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= 011079
(494 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1S2M|A Chain A, Crystal Structure Of The Dead Box Protein Dhh1p
Length = 400
Score = 599 bits (1545), Expect = e-171, Method: Compositional matrix adjust.
Identities = 281/387 (72%), Positives = 330/387 (85%)
Query: 106 DTRYRTEDVTATKGNEFEDYFLKRELLMGIFEKGFERPSPIQEESIPIALTGSDILARAK 165
DTR +T+DV TKGN FED++LKRELLMGIFE GFE+PSPIQEE+IP+A+TG DILARAK
Sbjct: 7 DTRPQTDDVLNTKGNTFEDFYLKRELLMGIFEAGFEKPSPIQEEAIPVAITGRDILARAK 66
Query: 166 NGTGKTAAFCIPALEKIDQDNNVIQVVILVPTRELALQTSQVCKELGKHLNIQVMVTTGG 225
NGTGKTAAF IP LEK+ N IQ +I+VPTRELALQTSQV + LGKH I MVTTGG
Sbjct: 67 NGTGKTAAFVIPTLEKVKPKLNKIQALIMVPTRELALQTSQVVRTLGKHCGISCMVTTGG 126
Query: 226 TSLKDDIMRLYQPVHLLVGTPGRILDLSKKGVCILKDCSMLVMDEADKLLSPEFQPSVEQ 285
T+L+DDI+RL + VH+LVGTPGR+LDL+ + V L DCS+ +MDEADK+LS +F+ +EQ
Sbjct: 127 TNLRDDILRLNETVHILVGTPGRVLDLASRKVADLSDCSLFIMDEADKMLSRDFKTIIEQ 186
Query: 286 LIRFLPANRQILMFSATFPVTVKDFKDKYLQKPYVINLMDELTLKGITQYYAFVEERQKV 345
++ FLP Q L+FSATFP+TVK+F K+L KPY INLM+ELTLKGITQYYAFVEERQK+
Sbjct: 187 ILSFLPPTHQSLLFSATFPLTVKEFMVKHLHKPYEINLMEELTLKGITQYYAFVEERQKL 246
Query: 346 HCLNTLFSKLQINQSIIFCNSVNRVELLAKKITELGYSCFYIHAKMLQDHRNRVFHDFRN 405
HCLNTLFSKLQINQ+IIFCNS NRVELLAKKIT+LGYSC+Y HA+M Q RN+VFH+FR
Sbjct: 247 HCLNTLFSKLQINQAIIFCNSTNRVELLAKKITDLGYSCYYSHARMKQQERNKVFHEFRQ 306
Query: 406 GACRNLVCTDLFTRGIDIQAVNVVINFDFPKNSETYLHRVGRSGRFGHLGLAVNLITYED 465
G R LVC+DL TRGIDIQAVNVVINFDFPK +ETYLHR+GRSGRFGHLGLA+NLI + D
Sbjct: 307 GKVRTLVCSDLLTRGIDIQAVNVVINFDFPKTAETYLHRIGRSGRFGHLGLAINLINWND 366
Query: 466 RFNLYRIEQELGTEIKQIPPHIDQAIY 492
RFNLY+IEQELGTEI IP ID+++Y
Sbjct: 367 RFNLYKIEQELGTEIAAIPATIDKSLY 393
>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 = 318 bits (816), Expect = 3e-87, Method: Compositional matrix adjust.
Identities = 148/177 (83%), Positives = 165/177 (93%)
Query: 316 QKPYVINLMDELTLKGITQYYAFVEERQKVHCLNTLFSKLQINQSIIFCNSVNRVELLAK 375
Q PY INLM+ELTLKG+TQYYA+V ERQKVHCLNTLFS+LQINQSIIFCNS RVELLAK
Sbjct: 3 QDPYEINLMEELTLKGVTQYYAYVTERQKVHCLNTLFSRLQINQSIIFCNSSQRVELLAK 62
Query: 376 KITELGYSCFYIHAKMLQDHRNRVFHDFRNGACRNLVCTDLFTRGIDIQAVNVVINFDFP 435
KI++LGYSCFYIHAKM Q+HRNRVFHDFRNG CRNLVCTDLFTRGIDIQAVNVVINFDFP
Sbjct: 63 KISQLGYSCFYIHAKMRQEHRNRVFHDFRNGLCRNLVCTDLFTRGIDIQAVNVVINFDFP 122
Query: 436 KNSETYLHRVGRSGRFGHLGLAVNLITYEDRFNLYRIEQELGTEIKQIPPHIDQAIY 492
K +ETYLHR+GRSGRFGHLGLA+NLITY+DRFNL IE++LGTEIK IP +ID+++Y
Sbjct: 123 KLAETYLHRIGRSGRFGHLGLAINLITYDDRFNLKSIEEQLGTEIKPIPSNIDKSLY 179
>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 = 288 bits (737), Expect = 4e-78, Method: Compositional matrix adjust.
Identities = 146/381 (38%), Positives = 234/381 (61%), Gaps = 6/381 (1%)
Query: 113 DVTATKGNEFEDYFLKRELLMGIFEKGFERPSPIQEESIPIALTGSDILARAKNGTGKTA 172
DVT T F+ L+ +LL GI+ GFE+PS IQ+ +I + G D++A++++GTGKTA
Sbjct: 34 DVTPT----FDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTA 89
Query: 173 AFCIPALEKIDQDNNVIQVVILVPTRELALQTSQVCKELGKHLNIQVMVTTGGTSLKDDI 232
F I L+ +D Q +IL PTRELA+Q + LG ++N+Q GGT++ +DI
Sbjct: 90 TFSISVLQCLDIQVRETQALILAPTRELAVQIQKGLLALGDYMNVQCHACIGGTNVGEDI 149
Query: 233 MRLYQPVHLLVGTPGRILDLSKKGVCILKDCSMLVMDEADKLLSPEFQPSVEQLIRFLPA 292
+L H++ GTPGR+ D+ ++ + MLV+DEAD++L+ F+ + + R+LP
Sbjct: 150 RKLDYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPP 209
Query: 293 NRQILMFSATFPVTVKDFKDKYLQKPYVINLM-DELTLKGITQYYAFVE-ERQKVHCLNT 350
Q+++ SAT P + + +K++ P I + DELTL+GI Q++ VE E K L
Sbjct: 210 ATQVVLISATLPHEILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWKFDTLCD 269
Query: 351 LFSKLQINQSIIFCNSVNRVELLAKKITELGYSCFYIHAKMLQDHRNRVFHDFRNGACRN 410
L+ L I Q++IFCN+ +V+ L +K+ E ++ +H M Q R + +FR+GA R
Sbjct: 270 LYDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRV 329
Query: 411 LVCTDLFTRGIDIQAVNVVINFDFPKNSETYLHRVGRSGRFGHLGLAVNLITYEDRFNLY 470
L+ TD++ RG+D+ V+++IN+D P N E Y+HR+GRSGR+G G+A+N + +D L
Sbjct: 330 LISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAINFVKNDDIRILR 389
Query: 471 RIEQELGTEIKQIPPHIDQAI 491
IEQ T+I ++P ++ I
Sbjct: 390 DIEQYYSTQIDEMPMNVADLI 410
>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 = 288 bits (737), Expect = 4e-78, Method: Compositional matrix adjust.
Identities = 146/381 (38%), Positives = 234/381 (61%), Gaps = 6/381 (1%)
Query: 113 DVTATKGNEFEDYFLKRELLMGIFEKGFERPSPIQEESIPIALTGSDILARAKNGTGKTA 172
DVT T F+ L+ +LL GI+ GFE+PS IQ+ +I + G D++A++++GTGKTA
Sbjct: 35 DVTPT----FDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTA 90
Query: 173 AFCIPALEKIDQDNNVIQVVILVPTRELALQTSQVCKELGKHLNIQVMVTTGGTSLKDDI 232
F I L+ +D Q +IL PTRELA+Q + LG ++N+Q GGT++ +DI
Sbjct: 91 TFSISVLQCLDIQVRETQALILAPTRELAVQIQKGLLALGDYMNVQCHACIGGTNVGEDI 150
Query: 233 MRLYQPVHLLVGTPGRILDLSKKGVCILKDCSMLVMDEADKLLSPEFQPSVEQLIRFLPA 292
+L H++ GTPGR+ D+ ++ + MLV+DEAD++L+ F+ + + R+LP
Sbjct: 151 RKLDYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPP 210
Query: 293 NRQILMFSATFPVTVKDFKDKYLQKPYVINLM-DELTLKGITQYYAFVE-ERQKVHCLNT 350
Q+++ SAT P + + +K++ P I + DELTL+GI Q++ VE E K L
Sbjct: 211 ATQVVLISATLPHEILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWKFDTLCD 270
Query: 351 LFSKLQINQSIIFCNSVNRVELLAKKITELGYSCFYIHAKMLQDHRNRVFHDFRNGACRN 410
L+ L I Q++IFCN+ +V+ L +K+ E ++ +H M Q R + +FR+GA R
Sbjct: 271 LYDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRV 330
Query: 411 LVCTDLFTRGIDIQAVNVVINFDFPKNSETYLHRVGRSGRFGHLGLAVNLITYEDRFNLY 470
L+ TD++ RG+D+ V+++IN+D P N E Y+HR+GRSGR+G G+A+N + +D L
Sbjct: 331 LISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAINFVKNDDIRILR 390
Query: 471 RIEQELGTEIKQIPPHIDQAI 491
IEQ T+I ++P ++ I
Sbjct: 391 DIEQYYSTQIDEMPMNVADLI 411
>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 = 288 bits (737), Expect = 5e-78, Method: Compositional matrix adjust.
Identities = 146/381 (38%), Positives = 234/381 (61%), Gaps = 6/381 (1%)
Query: 113 DVTATKGNEFEDYFLKRELLMGIFEKGFERPSPIQEESIPIALTGSDILARAKNGTGKTA 172
DVT T F+ L+ +LL GI+ GFE+PS IQ+ +I + G D++A++++GTGKTA
Sbjct: 35 DVTPT----FDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTA 90
Query: 173 AFCIPALEKIDQDNNVIQVVILVPTRELALQTSQVCKELGKHLNIQVMVTTGGTSLKDDI 232
F I L+ +D Q +IL PTRELA+Q + LG ++N+Q GGT++ +DI
Sbjct: 91 TFSISVLQCLDIQVRETQALILAPTRELAVQIQKGLLALGDYMNVQCHACIGGTNVGEDI 150
Query: 233 MRLYQPVHLLVGTPGRILDLSKKGVCILKDCSMLVMDEADKLLSPEFQPSVEQLIRFLPA 292
+L H++ GTPGR+ D+ ++ + MLV+DEAD++L+ F+ + + R+LP
Sbjct: 151 RKLDYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPP 210
Query: 293 NRQILMFSATFPVTVKDFKDKYLQKPYVINLM-DELTLKGITQYYAFVE-ERQKVHCLNT 350
Q+++ SAT P + + +K++ P I + DELTL+GI Q++ VE E K L
Sbjct: 211 ATQVVLISATLPHEILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWKFDTLCD 270
Query: 351 LFSKLQINQSIIFCNSVNRVELLAKKITELGYSCFYIHAKMLQDHRNRVFHDFRNGACRN 410
L+ L I Q++IFCN+ +V+ L +K+ E ++ +H M Q R + +FR+GA R
Sbjct: 271 LYDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRV 330
Query: 411 LVCTDLFTRGIDIQAVNVVINFDFPKNSETYLHRVGRSGRFGHLGLAVNLITYEDRFNLY 470
L+ TD++ RG+D+ V+++IN+D P N E Y+HR+GRSGR+G G+A+N + +D L
Sbjct: 331 LISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAINFVKNDDIRILR 390
Query: 471 RIEQELGTEIKQIPPHIDQAI 491
IEQ T+I ++P ++ I
Sbjct: 391 DIEQYYSTQIDEMPMNVADLI 411
>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 = 287 bits (735), Expect = 9e-78, Method: Compositional matrix adjust.
Identities = 146/381 (38%), Positives = 234/381 (61%), Gaps = 6/381 (1%)
Query: 113 DVTATKGNEFEDYFLKRELLMGIFEKGFERPSPIQEESIPIALTGSDILARAKNGTGKTA 172
DVT T F+ L+ +LL GI+ GFE+PS IQ+ +I + G D++A++++GTGKTA
Sbjct: 13 DVTPT----FDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTA 68
Query: 173 AFCIPALEKIDQDNNVIQVVILVPTRELALQTSQVCKELGKHLNIQVMVTTGGTSLKDDI 232
F I L+ +D Q +IL PTRELA+Q + LG ++N+Q GGT++ +DI
Sbjct: 69 TFSISVLQCLDIQVRETQALILAPTRELAVQIQKGLLALGDYMNVQCHACIGGTNVGEDI 128
Query: 233 MRLYQPVHLLVGTPGRILDLSKKGVCILKDCSMLVMDEADKLLSPEFQPSVEQLIRFLPA 292
+L H++ GTPGR+ D+ ++ + MLV+DEAD++L+ F+ + + R+LP
Sbjct: 129 RKLDYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPP 188
Query: 293 NRQILMFSATFPVTVKDFKDKYLQKPYVINLM-DELTLKGITQYYAFVE-ERQKVHCLNT 350
Q+++ SAT P + + +K++ P I + DELTL+GI Q++ VE E K L
Sbjct: 189 ATQVVLISATLPHEILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWKFDTLCD 248
Query: 351 LFSKLQINQSIIFCNSVNRVELLAKKITELGYSCFYIHAKMLQDHRNRVFHDFRNGACRN 410
L+ L I Q++IFCN+ +V+ L +K+ E ++ +H M Q R + +FR+GA R
Sbjct: 249 LYDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRV 308
Query: 411 LVCTDLFTRGIDIQAVNVVINFDFPKNSETYLHRVGRSGRFGHLGLAVNLITYEDRFNLY 470
L+ TD++ RG+D+ V+++IN+D P N E Y+HR+GRSGR+G G+A+N + +D L
Sbjct: 309 LISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAINFVKNDDIRILR 368
Query: 471 RIEQELGTEIKQIPPHIDQAI 491
IEQ T+I ++P ++ I
Sbjct: 369 DIEQYYSTQIDEMPMNVADLI 389
>pdb|2J0U|B Chain B, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 287 bits (734), Expect = 1e-77, Method: Compositional matrix adjust.
Identities = 143/372 (38%), Positives = 230/372 (61%), Gaps = 2/372 (0%)
Query: 122 FEDYFLKRELLMGIFEKGFERPSPIQEESIPIALTGSDILARAKNGTGKTAAFCIPALEK 181
F+ L+ +LL GI+ GFE+PS IQ+ +I + G D++A++++GTGKTA F + L+
Sbjct: 3 FDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSVSVLQC 62
Query: 182 IDQDNNVIQVVILVPTRELALQTSQVCKELGKHLNIQVMVTTGGTSLKDDIMRLYQPVHL 241
+D Q +IL PTRELA+Q + LG ++N+Q GGT++ +DI +L H+
Sbjct: 63 LDIQVRETQALILAPTRELAVQVQKGLLALGDYMNVQSHACIGGTNVGEDIRKLDYGQHV 122
Query: 242 LVGTPGRILDLSKKGVCILKDCSMLVMDEADKLLSPEFQPSVEQLIRFLPANRQILMFSA 301
+ GTPGR+ D+ ++ + MLV+DEAD++L+ F+ + + R+LP Q+++ SA
Sbjct: 123 VAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQVVLISA 182
Query: 302 TFPVTVKDFKDKYLQKPYVINLM-DELTLKGITQYYAFVE-ERQKVHCLNTLFSKLQINQ 359
T P V + +K++ P I + DELTL+GI Q++ VE E K L L+ L I Q
Sbjct: 183 TLPHEVLEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQ 242
Query: 360 SIIFCNSVNRVELLAKKITELGYSCFYIHAKMLQDHRNRVFHDFRNGACRNLVCTDLFTR 419
++IFCN+ +V+ L +K+ E ++ +H M Q R + +FR+GA R L+ TD++ R
Sbjct: 243 AVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWAR 302
Query: 420 GIDIQAVNVVINFDFPKNSETYLHRVGRSGRFGHLGLAVNLITYEDRFNLYRIEQELGTE 479
G+D+ V+++IN+D P N E Y+HR+GRSGR+G G+AVN + +D L IEQ T+
Sbjct: 303 GLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAVNFVKNDDIRVLRDIEQYYSTQ 362
Query: 480 IKQIPPHIDQAI 491
I ++P ++ I
Sbjct: 363 IDEMPMNVADLI 374
>pdb|2J0U|A Chain A, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 286 bits (732), Expect = 2e-77, Method: Compositional matrix adjust.
Identities = 142/372 (38%), Positives = 230/372 (61%), Gaps = 2/372 (0%)
Query: 122 FEDYFLKRELLMGIFEKGFERPSPIQEESIPIALTGSDILARAKNGTGKTAAFCIPALEK 181
F+ L+ +LL GI+ GFE+PS IQ+ +I + G D++A++++GTGKTA F + L+
Sbjct: 3 FDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSVSVLQC 62
Query: 182 IDQDNNVIQVVILVPTRELALQTSQVCKELGKHLNIQVMVTTGGTSLKDDIMRLYQPVHL 241
+D Q +IL PTRELA+Q + LG ++N+Q GGT++ +DI +L H+
Sbjct: 63 LDIQVRETQALILAPTRELAVQVQKGLLALGDYMNVQCHACIGGTNVGEDIRKLDYGQHV 122
Query: 242 LVGTPGRILDLSKKGVCILKDCSMLVMDEADKLLSPEFQPSVEQLIRFLPANRQILMFSA 301
+ GTPGR+ D+ ++ + MLV+DEAD++L+ F+ + + R+LP Q+++ SA
Sbjct: 123 VAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQVVLISA 182
Query: 302 TFPVTVKDFKDKYLQKPYVINLM-DELTLKGITQYYAFVE-ERQKVHCLNTLFSKLQINQ 359
T P + + +K++ P I + DELTL+GI Q++ VE E K L L+ L I Q
Sbjct: 183 TLPHEILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQ 242
Query: 360 SIIFCNSVNRVELLAKKITELGYSCFYIHAKMLQDHRNRVFHDFRNGACRNLVCTDLFTR 419
++IFCN+ +V+ L +K+ E ++ +H M Q R + +FR+GA R L+ TD++ R
Sbjct: 243 AVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWAR 302
Query: 420 GIDIQAVNVVINFDFPKNSETYLHRVGRSGRFGHLGLAVNLITYEDRFNLYRIEQELGTE 479
G+D+ V+++IN+D P N E Y+HR+GRSGR+G G+AVN + +D L IEQ T+
Sbjct: 303 GLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAVNFVKNDDIRVLRDIEQYYSTQ 362
Query: 480 IKQIPPHIDQAI 491
I ++P ++ I
Sbjct: 363 IDEMPMNVADLI 374
>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 = 269 bits (687), Expect = 3e-72, Method: Compositional matrix adjust.
Identities = 130/206 (63%), Positives = 165/206 (80%), Gaps = 1/206 (0%)
Query: 118 KGNEFEDYFLKRELLMGIFEKGFERPSPIQEESIPIALTGSDILARAKNGTGKTAAFCIP 177
KGNEFEDY LKRELLMGIFE G+E+PSPIQEESIPIAL+G DILARAKNGTGK+ A+ IP
Sbjct: 1 KGNEFEDYCLKRELLMGIFEMGWEKPSPIQEESIPIALSGRDILARAKNGTGKSGAYLIP 60
Query: 178 ALEKIDQDNNVIQVVILVPTRELALQTSQVCKELGKHL-NIQVMVTTGGTSLKDDIMRLY 236
LE++D + IQ +++VPTRELALQ SQ+C ++ KH+ +VM TTGGT+L+DDIMRL
Sbjct: 61 LLERLDLKKDNIQAMVIVPTRELALQVSQICIQVSKHMGGAKVMATTGGTNLRDDIMRLD 120
Query: 237 QPVHLLVGTPGRILDLSKKGVCILKDCSMLVMDEADKLLSPEFQPSVEQLIRFLPANRQI 296
VH+++ TPGRILDL KKGV + M+V+DEADKLLS +F +E +I LP NRQI
Sbjct: 121 DTVHVVIATPGRILDLIKKGVAKVDHVQMIVLDEADKLLSQDFVQIMEDIILTLPKNRQI 180
Query: 297 LMFSATFPVTVKDFKDKYLQKPYVIN 322
L++SATFP++V+ F + +L+KPY IN
Sbjct: 181 LLYSATFPLSVQKFMNSHLEKPYEIN 206
>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 = 267 bits (682), Expect = 1e-71, Method: Compositional matrix adjust.
Identities = 148/369 (40%), Positives = 226/369 (61%), Gaps = 3/369 (0%)
Query: 121 EFEDYFLKRELLMGIFEKGFERPSPIQEESIPIALTGSDILARAKNGTGKTAAFCIPALE 180
+F+D L LL G+F GFE PS IQ+ +I + G D+LA+A++GTGKT F I AL+
Sbjct: 23 KFDDMELDENLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAALQ 82
Query: 181 KIDQDNNVIQVVILVPTRELALQTSQVCKELGKHLNIQVMVTTGGTSLKDDIMRLYQPVH 240
+ID Q ++L PTRELALQ +V L H++I+V GGTS +D L +
Sbjct: 83 RIDTSVKAPQALMLAPTRELALQIQKVVMALAFHMDIKVHACIGGTSFVEDAEGL-RDAQ 141
Query: 241 LLVGTPGRILDLSKKGVCILKDCSMLVMDEADKLLSPEFQPSVEQLIRFLPANRQILMFS 300
++VGTPGR+ D ++ M ++DEAD++LS F+ + Q+ LP Q+++ S
Sbjct: 142 IVVGTPGRVFDNIQRRRFRTDKIKMFILDEADEMLSSGFKEQIYQIFTLLPPTTQVVLLS 201
Query: 301 ATFPVTVKDFKDKYLQKPYVINLM-DELTLKGITQYYAFVEERQ-KVHCLNTLFSKLQIN 358
AT P V + K+++ P I + DELTL+GI Q+Y VEE + K CL L+ + +
Sbjct: 202 ATMPNDVLEVTTKFMRNPVRILVKKDELTLEGIKQFYVNVEEEEYKYECLTDLYDSISVT 261
Query: 359 QSIIFCNSVNRVELLAKKITELGYSCFYIHAKMLQDHRNRVFHDFRNGACRNLVCTDLFT 418
Q++IFCN+ +VE L K+ ++ I++ + Q R+ + +FR+G+ R L+ TDL
Sbjct: 262 QAVIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTIMKEFRSGSSRILISTDLLA 321
Query: 419 RGIDIQAVNVVINFDFPKNSETYLHRVGRSGRFGHLGLAVNLITYEDRFNLYRIEQELGT 478
RGID+Q V++VIN+D P N E Y+HR+GR GRFG G+A+N +T ED + +E+ T
Sbjct: 322 RGIDVQQVSLVINYDLPANKENYIHRIGRGGRFGRKGVAINFVTNEDVGAMRELEKFYST 381
Query: 479 EIKQIPPHI 487
+I+++P I
Sbjct: 382 QIEELPSDI 390
>pdb|3EIQ|A Chain A, Crystal Structure Of Pdcd4-eif4a
pdb|3EIQ|D Chain D, Crystal Structure Of Pdcd4-eif4a
Length = 414
Score = 260 bits (664), Expect = 1e-69, Method: Compositional matrix adjust.
Identities = 154/407 (37%), Positives = 242/407 (59%), Gaps = 10/407 (2%)
Query: 92 SSQDWKARLKIPPADTRYRTEDVTATKGNE----FEDYFLKRELLMGIFEKGFERPSPIQ 147
+SQD ++R P E V + NE F+D L LL GI+ GFE+PS IQ
Sbjct: 11 ASQDSRSRDNGPDG---MEPEGVIESNWNEIVDSFDDMNLSESLLRGIYAYGFEKPSAIQ 67
Query: 148 EESIPIALTGSDILARAKNGTGKTAAFCIPALEKIDQDNNVIQVVILVPTRELALQTSQV 207
+ +I + G D++A+A++GTGKTA F I L++I+ D Q ++L PTRELA Q +V
Sbjct: 68 QRAILPCIKGYDVIAQAQSGTGKTATFAISILQQIELDLKATQALVLAPTRELAQQIQKV 127
Query: 208 CKELGKHLNIQVMVTTGGTSLKDDIMRL-YQPVHLLVGTPGRILDLSKKGVCILKDCSML 266
LG ++ GGT+++ ++ +L + H++VGTPGR+ D+ + K M
Sbjct: 128 VMALGDYMGASCHACIGGTNVRAEVQKLQMEAPHIIVGTPGRVFDMLNRRYLSPKYIKMF 187
Query: 267 VMDEADKLLSPEFQPSVEQLIRFLPANRQILMFSATFPVTVKDFKDKYLQKPYVINLM-D 325
V+DEAD++LS F+ + + + L +N Q+++ SAT P V + K+++ P I + +
Sbjct: 188 VLDEADEMLSRGFKDQIYDIFQKLNSNTQVVLLSATMPSDVLEVTKKFMRDPIRILVKKE 247
Query: 326 ELTLKGITQYYAFVE-ERQKVHCLNTLFSKLQINQSIIFCNSVNRVELLAKKITELGYSC 384
ELTL+GI Q+Y VE E K+ L L+ L I Q++IF N+ +V+ L +K+ ++
Sbjct: 248 ELTLEGIRQFYINVEREEWKLDTLCDLYETLTITQAVIFINTRRKVDWLTEKMHARDFTV 307
Query: 385 FYIHAKMLQDHRNRVFHDFRNGACRNLVCTDLFTRGIDIQAVNVVINFDFPKNSETYLHR 444
+H M Q R+ + +FR+G+ R L+ TDL RGID+Q V++VIN+D P N E Y+HR
Sbjct: 308 SAMHGDMDQKERDVIMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPTNRENYIHR 367
Query: 445 VGRSGRFGHLGLAVNLITYEDRFNLYRIEQELGTEIKQIPPHIDQAI 491
+GR GRFG G+A+N++T ED+ L IE T I+++P ++ I
Sbjct: 368 IGRGGRFGRKGVAINMVTEEDKRTLRDIETFYNTSIEEMPLNVADLI 414
>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 = 258 bits (658), Expect = 7e-69, Method: Compositional matrix adjust.
Identities = 149/387 (38%), Positives = 234/387 (60%), Gaps = 7/387 (1%)
Query: 112 EDVTATKGNE----FEDYFLKRELLMGIFEKGFERPSPIQEESIPIALTGSDILARAKNG 167
E V + NE F+D L LL GI+ GFE+PS IQ+ +I + G D++A+A++G
Sbjct: 2 EGVIESNWNEIVDSFDDMNLSESLLRGIYAYGFEKPSAIQQRAILPCIKGYDVIAQAQSG 61
Query: 168 TGKTAAFCIPALEKIDQDNNVIQVVILVPTRELALQTSQVCKELGKHLNIQVMVTTGGTS 227
TGKTA F I L++I+ D Q ++L PTRELA Q +V LG ++ GGT+
Sbjct: 62 TGKTATFAISILQQIELDLKATQALVLAPTRELAQQIQKVVMALGDYMGASCHACIGGTN 121
Query: 228 LKDDIMRL-YQPVHLLVGTPGRILDLSKKGVCILKDCSMLVMDEADKLLSPEFQPSVEQL 286
++ ++ +L + H++VGTPGR+ D+ + K M V+DEAD++LS F+ + +
Sbjct: 122 VRAEVQKLQMEAPHIIVGTPGRVFDMLNRRYLSPKYIKMFVLDEADEMLSRGFKDQIYDI 181
Query: 287 IRFLPANRQILMFSATFPVTVKDFKDKYLQKPYVINLM-DELTLKGITQYYAFVE-ERQK 344
+ L +N Q+++ SAT P V + K+++ P I + +ELTL+GI Q+Y VE E K
Sbjct: 182 FQKLNSNTQVVLLSATMPSDVLEVTKKFMRDPIRILVKKEELTLEGIRQFYINVEREEWK 241
Query: 345 VHCLNTLFSKLQINQSIIFCNSVNRVELLAKKITELGYSCFYIHAKMLQDHRNRVFHDFR 404
+ L L+ L I Q++IF N+ +V+ L +K+ ++ +H M Q R+ + +FR
Sbjct: 242 LDTLCDLYETLTITQAVIFINTRRKVDWLTEKMHARDFTVSAMHGDMDQKERDVIMREFR 301
Query: 405 NGACRNLVCTDLFTRGIDIQAVNVVINFDFPKNSETYLHRVGRSGRFGHLGLAVNLITYE 464
+G+ R L+ TDL RGID+Q V++VIN+D P N E Y+HR+GR GRFG G+A+N++T E
Sbjct: 302 SGSSRVLITTDLLARGIDVQQVSLVINYDLPTNRENYIHRIGRGGRFGRKGVAINMVTEE 361
Query: 465 DRFNLYRIEQELGTEIKQIPPHIDQAI 491
D+ L IE T I+++P ++ I
Sbjct: 362 DKRTLRDIETFYNTSIEEMPLNVADLI 388
>pdb|1FUU|A Chain A, Yeast Initiation Factor 4a
pdb|1FUU|B Chain B, Yeast Initiation Factor 4a
Length = 394
Score = 258 bits (658), Expect = 8e-69, Method: Compositional matrix adjust.
Identities = 147/369 (39%), Positives = 220/369 (59%), Gaps = 3/369 (0%)
Query: 121 EFEDYFLKRELLMGIFEKGFERPSPIQEESIPIALTGSDILARAKNGTGKTAAFCIPALE 180
+F+D L LL G+F GFE PS IQ+ +I + G D+LA+A++GTGKT F I AL+
Sbjct: 22 KFDDXELDENLLRGVFGYGFEEPSAIQQRAIXPIIEGHDVLAQAQSGTGKTGTFSIAALQ 81
Query: 181 KIDQDNNVIQVVILVPTRELALQTSQVCKELGKHLNIQVMVTTGGTSLKDDIMRLYQPVH 240
+ID Q + L PTRELALQ +V L H +I+V GGTS +D L +
Sbjct: 82 RIDTSVKAPQALXLAPTRELALQIQKVVXALAFHXDIKVHACIGGTSFVEDAEGL-RDAQ 140
Query: 241 LLVGTPGRILDLSKKGVCILKDCSMLVMDEADKLLSPEFQPSVEQLIRFLPANRQILMFS 300
++VGTPGR+ D ++ ++DEAD+ LS F+ + Q+ LP Q+++ S
Sbjct: 141 IVVGTPGRVFDNIQRRRFRTDKIKXFILDEADEXLSSGFKEQIYQIFTLLPPTTQVVLLS 200
Query: 301 ATFPVTVKDFKDKYLQKPYVINLM-DELTLKGITQYYAFVEERQ-KVHCLNTLFSKLQIN 358
AT P V + K+ + P I + DELTL+GI Q+Y VEE + K CL L+ + +
Sbjct: 201 ATXPNDVLEVTTKFXRNPVRILVKKDELTLEGIKQFYVNVEEEEYKYECLTDLYDSISVT 260
Query: 359 QSIIFCNSVNRVELLAKKITELGYSCFYIHAKMLQDHRNRVFHDFRNGACRNLVCTDLFT 418
Q++IFCN+ +VE L K+ ++ I++ + Q R+ + +FR+G+ R L+ TDL
Sbjct: 261 QAVIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTIXKEFRSGSSRILISTDLLA 320
Query: 419 RGIDIQAVNVVINFDFPKNSETYLHRVGRSGRFGHLGLAVNLITYEDRFNLYRIEQELGT 478
RGID+Q V++VIN+D P N E Y+HR+GR GRFG G+A+N +T ED +E+ T
Sbjct: 321 RGIDVQQVSLVINYDLPANKENYIHRIGRGGRFGRKGVAINFVTNEDVGAXRELEKFYST 380
Query: 479 EIKQIPPHI 487
+I+++P I
Sbjct: 381 QIEELPSDI 389
>pdb|1XTK|A Chain A, Structure Of Decd To Dead Mutation Of Human Uap56
Length = 390
Score = 257 bits (657), Expect = 9e-69, Method: Compositional matrix adjust.
Identities = 146/378 (38%), Positives = 223/378 (58%), Gaps = 8/378 (2%)
Query: 122 FEDYFLKRELLMGIFEKGFERPSPIQEESIPIALTGSDILARAKNGTGKTAAFCIPALEK 181
F D+ LK ELL I + GFE PS +Q E IP A+ G D+L +AK+G GKTA F + L++
Sbjct: 9 FRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQ 68
Query: 182 IDQDNNVIQVVILVPTRELALQTSQVCKELGKHL-NIQVMVTTGGTSLKDD--IMRLYQP 238
++ + V+++ TRELA Q S+ + K++ N++V V GG S+K D +++ P
Sbjct: 69 LEPVTGQVSVLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEVLKKNCP 128
Query: 239 VHLLVGTPGRILDLSKKGVCILKDCSMLVMDEADKLLSP-EFQPSVEQLIRFLPANRQIL 297
H++VGTPGRIL L++ LK ++DEADK+L + + V+++ R P +Q++
Sbjct: 129 -HIVVGTPGRILALARNKSLNLKHIKHFILDEADKMLEQLDMRRDVQEIFRMTPHEKQVM 187
Query: 298 MFSATFPVTVKDFKDKYLQKPYVINLMDE--LTLKGITQYYAFVEERQKVHCLNTLFSKL 355
MFSAT ++ K++Q P I + DE LTL G+ QYY +++ +K L L L
Sbjct: 188 MFSATLSKEIRPVCRKFMQDPMEIFVDDETKLTLHGLQQYYVKLKDNEKNRKLFDLLDVL 247
Query: 356 QINQSIIFCNSVNRVELLAKKITELGYSCFYIHAKMLQDHRNRVFHDFRNGACRNLVCTD 415
+ NQ +IF SV R LA+ + E + IH M Q+ R + F++ R LV T+
Sbjct: 248 EFNQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRILVATN 307
Query: 416 LFTRGIDIQAVNVVINFDFPKNSETYLHRVGRSGRFGHLGLAVNLITYE-DRFNLYRIEQ 474
LF RG+DI+ VN+ N+D P++S+TYLHRV R+GRFG GLA+ ++ E D L ++
Sbjct: 308 LFGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKGLAITFVSDENDAKILNDVQD 367
Query: 475 ELGTEIKQIPPHIDQAIY 492
I ++P ID + Y
Sbjct: 368 RFEVNISELPDEIDISSY 385
>pdb|1XTJ|A Chain A, Structure Of Human Uap56 In Complex With Adp
Length = 386
Score = 255 bits (652), Expect = 4e-68, Method: Compositional matrix adjust.
Identities = 145/378 (38%), Positives = 222/378 (58%), Gaps = 8/378 (2%)
Query: 122 FEDYFLKRELLMGIFEKGFERPSPIQEESIPIALTGSDILARAKNGTGKTAAFCIPALEK 181
F D+ LK ELL I + GFE PS +Q E IP A+ G D+L +AK+G GKTA F + L++
Sbjct: 10 FRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQ 69
Query: 182 IDQDNNVIQVVILVPTRELALQTSQVCKELGKHL-NIQVMVTTGGTSLKDD--IMRLYQP 238
++ + V+++ TRELA Q S+ + K++ N++V V GG S+K D +++ P
Sbjct: 70 LEPVTGQVSVLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEVLKKNCP 129
Query: 239 VHLLVGTPGRILDLSKKGVCILKDCSMLVMDEADKLLSP-EFQPSVEQLIRFLPANRQIL 297
H++VGTPGRIL L++ LK ++DE DK+L + + V+++ R P +Q++
Sbjct: 130 -HIVVGTPGRILALARNKSLNLKHIKHFILDECDKMLEQLDMRRDVQEIFRMTPHEKQVM 188
Query: 298 MFSATFPVTVKDFKDKYLQKPYVINLMDE--LTLKGITQYYAFVEERQKVHCLNTLFSKL 355
MFSAT ++ K++Q P I + DE LTL G+ QYY +++ +K L L L
Sbjct: 189 MFSATLSKEIRPVCRKFMQDPMEIFVDDETKLTLHGLQQYYVKLKDNEKNRKLFDLLDVL 248
Query: 356 QINQSIIFCNSVNRVELLAKKITELGYSCFYIHAKMLQDHRNRVFHDFRNGACRNLVCTD 415
+ NQ +IF SV R LA+ + E + IH M Q+ R + F++ R LV T+
Sbjct: 249 EFNQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRILVATN 308
Query: 416 LFTRGIDIQAVNVVINFDFPKNSETYLHRVGRSGRFGHLGLAVNLITYE-DRFNLYRIEQ 474
LF RG+DI+ VN+ N+D P++S+TYLHRV R+GRFG GLA+ ++ E D L ++
Sbjct: 309 LFGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKGLAITFVSDENDAKILNDVQD 368
Query: 475 ELGTEIKQIPPHIDQAIY 492
I ++P ID + Y
Sbjct: 369 RFEVNISELPDEIDISSY 386
>pdb|1XTI|A Chain A, Structure Of Wildtype Human Uap56
Length = 391
Score = 255 bits (651), Expect = 4e-68, Method: Compositional matrix adjust.
Identities = 145/378 (38%), Positives = 222/378 (58%), Gaps = 8/378 (2%)
Query: 122 FEDYFLKRELLMGIFEKGFERPSPIQEESIPIALTGSDILARAKNGTGKTAAFCIPALEK 181
F D+ LK ELL I + GFE PS +Q E IP A+ G D+L +AK+G GKTA F + L++
Sbjct: 10 FRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQ 69
Query: 182 IDQDNNVIQVVILVPTRELALQTSQVCKELGKHL-NIQVMVTTGGTSLKDD--IMRLYQP 238
++ + V+++ TRELA Q S+ + K++ N++V V GG S+K D +++ P
Sbjct: 70 LEPVTGQVSVLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEVLKKNCP 129
Query: 239 VHLLVGTPGRILDLSKKGVCILKDCSMLVMDEADKLLSP-EFQPSVEQLIRFLPANRQIL 297
H++VGTPGRIL L++ LK ++DE DK+L + + V+++ R P +Q++
Sbjct: 130 -HIVVGTPGRILALARNKSLNLKHIKHFILDECDKMLEQLDMRRDVQEIFRMTPHEKQVM 188
Query: 298 MFSATFPVTVKDFKDKYLQKPYVINLMDE--LTLKGITQYYAFVEERQKVHCLNTLFSKL 355
MFSAT ++ K++Q P I + DE LTL G+ QYY +++ +K L L L
Sbjct: 189 MFSATLSKEIRPVCRKFMQDPMEIFVDDETKLTLHGLQQYYVKLKDNEKNRKLFDLLDVL 248
Query: 356 QINQSIIFCNSVNRVELLAKKITELGYSCFYIHAKMLQDHRNRVFHDFRNGACRNLVCTD 415
+ NQ +IF SV R LA+ + E + IH M Q+ R + F++ R LV T+
Sbjct: 249 EFNQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRILVATN 308
Query: 416 LFTRGIDIQAVNVVINFDFPKNSETYLHRVGRSGRFGHLGLAVNLITYE-DRFNLYRIEQ 474
LF RG+DI+ VN+ N+D P++S+TYLHRV R+GRFG GLA+ ++ E D L ++
Sbjct: 309 LFGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKGLAITFVSDENDAKILNDVQD 368
Query: 475 ELGTEIKQIPPHIDQAIY 492
I ++P ID + Y
Sbjct: 369 RFEVNISELPDEIDISSY 386
>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 = 229 bits (583), Expect = 3e-60, Method: Compositional matrix adjust.
Identities = 138/376 (36%), Positives = 221/376 (58%), Gaps = 17/376 (4%)
Query: 122 FEDYFLKRELLMGIFEKGFERPSPIQEESIPIALTG--SDILARAKNGTGKTAAFCIPAL 179
FE+ LK +LL G++ GF RPS IQE ++P+ L +++A++++GTGKTAAF + L
Sbjct: 94 FEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVLAML 153
Query: 180 EKIDQDNNVIQVVILVPTRELALQTSQVCKELGK-HLNIQVMVTTGGTSLKDDIMRLYQP 238
+++ N Q + L PT ELALQT +V +++GK + +++ G L+ ++ +
Sbjct: 154 SQVEPANKYPQCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLERG-QKISE- 211
Query: 239 VHLLVGTPGRILDLSKKGVCI-LKDCSMLVMDEADKLLSPE-FQPSVEQLIRFLPANRQI 296
+++GTPG +LD K I K + V+DEAD +++ + Q ++ R LP N Q+
Sbjct: 212 -QIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRMLPRNCQM 270
Query: 297 LMFSATFPVTVKDFKDKYLQKPYVINLM-DELTLKGITQYYAFVEER-QKVHCLNTLFSK 354
L+FSATF +V F K + P VI L +E TL I QYY R +K L L+
Sbjct: 271 LLFSATFEDSVWKFAQKVVPDPNVIKLKREEETLDTIKQYYVLCSSRDEKFQALCNLYGA 330
Query: 355 LQINQSIIFCNSVNRVELLAKKITELGYSCFYIHAKMLQDHRNRVFHDFRNGACRNLVCT 414
+ I Q++IFC++ LA ++++ G+ + +M+ + R V FR G + LV T
Sbjct: 331 ITIAQAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFREGKEKVLVTT 390
Query: 415 DLFTRGIDIQAVNVVINFDFP------KNSETYLHRVGRSGRFGHLGLAVNLITYEDRFN 468
++ RGID++ V+VVINFD P ++ETYLHR+GR+GRFG GLAVN++ + N
Sbjct: 391 NVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRTGRFGKRGLAVNMVDSKHSMN 450
Query: 469 -LYRIEQELGTEIKQI 483
L RI++ +I+++
Sbjct: 451 ILNRIQEHFNKKIERL 466
>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 = 228 bits (581), Expect = 6e-60, Method: Compositional matrix adjust.
Identities = 138/376 (36%), Positives = 221/376 (58%), Gaps = 17/376 (4%)
Query: 122 FEDYFLKRELLMGIFEKGFERPSPIQEESIPIALTG--SDILARAKNGTGKTAAFCIPAL 179
FE+ LK +LL G++ GF RPS IQE ++P+ L +++A++++GTGKTAAF + L
Sbjct: 27 FEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVLAML 86
Query: 180 EKIDQDNNVIQVVILVPTRELALQTSQVCKELGK-HLNIQVMVTTGGTSLKDDIMRLYQP 238
+++ N Q + L PT ELALQT +V +++GK + +++ G L+ ++ +
Sbjct: 87 SQVEPANKYPQCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLERG-QKISE- 144
Query: 239 VHLLVGTPGRILDLSKKGVCI-LKDCSMLVMDEADKLLSPE-FQPSVEQLIRFLPANRQI 296
+++GTPG +LD K I K + V+DEAD +++ + Q ++ R LP N Q+
Sbjct: 145 -QIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRMLPRNCQM 203
Query: 297 LMFSATFPVTVKDFKDKYLQKPYVINLM-DELTLKGITQYYAFVEER-QKVHCLNTLFSK 354
L+FSATF +V F K + P VI L +E TL I QYY R +K L L+
Sbjct: 204 LLFSATFEDSVWKFAQKVVPDPNVIKLKREEETLDTIKQYYVLCSSRDEKFQALCNLYGA 263
Query: 355 LQINQSIIFCNSVNRVELLAKKITELGYSCFYIHAKMLQDHRNRVFHDFRNGACRNLVCT 414
+ I Q++IFC++ LA ++++ G+ + +M+ + R V FR G + LV T
Sbjct: 264 ITIAQAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFREGKEKVLVTT 323
Query: 415 DLFTRGIDIQAVNVVINFDFP------KNSETYLHRVGRSGRFGHLGLAVNLITYEDRFN 468
++ RGID++ V+VVINFD P ++ETYLHR+GR+GRFG GLAVN++ + N
Sbjct: 324 NVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRTGRFGKRGLAVNMVDSKHSMN 383
Query: 469 -LYRIEQELGTEIKQI 483
L RI++ +I+++
Sbjct: 384 ILNRIQEHFNKKIERL 399
>pdb|3G0H|A Chain A, Human Dead-box Rna Helicase Ddx19, In Complex With An
Atp-analogue And Rna
Length = 424
Score = 228 bits (581), Expect = 6e-60, Method: Compositional matrix adjust.
Identities = 138/376 (36%), Positives = 221/376 (58%), Gaps = 17/376 (4%)
Query: 122 FEDYFLKRELLMGIFEKGFERPSPIQEESIPIALTG--SDILARAKNGTGKTAAFCIPAL 179
FE+ LK +LL G++ GF RPS IQE ++P+ L +++A++++GTGKTAAF + L
Sbjct: 43 FEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVLAML 102
Query: 180 EKIDQDNNVIQVVILVPTRELALQTSQVCKELGK-HLNIQVMVTTGGTSLKDDIMRLYQP 238
+++ N Q + L PT ELALQT +V +++GK + +++ G L+ ++ +
Sbjct: 103 SQVEPANKYPQCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLERG-QKISE- 160
Query: 239 VHLLVGTPGRILDLSKKGVCI-LKDCSMLVMDEADKLLSPE-FQPSVEQLIRFLPANRQI 296
+++GTPG +LD K I K + V+DEAD +++ + Q ++ R LP N Q+
Sbjct: 161 -QIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRMLPRNCQM 219
Query: 297 LMFSATFPVTVKDFKDKYLQKPYVINLM-DELTLKGITQYYAFVEER-QKVHCLNTLFSK 354
L+FSATF +V F K + P VI L +E TL I QYY R +K L L+
Sbjct: 220 LLFSATFEDSVWKFAQKVVPDPNVIKLKREEETLDTIKQYYVLCSSRDEKFQALCNLYGA 279
Query: 355 LQINQSIIFCNSVNRVELLAKKITELGYSCFYIHAKMLQDHRNRVFHDFRNGACRNLVCT 414
+ I Q++IFC++ LA ++++ G+ + +M+ + R V FR G + LV T
Sbjct: 280 ITIAQAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFREGKEKVLVTT 339
Query: 415 DLFTRGIDIQAVNVVINFDFP------KNSETYLHRVGRSGRFGHLGLAVNLITYEDRFN 468
++ RGID++ V+VVINFD P ++ETYLHR+GR+GRFG GLAVN++ + N
Sbjct: 340 NVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRTGRFGKRGLAVNMVDSKHSMN 399
Query: 469 -LYRIEQELGTEIKQI 483
L RI++ +I+++
Sbjct: 400 ILNRIQEHFNKKIERL 415
>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 = 228 bits (580), Expect = 7e-60, Method: Compositional matrix adjust.
Identities = 138/376 (36%), Positives = 221/376 (58%), Gaps = 17/376 (4%)
Query: 122 FEDYFLKRELLMGIFEKGFERPSPIQEESIPIALTG--SDILARAKNGTGKTAAFCIPAL 179
FE+ LK +LL G++ GF RPS IQE ++P+ L +++A++++GTGKTAAF + L
Sbjct: 64 FEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVLAML 123
Query: 180 EKIDQDNNVIQVVILVPTRELALQTSQVCKELGK-HLNIQVMVTTGGTSLKDDIMRLYQP 238
+++ N Q + L PT ELALQT +V +++GK + +++ G L+ ++ +
Sbjct: 124 SQVEPANKYPQCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLERG-QKISE- 181
Query: 239 VHLLVGTPGRILDLSKKGVCI-LKDCSMLVMDEADKLLSPE-FQPSVEQLIRFLPANRQI 296
+++GTPG +LD K I K + V+DEAD +++ + Q ++ R LP N Q+
Sbjct: 182 -QIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRMLPRNCQM 240
Query: 297 LMFSATFPVTVKDFKDKYLQKPYVINLM-DELTLKGITQYYAFVEER-QKVHCLNTLFSK 354
L+FSATF +V F K + P VI L +E TL I QYY R +K L L+
Sbjct: 241 LLFSATFEDSVWKFAQKVVPDPNVIKLKREEETLDTIKQYYVLCSSRDEKFQALCNLYGA 300
Query: 355 LQINQSIIFCNSVNRVELLAKKITELGYSCFYIHAKMLQDHRNRVFHDFRNGACRNLVCT 414
+ I Q++IFC++ LA ++++ G+ + +M+ + R V FR G + LV T
Sbjct: 301 ITIAQAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFREGKEKVLVTT 360
Query: 415 DLFTRGIDIQAVNVVINFDFP------KNSETYLHRVGRSGRFGHLGLAVNLITYEDRFN 468
++ RGID++ V+VVINFD P ++ETYLHR+GR+GRFG GLAVN++ + N
Sbjct: 361 NVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRTGRFGKRGLAVNMVDSKHSMN 420
Query: 469 -LYRIEQELGTEIKQI 483
L RI++ +I+++
Sbjct: 421 ILNRIQEHFNKKIERL 436
>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 = 209 bits (533), Expect = 2e-54, Method: Compositional matrix adjust.
Identities = 121/354 (34%), Positives = 196/354 (55%), Gaps = 7/354 (1%)
Query: 122 FEDYFLKRELLMGIFEKGFERPSPIQEESIPIALTGS-DILARAKNGTGKTAAFCIPALE 180
F + L +L I KGFE+P+ IQ + IP+ L +I+A+A+ G+GKTA+F IP +E
Sbjct: 8 FNELNLSDNILNAIRNKGFEKPTDIQXKVIPLFLNDEYNIVAQARTGSGKTASFAIPLIE 67
Query: 181 KIDQDNNVIQVVILVPTRELALQTSQVCKELGKHLNIQVMVTTGGTSLKDDIMRLYQPVH 240
+++ NN I+ +IL PTRELA+Q + + L + N+++ GG ++ I L + +
Sbjct: 68 LVNE-NNGIEAIILTPTRELAIQVADEIESLKGNKNLKIAKIYGGKAIYPQIKAL-KNAN 125
Query: 241 LLVGTPGRILDLSKKGVCILKDCSMLVMDEADKLLSPEFQPSVEQLIRFLPANRQILMFS 300
++VGTPGRILD +G LK+ ++DEAD+ L+ F VE+++ +++IL+FS
Sbjct: 126 IVVGTPGRILDHINRGTLNLKNVKYFILDEADEXLNXGFIKDVEKILNACNKDKRILLFS 185
Query: 301 ATFPVTVKDFKDKYLQKPYVINLMDELTLKGITQYYAFVEERQKVHCLNTLFSKLQINQS 360
AT P + + KY I I Q Y V E ++ L L +
Sbjct: 186 ATXPREILNLAKKYXGDYSFIKAKINAN---IEQSYVEVNENERFEALCRLLKNKEF-YG 241
Query: 361 IIFCNSVNRVELLAKKITELGYSCFYIHAKMLQDHRNRVFHDFRNGACRNLVCTDLFTRG 420
++FC + + LA + ++G+ IH + Q R +V F+ R L+ TD+ +RG
Sbjct: 242 LVFCKTKRDTKELASXLRDIGFKAGAIHGDLSQSQREKVIRLFKQKKIRILIATDVXSRG 301
Query: 421 IDIQAVNVVINFDFPKNSETYLHRVGRSGRFGHLGLAVNLITYEDRFNLYRIEQ 474
ID+ +N VIN+ P+N E+Y HR+GR+GR G G A+++I + L IE+
Sbjct: 302 IDVNDLNCVINYHLPQNPESYXHRIGRTGRAGKKGKAISIINRREYKKLRYIER 355
>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 = 208 bits (529), Expect = 6e-54, Method: Compositional matrix adjust.
Identities = 122/379 (32%), Positives = 210/379 (55%), Gaps = 17/379 (4%)
Query: 119 GNEFEDYFLKRELLMGIFEKGFERPSPIQEESIPIALTG--SDILARAKNGTGKTAAFCI 176
F++ L ELL GI+ F++PS IQE ++P+ L +++A++++GTGKTAAF +
Sbjct: 4 AKSFDELGLAPELLKGIYAMKFQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAAFSL 63
Query: 177 PALEKIDQDNNVIQVVILVPTRELALQTSQVCKELGKHLNIQVMVTTGGTSLKDDIMRLY 236
L +++ ++ Q + L P+RELA QT +V +E+GK I + + K+ +
Sbjct: 64 TMLTRVNPEDASPQAICLAPSRELARQTLEVVQEMGKFTKITSQLIVPDSFEKNKQIN-- 121
Query: 237 QPVHLLVGTPGRILDLSKKGVCILKDCSMLVMDEADKLLSPE-FQPSVEQLIRFLPANRQ 295
++VGTPG +LDL ++ + L+ + V+DEAD +L + ++ RFLP + Q
Sbjct: 122 --AQVIVGTPGTVLDLMRRKLMQLQKIKIFVLDEADNMLDQQGLGDQCIRVKRFLPKDTQ 179
Query: 296 ILMFSATFPVTVKDFKDKYLQKPYVINL-MDELTLKGITQYYAFVE-ERQKVHCLNTLFS 353
+++FSATF V+ + K + + L +E+ + I Q Y + E K L L+
Sbjct: 180 LVLFSATFADAVRQYAKKIVPNANTLELQTNEVNVDAIKQLYMDCKNEADKFDVLTELYG 239
Query: 354 KLQINQSIIFCNSVNRVELLAKKITELGYSCFYIHAKMLQDHRNRVFHDFRNGACRNLVC 413
+ I SIIF + +L K+ G+ +H + R+R+ DFR G + L+
Sbjct: 240 VMTIGSSIIFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDDFREGRSKVLIT 299
Query: 414 TDLFTRGIDIQAVNVVINFDFP------KNSETYLHRVGRSGRFGHLGLAVNLITYEDRF 467
T++ RGIDI V++V+N+D P + TY+HR+GR+GRFG G+A++ + ++ F
Sbjct: 300 TNVLARGIDIPTVSMVVNYDLPTLANGQADPATYIHRIGRTGRFGRKGVAISFVHDKNSF 359
Query: 468 N-LYRIEQELG-TEIKQIP 484
N L I++ G E+ ++P
Sbjct: 360 NILSAIQKYFGDIEMTRVP 378
>pdb|3PEY|A Chain A, S. Cerevisiae Dbp5 Bound To Rna And Adp Bef3
Length = 395
Score = 208 bits (529), Expect = 6e-54, Method: Compositional matrix adjust.
Identities = 122/379 (32%), Positives = 210/379 (55%), Gaps = 17/379 (4%)
Query: 119 GNEFEDYFLKRELLMGIFEKGFERPSPIQEESIPIALTG--SDILARAKNGTGKTAAFCI 176
F++ L ELL GI+ F++PS IQE ++P+ L +++A++++GTGKTAAF +
Sbjct: 4 AKSFDELGLAPELLKGIYAMKFQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAAFSL 63
Query: 177 PALEKIDQDNNVIQVVILVPTRELALQTSQVCKELGKHLNIQVMVTTGGTSLKDDIMRLY 236
L +++ ++ Q + L P+RELA QT +V +E+GK I + + K+ +
Sbjct: 64 TMLTRVNPEDASPQAICLAPSRELARQTLEVVQEMGKFTKITSQLIVPDSFEKNKQIN-- 121
Query: 237 QPVHLLVGTPGRILDLSKKGVCILKDCSMLVMDEADKLLSPE-FQPSVEQLIRFLPANRQ 295
++VGTPG +LDL ++ + L+ + V+DEAD +L + ++ RFLP + Q
Sbjct: 122 --AQVIVGTPGTVLDLMRRKLMQLQKIKIFVLDEADNMLDQQGLGDQCIRVKRFLPKDTQ 179
Query: 296 ILMFSATFPVTVKDFKDKYLQKPYVINL-MDELTLKGITQYYAFVE-ERQKVHCLNTLFS 353
+++FSATF V+ + K + + L +E+ + I Q Y + E K L L+
Sbjct: 180 LVLFSATFADAVRQYAKKIVPNANTLELQTNEVNVDAIKQLYMDCKNEADKFDVLTELYG 239
Query: 354 KLQINQSIIFCNSVNRVELLAKKITELGYSCFYIHAKMLQDHRNRVFHDFRNGACRNLVC 413
+ I SIIF + +L K+ G+ +H + R+R+ DFR G + L+
Sbjct: 240 LMTIGSSIIFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDDFREGRSKVLIT 299
Query: 414 TDLFTRGIDIQAVNVVINFDFP------KNSETYLHRVGRSGRFGHLGLAVNLITYEDRF 467
T++ RGIDI V++V+N+D P + TY+HR+GR+GRFG G+A++ + ++ F
Sbjct: 300 TNVLARGIDIPTVSMVVNYDLPTLANGQADPATYIHRIGRTGRFGRKGVAISFVHDKNSF 359
Query: 468 N-LYRIEQELG-TEIKQIP 484
N L I++ G E+ ++P
Sbjct: 360 NILSAIQKYFGDIEMTRVP 378
>pdb|2I4I|A Chain A, Crystal Structure Of Human Dead-Box Rna Helicase Ddx3x
Length = 417
Score = 201 bits (511), Expect = 9e-52, Method: Compositional matrix adjust.
Identities = 130/392 (33%), Positives = 203/392 (51%), Gaps = 33/392 (8%)
Query: 130 ELLMGIFE-KGFERPSPIQEESIPIALTGSDILARAKNGTGKTAAFCIPALEKIDQDNNV 188
E++MG E + RP+P+Q+ +IPI D++A A+ G+GKTAAF +P L +I D
Sbjct: 24 EIIMGNIELTRYTRPTPVQKHAIPIIKEKRDLMACAQTGSGKTAAFLLPILSQIYSDGPG 83
Query: 189 IQV------------------VILVPTRELALQTSQVCKELGKHLNIQVMVTTGGTSLKD 230
+ ++L PTRELA+Q + ++ ++ V GG +
Sbjct: 84 EALRAMKENGRYGRRKQYPISLVLAPTRELAVQIYEEARKFSYRSRVRPCVVYGGADIGQ 143
Query: 231 DIMRLYQPVHLLVGTPGRILDLSKKGVCILKDCSMLVMDEADKLLSPEFQPSVEQLIR-- 288
I L + HLLV TPGR++D+ ++G L C LV+DEAD++L F+P + +++
Sbjct: 144 QIRDLERGCHLLVATPGRLVDMMERGKIGLDFCKYLVLDEADRMLDMGFEPQIRRIVEQD 203
Query: 289 FLPAN--RQILMFSATFP----VTVKDFKDKYLQKPYVINLMDELTLKGITQYYAFVEER 342
+P R +MFSATFP + +DF D+Y+ ++ T + ITQ +VEE
Sbjct: 204 TMPPKGVRHTMMFSATFPKEIQMLARDFLDEYI---FLAVGRVGSTSENITQKVVWVEES 260
Query: 343 QK-VHCLNTLFSKLQINQSIIFCNSVNRVELLAKKITELGYSCFYIHAKMLQDHRNRVFH 401
K L+ L + + + +++F + + L + GY+C IH Q R H
Sbjct: 261 DKRSFLLDLLNATGKDSLTLVFVETKKGADSLEDFLYHEGYACTSIHGDRSQRDREEALH 320
Query: 402 DFRNGACRNLVCTDLFTRGIDIQAVNVVINFDFPKNSETYLHRVGRSGRFGHLGLAVNLI 461
FR+G LV T + RG+DI V VINFD P + E Y+HR+GR+GR G+LGLA +
Sbjct: 321 QFRSGKSPILVATAVAARGLDISNVKHVINFDLPSDIEEYVHRIGRTGRVGNLGLATSFF 380
Query: 462 TYEDRFNLYRIEQELGTEIKQ-IPPHIDQAIY 492
E N+ + +L E KQ +P ++ Y
Sbjct: 381 N-ERNINITKDLLDLLVEAKQEVPSWLENMAY 411
>pdb|3FHO|A Chain A, Structure Of S. Pombe Dbp5
pdb|3FHO|B Chain B, Structure Of S. Pombe Dbp5
Length = 508
Score = 194 bits (494), Expect = 8e-50, Method: Compositional matrix adjust.
Identities = 109/328 (33%), Positives = 187/328 (57%), Gaps = 17/328 (5%)
Query: 146 IQEESIPIALTG--SDILARAKNGTGKTAAFCIPALEKIDQDNNVIQVVILVPTRELALQ 203
IQE+++P+ L+ +++ ++++GTGKTAAF + L ++D Q + L P+RELA Q
Sbjct: 145 IQEKALPLLLSNPPRNMIGQSQSGTGKTAAFALTMLSRVDASVPKPQAICLAPSRELARQ 204
Query: 204 TSQVCKELGKHLNIQVMVTTGGTSLKDDIMRLYQ-PVHLLVGTPGRILDLSKKGVCILKD 262
V E+GK+ ++ +KD + + + +++GTPG ++DL K+ +D
Sbjct: 205 IMDVVTEMGKYTEVKTAF-----GIKDSVPKGAKIDAQIVIGTPGTVMDLMKRRQLDARD 259
Query: 263 CSMLVMDEADKLLSPEFQPSVEQLIR-FLPANRQILMFSATFPVTVKDFKDKYLQKPYVI 321
+ V+DEAD +L + I+ LP N QI++FSATF V+ + +++ I
Sbjct: 260 IKVFVLDEADNMLDQQGLGDQSMRIKHLLPRNTQIVLFSATFSERVEKYAERFAPNANEI 319
Query: 322 NL-MDELTLKGITQYYAFVE-ERQKVHCLNTLFSKLQINQSIIFCNSVNRVELLAKKITE 379
L +EL+++GI Q Y + E K + L L+ L I QSIIFC + E +A+++T
Sbjct: 320 RLKTEELSVEGIKQLYMDCQSEEHKYNVLVELYGLLTIGQSIIFCKKKDTAEEIARRMTA 379
Query: 380 LGYSCFYIHAKMLQDHRNRVFHDFRNGACRNLVCTDLFTRGIDIQAVNVVINFDFP---- 435
G++ + + R+ + FR G + LV T++ RGID+ VN+V+N+D P
Sbjct: 380 DGHTVACLTGNLEGAQRDAIMDSFRVGTSKVLVTTNVIARGIDVSQVNLVVNYDMPLDQA 439
Query: 436 --KNSETYLHRVGRSGRFGHLGLAVNLI 461
+ +TYLHR+GR+GRFG +G+++N +
Sbjct: 440 GRPDPQTYLHRIGRTGRFGRVGVSINFV 467
>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 = 186 bits (473), Expect = 2e-47, Method: Compositional matrix adjust.
Identities = 109/347 (31%), Positives = 190/347 (54%), Gaps = 11/347 (3%)
Query: 127 LKRELLMGIFEKGFERPSPIQEESIPIALTGSDILARAKNGTGKTAAFCIPALEKIDQDN 186
L+ ++ + + G++ P+PIQ+ SIP+ +G D++A A+ G+GKTAAF +P L K+ +D
Sbjct: 63 LRDIIIDNVNKSGYKIPTPIQKCSIPVISSGRDLMACAQTGSGKTAAFLLPILSKLLEDP 122
Query: 187 NVI-----QVVILVPTRELALQTSQVCKELGKHLNIQVMVTTGGTSLKDDIMRLYQPVHL 241
+ + QVVI+ PTRELA+Q ++ +++ + GGTS + + + H+
Sbjct: 123 HELELGRPQVVIVSPTRELAIQIFNEARKFAFESYLKIGIVYGGTSFRHQNECITRGCHV 182
Query: 242 LVGTPGRILDLSKKGVCILKDCSMLVMDEADKLLSPEFQPSVEQLIRFLP--ANRQILMF 299
++ TPGR+LD + +D +V+DEAD++L F + +++ + Q LMF
Sbjct: 183 VIATPGRLLDFVDRTFITFEDTRFVVLDEADRMLDMGFSEDMRRIMTHVTMRPEHQTLMF 242
Query: 300 SATFPVTVKDFKDKYLQKPYVINLMDEL--TLKGITQYYAFVEERQKVHCLNTLFSKLQI 357
SATFP ++ ++L K YV + + + Q V + K L + S+ Q
Sbjct: 243 SATFPEEIQRMAGEFL-KNYVFVAIGIVGGACSDVKQTIYEVNKYAKRSKLIEILSE-QA 300
Query: 358 NQSIIFCNSVNRVELLAKKITELGYSCFYIHAKMLQDHRNRVFHDFRNGACRNLVCTDLF 417
+ +I+F + + LA ++E + IH LQ R + DF+NG+ + L+ T +
Sbjct: 301 DGTIVFVETKRGADFLASFLSEKEFPTTSIHGDRLQSQREQALRDFKNGSMKVLIATSVA 360
Query: 418 TRGIDIQAVNVVINFDFPKNSETYLHRVGRSGRFGHLGLAVNLITYE 464
+RG+DI+ + VIN+D P + Y+HR+GR+GR G+ G A + E
Sbjct: 361 SRGLDIKNIKHVINYDMPSKIDDYVHRIGRTGRVGNNGRATSFFDPE 407
>pdb|2Z0M|A Chain A, Crystal Structure Of Hypothetical Atp-Dependent Rna
Helicase From Sulfolobus Tokodaii
Length = 337
Score = 174 bits (442), Expect = 8e-44, Method: Compositional matrix adjust.
Identities = 118/350 (33%), Positives = 184/350 (52%), Gaps = 34/350 (9%)
Query: 134 GIFEKGFERPSPIQEESIPIALTGSDILARAKNGTGKTAAFCIPALEKIDQDNNVIQVVI 193
I E GF+ + +Q ++IP+ L G +++ RAK G+GKTAA+ IP LE ++ ++
Sbjct: 8 AIREMGFKNFTEVQSKTIPLMLQGKNVVVRAKTGSGKTAAYAIPILEL------GMKSLV 61
Query: 194 LVPTRELALQTSQVCKELGKHLNIQVMVTTGGTSLKDDIMRLYQPVHLLVGTPGRILDLS 253
+ PTREL Q + +++G++++ +V GG K I R+ + ++V TPGR+LDL
Sbjct: 62 VTPTRELTRQVASHIRDIGRYMDTKVAEVYGGMPYKAQINRV-RNADIVVATPGRLLDLW 120
Query: 254 KKGVCILKDCSMLVMDEADKLLSPEFQPSVEQLIRFLPANRQIL-MFSATFP----VTVK 308
KGV L ++++DEAD + F + ++I +NR+I +FSAT P VK
Sbjct: 121 SKGVIDLSSFEIVIIDEADLMFEMGFIDDI-KIILAQTSNRKITGLFSATIPEEIRKVVK 179
Query: 309 DFKDKYLQKPYVINLMDELTLKGITQYYAFVEE--RQKVHCLNTLFSKLQINQSIIFCNS 366
DF Y + I L + + + V++ R KV L K I+F +
Sbjct: 180 DFITNYEEIEACIGLAN------VEHKFVHVKDDWRSKVQALRENKDK----GVIVFVRT 229
Query: 367 VNRVELLAKKITELGYSCFYIHAKMLQDHRNRVFHDFRNGACRNLVCTDLFTRGIDIQAV 426
NRV K+ L + + + Q RNR FR G L+ TD+ +RG+DI V
Sbjct: 230 RNRV----AKLVRLFDNAIELRGDLPQSVRNRNIDAFREGEYDMLITTDVASRGLDIPLV 285
Query: 427 NVVINFDFPKNSETYLHRVGRSGRFGHLGLAVNLITYEDRFNLYRIEQEL 476
VINFD P++ TY+HR+GR+GR G G A+ I N Y +E+E+
Sbjct: 286 EKVINFDAPQDLRTYIHRIGRTGRMGRKGEAITFI-----LNEYWLEKEV 330
>pdb|1QDE|A Chain A, Crystal Structure Of The Atpase Domain Of Translation
Initiation Factor 4a From Saccharomyces Cerevisiae-The
Prototype Of The Dead Box Protein Family
Length = 224
Score = 151 bits (382), Expect = 7e-37, Method: Compositional matrix adjust.
Identities = 83/211 (39%), Positives = 125/211 (59%), Gaps = 2/211 (0%)
Query: 121 EFEDYFLKRELLMGIFEKGFERPSPIQEESIPIALTGSDILARAKNGTGKTAAFCIPALE 180
+F+D L LL G+F GFE PS IQ+ +I + G D+LA+A++GTGKT F I AL+
Sbjct: 15 KFDDMELDENLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAALQ 74
Query: 181 KIDQDNNVIQVVILVPTRELALQTSQVCKELGKHLNIQVMVTTGGTSLKDDIMRLYQPVH 240
+ID Q ++L PTRELALQ +V L H++I+V GGTS +D L +
Sbjct: 75 RIDTSVKAPQALMLAPTRELALQIQKVVMALAFHMDIKVHACIGGTSFVEDAEGL-RDAQ 133
Query: 241 LLVGTPGRILDLSKKGVCILKDCSMLVMDEADKLLSPEFQPSVEQLIRFLPANRQILMFS 300
++VGTPGR+ D ++ M ++DEAD++LS F+ + Q+ LP Q+++ S
Sbjct: 134 IVVGTPGRVFDNIQRRRFRTDKIKMFILDEADEMLSSGFKEQIYQIFTLLPPTTQVVLLS 193
Query: 301 ATFPVTVKDFKDKYLQKPY-VINLMDELTLK 330
AT P V + K+++ P ++ DELTL+
Sbjct: 194 ATMPNDVLEVTTKFMRNPVRILVKKDELTLE 224
>pdb|1QVA|A Chain A, Yeast Initiation Factor 4a N-Terminal Domain
Length = 223
Score = 149 bits (376), Expect = 3e-36, Method: Compositional matrix adjust.
Identities = 79/201 (39%), Positives = 119/201 (59%), Gaps = 1/201 (0%)
Query: 121 EFEDYFLKRELLMGIFEKGFERPSPIQEESIPIALTGSDILARAKNGTGKTAAFCIPALE 180
+F+D L +LL G+F GFE PS IQ+ +I + G D+LA+A++GTGKT F I AL+
Sbjct: 22 KFDDMELDEQLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAALQ 81
Query: 181 KIDQDNNVIQVVILVPTRELALQTSQVCKELGKHLNIQVMVTTGGTSLKDDIMRLYQPVH 240
+ID Q ++L PTRELALQ +V L H++I+V GGTS +D L +
Sbjct: 82 RIDTSVKAPQALMLAPTRELALQIQKVVMALAFHMDIKVHACIGGTSFVEDAEGL-RDAQ 140
Query: 241 LLVGTPGRILDLSKKGVCILKDCSMLVMDEADKLLSPEFQPSVEQLIRFLPANRQILMFS 300
++VGTPGR+ D ++ M ++DEAD++LS F+ + Q+ LP Q+++ S
Sbjct: 141 IVVGTPGRVFDNIQRRRFRTDKIKMFILDEADEMLSSGFKEQIYQIFTLLPPTTQVVLLS 200
Query: 301 ATFPVTVKDFKDKYLQKPYVI 321
AT P V + K+++ P I
Sbjct: 201 ATMPNDVLEVTTKFMRNPVRI 221
>pdb|2GXQ|A Chain A, Hera N-Terminal Domain In Complex With Amp, Crystal Form 1
pdb|2GXS|A Chain A, Hera N-Terminal Domain In Complex With Amp, Crystal Form 2
pdb|2GXS|B Chain B, Hera N-Terminal Domain In Complex With Amp, Crystal Form 2
pdb|2GXU|A Chain A, Hera N-Terminal Domain In Complex With Orthophosphate,
Crystal Form 1
Length = 207
Score = 149 bits (375), Expect = 5e-36, Method: Compositional matrix adjust.
Identities = 78/207 (37%), Positives = 121/207 (58%), Gaps = 5/207 (2%)
Query: 121 EFEDYFLKRELLMGIFEKGFERPSPIQEESIPIALTGSDILARAKNGTGKTAAFCIPALE 180
EF+D+ LK E+L + +G P+PIQ ++P+AL G D++ +A+ GTGKT AF +P E
Sbjct: 2 EFKDFPLKPEILEALHGRGLTTPTPIQAAALPLALEGKDLIGQARTGTGKTLAFALPIAE 61
Query: 181 KI---DQDNNVIQVVILVPTRELALQTSQVCKELGKHLNIQVMVTTGGTSLKDDIMRLYQ 237
++ + + ++L PTRELALQ + + HL +V+ GGT L +
Sbjct: 62 RLAPSQERGRKPRALVLTPTRELALQVASELTAVAPHL--KVVAVYGGTGYGKQKEALLR 119
Query: 238 PVHLLVGTPGRILDLSKKGVCILKDCSMLVMDEADKLLSPEFQPSVEQLIRFLPANRQIL 297
+V TPGR LD ++GV L + V+DEAD++LS F+ VE L+ P +RQ L
Sbjct: 120 GADAVVATPGRALDYLRQGVLDLSRVEVAVLDEADEMLSMGFEEEVEALLSATPPSRQTL 179
Query: 298 MFSATFPVTVKDFKDKYLQKPYVINLM 324
+FSAT P K ++Y++ P +IN++
Sbjct: 180 LFSATLPSWAKRLAERYMKNPVLINVI 206
>pdb|3MWJ|A Chain A, Q28e Mutant Of Hera N-Terminal Reca-Like Domain, Apo Form
pdb|3MWJ|B Chain B, Q28e Mutant Of Hera N-Terminal Reca-Like Domain, Apo Form
pdb|3MWK|A Chain A, Q28e Mutant Of Hera N-Terminal Reca-Like Domain, Complex
With 8-Oxo- Amp
pdb|3MWK|B Chain B, Q28e Mutant Of Hera N-Terminal Reca-Like Domain, Complex
With 8-Oxo- Amp
pdb|3MWL|A Chain A, Q28e Mutant Of Hera N-Terminal Reca-Like Domain In Complex
With 8- Oxoadenosine
pdb|3MWL|B Chain B, Q28e Mutant Of Hera N-Terminal Reca-Like Domain In Complex
With 8- Oxoadenosine
pdb|3NBF|A Chain A, Q28e Mutant Of Hera Helicase N-Terminal Domain Bound To
8-Oxo-Adp
pdb|3NBF|B Chain B, Q28e Mutant Of Hera Helicase N-Terminal Domain Bound To
8-Oxo-Adp
pdb|3NBF|C Chain C, Q28e Mutant Of Hera Helicase N-Terminal Domain Bound To
8-Oxo-Adp
pdb|3NBF|D Chain D, Q28e Mutant Of Hera Helicase N-Terminal Domain Bound To
8-Oxo-Adp
pdb|3NEJ|A Chain A, Q28e Mutant Of Hera Rna Helicase N-Terminal Domain -
Perfectly Twinned Hexagonal Form
pdb|3NEJ|B Chain B, Q28e Mutant Of Hera Rna Helicase N-Terminal Domain -
Perfectly Twinned Hexagonal Form
Length = 207
Score = 147 bits (371), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 77/207 (37%), Positives = 121/207 (58%), Gaps = 5/207 (2%)
Query: 121 EFEDYFLKRELLMGIFEKGFERPSPIQEESIPIALTGSDILARAKNGTGKTAAFCIPALE 180
EF+D+ LK E+L + +G P+PI+ ++P+AL G D++ +A+ GTGKT AF +P E
Sbjct: 2 EFKDFPLKPEILEALHGRGLTTPTPIEAAALPLALEGKDLIGQARTGTGKTLAFALPIAE 61
Query: 181 KI---DQDNNVIQVVILVPTRELALQTSQVCKELGKHLNIQVMVTTGGTSLKDDIMRLYQ 237
++ + + ++L PTRELALQ + + HL +V+ GGT L +
Sbjct: 62 RLAPSQERGRKPRALVLTPTRELALQVASELTAVAPHL--KVVAVYGGTGYGKQKEALLR 119
Query: 238 PVHLLVGTPGRILDLSKKGVCILKDCSMLVMDEADKLLSPEFQPSVEQLIRFLPANRQIL 297
+V TPGR LD ++GV L + V+DEAD++LS F+ VE L+ P +RQ L
Sbjct: 120 GADAVVATPGRALDYLRQGVLDLSRVEVAVLDEADEMLSMGFEEEVEALLSATPPSRQTL 179
Query: 298 MFSATFPVTVKDFKDKYLQKPYVINLM 324
+FSAT P K ++Y++ P +IN++
Sbjct: 180 LFSATLPSWAKRLAERYMKNPVLINVI 206
>pdb|2OXC|A Chain A, Human Dead-Box Rna Helicase Ddx20, Dead Domain In Complex
With Adp
pdb|2OXC|B Chain B, Human Dead-Box Rna Helicase Ddx20, Dead Domain In Complex
With Adp
pdb|3B7G|A Chain A, Human Dead-Box Rna Helicase Ddx20, Conserved Domain I
(Dead) In Complex With Amppnp
(Adenosine-(Beta,Gamma)-Imidotriphosphate)
pdb|3B7G|B Chain B, Human Dead-Box Rna Helicase Ddx20, Conserved Domain I
(Dead) In Complex With Amppnp
(Adenosine-(Beta,Gamma)-Imidotriphosphate)
Length = 230
Score = 144 bits (362), Expect = 1e-34, Method: Compositional matrix adjust.
Identities = 84/218 (38%), Positives = 124/218 (56%), Gaps = 3/218 (1%)
Query: 108 RYRTEDVTATKGNEFEDYFLKRELLMGIFEKGFERPSPIQEESIPIALTGSDILARAKNG 167
R RT DV + +FE L R +L G+ GFERPSP+Q ++IP+ G D++ +AK+G
Sbjct: 12 RTRTGDVLLAEPADFESLLLSRPVLEGLRAAGFERPSPVQLKAIPLGRCGLDLIVQAKSG 71
Query: 168 TGKTAAFCIPALEKIDQDNNVIQVVILVPTRELALQTSQVCKELG-KHLNIQVMVTTGGT 226
TGKT F AL+ + +N Q++IL PTRE+A+Q V +G K ++ V GGT
Sbjct: 72 TGKTCVFSTIALDSLVLENLSTQILILAPTREIAVQIHSVITAIGIKMEGLECHVFIGGT 131
Query: 227 SLKDDIMRLYQPVHLLVGTPGRILDLSKKGVCILKDCSMLVMDEADKLLSP-EFQPSVEQ 285
L D RL + H+ VG+PGRI L + + ++DEADKLL FQ +
Sbjct: 132 PLSQDKTRLKK-CHIAVGSPGRIKQLIELDYLNPGSIRLFILDEADKLLEEGSFQEQINW 190
Query: 286 LIRFLPANRQILMFSATFPVTVKDFKDKYLQKPYVINL 323
+ LPA++Q+L SAT+P + + KY++ P + L
Sbjct: 191 IYSSLPASKQMLAVSATYPEFLANALTKYMRDPTFVRL 228
>pdb|3BOR|A Chain A, Crystal Structure Of The Deadc Domain Of Human Translation
Initiation Factor 4a-2
Length = 237
Score = 142 bits (358), Expect = 4e-34, Method: Compositional matrix adjust.
Identities = 72/200 (36%), Positives = 123/200 (61%), Gaps = 1/200 (0%)
Query: 120 NEFEDYFLKRELLMGIFEKGFERPSPIQEESIPIALTGSDILARAKNGTGKTAAFCIPAL 179
+ F+D LK LL GI+ GFE+PS IQ+ +I + G D++A+A++GTGKTA F I L
Sbjct: 30 DNFDDMNLKESLLRGIYAYGFEKPSAIQQRAIIPCIKGYDVIAQAQSGTGKTATFAISIL 89
Query: 180 EKIDQDNNVIQVVILVPTRELALQTSQVCKELGKHLNIQVMVTTGGTSLKDDIMRL-YQP 238
++++ + Q ++L PTRELA Q +V LG ++ GGT++++++ +L +
Sbjct: 90 QQLEIEFKETQALVLAPTRELAQQIQKVILALGDYMGATCHACIGGTNVRNEMQKLQAEA 149
Query: 239 VHLLVGTPGRILDLSKKGVCILKDCSMLVMDEADKLLSPEFQPSVEQLIRFLPANRQILM 298
H++VGTPGR+ D+ + K M V+DEAD++LS F+ + ++ + L + Q+++
Sbjct: 150 PHIVVGTPGRVFDMLNRRYLSPKWIKMFVLDEADEMLSRGFKDQIYEIFQKLNTSIQVVL 209
Query: 299 FSATFPVTVKDFKDKYLQKP 318
SAT P V + K+++ P
Sbjct: 210 LSATMPTDVLEVTKKFMRDP 229
>pdb|1T6N|A Chain A, Crystal Structure Of The N-Terminal Domain Of Human Uap56
pdb|1T6N|B Chain B, Crystal Structure Of The N-Terminal Domain Of Human Uap56
Length = 220
Score = 142 bits (358), Expect = 5e-34, Method: Compositional matrix adjust.
Identities = 78/204 (38%), Positives = 123/204 (60%), Gaps = 5/204 (2%)
Query: 122 FEDYFLKRELLMGIFEKGFERPSPIQEESIPIALTGSDILARAKNGTGKTAAFCIPALEK 181
F D+ LK ELL I + GFE PS +Q E IP A+ G D+L +AK+G GKTA F + L++
Sbjct: 16 FRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQ 75
Query: 182 IDQDNNVIQVVILVPTRELALQTSQVCKELGKHL-NIQVMVTTGGTSLKDD--IMRLYQP 238
++ + V+++ TRELA Q S+ + K++ N++V V GG S+K D +++ P
Sbjct: 76 LEPVTGQVSVLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEVLKKNCP 135
Query: 239 VHLLVGTPGRILDLSKKGVCILKDCSMLVMDEADKLLSP-EFQPSVEQLIRFLPANRQIL 297
H++VGTPGRIL L++ LK ++DE DK+L + + V+++ R P +Q++
Sbjct: 136 -HIVVGTPGRILALARNKSLNLKHIKHFILDECDKMLEQLDMRRDVQEIFRMTPHEKQVM 194
Query: 298 MFSATFPVTVKDFKDKYLQKPYVI 321
MFSAT ++ K++Q P I
Sbjct: 195 MFSATLSKEIRPVCRKFMQDPMEI 218
>pdb|2G9N|A Chain A, Structure Of The Dead Domain Of Human Eukaryotic
Initiation Factor 4a, Eif4a
pdb|2G9N|B Chain B, Structure Of The Dead Domain Of Human Eukaryotic
Initiation Factor 4a, Eif4a
Length = 221
Score = 137 bits (346), Expect = 1e-32, Method: Compositional matrix adjust.
Identities = 75/212 (35%), Positives = 118/212 (55%), Gaps = 5/212 (2%)
Query: 112 EDVTATKGNE----FEDYFLKRELLMGIFEKGFERPSPIQEESIPIALTGSDILARAKNG 167
E V + NE F+D L LL GI+ GFE PS IQ+ +I + G D++A+A++G
Sbjct: 3 EGVIESNWNEIVDSFDDMNLSESLLRGIYAYGFEXPSAIQQRAILPCIXGYDVIAQAQSG 62
Query: 168 TGKTAAFCIPALEKIDQDNNVIQVVILVPTRELALQTSQVCKELGKHLNIQVMVTTGGTS 227
TG TA F I L++I+ D Q ++L PTRELA Q V LG ++ GGT+
Sbjct: 63 TGXTATFAISILQQIELDLXATQALVLAPTRELAQQIQXVVMALGDYMGASCHACIGGTN 122
Query: 228 LKDDIMRL-YQPVHLLVGTPGRILDLSKKGVCILKDCSMLVMDEADKLLSPEFQPSVEQL 286
++ ++ L + H++VGTPGR+ D+ + M V+DEAD++LS F + +
Sbjct: 123 VRAEVQXLQMEAPHIIVGTPGRVFDMLNRRYLSPXYIXMFVLDEADEMLSRGFXDQIYDI 182
Query: 287 IRFLPANRQILMFSATFPVTVKDFKDKYLQKP 318
+ L +N Q+++ SAT P V + +++ P
Sbjct: 183 FQXLNSNTQVVLLSATMPSDVLEVTXXFMRDP 214
>pdb|2PL3|A Chain A, Human Dead-Box Rna Helicase Ddx10, Dead Domain In Complex
With Adp
Length = 236
Score = 129 bits (324), Expect = 4e-30, Method: Compositional matrix adjust.
Identities = 77/212 (36%), Positives = 121/212 (57%), Gaps = 6/212 (2%)
Query: 112 EDVTATKGNEFEDYFLKRELLMGIFEKGFERPSPIQEESIPIALTGSDILARAKNGTGKT 171
E + + F D+ L ++ L G+ E + + IQ+++I +AL G D+L AK G+GKT
Sbjct: 17 EKINVNEITRFSDFPLSKKTLKGLQEAQYRLVTEIQKQTIGLALQGKDVLGAAKTGSGKT 76
Query: 172 AAFCIPALEKIDQ----DNNVIQVVILVPTRELALQTSQVCKELGKHLNIQVMVTTGGTS 227
AF +P LE + + + + V+I+ PTRELA QT +V +++GK+ + + GG
Sbjct: 77 LAFLVPVLEALYRLQWTSTDGLGVLIISPTRELAYQTFEVLRKVGKNHDFSAGLIIGGKD 136
Query: 228 LKDDIMRLYQPVHLLVGTPGRILDLSKKGVCI-LKDCSMLVMDEADKLLSPEFQPSVEQL 286
LK + R+ +++LV TPGR+L + V D MLV+DEAD++L F ++ +
Sbjct: 137 LKHEAERI-NNINILVCTPGRLLQHMDETVSFHATDLQMLVLDEADRILDMGFADTMNAV 195
Query: 287 IRFLPANRQILMFSATFPVTVKDFKDKYLQKP 318
I LP RQ L+FSAT +VKD L+ P
Sbjct: 196 IENLPKKRQTLLFSATQTKSVKDLARLSLKNP 227
>pdb|3BER|A Chain A, Human Dead-Box Rna-Helicase Ddx47, Conserved Domain I In
Complex With Amp
Length = 249
Score = 125 bits (313), Expect = 7e-29, Method: Compositional matrix adjust.
Identities = 67/198 (33%), Positives = 113/198 (57%), Gaps = 1/198 (0%)
Query: 122 FEDYFLKRELLMGIFEKGFERPSPIQEESIPIALTGSDILARAKNGTGKTAAFCIPALEK 181
F+D + L + G+ +P+ IQ E+IP+AL G DI+ A+ G+GKT AF +P L
Sbjct: 45 FKDLGVTDVLCEACDQLGWTKPTKIQIEAIPLALQGRDIIGLAETGSGKTGAFALPILNA 104
Query: 182 IDQDNNVIQVVILVPTRELALQTSQVCKELGKHLNIQVMVTTGGTSLKDDIMRLYQPVHL 241
+ + + ++L PTRELA Q S+ + LG + +Q V GG + L + H+
Sbjct: 105 LLETPQRLFALVLTPTRELAFQISEQFEALGSSIGVQSAVIVGGIDSMSQSLALAKKPHI 164
Query: 242 LVGTPGRILD-LSKKGVCILKDCSMLVMDEADKLLSPEFQPSVEQLIRFLPANRQILMFS 300
++ TPGR++D L L+ LVMDEAD++L+ +F+ V+++++ +P +R+ +FS
Sbjct: 165 IIATPGRLIDHLENTKGFNLRALKYLVMDEADRILNMDFETEVDKILKVIPRDRKTFLFS 224
Query: 301 ATFPVTVKDFKDKYLQKP 318
AT V+ + L+ P
Sbjct: 225 ATMTKKVQKLQRAALKNP 242
>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 = 123 bits (308), Expect = 3e-28, Method: Compositional matrix adjust.
Identities = 78/217 (35%), Positives = 118/217 (54%), Gaps = 14/217 (6%)
Query: 113 DVTATKGNE-FEDYFLKRELLMGIFEKGFERPSPIQEESIPIALTGSDILARAKNGTGKT 171
D +AT E F++ L + I ++RP+PIQ+ +IP L DI+A A+ G+GKT
Sbjct: 15 DYSATNVIENFDELKLDPTIRNNILLASYQRPTPIQKNAIPAILEHRDIMACAQTGSGKT 74
Query: 172 AAFCIPALEK-IDQDNN--------VIQVVILVPTRELALQTSQVCKELGKHLNIQVMVT 222
AAF IP + + QD N + +IL PTRELA+Q ++ + ++ V
Sbjct: 75 AAFLIPIINHLVCQDLNQQRYSKTAYPKCLILAPTRELAIQILSESQKFSLNTPLRSCVV 134
Query: 223 TGGTSLKDDIMRLYQPVHLLVGTPGRILDLSKKGVCILKDCSMLVMDEADKLLSPEFQPS 282
GG I + HLLV TPGR++D +K L+ C +V+DEAD++L F+P
Sbjct: 135 YGGADTHSQIREVQMGCHLLVATPGRLVDFIEKNKISLEFCKYIVLDEADRMLDMGFEPQ 194
Query: 283 VEQLIR--FLPA--NRQILMFSATFPVTVKDFKDKYL 315
+ ++I +P+ NRQ LMFSATFP ++ +L
Sbjct: 195 IRKIIEESNMPSGINRQTLMFSATFPKEIQKLAADFL 231
>pdb|3LY5|A Chain A, Ddx18 Dead-Domain
pdb|3LY5|B Chain B, Ddx18 Dead-Domain
Length = 262
Score = 121 bits (304), Expect = 7e-28, Method: Compositional matrix adjust.
Identities = 77/191 (40%), Positives = 110/191 (57%), Gaps = 5/191 (2%)
Query: 132 LMGIFEKGFERPSPIQEESIPIALTGSDILARAKNGTGKTAAFCIPALEKIDQ----DNN 187
L I E GF + IQ +SI L G D+LA AK G+GKT AF IPA+E I + N
Sbjct: 66 LKAIKEMGFTNMTEIQHKSIRPLLEGRDLLAAAKTGSGKTLAFLIPAVELIVKLRFMPRN 125
Query: 188 VIQVVILVPTRELALQTSQVCKELGKHLNIQVMVTTGGTSLKDDIMRLYQPVHLLVGTPG 247
V+IL PTRELA+QT V KEL H + GG++ + +L ++++V TPG
Sbjct: 126 GTGVLILSPTRELAMQTFGVLKELMTHHVHTYGLIMGGSNRSAEAQKLGNGINIIVATPG 185
Query: 248 RILD-LSKKGVCILKDCSMLVMDEADKLLSPEFQPSVEQLIRFLPANRQILMFSATFPVT 306
R+LD + + K+ LV+DEAD++L F+ ++Q+I+ LP RQ ++FSAT
Sbjct: 186 RLLDHMQNTPGFMYKNLQCLVIDEADRILDVGFEEELKQIIKLLPTRRQTMLFSATQTRK 245
Query: 307 VKDFKDKYLQK 317
V+D L+K
Sbjct: 246 VEDLARISLKK 256
>pdb|3FMO|B Chain B, Crystal Structure Of The Nucleoporin Nup214 In Complex
With The Dead- Box Helicase Ddx19
Length = 300
Score = 120 bits (302), Expect = 1e-27, Method: Compositional matrix adjust.
Identities = 77/210 (36%), Positives = 124/210 (59%), Gaps = 8/210 (3%)
Query: 122 FEDYFLKRELLMGIFEKGFERPSPIQEESIPIALT--GSDILARAKNGTGKTAAFCIPAL 179
FE+ LK +LL G++ GF RPS IQE ++P+ L +++A++++GTGKTAAF + L
Sbjct: 94 FEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVLAML 153
Query: 180 EKIDQDNNVIQVVILVPTRELALQTSQVCKELGK-HLNIQVMVTTGGTSLKDDIMRLYQP 238
+++ N Q + L PT ELALQT +V +++GK + +++ G L+ ++ +
Sbjct: 154 SQVEPANKYPQCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLERG-QKISE- 211
Query: 239 VHLLVGTPGRILDLSKKGVCI-LKDCSMLVMDEADKLLSPE-FQPSVEQLIRFLPANRQI 296
+++GTPG +LD K I K + V+DEAD +++ + Q ++ R LP N Q+
Sbjct: 212 -QIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRMLPRNCQM 270
Query: 297 LMFSATFPVTVKDFKDKYLQKPYVINLMDE 326
L+FSATF +V F K + P VI L E
Sbjct: 271 LLFSATFEDSVWKFAQKVVPDPNVIKLKRE 300
>pdb|3FHC|B Chain B, Crystal Structure Of Human Dbp5 In Complex With Nup214
Length = 235
Score = 120 bits (300), Expect = 2e-27, Method: Compositional matrix adjust.
Identities = 77/210 (36%), Positives = 124/210 (59%), Gaps = 8/210 (3%)
Query: 122 FEDYFLKRELLMGIFEKGFERPSPIQEESIPIALT--GSDILARAKNGTGKTAAFCIPAL 179
FE+ LK +LL G++ GF RPS IQE ++P+ L +++A++++GTGKTAAF + L
Sbjct: 27 FEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVLAML 86
Query: 180 EKIDQDNNVIQVVILVPTRELALQTSQVCKELGK-HLNIQVMVTTGGTSLKDDIMRLYQP 238
+++ N Q + L PT ELALQT +V +++GK + +++ G L+ ++ +
Sbjct: 87 SQVEPANKYPQCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLERG-QKISE- 144
Query: 239 VHLLVGTPGRILDLSKKGVCI-LKDCSMLVMDEADKLLSPE-FQPSVEQLIRFLPANRQI 296
+++GTPG +LD K I K + V+DEAD +++ + Q ++ R LP N Q+
Sbjct: 145 -QIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRMLPRNCQM 203
Query: 297 LMFSATFPVTVKDFKDKYLQKPYVINLMDE 326
L+FSATF +V F K + P VI L E
Sbjct: 204 LLFSATFEDSVWKFAQKVVPDPNVIKLKRE 233
>pdb|3IUY|A Chain A, Crystal Structure Of Ddx53 Dead-Box Domain
pdb|3IUY|B Chain B, Crystal Structure Of Ddx53 Dead-Box Domain
Length = 228
Score = 119 bits (298), Expect = 4e-27, Method: Compositional matrix adjust.
Identities = 68/207 (32%), Positives = 115/207 (55%), Gaps = 8/207 (3%)
Query: 122 FEDYFLKR-ELLMGIFEKGFERPSPIQEESIPIALTGSDILARAKNGTGKTAAFCIPALE 180
F+D F + +LL I G +P+PIQ ++ PI L G D++ A+ GTGKT ++ +P
Sbjct: 21 FKDAFQQYPDLLKSIIRVGILKPTPIQSQAWPIILQGIDLIVVAQTGTGKTLSYLMPGFI 80
Query: 181 KID------QDNNVIQVVILVPTRELALQTSQVCKELGKHLNIQVMVTTGGTSLKDDIMR 234
+D + N +++L PTRELAL C + + ++ + GG + I
Sbjct: 81 HLDSQPISREQRNGPGMLVLTPTRELALHVEAECSKYS-YKGLKSICIYGGRNRNGQIED 139
Query: 235 LYQPVHLLVGTPGRILDLSKKGVCILKDCSMLVMDEADKLLSPEFQPSVEQLIRFLPANR 294
+ + V +++ TPGR+ DL L+ + LV+DEADK+L EF+P + +++ + +R
Sbjct: 140 ISKGVDIIIATPGRLNDLQMNNSVNLRSITYLVIDEADKMLDMEFEPQIRKILLDVRPDR 199
Query: 295 QILMFSATFPVTVKDFKDKYLQKPYVI 321
Q +M SAT+P TV+ YL+ P ++
Sbjct: 200 QTVMTSATWPDTVRQLALSYLKDPMIV 226
>pdb|1FUK|A Chain A, Crystal Structure Of The Carboxy Terminal Domain Of Yeast
Eif4a
Length = 165
Score = 119 bits (298), Expect = 4e-27, Method: Compositional matrix adjust.
Identities = 65/160 (40%), Positives = 103/160 (64%), Gaps = 1/160 (0%)
Query: 329 LKGITQYYAFVEERQ-KVHCLNTLFSKLQINQSIIFCNSVNRVELLAKKITELGYSCFYI 387
L+GI Q+Y VEE + K CL L+ + + Q++IFCN+ +VE L K+ ++ I
Sbjct: 1 LEGIKQFYVNVEEEEYKYECLTDLYDSISVTQAVIFCNTRRKVEELTTKLRNDKFTVSAI 60
Query: 388 HAKMLQDHRNRVFHDFRNGACRNLVCTDLFTRGIDIQAVNVVINFDFPKNSETYLHRVGR 447
++ + Q R+ + +FR+G+ R L+ TDL RGID+Q V++VIN+D P N E Y+HR+GR
Sbjct: 61 YSDLPQQERDTIMKEFRSGSSRILISTDLLARGIDVQQVSLVINYDLPANKENYIHRIGR 120
Query: 448 SGRFGHLGLAVNLITYEDRFNLYRIEQELGTEIKQIPPHI 487
GRFG G+A+N +T ED + +E+ T+I+++P I
Sbjct: 121 GGRFGRKGVAINFVTNEDVGAMRELEKFYSTQIEELPSDI 160
>pdb|2KBE|A Chain A, Solution Structure Of Amino-Terminal Domain Of Dbp5p
Length = 226
Score = 118 bits (295), Expect = 9e-27, Method: Compositional matrix adjust.
Identities = 70/200 (35%), Positives = 118/200 (59%), Gaps = 11/200 (5%)
Query: 119 GNEFEDYFLKRELLMGIFEKGFERPSPIQEESIPIALTGS--DILARAKNGTGKTAAFCI 176
F++ L ELL GI+ F++PS IQE ++P+ L +++A++++GTGKTAAF +
Sbjct: 21 AKSFDELGLAPELLKGIYAMKFQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAAFSL 80
Query: 177 PALEKIDQDNNVIQVVILVPTRELALQTSQVCKELGKHLNIQVMVTTGGTSLKDDIMRLY 236
L +++ ++ Q + L P+RELA QT +V +E+GK I + + K+ +
Sbjct: 81 TMLTRVNPEDASPQAICLAPSRELARQTLEVVQEMGKFTKITSQLIVPDSFEKNKQIN-- 138
Query: 237 QPVHLLVGTPGRILDLSKKGVCILKDCSMLVMDEADKLLSPEFQPSVEQLI---RFLPAN 293
++VGTPG +LDL ++ + L+ + V+DEAD +L + Q +Q I RFLP +
Sbjct: 139 --AQVIVGTPGTVLDLMRRKLMQLQKIKIFVLDEADNML--DQQGLGDQCIRVKRFLPKD 194
Query: 294 RQILMFSATFPVTVKDFKDK 313
Q+++FSATF V+ + K
Sbjct: 195 TQLVLFSATFADAVRQYAKK 214
>pdb|1T5I|A Chain A, Crystal Structure Of The C-Terminal Domain Of Uap56
Length = 172
Score = 117 bits (293), Expect = 1e-26, Method: Compositional matrix adjust.
Identities = 63/167 (37%), Positives = 95/167 (56%), Gaps = 1/167 (0%)
Query: 328 TLKGITQYYAFVEERQKVHCLNTLFSKLQINQSIIFCNSVNRVELLAKKITELGYSCFYI 387
+L G+ QYY +++ +K L L L+ NQ +IF SV R LA+ + E + I
Sbjct: 2 SLHGLQQYYVKLKDNEKNRKLFDLLDVLEFNQVVIFVKSVQRCIALAQLLVEQNFPAIAI 61
Query: 388 HAKMLQDHRNRVFHDFRNGACRNLVCTDLFTRGIDIQAVNVVINFDFPKNSETYLHRVGR 447
H M Q+ R + F++ R LV T+LF RG+DI+ VN+ N+D P++S+TYLHRV R
Sbjct: 62 HRGMPQEERLSRYQQFKDFQRRILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVAR 121
Query: 448 SGRFGHLGLAVNLITYE-DRFNLYRIEQELGTEIKQIPPHIDQAIYC 493
+GRFG GLA+ ++ E D L ++ I ++P ID + Y
Sbjct: 122 AGRFGTKGLAITFVSDENDAKILNDVQDRFEVNISELPDEIDISSYI 168
>pdb|1Q0U|A Chain A, Crystal Structure Of The Bstdead N-Terminal Domain
pdb|1Q0U|B Chain B, Crystal Structure Of The Bstdead N-Terminal Domain
Length = 219
Score = 116 bits (290), Expect = 3e-26, Method: Compositional matrix adjust.
Identities = 69/190 (36%), Positives = 103/190 (54%), Gaps = 4/190 (2%)
Query: 140 FERPSPIQEESIPIALTGSDILARAKNGTGKTAAFCIPALEKIDQDNNVIQVVILVPTRE 199
F +P+ IQE IP AL G + +++ GTGKT A+ +P EKI + +Q VI PTRE
Sbjct: 24 FYKPTEIQERIIPGALRGESXVGQSQTGTGKTHAYLLPIXEKIKPERAEVQAVITAPTRE 83
Query: 200 LALQ----TSQVCKELGKHLNIQVMVTTGGTSLKDDIMRLYQPVHLLVGTPGRILDLSKK 255
LA Q T ++ K K I GGT + + +L H+++GTPGRI D ++
Sbjct: 84 LATQIYHETLKITKFCPKDRXIVARCLIGGTDKQKALEKLNVQPHIVIGTPGRINDFIRE 143
Query: 256 GVCILKDCSMLVMDEADKLLSPEFQPSVEQLIRFLPANRQILMFSATFPVTVKDFKDKYL 315
+ +LV+DEAD L F V+Q+ P + Q L+FSAT P +K F KY
Sbjct: 144 QALDVHTAHILVVDEADLXLDXGFITDVDQIAARXPKDLQXLVFSATIPEKLKPFLKKYX 203
Query: 316 QKPYVINLMD 325
+ P +++++
Sbjct: 204 ENPTFVHVLE 213
>pdb|4A4D|A Chain A, Crystal Structure Of The N-Terminal Domain Of The Human
Dead-Box Rna Helicase Ddx5 (P68)
Length = 253
Score = 115 bits (289), Expect = 4e-26, Method: Compositional matrix adjust.
Identities = 62/194 (31%), Positives = 108/194 (55%), Gaps = 5/194 (2%)
Query: 135 IFEKGFERPSPIQEESIPIALTGSDILARAKNGTGKTAAFCIPALEKIDQDNNVIQ---- 190
I + F P+ IQ + P+AL+G D++ A+ G+GKT ++ +PA+ I+ + +
Sbjct: 58 IARQNFTEPTAIQAQGWPVALSGLDMVGVAQTGSGKTLSYLLPAIVHINHQPFLERGDGP 117
Query: 191 -VVILVPTRELALQTSQVCKELGKHLNIQVMVTTGGTSLKDDIMRLYQPVHLLVGTPGRI 249
++L PTRELA Q QV E + ++ GG I L + V + + TPGR+
Sbjct: 118 ICLVLAPTRELAQQVQQVAAEYCRACRLKSTCIYGGAPKGPQIRDLERGVEICIATPGRL 177
Query: 250 LDLSKKGVCILKDCSMLVMDEADKLLSPEFQPSVEQLIRFLPANRQILMFSATFPVTVKD 309
+D + G L+ + LV+DEAD++L F+P + +++ + +RQ LM+SAT+P V+
Sbjct: 178 IDFLECGKTNLRRTTYLVLDEADRMLDMGFEPQIRKIVDQIRPDRQTLMWSATWPKEVRQ 237
Query: 310 FKDKYLQKPYVINL 323
+ +L+ IN+
Sbjct: 238 LAEDFLKDYIHINI 251
>pdb|3FE2|A Chain A, Human Dead-Box Rna Helicase Ddx5 (P68), Conserved Domain I
In Complex With Adp
pdb|3FE2|B Chain B, Human Dead-Box Rna Helicase Ddx5 (P68), Conserved Domain I
In Complex With Adp
Length = 242
Score = 115 bits (288), Expect = 6e-26, Method: Compositional matrix adjust.
Identities = 62/194 (31%), Positives = 108/194 (55%), Gaps = 5/194 (2%)
Query: 135 IFEKGFERPSPIQEESIPIALTGSDILARAKNGTGKTAAFCIPALEKIDQDNNVIQ---- 190
I + F P+ IQ + P+AL+G D++ A+ G+GKT ++ +PA+ I+ + +
Sbjct: 44 IARQNFTEPTAIQAQGWPVALSGLDMVGVAQTGSGKTLSYLLPAIVHINHQPFLERGDGP 103
Query: 191 -VVILVPTRELALQTSQVCKELGKHLNIQVMVTTGGTSLKDDIMRLYQPVHLLVGTPGRI 249
++L PTRELA Q QV E + ++ GG I L + V + + TPGR+
Sbjct: 104 ICLVLAPTRELAQQVQQVAAEYCRACRLKSTCIYGGAPKGPQIRDLERGVEICIATPGRL 163
Query: 250 LDLSKKGVCILKDCSMLVMDEADKLLSPEFQPSVEQLIRFLPANRQILMFSATFPVTVKD 309
+D + G L+ + LV+DEAD++L F+P + +++ + +RQ LM+SAT+P V+
Sbjct: 164 IDFLECGKTNLRRTTYLVLDEADRMLDMGFEPQIRKIVDQIRPDRQTLMWSATWPKEVRQ 223
Query: 310 FKDKYLQKPYVINL 323
+ +L+ IN+
Sbjct: 224 LAEDFLKDYIHINI 237
>pdb|3SQW|A Chain A, Structure Of Mss116p (Nte Deletion) Bound To Ssrna And
Amp-Pnp
Length = 579
Score = 114 bits (284), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 106/383 (27%), Positives = 171/383 (44%), Gaps = 53/383 (13%)
Query: 122 FEDYFLKRELLMGIFEKGFERPSPIQEESIPIALTGSD--ILARAKNGTGKTAAFCIPAL 179
E+ L +E+ I F +P+Q+++I L+ D ++ARAK GTGKT AF IP
Sbjct: 23 LEEGVLDKEIHKAITRMEFPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIF 82
Query: 180 E-----KIDQDNNVIQVVILVPTRELALQTSQVCKE-------LGKHLNIQVMVTTGGTS 227
+ K D +++ VI+ PTR+LALQ K+ L K+ + ++ GGT
Sbjct: 83 QHLINTKFDS-QYMVKAVIVAPTRDLALQIEAEVKKIHDMNYGLKKYACVSLV---GGTD 138
Query: 228 LKDDI--MRLYQPVHLLVGTPGRILD-LSKKGVCILKDCSMLVMDEADKLLSPEFQPSVE 284
+ + M +P ++++ TPGR++D L K + V+DEAD+LL F+ +E
Sbjct: 139 FRAAMNKMNKLRP-NIVIATPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLEIGFRDDLE 197
Query: 285 QLIRFL-------PANRQILMFSATFPVTVKDFKDKYLQK-------------PYVINLM 324
+ L N + L+FSAT V+ + + K P +
Sbjct: 198 TISGILNEKNSKSADNIKTLLFSATLDDKVQKLANNIMNKKECLFLDTVDKNEPEAHERI 257
Query: 325 DE---LTLKGITQYYAFVEERQKVHCLNTLFSKLQINQSIIFCNSVNRVELLA---KKIT 378
D+ ++ K +A VE H + + ++IIF +V L K
Sbjct: 258 DQSVVISEKFANSIFAAVE-----HIKKQIKERDSNYKAIIFAPTVKFTSFLCSILKNEF 312
Query: 379 ELGYSCFYIHAKMLQDHRNRVFHDFRNGACRNLVCTDLFTRGIDIQAVNVVINFDFPKNS 438
+ H K+ Q+ R + F+ LVCTD+ RG+D V+ V+ P
Sbjct: 313 KKDLPILEFHGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSEL 372
Query: 439 ETYLHRVGRSGRFGHLGLAVNLI 461
Y+HR+GR+ R G G +V I
Sbjct: 373 ANYIHRIGRTARSGKEGSSVLFI 395
>pdb|2HJV|A Chain A, Structure Of The Second Domain (Residues 207-368) Of The
Bacillus Subtilis Yxin Protein
pdb|2HJV|B Chain B, Structure Of The Second Domain (Residues 207-368) Of The
Bacillus Subtilis Yxin Protein
Length = 163
Score = 114 bits (284), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 62/160 (38%), Positives = 92/160 (57%), Gaps = 2/160 (1%)
Query: 327 LTLKGITQYYAFVEERQKVHCLNTLFSKLQINQSIIFCNSVNRVELLAKKITELGYSCFY 386
LT + I V E K L + + IIFC + V L ++ +LGY C
Sbjct: 5 LTTRNIEHAVIQVREENKFSLLKDVLMTENPDSCIIFCRTKEHVNQLTDELDDLGYPCDK 64
Query: 387 IHAKMLQDHRNRVFHDFRNGACRNLVCTDLFTRGIDIQAVNVVINFDFPKNSETYLHRVG 446
IH M+Q+ R V ++F+ G R LV TD+ RGIDI+ +++VIN+D P E+Y+HR G
Sbjct: 65 IHGGMIQEDRFDVMNEFKRGEYRYLVATDVAARGIDIENISLVINYDLPLEKESYVHRTG 124
Query: 447 RSGRFGHLGLAVNLIT-YEDRFNLYRIEQELGTEIKQIPP 485
R+GR G+ G A++ +T +E RF L IE+ +G EI++I
Sbjct: 125 RTGRAGNKGKAISFVTAFEKRF-LADIEEYIGFEIQKIEA 163
>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 = 113 bits (282), Expect = 3e-25, Method: Compositional matrix adjust.
Identities = 106/383 (27%), Positives = 171/383 (44%), Gaps = 53/383 (13%)
Query: 122 FEDYFLKRELLMGIFEKGFERPSPIQEESIPIALTGSD--ILARAKNGTGKTAAFCIPAL 179
E+ L +E+ I F +P+Q+++I L+ D ++ARAK GTGKT AF IP
Sbjct: 74 LEEGVLDKEIHKAITRMEFPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIF 133
Query: 180 E-----KIDQDNNVIQVVILVPTRELALQTSQVCKE-------LGKHLNIQVMVTTGGTS 227
+ K D +++ VI+ PTR+LALQ K+ L K+ + ++ GGT
Sbjct: 134 QHLINTKFDS-QYMVKAVIVAPTRDLALQIEAEVKKIHDMNYGLKKYACVSLV---GGTD 189
Query: 228 LKDDI--MRLYQPVHLLVGTPGRILD-LSKKGVCILKDCSMLVMDEADKLLSPEFQPSVE 284
+ + M +P ++++ TPGR++D L K + V+DEAD+LL F+ +E
Sbjct: 190 FRAAMNKMNKLRP-NIVIATPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLEIGFRDDLE 248
Query: 285 QLIRFL-------PANRQILMFSATFPVTVKDFKDKYLQK-------------PYVINLM 324
+ L N + L+FSAT V+ + + K P +
Sbjct: 249 TISGILNEKNSKSADNIKTLLFSATLDDKVQKLANNIMNKKECLFLDTVDKNEPEAHERI 308
Query: 325 DE---LTLKGITQYYAFVEERQKVHCLNTLFSKLQINQSIIFCNSVNRVELLA---KKIT 378
D+ ++ K +A VE H + + ++IIF +V L K
Sbjct: 309 DQSVVISEKFANSIFAAVE-----HIKKQIKERDSNYKAIIFAPTVKFTSFLCSILKNEF 363
Query: 379 ELGYSCFYIHAKMLQDHRNRVFHDFRNGACRNLVCTDLFTRGIDIQAVNVVINFDFPKNS 438
+ H K+ Q+ R + F+ LVCTD+ RG+D V+ V+ P
Sbjct: 364 KKDLPILEFHGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSEL 423
Query: 439 ETYLHRVGRSGRFGHLGLAVNLI 461
Y+HR+GR+ R G G +V I
Sbjct: 424 ANYIHRIGRTARSGKEGSSVLFI 446
>pdb|3SQX|A Chain A, Structure Of Mss116p (Nte And C-Tail Double Deletion)
Bound To Ssrna And Amp-Pnp
Length = 512
Score = 112 bits (279), Expect = 6e-25, Method: Compositional matrix adjust.
Identities = 106/383 (27%), Positives = 171/383 (44%), Gaps = 53/383 (13%)
Query: 122 FEDYFLKRELLMGIFEKGFERPSPIQEESIPIALTGSD--ILARAKNGTGKTAAFCIPAL 179
E+ L +E+ I F +P+Q+++I L+ D ++ARAK GTGKT AF IP
Sbjct: 23 LEEGVLDKEIHKAITRMEFPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIF 82
Query: 180 E-----KIDQDNNVIQVVILVPTRELALQTSQVCKE-------LGKHLNIQVMVTTGGTS 227
+ K D +++ VI+ PTR+LALQ K+ L K+ + ++ GGT
Sbjct: 83 QHLINTKFDS-QYMVKAVIVAPTRDLALQIEAEVKKIHDMNYGLKKYACVSLV---GGTD 138
Query: 228 LKDDI--MRLYQPVHLLVGTPGRILD-LSKKGVCILKDCSMLVMDEADKLLSPEFQPSVE 284
+ + M +P ++++ TPGR++D L K + V+DEAD+LL F+ +E
Sbjct: 139 FRAAMNKMNKLRP-NIVIATPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLEIGFRDDLE 197
Query: 285 QLIRFL-------PANRQILMFSATFPVTVKDFKDKYLQK-------------PYVINLM 324
+ L N + L+FSAT V+ + + K P +
Sbjct: 198 TISGILNEKNSKSADNIKTLLFSATLDDKVQKLANNIMNKKECLFLDTVDKNEPEAHERI 257
Query: 325 DE---LTLKGITQYYAFVEERQKVHCLNTLFSKLQINQSIIFCNSVNRVELLA---KKIT 378
D+ ++ K +A VE H + + ++IIF +V L K
Sbjct: 258 DQSVVISEKFANSIFAAVE-----HIKKQIKERDSNYKAIIFAPTVKFTSFLCSILKNEF 312
Query: 379 ELGYSCFYIHAKMLQDHRNRVFHDFRNGACRNLVCTDLFTRGIDIQAVNVVINFDFPKNS 438
+ H K+ Q+ R + F+ LVCTD+ RG+D V+ V+ P
Sbjct: 313 KKDLPILEFHGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSEL 372
Query: 439 ETYLHRVGRSGRFGHLGLAVNLI 461
Y+HR+GR+ R G G +V I
Sbjct: 373 ANYIHRIGRTARSGKEGSSVLFI 395
>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 = 111 bits (277), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 57/164 (34%), Positives = 93/164 (56%), Gaps = 7/164 (4%)
Query: 327 LTLKGITQYYAFVEERQ-KVHCLNTLFSKLQINQSIIFCNSVNRVELLAKKITELGYSCF 385
LTL I QYY E R+ K L ++ + I Q+IIFC + + L ++ + G+
Sbjct: 3 LTLNNIRQYYVLCEHRKDKYQALCNIYGSITIGQAIIFCQTRRNAKWLTVEMIQDGHQVS 62
Query: 386 YIHAKMLQDHRNRVFHDFRNGACRNLVCTDLFTRGIDIQAVNVVINFDFP------KNSE 439
+ ++ + R + FR+G + L+ T++ RGID++ V +V+NFD P + E
Sbjct: 63 LLSGELTVEQRASIIQRFRDGKEKVLITTNVCARGIDVKQVTIVVNFDLPVKQGEEPDYE 122
Query: 440 TYLHRVGRSGRFGHLGLAVNLITYEDRFNLYRIEQELGTEIKQI 483
TYLHR+GR+GRFG GLA N+I ++ +L +I+ + IKQ+
Sbjct: 123 TYLHRIGRTGRFGKKGLAFNMIEVDELPSLMKIQDHFNSSIKQL 166
>pdb|2KBF|A Chain A, Solution Structure Of Carboxyl-Terminal Domain Of Dbp5p
Length = 187
Score = 97.8 bits (242), Expect = 1e-20, Method: Compositional matrix adjust.
Identities = 54/169 (31%), Positives = 91/169 (53%), Gaps = 9/169 (5%)
Query: 325 DELTLKGITQYYAFVE-ERQKVHCLNTLFSKLQINQSIIFCNSVNRVELLAKKITELGYS 383
+E+ + I Q Y + E K L L+ + I SIIF + +L K+ G+
Sbjct: 2 NEVNVDAIKQLYMDCKNEADKFDVLTELYGLMTIGSSIIFVATKKTANVLYGKLKSEGHE 61
Query: 384 CFYIHAKMLQDHRNRVFHDFRNGACRNLVCTDLFTRGIDIQAVNVVINFDFP------KN 437
+H + R+R+ DFR G + L+ T++ RGIDI V++V+N+D P +
Sbjct: 62 VSILHGDLQTQERDRLIDDFREGRSKVLITTNVLARGIDIPTVSMVVNYDLPTLANGQAD 121
Query: 438 SETYLHRVGRSGRFGHLGLAVNLITYEDRFN-LYRIEQELG-TEIKQIP 484
TY+HR+GR+GRFG G+A++ + ++ FN L I++ G E+ ++P
Sbjct: 122 PATYIHRIGRTGRFGRKGVAISFVHDKNSFNILSAIQKYFGDIEMTRVP 170
>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 = 95.1 bits (235), Expect = 8e-20, Method: Compositional matrix adjust.
Identities = 54/169 (31%), Positives = 88/169 (52%), Gaps = 9/169 (5%)
Query: 325 DELTLKGITQYYAFVE-ERQKVHCLNTLFSKLQINQSIIFCNSVNRVELLAKKITELGYS 383
+E+ + I Q Y + E K L L+ I SIIF + +L K+ G+
Sbjct: 3 NEVNVDAIKQLYXDCKNEADKFDVLTELYGVXTIGSSIIFVATKKTANVLYGKLKSEGHE 62
Query: 384 CFYIHAKMLQDHRNRVFHDFRNGACRNLVCTDLFTRGIDIQAVNVVINFDFP------KN 437
+H + R+R+ DFR G + L+ T++ RGIDI V+ V+N+D P +
Sbjct: 63 VSILHGDLQTQERDRLIDDFREGRSKVLITTNVLARGIDIPTVSXVVNYDLPTLANGQAD 122
Query: 438 SETYLHRVGRSGRFGHLGLAVNLITYEDRFN-LYRIEQELG-TEIKQIP 484
TY+HR+GR+GRFG G+A++ + ++ FN L I++ G E ++P
Sbjct: 123 PATYIHRIGRTGRFGRKGVAISFVHDKNSFNILSAIQKYFGDIEXTRVP 171
>pdb|3GFP|A Chain A, Structure Of The C-Terminal Domain Of The Dead-Box Protein
Dbp5
Length = 189
Score = 95.1 bits (235), Expect = 8e-20, Method: Compositional matrix adjust.
Identities = 54/169 (31%), Positives = 88/169 (52%), Gaps = 9/169 (5%)
Query: 325 DELTLKGITQYYAFVE-ERQKVHCLNTLFSKLQINQSIIFCNSVNRVELLAKKITELGYS 383
+E+ + I Q Y + E K L L+ I SIIF + +L K+ G+
Sbjct: 4 NEVNVDAIKQLYXDCKNEADKFDVLTELYGLXTIGSSIIFVATKKTANVLYGKLKSEGHE 63
Query: 384 CFYIHAKMLQDHRNRVFHDFRNGACRNLVCTDLFTRGIDIQAVNVVINFDFP------KN 437
+H + R+R+ DFR G + L+ T++ RGIDI V+ V+N+D P +
Sbjct: 64 VSILHGDLQTQERDRLIDDFREGRSKVLITTNVLARGIDIPTVSXVVNYDLPTLANGQAD 123
Query: 438 SETYLHRVGRSGRFGHLGLAVNLITYEDRFN-LYRIEQELG-TEIKQIP 484
TY+HR+GR+GRFG G+A++ + ++ FN L I++ G E ++P
Sbjct: 124 PATYIHRIGRTGRFGRKGVAISFVHDKNSFNILSAIQKYFGDIEXTRVP 172
>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 = 94.7 bits (234), Expect = 1e-19, Method: Compositional matrix adjust.
Identities = 53/153 (34%), Positives = 79/153 (51%), Gaps = 1/153 (0%)
Query: 330 KGITQYYAFVEE-RQKVHCLNTLFSKLQINQSIIFCNSVNRVELLAKKITELGYSCFYIH 388
K I Q+Y ++ K L L + + +SI+F RV LA + E G + Y+
Sbjct: 2 KKIHQWYYRADDLEHKTALLVHLLKQPEATRSIVFVRKRERVHELANWLREAGINNCYLE 61
Query: 389 AKMLQDHRNRVFHDFRNGACRNLVCTDLFTRGIDIQAVNVVINFDFPKNSETYLHRVGRS 448
+M+Q RN G LV TD+ RGIDI V+ V NFD P++ +TYLHR+GR+
Sbjct: 62 GEMVQGKRNEAIKRLTEGRVNVLVATDVAARGIDIPDVSHVFNFDMPRSGDTYLHRIGRT 121
Query: 449 GRFGHLGLAVNLITYEDRFNLYRIEQELGTEIK 481
R G G A++L+ D L ++ + + IK
Sbjct: 122 ARAGRKGTAISLVEAHDHLLLGKVGRYIEEPIK 154
>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 = 93.2 bits (230), Expect = 3e-19, Method: Compositional matrix adjust.
Identities = 58/167 (34%), Positives = 86/167 (51%), Gaps = 3/167 (1%)
Query: 328 TLKGITQYYAFVEERQK-VHCLNTLFSKLQINQSIIFCNSVNRVELLAKKITELGYSCFY 386
T + ITQ +VEE K L+ L + + + +++F + + L + GY+C
Sbjct: 16 TSENITQKVVWVEESDKRSFLLDLLNATGKDSLTLVFVETKKGADSLEDFLYHEGYACTS 75
Query: 387 IHAKMLQDHRNRVFHDFRNGACRNLVCTDLFTRGIDIQAVNVVINFDFPKNSETYLHRVG 446
IH Q R H FR+G LV T + RG+DI V VINFD P + E Y+HR+G
Sbjct: 76 IHGDRSQRDREEALHQFRSGKSPILVATAVAARGLDISNVKHVINFDLPSDIEEYVHRIG 135
Query: 447 RSGRFGHLGLAVNLITYEDRFNLYRIEQELGTEIKQ-IPPHIDQAIY 492
R+GR G+LGLA + E N+ + +L E KQ +P ++ Y
Sbjct: 136 RTGRVGNLGLATSFFN-ERNINITKDLLDLLVEAKQEVPSWLENMAY 181
>pdb|3DKP|A Chain A, Human Dead-Box Rna-Helicase Ddx52, Conserved Domain I In
Complex With Adp
Length = 245
Score = 88.6 bits (218), Expect = 7e-18, Method: Compositional matrix adjust.
Identities = 73/211 (34%), Positives = 107/211 (50%), Gaps = 18/211 (8%)
Query: 113 DVTATKGNEFEDYFLKRELLMGIFEKGFERPSPIQEESIPIALTGSDILARAKNGTGKTA 172
D AT ++Y + LL I + GF+ P+PIQ ++IP+ L G ++LA A G+GKT
Sbjct: 22 DPIATFQQLDQEYKINSRLLQNILDAGFQMPTPIQMQAIPVMLHGRELLASAPTGSGKTL 81
Query: 173 AFCIPALEKIDQ-DNNVIQVVILVPTRELALQTSQVCKEL-----GKHLNIQVMVTTGGT 226
AF IP L ++ Q N + +I+ PTRELA SQ+ +EL G I M+
Sbjct: 82 AFSIPILMQLKQPANKGFRALIISPTRELA---SQIHRELIKISEGTGFRIH-MIHKAAV 137
Query: 227 SLKDDIMRLYQPVHLLVGTPGRILDLSKK---GVCILKDCSMLVMDEADKLLSPEFQPSV 283
+ K + + +LV TP R++ L K+ G+ L LV+DE+DKL
Sbjct: 138 AAKKFGPKSSKKFDILVTTPNRLIYLLKQDPPGID-LASVEWLVVDESDKLFEDGKTGFR 196
Query: 284 EQLIR-FLPANRQIL---MFSATFPVTVKDF 310
+QL FL + MFSATF V+ +
Sbjct: 197 DQLASIFLACTSHKVRRAMFSATFAYDVEQW 227
>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 = 76.3 bits (186), Expect = 3e-14, Method: Compositional matrix adjust.
Identities = 47/154 (30%), Positives = 82/154 (53%), Gaps = 1/154 (0%)
Query: 342 RQKVHCLNTLFSKLQINQSIIFCNSVNRVELLAKKITELGYSCFYIHAKMLQDHRNRVFH 401
R ++ L+ L +++++F + E +A+ + LG+ +H M Q R RV
Sbjct: 13 RGRLEVLSDLLYVASPDRAMVFTRTKAETEEIAQGLLRLGHPAQALHGDMSQGERERVMG 72
Query: 402 DFRNGACRNLVCTDLFTRGIDIQAVNVVINFDFPKNSETYLHRVGRSGRFGHLGLAVNLI 461
FR G R LV TD+ RG+DI V++V+++ P +E Y HR GR+GR G G V L
Sbjct: 73 AFRQGEVRVLVATDVAARGLDIPQVDLVVHYRMPDRAEAYQHRSGRTGRAGRGGRVVLLY 132
Query: 462 TYEDRFNLYRIEQELGTEIKQI-PPHIDQAIYCR 494
+R ++ +E+ +G K++ PP ++ + +
Sbjct: 133 GPRERRDVEALERAVGRRFKRVNPPTPEEVLEAK 166
>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 = 75.1 bits (183), Expect = 8e-14, Method: Compositional matrix adjust.
Identities = 41/133 (30%), Positives = 66/133 (49%)
Query: 361 IIFCNSVNRVELLAKKITELGYSCFYIHAKMLQDHRNRVFHDFRNGACRNLVCTDLFTRG 420
+IF V+ + + + G IH Q+ R + FR G LV TD+ ++G
Sbjct: 58 LIFAEKKADVDAIHEYLLLKGVEAVAIHGGKDQEERTKAIEAFREGKKDVLVATDVASKG 117
Query: 421 IDIQAVNVVINFDFPKNSETYLHRVGRSGRFGHLGLAVNLITYEDRFNLYRIEQELGTEI 480
+D A+ VIN+D P+ E Y+HR+GR+G G+ G+A I ++ + L E
Sbjct: 118 LDFPAIQHVINYDMPEEIENYVHRIGRTGCSGNTGIATTFINKACDESVLMDLKALLLEA 177
Query: 481 KQIPPHIDQAIYC 493
KQ P + Q ++C
Sbjct: 178 KQKVPPVLQVLHC 190
>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 = 73.6 bits (179), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 45/144 (31%), Positives = 77/144 (53%)
Query: 342 RQKVHCLNTLFSKLQINQSIIFCNSVNRVELLAKKITELGYSCFYIHAKMLQDHRNRVFH 401
R ++ L+ L +++++F + E +A+ + LG+ +H + Q R RV
Sbjct: 16 RGRLEVLSDLLYVASPDRAMVFTRTKAETEEIAQGLLRLGHPAQALHGDLSQGERERVLG 75
Query: 402 DFRNGACRNLVCTDLFTRGIDIQAVNVVINFDFPKNSETYLHRVGRSGRFGHLGLAVNLI 461
FR G R LV TD+ RG+DI V++V+++ P +E Y HR GR+GR G G V L
Sbjct: 76 AFRQGEVRVLVATDVAARGLDIPQVDLVVHYRLPDRAEAYQHRSGRTGRAGRGGRVVLLY 135
Query: 462 TYEDRFNLYRIEQELGTEIKQIPP 485
+R ++ +E+ +G K++ P
Sbjct: 136 GPRERRDVEALERAVGRRFKRVNP 159
>pdb|1OYY|A Chain A, Structure Of The Recq Catalytic Core Bound To Atp-Gamma-S
Length = 523
Score = 68.9 bits (167), Expect = 6e-12, Method: Compositional matrix adjust.
Identities = 80/324 (24%), Positives = 143/324 (44%), Gaps = 24/324 (7%)
Query: 139 GFERPSPIQEESIPIALTGSDILARAKNGTGKTAAFCIPALEKIDQDNNVIQVVILVPTR 198
G+++ P QEE I L+G D L G GK+ + IPAL ++ + +V +
Sbjct: 22 GYQQFRPGQEEIIDTVLSGRDCLVVMPTGGGKSLCYQIPAL--------LLNGLTVVVSP 73
Query: 199 ELALQTSQVCKELGKHLNIQVMVTTGGTSLKDDIM---RLYQPVHLLVGTPGRILDLSKK 255
++L QV + + + +T + ++M R Q + LL P R++ +
Sbjct: 74 LISLMKDQVDQLQANGVAAACLNSTQTREQQLEVMTGCRTGQ-IRLLYIAPERLMLDNFL 132
Query: 256 GVCILKDCSMLVMDEADKL--LSPEFQP---SVEQLIRFLPANRQILMFSATFPVTVKDF 310
+ +L +DEA + +F+P ++ QL + P + + + T +D
Sbjct: 133 EHLAHWNPVLLAVDEAHCISQWGHDFRPEYAALGQLRQRFPTLPFMALTATADDTTRQDI 192
Query: 311 -KDKYLQKPYV-INLMDELTLKGITQYYAFVEERQKVHCLNTLFSKLQINQSIIFCNSVN 368
+ L P + I+ D ++ Y +E+ + + L + + II+CNS
Sbjct: 193 VRLLGLNDPLIQISSFDRPNIR-----YMLMEKFKPLDQLMRYVQEQRGKSGIIYCNSRA 247
Query: 369 RVELLAKKITELGYSCFYIHAKMLQDHRNRVFHDFRNGACRNLVCTDLFTRGIDIQAVNV 428
+VE A ++ G S HA + + R V F+ + +V T F GI+ V
Sbjct: 248 KVEDTAARLQSKGISAAAYHAGLENNVRADVQEKFQRDDLQIVVATVAFGMGINKPNVRF 307
Query: 429 VINFDFPKNSETYLHRVGRSGRFG 452
V++FD P+N E+Y GR+GR G
Sbjct: 308 VVHFDIPRNIESYYQETGRAGRDG 331
>pdb|1OYW|A Chain A, Structure Of The Recq Catalytic Core
Length = 523
Score = 67.0 bits (162), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 84/325 (25%), Positives = 138/325 (42%), Gaps = 26/325 (8%)
Query: 139 GFERPSPIQEESIPIALTGSDILARAKNGTGKTAAFCIPALEKIDQDNNVIQVVILVPTR 198
G+++ P QEE I L+G D L G GK+ + IPAL V ++ L +
Sbjct: 22 GYQQFRPGQEEIIDTVLSGRDCLVVXPTGGGKSLCYQIPALLLNGLTVVVSPLISLXKDQ 81
Query: 199 ELALQTSQV---CKELGKHLNIQVMVTTGGTSLKDDIMRLYQPVHLLVGTPGRI-LDLSK 254
LQ + V C + Q+ V TG + + + LL P R+ LD
Sbjct: 82 VDQLQANGVAAACLNSTQTREQQLEVXTGCRTGQ---------IRLLYIAPERLXLDNFL 132
Query: 255 KGVCILKDCSMLVMDEADKL--LSPEFQP---SVEQLIRFLPANRQILMFSATFPVTVKD 309
+ + +L +DEA + +F+P ++ QL + P + + T +D
Sbjct: 133 EHLAHWNPV-LLAVDEAHCISQWGHDFRPEYAALGQLRQRFPTLPFXALTATADDTTRQD 191
Query: 310 F-KDKYLQKPYV-INLMDELTLKGITQYYAFVEERQKVHCLNTLFSKLQINQSIIFCNSV 367
+ L P + I+ D ++ Y E+ + + L + + II+CNS
Sbjct: 192 IVRLLGLNDPLIQISSFDRPNIR-----YXLXEKFKPLDQLXRYVQEQRGKSGIIYCNSR 246
Query: 368 NRVELLAKKITELGYSCFYIHAKMLQDHRNRVFHDFRNGACRNLVCTDLFTRGIDIQAVN 427
+VE A ++ G S HA + + R V F+ + +V T F GI+ V
Sbjct: 247 AKVEDTAARLQSKGISAAAYHAGLENNVRADVQEKFQRDDLQIVVATVAFGXGINKPNVR 306
Query: 428 VVINFDFPKNSETYLHRVGRSGRFG 452
V++FD P+N E+Y GR+GR G
Sbjct: 307 FVVHFDIPRNIESYYQETGRAGRDG 331
>pdb|2ZJ2|A Chain A, Archaeal Dna Helicase Hjm Apo State In Form 1
pdb|2ZJ5|A Chain A, Archaeal Dna Helicase Hjm Complexed With Adp In Form 1
pdb|2ZJ8|A Chain A, Archaeal Dna Helicase Hjm Apo State In Form 2
pdb|2ZJA|A Chain A, Archaeal Dna Helicase Hjm Complexed With Amppcp In Form 2
Length = 720
Score = 60.5 bits (145), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 89/381 (23%), Positives = 157/381 (41%), Gaps = 62/381 (16%)
Query: 137 EKGFERPSPIQEESIPIA-LTGSDILARAKNGTGKTAAFCIPALEKIDQDNNVIQVVILV 195
E+G E P Q E++ L G + L +GKT I + +I + V +V
Sbjct: 18 ERGIESFYPPQAEALKSGILEGKNALISIPTASGKTLIAEIAMVHRILTQGG--KAVYIV 75
Query: 196 PTRELALQTSQVCKELGKHLNIQVMVTTGGTSLKDDIMRLYQPVHLLVGTPGRILDLSKK 255
P + LA + Q ++ K + ++V + TG KD+ + Y +++ T + L +
Sbjct: 76 PLKALAEEKFQEFQDWEK-IGLRVAMATGDYDSKDEWLGKYD---IIIATAEKFDSLLRH 131
Query: 256 GVCILKDCSMLVMDEADKLLSPEFQPSVEQLIRFLPANRQILMFSATF------------ 303
G +KD +LV DE + S + ++E ++ + QI+ SAT
Sbjct: 132 GSSWIKDVKILVADEIHLIGSRDRGATLEVILAHMLGKAQIIGLSATIGNPEELAEWLNA 191
Query: 304 PVTVKDFKDKYLQKPYV--------------INLMDELTLKGITQYYA---FVEERQKVH 346
+ V D++ L++ + +EL I + FV R+K
Sbjct: 192 ELIVSDWRPVKLRRGVFYQGFVTWEDGSIDRFSSWEELVYDAIRKKKGALIFVNMRRKAE 251
Query: 347 --------CLNTLFSKLQINQSIIFCNSVNR---VELLAKKITELGYSCFYIHAKMLQDH 395
+ +L +K +I +S+ E LAK I G F+ HA + +D
Sbjct: 252 RVALELSKKVKSLLTKPEIRALNELADSLEENPTNEKLAKAIR--GGVAFH-HAGLGRDE 308
Query: 396 RNRVFHDFRNGACRNLVCTDLFTRGIDIQAVNVVINFDFPKNSETYLHRV---------G 446
R V +FR G + +V T + GI+ A V+I D + S+ + R+ G
Sbjct: 309 RVLVEENFRKGIIKAVVATPTLSAGINTPAFRVIIR-DIWRYSDFGMERIPIIEVHQMLG 367
Query: 447 RSGR--FGHLGLAVNLITYED 465
R+GR + +G + + T +D
Sbjct: 368 RAGRPKYDEVGEGIIVSTSDD 388
>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 = 55.5 bits (132), Expect = 8e-08, Method: Compositional matrix adjust.
Identities = 26/78 (33%), Positives = 40/78 (51%)
Query: 388 HAKMLQDHRNRVFHDFRNGACRNLVCTDLFTRGIDIQAVNVVINFDFPKNSETYLHRVGR 447
H K+ Q+ R + F+ LVCTD+ RG+D V+ V+ P Y+HR+GR
Sbjct: 67 HGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGR 126
Query: 448 SGRFGHLGLAVNLITYED 465
+ R G G +V I ++
Sbjct: 127 TARSGKEGSSVLFICKDE 144
>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 = 55.5 bits (132), Expect = 8e-08, Method: Compositional matrix adjust.
Identities = 26/78 (33%), Positives = 40/78 (51%)
Query: 388 HAKMLQDHRNRVFHDFRNGACRNLVCTDLFTRGIDIQAVNVVINFDFPKNSETYLHRVGR 447
H K+ Q+ R + F+ LVCTD+ RG+D V+ V+ P Y+HR+GR
Sbjct: 67 HGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGR 126
Query: 448 SGRFGHLGLAVNLITYED 465
+ R G G +V I ++
Sbjct: 127 TARSGKEGSSVLFICKDE 144
>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 = 55.5 bits (132), Expect = 8e-08, Method: Compositional matrix adjust.
Identities = 26/78 (33%), Positives = 40/78 (51%)
Query: 388 HAKMLQDHRNRVFHDFRNGACRNLVCTDLFTRGIDIQAVNVVINFDFPKNSETYLHRVGR 447
H K+ Q+ R + F+ LVCTD+ RG+D V+ V+ P Y+HR+GR
Sbjct: 67 HGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGR 126
Query: 448 SGRFGHLGLAVNLITYED 465
+ R G G +V I ++
Sbjct: 127 TARSGKEGSSVLFICKDE 144
>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 = 52.0 bits (123), Expect = 8e-07, Method: Compositional matrix adjust.
Identities = 80/316 (25%), Positives = 132/316 (41%), Gaps = 32/316 (10%)
Query: 152 PIALTGSDILARAKNGTGKTAAFCIPALEKIDQDNNVIQVVILVPTRELALQTSQVCKEL 211
P+A+ D L G GKT A +D N QV +LVPT LA Q ++
Sbjct: 622 PLAM---DRLVCGDVGFGKTEVAMRAAFLAVD---NHKQVAVLVPTTLLAQQHYDNFRDR 675
Query: 212 GKHLNIQVMVTTGGTSLKDDIMRLYQ----PVHLLVGTPGRILDLSKKGVCILKDCSMLV 267
+ +++ + + S K+ L + + +L+GT ++L K KD +L+
Sbjct: 676 FANWPVRIEMISRFRSAKEQTQILAEVAEGKIDILIGT-HKLLQSDVK----FKDLGLLI 730
Query: 268 MDEADKLLSPEFQPSVEQLIRFLPANRQILMFSAT-FPVTVKDFKDKYLQKPYVINL--M 324
+DE + F ++ I+ + AN IL +AT P T+ + ++ +I
Sbjct: 731 VDEEHR-----FGVRHKERIKAMRANVDILTLTATPIPRTL-NMAMSGMRDLSIIATPPA 784
Query: 325 DELTLKGITQYYAFVEERQKVHCLNTLFSKLQINQSIIFCNSVNRVELLAKKITELGYSC 384
L +K + Y + R+ + L L+ Q N V ++ A+++ EL
Sbjct: 785 RRLAVKTFVREYDSMVVREAI-----LREILRGGQVYYLYNDVENIQKAAERLAELVPEA 839
Query: 385 FYI--HAKMLQDHRNRVFHDFRNGACRNLVCTDLFTRGIDIQAVNVVINFDFPKNSETYL 442
H +M + RV +DF + LVCT + GIDI N +I L
Sbjct: 840 RIAIGHGQMRERELERVMNDFHHQRFNVLVCTTIIETGIDIPTANTIIIERADHFGLAQL 899
Query: 443 HRV-GRSGRFGHLGLA 457
H++ GR GR H A
Sbjct: 900 HQLRGRVGRSHHQAYA 915
>pdb|2P6R|A Chain A, Crystal Structure Of Superfamily 2 Helicase Hel308 In
Complex With Unwound Dna
pdb|2P6U|A Chain A, Apo Structure Of The Hel308 Superfamily 2 Helicase
Length = 702
Score = 43.9 bits (102), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 83/384 (21%), Positives = 158/384 (41%), Gaps = 58/384 (15%)
Query: 133 MGIF-EKGFERPSPIQEESIPIALTGSDILARAKNGTGKTAAFCIPALEKIDQDNNVIQV 191
+GI E+G E P Q E++ +G ++L GKT + + + + + V
Sbjct: 15 VGILKEEGIEELFPPQAEAVEKVFSGKNLLLAMPTAAGKTLLAEMAMVREAIKGGKSLYV 74
Query: 192 VILVPTRELALQTSQVCKELGKHLNIQVMVTTGGTSLKDDIMRLYQPVHLLVGTPGRILD 251
VP R LA + + K+ K + +++ ++TG +D+ + ++V T +
Sbjct: 75 ---VPLRALAGEKYESFKKWEK-IGLRIGISTGDYESRDEHL---GDCDIIVTTSEKADS 127
Query: 252 LSKKGVCILKDCSMLVMDEADKLLSPEFQPSVEQLI---RFLPANRQILMFSATFP--VT 306
L + +K S LV+DE L S + ++E L+ R + +++ SAT P
Sbjct: 128 LIRNRASWIKAVSCLVVDEIHLLDSEKRGATLEILVTKMRRMNKALRVIGLSATAPNVTE 187
Query: 307 VKDF--KDKYLQKPYVINLMDELTLKGITQYY--AFVEERQKVHCLNTLFSKLQINQSII 362
+ ++ D Y+ + L++ + +G + + AF R +V + + N ++
Sbjct: 188 IAEWLDADYYVSDWRPVPLVEGVLCEGTLELFDGAFSTSR-RVKFEELVEECVAENGGVL 246
Query: 363 FCNSVNR------VEL------------------------LAKKITE-LGYSCFYIHAKM 391
S R V+L +++K+ E + + HA +
Sbjct: 247 VFESTRRGAEKTAVKLSAITAKYVENEGLEKAILEENEGEMSRKLAECVRKGAAFHHAGL 306
Query: 392 LQDHRNRVFHDFRNGACRNLVCTDLFTRGIDIQAVNVVI----NFD-FPKNSET--YLHR 444
L R V FR G + +V T G+++ A V++ FD + K + Y
Sbjct: 307 LNGQRRVVEDAFRRGNIKVVVATPTLAAGVNLPARRVIVRSLYRFDGYSKRIKVSEYKQM 366
Query: 445 VGRSGRFG--HLGLAVNLITYEDR 466
GR+GR G G A+ ++ DR
Sbjct: 367 AGRAGRPGMDERGEAIIIVGKRDR 390
>pdb|1GM5|A Chain A, Structure Of Recg Bound To Three-Way Dna Junction
Length = 780
Score = 43.5 bits (101), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 76/316 (24%), Positives = 136/316 (43%), Gaps = 30/316 (9%)
Query: 161 LARAKNGTGKTAAFCIPALEKIDQDNNVIQVVILVPTRELALQTSQVCKELGKHLNIQVM 220
L + G+GKT + L +D Q +VPT LA+Q + E NI V
Sbjct: 393 LLQGDVGSGKT---VVAQLAILDNYEAGFQTAFMVPTSILAIQHYRRTVESFSKFNIHVA 449
Query: 221 VTTGGT--SLKDDI---MRLYQPVHLLVGTPGRI---LDLSKKGVCILKDCSMLVMDEAD 272
+ G T S K+ I +R Q + +++GT I + G+ I+ + + + +
Sbjct: 450 LLIGATTPSEKEKIKSGLRNGQ-IDVVIGTHALIQEDVHFKNLGLVIIDEQHRFGVKQRE 508
Query: 273 KLLSPEFQPSVEQLI-RFLPANRQI-LMFSATFPVTVKDFKDKYLQKPYVINLMDELTLK 330
L++ V+ L+ P R + L F VTV D + + V ++ + +
Sbjct: 509 ALMNK--GKMVDTLVMSATPIPRSMALAFYGDLDVTVID--EMPPGRKEVQTML--VPMD 562
Query: 331 GITQYYAFVEERQKVHCLNTLF---SKLQINQSIIFCNSVNRVELLAKKITELGYSCFYI 387
+ + Y FV RQ+V F ++ + + ++V E L+K++ + +
Sbjct: 563 RVNEVYEFV--RQEVMRGGQAFIVYPLIEESDKLNVKSAVEMYEYLSKEVFP-EFKLGLM 619
Query: 388 HAKMLQDHRNRVFHDFRNGACRNLVCTDLFTRGIDIQAVNVVINFDFPKNSETYLH---- 443
H ++ Q+ ++RV +F G LV T + GID+ NV++ + + LH
Sbjct: 620 HGRLSQEEKDRVMLEFAEGRYDILVSTTVIEVGIDVPRANVMVIENPERFGLAQLHQLRG 679
Query: 444 RVGRSGRFGHLGLAVN 459
RVGR G+ + L V
Sbjct: 680 RVGRGGQEAYCFLVVG 695
>pdb|2VA8|A Chain A, Dna Repair Helicase Hel308
pdb|2VA8|B Chain B, Dna Repair Helicase Hel308
Length = 715
Score = 42.7 bits (99), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 89/435 (20%), Positives = 168/435 (38%), Gaps = 88/435 (20%)
Query: 122 FEDYFLKRELLMGIFEKGFERPSPIQEESIPIAL-TGSDILARAKNGTGKTAAFCIPALE 180
ED L ++ I ++G ++ +P Q E++ L G+ +L + G+GKT + +
Sbjct: 10 IEDLKLPSNVIEIIKKRGIKKLNPPQTEAVKKGLLEGNRLLLTSPTGSGKTLIAEMGIIS 69
Query: 181 KIDQDNNVIQVVILVPTRELALQTSQVCKELGKHLNIQVMVTTGGTSLKDDIMRLYQPVH 240
+ ++ + + + P R L + K+ + + +V +T+G D ++ Y
Sbjct: 70 FLLKNGG--KAIYVTPLRALTNEKYLTFKDW-ELIGFKVAMTSGDYDTDDAWLKNYD--- 123
Query: 241 LLVGTPGRILDLSKKGVCILKDCSMLVMDEADKLLSPEFQPSVEQLIRFLPANRQILMFS 300
+++ T ++ L + L + + V+DE L PE P VE + R +L S
Sbjct: 124 IIITTYEKLDSLWRHRPEWLNEVNYFVLDELHYLNDPERGPVVES-VTIRAKRRNLLALS 182
Query: 301 ATFPVTVKDFKD--KYL-QKPYVINLMDELTLKGIT-------QYYAFVEER--QKVH-- 346
A T+ ++K K+L +P N ++G+ +Y ++ +KVH
Sbjct: 183 A----TISNYKQIAKWLGAEPVATNWRPVPLIEGVIYPERKKKEYNVIFKDNTTKKVHGD 238
Query: 347 ---CLNTLFSKLQINQSIIFCNSVNRVELLAKKITE------------------------ 379
TL S + Q ++F NS E A KI
Sbjct: 239 DAIIAYTLDSLSKNGQVLVFRNSRKMAESTALKIANYMNFVSLDENALSEILKQLDDIEE 298
Query: 380 ------------LGYSCFYIHAKMLQDHRNRVFHDFRNGACRNLVCTDLFTRGIDIQAVN 427
+ Y HA + + R+ + FR + +V T G+++ A
Sbjct: 299 GGSDEKELLKSLISKGVAYHHAGLSKALRDLIEEGFRQRKIKVIVATPTLAAGVNLPART 358
Query: 428 VVIN--FDFPKNSETYLHRV---------GRSGRFGHLGLAVNLITYEDRFNLYR----- 471
V+I + F K Y + GR+GR G + +++ D+ ++ R
Sbjct: 359 VIIGDIYRFNKKIAGYYDEIPIMEYKQMSGRAGRPGFDQIGESIVVVRDKEDVDRVFKKY 418
Query: 472 -------IEQELGTE 479
IE +LG+E
Sbjct: 419 VLSDVEPIESKLGSE 433
>pdb|3UWX|B Chain B, Crystal Structure Of Uvra-Uvrb Complex
Length = 683
Score = 40.8 bits (94), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 28/124 (22%), Positives = 56/124 (45%), Gaps = 8/124 (6%)
Query: 347 CLNTLFSKLQINQSIIFCNSVNRV-ELLAKKITELGYSCFYIHAKMLQDHRNRVFHDFRN 405
+ + +++ N+ + ++ E L + E G Y+H+++ R + D R
Sbjct: 459 LIGEIHERVERNERTLVTTLTKKMAEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRL 518
Query: 406 GACRNLVCTDLFTRGIDIQAVNVVINFD-----FPKNSETYLHRVGRSGR--FGHLGLAV 458
G LV +L G+DI V++V D F ++ + + +GR+ R GH+ +
Sbjct: 519 GKYDVLVGINLLREGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAARNANGHVIMYA 578
Query: 459 NLIT 462
+ IT
Sbjct: 579 DTIT 582
>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 = 40.8 bits (94), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 27/100 (27%), Positives = 46/100 (46%), Gaps = 7/100 (7%)
Query: 370 VELLAKKITELGYSCFYIHAKMLQDHRNRVFHDFRNGACRNLVCTDLFTRGIDIQAVNVV 429
E L + E G Y+H+++ R + D R G LV +L G+DI V++V
Sbjct: 458 AEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLREGLDIPEVSLV 517
Query: 430 INFD-----FPKNSETYLHRVGRSGR--FGHLGLAVNLIT 462
D F ++ + + +GR+ R GH+ + + IT
Sbjct: 518 AILDADKEGFLRSERSLIQTIGRAARNANGHVIMYADTIT 557
>pdb|1D9X|A Chain A, Crystal Structure Of The Dna Repair Protein Uvrb
Length = 658
Score = 40.4 bits (93), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 27/100 (27%), Positives = 46/100 (46%), Gaps = 7/100 (7%)
Query: 370 VELLAKKITELGYSCFYIHAKMLQDHRNRVFHDFRNGACRNLVCTDLFTRGIDIQAVNVV 429
E L + E G Y+H+++ R + D R G LV +L G+DI V++V
Sbjct: 458 AEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLREGLDIPEVSLV 517
Query: 430 INFD-----FPKNSETYLHRVGRSGR--FGHLGLAVNLIT 462
D F ++ + + +GR+ R GH+ + + IT
Sbjct: 518 AILDADKEGFLRSERSLIQTIGRAARNANGHVIMYADTIT 557
>pdb|1D9Z|A Chain A, Crystal Structure Of The Dna Repair Protein Uvrb In
Complex With Atp
Length = 657
Score = 40.4 bits (93), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 27/100 (27%), Positives = 46/100 (46%), Gaps = 7/100 (7%)
Query: 370 VELLAKKITELGYSCFYIHAKMLQDHRNRVFHDFRNGACRNLVCTDLFTRGIDIQAVNVV 429
E L + E G Y+H+++ R + D R G LV +L G+DI V++V
Sbjct: 457 AEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLREGLDIPEVSLV 516
Query: 430 INFD-----FPKNSETYLHRVGRSGR--FGHLGLAVNLIT 462
D F ++ + + +GR+ R GH+ + + IT
Sbjct: 517 AILDADKEGFLRSERSLIQTIGRAARNANGHVIMYADTIT 556
>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 = 40.4 bits (93), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 27/100 (27%), Positives = 46/100 (46%), Gaps = 7/100 (7%)
Query: 370 VELLAKKITELGYSCFYIHAKMLQDHRNRVFHDFRNGACRNLVCTDLFTRGIDIQAVNVV 429
E L + E G Y+H+++ R + D R G LV +L G+DI V++V
Sbjct: 458 AEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLREGLDIPEVSLV 517
Query: 430 INFD-----FPKNSETYLHRVGRSGR--FGHLGLAVNLIT 462
D F ++ + + +GR+ R GH+ + + IT
Sbjct: 518 AILDADKEGFLRSERSLIQTIGRAARNANGHVIMYADTIT 557
>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 = 40.4 bits (93), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 30/112 (26%), Positives = 47/112 (41%), Gaps = 3/112 (2%)
Query: 361 IIFCNSVNRVELLAKKITELGYSCFYIHAKMLQDHRNRVFHDFRNGACRNLVCTDLFTRG 420
II+C S E + + LG HA + + + V + + +V T F G
Sbjct: 271 IIYCFSQKDSEQVTVSLQNLGIHAGAYHANLEPEDKTTVHRKWSANEIQVVVATVAFGMG 330
Query: 421 IDIQAVNVVINFDFPKNSETYLHRVGRSGRFGHLGLAVNLITYEDRFNLYRI 472
ID V VI+ K+ E Y GR+GR + + I Y +++RI
Sbjct: 331 IDKPDVRFVIHHSMSKSMENYYQESGRAGRD---DMKADCILYYGFGDIFRI 379
Score = 32.3 bits (72), Expect = 0.60, Method: Compositional matrix adjust.
Identities = 14/51 (27%), Positives = 29/51 (56%), Gaps = 2/51 (3%)
Query: 129 RELLMGIFEKGFERPSPIQEESIPIALTGSDILARAKNGTGKTAAFCIPAL 179
+++L +F+ E+ P+Q E+I + + G ++ G GK+ + +PAL
Sbjct: 33 KDILQNVFK--LEKFRPLQLETINVTMAGKEVFLVMPTGGGKSLCYQLPAL 81
>pdb|3V4R|A Chain A, Crystal Structure Of A Uvrb Dimer-Dna Complex
pdb|3V4R|B Chain B, Crystal Structure Of A Uvrb Dimer-Dna Complex
Length = 667
Score = 40.0 bits (92), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 24/104 (23%), Positives = 50/104 (48%), Gaps = 6/104 (5%)
Query: 353 SKLQINQSIIFCNSVNRV-ELLAKKITELGYSCFYIHAKMLQDHRNRVFHDFRNGACRNL 411
++++ N+ ++ ++ E L + E+G Y+H+++ R + D R G L
Sbjct: 446 ARIERNERVLVTTLTKKMSEDLTDYLKEIGIKVNYLHSEIKTLERIEIIRDLRLGKYDVL 505
Query: 412 VCTDLFTRGIDIQAVNVVINFD-----FPKNSETYLHRVGRSGR 450
V +L G+DI V++V D F ++ + + +GR+ R
Sbjct: 506 VGINLLREGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAAR 549
>pdb|2D7D|A Chain A, Structural Insights Into The Cryptic Dna Dependent Atp-Ase
Activity Of Uvrb
pdb|2NMV|A Chain A, Damage Detection By The Uvrabc Pathway: Crystal Structure
Of Uvrb Bound To Fluorescein-Adducted Dna
Length = 661
Score = 40.0 bits (92), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 24/104 (23%), Positives = 50/104 (48%), Gaps = 6/104 (5%)
Query: 353 SKLQINQSIIFCNSVNRV-ELLAKKITELGYSCFYIHAKMLQDHRNRVFHDFRNGACRNL 411
++++ N+ ++ ++ E L + E+G Y+H+++ R + D R G L
Sbjct: 440 ARIERNERVLVTTLTKKMSEDLTDYLKEIGIKVNYLHSEIKTLERIEIIRDLRLGKYDVL 499
Query: 412 VCTDLFTRGIDIQAVNVVINFD-----FPKNSETYLHRVGRSGR 450
V +L G+DI V++V D F ++ + + +GR+ R
Sbjct: 500 VGINLLREGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAAR 543
>pdb|1D2M|A Chain A, Uvrb Protein Of Thermus Thermophilus Hb8; A Nucleotide
Excision Repair Enzyme
Length = 665
Score = 38.5 bits (88), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 24/98 (24%), Positives = 44/98 (44%), Gaps = 5/98 (5%)
Query: 358 NQSIIFCNSVNRVELLAKKITELGYSCFYIHAKMLQDHRNRVFHDFRNGACRNLVCTDLF 417
++++ +V E L + E G Y+H ++ R + D R G LV +L
Sbjct: 441 ERTLVTVLTVRMAEELTSFLVEHGIRARYLHHELDAFKRQALIRDLRLGHYDCLVGINLL 500
Query: 418 TRGIDIQAVNVVINFD-----FPKNSETYLHRVGRSGR 450
G+DI V++V D F ++ + + +GR+ R
Sbjct: 501 REGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAAR 538
>pdb|1C4O|A Chain A, Crystal Structure Of The Dna Nucleotide Excision Repair
Enzyme Uvrb From Thermus Thermophilus
Length = 664
Score = 38.5 bits (88), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 24/98 (24%), Positives = 44/98 (44%), Gaps = 5/98 (5%)
Query: 358 NQSIIFCNSVNRVELLAKKITELGYSCFYIHAKMLQDHRNRVFHDFRNGACRNLVCTDLF 417
++++ +V E L + E G Y+H ++ R + D R G LV +L
Sbjct: 440 ERTLVTVLTVRMAEELTSFLVEHGIRARYLHHELDAFKRQALIRDLRLGHYDCLVGINLL 499
Query: 418 TRGIDIQAVNVVINFD-----FPKNSETYLHRVGRSGR 450
G+DI V++V D F ++ + + +GR+ R
Sbjct: 500 REGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAAR 537
>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 = 37.7 bits (86), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 25/109 (22%), Positives = 47/109 (43%), Gaps = 11/109 (10%)
Query: 342 RQKVHCLNTLFSKLQINQSIIFCNSVNRVELLAKKITELGYSCFYIHA---KMLQDHRNR 398
+ K+ L + + + ++ IIF V ++K F I A + ++ R
Sbjct: 334 KNKIRKLREILERHRKDKIIIFTRHNELVYRISK--------VFLIPAITHRTSREEREE 385
Query: 399 VFHDFRNGACRNLVCTDLFTRGIDIQAVNVVINFDFPKNSETYLHRVGR 447
+ FR G R +V + + GID+ NV + ++ Y+ R+GR
Sbjct: 386 ILEGFRTGRFRAIVSSQVLDEGIDVPDANVGVIMSGSGSAREYIQRLGR 434
>pdb|2FZL|A Chain A, Structure Of C-Terminal Domain Of Archaeoglobus Fulgidus
Xpb
Length = 219
Score = 37.0 bits (84), Expect = 0.028, Method: Compositional matrix adjust.
Identities = 25/109 (22%), Positives = 47/109 (43%), Gaps = 11/109 (10%)
Query: 342 RQKVHCLNTLFSKLQINQSIIFCNSVNRVELLAKKITELGYSCFYIHA---KMLQDHRNR 398
+ K+ L + + + ++ IIF V ++K F I A + ++ R
Sbjct: 99 KNKIRKLREILERHRKDKIIIFTRHNELVYRISK--------VFLIPAITHRTSREEREE 150
Query: 399 VFHDFRNGACRNLVCTDLFTRGIDIQAVNVVINFDFPKNSETYLHRVGR 447
+ FR G R +V + + GID+ NV + ++ Y+ R+GR
Sbjct: 151 ILEGFRTGRFRAIVSSQVLDEGIDVPDANVGVIMSGSGSAREYIQRLGR 199
>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 = 36.2 bits (82), Expect = 0.041, Method: Compositional matrix adjust.
Identities = 17/58 (29%), Positives = 27/58 (46%)
Query: 391 MLQDHRNRVFHDFRNGACRNLVCTDLFTRGIDIQAVNVVINFDFPKNSETYLHRVGRS 448
M Q+ + V FR G L+ T + G+DI+ N+VI + N + GR+
Sbjct: 448 MTQNEQKEVISKFRTGKINLLIATTVAEEGLDIKECNIVIRYGLVTNEIAMVQARGRA 505
>pdb|4A4Z|A Chain A, Crystal Structure Of The S. Cerevisiae Dexh Helicase Ski2
Bound To Amppnp
Length = 997
Score = 35.0 bits (79), Expect = 0.087, Method: Compositional matrix adjust.
Identities = 35/162 (21%), Positives = 69/162 (42%), Gaps = 16/162 (9%)
Query: 147 QEESIPIALTGSDILARAKNGTGKT--AAFCIPALEKIDQDNNVIQVVILVPTRELALQT 204
Q+E++ G + A GKT A + I + N+ + + P + L+ Q
Sbjct: 44 QKEAVYHLEQGDSVFVAAHTSAGKTVVAEYAIAMAHR-----NMTKTIYTSPIKALSNQK 98
Query: 205 SQVCKELGKHLNIQVMVTTGGTSLKDDIMRLYQPVHLLVGTPGRILDLSKKGVCILKDCS 264
+ KE +NI ++ TG + D + L+ T + + +G +++D
Sbjct: 99 FRDFKETFDDVNIGLI--TGDVQINPD-------ANCLIMTTEILRSMLYRGADLIRDVE 149
Query: 265 MLVMDEADKLLSPEFQPSVEQLIRFLPANRQILMFSATFPVT 306
++ DE + + E++I LP + + ++ SAT P T
Sbjct: 150 FVIFDEVHYVNDQDRGVVWEEVIIMLPQHVKFILLSATVPNT 191
>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 = 34.3 bits (77), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 28/108 (25%), Positives = 53/108 (49%), Gaps = 3/108 (2%)
Query: 166 NGTGKTAAFCIPALEKIDQDNNVIQVVILVPTRELALQTSQVCKELGKHLNIQVMVTTGG 225
G GKT + A ++ + +V++L PT+ L LQ ++ + L +L + +V G
Sbjct: 32 TGLGKTLIAMMIAEYRLTKYGG--KVLMLAPTKPLVLQHAESFRRLF-NLPPEKIVALTG 88
Query: 226 TSLKDDIMRLYQPVHLLVGTPGRILDLSKKGVCILKDCSMLVMDEADK 273
++ + + ++V TP I + G L+D S++V DEA +
Sbjct: 89 EKSPEERSKAWARAKVIVATPQTIENDLLAGRISLEDVSLIVFDEAHR 136
Score = 32.0 bits (71), Expect = 0.77, Method: Compositional matrix adjust.
Identities = 15/58 (25%), Positives = 30/58 (51%)
Query: 393 QDHRNRVFHDFRNGACRNLVCTDLFTRGIDIQAVNVVINFDFPKNSETYLHRVGRSGR 450
Q + + +F G LV T + G+D+ V++V+ ++ ++ + R GR+GR
Sbjct: 405 QREQKLILDEFARGEFNVLVATSVGEEGLDVPEVDLVVFYEPVPSAIRSIQRRGRTGR 462
>pdb|3DMQ|A Chain A, Crystal Structure Of Rapa, A Swi2SNF2 PROTEIN THAT
Recycles Rna Polymerase During Transcription
pdb|3DMQ|B Chain B, Crystal Structure Of Rapa, A Swi2SNF2 PROTEIN THAT
Recycles Rna Polymerase During Transcription
Length = 968
Score = 33.1 bits (74), Expect = 0.40, Method: Compositional matrix adjust.
Identities = 15/71 (21%), Positives = 33/71 (46%)
Query: 383 SCFYIHAKMLQDHRNRVFHDFRNGACRNLVCTDLFTRGIDIQAVNVVINFDFPKNSETYL 442
+ F+ +++ R + + + L+C+++ + G + Q + + FD P N +
Sbjct: 532 AVFHEGXSIIERDRAAAWFAEEDTGAQVLLCSEIGSEGRNFQFASHXVXFDLPFNPDLLE 591
Query: 443 HRVGRSGRFGH 453
R+GR R G
Sbjct: 592 QRIGRLDRIGQ 602
>pdb|2XGJ|A Chain A, Structure Of Mtr4, A Dexh Helicase Involved In Nuclear Rna
Processing And Surveillance
pdb|2XGJ|B Chain B, Structure Of Mtr4, A Dexh Helicase Involved In Nuclear Rna
Processing And Surveillance
Length = 1010
Score = 32.7 bits (73), Expect = 0.51, Method: Compositional matrix adjust.
Identities = 38/163 (23%), Positives = 65/163 (39%), Gaps = 20/163 (12%)
Query: 145 PIQEESIPIALTGSDILARAKNGTGKT--AAFCIPALEKIDQDNNVIQVVILVPTRELAL 202
P Q+ +I G +L A GKT A + I K Q +V+ P + L+
Sbjct: 89 PFQDTAISCIDRGESVLVSAHTSAGKTVVAEYAIAQSLKNKQ-----RVIYTSPIKALSN 143
Query: 203 QT-SQVCKELGKHLNIQVMVTTGGTSLKDDIMRLYQPVHLLVGTPGRILDLSKKGVCILK 261
Q ++ E G V + TG ++ D LV T + + +G +++
Sbjct: 144 QKYRELLAEFG-----DVGLMTGDITINPD-------AGCLVMTTEILRSMLYRGSEVMR 191
Query: 262 DCSMLVMDEADKLLSPEFQPSVEQLIRFLPANRQILMFSATFP 304
+ + ++ DE + E E+ I LP + + SAT P
Sbjct: 192 EVAWVIFDEVHYMRDKERGVVWEETIILLPDKVRYVFLSATIP 234
>pdb|3L9O|A Chain A, Crystal Structure Of Mtr4, A Co-Factor Of The Nuclear
Exosome
Length = 1108
Score = 32.3 bits (72), Expect = 0.65, Method: Compositional matrix adjust.
Identities = 38/163 (23%), Positives = 65/163 (39%), Gaps = 20/163 (12%)
Query: 145 PIQEESIPIALTGSDILARAKNGTGKT--AAFCIPALEKIDQDNNVIQVVILVPTRELAL 202
P Q+ +I G +L A GKT A + I K Q +V+ P + L+
Sbjct: 187 PFQDTAISCIDRGESVLVSAHTSAGKTVVAEYAIAQSLKNKQ-----RVIYTSPIKALSN 241
Query: 203 QT-SQVCKELGKHLNIQVMVTTGGTSLKDDIMRLYQPVHLLVGTPGRILDLSKKGVCILK 261
Q ++ E G V + TG ++ D LV T + + +G +++
Sbjct: 242 QKYRELLAEFG-----DVGLMTGDITINPD-------AGCLVMTTEILRSMLYRGSEVMR 289
Query: 262 DCSMLVMDEADKLLSPEFQPSVEQLIRFLPANRQILMFSATFP 304
+ + ++ DE + E E+ I LP + + SAT P
Sbjct: 290 EVAWVIFDEVHYMRDKERGVVWEETIILLPDKVRYVFLSATIP 332
>pdb|3U44|A Chain A, Crystal Structure Of Addab-Dna Complex
pdb|3U4Q|A Chain A, Structure Of Addab-Dna Complex At 2.8 Angstroms
Length = 1232
Score = 32.3 bits (72), Expect = 0.68, Method: Compositional matrix adjust.
Identities = 17/39 (43%), Positives = 20/39 (51%)
Query: 153 IALTGSDILARAKNGTGKTAAFCIPALEKIDQDNNVIQV 191
I TG DIL A G+GKTA + KI + N I V
Sbjct: 19 IVSTGQDILVAAAAGSGKTAVLVERMIRKITAEENPIDV 57
>pdb|4I1S|A Chain A, Melanoma Differentiation Associated Protein-5 Helicase
Domain Complex With Inhibitor Non-structural Protein V
Length = 243
Score = 30.8 bits (68), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 18/66 (27%), Positives = 30/66 (45%), Gaps = 8/66 (12%)
Query: 375 KKITELGYSCFYI----HAKML----QDHRNRVFHDFRNGACRNLVCTDLFTRGIDIQAV 426
KK E+G ++ H+ Q+ + V FR G L+ T + G+DI+
Sbjct: 174 KKFAEVGVKAHHLIGAGHSSEFKPXTQNEQREVISKFRTGKINLLIATTVAEEGLDIKEC 233
Query: 427 NVVINF 432
N+VI +
Sbjct: 234 NIVIRY 239
>pdb|2GHI|A Chain A, Crystal Structure Of Plasmodium Yoelii Multidrug
Resistance Protein 2
pdb|2GHI|B Chain B, Crystal Structure Of Plasmodium Yoelii Multidrug
Resistance Protein 2
pdb|2GHI|C Chain C, Crystal Structure Of Plasmodium Yoelii Multidrug
Resistance Protein 2
pdb|2GHI|D Chain D, Crystal Structure Of Plasmodium Yoelii Multidrug
Resistance Protein 2
Length = 260
Score = 29.3 bits (64), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 21/88 (23%), Positives = 40/88 (45%), Gaps = 5/88 (5%)
Query: 218 QVMVTTGGTSLKDDIMRLYQPVHLLVGTPGRILDLSKK-----GVCILKDCSMLVMDEAD 272
+V+ T L D I L + +VG G L ++ C+LKD +++ DEA
Sbjct: 124 EVIKATKSAQLYDFIEALPKKWDTIVGNKGMKLSGGERQRIAIARCLLKDPKIVIFDEAT 183
Query: 273 KLLSPEFQPSVEQLIRFLPANRQILMFS 300
L + + ++ + L NR +++ +
Sbjct: 184 SSLDSKTEYLFQKAVEDLRKNRTLIIIA 211
>pdb|2BDT|A Chain A, Crystal Structure Of The Putative Gluconate Kinase From
Bacillus Halodurans, Northeast Structural Genomics
Target Bhr61
Length = 189
Score = 29.3 bits (64), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 43/177 (24%), Positives = 73/177 (41%), Gaps = 19/177 (10%)
Query: 205 SQVCKELGKHLNIQVMVTTGGTSLKDDIMRLYQPV----HLLVGTPGRILDLSKKGVCIL 260
S CK L L+ + G + ++ Y+P LL T I DL+ +
Sbjct: 16 STTCKRLAAQLDNSAYIE--GDIINHXVVGGYRPPWESDELLALTWKNITDLTVNFLLAQ 73
Query: 261 KDCSMLVM---DEADKLLSPEFQPSVEQL-IRF--LPANRQILMFSATFPVTVKDFKDKY 314
D + + DEA+ L + Q V+ + IRF L NR+ L+ + ++
Sbjct: 74 NDVVLDYIAFPDEAEAL-AQTVQAKVDDVEIRFIILWTNREELLRRDALRKKDEQXGERC 132
Query: 315 LQKPYVINLMDELTLKGITQYYAFVEERQKVHCLNTLFSKLQINQSIIFCNSVNRVE 371
L+ L++E KGI + Y + + LN + L+ N IFC + + +E
Sbjct: 133 LE------LVEEFESKGIDERYFYNTSHLQPTNLNDIVKNLKTNPRFIFCXAGDPLE 183
>pdb|1KSF|X Chain X, Crystal Structure Of Clpa, An Hsp100 Chaperone And
Regulator Of Clpap Protease: Structural Basis Of
Differences In Function Of The Two Aaa+ Atpase Domains
pdb|1R6B|X Chain X, High Resolution Crystal Structure Of Clpa
Length = 758
Score = 28.9 bits (63), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 22/78 (28%), Positives = 42/78 (53%), Gaps = 4/78 (5%)
Query: 215 LNIQVMVTTGGTSLKDDIMRL--YQPVHLLVGTPGRILDLSKKGVCIL-KDCSMLVMDEA 271
NI + V GT L D+ R ++ V L++ T + + +K + ++ +D S M+E
Sbjct: 574 FNILLQVMDNGT-LTDNNGRKADFRNVVLVMTTNAGVRETERKSIGLIHQDNSTDAMEEI 632
Query: 272 DKLLSPEFQPSVEQLIRF 289
K+ +PEF+ ++ +I F
Sbjct: 633 KKIFTPEFRNRLDNIIWF 650
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
0.321 0.138 0.407
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 14,296,643
Number of Sequences: 62578
Number of extensions: 581312
Number of successful extensions: 1481
Number of sequences better than 100.0: 96
Number of HSP's better than 100.0 without gapping: 87
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 1243
Number of HSP's gapped (non-prelim): 106
length of query: 494
length of database: 14,973,337
effective HSP length: 103
effective length of query: 391
effective length of database: 8,527,803
effective search space: 3334370973
effective search space used: 3334370973
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 53 (25.0 bits)