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= psy8497
(2355 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 219 bits (559), Expect = 1e-56, Method: Composition-based stats.
Identities = 125/365 (34%), Positives = 203/365 (55%), Gaps = 20/365 (5%)
Query: 18 IDVLFENDVL-IEKPIRQGLQENGFVKESPIQMAAFPYVLNGYDAIVQSKSGTGKSIVFV 76
+DV D + + + + +G+ GF K S IQ A ++ G D I QS+SGTGK+ F
Sbjct: 12 VDVTPTFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFS 71
Query: 77 VAALNKLIKLPVQQPQTIILAPTREIAVQITDVVRSVGAHVKNLHVDYFIGGTQVERPKR 136
++ L + + + V++ Q +ILAPTRE+AVQI + ++G ++ N+ IGGT V R
Sbjct: 72 ISVL-QCLDIQVRETQALILAPTRELAVQIQKGLLALGDYM-NVQCHACIGGTNVGEDIR 129
Query: 137 PV----QIVVGSPGRIKQMIKLKYLNMDSVRLFIMDEADKLINTGFVEDITWIYSQLPPM 192
+ +V G+PGR+ MI+ + L ++++ ++DEAD+++N GF E I +Y LPP
Sbjct: 130 KLDYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPA 189
Query: 193 KQMLVVSATYSHDNLATLQKYMVDPLLIRPEDATRPLLGVKQLVALIPECKNPSLRYVDE 252
Q++++SAT H+ L K+M DP+ I + L G+KQ + E
Sbjct: 190 TQVVLISATLPHEILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVER----------E 239
Query: 253 EKK---LVQLLSQTPFNQCVIFSNYQLRPEVICENLANANFGAEYLSGAQDQKARLASLD 309
E K L L Q VIF N + + + + E + ANF + G QK R + +
Sbjct: 240 EWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMK 299
Query: 310 SFKRGKVRILVTTDLAARGIDAANVDLVINLEIPHDAATYLHRMGRAGRYGTRGLVITIV 369
F+ G R+L++TD+ ARG+D V L+IN ++P++ Y+HR+GR+GRYG +G+ I V
Sbjct: 300 EFRSGASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAINFV 359
Query: 370 SAESL 374
+ +
Sbjct: 360 KNDDI 364
>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 = 219 bits (557), Expect = 2e-56, Method: Composition-based stats.
Identities = 122/354 (34%), Positives = 198/354 (55%), Gaps = 19/354 (5%)
Query: 28 IEKPIRQGLQENGFVKESPIQMAAFPYVLNGYDAIVQSKSGTGKSIVFVVAALNKLIKLP 87
+ + + +G+ GF K S IQ A ++ G D I QS+SGTGK+ F ++ L + + +
Sbjct: 45 LREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVL-QCLDIQ 103
Query: 88 VQQPQTIILAPTREIAVQITDVVRSVGAHVKNLHVDYFIGGTQVERPKRPV----QIVVG 143
V++ Q +ILAPTRE+AVQI + ++G ++ N+ IGGT V R + +V G
Sbjct: 104 VRETQALILAPTRELAVQIQKGLLALGDYM-NVQCHACIGGTNVGEDIRKLDYGQHVVAG 162
Query: 144 SPGRIKQMIKLKYLNMDSVRLFIMDEADKLINTGFVEDITWIYSQLPPMKQMLVVSATYS 203
+PGR+ MI+ + L ++++ ++DEAD+++N GF E I +Y LPP Q++++SAT
Sbjct: 163 TPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQVVLISATLP 222
Query: 204 HDNLATLQKYMVDPLLIRPEDATRPLLGVKQLVALIPECKNPSLRYVDEEKK---LVQLL 260
H+ L K+M DP+ I + L G+KQ + EE K L L
Sbjct: 223 HEILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVER----------EEWKFDTLCDLY 272
Query: 261 SQTPFNQCVIFSNYQLRPEVICENLANANFGAEYLSGAQDQKARLASLDSFKRGKVRILV 320
Q VIF N + + + + E + ANF + G QK R + + F+ G R+L+
Sbjct: 273 DTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLI 332
Query: 321 TTDLAARGIDAANVDLVINLEIPHDAATYLHRMGRAGRYGTRGLVITIVSAESL 374
+TD+ ARG+D V L+IN ++P++ Y+HR+GR+GRYG +G+ I V + +
Sbjct: 333 STDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAINFVKNDDI 386
>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 = 219 bits (557), Expect = 2e-56, Method: Composition-based stats.
Identities = 122/354 (34%), Positives = 198/354 (55%), Gaps = 19/354 (5%)
Query: 28 IEKPIRQGLQENGFVKESPIQMAAFPYVLNGYDAIVQSKSGTGKSIVFVVAALNKLIKLP 87
+ + + +G+ GF K S IQ A ++ G D I QS+SGTGK+ F ++ L + + +
Sbjct: 45 LREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVL-QCLDIQ 103
Query: 88 VQQPQTIILAPTREIAVQITDVVRSVGAHVKNLHVDYFIGGTQVERPKRPV----QIVVG 143
V++ Q +ILAPTRE+AVQI + ++G ++ N+ IGGT V R + +V G
Sbjct: 104 VRETQALILAPTRELAVQIQKGLLALGDYM-NVQCHACIGGTNVGEDIRKLDYGQHVVAG 162
Query: 144 SPGRIKQMIKLKYLNMDSVRLFIMDEADKLINTGFVEDITWIYSQLPPMKQMLVVSATYS 203
+PGR+ MI+ + L ++++ ++DEAD+++N GF E I +Y LPP Q++++SAT
Sbjct: 163 TPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQVVLISATLP 222
Query: 204 HDNLATLQKYMVDPLLIRPEDATRPLLGVKQLVALIPECKNPSLRYVDEEKK---LVQLL 260
H+ L K+M DP+ I + L G+KQ + EE K L L
Sbjct: 223 HEILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVER----------EEWKFDTLCDLY 272
Query: 261 SQTPFNQCVIFSNYQLRPEVICENLANANFGAEYLSGAQDQKARLASLDSFKRGKVRILV 320
Q VIF N + + + + E + ANF + G QK R + + F+ G R+L+
Sbjct: 273 DTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLI 332
Query: 321 TTDLAARGIDAANVDLVINLEIPHDAATYLHRMGRAGRYGTRGLVITIVSAESL 374
+TD+ ARG+D V L+IN ++P++ Y+HR+GR+GRYG +G+ I V + +
Sbjct: 333 STDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAINFVKNDDI 386
>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 = 218 bits (556), Expect = 3e-56, Method: Composition-based stats.
Identities = 122/354 (34%), Positives = 198/354 (55%), Gaps = 19/354 (5%)
Query: 28 IEKPIRQGLQENGFVKESPIQMAAFPYVLNGYDAIVQSKSGTGKSIVFVVAALNKLIKLP 87
+ + + +G+ GF K S IQ A ++ G D I QS+SGTGK+ F ++ L + + +
Sbjct: 44 LREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVL-QCLDIQ 102
Query: 88 VQQPQTIILAPTREIAVQITDVVRSVGAHVKNLHVDYFIGGTQVERPKRPV----QIVVG 143
V++ Q +ILAPTRE+AVQI + ++G ++ N+ IGGT V R + +V G
Sbjct: 103 VRETQALILAPTRELAVQIQKGLLALGDYM-NVQCHACIGGTNVGEDIRKLDYGQHVVAG 161
Query: 144 SPGRIKQMIKLKYLNMDSVRLFIMDEADKLINTGFVEDITWIYSQLPPMKQMLVVSATYS 203
+PGR+ MI+ + L ++++ ++DEAD+++N GF E I +Y LPP Q++++SAT
Sbjct: 162 TPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQVVLISATLP 221
Query: 204 HDNLATLQKYMVDPLLIRPEDATRPLLGVKQLVALIPECKNPSLRYVDEEKK---LVQLL 260
H+ L K+M DP+ I + L G+KQ + EE K L L
Sbjct: 222 HEILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVER----------EEWKFDTLCDLY 271
Query: 261 SQTPFNQCVIFSNYQLRPEVICENLANANFGAEYLSGAQDQKARLASLDSFKRGKVRILV 320
Q VIF N + + + + E + ANF + G QK R + + F+ G R+L+
Sbjct: 272 DTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLI 331
Query: 321 TTDLAARGIDAANVDLVINLEIPHDAATYLHRMGRAGRYGTRGLVITIVSAESL 374
+TD+ ARG+D V L+IN ++P++ Y+HR+GR+GRYG +G+ I V + +
Sbjct: 332 STDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAINFVKNDDI 385
>pdb|2J0U|A Chain A, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 210 bits (534), Expect = 9e-54, Method: Compositional matrix adjust.
Identities = 122/345 (35%), Positives = 193/345 (55%), Gaps = 19/345 (5%)
Query: 32 IRQGLQENGFVKESPIQMAAFPYVLNGYDAIVQSKSGTGKSIVFVVAALNKLIKLPVQQP 91
+ +G+ GF K S IQ A ++ G D I QS+SGTGK+ F V+ L L + V++
Sbjct: 12 LLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSVSVLQCL-DIQVRET 70
Query: 92 QTIILAPTREIAVQITDVVRSVGAHVKNLHVDYFIGGTQVERPKRPV----QIVVGSPGR 147
Q +ILAPTRE+AVQ+ + ++G ++ N+ IGGT V R + +V G+PGR
Sbjct: 71 QALILAPTRELAVQVQKGLLALGDYM-NVQCHACIGGTNVGEDIRKLDYGQHVVAGTPGR 129
Query: 148 IKQMIKLKYLNMDSVRLFIMDEADKLINTGFVEDITWIYSQLPPMKQMLVVSATYSHDNL 207
+ MI+ + L ++++ ++DEAD+++N GF E I +Y LPP Q++++SAT H+ L
Sbjct: 130 VFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQVVLISATLPHEIL 189
Query: 208 ATLQKYMVDPLLIRPEDATRPLLGVKQLVALIPECKNPSLRYVDEEKK---LVQLLSQTP 264
K+M DP+ I + L G+KQ + EE K L L
Sbjct: 190 EMTNKFMTDPIRILVKRDELTLEGIKQFFVAVER----------EEWKFDTLCDLYDTLT 239
Query: 265 FNQCVIFSNYQLRPEVICENLANANFGAEYLSGAQDQKARLASLDSFKRGKVRILVTTDL 324
Q VIF N + + + + E + ANF + G QK R + + F+ G R+L++TD+
Sbjct: 240 ITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDV 299
Query: 325 AARGIDAANVDLVINLEIPHDAATYLHRMGRAGRYGTRGLVITIV 369
ARG+D V L+IN ++P++ Y+HR+GR+GRYG +G+ + V
Sbjct: 300 WARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAVNFV 344
>pdb|2J0U|B Chain B, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 209 bits (531), Expect = 2e-53, Method: Compositional matrix adjust.
Identities = 122/345 (35%), Positives = 193/345 (55%), Gaps = 19/345 (5%)
Query: 32 IRQGLQENGFVKESPIQMAAFPYVLNGYDAIVQSKSGTGKSIVFVVAALNKLIKLPVQQP 91
+ +G+ GF K S IQ A ++ G D I QS+SGTGK+ F V+ L L + V++
Sbjct: 12 LLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSVSVLQCL-DIQVRET 70
Query: 92 QTIILAPTREIAVQITDVVRSVGAHVKNLHVDYFIGGTQVERPKRPV----QIVVGSPGR 147
Q +ILAPTRE+AVQ+ + ++G ++ N+ IGGT V R + +V G+PGR
Sbjct: 71 QALILAPTRELAVQVQKGLLALGDYM-NVQSHACIGGTNVGEDIRKLDYGQHVVAGTPGR 129
Query: 148 IKQMIKLKYLNMDSVRLFIMDEADKLINTGFVEDITWIYSQLPPMKQMLVVSATYSHDNL 207
+ MI+ + L ++++ ++DEAD+++N GF E I +Y LPP Q++++SAT H+ L
Sbjct: 130 VFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQVVLISATLPHEVL 189
Query: 208 ATLQKYMVDPLLIRPEDATRPLLGVKQLVALIPECKNPSLRYVDEEKK---LVQLLSQTP 264
K+M DP+ I + L G+KQ + EE K L L
Sbjct: 190 EMTNKFMTDPIRILVKRDELTLEGIKQFFVAVER----------EEWKFDTLCDLYDTLT 239
Query: 265 FNQCVIFSNYQLRPEVICENLANANFGAEYLSGAQDQKARLASLDSFKRGKVRILVTTDL 324
Q VIF N + + + + E + ANF + G QK R + + F+ G R+L++TD+
Sbjct: 240 ITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDV 299
Query: 325 AARGIDAANVDLVINLEIPHDAATYLHRMGRAGRYGTRGLVITIV 369
ARG+D V L+IN ++P++ Y+HR+GR+GRYG +G+ + V
Sbjct: 300 WARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAVNFV 344
>pdb|1S2M|A Chain A, Crystal Structure Of The Dead Box Protein Dhh1p
Length = 400
Score = 203 bits (517), Expect = 8e-52, Method: Compositional matrix adjust.
Identities = 134/372 (36%), Positives = 201/372 (54%), Gaps = 32/372 (8%)
Query: 10 RTKDVLSNIDVLFENDVLIEKPIRQGLQENGFVKESPIQMAAFPYVLNGYDAIVQSKSGT 69
+T DVL+ FE D +++ + G+ E GF K SPIQ A P + G D + ++K+GT
Sbjct: 11 QTDDVLNTKGNTFE-DFYLKRELLMGIFEAGFEKPSPIQEEAIPVAITGRDILARAKNGT 69
Query: 70 GKSIVFVVAALNKLIKLPVQQPQTIILAPTREIAVQITDVVRSVGAHVKNLHVDYFIGGT 129
GK+ FV+ L K +K + + Q +I+ PTRE+A+Q + VVR++G H + GGT
Sbjct: 70 GKTAAFVIPTLEK-VKPKLNKIQALIMVPTRELALQTSQVVRTLGKHC-GISCMVTTGGT 127
Query: 130 Q----VERPKRPVQIVVGSPGRIKQMIKLKYLNMDSVRLFIMDEADKLINTGFVEDITWI 185
+ R V I+VG+PGR+ + K ++ LFIMDEADK+++ F I I
Sbjct: 128 NLRDDILRLNETVHILVGTPGRVLDLASRKVADLSDCSLFIMDEADKMLSRDFKTIIEQI 187
Query: 186 YSQLPPMKQMLVVSATYSHDNLATLQKYMVDPL-----LIRPEDATRPLLGVKQLVALIP 240
S LPP Q L+ SAT+ T++++MV L + E+ T L G+ Q A
Sbjct: 188 LSFLPPTHQSLLFSATFP----LTVKEFMVKHLHKPYEINLMEELT--LKGITQYYA--- 238
Query: 241 ECKNPSLRYVDEEKKLV---QLLSQTPFNQCVIFSNYQLRPEVICENLANANFGAEYLSG 297
+V+E +KL L S+ NQ +IF N R E++ + + + + Y
Sbjct: 239 --------FVEERQKLHCLNTLFSKLQINQAIIFCNSTNRVELLAKKITDLGYSCYYSHA 290
Query: 298 AQDQKARLASLDSFKRGKVRILVTTDLAARGIDAANVDLVINLEIPHDAATYLHRMGRAG 357
Q+ R F++GKVR LV +DL RGID V++VIN + P A TYLHR+GR+G
Sbjct: 291 RMKQQERNKVFHEFRQGKVRTLVCSDLLTRGIDIQAVNVVINFDFPKTAETYLHRIGRSG 350
Query: 358 RYGTRGLVITIV 369
R+G GL I ++
Sbjct: 351 RFGHLGLAINLI 362
>pdb|1XTK|A Chain A, Structure Of Decd To Dead Mutation Of Human Uap56
Length = 390
Score = 200 bits (509), Expect = 6e-51, Method: Composition-based stats.
Identities = 128/383 (33%), Positives = 205/383 (53%), Gaps = 21/383 (5%)
Query: 25 DVLIEKPIRQGLQENGFVKESPIQMAAFPYVLNGYDAIVQSKSGTGKSIVFVVAALNKLI 84
D L++ + + + + GF S +Q P + G D + Q+KSG GK+ VFV+A L +L
Sbjct: 11 DFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQL- 69
Query: 85 KLPVQ-QPQTIILAPTREIAVQITDVVRSVGAHVKNLHVDYFIGGTQVERPKRPVQ---- 139
PV Q +++ TRE+A QI+ ++ N+ V F GG +++ + ++
Sbjct: 70 -EPVTGQVSVLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEVLKKNCP 128
Query: 140 -IVVGSPGRIKQMIKLKYLNMDSVRLFIMDEADKLINT-GFVEDITWIYSQLPPMKQMLV 197
IVVG+PGRI + + K LN+ ++ FI+DEADK++ D+ I+ P KQ+++
Sbjct: 129 HIVVGTPGRILALARNKSLNLKHIKHFILDEADKMLEQLDMRRDVQEIFRMTPHEKQVMM 188
Query: 198 VSATYSHDNLATLQKYMVDPLLIRPEDATR-PLLGVKQLVALIPECKNPSLRYVDEEKKL 256
SAT S + +K+M DP+ I +D T+ L G++Q L+ ++ +KL
Sbjct: 189 FSATLSKEIRPVCRKFMQDPMEIFVDDETKLTLHGLQQYYV--------KLKDNEKNRKL 240
Query: 257 VQLLSQTPFNQCVIFSNYQLRPEVICENLANANFGAEYLSGAQDQKARLASLDSFKRGKV 316
LL FNQ VIF R + + L NF A + Q+ RL+ FK +
Sbjct: 241 FDLLDVLEFNQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQR 300
Query: 317 RILVTTDLAARGIDAANVDLVINLEIPHDAATYLHRMGRAGRYGTRGLVITIVSAESLVK 376
RILV T+L RG+D V++ N ++P D+ TYLHR+ RAGR+GT+GL IT VS E+ K
Sbjct: 301 RILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKGLAITFVSDENDAK 360
Query: 377 FHSLMGEINLDHAFNVGLVPDNL 399
++ ++ N+ +PD +
Sbjct: 361 ---ILNDVQDRFEVNISELPDEI 380
>pdb|1XTJ|A Chain A, Structure Of Human Uap56 In Complex With Adp
Length = 386
Score = 199 bits (507), Expect = 1e-50, Method: Composition-based stats.
Identities = 127/383 (33%), Positives = 204/383 (53%), Gaps = 21/383 (5%)
Query: 25 DVLIEKPIRQGLQENGFVKESPIQMAAFPYVLNGYDAIVQSKSGTGKSIVFVVAALNKLI 84
D L++ + + + + GF S +Q P + G D + Q+KSG GK+ VFV+A L +L
Sbjct: 12 DFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQL- 70
Query: 85 KLPVQ-QPQTIILAPTREIAVQITDVVRSVGAHVKNLHVDYFIGGTQVERPKRPVQ---- 139
PV Q +++ TRE+A QI+ ++ N+ V F GG +++ + ++
Sbjct: 71 -EPVTGQVSVLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEVLKKNCP 129
Query: 140 -IVVGSPGRIKQMIKLKYLNMDSVRLFIMDEADKLINT-GFVEDITWIYSQLPPMKQMLV 197
IVVG+PGRI + + K LN+ ++ FI+DE DK++ D+ I+ P KQ+++
Sbjct: 130 HIVVGTPGRILALARNKSLNLKHIKHFILDECDKMLEQLDMRRDVQEIFRMTPHEKQVMM 189
Query: 198 VSATYSHDNLATLQKYMVDPLLIRPEDATR-PLLGVKQLVALIPECKNPSLRYVDEEKKL 256
SAT S + +K+M DP+ I +D T+ L G++Q L+ ++ +KL
Sbjct: 190 FSATLSKEIRPVCRKFMQDPMEIFVDDETKLTLHGLQQYYV--------KLKDNEKNRKL 241
Query: 257 VQLLSQTPFNQCVIFSNYQLRPEVICENLANANFGAEYLSGAQDQKARLASLDSFKRGKV 316
LL FNQ VIF R + + L NF A + Q+ RL+ FK +
Sbjct: 242 FDLLDVLEFNQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQR 301
Query: 317 RILVTTDLAARGIDAANVDLVINLEIPHDAATYLHRMGRAGRYGTRGLVITIVSAESLVK 376
RILV T+L RG+D V++ N ++P D+ TYLHR+ RAGR+GT+GL IT VS E+ K
Sbjct: 302 RILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKGLAITFVSDENDAK 361
Query: 377 FHSLMGEINLDHAFNVGLVPDNL 399
++ ++ N+ +PD +
Sbjct: 362 ---ILNDVQDRFEVNISELPDEI 381
>pdb|1XTI|A Chain A, Structure Of Wildtype Human Uap56
Length = 391
Score = 199 bits (505), Expect = 2e-50, Method: Composition-based stats.
Identities = 127/383 (33%), Positives = 204/383 (53%), Gaps = 21/383 (5%)
Query: 25 DVLIEKPIRQGLQENGFVKESPIQMAAFPYVLNGYDAIVQSKSGTGKSIVFVVAALNKLI 84
D L++ + + + + GF S +Q P + G D + Q+KSG GK+ VFV+A L +L
Sbjct: 12 DFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQL- 70
Query: 85 KLPVQ-QPQTIILAPTREIAVQITDVVRSVGAHVKNLHVDYFIGGTQVERPKRPVQ---- 139
PV Q +++ TRE+A QI+ ++ N+ V F GG +++ + ++
Sbjct: 71 -EPVTGQVSVLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEVLKKNCP 129
Query: 140 -IVVGSPGRIKQMIKLKYLNMDSVRLFIMDEADKLINT-GFVEDITWIYSQLPPMKQMLV 197
IVVG+PGRI + + K LN+ ++ FI+DE DK++ D+ I+ P KQ+++
Sbjct: 130 HIVVGTPGRILALARNKSLNLKHIKHFILDECDKMLEQLDMRRDVQEIFRMTPHEKQVMM 189
Query: 198 VSATYSHDNLATLQKYMVDPLLIRPEDATR-PLLGVKQLVALIPECKNPSLRYVDEEKKL 256
SAT S + +K+M DP+ I +D T+ L G++Q L+ ++ +KL
Sbjct: 190 FSATLSKEIRPVCRKFMQDPMEIFVDDETKLTLHGLQQYYV--------KLKDNEKNRKL 241
Query: 257 VQLLSQTPFNQCVIFSNYQLRPEVICENLANANFGAEYLSGAQDQKARLASLDSFKRGKV 316
LL FNQ VIF R + + L NF A + Q+ RL+ FK +
Sbjct: 242 FDLLDVLEFNQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQR 301
Query: 317 RILVTTDLAARGIDAANVDLVINLEIPHDAATYLHRMGRAGRYGTRGLVITIVSAESLVK 376
RILV T+L RG+D V++ N ++P D+ TYLHR+ RAGR+GT+GL IT VS E+ K
Sbjct: 302 RILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKGLAITFVSDENDAK 361
Query: 377 FHSLMGEINLDHAFNVGLVPDNL 399
++ ++ N+ +PD +
Sbjct: 362 ---ILNDVQDRFEVNISELPDEI 381
>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 = 196 bits (497), Expect = 2e-49, Method: Composition-based stats.
Identities = 134/368 (36%), Positives = 208/368 (56%), Gaps = 24/368 (6%)
Query: 24 NDVLIEKPIRQGLQENGFVKESPIQMAAFPYVLNGYDAIVQSKSGTGKSIVFVVAALNKL 83
+D+ +++ + +G+ GF + S IQ A ++ G+D + Q++SGTGK+ F +AAL +
Sbjct: 25 DDMELDENLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAALQR- 83
Query: 84 IKLPVQQPQTIILAPTREIAVQITDVVRSVGAHVKNLHVDYFIGGTQ-VERPK--RPVQI 140
I V+ PQ ++LAPTRE+A+QI VV ++ H+ ++ V IGGT VE + R QI
Sbjct: 84 IDTSVKAPQALMLAPTRELALQIQKVVMALAFHM-DIKVHACIGGTSFVEDAEGLRDAQI 142
Query: 141 VVGSPGRIKQMIKLKYLNMDSVRLFIMDEADKLINTGFVEDITWIYSQLPPMKQMLVVSA 200
VVG+PGR+ I+ + D +++FI+DEAD+++++GF E I I++ LPP Q++++SA
Sbjct: 143 VVGTPGRVFDNIQRRRFRTDKIKMFILDEADEMLSSGFKEQIYQIFTLLPPTTQVVLLSA 202
Query: 201 TYSHDNLATLQKYMVDPLLIRPEDATRPLLGVKQLVALIPECKNPSLRYVDEEKK---LV 257
T +D L K+M +P+ I + L G+KQ + E EE K L
Sbjct: 203 TMPNDVLEVTTKFMRNPVRILVKKDELTLEGIKQFYVNVEE----------EEYKYECLT 252
Query: 258 QLLSQTPFNQCVIFSNYQLRPEVICENLANANFGAEYLSGAQDQKARLASLDSFKRGKVR 317
L Q VIF N + + E + L N F + Q+ R + F+ G R
Sbjct: 253 DLYDSISVTQAVIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTIMKEFRSGSSR 312
Query: 318 ILVTTDLAARGIDAANVDLVINLEIPHDAATYLHRMGRAGRYGTRGLVITIVSAE----- 372
IL++TDL ARGID V LVIN ++P + Y+HR+GR GR+G +G+ I V+ E
Sbjct: 313 ILISTDLLARGIDVQQVSLVINYDLPANKENYIHRIGRGGRFGRKGVAINFVTNEDVGAM 372
Query: 373 -SLVKFHS 379
L KF+S
Sbjct: 373 RELEKFYS 380
>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 = 196 bits (497), Expect = 2e-49, Method: Composition-based stats.
Identities = 109/216 (50%), Positives = 138/216 (63%), Gaps = 6/216 (2%)
Query: 10 RTKDVLSNIDVLFENDVLIEKPIRQGLQENGFVKESPIQMAAFPYVLNGYDAIVQSKSGT 69
RT DVL FE+ +L+ +P+ +GL+ GF + SP+Q+ A P G D IVQ+KSGT
Sbjct: 14 RTGDVLLAEPADFES-LLLSRPVLEGLRAAGFERPSPVQLKAIPLGRCGLDLIVQAKSGT 72
Query: 70 GKSIVFVVAALNKLIKLPVQQPQTIILAPTREIAVQITDVVRSVGAHVKNLHVDYFIGGT 129
GK+ VF AL+ L+ L Q +ILAPTREIAVQI V+ ++G ++ L FIGGT
Sbjct: 73 GKTCVFSTIALDSLV-LENLSTQILILAPTREIAVQIHSVITAIGIKMEGLECHVFIGGT 131
Query: 130 QVERPK---RPVQIVVGSPGRIKQMIKLKYLNMDSVRLFIMDEADKLINTG-FVEDITWI 185
+ + K + I VGSPGRIKQ+I+L YLN S+RLFI+DEADKL+ G F E I WI
Sbjct: 132 PLSQDKTRLKKCHIAVGSPGRIKQLIELDYLNPGSIRLFILDEADKLLEEGSFQEQINWI 191
Query: 186 YSQLPPMKQMLVVSATYSHDNLATLQKYMVDPLLIR 221
YS LP KQML VSATY L KYM DP +R
Sbjct: 192 YSSLPASKQMLAVSATYPEFLANALTKYMRDPTFVR 227
>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 = 189 bits (479), Expect = 2e-47, Method: Composition-based stats.
Identities = 125/363 (34%), Positives = 207/363 (57%), Gaps = 32/363 (8%)
Query: 24 NDVLIEKPIRQGLQENGFVKESPIQMAAFPYVLNGYDAIVQSKSGTGKSIVFVVAALNKL 83
+D+ + + + +G+ GF K S IQ A + GYD I Q++SGTGK+ F ++ L +
Sbjct: 17 DDMNLSESLLRGIYAYGFEKPSAIQQRAILPCIKGYDVIAQAQSGTGKTATFAISILQQ- 75
Query: 84 IKLPVQQPQTIILAPTREIAVQITDVVRSVGAHV-KNLHVDYFIGGTQVERPKRPVQ--- 139
I+L ++ Q ++LAPTRE+A QI VV ++G ++ + H IGGT V + +Q
Sbjct: 76 IELDLKATQALVLAPTRELAQQIQKVVMALGDYMGASCHA--CIGGTNVRAEVQKLQMEA 133
Query: 140 --IVVGSPGRIKQMIKLKYLNMDSVRLFIMDEADKLINTGFVEDITWIYSQLPPMKQMLV 197
I+VG+PGR+ M+ +YL+ +++F++DEAD++++ GF + I I+ +L Q+++
Sbjct: 134 PHIIVGTPGRVFDMLNRRYLSPKYIKMFVLDEADEMLSRGFKDQIYDIFQKLNSNTQVVL 193
Query: 198 VSATYSHDNLATLQKYMVDPL--LIRPEDATRPLLGVKQLVALIPECKNPSLRYVDEEKK 255
+SAT D L +K+M DP+ L++ E+ T L G++Q Y++ E++
Sbjct: 194 LSATMPSDVLEVTKKFMRDPIRILVKKEELT--LEGIRQF-------------YINVERE 238
Query: 256 ------LVQLLSQTPFNQCVIFSNYQLRPEVICENLANANFGAEYLSGAQDQKARLASLD 309
L L Q VIF N + + + + E + +F + G DQK R +
Sbjct: 239 EWKLDTLCDLYETLTITQAVIFINTRRKVDWLTEKMHARDFTVSAMHGDMDQKERDVIMR 298
Query: 310 SFKRGKVRILVTTDLAARGIDAANVDLVINLEIPHDAATYLHRMGRAGRYGTRGLVITIV 369
F+ G R+L+TTDL ARGID V LVIN ++P + Y+HR+GR GR+G +G+ I +V
Sbjct: 299 EFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPTNRENYIHRIGRGGRFGRKGVAINMV 358
Query: 370 SAE 372
+ E
Sbjct: 359 TEE 361
>pdb|1FUU|A Chain A, Yeast Initiation Factor 4a
pdb|1FUU|B Chain B, Yeast Initiation Factor 4a
Length = 394
Score = 185 bits (469), Expect = 3e-46, Method: Composition-based stats.
Identities = 133/368 (36%), Positives = 201/368 (54%), Gaps = 24/368 (6%)
Query: 24 NDVLIEKPIRQGLQENGFVKESPIQMAAFPYVLNGYDAIVQSKSGTGKSIVFVVAALNKL 83
+D +++ + +G+ GF + S IQ A ++ G+D + Q++SGTGK+ F +AAL +
Sbjct: 24 DDXELDENLLRGVFGYGFEEPSAIQQRAIXPIIEGHDVLAQAQSGTGKTGTFSIAALQR- 82
Query: 84 IKLPVQQPQTIILAPTREIAVQITDVVRSVGAHVKNLHVDYFIGGTQ-VERPK--RPVQI 140
I V+ PQ + LAPTRE+A+QI VV ++ H ++ V IGGT VE + R QI
Sbjct: 83 IDTSVKAPQALXLAPTRELALQIQKVVXALAFH-XDIKVHACIGGTSFVEDAEGLRDAQI 141
Query: 141 VVGSPGRIKQMIKLKYLNMDSVRLFIMDEADKLINTGFVEDITWIYSQLPPMKQMLVVSA 200
VVG+PGR+ I+ + D ++ FI+DEAD+ +++GF E I I++ LPP Q++++SA
Sbjct: 142 VVGTPGRVFDNIQRRRFRTDKIKXFILDEADEXLSSGFKEQIYQIFTLLPPTTQVVLLSA 201
Query: 201 TYSHDNLATLQKYMVDPLLIRPEDATRPLLGVKQLVALIPECKNPSLRYVDEEKK---LV 257
T +D L K+ +P+ I + L G+KQ + E EE K L
Sbjct: 202 TXPNDVLEVTTKFXRNPVRILVKKDELTLEGIKQFYVNVEE----------EEYKYECLT 251
Query: 258 QLLSQTPFNQCVIFSNYQLRPEVICENLANANFGAEYLSGAQDQKARLASLDSFKRGKVR 317
L Q VIF N + + E + L N F + Q+ R F+ G R
Sbjct: 252 DLYDSISVTQAVIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTIXKEFRSGSSR 311
Query: 318 ILVTTDLAARGIDAANVDLVINLEIPHDAATYLHRMGRAGRYGTRGLVITIVSAE----- 372
IL++TDL ARGID V LVIN ++P + Y+HR+GR GR+G +G+ I V+ E
Sbjct: 312 ILISTDLLARGIDVQQVSLVINYDLPANKENYIHRIGRGGRFGRKGVAINFVTNEDVGAX 371
Query: 373 -SLVKFHS 379
L KF+S
Sbjct: 372 RELEKFYS 379
>pdb|3EIQ|A Chain A, Crystal Structure Of Pdcd4-eif4a
pdb|3EIQ|D Chain D, Crystal Structure Of Pdcd4-eif4a
Length = 414
Score = 182 bits (462), Expect = 2e-45, Method: Compositional matrix adjust.
Identities = 125/363 (34%), Positives = 207/363 (57%), Gaps = 32/363 (8%)
Query: 24 NDVLIEKPIRQGLQENGFVKESPIQMAAFPYVLNGYDAIVQSKSGTGKSIVFVVAALNKL 83
+D+ + + + +G+ GF K S IQ A + GYD I Q++SGTGK+ F ++ L +
Sbjct: 43 DDMNLSESLLRGIYAYGFEKPSAIQQRAILPCIKGYDVIAQAQSGTGKTATFAISILQQ- 101
Query: 84 IKLPVQQPQTIILAPTREIAVQITDVVRSVGAHV-KNLHVDYFIGGTQVERPKRPVQ--- 139
I+L ++ Q ++LAPTRE+A QI VV ++G ++ + H IGGT V + +Q
Sbjct: 102 IELDLKATQALVLAPTRELAQQIQKVVMALGDYMGASCHA--CIGGTNVRAEVQKLQMEA 159
Query: 140 --IVVGSPGRIKQMIKLKYLNMDSVRLFIMDEADKLINTGFVEDITWIYSQLPPMKQMLV 197
I+VG+PGR+ M+ +YL+ +++F++DEAD++++ GF + I I+ +L Q+++
Sbjct: 160 PHIIVGTPGRVFDMLNRRYLSPKYIKMFVLDEADEMLSRGFKDQIYDIFQKLNSNTQVVL 219
Query: 198 VSATYSHDNLATLQKYMVDPL--LIRPEDATRPLLGVKQLVALIPECKNPSLRYVDEEKK 255
+SAT D L +K+M DP+ L++ E+ T L G++Q Y++ E++
Sbjct: 220 LSATMPSDVLEVTKKFMRDPIRILVKKEELT--LEGIRQF-------------YINVERE 264
Query: 256 ------LVQLLSQTPFNQCVIFSNYQLRPEVICENLANANFGAEYLSGAQDQKARLASLD 309
L L Q VIF N + + + + E + +F + G DQK R +
Sbjct: 265 EWKLDTLCDLYETLTITQAVIFINTRRKVDWLTEKMHARDFTVSAMHGDMDQKERDVIMR 324
Query: 310 SFKRGKVRILVTTDLAARGIDAANVDLVINLEIPHDAATYLHRMGRAGRYGTRGLVITIV 369
F+ G R+L+TTDL ARGID V LVIN ++P + Y+HR+GR GR+G +G+ I +V
Sbjct: 325 EFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPTNRENYIHRIGRGGRFGRKGVAINMV 384
Query: 370 SAE 372
+ E
Sbjct: 385 TEE 387
>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 = 170 bits (431), Expect = 8e-42, Method: Compositional matrix adjust.
Identities = 119/352 (33%), Positives = 186/352 (52%), Gaps = 20/352 (5%)
Query: 30 KP-IRQGLQENGFVKESPIQMAAFPYVLN--GYDAIVQSKSGTGKSIVFVVAALNKLIKL 86
KP + QG+ GF + S IQ A P +L + I QS+SGTGK+ FV+A L++ ++
Sbjct: 100 KPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVLAMLSQ-VEP 158
Query: 87 PVQQPQTIILAPTREIAVQITDVVRSVGAHVKNLHVDYFIGGTQVER-PKRPVQIVVGSP 145
+ PQ + L+PT E+A+Q V+ +G L + Y + G ++ER K QIV+G+P
Sbjct: 159 ANKYPQCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLERGQKISEQIVIGTP 218
Query: 146 GRIKQMI-KLKYLNMDSVRLFIMDEADKLINT-GFVEDITWIYSQLPPMKQMLVVSATYS 203
G + KLK+++ +++F++DEAD +I T G + I LP QML+ SAT+
Sbjct: 219 GTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRMLPRNCQMLLFSATFE 278
Query: 204 HDNLATLQKYMVDPLLIRPEDATRPLLGVKQLVALIPECKNPSLRYVDEEKKLVQLLSQT 263
QK + DP +I+ + L +KQ L C + ++ + L L
Sbjct: 279 DSVWKFAQKVVPDPNVIKLKREEETLDTIKQYYVL---CSSRDEKF----QALCNLYGAI 331
Query: 264 PFNQCVIFSNYQLRPEVICENLANANFGAEYLSGAQDQKARLASLDSFKRGKVRILVTTD 323
Q +IF + + + L+ LSG + R A ++ F+ GK ++LVTT+
Sbjct: 332 TIAQAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFREGKEKVLVTTN 391
Query: 324 LAARGIDAANVDLVINLEIPHDA------ATYLHRMGRAGRYGTRGLVITIV 369
+ ARGID V +VIN ++P D TYLHR+GR GR+G RGL + +V
Sbjct: 392 VCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRTGRFGKRGLAVNMV 443
>pdb|3G0H|A Chain A, Human Dead-box Rna Helicase Ddx19, In Complex With An
Atp-analogue And Rna
Length = 424
Score = 169 bits (428), Expect = 2e-41, Method: Compositional matrix adjust.
Identities = 119/352 (33%), Positives = 186/352 (52%), Gaps = 20/352 (5%)
Query: 30 KP-IRQGLQENGFVKESPIQMAAFPYVLN--GYDAIVQSKSGTGKSIVFVVAALNKLIKL 86
KP + QG+ GF + S IQ A P +L + I QS+SGTGK+ FV+A L++ ++
Sbjct: 49 KPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVLAMLSQ-VEP 107
Query: 87 PVQQPQTIILAPTREIAVQITDVVRSVGAHVKNLHVDYFIGGTQVER-PKRPVQIVVGSP 145
+ PQ + L+PT E+A+Q V+ +G L + Y + G ++ER K QIV+G+P
Sbjct: 108 ANKYPQCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLERGQKISEQIVIGTP 167
Query: 146 GRIKQMI-KLKYLNMDSVRLFIMDEADKLINT-GFVEDITWIYSQLPPMKQMLVVSATYS 203
G + KLK+++ +++F++DEAD +I T G + I LP QML+ SAT+
Sbjct: 168 GTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRMLPRNCQMLLFSATFE 227
Query: 204 HDNLATLQKYMVDPLLIRPEDATRPLLGVKQLVALIPECKNPSLRYVDEEKKLVQLLSQT 263
QK + DP +I+ + L +KQ L C + ++ + L L
Sbjct: 228 DSVWKFAQKVVPDPNVIKLKREEETLDTIKQYYVL---CSSRDEKF----QALCNLYGAI 280
Query: 264 PFNQCVIFSNYQLRPEVICENLANANFGAEYLSGAQDQKARLASLDSFKRGKVRILVTTD 323
Q +IF + + + L+ LSG + R A ++ F+ GK ++LVTT+
Sbjct: 281 TIAQAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFREGKEKVLVTTN 340
Query: 324 LAARGIDAANVDLVINLEIPHDA------ATYLHRMGRAGRYGTRGLVITIV 369
+ ARGID V +VIN ++P D TYLHR+GR GR+G RGL + +V
Sbjct: 341 VCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRTGRFGKRGLAVNMV 392
>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 = 169 bits (427), Expect = 2e-41, Method: Compositional matrix adjust.
Identities = 118/352 (33%), Positives = 187/352 (53%), Gaps = 20/352 (5%)
Query: 30 KP-IRQGLQENGFVKESPIQMAAFPYVLN--GYDAIVQSKSGTGKSIVFVVAALNKLIKL 86
KP + QG+ GF + S IQ A P +L + I QS+SGTGK+ FV+A L++ ++
Sbjct: 70 KPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVLAMLSQ-VEP 128
Query: 87 PVQQPQTIILAPTREIAVQITDVVRSVGAHVKNLHVDYFIGGTQVERPKRPV-QIVVGSP 145
+ PQ + L+PT E+A+Q V+ +G L + Y + G ++ER ++ QIV+G+P
Sbjct: 129 ANKYPQCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLERGQKISEQIVIGTP 188
Query: 146 GRIKQMI-KLKYLNMDSVRLFIMDEADKLINT-GFVEDITWIYSQLPPMKQMLVVSATYS 203
G + KLK+++ +++F++DEAD +I T G + I LP QML+ SAT+
Sbjct: 189 GTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRMLPRNCQMLLFSATFE 248
Query: 204 HDNLATLQKYMVDPLLIRPEDATRPLLGVKQLVALIPECKNPSLRYVDEEKKLVQLLSQT 263
QK + DP +I+ + L +KQ L C + ++ + L L
Sbjct: 249 DSVWKFAQKVVPDPNVIKLKREEETLDTIKQYYVL---CSSRDEKF----QALCNLYGAI 301
Query: 264 PFNQCVIFSNYQLRPEVICENLANANFGAEYLSGAQDQKARLASLDSFKRGKVRILVTTD 323
Q +IF + + + L+ LSG + R A ++ F+ GK ++LVTT+
Sbjct: 302 TIAQAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFREGKEKVLVTTN 361
Query: 324 LAARGIDAANVDLVINLEIPHDA------ATYLHRMGRAGRYGTRGLVITIV 369
+ ARGID V +VIN ++P D TYLHR+GR GR+G RGL + +V
Sbjct: 362 VCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRTGRFGKRGLAVNMV 413
>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 = 169 bits (427), Expect = 2e-41, Method: Compositional matrix adjust.
Identities = 119/352 (33%), Positives = 186/352 (52%), Gaps = 20/352 (5%)
Query: 30 KP-IRQGLQENGFVKESPIQMAAFPYVLN--GYDAIVQSKSGTGKSIVFVVAALNKLIKL 86
KP + QG+ GF + S IQ A P +L + I QS+SGTGK+ FV+A L++ ++
Sbjct: 33 KPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVLAMLSQ-VEP 91
Query: 87 PVQQPQTIILAPTREIAVQITDVVRSVGAHVKNLHVDYFIGGTQVER-PKRPVQIVVGSP 145
+ PQ + L+PT E+A+Q V+ +G L + Y + G ++ER K QIV+G+P
Sbjct: 92 ANKYPQCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLERGQKISEQIVIGTP 151
Query: 146 GRIKQMI-KLKYLNMDSVRLFIMDEADKLINT-GFVEDITWIYSQLPPMKQMLVVSATYS 203
G + KLK+++ +++F++DEAD +I T G + I LP QML+ SAT+
Sbjct: 152 GTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRMLPRNCQMLLFSATFE 211
Query: 204 HDNLATLQKYMVDPLLIRPEDATRPLLGVKQLVALIPECKNPSLRYVDEEKKLVQLLSQT 263
QK + DP +I+ + L +KQ L C + ++ + L L
Sbjct: 212 DSVWKFAQKVVPDPNVIKLKREEETLDTIKQYYVL---CSSRDEKF----QALCNLYGAI 264
Query: 264 PFNQCVIFSNYQLRPEVICENLANANFGAEYLSGAQDQKARLASLDSFKRGKVRILVTTD 323
Q +IF + + + L+ LSG + R A ++ F+ GK ++LVTT+
Sbjct: 265 TIAQAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFREGKEKVLVTTN 324
Query: 324 LAARGIDAANVDLVINLEIPHDA------ATYLHRMGRAGRYGTRGLVITIV 369
+ ARGID V +VIN ++P D TYLHR+GR GR+G RGL + +V
Sbjct: 325 VCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRTGRFGKRGLAVNMV 376
>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 = 157 bits (397), Expect = 7e-38, Method: Composition-based stats.
Identities = 111/356 (31%), Positives = 183/356 (51%), Gaps = 30/356 (8%)
Query: 24 NDVLIEKPIRQGLQENGFVKESPIQMAAFPYVLNG-YDAIVQSKSGTGKSIVFVVAALNK 82
N++ + I ++ GF K + IQ P LN Y+ + Q+++G+GK+ F +
Sbjct: 9 NELNLSDNILNAIRNKGFEKPTDIQXKVIPLFLNDEYNIVAQARTGSGKTASFAIP---- 64
Query: 83 LIKLPVQQP--QTIILAPTREIAVQITDVVRSVGAHVKNLHVDYFIGGTQVE---RPKRP 137
LI+L + + IIL PTRE+A+Q+ D + S+ + KNL + GG + + +
Sbjct: 65 LIELVNENNGIEAIILTPTRELAIQVADEIESLKGN-KNLKIAKIYGGKAIYPQIKALKN 123
Query: 138 VQIVVGSPGRIKQMIKLKYLNMDSVRLFIMDEADKLINTGFVEDITWIYSQLPPMKQMLV 197
IVVG+PGRI I LN+ +V+ FI+DEAD+ +N GF++D+ I + K++L+
Sbjct: 124 ANIVVGTPGRILDHINRGTLNLKNVKYFILDEADEXLNXGFIKDVEKILNACNKDKRILL 183
Query: 198 VSATYSHDNLATLQKYMVDPLLIRPEDATRPLLGVKQLVALIPECKNPSLRYVDEEKK-- 255
SAT + L +KY D I+ A I S V+E ++
Sbjct: 184 FSATXPREILNLAKKYXGDYSFIK---------------AKINANIEQSYVEVNENERFE 228
Query: 256 -LVQLLSQTPFNQCVIFSNYQLRPEVICENLANANFGAEYLSGAQDQKARLASLDSFKRG 314
L +LL F ++F + + + L + F A + G Q R + FK+
Sbjct: 229 ALCRLLKNKEFYG-LVFCKTKRDTKELASXLRDIGFKAGAIHGDLSQSQREKVIRLFKQK 287
Query: 315 KVRILVTTDLAARGIDAANVDLVINLEIPHDAATYLHRMGRAGRYGTRGLVITIVS 370
K+RIL+ TD+ +RGID +++ VIN +P + +Y HR+GR GR G +G I+I++
Sbjct: 288 KIRILIATDVXSRGIDVNDLNCVINYHLPQNPESYXHRIGRTGRAGKKGKAISIIN 343
>pdb|3FHO|A Chain A, Structure Of S. Pombe Dbp5
pdb|3FHO|B Chain B, Structure Of S. Pombe Dbp5
Length = 508
Score = 152 bits (385), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 108/332 (32%), Positives = 178/332 (53%), Gaps = 18/332 (5%)
Query: 47 IQMAAFPYVLNG--YDAIVQSKSGTGKSIVFVVAALNKLIKLPVQQPQTIILAPTREIAV 104
IQ A P +L+ + I QS+SGTGK+ F + L++ + V +PQ I LAP+RE+A
Sbjct: 145 IQEKALPLLLSNPPRNMIGQSQSGTGKTAAFALTMLSR-VDASVPKPQAICLAPSRELAR 203
Query: 105 QITDVVRSVGAHVKNLHVDYFIGGTQVERPKRPVQIVVGSPGRIKQMIKLKYLNMDSVRL 164
QI DVV +G + + + + I + + K QIV+G+PG + ++K + L+ +++
Sbjct: 204 QIMDVVTEMGKYTE-VKTAFGIKDSVPKGAKIDAQIVIGTPGTVMDLMKRRQLDARDIKV 262
Query: 165 FIMDEADKLINT-GFVEDITWIYSQLPPMKQMLVVSATYSHDNLATLQKYMVDPLLIRPE 223
F++DEAD +++ G + I LP Q+++ SAT+S +++ + IR +
Sbjct: 263 FVLDEADNMLDQQGLGDQSMRIKHLLPRNTQIVLFSATFSERVEKYAERFAPNANEIRLK 322
Query: 224 DATRPLLGVKQLVALIPECKNPSLRYVDEEKKLVQLLSQTPFNQCVIFSNYQLRPEVICE 283
+ G+KQL +C++ +Y LV+L Q +IF + E I
Sbjct: 323 TEELSVEGIKQLYM---DCQSEEHKY----NVLVELYGLLTIGQSIIFCKKKDTAEEIAR 375
Query: 284 NLANANFGAEYLSGAQDQKARLASLDSFKRGKVRILVTTDLAARGIDAANVDLVINLEIP 343
+ L+G + R A +DSF+ G ++LVTT++ ARGID + V+LV+N ++P
Sbjct: 376 RMTADGHTVACLTGNLEGAQRDAIMDSFRVGTSKVLVTTNVIARGIDVSQVNLVVNYDMP 435
Query: 344 HDAA------TYLHRMGRAGRYGTRGLVITIV 369
D A TYLHR+GR GR+G G+ I V
Sbjct: 436 LDQAGRPDPQTYLHRIGRTGRFGRVGVSINFV 467
>pdb|1QVA|A Chain A, Yeast Initiation Factor 4a N-Terminal Domain
Length = 223
Score = 144 bits (363), Expect = 6e-34, Method: Composition-based stats.
Identities = 78/200 (39%), Positives = 130/200 (65%), Gaps = 5/200 (2%)
Query: 24 NDVLIEKPIRQGLQENGFVKESPIQMAAFPYVLNGYDAIVQSKSGTGKSIVFVVAALNKL 83
+D+ +++ + +G+ GF + S IQ A ++ G+D + Q++SGTGK+ F +AAL +
Sbjct: 24 DDMELDEQLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAALQR- 82
Query: 84 IKLPVQQPQTIILAPTREIAVQITDVVRSVGAHVKNLHVDYFIGGTQ-VERPK--RPVQI 140
I V+ PQ ++LAPTRE+A+QI VV ++ H+ ++ V IGGT VE + R QI
Sbjct: 83 IDTSVKAPQALMLAPTRELALQIQKVVMALAFHM-DIKVHACIGGTSFVEDAEGLRDAQI 141
Query: 141 VVGSPGRIKQMIKLKYLNMDSVRLFIMDEADKLINTGFVEDITWIYSQLPPMKQMLVVSA 200
VVG+PGR+ I+ + D +++FI+DEAD+++++GF E I I++ LPP Q++++SA
Sbjct: 142 VVGTPGRVFDNIQRRRFRTDKIKMFILDEADEMLSSGFKEQIYQIFTLLPPTTQVVLLSA 201
Query: 201 TYSHDNLATLQKYMVDPLLI 220
T +D L K+M +P+ I
Sbjct: 202 TMPNDVLEVTTKFMRNPVRI 221
>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 = 143 bits (361), Expect = 1e-33, Method: Composition-based stats.
Identities = 79/208 (37%), Positives = 135/208 (64%), Gaps = 7/208 (3%)
Query: 24 NDVLIEKPIRQGLQENGFVKESPIQMAAFPYVLNGYDAIVQSKSGTGKSIVFVVAALNKL 83
+D+ +++ + +G+ GF + S IQ A ++ G+D + Q++SGTGK+ F +AAL +
Sbjct: 17 DDMELDENLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAALQR- 75
Query: 84 IKLPVQQPQTIILAPTREIAVQITDVVRSVGAHVKNLHVDYFIGGTQ-VERPK--RPVQI 140
I V+ PQ ++LAPTRE+A+QI VV ++ H+ ++ V IGGT VE + R QI
Sbjct: 76 IDTSVKAPQALMLAPTRELALQIQKVVMALAFHM-DIKVHACIGGTSFVEDAEGLRDAQI 134
Query: 141 VVGSPGRIKQMIKLKYLNMDSVRLFIMDEADKLINTGFVEDITWIYSQLPPMKQMLVVSA 200
VVG+PGR+ I+ + D +++FI+DEAD+++++GF E I I++ LPP Q++++SA
Sbjct: 135 VVGTPGRVFDNIQRRRFRTDKIKMFILDEADEMLSSGFKEQIYQIFTLLPPTTQVVLLSA 194
Query: 201 TYSHDNLATLQKYMVDP--LLIRPEDAT 226
T +D L K+M +P +L++ ++ T
Sbjct: 195 TMPNDVLEVTTKFMRNPVRILVKKDELT 222
>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 = 143 bits (360), Expect = 1e-33, Method: Compositional matrix adjust.
Identities = 92/338 (27%), Positives = 175/338 (51%), Gaps = 20/338 (5%)
Query: 36 LQENGFVKESPIQMAAFPYVLNGYDAIVQSKSGTGKSIVFVVAALNKLIK----LPVQQP 91
+ ++G+ +PIQ + P + +G D + +++G+GK+ F++ L+KL++ L + +P
Sbjct: 71 VNKSGYKIPTPIQKCSIPVISSGRDLMACAQTGSGKTAAFLLPILSKLLEDPHELELGRP 130
Query: 92 QTIILAPTREIAVQITDVVRSVGAHVKNLHVDYFIGGT----QVERPKRPVQIVVGSPGR 147
Q +I++PTRE+A+QI + R A L + GGT Q E R +V+ +PGR
Sbjct: 131 QVVIVSPTRELAIQIFNEARKF-AFESYLKIGIVYGGTSFRHQNECITRGCHVVIATPGR 189
Query: 148 IKQMIKLKYLNMDSVRLFIMDEADKLINTGFVEDITWIYSQLP--PMKQMLVVSATYSHD 205
+ + ++ + R ++DEAD++++ GF ED+ I + + P Q L+ SAT+ +
Sbjct: 190 LLDFVDRTFITFEDTRFVVLDEADRMLDMGFSEDMRRIMTHVTMRPEHQTLMFSATFPEE 249
Query: 206 NLATLQKYMVDPLLIRPEDATRPLLGVKQLVALIPECKNPSLRYVDEEKKLVQLLSQTPF 265
+++ + + + VKQ + + + S KL+++LS+
Sbjct: 250 IQRMAGEFLKNYVFVAIGIVGGACSDVKQTIYEVNKYAKRS--------KLIEILSEQA- 300
Query: 266 NQCVIFSNYQLRPEVICENLANANFGAEYLSGAQDQKARLASLDSFKRGKVRILVTTDLA 325
+ ++F + + + L+ F + G + Q R +L FK G +++L+ T +A
Sbjct: 301 DGTIVFVETKRGADFLASFLSEKEFPTTSIHGDRLQSQREQALRDFKNGSMKVLIATSVA 360
Query: 326 ARGIDAANVDLVINLEIPHDAATYLHRMGRAGRYGTRG 363
+RG+D N+ VIN ++P Y+HR+GR GR G G
Sbjct: 361 SRGLDIKNIKHVINYDMPSKIDDYVHRIGRTGRVGNNG 398
>pdb|2Z0M|A Chain A, Crystal Structure Of Hypothetical Atp-Dependent Rna
Helicase From Sulfolobus Tokodaii
Length = 337
Score = 138 bits (347), Expect = 4e-32, Method: Composition-based stats.
Identities = 95/348 (27%), Positives = 172/348 (49%), Gaps = 28/348 (8%)
Query: 28 IEKPIRQGLQENGFVKESPIQMAAFPYVLNGYDAIVQSKSGTGKSIVFVVAALNKLIKLP 87
+ + I Q ++E GF + +Q P +L G + +V++K+G+GK+ + + L +K
Sbjct: 1 MNEKIEQAIREMGFKNFTEVQSKTIPLMLQGKNVVVRAKTGSGKTAAYAIPILELGMK-- 58
Query: 88 VQQPQTIILAPTREIAVQITDVVRSVGAHVKNLHVDYFIG---GTQVERPKRPVQIVVGS 144
++++ PTRE+ Q+ +R +G ++ + + G Q+ R R IVV +
Sbjct: 59 -----SLVVTPTRELTRQVASHIRDIGRYMDTKVAEVYGGMPYKAQINR-VRNADIVVAT 112
Query: 145 PGRIKQMIKLKYLNMDSVRLFIMDEADKLINTGFVEDITWIYSQLPPMKQMLVVSATYSH 204
PGR+ + +++ S + I+DEAD + GF++DI I +Q K + SAT
Sbjct: 113 PGRLLDLWSKGVIDLSSFEIVIIDEADLMFEMGFIDDIKIILAQTSNRKITGLFSATIPE 172
Query: 205 DNLATLQKYMVDPLLIRPEDATRPLLGVKQLVALIPECKNPSLRYVDEEKKLVQLLSQTP 264
+ ++K + D I + +G+ + ++ + D+ + VQ L +
Sbjct: 173 E----IRKVVKD--FITNYEEIEACIGLANV-------EHKFVHVKDDWRSKVQALRENK 219
Query: 265 FNQCVIFSNYQLRPEVICENLANANFGAEYLSGAQDQKARLASLDSFKRGKVRILVTTDL 324
++F + R + NA L G Q R ++D+F+ G+ +L+TTD+
Sbjct: 220 DKGVIVFVRTRNRVAKLVRLFDNAI----ELRGDLPQSVRNRNIDAFREGEYDMLITTDV 275
Query: 325 AARGIDAANVDLVINLEIPHDAATYLHRMGRAGRYGTRGLVITIVSAE 372
A+RG+D V+ VIN + P D TY+HR+GR GR G +G IT + E
Sbjct: 276 ASRGLDIPLVEKVINFDAPQDLRTYIHRIGRTGRMGRKGEAITFILNE 323
>pdb|3PEY|A Chain A, S. Cerevisiae Dbp5 Bound To Rna And Adp Bef3
Length = 395
Score = 137 bits (345), Expect = 8e-32, Method: Compositional matrix adjust.
Identities = 104/352 (29%), Positives = 177/352 (50%), Gaps = 28/352 (7%)
Query: 32 IRQGLQENGFVKESPIQMAAFPYVLNG--YDAIVQSKSGTGKSIVFVVAALNKLIKLPVQ 89
+ +G+ F K S IQ A P +L+ + I QS+SGTGK+ F + L + +
Sbjct: 16 LLKGIYAMKFQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAAFSLTMLTR-VNPEDA 74
Query: 90 QPQTIILAPTREIAVQITDVVRSVGAHVKNLHVDYFIGGTQVERPKRP-VQIVVGSPGRI 148
PQ I LAP+RE+A Q +VV+ +G K I E+ K+ Q++VG+PG +
Sbjct: 75 SPQAICLAPSRELARQTLEVVQEMGKFTK--ITSQLIVPDSFEKNKQINAQVIVGTPGTV 132
Query: 149 KQMIKLKYLNMDSVRLFIMDEADKLINT-GFVEDITWIYSQLPPMKQMLVVSATYSHDNL 207
+++ K + + +++F++DEAD +++ G + + LP Q+++ SAT++ D +
Sbjct: 133 LDLMRRKLMQLQKIKIFVLDEADNMLDQQGLGDQCIRVKRFLPKDTQLVLFSATFA-DAV 191
Query: 208 ATLQKYMVDPLLIRPEDATRPL----LGVKQLVALIPECKNPSLRYVDEEKKLVQLLSQT 263
K +V P T L + V + L +CKN + D+ L +L
Sbjct: 192 RQYAKKIV------PNANTLELQTNEVNVDAIKQLYMDCKNEA----DKFDVLTELYGLM 241
Query: 264 PFNQCVIFSNYQLRPEVICENLANANFGAEYLSGAQDQKARLASLDSFKRGKVRILVTTD 323
+IF + V+ L + L G + R +D F+ G+ ++L+TT+
Sbjct: 242 TIGSSIIFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDDFREGRSKVLITTN 301
Query: 324 LAARGIDAANVDLVINLEIP------HDAATYLHRMGRAGRYGTRGLVITIV 369
+ ARGID V +V+N ++P D ATY+HR+GR GR+G +G+ I+ V
Sbjct: 302 VLARGIDIPTVSMVVNYDLPTLANGQADPATYIHRIGRTGRFGRKGVAISFV 353
>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 = 137 bits (344), Expect = 9e-32, Method: Compositional matrix adjust.
Identities = 104/352 (29%), Positives = 177/352 (50%), Gaps = 28/352 (7%)
Query: 32 IRQGLQENGFVKESPIQMAAFPYVLNG--YDAIVQSKSGTGKSIVFVVAALNKLIKLPVQ 89
+ +G+ F K S IQ A P +L+ + I QS+SGTGK+ F + L + +
Sbjct: 16 LLKGIYAMKFQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAAFSLTMLTR-VNPEDA 74
Query: 90 QPQTIILAPTREIAVQITDVVRSVGAHVKNLHVDYFIGGTQVERPKRP-VQIVVGSPGRI 148
PQ I LAP+RE+A Q +VV+ +G K I E+ K+ Q++VG+PG +
Sbjct: 75 SPQAICLAPSRELARQTLEVVQEMGKFTK--ITSQLIVPDSFEKNKQINAQVIVGTPGTV 132
Query: 149 KQMIKLKYLNMDSVRLFIMDEADKLINT-GFVEDITWIYSQLPPMKQMLVVSATYSHDNL 207
+++ K + + +++F++DEAD +++ G + + LP Q+++ SAT++ D +
Sbjct: 133 LDLMRRKLMQLQKIKIFVLDEADNMLDQQGLGDQCIRVKRFLPKDTQLVLFSATFA-DAV 191
Query: 208 ATLQKYMVDPLLIRPEDATRPL----LGVKQLVALIPECKNPSLRYVDEEKKLVQLLSQT 263
K +V P T L + V + L +CKN + D+ L +L
Sbjct: 192 RQYAKKIV------PNANTLELQTNEVNVDAIKQLYMDCKNEA----DKFDVLTELYGVM 241
Query: 264 PFNQCVIFSNYQLRPEVICENLANANFGAEYLSGAQDQKARLASLDSFKRGKVRILVTTD 323
+IF + V+ L + L G + R +D F+ G+ ++L+TT+
Sbjct: 242 TIGSSIIFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDDFREGRSKVLITTN 301
Query: 324 LAARGIDAANVDLVINLEIP------HDAATYLHRMGRAGRYGTRGLVITIV 369
+ ARGID V +V+N ++P D ATY+HR+GR GR+G +G+ I+ V
Sbjct: 302 VLARGIDIPTVSMVVNYDLPTLANGQADPATYIHRIGRTGRFGRKGVAISFV 353
>pdb|3BOR|A Chain A, Crystal Structure Of The Deadc Domain Of Human Translation
Initiation Factor 4a-2
Length = 237
Score = 131 bits (330), Expect = 4e-30, Method: Composition-based stats.
Identities = 75/213 (35%), Positives = 130/213 (61%), Gaps = 11/213 (5%)
Query: 16 SNIDVLFEN--DVLIEKPIRQGLQENGFVKESPIQMAAFPYVLNGYDAIVQSKSGTGKSI 73
SN + + +N D+ +++ + +G+ GF K S IQ A + GYD I Q++SGTGK+
Sbjct: 23 SNWNEIVDNFDDMNLKESLLRGIYAYGFEKPSAIQQRAIIPCIKGYDVIAQAQSGTGKTA 82
Query: 74 VFVVAALNKLIKLPVQQPQTIILAPTREIAVQITDVVRSVGAHV-KNLHVDYFIGGTQVE 132
F ++ L +L ++ ++ Q ++LAPTRE+A QI V+ ++G ++ H IGGT V
Sbjct: 83 TFAISILQQL-EIEFKETQALVLAPTRELAQQIQKVILALGDYMGATCHA--CIGGTNVR 139
Query: 133 RPKRPVQ-----IVVGSPGRIKQMIKLKYLNMDSVRLFIMDEADKLINTGFVEDITWIYS 187
+ +Q IVVG+PGR+ M+ +YL+ +++F++DEAD++++ GF + I I+
Sbjct: 140 NEMQKLQAEAPHIVVGTPGRVFDMLNRRYLSPKWIKMFVLDEADEMLSRGFKDQIYEIFQ 199
Query: 188 QLPPMKQMLVVSATYSHDNLATLQKYMVDPLLI 220
+L Q++++SAT D L +K+M DP+ I
Sbjct: 200 KLNTSIQVVLLSATMPTDVLEVTKKFMRDPIRI 232
>pdb|2I4I|A Chain A, Crystal Structure Of Human Dead-Box Rna Helicase Ddx3x
Length = 417
Score = 126 bits (317), Expect = 1e-28, Method: Compositional matrix adjust.
Identities = 93/366 (25%), Positives = 177/366 (48%), Gaps = 33/366 (9%)
Query: 24 NDVLIEKPIRQGLQENGFVKESPIQMAAFPYVLNGYDAIVQSKSGTGKSIVFVVAALNKL 83
+DV + + I ++ + + +P+Q A P + D + +++G+GK+ F++ L+++
Sbjct: 18 SDVEMGEIIMGNIELTRYTRPTPVQKHAIPIIKEKRDLMACAQTGSGKTAAFLLPILSQI 77
Query: 84 IK-----------------LPVQQPQTIILAPTREIAVQITDVVRSVGAHVKNLHVDYFI 126
Q P +++LAPTRE+AVQI + R + +
Sbjct: 78 YSDGPGEALRAMKENGRYGRRKQYPISLVLAPTRELAVQIYEEARKFSYRSRVRPCVVYG 137
Query: 127 G---GTQVERPKRPVQIVVGSPGRIKQMIKLKYLNMDSVRLFIMDEADKLINTGFVEDIT 183
G G Q+ +R ++V +PGR+ M++ + +D + ++DEAD++++ GF I
Sbjct: 138 GADIGQQIRDLERGCHLLVATPGRLVDMMERGKIGLDFCKYLVLDEADRMLDMGFEPQIR 197
Query: 184 WIYSQ--LPP--MKQMLVVSATYSHDNLATLQKYMVDPLLIRPEDATRPLLGVKQLVALI 239
I Q +PP ++ ++ SAT+ + + ++ + + + + Q V +
Sbjct: 198 RIVEQDTMPPKGVRHTMMFSATFPKEIQMLARDFLDEYIFLAVGRVGSTSENITQKVVWV 257
Query: 240 PECKNPSLRYVDEEKKLVQLLSQTPFNQC-VIFSNYQLRPEVICENLANANFGAEYLSGA 298
E D+ L+ LL+ T + ++F + + + + L + + + G
Sbjct: 258 EES--------DKRSFLLDLLNATGKDSLTLVFVETKKGADSLEDFLYHEGYACTSIHGD 309
Query: 299 QDQKARLASLDSFKRGKVRILVTTDLAARGIDAANVDLVINLEIPHDAATYLHRMGRAGR 358
+ Q+ R +L F+ GK ILV T +AARG+D +NV VIN ++P D Y+HR+GR GR
Sbjct: 310 RSQRDREEALHQFRSGKSPILVATAVAARGLDISNVKHVINFDLPSDIEEYVHRIGRTGR 369
Query: 359 YGTRGL 364
G GL
Sbjct: 370 VGNLGL 375
>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 = 120 bits (302), Expect = 7e-27, Method: Composition-based stats.
Identities = 70/203 (34%), Positives = 118/203 (58%), Gaps = 9/203 (4%)
Query: 24 NDVLIEKPIRQGLQENGFVKESPIQMAAFPYVLNGYDAIVQSKSGTGKSIVFVVAALNKL 83
+D+ + + + +G+ GF S IQ A + GYD I Q++SGTG + F ++ L +
Sbjct: 18 DDMNLSESLLRGIYAYGFEXPSAIQQRAILPCIXGYDVIAQAQSGTGXTATFAISILQQ- 76
Query: 84 IKLPVQQPQTIILAPTREIAVQITDVVRSVGAHV-KNLHVDYFIGGTQVERPKRPVQ--- 139
I+L + Q ++LAPTRE+A QI VV ++G ++ + H IGGT V + +Q
Sbjct: 77 IELDLXATQALVLAPTRELAQQIQXVVMALGDYMGASCHA--CIGGTNVRAEVQXLQMEA 134
Query: 140 --IVVGSPGRIKQMIKLKYLNMDSVRLFIMDEADKLINTGFVEDITWIYSQLPPMKQMLV 197
I+VG+PGR+ M+ +YL+ + +F++DEAD++++ GF + I I+ L Q+++
Sbjct: 135 PHIIVGTPGRVFDMLNRRYLSPXYIXMFVLDEADEMLSRGFXDQIYDIFQXLNSNTQVVL 194
Query: 198 VSATYSHDNLATLQKYMVDPLLI 220
+SAT D L +M DP+ I
Sbjct: 195 LSATMPSDVLEVTXXFMRDPIRI 217
>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 = 118 bits (295), Expect = 5e-26, Method: Composition-based stats.
Identities = 67/201 (33%), Positives = 110/201 (54%), Gaps = 7/201 (3%)
Query: 25 DVLIEKPIRQGLQENGFVKESPIQMAAFPYVLNGYDAIVQSKSGTGKSIVFVVAALNKLI 84
D ++ I + L G +PIQ AA P L G D I Q+++GTGK++ F + +L
Sbjct: 5 DFPLKPEILEALHGRGLTTPTPIQAAALPLALEGKDLIGQARTGTGKTLAFALPIAERLA 64
Query: 85 KLPVQQ----PQTIILAPTREIAVQITDVVRSVGAHVKNLHVDYFIG-GTQVERPKRPVQ 139
P Q+ P+ ++L PTRE+A+Q+ + +V H+K + V G G Q E R
Sbjct: 65 --PSQERGRKPRALVLTPTRELALQVASELTAVAPHLKVVAVYGGTGYGKQKEALLRGAD 122
Query: 140 IVVGSPGRIKQMIKLKYLNMDSVRLFIMDEADKLINTGFVEDITWIYSQLPPMKQMLVVS 199
VV +PGR ++ L++ V + ++DEAD++++ GF E++ + S PP +Q L+ S
Sbjct: 123 AVVATPGRALDYLRQGVLDLSRVEVAVLDEADEMLSMGFEEEVEALLSATPPSRQTLLFS 182
Query: 200 ATYSHDNLATLQKYMVDPLLI 220
AT ++YM +P+LI
Sbjct: 183 ATLPSWAKRLAERYMKNPVLI 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 = 116 bits (291), Expect = 1e-25, Method: Composition-based stats.
Identities = 66/201 (32%), Positives = 110/201 (54%), Gaps = 7/201 (3%)
Query: 25 DVLIEKPIRQGLQENGFVKESPIQMAAFPYVLNGYDAIVQSKSGTGKSIVFVVAALNKLI 84
D ++ I + L G +PI+ AA P L G D I Q+++GTGK++ F + +L
Sbjct: 5 DFPLKPEILEALHGRGLTTPTPIEAAALPLALEGKDLIGQARTGTGKTLAFALPIAERLA 64
Query: 85 KLPVQQ----PQTIILAPTREIAVQITDVVRSVGAHVKNLHVDYFIG-GTQVERPKRPVQ 139
P Q+ P+ ++L PTRE+A+Q+ + +V H+K + V G G Q E R
Sbjct: 65 --PSQERGRKPRALVLTPTRELALQVASELTAVAPHLKVVAVYGGTGYGKQKEALLRGAD 122
Query: 140 IVVGSPGRIKQMIKLKYLNMDSVRLFIMDEADKLINTGFVEDITWIYSQLPPMKQMLVVS 199
VV +PGR ++ L++ V + ++DEAD++++ GF E++ + S PP +Q L+ S
Sbjct: 123 AVVATPGRALDYLRQGVLDLSRVEVAVLDEADEMLSMGFEEEVEALLSATPPSRQTLLFS 182
Query: 200 ATYSHDNLATLQKYMVDPLLI 220
AT ++YM +P+LI
Sbjct: 183 ATLPSWAKRLAERYMKNPVLI 203
>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 = 114 bits (286), Expect = 5e-25, Method: Composition-based stats.
Identities = 65/194 (33%), Positives = 111/194 (57%), Gaps = 9/194 (4%)
Query: 25 DVLIEKPIRQGLQENGFVKESPIQMAAFPYVLNGYDAIVQSKSGTGKSIVFVVAALNKLI 84
D +++ + G+ E G+ K SPIQ + P L+G D + ++K+GTGKS +++ L +L
Sbjct: 7 DYCLKRELLMGIFEMGWEKPSPIQEESIPIALSGRDILARAKNGTGKSGAYLIPLLERL- 65
Query: 85 KLPVQQPQTIILAPTREIAVQITDVVRSVGAHVKNLHVDYFIGGTQVE----RPKRPVQI 140
L Q +++ PTRE+A+Q++ + V H+ V GGT + R V +
Sbjct: 66 DLKKDNIQAMVIVPTRELALQVSQICIQVSKHMGGAKVMATTGGTNLRDDIMRLDDTVHV 125
Query: 141 VVGSPGRIKQMIKLKYLNMDSVRLFIMDEADKLINTGFVEDITWIYSQLPPMKQMLVVSA 200
V+ +PGRI +IK +D V++ ++DEADKL++ FV+ + I LP +Q+L+ SA
Sbjct: 126 VIATPGRILDLIKKGVAKVDHVQMIVLDEADKLLSQDFVQIMEDIILTLPKNRQILLYSA 185
Query: 201 TYSHDNLATLQKYM 214
T+ ++QK+M
Sbjct: 186 TFP----LSVQKFM 195
>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 = 111 bits (278), Expect = 4e-24, Method: Composition-based stats.
Identities = 66/203 (32%), Positives = 111/203 (54%), Gaps = 9/203 (4%)
Query: 25 DVLIEKPIRQGLQENGFVKESPIQMAAFPYVLNGYDAIVQSKSGTGKSIVFVVAALNKLI 84
D L++ + + + + GF S +Q P + G D + Q+KSG GK+ VFV+A L +L
Sbjct: 18 DFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQL- 76
Query: 85 KLPVQ-QPQTIILAPTREIAVQITDVVRSVGAHVKNLHVDYFIGGTQVERPKRPVQ---- 139
PV Q +++ TRE+A QI+ ++ N+ V F GG +++ + ++
Sbjct: 77 -EPVTGQVSVLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEVLKKNCP 135
Query: 140 -IVVGSPGRIKQMIKLKYLNMDSVRLFIMDEADKLINT-GFVEDITWIYSQLPPMKQMLV 197
IVVG+PGRI + + K LN+ ++ FI+DE DK++ D+ I+ P KQ+++
Sbjct: 136 HIVVGTPGRILALARNKSLNLKHIKHFILDECDKMLEQLDMRRDVQEIFRMTPHEKQVMM 195
Query: 198 VSATYSHDNLATLQKYMVDPLLI 220
SAT S + +K+M DP+ I
Sbjct: 196 FSATLSKEIRPVCRKFMQDPMEI 218
>pdb|3SQW|A Chain A, Structure Of Mss116p (Nte Deletion) Bound To Ssrna And
Amp-Pnp
Length = 579
Score = 108 bits (270), Expect = 3e-23, Method: Compositional matrix adjust.
Identities = 109/395 (27%), Positives = 179/395 (45%), Gaps = 51/395 (12%)
Query: 18 IDVLFENDVLIEKPIRQGLQENGFVKESPIQMAAFPYVLNG--YDAIVQSKSGTGKSIVF 75
+D L E VL +K I + + F +P+Q +L+ +D I ++K+GTGK+ F
Sbjct: 19 LDSLLEEGVL-DKEIHKAITRMEFPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFAF 77
Query: 76 VVAALNKLI--KLPVQ-QPQTIILAPTREIAVQITDVVRSVGAHVKNLH-VDY------- 124
++ LI K Q + +I+APTR++A+QI A VK +H ++Y
Sbjct: 78 LIPIFQHLINTKFDSQYMVKAVIVAPTRDLALQIE-------AEVKKIHDMNYGLKKYAC 130
Query: 125 --FIGGTQVERPK------RPVQIVVGSPGRIKQMIKLKYLN--MDSVRLFIMDEADKLI 174
+GGT RP IV+ +PGR+ +++ KY N V ++DEAD+L+
Sbjct: 131 VSLVGGTDFRAAMNKMNKLRP-NIVIATPGRLIDVLE-KYSNKFFRFVDYKVLDEADRLL 188
Query: 175 NTGFVEDITWIYSQLPPMK-------QMLVVSATYSHDNLATLQKYMVDP---LLIRPED 224
GF +D+ I L + L+ SAT D + L +++ L + D
Sbjct: 189 EIGFRDDLETISGILNEKNSKSADNIKTLLFSATLD-DKVQKLANNIMNKKECLFLDTVD 247
Query: 225 ATRPLLG--VKQLVALIPECKNPSLRYVDEEKKLVQLLSQTPFNQCVIFSNYQLRPEVIC 282
P + Q V + + N V+ KK Q+ + + +IF+ +C
Sbjct: 248 KNEPEAHERIDQSVVISEKFANSIFAAVEHIKK--QIKERDSNYKAIIFAPTVKFTSFLC 305
Query: 283 ENLAN---ANFGAEYLSGAQDQKARLASLDSFKRGKVRILVTTDLAARGIDAANVDLVIN 339
L N + G Q R + + FK+ + ILV TD+ ARG+D NV V+
Sbjct: 306 SILKNEFKKDLPILEFHGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQ 365
Query: 340 LEIPHDAATYLHRMGRAGRYGTRGLVITIVSAESL 374
+ +P + A Y+HR+GR R G G + + + L
Sbjct: 366 IGVPSELANYIHRIGRTARSGKEGSSVLFICKDEL 400
>pdb|3SQX|A Chain A, Structure Of Mss116p (Nte And C-Tail Double Deletion)
Bound To Ssrna And Amp-Pnp
Length = 512
Score = 105 bits (263), Expect = 2e-22, Method: Composition-based stats.
Identities = 104/388 (26%), Positives = 174/388 (44%), Gaps = 37/388 (9%)
Query: 18 IDVLFENDVLIEKPIRQGLQENGFVKESPIQMAAFPYVLNG--YDAIVQSKSGTGKSIVF 75
+D L E VL +K I + + F +P+Q +L+ +D I ++K+GTGK+ F
Sbjct: 19 LDSLLEEGVL-DKEIHKAITRMEFPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFAF 77
Query: 76 VVAALNKLIKLPVQQP---QTIILAPTREIAVQITDVVRSV---GAHVKNLHVDYFIGGT 129
++ LI + +I+APTR++A+QI V+ + +K +GGT
Sbjct: 78 LIPIFQHLINTKFDSQYMVKAVIVAPTRDLALQIEAEVKKIHDMNYGLKKYACVSLVGGT 137
Query: 130 QVERPK------RPVQIVVGSPGRIKQMIKLKYLN--MDSVRLFIMDEADKLINTGFVED 181
RP IV+ +PGR+ +++ KY N V ++DEAD+L+ GF +D
Sbjct: 138 DFRAAMNKMNKLRP-NIVIATPGRLIDVLE-KYSNKFFRFVDYKVLDEADRLLEIGFRDD 195
Query: 182 ITWIYSQLPPMK-------QMLVVSATYSHDNLATLQKYMVDP---LLIRPEDATRPLLG 231
+ I L + L+ SAT D + L +++ L + D P
Sbjct: 196 LETISGILNEKNSKSADNIKTLLFSATLD-DKVQKLANNIMNKKECLFLDTVDKNEPEAH 254
Query: 232 --VKQLVALIPECKNPSLRYVDEEKKLVQLLSQTPFNQCVIFSNYQLRPEVICENLAN-- 287
+ Q V + + N V+ KK Q+ + + +IF+ +C L N
Sbjct: 255 ERIDQSVVISEKFANSIFAAVEHIKK--QIKERDSNYKAIIFAPTVKFTSFLCSILKNEF 312
Query: 288 -ANFGAEYLSGAQDQKARLASLDSFKRGKVRILVTTDLAARGIDAANVDLVINLEIPHDA 346
+ G Q R + + FK+ + ILV TD+ ARG+D NV V+ + +P +
Sbjct: 313 KKDLPILEFHGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSEL 372
Query: 347 ATYLHRMGRAGRYGTRGLVITIVSAESL 374
A Y+HR+GR R G G + + + L
Sbjct: 373 ANYIHRIGRTARSGKEGSSVLFICKDEL 400
>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 = 104 bits (259), Expect = 7e-22, Method: Compositional matrix adjust.
Identities = 109/396 (27%), Positives = 179/396 (45%), Gaps = 51/396 (12%)
Query: 17 NIDVLFENDVLIEKPIRQGLQENGFVKESPIQMAAFPYVLNG--YDAIVQSKSGTGKSIV 74
+D L E VL +K I + + F +P+Q +L+ +D I ++K+GTGK+
Sbjct: 69 TLDSLLEEGVL-DKEIHKAITRMEFPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFA 127
Query: 75 FVVAALNKLI--KLPVQ-QPQTIILAPTREIAVQITDVVRSVGAHVKNLH-VDY------ 124
F++ LI K Q + +I+APTR++A+QI A VK +H ++Y
Sbjct: 128 FLIPIFQHLINTKFDSQYMVKAVIVAPTRDLALQIE-------AEVKKIHDMNYGLKKYA 180
Query: 125 ---FIGGTQVERPK------RPVQIVVGSPGRIKQMIKLKYLN--MDSVRLFIMDEADKL 173
+GGT RP IV+ +PGR+ +++ KY N V ++DEAD+L
Sbjct: 181 CVSLVGGTDFRAAMNKMNKLRP-NIVIATPGRLIDVLE-KYSNKFFRFVDYKVLDEADRL 238
Query: 174 INTGFVEDITWIYSQLPPMK-------QMLVVSATYSHDNLATLQKYMVDP---LLIRPE 223
+ GF +D+ I L + L+ SAT D + L +++ L +
Sbjct: 239 LEIGFRDDLETISGILNEKNSKSADNIKTLLFSATLD-DKVQKLANNIMNKKECLFLDTV 297
Query: 224 DATRPLLG--VKQLVALIPECKNPSLRYVDEEKKLVQLLSQTPFNQCVIFSNYQLRPEVI 281
D P + Q V + + N V+ KK Q+ + + +IF+ +
Sbjct: 298 DKNEPEAHERIDQSVVISEKFANSIFAAVEHIKK--QIKERDSNYKAIIFAPTVKFTSFL 355
Query: 282 CENLAN---ANFGAEYLSGAQDQKARLASLDSFKRGKVRILVTTDLAARGIDAANVDLVI 338
C L N + G Q R + + FK+ + ILV TD+ ARG+D NV V+
Sbjct: 356 CSILKNEFKKDLPILEFHGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVL 415
Query: 339 NLEIPHDAATYLHRMGRAGRYGTRGLVITIVSAESL 374
+ +P + A Y+HR+GR R G G + + + L
Sbjct: 416 QIGVPSELANYIHRIGRTARSGKEGSSVLFICKDEL 451
>pdb|3FHC|B Chain B, Crystal Structure Of Human Dbp5 In Complex With Nup214
Length = 235
Score = 102 bits (255), Expect = 2e-21, Method: Composition-based stats.
Identities = 68/193 (35%), Positives = 110/193 (56%), Gaps = 6/193 (3%)
Query: 34 QGLQENGFVKESPIQMAAFPYVLNG--YDAIVQSKSGTGKSIVFVVAALNKLIKLPVQQP 91
QG+ GF + S IQ A P +L + I QS+SGTGK+ FV+A L++ ++ + P
Sbjct: 38 QGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVLAMLSQ-VEPANKYP 96
Query: 92 QTIILAPTREIAVQITDVVRSVGAHVKNLHVDYFIGGTQVERPKR-PVQIVVGSPGRIKQ 150
Q + L+PT E+A+Q V+ +G L + Y + G ++ER ++ QIV+G+PG +
Sbjct: 97 QCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLERGQKISEQIVIGTPGTVLD 156
Query: 151 MI-KLKYLNMDSVRLFIMDEADKLINT-GFVEDITWIYSQLPPMKQMLVVSATYSHDNLA 208
KLK+++ +++F++DEAD +I T G + I LP QML+ SAT+
Sbjct: 157 WCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRMLPRNCQMLLFSATFEDSVWK 216
Query: 209 TLQKYMVDPLLIR 221
QK + DP +I+
Sbjct: 217 FAQKVVPDPNVIK 229
>pdb|3FMO|B Chain B, Crystal Structure Of The Nucleoporin Nup214 In Complex
With The Dead- Box Helicase Ddx19
Length = 300
Score = 101 bits (251), Expect = 5e-21, Method: Composition-based stats.
Identities = 68/193 (35%), Positives = 110/193 (56%), Gaps = 6/193 (3%)
Query: 34 QGLQENGFVKESPIQMAAFPYVLNG--YDAIVQSKSGTGKSIVFVVAALNKLIKLPVQQP 91
QG+ GF + S IQ A P +L + I QS+SGTGK+ FV+A L++ ++ + P
Sbjct: 105 QGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVLAMLSQ-VEPANKYP 163
Query: 92 QTIILAPTREIAVQITDVVRSVGAHVKNLHVDYFIGGTQVERPKR-PVQIVVGSPGRIKQ 150
Q + L+PT E+A+Q V+ +G L + Y + G ++ER ++ QIV+G+PG +
Sbjct: 164 QCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLERGQKISEQIVIGTPGTVLD 223
Query: 151 MI-KLKYLNMDSVRLFIMDEADKLINT-GFVEDITWIYSQLPPMKQMLVVSATYSHDNLA 208
KLK+++ +++F++DEAD +I T G + I LP QML+ SAT+
Sbjct: 224 WCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRMLPRNCQMLLFSATFEDSVWK 283
Query: 209 TLQKYMVDPLLIR 221
QK + DP +I+
Sbjct: 284 FAQKVVPDPNVIK 296
>pdb|1T5I|A Chain A, Crystal Structure Of The C-Terminal Domain Of Uap56
Length = 172
Score = 95.9 bits (237), Expect = 2e-19, Method: Composition-based stats.
Identities = 56/153 (36%), Positives = 84/153 (54%), Gaps = 3/153 (1%)
Query: 247 LRYVDEEKKLVQLLSQTPFNQCVIFSNYQLRPEVICENLANANFGAEYLSGAQDQKARLA 306
L+ ++ +KL LL FNQ VIF R + + L NF A + Q+ RL+
Sbjct: 13 LKDNEKNRKLFDLLDVLEFNQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLS 72
Query: 307 SLDSFKRGKVRILVTTDLAARGIDAANVDLVINLEIPHDAATYLHRMGRAGRYGTRGLVI 366
FK + RILV T+L RG+D V++ N ++P D+ TYLHR+ RAGR+GT+GL I
Sbjct: 73 RYQQFKDFQRRILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKGLAI 132
Query: 367 TIVSAESLVKFHSLMGEINLDHAFNVGLVPDNL 399
T VS E+ K ++ ++ N+ +PD +
Sbjct: 133 TFVSDENDAK---ILNDVQDRFEVNISELPDEI 162
>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 = 92.0 bits (227), Expect = 3e-18, Method: Composition-based stats.
Identities = 62/187 (33%), Positives = 97/187 (51%), Gaps = 8/187 (4%)
Query: 41 FVKESPIQMAAFPYVLNGYDAIVQSKSGTGKSIVFVVAALNKLIKLPVQQPQTIILAPTR 100
F K + IQ P L G + QS++GTGK+ +++ K IK + Q +I APTR
Sbjct: 24 FYKPTEIQERIIPGALRGESXVGQSQTGTGKTHAYLLPIXEK-IKPERAEVQAVITAPTR 82
Query: 101 EIAVQI---TDVVRSVGAHVKNLHVDYFIGGTQVERP--KRPVQ--IVVGSPGRIKQMIK 153
E+A QI T + + + IGGT ++ K VQ IV+G+PGRI I+
Sbjct: 83 ELATQIYHETLKITKFCPKDRXIVARCLIGGTDKQKALEKLNVQPHIVIGTPGRINDFIR 142
Query: 154 LKYLNMDSVRLFIMDEADKLINTGFVEDITWIYSQLPPMKQMLVVSATYSHDNLATLQKY 213
+ L++ + + ++DEAD ++ GF+ D+ I ++ P Q LV SAT L+KY
Sbjct: 143 EQALDVHTAHILVVDEADLXLDXGFITDVDQIAARXPKDLQXLVFSATIPEKLKPFLKKY 202
Query: 214 MVDPLLI 220
+P +
Sbjct: 203 XENPTFV 209
>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 = 91.7 bits (226), Expect = 4e-18, Method: Composition-based stats.
Identities = 54/190 (28%), Positives = 97/190 (51%), Gaps = 11/190 (5%)
Query: 40 GFVKESPIQMAAFPYVLNGYDAIVQSKSGTGKSIVFVVAALNKLIKLPVQQ-----PQTI 94
G +K +PIQ A+P +L G D IV +++GTGK++ +++ L P+ + P +
Sbjct: 39 GILKPTPIQSQAWPIILQGIDLIVVAQTGTGKTLSYLMPGFIHLDSQPISREQRNGPGML 98
Query: 95 ILAPTREIAVQITDVVRSVGAHVKNLHVDYFIGGT----QVERPKRPVQIVVGSPGRIKQ 150
+L PTRE+A+ + K L GG Q+E + V I++ +PGR+
Sbjct: 99 VLTPTRELALHVE--AECSKYSYKGLKSICIYGGRNRNGQIEDISKGVDIIIATPGRLND 156
Query: 151 MIKLKYLNMDSVRLFIMDEADKLINTGFVEDITWIYSQLPPMKQMLVVSATYSHDNLATL 210
+ +N+ S+ ++DEADK+++ F I I + P +Q ++ SAT+
Sbjct: 157 LQMNNSVNLRSITYLVIDEADKMLDMEFEPQIRKILLDVRPDRQTVMTSATWPDTVRQLA 216
Query: 211 QKYMVDPLLI 220
Y+ DP+++
Sbjct: 217 LSYLKDPMIV 226
>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 = 90.9 bits (224), Expect = 7e-18, Method: Compositional matrix adjust.
Identities = 48/125 (38%), Positives = 69/125 (55%), Gaps = 3/125 (2%)
Query: 249 YVDEEKK---LVQLLSQTPFNQCVIFSNYQLRPEVICENLANANFGAEYLSGAQDQKARL 305
YV E +K L L S+ NQ +IF N R E++ + ++ + Y+ Q+ R
Sbjct: 25 YVTERQKVHCLNTLFSRLQINQSIIFCNSSQRVELLAKKISQLGYSCFYIHAKMRQEHRN 84
Query: 306 ASLDSFKRGKVRILVTTDLAARGIDAANVDLVINLEIPHDAATYLHRMGRAGRYGTRGLV 365
F+ G R LV TDL RGID V++VIN + P A TYLHR+GR+GR+G GL
Sbjct: 85 RVFHDFRNGLCRNLVCTDLFTRGIDIQAVNVVINFDFPKLAETYLHRIGRSGRFGHLGLA 144
Query: 366 ITIVS 370
I +++
Sbjct: 145 INLIT 149
>pdb|3BER|A Chain A, Human Dead-Box Rna-Helicase Ddx47, Conserved Domain I In
Complex With Amp
Length = 249
Score = 87.8 bits (216), Expect = 7e-17, Method: Composition-based stats.
Identities = 51/170 (30%), Positives = 95/170 (55%), Gaps = 9/170 (5%)
Query: 40 GFVKESPIQMAAFPYVLNGYDAIVQSKSGTGKSIVFVVAALNKLIKLPVQQPQTIILAPT 99
G+ K + IQ+ A P L G D I +++G+GK+ F + LN L++ P Q+ ++L PT
Sbjct: 62 GWTKPTKIQIEAIPLALQGRDIIGLAETGSGKTGAFALPILNALLETP-QRLFALVLTPT 120
Query: 100 REIAVQITDVVRSVGAHVKNLHVDYFIGG-----TQVERPKRPVQIVVGSPGR-IKQMIK 153
RE+A QI++ ++G+ + + +GG + K+P I++ +PGR I +
Sbjct: 121 RELAFQISEQFEALGSSI-GVQSAVIVGGIDSMSQSLALAKKP-HIIIATPGRLIDHLEN 178
Query: 154 LKYLNMDSVRLFIMDEADKLINTGFVEDITWIYSQLPPMKQMLVVSATYS 203
K N+ +++ +MDEAD+++N F ++ I +P ++ + SAT +
Sbjct: 179 TKGFNLRALKYLVMDEADRILNMDFETEVDKILKVIPRDRKTFLFSATMT 228
>pdb|3LY5|A Chain A, Ddx18 Dead-Domain
pdb|3LY5|B Chain B, Ddx18 Dead-Domain
Length = 262
Score = 87.0 bits (214), Expect = 1e-16, Method: Composition-based stats.
Identities = 52/186 (27%), Positives = 102/186 (54%), Gaps = 15/186 (8%)
Query: 27 LIEKPIRQGLQENGFVKESPIQMAAFPYVLNGYDAIVQSKSGTGKSIVFVVAALNKLIKL 86
L+ + + ++E GF + IQ + +L G D + +K+G+GK++ F++ A+ ++KL
Sbjct: 60 LVNENTLKAIKEMGFTNMTEIQHKSIRPLLEGRDLLAAAKTGSGKTLAFLIPAVELIVKL 119
Query: 87 ---PVQQPQTIILAPTREIAVQITDVVRSVGAHVKNLHVDYF---IGGT----QVERPKR 136
P +IL+PTRE+A+Q V++ + H HV + +GG+ + ++
Sbjct: 120 RFMPRNGTGVLILSPTRELAMQTFGVLKELMTH----HVHTYGLIMGGSNRSAEAQKLGN 175
Query: 137 PVQIVVGSPGR-IKQMIKLKYLNMDSVRLFIMDEADKLINTGFVEDITWIYSQLPPMKQM 195
+ I+V +PGR + M +++ ++DEAD++++ GF E++ I LP +Q
Sbjct: 176 GINIIVATPGRLLDHMQNTPGFMYKNLQCLVIDEADRILDVGFEEELKQIIKLLPTRRQT 235
Query: 196 LVVSAT 201
++ SAT
Sbjct: 236 MLFSAT 241
>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 = 86.7 bits (213), Expect = 1e-16, Method: Composition-based stats.
Identities = 42/113 (37%), Positives = 68/113 (60%), Gaps = 1/113 (0%)
Query: 259 LLSQTPFNQCVIFSNYQLRPEVICENLANANFGAEYLSGAQDQKARLASLDSFKRGKVRI 318
L+++ P + C+IF + + + L + + + + G Q+ R ++ FKRG+ R
Sbjct: 30 LMTENP-DSCIIFCRTKEHVNQLTDELDDLGYPCDKIHGGMIQEDRFDVMNEFKRGEYRY 88
Query: 319 LVTTDLAARGIDAANVDLVINLEIPHDAATYLHRMGRAGRYGTRGLVITIVSA 371
LV TD+AARGID N+ LVIN ++P + +Y+HR GR GR G +G I+ V+A
Sbjct: 89 LVATDVAARGIDIENISLVINYDLPLEKESYVHRTGRTGRAGNKGKAISFVTA 141
>pdb|2KBE|A Chain A, Solution Structure Of Amino-Terminal Domain Of Dbp5p
Length = 226
Score = 84.3 bits (207), Expect = 6e-16, Method: Composition-based stats.
Identities = 54/174 (31%), Positives = 95/174 (54%), Gaps = 7/174 (4%)
Query: 34 QGLQENGFVKESPIQMAAFPYVLNG--YDAIVQSKSGTGKSIVFVVAALNKLIKLPVQQP 91
+G+ F K S IQ A P +L+ + I QS+SGTGK+ F + L + + P
Sbjct: 35 KGIYAMKFQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAAFSLTMLTR-VNPEDASP 93
Query: 92 QTIILAPTREIAVQITDVVRSVGAHVKNLHVDYFIGGTQVERPKR-PVQIVVGSPGRIKQ 150
Q I LAP+RE+A Q +VV+ +G K I E+ K+ Q++VG+PG +
Sbjct: 94 QAICLAPSRELARQTLEVVQEMGKFTKI--TSQLIVPDSFEKNKQINAQVIVGTPGTVLD 151
Query: 151 MIKLKYLNMDSVRLFIMDEADKLIN-TGFVEDITWIYSQLPPMKQMLVVSATYS 203
+++ K + + +++F++DEAD +++ G + + LP Q+++ SAT++
Sbjct: 152 LMRRKLMQLQKIKIFVLDEADNMLDQQGLGDQCIRVKRFLPKDTQLVLFSATFA 205
>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 = 82.8 bits (203), Expect = 2e-15, Method: Composition-based stats.
Identities = 48/188 (25%), Positives = 95/188 (50%), Gaps = 7/188 (3%)
Query: 36 LQENGFVKESPIQMAAFPYVLNGYDAIVQSKSGTGKSIVFVVAALNKLIKLPVQQ----P 91
+ F + + IQ +P L+G D + +++G+GK++ +++ A+ + P + P
Sbjct: 44 IARQNFTEPTAIQAQGWPVALSGLDMVGVAQTGSGKTLSYLLPAIVHINHQPFLERGDGP 103
Query: 92 QTIILAPTREIAVQITDVVRSVGAHVKNLHVDYFIG---GTQVERPKRPVQIVVGSPGRI 148
++LAPTRE+A Q+ V + + G G Q+ +R V+I + +PGR+
Sbjct: 104 ICLVLAPTRELAQQVQQVAAEYCRACRLKSTCIYGGAPKGPQIRDLERGVEICIATPGRL 163
Query: 149 KQMIKLKYLNMDSVRLFIMDEADKLINTGFVEDITWIYSQLPPMKQMLVVSATYSHDNLA 208
++ N+ ++DEAD++++ GF I I Q+ P +Q L+ SAT+ +
Sbjct: 164 IDFLECGKTNLRRTTYLVLDEADRMLDMGFEPQIRKIVDQIRPDRQTLMWSATWPKEVRQ 223
Query: 209 TLQKYMVD 216
+ ++ D
Sbjct: 224 LAEDFLKD 231
>pdb|2PL3|A Chain A, Human Dead-Box Rna Helicase Ddx10, Dead Domain In Complex
With Adp
Length = 236
Score = 82.0 bits (201), Expect = 3e-15, Method: Compositional matrix adjust.
Identities = 54/185 (29%), Positives = 97/185 (52%), Gaps = 8/185 (4%)
Query: 24 NDVLIEKPIRQGLQENGFVKESPIQMAAFPYVLNGYDAIVQSKSGTGKSIVFVVAALNKL 83
+D + K +GLQE + + IQ L G D + +K+G+GK++ F+V L L
Sbjct: 28 SDFPLSKKTLKGLQEAQYRLVTEIQKQTIGLALQGKDVLGAAKTGSGKTLAFLVPVLEAL 87
Query: 84 IKLPVQQPQ---TIILAPTREIAVQITDVVRSVGAHVKNLHVDYFIGGTQVERPKRP--- 137
+L +I++PTRE+A Q +V+R VG + + IGG ++
Sbjct: 88 YRLQWTSTDGLGVLIISPTRELAYQTFEVLRKVGKN-HDFSAGLIIGGKDLKHEAERINN 146
Query: 138 VQIVVGSPGRIKQ-MIKLKYLNMDSVRLFIMDEADKLINTGFVEDITWIYSQLPPMKQML 196
+ I+V +PGR+ Q M + + +++ ++DEAD++++ GF + + + LP +Q L
Sbjct: 147 INILVCTPGRLLQHMDETVSFHATDLQMLVLDEADRILDMGFADTMNAVIENLPKKRQTL 206
Query: 197 VVSAT 201
+ SAT
Sbjct: 207 LFSAT 211
>pdb|4A4D|A Chain A, Crystal Structure Of The N-Terminal Domain Of The Human
Dead-Box Rna Helicase Ddx5 (P68)
Length = 253
Score = 82.0 bits (201), Expect = 4e-15, Method: Composition-based stats.
Identities = 48/188 (25%), Positives = 95/188 (50%), Gaps = 7/188 (3%)
Query: 36 LQENGFVKESPIQMAAFPYVLNGYDAIVQSKSGTGKSIVFVVAALNKLIKLPVQQ----P 91
+ F + + IQ +P L+G D + +++G+GK++ +++ A+ + P + P
Sbjct: 58 IARQNFTEPTAIQAQGWPVALSGLDMVGVAQTGSGKTLSYLLPAIVHINHQPFLERGDGP 117
Query: 92 QTIILAPTREIAVQITDVVRSVGAHVKNLHVDYFIG---GTQVERPKRPVQIVVGSPGRI 148
++LAPTRE+A Q+ V + + G G Q+ +R V+I + +PGR+
Sbjct: 118 ICLVLAPTRELAQQVQQVAAEYCRACRLKSTCIYGGAPKGPQIRDLERGVEICIATPGRL 177
Query: 149 KQMIKLKYLNMDSVRLFIMDEADKLINTGFVEDITWIYSQLPPMKQMLVVSATYSHDNLA 208
++ N+ ++DEAD++++ GF I I Q+ P +Q L+ SAT+ +
Sbjct: 178 IDFLECGKTNLRRTTYLVLDEADRMLDMGFEPQIRKIVDQIRPDRQTLMWSATWPKEVRQ 237
Query: 209 TLQKYMVD 216
+ ++ D
Sbjct: 238 LAEDFLKD 245
>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 = 81.3 bits (199), Expect = 6e-15, Method: Composition-based stats.
Identities = 60/222 (27%), Positives = 110/222 (49%), Gaps = 26/222 (11%)
Query: 13 DVLSNIDVLFENDVLIEKPIRQGLQENGFVKESPIQMAAFPYVLNGYDAIVQSKSGTGKS 72
+V+ N D ++ ++ IR + + + +PIQ A P +L D + +++G+GK+
Sbjct: 20 NVIENFD-----ELKLDPTIRNNILLASYQRPTPIQKNAIPAILEHRDIMACAQTGSGKT 74
Query: 73 IVFVVAALNKLIKLPVQQ--------PQTIILAPTREIAVQITDVVRSVGAHVKNLHVDY 124
F++ +N L+ + Q P+ +ILAPTRE+A+QI + + L
Sbjct: 75 AAFLIPIINHLVCQDLNQQRYSKTAYPKCLILAPTRELAIQILSESQKFSLNTP-LRSCV 133
Query: 125 FIGGTQVERPKRPVQ----IVVGSPGRIKQMIKLKYLNMDSVRLFIMDEADKLINTGFVE 180
GG R VQ ++V +PGR+ I+ ++++ + ++DEAD++++ GF
Sbjct: 134 VYGGADTHSQIREVQMGCHLLVATPGRLVDFIEKNKISLEFCKYIVLDEADRMLDMGFEP 193
Query: 181 DITWIY--SQLPP--MKQMLVVSATYSHDNLATLQKYMVDPL 218
I I S +P +Q L+ SAT+ + +QK D L
Sbjct: 194 QIRKIIEESNMPSGINRQTLMFSATFPKE----IQKLAADFL 231
>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 = 80.5 bits (197), Expect = 1e-14, Method: Composition-based stats.
Identities = 46/129 (35%), Positives = 66/129 (51%), Gaps = 4/129 (3%)
Query: 256 LVQLLSQTPFNQCVIFSNYQLRPEVICENLANANFGAEYLSGAQDQKARLASLDSFKRGK 315
LV LL Q + ++F + R + L A YL G Q R ++ G+
Sbjct: 21 LVHLLKQPEATRSIVFVRKRERVHELANWLREAGINNCYLEGEMVQGKRNEAIKRLTEGR 80
Query: 316 VRILVTTDLAARGIDAANVDLVINLEIPHDAATYLHRMGRAGRYGTRGLVITIVSAESLV 375
V +LV TD+AARGID +V V N ++P TYLHR+GR R G +G I++V A
Sbjct: 81 VNVLVATDVAARGIDIPDVSHVFNFDMPRSGDTYLHRIGRTARAGRKGTAISLVEAHD-- 138
Query: 376 KFHSLMGEI 384
H L+G++
Sbjct: 139 --HLLLGKV 145
>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 = 78.6 bits (192), Expect = 4e-14, Method: Composition-based stats.
Identities = 43/127 (33%), Positives = 72/127 (56%), Gaps = 4/127 (3%)
Query: 247 LRYVDEEKKLVQLL---SQTPFNQCVIFSNYQLRPEVICENLANANFGAEYLSGAQDQKA 303
+ YV EE K+V LL +TP +IF+ + + I E L A + G +DQ+
Sbjct: 34 VEYVKEEAKMVYLLECLQKTP-PPVLIFAEKKADVDAIHEYLLLKGVEAVAIHGGKDQEE 92
Query: 304 RLASLDSFKRGKVRILVTTDLAARGIDAANVDLVINLEIPHDAATYLHRMGRAGRYGTRG 363
R ++++F+ GK +LV TD+A++G+D + VIN ++P + Y+HR+GR G G G
Sbjct: 93 RTKAIEAFREGKKDVLVATDVASKGLDFPAIQHVINYDMPEEIENYVHRIGRTGCSGNTG 152
Query: 364 LVITIVS 370
+ T ++
Sbjct: 153 IATTFIN 159
>pdb|2KBF|A Chain A, Solution Structure Of Carboxyl-Terminal Domain Of Dbp5p
Length = 187
Score = 75.9 bits (185), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 45/145 (31%), Positives = 73/145 (50%), Gaps = 13/145 (8%)
Query: 231 GVKQLVALIPECKNPSLRYVDEEKKLVQLLSQTPFNQCVIFSNYQLRPEVICENLANANF 290
+KQL +CKN + D+ L +L +IF + V+ L +
Sbjct: 8 AIKQLYM---DCKNEA----DKFDVLTELYGLMTIGSSIIFVATKKTANVLYGKLKSEGH 60
Query: 291 GAEYLSGAQDQKARLASLDSFKRGKVRILVTTDLAARGIDAANVDLVINLEIP------H 344
L G + R +D F+ G+ ++L+TT++ ARGID V +V+N ++P
Sbjct: 61 EVSILHGDLQTQERDRLIDDFREGRSKVLITTNVLARGIDIPTVSMVVNYDLPTLANGQA 120
Query: 345 DAATYLHRMGRAGRYGTRGLVITIV 369
D ATY+HR+GR GR+G +G+ I+ V
Sbjct: 121 DPATYIHRIGRTGRFGRKGVAISFV 145
>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 = 74.7 bits (182), Expect = 6e-13, Method: Composition-based stats.
Identities = 39/141 (27%), Positives = 67/141 (47%), Gaps = 6/141 (4%)
Query: 251 DEEKKLVQLLSQTPFNQCVIFSNYQLRPEVICENLANANFGAEYLSGAQDQKARLASLDS 310
D+ + L + Q +IF + + + + LSG + R + +
Sbjct: 20 DKYQALCNIYGSITIGQAIIFCQTRRNAKWLTVEMIQDGHQVSLLSGELTVEQRASIIQR 79
Query: 311 FKRGKVRILVTTDLAARGIDAANVDLVINLEIP------HDAATYLHRMGRAGRYGTRGL 364
F+ GK ++L+TT++ ARGID V +V+N ++P D TYLHR+GR GR+G +GL
Sbjct: 80 FRDGKEKVLITTNVCARGIDVKQVTIVVNFDLPVKQGEEPDYETYLHRIGRTGRFGKKGL 139
Query: 365 VITIVSAESLVKFHSLMGEIN 385
++ + L + N
Sbjct: 140 AFNMIEVDELPSLMKIQDHFN 160
>pdb|3GFP|A Chain A, Structure Of The C-Terminal Domain Of The Dead-Box Protein
Dbp5
Length = 189
Score = 72.4 bits (176), Expect = 3e-12, Method: Composition-based stats.
Identities = 44/146 (30%), Positives = 72/146 (49%), Gaps = 10/146 (6%)
Query: 230 LGVKQLVALIPECKNPSLRYVDEEKKLVQLLSQTPFNQCVIFSNYQLRPEVICENLANAN 289
+ V + L +CKN + D+ L +L +IF + V+ L +
Sbjct: 6 VNVDAIKQLYXDCKNEA----DKFDVLTELYGLXTIGSSIIFVATKKTANVLYGKLKSEG 61
Query: 290 FGAEYLSGAQDQKARLASLDSFKRGKVRILVTTDLAARGIDAANVDLVINLEIP------ 343
L G + R +D F+ G+ ++L+TT++ ARGID V V+N ++P
Sbjct: 62 HEVSILHGDLQTQERDRLIDDFREGRSKVLITTNVLARGIDIPTVSXVVNYDLPTLANGQ 121
Query: 344 HDAATYLHRMGRAGRYGTRGLVITIV 369
D ATY+HR+GR GR+G +G+ I+ V
Sbjct: 122 ADPATYIHRIGRTGRFGRKGVAISFV 147
>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 = 72.4 bits (176), Expect = 3e-12, Method: Composition-based stats.
Identities = 44/146 (30%), Positives = 72/146 (49%), Gaps = 10/146 (6%)
Query: 230 LGVKQLVALIPECKNPSLRYVDEEKKLVQLLSQTPFNQCVIFSNYQLRPEVICENLANAN 289
+ V + L +CKN + D+ L +L +IF + V+ L +
Sbjct: 5 VNVDAIKQLYXDCKNEA----DKFDVLTELYGVXTIGSSIIFVATKKTANVLYGKLKSEG 60
Query: 290 FGAEYLSGAQDQKARLASLDSFKRGKVRILVTTDLAARGIDAANVDLVINLEIP------ 343
L G + R +D F+ G+ ++L+TT++ ARGID V V+N ++P
Sbjct: 61 HEVSILHGDLQTQERDRLIDDFREGRSKVLITTNVLARGIDIPTVSXVVNYDLPTLANGQ 120
Query: 344 HDAATYLHRMGRAGRYGTRGLVITIV 369
D ATY+HR+GR GR+G +G+ I+ V
Sbjct: 121 ADPATYIHRIGRTGRFGRKGVAISFV 146
>pdb|3DKP|A Chain A, Human Dead-Box Rna-Helicase Ddx52, Conserved Domain I In
Complex With Adp
Length = 245
Score = 72.0 bits (175), Expect = 4e-12, Method: Composition-based stats.
Identities = 50/188 (26%), Positives = 94/188 (50%), Gaps = 10/188 (5%)
Query: 28 IEKPIRQGLQENGFVKESPIQMAAFPYVLNGYDAIVQSKSGTGKSIVFVVAALNKLIKLP 87
I + Q + + GF +PIQM A P +L+G + + + +G+GK++ F + L +L +
Sbjct: 36 INSRLLQNILDAGFQMPTPIQMQAIPVMLHGRELLASAPTGSGKTLAFSIPILMQLKQPA 95
Query: 88 VQQPQTIILAPTREIAVQI----TDVVRSVGAHVKNLHVDYFIGGTQVERPKRPVQIVVG 143
+ + +I++PTRE+A QI + G + +H + + I+V
Sbjct: 96 NKGFRALIISPTRELASQIHRELIKISEGTGFRIHMIHKAAVAAKKFGPKSSKKFDILVT 155
Query: 144 SPGRIKQMIKLKYLNMD--SVRLFIMDEADKLI---NTGFVEDITWIYSQLPPMK-QMLV 197
+P R+ ++K +D SV ++DE+DKL TGF + + I+ K + +
Sbjct: 156 TPNRLIYLLKQDPPGIDLASVEWLVVDESDKLFEDGKTGFRDQLASIFLACTSHKVRRAM 215
Query: 198 VSATYSHD 205
SAT+++D
Sbjct: 216 FSATFAYD 223
>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 = 68.9 bits (167), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 40/115 (34%), Positives = 64/115 (55%), Gaps = 1/115 (0%)
Query: 251 DEEKKLVQLLSQTPFNQC-VIFSNYQLRPEVICENLANANFGAEYLSGAQDQKARLASLD 309
D+ L+ LL+ T + ++F + + + + L + + + G + Q+ R +L
Sbjct: 31 DKRSFLLDLLNATGKDSLTLVFVETKKGADSLEDFLYHEGYACTSIHGDRSQRDREEALH 90
Query: 310 SFKRGKVRILVTTDLAARGIDAANVDLVINLEIPHDAATYLHRMGRAGRYGTRGL 364
F+ GK ILV T +AARG+D +NV VIN ++P D Y+HR+GR GR G GL
Sbjct: 91 QFRSGKSPILVATAVAARGLDISNVKHVINFDLPSDIEEYVHRIGRTGRVGNLGL 145
>pdb|1FUK|A Chain A, Crystal Structure Of The Carboxy Terminal Domain Of Yeast
Eif4a
Length = 165
Score = 62.8 bits (151), Expect = 3e-09, Method: Composition-based stats.
Identities = 51/138 (36%), Positives = 71/138 (51%), Gaps = 9/138 (6%)
Query: 251 DEEKK---LVQLLSQTPFNQCVIFSNYQLRPEVICENLANANFGAEYLSGAQDQKARLAS 307
+EE K L L Q VIF N + + E + L N F + Q+ R
Sbjct: 13 EEEYKYECLTDLYDSISVTQAVIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTI 72
Query: 308 LDSFKRGKVRILVTTDLAARGIDAANVDLVINLEIPHDAATYLHRMGRAGRYGTRGLVIT 367
+ F+ G RIL++TDL ARGID V LVIN ++P + Y+HR+GR GR+G +G+ I
Sbjct: 73 MKEFRSGSSRILISTDLLARGIDVQQVSLVINYDLPANKENYIHRIGRGGRFGRKGVAIN 132
Query: 368 IVSAE------SLVKFHS 379
V+ E L KF+S
Sbjct: 133 FVTNEDVGAMRELEKFYS 150
>pdb|1OYW|A Chain A, Structure Of The Recq Catalytic Core
Length = 523
Score = 62.0 bits (149), Expect = 4e-09, Method: Composition-based stats.
Identities = 84/353 (23%), Positives = 144/353 (40%), Gaps = 50/353 (14%)
Query: 28 IEKPIRQGLQEN-GFVKESPIQMAAFPYVLNGYDAIVQSKSGTGKSIVFVVAALNKLIKL 86
+E +Q LQE G+ + P Q VL+G D +V +G GKS+ + + AL
Sbjct: 9 LESGAKQVLQETFGYQQFRPGQEEIIDTVLSGRDCLVVXPTGGGKSLCYQIPAL------ 62
Query: 87 PVQQPQTIILAPTREIAVQITDVVRSVGAHVKNLHVDYFIGGTQVERPKRPVQIVVGSPG 146
+ T++++P + D +++ G L+ TQ R Q+ V +
Sbjct: 63 -LLNGLTVVVSPLISLXKDQVDQLQANGVAAACLN------STQT----REQQLEVXTGC 111
Query: 147 RIKQMIKLKYLNMDSVRLFIMDEADKLINTGFVEDITWIYSQLPPMKQMLVVSATYSHD- 205
R Q I+L Y+ ++L F+E + L + + +S + HD
Sbjct: 112 RTGQ-IRLLYI-----------APERLXLDNFLEHLAHWNPVLLAVDEAHCIS-QWGHDF 158
Query: 206 --NLATL----QKYMVDP---LLIRPEDATRP----LLGVKQLVALIPECKNPSLRYVDE 252
A L Q++ P L +D TR LLG+ + I P++RY
Sbjct: 159 RPEYAALGQLRQRFPTLPFXALTATADDTTRQDIVRLLGLNDPLIQISSFDRPNIRYXLX 218
Query: 253 EK-----KLVQLLSQTPFNQCVIFSNYQLRPEVICENLANANFGAEYLSGAQDQKARLAS 307
EK +L + + + +I+ N + + E L + A + R
Sbjct: 219 EKFKPLDQLXRYVQEQRGKSGIIYCNSRAKVEDTAARLQSKGISAAAYHAGLENNVRADV 278
Query: 308 LDSFKRGKVRILVTTDLAARGIDAANVDLVINLEIPHDAATYLHRMGRAGRYG 360
+ F+R ++I+V T GI+ NV V++ +IP + +Y GRAGR G
Sbjct: 279 QEKFQRDDLQIVVATVAFGXGINKPNVRFVVHFDIPRNIESYYQETGRAGRDG 331
>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 = 61.2 bits (147), Expect = 6e-09, Method: Composition-based stats.
Identities = 34/96 (35%), Positives = 52/96 (54%)
Query: 256 LVQLLSQTPFNQCVIFSNYQLRPEVICENLANANFGAEYLSGAQDQKARLASLDSFKRGK 315
L LL ++ ++F+ + E I + L A+ L G Q R L +F++G+
Sbjct: 22 LSDLLYVASPDRAMVFTRTKAETEEIAQGLLRLGHPAQALHGDLSQGERERVLGAFRQGE 81
Query: 316 VRILVTTDLAARGIDAANVDLVINLEIPHDAATYLH 351
VR+LV TD+AARG+D VDLV++ +P A Y H
Sbjct: 82 VRVLVATDVAARGLDIPQVDLVVHYRLPDRAEAYQH 117
>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 = 61.2 bits (147), Expect = 7e-09, Method: Composition-based stats.
Identities = 33/96 (34%), Positives = 52/96 (54%)
Query: 256 LVQLLSQTPFNQCVIFSNYQLRPEVICENLANANFGAEYLSGAQDQKARLASLDSFKRGK 315
L LL ++ ++F+ + E I + L A+ L G Q R + +F++G+
Sbjct: 19 LSDLLYVASPDRAMVFTRTKAETEEIAQGLLRLGHPAQALHGDMSQGERERVMGAFRQGE 78
Query: 316 VRILVTTDLAARGIDAANVDLVINLEIPHDAATYLH 351
VR+LV TD+AARG+D VDLV++ +P A Y H
Sbjct: 79 VRVLVATDVAARGLDIPQVDLVVHYRMPDRAEAYQH 114
>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 = 57.8 bits (138), Expect = 8e-08, Method: Composition-based stats.
Identities = 28/78 (35%), Positives = 43/78 (55%)
Query: 297 GAQDQKARLASLDSFKRGKVRILVTTDLAARGIDAANVDLVINLEIPHDAATYLHRMGRA 356
G Q R + + FK+ + ILV TD+ ARG+D NV V+ + +P + A Y+HR+GR
Sbjct: 68 GKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRT 127
Query: 357 GRYGTRGLVITIVSAESL 374
R G G + + + L
Sbjct: 128 ARSGKEGSSVLFICKDEL 145
>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 = 57.8 bits (138), Expect = 8e-08, Method: Composition-based stats.
Identities = 28/78 (35%), Positives = 43/78 (55%)
Query: 297 GAQDQKARLASLDSFKRGKVRILVTTDLAARGIDAANVDLVINLEIPHDAATYLHRMGRA 356
G Q R + + FK+ + ILV TD+ ARG+D NV V+ + +P + A Y+HR+GR
Sbjct: 68 GKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRT 127
Query: 357 GRYGTRGLVITIVSAESL 374
R G G + + + L
Sbjct: 128 ARSGKEGSSVLFICKDEL 145
>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 = 57.8 bits (138), Expect = 8e-08, Method: Composition-based stats.
Identities = 28/78 (35%), Positives = 43/78 (55%)
Query: 297 GAQDQKARLASLDSFKRGKVRILVTTDLAARGIDAANVDLVINLEIPHDAATYLHRMGRA 356
G Q R + + FK+ + ILV TD+ ARG+D NV V+ + +P + A Y+HR+GR
Sbjct: 68 GKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRT 127
Query: 357 GRYGTRGLVITIVSAESL 374
R G G + + + L
Sbjct: 128 ARSGKEGSSVLFICKDEL 145
>pdb|1OYY|A Chain A, Structure Of The Recq Catalytic Core Bound To Atp-Gamma-S
Length = 523
Score = 54.3 bits (129), Expect = 9e-07, Method: Compositional matrix adjust.
Identities = 83/353 (23%), Positives = 147/353 (41%), Gaps = 50/353 (14%)
Query: 28 IEKPIRQGLQEN-GFVKESPIQMAAFPYVLNGYDAIVQSKSGTGKSIVFVVAALNKLIKL 86
+E +Q LQE G+ + P Q VL+G D +V +G GKS+ + + AL
Sbjct: 9 LESGAKQVLQETFGYQQFRPGQEEIIDTVLSGRDCLVVMPTGGGKSLCYQIPAL------ 62
Query: 87 PVQQPQTIILAPTREIAVQITDVVRSVGAHVKNLHVDYFIGGTQVERPKRPVQIVVGSPG 146
+ T++++P + D +++ G L+ TQ R Q+ V +
Sbjct: 63 -LLNGLTVVVSPLISLMKDQVDQLQANGVAAACLN------STQ----TREQQLEVMTGC 111
Query: 147 RIKQMIKLKYLNMDSVRLFIMDEADKLINTGFVEDITWIYSQLPPMKQMLVVSATYSHD- 205
R Q I+L Y+ ++L+ F+E + L + + +S + HD
Sbjct: 112 RTGQ-IRLLYI-----------APERLMLDNFLEHLAHWNPVLLAVDEAHCIS-QWGHDF 158
Query: 206 --NLATL----QKYMVDPLLIR---PEDATRP----LLGVKQLVALIPECKNPSLRYVDE 252
A L Q++ P + +D TR LLG+ + I P++RY+
Sbjct: 159 RPEYAALGQLRQRFPTLPFMALTATADDTTRQDIVRLLGLNDPLIQISSFDRPNIRYMLM 218
Query: 253 EK-----KLVQLLSQTPFNQCVIFSNYQLRPEVICENLANANFGAEYLSGAQDQKARLAS 307
EK +L++ + + +I+ N + + E L + A + R
Sbjct: 219 EKFKPLDQLMRYVQEQRGKSGIIYCNSRAKVEDTAARLQSKGISAAAYHAGLENNVRADV 278
Query: 308 LDSFKRGKVRILVTTDLAARGIDAANVDLVINLEIPHDAATYLHRMGRAGRYG 360
+ F+R ++I+V T GI+ NV V++ +IP + +Y GRAGR G
Sbjct: 279 QEKFQRDDLQIVVATVAFGMGINKPNVRFVVHFDIPRNIESYYQETGRAGRDG 331
>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 = 51.2 bits (121), Expect = 7e-06, Method: Composition-based stats.
Identities = 36/139 (25%), Positives = 67/139 (48%), Gaps = 11/139 (7%)
Query: 232 VKQLVALIPECKNPSLRY--VDEEKKLV-QLLSQTPFNQCVIFSNYQLRPEVICENLANA 288
+K+ ++L+ + K L + +D+ K+++ + L + ++ ++F+NY+ + I L
Sbjct: 325 MKKAISLLVQAKEIGLDHPKMDKLKEIIREQLQRKQNSKIIVFTNYRETAKKIVNELVKD 384
Query: 289 NFGAEYLSGAQD--------QKARLASLDSFKRGKVRILVTTDLAARGIDAANVDLVINL 340
A+ G Q+ + LD F RG+ +LV T + G+D VDLV+
Sbjct: 385 GIKAKRFVGQASKENDRGLSQREQKLILDEFARGEFNVLVATSVGEEGLDVPEVDLVVFY 444
Query: 341 EIPHDAATYLHRMGRAGRY 359
E A + R GR GR+
Sbjct: 445 EPVPSAIRSIQRRGRTGRH 463
>pdb|1GM5|A Chain A, Structure Of Recg Bound To Three-Way Dna Junction
Length = 780
Score = 43.1 bits (100), Expect = 0.002, Method: Composition-based stats.
Identities = 86/354 (24%), Positives = 149/354 (42%), Gaps = 71/354 (20%)
Query: 62 IVQSKSGTGKSIVFVVAALNKLIKLPVQQPQTIILAPTREIAVQITDVVRSVGAHVK-NL 120
++Q G+GK++V +A L+ QT + PT +A+Q R+V + K N+
Sbjct: 393 LLQGDVGSGKTVVAQLAILDNY----EAGFQTAFMVPTSILAIQ--HYRRTVESFSKFNI 446
Query: 121 HVDYFIGGTQVERPKR--------PVQIVVGSPGRIKQMIKLKYLNM---DSVRLFIMDE 169
HV IG T ++ + +V+G+ I++ + K L + D F + +
Sbjct: 447 HVALLIGATTPSEKEKIKSGLRNGQIDVVIGTHALIQEDVHFKNLGLVIIDEQHRFGVKQ 506
Query: 170 ADKLINTGFVEDITWIYSQLPPMKQMLVVSATYSHDNLATLQKYMVDPLLIRPEDATRPL 229
+ L+N G M LV+SAT ++A +D +I D P
Sbjct: 507 REALMNKG-------------KMVDTLVMSATPIPRSMALAFYGDLDVTVI---DEMPP- 549
Query: 230 LGVKQL-VALIPECKNPSLRYVDEEKKLVQLLSQTPFNQCVIFSNYQLRPEVICENLANA 288
G K++ L+P +D ++ + + Q F Y L E N+ +A
Sbjct: 550 -GRKEVQTMLVP---------MDRVNEVYEFVRQEVMRGGQAFIVYPLIEESDKLNVKSA 599
Query: 289 NFGAEYLSG---------------AQDQKARLASLDSFKRGKVRILVTTDLAARGIDAAN 333
EYLS +Q++K R+ + F G+ ILV+T + GID
Sbjct: 600 VEMYEYLSKEVFPEFKLGLMHGRLSQEEKDRV--MLEFAEGRYDILVSTTVIEVGIDVPR 657
Query: 334 VDLVINLEIPHD-AATYLHRM-GRAGRYGTRG---LVITIVSAESL--VKFHSL 380
++++ +E P LH++ GR GR G LV+ V E++ ++F +L
Sbjct: 658 ANVMV-IENPERFGLAQLHQLRGRVGRGGQEAYCFLVVGDVGEEAMERLRFFTL 710
>pdb|3TMI|A Chain A, Structural Basis For Rna Recognition And Activation Of
Rig-I
Length = 695
Score = 36.2 bits (82), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 22/66 (33%), Positives = 33/66 (50%), Gaps = 1/66 (1%)
Query: 303 ARLASLDSFK-RGKVRILVTTDLAARGIDAANVDLVINLEIPHDAATYLHRMGRAGRYGT 361
A+ LD+FK G IL+ T +A GID A +LVI E + + GR G+
Sbjct: 447 AQKCILDAFKASGDHNILIATSVADEGIDIAQCNLVILYEYVGNVIKMIQTRGRGRARGS 506
Query: 362 RGLVIT 367
+ ++T
Sbjct: 507 KCFLLT 512
>pdb|2YKG|A Chain A, Structural Insights Into Rna Recognition By Rig-I
Length = 696
Score = 36.2 bits (82), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 22/66 (33%), Positives = 33/66 (50%), Gaps = 1/66 (1%)
Query: 303 ARLASLDSFK-RGKVRILVTTDLAARGIDAANVDLVINLEIPHDAATYLHRMGRAGRYGT 361
A+ LD+FK G IL+ T +A GID A +LVI E + + GR G+
Sbjct: 448 AQKCILDAFKASGDHNILIATSVADEGIDIAQCNLVILYEYVGNVIKMIQTRGRGRARGS 507
Query: 362 RGLVIT 367
+ ++T
Sbjct: 508 KCFLLT 513
>pdb|4AY2|A Chain A, Capturing 5' Tri-Phosphorylated Rna Duplex By Rig-I
Length = 687
Score = 36.2 bits (82), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 22/66 (33%), Positives = 33/66 (50%), Gaps = 1/66 (1%)
Query: 303 ARLASLDSFK-RGKVRILVTTDLAARGIDAANVDLVINLEIPHDAATYLHRMGRAGRYGT 361
A+ LD+FK G IL+ T +A GID A +LVI E + + GR G+
Sbjct: 439 AQKCILDAFKASGDHNILIATSVADEGIDIAQCNLVILYEYVGNVIKMIQTRGRGRARGS 498
Query: 362 RGLVIT 367
+ ++T
Sbjct: 499 KCFLLT 504
>pdb|4A2W|A Chain A, Structure Of Full-Length Duck Rig-I
pdb|4A2W|B Chain B, Structure Of Full-Length Duck Rig-I
Length = 936
Score = 36.2 bits (82), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 19/61 (31%), Positives = 32/61 (52%), Gaps = 1/61 (1%)
Query: 308 LDSFKRGK-VRILVTTDLAARGIDAANVDLVINLEIPHDAATYLHRMGRAGRYGTRGLVI 366
LD+FK K R+L+ T +A GID +LV+ E + + GR G++ +++
Sbjct: 686 LDAFKTSKDNRLLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQVRGRGRAAGSKCILV 745
Query: 367 T 367
T
Sbjct: 746 T 746
>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 = 35.8 bits (81), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 19/61 (31%), Positives = 32/61 (52%), Gaps = 1/61 (1%)
Query: 308 LDSFKRGK-VRILVTTDLAARGIDAANVDLVINLEIPHDAATYLHRMGRAGRYGTRGLVI 366
LD+FK K R+L+ T +A GID +LV+ E + + GR G++ +++
Sbjct: 686 LDAFKTSKDNRLLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQVRGRGRAAGSKCILV 745
Query: 367 T 367
T
Sbjct: 746 T 746
>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 = 35.8 bits (81), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 19/61 (31%), Positives = 32/61 (52%), Gaps = 1/61 (1%)
Query: 308 LDSFKRGK-VRILVTTDLAARGIDAANVDLVINLEIPHDAATYLHRMGRAGRYGTRGLVI 366
LD+FK K R+L+ T +A GID +LV+ E + + GR G++ +++
Sbjct: 445 LDAFKTSKDNRLLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQVRGRGRAAGSKCILV 504
Query: 367 T 367
T
Sbjct: 505 T 505
>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 = 32.3 bits (72), Expect = 3.4, Method: Composition-based stats.
Identities = 19/77 (24%), Positives = 37/77 (48%), Gaps = 2/77 (2%)
Query: 280 VICENLANANFGAEYLSGAQDQKARLASLDSFKRGKVRILVTTDLAARGIDAANVDLVIN 339
V +L A +E+ Q+++ + S F+ GK+ +L+ T +A G+D ++VI
Sbjct: 431 VKAHHLIGAGHSSEFKPMTQNEQKEVIS--KFRTGKINLLIATTVAEEGLDIKECNIVIR 488
Query: 340 LEIPHDAATYLHRMGRA 356
+ + + GRA
Sbjct: 489 YGLVTNEIAMVQARGRA 505
>pdb|1QFX|A Chain A, Ph 2.5 Acid Phosphatase From Aspergillus Niger
pdb|1QFX|B Chain B, Ph 2.5 Acid Phosphatase From Aspergillus Niger
Length = 460
Score = 32.0 bits (71), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 14/42 (33%), Positives = 24/42 (57%)
Query: 171 DKLINTGFVEDITWIYSQLPPMKQMLVVSATYSHDNLATLQK 212
D+ ++ G+VED+ + Y P K M V A Y++ +L L +
Sbjct: 263 DEWVSFGYVEDLNYYYCAGPGDKNMAAVGAVYANASLTLLNQ 304
>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 = 32.0 bits (71), Expect = 4.5, Method: Composition-based stats.
Identities = 15/58 (25%), Positives = 31/58 (53%)
Query: 301 QKARLASLDSFKRGKVRILVTTDLAARGIDAANVDLVINLEIPHDAATYLHRMGRAGR 358
++ R L+ F+ G+ R +V++ + GID + ++ + + A Y+ R+GR R
Sbjct: 380 REEREEILEGFRTGRFRAIVSSQVLDEGIDVPDANVGVIMSGSGSAREYIQRLGRILR 437
>pdb|2FZL|A Chain A, Structure Of C-Terminal Domain Of Archaeoglobus Fulgidus
Xpb
Length = 219
Score = 31.6 bits (70), Expect = 5.5, Method: Composition-based stats.
Identities = 15/58 (25%), Positives = 31/58 (53%)
Query: 301 QKARLASLDSFKRGKVRILVTTDLAARGIDAANVDLVINLEIPHDAATYLHRMGRAGR 358
++ R L+ F+ G+ R +V++ + GID + ++ + + A Y+ R+GR R
Sbjct: 145 REEREEILEGFRTGRFRAIVSSQVLDEGIDVPDANVGVIMSGSGSAREYIQRLGRILR 202
>pdb|1VRD|A Chain A, Crystal Structure Of Inosine-5'-Monophosphate
Dehydrogenase (Tm1347) From Thermotoga Maritima At 2.18
A Resolution
pdb|1VRD|B Chain B, Crystal Structure Of Inosine-5'-Monophosphate
Dehydrogenase (Tm1347) From Thermotoga Maritima At 2.18
A Resolution
Length = 494
Score = 31.2 bits (69), Expect = 7.4, Method: Composition-based stats.
Identities = 24/77 (31%), Positives = 37/77 (48%), Gaps = 11/77 (14%)
Query: 185 IYSQLPPMKQMLVVSATYSHDNLATLQKYMVDPLLIRPEDATRPLLGVKQLVALIPECKN 244
I+ L P +Q VS +N + DP+ + P+ + VK+ + L+ E K
Sbjct: 78 IHKNLTPDEQARQVSIVKKTEN-----GIIYDPITVTPD------MTVKEAIDLMAEYKI 126
Query: 245 PSLRYVDEEKKLVQLLS 261
L VDEE +LV LL+
Sbjct: 127 GGLPVVDEEGRLVGLLT 143
>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 = 31.2 bits (69), Expect = 8.1, Method: Composition-based stats.
Identities = 21/70 (30%), Positives = 33/70 (47%), Gaps = 9/70 (12%)
Query: 309 DSFKRGKVRILVTTDLAARGIDAANVDLVINLEIPHDA-------ATYLHRMGRAGRYGT 361
D+F+RG ++++V T A G++ +++ D + Y GRAGR G
Sbjct: 316 DAFRRGNIKVVVATPTLAAGVNLPARRVIVRSLYRFDGYSKRIKVSEYKQMAGRAGRPGM 375
Query: 362 --RGLVITIV 369
RG I IV
Sbjct: 376 DERGEAIIIV 385
>pdb|1D9X|A Chain A, Crystal Structure Of The Dna Repair Protein Uvrb
Length = 658
Score = 30.8 bits (68), Expect = 9.9, Method: Composition-based stats.
Identities = 63/270 (23%), Positives = 107/270 (39%), Gaps = 47/270 (17%)
Query: 192 MKQMLVVSAT---YSHDNLATLQKYMVDPL-LIRPEDATRPLLGVKQLVALIPECKNPSL 247
+ Q++ VSAT Y ++ + + ++ P L+ P RP G Q+ LI E +
Sbjct: 386 INQIIYVSATPGPYELEHSPGVVEQIIRPTGLLDPTIDVRPTKG--QIDDLIGEIRE--- 440
Query: 248 RYVDEEKKLVQLLSQTPFNQCVIFSNYQLRPEVICENLANANFGAEYLSGAQDQKARLAS 307
R E+ LV L++ E + + L A YL R+
Sbjct: 441 RVERNERTLVTTLTKK-------------MAEDLTDYLKEAGIKVAYLHSEIKTLERIEI 487
Query: 308 LDSFKRGKVRILVTTDLAARGIDAANVDLVINLEIPHDA-----ATYLHRMGRAGRYGTR 362
+ + GK +LV +L G+D V LV L+ + + + +GRA R
Sbjct: 488 IRDLRLGKYDVLVGINLLREGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAARNANG 547
Query: 363 GLVI---TI-----VSAESLVKFHSLMGEINLDHAFNVGLVPDNLTG---DQINWT---Q 408
+++ TI ++ + + ++ E N H G+VP + D I T +
Sbjct: 548 HVIMYADTITKSMEIAIQETKRRRAIQEEYNRKH----GIVPRTVKKEIRDVIRATYAAE 603
Query: 409 RVQTLLAKPLD--QAQEREDVEQTAEESSK 436
+ AKP QERE++ +T E K
Sbjct: 604 ETEMYEAKPAAAMTKQEREELIRTLEAEMK 633
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
0.310 0.128 0.375
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 69,527,751
Number of Sequences: 62578
Number of extensions: 2940090
Number of successful extensions: 4602
Number of sequences better than 100.0: 100
Number of HSP's better than 100.0 without gapping: 74
Number of HSP's successfully gapped in prelim test: 26
Number of HSP's that attempted gapping in prelim test: 4322
Number of HSP's gapped (non-prelim): 152
length of query: 2355
length of database: 14,973,337
effective HSP length: 115
effective length of query: 2240
effective length of database: 7,776,867
effective search space: 17420182080
effective search space used: 17420182080
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 60 (27.7 bits)