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= 024287
(269 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 74.7 bits (182), Expect = 5e-14, Method: Compositional matrix adjust.
Identities = 36/86 (41%), Positives = 55/86 (63%), Gaps = 3/86 (3%)
Query: 164 LEEEMNFNSRAASLLEVRQGGGYLLVSTDIAARGIDLPETTHIYNFDLPRSAIDYLHRAG 223
LE EM R ++ + +G +LV+TD+AARGID+P+ +H++NFD+PRS YLHR G
Sbjct: 60 LEGEMVQGKRNEAIKRLTEGRVNVLVATDVAARGIDIPDVSHVFNFDMPRSGDTYLHRIG 119
Query: 224 RTGRKPFSDEKWTVTSIITSEELFVL 249
RT R + K T S++ + + +L
Sbjct: 120 RTAR---AGRKGTAISLVEAHDHLLL 142
>pdb|2Z0M|A Chain A, Crystal Structure Of Hypothetical Atp-Dependent Rna
Helicase From Sulfolobus Tokodaii
Length = 337
Score = 69.7 bits (169), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 65/268 (24%), Positives = 114/268 (42%), Gaps = 52/268 (19%)
Query: 2 GSLCQLIEKHIFKLESVQVLVIDEVDFLFNXXXXXXXXXXXXXXXXXCNNRQTVFASASI 61
G L L K + L S ++++IDE D +F N + T SA+I
Sbjct: 114 GRLLDLWSKGVIDLSSFEIVIIDEADLMFEMGFIDDIKIILAQT---SNRKITGLFSATI 170
Query: 62 PQHRRFLHNCIQQKWTKSDVVHVHVNAIKPLPSCL-----HHRFVICGKKMKYQTLLSLI 116
P+ R VV + + + +C+ H+FV K +++ + +
Sbjct: 171 PEEIR-------------KVVKDFITNYEEIEACIGLANVEHKFVHV--KDDWRSKVQAL 215
Query: 117 QSDAPESGIIFVGEQSEKSKKAGNAPSTTLLVDFLSNSYKGSSDVLLLEEEMNFNSRAAS 176
+ + + I+FV ++ +K LV N+ + L ++ + R +
Sbjct: 216 RENKDKGVIVFVRTRNRVAK----------LVRLFDNAIE-------LRGDLPQSVRNRN 258
Query: 177 LLEVRQGGGYLLVSTDIAARGIDLPETTHIYNFDLPRSAIDYLHRAGRTGRKPFSDEKWT 236
+ R+G +L++TD+A+RG+D+P + NFD P+ Y+HR GRTGR E T
Sbjct: 259 IDAFREGEYDMLITTDVASRGLDIPLVEKVINFDAPQDLRTYIHRIGRTGRMGRKGEAIT 318
Query: 237 VTSIITSEELFVLQRY--ENELKFKSEE 262
F+L Y E E+K S++
Sbjct: 319 ----------FILNEYWLEKEVKKVSQK 336
>pdb|2J0U|B Chain B, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 68.2 bits (165), Expect = 5e-12, Method: Compositional matrix adjust.
Identities = 60/266 (22%), Positives = 115/266 (43%), Gaps = 27/266 (10%)
Query: 2 GSLCQLIEKHIFKLESVQVLVIDEVDFLFNXXXXXXXXXXXXXXXXXCNNRQTVFASASI 61
G + +I + + ++++LV+DE D + N Q V SA++
Sbjct: 128 GRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPAT---QVVLISATL 184
Query: 62 PQHRRFLHNCIQQKWTKSDVVHVHVNAIKPLPSCLHHRFVICGKK-MKYQTLLSLIQSDA 120
P + N +D + + V + + FV ++ K+ TL L +
Sbjct: 185 PHEVLEMTNKFM-----TDPIRILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLT 239
Query: 121 PESGIIFVGEQSEKSKKAGNAPSTTLLVDFLSNSYKGSS-DVLLLEEEMNFNSRAASLLE 179
+IF +T VD+L+ + ++ V + +M R + + E
Sbjct: 240 ITQAVIFC--------------NTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKE 285
Query: 180 VRQGGGYLLVSTDIAARGIDLPETTHIYNFDLPRSAIDYLHRAGRTGRKPFSDEKWTVTS 239
R G +L+STD+ ARG+D+P+ + I N+DLP + Y+HR GR+GR K +
Sbjct: 286 FRSGASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGR---YGRKGVAVN 342
Query: 240 IITSEELFVLQRYENELKFKSEELTL 265
+ ++++ VL+ E + +E+ +
Sbjct: 343 FVKNDDIRVLRDIEQYYSTQIDEMPM 368
>pdb|2J0U|A Chain A, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 67.8 bits (164), Expect = 6e-12, Method: Compositional matrix adjust.
Identities = 60/266 (22%), Positives = 115/266 (43%), Gaps = 27/266 (10%)
Query: 2 GSLCQLIEKHIFKLESVQVLVIDEVDFLFNXXXXXXXXXXXXXXXXXCNNRQTVFASASI 61
G + +I + + ++++LV+DE D + N Q V SA++
Sbjct: 128 GRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPAT---QVVLISATL 184
Query: 62 PQHRRFLHNCIQQKWTKSDVVHVHVNAIKPLPSCLHHRFVICGKK-MKYQTLLSLIQSDA 120
P + N +D + + V + + FV ++ K+ TL L +
Sbjct: 185 PHEILEMTNKFM-----TDPIRILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLT 239
Query: 121 PESGIIFVGEQSEKSKKAGNAPSTTLLVDFLSNSYKGSS-DVLLLEEEMNFNSRAASLLE 179
+IF +T VD+L+ + ++ V + +M R + + E
Sbjct: 240 ITQAVIFC--------------NTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKE 285
Query: 180 VRQGGGYLLVSTDIAARGIDLPETTHIYNFDLPRSAIDYLHRAGRTGRKPFSDEKWTVTS 239
R G +L+STD+ ARG+D+P+ + I N+DLP + Y+HR GR+GR K +
Sbjct: 286 FRSGASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGR---YGRKGVAVN 342
Query: 240 IITSEELFVLQRYENELKFKSEELTL 265
+ ++++ VL+ E + +E+ +
Sbjct: 343 FVKNDDIRVLRDIEQYYSTQIDEMPM 368
>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 = 67.0 bits (162), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 59/266 (22%), Positives = 115/266 (43%), Gaps = 27/266 (10%)
Query: 2 GSLCQLIEKHIFKLESVQVLVIDEVDFLFNXXXXXXXXXXXXXXXXXCNNRQTVFASASI 61
G + +I + + ++++LV+DE D + N Q V SA++
Sbjct: 164 GRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPAT---QVVLISATL 220
Query: 62 PQHRRFLHNCIQQKWTKSDVVHVHVNAIKPLPSCLHHRFVICGKK-MKYQTLLSLIQSDA 120
P + N +D + + V + + FV ++ K+ TL L +
Sbjct: 221 PHEILEMTNKFM-----TDPIRILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLT 275
Query: 121 PESGIIFVGEQSEKSKKAGNAPSTTLLVDFLSNSYKGSS-DVLLLEEEMNFNSRAASLLE 179
+IF +T VD+L+ + ++ V + +M R + + E
Sbjct: 276 ITQAVIFC--------------NTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKE 321
Query: 180 VRQGGGYLLVSTDIAARGIDLPETTHIYNFDLPRSAIDYLHRAGRTGRKPFSDEKWTVTS 239
R G +L+STD+ ARG+D+P+ + I N+DLP + Y+HR GR+GR K +
Sbjct: 322 FRSGASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGR---YGRKGVAIN 378
Query: 240 IITSEELFVLQRYENELKFKSEELTL 265
+ ++++ +L+ E + +E+ +
Sbjct: 379 FVKNDDIRILRDIEQYYSTQIDEMPM 404
>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 = 67.0 bits (162), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 59/266 (22%), Positives = 115/266 (43%), Gaps = 27/266 (10%)
Query: 2 GSLCQLIEKHIFKLESVQVLVIDEVDFLFNXXXXXXXXXXXXXXXXXCNNRQTVFASASI 61
G + +I + + ++++LV+DE D + N Q V SA++
Sbjct: 143 GRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPAT---QVVLISATL 199
Query: 62 PQHRRFLHNCIQQKWTKSDVVHVHVNAIKPLPSCLHHRFVICGKK-MKYQTLLSLIQSDA 120
P + N +D + + V + + FV ++ K+ TL L +
Sbjct: 200 PHEILEMTNKFM-----TDPIRILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLT 254
Query: 121 PESGIIFVGEQSEKSKKAGNAPSTTLLVDFLSNSYKGSS-DVLLLEEEMNFNSRAASLLE 179
+IF +T VD+L+ + ++ V + +M R + + E
Sbjct: 255 ITQAVIFC--------------NTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKE 300
Query: 180 VRQGGGYLLVSTDIAARGIDLPETTHIYNFDLPRSAIDYLHRAGRTGRKPFSDEKWTVTS 239
R G +L+STD+ ARG+D+P+ + I N+DLP + Y+HR GR+GR K +
Sbjct: 301 FRSGASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGR---YGRKGVAIN 357
Query: 240 IITSEELFVLQRYENELKFKSEELTL 265
+ ++++ +L+ E + +E+ +
Sbjct: 358 FVKNDDIRILRDIEQYYSTQIDEMPM 383
>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 = 67.0 bits (162), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 59/266 (22%), Positives = 115/266 (43%), Gaps = 27/266 (10%)
Query: 2 GSLCQLIEKHIFKLESVQVLVIDEVDFLFNXXXXXXXXXXXXXXXXXCNNRQTVFASASI 61
G + +I + + ++++LV+DE D + N Q V SA++
Sbjct: 165 GRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPAT---QVVLISATL 221
Query: 62 PQHRRFLHNCIQQKWTKSDVVHVHVNAIKPLPSCLHHRFVICGKK-MKYQTLLSLIQSDA 120
P + N +D + + V + + FV ++ K+ TL L +
Sbjct: 222 PHEILEMTNKFM-----TDPIRILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLT 276
Query: 121 PESGIIFVGEQSEKSKKAGNAPSTTLLVDFLSNSYKGSS-DVLLLEEEMNFNSRAASLLE 179
+IF +T VD+L+ + ++ V + +M R + + E
Sbjct: 277 ITQAVIFC--------------NTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKE 322
Query: 180 VRQGGGYLLVSTDIAARGIDLPETTHIYNFDLPRSAIDYLHRAGRTGRKPFSDEKWTVTS 239
R G +L+STD+ ARG+D+P+ + I N+DLP + Y+HR GR+GR K +
Sbjct: 323 FRSGASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGR---YGRKGVAIN 379
Query: 240 IITSEELFVLQRYENELKFKSEELTL 265
+ ++++ +L+ E + +E+ +
Sbjct: 380 FVKNDDIRILRDIEQYYSTQIDEMPM 405
>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 = 66.6 bits (161), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 59/266 (22%), Positives = 115/266 (43%), Gaps = 27/266 (10%)
Query: 2 GSLCQLIEKHIFKLESVQVLVIDEVDFLFNXXXXXXXXXXXXXXXXXCNNRQTVFASASI 61
G + +I + + ++++LV+DE D + N Q V SA++
Sbjct: 165 GRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPAT---QVVLISATL 221
Query: 62 PQHRRFLHNCIQQKWTKSDVVHVHVNAIKPLPSCLHHRFVICGKK-MKYQTLLSLIQSDA 120
P + N +D + + V + + FV ++ K+ TL L +
Sbjct: 222 PHEILEMTNKFM-----TDPIRILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLT 276
Query: 121 PESGIIFVGEQSEKSKKAGNAPSTTLLVDFLSNSYKGSS-DVLLLEEEMNFNSRAASLLE 179
+IF +T VD+L+ + ++ V + +M R + + E
Sbjct: 277 ITQAVIFC--------------NTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKE 322
Query: 180 VRQGGGYLLVSTDIAARGIDLPETTHIYNFDLPRSAIDYLHRAGRTGRKPFSDEKWTVTS 239
R G +L+STD+ ARG+D+P+ + I N+DLP + Y+HR GR+GR K +
Sbjct: 323 FRSGASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGR---YGRKGVAIN 379
Query: 240 IITSEELFVLQRYENELKFKSEELTL 265
+ ++++ +L+ E + +E+ +
Sbjct: 380 FVKNDDIRILRDIEQYYSTQIDEMPM 405
>pdb|2I4I|A Chain A, Crystal Structure Of Human Dead-Box Rna Helicase Ddx3x
Length = 417
Score = 66.6 bits (161), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 57/228 (25%), Positives = 99/228 (43%), Gaps = 20/228 (8%)
Query: 2 GSLCQLIEKHIFKLESVQVLVIDEVDFLFNXXXXXXXXXXXXXXXXXCNN-RQTVFASAS 60
G L ++E+ L+ + LV+DE D + + R T+ SA+
Sbjct: 160 GRLVDMMERGKIGLDFCKYLVLDEADRMLDMGFEPQIRRIVEQDTMPPKGVRHTMMFSAT 219
Query: 61 IPQHRRFLHNCIQQKWTKSDVVHVHVNAIKPLPSCLHHRFVICGKKMKYQTLLSLIQSDA 120
P+ + L ++ + + V + + + V + K LL L+ +
Sbjct: 220 FPKEIQMLARDFLDEY-----IFLAVGRVGSTSENITQKVVWVEESDKRSFLLDLLNATG 274
Query: 121 PES-GIIFVGEQSEKSKKAGNAPSTTLLVDFLSNSYKGSSDVLLLEEEMNFNSRAASLLE 179
+S ++FV ++KK ++ L DFL Y + + + R +L +
Sbjct: 275 KDSLTLVFV-----ETKKGADS-----LEDFL---YHEGYACTSIHGDRSQRDREEALHQ 321
Query: 180 VRQGGGYLLVSTDIAARGIDLPETTHIYNFDLPRSAIDYLHRAGRTGR 227
R G +LV+T +AARG+D+ H+ NFDLP +Y+HR GRTGR
Sbjct: 322 FRSGKSPILVATAVAARGLDISNVKHVINFDLPSDIEEYVHRIGRTGR 369
>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 = 64.3 bits (155), Expect = 7e-11, Method: Compositional matrix adjust.
Identities = 45/139 (32%), Positives = 71/139 (51%), Gaps = 20/139 (14%)
Query: 96 LHHRFVICG-KKMKYQTLLSLIQSDAPESGIIFVGEQSEKSKKAGNAPSTTLLVDFLSNS 154
+ +V+C +K KYQ L ++ S IIF Q+ ++ K L V+ + +
Sbjct: 8 IRQYYVLCEHRKDKYQALCNIYGSITIGQAIIFC--QTRRNAKW-------LTVEMIQDG 58
Query: 155 YKGSSDVLLLEEEMNFNSRAASLLEVRQGGGYLLVSTDIAARGIDLPETTHIYNFDLPRS 214
++ V LL E+ RA+ + R G +L++T++ ARGID+ + T + NFDLP
Sbjct: 59 HQ----VSLLSGELTVEQRASIIQRFRDGKEKVLITTNVCARGIDVKQVTIVVNFDLPVK 114
Query: 215 AID------YLHRAGRTGR 227
+ YLHR GRTGR
Sbjct: 115 QGEEPDYETYLHRIGRTGR 133
>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 = 63.5 bits (153), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 41/117 (35%), Positives = 57/117 (48%), Gaps = 14/117 (11%)
Query: 156 KGSSDVLLLEEEMNFNSRAASLLEVRQGGGYLLVSTDIAARGIDLPETTHIYNFDLPRSA 215
K V LL EM RAA + R+G +LV+T++ ARGID+ + + + NFDLP
Sbjct: 288 KEGHQVALLSGEMMVEQRAAVIERFREGKEKVLVTTNVCARGIDVEQVSVVINFDLP--- 344
Query: 216 ID---------YLHRAGRTGRKPFSDEKWTVTSIITSEELFVLQRYENELKFKSEEL 263
+D YLHR GRTGR F V + + + +L R + K E L
Sbjct: 345 VDKDGNPDNETYLHRIGRTGR--FGKRGLAVNMVDSKHSMNILNRIQEHFNKKIERL 399
>pdb|3G0H|A Chain A, Human Dead-box Rna Helicase Ddx19, In Complex With An
Atp-analogue And Rna
Length = 424
Score = 63.5 bits (153), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 41/117 (35%), Positives = 57/117 (48%), Gaps = 14/117 (11%)
Query: 156 KGSSDVLLLEEEMNFNSRAASLLEVRQGGGYLLVSTDIAARGIDLPETTHIYNFDLPRSA 215
K V LL EM RAA + R+G +LV+T++ ARGID+ + + + NFDLP
Sbjct: 304 KEGHQVALLSGEMMVEQRAAVIERFREGKEKVLVTTNVCARGIDVEQVSVVINFDLP--- 360
Query: 216 ID---------YLHRAGRTGRKPFSDEKWTVTSIITSEELFVLQRYENELKFKSEEL 263
+D YLHR GRTGR F V + + + +L R + K E L
Sbjct: 361 VDKDGNPDNETYLHRIGRTGR--FGKRGLAVNMVDSKHSMNILNRIQEHFNKKIERL 415
>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 = 63.5 bits (153), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 41/117 (35%), Positives = 57/117 (48%), Gaps = 14/117 (11%)
Query: 156 KGSSDVLLLEEEMNFNSRAASLLEVRQGGGYLLVSTDIAARGIDLPETTHIYNFDLPRSA 215
K V LL EM RAA + R+G +LV+T++ ARGID+ + + + NFDLP
Sbjct: 355 KEGHQVALLSGEMMVEQRAAVIERFREGKEKVLVTTNVCARGIDVEQVSVVINFDLP--- 411
Query: 216 ID---------YLHRAGRTGRKPFSDEKWTVTSIITSEELFVLQRYENELKFKSEEL 263
+D YLHR GRTGR F V + + + +L R + K E L
Sbjct: 412 VDKDGNPDNETYLHRIGRTGR--FGKRGLAVNMVDSKHSMNILNRIQEHFNKKIERL 466
>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 = 63.5 bits (153), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 41/117 (35%), Positives = 57/117 (48%), Gaps = 14/117 (11%)
Query: 156 KGSSDVLLLEEEMNFNSRAASLLEVRQGGGYLLVSTDIAARGIDLPETTHIYNFDLPRSA 215
K V LL EM RAA + R+G +LV+T++ ARGID+ + + + NFDLP
Sbjct: 325 KEGHQVALLSGEMMVEQRAAVIERFREGKEKVLVTTNVCARGIDVEQVSVVINFDLP--- 381
Query: 216 ID---------YLHRAGRTGRKPFSDEKWTVTSIITSEELFVLQRYENELKFKSEEL 263
+D YLHR GRTGR F V + + + +L R + K E L
Sbjct: 382 VDKDGNPDNETYLHRIGRTGR--FGKRGLAVNMVDSKHSMNILNRIQEHFNKKIERL 436
>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 = 60.5 bits (145), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 59/236 (25%), Positives = 102/236 (43%), Gaps = 33/236 (13%)
Query: 2 GSLCQLIEKHIFKLESVQVLVIDEVDFLFNXXXXXXXXXXXXXXXXXCNNRQTVFASASI 61
G++ L+ + + +L+ +++ V+DE D + + + Q V SA+
Sbjct: 130 GTVLDLMRRKLMQLQKIKIFVLDEADNMLDQQGLGDQCIRVKRFL--PKDTQLVLFSATF 187
Query: 62 PQH-RRFLHNCIQQKWT-KSDVVHVHVNAIKPLPSCLHHRFVICGKKM-KYQTLLSLIQS 118
R++ + T + V+V+AIK L ++ C + K+ L L
Sbjct: 188 ADAVRQYAKKIVPNANTLELQTNEVNVDAIKQL-------YMDCKNEADKFDVLTELYGV 240
Query: 119 DAPESGIIFVGEQSEKSKKAGNAPSTTLLVDFLSNSYKGSS-DVLLLEEEMNFNSRAASL 177
S IIFV +KK N L K +V +L ++ R +
Sbjct: 241 MTIGSSIIFVA-----TKKTANV---------LYGKLKSEGHEVSILHGDLQTQERDRLI 286
Query: 178 LEVRQGGGYLLVSTDIAARGIDLPETTHIYNFDLPRSA------IDYLHRAGRTGR 227
+ R+G +L++T++ ARGID+P + + N+DLP A Y+HR GRTGR
Sbjct: 287 DDFREGRSKVLITTNVLARGIDIPTVSMVVNYDLPTLANGQADPATYIHRIGRTGR 342
>pdb|3PEY|A Chain A, S. Cerevisiae Dbp5 Bound To Rna And Adp Bef3
Length = 395
Score = 60.1 bits (144), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 59/236 (25%), Positives = 102/236 (43%), Gaps = 33/236 (13%)
Query: 2 GSLCQLIEKHIFKLESVQVLVIDEVDFLFNXXXXXXXXXXXXXXXXXCNNRQTVFASASI 61
G++ L+ + + +L+ +++ V+DE D + + + Q V SA+
Sbjct: 130 GTVLDLMRRKLMQLQKIKIFVLDEADNMLDQQGLGDQCIRVKRFL--PKDTQLVLFSATF 187
Query: 62 PQH-RRFLHNCIQQKWT-KSDVVHVHVNAIKPLPSCLHHRFVICGKKM-KYQTLLSLIQS 118
R++ + T + V+V+AIK L ++ C + K+ L L
Sbjct: 188 ADAVRQYAKKIVPNANTLELQTNEVNVDAIKQL-------YMDCKNEADKFDVLTELYGL 240
Query: 119 DAPESGIIFVGEQSEKSKKAGNAPSTTLLVDFLSNSYKGSS-DVLLLEEEMNFNSRAASL 177
S IIFV +KK N L K +V +L ++ R +
Sbjct: 241 MTIGSSIIFVA-----TKKTANV---------LYGKLKSEGHEVSILHGDLQTQERDRLI 286
Query: 178 LEVRQGGGYLLVSTDIAARGIDLPETTHIYNFDLPRSA------IDYLHRAGRTGR 227
+ R+G +L++T++ ARGID+P + + N+DLP A Y+HR GRTGR
Sbjct: 287 DDFREGRSKVLITTNVLARGIDIPTVSMVVNYDLPTLANGQADPATYIHRIGRTGR 342
>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 = 60.1 bits (144), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 26/55 (47%), Positives = 36/55 (65%)
Query: 173 RAASLLEVRQGGGYLLVSTDIAARGIDLPETTHIYNFDLPRSAIDYLHRAGRTGR 227
R +L + R G +LV+T +AARG+D+ H+ NFDLP +Y+HR GRTGR
Sbjct: 85 REEALHQFRSGKSPILVATAVAARGLDISNVKHVINFDLPSDIEEYVHRIGRTGR 139
>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 = 59.3 bits (142), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 49/226 (21%), Positives = 96/226 (42%), Gaps = 20/226 (8%)
Query: 2 GSLCQLIEKHIFKLESVQVLVIDEVDFLFNXXXXXXXXXXXXXXXXXCNNRQTVFASASI 61
G L +++ E + +V+DE D + + + QT+ SA+
Sbjct: 188 GRLLDFVDRTFITFEDTRFVVLDEADRMLDMGFSEDMRRIMTHVTMRPEH-QTLMFSATF 246
Query: 62 PQHRRFLHNCIQQKWTKSDVVHVHVNAIKPLPSCLHHRFVICGKKMKYQTLLSLIQSDAP 121
P+ + + + + V V + + S + K K L+ ++ A
Sbjct: 247 PEEIQRMAGEFLKNY-----VFVAIGIVGGACSDVKQTIYEVNKYAKRSKLIEILSEQA- 300
Query: 122 ESGIIFVGEQSEKSKKAGNAPSTTLLVDFLSNSYKGSSDVLLLEEEMNFNSRAASLLEVR 181
+ I+FV ++K+ + L FLS ++ + + + R +L + +
Sbjct: 301 DGTIVFV-----ETKRGAD-----FLASFLSEKEFPTTSI---HGDRLQSQREQALRDFK 347
Query: 182 QGGGYLLVSTDIAARGIDLPETTHIYNFDLPRSAIDYLHRAGRTGR 227
G +L++T +A+RG+D+ H+ N+D+P DY+HR GRTGR
Sbjct: 348 NGSMKVLIATSVASRGLDIKNIKHVINYDMPSKIDDYVHRIGRTGR 393
>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 = 58.2 bits (139), Expect = 5e-09, Method: Compositional matrix adjust.
Identities = 22/54 (40%), Positives = 36/54 (66%)
Query: 173 RAASLLEVRQGGGYLLVSTDIAARGIDLPETTHIYNFDLPRSAIDYLHRAGRTG 226
R ++ R+G +LV+TD+A++G+D P H+ N+D+P +Y+HR GRTG
Sbjct: 93 RTKAIEAFREGKKDVLVATDVASKGLDFPAIQHVINYDMPEEIENYVHRIGRTG 146
>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 = 57.0 bits (136), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 45/169 (26%), Positives = 84/169 (49%), Gaps = 18/169 (10%)
Query: 96 LHHRFVICGKKMKYQTLLSLIQSDAPESGIIFVGEQSEKSKKAGNAPSTTLL-VDFLSNS 154
+ H + ++ K+ L ++ ++ P+S IIF ++K+ N + L + + +
Sbjct: 10 IEHAVIQVREENKFSLLKDVLMTENPDSCIIFC-----RTKEHVNQLTDELDDLGYPCDK 64
Query: 155 YKGSSDVLLLEEEMNFNSRAASLLEVRQGGGYLLVSTDIAARGIDLPETTHIYNFDLPRS 214
G +++E+ R + E ++G LV+TD+AARGID+ + + N+DLP
Sbjct: 65 IHGG----MIQED-----RFDVMNEFKRGEYRYLVATDVAARGIDIENISLVINYDLPLE 115
Query: 215 AIDYLHRAGRTGRKPFSDEKWTVTSIITSEELFVLQRYENELKFKSEEL 263
Y+HR GRTGR + K S +T+ E L E + F+ +++
Sbjct: 116 KESYVHRTGRTGR---AGNKGKAISFVTAFEKRFLADIEEYIGFEIQKI 161
>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 = 56.2 bits (134), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 36/140 (25%), Positives = 61/140 (43%), Gaps = 19/140 (13%)
Query: 144 TTLLVDFLSNSYKGSSDVLLLEEEMNFNSRAASLLEVRQGGGYLLVSTDIAARGIDLPET 203
T+ L L N +K +L ++ N R + + ++ +LV TD+ ARG+D P
Sbjct: 46 TSFLCSILKNEFKKDLPILEFHGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNV 105
Query: 204 THIYNFDLPRSAIDYLHRAGRTGRK---------------PFSDEKWTVTSIITSEELFV 248
+ +P +Y+HR GRT R PF E +I+ +++
Sbjct: 106 HEVLQIGVPSELANYIHRIGRTARSGKEGSSVLFICKDELPFVRELEDAKNIVIAKQ--- 162
Query: 249 LQRYENELKFKSEELTLQTQ 268
++YE + KSE L T+
Sbjct: 163 -EKYEPSEEIKSEVLEAVTE 181
>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 = 56.2 bits (134), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 36/140 (25%), Positives = 61/140 (43%), Gaps = 19/140 (13%)
Query: 144 TTLLVDFLSNSYKGSSDVLLLEEEMNFNSRAASLLEVRQGGGYLLVSTDIAARGIDLPET 203
T+ L L N +K +L ++ N R + + ++ +LV TD+ ARG+D P
Sbjct: 46 TSFLCSILKNEFKKDLPILEFHGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNV 105
Query: 204 THIYNFDLPRSAIDYLHRAGRTGRK---------------PFSDEKWTVTSIITSEELFV 248
+ +P +Y+HR GRT R PF E +I+ +++
Sbjct: 106 HEVLQIGVPSELANYIHRIGRTARSGKEGSSVLFICKDELPFVRELEDAKNIVIAKQ--- 162
Query: 249 LQRYENELKFKSEELTLQTQ 268
++YE + KSE L T+
Sbjct: 163 -EKYEPSEEIKSEVLEAVTE 181
>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 = 56.2 bits (134), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 36/140 (25%), Positives = 61/140 (43%), Gaps = 19/140 (13%)
Query: 144 TTLLVDFLSNSYKGSSDVLLLEEEMNFNSRAASLLEVRQGGGYLLVSTDIAARGIDLPET 203
T+ L L N +K +L ++ N R + + ++ +LV TD+ ARG+D P
Sbjct: 46 TSFLCSILKNEFKKDLPILEFHGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNV 105
Query: 204 THIYNFDLPRSAIDYLHRAGRTGRK---------------PFSDEKWTVTSIITSEELFV 248
+ +P +Y+HR GRT R PF E +I+ +++
Sbjct: 106 HEVLQIGVPSELANYIHRIGRTARSGKEGSSVLFICKDELPFVRELEDAKNIVIAKQ--- 162
Query: 249 LQRYENELKFKSEELTLQTQ 268
++YE + KSE L T+
Sbjct: 163 -EKYEPSEEIKSEVLEAVTE 181
>pdb|3SQX|A Chain A, Structure Of Mss116p (Nte And C-Tail Double Deletion)
Bound To Ssrna And Amp-Pnp
Length = 512
Score = 55.8 bits (133), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 38/146 (26%), Positives = 64/146 (43%), Gaps = 22/146 (15%)
Query: 141 APS---TTLLVDFLSNSYKGSSDVLLLEEEMNFNSRAASLLEVRQGGGYLLVSTDIAARG 197
AP+ T+ L L N +K +L ++ N R + + ++ +LV TD+ ARG
Sbjct: 295 APTVKFTSFLCSILKNEFKKDLPILEFHGKITQNKRTSLVKRFKKDESGILVCTDVGARG 354
Query: 198 IDLPETTHIYNFDLPRSAIDYLHRAGRTGRK---------------PFSDEKWTVTSIIT 242
+D P + +P +Y+HR GRT R PF E +I+
Sbjct: 355 MDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEGSSVLFICKDELPFVRELEDAKNIVI 414
Query: 243 SEELFVLQRYENELKFKSEELTLQTQ 268
+++ ++YE + KSE L T+
Sbjct: 415 AKQ----EKYEPSEEIKSEVLEAVTE 436
>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 = 55.1 bits (131), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 38/146 (26%), Positives = 64/146 (43%), Gaps = 22/146 (15%)
Query: 141 APS---TTLLVDFLSNSYKGSSDVLLLEEEMNFNSRAASLLEVRQGGGYLLVSTDIAARG 197
AP+ T+ L L N +K +L ++ N R + + ++ +LV TD+ ARG
Sbjct: 346 APTVKFTSFLCSILKNEFKKDLPILEFHGKITQNKRTSLVKRFKKDESGILVCTDVGARG 405
Query: 198 IDLPETTHIYNFDLPRSAIDYLHRAGRTGRK---------------PFSDEKWTVTSIIT 242
+D P + +P +Y+HR GRT R PF E +I+
Sbjct: 406 MDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEGSSVLFICKDELPFVRELEDAKNIVI 465
Query: 243 SEELFVLQRYENELKFKSEELTLQTQ 268
+++ ++YE + KSE L T+
Sbjct: 466 AKQ----EKYEPSEEIKSEVLEAVTE 487
>pdb|1S2M|A Chain A, Crystal Structure Of The Dead Box Protein Dhh1p
Length = 400
Score = 54.7 bits (130), Expect = 6e-08, Method: Compositional matrix adjust.
Identities = 31/78 (39%), Positives = 43/78 (55%), Gaps = 3/78 (3%)
Query: 179 EVRQGGGYLLVSTDIAARGIDLPETTHIYNFDLPRSAIDYLHRAGRTGRKPFSDEKWTVT 238
E RQG LV +D+ RGID+ + NFD P++A YLHR GR+GR F +
Sbjct: 303 EFRQGKVRTLVCSDLLTRGIDIQAVNVVINFDFPKTAETYLHRIGRSGR--FGHLGLAI- 359
Query: 239 SIITSEELFVLQRYENEL 256
++I + F L + E EL
Sbjct: 360 NLINWNDRFNLYKIEQEL 377
>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 = 54.7 bits (130), Expect = 6e-08, Method: Compositional matrix adjust.
Identities = 45/151 (29%), Positives = 69/151 (45%), Gaps = 27/151 (17%)
Query: 84 VHVNAIKPLPSCLHHRFVICGKKM-KYQTLLSLIQSDAPESGIIFVGEQSEKSKKAGNAP 142
V+V+AIK L + C + K+ L L S IIFV +KK N
Sbjct: 5 VNVDAIKQL-------YXDCKNEADKFDVLTELYGVXTIGSSIIFVA-----TKKTANVL 52
Query: 143 STTLLVDFLSNSYKGSSDVLLLEEEMNFNSRAASLLEVRQGGGYLLVSTDIAARGIDLPE 202
L + +V +L ++ R + + R+G +L++T++ ARGID+P
Sbjct: 53 YGKLKSE--------GHEVSILHGDLQTQERDRLIDDFREGRSKVLITTNVLARGIDIPT 104
Query: 203 TTHIYNFDLPRSA------IDYLHRAGRTGR 227
+ + N+DLP A Y+HR GRTGR
Sbjct: 105 VSXVVNYDLPTLANGQADPATYIHRIGRTGR 135
>pdb|3SQW|A Chain A, Structure Of Mss116p (Nte Deletion) Bound To Ssrna And
Amp-Pnp
Length = 579
Score = 54.3 bits (129), Expect = 6e-08, Method: Compositional matrix adjust.
Identities = 38/146 (26%), Positives = 64/146 (43%), Gaps = 22/146 (15%)
Query: 141 APS---TTLLVDFLSNSYKGSSDVLLLEEEMNFNSRAASLLEVRQGGGYLLVSTDIAARG 197
AP+ T+ L L N +K +L ++ N R + + ++ +LV TD+ ARG
Sbjct: 295 APTVKFTSFLCSILKNEFKKDLPILEFHGKITQNKRTSLVKRFKKDESGILVCTDVGARG 354
Query: 198 IDLPETTHIYNFDLPRSAIDYLHRAGRTGRK---------------PFSDEKWTVTSIIT 242
+D P + +P +Y+HR GRT R PF E +I+
Sbjct: 355 MDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEGSSVLFICKDELPFVRELEDAKNIVI 414
Query: 243 SEELFVLQRYENELKFKSEELTLQTQ 268
+++ ++YE + KSE L T+
Sbjct: 415 AKQ----EKYEPSEEIKSEVLEAVTE 436
>pdb|2KBF|A Chain A, Solution Structure Of Carboxyl-Terminal Domain Of Dbp5p
Length = 187
Score = 54.3 bits (129), Expect = 8e-08, Method: Compositional matrix adjust.
Identities = 45/151 (29%), Positives = 70/151 (46%), Gaps = 27/151 (17%)
Query: 84 VHVNAIKPLPSCLHHRFVICGKKM-KYQTLLSLIQSDAPESGIIFVGEQSEKSKKAGNAP 142
V+V+AIK L ++ C + K+ L L S IIFV +KK N
Sbjct: 4 VNVDAIKQL-------YMDCKNEADKFDVLTELYGLMTIGSSIIFVA-----TKKTANVL 51
Query: 143 STTLLVDFLSNSYKGSSDVLLLEEEMNFNSRAASLLEVRQGGGYLLVSTDIAARGIDLPE 202
L + +V +L ++ R + + R+G +L++T++ ARGID+P
Sbjct: 52 YGKLKSE--------GHEVSILHGDLQTQERDRLIDDFREGRSKVLITTNVLARGIDIPT 103
Query: 203 TTHIYNFDLPRSA------IDYLHRAGRTGR 227
+ + N+DLP A Y+HR GRTGR
Sbjct: 104 VSMVVNYDLPTLANGQADPATYIHRIGRTGR 134
>pdb|3GFP|A Chain A, Structure Of The C-Terminal Domain Of The Dead-Box Protein
Dbp5
Length = 189
Score = 53.9 bits (128), Expect = 8e-08, Method: Compositional matrix adjust.
Identities = 45/151 (29%), Positives = 69/151 (45%), Gaps = 27/151 (17%)
Query: 84 VHVNAIKPLPSCLHHRFVICGKKM-KYQTLLSLIQSDAPESGIIFVGEQSEKSKKAGNAP 142
V+V+AIK L + C + K+ L L S IIFV +KK N
Sbjct: 6 VNVDAIKQL-------YXDCKNEADKFDVLTELYGLXTIGSSIIFVA-----TKKTANVL 53
Query: 143 STTLLVDFLSNSYKGSSDVLLLEEEMNFNSRAASLLEVRQGGGYLLVSTDIAARGIDLPE 202
L + +V +L ++ R + + R+G +L++T++ ARGID+P
Sbjct: 54 YGKLKSE--------GHEVSILHGDLQTQERDRLIDDFREGRSKVLITTNVLARGIDIPT 105
Query: 203 TTHIYNFDLPRSA------IDYLHRAGRTGR 227
+ + N+DLP A Y+HR GRTGR
Sbjct: 106 VSXVVNYDLPTLANGQADPATYIHRIGRTGR 136
>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 = 50.8 bits (120), Expect = 9e-07, Method: Compositional matrix adjust.
Identities = 32/93 (34%), Positives = 47/93 (50%), Gaps = 3/93 (3%)
Query: 164 LEEEMNFNSRAASLLEVRQGGGYLLVSTDIAARGIDLPETTHIYNFDLPRSAIDYLHRAG 223
+ +M R + R G LV TD+ RGID+ + NFD P+ A YLHR G
Sbjct: 74 IHAKMRQEHRNRVFHDFRNGLCRNLVCTDLFTRGIDIQAVNVVINFDFPKLAETYLHRIG 133
Query: 224 RTGRKPFSDEKWTVTSIITSEELFVLQRYENEL 256
R+GR F + ++IT ++ F L+ E +L
Sbjct: 134 RSGR--FGHLGLAI-NLITYDDRFNLKSIEEQL 163
>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 = 49.7 bits (117), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 25/67 (37%), Positives = 39/67 (58%), Gaps = 3/67 (4%)
Query: 187 LLVSTDIAARGIDLPETTHIYNFDLPRSAIDYLHRAGRTGRKPFSDEKWTVTSIITSEEL 246
+L++TD+ +RGID+ + + N+ LP++ Y HR GRTGR + +K SII E
Sbjct: 291 ILIATDVXSRGIDVNDLNCVINYHLPQNPESYXHRIGRTGR---AGKKGKAISIINRREY 347
Query: 247 FVLQRYE 253
L+ E
Sbjct: 348 KKLRYIE 354
>pdb|3FHO|A Chain A, Structure Of S. Pombe Dbp5
pdb|3FHO|B Chain B, Structure Of S. Pombe Dbp5
Length = 508
Score = 48.9 bits (115), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 55/238 (23%), Positives = 94/238 (39%), Gaps = 37/238 (15%)
Query: 2 GSLCQLIEKHIFKLESVQVLVIDEVDFLFNXXXXXXXXXXXXXXXXXCNNRQTVFASASI 61
G++ L+++ ++V V+DE D + + N Q V SA+
Sbjct: 244 GTVMDLMKRRQLDARDIKVFVLDEADNMLDQQGLGDQSMRIKHLLP--RNTQIVLFSATF 301
Query: 62 PQH-----RRFLHNCIQQKWTKSDVVHVHVNAIKPLPSCLHHRFVIC-GKKMKYQTLLSL 115
+ RF N + + ++ V IK L ++ C ++ KY L+ L
Sbjct: 302 SERVEKYAERFAPNANEIRLKTEEL---SVEGIKQL-------YMDCQSEEHKYNVLVEL 351
Query: 116 IQSDAPESGIIFVGEQSEKSKKAGNAPSTTLLVDFLSNSYKGSSDVLLLEEEMNFNSRAA 175
IIF ++ + A + V L+ + +G+ R A
Sbjct: 352 YGLLTIGQSIIFCKKKDTAEEIARRMTADGHTVACLTGNLEGAQ-------------RDA 398
Query: 176 SLLEVRQGGGYLLVSTDIAARGIDLPETTHIYNFDLPRSAID------YLHRAGRTGR 227
+ R G +LV+T++ ARGID+ + + N+D+P YLHR GRTGR
Sbjct: 399 IMDSFRVGTSKVLVTTNVIARGIDVSQVNLVVNYDMPLDQAGRPDPQTYLHRIGRTGR 456
>pdb|1FUK|A Chain A, Crystal Structure Of The Carboxy Terminal Domain Of Yeast
Eif4a
Length = 165
Score = 47.0 bits (110), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 19/48 (39%), Positives = 31/48 (64%)
Query: 173 RAASLLEVRQGGGYLLVSTDIAARGIDLPETTHIYNFDLPRSAIDYLH 220
R + E R G +L+STD+ ARGID+ + + + N+DLP + +Y+H
Sbjct: 69 RDTIMKEFRSGSSRILISTDLLARGIDVQQVSLVINYDLPANKENYIH 116
>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 = 46.2 bits (108), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 40/184 (21%), Positives = 80/184 (43%), Gaps = 39/184 (21%)
Query: 50 NNRQTVFASASIPQH-----RRFLHNCI-----QQKWTKSDVVHVHVNAIKPLPSCLHHR 99
+N Q V SA++P ++F+ + I +++ T + ++N +
Sbjct: 187 SNTQVVLLSATMPSDVLEVTKKFMRDPIRILVKKEELTLEGIRQFYINVER--------- 237
Query: 100 FVICGKKMKYQTLLSLIQSDAPESGIIFVGEQSEKSKKAGNAPSTTLLVDFLSNSYKGSS 159
++ K TL L ++ +IF+ + + VD+L+
Sbjct: 238 -----EEWKLDTLCDLYETLTITQAVIFINTRRK--------------VDWLTEKMHARD 278
Query: 160 -DVLLLEEEMNFNSRAASLLEVRQGGGYLLVSTDIAARGIDLPETTHIYNFDLPRSAIDY 218
V + +M+ R + E R G +L++TD+ ARGID+ + + + N+DLP + +Y
Sbjct: 279 FTVSAMHGDMDQKERDVIMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPTNRENY 338
Query: 219 LHRA 222
+HR
Sbjct: 339 IHRI 342
>pdb|3EIQ|A Chain A, Crystal Structure Of Pdcd4-eif4a
pdb|3EIQ|D Chain D, Crystal Structure Of Pdcd4-eif4a
Length = 414
Score = 46.2 bits (108), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 46/232 (19%), Positives = 96/232 (41%), Gaps = 42/232 (18%)
Query: 2 GSLCQLIEKHIFKLESVQVLVIDEVDFLFNXXXXXXXXXXXXXXXXXCNNRQTVFASASI 61
G + ++ + + +++ V+DE D + + +N Q V SA++
Sbjct: 168 GRVFDMLNRRYLSPKYIKMFVLDEADEMLSRGFKDQIYDIFQKLN---SNTQVVLLSATM 224
Query: 62 PQH-----RRFLHNCI-----QQKWTKSDVVHVHVNAIKPLPSCLHHRFVICGKKMKYQT 111
P ++F+ + I +++ T + ++N + ++ K T
Sbjct: 225 PSDVLEVTKKFMRDPIRILVKKEELTLEGIRQFYINVER--------------EEWKLDT 270
Query: 112 LLSLIQSDAPESGIIFVGEQSEKSKKAGNAPSTTLLVDFLSNSYKGSS-DVLLLEEEMNF 170
L L ++ +IF+ +T VD+L+ V + +M+
Sbjct: 271 LCDLYETLTITQAVIFI--------------NTRRKVDWLTEKMHARDFTVSAMHGDMDQ 316
Query: 171 NSRAASLLEVRQGGGYLLVSTDIAARGIDLPETTHIYNFDLPRSAIDYLHRA 222
R + E R G +L++TD+ ARGID+ + + + N+DLP + +Y+HR
Sbjct: 317 KERDVIMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPTNRENYIHRI 368
>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 = 46.2 bits (108), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 19/48 (39%), Positives = 31/48 (64%)
Query: 173 RAASLLEVRQGGGYLLVSTDIAARGIDLPETTHIYNFDLPRSAIDYLH 220
R + E R G +L+STD+ ARGID+ + + + N+DLP + +Y+H
Sbjct: 299 RDTIMKEFRSGSSRILISTDLLARGIDVQQVSLVINYDLPANKENYIH 346
>pdb|1XTJ|A Chain A, Structure Of Human Uap56 In Complex With Adp
Length = 386
Score = 45.4 bits (106), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 21/77 (27%), Positives = 39/77 (50%), Gaps = 2/77 (2%)
Query: 187 LLVSTDIAARGIDLPETTHIYNFDLPRSAIDYLHRAGRTGRKPFSDEKWTVTSIITSEEL 246
+LV+T++ RG+D+ +N+D+P + YLHR R GR F + +T + +
Sbjct: 303 ILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGR--FGTKGLAITFVSDENDA 360
Query: 247 FVLQRYENELKFKSEEL 263
+L ++ + EL
Sbjct: 361 KILNDVQDRFEVNISEL 377
>pdb|1FUU|A Chain A, Yeast Initiation Factor 4a
pdb|1FUU|B Chain B, Yeast Initiation Factor 4a
Length = 394
Score = 45.4 bits (106), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 18/42 (42%), Positives = 29/42 (69%)
Query: 179 EVRQGGGYLLVSTDIAARGIDLPETTHIYNFDLPRSAIDYLH 220
E R G +L+STD+ ARGID+ + + + N+DLP + +Y+H
Sbjct: 304 EFRSGSSRILISTDLLARGIDVQQVSLVINYDLPANKENYIH 345
>pdb|1XTI|A Chain A, Structure Of Wildtype Human Uap56
Length = 391
Score = 45.4 bits (106), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 21/77 (27%), Positives = 39/77 (50%), Gaps = 2/77 (2%)
Query: 187 LLVSTDIAARGIDLPETTHIYNFDLPRSAIDYLHRAGRTGRKPFSDEKWTVTSIITSEEL 246
+LV+T++ RG+D+ +N+D+P + YLHR R GR F + +T + +
Sbjct: 303 ILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGR--FGTKGLAITFVSDENDA 360
Query: 247 FVLQRYENELKFKSEEL 263
+L ++ + EL
Sbjct: 361 KILNDVQDRFEVNISEL 377
>pdb|1XTK|A Chain A, Structure Of Decd To Dead Mutation Of Human Uap56
Length = 390
Score = 45.1 bits (105), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 21/77 (27%), Positives = 39/77 (50%), Gaps = 2/77 (2%)
Query: 187 LLVSTDIAARGIDLPETTHIYNFDLPRSAIDYLHRAGRTGRKPFSDEKWTVTSIITSEEL 246
+LV+T++ RG+D+ +N+D+P + YLHR R GR F + +T + +
Sbjct: 302 ILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGR--FGTKGLAITFVSDENDA 359
Query: 247 FVLQRYENELKFKSEEL 263
+L ++ + EL
Sbjct: 360 KILNDVQDRFEVNISEL 376
>pdb|1T5I|A Chain A, Crystal Structure Of The C-Terminal Domain Of Uap56
Length = 172
Score = 44.7 bits (104), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 21/77 (27%), Positives = 39/77 (50%), Gaps = 2/77 (2%)
Query: 187 LLVSTDIAARGIDLPETTHIYNFDLPRSAIDYLHRAGRTGRKPFSDEKWTVTSIITSEEL 246
+LV+T++ RG+D+ +N+D+P + YLHR R GR F + +T + +
Sbjct: 84 ILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGR--FGTKGLAITFVSDENDA 141
Query: 247 FVLQRYENELKFKSEEL 263
+L ++ + EL
Sbjct: 142 KILNDVQDRFEVNISEL 158
>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 = 41.2 bits (95), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 20/57 (35%), Positives = 33/57 (57%)
Query: 164 LEEEMNFNSRAASLLEVRQGGGYLLVSTDIAARGIDLPETTHIYNFDLPRSAIDYLH 220
L +M+ R + RQG +LV+TD+AARG+D+P+ + ++ +P A Y H
Sbjct: 58 LHGDMSQGERERVMGAFRQGEVRVLVATDVAARGLDIPQVDLVVHYRMPDRAEAYQH 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 = 41.2 bits (95), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 21/57 (36%), Positives = 33/57 (57%)
Query: 164 LEEEMNFNSRAASLLEVRQGGGYLLVSTDIAARGIDLPETTHIYNFDLPRSAIDYLH 220
L +++ R L RQG +LV+TD+AARG+D+P+ + ++ LP A Y H
Sbjct: 61 LHGDLSQGERERVLGAFRQGEVRVLVATDVAARGLDIPQVDLVVHYRLPDRAEAYQH 117
>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 = 37.0 bits (84), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 21/65 (32%), Positives = 34/65 (52%), Gaps = 2/65 (3%)
Query: 165 EEEMNFNSRAASLL--EVRQGGGYLLVSTDIAARGIDLPETTHIYNFDLPRSAIDYLHRA 222
E + + R L+ E +G +LV+T + G+D+PE + ++ SAI + R
Sbjct: 398 ENDRGLSQREQKLILDEFARGEFNVLVATSVGEEGLDVPEVDLVVFYEPVPSAIRSIQRR 457
Query: 223 GRTGR 227
GRTGR
Sbjct: 458 GRTGR 462
>pdb|1OYY|A Chain A, Structure Of The Recq Catalytic Core Bound To Atp-Gamma-S
Length = 523
Score = 35.0 bits (79), Expect = 0.046, Method: Compositional matrix adjust.
Identities = 31/135 (22%), Positives = 53/135 (39%), Gaps = 13/135 (9%)
Query: 99 RFVICGKKMKYQTLLSLIQSDAPESGIIFVGEQSEKSKKAGNAPSTTLLVDFLSNSYKGS 158
R+++ K L+ +Q +SGII+ +++ A S KG
Sbjct: 214 RYMLMEKFKPLDQLMRYVQEQRGKSGIIYCNSRAKVEDTAARLQS------------KGI 261
Query: 159 SDVLLLEEEMNFNSRAASLLEVRQGGGYLLVSTDIAARGIDLPETTHIYNFDLPRSAIDY 218
S + N RA + ++ ++V+T GI+ P + +FD+PR+ Y
Sbjct: 262 S-AAAYHAGLENNVRADVQEKFQRDDLQIVVATVAFGMGINKPNVRFVVHFDIPRNIESY 320
Query: 219 LHRAGRTGRKPFSDE 233
GR GR E
Sbjct: 321 YQETGRAGRDGLPAE 335
>pdb|1OYW|A Chain A, Structure Of The Recq Catalytic Core
Length = 523
Score = 33.9 bits (76), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 23/47 (48%)
Query: 187 LLVSTDIAARGIDLPETTHIYNFDLPRSAIDYLHRAGRTGRKPFSDE 233
++V+T GI+ P + +FD+PR+ Y GR GR E
Sbjct: 289 IVVATVAFGXGINKPNVRFVVHFDIPRNIESYYQETGRAGRDGLPAE 335
>pdb|1GM5|A Chain A, Structure Of Recg Bound To Three-Way Dna Junction
Length = 780
Score = 30.8 bits (68), Expect = 0.78, Method: Compositional matrix adjust.
Identities = 23/89 (25%), Positives = 40/89 (44%), Gaps = 1/89 (1%)
Query: 140 NAPSTTLLVDFLSNSYKGSSDVLLLEEEMNFNSRAASLLEVRQGGGYLLVSTDIAARGID 199
N S + ++LS + L+ ++ + +LE +G +LVST + GID
Sbjct: 595 NVKSAVEMYEYLSKEVFPEFKLGLMHGRLSQEEKDRVMLEFAEGRYDILVSTTVIEVGID 654
Query: 200 LPETTHIYNFDLPRSAIDYLHR-AGRTGR 227
+P + + R + LH+ GR GR
Sbjct: 655 VPRANVMVIENPERFGLAQLHQLRGRVGR 683
>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 = 30.8 bits (68), Expect = 0.84, Method: Compositional matrix adjust.
Identities = 19/76 (25%), Positives = 39/76 (51%), Gaps = 4/76 (5%)
Query: 2 GSLCQLIEKHIFKLESVQVLVIDEVDFLFNXXXXXXXXXXXXXXXXXCNNRQTVFASASI 61
G + LI+K + K++ VQ++V+DE D L + NRQ + SA+
Sbjct: 131 GRILDLIKKGVAKVDHVQMIVLDEADKLLSQDFVQIMEDIILTLP---KNRQILLYSATF 187
Query: 62 PQH-RRFLHNCIQQKW 76
P ++F+++ +++ +
Sbjct: 188 PLSVQKFMNSHLEKPY 203
>pdb|1D9Z|A Chain A, Crystal Structure Of The Dna Repair Protein Uvrb In
Complex With Atp
Length = 657
Score = 30.0 bits (66), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 39/160 (24%), Positives = 64/160 (40%), Gaps = 21/160 (13%)
Query: 84 VHVNAIKPLPSCLHHRFVICGKKMKYQTLLSLIQSDAPESGII--FVGEQSEKSKKAGNA 141
++V+A P P L H + + ++ LL P G I +GE E+ ++
Sbjct: 389 IYVSAT-PGPYELEHSPGVVEQIIRPTGLLDPTIDVRPTKGQIDDLIGEIRERVERNERT 447
Query: 142 PSTTL-------LVDFLSNSYKGSSDVLLLEEEMNFNSRAASLLEVRQGGGYLLVSTDIA 194
TTL L D+L + V L E+ R + ++R G +LV ++
Sbjct: 448 LVTTLTKKMAEDLTDYLKEA---GIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGINLL 504
Query: 195 ARGIDLPETTHIYNFDL--------PRSAIDYLHRAGRTG 226
G+D+PE + + D RS I + RA R
Sbjct: 505 REGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAARNA 544
>pdb|1D9X|A Chain A, Crystal Structure Of The Dna Repair Protein Uvrb
Length = 658
Score = 30.0 bits (66), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 39/160 (24%), Positives = 64/160 (40%), Gaps = 21/160 (13%)
Query: 84 VHVNAIKPLPSCLHHRFVICGKKMKYQTLLSLIQSDAPESGII--FVGEQSEKSKKAGNA 141
++V+A P P L H + + ++ LL P G I +GE E+ ++
Sbjct: 390 IYVSAT-PGPYELEHSPGVVEQIIRPTGLLDPTIDVRPTKGQIDDLIGEIRERVERNERT 448
Query: 142 PSTTL-------LVDFLSNSYKGSSDVLLLEEEMNFNSRAASLLEVRQGGGYLLVSTDIA 194
TTL L D+L + V L E+ R + ++R G +LV ++
Sbjct: 449 LVTTLTKKMAEDLTDYLKEA---GIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGINLL 505
Query: 195 ARGIDLPETTHIYNFDL--------PRSAIDYLHRAGRTG 226
G+D+PE + + D RS I + RA R
Sbjct: 506 REGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAARNA 545
>pdb|2FDC|A Chain A, Structural Basis Of Dna Damage Recognition And Processing
By Uvrb: Crystal Structure Of A UvrbDNA COMPLEX
pdb|2FDC|B Chain B, Structural Basis Of Dna Damage Recognition And Processing
By Uvrb: Crystal Structure Of A UvrbDNA COMPLEX
Length = 658
Score = 30.0 bits (66), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 39/160 (24%), Positives = 64/160 (40%), Gaps = 21/160 (13%)
Query: 84 VHVNAIKPLPSCLHHRFVICGKKMKYQTLLSLIQSDAPESGII--FVGEQSEKSKKAGNA 141
++V+A P P L H + + ++ LL P G I +GE E+ ++
Sbjct: 390 IYVSAT-PGPYELEHSPGVVEQIIRPTGLLDPTIDVRPTKGQIDDLIGEIRERVERNERT 448
Query: 142 PSTTL-------LVDFLSNSYKGSSDVLLLEEEMNFNSRAASLLEVRQGGGYLLVSTDIA 194
TTL L D+L + V L E+ R + ++R G +LV ++
Sbjct: 449 LVTTLTKKMAEDLTDYLKEA---GIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGINLL 505
Query: 195 ARGIDLPETTHIYNFDL--------PRSAIDYLHRAGRTG 226
G+D+PE + + D RS I + RA R
Sbjct: 506 REGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAARNA 545
>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 = 30.0 bits (66), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 39/160 (24%), Positives = 64/160 (40%), Gaps = 21/160 (13%)
Query: 84 VHVNAIKPLPSCLHHRFVICGKKMKYQTLLSLIQSDAPESGII--FVGEQSEKSKKAGNA 141
++V+A P P L H + + ++ LL P G I +GE E+ ++
Sbjct: 390 IYVSAT-PGPYELEHSPGVVEQIIRPTGLLDPTIDVRPTKGQIDDLIGEIRERVERNERT 448
Query: 142 PSTTL-------LVDFLSNSYKGSSDVLLLEEEMNFNSRAASLLEVRQGGGYLLVSTDIA 194
TTL L D+L + V L E+ R + ++R G +LV ++
Sbjct: 449 LVTTLTKKMAEDLTDYLKEA---GIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGINLL 505
Query: 195 ARGIDLPETTHIYNFDL--------PRSAIDYLHRAGRTG 226
G+D+PE + + D RS I + RA R
Sbjct: 506 REGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAARNA 545
>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 = 29.6 bits (65), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 12/41 (29%), Positives = 22/41 (53%)
Query: 187 LLVSTDIAARGIDLPETTHIYNFDLPRSAIDYLHRAGRTGR 227
++V+T GID P+ + + + +S +Y +GR GR
Sbjct: 320 VVVATVAFGMGIDKPDVRFVIHHSMSKSMENYYQESGRAGR 360
>pdb|4GL2|A Chain A, Structural Basis For Dsrna Duplex Backbone Recognition By
Mda5
pdb|4GL2|B Chain B, Structural Basis For Dsrna Duplex Backbone Recognition By
Mda5
Length = 699
Score = 29.3 bits (64), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 15/58 (25%), Positives = 27/58 (46%)
Query: 168 MNFNSRAASLLEVRQGGGYLLVSTDIAARGIDLPETTHIYNFDLPRSAIDYLHRAGRT 225
M N + + + R G LL++T +A G+D+ E + + L + I + GR
Sbjct: 448 MTQNEQKEVISKFRTGKINLLIATTVAEEGLDIKECNIVIRYGLVTNEIAMVQARGRA 505
>pdb|3UWX|B Chain B, Crystal Structure Of Uvra-Uvrb Complex
Length = 683
Score = 29.3 bits (64), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 37/153 (24%), Positives = 59/153 (38%), Gaps = 20/153 (13%)
Query: 91 PLPSCLHHRFVICGKKMKYQTLLSLIQSDAPESGII--FVGEQSEKSKKAGNAPSTTL-- 146
P P L H + + ++ LL P G I +GE E+ ++ TTL
Sbjct: 421 PGPYELEHSPGVVEQIIRPTGLLDPTIDVRPTKGQIDDLIGEIHERVERNERTLVTTLTK 480
Query: 147 -----LVDFLSNSYKGSSDVLLLEEEMNFNSRAASLLEVRQGGGYLLVSTDIAARGIDLP 201
L D+L + V L E+ R + ++R G +LV ++ G+D+P
Sbjct: 481 KMAEDLTDYLKEA---GIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLREGLDIP 537
Query: 202 ETTHIYNFDL--------PRSAIDYLHRAGRTG 226
E + + D RS I + RA R
Sbjct: 538 EVSLVAILDADKEGFLRSERSLIQTIGRAARNA 570
>pdb|2CU0|A Chain A, Crystal Structure Of Inosine-5'-Monophosphate
Dehydrogenase From Pyrococcus Horikoshii Ot3
pdb|2CU0|B Chain B, Crystal Structure Of Inosine-5'-Monophosphate
Dehydrogenase From Pyrococcus Horikoshii Ot3
Length = 486
Score = 28.5 bits (62), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 12/40 (30%), Positives = 23/40 (57%)
Query: 224 RTGRKPFSDEKWTVTSIITSEELFVLQRYENELKFKSEEL 263
R R P DE+ + +IT +L ++Y+N ++ ++ EL
Sbjct: 180 RIDRLPVVDERGKLVGLITMSDLVARKKYKNAVRDENGEL 219
>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 = 28.5 bits (62), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 22/77 (28%), Positives = 33/77 (42%), Gaps = 6/77 (7%)
Query: 2 GSLCQLIEKHIFKLESVQVLVIDEVDFLFNXXXXXXXXXXXXXXXXXCN-NRQTVFASAS 60
G L IEK+ LE + +V+DE D + + NRQT+ SA+
Sbjct: 159 GRLVDFIEKNKISLEFCKYIVLDEADRMLDMGFEPQIRKIIEESNMPSGINRQTLMFSAT 218
Query: 61 IPQHRR-----FLHNCI 72
P+ + FL+N I
Sbjct: 219 FPKEIQKLAADFLYNYI 235
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 0.391
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,169,092
Number of Sequences: 62578
Number of extensions: 266691
Number of successful extensions: 670
Number of sequences better than 100.0: 63
Number of HSP's better than 100.0 without gapping: 53
Number of HSP's successfully gapped in prelim test: 10
Number of HSP's that attempted gapping in prelim test: 591
Number of HSP's gapped (non-prelim): 63
length of query: 269
length of database: 14,973,337
effective HSP length: 97
effective length of query: 172
effective length of database: 8,903,271
effective search space: 1531362612
effective search space used: 1531362612
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: 51 (24.3 bits)