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= psy4150
(395 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 117 bits (293), Expect = 1e-26, Method: Compositional matrix adjust.
Identities = 66/164 (40%), Positives = 102/164 (62%), Gaps = 12/164 (7%)
Query: 88 IMSSEYAWSHLKFIRLREILESHFRLHAEKGETTKVIIFANYRVVVAEIFDVLKPLEPMV 147
+ + E H K +L+EI+ R ++ + +K+I+F NYR +I + L ++ +
Sbjct: 333 VQAKEIGLDHPKMDKLKEII----REQLQRKQNSKIIVFTNYRETAKKIVNEL--VKDGI 386
Query: 148 KASMFVGQSS-----GVTQQEQKEIMKKFRAGEFNTLIATSVGEEGLDIGEIDLVICFDA 202
KA FVGQ+S G++Q+EQK I+ +F GEFN L+ATSVGEEGLD+ E+DLV+ ++
Sbjct: 387 KAKRFVGQASKENDRGLSQREQKLILDEFARGEFNVLVATSVGEEGLDVPEVDLVVFYEP 446
Query: 203 QKSPIKMVQRLGRTGRKRNGRCVILLTQG-REAHNFQTSMQTCK 245
S I+ +QR GRTGR GR +IL+ +G R+ + +S Q K
Sbjct: 447 VPSAIRSIQRRGRTGRHMPGRVIILMAKGTRDEAYYWSSRQKEK 490
>pdb|3TMI|A Chain A, Structural Basis For Rna Recognition And Activation Of
Rig-I
Length = 695
Score = 72.0 bits (175), Expect = 5e-13, Method: Compositional matrix adjust.
Identities = 52/157 (33%), Positives = 84/157 (53%), Gaps = 18/157 (11%)
Query: 106 ILESHFRLHAEKGETTKVIIFANYRVVVAEIFDVLK--PLEPMVKASMFVG-----QSSG 158
IL+ + L+ E T I+F R +V + + ++ P +K + G Q++G
Sbjct: 387 ILQEEYHLNPE----TITILFVKTRALVDALKNWIEGNPKLSFLKPGILTGRGKTNQNTG 442
Query: 159 VTQQEQKEIMKKFRA-GEFNTLIATSVGEEGLDIGEIDLVICFDAQKSPIKMVQRLGRTG 217
+T QK I+ F+A G+ N LIATSV +EG+DI + +LVI ++ + IKM+Q GR G
Sbjct: 443 MTLPAQKCILDAFKASGDHNILIATSVADEGIDIAQCNLVILYEYVGNVIKMIQTRGR-G 501
Query: 218 RKRNGRCVILLTQGREAHNFQTSMQTCKSYVEKIINN 254
R R +C +L + Q +M Y EK++N+
Sbjct: 502 RARGSKCFLLTSNAGVIEKEQINM-----YKEKMMND 533
>pdb|2YKG|A Chain A, Structural Insights Into Rna Recognition By Rig-I
Length = 696
Score = 72.0 bits (175), Expect = 6e-13, Method: Compositional matrix adjust.
Identities = 52/157 (33%), Positives = 84/157 (53%), Gaps = 18/157 (11%)
Query: 106 ILESHFRLHAEKGETTKVIIFANYRVVVAEIFDVLK--PLEPMVKASMFVG-----QSSG 158
IL+ + L+ E T I+F R +V + + ++ P +K + G Q++G
Sbjct: 388 ILQEEYHLNPE----TITILFVKTRALVDALKNWIEGNPKLSFLKPGILTGRGKTNQNTG 443
Query: 159 VTQQEQKEIMKKFRA-GEFNTLIATSVGEEGLDIGEIDLVICFDAQKSPIKMVQRLGRTG 217
+T QK I+ F+A G+ N LIATSV +EG+DI + +LVI ++ + IKM+Q GR G
Sbjct: 444 MTLPAQKCILDAFKASGDHNILIATSVADEGIDIAQCNLVILYEYVGNVIKMIQTRGR-G 502
Query: 218 RKRNGRCVILLTQGREAHNFQTSMQTCKSYVEKIINN 254
R R +C +L + Q +M Y EK++N+
Sbjct: 503 RARGSKCFLLTSNAGVIEKEQINM-----YKEKMMND 534
>pdb|4AY2|A Chain A, Capturing 5' Tri-Phosphorylated Rna Duplex By Rig-I
Length = 687
Score = 72.0 bits (175), Expect = 6e-13, Method: Compositional matrix adjust.
Identities = 52/157 (33%), Positives = 84/157 (53%), Gaps = 18/157 (11%)
Query: 106 ILESHFRLHAEKGETTKVIIFANYRVVVAEIFDVLK--PLEPMVKASMFVG-----QSSG 158
IL+ + L+ E T I+F R +V + + ++ P +K + G Q++G
Sbjct: 379 ILQEEYHLNPE----TITILFVKTRALVDALKNWIEGNPKLSFLKPGILTGRGKTNQNTG 434
Query: 159 VTQQEQKEIMKKFRA-GEFNTLIATSVGEEGLDIGEIDLVICFDAQKSPIKMVQRLGRTG 217
+T QK I+ F+A G+ N LIATSV +EG+DI + +LVI ++ + IKM+Q GR G
Sbjct: 435 MTLPAQKCILDAFKASGDHNILIATSVADEGIDIAQCNLVILYEYVGNVIKMIQTRGR-G 493
Query: 218 RKRNGRCVILLTQGREAHNFQTSMQTCKSYVEKIINN 254
R R +C +L + Q +M Y EK++N+
Sbjct: 494 RARGSKCFLLTSNAGVIEKEQINM-----YKEKMMND 525
>pdb|3TBK|A Chain A, Mouse Rig-I Atpase Domain
Length = 555
Score = 69.3 bits (168), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 48/138 (34%), Positives = 73/138 (52%), Gaps = 21/138 (15%)
Query: 106 ILESHFRLHAEKGETTKVIIFANYRVVVAEIFDVLK------PLEPMVKASMFVGQ---- 155
+L+ + L E TK I+F R +V D LK P +K + G+
Sbjct: 379 VLQEEYHLKPE----TKTILFVKTRALV----DALKKWIEENPALSFLKPGILTGRGRTN 430
Query: 156 -SSGVTQQEQKEIMKKFRA-GEFNTLIATSVGEEGLDIGEIDLVICFDAQKSPIKMVQRL 213
++G T QK +++ FRA G+ N LIATSV +EG+DI E +LVI ++ + IK +Q
Sbjct: 431 RATGXTLPAQKCVLEAFRASGDNNILIATSVADEGIDIAECNLVILYEYVGNVIKXIQTR 490
Query: 214 GRTGRKRNGRCVILLTQG 231
GR GR R+ +C +L +
Sbjct: 491 GR-GRARDSKCFLLTSSA 507
>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 = 66.2 bits (160), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 43/156 (27%), Positives = 85/156 (54%), Gaps = 18/156 (11%)
Query: 106 ILESHFRLHAEKGETTKVIIFANYRVVVAEIFDVLK--PLEPMVKASMFVG-----QSSG 158
IL+ +R + + T+ ++FA R +V+ + ++ P+ +K + +G Q++G
Sbjct: 621 ILDDAYRYNPQ----TRTLLFAKTRALVSALKKCMEENPILNYIKPGVLMGRGRRDQTTG 676
Query: 159 VTQQEQKEIMKKFRAGEFN-TLIATSVGEEGLDIGEIDLVICFDAQKSPIKMVQRLGRTG 217
+T QK ++ F+ + N LIATSV +EG+DI + +LV+ ++ + KM+Q GR G
Sbjct: 677 MTLPSQKGVLDAFKTSKDNRLLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQVRGR-G 735
Query: 218 RKRNGRCVILLTQGREAHNFQTSMQTCKSYVEKIIN 253
R +C+++ ++ N + C Y E+++N
Sbjct: 736 RAAGSKCILVTSKTEVVEN-----EKCNRYKEEMMN 766
>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 = 66.2 bits (160), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 43/156 (27%), Positives = 85/156 (54%), Gaps = 18/156 (11%)
Query: 106 ILESHFRLHAEKGETTKVIIFANYRVVVAEIFDVLK--PLEPMVKASMFVG-----QSSG 158
IL+ +R + + T+ ++FA R +V+ + ++ P+ +K + +G Q++G
Sbjct: 621 ILDDAYRYNPQ----TRTLLFAKTRALVSALKKCMEENPILNYIKPGVLMGRGRRDQTTG 676
Query: 159 VTQQEQKEIMKKFRAGEFN-TLIATSVGEEGLDIGEIDLVICFDAQKSPIKMVQRLGRTG 217
+T QK ++ F+ + N LIATSV +EG+DI + +LV+ ++ + KM+Q GR G
Sbjct: 677 MTLPSQKGVLDAFKTSKDNRLLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQVRGR-G 735
Query: 218 RKRNGRCVILLTQGREAHNFQTSMQTCKSYVEKIIN 253
R +C+++ ++ N + C Y E+++N
Sbjct: 736 RAAGSKCILVTSKTEVVEN-----EKCNRYKEEMMN 766
>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 = 65.9 bits (159), Expect = 4e-11, Method: Compositional matrix adjust.
Identities = 49/132 (37%), Positives = 68/132 (51%), Gaps = 14/132 (10%)
Query: 95 WSHLKFIRLRE-ILESHFRLHAEKGETTKVIIFANYR----VVVAEIFDVLKPLEPMVKA 149
+ + K +LR I+E + R E+ + IIF R + I + K E VKA
Sbjct: 378 YENEKLTKLRNTIMEQYTRTE----ESARGIIFTKTRQSAYALSQWITENEKFAEVGVKA 433
Query: 150 SMFVGQSSG-----VTQQEQKEIMKKFRAGEFNTLIATSVGEEGLDIGEIDLVICFDAQK 204
+G +TQ EQKE++ KFR G+ N LIAT+V EEGLDI E ++VI +
Sbjct: 434 HHLIGAGHSSEFKPMTQNEQKEVISKFRTGKINLLIATTVAEEGLDIKECNIVIRYGLVT 493
Query: 205 SPIKMVQRLGRT 216
+ I MVQ GR
Sbjct: 494 NEIAMVQARGRA 505
>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 = 65.9 bits (159), Expect = 4e-11, Method: Compositional matrix adjust.
Identities = 43/156 (27%), Positives = 85/156 (54%), Gaps = 18/156 (11%)
Query: 106 ILESHFRLHAEKGETTKVIIFANYRVVVAEIFDVLK--PLEPMVKASMFVG-----QSSG 158
IL+ +R + + T+ ++FA R +V+ + ++ P+ +K + +G Q++G
Sbjct: 380 ILDDAYRYNPQ----TRTLLFAKTRALVSALKKCMEENPILNYIKPGVLMGRGRRDQTTG 435
Query: 159 VTQQEQKEIMKKFRAGEFN-TLIATSVGEEGLDIGEIDLVICFDAQKSPIKMVQRLGRTG 217
+T QK ++ F+ + N LIATSV +EG+DI + +LV+ ++ + KM+Q GR G
Sbjct: 436 MTLPSQKGVLDAFKTSKDNRLLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQVRGR-G 494
Query: 218 RKRNGRCVILLTQGREAHNFQTSMQTCKSYVEKIIN 253
R +C+++ ++ N + C Y E+++N
Sbjct: 495 RAAGSKCILVTSKTEVVEN-----EKCNRYKEEMMN 525
>pdb|4I1S|A Chain A, Melanoma Differentiation Associated Protein-5 Helicase
Domain Complex With Inhibitor Non-structural Protein V
Length = 243
Score = 61.6 bits (148), Expect = 7e-10, Method: Compositional matrix adjust.
Identities = 42/111 (37%), Positives = 56/111 (50%), Gaps = 12/111 (10%)
Query: 99 KFIRLREILESHFRLHAEKGETTKVIIFANYR----VVVAEIFDVLKPLEPMVKASMFVG 154
K +LR + HF E+ + IIF R + I D K E VKA +G
Sbjct: 132 KLTKLRNTIXEHF---TRTEESARGIIFTKTRQSAYALSQWITDNKKFAEVGVKAHHLIG 188
Query: 155 QSSG-----VTQQEQKEIMKKFRAGEFNTLIATSVGEEGLDIGEIDLVICF 200
TQ EQ+E++ KFR G+ N LIAT+V EEGLDI E ++VI +
Sbjct: 189 AGHSSEFKPXTQNEQREVISKFRTGKINLLIATTVAEEGLDIKECNIVIRY 239
>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 = 55.5 bits (132), Expect = 6e-08, Method: Compositional matrix adjust.
Identities = 28/74 (37%), Positives = 43/74 (58%), Gaps = 1/74 (1%)
Query: 157 SGVTQQEQKEIMKKFRAGEFNTLIATSVGEEGLDIGEIDLVICFDAQKSPIKMVQRLGRT 216
G+ Q+++ ++M +F+ GE+ L+AT V G+DI I LVI +D V R GRT
Sbjct: 67 GGMIQEDRFDVMNEFKRGEYRYLVATDVAARGIDIENISLVINYDLPLEKESYVHRTGRT 126
Query: 217 GRKRN-GRCVILLT 229
GR N G+ + +T
Sbjct: 127 GRAGNKGKAISFVT 140
>pdb|2YJT|D Chain D, Crystal Structure Of E. Coli Dead-Box Protein Srmb Bound
To Regulator Of Ribonuclease Activity A (Rraa)
Length = 170
Score = 54.7 bits (130), Expect = 8e-08, Method: Compositional matrix adjust.
Identities = 41/140 (29%), Positives = 67/140 (47%), Gaps = 11/140 (7%)
Query: 119 ETTKVIIFANYRVVVAEIFDVLKPLEPMVKASMFVGQSSGVTQQEQKEIMKKFRAGEFNT 178
E T+ I+F R V E+ + L+ E + G+ + Q ++ E +K+ G N
Sbjct: 29 EATRSIVFVRKRERVHELANWLR--EAGINNCYLEGE---MVQGKRNEAIKRLTEGRVNV 83
Query: 179 LIATSVGEEGLDIGEIDLVICFDAQKSPIKMVQRLGRTGRK-RNGRCVILLTQGREAHNF 237
L+AT V G+DI ++ V FD +S + R+GRT R R G + L+ EAH+
Sbjct: 84 LVATDVAARGIDIPDVSHVFNFDMPRSGDTYLHRIGRTARAGRKGTAISLV----EAHD- 138
Query: 238 QTSMQTCKSYVEKIINNKSI 257
+ Y+E+ I + I
Sbjct: 139 HLLLGKVGRYIEEPIKARVI 158
>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 = 53.5 bits (127), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 37/132 (28%), Positives = 66/132 (50%), Gaps = 18/132 (13%)
Query: 99 KFIRLREILESHFRLHAEKGETTKVIIFANYRVVVAEIFDVLKPLEPMVKASMFVGQSSG 158
K +LREILE H K+IIF + +V I V L P + +
Sbjct: 336 KIRKLREILERH--------RKDKIIIFTRHNELVYRISKVF--LIPAI--------THR 377
Query: 159 VTQQEQKEIMKKFRAGEFNTLIATSVGEEGLDIGEIDLVICFDAQKSPIKMVQRLGRTGR 218
+++E++EI++ FR G F ++++ V +EG+D+ + ++ + S + +QRLGR R
Sbjct: 378 TSREEREEILEGFRTGRFRAIVSSQVLDEGIDVPDANVGVIMSGSGSAREYIQRLGRILR 437
Query: 219 KRNGRCVILLTQ 230
G+ +L +
Sbjct: 438 PSKGKKEAVLYE 449
>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 = 53.5 bits (127), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 35/99 (35%), Positives = 56/99 (56%), Gaps = 7/99 (7%)
Query: 121 TKVIIFANYRVVVAEIFDVLKPLEPMVKASMFVGQSSG-VTQQEQKEIMKKFRAGEFNTL 179
T+ +IF N + V D L E M +A+ V G + Q+E++ IMK+FR+G L
Sbjct: 277 TQAVIFCNTKRKV----DWLT--EKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVL 330
Query: 180 IATSVGEEGLDIGEIDLVICFDAQKSPIKMVQRLGRTGR 218
I+T V GLD+ ++ L+I +D + + R+GR+GR
Sbjct: 331 ISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGR 369
>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 = 53.5 bits (127), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 35/99 (35%), Positives = 56/99 (56%), Gaps = 7/99 (7%)
Query: 121 TKVIIFANYRVVVAEIFDVLKPLEPMVKASMFVGQSSG-VTQQEQKEIMKKFRAGEFNTL 179
T+ +IF N + V D L E M +A+ V G + Q+E++ IMK+FR+G L
Sbjct: 278 TQAVIFCNTKRKV----DWLT--EKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVL 331
Query: 180 IATSVGEEGLDIGEIDLVICFDAQKSPIKMVQRLGRTGR 218
I+T V GLD+ ++ L+I +D + + R+GR+GR
Sbjct: 332 ISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGR 370
>pdb|2J0U|B Chain B, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 53.5 bits (127), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 38/107 (35%), Positives = 59/107 (55%), Gaps = 8/107 (7%)
Query: 121 TKVIIFANYRVVVAEIFDVLKPLEPMVKASMFVGQSSG-VTQQEQKEIMKKFRAGEFNTL 179
T+ +IF N + V D L E M +A+ V G + Q+E++ IMK+FR+G L
Sbjct: 241 TQAVIFCNTKRKV----DWLT--EKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVL 294
Query: 180 IATSVGEEGLDIGEIDLVICFDAQKSPIKMVQRLGRTGR-KRNGRCV 225
I+T V GLD+ ++ L+I +D + + R+GR+GR R G V
Sbjct: 295 ISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAV 341
>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 = 53.5 bits (127), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 35/99 (35%), Positives = 56/99 (56%), Gaps = 7/99 (7%)
Query: 121 TKVIIFANYRVVVAEIFDVLKPLEPMVKASMFVGQSSG-VTQQEQKEIMKKFRAGEFNTL 179
T+ +IF N + V D L E M +A+ V G + Q+E++ IMK+FR+G L
Sbjct: 278 TQAVIFCNTKRKV----DWLT--EKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVL 331
Query: 180 IATSVGEEGLDIGEIDLVICFDAQKSPIKMVQRLGRTGR 218
I+T V GLD+ ++ L+I +D + + R+GR+GR
Sbjct: 332 ISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGR 370
>pdb|2J0U|A Chain A, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 53.5 bits (127), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 35/99 (35%), Positives = 56/99 (56%), Gaps = 7/99 (7%)
Query: 121 TKVIIFANYRVVVAEIFDVLKPLEPMVKASMFVGQSSG-VTQQEQKEIMKKFRAGEFNTL 179
T+ +IF N + V D L E M +A+ V G + Q+E++ IMK+FR+G L
Sbjct: 241 TQAVIFCNTKRKV----DWLT--EKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVL 294
Query: 180 IATSVGEEGLDIGEIDLVICFDAQKSPIKMVQRLGRTGR 218
I+T V GLD+ ++ L+I +D + + R+GR+GR
Sbjct: 295 ISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGR 333
>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 = 53.1 bits (126), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 35/99 (35%), Positives = 56/99 (56%), Gaps = 7/99 (7%)
Query: 121 TKVIIFANYRVVVAEIFDVLKPLEPMVKASMFVGQSSG-VTQQEQKEIMKKFRAGEFNTL 179
T+ +IF N + V D L E M +A+ V G + Q+E++ IMK+FR+G L
Sbjct: 256 TQAVIFCNTKRKV----DWLT--EKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVL 309
Query: 180 IATSVGEEGLDIGEIDLVICFDAQKSPIKMVQRLGRTGR 218
I+T V GLD+ ++ L+I +D + + R+GR+GR
Sbjct: 310 ISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGR 348
>pdb|2FZL|A Chain A, Structure Of C-Terminal Domain Of Archaeoglobus Fulgidus
Xpb
Length = 219
Score = 53.1 bits (126), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 37/132 (28%), Positives = 66/132 (50%), Gaps = 18/132 (13%)
Query: 99 KFIRLREILESHFRLHAEKGETTKVIIFANYRVVVAEIFDVLKPLEPMVKASMFVGQSSG 158
K +LREILE H K+IIF + +V I V L P + +
Sbjct: 101 KIRKLREILERH--------RKDKIIIFTRHNELVYRISKVF--LIPAI--------THR 142
Query: 159 VTQQEQKEIMKKFRAGEFNTLIATSVGEEGLDIGEIDLVICFDAQKSPIKMVQRLGRTGR 218
+++E++EI++ FR G F ++++ V +EG+D+ + ++ + S + +QRLGR R
Sbjct: 143 TSREEREEILEGFRTGRFRAIVSSQVLDEGIDVPDANVGVIMSGSGSAREYIQRLGRILR 202
Query: 219 KRNGRCVILLTQ 230
G+ +L +
Sbjct: 203 PSKGKKEAVLYE 214
>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 = 51.6 bits (122), Expect = 7e-07, Method: Compositional matrix adjust.
Identities = 25/62 (40%), Positives = 39/62 (62%)
Query: 160 TQQEQKEIMKKFRAGEFNTLIATSVGEEGLDIGEIDLVICFDAQKSPIKMVQRLGRTGRK 219
+Q++++E + +FR+G+ L+AT+V GLDI + VI FD + V R+GRTGR
Sbjct: 81 SQRDREEALHQFRSGKSPILVATAVAARGLDISNVKHVINFDLPSDIEEYVHRIGRTGRV 140
Query: 220 RN 221
N
Sbjct: 141 GN 142
>pdb|2I4I|A Chain A, Crystal Structure Of Human Dead-Box Rna Helicase Ddx3x
Length = 417
Score = 50.8 bits (120), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 25/62 (40%), Positives = 39/62 (62%)
Query: 160 TQQEQKEIMKKFRAGEFNTLIATSVGEEGLDIGEIDLVICFDAQKSPIKMVQRLGRTGRK 219
+Q++++E + +FR+G+ L+AT+V GLDI + VI FD + V R+GRTGR
Sbjct: 311 SQRDREEALHQFRSGKSPILVATAVAARGLDISNVKHVINFDLPSDIEEYVHRIGRTGRV 370
Query: 220 RN 221
N
Sbjct: 371 GN 372
>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 = 50.4 bits (119), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 40/134 (29%), Positives = 59/134 (44%), Gaps = 14/134 (10%)
Query: 88 IMSSEYAWSHLKFIRLREILESHFRLHAEKGETTKVIIFANYRVVVAEIFDVLKPLEPMV 147
I EY K + L E L+ V+IFA + V I + L ++
Sbjct: 31 IQEVEYVKEEAKMVYLLECLQK---------TPPPVLIFAEKKADVDAIHEYL-----LL 76
Query: 148 KASMFVGQSSGVTQQEQKEIMKKFRAGEFNTLIATSVGEEGLDIGEIDLVICFDAQKSPI 207
K V G Q+E+ + ++ FR G+ + L+AT V +GLD I VI +D +
Sbjct: 77 KGVEAVAIHGGKDQEERTKAIEAFREGKKDVLVATDVASKGLDFPAIQHVINYDMPEEIE 136
Query: 208 KMVQRLGRTGRKRN 221
V R+GRTG N
Sbjct: 137 NYVHRIGRTGCSGN 150
>pdb|2Z0M|A Chain A, Crystal Structure Of Hypothetical Atp-Dependent Rna
Helicase From Sulfolobus Tokodaii
Length = 337
Score = 49.3 bits (116), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 25/59 (42%), Positives = 34/59 (57%), Gaps = 1/59 (1%)
Query: 171 FRAGEFNTLIATSVGEEGLDIGEIDLVICFDAQKSPIKMVQRLGRTGR-KRNGRCVILL 228
FR GE++ LI T V GLDI ++ VI FDA + + R+GRTGR R G + +
Sbjct: 262 FREGEYDMLITTDVASRGLDIPLVEKVINFDAPQDLRTYIHRIGRTGRMGRKGEAITFI 320
>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 = 49.3 bits (116), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 27/65 (41%), Positives = 36/65 (55%), Gaps = 1/65 (1%)
Query: 161 QQEQKEIMKKFRAGEFNTLIATSVGEEGLDIGEIDLVICFDAQKSPIKMVQRLGRTGR-K 219
Q ++++ ++ F+ G LIATSV GLDI I VI +D V R+GRTGR
Sbjct: 336 QSQREQALRDFKNGSMKVLIATSVASRGLDIKNIKHVINYDMPSKIDDYVHRIGRTGRVG 395
Query: 220 RNGRC 224
NGR
Sbjct: 396 NNGRA 400
>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 = 48.1 bits (113), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 25/75 (33%), Positives = 41/75 (54%), Gaps = 5/75 (6%)
Query: 157 SGVTQQEQKEIMKKFRAGEFNTLIATSVGEEGLDIGEIDLVICFDAQK-----SPIKMVQ 211
S + E+ EI++ R G+++ L+ ++ EGLDI E+ LV DA K S ++Q
Sbjct: 483 SEIKTLERIEIIRDLRLGKYDVLVGINLLREGLDIPEVSLVAILDADKEGFLRSERSLIQ 542
Query: 212 RLGRTGRKRNGRCVI 226
+GR R GR ++
Sbjct: 543 TIGRAARNAEGRVIM 557
>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 = 48.1 bits (113), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 25/75 (33%), Positives = 41/75 (54%), Gaps = 5/75 (6%)
Query: 157 SGVTQQEQKEIMKKFRAGEFNTLIATSVGEEGLDIGEIDLVICFDAQK-----SPIKMVQ 211
S + E+ EI++ R G+++ L+ ++ EGLDI E+ LV DA K S ++Q
Sbjct: 477 SEIKTLERIEIIRDLRLGKYDVLVGINLLREGLDIPEVSLVAILDADKEGFLRSERSLIQ 536
Query: 212 RLGRTGRKRNGRCVI 226
+GR R GR ++
Sbjct: 537 TIGRAARNAEGRVIM 551
>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 = 48.1 bits (113), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 25/75 (33%), Positives = 41/75 (54%), Gaps = 5/75 (6%)
Query: 157 SGVTQQEQKEIMKKFRAGEFNTLIATSVGEEGLDIGEIDLVICFDAQK-----SPIKMVQ 211
S + E+ EI++ R G+++ L+ ++ EGLDI E+ LV DA K S ++Q
Sbjct: 477 SEIKTLERIEIIRDLRLGKYDVLVGINLLREGLDIPEVSLVAILDADKEGFLRSERSLIQ 536
Query: 212 RLGRTGRKRNGRCVI 226
+GR R NG ++
Sbjct: 537 TIGRAARNANGHVIM 551
>pdb|1S2M|A Chain A, Crystal Structure Of The Dead Box Protein Dhh1p
Length = 400
Score = 48.1 bits (113), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 21/58 (36%), Positives = 37/58 (63%)
Query: 161 QQEQKEIMKKFRAGEFNTLIATSVGEEGLDIGEIDLVICFDAQKSPIKMVQRLGRTGR 218
QQE+ ++ +FR G+ TL+ + + G+DI +++VI FD K+ + R+GR+GR
Sbjct: 294 QQERNKVFHEFRQGKVRTLVCSDLLTRGIDIQAVNVVINFDFPKTAETYLHRIGRSGR 351
>pdb|1D9Z|A Chain A, Crystal Structure Of The Dna Repair Protein Uvrb In
Complex With Atp
Length = 657
Score = 48.1 bits (113), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 25/75 (33%), Positives = 41/75 (54%), Gaps = 5/75 (6%)
Query: 157 SGVTQQEQKEIMKKFRAGEFNTLIATSVGEEGLDIGEIDLVICFDAQK-----SPIKMVQ 211
S + E+ EI++ R G+++ L+ ++ EGLDI E+ LV DA K S ++Q
Sbjct: 476 SEIKTLERIEIIRDLRLGKYDVLVGINLLREGLDIPEVSLVAILDADKEGFLRSERSLIQ 535
Query: 212 RLGRTGRKRNGRCVI 226
+GR R NG ++
Sbjct: 536 TIGRAARNANGHVIM 550
>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 = 48.1 bits (113), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 25/75 (33%), Positives = 41/75 (54%), Gaps = 5/75 (6%)
Query: 157 SGVTQQEQKEIMKKFRAGEFNTLIATSVGEEGLDIGEIDLVICFDAQK-----SPIKMVQ 211
S + E+ EI++ R G+++ L+ ++ EGLDI E+ LV DA K S ++Q
Sbjct: 477 SEIKTLERIEIIRDLRLGKYDVLVGINLLREGLDIPEVSLVAILDADKEGFLRSERSLIQ 536
Query: 212 RLGRTGRKRNGRCVI 226
+GR R NG ++
Sbjct: 537 TIGRAARNANGHVIM 551
>pdb|1D9X|A Chain A, Crystal Structure Of The Dna Repair Protein Uvrb
Length = 658
Score = 48.1 bits (113), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 25/75 (33%), Positives = 41/75 (54%), Gaps = 5/75 (6%)
Query: 157 SGVTQQEQKEIMKKFRAGEFNTLIATSVGEEGLDIGEIDLVICFDAQK-----SPIKMVQ 211
S + E+ EI++ R G+++ L+ ++ EGLDI E+ LV DA K S ++Q
Sbjct: 477 SEIKTLERIEIIRDLRLGKYDVLVGINLLREGLDIPEVSLVAILDADKEGFLRSERSLIQ 536
Query: 212 RLGRTGRKRNGRCVI 226
+GR R NG ++
Sbjct: 537 TIGRAARNANGHVIM 551
>pdb|3UWX|B Chain B, Crystal Structure Of Uvra-Uvrb Complex
Length = 683
Score = 48.1 bits (113), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 25/75 (33%), Positives = 41/75 (54%), Gaps = 5/75 (6%)
Query: 157 SGVTQQEQKEIMKKFRAGEFNTLIATSVGEEGLDIGEIDLVICFDAQK-----SPIKMVQ 211
S + E+ EI++ R G+++ L+ ++ EGLDI E+ LV DA K S ++Q
Sbjct: 502 SEIKTLERIEIIRDLRLGKYDVLVGINLLREGLDIPEVSLVAILDADKEGFLRSERSLIQ 561
Query: 212 RLGRTGRKRNGRCVI 226
+GR R NG ++
Sbjct: 562 TIGRAARNANGHVIM 576
>pdb|2KBF|A Chain A, Solution Structure Of Carboxyl-Terminal Domain Of Dbp5p
Length = 187
Score = 47.0 bits (110), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 25/87 (28%), Positives = 41/87 (47%), Gaps = 6/87 (6%)
Query: 162 QEQKEIMKKFRAGEFNTLIATSVGEEGLDIGEIDLVICFD------AQKSPIKMVQRLGR 215
QE+ ++ FR G LI T+V G+DI + +V+ +D Q P + R+GR
Sbjct: 72 QERDRLIDDFREGRSKVLITTNVLARGIDIPTVSMVVNYDLPTLANGQADPATYIHRIGR 131
Query: 216 TGRKRNGRCVILLTQGREAHNFQTSMQ 242
TGR I + + N +++Q
Sbjct: 132 TGRFGRKGVAISFVHDKNSFNILSAIQ 158
>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 = 46.2 bits (108), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 25/87 (28%), Positives = 41/87 (47%), Gaps = 6/87 (6%)
Query: 162 QEQKEIMKKFRAGEFNTLIATSVGEEGLDIGEIDLVICFD------AQKSPIKMVQRLGR 215
QE+ ++ FR G LI T+V G+DI + +V+ +D Q P + R+GR
Sbjct: 280 QERDRLIDDFREGRSKVLITTNVLARGIDIPTVSMVVNYDLPTLANGQADPATYIHRIGR 339
Query: 216 TGRKRNGRCVILLTQGREAHNFQTSMQ 242
TGR I + + N +++Q
Sbjct: 340 TGRFGRKGVAISFVHDKNSFNILSAIQ 366
>pdb|3PEY|A Chain A, S. Cerevisiae Dbp5 Bound To Rna And Adp Bef3
Length = 395
Score = 46.2 bits (108), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 25/87 (28%), Positives = 41/87 (47%), Gaps = 6/87 (6%)
Query: 162 QEQKEIMKKFRAGEFNTLIATSVGEEGLDIGEIDLVICFD------AQKSPIKMVQRLGR 215
QE+ ++ FR G LI T+V G+DI + +V+ +D Q P + R+GR
Sbjct: 280 QERDRLIDDFREGRSKVLITTNVLARGIDIPTVSMVVNYDLPTLANGQADPATYIHRIGR 339
Query: 216 TGRKRNGRCVILLTQGREAHNFQTSMQ 242
TGR I + + N +++Q
Sbjct: 340 TGRFGRKGVAISFVHDKNSFNILSAIQ 366
>pdb|1FUK|A Chain A, Crystal Structure Of The Carboxy Terminal Domain Of Yeast
Eif4a
Length = 165
Score = 45.8 bits (107), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 29/81 (35%), Positives = 45/81 (55%), Gaps = 5/81 (6%)
Query: 121 TKVIIFANYRVVVAEIFDVLKPLEPMVKASMFVGQSSGVTQQEQKEIMKKFRAGEFNTLI 180
T+ +IF N R V E+ L+ + V A S + QQE+ IMK+FR+G LI
Sbjct: 31 TQAVIFCNTRRKVEELTTKLRNDKFTVSAIY-----SDLPQQERDTIMKEFRSGSSRILI 85
Query: 181 ATSVGEEGLDIGEIDLVICFD 201
+T + G+D+ ++ LVI +D
Sbjct: 86 STDLLARGIDVQQVSLVINYD 106
>pdb|3GFP|A Chain A, Structure Of The C-Terminal Domain Of The Dead-Box Protein
Dbp5
Length = 189
Score = 45.4 bits (106), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 25/87 (28%), Positives = 40/87 (45%), Gaps = 6/87 (6%)
Query: 162 QEQKEIMKKFRAGEFNTLIATSVGEEGLDIGEIDLVICFD------AQKSPIKMVQRLGR 215
QE+ ++ FR G LI T+V G+DI + V+ +D Q P + R+GR
Sbjct: 74 QERDRLIDDFREGRSKVLITTNVLARGIDIPTVSXVVNYDLPTLANGQADPATYIHRIGR 133
Query: 216 TGRKRNGRCVILLTQGREAHNFQTSMQ 242
TGR I + + N +++Q
Sbjct: 134 TGRFGRKGVAISFVHDKNSFNILSAIQ 160
>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 = 45.4 bits (106), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 25/87 (28%), Positives = 40/87 (45%), Gaps = 6/87 (6%)
Query: 162 QEQKEIMKKFRAGEFNTLIATSVGEEGLDIGEIDLVICFD------AQKSPIKMVQRLGR 215
QE+ ++ FR G LI T+V G+DI + V+ +D Q P + R+GR
Sbjct: 73 QERDRLIDDFREGRSKVLITTNVLARGIDIPTVSXVVNYDLPTLANGQADPATYIHRIGR 132
Query: 216 TGRKRNGRCVILLTQGREAHNFQTSMQ 242
TGR I + + N +++Q
Sbjct: 133 TGRFGRKGVAISFVHDKNSFNILSAIQ 159
>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 = 44.7 bits (104), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 29/81 (35%), Positives = 45/81 (55%), Gaps = 5/81 (6%)
Query: 121 TKVIIFANYRVVVAEIFDVLKPLEPMVKASMFVGQSSGVTQQEQKEIMKKFRAGEFNTLI 180
T+ +IF N R V E+ L+ + V A S + QQE+ IMK+FR+G LI
Sbjct: 261 TQAVIFCNTRRKVEELTTKLRNDKFTVSAIY-----SDLPQQERDTIMKEFRSGSSRILI 315
Query: 181 ATSVGEEGLDIGEIDLVICFD 201
+T + G+D+ ++ LVI +D
Sbjct: 316 STDLLARGIDVQQVSLVINYD 336
>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 = 44.3 bits (103), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 18/42 (42%), Positives = 28/42 (66%)
Query: 159 VTQQEQKEIMKKFRAGEFNTLIATSVGEEGLDIGEIDLVICF 200
++Q E++ +M FR GE L+AT V GLDI ++DLV+ +
Sbjct: 62 MSQGERERVMGAFRQGEVRVLVATDVAARGLDIPQVDLVVHY 103
>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 = 43.9 bits (102), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 19/73 (26%), Positives = 45/73 (61%), Gaps = 1/73 (1%)
Query: 159 VTQQEQKEIMKKFRAGEFNTLIATSVGEEGLDIGEIDLVICFDAQKSPIKMVQRLGRTGR 218
++Q +++++++ F+ + LIAT V G+D+ +++ VI + ++P R+GRTGR
Sbjct: 272 LSQSQREKVIRLFKQKKIRILIATDVXSRGIDVNDLNCVINYHLPQNPESYXHRIGRTGR 331
Query: 219 K-RNGRCVILLTQ 230
+ G+ + ++ +
Sbjct: 332 AGKKGKAISIINR 344
>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 = 43.1 bits (100), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 17/42 (40%), Positives = 28/42 (66%)
Query: 159 VTQQEQKEIMKKFRAGEFNTLIATSVGEEGLDIGEIDLVICF 200
++Q E++ ++ FR GE L+AT V GLDI ++DLV+ +
Sbjct: 65 LSQGERERVLGAFRQGEVRVLVATDVAARGLDIPQVDLVVHY 106
>pdb|1FUU|A Chain A, Yeast Initiation Factor 4a
pdb|1FUU|B Chain B, Yeast Initiation Factor 4a
Length = 394
Score = 42.7 bits (99), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 28/81 (34%), Positives = 44/81 (54%), Gaps = 5/81 (6%)
Query: 121 TKVIIFANYRVVVAEIFDVLKPLEPMVKASMFVGQSSGVTQQEQKEIMKKFRAGEFNTLI 180
T+ +IF N R V E+ L+ + V A S + QQE+ I K+FR+G LI
Sbjct: 260 TQAVIFCNTRRKVEELTTKLRNDKFTVSAIY-----SDLPQQERDTIXKEFRSGSSRILI 314
Query: 181 ATSVGEEGLDIGEIDLVICFD 201
+T + G+D+ ++ LVI +D
Sbjct: 315 STDLLARGIDVQQVSLVINYD 335
>pdb|3FHO|A Chain A, Structure Of S. Pombe Dbp5
pdb|3FHO|B Chain B, Structure Of S. Pombe Dbp5
Length = 508
Score = 42.4 bits (98), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 20/62 (32%), Positives = 34/62 (54%), Gaps = 6/62 (9%)
Query: 163 EQKEIMKKFRAGEFNTLIATSVGEEGLDIGEIDLVICFD------AQKSPIKMVQRLGRT 216
++ IM FR G L+ T+V G+D+ +++LV+ +D + P + R+GRT
Sbjct: 395 QRDAIMDSFRVGTSKVLVTTNVIARGIDVSQVNLVVNYDMPLDQAGRPDPQTYLHRIGRT 454
Query: 217 GR 218
GR
Sbjct: 455 GR 456
>pdb|1D2M|A Chain A, Uvrb Protein Of Thermus Thermophilus Hb8; A Nucleotide
Excision Repair Enzyme
Length = 665
Score = 42.0 bits (97), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 24/84 (28%), Positives = 43/84 (51%), Gaps = 7/84 (8%)
Query: 164 QKEIMKKFRAGEFNTLIATSVGEEGLDIGEIDLVICFDAQK-----SPIKMVQRLGRTGR 218
++ +++ R G ++ L+ ++ EGLDI E+ LV DA K S ++Q +GR
Sbjct: 479 RQALIRDLRLGHYDCLVGINLLREGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAA- 537
Query: 219 KRNGRCVILLTQGREAHNFQTSMQ 242
RN R + L R + Q +++
Sbjct: 538 -RNARGEVWLYADRVSEAMQRAIE 560
>pdb|1C4O|A Chain A, Crystal Structure Of The Dna Nucleotide Excision Repair
Enzyme Uvrb From Thermus Thermophilus
Length = 664
Score = 42.0 bits (97), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 24/84 (28%), Positives = 43/84 (51%), Gaps = 7/84 (8%)
Query: 164 QKEIMKKFRAGEFNTLIATSVGEEGLDIGEIDLVICFDAQK-----SPIKMVQRLGRTGR 218
++ +++ R G ++ L+ ++ EGLDI E+ LV DA K S ++Q +GR
Sbjct: 478 RQALIRDLRLGHYDCLVGINLLREGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAA- 536
Query: 219 KRNGRCVILLTQGREAHNFQTSMQ 242
RN R + L R + Q +++
Sbjct: 537 -RNARGEVWLYADRVSEAMQRAIE 559
>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 = 41.6 bits (96), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 23/72 (31%), Positives = 41/72 (56%), Gaps = 12/72 (16%)
Query: 156 SSGVTQQEQKEIMKKFRAGEFNTLIATSVGEEGLDIGEIDLVICFDAQKSPIK------- 208
S +T +++ I+++FR G+ LI T+V G+D+ ++ +V+ FD P+K
Sbjct: 65 SGELTVEQRASIIQRFRDGKEKVLITTNVCARGIDVKQVTIVVNFDL---PVKQGEEPDY 121
Query: 209 --MVQRLGRTGR 218
+ R+GRTGR
Sbjct: 122 ETYLHRIGRTGR 133
>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 = 41.2 bits (95), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 19/58 (32%), Positives = 31/58 (53%)
Query: 161 QQEQKEIMKKFRAGEFNTLIATSVGEEGLDIGEIDLVICFDAQKSPIKMVQRLGRTGR 218
Q+ + + FR G L+ T + G+DI +++VI FD K + R+GR+GR
Sbjct: 80 QEHRNRVFHDFRNGLCRNLVCTDLFTRGIDIQAVNVVINFDFPKLAETYLHRIGRSGR 137
>pdb|3SQW|A Chain A, Structure Of Mss116p (Nte Deletion) Bound To Ssrna And
Amp-Pnp
Length = 579
Score = 39.7 bits (91), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 29/117 (24%), Positives = 53/117 (45%), Gaps = 5/117 (4%)
Query: 116 EKGETTKVIIFANYRVVVAEIFDVLKPLEPMVKASMFVGQSSG-VTQQEQKEIMKKFRAG 174
E+ K IIFA + + +LK K + + + G +TQ ++ ++K+F+
Sbjct: 284 ERDSNYKAIIFAPTVKFTSFLCSILKN---EFKKDLPILEFHGKITQNKRTSLVKRFKKD 340
Query: 175 EFNTLIATSVGEEGLDIGEIDLVICFDAQKSPIKMVQRLGRTGRK-RNGRCVILLTQ 230
E L+ T VG G+D + V+ + R+GRT R + G V+ + +
Sbjct: 341 ESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEGSSVLFICK 397
>pdb|3SQX|A Chain A, Structure Of Mss116p (Nte And C-Tail Double Deletion)
Bound To Ssrna And Amp-Pnp
Length = 512
Score = 38.9 bits (89), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 19/73 (26%), Positives = 36/73 (49%), Gaps = 1/73 (1%)
Query: 159 VTQQEQKEIMKKFRAGEFNTLIATSVGEEGLDIGEIDLVICFDAQKSPIKMVQRLGRTGR 218
+TQ ++ ++K+F+ E L+ T VG G+D + V+ + R+GRT R
Sbjct: 325 ITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTAR 384
Query: 219 K-RNGRCVILLTQ 230
+ G V+ + +
Sbjct: 385 SGKEGSSVLFICK 397
>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 = 38.9 bits (89), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 19/73 (26%), Positives = 36/73 (49%), Gaps = 1/73 (1%)
Query: 159 VTQQEQKEIMKKFRAGEFNTLIATSVGEEGLDIGEIDLVICFDAQKSPIKMVQRLGRTGR 218
+TQ ++ ++K+F+ E L+ T VG G+D + V+ + R+GRT R
Sbjct: 376 ITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTAR 435
Query: 219 K-RNGRCVILLTQ 230
+ G V+ + +
Sbjct: 436 SGKEGSSVLFICK 448
>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 = 38.9 bits (89), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 19/73 (26%), Positives = 36/73 (49%), Gaps = 1/73 (1%)
Query: 159 VTQQEQKEIMKKFRAGEFNTLIATSVGEEGLDIGEIDLVICFDAQKSPIKMVQRLGRTGR 218
+TQ ++ ++K+F+ E L+ T VG G+D + V+ + R+GRT R
Sbjct: 70 ITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTAR 129
Query: 219 K-RNGRCVILLTQ 230
+ G V+ + +
Sbjct: 130 SGKEGSSVLFICK 142
>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 = 38.9 bits (89), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 19/73 (26%), Positives = 36/73 (49%), Gaps = 1/73 (1%)
Query: 159 VTQQEQKEIMKKFRAGEFNTLIATSVGEEGLDIGEIDLVICFDAQKSPIKMVQRLGRTGR 218
+TQ ++ ++K+F+ E L+ T VG G+D + V+ + R+GRT R
Sbjct: 70 ITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTAR 129
Query: 219 K-RNGRCVILLTQ 230
+ G V+ + +
Sbjct: 130 SGKEGSSVLFICK 142
>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 = 38.9 bits (89), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 19/73 (26%), Positives = 36/73 (49%), Gaps = 1/73 (1%)
Query: 159 VTQQEQKEIMKKFRAGEFNTLIATSVGEEGLDIGEIDLVICFDAQKSPIKMVQRLGRTGR 218
+TQ ++ ++K+F+ E L+ T VG G+D + V+ + R+GRT R
Sbjct: 70 ITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTAR 129
Query: 219 K-RNGRCVILLTQ 230
+ G V+ + +
Sbjct: 130 SGKEGSSVLFICK 142
>pdb|3EIQ|A Chain A, Crystal Structure Of Pdcd4-eif4a
pdb|3EIQ|D Chain D, Crystal Structure Of Pdcd4-eif4a
Length = 414
Score = 38.5 bits (88), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 24/81 (29%), Positives = 42/81 (51%), Gaps = 5/81 (6%)
Query: 121 TKVIIFANYRVVVAEIFDVLKPLEPMVKASMFVGQSSGVTQQEQKEIMKKFRAGEFNTLI 180
T+ +IF N R V + + + + V A + Q+E+ IM++FR+G LI
Sbjct: 281 TQAVIFINTRRKVDWLTEKMHARDFTVSA-----MHGDMDQKERDVIMREFRSGSSRVLI 335
Query: 181 ATSVGEEGLDIGEIDLVICFD 201
T + G+D+ ++ LVI +D
Sbjct: 336 TTDLLARGIDVQQVSLVINYD 356
>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 = 38.5 bits (88), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 24/81 (29%), Positives = 42/81 (51%), Gaps = 5/81 (6%)
Query: 121 TKVIIFANYRVVVAEIFDVLKPLEPMVKASMFVGQSSGVTQQEQKEIMKKFRAGEFNTLI 180
T+ +IF N R V + + + + V A + Q+E+ IM++FR+G LI
Sbjct: 255 TQAVIFINTRRKVDWLTEKMHARDFTVSA-----MHGDMDQKERDVIMREFRSGSSRVLI 309
Query: 181 ATSVGEEGLDIGEIDLVICFD 201
T + G+D+ ++ LVI +D
Sbjct: 310 TTDLLARGIDVQQVSLVINYD 330
>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 = 37.7 bits (86), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 23/72 (31%), Positives = 39/72 (54%), Gaps = 13/72 (18%)
Query: 157 SGVTQQEQKE-IMKKFRAGEFNTLIATSVGEEGLDIGEIDLVICFDAQKSPIK------- 208
SG EQ+ ++++FR G+ L+ T+V G+D+ ++ +VI FD P+
Sbjct: 364 SGEMMVEQRAAVIERFREGKEKVLVTTNVCARGIDVEQVSVVINFDL---PVDKDGNPDN 420
Query: 209 --MVQRLGRTGR 218
+ R+GRTGR
Sbjct: 421 ETYLHRIGRTGR 432
>pdb|3G0H|A Chain A, Human Dead-box Rna Helicase Ddx19, In Complex With An
Atp-analogue And Rna
Length = 424
Score = 37.4 bits (85), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 23/72 (31%), Positives = 39/72 (54%), Gaps = 13/72 (18%)
Query: 157 SGVTQQEQKE-IMKKFRAGEFNTLIATSVGEEGLDIGEIDLVICFDAQKSPIK------- 208
SG EQ+ ++++FR G+ L+ T+V G+D+ ++ +VI FD P+
Sbjct: 313 SGEMMVEQRAAVIERFREGKEKVLVTTNVCARGIDVEQVSVVINFDL---PVDKDGNPDN 369
Query: 209 --MVQRLGRTGR 218
+ R+GRTGR
Sbjct: 370 ETYLHRIGRTGR 381
>pdb|3FHT|A Chain A, Crystal Structure Of Human Dbp5 In Complex With Amppnp And
Rna
pdb|3FHT|B Chain B, Crystal Structure Of Human Dbp5 In Complex With Amppnp And
Rna
Length = 412
Score = 37.4 bits (85), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 23/72 (31%), Positives = 39/72 (54%), Gaps = 13/72 (18%)
Query: 157 SGVTQQEQKE-IMKKFRAGEFNTLIATSVGEEGLDIGEIDLVICFDAQKSPIK------- 208
SG EQ+ ++++FR G+ L+ T+V G+D+ ++ +VI FD P+
Sbjct: 297 SGEMMVEQRAAVIERFREGKEKVLVTTNVCARGIDVEQVSVVINFDL---PVDKDGNPDN 353
Query: 209 --MVQRLGRTGR 218
+ R+GRTGR
Sbjct: 354 ETYLHRIGRTGR 365
>pdb|1GM5|A Chain A, Structure Of Recg Bound To Three-Way Dna Junction
Length = 780
Score = 37.4 bits (85), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 26/105 (24%), Positives = 59/105 (56%), Gaps = 7/105 (6%)
Query: 134 AEIFDVL-KPLEPMVKASMFVGQSSGVTQQEQKEIMKKFRAGEFNTLIATSVGEEGLDIG 192
E+++ L K + P K + G+ ++Q+E+ +M +F G ++ L++T+V E G+D+
Sbjct: 600 VEMYEYLSKEVFPEFKLGLMHGR---LSQEEKDRVMLEFAEGRYDILVSTTVIEVGIDVP 656
Query: 193 EIDLVICFDAQKSPIKMVQRL-GRTGR-KRNGRCVILLTQ-GREA 234
++++ + ++ + + +L GR GR + C +++ G EA
Sbjct: 657 RANVMVIENPERFGLAQLHQLRGRVGRGGQEAYCFLVVGDVGEEA 701
>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 = 37.4 bits (85), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 23/72 (31%), Positives = 39/72 (54%), Gaps = 13/72 (18%)
Query: 157 SGVTQQEQKE-IMKKFRAGEFNTLIATSVGEEGLDIGEIDLVICFDAQKSPIK------- 208
SG EQ+ ++++FR G+ L+ T+V G+D+ ++ +VI FD P+
Sbjct: 334 SGEMMVEQRAAVIERFREGKEKVLVTTNVCARGIDVEQVSVVINFDL---PVDKDGNPDN 390
Query: 209 --MVQRLGRTGR 218
+ R+GRTGR
Sbjct: 391 ETYLHRIGRTGR 402
>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 = 36.6 bits (83), Expect = 0.024, Method: Compositional matrix adjust.
Identities = 26/91 (28%), Positives = 44/91 (48%), Gaps = 4/91 (4%)
Query: 140 LKPLEPMVKASMFVGQSSGVTQQEQKEIMKKFRAGEFNTLIATSVGEEGLDIGEIDLVIC 199
L L P + ++ GQ + ++E + +M F FN L+ T++ E G+DI + +I
Sbjct: 832 LAELVPEARIAIGHGQ---MRERELERVMNDFHHQRFNVLVCTTIIETGIDIPTANTIII 888
Query: 200 FDAQKSPIKMVQRL-GRTGRKRNGRCVILLT 229
A + + +L GR GR + LLT
Sbjct: 889 ERADHFGLAQLHQLRGRVGRSHHQAYAWLLT 919
>pdb|1T5I|A Chain A, Crystal Structure Of The C-Terminal Domain Of Uap56
Length = 172
Score = 32.7 bits (73), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 15/61 (24%), Positives = 33/61 (54%)
Query: 158 GVTQQEQKEIMKKFRAGEFNTLIATSVGEEGLDIGEIDLVICFDAQKSPIKMVQRLGRTG 217
G+ Q+E+ ++F+ + L+AT++ G+DI +++ +D + + R+ R G
Sbjct: 64 GMPQEERLSRYQQFKDFQRRILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVARAG 123
Query: 218 R 218
R
Sbjct: 124 R 124
>pdb|1XTK|A Chain A, Structure Of Decd To Dead Mutation Of Human Uap56
Length = 390
Score = 32.7 bits (73), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 15/61 (24%), Positives = 33/61 (54%)
Query: 158 GVTQQEQKEIMKKFRAGEFNTLIATSVGEEGLDIGEIDLVICFDAQKSPIKMVQRLGRTG 217
G+ Q+E+ ++F+ + L+AT++ G+DI +++ +D + + R+ R G
Sbjct: 282 GMPQEERLSRYQQFKDFQRRILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVARAG 341
Query: 218 R 218
R
Sbjct: 342 R 342
>pdb|1XTI|A Chain A, Structure Of Wildtype Human Uap56
Length = 391
Score = 32.7 bits (73), Expect = 0.40, Method: Compositional matrix adjust.
Identities = 15/61 (24%), Positives = 33/61 (54%)
Query: 158 GVTQQEQKEIMKKFRAGEFNTLIATSVGEEGLDIGEIDLVICFDAQKSPIKMVQRLGRTG 217
G+ Q+E+ ++F+ + L+AT++ G+DI +++ +D + + R+ R G
Sbjct: 283 GMPQEERLSRYQQFKDFQRRILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVARAG 342
Query: 218 R 218
R
Sbjct: 343 R 343
>pdb|1XTJ|A Chain A, Structure Of Human Uap56 In Complex With Adp
Length = 386
Score = 32.7 bits (73), Expect = 0.41, Method: Compositional matrix adjust.
Identities = 15/61 (24%), Positives = 33/61 (54%)
Query: 158 GVTQQEQKEIMKKFRAGEFNTLIATSVGEEGLDIGEIDLVICFDAQKSPIKMVQRLGRTG 217
G+ Q+E+ ++F+ + L+AT++ G+DI +++ +D + + R+ R G
Sbjct: 283 GMPQEERLSRYQQFKDFQRRILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVARAG 342
Query: 218 R 218
R
Sbjct: 343 R 343
>pdb|4ERN|A Chain A, Crystal Structure Of The C-terminal Domain Of Human
Xpb/ercc-3 Excision Repair Protein At 1.80 A
Length = 289
Score = 31.6 bits (70), Expect = 0.81, Method: Compositional matrix adjust.
Identities = 18/66 (27%), Positives = 35/66 (53%), Gaps = 2/66 (3%)
Query: 159 VTQQEQKEIMKKFRAG-EFNTLIATSVGEEGLDIGEIDLVICFDAQKSPIKM-VQRLGRT 216
+Q E+ +I++ F+ + NT+ + VG+ D+ E +++I + + QRLGR
Sbjct: 91 TSQGERMQILQNFKHNPKINTIFISKVGDTSFDLPEANVLIQISSHGGSRRQEAQRLGRV 150
Query: 217 GRKRNG 222
R + G
Sbjct: 151 LRAKKG 156
>pdb|3D3Y|A Chain A, Crystal Structure Of A Conserved Protein From Enterococcus
Faecalis V583
Length = 425
Score = 31.2 bits (69), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 13/30 (43%), Positives = 19/30 (63%)
Query: 233 EAHNFQTSMQTCKSYVEKIINNKSIYANLA 262
EA FQ + K+Y+E I+ +K YA+LA
Sbjct: 128 EAETFQREKENLKAYLESIVEDKQTYASLA 157
>pdb|3KX2|B Chain B, Crystal Structure Of Prp43p In Complex With Adp
pdb|3KX2|A Chain A, Crystal Structure Of Prp43p In Complex With Adp
Length = 767
Score = 30.8 bits (68), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 24/70 (34%), Positives = 31/70 (44%), Gaps = 18/70 (25%)
Query: 179 LIATSVGEEGLDIGEIDLVI--CFDAQK-------------SPIKMV---QRLGRTGRKR 220
+I+T++ E L I I V+ F QK SPI QR GR GR R
Sbjct: 373 VISTNIAETSLTIDGIVYVVDPGFSKQKVYNPRIRVESLLVSPISKASAQQRAGRAGRTR 432
Query: 221 NGRCVILLTQ 230
G+C L T+
Sbjct: 433 PGKCFRLYTE 442
>pdb|2XAU|A Chain A, Crystal Structure Of The Prp43p Deah-Box Rna Helicase In
Complex With Adp
pdb|2XAU|B Chain B, Crystal Structure Of The Prp43p Deah-Box Rna Helicase In
Complex With Adp
Length = 773
Score = 30.8 bits (68), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 24/70 (34%), Positives = 31/70 (44%), Gaps = 18/70 (25%)
Query: 179 LIATSVGEEGLDIGEIDLVI--CFDAQK-------------SPIKMV---QRLGRTGRKR 220
+I+T++ E L I I V+ F QK SPI QR GR GR R
Sbjct: 373 VISTNIAETSLTIDGIVYVVDPGFSKQKVYNPRIRVESLLVSPISKASAQQRAGRAGRTR 432
Query: 221 NGRCVILLTQ 230
G+C L T+
Sbjct: 433 PGKCFRLYTE 442
>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 = 29.3 bits (64), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 16/57 (28%), Positives = 27/57 (47%)
Query: 162 QEQKEIMKKFRAGEFNTLIATSVGEEGLDIGEIDLVICFDAQKSPIKMVQRLGRTGR 218
+++ + +K+ A E ++AT G+D ++ VI KS Q GR GR
Sbjct: 304 EDKTTVHRKWSANEIQVVVATVAFGMGIDKPDVRFVIHHSMSKSMENYYQESGRAGR 360
>pdb|3RG1|A Chain A, Crystal Structure Of The Rp105MD-1 Complex
pdb|3RG1|E Chain E, Crystal Structure Of The Rp105MD-1 Complex
pdb|3RG1|I Chain I, Crystal Structure Of The Rp105MD-1 Complex
pdb|3RG1|M Chain M, Crystal Structure Of The Rp105MD-1 Complex
pdb|3RG1|B Chain B, Crystal Structure Of The Rp105MD-1 Complex
pdb|3RG1|F Chain F, Crystal Structure Of The Rp105MD-1 Complex
pdb|3RG1|J Chain J, Crystal Structure Of The Rp105MD-1 Complex
pdb|3RG1|N Chain N, Crystal Structure Of The Rp105MD-1 Complex
Length = 612
Score = 28.9 bits (63), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 10/24 (41%), Positives = 15/24 (62%)
Query: 255 KSIYANLAKNGPRMIPAHVTPRIK 278
K +Y N+A N R+IP H+ P +
Sbjct: 523 KGLYLNMASNNIRIIPPHLLPALS 546
>pdb|1OYW|A Chain A, Structure Of The Recq Catalytic Core
Length = 523
Score = 28.9 bits (63), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 22/95 (23%), Positives = 42/95 (44%), Gaps = 5/95 (5%)
Query: 124 IIFANYRVVVAEIFDVLKPLEPMVKASMFVGQSSGVTQQEQKEIMKKFRAGEFNTLIATS 183
II+ N R A++ D L+ K +G+ + ++ +KF+ + ++AT
Sbjct: 240 IIYCNSR---AKVEDTAARLQS--KGISAAAYHAGLENNVRADVQEKFQRDDLQIVVATV 294
Query: 184 VGEEGLDIGEIDLVICFDAQKSPIKMVQRLGRTGR 218
G++ + V+ FD ++ Q GR GR
Sbjct: 295 AFGXGINKPNVRFVVHFDIPRNIESYYQETGRAGR 329
>pdb|1OYY|A Chain A, Structure Of The Recq Catalytic Core Bound To Atp-Gamma-S
Length = 523
Score = 28.1 bits (61), Expect = 8.1, Method: Compositional matrix adjust.
Identities = 22/95 (23%), Positives = 42/95 (44%), Gaps = 5/95 (5%)
Query: 124 IIFANYRVVVAEIFDVLKPLEPMVKASMFVGQSSGVTQQEQKEIMKKFRAGEFNTLIATS 183
II+ N R A++ D L+ K +G+ + ++ +KF+ + ++AT
Sbjct: 240 IIYCNSR---AKVEDTAARLQS--KGISAAAYHAGLENNVRADVQEKFQRDDLQIVVATV 294
Query: 184 VGEEGLDIGEIDLVICFDAQKSPIKMVQRLGRTGR 218
G++ + V+ FD ++ Q GR GR
Sbjct: 295 AFGMGINKPNVRFVVHFDIPRNIESYYQETGRAGR 329
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
0.320 0.134 0.382
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,092,849
Number of Sequences: 62578
Number of extensions: 307596
Number of successful extensions: 791
Number of sequences better than 100.0: 75
Number of HSP's better than 100.0 without gapping: 72
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 705
Number of HSP's gapped (non-prelim): 76
length of query: 395
length of database: 14,973,337
effective HSP length: 101
effective length of query: 294
effective length of database: 8,652,959
effective search space: 2543969946
effective search space used: 2543969946
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 52 (24.6 bits)