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= psy6712
(210 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 231 bits (590), Expect = 2e-61, Method: Compositional matrix adjust.
Identities = 107/118 (90%), Positives = 115/118 (97%)
Query: 81 QVDWLTEKMREANFTVSSMHGDMPQKERDGIMKEFRSGTSRVLITTDVWARGIDVQQVSL 140
+VDWLTEKMREANFTVSSMHGDMPQKER+ IMKEFRSG SRVLI+TDVWARG+DV QVSL
Sbjct: 288 KVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWARGLDVPQVSL 347
Query: 141 VINYDLPNNRELYIHRIGRSGRFGRKGVAISFVKSDDIRILRDIEQYYSTQIDEMPMN 198
+INYDLPNNRELYIHRIGRSGR+GRKGVAI+FVK+DDIRILRDIEQYYSTQIDEMPMN
Sbjct: 348 IINYDLPNNRELYIHRIGRSGRYGRKGVAINFVKNDDIRILRDIEQYYSTQIDEMPMN 405
Score = 167 bits (424), Expect = 3e-42, Method: Compositional matrix adjust.
Identities = 76/82 (92%), Positives = 79/82 (96%)
Query: 1 MNVQCHACIGGTNLSEDLRKLDYGQHVVSGTPGRVFDMIRRRVLRTRNIKMLVLDEADEM 60
MNVQCHACIGGTN+ ED+RKLDYGQHVV+GTPGRVFDMIRRR LRTR IKMLVLDEADEM
Sbjct: 132 MNVQCHACIGGTNVGEDIRKLDYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEM 191
Query: 61 LNKGFKEQIYDVYRYLPPATQV 82
LNKGFKEQIYDVYRYLPPATQV
Sbjct: 192 LNKGFKEQIYDVYRYLPPATQV 213
>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 = 231 bits (590), Expect = 2e-61, Method: Compositional matrix adjust.
Identities = 107/118 (90%), Positives = 115/118 (97%)
Query: 81 QVDWLTEKMREANFTVSSMHGDMPQKERDGIMKEFRSGTSRVLITTDVWARGIDVQQVSL 140
+VDWLTEKMREANFTVSSMHGDMPQKER+ IMKEFRSG SRVLI+TDVWARG+DV QVSL
Sbjct: 289 KVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWARGLDVPQVSL 348
Query: 141 VINYDLPNNRELYIHRIGRSGRFGRKGVAISFVKSDDIRILRDIEQYYSTQIDEMPMN 198
+INYDLPNNRELYIHRIGRSGR+GRKGVAI+FVK+DDIRILRDIEQYYSTQIDEMPMN
Sbjct: 349 IINYDLPNNRELYIHRIGRSGRYGRKGVAINFVKNDDIRILRDIEQYYSTQIDEMPMN 406
Score = 167 bits (424), Expect = 3e-42, Method: Compositional matrix adjust.
Identities = 76/82 (92%), Positives = 79/82 (96%)
Query: 1 MNVQCHACIGGTNLSEDLRKLDYGQHVVSGTPGRVFDMIRRRVLRTRNIKMLVLDEADEM 60
MNVQCHACIGGTN+ ED+RKLDYGQHVV+GTPGRVFDMIRRR LRTR IKMLVLDEADEM
Sbjct: 133 MNVQCHACIGGTNVGEDIRKLDYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEM 192
Query: 61 LNKGFKEQIYDVYRYLPPATQV 82
LNKGFKEQIYDVYRYLPPATQV
Sbjct: 193 LNKGFKEQIYDVYRYLPPATQV 214
>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 = 231 bits (590), Expect = 2e-61, Method: Compositional matrix adjust.
Identities = 107/118 (90%), Positives = 115/118 (97%)
Query: 81 QVDWLTEKMREANFTVSSMHGDMPQKERDGIMKEFRSGTSRVLITTDVWARGIDVQQVSL 140
+VDWLTEKMREANFTVSSMHGDMPQKER+ IMKEFRSG SRVLI+TDVWARG+DV QVSL
Sbjct: 289 KVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWARGLDVPQVSL 348
Query: 141 VINYDLPNNRELYIHRIGRSGRFGRKGVAISFVKSDDIRILRDIEQYYSTQIDEMPMN 198
+INYDLPNNRELYIHRIGRSGR+GRKGVAI+FVK+DDIRILRDIEQYYSTQIDEMPMN
Sbjct: 349 IINYDLPNNRELYIHRIGRSGRYGRKGVAINFVKNDDIRILRDIEQYYSTQIDEMPMN 406
Score = 167 bits (424), Expect = 3e-42, Method: Compositional matrix adjust.
Identities = 76/82 (92%), Positives = 79/82 (96%)
Query: 1 MNVQCHACIGGTNLSEDLRKLDYGQHVVSGTPGRVFDMIRRRVLRTRNIKMLVLDEADEM 60
MNVQCHACIGGTN+ ED+RKLDYGQHVV+GTPGRVFDMIRRR LRTR IKMLVLDEADEM
Sbjct: 133 MNVQCHACIGGTNVGEDIRKLDYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEM 192
Query: 61 LNKGFKEQIYDVYRYLPPATQV 82
LNKGFKEQIYDVYRYLPPATQV
Sbjct: 193 LNKGFKEQIYDVYRYLPPATQV 214
>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 = 231 bits (588), Expect = 3e-61, Method: Compositional matrix adjust.
Identities = 107/118 (90%), Positives = 115/118 (97%)
Query: 81 QVDWLTEKMREANFTVSSMHGDMPQKERDGIMKEFRSGTSRVLITTDVWARGIDVQQVSL 140
+VDWLTEKMREANFTVSSMHGDMPQKER+ IMKEFRSG SRVLI+TDVWARG+DV QVSL
Sbjct: 267 KVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWARGLDVPQVSL 326
Query: 141 VINYDLPNNRELYIHRIGRSGRFGRKGVAISFVKSDDIRILRDIEQYYSTQIDEMPMN 198
+INYDLPNNRELYIHRIGRSGR+GRKGVAI+FVK+DDIRILRDIEQYYSTQIDEMPMN
Sbjct: 327 IINYDLPNNRELYIHRIGRSGRYGRKGVAINFVKNDDIRILRDIEQYYSTQIDEMPMN 384
Score = 167 bits (422), Expect = 5e-42, Method: Compositional matrix adjust.
Identities = 76/82 (92%), Positives = 79/82 (96%)
Query: 1 MNVQCHACIGGTNLSEDLRKLDYGQHVVSGTPGRVFDMIRRRVLRTRNIKMLVLDEADEM 60
MNVQCHACIGGTN+ ED+RKLDYGQHVV+GTPGRVFDMIRRR LRTR IKMLVLDEADEM
Sbjct: 111 MNVQCHACIGGTNVGEDIRKLDYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEM 170
Query: 61 LNKGFKEQIYDVYRYLPPATQV 82
LNKGFKEQIYDVYRYLPPATQV
Sbjct: 171 LNKGFKEQIYDVYRYLPPATQV 192
>pdb|2J0U|B Chain B, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 229 bits (584), Expect = 9e-61, Method: Compositional matrix adjust.
Identities = 105/118 (88%), Positives = 115/118 (97%)
Query: 81 QVDWLTEKMREANFTVSSMHGDMPQKERDGIMKEFRSGTSRVLITTDVWARGIDVQQVSL 140
+VDWLTEKMREANFTVSSMHGDMPQKER+ IMKEFRSG SRVLI+TDVWARG+DV QVSL
Sbjct: 252 KVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWARGLDVPQVSL 311
Query: 141 VINYDLPNNRELYIHRIGRSGRFGRKGVAISFVKSDDIRILRDIEQYYSTQIDEMPMN 198
+INYDLPNNRELYIHRIGRSGR+GRKGVA++FVK+DDIR+LRDIEQYYSTQIDEMPMN
Sbjct: 312 IINYDLPNNRELYIHRIGRSGRYGRKGVAVNFVKNDDIRVLRDIEQYYSTQIDEMPMN 369
Score = 162 bits (411), Expect = 1e-40, Method: Compositional matrix adjust.
Identities = 75/82 (91%), Positives = 78/82 (95%)
Query: 1 MNVQCHACIGGTNLSEDLRKLDYGQHVVSGTPGRVFDMIRRRVLRTRNIKMLVLDEADEM 60
MNVQ HACIGGTN+ ED+RKLDYGQHVV+GTPGRVFDMIRRR LRTR IKMLVLDEADEM
Sbjct: 96 MNVQSHACIGGTNVGEDIRKLDYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEM 155
Query: 61 LNKGFKEQIYDVYRYLPPATQV 82
LNKGFKEQIYDVYRYLPPATQV
Sbjct: 156 LNKGFKEQIYDVYRYLPPATQV 177
>pdb|2J0U|A Chain A, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 229 bits (584), Expect = 9e-61, Method: Compositional matrix adjust.
Identities = 105/118 (88%), Positives = 115/118 (97%)
Query: 81 QVDWLTEKMREANFTVSSMHGDMPQKERDGIMKEFRSGTSRVLITTDVWARGIDVQQVSL 140
+VDWLTEKMREANFTVSSMHGDMPQKER+ IMKEFRSG SRVLI+TDVWARG+DV QVSL
Sbjct: 252 KVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWARGLDVPQVSL 311
Query: 141 VINYDLPNNRELYIHRIGRSGRFGRKGVAISFVKSDDIRILRDIEQYYSTQIDEMPMN 198
+INYDLPNNRELYIHRIGRSGR+GRKGVA++FVK+DDIR+LRDIEQYYSTQIDEMPMN
Sbjct: 312 IINYDLPNNRELYIHRIGRSGRYGRKGVAVNFVKNDDIRVLRDIEQYYSTQIDEMPMN 369
Score = 166 bits (421), Expect = 7e-42, Method: Compositional matrix adjust.
Identities = 76/82 (92%), Positives = 79/82 (96%)
Query: 1 MNVQCHACIGGTNLSEDLRKLDYGQHVVSGTPGRVFDMIRRRVLRTRNIKMLVLDEADEM 60
MNVQCHACIGGTN+ ED+RKLDYGQHVV+GTPGRVFDMIRRR LRTR IKMLVLDEADEM
Sbjct: 96 MNVQCHACIGGTNVGEDIRKLDYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEM 155
Query: 61 LNKGFKEQIYDVYRYLPPATQV 82
LNKGFKEQIYDVYRYLPPATQV
Sbjct: 156 LNKGFKEQIYDVYRYLPPATQV 177
>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 = 161 bits (407), Expect = 3e-40, Method: Compositional matrix adjust.
Identities = 90/118 (76%), Positives = 102/118 (86%)
Query: 81 QVDWLTEKMREANFTVSSMHGDMPQKERDGIMKEFRSGTSRVLITTDVWARGIDVQQVSL 140
+VDWLTEKM +FTVS+MHGDM QKERD IM+EFRSG+SRVLITTD+ ARGIDVQQVSL
Sbjct: 266 KVDWLTEKMHARDFTVSAMHGDMDQKERDVIMREFRSGSSRVLITTDLLARGIDVQQVSL 325
Query: 141 VINYDLPNNRELYIHRIGRSGRFGRKGVAISFVKSDDIRILRDIEQYYSTQIDEMPMN 198
VINYDLP NRE YIHRIGR GRFGRKGVAI+ V +D R LRDIE +Y+T I+EMP+N
Sbjct: 326 VINYDLPTNRENYIHRIGRGGRFGRKGVAINMVTEEDKRTLRDIETFYNTSIEEMPLN 383
Score = 108 bits (270), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 50/90 (55%), Positives = 65/90 (72%), Gaps = 1/90 (1%)
Query: 1 MNVQCHACIGGTNLSEDLRKLDY-GQHVVSGTPGRVFDMIRRRVLRTRNIKMLVLDEADE 59
M CHACIGGTN+ +++KL H++ GTPGRVFDM+ RR L + IKM VLDEADE
Sbjct: 109 MGASCHACIGGTNVRAEVQKLQMEAPHIIVGTPGRVFDMLNRRYLSPKYIKMFVLDEADE 168
Query: 60 MLNKGFKEQIYDVYRYLPPATQVDWLTEKM 89
ML++GFK+QIYD+++ L TQV L+ M
Sbjct: 169 MLSRGFKDQIYDIFQKLNSNTQVVLLSATM 198
>pdb|3EIQ|A Chain A, Crystal Structure Of Pdcd4-eif4a
pdb|3EIQ|D Chain D, Crystal Structure Of Pdcd4-eif4a
Length = 414
Score = 160 bits (406), Expect = 4e-40, Method: Compositional matrix adjust.
Identities = 90/118 (76%), Positives = 102/118 (86%)
Query: 81 QVDWLTEKMREANFTVSSMHGDMPQKERDGIMKEFRSGTSRVLITTDVWARGIDVQQVSL 140
+VDWLTEKM +FTVS+MHGDM QKERD IM+EFRSG+SRVLITTD+ ARGIDVQQVSL
Sbjct: 292 KVDWLTEKMHARDFTVSAMHGDMDQKERDVIMREFRSGSSRVLITTDLLARGIDVQQVSL 351
Query: 141 VINYDLPNNRELYIHRIGRSGRFGRKGVAISFVKSDDIRILRDIEQYYSTQIDEMPMN 198
VINYDLP NRE YIHRIGR GRFGRKGVAI+ V +D R LRDIE +Y+T I+EMP+N
Sbjct: 352 VINYDLPTNRENYIHRIGRGGRFGRKGVAINMVTEEDKRTLRDIETFYNTSIEEMPLN 409
Score = 108 bits (269), Expect = 3e-24, Method: Compositional matrix adjust.
Identities = 50/90 (55%), Positives = 65/90 (72%), Gaps = 1/90 (1%)
Query: 1 MNVQCHACIGGTNLSEDLRKLDY-GQHVVSGTPGRVFDMIRRRVLRTRNIKMLVLDEADE 59
M CHACIGGTN+ +++KL H++ GTPGRVFDM+ RR L + IKM VLDEADE
Sbjct: 135 MGASCHACIGGTNVRAEVQKLQMEAPHIIVGTPGRVFDMLNRRYLSPKYIKMFVLDEADE 194
Query: 60 MLNKGFKEQIYDVYRYLPPATQVDWLTEKM 89
ML++GFK+QIYD+++ L TQV L+ M
Sbjct: 195 MLSRGFKDQIYDIFQKLNSNTQVVLLSATM 224
>pdb|1FUK|A Chain A, Crystal Structure Of The Carboxy Terminal Domain Of Yeast
Eif4a
Length = 165
Score = 145 bits (367), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 78/116 (67%), Positives = 102/116 (87%)
Query: 81 QVDWLTEKMREANFTVSSMHGDMPQKERDGIMKEFRSGTSRVLITTDVWARGIDVQQVSL 140
+V+ LT K+R FTVS+++ D+PQ+ERD IMKEFRSG+SR+LI+TD+ ARGIDVQQVSL
Sbjct: 42 KVEELTTKLRNDKFTVSAIYSDLPQQERDTIMKEFRSGSSRILISTDLLARGIDVQQVSL 101
Query: 141 VINYDLPNNRELYIHRIGRSGRFGRKGVAISFVKSDDIRILRDIEQYYSTQIDEMP 196
VINYDLP N+E YIHRIGR GRFGRKGVAI+FV ++D+ +R++E++YSTQI+E+P
Sbjct: 102 VINYDLPANKENYIHRIGRGGRFGRKGVAINFVTNEDVGAMRELEKFYSTQIEELP 157
>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 = 145 bits (365), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 78/116 (67%), Positives = 102/116 (87%)
Query: 81 QVDWLTEKMREANFTVSSMHGDMPQKERDGIMKEFRSGTSRVLITTDVWARGIDVQQVSL 140
+V+ LT K+R FTVS+++ D+PQ+ERD IMKEFRSG+SR+LI+TD+ ARGIDVQQVSL
Sbjct: 272 KVEELTTKLRNDKFTVSAIYSDLPQQERDTIMKEFRSGSSRILISTDLLARGIDVQQVSL 331
Query: 141 VINYDLPNNRELYIHRIGRSGRFGRKGVAISFVKSDDIRILRDIEQYYSTQIDEMP 196
VINYDLP N+E YIHRIGR GRFGRKGVAI+FV ++D+ +R++E++YSTQI+E+P
Sbjct: 332 VINYDLPANKENYIHRIGRGGRFGRKGVAINFVTNEDVGAMRELEKFYSTQIEELP 387
Score = 109 bits (273), Expect = 9e-25, Method: Compositional matrix adjust.
Identities = 53/89 (59%), Positives = 63/89 (70%), Gaps = 1/89 (1%)
Query: 1 MNVQCHACIGGTNLSEDLRKLDYGQHVVSGTPGRVFDMIRRRVLRTRNIKMLVLDEADEM 60
M+++ HACIGGT+ ED L Q VV GTPGRVFD I+RR RT IKM +LDEADEM
Sbjct: 117 MDIKVHACIGGTSFVEDAEGLRDAQIVV-GTPGRVFDNIQRRRFRTDKIKMFILDEADEM 175
Query: 61 LNKGFKEQIYDVYRYLPPATQVDWLTEKM 89
L+ GFKEQIY ++ LPP TQV L+ M
Sbjct: 176 LSSGFKEQIYQIFTLLPPTTQVVLLSATM 204
>pdb|1FUU|A Chain A, Yeast Initiation Factor 4a
pdb|1FUU|B Chain B, Yeast Initiation Factor 4a
Length = 394
Score = 141 bits (355), Expect = 3e-34, Method: Compositional matrix adjust.
Identities = 77/116 (66%), Positives = 100/116 (86%)
Query: 81 QVDWLTEKMREANFTVSSMHGDMPQKERDGIMKEFRSGTSRVLITTDVWARGIDVQQVSL 140
+V+ LT K+R FTVS+++ D+PQ+ERD I KEFRSG+SR+LI+TD+ ARGIDVQQVSL
Sbjct: 271 KVEELTTKLRNDKFTVSAIYSDLPQQERDTIXKEFRSGSSRILISTDLLARGIDVQQVSL 330
Query: 141 VINYDLPNNRELYIHRIGRSGRFGRKGVAISFVKSDDIRILRDIEQYYSTQIDEMP 196
VINYDLP N+E YIHRIGR GRFGRKGVAI+FV ++D+ R++E++YSTQI+E+P
Sbjct: 331 VINYDLPANKENYIHRIGRGGRFGRKGVAINFVTNEDVGAXRELEKFYSTQIEELP 386
Score = 100 bits (250), Expect = 4e-22, Method: Compositional matrix adjust.
Identities = 49/85 (57%), Positives = 59/85 (69%), Gaps = 1/85 (1%)
Query: 2 NVQCHACIGGTNLSEDLRKLDYGQHVVSGTPGRVFDMIRRRVLRTRNIKMLVLDEADEML 61
+++ HACIGGT+ ED L Q VV GTPGRVFD I+RR RT IK +LDEADE L
Sbjct: 117 DIKVHACIGGTSFVEDAEGLRDAQIVV-GTPGRVFDNIQRRRFRTDKIKXFILDEADEXL 175
Query: 62 NKGFKEQIYDVYRYLPPATQVDWLT 86
+ GFKEQIY ++ LPP TQV L+
Sbjct: 176 SSGFKEQIYQIFTLLPPTTQVVLLS 200
>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 = 114 bits (286), Expect = 3e-26, Method: Compositional matrix adjust.
Identities = 54/115 (46%), Positives = 78/115 (67%)
Query: 81 QVDWLTEKMREANFTVSSMHGDMPQKERDGIMKEFRSGTSRVLITTDVWARGIDVQQVSL 140
V+ LT+++ + + +HG M Q++R +M EF+ G R L+ TDV ARGID++ +SL
Sbjct: 47 HVNQLTDELDDLGYPCDKIHGGMIQEDRFDVMNEFKRGEYRYLVATDVAARGIDIENISL 106
Query: 141 VINYDLPNNRELYIHRIGRSGRFGRKGVAISFVKSDDIRILRDIEQYYSTQIDEM 195
VINYDLP +E Y+HR GR+GR G KG AISFV + + R L DIE+Y +I ++
Sbjct: 107 VINYDLPLEKESYVHRTGRTGRAGNKGKAISFVTAFEKRFLADIEEYIGFEIQKI 161
>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 = 112 bits (280), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 54/132 (40%), Positives = 84/132 (63%), Gaps = 2/132 (1%)
Query: 79 ATQVDWLTEKMREANFTVSSMHGDMPQKERDGIMKEFRSGTSRVLITTDVWARGIDVQQV 138
+ +V+ L +K+ + ++ +H M Q+ R+ + +FR+G R L+ TD++ RGID+Q V
Sbjct: 54 SQRVELLAKKISQLGYSCFYIHAKMRQEHRNRVFHDFRNGLCRNLVCTDLFTRGIDIQAV 113
Query: 139 SLVINYDLPNNRELYIHRIGRSGRFGRKGVAISFVKSDDIRILRDIEQYYSTQIDEMPMN 198
++VIN+D P E Y+HRIGRSGRFG G+AI+ + DD L+ IE+ T+I +P N
Sbjct: 114 NVVINFDFPKLAETYLHRIGRSGRFGHLGLAINLITYDDRFNLKSIEEQLGTEIKPIPSN 173
Query: 199 GKRSLHSYPARY 210
+SL Y A Y
Sbjct: 174 IDKSL--YVAEY 183
>pdb|3PEY|A Chain A, S. Cerevisiae Dbp5 Bound To Rna And Adp Bef3
Length = 395
Score = 112 bits (280), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 56/108 (51%), Positives = 75/108 (69%), Gaps = 7/108 (6%)
Query: 88 KMREANFTVSSMHGDMPQKERDGIMKEFRSGTSRVLITTDVWARGIDVQQVSLVINYDLP 147
K++ VS +HGD+ +ERD ++ +FR G S+VLITT+V ARGID+ VS+V+NYDLP
Sbjct: 262 KLKSEGHEVSILHGDLQTQERDRLIDDFREGRSKVLITTNVLARGIDIPTVSMVVNYDLP 321
Query: 148 N------NRELYIHRIGRSGRFGRKGVAISFVK-SDDIRILRDIEQYY 188
+ YIHRIGR+GRFGRKGVAISFV + IL I++Y+
Sbjct: 322 TLANGQADPATYIHRIGRTGRFGRKGVAISFVHDKNSFNILSAIQKYF 369
Score = 59.3 bits (142), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 28/68 (41%), Positives = 44/68 (64%), Gaps = 1/68 (1%)
Query: 26 HVVSGTPGRVFDMIRRRVLRTRNIKMLVLDEADEMLN-KGFKEQIYDVYRYLPPATQVDW 84
V+ GTPG V D++RR++++ + IK+ VLDEAD ML+ +G +Q V R+LP TQ+
Sbjct: 123 QVIVGTPGTVLDLMRRKLMQLQKIKIFVLDEADNMLDQQGLGDQCIRVKRFLPKDTQLVL 182
Query: 85 LTEKMREA 92
+ +A
Sbjct: 183 FSATFADA 190
>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 = 112 bits (279), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 56/108 (51%), Positives = 75/108 (69%), Gaps = 7/108 (6%)
Query: 88 KMREANFTVSSMHGDMPQKERDGIMKEFRSGTSRVLITTDVWARGIDVQQVSLVINYDLP 147
K++ VS +HGD+ +ERD ++ +FR G S+VLITT+V ARGID+ VS+V+NYDLP
Sbjct: 262 KLKSEGHEVSILHGDLQTQERDRLIDDFREGRSKVLITTNVLARGIDIPTVSMVVNYDLP 321
Query: 148 N------NRELYIHRIGRSGRFGRKGVAISFVK-SDDIRILRDIEQYY 188
+ YIHRIGR+GRFGRKGVAISFV + IL I++Y+
Sbjct: 322 TLANGQADPATYIHRIGRTGRFGRKGVAISFVHDKNSFNILSAIQKYF 369
Score = 58.9 bits (141), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 28/68 (41%), Positives = 44/68 (64%), Gaps = 1/68 (1%)
Query: 26 HVVSGTPGRVFDMIRRRVLRTRNIKMLVLDEADEMLN-KGFKEQIYDVYRYLPPATQVDW 84
V+ GTPG V D++RR++++ + IK+ VLDEAD ML+ +G +Q V R+LP TQ+
Sbjct: 123 QVIVGTPGTVLDLMRRKLMQLQKIKIFVLDEADNMLDQQGLGDQCIRVKRFLPKDTQLVL 182
Query: 85 LTEKMREA 92
+ +A
Sbjct: 183 FSATFADA 190
>pdb|2KBF|A Chain A, Solution Structure Of Carboxyl-Terminal Domain Of Dbp5p
Length = 187
Score = 110 bits (276), Expect = 4e-25, Method: Compositional matrix adjust.
Identities = 57/121 (47%), Positives = 79/121 (65%), Gaps = 7/121 (5%)
Query: 75 YLPPATQVDWLTEKMREANFTVSSMHGDMPQKERDGIMKEFRSGTSRVLITTDVWARGID 134
++ + L K++ VS +HGD+ +ERD ++ +FR G S+VLITT+V ARGID
Sbjct: 41 FVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDDFREGRSKVLITTNVLARGID 100
Query: 135 VQQVSLVINYDLPN------NRELYIHRIGRSGRFGRKGVAISFVK-SDDIRILRDIEQY 187
+ VS+V+NYDLP + YIHRIGR+GRFGRKGVAISFV + IL I++Y
Sbjct: 101 IPTVSMVVNYDLPTLANGQADPATYIHRIGRTGRFGRKGVAISFVHDKNSFNILSAIQKY 160
Query: 188 Y 188
+
Sbjct: 161 F 161
>pdb|1S2M|A Chain A, Crystal Structure Of The Dead Box Protein Dhh1p
Length = 400
Score = 110 bits (276), Expect = 5e-25, Method: Compositional matrix adjust.
Identities = 57/145 (39%), Positives = 84/145 (57%), Gaps = 1/145 (0%)
Query: 61 LNKGF-KEQIYDVYRYLPPATQVDWLTEKMREANFTVSSMHGDMPQKERDGIMKEFRSGT 119
LN F K QI + +V+ L +K+ + ++ H M Q+ER+ + EFR G
Sbjct: 249 LNTLFSKLQINQAIIFCNSTNRVELLAKKITDLGYSCYYSHARMKQQERNKVFHEFRQGK 308
Query: 120 SRVLITTDVWARGIDVQQVSLVINYDLPNNRELYIHRIGRSGRFGRKGVAISFVKSDDIR 179
R L+ +D+ RGID+Q V++VIN+D P E Y+HRIGRSGRFG G+AI+ + +D
Sbjct: 309 VRTLVCSDLLTRGIDIQAVNVVINFDFPKTAETYLHRIGRSGRFGHLGLAINLINWNDRF 368
Query: 180 ILRDIEQYYSTQIDEMPMNGKRSLH 204
L IEQ T+I +P +SL+
Sbjct: 369 NLYKIEQELGTEIAAIPATIDKSLY 393
Score = 74.3 bits (181), Expect = 5e-14, Method: Compositional matrix adjust.
Identities = 31/79 (39%), Positives = 49/79 (62%)
Query: 3 VQCHACIGGTNLSEDLRKLDYGQHVVSGTPGRVFDMIRRRVLRTRNIKMLVLDEADEMLN 62
+ C GGTNL +D+ +L+ H++ GTPGRV D+ R+V + + ++DEAD+ML+
Sbjct: 118 ISCMVTTGGTNLRDDILRLNETVHILVGTPGRVLDLASRKVADLSDCSLFIMDEADKMLS 177
Query: 63 KGFKEQIYDVYRYLPPATQ 81
+ FK I + +LPP Q
Sbjct: 178 RDFKTIIEQILSFLPPTHQ 196
>pdb|1QVA|A Chain A, Yeast Initiation Factor 4a N-Terminal Domain
Length = 223
Score = 110 bits (274), Expect = 7e-25, Method: Compositional matrix adjust.
Identities = 53/89 (59%), Positives = 63/89 (70%), Gaps = 1/89 (1%)
Query: 1 MNVQCHACIGGTNLSEDLRKLDYGQHVVSGTPGRVFDMIRRRVLRTRNIKMLVLDEADEM 60
M+++ HACIGGT+ ED L Q VV GTPGRVFD I+RR RT IKM +LDEADEM
Sbjct: 116 MDIKVHACIGGTSFVEDAEGLRDAQIVV-GTPGRVFDNIQRRRFRTDKIKMFILDEADEM 174
Query: 61 LNKGFKEQIYDVYRYLPPATQVDWLTEKM 89
L+ GFKEQIY ++ LPP TQV L+ M
Sbjct: 175 LSSGFKEQIYQIFTLLPPTTQVVLLSATM 203
>pdb|1QDE|A Chain A, Crystal Structure Of The Atpase Domain Of Translation
Initiation Factor 4a From Saccharomyces Cerevisiae-The
Prototype Of The Dead Box Protein Family
Length = 224
Score = 109 bits (273), Expect = 9e-25, Method: Compositional matrix adjust.
Identities = 53/89 (59%), Positives = 63/89 (70%), Gaps = 1/89 (1%)
Query: 1 MNVQCHACIGGTNLSEDLRKLDYGQHVVSGTPGRVFDMIRRRVLRTRNIKMLVLDEADEM 60
M+++ HACIGGT+ ED L Q VV GTPGRVFD I+RR RT IKM +LDEADEM
Sbjct: 109 MDIKVHACIGGTSFVEDAEGLRDAQIVV-GTPGRVFDNIQRRRFRTDKIKMFILDEADEM 167
Query: 61 LNKGFKEQIYDVYRYLPPATQVDWLTEKM 89
L+ GFKEQIY ++ LPP TQV L+ M
Sbjct: 168 LSSGFKEQIYQIFTLLPPTTQVVLLSATM 196
>pdb|3GFP|A Chain A, Structure Of The C-Terminal Domain Of The Dead-Box Protein
Dbp5
Length = 189
Score = 109 bits (273), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 57/121 (47%), Positives = 78/121 (64%), Gaps = 7/121 (5%)
Query: 75 YLPPATQVDWLTEKMREANFTVSSMHGDMPQKERDGIMKEFRSGTSRVLITTDVWARGID 134
++ + L K++ VS +HGD+ +ERD ++ +FR G S+VLITT+V ARGID
Sbjct: 43 FVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDDFREGRSKVLITTNVLARGID 102
Query: 135 VQQVSLVINYDLPN------NRELYIHRIGRSGRFGRKGVAISFV-KSDDIRILRDIEQY 187
+ VS V+NYDLP + YIHRIGR+GRFGRKGVAISFV + IL I++Y
Sbjct: 103 IPTVSXVVNYDLPTLANGQADPATYIHRIGRTGRFGRKGVAISFVHDKNSFNILSAIQKY 162
Query: 188 Y 188
+
Sbjct: 163 F 163
>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 = 109 bits (272), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 57/121 (47%), Positives = 78/121 (64%), Gaps = 7/121 (5%)
Query: 75 YLPPATQVDWLTEKMREANFTVSSMHGDMPQKERDGIMKEFRSGTSRVLITTDVWARGID 134
++ + L K++ VS +HGD+ +ERD ++ +FR G S+VLITT+V ARGID
Sbjct: 42 FVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDDFREGRSKVLITTNVLARGID 101
Query: 135 VQQVSLVINYDLPN------NRELYIHRIGRSGRFGRKGVAISFV-KSDDIRILRDIEQY 187
+ VS V+NYDLP + YIHRIGR+GRFGRKGVAISFV + IL I++Y
Sbjct: 102 IPTVSXVVNYDLPTLANGQADPATYIHRIGRTGRFGRKGVAISFVHDKNSFNILSAIQKY 161
Query: 188 Y 188
+
Sbjct: 162 F 162
>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 = 106 bits (264), Expect = 1e-23, Method: Compositional matrix adjust.
Identities = 49/118 (41%), Positives = 82/118 (69%), Gaps = 6/118 (5%)
Query: 84 WLTEKMREANFTVSSMHGDMPQKERDGIMKEFRSGTSRVLITTDVWARGIDVQQVSLVIN 143
WLT +M + VS + G++ ++R I++ FR G +VLITT+V ARGIDV+QV++V+N
Sbjct: 49 WLTVEMIQDGHQVSLLSGELTVEQRASIIQRFRDGKEKVLITTNVCARGIDVKQVTIVVN 108
Query: 144 YDLPNNR------ELYIHRIGRSGRFGRKGVAISFVKSDDIRILRDIEQYYSTQIDEM 195
+DLP + E Y+HRIGR+GRFG+KG+A + ++ D++ L I+ ++++ I ++
Sbjct: 109 FDLPVKQGEEPDYETYLHRIGRTGRFGKKGLAFNMIEVDELPSLMKIQDHFNSSIKQL 166
>pdb|3BOR|A Chain A, Crystal Structure Of The Deadc Domain Of Human Translation
Initiation Factor 4a-2
Length = 237
Score = 105 bits (263), Expect = 1e-23, Method: Compositional matrix adjust.
Identities = 49/90 (54%), Positives = 65/90 (72%), Gaps = 1/90 (1%)
Query: 1 MNVQCHACIGGTNLSEDLRKLDY-GQHVVSGTPGRVFDMIRRRVLRTRNIKMLVLDEADE 59
M CHACIGGTN+ +++KL H+V GTPGRVFDM+ RR L + IKM VLDEADE
Sbjct: 125 MGATCHACIGGTNVRNEMQKLQAEAPHIVVGTPGRVFDMLNRRYLSPKWIKMFVLDEADE 184
Query: 60 MLNKGFKEQIYDVYRYLPPATQVDWLTEKM 89
ML++GFK+QIY++++ L + QV L+ M
Sbjct: 185 MLSRGFKDQIYEIFQKLNTSIQVVLLSATM 214
>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 = 104 bits (259), Expect = 4e-23, Method: Compositional matrix adjust.
Identities = 48/119 (40%), Positives = 83/119 (69%), Gaps = 7/119 (5%)
Query: 84 WLTEKMREANFTVSSMHGDMPQKERDGIMKEFRSGTSRVLITTDVWARGIDVQQVSLVIN 143
WL ++ + V+ + G+M ++R +++ FR G +VL+TT+V ARGIDV+QVS+VIN
Sbjct: 348 WLAAELSKEGHQVALLSGEMMVEQRAAVIERFREGKEKVLVTTNVCARGIDVEQVSVVIN 407
Query: 144 YDLPNNR------ELYIHRIGRSGRFGRKGVAISFVKSD-DIRILRDIEQYYSTQIDEM 195
+DLP ++ E Y+HRIGR+GRFG++G+A++ V S + IL I+++++ +I+ +
Sbjct: 408 FDLPVDKDGNPDNETYLHRIGRTGRFGKRGLAVNMVDSKHSMNILNRIQEHFNKKIERL 466
Score = 40.8 bits (94), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 26/69 (37%), Positives = 39/69 (56%), Gaps = 6/69 (8%)
Query: 20 KLDYGQ----HVVSGTPGRVFDMIRR-RVLRTRNIKMLVLDEADEML-NKGFKEQIYDVY 73
KL+ GQ +V GTPG V D + + + + IK+ VLDEAD M+ +G ++Q +
Sbjct: 202 KLERGQKISEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQ 261
Query: 74 RYLPPATQV 82
R LP Q+
Sbjct: 262 RMLPRNCQM 270
>pdb|3G0H|A Chain A, Human Dead-box Rna Helicase Ddx19, In Complex With An
Atp-analogue And Rna
Length = 424
Score = 104 bits (259), Expect = 4e-23, Method: Compositional matrix adjust.
Identities = 48/119 (40%), Positives = 83/119 (69%), Gaps = 7/119 (5%)
Query: 84 WLTEKMREANFTVSSMHGDMPQKERDGIMKEFRSGTSRVLITTDVWARGIDVQQVSLVIN 143
WL ++ + V+ + G+M ++R +++ FR G +VL+TT+V ARGIDV+QVS+VIN
Sbjct: 297 WLAAELSKEGHQVALLSGEMMVEQRAAVIERFREGKEKVLVTTNVCARGIDVEQVSVVIN 356
Query: 144 YDLPNNR------ELYIHRIGRSGRFGRKGVAISFVKSD-DIRILRDIEQYYSTQIDEM 195
+DLP ++ E Y+HRIGR+GRFG++G+A++ V S + IL I+++++ +I+ +
Sbjct: 357 FDLPVDKDGNPDNETYLHRIGRTGRFGKRGLAVNMVDSKHSMNILNRIQEHFNKKIERL 415
Score = 40.8 bits (94), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 26/69 (37%), Positives = 39/69 (56%), Gaps = 6/69 (8%)
Query: 20 KLDYGQ----HVVSGTPGRVFDMIRR-RVLRTRNIKMLVLDEADEML-NKGFKEQIYDVY 73
KL+ GQ +V GTPG V D + + + + IK+ VLDEAD M+ +G ++Q +
Sbjct: 151 KLERGQKISEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQ 210
Query: 74 RYLPPATQV 82
R LP Q+
Sbjct: 211 RMLPRNCQM 219
>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 = 104 bits (259), Expect = 4e-23, Method: Compositional matrix adjust.
Identities = 48/119 (40%), Positives = 83/119 (69%), Gaps = 7/119 (5%)
Query: 84 WLTEKMREANFTVSSMHGDMPQKERDGIMKEFRSGTSRVLITTDVWARGIDVQQVSLVIN 143
WL ++ + V+ + G+M ++R +++ FR G +VL+TT+V ARGIDV+QVS+VIN
Sbjct: 318 WLAAELSKEGHQVALLSGEMMVEQRAAVIERFREGKEKVLVTTNVCARGIDVEQVSVVIN 377
Query: 144 YDLPNNR------ELYIHRIGRSGRFGRKGVAISFVKSD-DIRILRDIEQYYSTQIDEM 195
+DLP ++ E Y+HRIGR+GRFG++G+A++ V S + IL I+++++ +I+ +
Sbjct: 378 FDLPVDKDGNPDNETYLHRIGRTGRFGKRGLAVNMVDSKHSMNILNRIQEHFNKKIERL 436
Score = 40.8 bits (94), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 26/69 (37%), Positives = 39/69 (56%), Gaps = 6/69 (8%)
Query: 20 KLDYGQ----HVVSGTPGRVFDMIRR-RVLRTRNIKMLVLDEADEML-NKGFKEQIYDVY 73
KL+ GQ +V GTPG V D + + + + IK+ VLDEAD M+ +G ++Q +
Sbjct: 172 KLERGQKISEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQ 231
Query: 74 RYLPPATQV 82
R LP Q+
Sbjct: 232 RMLPRNCQM 240
>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 = 104 bits (259), Expect = 4e-23, Method: Compositional matrix adjust.
Identities = 48/119 (40%), Positives = 83/119 (69%), Gaps = 7/119 (5%)
Query: 84 WLTEKMREANFTVSSMHGDMPQKERDGIMKEFRSGTSRVLITTDVWARGIDVQQVSLVIN 143
WL ++ + V+ + G+M ++R +++ FR G +VL+TT+V ARGIDV+QVS+VIN
Sbjct: 281 WLAAELSKEGHQVALLSGEMMVEQRAAVIERFREGKEKVLVTTNVCARGIDVEQVSVVIN 340
Query: 144 YDLPNNR------ELYIHRIGRSGRFGRKGVAISFVKSD-DIRILRDIEQYYSTQIDEM 195
+DLP ++ E Y+HRIGR+GRFG++G+A++ V S + IL I+++++ +I+ +
Sbjct: 341 FDLPVDKDGNPDNETYLHRIGRTGRFGKRGLAVNMVDSKHSMNILNRIQEHFNKKIERL 399
Score = 40.8 bits (94), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 26/69 (37%), Positives = 39/69 (56%), Gaps = 6/69 (8%)
Query: 20 KLDYGQ----HVVSGTPGRVFDMIRR-RVLRTRNIKMLVLDEADEML-NKGFKEQIYDVY 73
KL+ GQ +V GTPG V D + + + + IK+ VLDEAD M+ +G ++Q +
Sbjct: 135 KLERGQKISEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQ 194
Query: 74 RYLPPATQV 82
R LP Q+
Sbjct: 195 RMLPRNCQM 203
>pdb|1XTJ|A Chain A, Structure Of Human Uap56 In Complex With Adp
Length = 386
Score = 103 bits (257), Expect = 7e-23, Method: Compositional matrix adjust.
Identities = 43/113 (38%), Positives = 76/113 (67%), Gaps = 1/113 (0%)
Query: 85 LTEKMREANFTVSSMHGDMPQKERDGIMKEFRSGTSRVLITTDVWARGIDVQQVSLVINY 144
L + + E NF ++H MPQ+ER ++F+ R+L+ T+++ RG+D+++V++ NY
Sbjct: 266 LAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRILVATNLFGRGMDIERVNIAFNY 325
Query: 145 DLPNNRELYIHRIGRSGRFGRKGVAISFVK-SDDIRILRDIEQYYSTQIDEMP 196
D+P + + Y+HR+ R+GRFG KG+AI+FV +D +IL D++ + I E+P
Sbjct: 326 DMPEDSDTYLHRVARAGRFGTKGLAITFVSDENDAKILNDVQDRFEVNISELP 378
Score = 51.2 bits (121), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 27/83 (32%), Positives = 45/83 (54%), Gaps = 2/83 (2%)
Query: 2 NVQCHACIGGTNLSEDLRKLDYG-QHVVSGTPGRVFDMIRRRVLRTRNIKMLVLDEADEM 60
NV+ GG ++ +D L H+V GTPGR+ + R + L ++IK +LDE D+M
Sbjct: 105 NVKVAVFFGGLSIKKDEEVLKKNCPHIVVGTPGRILALARNKSLNLKHIKHFILDECDKM 164
Query: 61 LNK-GFKEQIYDVYRYLPPATQV 82
L + + + +++R P QV
Sbjct: 165 LEQLDMRRDVQEIFRMTPHEKQV 187
>pdb|1XTI|A Chain A, Structure Of Wildtype Human Uap56
Length = 391
Score = 103 bits (257), Expect = 7e-23, Method: Compositional matrix adjust.
Identities = 43/113 (38%), Positives = 76/113 (67%), Gaps = 1/113 (0%)
Query: 85 LTEKMREANFTVSSMHGDMPQKERDGIMKEFRSGTSRVLITTDVWARGIDVQQVSLVINY 144
L + + E NF ++H MPQ+ER ++F+ R+L+ T+++ RG+D+++V++ NY
Sbjct: 266 LAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRILVATNLFGRGMDIERVNIAFNY 325
Query: 145 DLPNNRELYIHRIGRSGRFGRKGVAISFVK-SDDIRILRDIEQYYSTQIDEMP 196
D+P + + Y+HR+ R+GRFG KG+AI+FV +D +IL D++ + I E+P
Sbjct: 326 DMPEDSDTYLHRVARAGRFGTKGLAITFVSDENDAKILNDVQDRFEVNISELP 378
Score = 51.2 bits (121), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 27/83 (32%), Positives = 45/83 (54%), Gaps = 2/83 (2%)
Query: 2 NVQCHACIGGTNLSEDLRKLDYG-QHVVSGTPGRVFDMIRRRVLRTRNIKMLVLDEADEM 60
NV+ GG ++ +D L H+V GTPGR+ + R + L ++IK +LDE D+M
Sbjct: 105 NVKVAVFFGGLSIKKDEEVLKKNCPHIVVGTPGRILALARNKSLNLKHIKHFILDECDKM 164
Query: 61 LNK-GFKEQIYDVYRYLPPATQV 82
L + + + +++R P QV
Sbjct: 165 LEQLDMRRDVQEIFRMTPHEKQV 187
>pdb|1XTK|A Chain A, Structure Of Decd To Dead Mutation Of Human Uap56
Length = 390
Score = 103 bits (257), Expect = 7e-23, Method: Compositional matrix adjust.
Identities = 43/113 (38%), Positives = 76/113 (67%), Gaps = 1/113 (0%)
Query: 85 LTEKMREANFTVSSMHGDMPQKERDGIMKEFRSGTSRVLITTDVWARGIDVQQVSLVINY 144
L + + E NF ++H MPQ+ER ++F+ R+L+ T+++ RG+D+++V++ NY
Sbjct: 265 LAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRILVATNLFGRGMDIERVNIAFNY 324
Query: 145 DLPNNRELYIHRIGRSGRFGRKGVAISFVK-SDDIRILRDIEQYYSTQIDEMP 196
D+P + + Y+HR+ R+GRFG KG+AI+FV +D +IL D++ + I E+P
Sbjct: 325 DMPEDSDTYLHRVARAGRFGTKGLAITFVSDENDAKILNDVQDRFEVNISELP 377
Score = 52.8 bits (125), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 28/83 (33%), Positives = 46/83 (55%), Gaps = 2/83 (2%)
Query: 2 NVQCHACIGGTNLSEDLRKLDYG-QHVVSGTPGRVFDMIRRRVLRTRNIKMLVLDEADEM 60
NV+ GG ++ +D L H+V GTPGR+ + R + L ++IK +LDEAD+M
Sbjct: 104 NVKVAVFFGGLSIKKDEEVLKKNCPHIVVGTPGRILALARNKSLNLKHIKHFILDEADKM 163
Query: 61 LNK-GFKEQIYDVYRYLPPATQV 82
L + + + +++R P QV
Sbjct: 164 LEQLDMRRDVQEIFRMTPHEKQV 186
>pdb|1T5I|A Chain A, Crystal Structure Of The C-Terminal Domain Of Uap56
Length = 172
Score = 103 bits (256), Expect = 1e-22, Method: Compositional matrix adjust.
Identities = 43/113 (38%), Positives = 76/113 (67%), Gaps = 1/113 (0%)
Query: 85 LTEKMREANFTVSSMHGDMPQKERDGIMKEFRSGTSRVLITTDVWARGIDVQQVSLVINY 144
L + + E NF ++H MPQ+ER ++F+ R+L+ T+++ RG+D+++V++ NY
Sbjct: 47 LAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRILVATNLFGRGMDIERVNIAFNY 106
Query: 145 DLPNNRELYIHRIGRSGRFGRKGVAISFVK-SDDIRILRDIEQYYSTQIDEMP 196
D+P + + Y+HR+ R+GRFG KG+AI+FV +D +IL D++ + I E+P
Sbjct: 107 DMPEDSDTYLHRVARAGRFGTKGLAITFVSDENDAKILNDVQDRFEVNISELP 159
>pdb|3FHO|A Chain A, Structure Of S. Pombe Dbp5
pdb|3FHO|B Chain B, Structure Of S. Pombe Dbp5
Length = 508
Score = 102 bits (255), Expect = 1e-22, Method: Compositional matrix adjust.
Identities = 53/130 (40%), Positives = 80/130 (61%), Gaps = 7/130 (5%)
Query: 82 VDWLTEKMREANFTVSSMHGDMPQKERDGIMKEFRSGTSRVLITTDVWARGIDVQQVSLV 141
+ + +M TV+ + G++ +RD IM FR GTS+VL+TT+V ARGIDV QV+LV
Sbjct: 370 AEEIARRMTADGHTVACLTGNLEGAQRDAIMDSFRVGTSKVLVTTNVIARGIDVSQVNLV 429
Query: 142 INYDLPNNR------ELYIHRIGRSGRFGRKGVAISFVK-SDDIRILRDIEQYYSTQIDE 194
+NYD+P ++ + Y+HRIGR+GRFGR GV+I+FV + I++Y+ I
Sbjct: 430 VNYDMPLDQAGRPDPQTYLHRIGRTGRFGRVGVSINFVHDKKSWEEMNAIQEYFQRPITR 489
Query: 195 MPMNGKRSLH 204
+P + L
Sbjct: 490 VPTDDYEELE 499
Score = 53.9 bits (128), Expect = 6e-08, Method: Compositional matrix adjust.
Identities = 28/67 (41%), Positives = 40/67 (59%), Gaps = 1/67 (1%)
Query: 26 HVVSGTPGRVFDMIRRRVLRTRNIKMLVLDEADEMLN-KGFKEQIYDVYRYLPPATQVDW 84
+V GTPG V D+++RR L R+IK+ VLDEAD ML+ +G +Q + LP TQ+
Sbjct: 237 QIVIGTPGTVMDLMKRRQLDARDIKVFVLDEADNMLDQQGLGDQSMRIKHLLPRNTQIVL 296
Query: 85 LTEKMRE 91
+ E
Sbjct: 297 FSATFSE 303
>pdb|2G9N|A Chain A, Structure Of The Dead Domain Of Human Eukaryotic
Initiation Factor 4a, Eif4a
pdb|2G9N|B Chain B, Structure Of The Dead Domain Of Human Eukaryotic
Initiation Factor 4a, Eif4a
Length = 221
Score = 101 bits (252), Expect = 2e-22, Method: Compositional matrix adjust.
Identities = 47/90 (52%), Positives = 61/90 (67%), Gaps = 1/90 (1%)
Query: 1 MNVQCHACIGGTNLSEDLRKLDY-GQHVVSGTPGRVFDMIRRRVLRTRNIKMLVLDEADE 59
M CHACIGGTN+ +++ L H++ GTPGRVFDM+ RR L I M VLDEADE
Sbjct: 110 MGASCHACIGGTNVRAEVQXLQMEAPHIIVGTPGRVFDMLNRRYLSPXYIXMFVLDEADE 169
Query: 60 MLNKGFKEQIYDVYRYLPPATQVDWLTEKM 89
ML++GF +QIYD+++ L TQV L+ M
Sbjct: 170 MLSRGFXDQIYDIFQXLNSNTQVVLLSATM 199
>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 = 98.6 bits (244), Expect = 2e-21, Method: Compositional matrix adjust.
Identities = 46/102 (45%), Positives = 67/102 (65%)
Query: 85 LTEKMREANFTVSSMHGDMPQKERDGIMKEFRSGTSRVLITTDVWARGIDVQQVSLVINY 144
L +R+ F ++HGD+ Q +R+ +++ F+ R+LI TDV +RGIDV ++ VINY
Sbjct: 254 LASXLRDIGFKAGAIHGDLSQSQREKVIRLFKQKKIRILIATDVXSRGIDVNDLNCVINY 313
Query: 145 DLPNNRELYIHRIGRSGRFGRKGVAISFVKSDDIRILRDIEQ 186
LP N E Y HRIGR+GR G+KG AIS + + + LR IE+
Sbjct: 314 HLPQNPESYXHRIGRTGRAGKKGKAISIINRREYKKLRYIER 355
Score = 54.7 bits (130), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 30/80 (37%), Positives = 43/80 (53%), Gaps = 4/80 (5%)
Query: 2 NVQCHACIGGTNLSEDLRKLDYGQHVVSGTPGRVFDMIRRRVLRTRNIKMLVLDEADEML 61
N++ GG + ++ L ++V GTPGR+ D I R L +N+K +LDEADE L
Sbjct: 102 NLKIAKIYGGKAIYPQIKALK-NANIVVGTPGRILDHINRGTLNLKNVKYFILDEADEXL 160
Query: 62 NKGFKEQIYDVYRYLPPATQ 81
N GF I DV + L +
Sbjct: 161 NXGF---IKDVEKILNACNK 177
>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 = 98.2 bits (243), Expect = 3e-21, Method: Compositional matrix adjust.
Identities = 53/153 (34%), Positives = 88/153 (57%), Gaps = 8/153 (5%)
Query: 50 KMLVLDEAD------EMLNKGFKEQIYDVYRYLPPATQVDWLTEKMREANFTVSSMHGDM 103
K++ ++E+D ++LN K+ + V+ + D L + + + +S+HGD
Sbjct: 23 KVVWVEESDKRSFLLDLLNATGKDSLTLVF--VETKKGADSLEDFLYHEGYACTSIHGDR 80
Query: 104 PQKERDGIMKEFRSGTSRVLITTDVWARGIDVQQVSLVINYDLPNNRELYIHRIGRSGRF 163
Q++R+ + +FRSG S +L+ T V ARG+D+ V VIN+DLP++ E Y+HRIGR+GR
Sbjct: 81 SQRDREEALHQFRSGKSPILVATAVAARGLDISNVKHVINFDLPSDIEEYVHRIGRTGRV 140
Query: 164 GRKGVAISFVKSDDIRILRDIEQYYSTQIDEMP 196
G G+A SF +I I +D+ E+P
Sbjct: 141 GNLGLATSFFNERNINITKDLLDLLVEAKQEVP 173
>pdb|2I4I|A Chain A, Crystal Structure Of Human Dead-Box Rna Helicase Ddx3x
Length = 417
Score = 97.8 bits (242), Expect = 4e-21, Method: Compositional matrix adjust.
Identities = 57/170 (33%), Positives = 95/170 (55%), Gaps = 10/170 (5%)
Query: 35 VFDMIRRRVLRTRNI--KMLVLDEAD------EMLNKGFKEQIYDVYRYLPPATQVDWLT 86
+F + R + NI K++ ++E+D ++LN K+ + V+ + D L
Sbjct: 236 IFLAVGRVGSTSENITQKVVWVEESDKRSFLLDLLNATGKDSLTLVF--VETKKGADSLE 293
Query: 87 EKMREANFTVSSMHGDMPQKERDGIMKEFRSGTSRVLITTDVWARGIDVQQVSLVINYDL 146
+ + + +S+HGD Q++R+ + +FRSG S +L+ T V ARG+D+ V VIN+DL
Sbjct: 294 DFLYHEGYACTSIHGDRSQRDREEALHQFRSGKSPILVATAVAARGLDISNVKHVINFDL 353
Query: 147 PNNRELYIHRIGRSGRFGRKGVAISFVKSDDIRILRDIEQYYSTQIDEMP 196
P++ E Y+HRIGR+GR G G+A SF +I I +D+ E+P
Sbjct: 354 PSDIEEYVHRIGRTGRVGNLGLATSFFNERNINITKDLLDLLVEAKQEVP 403
Score = 57.0 bits (136), Expect = 7e-09, Method: Compositional matrix adjust.
Identities = 28/64 (43%), Positives = 41/64 (64%), Gaps = 2/64 (3%)
Query: 8 CI--GGTNLSEDLRKLDYGQHVVSGTPGRVFDMIRRRVLRTRNIKMLVLDEADEMLNKGF 65
C+ GG ++ + +R L+ G H++ TPGR+ DM+ R + K LVLDEAD ML+ GF
Sbjct: 133 CVVYGGADIGQQIRDLERGCHLLVATPGRLVDMMERGKIGLDFCKYLVLDEADRMLDMGF 192
Query: 66 KEQI 69
+ QI
Sbjct: 193 EPQI 196
>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 = 91.3 bits (225), Expect = 3e-19, Method: Compositional matrix adjust.
Identities = 42/108 (38%), Positives = 69/108 (63%), Gaps = 8/108 (7%)
Query: 82 VDWLTEKMREANFTVSSMHGDMPQKERDGIMKEFRSGTSRVLITTDVWARGIDVQQVSLV 141
D+L + E F +S+HGD Q +R+ +++F++G+ +VLI T V +RG+D++ + V
Sbjct: 313 ADFLASFLSEKEFPTTSIHGDRLQSQREQALRDFKNGSMKVLIATSVASRGLDIKNIKHV 372
Query: 142 INYDLPNNRELYIHRIGRSGRFGRKGVAISF--------VKSDDIRIL 181
INYD+P+ + Y+HRIGR+GR G G A SF + +D ++IL
Sbjct: 373 INYDMPSKIDDYVHRIGRTGRVGNNGRATSFFDPEKDRAIAADLVKIL 420
Score = 51.2 bits (121), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 24/60 (40%), Positives = 34/60 (56%)
Query: 10 GGTNLSEDLRKLDYGQHVVSGTPGRVFDMIRRRVLRTRNIKMLVLDEADEMLNKGFKEQI 69
GGT+ + G HVV TPGR+ D + R + + + +VLDEAD ML+ GF E +
Sbjct: 165 GGTSFRHQNECITRGCHVVIATPGRLLDFVDRTFITFEDTRFVVLDEADRMLDMGFSEDM 224
>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 = 89.0 bits (219), Expect = 2e-18, Method: Compositional matrix adjust.
Identities = 46/112 (41%), Positives = 66/112 (58%)
Query: 81 QVDWLTEKMREANFTVSSMHGDMPQKERDGIMKEFRSGTSRVLITTDVWARGIDVQQVSL 140
+V L +REA + G+M Q +R+ +K G VL+ TDV ARGID+ VS
Sbjct: 42 RVHELANWLREAGINNCYLEGEMVQGKRNEAIKRLTEGRVNVLVATDVAARGIDIPDVSH 101
Query: 141 VINYDLPNNRELYIHRIGRSGRFGRKGVAISFVKSDDIRILRDIEQYYSTQI 192
V N+D+P + + Y+HRIGR+ R GRKG AIS V++ D +L + +Y I
Sbjct: 102 VFNFDMPRSGDTYLHRIGRTARAGRKGTAISLVEAHDHLLLGKVGRYIEEPI 153
>pdb|2Z0M|A Chain A, Crystal Structure Of Hypothetical Atp-Dependent Rna
Helicase From Sulfolobus Tokodaii
Length = 337
Score = 83.6 bits (205), Expect = 7e-17, Method: Compositional matrix adjust.
Identities = 39/75 (52%), Positives = 52/75 (69%)
Query: 99 MHGDMPQKERDGIMKEFRSGTSRVLITTDVWARGIDVQQVSLVINYDLPNNRELYIHRIG 158
+ GD+PQ R+ + FR G +LITTDV +RG+D+ V VIN+D P + YIHRIG
Sbjct: 246 LRGDLPQSVRNRNIDAFREGEYDMLITTDVASRGLDIPLVEKVINFDAPQDLRTYIHRIG 305
Query: 159 RSGRFGRKGVAISFV 173
R+GR GRKG AI+F+
Sbjct: 306 RTGRMGRKGEAITFI 320
Score = 35.8 bits (81), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 15/43 (34%), Positives = 27/43 (62%)
Query: 27 VVSGTPGRVFDMIRRRVLRTRNIKMLVLDEADEMLNKGFKEQI 69
+V TPGR+ D+ + V+ + +++++DEAD M GF + I
Sbjct: 108 IVVATPGRLLDLWSKGVIDLSSFEIVIIDEADLMFEMGFIDDI 150
>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 = 81.6 bits (200), Expect = 3e-16, Method: Compositional matrix adjust.
Identities = 40/105 (38%), Positives = 62/105 (59%), Gaps = 1/105 (0%)
Query: 82 VDWLTEKMREANFTVSSMHGDMPQKERDGIMKEFRSGTSRVLITTDVWARGIDVQQVSLV 141
VD + E + ++HG Q+ER ++ FR G VL+ TDV ++G+D + V
Sbjct: 67 VDAIHEYLLLKGVEAVAIHGGKDQEERTKAIEAFREGKKDVLVATDVASKGLDFPAIQHV 126
Query: 142 INYDLPNNRELYIHRIGRSGRFGRKGVAISFV-KSDDIRILRDIE 185
INYD+P E Y+HRIGR+G G G+A +F+ K+ D +L D++
Sbjct: 127 INYDMPEEIENYVHRIGRTGCSGNTGIATTFINKACDESVLMDLK 171
>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 = 73.9 bits (180), Expect = 6e-14, Method: Compositional matrix adjust.
Identities = 40/134 (29%), Positives = 71/134 (52%), Gaps = 5/134 (3%)
Query: 57 ADEMLNKGFKEQ--IYDVYRYLPPATQVDWLTEKMR---EANFTVSSMHGDMPQKERDGI 111
A E + K KE+ Y + P +L ++ + + + HG + Q +R +
Sbjct: 19 AVEHIKKQIKERDSNYKAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQNKRTSL 78
Query: 112 MKEFRSGTSRVLITTDVWARGIDVQQVSLVINYDLPNNRELYIHRIGRSGRFGRKGVAIS 171
+K F+ S +L+ TDV ARG+D V V+ +P+ YIHRIGR+ R G++G ++
Sbjct: 79 VKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEGSSVL 138
Query: 172 FVKSDDIRILRDIE 185
F+ D++ +R++E
Sbjct: 139 FICKDELPFVRELE 152
>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 = 73.9 bits (180), Expect = 6e-14, Method: Compositional matrix adjust.
Identities = 40/134 (29%), Positives = 71/134 (52%), Gaps = 5/134 (3%)
Query: 57 ADEMLNKGFKEQ--IYDVYRYLPPATQVDWLTEKMR---EANFTVSSMHGDMPQKERDGI 111
A E + K KE+ Y + P +L ++ + + + HG + Q +R +
Sbjct: 19 AVEHIKKQIKERDSNYKAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQNKRTSL 78
Query: 112 MKEFRSGTSRVLITTDVWARGIDVQQVSLVINYDLPNNRELYIHRIGRSGRFGRKGVAIS 171
+K F+ S +L+ TDV ARG+D V V+ +P+ YIHRIGR+ R G++G ++
Sbjct: 79 VKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEGSSVL 138
Query: 172 FVKSDDIRILRDIE 185
F+ D++ +R++E
Sbjct: 139 FICKDELPFVRELE 152
>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 = 73.9 bits (180), Expect = 6e-14, Method: Compositional matrix adjust.
Identities = 40/134 (29%), Positives = 71/134 (52%), Gaps = 5/134 (3%)
Query: 57 ADEMLNKGFKEQ--IYDVYRYLPPATQVDWLTEKMR---EANFTVSSMHGDMPQKERDGI 111
A E + K KE+ Y + P +L ++ + + + HG + Q +R +
Sbjct: 19 AVEHIKKQIKERDSNYKAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQNKRTSL 78
Query: 112 MKEFRSGTSRVLITTDVWARGIDVQQVSLVINYDLPNNRELYIHRIGRSGRFGRKGVAIS 171
+K F+ S +L+ TDV ARG+D V V+ +P+ YIHRIGR+ R G++G ++
Sbjct: 79 VKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEGSSVL 138
Query: 172 FVKSDDIRILRDIE 185
F+ D++ +R++E
Sbjct: 139 FICKDELPFVRELE 152
>pdb|3SQX|A Chain A, Structure Of Mss116p (Nte And C-Tail Double Deletion)
Bound To Ssrna And Amp-Pnp
Length = 512
Score = 73.6 bits (179), Expect = 8e-14, Method: Compositional matrix adjust.
Identities = 40/134 (29%), Positives = 71/134 (52%), Gaps = 5/134 (3%)
Query: 57 ADEMLNKGFKEQ--IYDVYRYLPPATQVDWLTEKMR---EANFTVSSMHGDMPQKERDGI 111
A E + K KE+ Y + P +L ++ + + + HG + Q +R +
Sbjct: 274 AVEHIKKQIKERDSNYKAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQNKRTSL 333
Query: 112 MKEFRSGTSRVLITTDVWARGIDVQQVSLVINYDLPNNRELYIHRIGRSGRFGRKGVAIS 171
+K F+ S +L+ TDV ARG+D V V+ +P+ YIHRIGR+ R G++G ++
Sbjct: 334 VKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEGSSVL 393
Query: 172 FVKSDDIRILRDIE 185
F+ D++ +R++E
Sbjct: 394 FICKDELPFVRELE 407
Score = 38.9 bits (89), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 21/67 (31%), Positives = 39/67 (58%), Gaps = 2/67 (2%)
Query: 5 CHACIGGTNLSEDLRKLD-YGQHVVSGTPGRVFDMIRRRVLRT-RNIKMLVLDEADEMLN 62
C + +GGT+ + K++ ++V TPGR+ D++ + + R + VLDEAD +L
Sbjct: 130 CVSLVGGTDFRAAMNKMNKLRPNIVIATPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLE 189
Query: 63 KGFKEQI 69
GF++ +
Sbjct: 190 IGFRDDL 196
>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 = 73.2 bits (178), Expect = 9e-14, Method: Compositional matrix adjust.
Identities = 40/134 (29%), Positives = 71/134 (52%), Gaps = 5/134 (3%)
Query: 57 ADEMLNKGFKEQ--IYDVYRYLPPATQVDWLTEKMR---EANFTVSSMHGDMPQKERDGI 111
A E + K KE+ Y + P +L ++ + + + HG + Q +R +
Sbjct: 325 AVEHIKKQIKERDSNYKAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQNKRTSL 384
Query: 112 MKEFRSGTSRVLITTDVWARGIDVQQVSLVINYDLPNNRELYIHRIGRSGRFGRKGVAIS 171
+K F+ S +L+ TDV ARG+D V V+ +P+ YIHRIGR+ R G++G ++
Sbjct: 385 VKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEGSSVL 444
Query: 172 FVKSDDIRILRDIE 185
F+ D++ +R++E
Sbjct: 445 FICKDELPFVRELE 458
Score = 38.9 bits (89), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 21/67 (31%), Positives = 39/67 (58%), Gaps = 2/67 (2%)
Query: 5 CHACIGGTNLSEDLRKLD-YGQHVVSGTPGRVFDMIRRRVLRT-RNIKMLVLDEADEMLN 62
C + +GGT+ + K++ ++V TPGR+ D++ + + R + VLDEAD +L
Sbjct: 181 CVSLVGGTDFRAAMNKMNKLRPNIVIATPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLE 240
Query: 63 KGFKEQI 69
GF++ +
Sbjct: 241 IGFRDDL 247
>pdb|3SQW|A Chain A, Structure Of Mss116p (Nte Deletion) Bound To Ssrna And
Amp-Pnp
Length = 579
Score = 72.8 bits (177), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 40/134 (29%), Positives = 71/134 (52%), Gaps = 5/134 (3%)
Query: 57 ADEMLNKGFKEQ--IYDVYRYLPPATQVDWLTEKMR---EANFTVSSMHGDMPQKERDGI 111
A E + K KE+ Y + P +L ++ + + + HG + Q +R +
Sbjct: 274 AVEHIKKQIKERDSNYKAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQNKRTSL 333
Query: 112 MKEFRSGTSRVLITTDVWARGIDVQQVSLVINYDLPNNRELYIHRIGRSGRFGRKGVAIS 171
+K F+ S +L+ TDV ARG+D V V+ +P+ YIHRIGR+ R G++G ++
Sbjct: 334 VKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEGSSVL 393
Query: 172 FVKSDDIRILRDIE 185
F+ D++ +R++E
Sbjct: 394 FICKDELPFVRELE 407
Score = 39.3 bits (90), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 21/67 (31%), Positives = 39/67 (58%), Gaps = 2/67 (2%)
Query: 5 CHACIGGTNLSEDLRKLD-YGQHVVSGTPGRVFDMIRRRVLRT-RNIKMLVLDEADEMLN 62
C + +GGT+ + K++ ++V TPGR+ D++ + + R + VLDEAD +L
Sbjct: 130 CVSLVGGTDFRAAMNKMNKLRPNIVIATPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLE 189
Query: 63 KGFKEQI 69
GF++ +
Sbjct: 190 IGFRDDL 196
>pdb|1VEC|A Chain A, Crystal Structure Of The N-Terminal Domain Of RckP54, A
Human Dead-Box Protein
pdb|1VEC|B Chain B, Crystal Structure Of The N-Terminal Domain Of RckP54, A
Human Dead-Box Protein
Length = 206
Score = 70.9 bits (172), Expect = 5e-13, Method: Compositional matrix adjust.
Identities = 32/76 (42%), Positives = 52/76 (68%)
Query: 7 ACIGGTNLSEDLRKLDYGQHVVSGTPGRVFDMIRRRVLRTRNIKMLVLDEADEMLNKGFK 66
A GGTNL +D+ +LD HVV TPGR+ D+I++ V + +++M+VLDEAD++L++ F
Sbjct: 105 ATTGGTNLRDDIMRLDDTVHVVIATPGRILDLIKKGVAKVDHVQMIVLDEADKLLSQDFV 164
Query: 67 EQIYDVYRYLPPATQV 82
+ + D+ LP Q+
Sbjct: 165 QIMEDIILTLPKNRQI 180
>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 = 8e-13, Method: Compositional matrix adjust.
Identities = 30/60 (50%), Positives = 41/60 (68%)
Query: 96 VSSMHGDMPQKERDGIMKEFRSGTSRVLITTDVWARGIDVQQVSLVINYDLPNNRELYIH 155
++HGDM Q ER+ +M FR G RVL+ TDV ARG+D+ QV LV++Y +P+ E Y H
Sbjct: 55 AQALHGDMSQGERERVMGAFRQGEVRVLVATDVAARGLDIPQVDLVVHYRMPDRAEAYQH 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 = 68.2 bits (165), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 29/60 (48%), Positives = 41/60 (68%)
Query: 96 VSSMHGDMPQKERDGIMKEFRSGTSRVLITTDVWARGIDVQQVSLVINYDLPNNRELYIH 155
++HGD+ Q ER+ ++ FR G RVL+ TDV ARG+D+ QV LV++Y LP+ E Y H
Sbjct: 58 AQALHGDLSQGERERVLGAFRQGEVRVLVATDVAARGLDIPQVDLVVHYRLPDRAEAYQH 117
>pdb|2OXC|A Chain A, Human Dead-Box Rna Helicase Ddx20, Dead Domain In Complex
With Adp
pdb|2OXC|B Chain B, Human Dead-Box Rna Helicase Ddx20, Dead Domain In Complex
With Adp
pdb|3B7G|A Chain A, Human Dead-Box Rna Helicase Ddx20, Conserved Domain I
(Dead) In Complex With Amppnp
(Adenosine-(Beta,Gamma)-Imidotriphosphate)
pdb|3B7G|B Chain B, Human Dead-Box Rna Helicase Ddx20, Conserved Domain I
(Dead) In Complex With Amppnp
(Adenosine-(Beta,Gamma)-Imidotriphosphate)
Length = 230
Score = 67.4 bits (163), Expect = 6e-12, Method: Compositional matrix adjust.
Identities = 38/106 (35%), Positives = 60/106 (56%), Gaps = 14/106 (13%)
Query: 2 NVQCHACIGGTNLSEDLRKLDYGQHVVSGTPGRVFDMIRRRVLRTRNIKMLVLDEADEML 61
++CH IGGT LS+D +L H+ G+PGR+ +I L +I++ +LDEAD++L
Sbjct: 121 GLECHVFIGGTPLSQDKTRLKKC-HIAVGSPGRIKQLIELDYLNPGSIRLFILDEADKLL 179
Query: 62 NKG-FKEQIYDVYRYLPPATQV------------DWLTEKMREANF 94
+G F+EQI +Y LP + Q+ + LT+ MR+ F
Sbjct: 180 EEGSFQEQINWIYSSLPASKQMLAVSATYPEFLANALTKYMRDPTF 225
>pdb|3MWJ|A Chain A, Q28e Mutant Of Hera N-Terminal Reca-Like Domain, Apo Form
pdb|3MWJ|B Chain B, Q28e Mutant Of Hera N-Terminal Reca-Like Domain, Apo Form
pdb|3MWK|A Chain A, Q28e Mutant Of Hera N-Terminal Reca-Like Domain, Complex
With 8-Oxo- Amp
pdb|3MWK|B Chain B, Q28e Mutant Of Hera N-Terminal Reca-Like Domain, Complex
With 8-Oxo- Amp
pdb|3MWL|A Chain A, Q28e Mutant Of Hera N-Terminal Reca-Like Domain In Complex
With 8- Oxoadenosine
pdb|3MWL|B Chain B, Q28e Mutant Of Hera N-Terminal Reca-Like Domain In Complex
With 8- Oxoadenosine
pdb|3NBF|A Chain A, Q28e Mutant Of Hera Helicase N-Terminal Domain Bound To
8-Oxo-Adp
pdb|3NBF|B Chain B, Q28e Mutant Of Hera Helicase N-Terminal Domain Bound To
8-Oxo-Adp
pdb|3NBF|C Chain C, Q28e Mutant Of Hera Helicase N-Terminal Domain Bound To
8-Oxo-Adp
pdb|3NBF|D Chain D, Q28e Mutant Of Hera Helicase N-Terminal Domain Bound To
8-Oxo-Adp
pdb|3NEJ|A Chain A, Q28e Mutant Of Hera Rna Helicase N-Terminal Domain -
Perfectly Twinned Hexagonal Form
pdb|3NEJ|B Chain B, Q28e Mutant Of Hera Rna Helicase N-Terminal Domain -
Perfectly Twinned Hexagonal Form
Length = 207
Score = 60.1 bits (144), Expect = 8e-10, Method: Compositional matrix adjust.
Identities = 30/80 (37%), Positives = 45/80 (56%)
Query: 2 NVQCHACIGGTNLSEDLRKLDYGQHVVSGTPGRVFDMIRRRVLRTRNIKMLVLDEADEML 61
+++ A GGT + L G V TPGR D +R+ VL +++ VLDEADEML
Sbjct: 98 HLKVVAVYGGTGYGKQKEALLRGADAVVATPGRALDYLRQGVLDLSRVEVAVLDEADEML 157
Query: 62 NKGFKEQIYDVYRYLPPATQ 81
+ GF+E++ + PP+ Q
Sbjct: 158 SMGFEEEVEALLSATPPSRQ 177
>pdb|2GXQ|A Chain A, Hera N-Terminal Domain In Complex With Amp, Crystal Form 1
pdb|2GXS|A Chain A, Hera N-Terminal Domain In Complex With Amp, Crystal Form 2
pdb|2GXS|B Chain B, Hera N-Terminal Domain In Complex With Amp, Crystal Form 2
pdb|2GXU|A Chain A, Hera N-Terminal Domain In Complex With Orthophosphate,
Crystal Form 1
Length = 207
Score = 60.1 bits (144), Expect = 8e-10, Method: Compositional matrix adjust.
Identities = 30/80 (37%), Positives = 45/80 (56%)
Query: 2 NVQCHACIGGTNLSEDLRKLDYGQHVVSGTPGRVFDMIRRRVLRTRNIKMLVLDEADEML 61
+++ A GGT + L G V TPGR D +R+ VL +++ VLDEADEML
Sbjct: 98 HLKVVAVYGGTGYGKQKEALLRGADAVVATPGRALDYLRQGVLDLSRVEVAVLDEADEML 157
Query: 62 NKGFKEQIYDVYRYLPPATQ 81
+ GF+E++ + PP+ Q
Sbjct: 158 SMGFEEEVEALLSATPPSRQ 177
>pdb|2KBE|A Chain A, Solution Structure Of Amino-Terminal Domain Of Dbp5p
Length = 226
Score = 58.9 bits (141), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 28/68 (41%), Positives = 44/68 (64%), Gaps = 1/68 (1%)
Query: 26 HVVSGTPGRVFDMIRRRVLRTRNIKMLVLDEADEMLN-KGFKEQIYDVYRYLPPATQVDW 84
V+ GTPG V D++RR++++ + IK+ VLDEAD ML+ +G +Q V R+LP TQ+
Sbjct: 140 QVIVGTPGTVLDLMRRKLMQLQKIKIFVLDEADNMLDQQGLGDQCIRVKRFLPKDTQLVL 199
Query: 85 LTEKMREA 92
+ +A
Sbjct: 200 FSATFADA 207
>pdb|1Q0U|A Chain A, Crystal Structure Of The Bstdead N-Terminal Domain
pdb|1Q0U|B Chain B, Crystal Structure Of The Bstdead N-Terminal Domain
Length = 219
Score = 57.0 bits (136), Expect = 7e-09, Method: Compositional matrix adjust.
Identities = 27/57 (47%), Positives = 36/57 (63%)
Query: 9 IGGTNLSEDLRKLDYGQHVVSGTPGRVFDMIRRRVLRTRNIKMLVLDEADEMLNKGF 65
IGGT+ + L KL+ H+V GTPGR+ D IR + L +LV+DEAD L+ GF
Sbjct: 111 IGGTDKQKALEKLNVQPHIVIGTPGRINDFIREQALDVHTAHILVVDEADLXLDXGF 167
>pdb|1WRB|A Chain A, Crystal Structure Of The N-Terminal Reca-Like Domain Of
Djvlgb, A Pranarian Vasa-Like Rna Helicase
pdb|1WRB|B Chain B, Crystal Structure Of The N-Terminal Reca-Like Domain Of
Djvlgb, A Pranarian Vasa-Like Rna Helicase
Length = 253
Score = 56.6 bits (135), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 26/71 (36%), Positives = 41/71 (57%), Gaps = 2/71 (2%)
Query: 1 MNVQCHACI--GGTNLSEDLRKLDYGQHVVSGTPGRVFDMIRRRVLRTRNIKMLVLDEAD 58
+N +C+ GG + +R++ G H++ TPGR+ D I + + K +VLDEAD
Sbjct: 125 LNTPLRSCVVYGGADTHSQIREVQMGCHLLVATPGRLVDFIEKNKISLEFCKYIVLDEAD 184
Query: 59 EMLNKGFKEQI 69
ML+ GF+ QI
Sbjct: 185 RMLDMGFEPQI 195
>pdb|3LY5|A Chain A, Ddx18 Dead-Domain
pdb|3LY5|B Chain B, Ddx18 Dead-Domain
Length = 262
Score = 54.7 bits (130), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 25/70 (35%), Positives = 46/70 (65%), Gaps = 1/70 (1%)
Query: 9 IGGTNLSEDLRKLDYGQHVVSGTPGRVFDMIRRRV-LRTRNIKMLVLDEADEMLNKGFKE 67
+GG+N S + +KL G +++ TPGR+ D ++ +N++ LV+DEAD +L+ GF+E
Sbjct: 161 MGGSNRSAEAQKLGNGINIIVATPGRLLDHMQNTPGFMYKNLQCLVIDEADRILDVGFEE 220
Query: 68 QIYDVYRYLP 77
++ + + LP
Sbjct: 221 ELKQIIKLLP 230
>pdb|1T6N|A Chain A, Crystal Structure Of The N-Terminal Domain Of Human Uap56
pdb|1T6N|B Chain B, Crystal Structure Of The N-Terminal Domain Of Human Uap56
Length = 220
Score = 50.8 bits (120), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 27/83 (32%), Positives = 45/83 (54%), Gaps = 2/83 (2%)
Query: 2 NVQCHACIGGTNLSEDLRKLDYG-QHVVSGTPGRVFDMIRRRVLRTRNIKMLVLDEADEM 60
NV+ GG ++ +D L H+V GTPGR+ + R + L ++IK +LDE D+M
Sbjct: 111 NVKVAVFFGGLSIKKDEEVLKKNCPHIVVGTPGRILALARNKSLNLKHIKHFILDECDKM 170
Query: 61 LNK-GFKEQIYDVYRYLPPATQV 82
L + + + +++R P QV
Sbjct: 171 LEQLDMRRDVQEIFRMTPHEKQV 193
>pdb|1OYY|A Chain A, Structure Of The Recq Catalytic Core Bound To Atp-Gamma-S
Length = 523
Score = 49.7 bits (117), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 25/108 (23%), Positives = 51/108 (47%)
Query: 75 YLPPATQVDWLTEKMREANFTVSSMHGDMPQKERDGIMKEFRSGTSRVLITTDVWARGID 134
Y +V+ +++ + ++ H + R + ++F+ ++++ T + GI+
Sbjct: 242 YCNSRAKVEDTAARLQSKGISAAAYHAGLENNVRADVQEKFQRDDLQIVVATVAFGMGIN 301
Query: 135 VQQVSLVINYDLPNNRELYIHRIGRSGRFGRKGVAISFVKSDDIRILR 182
V V+++D+P N E Y GR+GR G A+ F D+ LR
Sbjct: 302 KPNVRFVVHFDIPRNIESYYQETGRAGRDGLPAEAMLFYDPADMAWLR 349
>pdb|4A4D|A Chain A, Crystal Structure Of The N-Terminal Domain Of The Human
Dead-Box Rna Helicase Ddx5 (P68)
Length = 253
Score = 49.3 bits (116), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 29/85 (34%), Positives = 38/85 (44%), Gaps = 7/85 (8%)
Query: 5 CHAC-------IGGTNLSEDLRKLDYGQHVVSGTPGRVFDMIRRRVLRTRNIKMLVLDEA 57
C AC GG +R L+ G + TPGR+ D + R LVLDEA
Sbjct: 140 CRACRLKSTCIYGGAPKGPQIRDLERGVEICIATPGRLIDFLECGKTNLRRTTYLVLDEA 199
Query: 58 DEMLNKGFKEQIYDVYRYLPPATQV 82
D ML+ GF+ QI + + P Q
Sbjct: 200 DRMLDMGFEPQIRKIVDQIRPDRQT 224
>pdb|3FE2|A Chain A, Human Dead-Box Rna Helicase Ddx5 (P68), Conserved Domain I
In Complex With Adp
pdb|3FE2|B Chain B, Human Dead-Box Rna Helicase Ddx5 (P68), Conserved Domain I
In Complex With Adp
Length = 242
Score = 49.3 bits (116), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 29/84 (34%), Positives = 38/84 (45%), Gaps = 7/84 (8%)
Query: 5 CHAC-------IGGTNLSEDLRKLDYGQHVVSGTPGRVFDMIRRRVLRTRNIKMLVLDEA 57
C AC GG +R L+ G + TPGR+ D + R LVLDEA
Sbjct: 126 CRACRLKSTCIYGGAPKGPQIRDLERGVEICIATPGRLIDFLECGKTNLRRTTYLVLDEA 185
Query: 58 DEMLNKGFKEQIYDVYRYLPPATQ 81
D ML+ GF+ QI + + P Q
Sbjct: 186 DRMLDMGFEPQIRKIVDQIRPDRQ 209
>pdb|1OYW|A Chain A, Structure Of The Recq Catalytic Core
Length = 523
Score = 48.1 bits (113), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 25/108 (23%), Positives = 49/108 (45%)
Query: 75 YLPPATQVDWLTEKMREANFTVSSMHGDMPQKERDGIMKEFRSGTSRVLITTDVWARGID 134
Y +V+ +++ + ++ H + R + ++F+ ++++ T + GI+
Sbjct: 242 YCNSRAKVEDTAARLQSKGISAAAYHAGLENNVRADVQEKFQRDDLQIVVATVAFGXGIN 301
Query: 135 VQQVSLVINYDLPNNRELYIHRIGRSGRFGRKGVAISFVKSDDIRILR 182
V V+++D+P N E Y GR+GR G A F D LR
Sbjct: 302 KPNVRFVVHFDIPRNIESYYQETGRAGRDGLPAEAXLFYDPADXAWLR 349
>pdb|3BER|A Chain A, Human Dead-Box Rna-Helicase Ddx47, Conserved Domain I In
Complex With Amp
Length = 249
Score = 46.6 bits (109), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 23/78 (29%), Positives = 40/78 (51%), Gaps = 1/78 (1%)
Query: 1 MNVQCHACIGGTNLSEDLRKLDYGQHVVSGTPGRVFDMIRR-RVLRTRNIKMLVLDEADE 59
+ VQ +GG + L H++ TPGR+ D + + R +K LV+DEAD
Sbjct: 138 IGVQSAVIVGGIDSMSQSLALAKKPHIIIATPGRLIDHLENTKGFNLRALKYLVMDEADR 197
Query: 60 MLNKGFKEQIYDVYRYLP 77
+LN F+ ++ + + +P
Sbjct: 198 ILNMDFETEVDKILKVIP 215
>pdb|3IUY|A Chain A, Crystal Structure Of Ddx53 Dead-Box Domain
pdb|3IUY|B Chain B, Crystal Structure Of Ddx53 Dead-Box Domain
Length = 228
Score = 45.1 bits (105), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 24/63 (38%), Positives = 37/63 (58%), Gaps = 1/63 (1%)
Query: 8 CI-GGTNLSEDLRKLDYGQHVVSGTPGRVFDMIRRRVLRTRNIKMLVLDEADEMLNKGFK 66
CI GG N + + + G ++ TPGR+ D+ + R+I LV+DEAD+ML+ F+
Sbjct: 126 CIYGGRNRNGQIEDISKGVDIIIATPGRLNDLQMNNSVNLRSITYLVIDEADKMLDMEFE 185
Query: 67 EQI 69
QI
Sbjct: 186 PQI 188
>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 = 44.7 bits (104), Expect = 4e-05, Method: Composition-based stats.
Identities = 25/87 (28%), Positives = 42/87 (48%), Gaps = 10/87 (11%)
Query: 84 WLTEKMREANFTVSSMH----------GDMPQKERDGIMKEFRSGTSRVLITTDVWARGI 133
W+TE + A V + H M Q E+ ++ +FR+G +LI T V G+
Sbjct: 419 WITENEKFAEVGVKAHHLIGAGHSSEFKPMTQNEQKEVISKFRTGKINLLIATTVAEEGL 478
Query: 134 DVQQVSLVINYDLPNNRELYIHRIGRS 160
D+++ ++VI Y L N + GR+
Sbjct: 479 DIKECNIVIRYGLVTNEIAMVQARGRA 505
>pdb|1GM5|A Chain A, Structure Of Recg Bound To Three-Way Dna Junction
Length = 780
Score = 44.7 bits (104), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 39/147 (26%), Positives = 74/147 (50%), Gaps = 19/147 (12%)
Query: 35 VFDMIRRRVLRTRNIKML--VLDEADEMLNKGFKEQIYDVYRYLPPATQVDWLTEKMREA 92
V++ +R+ V+R ++ +++E+D++ K E +Y YL K
Sbjct: 567 VYEFVRQEVMRGGQAFIVYPLIEESDKLNVKSAVE----MYEYL----------SKEVFP 612
Query: 93 NFTVSSMHGDMPQKERDGIMKEFRSGTSRVLITTDVWARGIDVQQVSLVINYDLPNNREL 152
F + MHG + Q+E+D +M EF G +L++T V GIDV + ++++ +
Sbjct: 613 EFKLGLMHGRLSQEEKDRVMLEFAEGRYDILVSTTVIEVGIDVPRANVMVIENPERFGLA 672
Query: 153 YIHRI-GRSGRFGRKGVAISFVKSDDI 178
+H++ GR GR G++ A F+ D+
Sbjct: 673 QLHQLRGRVGRGGQE--AYCFLVVGDV 697
>pdb|1D9Z|A Chain A, Crystal Structure Of The Dna Repair Protein Uvrb In
Complex With Atp
Length = 657
Score = 44.3 bits (103), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 39/133 (29%), Positives = 66/133 (49%), Gaps = 15/133 (11%)
Query: 85 LTEKMREANFTVSSMHGDMPQKERDGIMKEFRSGTSRVLITTDVWARGIDVQQVSLVINY 144
LT+ ++EA V+ +H ++ ER I+++ R G VL+ ++ G+D+ +VSLV
Sbjct: 460 LTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLREGLDIPEVSLVAIL 519
Query: 145 D------LPNNRELYIHRIGRSGRFGRKGV---AISFVKSDDIRIL-----RDIEQYYST 190
D L + R L I IGR+ R V A + KS +I I R I++ Y+
Sbjct: 520 DADKEGFLRSERSL-IQTIGRAARNANGHVIMYADTITKSMEIAIQETKRRRAIQEEYNR 578
Query: 191 QIDEMPMNGKRSL 203
+ +P K+ +
Sbjct: 579 KHGIVPRTVKKEI 591
>pdb|1D9X|A Chain A, Crystal Structure Of The Dna Repair Protein Uvrb
Length = 658
Score = 44.3 bits (103), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 39/133 (29%), Positives = 66/133 (49%), Gaps = 15/133 (11%)
Query: 85 LTEKMREANFTVSSMHGDMPQKERDGIMKEFRSGTSRVLITTDVWARGIDVQQVSLVINY 144
LT+ ++EA V+ +H ++ ER I+++ R G VL+ ++ G+D+ +VSLV
Sbjct: 461 LTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLREGLDIPEVSLVAIL 520
Query: 145 D------LPNNRELYIHRIGRSGRFGRKGV---AISFVKSDDIRIL-----RDIEQYYST 190
D L + R L I IGR+ R V A + KS +I I R I++ Y+
Sbjct: 521 DADKEGFLRSERSL-IQTIGRAARNANGHVIMYADTITKSMEIAIQETKRRRAIQEEYNR 579
Query: 191 QIDEMPMNGKRSL 203
+ +P K+ +
Sbjct: 580 KHGIVPRTVKKEI 592
>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 = 44.3 bits (103), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 39/133 (29%), Positives = 66/133 (49%), Gaps = 15/133 (11%)
Query: 85 LTEKMREANFTVSSMHGDMPQKERDGIMKEFRSGTSRVLITTDVWARGIDVQQVSLVINY 144
LT+ ++EA V+ +H ++ ER I+++ R G VL+ ++ G+D+ +VSLV
Sbjct: 461 LTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLREGLDIPEVSLVAIL 520
Query: 145 D------LPNNRELYIHRIGRSGRFGRKGV---AISFVKSDDIRIL-----RDIEQYYST 190
D L + R L I IGR+ R V A + KS +I I R I++ Y+
Sbjct: 521 DADKEGFLRSERSL-IQTIGRAARNANGHVIMYADTITKSMEIAIQETKRRRAIQEEYNR 579
Query: 191 QIDEMPMNGKRSL 203
+ +P K+ +
Sbjct: 580 KHGIVPRTVKKEI 592
>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 = 43.9 bits (102), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 39/133 (29%), Positives = 66/133 (49%), Gaps = 15/133 (11%)
Query: 85 LTEKMREANFTVSSMHGDMPQKERDGIMKEFRSGTSRVLITTDVWARGIDVQQVSLVINY 144
LT+ ++EA V+ +H ++ ER I+++ R G VL+ ++ G+D+ +VSLV
Sbjct: 461 LTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLREGLDIPEVSLVAIL 520
Query: 145 D------LPNNRELYIHRIGRSGRFGRKGV---AISFVKSDDIRIL-----RDIEQYYST 190
D L + R L I IGR+ R V A + KS +I I R I++ Y+
Sbjct: 521 DADKEGFLRSERSL-IQTIGRAARNANGHVIMYADTITKSMEIAIQETKRRRAIQEEYNR 579
Query: 191 QIDEMPMNGKRSL 203
+ +P K+ +
Sbjct: 580 KHGIVPRTVKKEI 592
>pdb|3UWX|B Chain B, Crystal Structure Of Uvra-Uvrb Complex
Length = 683
Score = 43.9 bits (102), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 39/133 (29%), Positives = 66/133 (49%), Gaps = 15/133 (11%)
Query: 85 LTEKMREANFTVSSMHGDMPQKERDGIMKEFRSGTSRVLITTDVWARGIDVQQVSLVINY 144
LT+ ++EA V+ +H ++ ER I+++ R G VL+ ++ G+D+ +VSLV
Sbjct: 486 LTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLREGLDIPEVSLVAIL 545
Query: 145 D------LPNNRELYIHRIGRSGRFGRKGV---AISFVKSDDIRIL-----RDIEQYYST 190
D L + R L I IGR+ R V A + KS +I I R I++ Y+
Sbjct: 546 DADKEGFLRSERSL-IQTIGRAARNANGHVIMYADTITKSMEIAIQETKRRRAIQEEYNR 604
Query: 191 QIDEMPMNGKRSL 203
+ +P K+ +
Sbjct: 605 KHGIVPRTVKKEI 617
>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 = 43.5 bits (101), Expect = 9e-05, Method: Compositional matrix adjust.
Identities = 44/168 (26%), Positives = 73/168 (43%), Gaps = 24/168 (14%)
Query: 34 RVFDMIRRRVLRTRNIKMLVLDEADEMLNKGFKEQIYD---VYRYLPPATQVDWLTEKMR 90
++ ++IR ++ R +N K++V E K E + D R++ A++ +
Sbjct: 347 KLKEIIREQLQRKQNSKIIVFTNYRETAKKIVNELVKDGIKAKRFVGQASKEN------- 399
Query: 91 EANFTVSSMHGDMPQKERDGIMKEFRSGTSRVLITTDVWARGIDVQQVSLVINYDLPNNR 150
+ Q+E+ I+ EF G VL+ T V G+DV +V LV+ Y+ +
Sbjct: 400 ---------DRGLSQREQKLILDEFARGEFNVLVATSVGEEGLDVPEVDLVVFYEPVPSA 450
Query: 151 ELYIHRIGRSGRFGRKGVAISFVKSDDIRILRDIEQYYSTQIDEMPMN 198
I R GR+GR V I K RD Y+S++ E M
Sbjct: 451 IRSIQRRGRTGRHMPGRVIILMAKGT-----RDEAYYWSSRQKEKIMQ 493
>pdb|2PL3|A Chain A, Human Dead-Box Rna Helicase Ddx10, Dead Domain In Complex
With Adp
Length = 236
Score = 41.2 bits (95), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 24/74 (32%), Positives = 41/74 (55%), Gaps = 2/74 (2%)
Query: 9 IGGTNLSEDLRKLDYGQHVVSGTPGRVFDMIRRRV-LRTRNIKMLVLDEADEMLNKGFKE 67
IGG +L + +++ +++ TPGR+ + V +++MLVLDEAD +L+ GF +
Sbjct: 132 IGGKDLKHEAERIN-NINILVCTPGRLLQHMDETVSFHATDLQMLVLDEADRILDMGFAD 190
Query: 68 QIYDVYRYLPPATQ 81
+ V LP Q
Sbjct: 191 TMNAVIENLPKKRQ 204
>pdb|3FMO|B Chain B, Crystal Structure Of The Nucleoporin Nup214 In Complex
With The Dead- Box Helicase Ddx19
Length = 300
Score = 41.2 bits (95), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 25/64 (39%), Positives = 37/64 (57%), Gaps = 6/64 (9%)
Query: 20 KLDYGQ----HVVSGTPGRVFDMIRR-RVLRTRNIKMLVLDEADEML-NKGFKEQIYDVY 73
KL+ GQ +V GTPG V D + + + + IK+ VLDEAD M+ +G ++Q +
Sbjct: 202 KLERGQKISEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQ 261
Query: 74 RYLP 77
R LP
Sbjct: 262 RMLP 265
>pdb|3V4R|A Chain A, Crystal Structure Of A Uvrb Dimer-Dna Complex
pdb|3V4R|B Chain B, Crystal Structure Of A Uvrb Dimer-Dna Complex
Length = 667
Score = 40.8 bits (94), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 27/84 (32%), Positives = 45/84 (53%), Gaps = 7/84 (8%)
Query: 85 LTEKMREANFTVSSMHGDMPQKERDGIMKEFRSGTSRVLITTDVWARGIDVQQVSLVINY 144
LT+ ++E V+ +H ++ ER I+++ R G VL+ ++ G+D+ +VSLV
Sbjct: 467 LTDYLKEIGIKVNYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLREGLDIPEVSLVAIL 526
Query: 145 D------LPNNRELYIHRIGRSGR 162
D L + R L I IGR+ R
Sbjct: 527 DADKEGFLRSERSL-IQTIGRAAR 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 = 40.8 bits (94), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 27/84 (32%), Positives = 45/84 (53%), Gaps = 7/84 (8%)
Query: 85 LTEKMREANFTVSSMHGDMPQKERDGIMKEFRSGTSRVLITTDVWARGIDVQQVSLVINY 144
LT+ ++E V+ +H ++ ER I+++ R G VL+ ++ G+D+ +VSLV
Sbjct: 461 LTDYLKEIGIKVNYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLREGLDIPEVSLVAIL 520
Query: 145 D------LPNNRELYIHRIGRSGR 162
D L + R L I IGR+ R
Sbjct: 521 DADKEGFLRSERSL-IQTIGRAAR 543
>pdb|3FHC|B Chain B, Crystal Structure Of Human Dbp5 In Complex With Nup214
Length = 235
Score = 40.4 bits (93), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 25/64 (39%), Positives = 37/64 (57%), Gaps = 6/64 (9%)
Query: 20 KLDYGQ----HVVSGTPGRVFDMIRR-RVLRTRNIKMLVLDEADEML-NKGFKEQIYDVY 73
KL+ GQ +V GTPG V D + + + + IK+ VLDEAD M+ +G ++Q +
Sbjct: 135 KLERGQKISEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQ 194
Query: 74 RYLP 77
R LP
Sbjct: 195 RMLP 198
>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 = 38.1 bits (87), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 34/179 (18%), Positives = 76/179 (42%), Gaps = 43/179 (24%)
Query: 24 GQHVVSGTPGRVF--------------DMIRRRVLRTRNIKMLVLDEADEM-LNKGFKEQ 68
G+H+ T R+F + + ++ LR R I + ++ +++ + G+ E+
Sbjct: 256 GKHLAKYTIKRIFVPLAEDERVEYEKREKVYKQFLRARGITLRRAEDFNKIVMASGYDER 315
Query: 69 IYDVYRYLPPATQVDW-----------LTEKMREANFTVSSMHGDM-------------- 103
Y+ R A ++ + + E+ R+ + + H ++
Sbjct: 316 AYEALRAWEEARRIAFNSKNKIRKLREILERHRKDKIIIFTRHNELVYRISKVFLIPAIT 375
Query: 104 ---PQKERDGIMKEFRSGTSRVLITTDVWARGIDVQQVSLVINYDLPNNRELYIHRIGR 159
++ER+ I++ FR+G R ++++ V GIDV ++ + + YI R+GR
Sbjct: 376 HRTSREEREEILEGFRTGRFRAIVSSQVLDEGIDVPDANVGVIMSGSGSAREYIQRLGR 434
>pdb|4I1S|A Chain A, Melanoma Differentiation Associated Protein-5 Helicase
Domain Complex With Inhibitor Non-structural Protein V
Length = 243
Score = 37.4 bits (85), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 20/73 (27%), Positives = 36/73 (49%), Gaps = 10/73 (13%)
Query: 84 WLTEKMREANFTVSSMH----------GDMPQKERDGIMKEFRSGTSRVLITTDVWARGI 133
W+T+ + A V + H Q E+ ++ +FR+G +LI T V G+
Sbjct: 169 WITDNKKFAEVGVKAHHLIGAGHSSEFKPXTQNEQREVISKFRTGKINLLIATTVAEEGL 228
Query: 134 DVQQVSLVINYDL 146
D+++ ++VI Y L
Sbjct: 229 DIKECNIVIRYGL 241
>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 = 37.0 bits (84), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 20/94 (21%), Positives = 44/94 (46%)
Query: 85 LTEKMREANFTVSSMHGDMPQKERDGIMKEFRSGTSRVLITTDVWARGIDVQQVSLVINY 144
+T ++ + H ++ +++ + +++ + +V++ T + GID V VI++
Sbjct: 283 VTVSLQNLGIHAGAYHANLEPEDKTTVHRKWSANEIQVVVATVAFGMGIDKPDVRFVIHH 342
Query: 145 DLPNNRELYIHRIGRSGRFGRKGVAISFVKSDDI 178
+ + E Y GR+GR K I + DI
Sbjct: 343 SMSKSMENYYQESGRAGRDDMKADCILYYGFGDI 376
>pdb|2FZL|A Chain A, Structure Of C-Terminal Domain Of Archaeoglobus Fulgidus
Xpb
Length = 219
Score = 36.6 bits (83), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 29/152 (19%), Positives = 68/152 (44%), Gaps = 29/152 (19%)
Query: 37 DMIRRRVLRTRNIKMLVLDEADEM-LNKGFKEQIYDVYRYLPPATQVDW----------- 84
+ + ++ LR R I + ++ +++ + G+ E+ Y+ R A ++ +
Sbjct: 48 EKVYKQFLRARGITLRRAEDFNKIVMASGYDERAYEALRAWEEARRIAFNSKNKIRKLRE 107
Query: 85 LTEKMREANFTVSSMHGDM-----------------PQKERDGIMKEFRSGTSRVLITTD 127
+ E+ R+ + + H ++ ++ER+ I++ FR+G R ++++
Sbjct: 108 ILERHRKDKIIIFTRHNELVYRISKVFLIPAITHRTSREEREEILEGFRTGRFRAIVSSQ 167
Query: 128 VWARGIDVQQVSLVINYDLPNNRELYIHRIGR 159
V GIDV ++ + + YI R+GR
Sbjct: 168 VLDEGIDVPDANVGVIMSGSGSAREYIQRLGR 199
>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 = 0.011, Method: Compositional matrix adjust.
Identities = 22/70 (31%), Positives = 35/70 (50%), Gaps = 1/70 (1%)
Query: 103 MPQKERDGIMKEFR-SGTSRVLITTDVWARGIDVQQVSLVINYDLPNNRELYIHRIGRSG 161
M + G++ F+ S +R+LI T V GID+ Q +LV+ Y+ N I GR
Sbjct: 436 MTLPSQKGVLDAFKTSKDNRLLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQVRGRGR 495
Query: 162 RFGRKGVAIS 171
G K + ++
Sbjct: 496 AAGSKCILVT 505
>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 = 36.6 bits (83), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 22/70 (31%), Positives = 35/70 (50%), Gaps = 1/70 (1%)
Query: 103 MPQKERDGIMKEFR-SGTSRVLITTDVWARGIDVQQVSLVINYDLPNNRELYIHRIGRSG 161
M + G++ F+ S +R+LI T V GID+ Q +LV+ Y+ N I GR
Sbjct: 677 MTLPSQKGVLDAFKTSKDNRLLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQVRGRGR 736
Query: 162 RFGRKGVAIS 171
G K + ++
Sbjct: 737 AAGSKCILVT 746
>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 = 36.6 bits (83), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 22/70 (31%), Positives = 35/70 (50%), Gaps = 1/70 (1%)
Query: 103 MPQKERDGIMKEFR-SGTSRVLITTDVWARGIDVQQVSLVINYDLPNNRELYIHRIGRSG 161
M + G++ F+ S +R+LI T V GID+ Q +LV+ Y+ N I GR
Sbjct: 677 MTLPSQKGVLDAFKTSKDNRLLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQVRGRGR 736
Query: 162 RFGRKGVAIS 171
G K + ++
Sbjct: 737 AAGSKCILVT 746
>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 = 33.9 bits (76), Expect = 0.068, Method: Composition-based stats.
Identities = 16/46 (34%), Positives = 28/46 (60%)
Query: 120 SRVLITTDVWARGIDVQQVSLVINYDLPNNRELYIHRIGRSGRFGR 165
++VL+ +++ + G + Q S + +DLP N +L RIGR R G+
Sbjct: 557 AQVLLCSEIGSEGRNFQFASHXVXFDLPFNPDLLEQRIGRLDRIGQ 602
>pdb|1D2M|A Chain A, Uvrb Protein Of Thermus Thermophilus Hb8; A Nucleotide
Excision Repair Enzyme
Length = 665
Score = 33.5 bits (75), Expect = 0.092, Method: Composition-based stats.
Identities = 43/164 (26%), Positives = 70/164 (42%), Gaps = 29/164 (17%)
Query: 28 VSGTPG--------RVFDMIRRR------VLRTRNIKMLVLDEADEMLNKGFKEQIYDVY 73
VS TPG RV + I R ++R + + +LD L +G +E+
Sbjct: 387 VSATPGPFELAHSGRVVEQIIRPTGLLDPLVRVKPTENQILD-----LMEGIRERAARGE 441
Query: 74 RYLPPATQV---DWLTEKMREANFTVSSMHGDMPQKERDGIMKEFRSGTSRVLITTDVWA 130
R L V + LT + E +H ++ +R ++++ R G L+ ++
Sbjct: 442 RTLVTVLTVRMAEELTSFLVEHGIRARYLHHELDAFKRQALIRDLRLGHYDCLVGINLLR 501
Query: 131 RGIDVQQVSLVINYD------LPNNRELYIHRIGRSGRFGRKGV 168
G+D+ +VSLV D L + R L I IGR+ R R V
Sbjct: 502 EGLDIPEVSLVAILDADKEGFLRSERSL-IQTIGRAARNARGEV 544
>pdb|1C4O|A Chain A, Crystal Structure Of The Dna Nucleotide Excision Repair
Enzyme Uvrb From Thermus Thermophilus
Length = 664
Score = 33.5 bits (75), Expect = 0.092, Method: Composition-based stats.
Identities = 43/164 (26%), Positives = 70/164 (42%), Gaps = 29/164 (17%)
Query: 28 VSGTPG--------RVFDMIRRR------VLRTRNIKMLVLDEADEMLNKGFKEQIYDVY 73
VS TPG RV + I R ++R + + +LD L +G +E+
Sbjct: 386 VSATPGPFELAHSGRVVEQIIRPTGLLDPLVRVKPTENQILD-----LMEGIRERAARGE 440
Query: 74 RYLPPATQV---DWLTEKMREANFTVSSMHGDMPQKERDGIMKEFRSGTSRVLITTDVWA 130
R L V + LT + E +H ++ +R ++++ R G L+ ++
Sbjct: 441 RTLVTVLTVRMAEELTSFLVEHGIRARYLHHELDAFKRQALIRDLRLGHYDCLVGINLLR 500
Query: 131 RGIDVQQVSLVINYD------LPNNRELYIHRIGRSGRFGRKGV 168
G+D+ +VSLV D L + R L I IGR+ R R V
Sbjct: 501 EGLDIPEVSLVAILDADKEGFLRSERSL-IQTIGRAARNARGEV 543
>pdb|4AY2|A Chain A, Capturing 5' Tri-Phosphorylated Rna Duplex By Rig-I
Length = 687
Score = 32.7 bits (73), Expect = 0.13, Method: Composition-based stats.
Identities = 22/57 (38%), Positives = 28/57 (49%), Gaps = 1/57 (1%)
Query: 111 IMKEFR-SGTSRVLITTDVWARGIDVQQVSLVINYDLPNNRELYIHRIGRSGRFGRK 166
I+ F+ SG +LI T V GID+ Q +LVI Y+ N I GR G K
Sbjct: 443 ILDAFKASGDHNILIATSVADEGIDIAQCNLVILYEYVGNVIKMIQTRGRGRARGSK 499
>pdb|2YKG|A Chain A, Structural Insights Into Rna Recognition By Rig-I
Length = 696
Score = 32.7 bits (73), Expect = 0.13, Method: Composition-based stats.
Identities = 22/57 (38%), Positives = 28/57 (49%), Gaps = 1/57 (1%)
Query: 111 IMKEFR-SGTSRVLITTDVWARGIDVQQVSLVINYDLPNNRELYIHRIGRSGRFGRK 166
I+ F+ SG +LI T V GID+ Q +LVI Y+ N I GR G K
Sbjct: 452 ILDAFKASGDHNILIATSVADEGIDIAQCNLVILYEYVGNVIKMIQTRGRGRARGSK 508
>pdb|3TMI|A Chain A, Structural Basis For Rna Recognition And Activation Of
Rig-I
Length = 695
Score = 32.7 bits (73), Expect = 0.13, Method: Composition-based stats.
Identities = 22/57 (38%), Positives = 28/57 (49%), Gaps = 1/57 (1%)
Query: 111 IMKEFR-SGTSRVLITTDVWARGIDVQQVSLVINYDLPNNRELYIHRIGRSGRFGRK 166
I+ F+ SG +LI T V GID+ Q +LVI Y+ N I GR G K
Sbjct: 451 ILDAFKASGDHNILIATSVADEGIDIAQCNLVILYEYVGNVIKMIQTRGRGRARGSK 507
>pdb|3TBK|A Chain A, Mouse Rig-I Atpase Domain
Length = 555
Score = 32.7 bits (73), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 29/89 (32%), Positives = 41/89 (46%), Gaps = 8/89 (8%)
Query: 111 IMKEFR-SGTSRVLITTDVWARGIDVQQVSLVINYDLPNNRELYIHRIGRSGRFGRKGVA 169
+++ FR SG + +LI T V GID+ + +LVI Y+ N I GR GR R
Sbjct: 443 VLEAFRASGDNNILIATSVADEGIDIAECNLVILYEYVGNVIKXIQTRGR-GR-ARDSKC 500
Query: 170 ISFVKSDDIRILRDIEQYYSTQIDEMPMN 198
S D+ IE+ + I E N
Sbjct: 501 FLLTSSADV-----IEKEKANXIKEKIXN 524
>pdb|2ANU|A Chain A, Crystal Structure Of Predicted Metal-Dependent
Phosphoesterase (Php Family) (Tm0559) From Thermotoga
Maritima At 2.40 A Resolution
pdb|2ANU|B Chain B, Crystal Structure Of Predicted Metal-Dependent
Phosphoesterase (Php Family) (Tm0559) From Thermotoga
Maritima At 2.40 A Resolution
pdb|2ANU|C Chain C, Crystal Structure Of Predicted Metal-Dependent
Phosphoesterase (Php Family) (Tm0559) From Thermotoga
Maritima At 2.40 A Resolution
pdb|2ANU|D Chain D, Crystal Structure Of Predicted Metal-Dependent
Phosphoesterase (Php Family) (Tm0559) From Thermotoga
Maritima At 2.40 A Resolution
pdb|2ANU|E Chain E, Crystal Structure Of Predicted Metal-Dependent
Phosphoesterase (Php Family) (Tm0559) From Thermotoga
Maritima At 2.40 A Resolution
pdb|2ANU|F Chain F, Crystal Structure Of Predicted Metal-Dependent
Phosphoesterase (Php Family) (Tm0559) From Thermotoga
Maritima At 2.40 A Resolution
Length = 255
Score = 32.3 bits (72), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 16/59 (27%), Positives = 29/59 (49%)
Query: 71 DVYRYLPPATQVDWLTEKMREANFTVSSMHGDMPQKERDGIMKEFRSGTSRVLITTDVW 129
DV Y+ P+ V+ + EK++E N V + H D +++ + + + R T D W
Sbjct: 123 DVKEYVDPSLPVEEIVEKLKEQNALVIAAHPDRKKQDEEHLSWYLWANXERFKDTFDAW 181
>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 = 32.0 bits (71), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 23/86 (26%), Positives = 40/86 (46%), Gaps = 3/86 (3%)
Query: 85 LTEKMREANFTVSSMHGDMPQKERDGIMKEFRSGTSRVLITTDVWARGIDVQQVSLVINY 144
L E + EA + HG M ++E + +M +F VL+ T + GID+ + +I
Sbjct: 832 LAELVPEARIAIG--HGQMRERELERVMNDFHHQRFNVLVCTTIIETGIDIPTANTIIIE 889
Query: 145 DLPNNRELYIHRI-GRSGRFGRKGVA 169
+ +H++ GR GR + A
Sbjct: 890 RADHFGLAQLHQLRGRVGRSHHQAYA 915
>pdb|1TW0|A Chain A, Native Crystal Structure Of Spe16
pdb|1TW0|B Chain B, Native Crystal Structure Of Spe16
pdb|1TXC|A Chain A, Complex Crystal Structure Of Spe16 With Ans
pdb|1TXC|B Chain B, Complex Crystal Structure Of Spe16 With Ans
Length = 157
Score = 29.3 bits (64), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 20/61 (32%), Positives = 30/61 (49%), Gaps = 5/61 (8%)
Query: 6 HACIGGTNLSEDLRKLDYGQHVVSGTPGRVFDMIRRRVLRTRNIKMLVLDEA--DEMLNK 63
++ +GGT L E L KL + VV+G+ G I + L+ L +A D+ L K
Sbjct: 82 YSIVGGTGLPESLEKLSFETKVVAGSGGG---SISKVTLKFHTKGDAPLSDAVRDDALAK 138
Query: 64 G 64
G
Sbjct: 139 G 139
>pdb|2ADG|A Chain A, Crystal Structure Of Monoclonal Anti-Cd4 Antibody Q425
pdb|2ADI|A Chain A, Crystal Structure Of Monoclonal Anti-Cd4 Antibody Q425 In
Complex With Barium
pdb|2ADJ|A Chain A, Crystal Structure Of Monoclonal Anti-Cd4 Antibody Q425 In
Complex With Calcium
Length = 214
Score = 29.3 bits (64), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 13/42 (30%), Positives = 19/42 (45%)
Query: 156 RIGRSGRFGRKGVAISFVKSDDIRILRDIEQYYSTQIDEMPM 197
R G RF G FV + + + D+ YY Q D +P+
Sbjct: 55 RPGVPSRFSSSGYGTDFVFTIENMLSEDVADYYCLQSDTLPL 96
>pdb|3BQU|C Chain C, Crystal Structure Of The 2f5 Fab'-3h6 Fab Complex
Length = 233
Score = 28.5 bits (62), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 13/41 (31%), Positives = 18/41 (43%)
Query: 156 RIGRSGRFGRKGVAISFVKSDDIRILRDIEQYYSTQIDEMP 196
R G RF G FV + + + D+ YY Q D +P
Sbjct: 77 RPGVPSRFSSSGYGTDFVFTIENMLSEDVADYYCLQSDNLP 117
>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 = 27.3 bits (59), Expect = 6.7, Method: Composition-based stats.
Identities = 24/95 (25%), Positives = 41/95 (43%), Gaps = 12/95 (12%)
Query: 96 VSSMHGDMPQKERDGIMKEFRSGTSRVLITTDVWARGIDVQQVSLVINYDLPNNRELYIH 155
V+ H + + ER + + FR G + ++ T + GI+ ++I D+ + +
Sbjct: 297 VAFHHAGLGRDERVLVEENFRKGIIKAVVATPTLSAGINTPAFRVIIR-DIWRYSDFGME 355
Query: 156 RI---------GRSGR--FGRKGVAISFVKSDDIR 179
RI GR+GR + G I SDD R
Sbjct: 356 RIPIIEVHQMLGRAGRPKYDEVGEGIIVSTSDDPR 390
>pdb|3MWY|W Chain W, Crystal Structure Of The Chromodomain-atpase Portion Of
The Yeast Chd1 Chromatin Remodeler
Length = 800
Score = 26.9 bits (58), Expect = 8.1, Method: Compositional matrix adjust.
Identities = 39/170 (22%), Positives = 67/170 (39%), Gaps = 22/170 (12%)
Query: 13 NLSEDLRKLDYGQHVVSGTPGRVFD------MIRRRVLR---TRNIKMLVLDEADEMLNK 63
N+ +L+K ++ RV M R VLR + KM++LD+ L K
Sbjct: 511 NIMNELKKASNHPYLFDNAEERVLQKFGDGKMTRENVLRGLIMSSGKMVLLDQLLTRLKK 570
Query: 64 GFKEQIYDVYRYLPPATQV---DWLTEKMREANFTVSSMHGDMPQKERDGIMKEFRSGTS 120
D +R L + V D L + + + G +P +R + F S S
Sbjct: 571 -------DGHRVLIFSQMVRMLDILGDYLSIKGINFQRLDGTVPSAQRRISIDHFNSPDS 623
Query: 121 R---VLITTDVWARGIDVQQVSLVINYDLPNNRELYIHRIGRSGRFGRKG 167
L++T GI++ V+ +D N + + + R+ R G+K
Sbjct: 624 NDFVFLLSTRAGGLGINLMTADTVVIFDSDWNPQADLQAMARAHRIGQKN 673
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.322 0.138 0.409
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,328,662
Number of Sequences: 62578
Number of extensions: 248617
Number of successful extensions: 729
Number of sequences better than 100.0: 98
Number of HSP's better than 100.0 without gapping: 93
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 578
Number of HSP's gapped (non-prelim): 126
length of query: 210
length of database: 14,973,337
effective HSP length: 95
effective length of query: 115
effective length of database: 9,028,427
effective search space: 1038269105
effective search space used: 1038269105
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 49 (23.5 bits)