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= 015454
(406 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 670 bits (1728), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 312/387 (80%), Positives = 355/387 (91%)
Query: 20 KMVFETTEGVEAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQS 79
K+ FET+E V+ +FD MG+++DLLRGIY YGFEKPSAIQQRA+ IIKGRDVIAQ+QS
Sbjct: 25 KVEFETSEEVDVTPTFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQS 84
Query: 80 GTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGK 139
GTGKT+ +++V Q +D RE QALIL+PTRELA Q +K +LA+GD++N+Q HAC+GG
Sbjct: 85 GTGKTATFSISVLQCLDIQVRETQALILAPTRELAVQIQKGLLALGDYMNVQCHACIGGT 144
Query: 140 SVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDV 199
+VGEDIRKL++G HVV+GTPGRV DMI+R++LRTRAIK+LVLDE+DEML++GFK+QIYDV
Sbjct: 145 NVGEDIRKLDYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDV 204
Query: 200 YRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWK 259
YRYLPP QVVLISATLPHEILEMT KFMTDP++ILVKRDELTLEGIKQFFVAVEREEWK
Sbjct: 205 YRYLPPATQVVLISATLPHEILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWK 264
Query: 260 FDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFR 319
FDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMR NFTVSSMHGDMPQKER++IM EFR
Sbjct: 265 FDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFR 324
Query: 320 SGTTRVLITTDVWARGLDVQQVSLVINYDLPNNRELYIHRIGRSGRFGRKGVAINFVKND 379
SG +RVLI+TDVWARGLDV QVSL+INYDLPNNRELYIHRIGRSGR+GRKGVAINFVKND
Sbjct: 325 SGASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAINFVKND 384
Query: 380 DIKILRDIEQYYSTQIDEMPMNVADLI 406
DI+ILRDIEQYYSTQIDEMPMNVADLI
Sbjct: 385 DIRILRDIEQYYSTQIDEMPMNVADLI 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 = 670 bits (1728), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 312/387 (80%), Positives = 355/387 (91%)
Query: 20 KMVFETTEGVEAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQS 79
K+ FET+E V+ +FD MG+++DLLRGIY YGFEKPSAIQQRA+ IIKGRDVIAQ+QS
Sbjct: 25 KVEFETSEEVDVTPTFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQS 84
Query: 80 GTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGK 139
GTGKT+ +++V Q +D RE QALIL+PTRELA Q +K +LA+GD++N+Q HAC+GG
Sbjct: 85 GTGKTATFSISVLQCLDIQVRETQALILAPTRELAVQIQKGLLALGDYMNVQCHACIGGT 144
Query: 140 SVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDV 199
+VGEDIRKL++G HVV+GTPGRV DMI+R++LRTRAIK+LVLDE+DEML++GFK+QIYDV
Sbjct: 145 NVGEDIRKLDYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDV 204
Query: 200 YRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWK 259
YRYLPP QVVLISATLPHEILEMT KFMTDP++ILVKRDELTLEGIKQFFVAVEREEWK
Sbjct: 205 YRYLPPATQVVLISATLPHEILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWK 264
Query: 260 FDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFR 319
FDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMR NFTVSSMHGDMPQKER++IM EFR
Sbjct: 265 FDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFR 324
Query: 320 SGTTRVLITTDVWARGLDVQQVSLVINYDLPNNRELYIHRIGRSGRFGRKGVAINFVKND 379
SG +RVLI+TDVWARGLDV QVSL+INYDLPNNRELYIHRIGRSGR+GRKGVAINFVKND
Sbjct: 325 SGASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAINFVKND 384
Query: 380 DIKILRDIEQYYSTQIDEMPMNVADLI 406
DI+ILRDIEQYYSTQIDEMPMNVADLI
Sbjct: 385 DIRILRDIEQYYSTQIDEMPMNVADLI 411
>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 = 670 bits (1728), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 312/387 (80%), Positives = 355/387 (91%)
Query: 20 KMVFETTEGVEAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQS 79
K+ FET+E V+ +FD MG+++DLLRGIY YGFEKPSAIQQRA+ IIKGRDVIAQ+QS
Sbjct: 24 KVEFETSEEVDVTPTFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQS 83
Query: 80 GTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGK 139
GTGKT+ +++V Q +D RE QALIL+PTRELA Q +K +LA+GD++N+Q HAC+GG
Sbjct: 84 GTGKTATFSISVLQCLDIQVRETQALILAPTRELAVQIQKGLLALGDYMNVQCHACIGGT 143
Query: 140 SVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDV 199
+VGEDIRKL++G HVV+GTPGRV DMI+R++LRTRAIK+LVLDE+DEML++GFK+QIYDV
Sbjct: 144 NVGEDIRKLDYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDV 203
Query: 200 YRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWK 259
YRYLPP QVVLISATLPHEILEMT KFMTDP++ILVKRDELTLEGIKQFFVAVEREEWK
Sbjct: 204 YRYLPPATQVVLISATLPHEILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWK 263
Query: 260 FDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFR 319
FDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMR NFTVSSMHGDMPQKER++IM EFR
Sbjct: 264 FDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFR 323
Query: 320 SGTTRVLITTDVWARGLDVQQVSLVINYDLPNNRELYIHRIGRSGRFGRKGVAINFVKND 379
SG +RVLI+TDVWARGLDV QVSL+INYDLPNNRELYIHRIGRSGR+GRKGVAINFVKND
Sbjct: 324 SGASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAINFVKND 383
Query: 380 DIKILRDIEQYYSTQIDEMPMNVADLI 406
DI+ILRDIEQYYSTQIDEMPMNVADLI
Sbjct: 384 DIRILRDIEQYYSTQIDEMPMNVADLI 410
>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 = 668 bits (1723), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 312/387 (80%), Positives = 355/387 (91%)
Query: 20 KMVFETTEGVEAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQS 79
K+ FET+E V+ +FD MG+++DLLRGIY YGFEKPSAIQQRA+ IIKGRDVIAQ+QS
Sbjct: 3 KVEFETSEEVDVTPTFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQS 62
Query: 80 GTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGK 139
GTGKT+ +++V Q +D RE QALIL+PTRELA Q +K +LA+GD++N+Q HAC+GG
Sbjct: 63 GTGKTATFSISVLQCLDIQVRETQALILAPTRELAVQIQKGLLALGDYMNVQCHACIGGT 122
Query: 140 SVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDV 199
+VGEDIRKL++G HVV+GTPGRV DMI+R++LRTRAIK+LVLDE+DEML++GFK+QIYDV
Sbjct: 123 NVGEDIRKLDYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDV 182
Query: 200 YRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWK 259
YRYLPP QVVLISATLPHEILEMT KFMTDP++ILVKRDELTLEGIKQFFVAVEREEWK
Sbjct: 183 YRYLPPATQVVLISATLPHEILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWK 242
Query: 260 FDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFR 319
FDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMR NFTVSSMHGDMPQKER++IM EFR
Sbjct: 243 FDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFR 302
Query: 320 SGTTRVLITTDVWARGLDVQQVSLVINYDLPNNRELYIHRIGRSGRFGRKGVAINFVKND 379
SG +RVLI+TDVWARGLDV QVSL+INYDLPNNRELYIHRIGRSGR+GRKGVAINFVKND
Sbjct: 303 SGASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAINFVKND 362
Query: 380 DIKILRDIEQYYSTQIDEMPMNVADLI 406
DI+ILRDIEQYYSTQIDEMPMNVADLI
Sbjct: 363 DIRILRDIEQYYSTQIDEMPMNVADLI 389
>pdb|2J0U|B Chain B, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 657 bits (1694), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 303/373 (81%), Positives = 347/373 (93%)
Query: 34 SFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQ 93
+FD MG+++DLLRGIY YGFEKPSAIQQRA+ IIKGRDVIAQ+QSGTGKT+ +++V Q
Sbjct: 2 TFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSVSVLQ 61
Query: 94 TVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHGVH 153
+D RE QALIL+PTRELA Q +K +LA+GD++N+Q+HAC+GG +VGEDIRKL++G H
Sbjct: 62 CLDIQVRETQALILAPTRELAVQVQKGLLALGDYMNVQSHACIGGTNVGEDIRKLDYGQH 121
Query: 154 VVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLIS 213
VV+GTPGRV DMI+R++LRTRAIK+LVLDE+DEML++GFK+QIYDVYRYLPP QVVLIS
Sbjct: 122 VVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQVVLIS 181
Query: 214 ATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTIT 273
ATLPHE+LEMT KFMTDP++ILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTIT
Sbjct: 182 ATLPHEVLEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTIT 241
Query: 274 QAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWA 333
QAVIFCNTKRKVDWLTEKMR NFTVSSMHGDMPQKER++IM EFRSG +RVLI+TDVWA
Sbjct: 242 QAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWA 301
Query: 334 RGLDVQQVSLVINYDLPNNRELYIHRIGRSGRFGRKGVAINFVKNDDIKILRDIEQYYST 393
RGLDV QVSL+INYDLPNNRELYIHRIGRSGR+GRKGVA+NFVKNDDI++LRDIEQYYST
Sbjct: 302 RGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAVNFVKNDDIRVLRDIEQYYST 361
Query: 394 QIDEMPMNVADLI 406
QIDEMPMNVADLI
Sbjct: 362 QIDEMPMNVADLI 374
>pdb|2J0U|A Chain A, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 656 bits (1692), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 304/373 (81%), Positives = 346/373 (92%)
Query: 34 SFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQ 93
+FD MG+++DLLRGIY YGFEKPSAIQQRA+ IIKGRDVIAQ+QSGTGKT+ +++V Q
Sbjct: 2 TFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSVSVLQ 61
Query: 94 TVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHGVH 153
+D RE QALIL+PTRELA Q +K +LA+GD++N+Q HAC+GG +VGEDIRKL++G H
Sbjct: 62 CLDIQVRETQALILAPTRELAVQVQKGLLALGDYMNVQCHACIGGTNVGEDIRKLDYGQH 121
Query: 154 VVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLIS 213
VV+GTPGRV DMI+R++LRTRAIK+LVLDE+DEML++GFK+QIYDVYRYLPP QVVLIS
Sbjct: 122 VVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQVVLIS 181
Query: 214 ATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTIT 273
ATLPHEILEMT KFMTDP++ILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTIT
Sbjct: 182 ATLPHEILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTIT 241
Query: 274 QAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWA 333
QAVIFCNTKRKVDWLTEKMR NFTVSSMHGDMPQKER++IM EFRSG +RVLI+TDVWA
Sbjct: 242 QAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWA 301
Query: 334 RGLDVQQVSLVINYDLPNNRELYIHRIGRSGRFGRKGVAINFVKNDDIKILRDIEQYYST 393
RGLDV QVSL+INYDLPNNRELYIHRIGRSGR+GRKGVA+NFVKNDDI++LRDIEQYYST
Sbjct: 302 RGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAVNFVKNDDIRVLRDIEQYYST 361
Query: 394 QIDEMPMNVADLI 406
QIDEMPMNVADLI
Sbjct: 362 QIDEMPMNVADLI 374
>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 = 508 bits (1309), Expect = e-144, Method: Compositional matrix adjust.
Identities = 249/378 (65%), Positives = 312/378 (82%), Gaps = 1/378 (0%)
Query: 30 EAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIAL 89
E + SFD M + + LLRGIY YGFEKPSAIQQRA++P IKG DVIAQAQSGTGKT+ A+
Sbjct: 11 EIVDSFDDMNLSESLLRGIYAYGFEKPSAIQQRAILPCIKGYDVIAQAQSGTGKTATFAI 70
Query: 90 TVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLE 149
++ Q ++ + QAL+L+PTRELA Q +KV++A+GD++ HAC+GG +V +++KL+
Sbjct: 71 SILQQIELDLKATQALVLAPTRELAQQIQKVVMALGDYMGASCHACIGGTNVRAEVQKLQ 130
Query: 150 -HGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQ 208
H++ GTPGRV DM+ R+ L + IK+ VLDE+DEMLSRGFKDQIYD+++ L + Q
Sbjct: 131 MEAPHIIVGTPGRVFDMLNRRYLSPKYIKMFVLDEADEMLSRGFKDQIYDIFQKLNSNTQ 190
Query: 209 VVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYD 268
VVL+SAT+P ++LE+T KFM DP++ILVK++ELTLEGI+QF++ VEREEWK DTLCDLY+
Sbjct: 191 VVLLSATMPSDVLEVTKKFMRDPIRILVKKEELTLEGIRQFYINVEREEWKLDTLCDLYE 250
Query: 269 TLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLIT 328
TLTITQAVIF NT+RKVDWLTEKM +FTVS+MHGDM QKERD IM EFRSG++RVLIT
Sbjct: 251 TLTITQAVIFINTRRKVDWLTEKMHARDFTVSAMHGDMDQKERDVIMREFRSGSSRVLIT 310
Query: 329 TDVWARGLDVQQVSLVINYDLPNNRELYIHRIGRSGRFGRKGVAINFVKNDDIKILRDIE 388
TD+ ARG+DVQQVSLVINYDLP NRE YIHRIGR GRFGRKGVAIN V +D + LRDIE
Sbjct: 311 TDLLARGIDVQQVSLVINYDLPTNRENYIHRIGRGGRFGRKGVAINMVTEEDKRTLRDIE 370
Query: 389 QYYSTQIDEMPMNVADLI 406
+Y+T I+EMP+NVADLI
Sbjct: 371 TFYNTSIEEMPLNVADLI 388
>pdb|3EIQ|A Chain A, Crystal Structure Of Pdcd4-eif4a
pdb|3EIQ|D Chain D, Crystal Structure Of Pdcd4-eif4a
Length = 414
Score = 507 bits (1305), Expect = e-144, Method: Compositional matrix adjust.
Identities = 249/378 (65%), Positives = 312/378 (82%), Gaps = 1/378 (0%)
Query: 30 EAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIAL 89
E + SFD M + + LLRGIY YGFEKPSAIQQRA++P IKG DVIAQAQSGTGKT+ A+
Sbjct: 37 EIVDSFDDMNLSESLLRGIYAYGFEKPSAIQQRAILPCIKGYDVIAQAQSGTGKTATFAI 96
Query: 90 TVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLE 149
++ Q ++ + QAL+L+PTRELA Q +KV++A+GD++ HAC+GG +V +++KL+
Sbjct: 97 SILQQIELDLKATQALVLAPTRELAQQIQKVVMALGDYMGASCHACIGGTNVRAEVQKLQ 156
Query: 150 -HGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQ 208
H++ GTPGRV DM+ R+ L + IK+ VLDE+DEMLSRGFKDQIYD+++ L + Q
Sbjct: 157 MEAPHIIVGTPGRVFDMLNRRYLSPKYIKMFVLDEADEMLSRGFKDQIYDIFQKLNSNTQ 216
Query: 209 VVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYD 268
VVL+SAT+P ++LE+T KFM DP++ILVK++ELTLEGI+QF++ VEREEWK DTLCDLY+
Sbjct: 217 VVLLSATMPSDVLEVTKKFMRDPIRILVKKEELTLEGIRQFYINVEREEWKLDTLCDLYE 276
Query: 269 TLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLIT 328
TLTITQAVIF NT+RKVDWLTEKM +FTVS+MHGDM QKERD IM EFRSG++RVLIT
Sbjct: 277 TLTITQAVIFINTRRKVDWLTEKMHARDFTVSAMHGDMDQKERDVIMREFRSGSSRVLIT 336
Query: 329 TDVWARGLDVQQVSLVINYDLPNNRELYIHRIGRSGRFGRKGVAINFVKNDDIKILRDIE 388
TD+ ARG+DVQQVSLVINYDLP NRE YIHRIGR GRFGRKGVAIN V +D + LRDIE
Sbjct: 337 TDLLARGIDVQQVSLVINYDLPTNRENYIHRIGRGGRFGRKGVAINMVTEEDKRTLRDIE 396
Query: 389 QYYSTQIDEMPMNVADLI 406
+Y+T I+EMP+NVADLI
Sbjct: 397 TFYNTSIEEMPLNVADLI 414
>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 = 469 bits (1207), Expect = e-132, Method: Compositional matrix adjust.
Identities = 228/375 (60%), Positives = 305/375 (81%), Gaps = 1/375 (0%)
Query: 32 ITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTV 91
+ FD M + ++LLRG++ YGFE+PSAIQQRA+MPII+G DV+AQAQSGTGKT ++
Sbjct: 21 VYKFDDMELDENLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAA 80
Query: 92 CQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHG 151
Q +DTS + QAL+L+PTRELA Q +KV++A+ ++I+ HAC+GG S ED L
Sbjct: 81 LQRIDTSVKAPQALMLAPTRELALQIQKVVMALAFHMDIKVHACIGGTSFVEDAEGLRDA 140
Query: 152 VHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVL 211
+V GTPGRV D I+R+ RT IK+ +LDE+DEMLS GFK+QIY ++ LPP QVVL
Sbjct: 141 -QIVVGTPGRVFDNIQRRRFRTDKIKMFILDEADEMLSSGFKEQIYQIFTLLPPTTQVVL 199
Query: 212 ISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLT 271
+SAT+P+++LE+TTKFM +PV+ILVK+DELTLEGIKQF+V VE EE+K++ L DLYD+++
Sbjct: 200 LSATMPNDVLEVTTKFMRNPVRILVKKDELTLEGIKQFYVNVEEEEYKYECLTDLYDSIS 259
Query: 272 ITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDV 331
+TQAVIFCNT+RKV+ LT K+R FTVS+++ D+PQ+ERD IM EFRSG++R+LI+TD+
Sbjct: 260 VTQAVIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTIMKEFRSGSSRILISTDL 319
Query: 332 WARGLDVQQVSLVINYDLPNNRELYIHRIGRSGRFGRKGVAINFVKNDDIKILRDIEQYY 391
ARG+DVQQVSLVINYDLP N+E YIHRIGR GRFGRKGVAINFV N+D+ +R++E++Y
Sbjct: 320 LARGIDVQQVSLVINYDLPANKENYIHRIGRGGRFGRKGVAINFVTNEDVGAMRELEKFY 379
Query: 392 STQIDEMPMNVADLI 406
STQI+E+P ++A L+
Sbjct: 380 STQIEELPSDIATLL 394
>pdb|1FUU|A Chain A, Yeast Initiation Factor 4a
pdb|1FUU|B Chain B, Yeast Initiation Factor 4a
Length = 394
Score = 450 bits (1157), Expect = e-127, Method: Compositional matrix adjust.
Identities = 223/375 (59%), Positives = 294/375 (78%), Gaps = 1/375 (0%)
Query: 32 ITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTV 91
+ FD + ++LLRG++ YGFE+PSAIQQRA+ PII+G DV+AQAQSGTGKT ++
Sbjct: 20 VYKFDDXELDENLLRGVFGYGFEEPSAIQQRAIXPIIEGHDVLAQAQSGTGKTGTFSIAA 79
Query: 92 CQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHG 151
Q +DTS + QAL L+PTRELA Q +KV+ A+ +I+ HAC+GG S ED L
Sbjct: 80 LQRIDTSVKAPQALXLAPTRELALQIQKVVXALAFHXDIKVHACIGGTSFVEDAEGLRDA 139
Query: 152 VHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVL 211
+V GTPGRV D I+R+ RT IK +LDE+DE LS GFK+QIY ++ LPP QVVL
Sbjct: 140 -QIVVGTPGRVFDNIQRRRFRTDKIKXFILDEADEXLSSGFKEQIYQIFTLLPPTTQVVL 198
Query: 212 ISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLT 271
+SAT P+++LE+TTKF +PV+ILVK+DELTLEGIKQF+V VE EE+K++ L DLYD+++
Sbjct: 199 LSATXPNDVLEVTTKFXRNPVRILVKKDELTLEGIKQFYVNVEEEEYKYECLTDLYDSIS 258
Query: 272 ITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDV 331
+TQAVIFCNT+RKV+ LT K+R FTVS+++ D+PQ+ERD I EFRSG++R+LI+TD+
Sbjct: 259 VTQAVIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTIXKEFRSGSSRILISTDL 318
Query: 332 WARGLDVQQVSLVINYDLPNNRELYIHRIGRSGRFGRKGVAINFVKNDDIKILRDIEQYY 391
ARG+DVQQVSLVINYDLP N+E YIHRIGR GRFGRKGVAINFV N+D+ R++E++Y
Sbjct: 319 LARGIDVQQVSLVINYDLPANKENYIHRIGRGGRFGRKGVAINFVTNEDVGAXRELEKFY 378
Query: 392 STQIDEMPMNVADLI 406
STQI+E+P ++A L+
Sbjct: 379 STQIEELPSDIATLL 393
>pdb|1S2M|A Chain A, Crystal Structure Of The Dead Box Protein Dhh1p
Length = 400
Score = 301 bits (771), Expect = 4e-82, Method: Compositional matrix adjust.
Identities = 152/370 (41%), Positives = 223/370 (60%), Gaps = 2/370 (0%)
Query: 33 TSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVC 92
+F+ +K +LL GI++ GFEKPS IQ+ A+ I GRD++A+A++GTGKT+ +
Sbjct: 21 NTFEDFYLKRELLMGIFEAGFEKPSPIQEEAIPVAITGRDILARAKNGTGKTAAFVIPTL 80
Query: 93 QTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHGV 152
+ V ++QALI+ PTRELA QT +V+ +G I GG ++ +DI +L V
Sbjct: 81 EKVKPKLNKIQALIMVPTRELALQTSQVVRTLGKHCGISCMVTTGGTNLRDDILRLNETV 140
Query: 153 HVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLI 212
H++ GTPGRV D+ RK L ++DE+D+MLSR FK I + +LPP Q +L
Sbjct: 141 HILVGTPGRVLDLASRKVADLSDCSLFIMDEADKMLSRDFKTIIEQILSFLPPTHQSLLF 200
Query: 213 SATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTI 272
SAT P + E K + P +I + +ELTL+GI Q++ VE E K L L+ L I
Sbjct: 201 SATFPLTVKEFMVKHLHKPYEINL-MEELTLKGITQYYAFVE-ERQKLHCLNTLFSKLQI 258
Query: 273 TQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVW 332
QA+IFCN+ +V+ L +K+ ++ H M Q+ER+ + EFR G R L+ +D+
Sbjct: 259 NQAIIFCNSTNRVELLAKKITDLGYSCYYSHARMKQQERNKVFHEFRQGKVRTLVCSDLL 318
Query: 333 ARGLDVQQVSLVINYDLPNNRELYIHRIGRSGRFGRKGVAINFVKNDDIKILRDIEQYYS 392
RG+D+Q V++VIN+D P E Y+HRIGRSGRFG G+AIN + +D L IEQ
Sbjct: 319 TRGIDIQAVNVVINFDFPKTAETYLHRIGRSGRFGHLGLAINLINWNDRFNLYKIEQELG 378
Query: 393 TQIDEMPMNV 402
T+I +P +
Sbjct: 379 TEIAAIPATI 388
>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 = 281 bits (718), Expect = 5e-76, Method: Compositional matrix adjust.
Identities = 151/369 (40%), Positives = 231/369 (62%), Gaps = 16/369 (4%)
Query: 34 SFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPII---KGRDVIAQAQSGTGKTSMIALT 90
SFD +G+ +LL+GIY F+KPS IQ+RA +P++ R++IAQ+QSGTGKT+ +LT
Sbjct: 6 SFDELGLAPELLKGIYAMKFQKPSKIQERA-LPLLLHNPPRNMIAQSQSGTGKTAAFSLT 64
Query: 91 VCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEH 150
+ V+ QA+ L+P+RELA QT +V+ +G F I + V + +
Sbjct: 65 MLTRVNPEDASPQAICLAPSRELARQTLEVVQEMGKFTKITSQLIVPDSFE----KNKQI 120
Query: 151 GVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEML-SRGFKDQIYDVYRYLPPDLQV 209
V+ GTPG V D+++RK ++ + IK+ VLDE+D ML +G DQ V R+LP D Q+
Sbjct: 121 NAQVIVGTPGTVLDLMRRKLMQLQKIKIFVLDEADNMLDQQGLGDQCIRVKRFLPKDTQL 180
Query: 210 VLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDT 269
VL SAT + + K + + + ++ +E+ ++ IKQ ++ + E KFD L +LY
Sbjct: 181 VLFSATFADAVRQYAKKIVPNANTLELQTNEVNVDAIKQLYMDCKNEADKFDVLTELYGV 240
Query: 270 LTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITT 329
+TI ++IF TK+ + L K++ VS +HGD+ +ERD ++ +FR G ++VLITT
Sbjct: 241 MTIGSSIIFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDDFREGRSKVLITT 300
Query: 330 DVWARGLDVQQVSLVINYDLPN------NRELYIHRIGRSGRFGRKGVAINFVKN-DDIK 382
+V ARG+D+ VS+V+NYDLP + YIHRIGR+GRFGRKGVAI+FV + +
Sbjct: 301 NVLARGIDIPTVSMVVNYDLPTLANGQADPATYIHRIGRTGRFGRKGVAISFVHDKNSFN 360
Query: 383 ILRDIEQYY 391
IL I++Y+
Sbjct: 361 ILSAIQKYF 369
>pdb|3PEY|A Chain A, S. Cerevisiae Dbp5 Bound To Rna And Adp Bef3
Length = 395
Score = 280 bits (717), Expect = 7e-76, Method: Compositional matrix adjust.
Identities = 151/369 (40%), Positives = 231/369 (62%), Gaps = 16/369 (4%)
Query: 34 SFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPII---KGRDVIAQAQSGTGKTSMIALT 90
SFD +G+ +LL+GIY F+KPS IQ+RA +P++ R++IAQ+QSGTGKT+ +LT
Sbjct: 6 SFDELGLAPELLKGIYAMKFQKPSKIQERA-LPLLLHNPPRNMIAQSQSGTGKTAAFSLT 64
Query: 91 VCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEH 150
+ V+ QA+ L+P+RELA QT +V+ +G F I + V + +
Sbjct: 65 MLTRVNPEDASPQAICLAPSRELARQTLEVVQEMGKFTKITSQLIVPDSFE----KNKQI 120
Query: 151 GVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEML-SRGFKDQIYDVYRYLPPDLQV 209
V+ GTPG V D+++RK ++ + IK+ VLDE+D ML +G DQ V R+LP D Q+
Sbjct: 121 NAQVIVGTPGTVLDLMRRKLMQLQKIKIFVLDEADNMLDQQGLGDQCIRVKRFLPKDTQL 180
Query: 210 VLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDT 269
VL SAT + + K + + + ++ +E+ ++ IKQ ++ + E KFD L +LY
Sbjct: 181 VLFSATFADAVRQYAKKIVPNANTLELQTNEVNVDAIKQLYMDCKNEADKFDVLTELYGL 240
Query: 270 LTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITT 329
+TI ++IF TK+ + L K++ VS +HGD+ +ERD ++ +FR G ++VLITT
Sbjct: 241 MTIGSSIIFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDDFREGRSKVLITT 300
Query: 330 DVWARGLDVQQVSLVINYDLPN------NRELYIHRIGRSGRFGRKGVAINFVKN-DDIK 382
+V ARG+D+ VS+V+NYDLP + YIHRIGR+GRFGRKGVAI+FV + +
Sbjct: 301 NVLARGIDIPTVSMVVNYDLPTLANGQADPATYIHRIGRTGRFGRKGVAISFVHDKNSFN 360
Query: 383 ILRDIEQYY 391
IL I++Y+
Sbjct: 361 ILSAIQKYF 369
>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 = 272 bits (696), Expect = 2e-73, Method: Compositional matrix adjust.
Identities = 152/383 (39%), Positives = 240/383 (62%), Gaps = 21/383 (5%)
Query: 31 AITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKG---RDVIAQAQSGTGKTSMI 87
++ SF+ + +K LL+G+Y GF +PS IQ+ A +P++ +++IAQ+QSGTGKT+
Sbjct: 90 SVKSFEELRLKPQLLQGVYAMGFNRPSKIQENA-LPLMLAEPPQNLIAQSQSGTGKTAAF 148
Query: 88 ALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFIN--IQAHACVGGK-SVGED 144
L + V+ +++ Q L LSPT ELA QT KVI +G F A+A G K G+
Sbjct: 149 VLAMLSQVEPANKYPQCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLERGQK 208
Query: 145 IRKLEHGVHVVSGTPGRVCDMI-KRKTLRTRAIKLLVLDESDEMLS-RGFKDQIYDVYRY 202
I + +V GTPG V D K K + + IK+ VLDE+D M++ +G +DQ + R
Sbjct: 209 ISE-----QIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRM 263
Query: 203 LPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDT 262
LP + Q++L SAT + + K + DP I +KR+E TL+ IKQ++V + KF
Sbjct: 264 LPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKREEETLDTIKQYYVLCSSRDEKFQA 323
Query: 263 LCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGT 322
LC+LY +TI QA+IFC+T++ WL ++ V+ + G+M ++R A++ FR G
Sbjct: 324 LCNLYGAITIAQAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFREGK 383
Query: 323 TRVLITTDVWARGLDVQQVSLVINYDLPNNR------ELYIHRIGRSGRFGRKGVAINFV 376
+VL+TT+V ARG+DV+QVS+VIN+DLP ++ E Y+HRIGR+GRFG++G+A+N V
Sbjct: 384 EKVLVTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRTGRFGKRGLAVNMV 443
Query: 377 KND-DIKILRDIEQYYSTQIDEM 398
+ + IL I+++++ +I+ +
Sbjct: 444 DSKHSMNILNRIQEHFNKKIERL 466
>pdb|3EWS|A Chain A, Human Dead-Box Rna-Helicase Ddx19 In Complex With Adp
pdb|3EWS|B Chain B, Human Dead-Box Rna-Helicase Ddx19 In Complex With Adp
Length = 445
Score = 272 bits (695), Expect = 3e-73, Method: Compositional matrix adjust.
Identities = 152/383 (39%), Positives = 240/383 (62%), Gaps = 21/383 (5%)
Query: 31 AITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKG---RDVIAQAQSGTGKTSMI 87
++ SF+ + +K LL+G+Y GF +PS IQ+ A +P++ +++IAQ+QSGTGKT+
Sbjct: 60 SVKSFEELRLKPQLLQGVYAMGFNRPSKIQENA-LPLMLAEPPQNLIAQSQSGTGKTAAF 118
Query: 88 ALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFIN--IQAHACVGGK-SVGED 144
L + V+ +++ Q L LSPT ELA QT KVI +G F A+A G K G+
Sbjct: 119 VLAMLSQVEPANKYPQCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLERGQK 178
Query: 145 IRKLEHGVHVVSGTPGRVCDMI-KRKTLRTRAIKLLVLDESDEMLS-RGFKDQIYDVYRY 202
I + +V GTPG V D K K + + IK+ VLDE+D M++ +G +DQ + R
Sbjct: 179 ISE-----QIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRM 233
Query: 203 LPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDT 262
LP + Q++L SAT + + K + DP I +KR+E TL+ IKQ++V + KF
Sbjct: 234 LPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKREEETLDTIKQYYVLCSSRDEKFQA 293
Query: 263 LCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGT 322
LC+LY +TI QA+IFC+T++ WL ++ V+ + G+M ++R A++ FR G
Sbjct: 294 LCNLYGAITIAQAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFREGK 353
Query: 323 TRVLITTDVWARGLDVQQVSLVINYDLPNNR------ELYIHRIGRSGRFGRKGVAINFV 376
+VL+TT+V ARG+DV+QVS+VIN+DLP ++ E Y+HRIGR+GRFG++G+A+N V
Sbjct: 354 EKVLVTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRTGRFGKRGLAVNMV 413
Query: 377 KND-DIKILRDIEQYYSTQIDEM 398
+ + IL I+++++ +I+ +
Sbjct: 414 DSKHSMNILNRIQEHFNKKIERL 436
>pdb|3G0H|A Chain A, Human Dead-box Rna Helicase Ddx19, In Complex With An
Atp-analogue And Rna
Length = 424
Score = 271 bits (694), Expect = 3e-73, Method: Compositional matrix adjust.
Identities = 152/383 (39%), Positives = 239/383 (62%), Gaps = 21/383 (5%)
Query: 31 AITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPII---KGRDVIAQAQSGTGKTSMI 87
++ SF+ + +K LL+G+Y GF +PS IQ+ A +P++ +++IAQ+QSGTGKT+
Sbjct: 39 SVKSFEELRLKPQLLQGVYAMGFNRPSKIQENA-LPLMLAEPPQNLIAQSQSGTGKTAAF 97
Query: 88 ALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFIN--IQAHACVGGK-SVGED 144
L + V+ +++ Q L LSPT ELA QT KVI +G F A+A G K G+
Sbjct: 98 VLAMLSQVEPANKYPQCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLERGQK 157
Query: 145 IRKLEHGVHVVSGTPGRVCDMI-KRKTLRTRAIKLLVLDESDEMLS-RGFKDQIYDVYRY 202
I + +V GTPG V D K K + + IK+ VLDE+D M++ +G +DQ + R
Sbjct: 158 ISE-----QIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRM 212
Query: 203 LPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDT 262
LP + Q++L SAT + + K + DP I +KR+E TL+ IKQ++V + KF
Sbjct: 213 LPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKREEETLDTIKQYYVLCSSRDEKFQA 272
Query: 263 LCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGT 322
LC+LY +TI QA+IFC+T++ WL ++ V+ + G+M ++R A++ FR G
Sbjct: 273 LCNLYGAITIAQAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFREGK 332
Query: 323 TRVLITTDVWARGLDVQQVSLVINYDLPNNR------ELYIHRIGRSGRFGRKGVAINFV 376
+VL+TT+V ARG+DV+QVS+VIN+DLP ++ E Y+HRIGR+GRFG++G+A+N V
Sbjct: 333 EKVLVTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRTGRFGKRGLAVNMV 392
Query: 377 -KNDDIKILRDIEQYYSTQIDEM 398
+ IL I+++++ +I+ +
Sbjct: 393 DSKHSMNILNRIQEHFNKKIERL 415
>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 = 271 bits (694), Expect = 4e-73, Method: Compositional matrix adjust.
Identities = 152/383 (39%), Positives = 240/383 (62%), Gaps = 21/383 (5%)
Query: 31 AITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPII---KGRDVIAQAQSGTGKTSMI 87
++ SF+ + +K LL+G+Y GF +PS IQ+ A +P++ +++IAQ+QSGTGKT+
Sbjct: 23 SVKSFEELRLKPQLLQGVYAMGFNRPSKIQENA-LPLMLAEPPQNLIAQSQSGTGKTAAF 81
Query: 88 ALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFIN--IQAHACVGGK-SVGED 144
L + V+ +++ Q L LSPT ELA QT KVI +G F A+A G K G+
Sbjct: 82 VLAMLSQVEPANKYPQCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLERGQK 141
Query: 145 IRKLEHGVHVVSGTPGRVCDMI-KRKTLRTRAIKLLVLDESDEMLS-RGFKDQIYDVYRY 202
I + +V GTPG V D K K + + IK+ VLDE+D M++ +G +DQ + R
Sbjct: 142 ISE-----QIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRM 196
Query: 203 LPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDT 262
LP + Q++L SAT + + K + DP I +KR+E TL+ IKQ++V + KF
Sbjct: 197 LPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKREEETLDTIKQYYVLCSSRDEKFQA 256
Query: 263 LCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGT 322
LC+LY +TI QA+IFC+T++ WL ++ V+ + G+M ++R A++ FR G
Sbjct: 257 LCNLYGAITIAQAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFREGK 316
Query: 323 TRVLITTDVWARGLDVQQVSLVINYDLPNNR------ELYIHRIGRSGRFGRKGVAINFV 376
+VL+TT+V ARG+DV+QVS+VIN+DLP ++ E Y+HRIGR+GRFG++G+A+N V
Sbjct: 317 EKVLVTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRTGRFGKRGLAVNMV 376
Query: 377 KND-DIKILRDIEQYYSTQIDEM 398
+ + IL I+++++ +I+ +
Sbjct: 377 DSKHSMNILNRIQEHFNKKIERL 399
>pdb|3BOR|A Chain A, Crystal Structure Of The Deadc Domain Of Human Translation
Initiation Factor 4a-2
Length = 237
Score = 264 bits (674), Expect = 8e-71, Method: Compositional matrix adjust.
Identities = 122/211 (57%), Positives = 167/211 (79%), Gaps = 1/211 (0%)
Query: 30 EAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIAL 89
E + +FD M +K+ LLRGIY YGFEKPSAIQQRA++P IKG DVIAQAQSGTGKT+ A+
Sbjct: 27 EIVDNFDDMNLKESLLRGIYAYGFEKPSAIQQRAIIPCIKGYDVIAQAQSGTGKTATFAI 86
Query: 90 TVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLE 149
++ Q ++ +E QAL+L+PTRELA Q +KVILA+GD++ HAC+GG +V +++KL+
Sbjct: 87 SILQQLEIEFKETQALVLAPTRELAQQIQKVILALGDYMGATCHACIGGTNVRNEMQKLQ 146
Query: 150 -HGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQ 208
H+V GTPGRV DM+ R+ L + IK+ VLDE+DEMLSRGFKDQIY++++ L +Q
Sbjct: 147 AEAPHIVVGTPGRVFDMLNRRYLSPKWIKMFVLDEADEMLSRGFKDQIYEIFQKLNTSIQ 206
Query: 209 VVLISATLPHEILEMTTKFMTDPVKILVKRD 239
VVL+SAT+P ++LE+T KFM DP++ILVK++
Sbjct: 207 VVLLSATMPTDVLEVTKKFMRDPIRILVKKE 237
>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 = 259 bits (663), Expect = 1e-69, Method: Compositional matrix adjust.
Identities = 122/215 (56%), Positives = 165/215 (76%), Gaps = 1/215 (0%)
Query: 30 EAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIAL 89
+ + FD M + ++LLRG++ YGFE+PSAIQQRA+MPII+G DV+AQAQSGTGKT ++
Sbjct: 11 KVVYKFDDMELDENLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSI 70
Query: 90 TVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLE 149
Q +DTS + QAL+L+PTRELA Q +KV++A+ ++I+ HAC+GG S ED L
Sbjct: 71 AALQRIDTSVKAPQALMLAPTRELALQIQKVVMALAFHMDIKVHACIGGTSFVEDAEGLR 130
Query: 150 HGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQV 209
+V GTPGRV D I+R+ RT IK+ +LDE+DEMLS GFK+QIY ++ LPP QV
Sbjct: 131 DA-QIVVGTPGRVFDNIQRRRFRTDKIKMFILDEADEMLSSGFKEQIYQIFTLLPPTTQV 189
Query: 210 VLISATLPHEILEMTTKFMTDPVKILVKRDELTLE 244
VL+SAT+P+++LE+TTKFM +PV+ILVK+DELTLE
Sbjct: 190 VLLSATMPNDVLEVTTKFMRNPVRILVKKDELTLE 224
>pdb|3FHO|A Chain A, Structure Of S. Pombe Dbp5
pdb|3FHO|B Chain B, Structure Of S. Pombe Dbp5
Length = 508
Score = 253 bits (645), Expect = 2e-67, Method: Compositional matrix adjust.
Identities = 141/352 (40%), Positives = 218/352 (61%), Gaps = 16/352 (4%)
Query: 59 IQQRAVMPII---KGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELAT 115
IQ++A +P++ R++I Q+QSGTGKT+ ALT+ VD S + QA+ L+P+RELA
Sbjct: 145 IQEKA-LPLLLSNPPRNMIGQSQSGTGKTAAFALTMLSRVDASVPKPQAICLAPSRELAR 203
Query: 116 QTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRA 175
Q V+ +G + ++ G K K++ +V GTPG V D++KR+ L R
Sbjct: 204 QIMDVVTEMGKYTEVKT--AFGIKDSVPKGAKID--AQIVIGTPGTVMDLMKRRQLDARD 259
Query: 176 IKLLVLDESDEML-SRGFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKI 234
IK+ VLDE+D ML +G DQ + LP + Q+VL SAT + + +F + +I
Sbjct: 260 IKVFVLDEADNMLDQQGLGDQSMRIKHLLPRNTQIVLFSATFSERVEKYAERFAPNANEI 319
Query: 235 LVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRG 294
+K +EL++EGIKQ ++ + EE K++ L +LY LTI Q++IFC K + + +M
Sbjct: 320 RLKTEELSVEGIKQLYMDCQSEEHKYNVLVELYGLLTIGQSIIFCKKKDTAEEIARRMTA 379
Query: 295 YNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQVSLVINYDLPNNR- 353
TV+ + G++ +RDAIM FR GT++VL+TT+V ARG+DV QV+LV+NYD+P ++
Sbjct: 380 DGHTVACLTGNLEGAQRDAIMDSFRVGTSKVLVTTNVIARGIDVSQVNLVVNYDMPLDQA 439
Query: 354 -----ELYIHRIGRSGRFGRKGVAINFVKN-DDIKILRDIEQYYSTQIDEMP 399
+ Y+HRIGR+GRFGR GV+INFV + + + I++Y+ I +P
Sbjct: 440 GRPDPQTYLHRIGRTGRFGRVGVSINFVHDKKSWEEMNAIQEYFQRPITRVP 491
>pdb|1XTK|A Chain A, Structure Of Decd To Dead Mutation Of Human Uap56
Length = 390
Score = 250 bits (639), Expect = 9e-67, Method: Compositional matrix adjust.
Identities = 134/373 (35%), Positives = 221/373 (59%), Gaps = 6/373 (1%)
Query: 32 ITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTV 91
++ F +K +LLR I GFE PS +Q + I G DV+ QA+SG GKT++ L
Sbjct: 6 MSGFRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLAT 65
Query: 92 CQTVDTSSREVQALILSPTRELATQTEKVILAIGDFI-NIQAHACVGGKSVGEDIRKLEH 150
Q ++ + +V L++ TRELA Q K ++ N++ GG S+ +D L+
Sbjct: 66 LQQLEPVTGQVSVLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEVLKK 125
Query: 151 GV-HVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSR-GFKDQIYDVYRYLPPDLQ 208
H+V GTPGR+ + + K+L + IK +LDE+D+ML + + + +++R P + Q
Sbjct: 126 NCPHIVVGTPGRILALARNKSLNLKHIKHFILDEADKMLEQLDMRRDVQEIFRMTPHEKQ 185
Query: 209 VVLISATLPHEILEMTTKFMTDPVKILVKRD-ELTLEGIKQFFVAVEREEWKFDTLCDLY 267
V++ SATL EI + KFM DP++I V + +LTL G++Q++V ++ E K L DL
Sbjct: 186 VMMFSATLSKEIRPVCRKFMQDPMEIFVDDETKLTLHGLQQYYVKLKDNE-KNRKLFDLL 244
Query: 268 DTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLI 327
D L Q VIF + ++ L + + NF ++H MPQ+ER + +F+ R+L+
Sbjct: 245 DVLEFNQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRILV 304
Query: 328 TTDVWARGLDVQQVSLVINYDLPNNRELYIHRIGRSGRFGRKGVAINFVKN-DDIKILRD 386
T+++ RG+D+++V++ NYD+P + + Y+HR+ R+GRFG KG+AI FV + +D KIL D
Sbjct: 305 ATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKGLAITFVSDENDAKILND 364
Query: 387 IEQYYSTQIDEMP 399
++ + I E+P
Sbjct: 365 VQDRFEVNISELP 377
>pdb|1XTJ|A Chain A, Structure Of Human Uap56 In Complex With Adp
Length = 386
Score = 249 bits (636), Expect = 2e-66, Method: Compositional matrix adjust.
Identities = 134/372 (36%), Positives = 219/372 (58%), Gaps = 6/372 (1%)
Query: 33 TSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVC 92
+ F +K +LLR I GFE PS +Q + I G DV+ QA+SG GKT++ L
Sbjct: 8 SGFRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATL 67
Query: 93 QTVDTSSREVQALILSPTRELATQTEKVILAIGDFI-NIQAHACVGGKSVGEDIRKLEHG 151
Q ++ + +V L++ TRELA Q K ++ N++ GG S+ +D L+
Sbjct: 68 QQLEPVTGQVSVLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEVLKKN 127
Query: 152 V-HVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSR-GFKDQIYDVYRYLPPDLQV 209
H+V GTPGR+ + + K+L + IK +LDE D+ML + + + +++R P + QV
Sbjct: 128 CPHIVVGTPGRILALARNKSLNLKHIKHFILDECDKMLEQLDMRRDVQEIFRMTPHEKQV 187
Query: 210 VLISATLPHEILEMTTKFMTDPVKILVKRD-ELTLEGIKQFFVAVEREEWKFDTLCDLYD 268
++ SATL EI + KFM DP++I V + +LTL G++Q++V ++ E K L DL D
Sbjct: 188 MMFSATLSKEIRPVCRKFMQDPMEIFVDDETKLTLHGLQQYYVKLKDNE-KNRKLFDLLD 246
Query: 269 TLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLIT 328
L Q VIF + ++ L + + NF ++H MPQ+ER + +F+ R+L+
Sbjct: 247 VLEFNQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRILVA 306
Query: 329 TDVWARGLDVQQVSLVINYDLPNNRELYIHRIGRSGRFGRKGVAINFVKN-DDIKILRDI 387
T+++ RG+D+++V++ NYD+P + + Y+HR+ R+GRFG KG+AI FV + +D KIL D+
Sbjct: 307 TNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKGLAITFVSDENDAKILNDV 366
Query: 388 EQYYSTQIDEMP 399
+ + I E+P
Sbjct: 367 QDRFEVNISELP 378
>pdb|1XTI|A Chain A, Structure Of Wildtype Human Uap56
Length = 391
Score = 249 bits (636), Expect = 2e-66, Method: Compositional matrix adjust.
Identities = 134/372 (36%), Positives = 219/372 (58%), Gaps = 6/372 (1%)
Query: 33 TSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVC 92
+ F +K +LLR I GFE PS +Q + I G DV+ QA+SG GKT++ L
Sbjct: 8 SGFRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATL 67
Query: 93 QTVDTSSREVQALILSPTRELATQTEKVILAIGDFI-NIQAHACVGGKSVGEDIRKLEHG 151
Q ++ + +V L++ TRELA Q K ++ N++ GG S+ +D L+
Sbjct: 68 QQLEPVTGQVSVLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEVLKKN 127
Query: 152 V-HVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSR-GFKDQIYDVYRYLPPDLQV 209
H+V GTPGR+ + + K+L + IK +LDE D+ML + + + +++R P + QV
Sbjct: 128 CPHIVVGTPGRILALARNKSLNLKHIKHFILDECDKMLEQLDMRRDVQEIFRMTPHEKQV 187
Query: 210 VLISATLPHEILEMTTKFMTDPVKILVKRD-ELTLEGIKQFFVAVEREEWKFDTLCDLYD 268
++ SATL EI + KFM DP++I V + +LTL G++Q++V ++ E K L DL D
Sbjct: 188 MMFSATLSKEIRPVCRKFMQDPMEIFVDDETKLTLHGLQQYYVKLKDNE-KNRKLFDLLD 246
Query: 269 TLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLIT 328
L Q VIF + ++ L + + NF ++H MPQ+ER + +F+ R+L+
Sbjct: 247 VLEFNQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRILVA 306
Query: 329 TDVWARGLDVQQVSLVINYDLPNNRELYIHRIGRSGRFGRKGVAINFVKN-DDIKILRDI 387
T+++ RG+D+++V++ NYD+P + + Y+HR+ R+GRFG KG+AI FV + +D KIL D+
Sbjct: 307 TNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKGLAITFVSDENDAKILNDV 366
Query: 388 EQYYSTQIDEMP 399
+ + I E+P
Sbjct: 367 QDRFEVNISELP 378
>pdb|1QVA|A Chain A, Yeast Initiation Factor 4a N-Terminal Domain
Length = 223
Score = 245 bits (625), Expect = 4e-65, Method: Compositional matrix adjust.
Identities = 115/207 (55%), Positives = 156/207 (75%), Gaps = 1/207 (0%)
Query: 30 EAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIAL 89
+ + FD M + + LLRG++ YGFE+PSAIQQRA+MPII+G DV+AQAQSGTGKT ++
Sbjct: 18 KVVYKFDDMELDEQLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSI 77
Query: 90 TVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLE 149
Q +DTS + QAL+L+PTRELA Q +KV++A+ ++I+ HAC+GG S ED L
Sbjct: 78 AALQRIDTSVKAPQALMLAPTRELALQIQKVVMALAFHMDIKVHACIGGTSFVEDAEGLR 137
Query: 150 HGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQV 209
+V GTPGRV D I+R+ RT IK+ +LDE+DEMLS GFK+QIY ++ LPP QV
Sbjct: 138 DA-QIVVGTPGRVFDNIQRRRFRTDKIKMFILDEADEMLSSGFKEQIYQIFTLLPPTTQV 196
Query: 210 VLISATLPHEILEMTTKFMTDPVKILV 236
VL+SAT+P+++LE+TTKFM +PV+ILV
Sbjct: 197 VLLSATMPNDVLEVTTKFMRNPVRILV 223
>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 = 239 bits (610), Expect = 2e-63, Method: Compositional matrix adjust.
Identities = 110/208 (52%), Positives = 152/208 (73%), Gaps = 1/208 (0%)
Query: 30 EAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIAL 89
E + SFD M + + LLRGIY YGFE PSAIQQRA++P I G DVIAQAQSGTG T+ A+
Sbjct: 12 EIVDSFDDMNLSESLLRGIYAYGFEXPSAIQQRAILPCIXGYDVIAQAQSGTGXTATFAI 71
Query: 90 TVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLE 149
++ Q ++ QAL+L+PTRELA Q + V++A+GD++ HAC+GG +V +++ L+
Sbjct: 72 SILQQIELDLXATQALVLAPTRELAQQIQXVVMALGDYMGASCHACIGGTNVRAEVQXLQ 131
Query: 150 -HGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQ 208
H++ GTPGRV DM+ R+ L I + VLDE+DEMLSRGF DQIYD+++ L + Q
Sbjct: 132 MEAPHIIVGTPGRVFDMLNRRYLSPXYIXMFVLDEADEMLSRGFXDQIYDIFQXLNSNTQ 191
Query: 209 VVLISATLPHEILEMTTKFMTDPVKILV 236
VVL+SAT+P ++LE+T FM DP++ILV
Sbjct: 192 VVLLSATMPSDVLEVTXXFMRDPIRILV 219
>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 = 237 bits (604), Expect = 1e-62, Method: Compositional matrix adjust.
Identities = 131/358 (36%), Positives = 209/358 (58%), Gaps = 11/358 (3%)
Query: 34 SFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKG--RDVIAQAQSGTGKTSMIALTV 91
+F+ + + D++L I GFEKP+ IQ + V+P+ +++AQA++G+GKT+ A+ +
Sbjct: 7 NFNELNLSDNILNAIRNKGFEKPTDIQXK-VIPLFLNDEYNIVAQARTGSGKTASFAIPL 65
Query: 92 CQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHG 151
+ V+ ++ ++A+IL+PTRELA Q I ++ N++ GGK++ I+ L++
Sbjct: 66 IELVNENN-GIEAIILTPTRELAIQVADEIESLKGNKNLKIAKIYGGKAIYPQIKALKNA 124
Query: 152 VHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVL 211
++V GTPGR+ D I R TL + +K +LDE+DE L+ GF + + D +++L
Sbjct: 125 -NIVVGTPGRILDHINRGTLNLKNVKYFILDEADEXLNXGFIKDVEKILNACNKDKRILL 183
Query: 212 ISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLT 271
SAT P EIL + K+ D I K + I+Q +V V E +F+ LC L
Sbjct: 184 FSATXPREILNLAKKYXGDYSFIKAKINA----NIEQSYVEVNENE-RFEALCRLLKNKE 238
Query: 272 ITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDV 331
++FC TKR L +R F ++HGD+ Q +R+ ++ F+ R+LI TDV
Sbjct: 239 FY-GLVFCKTKRDTKELASXLRDIGFKAGAIHGDLSQSQREKVIRLFKQKKIRILIATDV 297
Query: 332 WARGLDVQQVSLVINYDLPNNRELYIHRIGRSGRFGRKGVAINFVKNDDIKILRDIEQ 389
+RG+DV ++ VINY LP N E Y HRIGR+GR G+KG AI+ + + K LR IE+
Sbjct: 298 XSRGIDVNDLNCVINYHLPQNPESYXHRIGRTGRAGKKGKAISIINRREYKKLRYIER 355
>pdb|1FUK|A Chain A, Crystal Structure Of The Carboxy Terminal Domain Of Yeast
Eif4a
Length = 165
Score = 216 bits (550), Expect = 2e-56, Method: Compositional matrix adjust.
Identities = 108/164 (65%), Positives = 143/164 (87%)
Query: 243 LEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSM 302
LEGIKQF+V VE EE+K++ L DLYD++++TQAVIFCNT+RKV+ LT K+R FTVS++
Sbjct: 1 LEGIKQFYVNVEEEEYKYECLTDLYDSISVTQAVIFCNTRRKVEELTTKLRNDKFTVSAI 60
Query: 303 HGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQVSLVINYDLPNNRELYIHRIGR 362
+ D+PQ+ERD IM EFRSG++R+LI+TD+ ARG+DVQQVSLVINYDLP N+E YIHRIGR
Sbjct: 61 YSDLPQQERDTIMKEFRSGSSRILISTDLLARGIDVQQVSLVINYDLPANKENYIHRIGR 120
Query: 363 SGRFGRKGVAINFVKNDDIKILRDIEQYYSTQIDEMPMNVADLI 406
GRFGRKGVAINFV N+D+ +R++E++YSTQI+E+P ++A L+
Sbjct: 121 GGRFGRKGVAINFVTNEDVGAMRELEKFYSTQIEELPSDIATLL 164
>pdb|2I4I|A Chain A, Crystal Structure Of Human Dead-Box Rna Helicase Ddx3x
Length = 417
Score = 202 bits (514), Expect = 3e-52, Method: Compositional matrix adjust.
Identities = 133/384 (34%), Positives = 205/384 (53%), Gaps = 34/384 (8%)
Query: 32 ITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIK-GRDVIAQAQSGTGKTSMIALT 90
I SF + + + ++ I + +P+ +Q+ A+ PIIK RD++A AQ+G+GKT+ L
Sbjct: 14 IESFSDVEMGEIIMGNIELTRYTRPTPVQKHAI-PIIKEKRDLMACAQTGSGKTAAFLLP 72
Query: 91 VCQTV--DTSSREVQA----------------LILSPTRELATQTEKVILAIGDFINIQA 132
+ + D ++A L+L+PTRELA Q + ++
Sbjct: 73 ILSQIYSDGPGEALRAMKENGRYGRRKQYPISLVLAPTRELAVQIYEEARKFSYRSRVRP 132
Query: 133 HACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGF 192
GG +G+ IR LE G H++ TPGR+ DM++R + K LVLDE+D ML GF
Sbjct: 133 CVVYGGADIGQQIRDLERGCHLLVATPGRLVDMMERGKIGLDFCKYLVLDEADRMLDMGF 192
Query: 193 KDQIYDVYRY--LPPD--LQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQ 248
+ QI + +PP ++ SAT P EI + F+ + + + V R T E I Q
Sbjct: 193 EPQIRRIVEQDTMPPKGVRHTMMFSATFPKEIQMLARDFLDEYIFLAVGRVGSTSENITQ 252
Query: 249 FFVAVEREEWKFDTLCDLY-----DTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMH 303
V VE E K L DL D+LT+ +F TK+ D L + + + +S+H
Sbjct: 253 KVVWVE-ESDKRSFLLDLLNATGKDSLTL----VFVETKKGADSLEDFLYHEGYACTSIH 307
Query: 304 GDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQVSLVINYDLPNNRELYIHRIGRS 363
GD Q++R+ + +FRSG + +L+ T V ARGLD+ V VIN+DLP++ E Y+HRIGR+
Sbjct: 308 GDRSQRDREEALHQFRSGKSPILVATAVAARGLDISNVKHVINFDLPSDIEEYVHRIGRT 367
Query: 364 GRFGRKGVAINFVKNDDIKILRDI 387
GR G G+A +F +I I +D+
Sbjct: 368 GRVGNLGLATSFFNERNINITKDL 391
>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 = 187 bits (475), Expect = 8e-48, Method: Compositional matrix adjust.
Identities = 116/358 (32%), Positives = 190/358 (53%), Gaps = 19/358 (5%)
Query: 30 EAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIAL 89
+ I F + ++D ++ + + G++ P+ IQ+ ++ I GRD++A AQ+G+GKT+ L
Sbjct: 53 QPIQHFTSADLRDIIIDNVNKSGYKIPTPIQKCSIPVISSGRDLMACAQTGSGKTAAFLL 112
Query: 90 TVCQTVDTSSREV-----QALILSPTRELATQ--TEKVILAIGDFINIQAHACVGGKSVG 142
+ + E+ Q +I+SPTRELA Q E A ++ I GG S
Sbjct: 113 PILSKLLEDPHELELGRPQVVIVSPTRELAIQIFNEARKFAFESYLKIGI--VYGGTSFR 170
Query: 143 EDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRY 202
+ G HVV TPGR+ D + R + + +VLDE+D ML GF + + + +
Sbjct: 171 HQNECITRGCHVVIATPGRLLDFVDRTFITFEDTRFVVLDEADRMLDMGFSEDMRRIMTH 230
Query: 203 --LPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKF 260
+ P+ Q ++ SAT P EI M +F+ + V + + +KQ V K+
Sbjct: 231 VTMRPEHQTLMFSATFPEEIQRMAGEFLKNYVFVAIGIVGGACSDVKQTIYEVN----KY 286
Query: 261 DTLCDLYDTLTITQA---VIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGE 317
L + L+ QA ++F TKR D+L + F +S+HGD Q +R+ + +
Sbjct: 287 AKRSKLIEILS-EQADGTIVFVETKRGADFLASFLSEKEFPTTSIHGDRLQSQREQALRD 345
Query: 318 FRSGTTRVLITTDVWARGLDVQQVSLVINYDLPNNRELYIHRIGRSGRFGRKGVAINF 375
F++G+ +VLI T V +RGLD++ + VINYD+P+ + Y+HRIGR+GR G G A +F
Sbjct: 346 FKNGSMKVLIATSVASRGLDIKNIKHVINYDMPSKIDDYVHRIGRTGRVGNNGRATSF 403
>pdb|2Z0M|A Chain A, Crystal Structure Of Hypothetical Atp-Dependent Rna
Helicase From Sulfolobus Tokodaii
Length = 337
Score = 162 bits (409), Expect = 4e-40, Method: Compositional matrix adjust.
Identities = 103/336 (30%), Positives = 183/336 (54%), Gaps = 21/336 (6%)
Query: 46 RGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQAL 105
+ I + GF+ + +Q + + +++G++V+ +A++G+GKT+ A+ + + +++L
Sbjct: 7 QAIREMGFKNFTEVQSKTIPLMLQGKNVVVRAKTGSGKTAAYAIPILEL------GMKSL 60
Query: 106 ILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDM 165
+++PTREL Q I IG +++ + GG I ++ + +V TPGR+ D+
Sbjct: 61 VVTPTRELTRQVASHIRDIGRYMDTKVAEVYGGMPYKAQINRVRNA-DIVVATPGRLLDL 119
Query: 166 IKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTT 225
+ + + +++++DE+D M GF D I + L SAT+P EI ++
Sbjct: 120 WSKGVIDLSSFEIVIIDEADLMFEMGFIDDIKIILAQTSNRKITGLFSATIPEEIRKVVK 179
Query: 226 KFMTDPVKILVKRDELTLEGIKQFFVAVEREEW--KFDTLCDLYDTLTITQAVIFCNTKR 283
F+T+ +I + L ++ FV V +++W K L + D ++F T+
Sbjct: 180 DFITNYEEI---EACIGLANVEHKFVHV-KDDWRSKVQALRENKDK----GVIVFVRTRN 231
Query: 284 KVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQVSL 343
+V L +R ++ + + GD+PQ R+ + FR G +LITTDV +RGLD+ V
Sbjct: 232 RVAKL---VRLFDNAIE-LRGDLPQSVRNRNIDAFREGEYDMLITTDVASRGLDIPLVEK 287
Query: 344 VINYDLPNNRELYIHRIGRSGRFGRKGVAINFVKND 379
VIN+D P + YIHRIGR+GR GRKG AI F+ N+
Sbjct: 288 VINFDAPQDLRTYIHRIGRTGRMGRKGEAITFILNE 323
>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 = 149 bits (377), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 71/171 (41%), Positives = 115/171 (67%), Gaps = 8/171 (4%)
Query: 241 LTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVS 300
LTL I+Q++V E + K+ LC++Y ++TI QA+IFC T+R WLT +M VS
Sbjct: 3 LTLNNIRQYYVLCEHRKDKYQALCNIYGSITIGQAIIFCQTRRNAKWLTVEMIQDGHQVS 62
Query: 301 SMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQVSLVINYDLPNNR------E 354
+ G++ ++R +I+ FR G +VLITT+V ARG+DV+QV++V+N+DLP + E
Sbjct: 63 LLSGELTVEQRASIIQRFRDGKEKVLITTNVCARGIDVKQVTIVVNFDLPVKQGEEPDYE 122
Query: 355 LYIHRIGRSGRFGRKGVAINFVKNDDIKILRDIEQYYSTQIDEMPMNVADL 405
Y+HRIGR+GRFG+KG+A N ++ D++ L I+ ++++ I + +N D+
Sbjct: 123 TYLHRIGRTGRFGKKGLAFNMIEVDELPSLMKIQDHFNSSIKQ--LNAEDM 171
>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 = 144 bits (364), Expect = 6e-35, Method: Compositional matrix adjust.
Identities = 70/173 (40%), Positives = 110/173 (63%), Gaps = 2/173 (1%)
Query: 230 DPVKILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLT 289
DP +I + +ELTL+G+ Q++ V E K L L+ L I Q++IFCN+ ++V+ L
Sbjct: 4 DPYEINLM-EELTLKGVTQYYAYVT-ERQKVHCLNTLFSRLQINQSIIFCNSSQRVELLA 61
Query: 290 EKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQVSLVINYDL 349
+K+ ++ +H M Q+ R+ + +FR+G R L+ TD++ RG+D+Q V++VIN+D
Sbjct: 62 KKISQLGYSCFYIHAKMRQEHRNRVFHDFRNGLCRNLVCTDLFTRGIDIQAVNVVINFDF 121
Query: 350 PNNRELYIHRIGRSGRFGRKGVAINFVKNDDIKILRDIEQYYSTQIDEMPMNV 402
P E Y+HRIGRSGRFG G+AIN + DD L+ IE+ T+I +P N+
Sbjct: 122 PKLAETYLHRIGRSGRFGHLGLAINLITYDDRFNLKSIEEQLGTEIKPIPSNI 174
>pdb|2KBF|A Chain A, Solution Structure Of Carboxyl-Terminal Domain Of Dbp5p
Length = 187
Score = 142 bits (359), Expect = 2e-34, Method: Compositional matrix adjust.
Identities = 71/160 (44%), Positives = 107/160 (66%), Gaps = 7/160 (4%)
Query: 239 DELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFT 298
+E+ ++ IKQ ++ + E KFD L +LY +TI ++IF TK+ + L K++
Sbjct: 2 NEVNVDAIKQLYMDCKNEADKFDVLTELYGLMTIGSSIIFVATKKTANVLYGKLKSEGHE 61
Query: 299 VSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQVSLVINYDLPN------N 352
VS +HGD+ +ERD ++ +FR G ++VLITT+V ARG+D+ VS+V+NYDLP +
Sbjct: 62 VSILHGDLQTQERDRLIDDFREGRSKVLITTNVLARGIDIPTVSMVVNYDLPTLANGQAD 121
Query: 353 RELYIHRIGRSGRFGRKGVAINFVKN-DDIKILRDIEQYY 391
YIHRIGR+GRFGRKGVAI+FV + + IL I++Y+
Sbjct: 122 PATYIHRIGRTGRFGRKGVAISFVHDKNSFNILSAIQKYF 161
>pdb|2KBE|A Chain A, Solution Structure Of Amino-Terminal Domain Of Dbp5p
Length = 226
Score = 142 bits (359), Expect = 3e-34, Method: Compositional matrix adjust.
Identities = 81/202 (40%), Positives = 122/202 (60%), Gaps = 11/202 (5%)
Query: 34 SFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPII---KGRDVIAQAQSGTGKTSMIALT 90
SFD +G+ +LL+GIY F+KPS IQ+RA +P++ R++IAQ+QSGTGKT+ +LT
Sbjct: 23 SFDELGLAPELLKGIYAMKFQKPSKIQERA-LPLLLHNPPRNMIAQSQSGTGKTAAFSLT 81
Query: 91 VCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEH 150
+ V+ QA+ L+P+RELA QT +V+ +G F I + V + K +
Sbjct: 82 MLTRVNPEDASPQAICLAPSRELARQTLEVVQEMGKFTKITSQLI-----VPDSFEKNKQ 136
Query: 151 -GVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEML-SRGFKDQIYDVYRYLPPDLQ 208
V+ GTPG V D+++RK ++ + IK+ VLDE+D ML +G DQ V R+LP D Q
Sbjct: 137 INAQVIVGTPGTVLDLMRRKLMQLQKIKIFVLDEADNMLDQQGLGDQCIRVKRFLPKDTQ 196
Query: 209 VVLISATLPHEILEMTTKFMTD 230
+VL SAT + + K + +
Sbjct: 197 LVLFSATFADAVRQYAKKIVPN 218
>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 = 140 bits (353), Expect = 1e-33, Method: Compositional matrix adjust.
Identities = 68/203 (33%), Positives = 124/203 (61%), Gaps = 1/203 (0%)
Query: 33 TSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVC 92
F+ +K +LL GI++ G+EKPS IQ+ ++ + GRD++A+A++GTGK+ + +
Sbjct: 3 NEFEDYCLKRELLMGIFEMGWEKPSPIQEESIPIALSGRDILARAKNGTGKSGAYLIPLL 62
Query: 93 QTVDTSSREVQALILSPTRELATQTEKVILAIGDFI-NIQAHACVGGKSVGEDIRKLEHG 151
+ +D +QA+++ PTRELA Q ++ + + + + A GG ++ +DI +L+
Sbjct: 63 ERLDLKKDNIQAMVIVPTRELALQVSQICIQVSKHMGGAKVMATTGGTNLRDDIMRLDDT 122
Query: 152 VHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVL 211
VHVV TPGR+ D+IK+ + ++++VLDE+D++LS+ F + D+ LP + Q++L
Sbjct: 123 VHVVIATPGRILDLIKKGVAKVDHVQMIVLDEADKLLSQDFVQIMEDIILTLPKNRQILL 182
Query: 212 ISATLPHEILEMTTKFMTDPVKI 234
SAT P + + + P +I
Sbjct: 183 YSATFPLSVQKFMNSHLEKPYEI 205
>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 = 140 bits (353), Expect = 1e-33, Method: Compositional matrix adjust.
Identities = 71/161 (44%), Positives = 104/161 (64%), Gaps = 7/161 (4%)
Query: 239 DELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFT 298
+E+ ++ IKQ + + E KFD L +LY TI ++IF TK+ + L K++
Sbjct: 3 NEVNVDAIKQLYXDCKNEADKFDVLTELYGVXTIGSSIIFVATKKTANVLYGKLKSEGHE 62
Query: 299 VSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQVSLVINYDLPN------N 352
VS +HGD+ +ERD ++ +FR G ++VLITT+V ARG+D+ VS V+NYDLP +
Sbjct: 63 VSILHGDLQTQERDRLIDDFREGRSKVLITTNVLARGIDIPTVSXVVNYDLPTLANGQAD 122
Query: 353 RELYIHRIGRSGRFGRKGVAINFVKN-DDIKILRDIEQYYS 392
YIHRIGR+GRFGRKGVAI+FV + + IL I++Y+
Sbjct: 123 PATYIHRIGRTGRFGRKGVAISFVHDKNSFNILSAIQKYFG 163
>pdb|3GFP|A Chain A, Structure Of The C-Terminal Domain Of The Dead-Box Protein
Dbp5
Length = 189
Score = 140 bits (352), Expect = 2e-33, Method: Compositional matrix adjust.
Identities = 71/161 (44%), Positives = 104/161 (64%), Gaps = 7/161 (4%)
Query: 239 DELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFT 298
+E+ ++ IKQ + + E KFD L +LY TI ++IF TK+ + L K++
Sbjct: 4 NEVNVDAIKQLYXDCKNEADKFDVLTELYGLXTIGSSIIFVATKKTANVLYGKLKSEGHE 63
Query: 299 VSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQVSLVINYDLPN------N 352
VS +HGD+ +ERD ++ +FR G ++VLITT+V ARG+D+ VS V+NYDLP +
Sbjct: 64 VSILHGDLQTQERDRLIDDFREGRSKVLITTNVLARGIDIPTVSXVVNYDLPTLANGQAD 123
Query: 353 RELYIHRIGRSGRFGRKGVAINFVKN-DDIKILRDIEQYYS 392
YIHRIGR+GRFGRKGVAI+FV + + IL I++Y+
Sbjct: 124 PATYIHRIGRTGRFGRKGVAISFVHDKNSFNILSAIQKYFG 164
>pdb|3SQX|A Chain A, Structure Of Mss116p (Nte And C-Tail Double Deletion)
Bound To Ssrna And Amp-Pnp
Length = 512
Score = 133 bits (335), Expect = 1e-31, Method: Compositional matrix adjust.
Identities = 104/383 (27%), Positives = 189/383 (49%), Gaps = 43/383 (11%)
Query: 43 DLLRGIYQYGFEKPSAIQQRAVMPIIKG--RDVIAQAQSGTGKTSMIALTVCQ----TVD 96
++ + I + F + +QQ+ + PI+ DVIA+A++GTGKT + + Q T
Sbjct: 31 EIHKAITRMEFPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIFQHLINTKF 90
Query: 97 TSSREVQALILSPTRELATQTEKVILAIGDF-INIQAHACV---GGKSVGEDIRKLEH-G 151
S V+A+I++PTR+LA Q E + I D ++ +ACV GG + K+
Sbjct: 91 DSQYMVKAVIVAPTRDLALQIEAEVKKIHDMNYGLKKYACVSLVGGTDFRAAMNKMNKLR 150
Query: 152 VHVVSGTPGRVCDMIKRKTLRT-RAIKLLVLDESDEMLSRGFKDQIYDVYRYL------- 203
++V TPGR+ D++++ + + R + VLDE+D +L GF+D + + L
Sbjct: 151 PNIVIATPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLEIGFRDDLETISGILNEKNSKS 210
Query: 204 PPDLQVVLISATLPHEILEMTTKFMTDPVKILV----KRDELTLEGIKQ----------- 248
+++ +L SATL ++ ++ M + + K + E I Q
Sbjct: 211 ADNIKTLLFSATLDDKVQKLANNIMNKKECLFLDTVDKNEPEAHERIDQSVVISEKFANS 270
Query: 249 FFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRG---YNFTVSSMHGD 305
F AVE + + Y +A+IF T + +L ++ + + HG
Sbjct: 271 IFAAVEHIKKQIKERDSNY------KAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGK 324
Query: 306 MPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQVSLVINYDLPNNRELYIHRIGRSGR 365
+ Q +R +++ F+ + +L+ TDV ARG+D V V+ +P+ YIHRIGR+ R
Sbjct: 325 ITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTAR 384
Query: 366 FGRKGVAINFVKNDDIKILRDIE 388
G++G ++ F+ D++ +R++E
Sbjct: 385 SGKEGSSVLFICKDELPFVRELE 407
>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 = 133 bits (335), Expect = 2e-31, Method: Compositional matrix adjust.
Identities = 104/383 (27%), Positives = 189/383 (49%), Gaps = 43/383 (11%)
Query: 43 DLLRGIYQYGFEKPSAIQQRAVMPIIKG--RDVIAQAQSGTGKTSMIALTVCQ----TVD 96
++ + I + F + +QQ+ + PI+ DVIA+A++GTGKT + + Q T
Sbjct: 82 EIHKAITRMEFPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIFQHLINTKF 141
Query: 97 TSSREVQALILSPTRELATQTEKVILAIGDF-INIQAHACV---GGKSVGEDIRKLEH-G 151
S V+A+I++PTR+LA Q E + I D ++ +ACV GG + K+
Sbjct: 142 DSQYMVKAVIVAPTRDLALQIEAEVKKIHDMNYGLKKYACVSLVGGTDFRAAMNKMNKLR 201
Query: 152 VHVVSGTPGRVCDMIKRKTLRT-RAIKLLVLDESDEMLSRGFKDQIYDVYRYL------- 203
++V TPGR+ D++++ + + R + VLDE+D +L GF+D + + L
Sbjct: 202 PNIVIATPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLEIGFRDDLETISGILNEKNSKS 261
Query: 204 PPDLQVVLISATLPHEILEMTTKFMTDPVKILV----KRDELTLEGIKQ----------- 248
+++ +L SATL ++ ++ M + + K + E I Q
Sbjct: 262 ADNIKTLLFSATLDDKVQKLANNIMNKKECLFLDTVDKNEPEAHERIDQSVVISEKFANS 321
Query: 249 FFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRG---YNFTVSSMHGD 305
F AVE + + Y +A+IF T + +L ++ + + HG
Sbjct: 322 IFAAVEHIKKQIKERDSNY------KAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGK 375
Query: 306 MPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQVSLVINYDLPNNRELYIHRIGRSGR 365
+ Q +R +++ F+ + +L+ TDV ARG+D V V+ +P+ YIHRIGR+ R
Sbjct: 376 ITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTAR 435
Query: 366 FGRKGVAINFVKNDDIKILRDIE 388
G++G ++ F+ D++ +R++E
Sbjct: 436 SGKEGSSVLFICKDELPFVRELE 458
>pdb|3SQW|A Chain A, Structure Of Mss116p (Nte Deletion) Bound To Ssrna And
Amp-Pnp
Length = 579
Score = 132 bits (333), Expect = 3e-31, Method: Compositional matrix adjust.
Identities = 104/383 (27%), Positives = 189/383 (49%), Gaps = 43/383 (11%)
Query: 43 DLLRGIYQYGFEKPSAIQQRAVMPIIKG--RDVIAQAQSGTGKTSMIALTVCQ----TVD 96
++ + I + F + +QQ+ + PI+ DVIA+A++GTGKT + + Q T
Sbjct: 31 EIHKAITRMEFPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIFQHLINTKF 90
Query: 97 TSSREVQALILSPTRELATQTEKVILAIGDF-INIQAHACV---GGKSVGEDIRKLEH-G 151
S V+A+I++PTR+LA Q E + I D ++ +ACV GG + K+
Sbjct: 91 DSQYMVKAVIVAPTRDLALQIEAEVKKIHDMNYGLKKYACVSLVGGTDFRAAMNKMNKLR 150
Query: 152 VHVVSGTPGRVCDMIKRKTLRT-RAIKLLVLDESDEMLSRGFKDQIYDVYRYL------- 203
++V TPGR+ D++++ + + R + VLDE+D +L GF+D + + L
Sbjct: 151 PNIVIATPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLEIGFRDDLETISGILNEKNSKS 210
Query: 204 PPDLQVVLISATLPHEILEMTTKFMTDPVKILV----KRDELTLEGIKQ----------- 248
+++ +L SATL ++ ++ M + + K + E I Q
Sbjct: 211 ADNIKTLLFSATLDDKVQKLANNIMNKKECLFLDTVDKNEPEAHERIDQSVVISEKFANS 270
Query: 249 FFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRG---YNFTVSSMHGD 305
F AVE + + Y +A+IF T + +L ++ + + HG
Sbjct: 271 IFAAVEHIKKQIKERDSNY------KAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGK 324
Query: 306 MPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQVSLVINYDLPNNRELYIHRIGRSGR 365
+ Q +R +++ F+ + +L+ TDV ARG+D V V+ +P+ YIHRIGR+ R
Sbjct: 325 ITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTAR 384
Query: 366 FGRKGVAINFVKNDDIKILRDIE 388
G++G ++ F+ D++ +R++E
Sbjct: 385 SGKEGSSVLFICKDELPFVRELE 407
>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 = 131 bits (330), Expect = 6e-31, Method: Compositional matrix adjust.
Identities = 72/199 (36%), Positives = 117/199 (58%), Gaps = 3/199 (1%)
Query: 35 FDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQT 94
F+++ + +L G+ GFE+PS +Q +A+ G D+I QA+SGTGKT + + +
Sbjct: 26 FESLLLSRPVLEGLRAAGFERPSPVQLKAIPLGRCGLDLIVQAKSGTGKTCVFSTIALDS 85
Query: 95 VDTSSREVQALILSPTRELATQTEKVILAIG-DFINIQAHACVGGKSVGEDIRKLEHGVH 153
+ + Q LIL+PTRE+A Q VI AIG ++ H +GG + +D +L+ H
Sbjct: 86 LVLENLSTQILILAPTREIAVQIHSVITAIGIKMEGLECHVFIGGTPLSQDKTRLKK-CH 144
Query: 154 VVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRG-FKDQIYDVYRYLPPDLQVVLI 212
+ G+PGR+ +I+ L +I+L +LDE+D++L G F++QI +Y LP Q++ +
Sbjct: 145 IAVGSPGRIKQLIELDYLNPGSIRLFILDEADKLLEEGSFQEQINWIYSSLPASKQMLAV 204
Query: 213 SATLPHEILEMTTKFMTDP 231
SAT P + TK+M DP
Sbjct: 205 SATYPEFLANALTKYMRDP 223
>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 = 131 bits (329), Expect = 8e-31, Method: Compositional matrix adjust.
Identities = 68/158 (43%), Positives = 97/158 (61%), Gaps = 1/158 (0%)
Query: 241 LTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVS 300
LT I+ + V REE KF L D+ T +IFC TK V+ LT+++ +
Sbjct: 5 LTTRNIEHAVIQV-REENKFSLLKDVLMTENPDSCIIFCRTKEHVNQLTDELDDLGYPCD 63
Query: 301 SMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQVSLVINYDLPNNRELYIHRI 360
+HG M Q++R +M EF+ G R L+ TDV ARG+D++ +SLVINYDLP +E Y+HR
Sbjct: 64 KIHGGMIQEDRFDVMNEFKRGEYRYLVATDVAARGIDIENISLVINYDLPLEKESYVHRT 123
Query: 361 GRSGRFGRKGVAINFVKNDDIKILRDIEQYYSTQIDEM 398
GR+GR G KG AI+FV + + L DIE+Y +I ++
Sbjct: 124 GRTGRAGNKGKAISFVTAFEKRFLADIEEYIGFEIQKI 161
>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 = 130 bits (328), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 74/207 (35%), Positives = 116/207 (56%), Gaps = 3/207 (1%)
Query: 33 TSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVC 92
+ F +K +LLR I GFE PS +Q + I G DV+ QA+SG GKT++ L
Sbjct: 14 SGFRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATL 73
Query: 93 QTVDTSSREVQALILSPTRELATQTEKVILAIGDFI-NIQAHACVGGKSVGEDIRKLEHG 151
Q ++ + +V L++ TRELA Q K ++ N++ GG S+ +D L+
Sbjct: 74 QQLEPVTGQVSVLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEVLKKN 133
Query: 152 V-HVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSR-GFKDQIYDVYRYLPPDLQV 209
H+V GTPGR+ + + K+L + IK +LDE D+ML + + + +++R P + QV
Sbjct: 134 CPHIVVGTPGRILALARNKSLNLKHIKHFILDECDKMLEQLDMRRDVQEIFRMTPHEKQV 193
Query: 210 VLISATLPHEILEMTTKFMTDPVKILV 236
++ SATL EI + KFM DP++I V
Sbjct: 194 MMFSATLSKEIRPVCRKFMQDPMEIFV 220
>pdb|3FHC|B Chain B, Crystal Structure Of Human Dbp5 In Complex With Nup214
Length = 235
Score = 129 bits (325), Expect = 2e-30, Method: Compositional matrix adjust.
Identities = 84/218 (38%), Positives = 128/218 (58%), Gaps = 14/218 (6%)
Query: 31 AITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPII---KGRDVIAQAQSGTGKTSMI 87
++ SF+ + +K LL+G+Y GF +PS IQ+ A +P++ +++IAQ+QSGTGKT+
Sbjct: 23 SVKSFEELRLKPQLLQGVYAMGFNRPSKIQENA-LPLMLAEPPQNLIAQSQSGTGKTAAF 81
Query: 88 ALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFIN--IQAHACVGGK-SVGED 144
L + V+ +++ Q L LSPT ELA QT KVI +G F A+A G K G+
Sbjct: 82 VLAMLSQVEPANKYPQCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLERGQK 141
Query: 145 IRKLEHGVHVVSGTPGRVCDMI-KRKTLRTRAIKLLVLDESDEMLS-RGFKDQIYDVYRY 202
I + +V GTPG V D K K + + IK+ VLDE+D M++ +G +DQ + R
Sbjct: 142 ISE-----QIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRM 196
Query: 203 LPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDE 240
LP + Q++L SAT + + K + DP I +KR+E
Sbjct: 197 LPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKREE 234
>pdb|3FMO|B Chain B, Crystal Structure Of The Nucleoporin Nup214 In Complex
With The Dead- Box Helicase Ddx19
Length = 300
Score = 127 bits (320), Expect = 8e-30, Method: Compositional matrix adjust.
Identities = 83/217 (38%), Positives = 127/217 (58%), Gaps = 14/217 (6%)
Query: 31 AITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPII---KGRDVIAQAQSGTGKTSMI 87
++ SF+ + +K LL+G+Y GF +PS IQ+ A +P++ +++IAQ+QSGTGKT+
Sbjct: 90 SVKSFEELRLKPQLLQGVYAMGFNRPSKIQENA-LPLMLAEPPQNLIAQSQSGTGKTAAF 148
Query: 88 ALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFIN--IQAHACVGGK-SVGED 144
L + V+ +++ Q L LSPT ELA QT KVI +G F A+A G K G+
Sbjct: 149 VLAMLSQVEPANKYPQCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLERGQK 208
Query: 145 IRKLEHGVHVVSGTPGRVCDMI-KRKTLRTRAIKLLVLDESDEMLS-RGFKDQIYDVYRY 202
I + +V GTPG V D K K + + IK+ VLDE+D M++ +G +DQ + R
Sbjct: 209 ISE-----QIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRM 263
Query: 203 LPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRD 239
LP + Q++L SAT + + K + DP I +KR+
Sbjct: 264 LPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKRE 300
>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 = 127 bits (320), Expect = 9e-30, Method: Compositional matrix adjust.
Identities = 70/203 (34%), Positives = 112/203 (55%), Gaps = 5/203 (2%)
Query: 35 FDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQT 94
F +K ++L ++ G P+ IQ A+ ++G+D+I QA++GTGKT AL + +
Sbjct: 3 FKDFPLKPEILEALHGRGLTTPTPIQAAALPLALEGKDLIGQARTGTGKTLAFALPIAER 62
Query: 95 VDTS---SREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHG 151
+ S R+ +AL+L+PTRELA Q + A+ + + A GG G+ L G
Sbjct: 63 LAPSQERGRKPRALVLTPTRELALQVASELTAVAPHLKVVA--VYGGTGYGKQKEALLRG 120
Query: 152 VHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVL 211
V TPGR D +++ L +++ VLDE+DEMLS GF++++ + PP Q +L
Sbjct: 121 ADAVVATPGRALDYLRQGVLDLSRVEVAVLDEADEMLSMGFEEEVEALLSATPPSRQTLL 180
Query: 212 ISATLPHEILEMTTKFMTDPVKI 234
SATLP + ++M +PV I
Sbjct: 181 FSATLPSWAKRLAERYMKNPVLI 203
>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 = 126 bits (316), Expect = 3e-29, Method: Compositional matrix adjust.
Identities = 69/203 (33%), Positives = 112/203 (55%), Gaps = 5/203 (2%)
Query: 35 FDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQT 94
F +K ++L ++ G P+ I+ A+ ++G+D+I QA++GTGKT AL + +
Sbjct: 3 FKDFPLKPEILEALHGRGLTTPTPIEAAALPLALEGKDLIGQARTGTGKTLAFALPIAER 62
Query: 95 VDTS---SREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHG 151
+ S R+ +AL+L+PTRELA Q + A+ + + A GG G+ L G
Sbjct: 63 LAPSQERGRKPRALVLTPTRELALQVASELTAVAPHLKVVA--VYGGTGYGKQKEALLRG 120
Query: 152 VHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVL 211
V TPGR D +++ L +++ VLDE+DEMLS GF++++ + PP Q +L
Sbjct: 121 ADAVVATPGRALDYLRQGVLDLSRVEVAVLDEADEMLSMGFEEEVEALLSATPPSRQTLL 180
Query: 212 ISATLPHEILEMTTKFMTDPVKI 234
SATLP + ++M +PV I
Sbjct: 181 FSATLPSWAKRLAERYMKNPVLI 203
>pdb|1T5I|A Chain A, Crystal Structure Of The C-Terminal Domain Of Uap56
Length = 172
Score = 123 bits (308), Expect = 2e-28, Method: Compositional matrix adjust.
Identities = 58/159 (36%), Positives = 100/159 (62%), Gaps = 2/159 (1%)
Query: 242 TLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSS 301
+L G++Q++V ++ E K L DL D L Q VIF + ++ L + + NF +
Sbjct: 2 SLHGLQQYYVKLKDNE-KNRKLFDLLDVLEFNQVVIFVKSVQRCIALAQLLVEQNFPAIA 60
Query: 302 MHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQVSLVINYDLPNNRELYIHRIG 361
+H MPQ+ER + +F+ R+L+ T+++ RG+D+++V++ NYD+P + + Y+HR+
Sbjct: 61 IHRGMPQEERLSRYQQFKDFQRRILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVA 120
Query: 362 RSGRFGRKGVAINFVKN-DDIKILRDIEQYYSTQIDEMP 399
R+GRFG KG+AI FV + +D KIL D++ + I E+P
Sbjct: 121 RAGRFGTKGLAITFVSDENDAKILNDVQDRFEVNISELP 159
>pdb|3BER|A Chain A, Human Dead-Box Rna-Helicase Ddx47, Conserved Domain I In
Complex With Amp
Length = 249
Score = 122 bits (307), Expect = 3e-28, Method: Compositional matrix adjust.
Identities = 68/208 (32%), Positives = 115/208 (55%), Gaps = 1/208 (0%)
Query: 30 EAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIAL 89
E +F +G+ D L Q G+ KP+ IQ A+ ++GRD+I A++G+GKT AL
Sbjct: 40 EETKTFKDLGVTDVLCEACDQLGWTKPTKIQIEAIPLALQGRDIIGLAETGSGKTGAFAL 99
Query: 90 TVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLE 149
+ + + + + AL+L+PTRELA Q + A+G I +Q+ VGG L
Sbjct: 100 PILNALLETPQRLFALVLTPTRELAFQISEQFEALGSSIGVQSAVIVGGIDSMSQSLALA 159
Query: 150 HGVHVVSGTPGRVCDMIKR-KTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQ 208
H++ TPGR+ D ++ K RA+K LV+DE+D +L+ F+ ++ + + +P D +
Sbjct: 160 KKPHIIIATPGRLIDHLENTKGFNLRALKYLVMDEADRILNMDFETEVDKILKVIPRDRK 219
Query: 209 VVLISATLPHEILEMTTKFMTDPVKILV 236
L SAT+ ++ ++ + +PVK V
Sbjct: 220 TFLFSATMTKKVQKLQRAALKNPVKCAV 247
>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 = 119 bits (297), Expect = 4e-27, Method: Compositional matrix adjust.
Identities = 70/210 (33%), Positives = 106/210 (50%), Gaps = 4/210 (1%)
Query: 31 AITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALT 90
A T F + ++ I F KP+ IQ+R + ++G + Q+Q+GTGKT L
Sbjct: 2 AETQFTRFPFQPFIIEAIKTLRFYKPTEIQERIIPGALRGESXVGQSQTGTGKTHAYLLP 61
Query: 91 VCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFIN----IQAHACVGGKSVGEDIR 146
+ + + EVQA+I +PTRELATQ L I F I A +GG + +
Sbjct: 62 IXEKIKPERAEVQAVITAPTRELATQIYHETLKITKFCPKDRXIVARCLIGGTDKQKALE 121
Query: 147 KLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPD 206
KL H+V GTPGR+ D I+ + L +LV+DE+D L GF + + P D
Sbjct: 122 KLNVQPHIVIGTPGRINDFIREQALDVHTAHILVVDEADLXLDXGFITDVDQIAARXPKD 181
Query: 207 LQVVLISATLPHEILEMTTKFMTDPVKILV 236
LQ ++ SAT+P ++ K+ +P + V
Sbjct: 182 LQXLVFSATIPEKLKPFLKKYXENPTFVHV 211
>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 = 116 bits (290), Expect = 3e-26, Method: Compositional matrix adjust.
Identities = 75/237 (31%), Positives = 127/237 (53%), Gaps = 19/237 (8%)
Query: 28 GVEAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTS-- 85
I +FD + + + I +++P+ IQ+ A+ I++ RD++A AQ+G+GKT+
Sbjct: 18 ATNVIENFDELKLDPTIRNNILLASYQRPTPIQKNAIPAILEHRDIMACAQTGSGKTAAF 77
Query: 86 ---MIALTVCQTVD----TSSREVQALILSPTRELATQTEKVILAIGDF-INIQAHACV- 136
+I VCQ ++ + + + LIL+PTRELA Q ++ F +N +CV
Sbjct: 78 LIPIINHLVCQDLNQQRYSKTAYPKCLILAPTRELAIQ---ILSESQKFSLNTPLRSCVV 134
Query: 137 -GGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQ 195
GG IR+++ G H++ TPGR+ D I++ + K +VLDE+D ML GF+ Q
Sbjct: 135 YGGADTHSQIREVQMGCHLLVATPGRLVDFIEKNKISLEFCKYIVLDEADRMLDMGFEPQ 194
Query: 196 IYDVYR--YLPPDL--QVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQ 248
I + +P + Q ++ SAT P EI ++ F+ + + + V R T + IKQ
Sbjct: 195 IRKIIEESNMPSGINRQTLMFSATFPKEIQKLAADFLYNYIFMTVGRVGSTSDSIKQ 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 = 106 bits (265), Expect = 2e-23, Method: Compositional matrix adjust.
Identities = 66/217 (30%), Positives = 107/217 (49%), Gaps = 5/217 (2%)
Query: 30 EAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIAL 89
+ + +F +++ I + F +P+AIQ + + G D++ AQ+G+GKT L
Sbjct: 26 KPVLNFYEANFPANVMDVIARQNFTEPTAIQAQGWPVALSGLDMVGVAQTGSGKTLSYLL 85
Query: 90 TVCQTVDTSSREVQ-----ALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGED 144
++ + L+L+PTRELA Q ++V +++ GG G
Sbjct: 86 PAIVHINHQPFLERGDGPICLVLAPTRELAQQVQQVAAEYCRACRLKSTCIYGGAPKGPQ 145
Query: 145 IRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLP 204
IR LE GV + TPGR+ D ++ R LVLDE+D ML GF+ QI + +
Sbjct: 146 IRDLERGVEICIATPGRLIDFLECGKTNLRRTTYLVLDEADRMLDMGFEPQIRKIVDQIR 205
Query: 205 PDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDEL 241
PD Q ++ SAT P E+ ++ F+ D + I + EL
Sbjct: 206 PDRQTLMWSATWPKEVRQLAEDFLKDYIHINIGALEL 242
>pdb|4A4D|A Chain A, Crystal Structure Of The N-Terminal Domain Of The Human
Dead-Box Rna Helicase Ddx5 (P68)
Length = 253
Score = 106 bits (264), Expect = 3e-23, Method: Compositional matrix adjust.
Identities = 64/210 (30%), Positives = 104/210 (49%), Gaps = 5/210 (2%)
Query: 30 EAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIAL 89
+ + +F +++ I + F +P+AIQ + + G D++ AQ+G+GKT L
Sbjct: 40 KPVLNFYEANFPANVMDVIARQNFTEPTAIQAQGWPVALSGLDMVGVAQTGSGKTLSYLL 99
Query: 90 TVCQTVDTSSREVQ-----ALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGED 144
++ + L+L+PTRELA Q ++V +++ GG G
Sbjct: 100 PAIVHINHQPFLERGDGPICLVLAPTRELAQQVQQVAAEYCRACRLKSTCIYGGAPKGPQ 159
Query: 145 IRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLP 204
IR LE GV + TPGR+ D ++ R LVLDE+D ML GF+ QI + +
Sbjct: 160 IRDLERGVEICIATPGRLIDFLECGKTNLRRTTYLVLDEADRMLDMGFEPQIRKIVDQIR 219
Query: 205 PDLQVVLISATLPHEILEMTTKFMTDPVKI 234
PD Q ++ SAT P E+ ++ F+ D + I
Sbjct: 220 PDRQTLMWSATWPKEVRQLAEDFLKDYIHI 249
>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 = 105 bits (263), Expect = 4e-23, Method: Compositional matrix adjust.
Identities = 69/207 (33%), Positives = 111/207 (53%), Gaps = 7/207 (3%)
Query: 36 DAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTV 95
DA DLL+ I + G KP+ IQ +A I++G D+I AQ+GTGKT + +
Sbjct: 23 DAFQQYPDLLKSIIRVGILKPTPIQSQAWPIILQGIDLIVVAQTGTGKTLSYLMPGFIHL 82
Query: 96 DTS--SREVQ----ALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLE 149
D+ SRE + L+L+PTRELA E + +++ GG++ I +
Sbjct: 83 DSQPISREQRNGPGMLVLTPTRELALHVEAECSKYS-YKGLKSICIYGGRNRNGQIEDIS 141
Query: 150 HGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQV 209
GV ++ TPGR+ D+ ++ R+I LV+DE+D+ML F+ QI + + PD Q
Sbjct: 142 KGVDIIIATPGRLNDLQMNNSVNLRSITYLVIDEADKMLDMEFEPQIRKILLDVRPDRQT 201
Query: 210 VLISATLPHEILEMTTKFMTDPVKILV 236
V+ SAT P + ++ ++ DP+ + V
Sbjct: 202 VMTSATWPDTVRQLALSYLKDPMIVYV 228
>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 = 105 bits (262), Expect = 5e-23, Method: Compositional matrix adjust.
Identities = 60/151 (39%), Positives = 89/151 (58%), Gaps = 10/151 (6%)
Query: 242 TLEGIKQFFVAVEREEWKFDTLCDLY-----DTLTITQAVIFCNTKRKVDWLTEKMRGYN 296
T E I Q V VE + K L DL D+LT+ +F TK+ D L + +
Sbjct: 16 TSENITQKVVWVEESD-KRSFLLDLLNATGKDSLTL----VFVETKKGADSLEDFLYHEG 70
Query: 297 FTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQVSLVINYDLPNNRELY 356
+ +S+HGD Q++R+ + +FRSG + +L+ T V ARGLD+ V VIN+DLP++ E Y
Sbjct: 71 YACTSIHGDRSQRDREEALHQFRSGKSPILVATAVAARGLDISNVKHVINFDLPSDIEEY 130
Query: 357 IHRIGRSGRFGRKGVAINFVKNDDIKILRDI 387
+HRIGR+GR G G+A +F +I I +D+
Sbjct: 131 VHRIGRTGRVGNLGLATSFFNERNINITKDL 161
>pdb|3LY5|A Chain A, Ddx18 Dead-Domain
pdb|3LY5|B Chain B, Ddx18 Dead-Domain
Length = 262
Score = 99.4 bits (246), Expect = 4e-21, Method: Compositional matrix adjust.
Identities = 64/219 (29%), Positives = 118/219 (53%), Gaps = 21/219 (9%)
Query: 33 TSFDAMG--IKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALT 90
TSF ++ + ++ L+ I + GF + IQ +++ P+++GRD++A A++G+GKT +
Sbjct: 52 TSFASLCNLVNENTLKAIKEMGFTNMTEIQHKSIRPLLEGRDLLAAAKTGSGKTLAFLIP 111
Query: 91 VCQTV----DTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHA---CVGGKSVGE 143
+ + LILSPTRELA QT V + + + H +GG +
Sbjct: 112 AVELIVKLRFMPRNGTGVLILSPTRELAMQTFGV---LKELMTHHVHTYGLIMGGSNRSA 168
Query: 144 DIRKLEHGVHVVSGTPGRVCD-MIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRY 202
+ +KL +G++++ TPGR+ D M + ++ LV+DE+D +L GF++++ + +
Sbjct: 169 EAQKLGNGINIIVATPGRLLDHMQNTPGFMYKNLQCLVIDEADRILDVGFEEELKQIIKL 228
Query: 203 LPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDEL 241
LP Q +L SAT T+ + D +I +K++ L
Sbjct: 229 LPTRRQTMLFSAT--------QTRKVEDLARISLKKEPL 259
>pdb|2PL3|A Chain A, Human Dead-Box Rna Helicase Ddx10, Dead Domain In Complex
With Adp
Length = 236
Score = 95.5 bits (236), Expect = 5e-20, Method: Compositional matrix adjust.
Identities = 61/214 (28%), Positives = 113/214 (52%), Gaps = 6/214 (2%)
Query: 28 GVEAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMI 87
V IT F + L+G+ + + + IQ++ + ++G+DV+ A++G+GKT
Sbjct: 20 NVNEITRFSDFPLSKKTLKGLQEAQYRLVTEIQKQTIGLALQGKDVLGAAKTGSGKTLAF 79
Query: 88 ALTVCQTVD----TSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGE 143
+ V + + TS+ + LI+SPTRELA QT +V+ +G + A +GGK +
Sbjct: 80 LVPVLEALYRLQWTSTDGLGVLIISPTRELAYQTFEVLRKVGKNHDFSAGLIIGGKDLKH 139
Query: 144 DIRKLEHGVHVVSGTPGRVCD-MIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRY 202
+ ++ + ++++ TPGR+ M + + +++LVLDE+D +L GF D + V
Sbjct: 140 EAERI-NNINILVCTPGRLLQHMDETVSFHATDLQMLVLDEADRILDMGFADTMNAVIEN 198
Query: 203 LPPDLQVVLISATLPHEILEMTTKFMTDPVKILV 236
LP Q +L SAT + ++ + +P + V
Sbjct: 199 LPKKRQTLLFSATQTKSVKDLARLSLKNPEYVWV 232
>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 = 91.7 bits (226), Expect = 8e-19, Method: Compositional matrix adjust.
Identities = 49/150 (32%), Positives = 78/150 (52%)
Query: 246 IKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGD 305
I Q++ + E K L L T++++F + +V L +R + G+
Sbjct: 4 IHQWYYRADDLEHKTALLVHLLKQPEATRSIVFVRKRERVHELANWLREAGINNCYLEGE 63
Query: 306 MPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQVSLVINYDLPNNRELYIHRIGRSGR 365
M Q +R+ + G VL+ TDV ARG+D+ VS V N+D+P + + Y+HRIGR+ R
Sbjct: 64 MVQGKRNEAIKRLTEGRVNVLVATDVAARGIDIPDVSHVFNFDMPRSGDTYLHRIGRTAR 123
Query: 366 FGRKGVAINFVKNDDIKILRDIEQYYSTQI 395
GRKG AI+ V+ D +L + +Y I
Sbjct: 124 AGRKGTAISLVEAHDHLLLGKVGRYIEEPI 153
>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 = 89.0 bits (219), Expect = 4e-18, Method: Compositional matrix adjust.
Identities = 39/100 (39%), Positives = 60/100 (60%)
Query: 259 KFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEF 318
+ + L DL + +A++F TK + + + + + ++HGDM Q ER+ +MG F
Sbjct: 15 RLEVLSDLLYVASPDRAMVFTRTKAETEEIAQGLLRLGHPAQALHGDMSQGERERVMGAF 74
Query: 319 RSGTTRVLITTDVWARGLDVQQVSLVINYDLPNNRELYIH 358
R G RVL+ TDV ARGLD+ QV LV++Y +P+ E Y H
Sbjct: 75 RQGEVRVLVATDVAARGLDIPQVDLVVHYRMPDRAEAYQH 114
>pdb|3EAQ|A Chain A, Novel Dimerization Motif In The Dead Box Rna Helicase Hera
Form 2, Complete Dimer, Symmetric
pdb|3EAQ|B Chain B, Novel Dimerization Motif In The Dead Box Rna Helicase Hera
Form 2, Complete Dimer, Symmetric
pdb|3EAR|A Chain A, Novel Dimerization Motif In The Dead Box Rna Helicase
Hera: Form 1, Partial Dimer
pdb|3EAR|B Chain B, Novel Dimerization Motif In The Dead Box Rna Helicase
Hera: Form 1, Partial Dimer
pdb|3EAS|A Chain A, Novel Dimerization Motif In The Dead Box Rna Helicase
Hera: Form 1, Complete Dimer, Asymmetric
pdb|3EAS|B Chain B, Novel Dimerization Motif In The Dead Box Rna Helicase
Hera: Form 1, Complete Dimer, Asymmetric
Length = 212
Score = 86.7 bits (213), Expect = 2e-17, Method: Compositional matrix adjust.
Identities = 38/100 (38%), Positives = 60/100 (60%)
Query: 259 KFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEF 318
+ + L DL + +A++F TK + + + + + ++HGD+ Q ER+ ++G F
Sbjct: 18 RLEVLSDLLYVASPDRAMVFTRTKAETEEIAQGLLRLGHPAQALHGDLSQGERERVLGAF 77
Query: 319 RSGTTRVLITTDVWARGLDVQQVSLVINYDLPNNRELYIH 358
R G RVL+ TDV ARGLD+ QV LV++Y LP+ E Y H
Sbjct: 78 RQGEVRVLVATDVAARGLDIPQVDLVVHYRLPDRAEAYQH 117
>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 = 85.1 bits (209), Expect = 6e-17, Method: Compositional matrix adjust.
Identities = 49/135 (36%), Positives = 70/135 (51%), Gaps = 2/135 (1%)
Query: 255 REEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAI 314
+EE K L + T +IF K VD + E + ++HG Q+ER
Sbjct: 38 KEEAKMVYLLECLQK-TPPPVLIFAEKKADVDAIHEYLLLKGVEAVAIHGGKDQEERTKA 96
Query: 315 MGEFRSGTTRVLITTDVWARGLDVQQVSLVINYDLPNNRELYIHRIGRSGRFGRKGVAIN 374
+ FR G VL+ TDV ++GLD + VINYD+P E Y+HRIGR+G G G+A
Sbjct: 97 IEAFREGKKDVLVATDVASKGLDFPAIQHVINYDMPEEIENYVHRIGRTGCSGNTGIATT 156
Query: 375 FV-KNDDIKILRDIE 388
F+ K D +L D++
Sbjct: 157 FINKACDESVLMDLK 171
>pdb|3DKP|A Chain A, Human Dead-Box Rna-Helicase Ddx52, Conserved Domain I In
Complex With Adp
Length = 245
Score = 82.8 bits (203), Expect = 3e-16, Method: Compositional matrix adjust.
Identities = 51/171 (29%), Positives = 94/171 (54%), Gaps = 13/171 (7%)
Query: 40 IKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVC-QTVDTS 98
I LL+ I GF+ P+ IQ +A+ ++ GR+++A A +G+GKT ++ + Q +
Sbjct: 36 INSRLLQNILDAGFQMPTPIQMQAIPVMLHGRELLASAPTGSGKTLAFSIPILMQLKQPA 95
Query: 99 SREVQALILSPTRELATQTEKVILAIGDFINIQAH----ACVGGKSVGEDIRKLEHGVHV 154
++ +ALI+SPTRELA+Q + ++ I + + H A V K G K +
Sbjct: 96 NKGFRALIISPTRELASQIHRELIKISEGTGFRIHMIHKAAVAAKKFGP---KSSKKFDI 152
Query: 155 VSGTPGRVCDMIKRKT--LRTRAIKLLVLDESDEML---SRGFKDQIYDVY 200
+ TP R+ ++K+ + +++ LV+DESD++ GF+DQ+ ++
Sbjct: 153 LVTTPNRLIYLLKQDPPGIDLASVEWLVVDESDKLFEDGKTGFRDQLASIF 203
>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 = 74.7 bits (182), Expect = 8e-14, Method: Compositional matrix adjust.
Identities = 35/118 (29%), Positives = 67/118 (56%), Gaps = 3/118 (2%)
Query: 274 QAVIFCNTKRKVDWLTEKMRG---YNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTD 330
+A+IF T + +L ++ + + HG + Q +R +++ F+ + +L+ TD
Sbjct: 35 KAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQNKRTSLVKRFKKDESGILVCTD 94
Query: 331 VWARGLDVQQVSLVINYDLPNNRELYIHRIGRSGRFGRKGVAINFVKNDDIKILRDIE 388
V ARG+D V V+ +P+ YIHRIGR+ R G++G ++ F+ D++ +R++E
Sbjct: 95 VGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEGSSVLFICKDELPFVRELE 152
>pdb|4DB2|C Chain C, Mss116p Dead-Box Helicase Domain 2 Bound To An Rna Duplex
pdb|4DB2|D Chain D, Mss116p Dead-Box Helicase Domain 2 Bound To An Rna Duplex
Length = 257
Score = 74.7 bits (182), Expect = 8e-14, Method: Compositional matrix adjust.
Identities = 35/118 (29%), Positives = 67/118 (56%), Gaps = 3/118 (2%)
Query: 274 QAVIFCNTKRKVDWLTEKMRG---YNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTD 330
+A+IF T + +L ++ + + HG + Q +R +++ F+ + +L+ TD
Sbjct: 35 KAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQNKRTSLVKRFKKDESGILVCTD 94
Query: 331 VWARGLDVQQVSLVINYDLPNNRELYIHRIGRSGRFGRKGVAINFVKNDDIKILRDIE 388
V ARG+D V V+ +P+ YIHRIGR+ R G++G ++ F+ D++ +R++E
Sbjct: 95 VGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEGSSVLFICKDELPFVRELE 152
>pdb|4DB2|A Chain A, Mss116p Dead-Box Helicase Domain 2 Bound To An Rna Duplex
pdb|4DB2|B Chain B, Mss116p Dead-Box Helicase Domain 2 Bound To An Rna Duplex
Length = 257
Score = 74.7 bits (182), Expect = 8e-14, Method: Compositional matrix adjust.
Identities = 35/118 (29%), Positives = 67/118 (56%), Gaps = 3/118 (2%)
Query: 274 QAVIFCNTKRKVDWLTEKMRG---YNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTD 330
+A+IF T + +L ++ + + HG + Q +R +++ F+ + +L+ TD
Sbjct: 35 KAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQNKRTSLVKRFKKDESGILVCTD 94
Query: 331 VWARGLDVQQVSLVINYDLPNNRELYIHRIGRSGRFGRKGVAINFVKNDDIKILRDIE 388
V ARG+D V V+ +P+ YIHRIGR+ R G++G ++ F+ D++ +R++E
Sbjct: 95 VGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEGSSVLFICKDELPFVRELE 152
>pdb|1OYY|A Chain A, Structure Of The Recq Catalytic Core Bound To Atp-Gamma-S
Length = 523
Score = 59.7 bits (143), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 27/111 (24%), Positives = 56/111 (50%)
Query: 275 AVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWAR 334
+I+CN++ KV+ +++ + ++ H + R + +F+ ++++ T +
Sbjct: 239 GIIYCNSRAKVEDTAARLQSKGISAAAYHAGLENNVRADVQEKFQRDDLQIVVATVAFGM 298
Query: 335 GLDVQQVSLVINYDLPNNRELYIHRIGRSGRFGRKGVAINFVKNDDIKILR 385
G++ V V+++D+P N E Y GR+GR G A+ F D+ LR
Sbjct: 299 GINKPNVRFVVHFDIPRNIESYYQETGRAGRDGLPAEAMLFYDPADMAWLR 349
>pdb|1OYW|A Chain A, Structure Of The Recq Catalytic Core
Length = 523
Score = 58.2 bits (139), Expect = 9e-09, Method: Compositional matrix adjust.
Identities = 27/111 (24%), Positives = 54/111 (48%)
Query: 275 AVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWAR 334
+I+CN++ KV+ +++ + ++ H + R + +F+ ++++ T +
Sbjct: 239 GIIYCNSRAKVEDTAARLQSKGISAAAYHAGLENNVRADVQEKFQRDDLQIVVATVAFGX 298
Query: 335 GLDVQQVSLVINYDLPNNRELYIHRIGRSGRFGRKGVAINFVKNDDIKILR 385
G++ V V+++D+P N E Y GR+GR G A F D LR
Sbjct: 299 GINKPNVRFVVHFDIPRNIESYYQETGRAGRDGLPAEAXLFYDPADXAWLR 349
>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 = 47.0 bits (110), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 36/145 (24%), Positives = 61/145 (42%), Gaps = 22/145 (15%)
Query: 241 LTLEGIKQFFVAVEREEWKFDTLCDLYDTLT--------ITQAVIFCNTKRKV----DWL 288
L E K E E++ + L L +T+ + +IF T++ W+
Sbjct: 361 LFFENNKMLKRLAENPEYENEKLTKLRNTIMEQYTRTEESARGIIFTKTRQSAYALSQWI 420
Query: 289 TEKMRGYNFTVSSMH----------GDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDV 338
TE + V + H M Q E+ ++ +FR+G +LI T V GLD+
Sbjct: 421 TENEKFAEVGVKAHHLIGAGHSSEFKPMTQNEQKEVISKFRTGKINLLIATTVAEEGLDI 480
Query: 339 QQVSLVINYDLPNNRELYIHRIGRS 363
++ ++VI Y L N + GR+
Sbjct: 481 KECNIVIRYGLVTNEIAMVQARGRA 505
>pdb|1WP9|A Chain A, Crystal Structure Of Pyrococcus Furiosus Hef Helicase
Domain
pdb|1WP9|B Chain B, Crystal Structure Of Pyrococcus Furiosus Hef Helicase
Domain
pdb|1WP9|C Chain C, Crystal Structure Of Pyrococcus Furiosus Hef Helicase
Domain
pdb|1WP9|D Chain D, Crystal Structure Of Pyrococcus Furiosus Hef Helicase
Domain
pdb|1WP9|E Chain E, Crystal Structure Of Pyrococcus Furiosus Hef Helicase
Domain
pdb|1WP9|F Chain F, Crystal Structure Of Pyrococcus Furiosus Hef Helicase
Domain
Length = 494
Score = 45.1 bits (105), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 33/96 (34%), Positives = 46/96 (47%), Gaps = 5/96 (5%)
Query: 306 MPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQVSLVINYDLPNNRELYIHRIGRSGR 365
+ Q+E+ I+ EF G VL+ T V GLDV +V LV+ Y+ + I R GR+GR
Sbjct: 403 LSQREQKLILDEFARGEFNVLVATSVGEEGLDVPEVDLVVFYEPVPSAIRSIQRRGRTGR 462
Query: 366 FGRKGVAINFVKNDDIKILRDIEQYYSTQIDEMPMN 401
V I K RD Y+S++ E M
Sbjct: 463 HMPGRVIILMAKGT-----RDEAYYWSSRQKEKIMQ 493
>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 = 42.7 bits (99), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 21/107 (19%), Positives = 51/107 (47%)
Query: 275 AVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWAR 334
+I+C +++ + +T ++ + H ++ +++ + ++ + +V++ T +
Sbjct: 270 GIIYCFSQKDSEQVTVSLQNLGIHAGAYHANLEPEDKTTVHRKWSANEIQVVVATVAFGM 329
Query: 335 GLDVQQVSLVINYDLPNNRELYIHRIGRSGRFGRKGVAINFVKNDDI 381
G+D V VI++ + + E Y GR+GR K I + DI
Sbjct: 330 GIDKPDVRFVIHHSMSKSMENYYQESGRAGRDDMKADCILYYGFGDI 376
>pdb|1GM5|A Chain A, Structure Of Recg Bound To Three-Way Dna Junction
Length = 780
Score = 42.4 bits (98), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 23/75 (30%), Positives = 43/75 (57%), Gaps = 1/75 (1%)
Query: 297 FTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQVSLVINYDLPNNRELY 356
F + MHG + Q+E+D +M EF G +L++T V G+DV + ++++ +
Sbjct: 614 FKLGLMHGRLSQEEKDRVMLEFAEGRYDILVSTTVIEVGIDVPRANVMVIENPERFGLAQ 673
Query: 357 IHRI-GRSGRFGRKG 370
+H++ GR GR G++
Sbjct: 674 LHQLRGRVGRGGQEA 688
>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 = 40.4 bits (93), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 29/91 (31%), Positives = 47/91 (51%), Gaps = 7/91 (7%)
Query: 281 TKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQ 340
TK+ + LT+ ++ V+ +H ++ ER I+ + R G VL+ ++ GLD+ +
Sbjct: 454 TKKMAEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLREGLDIPE 513
Query: 341 VSLVINYD------LPNNRELYIHRIGRSGR 365
VSLV D L + R L I IGR+ R
Sbjct: 514 VSLVAILDADKEGFLRSERSL-IQTIGRAAR 543
>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 = 29/91 (31%), Positives = 47/91 (51%), Gaps = 7/91 (7%)
Query: 281 TKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQ 340
TK+ + LT+ ++ V+ +H ++ ER I+ + R G VL+ ++ GLD+ +
Sbjct: 454 TKKMAEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLREGLDIPE 513
Query: 341 VSLVINYD------LPNNRELYIHRIGRSGR 365
VSLV D L + R L I IGR+ R
Sbjct: 514 VSLVAILDADKEGFLRSERSL-IQTIGRAAR 543
>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 = 29/91 (31%), Positives = 47/91 (51%), Gaps = 7/91 (7%)
Query: 281 TKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQ 340
TK+ + LT+ ++ V+ +H ++ ER I+ + R G VL+ ++ GLD+ +
Sbjct: 454 TKKMAEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLREGLDIPE 513
Query: 341 VSLVINYD------LPNNRELYIHRIGRSGR 365
VSLV D L + R L I IGR+ R
Sbjct: 514 VSLVAILDADKEGFLRSERSL-IQTIGRAAR 543
>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 = 29/91 (31%), Positives = 47/91 (51%), Gaps = 7/91 (7%)
Query: 281 TKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQ 340
TK+ + LT+ ++ V+ +H ++ ER I+ + R G VL+ ++ GLD+ +
Sbjct: 453 TKKMAEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLREGLDIPE 512
Query: 341 VSLVINYD------LPNNRELYIHRIGRSGR 365
VSLV D L + R L I IGR+ R
Sbjct: 513 VSLVAILDADKEGFLRSERSL-IQTIGRAAR 542
>pdb|3UWX|B Chain B, Crystal Structure Of Uvra-Uvrb Complex
Length = 683
Score = 40.4 bits (93), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 29/91 (31%), Positives = 47/91 (51%), Gaps = 7/91 (7%)
Query: 281 TKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQ 340
TK+ + LT+ ++ V+ +H ++ ER I+ + R G VL+ ++ GLD+ +
Sbjct: 479 TKKMAEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLREGLDIPE 538
Query: 341 VSLVINYD------LPNNRELYIHRIGRSGR 365
VSLV D L + R L I IGR+ R
Sbjct: 539 VSLVAILDADKEGFLRSERSL-IQTIGRAAR 568
>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 = 39.7 bits (91), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 29/91 (31%), Positives = 47/91 (51%), Gaps = 7/91 (7%)
Query: 281 TKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQ 340
TK+ + LT+ ++ V+ +H ++ ER I+ + R G VL+ ++ GLD+ +
Sbjct: 460 TKKMSEDLTDYLKEIGIKVNYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLREGLDIPE 519
Query: 341 VSLVINYD------LPNNRELYIHRIGRSGR 365
VSLV D L + R L I IGR+ R
Sbjct: 520 VSLVAILDADKEGFLRSERSL-IQTIGRAAR 549
>pdb|2D7D|A Chain A, Structural Insights Into The Cryptic Dna Dependent Atp-Ase
Activity Of Uvrb
pdb|2NMV|A Chain A, Damage Detection By The Uvrabc Pathway: Crystal Structure
Of Uvrb Bound To Fluorescein-Adducted Dna
Length = 661
Score = 39.7 bits (91), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 29/91 (31%), Positives = 47/91 (51%), Gaps = 7/91 (7%)
Query: 281 TKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQ 340
TK+ + LT+ ++ V+ +H ++ ER I+ + R G VL+ ++ GLD+ +
Sbjct: 454 TKKMSEDLTDYLKEIGIKVNYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLREGLDIPE 513
Query: 341 VSLVINYD------LPNNRELYIHRIGRSGR 365
VSLV D L + R L I IGR+ R
Sbjct: 514 VSLVAILDADKEGFLRSERSL-IQTIGRAAR 543
>pdb|4I1S|A Chain A, Melanoma Differentiation Associated Protein-5 Helicase
Domain Complex With Inhibitor Non-structural Protein V
Length = 243
Score = 38.9 bits (89), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 23/90 (25%), Positives = 42/90 (46%), Gaps = 14/90 (15%)
Query: 274 QAVIFCNTKRKV----DWLTEKMRGYNFTVSSMH----------GDMPQKERDAIMGEFR 319
+ +IF T++ W+T+ + V + H Q E+ ++ +FR
Sbjct: 152 RGIIFTKTRQSAYALSQWITDNKKFAEVGVKAHHLIGAGHSSEFKPXTQNEQREVISKFR 211
Query: 320 SGTTRVLITTDVWARGLDVQQVSLVINYDL 349
+G +LI T V GLD+++ ++VI Y L
Sbjct: 212 TGKINLLIATTVAEEGLDIKECNIVIRYGL 241
>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 = 38.5 bits (88), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 39/138 (28%), Positives = 56/138 (40%), Gaps = 7/138 (5%)
Query: 238 RDELTLEGIKQFFVAVEREEWKFDTLCDL---YDTLTITQAV-IFCNTKRKVDWLTEKMR 293
RD L E I Q F W FD + Y T +Q V + C L + +R
Sbjct: 465 RDXLYPERIYQEFEGDNATWWNFDPRVEWLXGYLTSHRSQKVLVICAKAATALQLEQVLR 524
Query: 294 GYN-FTVSSMHGDMPQKERDAIMGEFRSGTT--RVLITTDVWARGLDVQQVSLVINYDLP 350
+ H ERD F T +VL+ +++ + G + Q S + +DLP
Sbjct: 525 EREGIRAAVFHEGXSIIERDRAAAWFAEEDTGAQVLLCSEIGSEGRNFQFASHXVXFDLP 584
Query: 351 NNRELYIHRIGRSGRFGR 368
N +L RIGR R G+
Sbjct: 585 FNPDLLEQRIGRLDRIGQ 602
>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 = 34.7 bits (78), Expect = 0.088, Method: Compositional matrix adjust.
Identities = 17/66 (25%), Positives = 35/66 (53%)
Query: 297 FTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQVSLVINYDLPNNRELY 356
F + ++ ++ER+ I+ FR+G R ++++ V G+DV ++ + + Y
Sbjct: 369 FLIPAITHRTSREEREEILEGFRTGRFRAIVSSQVLDEGIDVPDANVGVIMSGSGSAREY 428
Query: 357 IHRIGR 362
I R+GR
Sbjct: 429 IQRLGR 434
>pdb|2FZL|A Chain A, Structure Of C-Terminal Domain Of Archaeoglobus Fulgidus
Xpb
Length = 219
Score = 34.3 bits (77), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 17/66 (25%), Positives = 35/66 (53%)
Query: 297 FTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQVSLVINYDLPNNRELY 356
F + ++ ++ER+ I+ FR+G R ++++ V G+DV ++ + + Y
Sbjct: 134 FLIPAITHRTSREEREEILEGFRTGRFRAIVSSQVLDEGIDVPDANVGVIMSGSGSAREY 193
Query: 357 IHRIGR 362
I R+GR
Sbjct: 194 IQRLGR 199
>pdb|1D2M|A Chain A, Uvrb Protein Of Thermus Thermophilus Hb8; A Nucleotide
Excision Repair Enzyme
Length = 665
Score = 33.5 bits (75), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 28/97 (28%), Positives = 45/97 (46%), Gaps = 7/97 (7%)
Query: 281 TKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQ 340
T R + LT + + +H ++ +R A++ + R G L+ ++ GLD+ +
Sbjct: 449 TVRMAEELTSFLVEHGIRARYLHHELDAFKRQALIRDLRLGHYDCLVGINLLREGLDIPE 508
Query: 341 VSLVINYD------LPNNRELYIHRIGRSGRFGRKGV 371
VSLV D L + R L I IGR+ R R V
Sbjct: 509 VSLVAILDADKEGFLRSERSL-IQTIGRAARNARGEV 544
>pdb|1C4O|A Chain A, Crystal Structure Of The Dna Nucleotide Excision Repair
Enzyme Uvrb From Thermus Thermophilus
Length = 664
Score = 33.5 bits (75), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 28/97 (28%), Positives = 45/97 (46%), Gaps = 7/97 (7%)
Query: 281 TKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQ 340
T R + LT + + +H ++ +R A++ + R G L+ ++ GLD+ +
Sbjct: 448 TVRMAEELTSFLVEHGIRARYLHHELDAFKRQALIRDLRLGHYDCLVGINLLREGLDIPE 507
Query: 341 VSLVINYD------LPNNRELYIHRIGRSGRFGRKGV 371
VSLV D L + R L I IGR+ R R V
Sbjct: 508 VSLVAILDADKEGFLRSERSL-IQTIGRAARNARGEV 543
>pdb|2YKG|A Chain A, Structural Insights Into Rna Recognition By Rig-I
Length = 696
Score = 32.7 bits (73), Expect = 0.41, Method: Compositional matrix adjust.
Identities = 15/43 (34%), Positives = 24/43 (55%), Gaps = 1/43 (2%)
Query: 51 YGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQ 93
Y KP Q +P +KG++ I A +G GKT ++L +C+
Sbjct: 9 YSPFKPRNYQLELALPAMKGKNTIICAPTGCGKT-FVSLLICE 50
Score = 32.0 bits (71), Expect = 0.62, Method: Compositional matrix adjust.
Identities = 40/153 (26%), Positives = 61/153 (39%), Gaps = 19/153 (12%)
Query: 235 LVKRDELTLEGIKQFFVAVEREEWKFDTLC----DLYDTLTITQAVIFCNTKRKVDWLTE 290
L +R E L+ ++ E K + LC + Y T ++F T+ VD L
Sbjct: 357 LTQRFEEKLQELESVSRDPSNENPKLEDLCFILQEEYHLNPETITILFVKTRALVDALKN 416
Query: 291 KMRGYNFTVS-------------SMHGDMPQKERDAIMGEFR-SGTTRVLITTDVWARGL 336
+ G N +S + + M + I+ F+ SG +LI T V G+
Sbjct: 417 WIEG-NPKLSFLKPGILTGRGKTNQNTGMTLPAQKCILDAFKASGDHNILIATSVADEGI 475
Query: 337 DVQQVSLVINYDLPNNRELYIHRIGRSGRFGRK 369
D+ Q +LVI Y+ N I GR G K
Sbjct: 476 DIAQCNLVILYEYVGNVIKMIQTRGRGRARGSK 508
>pdb|3TMI|A Chain A, Structural Basis For Rna Recognition And Activation Of
Rig-I
Length = 695
Score = 32.3 bits (72), Expect = 0.43, Method: Compositional matrix adjust.
Identities = 15/43 (34%), Positives = 24/43 (55%), Gaps = 1/43 (2%)
Query: 51 YGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQ 93
Y KP Q +P +KG++ I A +G GKT ++L +C+
Sbjct: 8 YSPFKPRNYQLELALPAMKGKNTIICAPTGCGKT-FVSLLICE 49
Score = 32.0 bits (71), Expect = 0.62, Method: Compositional matrix adjust.
Identities = 40/153 (26%), Positives = 61/153 (39%), Gaps = 19/153 (12%)
Query: 235 LVKRDELTLEGIKQFFVAVEREEWKFDTLC----DLYDTLTITQAVIFCNTKRKVDWLTE 290
L +R E L+ ++ E K + LC + Y T ++F T+ VD L
Sbjct: 356 LTQRFEEKLQELESVSRDPSNENPKLEDLCFILQEEYHLNPETITILFVKTRALVDALKN 415
Query: 291 KMRGYNFTVS-------------SMHGDMPQKERDAIMGEFR-SGTTRVLITTDVWARGL 336
+ G N +S + + M + I+ F+ SG +LI T V G+
Sbjct: 416 WIEG-NPKLSFLKPGILTGRGKTNQNTGMTLPAQKCILDAFKASGDHNILIATSVADEGI 474
Query: 337 DVQQVSLVINYDLPNNRELYIHRIGRSGRFGRK 369
D+ Q +LVI Y+ N I GR G K
Sbjct: 475 DIAQCNLVILYEYVGNVIKMIQTRGRGRARGSK 507
>pdb|4AY2|A Chain A, Capturing 5' Tri-Phosphorylated Rna Duplex By Rig-I
Length = 687
Score = 32.3 bits (72), Expect = 0.50, Method: Compositional matrix adjust.
Identities = 14/39 (35%), Positives = 23/39 (58%), Gaps = 1/39 (2%)
Query: 55 KPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQ 93
KP Q +P +KG++ I A +G GKT ++L +C+
Sbjct: 4 KPRNYQLELALPAMKGKNTIICAPTGCGKT-FVSLLICE 41
Score = 32.0 bits (71), Expect = 0.64, Method: Compositional matrix adjust.
Identities = 40/153 (26%), Positives = 61/153 (39%), Gaps = 19/153 (12%)
Query: 235 LVKRDELTLEGIKQFFVAVEREEWKFDTLC----DLYDTLTITQAVIFCNTKRKVDWLTE 290
L +R E L+ ++ E K + LC + Y T ++F T+ VD L
Sbjct: 348 LTQRFEEKLQELESVSRDPSNENPKLEDLCFILQEEYHLNPETITILFVKTRALVDALKN 407
Query: 291 KMRGYNFTVS-------------SMHGDMPQKERDAIMGEFR-SGTTRVLITTDVWARGL 336
+ G N +S + + M + I+ F+ SG +LI T V G+
Sbjct: 408 WIEG-NPKLSFLKPGILTGRGKTNQNTGMTLPAQKCILDAFKASGDHNILIATSVADEGI 466
Query: 337 DVQQVSLVINYDLPNNRELYIHRIGRSGRFGRK 369
D+ Q +LVI Y+ N I GR G K
Sbjct: 467 DIAQCNLVILYEYVGNVIKMIQTRGRGRARGSK 499
>pdb|3TBK|A Chain A, Mouse Rig-I Atpase Domain
Length = 555
Score = 31.6 bits (70), Expect = 0.77, Method: Compositional matrix adjust.
Identities = 30/108 (27%), Positives = 48/108 (44%), Gaps = 18/108 (16%)
Query: 273 TQAVIFCNTKRKVD----WLTEK----------MRGYNFTVSSMHGDMPQKERDAIMGEF 318
T+ ++F T+ VD W+ E + G T + +P ++ ++ F
Sbjct: 390 TKTILFVKTRALVDALKKWIEENPALSFLKPGILTGRGRTNRATGXTLPAQK--CVLEAF 447
Query: 319 R-SGTTRVLITTDVWARGLDVQQVSLVINYDLPNNRELYIHRIGRSGR 365
R SG +LI T V G+D+ + +LVI Y+ N I GR GR
Sbjct: 448 RASGDNNILIATSVADEGIDIAECNLVILYEYVGNVIKXIQTRGR-GR 494
Score = 30.8 bits (68), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 14/39 (35%), Positives = 22/39 (56%), Gaps = 1/39 (2%)
Query: 55 KPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQ 93
KP Q +P KG++ I A +G GKT ++L +C+
Sbjct: 4 KPRNYQLELALPAKKGKNTIICAPTGCGKT-FVSLLICE 41
>pdb|2P6R|A Chain A, Crystal Structure Of Superfamily 2 Helicase Hel308 In
Complex With Unwound Dna
pdb|2P6U|A Chain A, Apo Structure Of The Hel308 Superfamily 2 Helicase
Length = 702
Score = 31.6 bits (70), Expect = 0.78, Method: Compositional matrix adjust.
Identities = 91/409 (22%), Positives = 167/409 (40%), Gaps = 73/409 (17%)
Query: 27 EGVEAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSM 86
E E+I+S+ A+GI + + G E+ Q AV + G++++ + GKT +
Sbjct: 5 ELAESISSY-AVGI-------LKEEGIEELFPPQAEAVEKVFSGKNLLLAMPTAAGKTLL 56
Query: 87 IALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIR 146
+ + V + + ++L + P R LA + + F + G S G+
Sbjct: 57 AEMAM---VREAIKGGKSLYVVPLRALAGEKYE------SFKKWEKIGLRIGISTGDYES 107
Query: 147 KLEH--GVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLS--RGFKDQIY-DVYR 201
+ EH ++ T + +I+ + +A+ LV+DE + S RG +I R
Sbjct: 108 RDEHLGDCDIIVTTSEKADSLIRNRASWIKAVSCLVVDEIHLLDSEKRGATLEILVTKMR 167
Query: 202 YLPPDLQVVLISATLPH--EILEM--TTKFMTD--PVKIL-------------------- 235
+ L+V+ +SAT P+ EI E +++D PV ++
Sbjct: 168 RMNKALRVIGLSATAPNVTEIAEWLDADYYVSDWRPVPLVEGVLCEGTLELFDGAFSTSR 227
Query: 236 -VKRDELTLEGIKQ-----FFVA----VEREEWKFDTLCDLY-DTLTITQAVIFCNTKRK 284
VK +EL E + + F + E+ K + Y + + +A++ N
Sbjct: 228 RVKFEELVEECVAENGGVLVFESTRRGAEKTAVKLSAITAKYVENEGLEKAILEENEGEM 287
Query: 285 VDWLTEKMR-GYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQVSL 343
L E +R G F H + +R + FR G +V++ T A G+++ +
Sbjct: 288 SRKLAECVRKGAAF----HHAGLLNGQRRVVEDAFRRGNIKVVVATPTLAAGVNLPARRV 343
Query: 344 VI----NYDLPNNR---ELYIHRIGRSGRFG--RKGVAINFVKNDDIKI 383
++ +D + R Y GR+GR G +G AI V D +I
Sbjct: 344 IVRSLYRFDGYSKRIKVSEYKQMAGRAGRPGMDERGEAIIIVGKRDREI 392
>pdb|3KG2|A Chain A, Ampa Subtype Ionotropic Glutamate Receptor In Complex With
Competitive Antagonist Zk 200775
pdb|3KG2|B Chain B, Ampa Subtype Ionotropic Glutamate Receptor In Complex With
Competitive Antagonist Zk 200775
pdb|3KG2|C Chain C, Ampa Subtype Ionotropic Glutamate Receptor In Complex With
Competitive Antagonist Zk 200775
pdb|3KG2|D Chain D, Ampa Subtype Ionotropic Glutamate Receptor In Complex With
Competitive Antagonist Zk 200775
Length = 823
Score = 31.6 bits (70), Expect = 0.83, Method: Compositional matrix adjust.
Identities = 17/92 (18%), Positives = 44/92 (47%), Gaps = 5/92 (5%)
Query: 202 YLPPDLQVVLISATL-PHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKF 260
Y D+ + ++ TL E+++ + FM+ + I++K+ + + G+ F + E W
Sbjct: 460 YGKADIAIAPLTITLVREEVIDFSKPFMSLGISIMIKKPQKSKPGVFSFLDPLAYEIW-- 517
Query: 261 DTLCDLYDTLTITQAVIFCNTKRKVDWLTEKM 292
+C ++ + ++ + + +W TE+
Sbjct: 518 --MCIVFAYIGVSVVLFLVSRFSPYEWHTEEF 547
>pdb|4A2P|A Chain A, Structure Of Duck Rig-I Helicase Domain
pdb|4A36|A Chain A, Structure Of Duck Rig-I Helicase Domain Bound To 19-Mer
Dsrna And Atp Transition State Analogue
pdb|4A36|B Chain B, Structure Of Duck Rig-I Helicase Domain Bound To 19-Mer
Dsrna And Atp Transition State Analogue
Length = 556
Score = 31.2 bits (69), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 18/54 (33%), Positives = 26/54 (48%)
Query: 320 SGTTRVLITTDVWARGLDVQQVSLVINYDLPNNRELYIHRIGRSGRFGRKGVAI 373
S R+LI T V G+D+ Q +LV+ Y+ N I GR G K + +
Sbjct: 451 SKDNRLLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQVRGRGRAAGSKCILV 504
>pdb|4A2Q|A Chain A, Structure Of Duck Rig-I Tandem Cards And Helicase Domain
pdb|4A2Q|B Chain B, Structure Of Duck Rig-I Tandem Cards And Helicase Domain
pdb|4A2Q|D Chain D, Structure Of Duck Rig-I Tandem Cards And Helicase Domain
pdb|4A2Q|E Chain E, Structure Of Duck Rig-I Tandem Cards And Helicase Domain
Length = 797
Score = 31.2 bits (69), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 18/54 (33%), Positives = 26/54 (48%)
Query: 320 SGTTRVLITTDVWARGLDVQQVSLVINYDLPNNRELYIHRIGRSGRFGRKGVAI 373
S R+LI T V G+D+ Q +LV+ Y+ N I GR G K + +
Sbjct: 692 SKDNRLLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQVRGRGRAAGSKCILV 745
>pdb|4A2W|A Chain A, Structure Of Full-Length Duck Rig-I
pdb|4A2W|B Chain B, Structure Of Full-Length Duck Rig-I
Length = 936
Score = 31.2 bits (69), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 18/54 (33%), Positives = 26/54 (48%)
Query: 320 SGTTRVLITTDVWARGLDVQQVSLVINYDLPNNRELYIHRIGRSGRFGRKGVAI 373
S R+LI T V G+D+ Q +LV+ Y+ N I GR G K + +
Sbjct: 692 SKDNRLLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQVRGRGRAAGSKCILV 745
>pdb|1HEI|A Chain A, Structure Of The Hepatitis C Virus Rna Helicase Domain
pdb|1HEI|B Chain B, Structure Of The Hepatitis C Virus Rna Helicase Domain
Length = 451
Score = 29.6 bits (65), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 17/54 (31%), Positives = 27/54 (50%), Gaps = 11/54 (20%)
Query: 276 VIFCNTKRKVDWLTEKM-----------RGYNFTVSSMHGDMPQKERDAIMGEF 318
+IFC++K+K D L K+ RG + +V +GD+ DA+M F
Sbjct: 186 LIFCHSKKKCDELAAKLVALGINAVAYYRGLDVSVIPTNGDVVVVSTDALMTGF 239
>pdb|2JLU|A Chain A, Dengue Virus 4 Ns3 Helicase In Complex With Ssrna
pdb|2JLU|B Chain B, Dengue Virus 4 Ns3 Helicase In Complex With Ssrna
pdb|2JLV|A Chain A, Dengue Virus 4 Ns3 Helicase In Complex With Ssrna And
Amppnp
pdb|2JLV|B Chain B, Dengue Virus 4 Ns3 Helicase In Complex With Ssrna And
Amppnp
pdb|2JLW|A Chain A, Dengue Virus 4 Ns3 Helicase In Complex With Ssrna2
pdb|2JLW|B Chain B, Dengue Virus 4 Ns3 Helicase In Complex With Ssrna2
pdb|2JLX|A Chain A, Dengue Virus 4 Ns3 Helicase In Complex With Ssrna And Adp-
Vanadate
pdb|2JLX|B Chain B, Dengue Virus 4 Ns3 Helicase In Complex With Ssrna And Adp-
Vanadate
pdb|2JLZ|A Chain A, Dengue Virus 4 Ns3 Helicase In Complex With Ssrna And Adp
pdb|2JLZ|B Chain B, Dengue Virus 4 Ns3 Helicase In Complex With Ssrna And Adp
Length = 451
Score = 29.6 bits (65), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 29/56 (51%), Gaps = 2/56 (3%)
Query: 69 KGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAI 124
K R I G GKT I ++ + + R ++ LIL+PTR +A + E+ + +
Sbjct: 18 KKRLTIMDLHPGAGKTKRILPSIVR--EALKRRLRTLILAPTRVVAAEMEEALRGL 71
>pdb|2JLS|A Chain A, Dengue Virus 4 Ns3 Helicase In Complex With Adp
Length = 451
Score = 29.3 bits (64), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 29/56 (51%), Gaps = 2/56 (3%)
Query: 69 KGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAI 124
K R I G GKT I ++ + + R ++ LIL+PTR +A + E+ + +
Sbjct: 18 KKRLTIMDLHPGAGKTKRILPSIVR--EALKRRLRTLILAPTRVVAAEMEEALRGL 71
>pdb|2JLR|A Chain A, Dengue Virus 4 Ns3 Helicase In Complex With Amppnp
Length = 451
Score = 29.3 bits (64), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 29/56 (51%), Gaps = 2/56 (3%)
Query: 69 KGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAI 124
K R I G GKT I ++ + + R ++ LIL+PTR +A + E+ + +
Sbjct: 18 KKRLTIMDLHPGAGKTKRILPSIVR--EALKRRLRTLILAPTRVVAAEMEEALRGL 71
>pdb|3K7X|A Chain A, Crystal Structure Of The Lin0763 Protein From Listeria
Innocua. Northeast Structural Genomics Consortium Target
Lkr23
Length = 349
Score = 29.3 bits (64), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 24/96 (25%), Positives = 40/96 (41%), Gaps = 10/96 (10%)
Query: 200 YRYLPPDLQVVLISATLPHEI-----LEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVE 254
Y+ P + +++S L +E+ LE K K+LV+ D +GI +
Sbjct: 146 YKNTPVNAPFIILSCWLYNELNETKYLEWAXKTYEWQTKVLVREDGFVEDGINRLEDGTI 205
Query: 255 REEWKFDTLCDLY-----DTLTITQAVIFCNTKRKV 285
EWKF +Y + IT+ I+ +T K
Sbjct: 206 DYEWKFTYNQGVYIGANLELYRITKEAIYLDTANKT 241
>pdb|2EYQ|A Chain A, Crystal Structure Of Escherichia Coli Transcription-Repair
Coupling Factor
pdb|2EYQ|B Chain B, Crystal Structure Of Escherichia Coli Transcription-Repair
Coupling Factor
Length = 1151
Score = 29.3 bits (64), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 18/71 (25%), Positives = 34/71 (47%), Gaps = 1/71 (1%)
Query: 303 HGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQVSLVINYDLPNNRELYIHRI-G 361
HG M ++E + +M +F VL+ T + G+D+ + +I + +H++ G
Sbjct: 845 HGQMRERELERVMNDFHHQRFNVLVCTTIIETGIDIPTANTIIIERADHFGLAQLHQLRG 904
Query: 362 RSGRFGRKGVA 372
R GR + A
Sbjct: 905 RVGRSHHQAYA 915
>pdb|2WHX|A Chain A, A Second Conformation Of The Ns3 Protease-Helicase From
Dengue Virus
Length = 618
Score = 29.3 bits (64), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 29/56 (51%), Gaps = 2/56 (3%)
Query: 69 KGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAI 124
K R I G GKT I ++ + + R ++ LIL+PTR +A + E+ + +
Sbjct: 185 KKRLTIMDLHPGAGKTKRILPSIVR--EALKRRLRTLILAPTRVVAAEMEEALRGL 238
>pdb|2VBC|A Chain A, Crystal Structure Of The Ns3 Protease-Helicase From Dengue
Virus
Length = 618
Score = 29.3 bits (64), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 29/56 (51%), Gaps = 2/56 (3%)
Query: 69 KGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAI 124
K R I G GKT I ++ + + R ++ LIL+PTR +A + E+ + +
Sbjct: 185 KKRLTIMDLHPGAGKTKRILPSIVR--EALKRRLRTLILAPTRVVAAEMEEALRGL 238
>pdb|2WZQ|A Chain A, Insertion Mutant E173gp174 Of The Ns3 Protease-Helicase
From Dengue Virus
Length = 619
Score = 29.3 bits (64), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 29/56 (51%), Gaps = 2/56 (3%)
Query: 69 KGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAI 124
K R I G GKT I ++ + + R ++ LIL+PTR +A + E+ + +
Sbjct: 186 KKRLTIMDLHPGAGKTKRILPSIVR--EALKRRLRTLILAPTRVVAAEMEEALRGL 239
>pdb|1PDZ|A Chain A, X-Ray Structure And Catalytic Mechanism Of Lobster Enolase
pdb|1PDY|A Chain A, X-Ray Structure And Catalytic Mechanism Of Lobster Enolase
Length = 434
Score = 29.3 bits (64), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 20/66 (30%), Positives = 31/66 (46%), Gaps = 1/66 (1%)
Query: 194 DQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAV 253
DQ+ D+Y D +V I + E +K MT I + D+LT+ K+ AV
Sbjct: 276 DQLRDMYMEFCKDFPIVSIEDPFDQDDWETWSK-MTSGTTIQIVGDDLTVTNPKRITTAV 334
Query: 254 EREEWK 259
E++ K
Sbjct: 335 EKKACK 340
>pdb|1A1V|A Chain A, Hepatitis C Virus Ns3 Helicase Domain Complexed With
Single Stranded Sdna
Length = 476
Score = 28.9 bits (63), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 17/54 (31%), Positives = 26/54 (48%), Gaps = 11/54 (20%)
Query: 276 VIFCNTKRKVDWLTEKM-----------RGYNFTVSSMHGDMPQKERDAIMGEF 318
+IFC++K+K D L K+ RG + +V GD+ DA+M F
Sbjct: 200 LIFCHSKKKCDELAAKLVALGINAVAYYRGLDVSVIPTSGDVVVVATDALMTGF 253
>pdb|3KQH|A Chain A, Three Conformational Snapshots Of The Hepatitis C Virus
Ns3 Helicase Reveal A Ratchet Translocation Mechanism
pdb|3KQH|B Chain B, Three Conformational Snapshots Of The Hepatitis C Virus
Ns3 Helicase Reveal A Ratchet Translocation Mechanism
pdb|3KQK|A Chain A, Three Conformational Snapshots Of The Hepatitis C Virus
Ns3 Helicase Reveal A Ratchet Translocation Mechanism
pdb|3KQK|B Chain B, Three Conformational Snapshots Of The Hepatitis C Virus
Ns3 Helicase Reveal A Ratchet Translocation Mechanism
Length = 436
Score = 28.5 bits (62), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 17/54 (31%), Positives = 26/54 (48%), Gaps = 11/54 (20%)
Query: 276 VIFCNTKRKVDWLTEKM-----------RGYNFTVSSMHGDMPQKERDAIMGEF 318
+IFC++K+K D L K+ RG + +V GD+ DA+M F
Sbjct: 177 LIFCHSKKKCDELAAKLSGLGLNAVAYYRGLDVSVIPTSGDVIVVATDALMTGF 230
>pdb|3KQL|A Chain A, Three Conformational Snapshots Of The Hepatitis C Virus
Ns3 Helicase Reveal A Ratchet Translocation Mechanism
pdb|3KQL|B Chain B, Three Conformational Snapshots Of The Hepatitis C Virus
Ns3 Helicase Reveal A Ratchet Translocation Mechanism
pdb|3KQN|A Chain A, Three Conformational Snapshots Of The Hepatitis C Virus
Ns3 Helicase Reveal A Ratchet Translocation Mechanism
pdb|3KQU|A Chain A, Three Conformational Snapshots Of The Hepatitis C Virus
Ns3 Helicase Reveal A Ratchet Translocation Mechanism
pdb|3KQU|B Chain B, Three Conformational Snapshots Of The Hepatitis C Virus
Ns3 Helicase Reveal A Ratchet Translocation Mechanism
pdb|3KQU|C Chain C, Three Conformational Snapshots Of The Hepatitis C Virus
Ns3 Helicase Reveal A Ratchet Translocation Mechanism
pdb|3KQU|D Chain D, Three Conformational Snapshots Of The Hepatitis C Virus
Ns3 Helicase Reveal A Ratchet Translocation Mechanism
pdb|3KQU|E Chain E, Three Conformational Snapshots Of The Hepatitis C Virus
Ns3 Helicase Reveal A Ratchet Translocation Mechanism
pdb|3KQU|F Chain F, Three Conformational Snapshots Of The Hepatitis C Virus
Ns3 Helicase Reveal A Ratchet Translocation Mechanism
Length = 437
Score = 28.5 bits (62), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 17/54 (31%), Positives = 26/54 (48%), Gaps = 11/54 (20%)
Query: 276 VIFCNTKRKVDWLTEKM-----------RGYNFTVSSMHGDMPQKERDAIMGEF 318
+IFC++K+K D L K+ RG + +V GD+ DA+M F
Sbjct: 177 LIFCHSKKKCDELAAKLSGLGLNAVAYYRGLDVSVIPTSGDVIVVATDALMTGF 230
>pdb|8OHM|A Chain A, Crystal Structure Of Rna Helicase From Genotype 1b
Hepatitis C Virus: Mechanism Of Unwinding Duplex Rna
Length = 435
Score = 28.5 bits (62), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 19/60 (31%), Positives = 29/60 (48%), Gaps = 15/60 (25%)
Query: 276 VIFCNTKRKVDWLTEKM-----------RGYNFTVSSMHGDMPQKERDAIM----GEFRS 320
+IFC++K+K D L K+ RG + +V GD+ DA+M G+F S
Sbjct: 176 LIFCHSKKKCDELAAKLSALGLNAVAYYRGLDVSVIPTSGDVVVVATDALMTGYTGDFDS 235
>pdb|3KQ4|A Chain A, Structure Of Intrinsic Factor-Cobalamin Bound To Its
Receptor Cubilin
pdb|3KQ4|C Chain C, Structure Of Intrinsic Factor-Cobalamin Bound To Its
Receptor Cubilin
pdb|3KQ4|E Chain E, Structure Of Intrinsic Factor-Cobalamin Bound To Its
Receptor Cubilin
Length = 393
Score = 28.1 bits (61), Expect = 8.1, Method: Compositional matrix adjust.
Identities = 25/99 (25%), Positives = 44/99 (44%), Gaps = 19/99 (19%)
Query: 42 DDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQ----------------SGTGKTS 85
D +L I Q F P +I Q ++P +KG+ + Q G G TS
Sbjct: 227 DMILNEIKQGKFHNPMSIAQ--ILPSLKGKTYLDVPQVTCSPDHEVQPTLPSNPGPGPTS 284
Query: 86 MIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAI 124
+TV T++ R V+ L+ + T ++ ++ V+L +
Sbjct: 285 ASNITVIYTINNQLRGVE-LLFNETINVSVKSGSVLLVV 322
>pdb|2PMV|A Chain A, Crystal Structure Of Human Intrinsic Factor- Cobalamin
Complex At 2.6 A Resolution
pdb|2PMV|B Chain B, Crystal Structure Of Human Intrinsic Factor- Cobalamin
Complex At 2.6 A Resolution
pdb|2PMV|C Chain C, Crystal Structure Of Human Intrinsic Factor- Cobalamin
Complex At 2.6 A Resolution
pdb|2PMV|D Chain D, Crystal Structure Of Human Intrinsic Factor- Cobalamin
Complex At 2.6 A Resolution
Length = 399
Score = 28.1 bits (61), Expect = 8.9, Method: Compositional matrix adjust.
Identities = 25/99 (25%), Positives = 44/99 (44%), Gaps = 19/99 (19%)
Query: 42 DDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQ----------------SGTGKTS 85
D +L I Q F P +I Q ++P +KG+ + Q G G TS
Sbjct: 233 DMILNEIKQGKFHNPMSIAQ--ILPSLKGKTYLDVPQVTCSPDHEVQPTLPSNPGPGPTS 290
Query: 86 MIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAI 124
+TV T++ R V+ L+ + T ++ ++ V+L +
Sbjct: 291 ASNITVIYTINNQLRGVE-LLFNETINVSVKSGSVLLVV 328
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.322 0.137 0.395
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,830,151
Number of Sequences: 62578
Number of extensions: 439881
Number of successful extensions: 1338
Number of sequences better than 100.0: 122
Number of HSP's better than 100.0 without gapping: 92
Number of HSP's successfully gapped in prelim test: 30
Number of HSP's that attempted gapping in prelim test: 1117
Number of HSP's gapped (non-prelim): 130
length of query: 406
length of database: 14,973,337
effective HSP length: 101
effective length of query: 305
effective length of database: 8,652,959
effective search space: 2639152495
effective search space used: 2639152495
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)