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= 029910
(185 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 60.1 bits (144), Expect = 6e-10, Method: Compositional matrix adjust.
Identities = 37/159 (23%), Positives = 75/159 (47%), Gaps = 30/159 (18%)
Query: 29 IVCCSSRDELDAVCSAVSNLADISFSSLHSDLAETERTLILEEFRHTAMKWNQKVTEQSG 88
++ C+++ ++D + + A+ + SS+H D+ + ER I++EFR A
Sbjct: 259 VIFCNTKRKVDWLTEKMRE-ANFTVSSMHGDMPQKERESIMKEFRSGA------------ 305
Query: 89 DESETGKDEHKSHMIVVTDACLPLLSSGESAISARVLINYELPTKKETYIRRMTTC--LA 146
S +++ TD + + G ++INY+LP +E YI R+
Sbjct: 306 -----------SRVLISTD----VWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYG 350
Query: 147 ADGSVINIVVGGEVVTLRSMEESLGLIVAEVPINISEIL 185
G IN V ++ LR +E+ + E+P+N+++++
Sbjct: 351 RKGVAINFVKNDDIRILRDIEQYYSTQIDEMPMNVADLI 389
>pdb|2J0U|B Chain B, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 60.1 bits (144), Expect = 7e-10, Method: Compositional matrix adjust.
Identities = 36/159 (22%), Positives = 76/159 (47%), Gaps = 30/159 (18%)
Query: 29 IVCCSSRDELDAVCSAVSNLADISFSSLHSDLAETERTLILEEFRHTAMKWNQKVTEQSG 88
++ C+++ ++D + + A+ + SS+H D+ + ER I++EFR A
Sbjct: 244 VIFCNTKRKVDWLTEKMRE-ANFTVSSMHGDMPQKERESIMKEFRSGA------------ 290
Query: 89 DESETGKDEHKSHMIVVTDACLPLLSSGESAISARVLINYELPTKKETYIRRM--TTCLA 146
S +++ TD + + G ++INY+LP +E YI R+ +
Sbjct: 291 -----------SRVLISTD----VWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYG 335
Query: 147 ADGSVINIVVGGEVVTLRSMEESLGLIVAEVPINISEIL 185
G +N V ++ LR +E+ + E+P+N+++++
Sbjct: 336 RKGVAVNFVKNDDIRVLRDIEQYYSTQIDEMPMNVADLI 374
>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 = 60.1 bits (144), Expect = 7e-10, Method: Compositional matrix adjust.
Identities = 37/159 (23%), Positives = 76/159 (47%), Gaps = 30/159 (18%)
Query: 29 IVCCSSRDELDAVCSAVSNLADISFSSLHSDLAETERTLILEEFRHTAMKWNQKVTEQSG 88
++ C+++ ++D + + A+ + SS+H D+ + ER I++EFR A
Sbjct: 280 VIFCNTKRKVDWLTEKMRE-ANFTVSSMHGDMPQKERESIMKEFRSGA------------ 326
Query: 89 DESETGKDEHKSHMIVVTDACLPLLSSGESAISARVLINYELPTKKETYIRRM--TTCLA 146
S +++ TD + + G ++INY+LP +E YI R+ +
Sbjct: 327 -----------SRVLISTD----VWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYG 371
Query: 147 ADGSVINIVVGGEVVTLRSMEESLGLIVAEVPINISEIL 185
G IN V ++ LR +E+ + E+P+N+++++
Sbjct: 372 RKGVAINFVKNDDIRILRDIEQYYSTQIDEMPMNVADLI 410
>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 = 60.1 bits (144), Expect = 7e-10, Method: Compositional matrix adjust.
Identities = 37/159 (23%), Positives = 76/159 (47%), Gaps = 30/159 (18%)
Query: 29 IVCCSSRDELDAVCSAVSNLADISFSSLHSDLAETERTLILEEFRHTAMKWNQKVTEQSG 88
++ C+++ ++D + + A+ + SS+H D+ + ER I++EFR A
Sbjct: 281 VIFCNTKRKVDWLTEKMRE-ANFTVSSMHGDMPQKERESIMKEFRSGA------------ 327
Query: 89 DESETGKDEHKSHMIVVTDACLPLLSSGESAISARVLINYELPTKKETYIRRM--TTCLA 146
S +++ TD + + G ++INY+LP +E YI R+ +
Sbjct: 328 -----------SRVLISTD----VWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYG 372
Query: 147 ADGSVINIVVGGEVVTLRSMEESLGLIVAEVPINISEIL 185
G IN V ++ LR +E+ + E+P+N+++++
Sbjct: 373 RKGVAINFVKNDDIRILRDIEQYYSTQIDEMPMNVADLI 411
>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 = 60.1 bits (144), Expect = 7e-10, Method: Compositional matrix adjust.
Identities = 37/159 (23%), Positives = 76/159 (47%), Gaps = 30/159 (18%)
Query: 29 IVCCSSRDELDAVCSAVSNLADISFSSLHSDLAETERTLILEEFRHTAMKWNQKVTEQSG 88
++ C+++ ++D + + A+ + SS+H D+ + ER I++EFR A
Sbjct: 281 VIFCNTKRKVDWLTEKMRE-ANFTVSSMHGDMPQKERESIMKEFRSGA------------ 327
Query: 89 DESETGKDEHKSHMIVVTDACLPLLSSGESAISARVLINYELPTKKETYIRRM--TTCLA 146
S +++ TD + + G ++INY+LP +E YI R+ +
Sbjct: 328 -----------SRVLISTD----VWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYG 372
Query: 147 ADGSVINIVVGGEVVTLRSMEESLGLIVAEVPINISEIL 185
G IN V ++ LR +E+ + E+P+N+++++
Sbjct: 373 RKGVAINFVKNDDIRILRDIEQYYSTQIDEMPMNVADLI 411
>pdb|2J0U|A Chain A, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 60.1 bits (144), Expect = 7e-10, Method: Compositional matrix adjust.
Identities = 36/159 (22%), Positives = 76/159 (47%), Gaps = 30/159 (18%)
Query: 29 IVCCSSRDELDAVCSAVSNLADISFSSLHSDLAETERTLILEEFRHTAMKWNQKVTEQSG 88
++ C+++ ++D + + A+ + SS+H D+ + ER I++EFR A
Sbjct: 244 VIFCNTKRKVDWLTEKMRE-ANFTVSSMHGDMPQKERESIMKEFRSGA------------ 290
Query: 89 DESETGKDEHKSHMIVVTDACLPLLSSGESAISARVLINYELPTKKETYIRRM--TTCLA 146
S +++ TD + + G ++INY+LP +E YI R+ +
Sbjct: 291 -----------SRVLISTD----VWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYG 335
Query: 147 ADGSVINIVVGGEVVTLRSMEESLGLIVAEVPINISEIL 185
G +N V ++ LR +E+ + E+P+N+++++
Sbjct: 336 RKGVAVNFVKNDDIRVLRDIEQYYSTQIDEMPMNVADLI 374
>pdb|3EIQ|A Chain A, Crystal Structure Of Pdcd4-eif4a
pdb|3EIQ|D Chain D, Crystal Structure Of Pdcd4-eif4a
Length = 414
Score = 53.5 bits (127), Expect = 7e-08, Method: Compositional matrix adjust.
Identities = 40/159 (25%), Positives = 76/159 (47%), Gaps = 30/159 (18%)
Query: 29 IVCCSSRDELDAVCSAVSNLADISFSSLHSDLAETERTLILEEFRHTAMKWNQKVTEQSG 88
++ ++R ++D + + + D + S++H D+ + ER +I+ EFR SG
Sbjct: 284 VIFINTRRKVDWLTEKM-HARDFTVSAMHGDMDQKERDVIMREFR-------------SG 329
Query: 89 DESETGKDEHKSHMIVVTDACLPLLSSGESAISARVLINYELPTKKETYIRRMTTCLAAD 148
S +++ TD LL+ G ++INY+LPT +E YI R+
Sbjct: 330 ----------SSRVLITTD----LLARGIDVQQVSLVINYDLPTNRENYIHRIGRGGRFG 375
Query: 149 GS--VINIVVGGEVVTLRSMEESLGLIVAEVPINISEIL 185
IN+V + TLR +E + E+P+N+++++
Sbjct: 376 RKGVAINMVTEEDKRTLRDIETFYNTSIEEMPLNVADLI 414
>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 = 53.5 bits (127), Expect = 7e-08, Method: Compositional matrix adjust.
Identities = 40/159 (25%), Positives = 76/159 (47%), Gaps = 30/159 (18%)
Query: 29 IVCCSSRDELDAVCSAVSNLADISFSSLHSDLAETERTLILEEFRHTAMKWNQKVTEQSG 88
++ ++R ++D + + + D + S++H D+ + ER +I+ EFR SG
Sbjct: 258 VIFINTRRKVDWLTEKM-HARDFTVSAMHGDMDQKERDVIMREFR-------------SG 303
Query: 89 DESETGKDEHKSHMIVVTDACLPLLSSGESAISARVLINYELPTKKETYIRRMTTCLAAD 148
S +++ TD LL+ G ++INY+LPT +E YI R+
Sbjct: 304 ----------SSRVLITTD----LLARGIDVQQVSLVINYDLPTNRENYIHRIGRGGRFG 349
Query: 149 GS--VINIVVGGEVVTLRSMEESLGLIVAEVPINISEIL 185
IN+V + TLR +E + E+P+N+++++
Sbjct: 350 RKGVAINMVTEEDKRTLRDIETFYNTSIEEMPLNVADLI 388
>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 = 52.4 bits (124), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 41/159 (25%), Positives = 75/159 (47%), Gaps = 30/159 (18%)
Query: 29 IVCCSSRDELDAVCSAVSNLADISFSSLHSDLAETERTLILEEFRHTAMKWNQKVTEQSG 88
++ C++R +++ + + + N + S+++SDL + ER I++EFR SG
Sbjct: 264 VIFCNTRRKVEELTTKLRN-DKFTVSAIYSDLPQQERDTIMKEFR-------------SG 309
Query: 89 DESETGKDEHKSHMIVVTDACLPLLSSGESAISARVLINYELPTKKETYIRRMTTCLAAD 148
S +++ TD LL+ G ++INY+LP KE YI R+
Sbjct: 310 ----------SSRILISTD----LLARGIDVQQVSLVINYDLPANKENYIHRIGRGGRFG 355
Query: 149 GS--VINIVVGGEVVTLRSMEESLGLIVAEVPINISEIL 185
IN V +V +R +E+ + E+P +I+ +L
Sbjct: 356 RKGVAINFVTNEDVGAMRELEKFYSTQIEELPSDIATLL 394
>pdb|1FUK|A Chain A, Crystal Structure Of The Carboxy Terminal Domain Of Yeast
Eif4a
Length = 165
Score = 51.6 bits (122), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 41/159 (25%), Positives = 75/159 (47%), Gaps = 30/159 (18%)
Query: 29 IVCCSSRDELDAVCSAVSNLADISFSSLHSDLAETERTLILEEFRHTAMKWNQKVTEQSG 88
++ C++R +++ + + + N + S+++SDL + ER I++EFR SG
Sbjct: 34 VIFCNTRRKVEELTTKLRN-DKFTVSAIYSDLPQQERDTIMKEFR-------------SG 79
Query: 89 DESETGKDEHKSHMIVVTDACLPLLSSGESAISARVLINYELPTKKETYIRRMTTCLAAD 148
S +++ TD LL+ G ++INY+LP KE YI R+
Sbjct: 80 ----------SSRILISTD----LLARGIDVQQVSLVINYDLPANKENYIHRIGRGGRFG 125
Query: 149 GS--VINIVVGGEVVTLRSMEESLGLIVAEVPINISEIL 185
IN V +V +R +E+ + E+P +I+ +L
Sbjct: 126 RKGVAINFVTNEDVGAMRELEKFYSTQIEELPSDIATLL 164
>pdb|1FUU|A Chain A, Yeast Initiation Factor 4a
pdb|1FUU|B Chain B, Yeast Initiation Factor 4a
Length = 394
Score = 50.1 bits (118), Expect = 7e-07, Method: Compositional matrix adjust.
Identities = 41/159 (25%), Positives = 73/159 (45%), Gaps = 30/159 (18%)
Query: 29 IVCCSSRDELDAVCSAVSNLADISFSSLHSDLAETERTLILEEFRHTAMKWNQKVTEQSG 88
++ C++R +++ + + + N + S+++SDL + ER I +EFR SG
Sbjct: 263 VIFCNTRRKVEELTTKLRN-DKFTVSAIYSDLPQQERDTIXKEFR-------------SG 308
Query: 89 DESETGKDEHKSHMIVVTDACLPLLSSGESAISARVLINYELPTKKETYIRRMTTCLAAD 148
S +++ TD LL+ G ++INY+LP KE YI R+
Sbjct: 309 ----------SSRILISTD----LLARGIDVQQVSLVINYDLPANKENYIHRIGRGGRFG 354
Query: 149 GS--VINIVVGGEVVTLRSMEESLGLIVAEVPINISEIL 185
IN V +V R +E+ + E+P +I+ +L
Sbjct: 355 RKGVAINFVTNEDVGAXRELEKFYSTQIEELPSDIATLL 393
>pdb|1S2M|A Chain A, Crystal Structure Of The Dead Box Protein Dhh1p
Length = 400
Score = 49.7 bits (117), Expect = 9e-07, Method: Compositional matrix adjust.
Identities = 38/159 (23%), Positives = 67/159 (42%), Gaps = 30/159 (18%)
Query: 29 IVCCSSRDELDAVCSAVSNLADISFSSLHSDLAETERTLILEEFRHTAMKWNQKVTEQSG 88
I+ C+S + ++ + +++L + S H+ + + ER + EFR
Sbjct: 262 IIFCNSTNRVELLAKKITDLGYSCYYS-HARMKQQERNKVFHEFRQ-------------- 306
Query: 89 DESETGKDEHKSHMIVVTDACLPLLSSGESAISARVLINYELPTKKETYIRRMTTC--LA 146
GK V T C LL+ G + V+IN++ P ETY+ R+
Sbjct: 307 -----GK--------VRTLVCSDLLTRGIDIQAVNVVINFDFPKTAETYLHRIGRSGRFG 353
Query: 147 ADGSVINIVVGGEVVTLRSMEESLGLIVAEVPINISEIL 185
G IN++ + L +E+ LG +A +P I + L
Sbjct: 354 HLGLAINLINWNDRFNLYKIEQELGTEIAAIPATIDKSL 392
>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 = 47.8 bits (112), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 36/159 (22%), Positives = 66/159 (41%), Gaps = 30/159 (18%)
Query: 29 IVCCSSRDELDAVCSAVSNLADISFSSLHSDLAETERTLILEEFRHTAMKWNQKVTEQSG 88
I+ C+S ++ + +S L F +H+ + + R + +FR+ +
Sbjct: 48 IIFCNSSQRVELLAKKISQLGYSCFY-IHAKMRQEHRNRVFHDFRNGLCR---------- 96
Query: 89 DESETGKDEHKSHMIVVTDACLPLLSSGESAISARVLINYELPTKKETYIRRMTTC--LA 146
+V TD L + G + V+IN++ P ETY+ R+
Sbjct: 97 -------------NLVCTD----LFTRGIDIQAVNVVINFDFPKLAETYLHRIGRSGRFG 139
Query: 147 ADGSVINIVVGGEVVTLRSMEESLGLIVAEVPINISEIL 185
G IN++ + L+S+EE LG + +P NI + L
Sbjct: 140 HLGLAINLITYDDRFNLKSIEEQLGTEIKPIPSNIDKSL 178
>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 = 38.5 bits (88), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 33/146 (22%), Positives = 58/146 (39%), Gaps = 35/146 (23%)
Query: 28 MIVCCSSRDELDAVCSAVSNLADISFSS--LHSDLAETERTLILEEFRHTAMKWNQKVTE 85
++ C + RD S L DI F + +H DL++++R ++ F+ ++
Sbjct: 242 LVFCKTKRD----TKELASXLRDIGFKAGAIHGDLSQSQREKVIRLFKQKKIR------- 290
Query: 86 QSGDESETGKDEHKSHMIVVTDACLPLLSSGESAISARVLINYELPTKKETYIRRM--TT 143
+++ TD + S G +INY LP E+Y R+ T
Sbjct: 291 ----------------ILIATD----VXSRGIDVNDLNCVINYHLPQNPESYXHRIGRTG 330
Query: 144 CLAADGSVINIVVGGEVVTLRSMEES 169
G I+I+ E LR +E +
Sbjct: 331 RAGKKGKAISIINRREYKKLRYIERA 356
>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 = 37.0 bits (84), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 34/172 (19%), Positives = 69/172 (40%), Gaps = 31/172 (18%)
Query: 8 QETLVELLHLVVAGRRPGLPMIVCCSSRDELDAVCSAVSNLADISFSSLHSDLAETERTL 67
+E LL V+ P I+ C +++ ++ + + +L +H + + +R
Sbjct: 19 EENKFSLLKDVLMTENPD-SCIIFCRTKEHVNQLTDELDDLG-YPCDKIHGGMIQEDRFD 76
Query: 68 ILEEFRHTAMKWNQKVTEQSGDESETGKDEHKSHMIVVTDACLPLLSSGESAISARVLIN 127
++ EF+ ++ +V TD + G + ++IN
Sbjct: 77 VMNEFKRGEYRY-----------------------LVATDVA----ARGIDIENISLVIN 109
Query: 128 YELPTKKETYIRR--MTTCLAADGSVINIVVGGEVVTLRSMEESLGLIVAEV 177
Y+LP +KE+Y+ R T G I+ V E L +EE +G + ++
Sbjct: 110 YDLPLEKESYVHRTGRTGRAGNKGKAISFVTAFEKRFLADIEEYIGFEIQKI 161
>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 = 31.6 bits (70), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 28/125 (22%), Positives = 51/125 (40%), Gaps = 30/125 (24%)
Query: 27 PMIVCCSSRDELDAVCSAVSNLADISFSSLHSDLAETERTLILEEFRHTAMKWNQKVTEQ 86
P+++ + ++DA+ + L + ++H + ERT +E FR
Sbjct: 56 PVLIFAEKKADVDAIHEYLL-LKGVEAVAIHGGKDQEERTKAIEAFR------------- 101
Query: 87 SGDESETGKDEHKSHMIVVTDACLPLLSSGESAISARVLINYELPTKKETYIRRM--TTC 144
E K ++V TD S G + + +INY++P + E Y+ R+ T C
Sbjct: 102 ----------EGKKDVLVATDVA----SKGLDFPAIQHVINYDMPEEIENYVHRIGRTGC 147
Query: 145 LAADG 149
G
Sbjct: 148 SGNTG 152
>pdb|3PEY|A Chain A, S. Cerevisiae Dbp5 Bound To Rna And Adp Bef3
Length = 395
Score = 29.3 bits (64), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 27/110 (24%), Positives = 45/110 (40%), Gaps = 35/110 (31%)
Query: 54 SSLHSDLAETERTLILEEFRHTAMKWNQKVTEQSGDESETGKDEHKSHMIVVTDACLPLL 113
S LH DL ER ++++FR E +S +++ T+ +L
Sbjct: 271 SILHGDLQTQERDRLIDDFR-----------------------EGRSKVLITTN----VL 303
Query: 114 SSGESAISARVLINYELPT------KKETYIRRM--TTCLAADGSVINIV 155
+ G + +++NY+LPT TYI R+ T G I+ V
Sbjct: 304 ARGIDIPTVSMVVNYDLPTLANGQADPATYIHRIGRTGRFGRKGVAISFV 353
>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 = 29.3 bits (64), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 27/110 (24%), Positives = 45/110 (40%), Gaps = 35/110 (31%)
Query: 54 SSLHSDLAETERTLILEEFRHTAMKWNQKVTEQSGDESETGKDEHKSHMIVVTDACLPLL 113
S LH DL ER ++++FR E +S +++ T+ +L
Sbjct: 271 SILHGDLQTQERDRLIDDFR-----------------------EGRSKVLITTN----VL 303
Query: 114 SSGESAISARVLINYELPT------KKETYIRRM--TTCLAADGSVINIV 155
+ G + +++NY+LPT TYI R+ T G I+ V
Sbjct: 304 ARGIDIPTVSMVVNYDLPTLANGQADPATYIHRIGRTGRFGRKGVAISFV 353
>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 = 28.9 bits (63), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 23/113 (20%), Positives = 49/113 (43%), Gaps = 28/113 (24%)
Query: 29 IVCCSSRDELDAVCSAVSNLADISFSSLHSDLAETERTLILEEFRHTAMKWNQKVTEQSG 88
IV ++ D + S +S + +S+H D +++R L +F++ +MK
Sbjct: 304 IVFVETKRGADFLASFLSE-KEFPTTSIHGDRLQSQREQALRDFKNGSMK---------- 352
Query: 89 DESETGKDEHKSHMIVVTDACLPLLSSGESAISARVLINYELPTKKETYIRRM 141
+++ T S G + + +INY++P+K + Y+ R+
Sbjct: 353 -------------VLIATSVA----SRGLDIKNIKHVINYDMPSKIDDYVHRI 388
>pdb|2KBF|A Chain A, Solution Structure Of Carboxyl-Terminal Domain Of Dbp5p
Length = 187
Score = 28.5 bits (62), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 23/94 (24%), Positives = 40/94 (42%), Gaps = 33/94 (35%)
Query: 54 SSLHSDLAETERTLILEEFRHTAMKWNQKVTEQSGDESETGKDEHKSHMIVVTDACLPLL 113
S LH DL ER ++++FR E +S +++ T+ +L
Sbjct: 63 SILHGDLQTQERDRLIDDFR-----------------------EGRSKVLITTN----VL 95
Query: 114 SSGESAISARVLINYELPT------KKETYIRRM 141
+ G + +++NY+LPT TYI R+
Sbjct: 96 ARGIDIPTVSMVVNYDLPTLANGQADPATYIHRI 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 = 28.1 bits (61), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 23/94 (24%), Positives = 39/94 (41%), Gaps = 33/94 (35%)
Query: 54 SSLHSDLAETERTLILEEFRHTAMKWNQKVTEQSGDESETGKDEHKSHMIVVTDACLPLL 113
S LH DL ER ++++FR E +S +++ T+ +L
Sbjct: 64 SILHGDLQTQERDRLIDDFR-----------------------EGRSKVLITTN----VL 96
Query: 114 SSGESAISARVLINYELPT------KKETYIRRM 141
+ G + ++NY+LPT TYI R+
Sbjct: 97 ARGIDIPTVSXVVNYDLPTLANGQADPATYIHRI 130
>pdb|3GFP|A Chain A, Structure Of The C-Terminal Domain Of The Dead-Box Protein
Dbp5
Length = 189
Score = 28.1 bits (61), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 23/94 (24%), Positives = 39/94 (41%), Gaps = 33/94 (35%)
Query: 54 SSLHSDLAETERTLILEEFRHTAMKWNQKVTEQSGDESETGKDEHKSHMIVVTDACLPLL 113
S LH DL ER ++++FR E +S +++ T+ +L
Sbjct: 65 SILHGDLQTQERDRLIDDFR-----------------------EGRSKVLITTN----VL 97
Query: 114 SSGESAISARVLINYELPT------KKETYIRRM 141
+ G + ++NY+LPT TYI R+
Sbjct: 98 ARGIDIPTVSXVVNYDLPTLANGQADPATYIHRI 131
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.317 0.131 0.362
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,793,743
Number of Sequences: 62578
Number of extensions: 168353
Number of successful extensions: 496
Number of sequences better than 100.0: 24
Number of HSP's better than 100.0 without gapping: 14
Number of HSP's successfully gapped in prelim test: 10
Number of HSP's that attempted gapping in prelim test: 467
Number of HSP's gapped (non-prelim): 24
length of query: 185
length of database: 14,973,337
effective HSP length: 93
effective length of query: 92
effective length of database: 9,153,583
effective search space: 842129636
effective search space used: 842129636
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 48 (23.1 bits)