKAVTFFTKQ-DAPLL 158
G+D V + NYD P + +Y+H A+TF + + DA +L
Sbjct: 313 GMDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKGLAITFVSDENDAKIL 363
>pdb|1XTJ|A Chain A, Structure Of Human Uap56 In Complex With Adp
Length = 386
Score = 55.1 bits (131), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 33/111 (29%), Positives = 54/111 (48%), Gaps = 1/111 (0%)
Query: 49 VLVFVQSKERAQELYNELIYDGINVDVIHSDRTQKQRDNVVRSFRTGRIWILITTELLGR 108
V++FV+S +R L L+ IH Q++R + + F+ + IL+ T L GR
Sbjct: 253 VVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRILVATNLFGR 312
Query: 109 GIDFRTVRLVVNYDFPSSAISYIHXXXXXXXXXXXXKAVTFFTKQ-DAPLL 158
G+D V + NYD P + +Y+H A+TF + + DA +L
Sbjct: 313 GMDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKGLAITFVSDENDAKIL 363
>pdb|1XTK|A Chain A, Structure Of Decd To Dead Mutation Of Human Uap56
Length = 390
Score = 55.1 bits (131), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 33/111 (29%), Positives = 54/111 (48%), Gaps = 1/111 (0%)
Query: 49 VLVFVQSKERAQELYNELIYDGINVDVIHSDRTQKQRDNVVRSFRTGRIWILITTELLGR 108
V++FV+S +R L L+ IH Q++R + + F+ + IL+ T L GR
Sbjct: 252 VVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRILVATNLFGR 311
Query: 109 GIDFRTVRLVVNYDFPSSAISYIHXXXXXXXXXXXXKAVTFFTKQ-DAPLL 158
G+D V + NYD P + +Y+H A+TF + + DA +L
Sbjct: 312 GMDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKGLAITFVSDENDAKIL 362
>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 = 55.1 bits (131), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 25/75 (33%), Positives = 43/75 (57%)
Query: 50 LVFVQSKERAQELYNELIYDGINVDVIHSDRTQKQRDNVVRSFRTGRIWILITTELLGRG 109
++F +++ A L EL +G V ++ + +QR V+ FR G+ +L+TT + RG
Sbjct: 270 MIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFREGKEKVLVTTNVCARG 329
Query: 110 IDFRTVRLVVNYDFP 124
ID V +V+N+D P
Sbjct: 330 IDVEQVSVVINFDLP 344
>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 = 55.1 bits (131), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 25/76 (32%), Positives = 43/76 (56%)
Query: 49 VLVFVQSKERAQELYNELIYDGINVDVIHSDRTQKQRDNVVRSFRTGRIWILITTELLGR 108
++F +++ A L EL +G V ++ + +QR V+ FR G+ +L+TT + R
Sbjct: 306 AMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFREGKEKVLVTTNVCAR 365
Query: 109 GIDFRTVRLVVNYDFP 124
GID V +V+N+D P
Sbjct: 366 GIDVEQVSVVINFDLP 381
>pdb|3G0H|A Chain A, Human Dead-box Rna Helicase Ddx19, In Complex With An
Atp-analogue And Rna
Length = 424
Score = 55.1 bits (131), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 25/75 (33%), Positives = 43/75 (57%)
Query: 50 LVFVQSKERAQELYNELIYDGINVDVIHSDRTQKQRDNVVRSFRTGRIWILITTELLGRG 109
++F +++ A L EL +G V ++ + +QR V+ FR G+ +L+TT + RG
Sbjct: 286 MIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFREGKEKVLVTTNVCARG 345
Query: 110 IDFRTVRLVVNYDFP 124
ID V +V+N+D P
Sbjct: 346 IDVEQVSVVINFDLP 360
>pdb|1T5I|A Chain A, Crystal Structure Of The C-Terminal Domain Of Uap56
Length = 172
Score = 54.3 bits (129), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 33/111 (29%), Positives = 54/111 (48%), Gaps = 1/111 (0%)
Query: 49 VLVFVQSKERAQELYNELIYDGINVDVIHSDRTQKQRDNVVRSFRTGRIWILITTELLGR 108
V++FV+S +R L L+ IH Q++R + + F+ + IL+ T L GR
Sbjct: 34 VVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRILVATNLFGR 93
Query: 109 GIDFRTVRLVVNYDFPSSAISYIHXXXXXXXXXXXXKAVTFFTKQ-DAPLL 158
G+D V + NYD P + +Y+H A+TF + + DA +L
Sbjct: 94 GMDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKGLAITFVSDENDAKIL 144
>pdb|2Z0M|A Chain A, Crystal Structure Of Hypothetical Atp-Dependent Rna
Helicase From Sulfolobus Tokodaii
Length = 337
Score = 50.8 bits (120), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 38/122 (31%), Positives = 59/122 (48%), Gaps = 8/122 (6%)
Query: 32 SPVQAQDETILLGIEPPVLVFVQSKERAQELYNELIYDGINVDVIHSDRTQKQRDNVVRS 91
S VQA E G V+VFV+++ R +L ++D N + D Q R+ + +
Sbjct: 210 SKVQALRENKDKG----VIVFVRTRNRVAKLVR--LFD--NAIELRGDLPQSVRNRNIDA 261
Query: 92 FRTGRIWILITTELLGRGIDFRTVRLVVNYDFPSSAISYIHXXXXXXXXXXXXKAVTFFT 151
FR G +LITT++ RG+D V V+N+D P +YIH +A+TF
Sbjct: 262 FREGEYDMLITTDVASRGLDIPLVEKVINFDAPQDLRTYIHRIGRTGRMGRKGEAITFIL 321
Query: 152 KQ 153
+
Sbjct: 322 NE 323
>pdb|3SQX|A Chain A, Structure Of Mss116p (Nte And C-Tail Double Deletion)
Bound To Ssrna And Amp-Pnp
Length = 512
Score = 48.9 bits (115), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 25/83 (30%), Positives = 39/83 (46%)
Query: 77 HSDRTQKQRDNVVRSFRTGRIWILITTELLGRGIDFRTVRLVVNYDFPSSAISYIHXXXX 136
H TQ +R ++V+ F+ IL+ T++ RG+DF V V+ PS +YIH
Sbjct: 322 HGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGR 381
Query: 137 XXXXXXXXKAVTFFTKQDAPLLR 159
+V F K + P +R
Sbjct: 382 TARSGKEGSSVLFICKDELPFVR 404
>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 = 48.9 bits (115), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 25/83 (30%), Positives = 39/83 (46%)
Query: 77 HSDRTQKQRDNVVRSFRTGRIWILITTELLGRGIDFRTVRLVVNYDFPSSAISYIHXXXX 136
H TQ +R ++V+ F+ IL+ T++ RG+DF V V+ PS +YIH
Sbjct: 67 HGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGR 126
Query: 137 XXXXXXXXKAVTFFTKQDAPLLR 159
+V F K + P +R
Sbjct: 127 TARSGKEGSSVLFICKDELPFVR 149
>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 = 48.9 bits (115), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 25/83 (30%), Positives = 39/83 (46%)
Query: 77 HSDRTQKQRDNVVRSFRTGRIWILITTELLGRGIDFRTVRLVVNYDFPSSAISYIHXXXX 136
H TQ +R ++V+ F+ IL+ T++ RG+DF V V+ PS +YIH
Sbjct: 67 HGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGR 126
Query: 137 XXXXXXXXKAVTFFTKQDAPLLR 159
+V F K + P +R
Sbjct: 127 TARSGKEGSSVLFICKDELPFVR 149
>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 = 48.9 bits (115), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 25/83 (30%), Positives = 39/83 (46%)
Query: 77 HSDRTQKQRDNVVRSFRTGRIWILITTELLGRGIDFRTVRLVVNYDFPSSAISYIHXXXX 136
H TQ +R ++V+ F+ IL+ T++ RG+DF V V+ PS +YIH
Sbjct: 67 HGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGR 126
Query: 137 XXXXXXXXKAVTFFTKQDAPLLR 159
+V F K + P +R
Sbjct: 127 TARSGKEGSSVLFICKDELPFVR 149
>pdb|3SQW|A Chain A, Structure Of Mss116p (Nte Deletion) Bound To Ssrna And
Amp-Pnp
Length = 579
Score = 48.9 bits (115), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 25/83 (30%), Positives = 39/83 (46%)
Query: 77 HSDRTQKQRDNVVRSFRTGRIWILITTELLGRGIDFRTVRLVVNYDFPSSAISYIHXXXX 136
H TQ +R ++V+ F+ IL+ T++ RG+DF V V+ PS +YIH
Sbjct: 322 HGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGR 381
Query: 137 XXXXXXXXKAVTFFTKQDAPLLR 159
+V F K + P +R
Sbjct: 382 TARSGKEGSSVLFICKDELPFVR 404
>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 = 48.9 bits (115), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 25/83 (30%), Positives = 39/83 (46%)
Query: 77 HSDRTQKQRDNVVRSFRTGRIWILITTELLGRGIDFRTVRLVVNYDFPSSAISYIHXXXX 136
H TQ +R ++V+ F+ IL+ T++ RG+DF V V+ PS +YIH
Sbjct: 373 HGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGR 432
Query: 137 XXXXXXXXKAVTFFTKQDAPLLR 159
+V F K + P +R
Sbjct: 433 TARSGKEGSSVLFICKDELPFVR 455
>pdb|1OYY|A Chain A, Structure Of The Recq Catalytic Core Bound To Atp-Gamma-S
Length = 523
Score = 43.9 bits (102), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 26/110 (23%), Positives = 47/110 (42%)
Query: 50 LVFVQSKERAQELYNELIYDGINVDVIHSDRTQKQRDNVVRSFRTGRIWILITTELLGRG 109
+++ S+ + ++ L GI+ H+ R +V F+ + I++ T G G
Sbjct: 240 IIYCNSRAKVEDTAARLQSKGISAAAYHAGLENNVRADVQEKFQRDDLQIVVATVAFGMG 299
Query: 110 IDFRTVRLVVNYDFPSSAISYIHXXXXXXXXXXXXKAVTFFTKQDAPLLR 159
I+ VR VV++D P + SY +A+ F+ D LR
Sbjct: 300 INKPNVRFVVHFDIPRNIESYYQETGRAGRDGLPAEAMLFYDPADMAWLR 349
>pdb|1OYW|A Chain A, Structure Of The Recq Catalytic Core
Length = 523
Score = 43.5 bits (101), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 26/110 (23%), Positives = 46/110 (41%)
Query: 50 LVFVQSKERAQELYNELIYDGINVDVIHSDRTQKQRDNVVRSFRTGRIWILITTELLGRG 109
+++ S+ + ++ L GI+ H+ R +V F+ + I++ T G G
Sbjct: 240 IIYCNSRAKVEDTAARLQSKGISAAAYHAGLENNVRADVQEKFQRDDLQIVVATVAFGXG 299
Query: 110 IDFRTVRLVVNYDFPSSAISYIHXXXXXXXXXXXXKAVTFFTKQDAPLLR 159
I+ VR VV++D P + SY +A F+ D LR
Sbjct: 300 INKPNVRFVVHFDIPRNIESYYQETGRAGRDGLPAEAXLFYDPADXAWLR 349
>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 = 42.4 bits (98), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 29/92 (31%), Positives = 45/92 (48%), Gaps = 8/92 (8%)
Query: 49 VLVFVQSKERAQELYNELIYDGINVDVI------HSDRTQKQRDN--VVRSFRTGRIWIL 100
++VF +E A+++ NEL+ DGI +DR QR+ ++ F G +L
Sbjct: 364 IIVFTNYRETAKKIVNELVKDGIKAKRFVGQASKENDRGLSQREQKLILDEFARGEFNVL 423
Query: 101 ITTELLGRGIDFRTVRLVVNYDFPSSAISYIH 132
+ T + G+D V LVV Y+ SAI I
Sbjct: 424 VATSVGEEGLDVPEVDLVVFYEPVPSAIRSIQ 455
>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 = 40.0 bits (92), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 24/74 (32%), Positives = 40/74 (54%)
Query: 49 VLVFVQSKERAQELYNELIYDGINVDVIHSDRTQKQRDNVVRSFRTGRIWILITTELLGR 108
VLV +K+ +++L + L GI V+ +HS+ +R ++R R G+ +L+ LL
Sbjct: 454 VLVTTLTKKMSEDLTDYLKEIGIKVNYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLRE 513
Query: 109 GIDFRTVRLVVNYD 122
G+D V LV D
Sbjct: 514 GLDIPEVSLVAILD 527
>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 = 40.0 bits (92), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 24/74 (32%), Positives = 40/74 (54%)
Query: 49 VLVFVQSKERAQELYNELIYDGINVDVIHSDRTQKQRDNVVRSFRTGRIWILITTELLGR 108
VLV +K+ +++L + L GI V+ +HS+ +R ++R R G+ +L+ LL
Sbjct: 448 VLVTTLTKKMSEDLTDYLKEIGIKVNYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLRE 507
Query: 109 GIDFRTVRLVVNYD 122
G+D V LV D
Sbjct: 508 GLDIPEVSLVAILD 521
>pdb|3UWX|B Chain B, Crystal Structure Of Uvra-Uvrb Complex
Length = 683
Score = 39.7 bits (91), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 24/73 (32%), Positives = 38/73 (52%)
Query: 50 LVFVQSKERAQELYNELIYDGINVDVIHSDRTQKQRDNVVRSFRTGRIWILITTELLGRG 109
LV +K+ A++L + L GI V +HS+ +R ++R R G+ +L+ LL G
Sbjct: 474 LVTTLTKKMAEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLREG 533
Query: 110 IDFRTVRLVVNYD 122
+D V LV D
Sbjct: 534 LDIPEVSLVAILD 546
>pdb|1D9X|A Chain A, Crystal Structure Of The Dna Repair Protein Uvrb
Length = 658
Score = 39.7 bits (91), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 24/73 (32%), Positives = 38/73 (52%)
Query: 50 LVFVQSKERAQELYNELIYDGINVDVIHSDRTQKQRDNVVRSFRTGRIWILITTELLGRG 109
LV +K+ A++L + L GI V +HS+ +R ++R R G+ +L+ LL G
Sbjct: 449 LVTTLTKKMAEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLREG 508
Query: 110 IDFRTVRLVVNYD 122
+D V LV D
Sbjct: 509 LDIPEVSLVAILD 521
>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 = 39.7 bits (91), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 24/73 (32%), Positives = 38/73 (52%)
Query: 50 LVFVQSKERAQELYNELIYDGINVDVIHSDRTQKQRDNVVRSFRTGRIWILITTELLGRG 109
LV +K+ A++L + L GI V +HS+ +R ++R R G+ +L+ LL G
Sbjct: 449 LVTTLTKKMAEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLREG 508
Query: 110 IDFRTVRLVVNYD 122
+D V LV D
Sbjct: 509 LDIPEVSLVAILD 521
>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 = 39.7 bits (91), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 24/73 (32%), Positives = 38/73 (52%)
Query: 50 LVFVQSKERAQELYNELIYDGINVDVIHSDRTQKQRDNVVRSFRTGRIWILITTELLGRG 109
LV +K+ A++L + L GI V +HS+ +R ++R R G+ +L+ LL G
Sbjct: 449 LVTTLTKKMAEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLREG 508
Query: 110 IDFRTVRLVVNYD 122
+D V LV D
Sbjct: 509 LDIPEVSLVAILD 521
>pdb|1D9Z|A Chain A, Crystal Structure Of The Dna Repair Protein Uvrb In
Complex With Atp
Length = 657
Score = 39.7 bits (91), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 24/73 (32%), Positives = 38/73 (52%)
Query: 50 LVFVQSKERAQELYNELIYDGINVDVIHSDRTQKQRDNVVRSFRTGRIWILITTELLGRG 109
LV +K+ A++L + L GI V +HS+ +R ++R R G+ +L+ LL G
Sbjct: 448 LVTTLTKKMAEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLREG 507
Query: 110 IDFRTVRLVVNYD 122
+D V LV D
Sbjct: 508 LDIPEVSLVAILD 520
>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 = 38.9 bits (89), Expect = 0.001, Method: Composition-based stats.
Identities = 16/52 (30%), Positives = 30/52 (57%)
Query: 81 TQKQRDNVVRSFRTGRIWILITTELLGRGIDFRTVRLVVNYDFPSSAISYIH 132
TQ ++ V+ FRTG+I +LI T + G+D + +V+ Y ++ I+ +
Sbjct: 449 TQNEQKEVISKFRTGKINLLIATTVAEEGLDIKECNIVIRYGLVTNEIAMVQ 500
>pdb|4I1S|A Chain A, Melanoma Differentiation Associated Protein-5 Helicase
Domain Complex With Inhibitor Non-structural Protein V
Length = 243
Score = 36.2 bits (82), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 15/41 (36%), Positives = 25/41 (60%)
Query: 81 TQKQRDNVVRSFRTGRIWILITTELLGRGIDFRTVRLVVNY 121
TQ ++ V+ FRTG+I +LI T + G+D + +V+ Y
Sbjct: 199 TQNEQREVISKFRTGKINLLIATTVAEEGLDIKECNIVIRY 239
>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 = 35.0 bits (79), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 23/73 (31%), Positives = 39/73 (53%), Gaps = 3/73 (4%)
Query: 63 YNELIYDGINVDVIHS--DRTQKQ-RDNVVRSFRTGRIWILITTELLGRGIDFRTVRLVV 119
+NEL+Y V +I + RT ++ R+ ++ FRTGR ++++++L GID + V
Sbjct: 358 HNELVYRISKVFLIPAITHRTSREEREEILEGFRTGRFRAIVSSQVLDEGIDVPDANVGV 417
Query: 120 NYDFPSSAISYIH 132
SA YI
Sbjct: 418 IMSGSGSAREYIQ 430
>pdb|2FZL|A Chain A, Structure Of C-Terminal Domain Of Archaeoglobus Fulgidus
Xpb
Length = 219
Score = 34.3 bits (77), Expect = 0.032, Method: Compositional matrix adjust.
Identities = 23/73 (31%), Positives = 39/73 (53%), Gaps = 3/73 (4%)
Query: 63 YNELIYDGINVDVIHS--DRTQKQ-RDNVVRSFRTGRIWILITTELLGRGIDFRTVRLVV 119
+NEL+Y V +I + RT ++ R+ ++ FRTGR ++++++L GID + V
Sbjct: 123 HNELVYRISKVFLIPAITHRTSREEREEILEGFRTGRFRAIVSSQVLDEGIDVPDANVGV 182
Query: 120 NYDFPSSAISYIH 132
SA YI
Sbjct: 183 IMSGSGSAREYIQ 195
>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 = 33.9 bits (76), Expect = 0.041, Method: Composition-based stats.
Identities = 18/81 (22%), Positives = 40/81 (49%)
Query: 50 LVFVQSKERAQELYNELIYDGINVDVIHSDRTQKQRDNVVRSFRTGRIWILITTELLGRG 109
+++ S++ ++++ L GI+ H++ + + V R + I +++ T G G
Sbjct: 271 IIYCFSQKDSEQVTVSLQNLGIHAGAYHANLEPEDKTTVHRKWSANEIQVVVATVAFGMG 330
Query: 110 IDFRTVRLVVNYDFPSSAISY 130
ID VR V+++ S +Y
Sbjct: 331 IDKPDVRFVIHHSMSKSMENY 351
>pdb|3P4Y|A Chain A, Helicase Domain Of Reverse Gyrase From Thermotoga Maritima
- P2 Form
Length = 415
Score = 33.5 bits (75), Expect = 0.049, Method: Compositional matrix adjust.
Identities = 26/89 (29%), Positives = 42/89 (47%), Gaps = 10/89 (11%)
Query: 49 VLVFVQSKERAQELYNELIYDGINVDVIHSDRTQKQRDNVVRSFRTGRIWILITTEL--- 105
+L+F Q++E +ELY L NV S+ + D F+ G+I ILI +
Sbjct: 256 ILIFAQTEEEGKELYEYLKRFKFNVGETWSEFEKNFED-----FKVGKINILIGVQAYYG 310
Query: 106 -LGRGIDF-RTVRLVVNYDFPSSAISYIH 132
L RG+D ++ V+ + PS Y +
Sbjct: 311 KLTRGVDLPERIKYVIFWGTPSGPDVYTY 339
>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 = 33.5 bits (75), Expect = 0.053, Method: Compositional matrix adjust.
Identities = 26/89 (29%), Positives = 42/89 (47%), Gaps = 10/89 (11%)
Query: 49 VLVFVQSKERAQELYNELIYDGINVDVIHSDRTQKQRDNVVRSFRTGRIWILITTEL--- 105
+L+F Q++E +ELY L NV S+ + D F+ G+I ILI +
Sbjct: 255 ILIFAQTEEEGKELYEYLKRFKFNVGETWSEFEKNFED-----FKVGKINILIGVQAYYG 309
Query: 106 -LGRGIDF-RTVRLVVNYDFPSSAISYIH 132
L RG+D ++ V+ + PS Y +
Sbjct: 310 KLTRGVDLPERIKYVIFWGTPSGPDVYTY 338
>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 = 33.5 bits (75), Expect = 0.054, Method: Compositional matrix adjust.
Identities = 26/89 (29%), Positives = 42/89 (47%), Gaps = 10/89 (11%)
Query: 49 VLVFVQSKERAQELYNELIYDGINVDVIHSDRTQKQRDNVVRSFRTGRIWILITTEL--- 105
+L+F Q++E +ELY L NV S+ + D F+ G+I ILI +
Sbjct: 254 ILIFAQTEEEGKELYEYLKRFKFNVGETWSEFEKNFED-----FKVGKINILIGVQAYYG 308
Query: 106 -LGRGIDF-RTVRLVVNYDFPSSAISYIH 132
L RG+D ++ V+ + PS Y +
Sbjct: 309 KLTRGVDLPERIKYVIFWGTPSGPDVYTY 337
>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 = 32.7 bits (73), Expect = 0.088, Method: Compositional matrix adjust.
Identities = 26/86 (30%), Positives = 41/86 (47%), Gaps = 10/86 (11%)
Query: 49 VLVFVQSKERAQELYNELIYDGINVDVIHSDRTQKQRDNVVRSFRTGRIWILITTEL--- 105
+L+F Q++E +ELY L NV S+ + D F+ G+I ILI +
Sbjct: 312 ILIFAQTEEEGKELYEYLKRFKFNVGETWSEFEKNFED-----FKVGKINILIGVQAYYG 366
Query: 106 -LGRGIDF-RTVRLVVNYDFPSSAIS 129
L RG+D ++ V+ + PS S
Sbjct: 367 KLTRGVDLPERIKYVIFWGTPSMRFS 392
>pdb|1GM5|A Chain A, Structure Of Recg Bound To Three-Way Dna Junction
Length = 780
Score = 32.3 bits (72), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 32/56 (57%), Gaps = 3/56 (5%)
Query: 59 AQELYNEL---IYDGINVDVIHSDRTQKQRDNVVRSFRTGRIWILITTELLGRGID 111
A E+Y L ++ + ++H +Q+++D V+ F GR IL++T ++ GID
Sbjct: 599 AVEMYEYLSKEVFPEFKLGLMHGRLSQEEKDRVMLEFAEGRYDILVSTTVIEVGID 654
>pdb|3FOQ|A Chain A, Crystal Structure Of N-Acetylglucosamine-1-Phosphate
Uridyltransferase (Glmu) From Mycobacterium Tuberculosis
In A Cubic Space Group
Length = 503
Score = 29.3 bits (64), Expect = 0.87, Method: Compositional matrix adjust.
Identities = 25/99 (25%), Positives = 45/99 (45%), Gaps = 6/99 (6%)
Query: 31 GSPVQAQDETILLGIEPPVLVFVQSKERAQELYNELIYDGINVDVIHSDRTQKQRDNVVR 90
G+ V+ ++ TI G + P L +V + + Y+ + G + ++ D T K+R V
Sbjct: 364 GAFVEVKNSTIGTGTKVPHLTYVGDADIGE--YSNI---GASSVFVNYDGTSKRRTTVGS 418
Query: 91 SFRTGRIWILITTELLGRGIDFRTVRLVVNYDFPSSAIS 129
RTG + + +G G + VV D P A++
Sbjct: 419 HVRTGSDTMFVAPVTIGDGA-YTGAGTVVREDVPPGALA 456
>pdb|3SPT|A Chain A, Crystal Structure Of Glmu From Mycobacterium Tuberculosis
In Complex With Acetyl Coenzyme A And
Uridine-Diphosphate-N-Acetylglucosamine
pdb|3ST8|A Chain A, Crystal Structure Of Glmu From Mycobacterium Tuberculosis
In Complex With Coenzyme A, Glucosamine 1-Phosphate And
Uridine-Diphosphate-N- Acetylglucosamine
Length = 501
Score = 29.3 bits (64), Expect = 0.90, Method: Compositional matrix adjust.
Identities = 25/99 (25%), Positives = 45/99 (45%), Gaps = 6/99 (6%)
Query: 31 GSPVQAQDETILLGIEPPVLVFVQSKERAQELYNELIYDGINVDVIHSDRTQKQRDNVVR 90
G+ V+ ++ TI G + P L +V + + Y+ + G + ++ D T K+R V
Sbjct: 362 GAFVEVKNSTIGTGTKVPHLTYVGDADIGE--YSNI---GASSVFVNYDGTSKRRTTVGS 416
Query: 91 SFRTGRIWILITTELLGRGIDFRTVRLVVNYDFPSSAIS 129
RTG + + +G G + VV D P A++
Sbjct: 417 HVRTGSDTMFVAPVTIGDGA-YTGAGTVVREDVPPGALA 454
>pdb|3D8V|A Chain A, Crystal Structure Of Glmu From Mycobacterium Tuberculosis
In Complex With Uridine-Diphosphate-N-Acetylglucosamine
pdb|3D98|A Chain A, Crystal Structure Of Glmu From Mycobacterium Tuberculosis,
Ligand-Free Form
pdb|3DJ4|A Chain A, Crystal Structure Of Glmu From Mycobacterium Tuberculosis
In Complex With Uridine-Diphosphate-N-Acetylglucosamine.
pdb|3DK5|A Chain A, Crystal Structure Of Apo-Glmu From Mycobacterium
Tuberculosis
Length = 495
Score = 29.3 bits (64), Expect = 0.90, Method: Compositional matrix adjust.
Identities = 25/99 (25%), Positives = 45/99 (45%), Gaps = 6/99 (6%)
Query: 31 GSPVQAQDETILLGIEPPVLVFVQSKERAQELYNELIYDGINVDVIHSDRTQKQRDNVVR 90
G+ V+ ++ TI G + P L +V + + Y+ + G + ++ D T K+R V
Sbjct: 356 GAFVEVKNSTIGTGTKVPHLTYVGDADIGE--YSNI---GASSVFVNYDGTSKRRTTVGS 410
Query: 91 SFRTGRIWILITTELLGRGIDFRTVRLVVNYDFPSSAIS 129
RTG + + +G G + VV D P A++
Sbjct: 411 HVRTGSDTMFVAPVTIGDGA-YTGAGTVVREDVPPGALA 448
>pdb|2HIH|A Chain A, Crystal Structure Of Staphylococcus Hyicus Lipase
pdb|2HIH|B Chain B, Crystal Structure Of Staphylococcus Hyicus Lipase
Length = 431
Score = 28.5 bits (62), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 19/81 (23%), Positives = 36/81 (44%), Gaps = 10/81 (12%)
Query: 46 EPPVLVFVQSKERAQELYNELIYDGINVDVIHSDRTQKQR-----DNVVRSFRTGRIWIL 100
E V + ERA ELY L ++ HS++ +R + V++ ++ G
Sbjct: 96 EASVSALASNHERAVELYYYLKGGRVDYGAAHSEKYGHERYGKTYEGVLKDWKPGH---- 151
Query: 101 ITTELLGRGIDFRTVRLVVNY 121
+G + +T+RL+ +Y
Sbjct: 152 -PVHFIGHSMGGQTIRLLEHY 171
>pdb|4I9B|A Chain A, Structure Of Aminoaldehyde Dehydrogenase 1 From Solanum
Lycopersium (slamadh1) With A Thiohemiacetal
Intermediate
pdb|4I9B|B Chain B, Structure Of Aminoaldehyde Dehydrogenase 1 From Solanum
Lycopersium (slamadh1) With A Thiohemiacetal
Intermediate
Length = 517
Score = 28.1 bits (61), Expect = 1.9, Method: Composition-based stats.
Identities = 19/54 (35%), Positives = 31/54 (57%), Gaps = 5/54 (9%)
Query: 48 PVLVF--VQSKERAQELYNELIYDGINVDVIHSDRTQKQRDNVVRSFRTGRIWI 99
PVL +++E+A EL N+ Y G+ V+ D + +R ++F+TG IWI
Sbjct: 411 PVLCVKTFKTEEQAIELANDTKY-GLGAAVMSKDVKRCER--FTKAFQTGIIWI 461
>pdb|4I8Q|A Chain A, Structure Of The Aminoaldehyde Dehydrogenase 1 E260a
Mutant From Solanum Lycopersicum (slamadh1-e260a)
Length = 514
Score = 28.1 bits (61), Expect = 1.9, Method: Composition-based stats.
Identities = 19/54 (35%), Positives = 31/54 (57%), Gaps = 5/54 (9%)
Query: 48 PVLVF--VQSKERAQELYNELIYDGINVDVIHSDRTQKQRDNVVRSFRTGRIWI 99
PVL +++E+A EL N+ Y G+ V+ D + +R ++F+TG IWI
Sbjct: 411 PVLCVKTFKTEEQAIELANDTKY-GLGAAVMSKDVKRCER--FTKAFQTGIIWI 461
>pdb|4AS2|A Chain A, Pseudomonas Aeruginosa Phosphorylcholine Phosphatase.
Monoclinic Form
pdb|4AS2|B Chain B, Pseudomonas Aeruginosa Phosphorylcholine Phosphatase.
Monoclinic Form
pdb|4AS2|C Chain C, Pseudomonas Aeruginosa Phosphorylcholine Phosphatase.
Monoclinic Form
pdb|4AS2|D Chain D, Pseudomonas Aeruginosa Phosphorylcholine Phosphatase.
Monoclinic Form
pdb|4AS3|A Chain A, Pseudomonas Aeruginosa Phosphorylcholine Phosphatase.
Orthorhombic Form
pdb|4AS3|B Chain B, Pseudomonas Aeruginosa Phosphorylcholine Phosphatase.
Orthorhombic Form
pdb|4AS3|C Chain C, Pseudomonas Aeruginosa Phosphorylcholine Phosphatase.
Orthorhombic Form
pdb|4AS3|D Chain D, Pseudomonas Aeruginosa Phosphorylcholine Phosphatase.
Orthorhombic Form
Length = 327
Score = 28.1 bits (61), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 19/52 (36%), Positives = 28/52 (53%), Gaps = 9/52 (17%)
Query: 31 GSPVQAQ----DETILLGIEPPVLVFVQSKERAQELYNELIYDGINVDVIHS 78
G P+ A D+ L +EPP + Q +ELYN+L+ +GI V VI +
Sbjct: 121 GKPIPATYYDGDKLATLDVEPPRVFSGQ-----RELYNKLMENGIEVYVISA 167
>pdb|3TBK|A Chain A, Mouse Rig-I Atpase Domain
Length = 555
Score = 28.1 bits (61), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 16/46 (34%), Positives = 24/46 (52%), Gaps = 1/46 (2%)
Query: 88 VVRSFR-TGRIWILITTELLGRGIDFRTVRLVVNYDFPSSAISYIH 132
V+ +FR +G ILI T + GID LV+ Y++ + I I
Sbjct: 443 VLEAFRASGDNNILIATSVADEGIDIAECNLVILYEYVGNVIKXIQ 488
>pdb|1PPO|A Chain A, Determination Of The Structure Of Papaya Protease Omega
Length = 216
Score = 26.6 bits (57), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 19/47 (40%), Positives = 26/47 (55%), Gaps = 3/47 (6%)
Query: 26 ETEGAGSPVQAQDETILLGI--EPPVLVFVQSKERAQELYNELIYDG 70
+T G G VQ +E LL + PV V V+SK R +LY I++G
Sbjct: 106 KTSGVGR-VQPNNEGNLLNAIAKQPVSVVVESKGRPFQLYKGGIFEG 151
>pdb|1MEG|A Chain A, Crystal Structure Of A Caricain D158e Mutant In Complex
With E-64
Length = 216
Score = 26.6 bits (57), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 19/47 (40%), Positives = 26/47 (55%), Gaps = 3/47 (6%)
Query: 26 ETEGAGSPVQAQDETILLGI--EPPVLVFVQSKERAQELYNELIYDG 70
+T G G VQ +E LL + PV V V+SK R +LY I++G
Sbjct: 106 KTSGVGR-VQPNNEGNLLNAIAKQPVSVVVESKGRPFQLYKGGIFEG 151
>pdb|1PCI|A Chain A, Procaricain
pdb|1PCI|B Chain B, Procaricain
pdb|1PCI|C Chain C, Procaricain
Length = 322
Score = 26.2 bits (56), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 19/47 (40%), Positives = 26/47 (55%), Gaps = 3/47 (6%)
Query: 26 ETEGAGSPVQAQDETILLGI--EPPVLVFVQSKERAQELYNELIYDG 70
+T G G VQ +E LL + PV V V+SK R +LY I++G
Sbjct: 212 KTSGVGR-VQPNNEGNLLNAIAKQPVSVVVESKGRPFQLYKGGIFEG 257
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
0.322 0.137 0.393
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,007,724
Number of Sequences: 62578
Number of extensions: 143562
Number of successful extensions: 429
Number of sequences better than 100.0: 76
Number of HSP's better than 100.0 without gapping: 61
Number of HSP's successfully gapped in prelim test: 15
Number of HSP's that attempted gapping in prelim test: 361
Number of HSP's gapped (non-prelim): 82
length of query: 159
length of database: 14,973,337
effective HSP length: 91
effective length of query: 68
effective length of database: 9,278,739
effective search space: 630954252
effective search space used: 630954252
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 47 (22.7 bits)