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= psy16582
(109 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 43.1 bits (100), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 22/44 (50%), Positives = 26/44 (59%)
Query: 6 MLSFNRGITNILVATDVLEEGIDIQSCNLVIKFDPPQHTRSYVQ 49
M F RG LVATDV GIDI++ +LVI +D P SYV
Sbjct: 78 MNEFKRGEYRYLVATDVAARGIDIENISLVINYDLPLEKESYVH 121
>pdb|1FUK|A Chain A, Crystal Structure Of The Carboxy Terminal Domain Of Yeast
Eif4a
Length = 165
Score = 43.1 bits (100), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 18/44 (40%), Positives = 28/44 (63%)
Query: 6 MLSFNRGITNILVATDVLEEGIDIQSCNLVIKFDPPQHTRSYVQ 49
M F G + IL++TD+L GID+Q +LVI +D P + +Y+
Sbjct: 73 MKEFRSGSSRILISTDLLARGIDVQQVSLVINYDLPANKENYIH 116
>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 = 42.7 bits (99), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 18/44 (40%), Positives = 28/44 (63%)
Query: 6 MLSFNRGITNILVATDVLEEGIDIQSCNLVIKFDPPQHTRSYVQ 49
M F G + IL++TD+L GID+Q +LVI +D P + +Y+
Sbjct: 303 MKEFRSGSSRILISTDLLARGIDVQQVSLVINYDLPANKENYIH 346
>pdb|1FUU|A Chain A, Yeast Initiation Factor 4a
pdb|1FUU|B Chain B, Yeast Initiation Factor 4a
Length = 394
Score = 41.6 bits (96), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 17/41 (41%), Positives = 27/41 (65%)
Query: 9 FNRGITNILVATDVLEEGIDIQSCNLVIKFDPPQHTRSYVQ 49
F G + IL++TD+L GID+Q +LVI +D P + +Y+
Sbjct: 305 FRSGSSRILISTDLLARGIDVQQVSLVINYDLPANKENYIH 345
>pdb|1S2M|A Chain A, Crystal Structure Of The Dead Box Protein Dhh1p
Length = 400
Score = 41.2 bits (95), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 18/41 (43%), Positives = 26/41 (63%)
Query: 9 FNRGITNILVATDVLEEGIDIQSCNLVIKFDPPQHTRSYVQ 49
F +G LV +D+L GIDIQ+ N+VI FD P+ +Y+
Sbjct: 304 FRQGKVRTLVCSDLLTRGIDIQAVNVVINFDFPKTAETYLH 344
>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 = 41.2 bits (95), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 17/44 (38%), Positives = 27/44 (61%)
Query: 6 MLSFNRGITNILVATDVLEEGIDIQSCNLVIKFDPPQHTRSYVQ 49
M F G + +L+ TD+L GID+Q +LVI +D P + +Y+
Sbjct: 297 MREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPTNRENYIH 340
>pdb|3EIQ|A Chain A, Crystal Structure Of Pdcd4-eif4a
pdb|3EIQ|D Chain D, Crystal Structure Of Pdcd4-eif4a
Length = 414
Score = 41.2 bits (95), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 17/44 (38%), Positives = 27/44 (61%)
Query: 6 MLSFNRGITNILVATDVLEEGIDIQSCNLVIKFDPPQHTRSYVQ 49
M F G + +L+ TD+L GID+Q +LVI +D P + +Y+
Sbjct: 323 MREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPTNRENYIH 366
>pdb|4I1S|A Chain A, Melanoma Differentiation Associated Protein-5 Helicase
Domain Complex With Inhibitor Non-structural Protein V
Length = 243
Score = 40.8 bits (94), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 16/35 (45%), Positives = 25/35 (71%)
Query: 4 QTMLSFNRGITNILVATDVLEEGIDIQSCNLVIKF 38
+ + F G N+L+AT V EEG+DI+ CN+VI++
Sbjct: 205 EVISKFRTGKINLLIATTVAEEGLDIKECNIVIRY 239
>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 = 40.8 bits (94), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 18/41 (43%), Positives = 25/41 (60%)
Query: 9 FNRGITNILVATDVLEEGIDIQSCNLVIKFDPPQHTRSYVQ 49
F G+ LV TD+ GIDIQ+ N+VI FD P+ +Y+
Sbjct: 90 FRNGLCRNLVCTDLFTRGIDIQAVNVVINFDFPKLAETYLH 130
>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 = 40.0 bits (92), Expect = 3e-04, Method: Composition-based stats.
Identities = 18/49 (36%), Positives = 31/49 (63%)
Query: 4 QTMLSFNRGITNILVATDVLEEGIDIQSCNLVIKFDPPQHTRSYVQSKA 52
+ + F G N+L+AT V EEG+DI+ CN+VI++ + + VQ++
Sbjct: 455 EVISKFRTGKINLLIATTVAEEGLDIKECNIVIRYGLVTNEIAMVQARG 503
>pdb|3TBK|A Chain A, Mouse Rig-I Atpase Domain
Length = 555
Score = 39.7 bits (91), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 18/41 (43%), Positives = 26/41 (63%)
Query: 12 GITNILVATDVLEEGIDIQSCNLVIKFDPPQHTRSYVQSKA 52
G NIL+AT V +EGIDI CNLVI ++ + +Q++
Sbjct: 451 GDNNILIATSVADEGIDIAECNLVILYEYVGNVIKXIQTRG 491
>pdb|3TMI|A Chain A, Structural Basis For Rna Recognition And Activation Of
Rig-I
Length = 695
Score = 38.9 bits (89), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 18/41 (43%), Positives = 26/41 (63%)
Query: 12 GITNILVATDVLEEGIDIQSCNLVIKFDPPQHTRSYVQSKA 52
G NIL+AT V +EGIDI CNLVI ++ + +Q++
Sbjct: 459 GDHNILIATSVADEGIDIAQCNLVILYEYVGNVIKMIQTRG 499
>pdb|4AY2|A Chain A, Capturing 5' Tri-Phosphorylated Rna Duplex By Rig-I
Length = 687
Score = 38.9 bits (89), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 18/41 (43%), Positives = 26/41 (63%)
Query: 12 GITNILVATDVLEEGIDIQSCNLVIKFDPPQHTRSYVQSKA 52
G NIL+AT V +EGIDI CNLVI ++ + +Q++
Sbjct: 451 GDHNILIATSVADEGIDIAQCNLVILYEYVGNVIKMIQTRG 491
>pdb|2YKG|A Chain A, Structural Insights Into Rna Recognition By Rig-I
Length = 696
Score = 38.9 bits (89), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 18/41 (43%), Positives = 26/41 (63%)
Query: 12 GITNILVATDVLEEGIDIQSCNLVIKFDPPQHTRSYVQSKA 52
G NIL+AT V +EGIDI CNLVI ++ + +Q++
Sbjct: 460 GDHNILIATSVADEGIDIAQCNLVILYEYVGNVIKMIQTRG 500
>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 = 38.5 bits (88), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 25/44 (56%)
Query: 4 QTMLSFNRGITNILVATDVLEEGIDIQSCNLVIKFDPPQHTRSY 47
+ M +F +G +LVATDV G+DI +LV+ + P +Y
Sbjct: 69 RVMGAFRQGEVRVLVATDVAARGLDIPQVDLVVHYRMPDRAEAY 112
>pdb|3FHO|A Chain A, Structure Of S. Pombe Dbp5
pdb|3FHO|B Chain B, Structure Of S. Pombe Dbp5
Length = 508
Score = 38.1 bits (87), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 16/36 (44%), Positives = 23/36 (63%)
Query: 6 MLSFNRGITNILVATDVLEEGIDIQSCNLVIKFDPP 41
M SF G + +LV T+V+ GID+ NLV+ +D P
Sbjct: 400 MDSFRVGTSKVLVTTNVIARGIDVSQVNLVVNYDMP 435
>pdb|2Z0M|A Chain A, Crystal Structure Of Hypothetical Atp-Dependent Rna
Helicase From Sulfolobus Tokodaii
Length = 337
Score = 38.1 bits (87), Expect = 0.001, Method: Composition-based stats.
Identities = 17/42 (40%), Positives = 24/42 (57%)
Query: 8 SFNRGITNILVATDVLEEGIDIQSCNLVIKFDPPQHTRSYVQ 49
+F G ++L+ TDV G+DI VI FD PQ R+Y+
Sbjct: 261 AFREGEYDMLITTDVASRGLDIPLVEKVINFDAPQDLRTYIH 302
>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 = 37.7 bits (86), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 16/42 (38%), Positives = 25/42 (59%)
Query: 8 SFNRGITNILVATDVLEEGIDIQSCNLVIKFDPPQHTRSYVQ 49
+F G ++LVATDV +G+D + VI +D P+ +YV
Sbjct: 99 AFREGKKDVLVATDVASKGLDFPAIQHVINYDMPEEIENYVH 140
>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 = 37.4 bits (85), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 17/46 (36%), Positives = 24/46 (52%)
Query: 4 QTMLSFNRGITNILVATDVLEEGIDIQSCNLVIKFDPPQHTRSYVQ 49
+ + G N+LVATDV GIDI + V FD P+ +Y+
Sbjct: 71 EAIKRLTEGRVNVLVATDVAARGIDIPDVSHVFNFDMPRSGDTYLH 116
>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 = 37.0 bits (84), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 14/44 (31%), Positives = 25/44 (56%)
Query: 6 MLSFNRGITNILVATDVLEEGIDIQSCNLVIKFDPPQHTRSYVQ 49
M F G + +L++TDV G+D+ +L+I +D P + Y+
Sbjct: 320 MKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIH 363
>pdb|2J0U|B Chain B, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 37.0 bits (84), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 14/44 (31%), Positives = 25/44 (56%)
Query: 6 MLSFNRGITNILVATDVLEEGIDIQSCNLVIKFDPPQHTRSYVQ 49
M F G + +L++TDV G+D+ +L+I +D P + Y+
Sbjct: 283 MKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIH 326
>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 = 37.0 bits (84), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 14/44 (31%), Positives = 25/44 (56%)
Query: 6 MLSFNRGITNILVATDVLEEGIDIQSCNLVIKFDPPQHTRSYVQ 49
M F G + +L++TDV G+D+ +L+I +D P + Y+
Sbjct: 320 MKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIH 363
>pdb|2J0U|A Chain A, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 36.6 bits (83), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 14/44 (31%), Positives = 25/44 (56%)
Query: 6 MLSFNRGITNILVATDVLEEGIDIQSCNLVIKFDPPQHTRSYVQ 49
M F G + +L++TDV G+D+ +L+I +D P + Y+
Sbjct: 283 MKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIH 326
>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 = 36.6 bits (83), Expect = 0.003, Method: Composition-based stats.
Identities = 25/65 (38%), Positives = 37/65 (56%), Gaps = 3/65 (4%)
Query: 9 FNRGITNILVATDVLEEGIDIQSCNLVIKFDP-PQHTRSYVQSKAFTVVRHKAEQILSQY 67
F RG N+LVAT V EEG+D+ +LV+ ++P P RS +Q + T RH +++
Sbjct: 415 FARGEFNVLVATSVGEEGLDVPEVDLVVFYEPVPSAIRS-IQRRGRT-GRHMPGRVIILM 472
Query: 68 PKSER 72
K R
Sbjct: 473 AKGTR 477
>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 = 36.6 bits (83), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 14/44 (31%), Positives = 25/44 (56%)
Query: 6 MLSFNRGITNILVATDVLEEGIDIQSCNLVIKFDPPQHTRSYVQ 49
M F G + +L++TDV G+D+ +L+I +D P + Y+
Sbjct: 319 MKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIH 362
>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 = 36.6 bits (83), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 14/44 (31%), Positives = 25/44 (56%)
Query: 6 MLSFNRGITNILVATDVLEEGIDIQSCNLVIKFDPPQHTRSYVQ 49
M F G + +L++TDV G+D+ +L+I +D P + Y+
Sbjct: 298 MKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIH 341
>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 = 36.6 bits (83), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 15/44 (34%), Positives = 25/44 (56%)
Query: 4 QTMLSFNRGITNILVATDVLEEGIDIQSCNLVIKFDPPQHTRSY 47
+ + +F +G +LVATDV G+DI +LV+ + P +Y
Sbjct: 72 RVLGAFRQGEVRVLVATDVAARGLDIPQVDLVVHYRLPDRAEAY 115
>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 = 36.2 bits (82), Expect = 0.005, Method: Composition-based stats.
Identities = 17/39 (43%), Positives = 22/39 (56%)
Query: 9 FNRGITNILVATDVLEEGIDIQSCNLVIKFDPPQHTRSY 47
F + IL+ATDV GID+ N VI + PQ+ SY
Sbjct: 284 FKQKKIRILIATDVXSRGIDVNDLNCVINYHLPQNPESY 322
>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 = 35.4 bits (80), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 18/46 (39%), Positives = 23/46 (50%)
Query: 4 QTMLSFNRGITNILVATDVLEEGIDIQSCNLVIKFDPPQHTRSYVQ 49
+ + F G + ILVAT V G+DI + VI FD P YV
Sbjct: 87 EALHQFRSGKSPILVATAVAARGLDISNVKHVINFDLPSDIEEYVH 132
>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 = 35.0 bits (79), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 16/46 (34%), Positives = 23/46 (50%)
Query: 4 QTMLSFNRGITNILVATDVLEEGIDIQSCNLVIKFDPPQHTRSYVQ 49
Q + F G +L+AT V G+DI++ VI +D P YV
Sbjct: 341 QALRDFKNGSMKVLIATSVASRGLDIKNIKHVINYDMPSKIDDYVH 386
>pdb|2I4I|A Chain A, Crystal Structure Of Human Dead-Box Rna Helicase Ddx3x
Length = 417
Score = 34.7 bits (78), Expect = 0.013, Method: Composition-based stats.
Identities = 18/46 (39%), Positives = 23/46 (50%)
Query: 4 QTMLSFNRGITNILVATDVLEEGIDIQSCNLVIKFDPPQHTRSYVQ 49
+ + F G + ILVAT V G+DI + VI FD P YV
Sbjct: 317 EALHQFRSGKSPILVATAVAARGLDISNVKHVINFDLPSDIEEYVH 362
>pdb|4A2Q|A Chain A, Structure Of Duck Rig-I Tandem Cards And Helicase Domain
pdb|4A2Q|B Chain B, Structure Of Duck Rig-I Tandem Cards And Helicase Domain
pdb|4A2Q|D Chain D, Structure Of Duck Rig-I Tandem Cards And Helicase Domain
pdb|4A2Q|E Chain E, Structure Of Duck Rig-I Tandem Cards And Helicase Domain
Length = 797
Score = 34.3 bits (77), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 20/87 (22%), Positives = 45/87 (51%), Gaps = 13/87 (14%)
Query: 16 ILVATDVLEEGIDIQSCNLVIKFDPPQHTRSYVQSKA--------FTVVRHKAEQILSQY 67
+L+AT V +EGIDI CNLV+ ++ + +Q + +V K E +
Sbjct: 697 LLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQVRGRGRAAGSKCILVTSKTEVV---- 752
Query: 68 PKSERYLQYNSPKINRLLQLLRRYNPD 94
++E+ +Y +N+ ++ +++++ +
Sbjct: 753 -ENEKCNRYKEEMMNKAVEKIQKWDEE 778
Score = 28.5 bits (62), Expect = 0.94, Method: Compositional matrix adjust.
Identities = 13/33 (39%), Positives = 21/33 (63%), Gaps = 3/33 (9%)
Query: 78 SPKINRLLQLLR---RYNPDQRTIIFCQRRATI 107
+PK+ L+ +L RYNP RT++F + RA +
Sbjct: 612 NPKLEELVCILDDAYRYNPQTRTLLFAKTRALV 644
>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 = 34.3 bits (77), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 20/87 (22%), Positives = 45/87 (51%), Gaps = 13/87 (14%)
Query: 16 ILVATDVLEEGIDIQSCNLVIKFDPPQHTRSYVQSKA--------FTVVRHKAEQILSQY 67
+L+AT V +EGIDI CNLV+ ++ + +Q + +V K E +
Sbjct: 456 LLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQVRGRGRAAGSKCILVTSKTEVV---- 511
Query: 68 PKSERYLQYNSPKINRLLQLLRRYNPD 94
++E+ +Y +N+ ++ +++++ +
Sbjct: 512 -ENEKCNRYKEEMMNKAVEKIQKWDEE 537
Score = 28.5 bits (62), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 13/33 (39%), Positives = 21/33 (63%), Gaps = 3/33 (9%)
Query: 78 SPKINRLLQLLR---RYNPDQRTIIFCQRRATI 107
+PK+ L+ +L RYNP RT++F + RA +
Sbjct: 371 NPKLEELVCILDDAYRYNPQTRTLLFAKTRALV 403
>pdb|4A2W|A Chain A, Structure Of Full-Length Duck Rig-I
pdb|4A2W|B Chain B, Structure Of Full-Length Duck Rig-I
Length = 936
Score = 34.3 bits (77), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 20/87 (22%), Positives = 45/87 (51%), Gaps = 13/87 (14%)
Query: 16 ILVATDVLEEGIDIQSCNLVIKFDPPQHTRSYVQSKA--------FTVVRHKAEQILSQY 67
+L+AT V +EGIDI CNLV+ ++ + +Q + +V K E +
Sbjct: 697 LLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQVRGRGRAAGSKCILVTSKTEVV---- 752
Query: 68 PKSERYLQYNSPKINRLLQLLRRYNPD 94
++E+ +Y +N+ ++ +++++ +
Sbjct: 753 -ENEKCNRYKEEMMNKAVEKIQKWDEE 778
Score = 28.5 bits (62), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 13/33 (39%), Positives = 21/33 (63%), Gaps = 3/33 (9%)
Query: 78 SPKINRLLQLLR---RYNPDQRTIIFCQRRATI 107
+PK+ L+ +L RYNP RT++F + RA +
Sbjct: 612 NPKLEELVCILDDAYRYNPQTRTLLFAKTRALV 644
>pdb|1T5I|A Chain A, Crystal Structure Of The C-Terminal Domain Of Uap56
Length = 172
Score = 33.5 bits (75), Expect = 0.030, Method: Compositional matrix adjust.
Identities = 13/37 (35%), Positives = 23/37 (62%)
Query: 16 ILVATDVLEEGIDIQSCNLVIKFDPPQHTRSYVQSKA 52
ILVAT++ G+DI+ N+ +D P+ + +Y+ A
Sbjct: 84 ILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVA 120
>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 = 33.5 bits (75), Expect = 0.033, Method: Compositional matrix adjust.
Identities = 14/33 (42%), Positives = 20/33 (60%)
Query: 9 FNRGITNILVATDVLEEGIDIQSCNLVIKFDPP 41
F G +LV T+V GID++ ++VI FD P
Sbjct: 379 FREGKEKVLVTTNVCARGIDVEQVSVVINFDLP 411
>pdb|3G0H|A Chain A, Human Dead-box Rna Helicase Ddx19, In Complex With An
Atp-analogue And Rna
Length = 424
Score = 33.5 bits (75), Expect = 0.033, Method: Compositional matrix adjust.
Identities = 14/33 (42%), Positives = 20/33 (60%)
Query: 9 FNRGITNILVATDVLEEGIDIQSCNLVIKFDPP 41
F G +LV T+V GID++ ++VI FD P
Sbjct: 328 FREGKEKVLVTTNVCARGIDVEQVSVVINFDLP 360
>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 = 33.1 bits (74), Expect = 0.036, Method: Compositional matrix adjust.
Identities = 14/33 (42%), Positives = 20/33 (60%)
Query: 9 FNRGITNILVATDVLEEGIDIQSCNLVIKFDPP 41
F G +LV T+V GID++ ++VI FD P
Sbjct: 349 FREGKEKVLVTTNVCARGIDVEQVSVVINFDLP 381
>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 = 33.1 bits (74), Expect = 0.036, Method: Compositional matrix adjust.
Identities = 14/33 (42%), Positives = 20/33 (60%)
Query: 9 FNRGITNILVATDVLEEGIDIQSCNLVIKFDPP 41
F G +LV T+V GID++ ++VI FD P
Sbjct: 312 FREGKEKVLVTTNVCARGIDVEQVSVVINFDLP 344
>pdb|1XTK|A Chain A, Structure Of Decd To Dead Mutation Of Human Uap56
Length = 390
Score = 32.7 bits (73), Expect = 0.048, Method: Compositional matrix adjust.
Identities = 13/37 (35%), Positives = 23/37 (62%)
Query: 16 ILVATDVLEEGIDIQSCNLVIKFDPPQHTRSYVQSKA 52
ILVAT++ G+DI+ N+ +D P+ + +Y+ A
Sbjct: 302 ILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVA 338
>pdb|1XTJ|A Chain A, Structure Of Human Uap56 In Complex With Adp
Length = 386
Score = 32.7 bits (73), Expect = 0.051, Method: Compositional matrix adjust.
Identities = 13/37 (35%), Positives = 23/37 (62%)
Query: 16 ILVATDVLEEGIDIQSCNLVIKFDPPQHTRSYVQSKA 52
ILVAT++ G+DI+ N+ +D P+ + +Y+ A
Sbjct: 303 ILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVA 339
>pdb|1XTI|A Chain A, Structure Of Wildtype Human Uap56
Length = 391
Score = 32.7 bits (73), Expect = 0.051, Method: Compositional matrix adjust.
Identities = 13/37 (35%), Positives = 23/37 (62%)
Query: 16 ILVATDVLEEGIDIQSCNLVIKFDPPQHTRSYVQSKA 52
ILVAT++ G+DI+ N+ +D P+ + +Y+ A
Sbjct: 303 ILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVA 339
>pdb|1GM5|A Chain A, Structure Of Recg Bound To Three-Way Dna Junction
Length = 780
Score = 32.3 bits (72), Expect = 0.077, Method: Composition-based stats.
Identities = 15/37 (40%), Positives = 24/37 (64%)
Query: 4 QTMLSFNRGITNILVATDVLEEGIDIQSCNLVIKFDP 40
+ ML F G +ILV+T V+E GID+ N+++ +P
Sbjct: 630 RVMLEFAEGRYDILVSTTVIEVGIDVPRANVMVIENP 666
>pdb|2FZL|A Chain A, Structure Of C-Terminal Domain Of Archaeoglobus Fulgidus
Xpb
Length = 219
Score = 31.6 bits (70), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 13/46 (28%), Positives = 23/46 (50%)
Query: 4 QTMLSFNRGITNILVATDVLEEGIDIQSCNLVIKFDPPQHTRSYVQ 49
+ + F G +V++ VL+EGID+ N+ + R Y+Q
Sbjct: 150 EILEGFRTGRFRAIVSSQVLDEGIDVPDANVGVIMSGSGSAREYIQ 195
>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 = 31.2 bits (69), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 12/33 (36%), Positives = 19/33 (57%)
Query: 9 FNRGITNILVATDVLEEGIDIQSCNLVIKFDPP 41
F G +L+ T+V GID++ +V+ FD P
Sbjct: 80 FRDGKEKVLITTNVCARGIDVKQVTIVVNFDLP 112
>pdb|1OVL|A Chain A, Crystal Structure Of Nurr1 Lbd
pdb|1OVL|D Chain D, Crystal Structure Of Nurr1 Lbd
Length = 271
Score = 29.6 bits (65), Expect = 0.45, Method: Compositional matrix adjust.
Identities = 19/68 (27%), Positives = 37/68 (54%), Gaps = 5/68 (7%)
Query: 39 DPPQHTRSY--VQSKAFTVVRHKAEQI--LSQYPKSERYLQYNSPKINR-LLQLLRRYNP 93
D QH + + + + + ++R AE+I + PK+++ L + S + +L+L R NP
Sbjct: 71 DDTQHIQQFYDLLTGSMEIIRGWAEKIPGFADLPKADQDLLFESAFLELFVLRLAYRSNP 130
Query: 94 DQRTIIFC 101
+ +IFC
Sbjct: 131 VEGKLIFC 138
>pdb|1OYW|A Chain A, Structure Of The Recq Catalytic Core
Length = 523
Score = 29.3 bits (64), Expect = 0.63, Method: Compositional matrix adjust.
Identities = 18/51 (35%), Positives = 24/51 (47%), Gaps = 2/51 (3%)
Query: 2 DVQTMLSFNRGITNILVATDVLEEGIDIQSCNLVIKFDPPQHTRSYVQSKA 52
DVQ F R I+VAT GI+ + V+ FD P++ SY Q
Sbjct: 277 DVQE--KFQRDDLQIVVATVAFGXGINKPNVRFVVHFDIPRNIESYYQETG 325
>pdb|1OVL|B Chain B, Crystal Structure Of Nurr1 Lbd
pdb|1OVL|C Chain C, Crystal Structure Of Nurr1 Lbd
pdb|1OVL|E Chain E, Crystal Structure Of Nurr1 Lbd
pdb|1OVL|F Chain F, Crystal Structure Of Nurr1 Lbd
Length = 271
Score = 28.9 bits (63), Expect = 0.67, Method: Compositional matrix adjust.
Identities = 19/68 (27%), Positives = 37/68 (54%), Gaps = 5/68 (7%)
Query: 39 DPPQHTRSY--VQSKAFTVVRHKAEQI--LSQYPKSERYLQYNSPKINR-LLQLLRRYNP 93
D QH + + + + + ++R AE+I + PK+++ L + S + +L+L R NP
Sbjct: 71 DDTQHIQQFYDLLTGSXEIIRGWAEKIPGFADLPKADQDLLFESAFLELFVLRLAYRSNP 130
Query: 94 DQRTIIFC 101
+ +IFC
Sbjct: 131 VEGKLIFC 138
>pdb|1OYY|A Chain A, Structure Of The Recq Catalytic Core Bound To Atp-Gamma-S
Length = 523
Score = 28.9 bits (63), Expect = 0.74, Method: Compositional matrix adjust.
Identities = 18/51 (35%), Positives = 24/51 (47%), Gaps = 2/51 (3%)
Query: 2 DVQTMLSFNRGITNILVATDVLEEGIDIQSCNLVIKFDPPQHTRSYVQSKA 52
DVQ F R I+VAT GI+ + V+ FD P++ SY Q
Sbjct: 277 DVQE--KFQRDDLQIVVATVAFGMGINKPNVRFVVHFDIPRNIESYYQETG 325
>pdb|3QWU|A Chain A, Putative Atp-Dependent Dna Ligase From Aquifex Aeolicus.
pdb|3QWU|B Chain B, Putative Atp-Dependent Dna Ligase From Aquifex Aeolicus
Length = 370
Score = 28.9 bits (63), Expect = 0.84, Method: Composition-based stats.
Identities = 25/100 (25%), Positives = 43/100 (43%), Gaps = 21/100 (21%)
Query: 17 LVATDVLEEGIDIQSC-------NLVIKFDPPQHTRSYVQSKAFTVVRHKAEQILSQYPK 69
L+ +L+E D+ C N I+ PP + + VQ F ++ + LSQ K
Sbjct: 115 LIDLRILDENPDLVICAEVAGPENPYIEESPP-YVKEDVQLFVFDFMKKNEQGFLSQEEK 173
Query: 70 SERYLQYNSPK-------------INRLLQLLRRYNPDQR 96
E +YN P I ++ ++L+R+N + R
Sbjct: 174 MELIEKYNLPHVEILGRFTASEEGIKKIKEILKRFNEEGR 213
>pdb|2EYQ|A Chain A, Crystal Structure Of Escherichia Coli Transcription-Repair
Coupling Factor
pdb|2EYQ|B Chain B, Crystal Structure Of Escherichia Coli Transcription-Repair
Coupling Factor
Length = 1151
Score = 28.5 bits (62), Expect = 1.1, Method: Composition-based stats.
Identities = 13/33 (39%), Positives = 20/33 (60%)
Query: 4 QTMLSFNRGITNILVATDVLEEGIDIQSCNLVI 36
+ M F+ N+LV T ++E GIDI + N +I
Sbjct: 855 RVMNDFHHQRFNVLVCTTIIETGIDIPTANTII 887
>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 = 28.1 bits (61), Expect = 1.4, Method: Composition-based stats.
Identities = 13/41 (31%), Positives = 21/41 (51%)
Query: 9 FNRGITNILVATDVLEEGIDIQSCNLVIKFDPPQHTRSYVQ 49
F G +V++ VL+EGID+ N+ + R Y+Q
Sbjct: 390 FRTGRFRAIVSSQVLDEGIDVPDANVGVIMSGSGSAREYIQ 430
>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 = 26.9 bits (58), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 12/41 (29%), Positives = 21/41 (51%)
Query: 9 FNRGITNILVATDVLEEGIDIQSCNLVIKFDPPQHTRSYVQ 49
F + + ILV TDV G+D + + V++ P +Y+
Sbjct: 82 FKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIH 122
>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 = 26.9 bits (58), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 12/41 (29%), Positives = 21/41 (51%)
Query: 9 FNRGITNILVATDVLEEGIDIQSCNLVIKFDPPQHTRSYVQ 49
F + + ILV TDV G+D + + V++ P +Y+
Sbjct: 82 FKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIH 122
>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 = 26.9 bits (58), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 12/41 (29%), Positives = 21/41 (51%)
Query: 9 FNRGITNILVATDVLEEGIDIQSCNLVIKFDPPQHTRSYVQ 49
F + + ILV TDV G+D + + V++ P +Y+
Sbjct: 82 FKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIH 122
>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 = 26.6 bits (57), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 12/41 (29%), Positives = 21/41 (51%)
Query: 9 FNRGITNILVATDVLEEGIDIQSCNLVIKFDPPQHTRSYVQ 49
F + + ILV TDV G+D + + V++ P +Y+
Sbjct: 388 FKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIH 428
>pdb|3SQW|A Chain A, Structure Of Mss116p (Nte Deletion) Bound To Ssrna And
Amp-Pnp
Length = 579
Score = 26.6 bits (57), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 12/41 (29%), Positives = 21/41 (51%)
Query: 9 FNRGITNILVATDVLEEGIDIQSCNLVIKFDPPQHTRSYVQ 49
F + + ILV TDV G+D + + V++ P +Y+
Sbjct: 337 FKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIH 377
>pdb|3R90|A Chain A, Crystal Structure Of Malignant T Cell-Amplified Sequence
1 Protein
pdb|3R90|B Chain B, Crystal Structure Of Malignant T Cell-Amplified Sequence
1 Protein
pdb|3R90|C Chain C, Crystal Structure Of Malignant T Cell-Amplified Sequence
1 Protein
pdb|3R90|D Chain D, Crystal Structure Of Malignant T Cell-Amplified Sequence
1 Protein
pdb|3R90|E Chain E, Crystal Structure Of Malignant T Cell-Amplified Sequence
1 Protein
pdb|3R90|F Chain F, Crystal Structure Of Malignant T Cell-Amplified Sequence
1 Protein
pdb|3R90|G Chain G, Crystal Structure Of Malignant T Cell-Amplified Sequence
1 Protein
pdb|3R90|H Chain H, Crystal Structure Of Malignant T Cell-Amplified Sequence
1 Protein
pdb|3R90|I Chain I, Crystal Structure Of Malignant T Cell-Amplified Sequence
1 Protein
pdb|3R90|J Chain J, Crystal Structure Of Malignant T Cell-Amplified Sequence
1 Protein
pdb|3R90|K Chain K, Crystal Structure Of Malignant T Cell-Amplified Sequence
1 Protein
pdb|3R90|L Chain L, Crystal Structure Of Malignant T Cell-Amplified Sequence
1 Protein
Length = 188
Score = 25.4 bits (54), Expect = 9.2, Method: Compositional matrix adjust.
Identities = 13/44 (29%), Positives = 24/44 (54%), Gaps = 1/44 (2%)
Query: 37 KFDPPQHTRSYVQSKAFTVVRHKAEQILSQYPKSERYLQYNSPK 80
KFD ++ + +Q K +V++ Q++ Q+P E +L PK
Sbjct: 4 KFDEKENVSNCIQLKT-SVIKGIKNQLIEQFPGIEPWLNQIMPK 46
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
0.324 0.137 0.394
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,854,891
Number of Sequences: 62578
Number of extensions: 93149
Number of successful extensions: 436
Number of sequences better than 100.0: 60
Number of HSP's better than 100.0 without gapping: 56
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 374
Number of HSP's gapped (non-prelim): 66
length of query: 109
length of database: 14,973,337
effective HSP length: 73
effective length of query: 36
effective length of database: 10,405,143
effective search space: 374585148
effective search space used: 374585148
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: 45 (21.9 bits)