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= 037139
(135 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 = 122 bits (307), Expect = 5e-29, Method: Compositional matrix adjust.
Identities = 57/108 (52%), Positives = 73/108 (67%), Gaps = 1/108 (0%)
Query: 2 GYRVTTLHGGKSQEQREISLEGFRTKRYNVLVATDVAGRGIDIPDVAHVINYDMPGNIEM 61
G +HGGK QE+R ++E FR + +VLVATDVA +G+D P + HVINYDMP IE
Sbjct: 78 GVEAVAIHGGKDQEERTKAIEAFREGKKDVLVATDVASKGLDFPAIQHVINYDMPEEIEN 137
Query: 62 YTHRIGRTGRAGKTGVATTFLT-FHDTDVFYDLKQMLIQSNSPVPPEL 108
Y HRIGRTG +G TG+ATTF+ D V DLK +L+++ VPP L
Sbjct: 138 YVHRIGRTGCSGNTGIATTFINKACDESVLMDLKALLLEAKQKVPPVL 185
>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 = 112 bits (280), Expect = 6e-26, Method: Compositional matrix adjust.
Identities = 51/107 (47%), Positives = 72/107 (67%)
Query: 2 GYRVTTLHGGKSQEQREISLEGFRTKRYNVLVATDVAGRGIDIPDVAHVINYDMPGNIEM 61
GY T++HG +SQ RE +L FR+ + +LVAT VA RG+DI +V HVIN+D+P +IE
Sbjct: 70 GYACTSIHGDRSQRDREEALHQFRSGKSPILVATAVAARGLDISNVKHVINFDLPSDIEE 129
Query: 62 YTHRIGRTGRAGKTGVATTFLTFHDTDVFYDLKQMLIQSNSPVPPEL 108
Y HRIGRTGR G G+AT+F + ++ DL +L+++ VP L
Sbjct: 130 YVHRIGRTGRVGNLGLATSFFNERNINITKDLLDLLVEAKQEVPSWL 176
>pdb|2I4I|A Chain A, Crystal Structure Of Human Dead-Box Rna Helicase Ddx3x
Length = 417
Score = 111 bits (278), Expect = 1e-25, Method: Compositional matrix adjust.
Identities = 51/107 (47%), Positives = 72/107 (67%)
Query: 2 GYRVTTLHGGKSQEQREISLEGFRTKRYNVLVATDVAGRGIDIPDVAHVINYDMPGNIEM 61
GY T++HG +SQ RE +L FR+ + +LVAT VA RG+DI +V HVIN+D+P +IE
Sbjct: 300 GYACTSIHGDRSQRDREEALHQFRSGKSPILVATAVAARGLDISNVKHVINFDLPSDIEE 359
Query: 62 YTHRIGRTGRAGKTGVATTFLTFHDTDVFYDLKQMLIQSNSPVPPEL 108
Y HRIGRTGR G G+AT+F + ++ DL +L+++ VP L
Sbjct: 360 YVHRIGRTGRVGNLGLATSFFNERNINITKDLLDLLVEAKQEVPSWL 406
>pdb|2J0U|A Chain A, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 96.3 bits (238), Expect = 4e-21, Method: Compositional matrix adjust.
Identities = 44/107 (41%), Positives = 68/107 (63%)
Query: 3 YRVTTLHGGKSQEQREISLEGFRTKRYNVLVATDVAGRGIDIPDVAHVINYDMPGNIEMY 62
+ V+++HG Q++RE ++ FR+ VL++TDV RG+D+P V+ +INYD+P N E+Y
Sbjct: 265 FTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLPNNRELY 324
Query: 63 THRIGRTGRAGKTGVATTFLTFHDTDVFYDLKQMLIQSNSPVPPELA 109
HRIGR+GR G+ GVA F+ D V D++Q +P +A
Sbjct: 325 IHRIGRSGRYGRKGVAVNFVKNDDIRVLRDIEQYYSTQIDEMPMNVA 371
>pdb|2J0U|B Chain B, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 96.3 bits (238), Expect = 4e-21, Method: Compositional matrix adjust.
Identities = 44/107 (41%), Positives = 68/107 (63%)
Query: 3 YRVTTLHGGKSQEQREISLEGFRTKRYNVLVATDVAGRGIDIPDVAHVINYDMPGNIEMY 62
+ V+++HG Q++RE ++ FR+ VL++TDV RG+D+P V+ +INYD+P N E+Y
Sbjct: 265 FTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLPNNRELY 324
Query: 63 THRIGRTGRAGKTGVATTFLTFHDTDVFYDLKQMLIQSNSPVPPELA 109
HRIGR+GR G+ GVA F+ D V D++Q +P +A
Sbjct: 325 IHRIGRSGRYGRKGVAVNFVKNDDIRVLRDIEQYYSTQIDEMPMNVA 371
>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 = 95.9 bits (237), Expect = 7e-21, Method: Compositional matrix adjust.
Identities = 43/108 (39%), Positives = 68/108 (62%)
Query: 2 GYRVTTLHGGKSQEQREISLEGFRTKRYNVLVATDVAGRGIDIPDVAHVINYDMPGNIEM 61
+ V+++HG Q++RE ++ FR+ VL++TDV RG+D+P V+ +INYD+P N E+
Sbjct: 301 NFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLPNNREL 360
Query: 62 YTHRIGRTGRAGKTGVATTFLTFHDTDVFYDLKQMLIQSNSPVPPELA 109
Y HRIGR+GR G+ GVA F+ D + D++Q +P +A
Sbjct: 361 YIHRIGRSGRYGRKGVAINFVKNDDIRILRDIEQYYSTQIDEMPMNVA 408
>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 = 95.9 bits (237), Expect = 7e-21, Method: Compositional matrix adjust.
Identities = 43/107 (40%), Positives = 68/107 (63%)
Query: 3 YRVTTLHGGKSQEQREISLEGFRTKRYNVLVATDVAGRGIDIPDVAHVINYDMPGNIEMY 62
+ V+++HG Q++RE ++ FR+ VL++TDV RG+D+P V+ +INYD+P N E+Y
Sbjct: 301 FTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLPNNRELY 360
Query: 63 THRIGRTGRAGKTGVATTFLTFHDTDVFYDLKQMLIQSNSPVPPELA 109
HRIGR+GR G+ GVA F+ D + D++Q +P +A
Sbjct: 361 IHRIGRSGRYGRKGVAINFVKNDDIRILRDIEQYYSTQIDEMPMNVA 407
>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 = 95.5 bits (236), Expect = 7e-21, Method: Compositional matrix adjust.
Identities = 43/108 (39%), Positives = 68/108 (62%)
Query: 2 GYRVTTLHGGKSQEQREISLEGFRTKRYNVLVATDVAGRGIDIPDVAHVINYDMPGNIEM 61
+ V+++HG Q++RE ++ FR+ VL++TDV RG+D+P V+ +INYD+P N E+
Sbjct: 279 NFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLPNNREL 338
Query: 62 YTHRIGRTGRAGKTGVATTFLTFHDTDVFYDLKQMLIQSNSPVPPELA 109
Y HRIGR+GR G+ GVA F+ D + D++Q +P +A
Sbjct: 339 YIHRIGRSGRYGRKGVAINFVKNDDIRILRDIEQYYSTQIDEMPMNVA 386
>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 = 95.5 bits (236), Expect = 7e-21, Method: Compositional matrix adjust.
Identities = 43/107 (40%), Positives = 68/107 (63%)
Query: 3 YRVTTLHGGKSQEQREISLEGFRTKRYNVLVATDVAGRGIDIPDVAHVINYDMPGNIEMY 62
+ V+++HG Q++RE ++ FR+ VL++TDV RG+D+P V+ +INYD+P N E+Y
Sbjct: 302 FTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLPNNRELY 361
Query: 63 THRIGRTGRAGKTGVATTFLTFHDTDVFYDLKQMLIQSNSPVPPELA 109
HRIGR+GR G+ GVA F+ D + D++Q +P +A
Sbjct: 362 IHRIGRSGRYGRKGVAINFVKNDDIRILRDIEQYYSTQIDEMPMNVA 408
>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 = 95.1 bits (235), Expect = 1e-20, Method: Compositional matrix adjust.
Identities = 49/104 (47%), Positives = 64/104 (61%), Gaps = 1/104 (0%)
Query: 3 YRVTTLHGGKSQEQREISLEGFRTKRYNVLVATDVAGRGIDIPDVAHVINYDMPGNIEMY 62
+ T++HG + Q QRE +L F+ VL+AT VA RG+DI ++ HVINYDMP I+ Y
Sbjct: 325 FPTTSIHGDRLQSQREQALRDFKNGSMKVLIATSVASRGLDIKNIKHVINYDMPSKIDDY 384
Query: 63 THRIGRTGRAGKTGVATTFLT-FHDTDVFYDLKQMLIQSNSPVP 105
HRIGRTGR G G AT+F D + DL ++L S VP
Sbjct: 385 VHRIGRTGRVGNNGRATSFFDPEKDRAIAADLVKILEGSGQTVP 428
>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 = 90.5 bits (223), Expect = 3e-19, Method: Compositional matrix adjust.
Identities = 45/97 (46%), Positives = 59/97 (60%)
Query: 1 LGYRVTTLHGGKSQEQREISLEGFRTKRYNVLVATDVAGRGIDIPDVAHVINYDMPGNIE 60
LGY +HGG QE R + F+ Y LVATDVA RGIDI +++ VINYD+P E
Sbjct: 58 LGYPCDKIHGGMIQEDRFDVMNEFKRGEYRYLVATDVAARGIDIENISLVINYDLPLEKE 117
Query: 61 MYTHRIGRTGRAGKTGVATTFLTFHDTDVFYDLKQML 97
Y HR GRTGRAG G A +F+T + D+++ +
Sbjct: 118 SYVHRTGRTGRAGNKGKAISFVTAFEKRFLADIEEYI 154
>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 = 90.1 bits (222), Expect = 3e-19, Method: Compositional matrix adjust.
Identities = 41/83 (49%), Positives = 55/83 (66%)
Query: 1 LGYRVTTLHGGKSQEQREISLEGFRTKRYNVLVATDVAGRGIDIPDVAHVINYDMPGNIE 60
+G++ +HG SQ QRE + F+ K+ +L+ATDV RGID+ D+ VINY +P N E
Sbjct: 261 IGFKAGAIHGDLSQSQREKVIRLFKQKKIRILIATDVXSRGIDVNDLNCVINYHLPQNPE 320
Query: 61 MYTHRIGRTGRAGKTGVATTFLT 83
Y HRIGRTGRAGK G A + +
Sbjct: 321 SYXHRIGRTGRAGKKGKAISIIN 343
>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 = 86.7 bits (213), Expect = 3e-18, Method: Compositional matrix adjust.
Identities = 42/79 (53%), Positives = 53/79 (67%)
Query: 8 LHGGKSQEQREISLEGFRTKRYNVLVATDVAGRGIDIPDVAHVINYDMPGNIEMYTHRIG 67
L G Q +R +++ R NVLVATDVA RGIDIPDV+HV N+DMP + + Y HRIG
Sbjct: 60 LEGEMVQGKRNEAIKRLTEGRVNVLVATDVAARGIDIPDVSHVFNFDMPRSGDTYLHRIG 119
Query: 68 RTGRAGKTGVATTFLTFHD 86
RT RAG+ G A + + HD
Sbjct: 120 RTARAGRKGTAISLVEAHD 138
>pdb|3PEY|A Chain A, S. Cerevisiae Dbp5 Bound To Rna And Adp Bef3
Length = 395
Score = 82.4 bits (202), Expect = 6e-17, Method: Compositional matrix adjust.
Identities = 42/95 (44%), Positives = 59/95 (62%), Gaps = 8/95 (8%)
Query: 2 GYRVTTLHGGKSQEQREISLEGFRTKRYNVLVATDVAGRGIDIPDVAHVINYDMP----- 56
G+ V+ LHG ++R+ ++ FR R VL+ T+V RGIDIP V+ V+NYD+P
Sbjct: 267 GHEVSILHGDLQTQERDRLIDDFREGRSKVLITTNVLARGIDIPTVSMVVNYDLPTLANG 326
Query: 57 -GNIEMYTHRIGRTGRAGKTGVATTFLTFHDTDVF 90
+ Y HRIGRTGR G+ GVA +F+ HD + F
Sbjct: 327 QADPATYIHRIGRTGRFGRKGVAISFV--HDKNSF 359
>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 = 82.4 bits (202), Expect = 6e-17, Method: Compositional matrix adjust.
Identities = 42/95 (44%), Positives = 59/95 (62%), Gaps = 8/95 (8%)
Query: 2 GYRVTTLHGGKSQEQREISLEGFRTKRYNVLVATDVAGRGIDIPDVAHVINYDMP----- 56
G+ V+ LHG ++R+ ++ FR R VL+ T+V RGIDIP V+ V+NYD+P
Sbjct: 267 GHEVSILHGDLQTQERDRLIDDFREGRSKVLITTNVLARGIDIPTVSMVVNYDLPTLANG 326
Query: 57 -GNIEMYTHRIGRTGRAGKTGVATTFLTFHDTDVF 90
+ Y HRIGRTGR G+ GVA +F+ HD + F
Sbjct: 327 QADPATYIHRIGRTGRFGRKGVAISFV--HDKNSF 359
>pdb|2KBF|A Chain A, Solution Structure Of Carboxyl-Terminal Domain Of Dbp5p
Length = 187
Score = 80.9 bits (198), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 42/95 (44%), Positives = 59/95 (62%), Gaps = 8/95 (8%)
Query: 2 GYRVTTLHGGKSQEQREISLEGFRTKRYNVLVATDVAGRGIDIPDVAHVINYDMP----- 56
G+ V+ LHG ++R+ ++ FR R VL+ T+V RGIDIP V+ V+NYD+P
Sbjct: 59 GHEVSILHGDLQTQERDRLIDDFREGRSKVLITTNVLARGIDIPTVSMVVNYDLPTLANG 118
Query: 57 -GNIEMYTHRIGRTGRAGKTGVATTFLTFHDTDVF 90
+ Y HRIGRTGR G+ GVA +F+ HD + F
Sbjct: 119 QADPATYIHRIGRTGRFGRKGVAISFV--HDKNSF 151
>pdb|3GFP|A Chain A, Structure Of The C-Terminal Domain Of The Dead-Box Protein
Dbp5
Length = 189
Score = 80.5 bits (197), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 42/95 (44%), Positives = 59/95 (62%), Gaps = 8/95 (8%)
Query: 2 GYRVTTLHGGKSQEQREISLEGFRTKRYNVLVATDVAGRGIDIPDVAHVINYDMP----- 56
G+ V+ LHG ++R+ ++ FR R VL+ T+V RGIDIP V+ V+NYD+P
Sbjct: 61 GHEVSILHGDLQTQERDRLIDDFREGRSKVLITTNVLARGIDIPTVSXVVNYDLPTLANG 120
Query: 57 -GNIEMYTHRIGRTGRAGKTGVATTFLTFHDTDVF 90
+ Y HRIGRTGR G+ GVA +F+ HD + F
Sbjct: 121 QADPATYIHRIGRTGRFGRKGVAISFV--HDKNSF 153
>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 = 80.5 bits (197), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 42/95 (44%), Positives = 59/95 (62%), Gaps = 8/95 (8%)
Query: 2 GYRVTTLHGGKSQEQREISLEGFRTKRYNVLVATDVAGRGIDIPDVAHVINYDMP----- 56
G+ V+ LHG ++R+ ++ FR R VL+ T+V RGIDIP V+ V+NYD+P
Sbjct: 60 GHEVSILHGDLQTQERDRLIDDFREGRSKVLITTNVLARGIDIPTVSXVVNYDLPTLANG 119
Query: 57 -GNIEMYTHRIGRTGRAGKTGVATTFLTFHDTDVF 90
+ Y HRIGRTGR G+ GVA +F+ HD + F
Sbjct: 120 QADPATYIHRIGRTGRFGRKGVAISFV--HDKNSF 152
>pdb|2Z0M|A Chain A, Crystal Structure Of Hypothetical Atp-Dependent Rna
Helicase From Sulfolobus Tokodaii
Length = 337
Score = 79.7 bits (195), Expect = 4e-16, Method: Compositional matrix adjust.
Identities = 37/75 (49%), Positives = 49/75 (65%)
Query: 8 LHGGKSQEQREISLEGFRTKRYNVLVATDVAGRGIDIPDVAHVINYDMPGNIEMYTHRIG 67
L G Q R +++ FR Y++L+ TDVA RG+DIP V VIN+D P ++ Y HRIG
Sbjct: 246 LRGDLPQSVRNRNIDAFREGEYDMLITTDVASRGLDIPLVEKVINFDAPQDLRTYIHRIG 305
Query: 68 RTGRAGKTGVATTFL 82
RTGR G+ G A TF+
Sbjct: 306 RTGRMGRKGEAITFI 320
>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 = 77.4 bits (189), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 42/110 (38%), Positives = 54/110 (49%)
Query: 1 LGYRVTTLHGGKSQEQREISLEGFRTKRYNVLVATDVAGRGIDIPDVAHVINYDMPGNIE 60
LGY +H QE R FR LV TD+ RGIDI V VIN+D P E
Sbjct: 67 LGYSCFYIHAKMRQEHRNRVFHDFRNGLCRNLVCTDLFTRGIDIQAVNVVINFDFPKLAE 126
Query: 61 MYTHRIGRTGRAGKTGVATTFLTFHDTDVFYDLKQMLIQSNSPVPPELAK 110
Y HRIGR+GR G G+A +T+ D +++ L P+P + K
Sbjct: 127 TYLHRIGRSGRFGHLGLAINLITYDDRFNLKSIEEQLGTEIKPIPSNIDK 176
>pdb|1S2M|A Chain A, Crystal Structure Of The Dead Box Protein Dhh1p
Length = 400
Score = 77.4 bits (189), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 40/110 (36%), Positives = 56/110 (50%)
Query: 1 LGYRVTTLHGGKSQEQREISLEGFRTKRYNVLVATDVAGRGIDIPDVAHVINYDMPGNIE 60
LGY H Q++R FR + LV +D+ RGIDI V VIN+D P E
Sbjct: 281 LGYSCYYSHARMKQQERNKVFHEFRQGKVRTLVCSDLLTRGIDIQAVNVVINFDFPKTAE 340
Query: 61 MYTHRIGRTGRAGKTGVATTFLTFHDTDVFYDLKQMLIQSNSPVPPELAK 110
Y HRIGR+GR G G+A + ++D Y ++Q L + +P + K
Sbjct: 341 TYLHRIGRSGRFGHLGLAINLINWNDRFNLYKIEQELGTEIAAIPATIDK 390
>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 = 74.7 bits (182), Expect = 1e-14, Method: Composition-based stats.
Identities = 41/87 (47%), Positives = 52/87 (59%), Gaps = 6/87 (6%)
Query: 2 GYRVTTLHGGKSQEQREISLEGFRTKRYNVLVATDVAGRGIDIPDVAHVINYDMP----G 57
G++V L G EQR +E FR + VLV T+V RGID+ V+ VIN+D+P G
Sbjct: 357 GHQVALLSGEMMVEQRAAVIERFREGKEKVLVTTNVCARGIDVEQVSVVINFDLPVDKDG 416
Query: 58 NI--EMYTHRIGRTGRAGKTGVATTFL 82
N E Y HRIGRTGR GK G+A +
Sbjct: 417 NPDNETYLHRIGRTGRFGKRGLAVNMV 443
>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 = 74.3 bits (181), Expect = 2e-14, Method: Composition-based stats.
Identities = 41/87 (47%), Positives = 52/87 (59%), Gaps = 6/87 (6%)
Query: 2 GYRVTTLHGGKSQEQREISLEGFRTKRYNVLVATDVAGRGIDIPDVAHVINYDMP----G 57
G++V L G EQR +E FR + VLV T+V RGID+ V+ VIN+D+P G
Sbjct: 327 GHQVALLSGEMMVEQRAAVIERFREGKEKVLVTTNVCARGIDVEQVSVVINFDLPVDKDG 386
Query: 58 NI--EMYTHRIGRTGRAGKTGVATTFL 82
N E Y HRIGRTGR GK G+A +
Sbjct: 387 NPDNETYLHRIGRTGRFGKRGLAVNMV 413
>pdb|3G0H|A Chain A, Human Dead-box Rna Helicase Ddx19, In Complex With An
Atp-analogue And Rna
Length = 424
Score = 74.3 bits (181), Expect = 2e-14, Method: Composition-based stats.
Identities = 41/87 (47%), Positives = 52/87 (59%), Gaps = 6/87 (6%)
Query: 2 GYRVTTLHGGKSQEQREISLEGFRTKRYNVLVATDVAGRGIDIPDVAHVINYDMP----G 57
G++V L G EQR +E FR + VLV T+V RGID+ V+ VIN+D+P G
Sbjct: 306 GHQVALLSGEMMVEQRAAVIERFREGKEKVLVTTNVCARGIDVEQVSVVINFDLPVDKDG 365
Query: 58 NI--EMYTHRIGRTGRAGKTGVATTFL 82
N E Y HRIGRTGR GK G+A +
Sbjct: 366 NPDNETYLHRIGRTGRFGKRGLAVNMV 392
>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 = 74.3 bits (181), Expect = 2e-14, Method: Composition-based stats.
Identities = 41/87 (47%), Positives = 52/87 (59%), Gaps = 6/87 (6%)
Query: 2 GYRVTTLHGGKSQEQREISLEGFRTKRYNVLVATDVAGRGIDIPDVAHVINYDMP----G 57
G++V L G EQR +E FR + VLV T+V RGID+ V+ VIN+D+P G
Sbjct: 290 GHQVALLSGEMMVEQRAAVIERFREGKEKVLVTTNVCARGIDVEQVSVVINFDLPVDKDG 349
Query: 58 NI--EMYTHRIGRTGRAGKTGVATTFL 82
N E Y HRIGRTGR GK G+A +
Sbjct: 350 NPDNETYLHRIGRTGRFGKRGLAVNMV 376
>pdb|3FHO|A Chain A, Structure Of S. Pombe Dbp5
pdb|3FHO|B Chain B, Structure Of S. Pombe Dbp5
Length = 508
Score = 71.2 bits (173), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 39/98 (39%), Positives = 54/98 (55%), Gaps = 8/98 (8%)
Query: 2 GYRVTTLHGGKSQEQREISLEGFRTKRYNVLVATDVAGRGIDIPDVAHVINYDMPGNI-- 59
G+ V L G QR+ ++ FR VLV T+V RGID+ V V+NYDMP +
Sbjct: 381 GHTVACLTGNLEGAQRDAIMDSFRVGTSKVLVTTNVIARGIDVSQVNLVVNYDMPLDQAG 440
Query: 60 ----EMYTHRIGRTGRAGKTGVATTFLTFHDTDVFYDL 93
+ Y HRIGRTGR G+ GV+ F+ HD + ++
Sbjct: 441 RPDPQTYLHRIGRTGRFGRVGVSINFV--HDKKSWEEM 476
>pdb|1T5I|A Chain A, Crystal Structure Of The C-Terminal Domain Of Uap56
Length = 172
Score = 70.9 bits (172), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 37/103 (35%), Positives = 59/103 (57%), Gaps = 1/103 (0%)
Query: 7 TLHGGKSQEQREISLEGFRTKRYNVLVATDVAGRGIDIPDVAHVINYDMPGNIEMYTHRI 66
+H G QE+R + F+ + +LVAT++ GRG+DI V NYDMP + + Y HR+
Sbjct: 60 AIHRGMPQEERLSRYQQFKDFQRRILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRV 119
Query: 67 GRTGRAGKTGVATTFLT-FHDTDVFYDLKQMLIQSNSPVPPEL 108
R GR G G+A TF++ +D + D++ + S +P E+
Sbjct: 120 ARAGRFGTKGLAITFVSDENDAKILNDVQDRFEVNISELPDEI 162
>pdb|1XTI|A Chain A, Structure Of Wildtype Human Uap56
Length = 391
Score = 70.9 bits (172), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 37/103 (35%), Positives = 59/103 (57%), Gaps = 1/103 (0%)
Query: 7 TLHGGKSQEQREISLEGFRTKRYNVLVATDVAGRGIDIPDVAHVINYDMPGNIEMYTHRI 66
+H G QE+R + F+ + +LVAT++ GRG+DI V NYDMP + + Y HR+
Sbjct: 279 AIHRGMPQEERLSRYQQFKDFQRRILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRV 338
Query: 67 GRTGRAGKTGVATTFLT-FHDTDVFYDLKQMLIQSNSPVPPEL 108
R GR G G+A TF++ +D + D++ + S +P E+
Sbjct: 339 ARAGRFGTKGLAITFVSDENDAKILNDVQDRFEVNISELPDEI 381
>pdb|1XTK|A Chain A, Structure Of Decd To Dead Mutation Of Human Uap56
Length = 390
Score = 70.9 bits (172), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 37/103 (35%), Positives = 59/103 (57%), Gaps = 1/103 (0%)
Query: 7 TLHGGKSQEQREISLEGFRTKRYNVLVATDVAGRGIDIPDVAHVINYDMPGNIEMYTHRI 66
+H G QE+R + F+ + +LVAT++ GRG+DI V NYDMP + + Y HR+
Sbjct: 278 AIHRGMPQEERLSRYQQFKDFQRRILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRV 337
Query: 67 GRTGRAGKTGVATTFLT-FHDTDVFYDLKQMLIQSNSPVPPEL 108
R GR G G+A TF++ +D + D++ + S +P E+
Sbjct: 338 ARAGRFGTKGLAITFVSDENDAKILNDVQDRFEVNISELPDEI 380
>pdb|1XTJ|A Chain A, Structure Of Human Uap56 In Complex With Adp
Length = 386
Score = 70.9 bits (172), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 37/103 (35%), Positives = 59/103 (57%), Gaps = 1/103 (0%)
Query: 7 TLHGGKSQEQREISLEGFRTKRYNVLVATDVAGRGIDIPDVAHVINYDMPGNIEMYTHRI 66
+H G QE+R + F+ + +LVAT++ GRG+DI V NYDMP + + Y HR+
Sbjct: 279 AIHRGMPQEERLSRYQQFKDFQRRILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRV 338
Query: 67 GRTGRAGKTGVATTFLT-FHDTDVFYDLKQMLIQSNSPVPPEL 108
R GR G G+A TF++ +D + D++ + S +P E+
Sbjct: 339 ARAGRFGTKGLAITFVSDENDAKILNDVQDRFEVNISELPDEI 381
>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 = 70.5 bits (171), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 36/83 (43%), Positives = 51/83 (61%), Gaps = 6/83 (7%)
Query: 2 GYRVTTLHGGKSQEQREISLEGFRTKRYNVLVATDVAGRGIDIPDVAHVINYDMPG---- 57
G++V+ L G + EQR ++ FR + VL+ T+V RGID+ V V+N+D+P
Sbjct: 58 GHQVSLLSGELTVEQRASIIQRFRDGKEKVLITTNVCARGIDVKQVTIVVNFDLPVKQGE 117
Query: 58 --NIEMYTHRIGRTGRAGKTGVA 78
+ E Y HRIGRTGR GK G+A
Sbjct: 118 EPDYETYLHRIGRTGRFGKKGLA 140
>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 = 66.6 bits (161), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 29/79 (36%), Positives = 44/79 (55%)
Query: 5 VTTLHGGKSQEQREISLEGFRTKRYNVLVATDVAGRGIDIPDVAHVINYDMPGNIEMYTH 64
+ HG +Q +R ++ F+ +LV TDV RG+D P+V V+ +P + Y H
Sbjct: 63 ILEFHGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIH 122
Query: 65 RIGRTGRAGKTGVATTFLT 83
RIGRT R+GK G + F+
Sbjct: 123 RIGRTARSGKEGSSVLFIC 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 = 66.6 bits (161), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 29/79 (36%), Positives = 44/79 (55%)
Query: 5 VTTLHGGKSQEQREISLEGFRTKRYNVLVATDVAGRGIDIPDVAHVINYDMPGNIEMYTH 64
+ HG +Q +R ++ F+ +LV TDV RG+D P+V V+ +P + Y H
Sbjct: 63 ILEFHGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIH 122
Query: 65 RIGRTGRAGKTGVATTFLT 83
RIGRT R+GK G + F+
Sbjct: 123 RIGRTARSGKEGSSVLFIC 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 = 66.6 bits (161), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 29/79 (36%), Positives = 44/79 (55%)
Query: 5 VTTLHGGKSQEQREISLEGFRTKRYNVLVATDVAGRGIDIPDVAHVINYDMPGNIEMYTH 64
+ HG +Q +R ++ F+ +LV TDV RG+D P+V V+ +P + Y H
Sbjct: 63 ILEFHGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIH 122
Query: 65 RIGRTGRAGKTGVATTFLT 83
RIGRT R+GK G + F+
Sbjct: 123 RIGRTARSGKEGSSVLFIC 141
>pdb|3EIQ|A Chain A, Crystal Structure Of Pdcd4-eif4a
pdb|3EIQ|D Chain D, Crystal Structure Of Pdcd4-eif4a
Length = 414
Score = 65.9 bits (159), Expect = 7e-12, Method: Composition-based stats.
Identities = 42/107 (39%), Positives = 62/107 (57%)
Query: 3 YRVTTLHGGKSQEQREISLEGFRTKRYNVLVATDVAGRGIDIPDVAHVINYDMPGNIEMY 62
+ V+ +HG Q++R++ + FR+ VL+ TD+ RGID+ V+ VINYD+P N E Y
Sbjct: 305 FTVSAMHGDMDQKERDVIMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPTNRENY 364
Query: 63 THRIGRTGRAGKTGVATTFLTFHDTDVFYDLKQMLIQSNSPVPPELA 109
HRIGR GR G+ GVA +T D D++ S +P +A
Sbjct: 365 IHRIGRGGRFGRKGVAINMVTEEDKRTLRDIETFYNTSIEEMPLNVA 411
>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 = 65.9 bits (159), Expect = 7e-12, Method: Compositional matrix adjust.
Identities = 42/107 (39%), Positives = 62/107 (57%)
Query: 3 YRVTTLHGGKSQEQREISLEGFRTKRYNVLVATDVAGRGIDIPDVAHVINYDMPGNIEMY 62
+ V+ +HG Q++R++ + FR+ VL+ TD+ RGID+ V+ VINYD+P N E Y
Sbjct: 279 FTVSAMHGDMDQKERDVIMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPTNRENY 338
Query: 63 THRIGRTGRAGKTGVATTFLTFHDTDVFYDLKQMLIQSNSPVPPELA 109
HRIGR GR G+ GVA +T D D++ S +P +A
Sbjct: 339 IHRIGRGGRFGRKGVAINMVTEEDKRTLRDIETFYNTSIEEMPLNVA 385
>pdb|3SQX|A Chain A, Structure Of Mss116p (Nte And C-Tail Double Deletion)
Bound To Ssrna And Amp-Pnp
Length = 512
Score = 65.5 bits (158), Expect = 8e-12, Method: Composition-based stats.
Identities = 29/78 (37%), Positives = 44/78 (56%)
Query: 5 VTTLHGGKSQEQREISLEGFRTKRYNVLVATDVAGRGIDIPDVAHVINYDMPGNIEMYTH 64
+ HG +Q +R ++ F+ +LV TDV RG+D P+V V+ +P + Y H
Sbjct: 318 ILEFHGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIH 377
Query: 65 RIGRTGRAGKTGVATTFL 82
RIGRT R+GK G + F+
Sbjct: 378 RIGRTARSGKEGSSVLFI 395
>pdb|3SQW|A Chain A, Structure Of Mss116p (Nte Deletion) Bound To Ssrna And
Amp-Pnp
Length = 579
Score = 65.1 bits (157), Expect = 1e-11, Method: Composition-based stats.
Identities = 29/78 (37%), Positives = 44/78 (56%)
Query: 5 VTTLHGGKSQEQREISLEGFRTKRYNVLVATDVAGRGIDIPDVAHVINYDMPGNIEMYTH 64
+ HG +Q +R ++ F+ +LV TDV RG+D P+V V+ +P + Y H
Sbjct: 318 ILEFHGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIH 377
Query: 65 RIGRTGRAGKTGVATTFL 82
RIGRT R+GK G + F+
Sbjct: 378 RIGRTARSGKEGSSVLFI 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 = 65.1 bits (157), Expect = 1e-11, Method: Composition-based stats.
Identities = 29/78 (37%), Positives = 44/78 (56%)
Query: 5 VTTLHGGKSQEQREISLEGFRTKRYNVLVATDVAGRGIDIPDVAHVINYDMPGNIEMYTH 64
+ HG +Q +R ++ F+ +LV TDV RG+D P+V V+ +P + Y H
Sbjct: 369 ILEFHGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIH 428
Query: 65 RIGRTGRAGKTGVATTFL 82
RIGRT R+GK G + F+
Sbjct: 429 RIGRTARSGKEGSSVLFI 446
>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 = 64.3 bits (155), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 39/107 (36%), Positives = 64/107 (59%)
Query: 3 YRVTTLHGGKSQEQREISLEGFRTKRYNVLVATDVAGRGIDIPDVAHVINYDMPGNIEMY 62
+ V+ ++ Q++R+ ++ FR+ +L++TD+ RGID+ V+ VINYD+P N E Y
Sbjct: 285 FTVSAIYSDLPQQERDTIMKEFRSGSSRILISTDLLARGIDVQQVSLVINYDLPANKENY 344
Query: 63 THRIGRTGRAGKTGVATTFLTFHDTDVFYDLKQMLIQSNSPVPPELA 109
HRIGR GR G+ GVA F+T D +L++ +P ++A
Sbjct: 345 IHRIGRGGRFGRKGVAINFVTNEDVGAMRELEKFYSTQIEELPSDIA 391
>pdb|1FUK|A Chain A, Crystal Structure Of The Carboxy Terminal Domain Of Yeast
Eif4a
Length = 165
Score = 64.3 bits (155), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 39/107 (36%), Positives = 64/107 (59%)
Query: 3 YRVTTLHGGKSQEQREISLEGFRTKRYNVLVATDVAGRGIDIPDVAHVINYDMPGNIEMY 62
+ V+ ++ Q++R+ ++ FR+ +L++TD+ RGID+ V+ VINYD+P N E Y
Sbjct: 55 FTVSAIYSDLPQQERDTIMKEFRSGSSRILISTDLLARGIDVQQVSLVINYDLPANKENY 114
Query: 63 THRIGRTGRAGKTGVATTFLTFHDTDVFYDLKQMLIQSNSPVPPELA 109
HRIGR GR G+ GVA F+T D +L++ +P ++A
Sbjct: 115 IHRIGRGGRFGRKGVAINFVTNEDVGAMRELEKFYSTQIEELPSDIA 161
>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 = 63.5 bits (153), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 32/64 (50%), Positives = 38/64 (59%)
Query: 1 LGYRVTTLHGGKSQEQREISLEGFRTKRYNVLVATDVAGRGIDIPDVAHVINYDMPGNIE 60
LG+ LHG SQ +RE + FR VLVATDVA RG+DIP V V++Y MP E
Sbjct: 51 LGHPAQALHGDMSQGERERVMGAFRQGEVRVLVATDVAARGLDIPQVDLVVHYRMPDRAE 110
Query: 61 MYTH 64
Y H
Sbjct: 111 AYQH 114
>pdb|3EAQ|A Chain A, Novel Dimerization Motif In The Dead Box Rna Helicase Hera
Form 2, Complete Dimer, Symmetric
pdb|3EAQ|B Chain B, Novel Dimerization Motif In The Dead Box Rna Helicase Hera
Form 2, Complete Dimer, Symmetric
pdb|3EAR|A Chain A, Novel Dimerization Motif In The Dead Box Rna Helicase
Hera: Form 1, Partial Dimer
pdb|3EAR|B Chain B, Novel Dimerization Motif In The Dead Box Rna Helicase
Hera: Form 1, Partial Dimer
pdb|3EAS|A Chain A, Novel Dimerization Motif In The Dead Box Rna Helicase
Hera: Form 1, Complete Dimer, Asymmetric
pdb|3EAS|B Chain B, Novel Dimerization Motif In The Dead Box Rna Helicase
Hera: Form 1, Complete Dimer, Asymmetric
Length = 212
Score = 62.8 bits (151), Expect = 6e-11, Method: Compositional matrix adjust.
Identities = 32/64 (50%), Positives = 38/64 (59%)
Query: 1 LGYRVTTLHGGKSQEQREISLEGFRTKRYNVLVATDVAGRGIDIPDVAHVINYDMPGNIE 60
LG+ LHG SQ +RE L FR VLVATDVA RG+DIP V V++Y +P E
Sbjct: 54 LGHPAQALHGDLSQGERERVLGAFRQGEVRVLVATDVAARGLDIPQVDLVVHYRLPDRAE 113
Query: 61 MYTH 64
Y H
Sbjct: 114 AYQH 117
>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 = 7e-11, Method: Compositional matrix adjust.
Identities = 39/107 (36%), Positives = 63/107 (58%)
Query: 3 YRVTTLHGGKSQEQREISLEGFRTKRYNVLVATDVAGRGIDIPDVAHVINYDMPGNIEMY 62
+ V+ ++ Q++R+ + FR+ +L++TD+ RGID+ V+ VINYD+P N E Y
Sbjct: 284 FTVSAIYSDLPQQERDTIXKEFRSGSSRILISTDLLARGIDVQQVSLVINYDLPANKENY 343
Query: 63 THRIGRTGRAGKTGVATTFLTFHDTDVFYDLKQMLIQSNSPVPPELA 109
HRIGR GR G+ GVA F+T D +L++ +P ++A
Sbjct: 344 IHRIGRGGRFGRKGVAINFVTNEDVGAXRELEKFYSTQIEELPSDIA 390
>pdb|1OYY|A Chain A, Structure Of The Recq Catalytic Core Bound To Atp-Gamma-S
Length = 523
Score = 52.8 bits (125), Expect = 6e-08, Method: Composition-based stats.
Identities = 29/85 (34%), Positives = 42/85 (49%), Gaps = 3/85 (3%)
Query: 2 GYRVTTLHGGKSQEQREISLEGFRTKRYNVLVATDVAGRGIDIPDVAHVINYDMPGNIEM 61
G H G R E F+ ++VAT G GI+ P+V V+++D+P NIE
Sbjct: 260 GISAAAYHAGLENNVRADVQEKFQRDDLQIVVATVAFGMGINKPNVRFVVHFDIPRNIES 319
Query: 62 YTHRIGRTGRAGKTGVATTFLTFHD 86
Y TGRAG+ G+ + F+D
Sbjct: 320 YYQ---ETGRAGRDGLPAEAMLFYD 341
>pdb|1OYW|A Chain A, Structure Of The Recq Catalytic Core
Length = 523
Score = 51.6 bits (122), Expect = 1e-07, Method: Composition-based stats.
Identities = 28/80 (35%), Positives = 37/80 (46%)
Query: 2 GYRVTTLHGGKSQEQREISLEGFRTKRYNVLVATDVAGRGIDIPDVAHVINYDMPGNIEM 61
G H G R E F+ ++VAT G GI+ P+V V+++D+P NIE
Sbjct: 260 GISAAAYHAGLENNVRADVQEKFQRDDLQIVVATVAFGXGINKPNVRFVVHFDIPRNIES 319
Query: 62 YTHRIGRTGRAGKTGVATTF 81
Y GR GR G A F
Sbjct: 320 YYQETGRAGRDGLPAEAXLF 339
>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 = 48.9 bits (115), Expect = 9e-07, Method: Compositional matrix adjust.
Identities = 25/62 (40%), Positives = 35/62 (56%)
Query: 13 SQEQREISLEGFRTKRYNVLVATDVAGRGIDIPDVAHVINYDMPGNIEMYTHRIGRTGRA 72
S+E+RE LEGFRT R+ +V++ V GID+PD + G+ Y R+GR R
Sbjct: 379 SREEREEILEGFRTGRFRAIVSSQVLDEGIDVPDANVGVIMSGSGSAREYIQRLGRILRP 438
Query: 73 GK 74
K
Sbjct: 439 SK 440
>pdb|2FZL|A Chain A, Structure Of C-Terminal Domain Of Archaeoglobus Fulgidus
Xpb
Length = 219
Score = 48.1 bits (113), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 25/62 (40%), Positives = 35/62 (56%)
Query: 13 SQEQREISLEGFRTKRYNVLVATDVAGRGIDIPDVAHVINYDMPGNIEMYTHRIGRTGRA 72
S+E+RE LEGFRT R+ +V++ V GID+PD + G+ Y R+GR R
Sbjct: 144 SREEREEILEGFRTGRFRAIVSSQVLDEGIDVPDANVGVIMSGSGSAREYIQRLGRILRP 203
Query: 73 GK 74
K
Sbjct: 204 SK 205
>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 = 45.8 bits (107), Expect = 7e-06, Method: Composition-based stats.
Identities = 26/62 (41%), Positives = 38/62 (61%), Gaps = 2/62 (3%)
Query: 11 GKSQEQREISLEGFRTKRYNVLVATDVAGRGIDIPDVAHVINYD-MPGNIEMYTHRIGRT 69
G SQ ++++ L+ F +NVLVAT V G+D+P+V V+ Y+ +P I R GRT
Sbjct: 402 GLSQREQKLILDEFARGEFNVLVATSVGEEGLDVPEVDLVVFYEPVPSAIRSIQRR-GRT 460
Query: 70 GR 71
GR
Sbjct: 461 GR 462
>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 = 43.9 bits (102), Expect = 3e-05, Method: Composition-based stats.
Identities = 28/101 (27%), Positives = 40/101 (39%), Gaps = 3/101 (2%)
Query: 1 LGYRVTTLHGGKSQEQREISLEGFRTKRYNVLVATDVAGRGIDIPDVAHVINYDMPGNIE 60
LG H E + + V+VAT G GID PDV VI++ M ++E
Sbjct: 290 LGIHAGAYHANLEPEDKTTVHRKWSANEIQVVVATVAFGMGIDKPDVRFVIHHSMSKSME 349
Query: 61 MYTHRIGRTGRAGKTGVATTFLTFHDTDVFYDLKQMLIQSN 101
Y GR GR + F D + + M++ N
Sbjct: 350 NYYQESGRAGRDDMKADCILYYGFGD---IFRISSMVVMEN 387
>pdb|1GM5|A Chain A, Structure Of Recg Bound To Three-Way Dna Junction
Length = 780
Score = 43.1 bits (100), Expect = 5e-05, Method: Composition-based stats.
Identities = 29/86 (33%), Positives = 48/86 (55%), Gaps = 5/86 (5%)
Query: 3 YRVTTLHGGKSQEQREISLEGFRTKRYNVLVATDVAGRGIDIP--DVAHVINYDMPGNIE 60
+++ +HG SQE+++ + F RY++LV+T V GID+P +V + N + G +
Sbjct: 614 FKLGLMHGRLSQEEKDRVMLEFAEGRYDILVSTTVIEVGIDVPRANVMVIENPERFGLAQ 673
Query: 61 MYTHRIGRTGRAGKTGVATTFLTFHD 86
++ R GR GR G+ A FL D
Sbjct: 674 LHQLR-GRVGRGGQE--AYCFLVVGD 696
>pdb|2VA8|A Chain A, Dna Repair Helicase Hel308
pdb|2VA8|B Chain B, Dna Repair Helicase Hel308
Length = 715
Score = 42.0 bits (97), Expect = 1e-04, Method: Composition-based stats.
Identities = 31/117 (26%), Positives = 50/117 (42%), Gaps = 12/117 (10%)
Query: 9 HGGKSQEQREISLEGFRTKRYNVLVATDVAGRGIDIPDVAHVI------NYDMPG----- 57
H G S+ R++ EGFR ++ V+VAT G+++P +I N + G
Sbjct: 319 HAGLSKALRDLIEEGFRQRKIKVIVATPTLAAGVNLPARTVIIGDIYRFNKKIAGYYDEI 378
Query: 58 NIEMYTHRIGRTGRAGKTGVATTFLTFHDT-DVFYDLKQMLIQSNSPVPPELAKHEA 113
I Y GR GR G + + + D DV K+ ++ P+ +L A
Sbjct: 379 PIMEYKQMSGRAGRPGFDQIGESIVVVRDKEDVDRVFKKYVLSDVEPIESKLGSERA 435
>pdb|4I1S|A Chain A, Melanoma Differentiation Associated Protein-5 Helicase
Domain Complex With Inhibitor Non-structural Protein V
Length = 243
Score = 38.9 bits (89), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 19/41 (46%), Positives = 27/41 (65%), Gaps = 1/41 (2%)
Query: 15 EQREISLEGFRTKRYNVLVATDVAGRGIDIPDVAHVINYDM 55
EQRE+ + FRT + N+L+AT VA G+DI + VI Y +
Sbjct: 202 EQREV-ISKFRTGKINLLIATTVAEEGLDIKECNIVIRYGL 241
>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 = 37.7 bits (86), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 30/96 (31%), Positives = 45/96 (46%), Gaps = 4/96 (4%)
Query: 4 RVTTLHGGKSQEQREISLEGFRTKRYNVLVATDVAGRGIDIPDVAHVI--NYDMPGNIEM 61
R+ HG + + E + F +R+NVLV T + GIDIP +I D G ++
Sbjct: 840 RIAIGHGQMRERELERVMNDFHHQRFNVLVCTTIIETGIDIPTANTIIIERADHFGLAQL 899
Query: 62 YTHRIGRTGRAGKTGVATTFLTFHDTDVFYDLKQML 97
+ R GR GR+ A LT H + D ++ L
Sbjct: 900 HQLR-GRVGRSHHQAYA-WLLTPHPKAMTTDAQKRL 933
>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 = 37.7 bits (86), Expect = 0.002, Method: Composition-based stats.
Identities = 25/59 (42%), Positives = 34/59 (57%), Gaps = 6/59 (10%)
Query: 15 EQREISLEGFRTKRYNVLVATDVAGRGIDIPDVAHVINYDMPGN-IEMYTHRIGRTGRA 72
EQ+E+ + FRT + N+L+AT VA G+DI + VI Y + N I M R GRA
Sbjct: 452 EQKEV-ISKFRTGKINLLIATTVAEEGLDIKECNIVIRYGLVTNEIAMVQAR----GRA 505
>pdb|3TBK|A Chain A, Mouse Rig-I Atpase Domain
Length = 555
Score = 37.4 bits (85), Expect = 0.002, Method: Composition-based stats.
Identities = 25/63 (39%), Positives = 34/63 (53%), Gaps = 2/63 (3%)
Query: 11 GKSQEQREISLEGFR-TKRYNVLVATDVAGRGIDIPDVAHVINYDMPGNIEMYTHRIGRT 69
G + ++ LE FR + N+L+AT VA GIDI + VI Y+ GN+ GR
Sbjct: 434 GXTLPAQKCVLEAFRASGDNNILIATSVADEGIDIAECNLVILYEYVGNVIKXIQTRGR- 492
Query: 70 GRA 72
GRA
Sbjct: 493 GRA 495
>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 = 37.0 bits (84), Expect = 0.003, Method: Composition-based stats.
Identities = 20/75 (26%), Positives = 36/75 (48%), Gaps = 2/75 (2%)
Query: 2 GYRVTTLHGGKSQEQREISLEGFRTKRY--NVLVATDVAGRGIDIPDVAHVINYDMPGNI 59
G R H G S +R+ + F + VL+ +++ G + +H + +D+P N
Sbjct: 528 GIRAAVFHEGXSIIERDRAAAWFAEEDTGAQVLLCSEIGSEGRNFQFASHXVXFDLPFNP 587
Query: 60 EMYTHRIGRTGRAGK 74
++ RIGR R G+
Sbjct: 588 DLLEQRIGRLDRIGQ 602
>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 = 37.0 bits (84), Expect = 0.004, Method: Composition-based stats.
Identities = 22/61 (36%), Positives = 31/61 (50%), Gaps = 1/61 (1%)
Query: 21 LEGFRTKRYN-VLVATDVAGRGIDIPDVAHVINYDMPGNIEMYTHRIGRTGRAGKTGVAT 79
L+ F+T + N +L+AT VA GIDI V+ Y+ GN+ GR AG +
Sbjct: 686 LDAFKTSKDNRLLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQVRGRGRAAGSKCILV 745
Query: 80 T 80
T
Sbjct: 746 T 746
>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 = 37.0 bits (84), Expect = 0.004, Method: Composition-based stats.
Identities = 22/61 (36%), Positives = 31/61 (50%), Gaps = 1/61 (1%)
Query: 21 LEGFRTKRYN-VLVATDVAGRGIDIPDVAHVINYDMPGNIEMYTHRIGRTGRAGKTGVAT 79
L+ F+T + N +L+AT VA GIDI V+ Y+ GN+ GR AG +
Sbjct: 686 LDAFKTSKDNRLLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQVRGRGRAAGSKCILV 745
Query: 80 T 80
T
Sbjct: 746 T 746
>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 = 36.6 bits (83), Expect = 0.004, Method: Composition-based stats.
Identities = 22/61 (36%), Positives = 31/61 (50%), Gaps = 1/61 (1%)
Query: 21 LEGFRTKRYN-VLVATDVAGRGIDIPDVAHVINYDMPGNIEMYTHRIGRTGRAGKTGVAT 79
L+ F+T + N +L+AT VA GIDI V+ Y+ GN+ GR AG +
Sbjct: 445 LDAFKTSKDNRLLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQVRGRGRAAGSKCILV 504
Query: 80 T 80
T
Sbjct: 505 T 505
>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 = 35.8 bits (81), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 25/79 (31%), Positives = 41/79 (51%), Gaps = 4/79 (5%)
Query: 1 LGYRVTTLHGG-KSQEQREISLEGFRTKRYNVLVATDVAGRGIDIPDVAHV--INYDMPG 57
+G +V LH K+ E+ EI + R +Y+VLV ++ G+DIP+V+ V ++ D G
Sbjct: 474 IGIKVNYLHSEIKTLERIEI-IRDLRLGKYDVLVGINLLREGLDIPEVSLVAILDADKEG 532
Query: 58 NIEMYTHRIGRTGRAGKTG 76
+ I GRA +
Sbjct: 533 FLRSERSLIQTIGRAARNA 551
>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 = 35.8 bits (81), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 25/79 (31%), Positives = 41/79 (51%), Gaps = 4/79 (5%)
Query: 1 LGYRVTTLHGG-KSQEQREISLEGFRTKRYNVLVATDVAGRGIDIPDVAHV--INYDMPG 57
+G +V LH K+ E+ EI + R +Y+VLV ++ G+DIP+V+ V ++ D G
Sbjct: 468 IGIKVNYLHSEIKTLERIEI-IRDLRLGKYDVLVGINLLREGLDIPEVSLVAILDADKEG 526
Query: 58 NIEMYTHRIGRTGRAGKTG 76
+ I GRA +
Sbjct: 527 FLRSERSLIQTIGRAARNA 545
>pdb|3TMI|A Chain A, Structural Basis For Rna Recognition And Activation Of
Rig-I
Length = 695
Score = 35.8 bits (81), Expect = 0.008, Method: Composition-based stats.
Identities = 24/68 (35%), Positives = 36/68 (52%), Gaps = 2/68 (2%)
Query: 6 TTLHGGKSQEQREISLEGFR-TKRYNVLVATDVAGRGIDIPDVAHVINYDMPGNIEMYTH 64
T + G + ++ L+ F+ + +N+L+AT VA GIDI VI Y+ GN+
Sbjct: 437 TNQNTGMTLPAQKCILDAFKASGDHNILIATSVADEGIDIAQCNLVILYEYVGNVIKMIQ 496
Query: 65 RIGRTGRA 72
GR GRA
Sbjct: 497 TRGR-GRA 503
>pdb|4AY2|A Chain A, Capturing 5' Tri-Phosphorylated Rna Duplex By Rig-I
Length = 687
Score = 35.8 bits (81), Expect = 0.008, Method: Composition-based stats.
Identities = 24/68 (35%), Positives = 36/68 (52%), Gaps = 2/68 (2%)
Query: 6 TTLHGGKSQEQREISLEGFR-TKRYNVLVATDVAGRGIDIPDVAHVINYDMPGNIEMYTH 64
T + G + ++ L+ F+ + +N+L+AT VA GIDI VI Y+ GN+
Sbjct: 429 TNQNTGMTLPAQKCILDAFKASGDHNILIATSVADEGIDIAQCNLVILYEYVGNVIKMIQ 488
Query: 65 RIGRTGRA 72
GR GRA
Sbjct: 489 TRGR-GRA 495
>pdb|2YKG|A Chain A, Structural Insights Into Rna Recognition By Rig-I
Length = 696
Score = 35.4 bits (80), Expect = 0.009, Method: Composition-based stats.
Identities = 24/68 (35%), Positives = 36/68 (52%), Gaps = 2/68 (2%)
Query: 6 TTLHGGKSQEQREISLEGFR-TKRYNVLVATDVAGRGIDIPDVAHVINYDMPGNIEMYTH 64
T + G + ++ L+ F+ + +N+L+AT VA GIDI VI Y+ GN+
Sbjct: 438 TNQNTGMTLPAQKCILDAFKASGDHNILIATSVADEGIDIAQCNLVILYEYVGNVIKMIQ 497
Query: 65 RIGRTGRA 72
GR GRA
Sbjct: 498 TRGR-GRA 504
>pdb|3DIN|A Chain A, Crystal Structure Of The Protein-Translocation Complex
Formed By The Secy Channel And The Seca Atpase
pdb|3DIN|B Chain B, Crystal Structure Of The Protein-Translocation Complex
Formed By The Secy Channel And The Seca Atpase
Length = 871
Score = 35.4 bits (80), Expect = 0.011, Method: Composition-based stats.
Identities = 24/64 (37%), Positives = 32/64 (50%), Gaps = 8/64 (12%)
Query: 31 VLVATDVAGRGIDI---PDVAHVINYDMPGNIEMYTHRI-----GRTGRAGKTGVATTFL 82
V +AT++AGRG DI P VA + + G + RI GR GR G G + FL
Sbjct: 525 VTIATNMAGRGTDIKLGPGVAELGGLCIIGTERHESRRIDNQLRGRAGRQGDPGESIFFL 584
Query: 83 TFHD 86
+ D
Sbjct: 585 SLED 588
>pdb|3JUX|A Chain A, Structure Of The Translocation Atpase Seca From Thermotoga
Maritima
Length = 822
Score = 35.4 bits (80), Expect = 0.011, Method: Composition-based stats.
Identities = 24/64 (37%), Positives = 32/64 (50%), Gaps = 8/64 (12%)
Query: 31 VLVATDVAGRGIDI---PDVAHVINYDMPGNIEMYTHRI-----GRTGRAGKTGVATTFL 82
V +AT++AGRG DI P VA + + G + RI GR GR G G + FL
Sbjct: 525 VTIATNMAGRGTDIKLGPGVAELGGLCIIGTERHESRRIDNQLRGRAGRQGDPGESIFFL 584
Query: 83 TFHD 86
+ D
Sbjct: 585 SLED 588
>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 = 35.0 bits (79), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 25/78 (32%), Positives = 40/78 (51%), Gaps = 4/78 (5%)
Query: 2 GYRVTTLHGG-KSQEQREISLEGFRTKRYNVLVATDVAGRGIDIPDVAHV--INYDMPGN 58
G +V LH K+ E+ EI + R +Y+VLV ++ G+DIP+V+ V ++ D G
Sbjct: 469 GIKVAYLHSEIKTLERIEI-IRDLRLGKYDVLVGINLLREGLDIPEVSLVAILDADKEGF 527
Query: 59 IEMYTHRIGRTGRAGKTG 76
+ I GRA +
Sbjct: 528 LRSERSLIQTIGRAARNA 545
>pdb|1D9X|A Chain A, Crystal Structure Of The Dna Repair Protein Uvrb
Length = 658
Score = 34.7 bits (78), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 25/78 (32%), Positives = 40/78 (51%), Gaps = 4/78 (5%)
Query: 2 GYRVTTLHGG-KSQEQREISLEGFRTKRYNVLVATDVAGRGIDIPDVAHV--INYDMPGN 58
G +V LH K+ E+ EI + R +Y+VLV ++ G+DIP+V+ V ++ D G
Sbjct: 469 GIKVAYLHSEIKTLERIEI-IRDLRLGKYDVLVGINLLREGLDIPEVSLVAILDADKEGF 527
Query: 59 IEMYTHRIGRTGRAGKTG 76
+ I GRA +
Sbjct: 528 LRSERSLIQTIGRAARNA 545
>pdb|1D9Z|A Chain A, Crystal Structure Of The Dna Repair Protein Uvrb In
Complex With Atp
Length = 657
Score = 34.7 bits (78), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 25/78 (32%), Positives = 40/78 (51%), Gaps = 4/78 (5%)
Query: 2 GYRVTTLHGG-KSQEQREISLEGFRTKRYNVLVATDVAGRGIDIPDVAHV--INYDMPGN 58
G +V LH K+ E+ EI + R +Y+VLV ++ G+DIP+V+ V ++ D G
Sbjct: 468 GIKVAYLHSEIKTLERIEI-IRDLRLGKYDVLVGINLLREGLDIPEVSLVAILDADKEGF 526
Query: 59 IEMYTHRIGRTGRAGKTG 76
+ I GRA +
Sbjct: 527 LRSERSLIQTIGRAARNA 544
>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 = 34.7 bits (78), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 25/78 (32%), Positives = 40/78 (51%), Gaps = 4/78 (5%)
Query: 2 GYRVTTLHGG-KSQEQREISLEGFRTKRYNVLVATDVAGRGIDIPDVAHV--INYDMPGN 58
G +V LH K+ E+ EI + R +Y+VLV ++ G+DIP+V+ V ++ D G
Sbjct: 469 GIKVAYLHSEIKTLERIEI-IRDLRLGKYDVLVGINLLREGLDIPEVSLVAILDADKEGF 527
Query: 59 IEMYTHRIGRTGRAGKTG 76
+ I GRA +
Sbjct: 528 LRSERSLIQTIGRAARNA 545
>pdb|3UWX|B Chain B, Crystal Structure Of Uvra-Uvrb Complex
Length = 683
Score = 34.7 bits (78), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 25/78 (32%), Positives = 40/78 (51%), Gaps = 4/78 (5%)
Query: 2 GYRVTTLHGG-KSQEQREISLEGFRTKRYNVLVATDVAGRGIDIPDVAHV--INYDMPGN 58
G +V LH K+ E+ EI + R +Y+VLV ++ G+DIP+V+ V ++ D G
Sbjct: 494 GIKVAYLHSEIKTLERIEI-IRDLRLGKYDVLVGINLLREGLDIPEVSLVAILDADKEGF 552
Query: 59 IEMYTHRIGRTGRAGKTG 76
+ I GRA +
Sbjct: 553 LRSERSLIQTIGRAARNA 570
>pdb|1C4O|A Chain A, Crystal Structure Of The Dna Nucleotide Excision Repair
Enzyme Uvrb From Thermus Thermophilus
Length = 664
Score = 33.9 bits (76), Expect = 0.031, Method: Compositional matrix adjust.
Identities = 22/83 (26%), Positives = 36/83 (43%), Gaps = 2/83 (2%)
Query: 2 GYRVTTLHGGKSQEQREISLEGFRTKRYNVLVATDVAGRGIDIPDVAHV--INYDMPGNI 59
G R LH +R+ + R Y+ LV ++ G+DIP+V+ V ++ D G +
Sbjct: 463 GIRARYLHHELDAFKRQALIRDLRLGHYDCLVGINLLREGLDIPEVSLVAILDADKEGFL 522
Query: 60 EMYTHRIGRTGRAGKTGVATTFL 82
I GRA + +L
Sbjct: 523 RSERSLIQTIGRAARNARGEVWL 545
>pdb|1D2M|A Chain A, Uvrb Protein Of Thermus Thermophilus Hb8; A Nucleotide
Excision Repair Enzyme
Length = 665
Score = 33.9 bits (76), Expect = 0.031, Method: Compositional matrix adjust.
Identities = 22/83 (26%), Positives = 36/83 (43%), Gaps = 2/83 (2%)
Query: 2 GYRVTTLHGGKSQEQREISLEGFRTKRYNVLVATDVAGRGIDIPDVAHV--INYDMPGNI 59
G R LH +R+ + R Y+ LV ++ G+DIP+V+ V ++ D G +
Sbjct: 464 GIRARYLHHELDAFKRQALIRDLRLGHYDCLVGINLLREGLDIPEVSLVAILDADKEGFL 523
Query: 60 EMYTHRIGRTGRAGKTGVATTFL 82
I GRA + +L
Sbjct: 524 RSERSLIQTIGRAARNARGEVWL 546
>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 = 31.2 bits (69), Expect = 0.16, Method: Composition-based stats.
Identities = 19/72 (26%), Positives = 28/72 (38%), Gaps = 7/72 (9%)
Query: 9 HGGKSQEQREISLEGFRTKRYNVLVATDVAGRGIDIPDVAHVI-------NYDMPGNIEM 61
H G QR + + FR V+VAT G+++P ++ Y +
Sbjct: 303 HAGLLNGQRRVVEDAFRRGNIKVVVATPTLAAGVNLPARRVIVRSLYRFDGYSKRIKVSE 362
Query: 62 YTHRIGRTGRAG 73
Y GR GR G
Sbjct: 363 YKQMAGRAGRPG 374
>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 = 30.4 bits (67), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 21/64 (32%), Positives = 31/64 (48%), Gaps = 8/64 (12%)
Query: 31 VLVATDVAGRGIDI---PDVAHVINYDMPGNIEMYTHRI-----GRTGRAGKTGVATTFL 82
V +AT++AGRG DI V + + G + RI GR+GR G G+ +L
Sbjct: 483 VTIATNMAGRGTDIKLGEGVKELGGLAVVGTERHESRRIDNQLRGRSGRQGDPGITQFYL 542
Query: 83 TFHD 86
+ D
Sbjct: 543 SMED 546
>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 = 30.4 bits (67), Expect = 0.35, Method: Compositional matrix adjust.
Identities = 21/64 (32%), Positives = 31/64 (48%), Gaps = 8/64 (12%)
Query: 31 VLVATDVAGRGIDI---PDVAHVINYDMPGNIEMYTHRI-----GRTGRAGKTGVATTFL 82
V +AT++AGRG DI V + + G + RI GR+GR G G+ +L
Sbjct: 480 VTIATNMAGRGTDIKLGEGVKELGGLAVVGTERHESRRIDNQLRGRSGRQGDPGITQFYL 539
Query: 83 TFHD 86
+ D
Sbjct: 540 SMED 543
>pdb|3IQM|A Chain A, Active Site Mutants Of B. Subtilis Seca
Length = 802
Score = 30.0 bits (66), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 21/64 (32%), Positives = 31/64 (48%), Gaps = 8/64 (12%)
Query: 31 VLVATDVAGRGIDI---PDVAHVINYDMPGNIEMYTHRI-----GRTGRAGKTGVATTFL 82
V +AT++AGRG DI V + + G + RI GR+GR G G+ +L
Sbjct: 480 VTIATNMAGRGTDIKLGEGVKELGGLAVVGTERHESRRIDNQLRGRSGRQGDPGITQFYL 539
Query: 83 TFHD 86
+ D
Sbjct: 540 SMED 543
>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 = 30.0 bits (66), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 21/64 (32%), Positives = 31/64 (48%), Gaps = 8/64 (12%)
Query: 31 VLVATDVAGRGIDI---PDVAHVINYDMPGNIEMYTHRI-----GRTGRAGKTGVATTFL 82
V +AT++AGRG DI V + + G + RI GR+GR G G+ +L
Sbjct: 483 VTIATNMAGRGTDIKLGEGVKELGGLAVVGTERHESRRIDNQLRGRSGRQGDPGITQFYL 542
Query: 83 TFHD 86
+ D
Sbjct: 543 SMED 546
>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 = 30.0 bits (66), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 21/64 (32%), Positives = 31/64 (48%), Gaps = 8/64 (12%)
Query: 31 VLVATDVAGRGIDI---PDVAHVINYDMPGNIEMYTHRI-----GRTGRAGKTGVATTFL 82
V +AT++AGRG DI V + + G + RI GR+GR G G+ +L
Sbjct: 480 VTIATNMAGRGTDIKLGEGVKELGGLAVVGTERHESRRIDNQLRGRSGRQGDPGITQFYL 539
Query: 83 TFHD 86
+ D
Sbjct: 540 SMED 543
>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 = 30.0 bits (66), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 21/64 (32%), Positives = 31/64 (48%), Gaps = 8/64 (12%)
Query: 31 VLVATDVAGRGIDI---PDVAHVINYDMPGNIEMYTHRI-----GRTGRAGKTGVATTFL 82
V +AT++AGRG DI V + + G + RI GR+GR G G+ +L
Sbjct: 480 VTIATNMAGRGTDIKLGEGVKELGGLAVVGTERHESRRIDNQLRGRSGRQGDPGITQFYL 539
Query: 83 TFHD 86
+ D
Sbjct: 540 SMED 543
>pdb|2FN6|A Chain A, Helicobacter Pylori Psec, Aminotransferase Involved In The
Biosynthesis Of Pseudoaminic Acid
pdb|2FN6|B Chain B, Helicobacter Pylori Psec, Aminotransferase Involved In The
Biosynthesis Of Pseudoaminic Acid
pdb|2FNI|A Chain A, Psec Aminotransferase Involved In Pseudoaminic Acid
Biosynthesis
pdb|2FNI|B Chain B, Psec Aminotransferase Involved In Pseudoaminic Acid
Biosynthesis
pdb|2FNU|A Chain A, Psec Aminotransferase With External Aldimine
pdb|2FNU|B Chain B, Psec Aminotransferase With External Aldimine
Length = 375
Score = 30.0 bits (66), Expect = 0.40, Method: Compositional matrix adjust.
Identities = 17/71 (23%), Positives = 34/71 (47%), Gaps = 4/71 (5%)
Query: 18 EISLEGFRTKRYNVLVATDVAGRGIDIPDVAHVINYDMPGNIEMYTHRIGRTGRAGKTG- 76
E++LE +R +V+ D AG+ +++ V + + +H +G + K G
Sbjct: 111 ELALEKLINERTKAIVSVDYAGKSVEVESVQKLCKKHSLSFLSDSSHALGSEYQNKKVGG 170
Query: 77 --VATTFLTFH 85
+A+ F +FH
Sbjct: 171 FALASVF-SFH 180
>pdb|3IQY|A Chain A, Active Site Mutants Of B. Subtilis Seca
Length = 841
Score = 29.3 bits (64), Expect = 0.78, Method: Compositional matrix adjust.
Identities = 20/64 (31%), Positives = 31/64 (48%), Gaps = 8/64 (12%)
Query: 31 VLVATDVAGRGIDI---PDVAHVINYDMPGNIEMYTHRI-----GRTGRAGKTGVATTFL 82
V +AT++AG+G DI V + + G + RI GR+GR G G+ +L
Sbjct: 480 VTIATNMAGKGTDIKLGEGVKELGGLAVVGTERHESRRIDNQLRGRSGRQGDPGITQFYL 539
Query: 83 TFHD 86
+ D
Sbjct: 540 SMED 543
>pdb|4H56|A Chain A, Crystal Structure Of The Clostridium Perfringens Netb
Toxin In The Membrane Inserted Form
pdb|4H56|B Chain B, Crystal Structure Of The Clostridium Perfringens Netb
Toxin In The Membrane Inserted Form
pdb|4H56|C Chain C, Crystal Structure Of The Clostridium Perfringens Netb
Toxin In The Membrane Inserted Form
pdb|4H56|D Chain D, Crystal Structure Of The Clostridium Perfringens Netb
Toxin In The Membrane Inserted Form
pdb|4H56|E Chain E, Crystal Structure Of The Clostridium Perfringens Netb
Toxin In The Membrane Inserted Form
pdb|4H56|F Chain F, Crystal Structure Of The Clostridium Perfringens Netb
Toxin In The Membrane Inserted Form
pdb|4H56|G Chain G, Crystal Structure Of The Clostridium Perfringens Netb
Toxin In The Membrane Inserted Form
pdb|4H56|H Chain H, Crystal Structure Of The Clostridium Perfringens Netb
Toxin In The Membrane Inserted Form
pdb|4H56|I Chain I, Crystal Structure Of The Clostridium Perfringens Netb
Toxin In The Membrane Inserted Form
pdb|4H56|J Chain J, Crystal Structure Of The Clostridium Perfringens Netb
Toxin In The Membrane Inserted Form
pdb|4H56|K Chain K, Crystal Structure Of The Clostridium Perfringens Netb
Toxin In The Membrane Inserted Form
pdb|4H56|L Chain L, Crystal Structure Of The Clostridium Perfringens Netb
Toxin In The Membrane Inserted Form
pdb|4H56|M Chain M, Crystal Structure Of The Clostridium Perfringens Netb
Toxin In The Membrane Inserted Form
pdb|4H56|N Chain N, Crystal Structure Of The Clostridium Perfringens Netb
Toxin In The Membrane Inserted Form
Length = 296
Score = 27.3 bits (59), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 15/44 (34%), Positives = 23/44 (52%), Gaps = 4/44 (9%)
Query: 30 NVLVATDVAGRGIDIPDVAHVINYDMPGNIEMYTHRIGRTGRAG 73
N+ +A + ID DV++ I Y + GNI + G+T AG
Sbjct: 104 NIKIANSIPKNTIDKKDVSNSIGYSIGGNISVE----GKTAGAG 143
>pdb|4F92|B Chain B, Brr2 Helicase Region S1087l
pdb|4F93|B Chain B, Brr2 Helicase Region S1087l, Mg-Atp
Length = 1724
Score = 25.8 bits (55), Expect = 8.7, Method: Composition-based stats.
Identities = 15/51 (29%), Positives = 24/51 (47%), Gaps = 2/51 (3%)
Query: 1 LGYRVTTLHGGKSQEQREISLEGFRTKRYNVLVATDVAGRGIDIPDVAHVI 51
L Y H G ++ R + + F K VLV+T G+++P AH +
Sbjct: 377 LPYGFAIHHAGMTRVDRTLVEDLFADKHIQVLVSTATLAWGVNLP--AHTV 425
>pdb|4F91|B Chain B, Brr2 Helicase Region
Length = 1724
Score = 25.8 bits (55), Expect = 8.7, Method: Composition-based stats.
Identities = 15/51 (29%), Positives = 24/51 (47%), Gaps = 2/51 (3%)
Query: 1 LGYRVTTLHGGKSQEQREISLEGFRTKRYNVLVATDVAGRGIDIPDVAHVI 51
L Y H G ++ R + + F K VLV+T G+++P AH +
Sbjct: 377 LPYGFAIHHAGMTRVDRTLVEDLFADKHIQVLVSTATLAWGVNLP--AHTV 425
>pdb|2ZJ2|A Chain A, Archaeal Dna Helicase Hjm Apo State In Form 1
pdb|2ZJ5|A Chain A, Archaeal Dna Helicase Hjm Complexed With Adp In Form 1
pdb|2ZJ8|A Chain A, Archaeal Dna Helicase Hjm Apo State In Form 2
pdb|2ZJA|A Chain A, Archaeal Dna Helicase Hjm Complexed With Amppcp In Form 2
Length = 720
Score = 25.4 bits (54), Expect = 9.3, Method: Composition-based stats.
Identities = 19/71 (26%), Positives = 31/71 (43%), Gaps = 8/71 (11%)
Query: 9 HGGKSQEQREISLEGFRTKRYNVLVATDVAGRGIDIP-------DVAHVINYDMPGNIEM 61
H G +++R + E FR +VAT GI+ P D+ ++ M +
Sbjct: 301 HAGLGRDERVLVEENFRKGIIKAVVATPTLSAGINTPAFRVIIRDIWRYSDFGMERIPII 360
Query: 62 YTHR-IGRTGR 71
H+ +GR GR
Sbjct: 361 EVHQMLGRAGR 371
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
0.319 0.138 0.410
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,176,972
Number of Sequences: 62578
Number of extensions: 161220
Number of successful extensions: 464
Number of sequences better than 100.0: 89
Number of HSP's better than 100.0 without gapping: 78
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 370
Number of HSP's gapped (non-prelim): 90
length of query: 135
length of database: 14,973,337
effective HSP length: 88
effective length of query: 47
effective length of database: 9,466,473
effective search space: 444924231
effective search space used: 444924231
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 46 (22.3 bits)