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= psy17637
(150 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 95.1 bits (235), Expect = 1e-20, Method: Compositional matrix adjust.
Identities = 45/116 (38%), Positives = 70/116 (60%)
Query: 23 LVRNLEGANQEVPPALMNLAMQLNAEELANSLTVKEYDVLLLHGDMDQSERNSVITKFKR 82
+V LE + PP L+ + + + + L +K + + +HG DQ ER I F+
Sbjct: 43 MVYLLECLQKTPPPVLIFAEKKADVDAIHEYLLLKGVEAVAIHGGKDQEERTKAIEAFRE 102
Query: 83 QECRILVATDVAARGLDIPHIRTVVNYDLARDIDTHTHRIGRTGRAGNKGVAYTLV 138
+ +LVATDVA++GLD P I+ V+NYD+ +I+ + HRIGRTG +GN G+A T +
Sbjct: 103 GKKDVLVATDVASKGLDFPAIQHVINYDMPEEIENYVHRIGRTGCSGNTGIATTFI 158
>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 = 92.4 bits (228), Expect = 9e-20, Method: Compositional matrix adjust.
Identities = 46/98 (46%), Positives = 64/98 (65%), Gaps = 1/98 (1%)
Query: 47 AEELANSLTVKEYDVLLLHGDMDQSERNSVITKFKRQECRILVATDVAARGLDIPHIRTV 106
A+ LA+ L+ KE+ +HGD QS+R + FK ++L+AT VA+RGLDI +I+ V
Sbjct: 313 ADFLASFLSEKEFPTTSIHGDRLQSQREQALRDFKNGSMKVLIATSVASRGLDIKNIKHV 372
Query: 107 VNYDLARDIDTHTHRIGRTGRAGNKGVAYTLVTDKDKD 144
+NYD+ ID + HRIGRTGR GN G A + D +KD
Sbjct: 373 INYDMPSKIDDYVHRIGRTGRVGNNGRATSFF-DPEKD 409
Score = 30.8 bits (68), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 16/36 (44%), Positives = 21/36 (58%), Gaps = 1/36 (2%)
Query: 1 RAGNKGVAYTLV-TDKDKEFAGHLVRNLEGANQEVP 35
R GN G A + +KD+ A LV+ LEG+ Q VP
Sbjct: 393 RVGNNGRATSFFDPEKDRAIAADLVKILEGSGQTVP 428
>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 = 91.7 bits (226), Expect = 1e-19, Method: Compositional matrix adjust.
Identities = 39/84 (46%), Positives = 57/84 (67%)
Query: 59 YDVLLLHGDMDQSERNSVITKFKRQECRILVATDVAARGLDIPHIRTVVNYDLARDIDTH 118
+ V +HGDM Q ER S++ +F+ R+L++TDV ARGLD+P + ++NYDL + + +
Sbjct: 302 FTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLPNNRELY 361
Query: 119 THRIGRTGRAGNKGVAYTLVTDKD 142
HRIGR+GR G KGVA V + D
Sbjct: 362 IHRIGRSGRYGRKGVAINFVKNDD 385
>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 = 91.7 bits (226), Expect = 1e-19, Method: Compositional matrix adjust.
Identities = 45/80 (56%), Positives = 58/80 (72%)
Query: 64 LHGDMDQSERNSVITKFKRQECRILVATDVAARGLDIPHIRTVVNYDLARDIDTHTHRIG 123
+HG M Q +R V+ +FKR E R LVATDVAARG+DI +I V+NYDL + +++ HR G
Sbjct: 65 IHGGMIQEDRFDVMNEFKRGEYRYLVATDVAARGIDIENISLVINYDLPLEKESYVHRTG 124
Query: 124 RTGRAGNKGVAYTLVTDKDK 143
RTGRAGNKG A + VT +K
Sbjct: 125 RTGRAGNKGKAISFVTAFEK 144
>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 = 91.7 bits (226), Expect = 1e-19, Method: Compositional matrix adjust.
Identities = 39/84 (46%), Positives = 57/84 (67%)
Query: 59 YDVLLLHGDMDQSERNSVITKFKRQECRILVATDVAARGLDIPHIRTVVNYDLARDIDTH 118
+ V +HGDM Q ER S++ +F+ R+L++TDV ARGLD+P + ++NYDL + + +
Sbjct: 301 FTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLPNNRELY 360
Query: 119 THRIGRTGRAGNKGVAYTLVTDKD 142
HRIGR+GR G KGVA V + D
Sbjct: 361 IHRIGRSGRYGRKGVAINFVKNDD 384
>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 = 91.7 bits (226), Expect = 1e-19, Method: Compositional matrix adjust.
Identities = 39/84 (46%), Positives = 57/84 (67%)
Query: 59 YDVLLLHGDMDQSERNSVITKFKRQECRILVATDVAARGLDIPHIRTVVNYDLARDIDTH 118
+ V +HGDM Q ER S++ +F+ R+L++TDV ARGLD+P + ++NYDL + + +
Sbjct: 302 FTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLPNNRELY 361
Query: 119 THRIGRTGRAGNKGVAYTLVTDKD 142
HRIGR+GR G KGVA V + D
Sbjct: 362 IHRIGRSGRYGRKGVAINFVKNDD 385
>pdb|2J0U|B Chain B, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 91.7 bits (226), Expect = 1e-19, Method: Compositional matrix adjust.
Identities = 39/84 (46%), Positives = 57/84 (67%)
Query: 59 YDVLLLHGDMDQSERNSVITKFKRQECRILVATDVAARGLDIPHIRTVVNYDLARDIDTH 118
+ V +HGDM Q ER S++ +F+ R+L++TDV ARGLD+P + ++NYDL + + +
Sbjct: 265 FTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLPNNRELY 324
Query: 119 THRIGRTGRAGNKGVAYTLVTDKD 142
HRIGR+GR G KGVA V + D
Sbjct: 325 IHRIGRSGRYGRKGVAVNFVKNDD 348
>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 = 91.7 bits (226), Expect = 2e-19, Method: Compositional matrix adjust.
Identities = 39/84 (46%), Positives = 57/84 (67%)
Query: 59 YDVLLLHGDMDQSERNSVITKFKRQECRILVATDVAARGLDIPHIRTVVNYDLARDIDTH 118
+ V +HGDM Q ER S++ +F+ R+L++TDV ARGLD+P + ++NYDL + + +
Sbjct: 280 FTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLPNNRELY 339
Query: 119 THRIGRTGRAGNKGVAYTLVTDKD 142
HRIGR+GR G KGVA V + D
Sbjct: 340 IHRIGRSGRYGRKGVAINFVKNDD 363
>pdb|2J0U|A Chain A, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 91.3 bits (225), Expect = 2e-19, Method: Compositional matrix adjust.
Identities = 39/84 (46%), Positives = 57/84 (67%)
Query: 59 YDVLLLHGDMDQSERNSVITKFKRQECRILVATDVAARGLDIPHIRTVVNYDLARDIDTH 118
+ V +HGDM Q ER S++ +F+ R+L++TDV ARGLD+P + ++NYDL + + +
Sbjct: 265 FTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLPNNRELY 324
Query: 119 THRIGRTGRAGNKGVAYTLVTDKD 142
HRIGR+GR G KGVA V + D
Sbjct: 325 IHRIGRSGRYGRKGVAVNFVKNDD 348
>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 = 89.7 bits (221), Expect = 6e-19, Method: Compositional matrix adjust.
Identities = 41/95 (43%), Positives = 66/95 (69%)
Query: 48 EELANSLTVKEYDVLLLHGDMDQSERNSVITKFKRQECRILVATDVAARGLDIPHIRTVV 107
+ELA+ L + +HGD+ QS+R VI FK+++ RIL+ATDV +RG+D+ + V+
Sbjct: 252 KELASXLRDIGFKAGAIHGDLSQSQREKVIRLFKQKKIRILIATDVXSRGIDVNDLNCVI 311
Query: 108 NYDLARDIDTHTHRIGRTGRAGNKGVAYTLVTDKD 142
NY L ++ +++ HRIGRTGRAG KG A +++ ++
Sbjct: 312 NYHLPQNPESYXHRIGRTGRAGKKGKAISIINRRE 346
>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 = 87.8 bits (216), Expect = 2e-18, Method: Compositional matrix adjust.
Identities = 46/112 (41%), Positives = 68/112 (60%), Gaps = 6/112 (5%)
Query: 37 ALMNLAMQLNAEELANSLTVKEYDVLLLHGDMDQSERNSVITKFKRQECRILVATDVAAR 96
+++ +A + A L L + ++V +LHGD+ ER+ +I F+ ++L+ T+V AR
Sbjct: 246 SIIFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDDFREGRSKVLITTNVLAR 305
Query: 97 GLDIPHIRTVVNYDLAR------DIDTHTHRIGRTGRAGNKGVAYTLVTDKD 142
G+DIP + VVNYDL D T+ HRIGRTGR G KGVA + V DK+
Sbjct: 306 GIDIPTVSMVVNYDLPTLANGQADPATYIHRIGRTGRFGRKGVAISFVHDKN 357
>pdb|3PEY|A Chain A, S. Cerevisiae Dbp5 Bound To Rna And Adp Bef3
Length = 395
Score = 87.8 bits (216), Expect = 2e-18, Method: Compositional matrix adjust.
Identities = 46/112 (41%), Positives = 68/112 (60%), Gaps = 6/112 (5%)
Query: 37 ALMNLAMQLNAEELANSLTVKEYDVLLLHGDMDQSERNSVITKFKRQECRILVATDVAAR 96
+++ +A + A L L + ++V +LHGD+ ER+ +I F+ ++L+ T+V AR
Sbjct: 246 SIIFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDDFREGRSKVLITTNVLAR 305
Query: 97 GLDIPHIRTVVNYDLAR------DIDTHTHRIGRTGRAGNKGVAYTLVTDKD 142
G+DIP + VVNYDL D T+ HRIGRTGR G KGVA + V DK+
Sbjct: 306 GIDIPTVSMVVNYDLPTLANGQADPATYIHRIGRTGRFGRKGVAISFVHDKN 357
>pdb|3GFP|A Chain A, Structure Of The C-Terminal Domain Of The Dead-Box Protein
Dbp5
Length = 189
Score = 87.8 bits (216), Expect = 2e-18, Method: Compositional matrix adjust.
Identities = 46/115 (40%), Positives = 69/115 (60%), Gaps = 6/115 (5%)
Query: 34 VPPALMNLAMQLNAEELANSLTVKEYDVLLLHGDMDQSERNSVITKFKRQECRILVATDV 93
+ +++ +A + A L L + ++V +LHGD+ ER+ +I F+ ++L+ T+V
Sbjct: 37 IGSSIIFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDDFREGRSKVLITTNV 96
Query: 94 AARGLDIPHIRTVVNYDLAR------DIDTHTHRIGRTGRAGNKGVAYTLVTDKD 142
ARG+DIP + VVNYDL D T+ HRIGRTGR G KGVA + V DK+
Sbjct: 97 LARGIDIPTVSXVVNYDLPTLANGQADPATYIHRIGRTGRFGRKGVAISFVHDKN 151
>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 = 87.8 bits (216), Expect = 2e-18, Method: Compositional matrix adjust.
Identities = 46/115 (40%), Positives = 69/115 (60%), Gaps = 6/115 (5%)
Query: 34 VPPALMNLAMQLNAEELANSLTVKEYDVLLLHGDMDQSERNSVITKFKRQECRILVATDV 93
+ +++ +A + A L L + ++V +LHGD+ ER+ +I F+ ++L+ T+V
Sbjct: 36 IGSSIIFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDDFREGRSKVLITTNV 95
Query: 94 AARGLDIPHIRTVVNYDLAR------DIDTHTHRIGRTGRAGNKGVAYTLVTDKD 142
ARG+DIP + VVNYDL D T+ HRIGRTGR G KGVA + V DK+
Sbjct: 96 LARGIDIPTVSXVVNYDLPTLANGQADPATYIHRIGRTGRFGRKGVAISFVHDKN 150
>pdb|2KBF|A Chain A, Solution Structure Of Carboxyl-Terminal Domain Of Dbp5p
Length = 187
Score = 87.4 bits (215), Expect = 3e-18, Method: Compositional matrix adjust.
Identities = 46/115 (40%), Positives = 69/115 (60%), Gaps = 6/115 (5%)
Query: 34 VPPALMNLAMQLNAEELANSLTVKEYDVLLLHGDMDQSERNSVITKFKRQECRILVATDV 93
+ +++ +A + A L L + ++V +LHGD+ ER+ +I F+ ++L+ T+V
Sbjct: 35 IGSSIIFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDDFREGRSKVLITTNV 94
Query: 94 AARGLDIPHIRTVVNYDLAR------DIDTHTHRIGRTGRAGNKGVAYTLVTDKD 142
ARG+DIP + VVNYDL D T+ HRIGRTGR G KGVA + V DK+
Sbjct: 95 LARGIDIPTVSMVVNYDLPTLANGQADPATYIHRIGRTGRFGRKGVAISFVHDKN 149
>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 = 87.4 bits (215), Expect = 3e-18, Method: Compositional matrix adjust.
Identities = 46/94 (48%), Positives = 57/94 (60%)
Query: 49 ELANSLTVKEYDVLLLHGDMDQSERNSVITKFKRQECRILVATDVAARGLDIPHIRTVVN 108
ELAN L + L G+M Q +RN I + +LVATDVAARG+DIP + V N
Sbjct: 45 ELANWLREAGINNCYLEGEMVQGKRNEAIKRLTEGRVNVLVATDVAARGIDIPDVSHVFN 104
Query: 109 YDLARDIDTHTHRIGRTGRAGNKGVAYTLVTDKD 142
+D+ R DT+ HRIGRT RAG KG A +LV D
Sbjct: 105 FDMPRSGDTYLHRIGRTARAGRKGTAISLVEAHD 138
>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 = 85.9 bits (211), Expect = 8e-18, Method: Compositional matrix adjust.
Identities = 41/96 (42%), Positives = 62/96 (64%)
Query: 47 AEELANSLTVKEYDVLLLHGDMDQSERNSVITKFKRQECRILVATDVAARGLDIPHIRTV 106
A+ L + L + Y +HGD Q +R + +F+ + ILVAT VAARGLDI +++ V
Sbjct: 59 ADSLEDFLYHEGYACTSIHGDRSQRDREEALHQFRSGKSPILVATAVAARGLDISNVKHV 118
Query: 107 VNYDLARDIDTHTHRIGRTGRAGNKGVAYTLVTDKD 142
+N+DL DI+ + HRIGRTGR GN G+A + +++
Sbjct: 119 INFDLPSDIEEYVHRIGRTGRVGNLGLATSFFNERN 154
Score = 29.3 bits (64), Expect = 0.85, Method: Compositional matrix adjust.
Identities = 15/44 (34%), Positives = 23/44 (52%)
Query: 1 RAGNKGVAYTLVTDKDKEFAGHLVRNLEGANQEVPPALMNLAMQ 44
R GN G+A + +++ L+ L A QEVP L N+A +
Sbjct: 139 RVGNLGLATSFFNERNINITKDLLDLLVEAKQEVPSWLENMAYE 182
>pdb|2I4I|A Chain A, Crystal Structure Of Human Dead-Box Rna Helicase Ddx3x
Length = 417
Score = 85.9 bits (211), Expect = 9e-18, Method: Compositional matrix adjust.
Identities = 41/96 (42%), Positives = 62/96 (64%)
Query: 47 AEELANSLTVKEYDVLLLHGDMDQSERNSVITKFKRQECRILVATDVAARGLDIPHIRTV 106
A+ L + L + Y +HGD Q +R + +F+ + ILVAT VAARGLDI +++ V
Sbjct: 289 ADSLEDFLYHEGYACTSIHGDRSQRDREEALHQFRSGKSPILVATAVAARGLDISNVKHV 348
Query: 107 VNYDLARDIDTHTHRIGRTGRAGNKGVAYTLVTDKD 142
+N+DL DI+ + HRIGRTGR GN G+A + +++
Sbjct: 349 INFDLPSDIEEYVHRIGRTGRVGNLGLATSFFNERN 384
Score = 28.5 bits (62), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 15/44 (34%), Positives = 23/44 (52%)
Query: 1 RAGNKGVAYTLVTDKDKEFAGHLVRNLEGANQEVPPALMNLAMQ 44
R GN G+A + +++ L+ L A QEVP L N+A +
Sbjct: 369 RVGNLGLATSFFNERNINITKDLLDLLVEAKQEVPSWLENMAYE 412
>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 = 84.7 bits (208), Expect = 2e-17, Method: Compositional matrix adjust.
Identities = 50/139 (35%), Positives = 80/139 (57%), Gaps = 9/139 (6%)
Query: 9 YTLVTDKDKEFAGHLVRNLEGANQEVPPALMNLAMQLNAEELANSLTVKEYDVLLLHGDM 68
Y L + +D++F + NL GA + A++ + A LA L+ + + V LL G+M
Sbjct: 281 YVLCSSRDEKFQA--LCNLYGAI-TIAQAMIFCHTRKTASWLAAELSKEGHQVALLSGEM 337
Query: 69 DQSERNSVITKFKRQECRILVATDVAARGLDIPHIRTVVNYDLARDID------THTHRI 122
+R +VI +F+ + ++LV T+V ARG+D+ + V+N+DL D D T+ HRI
Sbjct: 338 MVEQRAAVIERFREGKEKVLVTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRI 397
Query: 123 GRTGRAGNKGVAYTLVTDK 141
GRTGR G +G+A +V K
Sbjct: 398 GRTGRFGKRGLAVNMVDSK 416
>pdb|3G0H|A Chain A, Human Dead-box Rna Helicase Ddx19, In Complex With An
Atp-analogue And Rna
Length = 424
Score = 84.3 bits (207), Expect = 2e-17, Method: Compositional matrix adjust.
Identities = 50/139 (35%), Positives = 80/139 (57%), Gaps = 9/139 (6%)
Query: 9 YTLVTDKDKEFAGHLVRNLEGANQEVPPALMNLAMQLNAEELANSLTVKEYDVLLLHGDM 68
Y L + +D++F + NL GA + A++ + A LA L+ + + V LL G+M
Sbjct: 260 YVLCSSRDEKFQA--LCNLYGAI-TIAQAMIFCHTRKTASWLAAELSKEGHQVALLSGEM 316
Query: 69 DQSERNSVITKFKRQECRILVATDVAARGLDIPHIRTVVNYDLARDID------THTHRI 122
+R +VI +F+ + ++LV T+V ARG+D+ + V+N+DL D D T+ HRI
Sbjct: 317 MVEQRAAVIERFREGKEKVLVTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRI 376
Query: 123 GRTGRAGNKGVAYTLVTDK 141
GRTGR G +G+A +V K
Sbjct: 377 GRTGRFGKRGLAVNMVDSK 395
>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 = 84.3 bits (207), Expect = 2e-17, Method: Compositional matrix adjust.
Identities = 50/139 (35%), Positives = 80/139 (57%), Gaps = 9/139 (6%)
Query: 9 YTLVTDKDKEFAGHLVRNLEGANQEVPPALMNLAMQLNAEELANSLTVKEYDVLLLHGDM 68
Y L + +D++F + NL GA + A++ + A LA L+ + + V LL G+M
Sbjct: 244 YVLCSSRDEKFQA--LCNLYGAI-TIAQAMIFCHTRKTASWLAAELSKEGHQVALLSGEM 300
Query: 69 DQSERNSVITKFKRQECRILVATDVAARGLDIPHIRTVVNYDLARDID------THTHRI 122
+R +VI +F+ + ++LV T+V ARG+D+ + V+N+DL D D T+ HRI
Sbjct: 301 MVEQRAAVIERFREGKEKVLVTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRI 360
Query: 123 GRTGRAGNKGVAYTLVTDK 141
GRTGR G +G+A +V K
Sbjct: 361 GRTGRFGKRGLAVNMVDSK 379
>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 = 84.3 bits (207), Expect = 2e-17, Method: Compositional matrix adjust.
Identities = 50/139 (35%), Positives = 80/139 (57%), Gaps = 9/139 (6%)
Query: 9 YTLVTDKDKEFAGHLVRNLEGANQEVPPALMNLAMQLNAEELANSLTVKEYDVLLLHGDM 68
Y L + +D++F + NL GA + A++ + A LA L+ + + V LL G+M
Sbjct: 311 YVLCSSRDEKFQA--LCNLYGAIT-IAQAMIFCHTRKTASWLAAELSKEGHQVALLSGEM 367
Query: 69 DQSERNSVITKFKRQECRILVATDVAARGLDIPHIRTVVNYDLARDID------THTHRI 122
+R +VI +F+ + ++LV T+V ARG+D+ + V+N+DL D D T+ HRI
Sbjct: 368 MVEQRAAVIERFREGKEKVLVTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRI 427
Query: 123 GRTGRAGNKGVAYTLVTDK 141
GRTGR G +G+A +V K
Sbjct: 428 GRTGRFGKRGLAVNMVDSK 446
>pdb|2Z0M|A Chain A, Crystal Structure Of Hypothetical Atp-Dependent Rna
Helicase From Sulfolobus Tokodaii
Length = 337
Score = 84.0 bits (206), Expect = 3e-17, Method: Compositional matrix adjust.
Identities = 39/78 (50%), Positives = 53/78 (67%)
Query: 64 LHGDMDQSERNSVITKFKRQECRILVATDVAARGLDIPHIRTVVNYDLARDIDTHTHRIG 123
L GD+ QS RN I F+ E +L+ TDVA+RGLDIP + V+N+D +D+ T+ HRIG
Sbjct: 246 LRGDLPQSVRNRNIDAFREGEYDMLITTDVASRGLDIPLVEKVINFDAPQDLRTYIHRIG 305
Query: 124 RTGRAGNKGVAYTLVTDK 141
RTGR G KG A T + ++
Sbjct: 306 RTGRMGRKGEAITFILNE 323
>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 = 81.3 bits (199), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 48/141 (34%), Positives = 74/141 (52%), Gaps = 6/141 (4%)
Query: 5 KGVA--YTLVTDKDKEFAGHLVRNLEGANQEVPPALMNLAMQLNAEELANSLTVKEYDVL 62
KGV Y VT++ K + + + NQ + N + ++ E LA ++ Y
Sbjct: 17 KGVTQYYAYVTERQKVHCLNTLFSRLQINQSI--IFCNSSQRV--ELLAKKISQLGYSCF 72
Query: 63 LLHGDMDQSERNSVITKFKRQECRILVATDVAARGLDIPHIRTVVNYDLARDIDTHTHRI 122
+H M Q RN V F+ CR LV TD+ RG+DI + V+N+D + +T+ HRI
Sbjct: 73 YIHAKMRQEHRNRVFHDFRNGLCRNLVCTDLFTRGIDIQAVNVVINFDFPKLAETYLHRI 132
Query: 123 GRTGRAGNKGVAYTLVTDKDK 143
GR+GR G+ G+A L+T D+
Sbjct: 133 GRSGRFGHLGLAINLITYDDR 153
>pdb|1XTK|A Chain A, Structure Of Decd To Dead Mutation Of Human Uap56
Length = 390
Score = 80.9 bits (198), Expect = 3e-16, Method: Compositional matrix adjust.
Identities = 39/93 (41%), Positives = 56/93 (60%)
Query: 50 LANSLTVKEYDVLLLHGDMDQSERNSVITKFKRQECRILVATDVAARGLDIPHIRTVVNY 109
LA L + + + +H M Q ER S +FK + RILVAT++ RG+DI + NY
Sbjct: 265 LAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRILVATNLFGRGMDIERVNIAFNY 324
Query: 110 DLARDIDTHTHRIGRTGRAGNKGVAYTLVTDKD 142
D+ D DT+ HR+ R GR G KG+A T V+D++
Sbjct: 325 DMPEDSDTYLHRVARAGRFGTKGLAITFVSDEN 357
>pdb|1XTJ|A Chain A, Structure Of Human Uap56 In Complex With Adp
Length = 386
Score = 80.9 bits (198), Expect = 3e-16, Method: Compositional matrix adjust.
Identities = 39/93 (41%), Positives = 56/93 (60%)
Query: 50 LANSLTVKEYDVLLLHGDMDQSERNSVITKFKRQECRILVATDVAARGLDIPHIRTVVNY 109
LA L + + + +H M Q ER S +FK + RILVAT++ RG+DI + NY
Sbjct: 266 LAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRILVATNLFGRGMDIERVNIAFNY 325
Query: 110 DLARDIDTHTHRIGRTGRAGNKGVAYTLVTDKD 142
D+ D DT+ HR+ R GR G KG+A T V+D++
Sbjct: 326 DMPEDSDTYLHRVARAGRFGTKGLAITFVSDEN 358
>pdb|1XTI|A Chain A, Structure Of Wildtype Human Uap56
Length = 391
Score = 80.9 bits (198), Expect = 3e-16, Method: Compositional matrix adjust.
Identities = 39/93 (41%), Positives = 56/93 (60%)
Query: 50 LANSLTVKEYDVLLLHGDMDQSERNSVITKFKRQECRILVATDVAARGLDIPHIRTVVNY 109
LA L + + + +H M Q ER S +FK + RILVAT++ RG+DI + NY
Sbjct: 266 LAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRILVATNLFGRGMDIERVNIAFNY 325
Query: 110 DLARDIDTHTHRIGRTGRAGNKGVAYTLVTDKD 142
D+ D DT+ HR+ R GR G KG+A T V+D++
Sbjct: 326 DMPEDSDTYLHRVARAGRFGTKGLAITFVSDEN 358
>pdb|1T5I|A Chain A, Crystal Structure Of The C-Terminal Domain Of Uap56
Length = 172
Score = 80.5 bits (197), Expect = 3e-16, Method: Compositional matrix adjust.
Identities = 39/93 (41%), Positives = 56/93 (60%)
Query: 50 LANSLTVKEYDVLLLHGDMDQSERNSVITKFKRQECRILVATDVAARGLDIPHIRTVVNY 109
LA L + + + +H M Q ER S +FK + RILVAT++ RG+DI + NY
Sbjct: 47 LAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRILVATNLFGRGMDIERVNIAFNY 106
Query: 110 DLARDIDTHTHRIGRTGRAGNKGVAYTLVTDKD 142
D+ D DT+ HR+ R GR G KG+A T V+D++
Sbjct: 107 DMPEDSDTYLHRVARAGRFGTKGLAITFVSDEN 139
>pdb|1S2M|A Chain A, Crystal Structure Of The Dead Box Protein Dhh1p
Length = 400
Score = 78.6 bits (192), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 37/97 (38%), Positives = 56/97 (57%)
Query: 47 AEELANSLTVKEYDVLLLHGDMDQSERNSVITKFKRQECRILVATDVAARGLDIPHIRTV 106
E LA +T Y H M Q ERN V +F++ + R LV +D+ RG+DI + V
Sbjct: 271 VELLAKKITDLGYSCYYSHARMKQQERNKVFHEFRQGKVRTLVCSDLLTRGIDIQAVNVV 330
Query: 107 VNYDLARDIDTHTHRIGRTGRAGNKGVAYTLVTDKDK 143
+N+D + +T+ HRIGR+GR G+ G+A L+ D+
Sbjct: 331 INFDFPKTAETYLHRIGRSGRFGHLGLAINLINWNDR 367
>pdb|3FHO|A Chain A, Structure Of S. Pombe Dbp5
pdb|3FHO|B Chain B, Structure Of S. Pombe Dbp5
Length = 508
Score = 77.4 bits (189), Expect = 3e-15, Method: Compositional matrix adjust.
Identities = 40/107 (37%), Positives = 63/107 (58%), Gaps = 6/107 (5%)
Query: 47 AEELANSLTVKEYDVLLLHGDMDQSERNSVITKFKRQECRILVATDVAARGLDIPHIRTV 106
AEE+A +T + V L G+++ ++R++++ F+ ++LV T+V ARG+D+ + V
Sbjct: 370 AEEIARRMTADGHTVACLTGNLEGAQRDAIMDSFRVGTSKVLVTTNVIARGIDVSQVNLV 429
Query: 107 VNYDLA------RDIDTHTHRIGRTGRAGNKGVAYTLVTDKDKDGEL 147
VNYD+ D T+ HRIGRTGR G GV+ V DK E+
Sbjct: 430 VNYDMPLDQAGRPDPQTYLHRIGRTGRFGRVGVSINFVHDKKSWEEM 476
>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 = 76.3 bits (186), Expect = 7e-15, Method: Compositional matrix adjust.
Identities = 38/111 (34%), Positives = 66/111 (59%), Gaps = 6/111 (5%)
Query: 34 VPPALMNLAMQLNAEELANSLTVKEYDVLLLHGDMDQSERNSVITKFKRQECRILVATDV 93
+ A++ + NA+ L + + V LL G++ +R S+I +F+ + ++L+ T+V
Sbjct: 34 IGQAIIFCQTRRNAKWLTVEMIQDGHQVSLLSGELTVEQRASIIQRFRDGKEKVLITTNV 93
Query: 94 AARGLDIPHIRTVVNYDLA------RDIDTHTHRIGRTGRAGNKGVAYTLV 138
ARG+D+ + VVN+DL D +T+ HRIGRTGR G KG+A+ ++
Sbjct: 94 CARGIDVKQVTIVVNFDLPVKQGEEPDYETYLHRIGRTGRFGKKGLAFNMI 144
>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 = 74.3 bits (181), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 31/83 (37%), Positives = 52/83 (62%)
Query: 57 KEYDVLLLHGDMDQSERNSVITKFKRQECRILVATDVAARGLDIPHIRTVVNYDLARDID 116
K+ +L HG + Q++R S++ +FK+ E ILV TDV ARG+D P++ V+ + ++
Sbjct: 59 KDLPILEFHGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELA 118
Query: 117 THTHRIGRTGRAGNKGVAYTLVT 139
+ HRIGRT R+G +G + +
Sbjct: 119 NYIHRIGRTARSGKEGSSVLFIC 141
>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 = 74.3 bits (181), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 31/83 (37%), Positives = 52/83 (62%)
Query: 57 KEYDVLLLHGDMDQSERNSVITKFKRQECRILVATDVAARGLDIPHIRTVVNYDLARDID 116
K+ +L HG + Q++R S++ +FK+ E ILV TDV ARG+D P++ V+ + ++
Sbjct: 59 KDLPILEFHGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELA 118
Query: 117 THTHRIGRTGRAGNKGVAYTLVT 139
+ HRIGRT R+G +G + +
Sbjct: 119 NYIHRIGRTARSGKEGSSVLFIC 141
>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 = 74.3 bits (181), Expect = 3e-14, Method: Compositional matrix adjust.
Identities = 31/83 (37%), Positives = 52/83 (62%)
Query: 57 KEYDVLLLHGDMDQSERNSVITKFKRQECRILVATDVAARGLDIPHIRTVVNYDLARDID 116
K+ +L HG + Q++R S++ +FK+ E ILV TDV ARG+D P++ V+ + ++
Sbjct: 59 KDLPILEFHGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELA 118
Query: 117 THTHRIGRTGRAGNKGVAYTLVT 139
+ HRIGRT R+G +G + +
Sbjct: 119 NYIHRIGRTARSGKEGSSVLFIC 141
>pdb|3SQX|A Chain A, Structure Of Mss116p (Nte And C-Tail Double Deletion)
Bound To Ssrna And Amp-Pnp
Length = 512
Score = 72.0 bits (175), Expect = 1e-13, Method: Composition-based stats.
Identities = 31/82 (37%), Positives = 52/82 (63%)
Query: 57 KEYDVLLLHGDMDQSERNSVITKFKRQECRILVATDVAARGLDIPHIRTVVNYDLARDID 116
K+ +L HG + Q++R S++ +FK+ E ILV TDV ARG+D P++ V+ + ++
Sbjct: 314 KDLPILEFHGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELA 373
Query: 117 THTHRIGRTGRAGNKGVAYTLV 138
+ HRIGRT R+G +G + +
Sbjct: 374 NYIHRIGRTARSGKEGSSVLFI 395
>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 = 71.6 bits (174), Expect = 2e-13, Method: Composition-based stats.
Identities = 31/82 (37%), Positives = 52/82 (63%)
Query: 57 KEYDVLLLHGDMDQSERNSVITKFKRQECRILVATDVAARGLDIPHIRTVVNYDLARDID 116
K+ +L HG + Q++R S++ +FK+ E ILV TDV ARG+D P++ V+ + ++
Sbjct: 365 KDLPILEFHGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELA 424
Query: 117 THTHRIGRTGRAGNKGVAYTLV 138
+ HRIGRT R+G +G + +
Sbjct: 425 NYIHRIGRTARSGKEGSSVLFI 446
>pdb|3SQW|A Chain A, Structure Of Mss116p (Nte Deletion) Bound To Ssrna And
Amp-Pnp
Length = 579
Score = 70.9 bits (172), Expect = 2e-13, Method: Composition-based stats.
Identities = 31/76 (40%), Positives = 50/76 (65%)
Query: 57 KEYDVLLLHGDMDQSERNSVITKFKRQECRILVATDVAARGLDIPHIRTVVNYDLARDID 116
K+ +L HG + Q++R S++ +FK+ E ILV TDV ARG+D P++ V+ + ++
Sbjct: 314 KDLPILEFHGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELA 373
Query: 117 THTHRIGRTGRAGNKG 132
+ HRIGRT R+G +G
Sbjct: 374 NYIHRIGRTARSGKEG 389
>pdb|3EIQ|A Chain A, Crystal Structure Of Pdcd4-eif4a
pdb|3EIQ|D Chain D, Crystal Structure Of Pdcd4-eif4a
Length = 414
Score = 70.1 bits (170), Expect = 4e-13, Method: Compositional matrix adjust.
Identities = 40/94 (42%), Positives = 63/94 (67%)
Query: 50 LANSLTVKEYDVLLLHGDMDQSERNSVITKFKRQECRILVATDVAARGLDIPHIRTVVNY 109
L + +++ V +HGDMDQ ER+ ++ +F+ R+L+ TD+ ARG+D+ + V+NY
Sbjct: 296 LTEKMHARDFTVSAMHGDMDQKERDVIMREFRSGSSRVLITTDLLARGIDVQQVSLVINY 355
Query: 110 DLARDIDTHTHRIGRTGRAGNKGVAYTLVTDKDK 143
DL + + + HRIGR GR G KGVA +VT++DK
Sbjct: 356 DLPTNRENYIHRIGRGGRFGRKGVAINMVTEEDK 389
>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 = 70.1 bits (170), Expect = 5e-13, Method: Compositional matrix adjust.
Identities = 35/84 (41%), Positives = 49/84 (58%)
Query: 37 ALMNLAMQLNAEELANSLTVKEYDVLLLHGDMDQSERNSVITKFKRQECRILVATDVAAR 96
A++ + EE+A L + LHGDM Q ER V+ F++ E R+LVATDVAAR
Sbjct: 31 AMVFTRTKAETEEIAQGLLRLGHPAQALHGDMSQGERERVMGAFRQGEVRVLVATDVAAR 90
Query: 97 GLDIPHIRTVVNYDLARDIDTHTH 120
GLDIP + VV+Y + + + H
Sbjct: 91 GLDIPQVDLVVHYRMPDRAEAYQH 114
>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 = 69.7 bits (169), Expect = 6e-13, Method: Compositional matrix adjust.
Identities = 40/94 (42%), Positives = 63/94 (67%)
Query: 50 LANSLTVKEYDVLLLHGDMDQSERNSVITKFKRQECRILVATDVAARGLDIPHIRTVVNY 109
L + +++ V +HGDMDQ ER+ ++ +F+ R+L+ TD+ ARG+D+ + V+NY
Sbjct: 270 LTEKMHARDFTVSAMHGDMDQKERDVIMREFRSGSSRVLITTDLLARGIDVQQVSLVINY 329
Query: 110 DLARDIDTHTHRIGRTGRAGNKGVAYTLVTDKDK 143
DL + + + HRIGR GR G KGVA +VT++DK
Sbjct: 330 DLPTNRENYIHRIGRGGRFGRKGVAINMVTEEDK 363
>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 = 68.2 bits (165), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 35/84 (41%), Positives = 49/84 (58%)
Query: 37 ALMNLAMQLNAEELANSLTVKEYDVLLLHGDMDQSERNSVITKFKRQECRILVATDVAAR 96
A++ + EE+A L + LHGD+ Q ER V+ F++ E R+LVATDVAAR
Sbjct: 34 AMVFTRTKAETEEIAQGLLRLGHPAQALHGDLSQGERERVLGAFRQGEVRVLVATDVAAR 93
Query: 97 GLDIPHIRTVVNYDLARDIDTHTH 120
GLDIP + VV+Y L + + H
Sbjct: 94 GLDIPQVDLVVHYRLPDRAEAYQH 117
>pdb|1FUK|A Chain A, Crystal Structure Of The Carboxy Terminal Domain Of Yeast
Eif4a
Length = 165
Score = 63.5 bits (153), Expect = 4e-11, Method: Compositional matrix adjust.
Identities = 45/138 (32%), Positives = 80/138 (57%), Gaps = 1/138 (0%)
Query: 5 KGVAYTLVTDKDKEFAGHLVRNLEGANQEVPPALMNLAMQLNAEELANSLTVKEYDVLLL 64
+G+ V +++E+ + +L + V A++ + EEL L ++ V +
Sbjct: 2 EGIKQFYVNVEEEEYKYECLTDLYDSIS-VTQAVIFCNTRRKVEELTTKLRNDKFTVSAI 60
Query: 65 HGDMDQSERNSVITKFKRQECRILVATDVAARGLDIPHIRTVVNYDLARDIDTHTHRIGR 124
+ D+ Q ER++++ +F+ RIL++TD+ ARG+D+ + V+NYDL + + + HRIGR
Sbjct: 61 YSDLPQQERDTIMKEFRSGSSRILISTDLLARGIDVQQVSLVINYDLPANKENYIHRIGR 120
Query: 125 TGRAGNKGVAYTLVTDKD 142
GR G KGVA VT++D
Sbjct: 121 GGRFGRKGVAINFVTNED 138
>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 = 63.2 bits (152), Expect = 6e-11, Method: Compositional matrix adjust.
Identities = 45/138 (32%), Positives = 80/138 (57%), Gaps = 1/138 (0%)
Query: 5 KGVAYTLVTDKDKEFAGHLVRNLEGANQEVPPALMNLAMQLNAEELANSLTVKEYDVLLL 64
+G+ V +++E+ + +L + V A++ + EEL L ++ V +
Sbjct: 232 EGIKQFYVNVEEEEYKYECLTDLYDSIS-VTQAVIFCNTRRKVEELTTKLRNDKFTVSAI 290
Query: 65 HGDMDQSERNSVITKFKRQECRILVATDVAARGLDIPHIRTVVNYDLARDIDTHTHRIGR 124
+ D+ Q ER++++ +F+ RIL++TD+ ARG+D+ + V+NYDL + + + HRIGR
Sbjct: 291 YSDLPQQERDTIMKEFRSGSSRILISTDLLARGIDVQQVSLVINYDLPANKENYIHRIGR 350
Query: 125 TGRAGNKGVAYTLVTDKD 142
GR G KGVA VT++D
Sbjct: 351 GGRFGRKGVAINFVTNED 368
>pdb|1FUU|A Chain A, Yeast Initiation Factor 4a
pdb|1FUU|B Chain B, Yeast Initiation Factor 4a
Length = 394
Score = 62.4 bits (150), Expect = 9e-11, Method: Compositional matrix adjust.
Identities = 45/138 (32%), Positives = 79/138 (57%), Gaps = 1/138 (0%)
Query: 5 KGVAYTLVTDKDKEFAGHLVRNLEGANQEVPPALMNLAMQLNAEELANSLTVKEYDVLLL 64
+G+ V +++E+ + +L + V A++ + EEL L ++ V +
Sbjct: 231 EGIKQFYVNVEEEEYKYECLTDLYDSIS-VTQAVIFCNTRRKVEELTTKLRNDKFTVSAI 289
Query: 65 HGDMDQSERNSVITKFKRQECRILVATDVAARGLDIPHIRTVVNYDLARDIDTHTHRIGR 124
+ D+ Q ER+++ +F+ RIL++TD+ ARG+D+ + V+NYDL + + + HRIGR
Sbjct: 290 YSDLPQQERDTIXKEFRSGSSRILISTDLLARGIDVQQVSLVINYDLPANKENYIHRIGR 349
Query: 125 TGRAGNKGVAYTLVTDKD 142
GR G KGVA VT++D
Sbjct: 350 GGRFGRKGVAINFVTNED 367
>pdb|1OYW|A Chain A, Structure Of The Recq Catalytic Core
Length = 523
Score = 54.3 bits (129), Expect = 3e-08, Method: Composition-based stats.
Identities = 27/82 (32%), Positives = 46/82 (56%)
Query: 48 EELANSLTVKEYDVLLLHGDMDQSERNSVITKFKRQECRILVATDVAARGLDIPHIRTVV 107
E+ A L K H ++ + R V KF+R + +I+VAT G++ P++R VV
Sbjct: 250 EDTAARLQSKGISAAAYHAGLENNVRADVQEKFQRDDLQIVVATVAFGXGINKPNVRFVV 309
Query: 108 NYDLARDIDTHTHRIGRTGRAG 129
++D+ R+I+++ GR GR G
Sbjct: 310 HFDIPRNIESYYQETGRAGRDG 331
>pdb|1OYY|A Chain A, Structure Of The Recq Catalytic Core Bound To Atp-Gamma-S
Length = 523
Score = 53.1 bits (126), Expect = 6e-08, Method: Compositional matrix adjust.
Identities = 27/82 (32%), Positives = 46/82 (56%)
Query: 48 EELANSLTVKEYDVLLLHGDMDQSERNSVITKFKRQECRILVATDVAARGLDIPHIRTVV 107
E+ A L K H ++ + R V KF+R + +I+VAT G++ P++R VV
Sbjct: 250 EDTAARLQSKGISAAAYHAGLENNVRADVQEKFQRDDLQIVVATVAFGMGINKPNVRFVV 309
Query: 108 NYDLARDIDTHTHRIGRTGRAG 129
++D+ R+I+++ GR GR G
Sbjct: 310 HFDIPRNIESYYQETGRAGRDG 331
>pdb|1GM5|A Chain A, Structure Of Recg Bound To Three-Way Dna Junction
Length = 780
Score = 49.3 bits (116), Expect = 8e-07, Method: Composition-based stats.
Identities = 37/141 (26%), Positives = 60/141 (42%), Gaps = 22/141 (15%)
Query: 1 RAGNKGVAYTLVTDKDKEFAGHLVRNLEGANQEVPPALMNLAMQLNAEELANSLTVKEYD 60
R G + Y L+ + DK V E ++EV P E+
Sbjct: 577 RGGQAFIVYPLIEESDKLNVKSAVEMYEYLSKEVFP---------------------EFK 615
Query: 61 VLLLHGDMDQSERNSVITKFKRQECRILVATDVAARGLDIPHIRTVVNYDLARDIDTHTH 120
+ L+HG + Q E++ V+ +F ILV+T V G+D+P +V + R H
Sbjct: 616 LGLMHGRLSQEEKDRVMLEFAEGRYDILVSTTVIEVGIDVPRANVMVIENPERFGLAQLH 675
Query: 121 RI-GRTGRAGNKGVAYTLVTD 140
++ GR GR G + + +V D
Sbjct: 676 QLRGRVGRGGQEAYCFLVVGD 696
>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 = 44.7 bits (104), Expect = 2e-05, Method: Composition-based stats.
Identities = 23/60 (38%), Positives = 32/60 (53%)
Query: 68 MDQSERNSVITKFKRQECRILVATDVAARGLDIPHIRTVVNYDLARDIDTHTHRIGRTGR 127
+ Q E+ ++ +F R E +LVAT V GLD+P + VV Y+ R GRTGR
Sbjct: 403 LSQREQKLILDEFARGEFNVLVATSVGEEGLDVPEVDLVVFYEPVPSAIRSIQRRGRTGR 462
>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 = 43.1 bits (100), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 32/100 (32%), Positives = 49/100 (49%), Gaps = 11/100 (11%)
Query: 43 MQLNAEELANSLTVKEYDVLLLHGDMDQSERNSVITKFKRQECRILVATDVAARGLDIPH 102
+Q AE LA V E + + HG M + E V+ F Q +LV T + G+DIP
Sbjct: 825 IQKAAERLAE--LVPEARIAIGHGQMRERELERVMNDFHHQRFNVLVCTTIIETGIDIPT 882
Query: 103 IRTVV-----NYDLARDIDTHTHRIGRTGRAGNKGVAYTL 137
T++ ++ LA+ H R GR GR+ ++ A+ L
Sbjct: 883 ANTIIIERADHFGLAQ---LHQLR-GRVGRSHHQAYAWLL 918
>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 = 43.1 bits (100), Expect = 7e-05, Method: Composition-based stats.
Identities = 20/84 (23%), Positives = 45/84 (53%)
Query: 44 QLNAEELANSLTVKEYDVLLLHGDMDQSERNSVITKFKRQECRILVATDVAARGLDIPHI 103
Q ++E++ SL H +++ ++ +V K+ E +++VAT G+D P +
Sbjct: 277 QKDSEQVTVSLQNLGIHAGAYHANLEPEDKTTVHRKWSANEIQVVVATVAFGMGIDKPDV 336
Query: 104 RTVVNYDLARDIDTHTHRIGRTGR 127
R V+++ +++ ++ + GR GR
Sbjct: 337 RFVIHHSMSKSMENYYQESGRAGR 360
>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 = 41.6 bits (96), Expect = 2e-04, Method: Composition-based stats.
Identities = 25/71 (35%), Positives = 35/71 (49%), Gaps = 3/71 (4%)
Query: 68 MDQSERNSVITKFKRQECRILVATDVAARGLDIPHIRTVVNYDLARDIDTHTHRIGRTGR 127
M Q+E+ VI+KF+ + +L+AT VA GLDI V+ Y L + + GR
Sbjct: 448 MTQNEQKEVISKFRTGKINLLIATTVAEEGLDIKECNIVIRYGL---VTNEIAMVQARGR 504
Query: 128 AGNKGVAYTLV 138
A Y LV
Sbjct: 505 ARADESTYVLV 515
>pdb|4I1S|A Chain A, Melanoma Differentiation Associated Protein-5 Helicase
Domain Complex With Inhibitor Non-structural Protein V
Length = 243
Score = 38.1 bits (87), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 18/42 (42%), Positives = 26/42 (61%)
Query: 70 QSERNSVITKFKRQECRILVATDVAARGLDIPHIRTVVNYDL 111
Q+E+ VI+KF+ + +L+AT VA GLDI V+ Y L
Sbjct: 200 QNEQREVISKFRTGKINLLIATTVAEEGLDIKECNIVIRYGL 241
>pdb|2VA8|A Chain A, Dna Repair Helicase Hel308
pdb|2VA8|B Chain B, Dna Repair Helicase Hel308
Length = 715
Score = 37.0 bits (84), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 29/109 (26%), Positives = 53/109 (48%), Gaps = 15/109 (13%)
Query: 48 EELANSLTVKEYDVLLLHGDMDQSERNSVITKFKRQECRILVATDVAARGLDIPHIRTVV 107
+EL SL K V H + ++ R+ + F++++ +++VAT A G+++P RTV+
Sbjct: 304 KELLKSLISK--GVAYHHAGLSKALRDLIEEGFRQRKIKVIVATPTLAAGVNLPA-RTVI 360
Query: 108 NYDLAR------------DIDTHTHRIGRTGRAGNKGVAYTLVTDKDKD 144
D+ R I + GR GR G + ++V +DK+
Sbjct: 361 IGDIYRFNKKIAGYYDEIPIMEYKQMSGRAGRPGFDQIGESIVVVRDKE 409
>pdb|2P6R|A Chain A, Crystal Structure Of Superfamily 2 Helicase Hel308 In
Complex With Unwound Dna
pdb|2P6U|A Chain A, Apo Structure Of The Hel308 Superfamily 2 Helicase
Length = 702
Score = 35.8 bits (81), Expect = 0.010, Method: Composition-based stats.
Identities = 23/89 (25%), Positives = 40/89 (44%), Gaps = 9/89 (10%)
Query: 65 HGDMDQSERNSVITKFKRQECRILVATDVAARGLDIPHIRTVV-------NYDLARDIDT 117
H + +R V F+R +++VAT A G+++P R +V Y +
Sbjct: 303 HAGLLNGQRRVVEDAFRRGNIKVVVATPTLAAGVNLPARRVIVRSLYRFDGYSKRIKVSE 362
Query: 118 HTHRIGRTGRAG--NKGVAYTLVTDKDKD 144
+ GR GR G +G A +V +D++
Sbjct: 363 YKQMAGRAGRPGMDERGEAIIIVGKRDRE 391
>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 = 35.4 bits (80), Expect = 0.013, Method: Composition-based stats.
Identities = 29/88 (32%), Positives = 44/88 (50%), Gaps = 10/88 (11%)
Query: 61 VLLLHGDMDQS------ERNSVITKFK-RQECRILVATDVAARGLDIPHIRTVVNYDLAR 113
VL+ G DQ+ + V+ FK ++ R+L+AT VA G+DI VV Y+ +
Sbjct: 664 VLMGRGRRDQTTGMTLPSQKGVLDAFKTSKDNRLLIATSVADEGIDIVQCNLVVLYEYSG 723
Query: 114 DIDTHTHRIGRTGRAGNKGVAYTLVTDK 141
++ GR AG+K + LVT K
Sbjct: 724 NVTKMIQVRGRGRAAGSKCI---LVTSK 748
>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 = 35.0 bits (79), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 29/88 (32%), Positives = 44/88 (50%), Gaps = 10/88 (11%)
Query: 61 VLLLHGDMDQS------ERNSVITKFK-RQECRILVATDVAARGLDIPHIRTVVNYDLAR 113
VL+ G DQ+ + V+ FK ++ R+L+AT VA G+DI VV Y+ +
Sbjct: 664 VLMGRGRRDQTTGMTLPSQKGVLDAFKTSKDNRLLIATSVADEGIDIVQCNLVVLYEYSG 723
Query: 114 DIDTHTHRIGRTGRAGNKGVAYTLVTDK 141
++ GR AG+K + LVT K
Sbjct: 724 NVTKMIQVRGRGRAAGSKCI---LVTSK 748
>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 = 35.0 bits (79), Expect = 0.016, Method: Composition-based stats.
Identities = 27/87 (31%), Positives = 43/87 (49%), Gaps = 7/87 (8%)
Query: 61 VLLLHGDMDQS------ERNSVITKFK-RQECRILVATDVAARGLDIPHIRTVVNYDLAR 113
VL+ G DQ+ + V+ FK ++ R+L+AT VA G+DI VV Y+ +
Sbjct: 423 VLMGRGRRDQTTGMTLPSQKGVLDAFKTSKDNRLLIATSVADEGIDIVQCNLVVLYEYSG 482
Query: 114 DIDTHTHRIGRTGRAGNKGVAYTLVTD 140
++ GR AG+K + T T+
Sbjct: 483 NVTKMIQVRGRGRAAGSKCILVTSKTE 509
>pdb|1D9X|A Chain A, Crystal Structure Of The Dna Repair Protein Uvrb
Length = 658
Score = 33.5 bits (75), Expect = 0.048, Method: Compositional matrix adjust.
Identities = 25/89 (28%), Positives = 39/89 (43%), Gaps = 5/89 (5%)
Query: 47 AEELANSLTVKEYDVLLLHGDMDQSERNSVITKFKRQECRILVATDVAARGLDIPHIRTV 106
AE+L + L V LH ++ ER +I + + +LV ++ GLDIP + V
Sbjct: 458 AEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLREGLDIPEVSLV 517
Query: 107 VNYDLARDIDTHTHR-----IGRTGRAGN 130
D ++ + R IGR R N
Sbjct: 518 AILDADKEGFLRSERSLIQTIGRAARNAN 546
>pdb|1D9Z|A Chain A, Crystal Structure Of The Dna Repair Protein Uvrb In
Complex With Atp
Length = 657
Score = 33.5 bits (75), Expect = 0.048, Method: Compositional matrix adjust.
Identities = 25/89 (28%), Positives = 39/89 (43%), Gaps = 5/89 (5%)
Query: 47 AEELANSLTVKEYDVLLLHGDMDQSERNSVITKFKRQECRILVATDVAARGLDIPHIRTV 106
AE+L + L V LH ++ ER +I + + +LV ++ GLDIP + V
Sbjct: 457 AEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLREGLDIPEVSLV 516
Query: 107 VNYDLARDIDTHTHR-----IGRTGRAGN 130
D ++ + R IGR R N
Sbjct: 517 AILDADKEGFLRSERSLIQTIGRAARNAN 545
>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 = 33.5 bits (75), Expect = 0.049, Method: Compositional matrix adjust.
Identities = 25/89 (28%), Positives = 39/89 (43%), Gaps = 5/89 (5%)
Query: 47 AEELANSLTVKEYDVLLLHGDMDQSERNSVITKFKRQECRILVATDVAARGLDIPHIRTV 106
AE+L + L V LH ++ ER +I + + +LV ++ GLDIP + V
Sbjct: 458 AEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLREGLDIPEVSLV 517
Query: 107 VNYDLARDIDTHTHR-----IGRTGRAGN 130
D ++ + R IGR R N
Sbjct: 518 AILDADKEGFLRSERSLIQTIGRAARNAN 546
>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 = 33.5 bits (75), Expect = 0.049, Method: Compositional matrix adjust.
Identities = 25/89 (28%), Positives = 39/89 (43%), Gaps = 5/89 (5%)
Query: 47 AEELANSLTVKEYDVLLLHGDMDQSERNSVITKFKRQECRILVATDVAARGLDIPHIRTV 106
AE+L + L V LH ++ ER +I + + +LV ++ GLDIP + V
Sbjct: 458 AEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLREGLDIPEVSLV 517
Query: 107 VNYDLARDIDTHTHR-----IGRTGRAGN 130
D ++ + R IGR R N
Sbjct: 518 AILDADKEGFLRSERSLIQTIGRAARNAN 546
>pdb|3UWX|B Chain B, Crystal Structure Of Uvra-Uvrb Complex
Length = 683
Score = 33.5 bits (75), Expect = 0.050, Method: Compositional matrix adjust.
Identities = 25/89 (28%), Positives = 39/89 (43%), Gaps = 5/89 (5%)
Query: 47 AEELANSLTVKEYDVLLLHGDMDQSERNSVITKFKRQECRILVATDVAARGLDIPHIRTV 106
AE+L + L V LH ++ ER +I + + +LV ++ GLDIP + V
Sbjct: 483 AEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLREGLDIPEVSLV 542
Query: 107 VNYDLARDIDTHTHR-----IGRTGRAGN 130
D ++ + R IGR R N
Sbjct: 543 AILDADKEGFLRSERSLIQTIGRAARNAN 571
>pdb|1Z5Z|A Chain A, Sulfolobus Solfataricus Swi2SNF2 ATPASE C-Terminal Domain
pdb|1Z5Z|B Chain B, Sulfolobus Solfataricus Swi2SNF2 ATPASE C-Terminal Domain
Length = 271
Score = 31.2 bits (69), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 19/76 (25%), Positives = 38/76 (50%), Gaps = 5/76 (6%)
Query: 60 DVLLLHGDMDQSERNSVITKFKRQECRILVATDVAA--RGLDIPHIRTVVNYDLARDI-- 115
+V L+G++ + ER+ +I+KF+ + V A G+++ V+++D +
Sbjct: 139 EVPFLYGELSKKERDDIISKFQNNPSVKFIVLSVKAGGFGINLTSANRVIHFDRWWNPAV 198
Query: 116 -DTHTHRIGRTGRAGN 130
D T R+ R G+ N
Sbjct: 199 EDQATDRVYRIGQTRN 214
>pdb|1D2M|A Chain A, Uvrb Protein Of Thermus Thermophilus Hb8; A Nucleotide
Excision Repair Enzyme
Length = 665
Score = 31.2 bits (69), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 24/86 (27%), Positives = 37/86 (43%), Gaps = 5/86 (5%)
Query: 47 AEELANSLTVKEYDVLLLHGDMDQSERNSVITKFKRQECRILVATDVAARGLDIPHIRTV 106
AEEL + L LH ++D +R ++I + LV ++ GLDIP + V
Sbjct: 453 AEELTSFLVEHGIRARYLHHELDAFKRQALIRDLRLGHYDCLVGINLLREGLDIPEVSLV 512
Query: 107 VNYDLARDIDTHTHR-----IGRTGR 127
D ++ + R IGR R
Sbjct: 513 AILDADKEGFLRSERSLIQTIGRAAR 538
>pdb|1C4O|A Chain A, Crystal Structure Of The Dna Nucleotide Excision Repair
Enzyme Uvrb From Thermus Thermophilus
Length = 664
Score = 31.2 bits (69), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 24/86 (27%), Positives = 37/86 (43%), Gaps = 5/86 (5%)
Query: 47 AEELANSLTVKEYDVLLLHGDMDQSERNSVITKFKRQECRILVATDVAARGLDIPHIRTV 106
AEEL + L LH ++D +R ++I + LV ++ GLDIP + V
Sbjct: 452 AEELTSFLVEHGIRARYLHHELDAFKRQALIRDLRLGHYDCLVGINLLREGLDIPEVSLV 511
Query: 107 VNYDLARDIDTHTHR-----IGRTGR 127
D ++ + R IGR R
Sbjct: 512 AILDADKEGFLRSERSLIQTIGRAAR 537
>pdb|1Z6A|A Chain A, Sulfolobus Solfataricus Swi2SNF2 ATPASE CORE DOMAIN
Length = 500
Score = 29.6 bits (65), Expect = 0.63, Method: Composition-based stats.
Identities = 19/76 (25%), Positives = 38/76 (50%), Gaps = 5/76 (6%)
Query: 60 DVLLLHGDMDQSERNSVITKFKRQECRILVATDVAAR--GLDIPHIRTVVNYDLARDI-- 115
+V L+G++ + ER+ +I+KF+ + V A G+++ V+++D +
Sbjct: 368 EVPFLYGELSKKERDDIISKFQNNPSVKFIVLSVKAGGFGINLTSANRVIHFDRWWNPAV 427
Query: 116 -DTHTHRIGRTGRAGN 130
D T R+ R G+ N
Sbjct: 428 EDQATDRVYRIGQTRN 443
>pdb|1Z63|A Chain A, Sulfolobus Solfataricus Swi2SNF2 ATPASE CORE IN COMPLEX
With Dsdna
pdb|1Z63|B Chain B, Sulfolobus Solfataricus Swi2SNF2 ATPASE CORE IN COMPLEX
With Dsdna
Length = 500
Score = 29.6 bits (65), Expect = 0.63, Method: Composition-based stats.
Identities = 19/76 (25%), Positives = 38/76 (50%), Gaps = 5/76 (6%)
Query: 60 DVLLLHGDMDQSERNSVITKFKRQECRILVATDVAAR--GLDIPHIRTVVNYDLARDI-- 115
+V L+G++ + ER+ +I+KF+ + V A G+++ V+++D +
Sbjct: 368 EVPFLYGELSKKERDDIISKFQNNPSVKFIVLSVKAGGFGINLTSANRVIHFDRWWNPAV 427
Query: 116 -DTHTHRIGRTGRAGN 130
D T R+ R G+ N
Sbjct: 428 EDQATDRVYRIGQTRN 443
>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 = 28.9 bits (63), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 23/86 (26%), Positives = 38/86 (44%), Gaps = 5/86 (5%)
Query: 47 AEELANSLTVKEYDVLLLHGDMDQSERNSVITKFKRQECRILVATDVAARGLDIPHIRTV 106
+E+L + L V LH ++ ER +I + + +LV ++ GLDIP + V
Sbjct: 464 SEDLTDYLKEIGIKVNYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLREGLDIPEVSLV 523
Query: 107 VNYDLARDIDTHTHR-----IGRTGR 127
D ++ + R IGR R
Sbjct: 524 AILDADKEGFLRSERSLIQTIGRAAR 549
>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 = 28.9 bits (63), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 23/86 (26%), Positives = 38/86 (44%), Gaps = 5/86 (5%)
Query: 47 AEELANSLTVKEYDVLLLHGDMDQSERNSVITKFKRQECRILVATDVAARGLDIPHIRTV 106
+E+L + L V LH ++ ER +I + + +LV ++ GLDIP + V
Sbjct: 458 SEDLTDYLKEIGIKVNYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLREGLDIPEVSLV 517
Query: 107 VNYDLARDIDTHTHR-----IGRTGR 127
D ++ + R IGR R
Sbjct: 518 AILDADKEGFLRSERSLIQTIGRAAR 543
>pdb|3RC3|A Chain A, Human Mitochondrial Helicase Suv3
Length = 677
Score = 28.5 bits (62), Expect = 1.5, Method: Composition-based stats.
Identities = 16/66 (24%), Positives = 34/66 (51%), Gaps = 3/66 (4%)
Query: 50 LANSLTVKEYDVLLLHGDMDQSERNSVITKFK--RQECRILVATDVAARGLDIPHIRTVV 107
++ + ++ + +++G + + + KF C+ILVATD GL++ IR ++
Sbjct: 336 VSRQIEIRGLESAVIYGSLPPGTKLAQAKKFNDPNDPCKILVATDAIGXGLNLS-IRRII 394
Query: 108 NYDLAR 113
Y L +
Sbjct: 395 FYSLIK 400
>pdb|3RC8|A Chain A, Human Mitochondrial Helicase Suv3 In Complex With Short
Rna Fragment
Length = 677
Score = 28.5 bits (62), Expect = 1.5, Method: Composition-based stats.
Identities = 16/66 (24%), Positives = 34/66 (51%), Gaps = 3/66 (4%)
Query: 50 LANSLTVKEYDVLLLHGDMDQSERNSVITKFK--RQECRILVATDVAARGLDIPHIRTVV 107
++ + ++ + +++G + + + KF C+ILVATD GL++ IR ++
Sbjct: 336 VSRQIEIRGLESAVIYGSLPPGTKLAQAKKFNDPNDPCKILVATDAIGMGLNLS-IRRII 394
Query: 108 NYDLAR 113
Y L +
Sbjct: 395 FYSLIK 400
>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 = 2.1, Method: Composition-based stats.
Identities = 18/73 (24%), Positives = 32/73 (43%), Gaps = 3/73 (4%)
Query: 70 QSERNSVITKFKRQECRILVATDVAARGLDIPHIRTVV---NYDLARDIDTHTHRIGRTG 126
+ ER ++ F+ R +V++ V G+D+P V AR+ RI R
Sbjct: 380 REEREEILEGFRTGRFRAIVSSQVLDEGIDVPDANVGVIMSGSGSAREYIQRLGRILRPS 439
Query: 127 RAGNKGVAYTLVT 139
+ + V Y L++
Sbjct: 440 KGKKEAVLYELIS 452
>pdb|3DMQ|A Chain A, Crystal Structure Of Rapa, A Swi2SNF2 PROTEIN THAT
Recycles Rna Polymerase During Transcription
pdb|3DMQ|B Chain B, Crystal Structure Of Rapa, A Swi2SNF2 PROTEIN THAT
Recycles Rna Polymerase During Transcription
Length = 968
Score = 28.1 bits (61), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 15/61 (24%), Positives = 28/61 (45%), Gaps = 2/61 (3%)
Query: 72 ERNSVITKFKRQE--CRILVATDVAARGLDIPHIRTVVNYDLARDIDTHTHRIGRTGRAG 129
ER+ F ++ ++L+ +++ + G + V +DL + D RIGR R G
Sbjct: 542 ERDRAAAWFAEEDTGAQVLLCSEIGSEGRNFQFASHXVXFDLPFNPDLLEQRIGRLDRIG 601
Query: 130 N 130
Sbjct: 602 Q 602
>pdb|4AY2|A Chain A, Capturing 5' Tri-Phosphorylated Rna Duplex By Rig-I
Length = 687
Score = 27.7 bits (60), Expect = 2.8, Method: Composition-based stats.
Identities = 15/45 (33%), Positives = 22/45 (48%)
Query: 87 ILVATDVAARGLDIPHIRTVVNYDLARDIDTHTHRIGRTGRAGNK 131
IL+AT VA G+DI V+ Y+ ++ GR G+K
Sbjct: 455 ILIATSVADEGIDIAQCNLVILYEYVGNVIKMIQTRGRGRARGSK 499
>pdb|3TMI|A Chain A, Structural Basis For Rna Recognition And Activation Of
Rig-I
Length = 695
Score = 27.7 bits (60), Expect = 2.8, Method: Composition-based stats.
Identities = 15/45 (33%), Positives = 22/45 (48%)
Query: 87 ILVATDVAARGLDIPHIRTVVNYDLARDIDTHTHRIGRTGRAGNK 131
IL+AT VA G+DI V+ Y+ ++ GR G+K
Sbjct: 463 ILIATSVADEGIDIAQCNLVILYEYVGNVIKMIQTRGRGRARGSK 507
>pdb|2YKG|A Chain A, Structural Insights Into Rna Recognition By Rig-I
Length = 696
Score = 27.3 bits (59), Expect = 3.0, Method: Composition-based stats.
Identities = 15/45 (33%), Positives = 22/45 (48%)
Query: 87 ILVATDVAARGLDIPHIRTVVNYDLARDIDTHTHRIGRTGRAGNK 131
IL+AT VA G+DI V+ Y+ ++ GR G+K
Sbjct: 464 ILIATSVADEGIDIAQCNLVILYEYVGNVIKMIQTRGRGRARGSK 508
>pdb|1TF2|A Chain A, Crystal Structure Of Seca:adp In An Open Conformation From
Bacillus Subtilis
pdb|1TF5|A Chain A, Crystal Structure Of Seca In An Open Conformation From
Bacillus Subtilis
Length = 844
Score = 27.3 bits (59), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 23/80 (28%), Positives = 38/80 (47%), Gaps = 8/80 (10%)
Query: 72 ERNSVITKFKRQECRILVATDVAARGLDIPHIRTVVNYDLARDIDTHTH---RI-----G 123
ER + I + Q+ + +AT++A RG DI V + T H RI G
Sbjct: 468 EREAQIIEEAGQKGAVTIATNMAGRGTDIKLGEGVKELGGLAVVGTERHESRRIDNQLRG 527
Query: 124 RTGRAGNKGVAYTLVTDKDK 143
R+GR G+ G+ ++ +D+
Sbjct: 528 RSGRQGDPGITQFYLSMEDE 547
>pdb|3IQM|A Chain A, Active Site Mutants Of B. Subtilis Seca
Length = 802
Score = 27.3 bits (59), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 23/80 (28%), Positives = 38/80 (47%), Gaps = 8/80 (10%)
Query: 72 ERNSVITKFKRQECRILVATDVAARGLDIPHIRTVVNYDLARDIDTHTH---RI-----G 123
ER + I + Q+ + +AT++A RG DI V + T H RI G
Sbjct: 465 EREAQIIEEAGQKGAVTIATNMAGRGTDIKLGEGVKELGGLAVVGTERHESRRIDNQLRG 524
Query: 124 RTGRAGNKGVAYTLVTDKDK 143
R+GR G+ G+ ++ +D+
Sbjct: 525 RSGRQGDPGITQFYLSMEDE 544
>pdb|1M6N|A Chain A, Crystal Structure Of The Seca Translocation Atpase From
Bacillus Subtilis
pdb|1M74|A Chain A, Crystal Structure Of Mg-Adp-Bound Seca From Bacillus
Subtilis
Length = 802
Score = 27.3 bits (59), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 23/80 (28%), Positives = 38/80 (47%), Gaps = 8/80 (10%)
Query: 72 ERNSVITKFKRQECRILVATDVAARGLDIPHIRTVVNYDLARDIDTHTH---RI-----G 123
ER + I + Q+ + +AT++A RG DI V + T H RI G
Sbjct: 465 EREAQIIEEAGQKGAVTIATNMAGRGTDIKLGEGVKELGGLAVVGTERHESRRIDNQLRG 524
Query: 124 RTGRAGNKGVAYTLVTDKDK 143
R+GR G+ G+ ++ +D+
Sbjct: 525 RSGRQGDPGITQFYLSMEDE 544
>pdb|3JV2|A Chain A, Crystal Structure Of B. Subtilis Seca With Bound Peptide
pdb|3JV2|B Chain B, Crystal Structure Of B. Subtilis Seca With Bound Peptide
Length = 783
Score = 27.3 bits (59), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 23/80 (28%), Positives = 38/80 (47%), Gaps = 8/80 (10%)
Query: 72 ERNSVITKFKRQECRILVATDVAARGLDIPHIRTVVNYDLARDIDTHTH---RI-----G 123
ER + I + Q+ + +AT++A RG DI V + T H RI G
Sbjct: 468 EREAQIIEEAGQKGAVTIATNMAGRGTDIKLGEGVKELGGLAVVGTERHESRRIDNQLRG 527
Query: 124 RTGRAGNKGVAYTLVTDKDK 143
R+GR G+ G+ ++ +D+
Sbjct: 528 RSGRQGDPGITQFYLSMEDE 547
>pdb|3DL8|A Chain A, Structure Of The Complex Of Aquifex Aeolicus Secyeg And
Bacillus Subtilis Seca
pdb|3DL8|B Chain B, Structure Of The Complex Of Aquifex Aeolicus Secyeg And
Bacillus Subtilis Seca
Length = 779
Score = 27.3 bits (59), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 23/80 (28%), Positives = 38/80 (47%), Gaps = 8/80 (10%)
Query: 72 ERNSVITKFKRQECRILVATDVAARGLDIPHIRTVVNYDLARDIDTHTH---RI-----G 123
ER + I + Q+ + +AT++A RG DI V + T H RI G
Sbjct: 465 EREAQIIEEAGQKGAVTIATNMAGRGTDIKLGEGVKELGGLAVVGTERHESRRIDNQLRG 524
Query: 124 RTGRAGNKGVAYTLVTDKDK 143
R+GR G+ G+ ++ +D+
Sbjct: 525 RSGRQGDPGITQFYLSMEDE 544
>pdb|2IBM|A Chain A, A Novel Dimer Interface And Conformational Changes
Revealed By An X- Ray Structure Of B. Subtilis Seca
pdb|2IBM|B Chain B, A Novel Dimer Interface And Conformational Changes
Revealed By An X- Ray Structure Of B. Subtilis Seca
Length = 780
Score = 27.3 bits (59), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 23/80 (28%), Positives = 38/80 (47%), Gaps = 8/80 (10%)
Query: 72 ERNSVITKFKRQECRILVATDVAARGLDIPHIRTVVNYDLARDIDTHTH---RI-----G 123
ER + I + Q+ + +AT++A RG DI V + T H RI G
Sbjct: 465 EREAQIIEEAGQKGAVTIATNMAGRGTDIKLGEGVKELGGLAVVGTERHESRRIDNQLRG 524
Query: 124 RTGRAGNKGVAYTLVTDKDK 143
R+GR G+ G+ ++ +D+
Sbjct: 525 RSGRQGDPGITQFYLSMEDE 544
>pdb|3TBK|A Chain A, Mouse Rig-I Atpase Domain
Length = 555
Score = 26.6 bits (57), Expect = 5.3, Method: Composition-based stats.
Identities = 16/42 (38%), Positives = 22/42 (52%), Gaps = 1/42 (2%)
Query: 87 ILVATDVAARGLDIPHIRTVVNYDLARDIDTHTHRIGRTGRA 128
IL+AT VA G+DI V+ Y+ ++ GR GRA
Sbjct: 455 ILIATSVADEGIDIAECNLVILYEYVGNVIKXIQTRGR-GRA 495
>pdb|2FZL|A Chain A, Structure Of C-Terminal Domain Of Archaeoglobus Fulgidus
Xpb
Length = 219
Score = 26.6 bits (57), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 18/74 (24%), Positives = 32/74 (43%), Gaps = 3/74 (4%)
Query: 69 DQSERNSVITKFKRQECRILVATDVAARGLDIPHIRTVV---NYDLARDIDTHTHRIGRT 125
+ ER ++ F+ R +V++ V G+D+P V AR+ RI R
Sbjct: 144 SREEREEILEGFRTGRFRAIVSSQVLDEGIDVPDANVGVIMSGSGSAREYIQRLGRILRP 203
Query: 126 GRAGNKGVAYTLVT 139
+ + V Y L++
Sbjct: 204 SKGKKEAVLYELIS 217
>pdb|3IQY|A Chain A, Active Site Mutants Of B. Subtilis Seca
Length = 841
Score = 25.8 bits (55), Expect = 8.8, Method: Compositional matrix adjust.
Identities = 22/80 (27%), Positives = 38/80 (47%), Gaps = 8/80 (10%)
Query: 72 ERNSVITKFKRQECRILVATDVAARGLDIPHIRTVVNYDLARDIDTHTH---RI-----G 123
ER + I + Q+ + +AT++A +G DI V + T H RI G
Sbjct: 465 EREAQIIEEAGQKGAVTIATNMAGKGTDIKLGEGVKELGGLAVVGTERHESRRIDNQLRG 524
Query: 124 RTGRAGNKGVAYTLVTDKDK 143
R+GR G+ G+ ++ +D+
Sbjct: 525 RSGRQGDPGITQFYLSMEDE 544
>pdb|1T3Q|B Chain B, Crystal Structure Of Quinoline 2-Oxidoreductase From
Pseudomonas Putida 86
pdb|1T3Q|E Chain E, Crystal Structure Of Quinoline 2-Oxidoreductase From
Pseudomonas Putida 86
Length = 788
Score = 25.8 bits (55), Expect = 8.9, Method: Compositional matrix adjust.
Identities = 13/33 (39%), Positives = 23/33 (69%), Gaps = 3/33 (9%)
Query: 2 AGNKGVAYTLVTDKDKEFAGHLVRNLEGANQEV 34
AG+ G A ++V ++ K+ AGHL LE A++++
Sbjct: 554 AGSIGRAASIVRERVKQLAGHL---LEAASEDI 583
>pdb|3JUX|A Chain A, Structure Of The Translocation Atpase Seca From Thermotoga
Maritima
Length = 822
Score = 25.8 bits (55), Expect = 9.2, Method: Composition-based stats.
Identities = 36/140 (25%), Positives = 58/140 (41%), Gaps = 10/140 (7%)
Query: 11 LVTDKDKEFAGHLVRNLEGANQEVPPALMNLAMQLNAEELANSLTVKEYDVLLLHGDMDQ 70
LV KE +V +E ++ P L+ +E L++ L K +L+
Sbjct: 451 LVFRTQKEKYEKIVEEIEKRYKKGQPVLVGTTSIEKSELLSSMLKKKGIPHQVLNAKY-- 508
Query: 71 SERNSVITKFKRQECRILVATDVAARGLDIPHIRTVVNYDLARDIDTHTH---RI----- 122
E+ + I Q+ + +AT++A RG DI V I T H RI
Sbjct: 509 HEKEAEIVAKAGQKGMVTIATNMAGRGTDIKLGPGVAELGGLCIIGTERHESRRIDNQLR 568
Query: 123 GRTGRAGNKGVAYTLVTDKD 142
GR GR G+ G + ++ +D
Sbjct: 569 GRAGRQGDPGESIFFLSLED 588
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
0.316 0.133 0.373
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,168,046
Number of Sequences: 62578
Number of extensions: 146796
Number of successful extensions: 574
Number of sequences better than 100.0: 93
Number of HSP's better than 100.0 without gapping: 74
Number of HSP's successfully gapped in prelim test: 19
Number of HSP's that attempted gapping in prelim test: 455
Number of HSP's gapped (non-prelim): 126
length of query: 150
length of database: 14,973,337
effective HSP length: 90
effective length of query: 60
effective length of database: 9,341,317
effective search space: 560479020
effective search space used: 560479020
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 47 (22.7 bits)