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= 007084
(618 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 210 bits (535), Expect = 2e-54, Method: Compositional matrix adjust.
Identities = 122/371 (32%), Positives = 197/371 (53%), Gaps = 13/371 (3%)
Query: 104 LDISQDIVAALARRGISKLFPIQKAVLEPAMQGRDMIGRARTGTGKTLAFGIPILDKI-I 162
+ + +D++ + G K IQ+ ++ ++GRD+I ++++GTGKT F I +L + I
Sbjct: 42 MGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQCLDI 101
Query: 163 KFNEKHGRGRNPLCLVLAPTRELAKQVEKEFHESAPSLDTIC--VYGGTPISHQMRALDY 220
+ E L+LAPTRELA Q++K ++ C GGT + +R LDY
Sbjct: 102 QVRETQA-------LILAPTRELAVQIQKGLLALGDYMNVQCHACIGGTNVGEDIRKLDY 154
Query: 221 GVDAVVGTPGRVIDLIKRNALNLSEVQFVVLDEADQMLSVGFAEDVEVILERLPQNRQSM 280
G V GTPGRV D+I+R +L ++ +VLDEAD+ML+ GF E + + LP Q +
Sbjct: 155 GQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQVV 214
Query: 281 MFSATMPPWIRSLTNKYLKNPLTVDLVGDSDQKLADGISLYSIATSMYEKPSIIGQLITE 340
+ SAT+P I +TNK++ +P+ + + D+ +GI + +A E + +
Sbjct: 215 LISATLPHEILEMTNKFMTDPIRI--LVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYD 272
Query: 341 HAKGGKCIVFTQTKRDADRLAHAMAKS-YNCEPLHGDISQSQRERTLSAFRDGRFNILIA 399
+ ++F TKR D L M ++ + +HGD+ Q +RE + FR G +LI+
Sbjct: 273 TLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLIS 332
Query: 400 TDVAARGLDVPNVDLIIHYELPNTSETFVHXXXXXXXXXXXXSAILIYTDQQARQVKSIE 459
TDV ARGLDVP V LII+Y+LPN E ++H AI + R ++ IE
Sbjct: 333 TDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAINFVKNDDIRILRDIE 392
Query: 460 RDVGCRFTQLP 470
+ + ++P
Sbjct: 393 QYYSTQIDEMP 403
>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 = 210 bits (535), Expect = 2e-54, Method: Compositional matrix adjust.
Identities = 122/371 (32%), Positives = 197/371 (53%), Gaps = 13/371 (3%)
Query: 104 LDISQDIVAALARRGISKLFPIQKAVLEPAMQGRDMIGRARTGTGKTLAFGIPILDKI-I 162
+ + +D++ + G K IQ+ ++ ++GRD+I ++++GTGKT F I +L + I
Sbjct: 43 MGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQCLDI 102
Query: 163 KFNEKHGRGRNPLCLVLAPTRELAKQVEKEFHESAPSLDTIC--VYGGTPISHQMRALDY 220
+ E L+LAPTRELA Q++K ++ C GGT + +R LDY
Sbjct: 103 QVRETQA-------LILAPTRELAVQIQKGLLALGDYMNVQCHACIGGTNVGEDIRKLDY 155
Query: 221 GVDAVVGTPGRVIDLIKRNALNLSEVQFVVLDEADQMLSVGFAEDVEVILERLPQNRQSM 280
G V GTPGRV D+I+R +L ++ +VLDEAD+ML+ GF E + + LP Q +
Sbjct: 156 GQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQVV 215
Query: 281 MFSATMPPWIRSLTNKYLKNPLTVDLVGDSDQKLADGISLYSIATSMYEKPSIIGQLITE 340
+ SAT+P I +TNK++ +P+ + + D+ +GI + +A E + +
Sbjct: 216 LISATLPHEILEMTNKFMTDPIRI--LVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYD 273
Query: 341 HAKGGKCIVFTQTKRDADRLAHAMAKS-YNCEPLHGDISQSQRERTLSAFRDGRFNILIA 399
+ ++F TKR D L M ++ + +HGD+ Q +RE + FR G +LI+
Sbjct: 274 TLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLIS 333
Query: 400 TDVAARGLDVPNVDLIIHYELPNTSETFVHXXXXXXXXXXXXSAILIYTDQQARQVKSIE 459
TDV ARGLDVP V LII+Y+LPN E ++H AI + R ++ IE
Sbjct: 334 TDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAINFVKNDDIRILRDIE 393
Query: 460 RDVGCRFTQLP 470
+ + ++P
Sbjct: 394 QYYSTQIDEMP 404
>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 = 210 bits (534), Expect = 2e-54, Method: Compositional matrix adjust.
Identities = 122/371 (32%), Positives = 197/371 (53%), Gaps = 13/371 (3%)
Query: 104 LDISQDIVAALARRGISKLFPIQKAVLEPAMQGRDMIGRARTGTGKTLAFGIPILDKI-I 162
+ + +D++ + G K IQ+ ++ ++GRD+I ++++GTGKT F I +L + I
Sbjct: 43 MGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQCLDI 102
Query: 163 KFNEKHGRGRNPLCLVLAPTRELAKQVEKEFHESAPSLDTIC--VYGGTPISHQMRALDY 220
+ E L+LAPTRELA Q++K ++ C GGT + +R LDY
Sbjct: 103 QVRETQA-------LILAPTRELAVQIQKGLLALGDYMNVQCHACIGGTNVGEDIRKLDY 155
Query: 221 GVDAVVGTPGRVIDLIKRNALNLSEVQFVVLDEADQMLSVGFAEDVEVILERLPQNRQSM 280
G V GTPGRV D+I+R +L ++ +VLDEAD+ML+ GF E + + LP Q +
Sbjct: 156 GQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQVV 215
Query: 281 MFSATMPPWIRSLTNKYLKNPLTVDLVGDSDQKLADGISLYSIATSMYEKPSIIGQLITE 340
+ SAT+P I +TNK++ +P+ + + D+ +GI + +A E + +
Sbjct: 216 LISATLPHEILEMTNKFMTDPIRI--LVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYD 273
Query: 341 HAKGGKCIVFTQTKRDADRLAHAMAKS-YNCEPLHGDISQSQRERTLSAFRDGRFNILIA 399
+ ++F TKR D L M ++ + +HGD+ Q +RE + FR G +LI+
Sbjct: 274 TLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLIS 333
Query: 400 TDVAARGLDVPNVDLIIHYELPNTSETFVHXXXXXXXXXXXXSAILIYTDQQARQVKSIE 459
TDV ARGLDVP V LII+Y+LPN E ++H AI + R ++ IE
Sbjct: 334 TDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAINFVKNDDIRILRDIE 393
Query: 460 RDVGCRFTQLP 470
+ + ++P
Sbjct: 394 QYYSTQIDEMP 404
>pdb|2HXY|A Chain A, Crystal Structure Of Human Apo-Eif4aiii
pdb|2HXY|B Chain B, Crystal Structure Of Human Apo-Eif4aiii
pdb|2HXY|C Chain C, Crystal Structure Of Human Apo-Eif4aiii
pdb|2HXY|D Chain D, Crystal Structure Of Human Apo-Eif4aiii
Length = 391
Score = 210 bits (534), Expect = 2e-54, Method: Compositional matrix adjust.
Identities = 122/371 (32%), Positives = 197/371 (53%), Gaps = 13/371 (3%)
Query: 104 LDISQDIVAALARRGISKLFPIQKAVLEPAMQGRDMIGRARTGTGKTLAFGIPILDKI-I 162
+ + +D++ + G K IQ+ ++ ++GRD+I ++++GTGKT F I +L + I
Sbjct: 21 MGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQCLDI 80
Query: 163 KFNEKHGRGRNPLCLVLAPTRELAKQVEKEFHESAPSLDTIC--VYGGTPISHQMRALDY 220
+ E L+LAPTRELA Q++K ++ C GGT + +R LDY
Sbjct: 81 QVRETQA-------LILAPTRELAVQIQKGLLALGDYMNVQCHACIGGTNVGEDIRKLDY 133
Query: 221 GVDAVVGTPGRVIDLIKRNALNLSEVQFVVLDEADQMLSVGFAEDVEVILERLPQNRQSM 280
G V GTPGRV D+I+R +L ++ +VLDEAD+ML+ GF E + + LP Q +
Sbjct: 134 GQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQVV 193
Query: 281 MFSATMPPWIRSLTNKYLKNPLTVDLVGDSDQKLADGISLYSIATSMYEKPSIIGQLITE 340
+ SAT+P I +TNK++ +P+ + + D+ +GI + +A E + +
Sbjct: 194 LISATLPHEILEMTNKFMTDPIRI--LVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYD 251
Query: 341 HAKGGKCIVFTQTKRDADRLAHAMAKS-YNCEPLHGDISQSQRERTLSAFRDGRFNILIA 399
+ ++F TKR D L M ++ + +HGD+ Q +RE + FR G +LI+
Sbjct: 252 TLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLIS 311
Query: 400 TDVAARGLDVPNVDLIIHYELPNTSETFVHXXXXXXXXXXXXSAILIYTDQQARQVKSIE 459
TDV ARGLDVP V LII+Y+LPN E ++H AI + R ++ IE
Sbjct: 312 TDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAINFVKNDDIRILRDIE 371
Query: 460 RDVGCRFTQLP 470
+ + ++P
Sbjct: 372 QYYSTQIDEMP 382
>pdb|2J0U|A Chain A, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 209 bits (533), Expect = 3e-54, Method: Compositional matrix adjust.
Identities = 121/371 (32%), Positives = 197/371 (53%), Gaps = 13/371 (3%)
Query: 104 LDISQDIVAALARRGISKLFPIQKAVLEPAMQGRDMIGRARTGTGKTLAFGIPILDKI-I 162
+ + +D++ + G K IQ+ ++ ++GRD+I ++++GTGKT F + +L + I
Sbjct: 6 MGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSVSVLQCLDI 65
Query: 163 KFNEKHGRGRNPLCLVLAPTRELAKQVEKEFHESAPSLDTIC--VYGGTPISHQMRALDY 220
+ E L+LAPTRELA QV+K ++ C GGT + +R LDY
Sbjct: 66 QVRETQA-------LILAPTRELAVQVQKGLLALGDYMNVQCHACIGGTNVGEDIRKLDY 118
Query: 221 GVDAVVGTPGRVIDLIKRNALNLSEVQFVVLDEADQMLSVGFAEDVEVILERLPQNRQSM 280
G V GTPGRV D+I+R +L ++ +VLDEAD+ML+ GF E + + LP Q +
Sbjct: 119 GQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQVV 178
Query: 281 MFSATMPPWIRSLTNKYLKNPLTVDLVGDSDQKLADGISLYSIATSMYEKPSIIGQLITE 340
+ SAT+P I +TNK++ +P+ + + D+ +GI + +A E + +
Sbjct: 179 LISATLPHEILEMTNKFMTDPIRI--LVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYD 236
Query: 341 HAKGGKCIVFTQTKRDADRLAHAMAKS-YNCEPLHGDISQSQRERTLSAFRDGRFNILIA 399
+ ++F TKR D L M ++ + +HGD+ Q +RE + FR G +LI+
Sbjct: 237 TLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLIS 296
Query: 400 TDVAARGLDVPNVDLIIHYELPNTSETFVHXXXXXXXXXXXXSAILIYTDQQARQVKSIE 459
TDV ARGLDVP V LII+Y+LPN E ++H A+ + R ++ IE
Sbjct: 297 TDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAVNFVKNDDIRVLRDIE 356
Query: 460 RDVGCRFTQLP 470
+ + ++P
Sbjct: 357 QYYSTQIDEMP 367
>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 = 207 bits (527), Expect = 2e-53, Method: Compositional matrix adjust.
Identities = 123/332 (37%), Positives = 196/332 (59%), Gaps = 14/332 (4%)
Query: 105 DISQDIVAALARRGISKLFPIQKAVLEPAMQGRDMIGRARTGTGKTLAFGIPILDKIIKF 164
D+ I+ + + G PIQK + GRD++ A+TG+GKT AF +PIL K+++
Sbjct: 62 DLRDIIIDNVNKSGYKIPTPIQKCSIPVISSGRDLMACAQTGSGKTAAFLLPILSKLLED 121
Query: 165 NEKHGRGRNPLCLVLAPTRELAKQVEKEFHESA--PSLDTICVYGGTPISHQMRALDYGV 222
+ GR P ++++PTRELA Q+ E + A L VYGGT HQ + G
Sbjct: 122 PHELELGR-PQVVIVSPTRELAIQIFNEARKFAFESYLKIGIVYGGTSFRHQNECITRGC 180
Query: 223 DAVVGTPGRVIDLIKRNALNLSEVQFVVLDEADQMLSVGFAEDVEVILERLPQ--NRQSM 280
V+ TPGR++D + R + + +FVVLDEAD+ML +GF+ED+ I+ + Q++
Sbjct: 181 HVVIATPGRLLDFVDRTFITFEDTRFVVLDEADRMLDMGFSEDMRRIMTHVTMRPEHQTL 240
Query: 281 MFSATMPPWIRSLTNKYLKNP--LTVDLVGDSDQKLADGISLYSIATSMYEKPSIIGQLI 338
MFSAT P I+ + ++LKN + + +VG + + ++Y + + Y K S + +++
Sbjct: 241 MFSATFPEEIQRMAGEFLKNYVFVAIGIVGGACSDVKQ--TIYEV--NKYAKRSKLIEIL 296
Query: 339 TEHAKGGKCIVFTQTKRDADRLAHAMA-KSYNCEPLHGDISQSQRERTLSAFRDGRFNIL 397
+E A G IVF +TKR AD LA ++ K + +HGD QSQRE+ L F++G +L
Sbjct: 297 SEQADG--TIVFVETKRGADFLASFLSEKEFPTTSIHGDRLQSQREQALRDFKNGSMKVL 354
Query: 398 IATDVAARGLDVPNVDLIIHYELPNTSETFVH 429
IAT VA+RGLD+ N+ +I+Y++P+ + +VH
Sbjct: 355 IATSVASRGLDIKNIKHVINYDMPSKIDDYVH 386
>pdb|2J0U|B Chain B, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 206 bits (525), Expect = 2e-53, Method: Compositional matrix adjust.
Identities = 120/372 (32%), Positives = 198/372 (53%), Gaps = 15/372 (4%)
Query: 104 LDISQDIVAALARRGISKLFPIQKAVLEPAMQGRDMIGRARTGTGKTLAFGIPILDKI-I 162
+ + +D++ + G K IQ+ ++ ++GRD+I ++++GTGKT F + +L + I
Sbjct: 6 MGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSVSVLQCLDI 65
Query: 163 KFNEKHGRGRNPLCLVLAPTRELAKQVEKEFHESAPSLDT---ICVYGGTPISHQMRALD 219
+ E L+LAPTRELA QV+K ++ C+ GGT + +R LD
Sbjct: 66 QVRETQA-------LILAPTRELAVQVQKGLLALGDYMNVQSHACI-GGTNVGEDIRKLD 117
Query: 220 YGVDAVVGTPGRVIDLIKRNALNLSEVQFVVLDEADQMLSVGFAEDVEVILERLPQNRQS 279
YG V GTPGRV D+I+R +L ++ +VLDEAD+ML+ GF E + + LP Q
Sbjct: 118 YGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQV 177
Query: 280 MMFSATMPPWIRSLTNKYLKNPLTVDLVGDSDQKLADGISLYSIATSMYEKPSIIGQLIT 339
++ SAT+P + +TNK++ +P+ + + D+ +GI + +A E +
Sbjct: 178 VLISATLPHEVLEMTNKFMTDPIRI--LVKRDELTLEGIKQFFVAVEREEWKFDTLCDLY 235
Query: 340 EHAKGGKCIVFTQTKRDADRLAHAMAKS-YNCEPLHGDISQSQRERTLSAFRDGRFNILI 398
+ + ++F TKR D L M ++ + +HGD+ Q +RE + FR G +LI
Sbjct: 236 DTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLI 295
Query: 399 ATDVAARGLDVPNVDLIIHYELPNTSETFVHXXXXXXXXXXXXSAILIYTDQQARQVKSI 458
+TDV ARGLDVP V LII+Y+LPN E ++H A+ + R ++ I
Sbjct: 296 STDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAVNFVKNDDIRVLRDI 355
Query: 459 ERDVGCRFTQLP 470
E+ + ++P
Sbjct: 356 EQYYSTQIDEMP 367
>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 = 205 bits (521), Expect = 6e-53, Method: Compositional matrix adjust.
Identities = 99/209 (47%), Positives = 139/209 (66%), Gaps = 3/209 (1%)
Query: 99 LDISKLDISQDIVAALARRGISKLFPIQKAVLEPAMQGRDMIGRARTGTGKTLAFGIPIL 158
++ + +I+ AL RG++ PIQ A L A++G+D+IG+ARTGTGKTLAF +PI
Sbjct: 1 MEFKDFPLKPEILEALHGRGLTTPTPIQAAALPLALEGKDLIGQARTGTGKTLAFALPIA 60
Query: 159 DKIIKFNEKHGRGRNPLCLVLAPTRELAKQVEKEFHESAPSLDTICVYGGTPISHQMRAL 218
+++ E RGR P LVL PTRELA QV E AP L + VYGGT Q AL
Sbjct: 61 ERLAPSQE---RGRKPRALVLTPTRELALQVASELTAVAPHLKVVAVYGGTGYGKQKEAL 117
Query: 219 DYGVDAVVGTPGRVIDLIKRNALNLSEVQFVVLDEADQMLSVGFAEDVEVILERLPQNRQ 278
G DAVV TPGR +D +++ L+LS V+ VLDEAD+MLS+GF E+VE +L P +RQ
Sbjct: 118 LRGADAVVATPGRALDYLRQGVLDLSRVEVAVLDEADEMLSMGFEEEVEALLSATPPSRQ 177
Query: 279 SMMFSATMPPWIRSLTNKYLKNPLTVDLV 307
+++FSAT+P W + L +Y+KNP+ ++++
Sbjct: 178 TLLFSATLPSWAKRLAERYMKNPVLINVI 206
>pdb|3MWJ|A Chain A, Q28e Mutant Of Hera N-Terminal Reca-Like Domain, Apo Form
pdb|3MWJ|B Chain B, Q28e Mutant Of Hera N-Terminal Reca-Like Domain, Apo Form
pdb|3MWK|A Chain A, Q28e Mutant Of Hera N-Terminal Reca-Like Domain, Complex
With 8-Oxo- Amp
pdb|3MWK|B Chain B, Q28e Mutant Of Hera N-Terminal Reca-Like Domain, Complex
With 8-Oxo- Amp
pdb|3MWL|A Chain A, Q28e Mutant Of Hera N-Terminal Reca-Like Domain In Complex
With 8- Oxoadenosine
pdb|3MWL|B Chain B, Q28e Mutant Of Hera N-Terminal Reca-Like Domain In Complex
With 8- Oxoadenosine
pdb|3NBF|A Chain A, Q28e Mutant Of Hera Helicase N-Terminal Domain Bound To
8-Oxo-Adp
pdb|3NBF|B Chain B, Q28e Mutant Of Hera Helicase N-Terminal Domain Bound To
8-Oxo-Adp
pdb|3NBF|C Chain C, Q28e Mutant Of Hera Helicase N-Terminal Domain Bound To
8-Oxo-Adp
pdb|3NBF|D Chain D, Q28e Mutant Of Hera Helicase N-Terminal Domain Bound To
8-Oxo-Adp
pdb|3NEJ|A Chain A, Q28e Mutant Of Hera Rna Helicase N-Terminal Domain -
Perfectly Twinned Hexagonal Form
pdb|3NEJ|B Chain B, Q28e Mutant Of Hera Rna Helicase N-Terminal Domain -
Perfectly Twinned Hexagonal Form
Length = 207
Score = 204 bits (518), Expect = 2e-52, Method: Compositional matrix adjust.
Identities = 98/209 (46%), Positives = 139/209 (66%), Gaps = 3/209 (1%)
Query: 99 LDISKLDISQDIVAALARRGISKLFPIQKAVLEPAMQGRDMIGRARTGTGKTLAFGIPIL 158
++ + +I+ AL RG++ PI+ A L A++G+D+IG+ARTGTGKTLAF +PI
Sbjct: 1 MEFKDFPLKPEILEALHGRGLTTPTPIEAAALPLALEGKDLIGQARTGTGKTLAFALPIA 60
Query: 159 DKIIKFNEKHGRGRNPLCLVLAPTRELAKQVEKEFHESAPSLDTICVYGGTPISHQMRAL 218
+++ E RGR P LVL PTRELA QV E AP L + VYGGT Q AL
Sbjct: 61 ERLAPSQE---RGRKPRALVLTPTRELALQVASELTAVAPHLKVVAVYGGTGYGKQKEAL 117
Query: 219 DYGVDAVVGTPGRVIDLIKRNALNLSEVQFVVLDEADQMLSVGFAEDVEVILERLPQNRQ 278
G DAVV TPGR +D +++ L+LS V+ VLDEAD+MLS+GF E+VE +L P +RQ
Sbjct: 118 LRGADAVVATPGRALDYLRQGVLDLSRVEVAVLDEADEMLSMGFEEEVEALLSATPPSRQ 177
Query: 279 SMMFSATMPPWIRSLTNKYLKNPLTVDLV 307
+++FSAT+P W + L +Y+KNP+ ++++
Sbjct: 178 TLLFSATLPSWAKRLAERYMKNPVLINVI 206
>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 = 199 bits (505), Expect = 4e-51, Method: Compositional matrix adjust.
Identities = 125/371 (33%), Positives = 202/371 (54%), Gaps = 26/371 (7%)
Query: 97 EGLDISKLDISQDIVAALARRGISKLFPIQKAVLEPAMQGR-DMIGRARTGTGKTLAFGI 155
E + ++L++S +I+ A+ +G K IQ V+ + +++ +ARTG+GKT +F I
Sbjct: 4 EYXNFNELNLSDNILNAIRNKGFEKPTDIQXKVIPLFLNDEYNIVAQARTGSGKTASFAI 63
Query: 156 PILDKIIKFNEKHGRGRNPLCLVLAPTRELAKQVEKEFH--ESAPSLDTICVYGGTPISH 213
P+++ + NE +G ++L PTRELA QV E + +L +YGG I
Sbjct: 64 PLIELV---NENNG----IEAIILTPTRELAIQVADEIESLKGNKNLKIAKIYGGKAIYP 116
Query: 214 QMRALDYGVDAVVGTPGRVIDLIKRNALNLSEVQFVVLDEADQMLSVGFAEDVEVILERL 273
Q++AL + VVGTPGR++D I R LNL V++ +LDEAD+ L+ GF +DVE IL
Sbjct: 117 QIKALK-NANIVVGTPGRILDHINRGTLNLKNVKYFILDEADEXLNXGFIKDVEKILNAC 175
Query: 274 PQNRQSMMFSATMPPWIRSLTNKYLKNPLTVDLVGDS---DQKLADGISLYSIATSMYEK 330
++++ ++FSAT P I +L KY GD K+ I + + E+
Sbjct: 176 NKDKRILLFSATXPREILNLAKKY---------XGDYSFIKAKINANIEQSYVEVNENER 226
Query: 331 PSIIGQLITEHAKGGKCIVFTQTKRDADRLAHAMAK-SYNCEPLHGDISQSQRERTLSAF 389
+ +L+ G +VF +TKRD LA + + +HGD+SQSQRE+ + F
Sbjct: 227 FEALCRLLKNKEFYG--LVFCKTKRDTKELASXLRDIGFKAGAIHGDLSQSQREKVIRLF 284
Query: 390 RDGRFNILIATDVAARGLDVPNVDLIIHYELPNTSETFVHXXXXXXXXXXXXSAILIYTD 449
+ + ILIATDV +RG+DV +++ +I+Y LP E++ H AI I
Sbjct: 285 KQKKIRILIATDVXSRGIDVNDLNCVINYHLPQNPESYXHRIGRTGRAGKKGKAISIINR 344
Query: 450 QQARQVKSIER 460
++ ++++ IER
Sbjct: 345 REYKKLRYIER 355
>pdb|2I4I|A Chain A, Crystal Structure Of Human Dead-Box Rna Helicase Ddx3x
Length = 417
Score = 198 bits (504), Expect = 7e-51, Method: Compositional matrix adjust.
Identities = 124/350 (35%), Positives = 195/350 (55%), Gaps = 25/350 (7%)
Query: 101 ISKLDISQDIVAALARRGISKLFPIQKAVLEPAMQGRDMIGRARTGTGKTLAFGIPILDK 160
S +++ + I+ + ++ P+QK + + RD++ A+TG+GKT AF +PIL +
Sbjct: 17 FSDVEMGEIIMGNIELTRYTRPTPVQKHAIPIIKEKRDLMACAQTGSGKTAAFLLPILSQ 76
Query: 161 I-----------IKFNEKHGRGRN-PLCLVLAPTRELAKQVEKEFHESA--PSLDTICVY 206
I +K N ++GR + P+ LVLAPTRELA Q+ +E + + + VY
Sbjct: 77 IYSDGPGEALRAMKENGRYGRRKQYPISLVLAPTRELAVQIYEEARKFSYRSRVRPCVVY 136
Query: 207 GGTPISHQMRALDYGVDAVVGTPGRVIDLIKRNALNLSEVQFVVLDEADQMLSVGFAEDV 266
GG I Q+R L+ G +V TPGR++D+++R + L +++VLDEAD+ML +GF +
Sbjct: 137 GGADIGQQIRDLERGCHLLVATPGRLVDMMERGKIGLDFCKYLVLDEADRMLDMGFEPQI 196
Query: 267 EVILER--LPQN--RQSMMFSATMPPWIRSLTNKYLKNP--LTVDLVGDSDQKLADGISL 320
I+E+ +P R +MMFSAT P I+ L +L L V VG + + + +
Sbjct: 197 RRIVEQDTMPPKGVRHTMMFSATFPKEIQMLARDFLDEYIFLAVGRVGSTSENITQKV-- 254
Query: 321 YSIATSMYEKPSIIGQLITEHAKGGKCIVFTQTKRDADRLAHAMA-KSYNCEPLHGDISQ 379
+ +K S + L+ K +VF +TK+ AD L + + Y C +HGD SQ
Sbjct: 255 --VWVEESDKRSFLLDLLNATGKDSLTLVFVETKKGADSLEDFLYHEGYACTSIHGDRSQ 312
Query: 380 SQRERTLSAFRDGRFNILIATDVAARGLDVPNVDLIIHYELPNTSETFVH 429
RE L FR G+ IL+AT VAARGLD+ NV +I+++LP+ E +VH
Sbjct: 313 RDREEALHQFRSGKSPILVATAVAARGLDISNVKHVINFDLPSDIEEYVH 362
>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 = 192 bits (489), Expect = 3e-49, Method: Compositional matrix adjust.
Identities = 121/384 (31%), Positives = 203/384 (52%), Gaps = 13/384 (3%)
Query: 92 DSSKDEGLD-ISKLDISQDIVAALARRGISKLFPIQKAVLEPAMQGRDMIGRARTGTGKT 150
+S+ +E +D +++S+ ++ + G K IQ+ + P ++G D+I +A++GTGKT
Sbjct: 6 ESNWNEIVDSFDDMNLSESLLRGIYAYGFEKPSAIQQRAILPCIKGYDVIAQAQSGTGKT 65
Query: 151 LAFGIPILDKIIKFNEKHGRGRNPLCLVLAPTRELAKQVEKEFHESAPSLDTIC--VYGG 208
F I IL +I + + K + LVLAPTRELA+Q++K + C GG
Sbjct: 66 ATFAISILQQI-ELDLKATQA-----LVLAPTRELAQQIQKVVMALGDYMGASCHACIGG 119
Query: 209 TPISHQMRALDYGV-DAVVGTPGRVIDLIKRNALNLSEVQFVVLDEADQMLSVGFAEDVE 267
T + +++ L +VGTPGRV D++ R L+ ++ VLDEAD+MLS GF + +
Sbjct: 120 TNVRAEVQKLQMEAPHIIVGTPGRVFDMLNRRYLSPKYIKMFVLDEADEMLSRGFKDQIY 179
Query: 268 VILERLPQNRQSMMFSATMPPWIRSLTNKYLKNPLTVDLVGDSDQKLADGISLYSIATSM 327
I ++L N Q ++ SATMP + +T K++++P+ + LV + L +GI + I
Sbjct: 180 DIFQKLNSNTQVVLLSATMPSDVLEVTKKFMRDPIRI-LVKKEELTL-EGIRQFYINVER 237
Query: 328 YEKPSIIGQLITEHAKGGKCIVFTQTKRDADRLAHAM-AKSYNCEPLHGDISQSQRERTL 386
E + E + ++F T+R D L M A+ + +HGD+ Q +R+ +
Sbjct: 238 EEWKLDTLCDLYETLTITQAVIFINTRRKVDWLTEKMHARDFTVSAMHGDMDQKERDVIM 297
Query: 387 SAFRDGRFNILIATDVAARGLDVPNVDLIIHYELPNTSETFVHXXXXXXXXXXXXSAILI 446
FR G +LI TD+ ARG+DV V L+I+Y+LP E ++H AI +
Sbjct: 298 REFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPTNRENYIHRIGRGGRFGRKGVAINM 357
Query: 447 YTDQQARQVKSIERDVGCRFTQLP 470
T++ R ++ IE ++P
Sbjct: 358 VTEEDKRTLRDIETFYNTSIEEMP 381
>pdb|3EIQ|A Chain A, Crystal Structure Of Pdcd4-eif4a
pdb|3EIQ|D Chain D, Crystal Structure Of Pdcd4-eif4a
Length = 414
Score = 192 bits (489), Expect = 3e-49, Method: Compositional matrix adjust.
Identities = 121/384 (31%), Positives = 203/384 (52%), Gaps = 13/384 (3%)
Query: 92 DSSKDEGLD-ISKLDISQDIVAALARRGISKLFPIQKAVLEPAMQGRDMIGRARTGTGKT 150
+S+ +E +D +++S+ ++ + G K IQ+ + P ++G D+I +A++GTGKT
Sbjct: 32 ESNWNEIVDSFDDMNLSESLLRGIYAYGFEKPSAIQQRAILPCIKGYDVIAQAQSGTGKT 91
Query: 151 LAFGIPILDKIIKFNEKHGRGRNPLCLVLAPTRELAKQVEKEFHESAPSLDTIC--VYGG 208
F I IL +I + + K + LVLAPTRELA+Q++K + C GG
Sbjct: 92 ATFAISILQQI-ELDLKATQA-----LVLAPTRELAQQIQKVVMALGDYMGASCHACIGG 145
Query: 209 TPISHQMRALDYGV-DAVVGTPGRVIDLIKRNALNLSEVQFVVLDEADQMLSVGFAEDVE 267
T + +++ L +VGTPGRV D++ R L+ ++ VLDEAD+MLS GF + +
Sbjct: 146 TNVRAEVQKLQMEAPHIIVGTPGRVFDMLNRRYLSPKYIKMFVLDEADEMLSRGFKDQIY 205
Query: 268 VILERLPQNRQSMMFSATMPPWIRSLTNKYLKNPLTVDLVGDSDQKLADGISLYSIATSM 327
I ++L N Q ++ SATMP + +T K++++P+ + LV + L +GI + I
Sbjct: 206 DIFQKLNSNTQVVLLSATMPSDVLEVTKKFMRDPIRI-LVKKEELTL-EGIRQFYINVER 263
Query: 328 YEKPSIIGQLITEHAKGGKCIVFTQTKRDADRLAHAM-AKSYNCEPLHGDISQSQRERTL 386
E + E + ++F T+R D L M A+ + +HGD+ Q +R+ +
Sbjct: 264 EEWKLDTLCDLYETLTITQAVIFINTRRKVDWLTEKMHARDFTVSAMHGDMDQKERDVIM 323
Query: 387 SAFRDGRFNILIATDVAARGLDVPNVDLIIHYELPNTSETFVHXXXXXXXXXXXXSAILI 446
FR G +LI TD+ ARG+DV V L+I+Y+LP E ++H AI +
Sbjct: 324 REFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPTNRENYIHRIGRGGRFGRKGVAINM 383
Query: 447 YTDQQARQVKSIERDVGCRFTQLP 470
T++ R ++ IE ++P
Sbjct: 384 VTEEDKRTLRDIETFYNTSIEEMP 407
>pdb|1S2M|A Chain A, Crystal Structure Of The Dead Box Protein Dhh1p
Length = 400
Score = 182 bits (462), Expect = 4e-46, Method: Compositional matrix adjust.
Identities = 113/384 (29%), Positives = 189/384 (49%), Gaps = 15/384 (3%)
Query: 91 DDSSKDEGLDISKLDISQDIVAALARRGISKLFPIQKAVLEPAMQGRDMIGRARTGTGKT 150
DD +G + ++++ + G K PIQ+ + A+ GRD++ RA+ GTGKT
Sbjct: 13 DDVLNTKGNTFEDFYLKRELLMGIFEAGFEKPSPIQEEAIPVAITGRDILARAKNGTGKT 72
Query: 151 LAFGIPILDKII-KFNEKHGRGRNPLCLVLAPTRELAKQVEKEFHESAPSLDTICVY--G 207
AF IP L+K+ K N+ L++ PTRELA Q + C+ G
Sbjct: 73 AAFVIPTLEKVKPKLNKIQA-------LIMVPTRELALQTSQVVRTLGKHCGISCMVTTG 125
Query: 208 GTPISHQMRALDYGVDAVVGTPGRVIDLIKRNALNLSEVQFVVLDEADQMLSVGFAEDVE 267
GT + + L+ V +VGTPGRV+DL R +LS+ ++DEAD+MLS F +E
Sbjct: 126 GTNLRDDILRLNETVHILVGTPGRVLDLASRKVADLSDCSLFIMDEADKMLSRDFKTIIE 185
Query: 268 VILERLPQNRQSMMFSATMPPWIRSLTNKYLKNPLTVDLVGDSDQKLADGISLYSIATSM 327
IL LP QS++FSAT P ++ K+L P ++L+ + K GI+ Y
Sbjct: 186 QILSFLPPTHQSLLFSATFPLTVKEFMVKHLHKPYEINLMEELTLK---GITQYYAFVEE 242
Query: 328 YEKPSIIGQLITEHAKGGKCIVFTQTKRDADRLAHAMAK-SYNCEPLHGDISQSQRERTL 386
+K + L ++ + + I+F + + LA + Y+C H + Q +R +
Sbjct: 243 RQKLHCLNTLFSK-LQINQAIIFCNSTNRVELLAKKITDLGYSCYYSHARMKQQERNKVF 301
Query: 387 SAFRDGRFNILIATDVAARGLDVPNVDLIIHYELPNTSETFVHXXXXXXXXXXXXSAILI 446
FR G+ L+ +D+ RG+D+ V+++I+++ P T+ET++H AI +
Sbjct: 302 HEFRQGKVRTLVCSDLLTRGIDIQAVNVVINFDFPKTAETYLHRIGRSGRFGHLGLAINL 361
Query: 447 YTDQQARQVKSIERDVGCRFTQLP 470
+ IE+++G +P
Sbjct: 362 INWNDRFNLYKIEQELGTEIAAIP 385
>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 = 176 bits (445), Expect = 4e-44, Method: Compositional matrix adjust.
Identities = 109/371 (29%), Positives = 185/371 (49%), Gaps = 14/371 (3%)
Query: 104 LDISQDIVAALARRGISKLFPIQKAVLEPAMQGRDMIGRARTGTGKTLAFGIPILDKIIK 163
+++ ++++ + G + IQ+ + P ++G D++ +A++GTGKT F I L +I
Sbjct: 27 MELDENLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAALQRI-- 84
Query: 164 FNEKHGRGRNPLCLVLAPTRELAKQVEKEFHESAPSLDT---ICVYGGTPISHQMRALDY 220
+ P L+LAPTRELA Q++K A +D C+ GGT L
Sbjct: 85 ----DTSVKAPQALMLAPTRELALQIQKVVMALAFHMDIKVHACI-GGTSFVEDAEGL-R 138
Query: 221 GVDAVVGTPGRVIDLIKRNALNLSEVQFVVLDEADQMLSVGFAEDVEVILERLPQNRQSM 280
VVGTPGRV D I+R +++ +LDEAD+MLS GF E + I LP Q +
Sbjct: 139 DAQIVVGTPGRVFDNIQRRRFRTDKIKMFILDEADEMLSSGFKEQIYQIFTLLPPTTQVV 198
Query: 281 MFSATMPPWIRSLTNKYLKNPLTVDLVGDSDQKLADGISLYSIATSMYEKPSIIGQLITE 340
+ SATMP + +T K+++NP V ++ D+ +GI + + E + +
Sbjct: 199 LLSATMPNDVLEVTTKFMRNP--VRILVKKDELTLEGIKQFYVNVEEEEYKYECLTDLYD 256
Query: 341 HAKGGKCIVFTQTKRDADRLAHAMAK-SYNCEPLHGDISQSQRERTLSAFRDGRFNILIA 399
+ ++F T+R + L + + ++ D+ Q +R+ + FR G ILI+
Sbjct: 257 SISVTQAVIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTIMKEFRSGSSRILIS 316
Query: 400 TDVAARGLDVPNVDLIIHYELPNTSETFVHXXXXXXXXXXXXSAILIYTDQQARQVKSIE 459
TD+ ARG+DV V L+I+Y+LP E ++H AI T++ ++ +E
Sbjct: 317 TDLLARGIDVQQVSLVINYDLPANKENYIHRIGRGGRFGRKGVAINFVTNEDVGAMRELE 376
Query: 460 RDVGCRFTQLP 470
+ + +LP
Sbjct: 377 KFYSTQIEELP 387
>pdb|2Z0M|A Chain A, Crystal Structure Of Hypothetical Atp-Dependent Rna
Helicase From Sulfolobus Tokodaii
Length = 337
Score = 172 bits (436), Expect = 4e-43, Method: Compositional matrix adjust.
Identities = 106/330 (32%), Positives = 176/330 (53%), Gaps = 34/330 (10%)
Query: 106 ISQDIVAALARRGISKLFPIQKAVLEPAMQGRDMIGRARTGTGKTLAFGIPILDKIIKFN 165
+++ I A+ G +Q + +QG++++ RA+TG+GKT A+ IPIL+ +K
Sbjct: 1 MNEKIEQAIREMGFKNFTEVQSKTIPLMLQGKNVVVRAKTGSGKTAAYAIPILELGMK-- 58
Query: 166 EKHGRGRNPLCLVLAPTRELAKQVEKEFHESAPSLDTIC--VYGGTPISHQMRALDYGVD 223
LV+ PTREL +QV + +DT VYGG P Q+ + D
Sbjct: 59 ----------SLVVTPTRELTRQVASHIRDIGRYMDTKVAEVYGGMPYKAQINRV-RNAD 107
Query: 224 AVVGTPGRVIDLIKRNALNLSEVQFVVLDEADQMLSVGFAEDVEVILERLPQNRQSMMFS 283
VV TPGR++DL + ++LS + V++DEAD M +GF +D+++IL + + + +FS
Sbjct: 108 IVVATPGRLLDLWSKGVIDLSSFEIVIIDEADLMFEMGFIDDIKIILAQTSNRKITGLFS 167
Query: 284 ATMPPWIRSLTNKYLKNPLTVDLVGDSDQKLADGISLYSIATSMY----EKPSIIGQLIT 339
AT+P IR + ++ N +++ I L ++ + S + L
Sbjct: 168 ATIPEEIRKVVKDFITNY----------EEIEACIGLANVEHKFVHVKDDWRSKVQALRE 217
Query: 340 EHAKGGKCIVFTQTKRDADRLAHAMAKSYNCEPLHGDISQSQRERTLSAFRDGRFNILIA 399
KG IVF +T+ +R+A + N L GD+ QS R R + AFR+G +++LI
Sbjct: 218 NKDKG--VIVFVRTR---NRVAKLVRLFDNAIELRGDLPQSVRNRNIDAFREGEYDMLIT 272
Query: 400 TDVAARGLDVPNVDLIIHYELPNTSETFVH 429
TDVA+RGLD+P V+ +I+++ P T++H
Sbjct: 273 TDVASRGLDIPLVEKVINFDAPQDLRTYIH 302
>pdb|1FUU|A Chain A, Yeast Initiation Factor 4a
pdb|1FUU|B Chain B, Yeast Initiation Factor 4a
Length = 394
Score = 164 bits (416), Expect = 1e-40, Method: Compositional matrix adjust.
Identities = 107/370 (28%), Positives = 177/370 (47%), Gaps = 14/370 (3%)
Query: 105 DISQDIVAALARRGISKLFPIQKAVLEPAMQGRDMIGRARTGTGKTLAFGIPILDKIIKF 164
++ ++++ + G + IQ+ + P ++G D++ +A++GTGKT F I L +I
Sbjct: 27 ELDENLLRGVFGYGFEEPSAIQQRAIXPIIEGHDVLAQAQSGTGKTGTFSIAALQRI--- 83
Query: 165 NEKHGRGRNPLCLVLAPTRELAKQVEKEFHESAPSLDT---ICVYGGTPISHQMRALDYG 221
+ P L LAPTRELA Q++K A D C+ GGT L
Sbjct: 84 ---DTSVKAPQALXLAPTRELALQIQKVVXALAFHXDIKVHACI-GGTSFVEDAEGL-RD 138
Query: 222 VDAVVGTPGRVIDLIKRNALNLSEVQFVVLDEADQMLSVGFAEDVEVILERLPQNRQSMM 281
VVGTPGRV D I+R +++ +LDEAD+ LS GF E + I LP Q ++
Sbjct: 139 AQIVVGTPGRVFDNIQRRRFRTDKIKXFILDEADEXLSSGFKEQIYQIFTLLPPTTQVVL 198
Query: 282 FSATMPPWIRSLTNKYLKNPLTVDLVGDSDQKLADGISLYSIATSMYEKPSIIGQLITEH 341
SAT P + +T K+ +NP V ++ D+ +GI + + E + +
Sbjct: 199 LSATXPNDVLEVTTKFXRNP--VRILVKKDELTLEGIKQFYVNVEEEEYKYECLTDLYDS 256
Query: 342 AKGGKCIVFTQTKRDADRLAHAMAK-SYNCEPLHGDISQSQRERTLSAFRDGRFNILIAT 400
+ ++F T+R + L + + ++ D+ Q +R+ FR G ILI+T
Sbjct: 257 ISVTQAVIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTIXKEFRSGSSRILIST 316
Query: 401 DVAARGLDVPNVDLIIHYELPNTSETFVHXXXXXXXXXXXXSAILIYTDQQARQVKSIER 460
D+ ARG+DV V L+I+Y+LP E ++H AI T++ + +E+
Sbjct: 317 DLLARGIDVQQVSLVINYDLPANKENYIHRIGRGGRFGRKGVAINFVTNEDVGAXRELEK 376
Query: 461 DVGCRFTQLP 470
+ +LP
Sbjct: 377 FYSTQIEELP 386
>pdb|4A4D|A Chain A, Crystal Structure Of The N-Terminal Domain Of The Human
Dead-Box Rna Helicase Ddx5 (P68)
Length = 253
Score = 150 bits (378), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 79/212 (37%), Positives = 131/212 (61%), Gaps = 7/212 (3%)
Query: 99 LDISKLDISQDIVAALARRGISKLFPIQKAVLEPAMQGRDMIGRARTGTGKTLAFGIPIL 158
L+ + + +++ +AR+ ++ IQ A+ G DM+G A+TG+GKTL++ +P
Sbjct: 43 LNFYEANFPANVMDVIARQNFTEPTAIQAQGWPVALSGLDMVGVAQTGSGKTLSYLLP-- 100
Query: 159 DKIIKFNEKH--GRGRNPLCLVLAPTRELAKQVEKEFHE--SAPSLDTICVYGGTPISHQ 214
I+ N + RG P+CLVLAPTRELA+QV++ E A L + C+YGG P Q
Sbjct: 101 -AIVHINHQPFLERGDGPICLVLAPTRELAQQVQQVAAEYCRACRLKSTCIYGGAPKGPQ 159
Query: 215 MRALDYGVDAVVGTPGRVIDLIKRNALNLSEVQFVVLDEADQMLSVGFAEDVEVILERLP 274
+R L+ GV+ + TPGR+ID ++ NL ++VLDEAD+ML +GF + I++++
Sbjct: 160 IRDLERGVEICIATPGRLIDFLECGKTNLRRTTYLVLDEADRMLDMGFEPQIRKIVDQIR 219
Query: 275 QNRQSMMFSATMPPWIRSLTNKYLKNPLTVDL 306
+RQ++M+SAT P +R L +LK+ + +++
Sbjct: 220 PDRQTLMWSATWPKEVRQLAEDFLKDYIHINI 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 = 150 bits (378), Expect = 3e-36, Method: Compositional matrix adjust.
Identities = 79/212 (37%), Positives = 131/212 (61%), Gaps = 7/212 (3%)
Query: 99 LDISKLDISQDIVAALARRGISKLFPIQKAVLEPAMQGRDMIGRARTGTGKTLAFGIPIL 158
L+ + + +++ +AR+ ++ IQ A+ G DM+G A+TG+GKTL++ +P
Sbjct: 29 LNFYEANFPANVMDVIARQNFTEPTAIQAQGWPVALSGLDMVGVAQTGSGKTLSYLLP-- 86
Query: 159 DKIIKFNEKH--GRGRNPLCLVLAPTRELAKQVEKEFHE--SAPSLDTICVYGGTPISHQ 214
I+ N + RG P+CLVLAPTRELA+QV++ E A L + C+YGG P Q
Sbjct: 87 -AIVHINHQPFLERGDGPICLVLAPTRELAQQVQQVAAEYCRACRLKSTCIYGGAPKGPQ 145
Query: 215 MRALDYGVDAVVGTPGRVIDLIKRNALNLSEVQFVVLDEADQMLSVGFAEDVEVILERLP 274
+R L+ GV+ + TPGR+ID ++ NL ++VLDEAD+ML +GF + I++++
Sbjct: 146 IRDLERGVEICIATPGRLIDFLECGKTNLRRTTYLVLDEADRMLDMGFEPQIRKIVDQIR 205
Query: 275 QNRQSMMFSATMPPWIRSLTNKYLKNPLTVDL 306
+RQ++M+SAT P +R L +LK+ + +++
Sbjct: 206 PDRQTLMWSATWPKEVRQLAEDFLKDYIHINI 237
>pdb|3SQW|A Chain A, Structure Of Mss116p (Nte Deletion) Bound To Ssrna And
Amp-Pnp
Length = 579
Score = 148 bits (374), Expect = 7e-36, Method: Compositional matrix adjust.
Identities = 113/403 (28%), Positives = 198/403 (49%), Gaps = 32/403 (7%)
Query: 87 YVAYDDSSKDEGLD--ISKLDISQDIVAALARRGISKLFPIQKAVLEPAM--QGRDMIGR 142
+V +D+SK+ LD + + + ++I A+ R L P+Q+ ++P + + D+I R
Sbjct: 7 HVPKEDNSKEVTLDSLLEEGVLDKEIHKAITRMEFPGLTPVQQKTIKPILSSEDHDVIAR 66
Query: 143 ARTGTGKTLAFGIPILDKIIKFNEKHGRGRNPLCLVLAPTRELAKQVE---KEFHESAPS 199
A+TGTGKT AF IPI +I N K +++APTR+LA Q+E K+ H+
Sbjct: 67 AKTGTGKTFAFLIPIFQHLI--NTKFDSQYMVKAVIVAPTRDLALQIEAEVKKIHDMNYG 124
Query: 200 LD---TICVYGGTPISHQMRALD-YGVDAVVGTPGRVIDLIKRNALNLSE-VQFVVLDEA 254
L + + GGT M ++ + V+ TPGR+ID++++ + V + VLDEA
Sbjct: 125 LKKYACVSLVGGTDFRAAMNKMNKLRPNIVIATPGRLIDVLEKYSNKFFRFVDYKVLDEA 184
Query: 255 DQMLSVGFAEDVEVILERLPQ-------NRQSMMFSATMPPWIRSLTNKYL--KNPLTVD 305
D++L +GF +D+E I L + N ++++FSAT+ ++ L N + K L +D
Sbjct: 185 DRLLEIGFRDDLETISGILNEKNSKSADNIKTLLFSATLDDKVQKLANNIMNKKECLFLD 244
Query: 306 LVGDSDQKLADGISLYSI-----ATSMYEKPSIIGQLITEHAKGGKCIVFTQTKRDADRL 360
V ++ + + I + A S++ I + I E K I+F T + L
Sbjct: 245 TVDKNEPEAHERIDQSVVISEKFANSIFAAVEHIKKQIKERDSNYKAIIFAPTVKFTSFL 304
Query: 361 AHAMAKSYNCE----PLHGDISQSQRERTLSAFRDGRFNILIATDVAARGLDVPNVDLII 416
+ + + HG I+Q++R + F+ IL+ TDV ARG+D PNV ++
Sbjct: 305 CSILKNEFKKDLPILEFHGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVL 364
Query: 417 HYELPNTSETFVHXXXXXXXXXXXXSAILIYTDQQARQVKSIE 459
+P+ ++H S++L + V+ +E
Sbjct: 365 QIGVPSELANYIHRIGRTARSGKEGSSVLFICKDELPFVRELE 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 = 148 bits (373), Expect = 9e-36, Method: Compositional matrix adjust.
Identities = 113/403 (28%), Positives = 198/403 (49%), Gaps = 32/403 (7%)
Query: 87 YVAYDDSSKDEGLD--ISKLDISQDIVAALARRGISKLFPIQKAVLEPAM--QGRDMIGR 142
+V +D+SK+ LD + + + ++I A+ R L P+Q+ ++P + + D+I R
Sbjct: 58 HVPKEDNSKEVTLDSLLEEGVLDKEIHKAITRMEFPGLTPVQQKTIKPILSSEDHDVIAR 117
Query: 143 ARTGTGKTLAFGIPILDKIIKFNEKHGRGRNPLCLVLAPTRELAKQVE---KEFHESAPS 199
A+TGTGKT AF IPI +I N K +++APTR+LA Q+E K+ H+
Sbjct: 118 AKTGTGKTFAFLIPIFQHLI--NTKFDSQYMVKAVIVAPTRDLALQIEAEVKKIHDMNYG 175
Query: 200 LD---TICVYGGTPISHQMRALD-YGVDAVVGTPGRVIDLIKRNALNLSE-VQFVVLDEA 254
L + + GGT M ++ + V+ TPGR+ID++++ + V + VLDEA
Sbjct: 176 LKKYACVSLVGGTDFRAAMNKMNKLRPNIVIATPGRLIDVLEKYSNKFFRFVDYKVLDEA 235
Query: 255 DQMLSVGFAEDVEVILERLPQ-------NRQSMMFSATMPPWIRSLTNKYL--KNPLTVD 305
D++L +GF +D+E I L + N ++++FSAT+ ++ L N + K L +D
Sbjct: 236 DRLLEIGFRDDLETISGILNEKNSKSADNIKTLLFSATLDDKVQKLANNIMNKKECLFLD 295
Query: 306 LVGDSDQKLADGISLYSI-----ATSMYEKPSIIGQLITEHAKGGKCIVFTQTKRDADRL 360
V ++ + + I + A S++ I + I E K I+F T + L
Sbjct: 296 TVDKNEPEAHERIDQSVVISEKFANSIFAAVEHIKKQIKERDSNYKAIIFAPTVKFTSFL 355
Query: 361 AHAMAKSYNCE----PLHGDISQSQRERTLSAFRDGRFNILIATDVAARGLDVPNVDLII 416
+ + + HG I+Q++R + F+ IL+ TDV ARG+D PNV ++
Sbjct: 356 CSILKNEFKKDLPILEFHGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVL 415
Query: 417 HYELPNTSETFVHXXXXXXXXXXXXSAILIYTDQQARQVKSIE 459
+P+ ++H S++L + V+ +E
Sbjct: 416 QIGVPSELANYIHRIGRTARSGKEGSSVLFICKDELPFVRELE 458
>pdb|3SQX|A Chain A, Structure Of Mss116p (Nte And C-Tail Double Deletion)
Bound To Ssrna And Amp-Pnp
Length = 512
Score = 147 bits (371), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 115/404 (28%), Positives = 199/404 (49%), Gaps = 34/404 (8%)
Query: 87 YVAYDDSSKDEGLDISKLD---ISQDIVAALARRGISKLFPIQKAVLEPAM--QGRDMIG 141
+V +D+SK+ LD S L+ + ++I A+ R L P+Q+ ++P + + D+I
Sbjct: 7 HVPKEDNSKEVTLD-SLLEEGVLDKEIHKAITRMEFPGLTPVQQKTIKPILSSEDHDVIA 65
Query: 142 RARTGTGKTLAFGIPILDKIIKFNEKHGRGRNPLCLVLAPTRELAKQVE---KEFHESAP 198
RA+TGTGKT AF IPI +I N K +++APTR+LA Q+E K+ H+
Sbjct: 66 RAKTGTGKTFAFLIPIFQHLI--NTKFDSQYMVKAVIVAPTRDLALQIEAEVKKIHDMNY 123
Query: 199 SLD---TICVYGGTPISHQMRALD-YGVDAVVGTPGRVIDLIKRNALNLSE-VQFVVLDE 253
L + + GGT M ++ + V+ TPGR+ID++++ + V + VLDE
Sbjct: 124 GLKKYACVSLVGGTDFRAAMNKMNKLRPNIVIATPGRLIDVLEKYSNKFFRFVDYKVLDE 183
Query: 254 ADQMLSVGFAEDVEVILERLPQ-------NRQSMMFSATMPPWIRSLTNKYL--KNPLTV 304
AD++L +GF +D+E I L + N ++++FSAT+ ++ L N + K L +
Sbjct: 184 ADRLLEIGFRDDLETISGILNEKNSKSADNIKTLLFSATLDDKVQKLANNIMNKKECLFL 243
Query: 305 DLVGDSDQKLADGISLYSI-----ATSMYEKPSIIGQLITEHAKGGKCIVFTQTKRDADR 359
D V ++ + + I + A S++ I + I E K I+F T +
Sbjct: 244 DTVDKNEPEAHERIDQSVVISEKFANSIFAAVEHIKKQIKERDSNYKAIIFAPTVKFTSF 303
Query: 360 LAHAMAKSYNCE----PLHGDISQSQRERTLSAFRDGRFNILIATDVAARGLDVPNVDLI 415
L + + + HG I+Q++R + F+ IL+ TDV ARG+D PNV +
Sbjct: 304 LCSILKNEFKKDLPILEFHGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEV 363
Query: 416 IHYELPNTSETFVHXXXXXXXXXXXXSAILIYTDQQARQVKSIE 459
+ +P+ ++H S++L + V+ +E
Sbjct: 364 LQIGVPSELANYIHRIGRTARSGKEGSSVLFICKDELPFVRELE 407
>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 = 142 bits (359), Expect = 4e-34, Method: Compositional matrix adjust.
Identities = 90/243 (37%), Positives = 139/243 (57%), Gaps = 19/243 (7%)
Query: 90 YDDSSKDEGLDISKLD--ISQDIVAALARRGISKLFPIQKAVLEPAMQGRDMIGRARTGT 147
Y ++ E D KLD I +I+ A +R PIQK + ++ RD++ A+TG+
Sbjct: 16 YSATNVIENFDELKLDPTIRNNILLASYQRPT----PIQKNAIPAILEHRDIMACAQTGS 71
Query: 148 GKTLAFGIPILDKIIKFN---EKHGRGRNPLCLVLAPTRELAKQVEKE---FHESAPSLD 201
GKT AF IPI++ ++ + +++ + P CL+LAPTRELA Q+ E F + P L
Sbjct: 72 GKTAAFLIPIINHLVCQDLNQQRYSKTAYPKCLILAPTRELAIQILSESQKFSLNTP-LR 130
Query: 202 TICVYGGTPISHQMRALDYGVDAVVGTPGRVIDLIKRNALNLSEVQFVVLDEADQMLSVG 261
+ VYGG Q+R + G +V TPGR++D I++N ++L +++VLDEAD+ML +G
Sbjct: 131 SCVVYGGADTHSQIREVQMGCHLLVATPGRLVDFIEKNKISLEFCKYIVLDEADRMLDMG 190
Query: 262 FAEDVEVILER--LPQ--NRQSMMFSATMPPWIRSLTNKYLKNP--LTVDLVGDSDQKLA 315
F + I+E +P NRQ++MFSAT P I+ L +L N +TV VG + +
Sbjct: 191 FEPQIRKIIEESNMPSGINRQTLMFSATFPKEIQKLAADFLYNYIFMTVGRVGSTSDSIK 250
Query: 316 DGI 318
I
Sbjct: 251 QEI 253
>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 = 142 bits (359), Expect = 4e-34, Method: Compositional matrix adjust.
Identities = 94/305 (30%), Positives = 163/305 (53%), Gaps = 26/305 (8%)
Query: 137 RDMIGRARTGTGKTLAFGIPILDKIIKFNEKHGRGRNPLCLVLAPTRELAKQ---VEKEF 193
R+MI ++++GTGKT AF + +L ++ + +P + LAP+RELA+Q V +E
Sbjct: 45 RNMIAQSQSGTGKTAAFSLTMLTRV------NPEDASPQAICLAPSRELARQTLEVVQEM 98
Query: 194 HESAPSLDTICVYGGTPISHQMRALDYGVDAVVGTPGRVIDLIKRNALNLSEVQFVVLDE 253
+ + V + Q+ A +VGTPG V+DL++R + L +++ VLDE
Sbjct: 99 GKFTKITSQLIVPDSFEKNKQINA-----QVIVGTPGTVLDLMRRKLMQLQKIKIFVLDE 153
Query: 254 ADQML-SVGFAEDVEVILERLPQNRQSMMFSATMPPWIRSLTNKYLKNPLTVDLVGDSDQ 312
AD ML G + + LP++ Q ++FSAT +R K + N T++L +++
Sbjct: 154 ADNMLDQQGLGDQCIRVKRFLPKDTQLVLFSATFADAVRQYAKKIVPNANTLEL--QTNE 211
Query: 313 KLADGIS-LYSIATSMYEKPSIIGQLITEHAKGGKCIVFTQTKRDADRLAHAM-AKSYNC 370
D I LY + +K ++ +L G I+F TK+ A+ L + ++ +
Sbjct: 212 VNVDAIKQLYMDCKNEADKFDVLTELYGVMTIGS-SIIFVATKKTANVLYGKLKSEGHEV 270
Query: 371 EPLHGDISQSQRERTLSAFRDGRFNILIATDVAARGLDVPNVDLIIHYELPNTSE----- 425
LHGD+ +R+R + FR+GR +LI T+V ARG+D+P V ++++Y+LP +
Sbjct: 271 SILHGDLQTQERDRLIDDFREGRSKVLITTNVLARGIDIPTVSMVVNYDLPTLANGQADP 330
Query: 426 -TFVH 429
T++H
Sbjct: 331 ATYIH 335
>pdb|3PEY|A Chain A, S. Cerevisiae Dbp5 Bound To Rna And Adp Bef3
Length = 395
Score = 142 bits (359), Expect = 4e-34, Method: Compositional matrix adjust.
Identities = 94/305 (30%), Positives = 163/305 (53%), Gaps = 26/305 (8%)
Query: 137 RDMIGRARTGTGKTLAFGIPILDKIIKFNEKHGRGRNPLCLVLAPTRELAKQ---VEKEF 193
R+MI ++++GTGKT AF + +L ++ + +P + LAP+RELA+Q V +E
Sbjct: 45 RNMIAQSQSGTGKTAAFSLTMLTRV------NPEDASPQAICLAPSRELARQTLEVVQEM 98
Query: 194 HESAPSLDTICVYGGTPISHQMRALDYGVDAVVGTPGRVIDLIKRNALNLSEVQFVVLDE 253
+ + V + Q+ A +VGTPG V+DL++R + L +++ VLDE
Sbjct: 99 GKFTKITSQLIVPDSFEKNKQINA-----QVIVGTPGTVLDLMRRKLMQLQKIKIFVLDE 153
Query: 254 ADQML-SVGFAEDVEVILERLPQNRQSMMFSATMPPWIRSLTNKYLKNPLTVDLVGDSDQ 312
AD ML G + + LP++ Q ++FSAT +R K + N T++L +++
Sbjct: 154 ADNMLDQQGLGDQCIRVKRFLPKDTQLVLFSATFADAVRQYAKKIVPNANTLEL--QTNE 211
Query: 313 KLADGIS-LYSIATSMYEKPSIIGQLITEHAKGGKCIVFTQTKRDADRLAHAM-AKSYNC 370
D I LY + +K ++ +L G I+F TK+ A+ L + ++ +
Sbjct: 212 VNVDAIKQLYMDCKNEADKFDVLTELYGLMTIGS-SIIFVATKKTANVLYGKLKSEGHEV 270
Query: 371 EPLHGDISQSQRERTLSAFRDGRFNILIATDVAARGLDVPNVDLIIHYELPNTSE----- 425
LHGD+ +R+R + FR+GR +LI T+V ARG+D+P V ++++Y+LP +
Sbjct: 271 SILHGDLQTQERDRLIDDFREGRSKVLITTNVLARGIDIPTVSMVVNYDLPTLANGQADP 330
Query: 426 -TFVH 429
T++H
Sbjct: 331 ATYIH 335
>pdb|1XTK|A Chain A, Structure Of Decd To Dead Mutation Of Human Uap56
Length = 390
Score = 140 bits (352), Expect = 3e-33, Method: Compositional matrix adjust.
Identities = 90/327 (27%), Positives = 166/327 (50%), Gaps = 14/327 (4%)
Query: 109 DIVAALARRGISKLFPIQKAVLEPAMQGRDMIGRARTGTGKTLAFGIPILDKIIKFNEKH 168
+++ A+ G +Q + A+ G D++ +A++G GKT F + L ++ +
Sbjct: 17 ELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQLEPVTGQV 76
Query: 169 GRGRNPLCLVLAPTRELAKQVEKE---FHESAPSLDTICVYGGTPISHQMRALDYGV-DA 224
LV+ TRELA Q+ KE F + P++ +GG I L
Sbjct: 77 S------VLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEVLKKNCPHI 130
Query: 225 VVGTPGRVIDLIKRNALNLSEVQFVVLDEADQMLS-VGFAEDVEVILERLPQNRQSMMFS 283
VVGTPGR++ L + +LNL ++ +LDEAD+ML + DV+ I P +Q MMFS
Sbjct: 131 VVGTPGRILALARNKSLNLKHIKHFILDEADKMLEQLDMRRDVQEIFRMTPHEKQVMMFS 190
Query: 284 ATMPPWIRSLTNKYLKNPLTVDLVGDSDQKLADGISLYSIATSMYEKPSIIGQLITEHAK 343
AT+ IR + K++++P+ + V D + G+ Y + EK + L+ + +
Sbjct: 191 ATLSKEIRPVCRKFMQDPMEI-FVDDETKLTLHGLQQYYVKLKDNEKNRKLFDLL-DVLE 248
Query: 344 GGKCIVFTQTKRDADRLAHAMA-KSYNCEPLHGDISQSQRERTLSAFRDGRFNILIATDV 402
+ ++F ++ + LA + +++ +H + Q +R F+D + IL+AT++
Sbjct: 249 FNQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRILVATNL 308
Query: 403 AARGLDVPNVDLIIHYELPNTSETFVH 429
RG+D+ V++ +Y++P S+T++H
Sbjct: 309 FGRGMDIERVNIAFNYDMPEDSDTYLH 335
>pdb|1XTJ|A Chain A, Structure Of Human Uap56 In Complex With Adp
Length = 386
Score = 138 bits (348), Expect = 7e-33, Method: Compositional matrix adjust.
Identities = 89/327 (27%), Positives = 165/327 (50%), Gaps = 14/327 (4%)
Query: 109 DIVAALARRGISKLFPIQKAVLEPAMQGRDMIGRARTGTGKTLAFGIPILDKIIKFNEKH 168
+++ A+ G +Q + A+ G D++ +A++G GKT F + L ++ +
Sbjct: 18 ELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQLEPVTGQV 77
Query: 169 GRGRNPLCLVLAPTRELAKQVEKE---FHESAPSLDTICVYGGTPISHQMRALDYGV-DA 224
LV+ TRELA Q+ KE F + P++ +GG I L
Sbjct: 78 S------VLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEVLKKNCPHI 131
Query: 225 VVGTPGRVIDLIKRNALNLSEVQFVVLDEADQMLS-VGFAEDVEVILERLPQNRQSMMFS 283
VVGTPGR++ L + +LNL ++ +LDE D+ML + DV+ I P +Q MMFS
Sbjct: 132 VVGTPGRILALARNKSLNLKHIKHFILDECDKMLEQLDMRRDVQEIFRMTPHEKQVMMFS 191
Query: 284 ATMPPWIRSLTNKYLKNPLTVDLVGDSDQKLADGISLYSIATSMYEKPSIIGQLITEHAK 343
AT+ IR + K++++P+ + V D + G+ Y + EK + L+ + +
Sbjct: 192 ATLSKEIRPVCRKFMQDPMEI-FVDDETKLTLHGLQQYYVKLKDNEKNRKLFDLL-DVLE 249
Query: 344 GGKCIVFTQTKRDADRLAHAMA-KSYNCEPLHGDISQSQRERTLSAFRDGRFNILIATDV 402
+ ++F ++ + LA + +++ +H + Q +R F+D + IL+AT++
Sbjct: 250 FNQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRILVATNL 309
Query: 403 AARGLDVPNVDLIIHYELPNTSETFVH 429
RG+D+ V++ +Y++P S+T++H
Sbjct: 310 FGRGMDIERVNIAFNYDMPEDSDTYLH 336
>pdb|1XTI|A Chain A, Structure Of Wildtype Human Uap56
Length = 391
Score = 138 bits (348), Expect = 7e-33, Method: Compositional matrix adjust.
Identities = 89/327 (27%), Positives = 165/327 (50%), Gaps = 14/327 (4%)
Query: 109 DIVAALARRGISKLFPIQKAVLEPAMQGRDMIGRARTGTGKTLAFGIPILDKIIKFNEKH 168
+++ A+ G +Q + A+ G D++ +A++G GKT F + L ++ +
Sbjct: 18 ELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQLEPVTGQV 77
Query: 169 GRGRNPLCLVLAPTRELAKQVEKE---FHESAPSLDTICVYGGTPISHQMRALDYGV-DA 224
LV+ TRELA Q+ KE F + P++ +GG I L
Sbjct: 78 S------VLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEVLKKNCPHI 131
Query: 225 VVGTPGRVIDLIKRNALNLSEVQFVVLDEADQMLS-VGFAEDVEVILERLPQNRQSMMFS 283
VVGTPGR++ L + +LNL ++ +LDE D+ML + DV+ I P +Q MMFS
Sbjct: 132 VVGTPGRILALARNKSLNLKHIKHFILDECDKMLEQLDMRRDVQEIFRMTPHEKQVMMFS 191
Query: 284 ATMPPWIRSLTNKYLKNPLTVDLVGDSDQKLADGISLYSIATSMYEKPSIIGQLITEHAK 343
AT+ IR + K++++P+ + V D + G+ Y + EK + L+ + +
Sbjct: 192 ATLSKEIRPVCRKFMQDPMEI-FVDDETKLTLHGLQQYYVKLKDNEKNRKLFDLL-DVLE 249
Query: 344 GGKCIVFTQTKRDADRLAHAMA-KSYNCEPLHGDISQSQRERTLSAFRDGRFNILIATDV 402
+ ++F ++ + LA + +++ +H + Q +R F+D + IL+AT++
Sbjct: 250 FNQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRILVATNL 309
Query: 403 AARGLDVPNVDLIIHYELPNTSETFVH 429
RG+D+ V++ +Y++P S+T++H
Sbjct: 310 FGRGMDIERVNIAFNYDMPEDSDTYLH 336
>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 = 134 bits (338), Expect = 1e-31, Method: Compositional matrix adjust.
Identities = 80/201 (39%), Positives = 120/201 (59%), Gaps = 9/201 (4%)
Query: 109 DIVAALARRGISKLFPIQKAVLEPAMQGRDMIGRARTGTGKTLAFGIP----ILDKIIKF 164
D++ ++ R GI K PIQ +QG D+I A+TGTGKTL++ +P + + I
Sbjct: 30 DLLKSIIRVGILKPTPIQSQAWPIILQGIDLIVVAQTGTGKTLSYLMPGFIHLDSQPISR 89
Query: 165 NEKHGRGRNPLCLVLAPTRELAKQVEKEFHE-SAPSLDTICVYGGTPISHQMRALDYGVD 223
+++G G LVL PTRELA VE E + S L +IC+YGG + Q+ + GVD
Sbjct: 90 EQRNGPGM----LVLTPTRELALHVEAECSKYSYKGLKSICIYGGRNRNGQIEDISKGVD 145
Query: 224 AVVGTPGRVIDLIKRNALNLSEVQFVVLDEADQMLSVGFAEDVEVILERLPQNRQSMMFS 283
++ TPGR+ DL N++NL + ++V+DEAD+ML + F + IL + +RQ++M S
Sbjct: 146 IIIATPGRLNDLQMNNSVNLRSITYLVIDEADKMLDMEFEPQIRKILLDVRPDRQTVMTS 205
Query: 284 ATMPPWIRSLTNKYLKNPLTV 304
AT P +R L YLK+P+ V
Sbjct: 206 ATWPDTVRQLALSYLKDPMIV 226
>pdb|3FHO|A Chain A, Structure Of S. Pombe Dbp5
pdb|3FHO|B Chain B, Structure Of S. Pombe Dbp5
Length = 508
Score = 131 bits (330), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 90/288 (31%), Positives = 153/288 (53%), Gaps = 14/288 (4%)
Query: 137 RDMIGRARTGTGKTLAFGIPILDKIIKFNEKHGRGRNPLCLVLAPTRELAKQVEKEFHES 196
R+MIG++++GTGKT AF + +L ++ K P + LAP+RELA+Q+ E
Sbjct: 159 RNMIGQSQSGTGKTAAFALTMLSRVDASVPK------PQAICLAPSRELARQIMDVVTEM 212
Query: 197 APSLDTICVYGGTPISHQMRALDYGVDAVVGTPGRVIDLIKRNALNLSEVQFVVLDEADQ 256
+ +G + +D + V+GTPG V+DL+KR L+ +++ VLDEAD
Sbjct: 213 GKYTEVKTAFGIKDSVPKGAKIDAQI--VIGTPGTVMDLMKRRQLDARDIKVFVLDEADN 270
Query: 257 ML-SVGFAEDVEVILERLPQNRQSMMFSATMPPWIRSLTNKYLKNPLTVDLVGDSDQKLA 315
ML G + I LP+N Q ++FSAT + ++ N + L +++
Sbjct: 271 MLDQQGLGDQSMRIKHLLPRNTQIVLFSATFSERVEKYAERFAPNANEIRL--KTEELSV 328
Query: 316 DGIS-LYSIATSMYEKPSIIGQLITEHAKGGKCIVFTQTKRDADRLAHAM-AKSYNCEPL 373
+GI LY S K +++ +L G+ I+F + K A+ +A M A + L
Sbjct: 329 EGIKQLYMDCQSEEHKYNVLVELYG-LLTIGQSIIFCKKKDTAEEIARRMTADGHTVACL 387
Query: 374 HGDISQSQRERTLSAFRDGRFNILIATDVAARGLDVPNVDLIIHYELP 421
G++ +QR+ + +FR G +L+ T+V ARG+DV V+L+++Y++P
Sbjct: 388 TGNLEGAQRDAIMDSFRVGTSKVLVTTNVIARGIDVSQVNLVVNYDMP 435
>pdb|3BOR|A Chain A, Crystal Structure Of The Deadc Domain Of Human Translation
Initiation Factor 4a-2
Length = 237
Score = 127 bits (319), Expect = 2e-29, Method: Compositional matrix adjust.
Identities = 75/218 (34%), Positives = 126/218 (57%), Gaps = 12/218 (5%)
Query: 92 DSSKDEGLD-ISKLDISQDIVAALARRGISKLFPIQKAVLEPAMQGRDMIGRARTGTGKT 150
+S+ +E +D +++ + ++ + G K IQ+ + P ++G D+I +A++GTGKT
Sbjct: 22 ESNWNEIVDNFDDMNLKESLLRGIYAYGFEKPSAIQQRAIIPCIKGYDVIAQAQSGTGKT 81
Query: 151 LAFGIPILDKI-IKFNEKHGRGRNPLCLVLAPTRELAKQVEKEFHESAPSLDTIC--VYG 207
F I IL ++ I+F E LVLAPTRELA+Q++K + C G
Sbjct: 82 ATFAISILQQLEIEFKETQA-------LVLAPTRELAQQIQKVILALGDYMGATCHACIG 134
Query: 208 GTPISHQMRALDYGV-DAVVGTPGRVIDLIKRNALNLSEVQFVVLDEADQMLSVGFAEDV 266
GT + ++M+ L VVGTPGRV D++ R L+ ++ VLDEAD+MLS GF + +
Sbjct: 135 GTNVRNEMQKLQAEAPHIVVGTPGRVFDMLNRRYLSPKWIKMFVLDEADEMLSRGFKDQI 194
Query: 267 EVILERLPQNRQSMMFSATMPPWIRSLTNKYLKNPLTV 304
I ++L + Q ++ SATMP + +T K++++P+ +
Sbjct: 195 YEIFQKLNTSIQVVLLSATMPTDVLEVTKKFMRDPIRI 232
>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 = 126 bits (316), Expect = 4e-29, Method: Compositional matrix adjust.
Identities = 69/203 (33%), Positives = 117/203 (57%), Gaps = 9/203 (4%)
Query: 106 ISQDIVAALARRGISKLFPIQKAVLEPAMQGRDMIGRARTGTGKTLAFGIPILDKIIKFN 165
+ ++++ + G K PIQ+ + A+ GRD++ RA+ GTGK+ A+ IP+L+++
Sbjct: 10 LKRELLMGIFEMGWEKPSPIQEESIPIALSGRDILARAKNGTGKSGAYLIPLLERL---- 65
Query: 166 EKHGRGRNPLCLVLAPTRELAKQVEK---EFHESAPSLDTICVYGGTPISHQMRALDYGV 222
+ N +V+ PTRELA QV + + + + GGT + + LD V
Sbjct: 66 --DLKKDNIQAMVIVPTRELALQVSQICIQVSKHMGGAKVMATTGGTNLRDDIMRLDDTV 123
Query: 223 DAVVGTPGRVIDLIKRNALNLSEVQFVVLDEADQMLSVGFAEDVEVILERLPQNRQSMMF 282
V+ TPGR++DLIK+ + VQ +VLDEAD++LS F + +E I+ LP+NRQ +++
Sbjct: 124 HVVIATPGRILDLIKKGVAKVDHVQMIVLDEADKLLSQDFVQIMEDIILTLPKNRQILLY 183
Query: 283 SATMPPWIRSLTNKYLKNPLTVD 305
SAT P ++ N +L+ P ++
Sbjct: 184 SATFPLSVQKFMNSHLEKPYEIN 206
>pdb|3BER|A Chain A, Human Dead-Box Rna-Helicase Ddx47, Conserved Domain I In
Complex With Amp
Length = 249
Score = 121 bits (304), Expect = 1e-27, Method: Compositional matrix adjust.
Identities = 72/202 (35%), Positives = 119/202 (58%), Gaps = 9/202 (4%)
Query: 104 LDISQDIVAALARRGISKLFPIQKAVLEPAMQGRDMIGRARTGTGKTLAFGIPILDKIIK 163
L ++ + A + G +K IQ + A+QGRD+IG A TG+GKT AF +PIL+ +++
Sbjct: 48 LGVTDVLCEACDQLGWTKPTKIQIEAIPLALQGRDIIGLAETGSGKTGAFALPILNALLE 107
Query: 164 FNEKHGRGRNPLCLVLAPTRELAKQVEKEFHE--SAPSLDTICVYGGTPISHQMRALDYG 221
++ LVL PTRELA Q+ ++F S+ + + + GG Q AL
Sbjct: 108 TPQRL------FALVLTPTRELAFQISEQFEALGSSIGVQSAVIVGGIDSMSQSLALAKK 161
Query: 222 VDAVVGTPGRVID-LIKRNALNLSEVQFVVLDEADQMLSVGFAEDVEVILERLPQNRQSM 280
++ TPGR+ID L NL ++++V+DEAD++L++ F +V+ IL+ +P++R++
Sbjct: 162 PHIIIATPGRLIDHLENTKGFNLRALKYLVMDEADRILNMDFETEVDKILKVIPRDRKTF 221
Query: 281 MFSATMPPWIRSLTNKYLKNPL 302
+FSATM ++ L LKNP+
Sbjct: 222 LFSATMTKKVQKLQRAALKNPV 243
>pdb|3LY5|A Chain A, Ddx18 Dead-Domain
pdb|3LY5|B Chain B, Ddx18 Dead-Domain
Length = 262
Score = 120 bits (301), Expect = 2e-27, Method: Compositional matrix adjust.
Identities = 79/226 (34%), Positives = 130/226 (57%), Gaps = 22/226 (9%)
Query: 89 AYDDSSKDEGLDISKLDISQDIVAALARRGISKLFPIQKAVLEPAMQGRDMIGRARTGTG 148
A++D+S ++ ++++ + A+ G + + IQ + P ++GRD++ A+TG+G
Sbjct: 48 AFEDTSFASLCNL----VNENTLKAIKEMGFTNMTEIQHKSIRPLLEGRDLLAAAKTGSG 103
Query: 149 KTLAFGIPILDKIIK--FNEKHGRGRNPLCLVLAPTRELAKQ---VEKEF---HESAPSL 200
KTLAF IP ++ I+K F ++G G L+L+PTRELA Q V KE H L
Sbjct: 104 KTLAFLIPAVELIVKLRFMPRNGTG----VLILSPTRELAMQTFGVLKELMTHHVHTYGL 159
Query: 201 DTICVYGGTPISHQMRALDYGVDAVVGTPGRVIDLIKRN-ALNLSEVQFVVLDEADQMLS 259
+ GG+ S + + L G++ +V TPGR++D ++ +Q +V+DEAD++L
Sbjct: 160 ----IMGGSNRSAEAQKLGNGINIIVATPGRLLDHMQNTPGFMYKNLQCLVIDEADRILD 215
Query: 260 VGFAEDVEVILERLPQNRQSMMFSATMPPWIRSLTNKYLKN-PLTV 304
VGF E+++ I++ LP RQ+M+FSAT + L LK PL V
Sbjct: 216 VGFEEELKQIIKLLPTRRQTMLFSATQTRKVEDLARISLKKEPLYV 261
>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 = 119 bits (298), Expect = 5e-27, Method: Compositional matrix adjust.
Identities = 87/310 (28%), Positives = 155/310 (50%), Gaps = 33/310 (10%)
Query: 137 RDMIGRARTGTGKTLAFGIPILDKIIKFNEKHGRGRNPLCLVLAPTRELAKQVEKEFHES 196
+++I ++++GTGKT AF + +L ++ N + P CL L+PT ELA Q K +
Sbjct: 132 QNLIAQSQSGTGKTAAFVLAMLSQVEPAN------KYPQCLCLSPTYELALQTGKVIEQM 185
Query: 197 A---PSLDTICVYGGTPISHQMRALDYGVDAVVGTPGRVIDLI-KRNALNLSEVQFVVLD 252
P L G + R V+GTPG V+D K ++ +++ VLD
Sbjct: 186 GKFYPELKLAYAVRGNKLE---RGQKISEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLD 242
Query: 253 EADQMLSVGFAEDVEVILER-LPQNRQSMMFSATMPPWIRSLTNKYLKNPLTVDLVGDSD 311
EAD M++ +D + ++R LP+N Q ++FSAT + K + +P + L +
Sbjct: 243 EADVMIATQGHQDQSIRIQRMLPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKL--KRE 300
Query: 312 QKLADGISLYSIATSMYEKP-----SIIGQLITEHAKGGKCIVFTQTKRDADRLAHAMAK 366
++ D I Y + S ++ ++ G + A ++F T++ A LA ++K
Sbjct: 301 EETLDTIKQYYVLCSSRDEKFQALCNLYGAITIAQA-----MIFCHTRKTASWLAAELSK 355
Query: 367 S-YNCEPLHGDISQSQRERTLSAFRDGRFNILIATDVAARGLDVPNVDLIIHYELP---- 421
+ L G++ QR + FR+G+ +L+ T+V ARG+DV V ++I+++LP
Sbjct: 356 EGHQVALLSGEMMVEQRAAVIERFREGKEKVLVTTNVCARGIDVEQVSVVINFDLPVDKD 415
Query: 422 --NTSETFVH 429
+ET++H
Sbjct: 416 GNPDNETYLH 425
>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 = 119 bits (297), Expect = 6e-27, Method: Compositional matrix adjust.
Identities = 87/310 (28%), Positives = 155/310 (50%), Gaps = 33/310 (10%)
Query: 137 RDMIGRARTGTGKTLAFGIPILDKIIKFNEKHGRGRNPLCLVLAPTRELAKQVEKEFHES 196
+++I ++++GTGKT AF + +L ++ N + P CL L+PT ELA Q K +
Sbjct: 102 QNLIAQSQSGTGKTAAFVLAMLSQVEPAN------KYPQCLCLSPTYELALQTGKVIEQM 155
Query: 197 A---PSLDTICVYGGTPISHQMRALDYGVDAVVGTPGRVIDLI-KRNALNLSEVQFVVLD 252
P L G + R V+GTPG V+D K ++ +++ VLD
Sbjct: 156 GKFYPELKLAYAVRGNKLE---RGQKISEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLD 212
Query: 253 EADQMLSVGFAEDVEVILER-LPQNRQSMMFSATMPPWIRSLTNKYLKNPLTVDLVGDSD 311
EAD M++ +D + ++R LP+N Q ++FSAT + K + +P + L +
Sbjct: 213 EADVMIATQGHQDQSIRIQRMLPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKL--KRE 270
Query: 312 QKLADGISLYSIATSMYEKP-----SIIGQLITEHAKGGKCIVFTQTKRDADRLAHAMAK 366
++ D I Y + S ++ ++ G + A ++F T++ A LA ++K
Sbjct: 271 EETLDTIKQYYVLCSSRDEKFQALCNLYGAITIAQA-----MIFCHTRKTASWLAAELSK 325
Query: 367 S-YNCEPLHGDISQSQRERTLSAFRDGRFNILIATDVAARGLDVPNVDLIIHYELP---- 421
+ L G++ QR + FR+G+ +L+ T+V ARG+DV V ++I+++LP
Sbjct: 326 EGHQVALLSGEMMVEQRAAVIERFREGKEKVLVTTNVCARGIDVEQVSVVINFDLPVDKD 385
Query: 422 --NTSETFVH 429
+ET++H
Sbjct: 386 GNPDNETYLH 395
>pdb|3G0H|A Chain A, Human Dead-box Rna Helicase Ddx19, In Complex With An
Atp-analogue And Rna
Length = 424
Score = 119 bits (297), Expect = 6e-27, Method: Compositional matrix adjust.
Identities = 87/310 (28%), Positives = 155/310 (50%), Gaps = 33/310 (10%)
Query: 137 RDMIGRARTGTGKTLAFGIPILDKIIKFNEKHGRGRNPLCLVLAPTRELAKQVEKEFHES 196
+++I ++++GTGKT AF + +L ++ N + P CL L+PT ELA Q K +
Sbjct: 81 QNLIAQSQSGTGKTAAFVLAMLSQVEPAN------KYPQCLCLSPTYELALQTGKVIEQM 134
Query: 197 A---PSLDTICVYGGTPISHQMRALDYGVDAVVGTPGRVIDLI-KRNALNLSEVQFVVLD 252
P L G + R V+GTPG V+D K ++ +++ VLD
Sbjct: 135 GKFYPELKLAYAVRGNKLE---RGQKISEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLD 191
Query: 253 EADQMLSVGFAEDVEVILER-LPQNRQSMMFSATMPPWIRSLTNKYLKNPLTVDLVGDSD 311
EAD M++ +D + ++R LP+N Q ++FSAT + K + +P + L +
Sbjct: 192 EADVMIATQGHQDQSIRIQRMLPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKL--KRE 249
Query: 312 QKLADGISLYSIATSMYEKP-----SIIGQLITEHAKGGKCIVFTQTKRDADRLAHAMAK 366
++ D I Y + S ++ ++ G + A ++F T++ A LA ++K
Sbjct: 250 EETLDTIKQYYVLCSSRDEKFQALCNLYGAITIAQA-----MIFCHTRKTASWLAAELSK 304
Query: 367 S-YNCEPLHGDISQSQRERTLSAFRDGRFNILIATDVAARGLDVPNVDLIIHYELP---- 421
+ L G++ QR + FR+G+ +L+ T+V ARG+DV V ++I+++LP
Sbjct: 305 EGHQVALLSGEMMVEQRAAVIERFREGKEKVLVTTNVCARGIDVEQVSVVINFDLPVDKD 364
Query: 422 --NTSETFVH 429
+ET++H
Sbjct: 365 GNPDNETYLH 374
>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 = 118 bits (296), Expect = 7e-27, Method: Compositional matrix adjust.
Identities = 87/310 (28%), Positives = 155/310 (50%), Gaps = 33/310 (10%)
Query: 137 RDMIGRARTGTGKTLAFGIPILDKIIKFNEKHGRGRNPLCLVLAPTRELAKQVEKEFHES 196
+++I ++++GTGKT AF + +L ++ N + P CL L+PT ELA Q K +
Sbjct: 65 QNLIAQSQSGTGKTAAFVLAMLSQVEPAN------KYPQCLCLSPTYELALQTGKVIEQM 118
Query: 197 A---PSLDTICVYGGTPISHQMRALDYGVDAVVGTPGRVIDLI-KRNALNLSEVQFVVLD 252
P L G + R V+GTPG V+D K ++ +++ VLD
Sbjct: 119 GKFYPELKLAYAVRGNKLE---RGQKISEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLD 175
Query: 253 EADQMLSVGFAEDVEVILER-LPQNRQSMMFSATMPPWIRSLTNKYLKNPLTVDLVGDSD 311
EAD M++ +D + ++R LP+N Q ++FSAT + K + +P + L +
Sbjct: 176 EADVMIATQGHQDQSIRIQRMLPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKL--KRE 233
Query: 312 QKLADGISLYSIATSMYEKP-----SIIGQLITEHAKGGKCIVFTQTKRDADRLAHAMAK 366
++ D I Y + S ++ ++ G + A ++F T++ A LA ++K
Sbjct: 234 EETLDTIKQYYVLCSSRDEKFQALCNLYGAITIAQA-----MIFCHTRKTASWLAAELSK 288
Query: 367 S-YNCEPLHGDISQSQRERTLSAFRDGRFNILIATDVAARGLDVPNVDLIIHYELP---- 421
+ L G++ QR + FR+G+ +L+ T+V ARG+DV V ++I+++LP
Sbjct: 289 EGHQVALLSGEMMVEQRAAVIERFREGKEKVLVTTNVCARGIDVEQVSVVINFDLPVDKD 348
Query: 422 --NTSETFVH 429
+ET++H
Sbjct: 349 GNPDNETYLH 358
>pdb|2PL3|A Chain A, Human Dead-Box Rna Helicase Ddx10, Dead Domain In Complex
With Adp
Length = 236
Score = 117 bits (294), Expect = 2e-26, Method: Compositional matrix adjust.
Identities = 68/217 (31%), Positives = 125/217 (57%), Gaps = 10/217 (4%)
Query: 90 YDDSSKDEGLDISKLDISQDIVAALARRGISKLFPIQKAVLEPAMQGRDMIGRARTGTGK 149
Y+ + +E S +S+ + L + IQK + A+QG+D++G A+TG+GK
Sbjct: 16 YEKINVNEITRFSDFPLSKKTLKGLQEAQYRLVTEIQKQTIGLALQGKDVLGAAKTGSGK 75
Query: 150 TLAFGIPILDKI--IKFNEKHGRGRNPLCLVLAPTRELAKQVEKEFHESAPSLDTIC--V 205
TLAF +P+L+ + +++ G G L+++PTRELA Q + + + D +
Sbjct: 76 TLAFLVPVLEALYRLQWTSTDGLG----VLIISPTRELAYQTFEVLRKVGKNHDFSAGLI 131
Query: 206 YGGTPISHQMRALDYGVDAVVGTPGRVIDLIKRN-ALNLSEVQFVVLDEADQMLSVGFAE 264
GG + H+ ++ ++ +V TPGR++ + + + +++Q +VLDEAD++L +GFA+
Sbjct: 132 IGGKDLKHEAERIN-NINILVCTPGRLLQHMDETVSFHATDLQMLVLDEADRILDMGFAD 190
Query: 265 DVEVILERLPQNRQSMMFSATMPPWIRSLTNKYLKNP 301
+ ++E LP+ RQ+++FSAT ++ L LKNP
Sbjct: 191 TMNAVIENLPKKRQTLLFSATQTKSVKDLARLSLKNP 227
>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 = 116 bits (291), Expect = 3e-26, Method: Compositional matrix adjust.
Identities = 70/204 (34%), Positives = 111/204 (54%), Gaps = 11/204 (5%)
Query: 104 LDISQDIVAALARRGISKLFPIQKAVLEPAMQGRDMIGRARTGTGKTLAFGIPILDKIIK 163
+++ ++++ + G + IQ+ + P ++G D++ +A++GTGKT F I L +I
Sbjct: 19 MELDENLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAALQRI-- 76
Query: 164 FNEKHGRGRNPLCLVLAPTRELAKQVEKEFHESAPSLDT---ICVYGGTPISHQMRALDY 220
+ P L+LAPTRELA Q++K A +D C+ GGT L
Sbjct: 77 ----DTSVKAPQALMLAPTRELALQIQKVVMALAFHMDIKVHACI-GGTSFVEDAEGL-R 130
Query: 221 GVDAVVGTPGRVIDLIKRNALNLSEVQFVVLDEADQMLSVGFAEDVEVILERLPQNRQSM 280
VVGTPGRV D I+R +++ +LDEAD+MLS GF E + I LP Q +
Sbjct: 131 DAQIVVGTPGRVFDNIQRRRFRTDKIKMFILDEADEMLSSGFKEQIYQIFTLLPPTTQVV 190
Query: 281 MFSATMPPWIRSLTNKYLKNPLTV 304
+ SATMP + +T K+++NP+ +
Sbjct: 191 LLSATMPNDVLEVTTKFMRNPVRI 214
>pdb|1QVA|A Chain A, Yeast Initiation Factor 4a N-Terminal Domain
Length = 223
Score = 116 bits (290), Expect = 4e-26, Method: Compositional matrix adjust.
Identities = 69/183 (37%), Positives = 101/183 (55%), Gaps = 11/183 (6%)
Query: 125 IQKAVLEPAMQGRDMIGRARTGTGKTLAFGIPILDKIIKFNEKHGRGRNPLCLVLAPTRE 184
IQ+ + P ++G D++ +A++GTGKT F I L +I + P L+LAPTRE
Sbjct: 47 IQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAALQRI------DTSVKAPQALMLAPTRE 100
Query: 185 LAKQVEKEFHESAPSLDT---ICVYGGTPISHQMRALDYGVDAVVGTPGRVIDLIKRNAL 241
LA Q++K A +D C+ GGT L VVGTPGRV D I+R
Sbjct: 101 LALQIQKVVMALAFHMDIKVHACI-GGTSFVEDAEGL-RDAQIVVGTPGRVFDNIQRRRF 158
Query: 242 NLSEVQFVVLDEADQMLSVGFAEDVEVILERLPQNRQSMMFSATMPPWIRSLTNKYLKNP 301
+++ +LDEAD+MLS GF E + I LP Q ++ SATMP + +T K+++NP
Sbjct: 159 RTDKIKMFILDEADEMLSSGFKEQIYQIFTLLPPTTQVVLLSATMPNDVLEVTTKFMRNP 218
Query: 302 LTV 304
+ +
Sbjct: 219 VRI 221
>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 = 114 bits (285), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 72/207 (34%), Positives = 112/207 (54%), Gaps = 18/207 (8%)
Query: 110 IVAALARRGISKLFPIQKAVLEPAMQGRDMIGRARTGTGKTLAFGIPILDKIIKFNEKHG 169
I+ A+ K IQ+ ++ A++G +G+++TGTGKT A+ +PI +KI K
Sbjct: 15 IIEAIKTLRFYKPTEIQERIIPGALRGESXVGQSQTGTGKTHAYLLPIXEKI-----KPE 69
Query: 170 RGRNPLCLVLAPTRELAKQVEKEFHES------APSLDTI---CVYGGTPISHQMRALDY 220
R ++ APTRELA Q+ +HE+ P I C+ GGT + L+
Sbjct: 70 RAEV-QAVITAPTRELATQI---YHETLKITKFCPKDRXIVARCLIGGTDKQKALEKLNV 125
Query: 221 GVDAVVGTPGRVIDLIKRNALNLSEVQFVVLDEADQMLSVGFAEDVEVILERLPQNRQSM 280
V+GTPGR+ D I+ AL++ +V+DEAD L GF DV+ I R P++ Q +
Sbjct: 126 QPHIVIGTPGRINDFIREQALDVHTAHILVVDEADLXLDXGFITDVDQIAARXPKDLQXL 185
Query: 281 MFSATMPPWIRSLTNKYLKNPLTVDLV 307
+FSAT+P ++ KY +NP V ++
Sbjct: 186 VFSATIPEKLKPFLKKYXENPTFVHVL 212
>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 = 114 bits (284), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 52/129 (40%), Positives = 81/129 (62%), Gaps = 1/129 (0%)
Query: 342 AKGGKCIVFTQTKRDADRLAHAMAK-SYNCEPLHGDISQSQRERTLSAFRDGRFNILIAT 400
A + +VFT+TK + + +A + + + + LHGD+SQ +RER L AFR G +L+AT
Sbjct: 29 ASPDRAMVFTRTKAETEEIAQGLLRLGHPAQALHGDLSQGERERVLGAFRQGEVRVLVAT 88
Query: 401 DVAARGLDVPNVDLIIHYELPNTSETFVHXXXXXXXXXXXXSAILIYTDQQARQVKSIER 460
DVAARGLD+P VDL++HY LP+ +E + H +L+Y ++ R V+++ER
Sbjct: 89 DVAARGLDIPQVDLVVHYRLPDRAEAYQHRSGRTGRAGRGGRVVLLYGPRERRDVEALER 148
Query: 461 DVGCRFTQL 469
VG RF ++
Sbjct: 149 AVGRRFKRV 157
>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 = 113 bits (283), Expect = 3e-25, Method: Compositional matrix adjust.
Identities = 49/125 (39%), Positives = 80/125 (64%), Gaps = 1/125 (0%)
Query: 346 KCIVFTQTKRDADRLAHAMAK-SYNCEPLHGDISQSQRERTLSAFRDGRFNILIATDVAA 404
+ +VFT+TK + + +A + + + + LHGD+SQ +RER + AFR G +L+ATDVAA
Sbjct: 30 RAMVFTRTKAETEEIAQGLLRLGHPAQALHGDMSQGERERVMGAFRQGEVRVLVATDVAA 89
Query: 405 RGLDVPNVDLIIHYELPNTSETFVHXXXXXXXXXXXXSAILIYTDQQARQVKSIERDVGC 464
RGLD+P VDL++HY +P+ +E + H +L+Y ++ R V+++ER VG
Sbjct: 90 RGLDIPQVDLVVHYRMPDRAEAYQHRSGRTGRAGRGGRVVLLYGPRERRDVEALERAVGR 149
Query: 465 RFTQL 469
RF ++
Sbjct: 150 RFKRV 154
>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 = 110 bits (275), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 69/217 (31%), Positives = 118/217 (54%), Gaps = 10/217 (4%)
Query: 92 DSSKDEGLD-ISKLDISQDIVAALARRGISKLFPIQKAVLEPAMQGRDMIGRARTGTGKT 150
+S+ +E +D +++S+ ++ + G IQ+ + P + G D+I +A++GTG T
Sbjct: 7 ESNWNEIVDSFDDMNLSESLLRGIYAYGFEXPSAIQQRAILPCIXGYDVIAQAQSGTGXT 66
Query: 151 LAFGIPILDKIIKFNEKHGRGRNPLCLVLAPTRELAKQVEKEFHESAPSLDTIC--VYGG 208
F I IL +I + + + LVLAPTRELA+Q++ + C GG
Sbjct: 67 ATFAISILQQI-ELDLXATQA-----LVLAPTRELAQQIQXVVMALGDYMGASCHACIGG 120
Query: 209 TPISHQMRALDY-GVDAVVGTPGRVIDLIKRNALNLSEVQFVVLDEADQMLSVGFAEDVE 267
T + +++ L +VGTPGRV D++ R L+ + VLDEAD+MLS GF + +
Sbjct: 121 TNVRAEVQXLQMEAPHIIVGTPGRVFDMLNRRYLSPXYIXMFVLDEADEMLSRGFXDQIY 180
Query: 268 VILERLPQNRQSMMFSATMPPWIRSLTNKYLKNPLTV 304
I + L N Q ++ SATMP + +T ++++P+ +
Sbjct: 181 DIFQXLNSNTQVVLLSATMPSDVLEVTXXFMRDPIRI 217
>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 = 100 bits (248), Expect = 4e-21, Method: Compositional matrix adjust.
Identities = 68/214 (31%), Positives = 105/214 (49%), Gaps = 11/214 (5%)
Query: 97 EGLDISKLDISQDIVAALARRGISKLFPIQKAVLEPAMQGRDMIGRARTGTGKTLAFGIP 156
E D L +S+ ++ L G + P+Q + G D+I +A++GTGKT F
Sbjct: 22 EPADFESLLLSRPVLEGLRAAGFERPSPVQLKAIPLGRCGLDLIVQAKSGTGKTCVFSTI 81
Query: 157 ILDKIIKFNEKHGRGRNPLCLVLAPTRELAKQVEKEFHE---SAPSLDTICVYGGTPISH 213
LD ++ N L+LAPTRE+A Q+ L+ GGTP+S
Sbjct: 82 ALDSLVLENLSTQ------ILILAPTREIAVQIHSVITAIGIKMEGLECHVFIGGTPLSQ 135
Query: 214 QMRALDYGVDAVVGTPGRVIDLIKRNALNLSEVQFVVLDEADQMLSVG-FAEDVEVILER 272
L VG+PGR+ LI+ + LN ++ +LDEAD++L G F E + I
Sbjct: 136 DKTRLK-KCHIAVGSPGRIKQLIELDYLNPGSIRLFILDEADKLLEEGSFQEQINWIYSS 194
Query: 273 LPQNRQSMMFSATMPPWIRSLTNKYLKNPLTVDL 306
LP ++Q + SAT P ++ + KY+++P V L
Sbjct: 195 LPASKQMLAVSATYPEFLANALTKYMRDPTFVRL 228
>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 = 99.4 bits (246), Expect = 5e-21, Method: Compositional matrix adjust.
Identities = 62/201 (30%), Positives = 104/201 (51%), Gaps = 11/201 (5%)
Query: 109 DIVAALARRGISKLFPIQKAVLEPAMQGRDMIGRARTGTGKTLAFGIPILDKIIKFNEKH 168
+++ A+ G +Q + A+ G D++ +A++G GKT F + L ++
Sbjct: 24 ELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQLEPVT--- 80
Query: 169 GRGRNPLCLVLAPTRELAKQVEKE---FHESAPSLDTICVYGGTPISHQMRALDYGV-DA 224
G+ + LV+ TRELA Q+ KE F + P++ +GG I L
Sbjct: 81 --GQVSV-LVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEVLKKNCPHI 137
Query: 225 VVGTPGRVIDLIKRNALNLSEVQFVVLDEADQMLS-VGFAEDVEVILERLPQNRQSMMFS 283
VVGTPGR++ L + +LNL ++ +LDE D+ML + DV+ I P +Q MMFS
Sbjct: 138 VVGTPGRILALARNKSLNLKHIKHFILDECDKMLEQLDMRRDVQEIFRMTPHEKQVMMFS 197
Query: 284 ATMPPWIRSLTNKYLKNPLTV 304
AT+ IR + K++++P+ +
Sbjct: 198 ATLSKEIRPVCRKFMQDPMEI 218
>pdb|2KBE|A Chain A, Solution Structure Of Amino-Terminal Domain Of Dbp5p
Length = 226
Score = 85.5 bits (210), Expect = 7e-17, Method: Compositional matrix adjust.
Identities = 57/179 (31%), Positives = 94/179 (52%), Gaps = 25/179 (13%)
Query: 137 RDMIGRARTGTGKTLAFGIPILDKIIKFNEKHGRGRNPLCLVLAPTRELAKQVEKEFHES 196
R+MI ++++GTGKT AF + +L ++ + +P + LAP+RELA+Q
Sbjct: 62 RNMIAQSQSGTGKTAAFSLTMLTRV------NPEDASPQAICLAPSRELARQ-------- 107
Query: 197 APSLDTICVYGG-TPISHQMRALD-------YGVDAVVGTPGRVIDLIKRNALNLSEVQF 248
+L+ + G T I+ Q+ D +VGTPG V+DL++R + L +++
Sbjct: 108 --TLEVVQEMGKFTKITSQLIVPDSFEKNKQINAQVIVGTPGTVLDLMRRKLMQLQKIKI 165
Query: 249 VVLDEADQML-SVGFAEDVEVILERLPQNRQSMMFSATMPPWIRSLTNKYLKNPLTVDL 306
VLDEAD ML G + + LP++ Q ++FSAT +R K + N T++L
Sbjct: 166 FVLDEADNMLDQQGLGDQCIRVKRFLPKDTQLVLFSATFADAVRQYAKKIVPNANTLEL 224
>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 = 82.0 bits (201), Expect = 9e-16, Method: Compositional matrix adjust.
Identities = 43/102 (42%), Positives = 61/102 (59%), Gaps = 1/102 (0%)
Query: 329 EKPSIIGQLITEHAKGGKCIVFTQTKRDADRLAHAMA-KSYNCEPLHGDISQSQRERTLS 387
+K S + L+ K +VF +TK+ AD L + + Y C +HGD SQ RE L
Sbjct: 31 DKRSFLLDLLNATGKDSLTLVFVETKKGADSLEDFLYHEGYACTSIHGDRSQRDREEALH 90
Query: 388 AFRDGRFNILIATDVAARGLDVPNVDLIIHYELPNTSETFVH 429
FR G+ IL+AT VAARGLD+ NV +I+++LP+ E +VH
Sbjct: 91 QFRSGKSPILVATAVAARGLDISNVKHVINFDLPSDIEEYVH 132
>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 = 80.1 bits (196), Expect = 3e-15, Method: Compositional matrix adjust.
Identities = 43/128 (33%), Positives = 69/128 (53%), Gaps = 3/128 (2%)
Query: 337 LITEHAKGGKCIVFTQTKRDADRLAHAMAK-SYNCEPLHGDISQSQRERTLSAFRDGRFN 395
L+TE+ CI+F +TK ++L + Y C+ +HG + Q R ++ F+ G +
Sbjct: 30 LMTENPDS--CIIFCRTKEHVNQLTDELDDLGYPCDKIHGGMIQEDRFDVMNEFKRGEYR 87
Query: 396 ILIATDVAARGLDVPNVDLIIHYELPNTSETFVHXXXXXXXXXXXXSAILIYTDQQARQV 455
L+ATDVAARG+D+ N+ L+I+Y+LP E++VH AI T + R +
Sbjct: 88 YLVATDVAARGIDIENISLVINYDLPLEKESYVHRTGRTGRAGNKGKAISFVTAFEKRFL 147
Query: 456 KSIERDVG 463
IE +G
Sbjct: 148 ADIEEYIG 155
>pdb|3DKP|A Chain A, Human Dead-Box Rna-Helicase Ddx52, Conserved Domain I In
Complex With Adp
Length = 245
Score = 75.1 bits (183), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 60/201 (29%), Positives = 99/201 (49%), Gaps = 32/201 (15%)
Query: 124 PIQKAVLEPAMQGRDMIGRARTGTGKTLAFGIPILDKIIKFNEKHGRGRNPLCLVLAPTR 183
PIQ + + GR+++ A TG+GKTLAF IPIL ++ + K R L+++PTR
Sbjct: 54 PIQMQAIPVMLHGRELLASAPTGSGKTLAFSIPILMQLKQPANKGFRA-----LIISPTR 108
Query: 184 ELAKQVEKEFHESAPSLDTICVYGGTPISHQM------RALDYG------VDAVVGTPGR 231
ELA Q+ +E I + GT M A +G D +V TP R
Sbjct: 109 ELASQIHREL---------IKISEGTGFRIHMIHKAAVAAKKFGPKSSKKFDILVTTPNR 159
Query: 232 VIDLIKRN--ALNLSEVQFVVLDEADQMLS---VGFAEDV-EVILERLPQNRQSMMFSAT 285
+I L+K++ ++L+ V+++V+DE+D++ GF + + + L + MFSAT
Sbjct: 160 LIYLLKQDPPGIDLASVEWLVVDESDKLFEDGKTGFRDQLASIFLACTSHKVRRAMFSAT 219
Query: 286 MPPWIRSLTNKYLKNPLTVDL 306
+ L N ++V +
Sbjct: 220 FAYDVEQWCKLNLDNVISVSI 240
>pdb|3FMO|B Chain B, Crystal Structure Of The Nucleoporin Nup214 In Complex
With The Dead- Box Helicase Ddx19
Length = 300
Score = 73.9 bits (180), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 53/175 (30%), Positives = 88/175 (50%), Gaps = 14/175 (8%)
Query: 137 RDMIGRARTGTGKTLAFGIPILDKIIKFNEKHGRGRNPLCLVLAPTRELAKQVEKEFHES 196
+++I ++++GTGKT AF + +L ++ N + P CL L+PT ELA Q K +
Sbjct: 132 QNLIAQSQSGTGKTAAFVLAMLSQVEPAN------KYPQCLCLSPTYELALQTGKVIEQM 185
Query: 197 A---PSLDTICVYGGTPISHQMRALDYGVDAVVGTPGRVIDLI-KRNALNLSEVQFVVLD 252
P L G + R V+GTPG V+D K ++ +++ VLD
Sbjct: 186 GKFYPELKLAYAVRGNKLE---RGQKISEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLD 242
Query: 253 EADQMLSVGFAEDVEVILER-LPQNRQSMMFSATMPPWIRSLTNKYLKNPLTVDL 306
EAD M++ +D + ++R LP+N Q ++FSAT + K + +P + L
Sbjct: 243 EADVMIATQGHQDQSIRIQRMLPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKL 297
>pdb|3FHC|B Chain B, Crystal Structure Of Human Dbp5 In Complex With Nup214
Length = 235
Score = 73.2 bits (178), Expect = 5e-13, Method: Compositional matrix adjust.
Identities = 53/175 (30%), Positives = 88/175 (50%), Gaps = 14/175 (8%)
Query: 137 RDMIGRARTGTGKTLAFGIPILDKIIKFNEKHGRGRNPLCLVLAPTRELAKQVEKEFHES 196
+++I ++++GTGKT AF + +L ++ N + P CL L+PT ELA Q K +
Sbjct: 65 QNLIAQSQSGTGKTAAFVLAMLSQVEPAN------KYPQCLCLSPTYELALQTGKVIEQM 118
Query: 197 A---PSLDTICVYGGTPISHQMRALDYGVDAVVGTPGRVIDLI-KRNALNLSEVQFVVLD 252
P L G + R V+GTPG V+D K ++ +++ VLD
Sbjct: 119 GKFYPELKLAYAVRGNKLE---RGQKISEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLD 175
Query: 253 EADQMLSVGFAEDVEVILER-LPQNRQSMMFSATMPPWIRSLTNKYLKNPLTVDL 306
EAD M++ +D + ++R LP+N Q ++FSAT + K + +P + L
Sbjct: 176 EADVMIATQGHQDQSIRIQRMLPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKL 230
>pdb|1FUK|A Chain A, Crystal Structure Of The Carboxy Terminal Domain Of Yeast
Eif4a
Length = 165
Score = 70.9 bits (172), Expect = 2e-12, Method: Composition-based stats.
Identities = 38/151 (25%), Positives = 70/151 (46%), Gaps = 12/151 (7%)
Query: 321 YSIATSMYEKPSIIGQLITEHAKGGKCIVFTQTKRDADRLAHAMAK-SYNCEPLHGDISQ 379
Y T +Y+ S+ + ++F T+R + L + + ++ D+ Q
Sbjct: 18 YECLTDLYDSISVT-----------QAVIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQ 66
Query: 380 SQRERTLSAFRDGRFNILIATDVAARGLDVPNVDLIIHYELPNTSETFVHXXXXXXXXXX 439
+R+ + FR G ILI+TD+ ARG+DV V L+I+Y+LP E ++H
Sbjct: 67 QERDTIMKEFRSGSSRILISTDLLARGIDVQQVSLVINYDLPANKENYIHRIGRGGRFGR 126
Query: 440 XXSAILIYTDQQARQVKSIERDVGCRFTQLP 470
AI T++ ++ +E+ + +LP
Sbjct: 127 KGVAINFVTNEDVGAMRELEKFYSTQIEELP 157
>pdb|2KBF|A Chain A, Solution Structure Of Carboxyl-Terminal Domain Of Dbp5p
Length = 187
Score = 70.5 bits (171), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 32/92 (34%), Positives = 56/92 (60%), Gaps = 7/92 (7%)
Query: 345 GKCIVFTQTKRDADRLAHAM-AKSYNCEPLHGDISQSQRERTLSAFRDGRFNILIATDVA 403
G I+F TK+ A+ L + ++ + LHGD+ +R+R + FR+GR +LI T+V
Sbjct: 36 GSSIIFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDDFREGRSKVLITTNVL 95
Query: 404 ARGLDVPNVDLIIHYELPNTSE------TFVH 429
ARG+D+P V ++++Y+LP + T++H
Sbjct: 96 ARGIDIPTVSMVVNYDLPTLANGQADPATYIH 127
>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 = 69.3 bits (168), Expect = 6e-12, Method: Composition-based stats.
Identities = 29/83 (34%), Positives = 52/83 (62%), Gaps = 1/83 (1%)
Query: 348 IVFTQTKRDADRL-AHAMAKSYNCEPLHGDISQSQRERTLSAFRDGRFNILIATDVAARG 406
++F + K D D + + + K +HG Q +R + + AFR+G+ ++L+ATDVA++G
Sbjct: 58 LIFAEKKADVDAIHEYLLLKGVEAVAIHGGKDQEERTKAIEAFREGKKDVLVATDVASKG 117
Query: 407 LDVPNVDLIIHYELPNTSETFVH 429
LD P + +I+Y++P E +VH
Sbjct: 118 LDFPAIQHVINYDMPEEIENYVH 140
>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 = 68.9 bits (167), Expect = 7e-12, Method: Compositional matrix adjust.
Identities = 32/92 (34%), Positives = 55/92 (59%), Gaps = 7/92 (7%)
Query: 345 GKCIVFTQTKRDADRLAHAM-AKSYNCEPLHGDISQSQRERTLSAFRDGRFNILIATDVA 403
G I+F TK+ A+ L + ++ + LHGD+ +R+R + FR+GR +LI T+V
Sbjct: 37 GSSIIFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDDFREGRSKVLITTNVL 96
Query: 404 ARGLDVPNVDLIIHYELPNTSE------TFVH 429
ARG+D+P V +++Y+LP + T++H
Sbjct: 97 ARGIDIPTVSXVVNYDLPTLANGQADPATYIH 128
>pdb|3GFP|A Chain A, Structure Of The C-Terminal Domain Of The Dead-Box Protein
Dbp5
Length = 189
Score = 68.9 bits (167), Expect = 8e-12, Method: Compositional matrix adjust.
Identities = 32/92 (34%), Positives = 55/92 (59%), Gaps = 7/92 (7%)
Query: 345 GKCIVFTQTKRDADRLAHAM-AKSYNCEPLHGDISQSQRERTLSAFRDGRFNILIATDVA 403
G I+F TK+ A+ L + ++ + LHGD+ +R+R + FR+GR +LI T+V
Sbjct: 38 GSSIIFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDDFREGRSKVLITTNVL 97
Query: 404 ARGLDVPNVDLIIHYELPNTSE------TFVH 429
ARG+D+P V +++Y+LP + T++H
Sbjct: 98 ARGIDIPTVSXVVNYDLPTLANGQADPATYIH 129
>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 = 67.0 bits (162), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 41/173 (23%), Positives = 83/173 (47%), Gaps = 5/173 (2%)
Query: 299 KNPLTVDLVGDSDQKLADGISLYSIATSMYEKPSIIGQLITEHAKGGKCIVFTQTKRDAD 358
++P ++L+ + K G++ Y + +K + L + + + I+F + + +
Sbjct: 3 QDPYEINLMEELTLK---GVTQYYAYVTERQKVHCLNTLFSR-LQINQSIIFCNSSQRVE 58
Query: 359 RLAHAMAK-SYNCEPLHGDISQSQRERTLSAFRDGRFNILIATDVAARGLDVPNVDLIIH 417
LA +++ Y+C +H + Q R R FR+G L+ TD+ RG+D+ V+++I+
Sbjct: 59 LLAKKISQLGYSCFYIHAKMRQEHRNRVFHDFRNGLCRNLVCTDLFTRGIDIQAVNVVIN 118
Query: 418 YELPNTSETFVHXXXXXXXXXXXXSAILIYTDQQARQVKSIERDVGCRFTQLP 470
++ P +ET++H AI + T +KSIE +G +P
Sbjct: 119 FDFPKLAETYLHRIGRSGRFGHLGLAINLITYDDRFNLKSIEEQLGTEIKPIP 171
>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 = 65.5 bits (158), Expect = 8e-11, Method: Composition-based stats.
Identities = 33/111 (29%), Positives = 66/111 (59%), Gaps = 4/111 (3%)
Query: 321 YSIATSMYEKPSIIGQLITEHAKGGKCIVFTQTKRDADRLAHAMAKS--YNCEPLHGDIS 378
Y A + K +++ L+ + + + IVF + + LA+ + ++ NC L G++
Sbjct: 8 YYRADDLEHKTALLVHLL-KQPEATRSIVFVRKRERVHELANWLREAGINNCY-LEGEMV 65
Query: 379 QSQRERTLSAFRDGRFNILIATDVAARGLDVPNVDLIIHYELPNTSETFVH 429
Q +R + +GR N+L+ATDVAARG+D+P+V + ++++P + +T++H
Sbjct: 66 QGKRNEAIKRLTEGRVNVLVATDVAARGIDIPDVSHVFNFDMPRSGDTYLH 116
>pdb|2RB4|A Chain A, Crystal Structure Of The Helicase Domain Of Human Ddx25
Rna Helicase
pdb|2RB4|B Chain B, Crystal Structure Of The Helicase Domain Of Human Ddx25
Rna Helicase
Length = 175
Score = 64.7 bits (156), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 32/92 (34%), Positives = 54/92 (58%), Gaps = 7/92 (7%)
Query: 345 GKCIVFTQTKRDADRLAHAMAK-SYNCEPLHGDISQSQRERTLSAFRDGRFNILIATDVA 403
G+ I+F QT+R+A L M + + L G+++ QR + FRDG+ +LI T+V
Sbjct: 35 GQAIIFCQTRRNAKWLTVEMIQDGHQVSLLSGELTVEQRASIIQRFRDGKEKVLITTNVC 94
Query: 404 ARGLDVPNVDLIIHYELPNTS------ETFVH 429
ARG+DV V ++++++LP ET++H
Sbjct: 95 ARGIDVKQVTIVVNFDLPVKQGEEPDYETYLH 126
>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 = 57.8 bits (138), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 41/125 (32%), Positives = 62/125 (49%), Gaps = 15/125 (12%)
Query: 310 SDQKLADGISLYSIATSM---YEKPSIIGQLITEH---AKGGKCIVFTQTKRDADRLAHA 363
SD+++ ISL A + + K + ++I E + K IVFT + A ++ +
Sbjct: 321 SDKRMKKAISLLVQAKEIGLDHPKMDKLKEIIREQLQRKQNSKIIVFTNYRETAKKIVNE 380
Query: 364 MAK-SYNCEPLHGDISQ------SQRER--TLSAFRDGRFNILIATDVAARGLDVPNVDL 414
+ K + G S+ SQRE+ L F G FN+L+AT V GLDVP VDL
Sbjct: 381 LVKDGIKAKRFVGQASKENDRGLSQREQKLILDEFARGEFNVLVATSVGEEGLDVPEVDL 440
Query: 415 IIHYE 419
++ YE
Sbjct: 441 VVFYE 445
Score = 29.6 bits (65), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 35/146 (23%), Positives = 61/146 (41%), Gaps = 13/146 (8%)
Query: 145 TGTGKTLAFGIPILDKIIKFNEKHGRGRNPLCLVLAPTRELAKQVEKEFHE--SAPSLDT 202
TG GKTL + ++ K+ K L+LAPT+ L Q + F + P
Sbjct: 32 TGLGKTLIAMMIAEYRLTKYGGK--------VLMLAPTKPLVLQHAESFRRLFNLPPEKI 83
Query: 203 ICVYGGTPISHQMRALDYGVDAVVGTPGRVIDLIKRNALNLSEVQFVVLDEADQMLSVGF 262
+ + G + +A +V TP + + + ++L +V +V DEA + +VG
Sbjct: 84 VALTGEKSPEERSKAWARA-KVIVATPQTIENDLLAGRISLEDVSLIVFDEAHR--AVGN 140
Query: 263 AEDVEVILERLPQNRQSMMFSATMPP 288
V + E Q + ++ T P
Sbjct: 141 YAYVFIAREYKRQAKNPLVIGLTASP 166
>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 = 56.6 bits (135), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 83/356 (23%), Positives = 144/356 (40%), Gaps = 65/356 (18%)
Query: 106 ISQDIVAALARRGISKLFPIQKAVLEPAMQGRDMIGRARTGTGKTLAFGIPILDKIIKFN 165
IS V L GI +LFP Q +E G++++ T GKTL + ++ + IK
Sbjct: 10 ISSYAVGILKEEGIEELFPPQAEAVEKVFSGKNLLLAMPTAAGKTLLAEMAMVREAIKGG 69
Query: 166 EKHGRGRNPLCLVLAPTRELAKQVEKEFHESAPSLDTICVYGGTPIS-HQMRALDYG-VD 223
+ L + P R LA E +ES + I + G ++ R G D
Sbjct: 70 KS---------LYVVPLRALAG----EKYESFKKWEKIGLRIGISTGDYESRDEHLGDCD 116
Query: 224 AVVGTPGRVIDLIKRNALNLSEVQFVVLDEADQMLSVGFAEDVEVILERLPQNRQSMM-- 281
+V T + LI+ A + V +V+DE + S +E+++ ++ + +++
Sbjct: 117 IIVTTSEKADSLIRNRASWIKAVSCLVVDEIHLLDSEKRGATLEILVTKMRRMNKALRVI 176
Query: 282 -FSATMP------PWIRS--LTNKYLKNPLTVDLVGDSDQKLADGISLYSIATSMYEKPS 332
SAT P W+ + + + PL ++ + +L DG + +TS K
Sbjct: 177 GLSATAPNVTEIAEWLDADYYVSDWRPVPLVEGVLCEGTLELFDG----AFSTSRRVK-- 230
Query: 333 IIGQLITEH-AKGGKCIVFTQTKRDADR----LAHAMAKSYNCEPL-------------- 373
+L+ E A+ G +VF T+R A++ L+ AK E L
Sbjct: 231 -FEELVEECVAENGGVLVFESTRRGAEKTAVKLSAITAKYVENEGLEKAILEENEGEMSR 289
Query: 374 -------------HGDISQSQRERTLSAFRDGRFNILIATDVAARGLDVPNVDLII 416
H + QR AFR G +++AT A G+++P +I+
Sbjct: 290 KLAECVRKGAAFHHAGLLNGQRRVVEDAFRRGNIKVVVATPTLAAGVNLPARRVIV 345
>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 = 54.7 bits (130), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 34/140 (24%), Positives = 60/140 (42%), Gaps = 4/140 (2%)
Query: 324 ATSMYEKPSIIGQLITEHAKGGKCIVFTQTKRDADRLAHAMAKSYNCE----PLHGDISQ 379
A S++ I + I E K I+F T + L + + + HG I+Q
Sbjct: 13 ANSIFAAVEHIKKQIKERDSNYKAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQ 72
Query: 380 SQRERTLSAFRDGRFNILIATDVAARGLDVPNVDLIIHYELPNTSETFVHXXXXXXXXXX 439
++R + F+ IL+ TDV ARG+D PNV ++ +P+ ++H
Sbjct: 73 NKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGK 132
Query: 440 XXSAILIYTDQQARQVKSIE 459
S++L + V+ +E
Sbjct: 133 EGSSVLFICKDELPFVRELE 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 = 54.7 bits (130), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 34/140 (24%), Positives = 60/140 (42%), Gaps = 4/140 (2%)
Query: 324 ATSMYEKPSIIGQLITEHAKGGKCIVFTQTKRDADRLAHAMAKSYNCE----PLHGDISQ 379
A S++ I + I E K I+F T + L + + + HG I+Q
Sbjct: 13 ANSIFAAVEHIKKQIKERDSNYKAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQ 72
Query: 380 SQRERTLSAFRDGRFNILIATDVAARGLDVPNVDLIIHYELPNTSETFVHXXXXXXXXXX 439
++R + F+ IL+ TDV ARG+D PNV ++ +P+ ++H
Sbjct: 73 NKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGK 132
Query: 440 XXSAILIYTDQQARQVKSIE 459
S++L + V+ +E
Sbjct: 133 EGSSVLFICKDELPFVRELE 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 = 54.7 bits (130), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 34/140 (24%), Positives = 60/140 (42%), Gaps = 4/140 (2%)
Query: 324 ATSMYEKPSIIGQLITEHAKGGKCIVFTQTKRDADRLAHAMAKSYNCE----PLHGDISQ 379
A S++ I + I E K I+F T + L + + + HG I+Q
Sbjct: 13 ANSIFAAVEHIKKQIKERDSNYKAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQ 72
Query: 380 SQRERTLSAFRDGRFNILIATDVAARGLDVPNVDLIIHYELPNTSETFVHXXXXXXXXXX 439
++R + F+ IL+ TDV ARG+D PNV ++ +P+ ++H
Sbjct: 73 NKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGK 132
Query: 440 XXSAILIYTDQQARQVKSIE 459
S++L + V+ +E
Sbjct: 133 EGSSVLFICKDELPFVRELE 152
>pdb|2VA8|A Chain A, Dna Repair Helicase Hel308
pdb|2VA8|B Chain B, Dna Repair Helicase Hel308
Length = 715
Score = 48.5 bits (114), Expect = 9e-06, Method: Compositional matrix adjust.
Identities = 73/367 (19%), Positives = 143/367 (38%), Gaps = 58/367 (15%)
Query: 97 EGLDISKLDISQDIVAALARRGISKLFPIQ-KAVLEPAMQGRDMIGRARTGTGKTLAFGI 155
E + I L + +++ + +RGI KL P Q +AV + ++G ++ + TG+GKTL +
Sbjct: 6 EWMPIEDLKLPSNVIEIIKKRGIKKLNPPQTEAVKKGLLEGNRLLLTSPTGSGKTLIAEM 65
Query: 156 PILDKIIKFNEKHGRGRNPLCLVLAPTRELAKQVEKEFHESAPSLDTICVYGGTPISHQM 215
I+ ++K K + + P R L + F + + + G +
Sbjct: 66 GIISFLLKNGGK--------AIYVTPLRALTNEKYLTFKDWELIGFKVAMTSGDYDTDDA 117
Query: 216 RALDYGVDAVVGTPGRVIDLIKRNALNLSEVQFVVLDEADQMLSVGFAEDVEVILERLPQ 275
+Y D ++ T ++ L + L+EV + VLDE + VE + R +
Sbjct: 118 WLKNY--DIIITTYEKLDSLWRHRPEWLNEVNYFVLDELHYLNDPERGPVVESVTIR-AK 174
Query: 276 NRQSMMFSAT------MPPWI--RSLTNKYLKNPLTVDLVGDSDQKLADGISLYSIAT-S 326
R + SAT + W+ + + PL ++ +K + T
Sbjct: 175 RRNLLALSATISNYKQIAKWLGAEPVATNWRPVPLIEGVIYPERKKKEYNVIFKDNTTKK 234
Query: 327 MYEKPSIIGQLITEHAKGGKCIVFTQTKRDADRLAHAMAKSYNCEPL------------- 373
++ +II + +K G+ +VF +++ A+ A +A N L
Sbjct: 235 VHGDDAIIAYTLDSLSKNGQVLVFRNSRKMAESTALKIANYMNFVSLDENALSEILKQLD 294
Query: 374 ------------------------HGDISQSQRERTLSAFRDGRFNILIATDVAARGLDV 409
H +S++ R+ FR + +++AT A G+++
Sbjct: 295 DIEEGGSDEKELLKSLISKGVAYHHAGLSKALRDLIEEGFRQRKIKVIVATPTLAAGVNL 354
Query: 410 PNVDLII 416
P +II
Sbjct: 355 PARTVII 361
>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 = 48.1 bits (113), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 49/170 (28%), Positives = 76/170 (44%), Gaps = 29/170 (17%)
Query: 251 LDEADQMLSVGFAEDVEVILERLPQNRQSMMFSATMPPWIRSLTNKYLKNPLTVDLVGDS 310
LDE D+ L F E+ + +L+RL +N P + K L+N +
Sbjct: 351 LDETDRFLMTLFFENNK-MLKRLAEN----------PEYENEKLTK-LRNTIMEQYTRTE 398
Query: 311 DQKLADGISLYSIATSMYEKPSIIGQLITEHAKGGKCIVFTQTKRDADRLAHAMAKSYNC 370
+ A GI S Y + Q ITE+ K F + A L A S
Sbjct: 399 ES--ARGIIFTKTRQSAY----ALSQWITENEK------FAEVGVKAHHLIGA-GHSSEF 445
Query: 371 EPLHGDISQSQRERTLSAFRDGRFNILIATDVAARGLDVPNVDLIIHYEL 420
+P+ +Q++++ +S FR G+ N+LIAT VA GLD+ +++I Y L
Sbjct: 446 KPM----TQNEQKEVISKFRTGKINLLIATTVAEEGLDIKECNIVIRYGL 491
Score = 29.6 bits (65), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 13/30 (43%), Positives = 20/30 (66%)
Query: 121 KLFPIQKAVLEPAMQGRDMIGRARTGTGKT 150
+L P Q V +PA++G+++I TG GKT
Sbjct: 7 QLRPYQMEVAQPALEGKNIIICLPTGCGKT 36
>pdb|1T5I|A Chain A, Crystal Structure Of The C-Terminal Domain Of Uap56
Length = 172
Score = 48.1 bits (113), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 32/156 (20%), Positives = 74/156 (47%), Gaps = 3/156 (1%)
Query: 317 GISLYSIATSMYEKPSIIGQLITEHAKGGKCIVFTQTKRDADRLAHAMA-KSYNCEPLHG 375
G+ Y + EK + L+ + + + ++F ++ + LA + +++ +H
Sbjct: 5 GLQQYYVKLKDNEKNRKLFDLL-DVLEFNQVVIFVKSVQRCIALAQLLVEQNFPAIAIHR 63
Query: 376 DISQSQRERTLSAFRDGRFNILIATDVAARGLDVPNVDLIIHYELPNTSETFVHXXXXXX 435
+ Q +R F+D + IL+AT++ RG+D+ V++ +Y++P S+T++H
Sbjct: 64 GMPQEERLSRYQQFKDFQRRILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVARAG 123
Query: 436 XXXXXXSAILIYTDQQ-ARQVKSIERDVGCRFTQLP 470
AI +D+ A+ + ++ ++LP
Sbjct: 124 RFGTKGLAITFVSDENDAKILNDVQDRFEVNISELP 159
>pdb|4I1S|A Chain A, Melanoma Differentiation Associated Protein-5 Helicase
Domain Complex With Inhibitor Non-structural Protein V
Length = 243
Score = 45.8 bits (107), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 33/112 (29%), Positives = 51/112 (45%), Gaps = 21/112 (18%)
Query: 329 EKPSIIGQLITEH----AKGGKCIVFTQTKRDADRL----------------AHAMAKSY 368
EK + + I EH + + I+FT+T++ A L AH + +
Sbjct: 131 EKLTKLRNTIXEHFTRTEESARGIIFTKTRQSAYALSQWITDNKKFAEVGVKAHHLIGAG 190
Query: 369 NCEPLHGDISQSQRERTLSAFRDGRFNILIATDVAARGLDVPNVDLIIHYEL 420
+ QRE +S FR G+ N+LIAT VA GLD+ +++I Y L
Sbjct: 191 HSSEFKPXTQNEQRE-VISKFRTGKINLLIATTVAEEGLDIKECNIVIRYGL 241
>pdb|1GM5|A Chain A, Structure Of Recg Bound To Three-Way Dna Junction
Length = 780
Score = 45.4 bits (106), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 17/59 (28%), Positives = 37/59 (62%)
Query: 358 DRLAHAMAKSYNCEPLHGDISQSQRERTLSAFRDGRFNILIATDVAARGLDVPNVDLII 416
+ L+ + + +HG +SQ +++R + F +GR++IL++T V G+DVP ++++
Sbjct: 604 EYLSKEVFPEFKLGLMHGRLSQEEKDRVMLEFAEGRYDILVSTTVIEVGIDVPRANVMV 662
>pdb|1OYY|A Chain A, Structure Of The Recq Catalytic Core Bound To Atp-Gamma-S
Length = 523
Score = 44.3 bits (103), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 73/342 (21%), Positives = 135/342 (39%), Gaps = 35/342 (10%)
Query: 118 GISKLFPIQKAVLEPAMQGRDMIGRARTGTGKTLAFGIPILDKIIKFNEKHGRGRNPLCL 177
G + P Q+ +++ + GRD + TG GK+L + IP L N L +
Sbjct: 22 GYQQFRPGQEEIIDTVLSGRDCLVVMPTGGGKSLCYQIPALLL------------NGLTV 69
Query: 178 VLAPTRELAK-QVEKEFHESAPSLDTICVYGGTPISHQMRALDYG----VDAVVGTPGRV 232
V++P L K QV++ A + C+ Q+ + + + P R+
Sbjct: 70 VVSPLISLMKDQVDQL---QANGVAAACLNSTQTREQQLEVMTGCRTGQIRLLYIAPERL 126
Query: 233 -IDLIKRNALNLSEVQFVVLDEADQMLSVGFAEDVEVILERLPQNRQSMMFSATMPPWIR 291
+D + + + V + +DEA + G D L Q RQ T+P
Sbjct: 127 MLDNFLEHLAHWNPV-LLAVDEAHCISQWG--HDFRPEYAALGQLRQRF---PTLPFMAL 180
Query: 292 SLTNKYLKNPLTVDLVGDSDQKLADGISLY---SIATSMYEKPSIIGQLI--TEHAKGGK 346
+ T V L+G +D + IS + +I + EK + QL+ + +G
Sbjct: 181 TATADDTTRQDIVRLLGLNDPLIQ--ISSFDRPNIRYMLMEKFKPLDQLMRYVQEQRGKS 238
Query: 347 CIVFTQTK-RDADRLAHAMAKSYNCEPLHGDISQSQRERTLSAFRDGRFNILIATDVAAR 405
I++ ++ + D A +K + H + + R F+ I++AT
Sbjct: 239 GIIYCNSRAKVEDTAARLQSKGISAAAYHAGLENNVRADVQEKFQRDDLQIVVATVAFGM 298
Query: 406 GLDVPNVDLIIHYELPNTSETFVHXXXXXXXXXXXXSAILIY 447
G++ PNV ++H+++P E++ A+L Y
Sbjct: 299 GINKPNVRFVVHFDIPRNIESYYQETGRAGRDGLPAEAMLFY 340
>pdb|2FZL|A Chain A, Structure Of C-Terminal Domain Of Archaeoglobus Fulgidus
Xpb
Length = 219
Score = 43.9 bits (102), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 22/77 (28%), Positives = 41/77 (53%), Gaps = 4/77 (5%)
Query: 338 ITEHAKGGKCIVFTQTKRDADRLAHAMAKSYNCEPLHGDISQSQRERTLSAFRDGRFNIL 397
I E + K I+FT+ + L + ++K + + S+ +RE L FR GRF +
Sbjct: 108 ILERHRKDKIIIFTRH----NELVYRISKVFLIPAITHRTSREEREEILEGFRTGRFRAI 163
Query: 398 IATDVAARGLDVPNVDL 414
+++ V G+DVP+ ++
Sbjct: 164 VSSQVLDEGIDVPDANV 180
>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 = 43.9 bits (102), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 22/77 (28%), Positives = 41/77 (53%), Gaps = 4/77 (5%)
Query: 338 ITEHAKGGKCIVFTQTKRDADRLAHAMAKSYNCEPLHGDISQSQRERTLSAFRDGRFNIL 397
I E + K I+FT+ + L + ++K + + S+ +RE L FR GRF +
Sbjct: 343 ILERHRKDKIIIFTRH----NELVYRISKVFLIPAITHRTSREEREEILEGFRTGRFRAI 398
Query: 398 IATDVAARGLDVPNVDL 414
+++ V G+DVP+ ++
Sbjct: 399 VSSQVLDEGIDVPDANV 415
>pdb|1OYW|A Chain A, Structure Of The Recq Catalytic Core
Length = 523
Score = 43.1 bits (100), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 75/343 (21%), Positives = 134/343 (39%), Gaps = 37/343 (10%)
Query: 118 GISKLFPIQKAVLEPAMQGRDMIGRARTGTGKTLAFGIPILDKIIKFNEKHGRGRNPLCL 177
G + P Q+ +++ + GRD + TG GK+L + IP L N L +
Sbjct: 22 GYQQFRPGQEEIIDTVLSGRDCLVVXPTGGGKSLCYQIPALLL------------NGLTV 69
Query: 178 VLAPTRELAK-QVEKEFHESAPSLDTICVYGGTPISHQMRALDYG-----VDAVVGTPGR 231
V++P L K QV++ A + C+ T Q + G + + P R
Sbjct: 70 VVSPLISLXKDQVDQL---QANGVAAACL-NSTQTREQQLEVXTGCRTGQIRLLYIAPER 125
Query: 232 V-IDLIKRNALNLSEVQFVVLDEADQMLSVGFAEDVEVILERLPQNRQSMMFSATMPPWI 290
+ +D + + + V + +DEA + G D L Q RQ T+P
Sbjct: 126 LXLDNFLEHLAHWNPV-LLAVDEAHCISQWG--HDFRPEYAALGQLRQRF---PTLPFXA 179
Query: 291 RSLTNKYLKNPLTVDLVGDSDQKLADGISLY---SIATSMYEKPSIIGQL--ITEHAKGG 345
+ T V L+G +D + IS + +I + EK + QL + +G
Sbjct: 180 LTATADDTTRQDIVRLLGLNDPLIQ--ISSFDRPNIRYXLXEKFKPLDQLXRYVQEQRGK 237
Query: 346 KCIVFTQTK-RDADRLAHAMAKSYNCEPLHGDISQSQRERTLSAFRDGRFNILIATDVAA 404
I++ ++ + D A +K + H + + R F+ I++AT
Sbjct: 238 SGIIYCNSRAKVEDTAARLQSKGISAAAYHAGLENNVRADVQEKFQRDDLQIVVATVAFG 297
Query: 405 RGLDVPNVDLIIHYELPNTSETFVHXXXXXXXXXXXXSAILIY 447
G++ PNV ++H+++P E++ A L Y
Sbjct: 298 XGINKPNVRFVVHFDIPRNIESYYQETGRAGRDGLPAEAXLFY 340
>pdb|2ZJ2|A Chain A, Archaeal Dna Helicase Hjm Apo State In Form 1
pdb|2ZJ5|A Chain A, Archaeal Dna Helicase Hjm Complexed With Adp In Form 1
pdb|2ZJ8|A Chain A, Archaeal Dna Helicase Hjm Apo State In Form 2
pdb|2ZJA|A Chain A, Archaeal Dna Helicase Hjm Complexed With Amppcp In Form 2
Length = 720
Score = 43.1 bits (100), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 77/362 (21%), Positives = 145/362 (40%), Gaps = 63/362 (17%)
Query: 99 LDISKLDISQDIVAALARRGISKLFPIQKAVLEPA-MQGRDMIGRARTGTGKTLAFGIPI 157
+ + +L + + I + L RGI +P Q L+ ++G++ + T +GKTL I +
Sbjct: 1 MRVDELRVDERIKSTLKERGIESFYPPQAEALKSGILEGKNALISIPTASGKTLIAEIAM 60
Query: 158 LDKIIKFNEKHGRGRNPLCLVLAPTRELAKQVEKEFHESAPSLDTICVYGGTPISHQMRA 217
+ +I+ K + + P + LA++ +EF + + + G S
Sbjct: 61 VHRILTQGGK--------AVYIVPLKALAEEKFQEFQDWEKIGLRVAMATGDYDSKDEWL 112
Query: 218 LDYGVDAVVGTPGRVIDLIKRNALNLSEVQFVVLDEADQMLSVGFAEDVEVILERLPQNR 277
Y D ++ T + L++ + + +V+ +V DE + S +EVIL +
Sbjct: 113 GKY--DIIIATAEKFDSLLRHGSSWIKDVKILVADEIHLIGSRDRGATLEVILAHMLGKA 170
Query: 278 QSMMFSATM--PPWIRSLTNKYLKNPLTVDLVGDSDQ-KLADGISLYSIATSMYEKPSI- 333
Q + SAT+ P + N L +V D KL G+ T +E SI
Sbjct: 171 QIIGLSATIGNPEELAEWLNAEL-------IVSDWRPVKLRRGVFYQGFVT--WEDGSID 221
Query: 334 ----IGQLITEHAKGGK-CIVFTQTKRDADRLA-------------------HAMAKSYN 369
+L+ + + K ++F +R A+R+A + +A S
Sbjct: 222 RFSSWEELVYDAIRKKKGALIFVNMRRKAERVALELSKKVKSLLTKPEIRALNELADSLE 281
Query: 370 CEPLHGDISQSQR-------------ERTL--SAFRDGRFNILIATDVAARGLDVPNVDL 414
P + ++++ R ER L FR G ++AT + G++ P +
Sbjct: 282 ENPTNEKLAKAIRGGVAFHHAGLGRDERVLVEENFRKGIIKAVVATPTLSAGINTPAFRV 341
Query: 415 II 416
II
Sbjct: 342 II 343
>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 = 40.8 bits (94), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 24/95 (25%), Positives = 49/95 (51%), Gaps = 9/95 (9%)
Query: 326 SMYEKPSIIGQLITEHAKGGKCIVF----TQTKRDADRLAHAMAKSYNCEPLHGDISQSQ 381
SM + +I+ +++ +GG+ ++ A+RLA + ++ HG + + +
Sbjct: 798 SMVVREAILREIL----RGGQVYYLYNDVENIQKAAERLAELVPEA-RIAIGHGQMRERE 852
Query: 382 RERTLSAFRDGRFNILIATDVAARGLDVPNVDLII 416
ER ++ F RFN+L+ T + G+D+P + II
Sbjct: 853 LERVMNDFHHQRFNVLVCTTIIETGIDIPTANTII 887
>pdb|1D9X|A Chain A, Crystal Structure Of The Dna Repair Protein Uvrb
Length = 658
Score = 40.4 bits (93), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 21/84 (25%), Positives = 44/84 (52%), Gaps = 1/84 (1%)
Query: 333 IIGQLITEHAKGGKCIVFTQTKRDADRLAHAMAKS-YNCEPLHGDISQSQRERTLSAFRD 391
+IG++ + + +V T TK+ A+ L + ++ LH +I +R + R
Sbjct: 434 LIGEIRERVERNERTLVTTLTKKMAEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRL 493
Query: 392 GRFNILIATDVAARGLDVPNVDLI 415
G++++L+ ++ GLD+P V L+
Sbjct: 494 GKYDVLVGINLLREGLDIPEVSLV 517
>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 = 0.003, Method: Compositional matrix adjust.
Identities = 21/84 (25%), Positives = 44/84 (52%), Gaps = 1/84 (1%)
Query: 333 IIGQLITEHAKGGKCIVFTQTKRDADRLAHAMAKS-YNCEPLHGDISQSQRERTLSAFRD 391
+IG++ + + +V T TK+ A+ L + ++ LH +I +R + R
Sbjct: 434 LIGEIRERVERNERTLVTTLTKKMAEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRL 493
Query: 392 GRFNILIATDVAARGLDVPNVDLI 415
G++++L+ ++ GLD+P V L+
Sbjct: 494 GKYDVLVGINLLREGLDIPEVSLV 517
>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 = 0.003, Method: Compositional matrix adjust.
Identities = 21/84 (25%), Positives = 44/84 (52%), Gaps = 1/84 (1%)
Query: 333 IIGQLITEHAKGGKCIVFTQTKRDADRLAHAMAKS-YNCEPLHGDISQSQRERTLSAFRD 391
+IG++ + + +V T TK+ A+ L + ++ LH +I +R + R
Sbjct: 434 LIGEIRERVERNERTLVTTLTKKMAEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRL 493
Query: 392 GRFNILIATDVAARGLDVPNVDLI 415
G++++L+ ++ GLD+P V L+
Sbjct: 494 GKYDVLVGINLLREGLDIPEVSLV 517
>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 = 0.003, Method: Compositional matrix adjust.
Identities = 21/84 (25%), Positives = 44/84 (52%), Gaps = 1/84 (1%)
Query: 333 IIGQLITEHAKGGKCIVFTQTKRDADRLAHAMAKS-YNCEPLHGDISQSQRERTLSAFRD 391
+IG++ + + +V T TK+ A+ L + ++ LH +I +R + R
Sbjct: 433 LIGEIRERVERNERTLVTTLTKKMAEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRL 492
Query: 392 GRFNILIATDVAARGLDVPNVDLI 415
G++++L+ ++ GLD+P V L+
Sbjct: 493 GKYDVLVGINLLREGLDIPEVSLV 516
>pdb|3UWX|B Chain B, Crystal Structure Of Uvra-Uvrb Complex
Length = 683
Score = 40.0 bits (92), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 21/84 (25%), Positives = 44/84 (52%), Gaps = 1/84 (1%)
Query: 333 IIGQLITEHAKGGKCIVFTQTKRDADRLAHAMAKS-YNCEPLHGDISQSQRERTLSAFRD 391
+IG++ + + +V T TK+ A+ L + ++ LH +I +R + R
Sbjct: 459 LIGEIHERVERNERTLVTTLTKKMAEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRL 518
Query: 392 GRFNILIATDVAARGLDVPNVDLI 415
G++++L+ ++ GLD+P V L+
Sbjct: 519 GKYDVLVGINLLREGLDIPEVSLV 542
>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 = 39.3 bits (90), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 20/84 (23%), Positives = 43/84 (51%), Gaps = 1/84 (1%)
Query: 333 IIGQLITEHAKGGKCIVFTQTKRDADRLAHAMAK-SYNCEPLHGDISQSQRERTLSAFRD 391
+IG++ + + +V T TK+ ++ L + + LH +I +R + R
Sbjct: 440 LIGEIQARIERNERVLVTTLTKKMSEDLTDYLKEIGIKVNYLHSEIKTLERIEIIRDLRL 499
Query: 392 GRFNILIATDVAARGLDVPNVDLI 415
G++++L+ ++ GLD+P V L+
Sbjct: 500 GKYDVLVGINLLREGLDIPEVSLV 523
>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 = 39.3 bits (90), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 20/84 (23%), Positives = 43/84 (51%), Gaps = 1/84 (1%)
Query: 333 IIGQLITEHAKGGKCIVFTQTKRDADRLAHAMAK-SYNCEPLHGDISQSQRERTLSAFRD 391
+IG++ + + +V T TK+ ++ L + + LH +I +R + R
Sbjct: 434 LIGEIQARIERNERVLVTTLTKKMSEDLTDYLKEIGIKVNYLHSEIKTLERIEIIRDLRL 493
Query: 392 GRFNILIATDVAARGLDVPNVDLI 415
G++++L+ ++ GLD+P V L+
Sbjct: 494 GKYDVLVGINLLREGLDIPEVSLV 517
>pdb|4F91|B Chain B, Brr2 Helicase Region
Length = 1724
Score = 36.2 bits (82), Expect = 0.049, Method: Compositional matrix adjust.
Identities = 49/184 (26%), Positives = 81/184 (44%), Gaps = 25/184 (13%)
Query: 104 LDISQDIVAALARRGISKLF--------PIQKAVLEPAMQGRD--MIGRARTGTGKTLAF 153
LD+ V+AL L+ PIQ V D +G A TG+GKT+
Sbjct: 901 LDLQPLPVSALRNSAFESLYQDKFPFFNPIQTQVFNTVYNSDDNVFVG-APTGSGKTICA 959
Query: 154 GIPILDKIIKFNEKHGRGRNPLCLVLAPTRELAKQVEKEFHESAPS-LDTICVYGGTPIS 212
IL +++ +E GR C+ + P LA+QV +++E L+ V S
Sbjct: 960 EFAILRMLLQSSE--GR-----CVYITPMEALAEQVYMDWYEKFQDRLNKKVVLLTGETS 1012
Query: 213 HQMRALDYGVDAVVGTPGRVIDLIKRNALNLSEVQFVVLDEADQMLSVGFAED---VEVI 269
++ L G + ++ TP + D++ R VQ + L D++ +G E+ +EVI
Sbjct: 1013 TDLKLLGKG-NIIISTPEK-WDILSRRWKQRKNVQNINLFVVDEVHLIG-GENGPVLEVI 1069
Query: 270 LERL 273
R+
Sbjct: 1070 CSRM 1073
>pdb|4F92|B Chain B, Brr2 Helicase Region S1087l
pdb|4F93|B Chain B, Brr2 Helicase Region S1087l, Mg-Atp
Length = 1724
Score = 36.2 bits (82), Expect = 0.050, Method: Compositional matrix adjust.
Identities = 49/184 (26%), Positives = 81/184 (44%), Gaps = 25/184 (13%)
Query: 104 LDISQDIVAALARRGISKLF--------PIQKAVLEPAMQGRD--MIGRARTGTGKTLAF 153
LD+ V+AL L+ PIQ V D +G A TG+GKT+
Sbjct: 901 LDLQPLPVSALRNSAFESLYQDKFPFFNPIQTQVFNTVYNSDDNVFVG-APTGSGKTICA 959
Query: 154 GIPILDKIIKFNEKHGRGRNPLCLVLAPTRELAKQVEKEFHESAPS-LDTICVYGGTPIS 212
IL +++ +E GR C+ + P LA+QV +++E L+ V S
Sbjct: 960 EFAILRMLLQSSE--GR-----CVYITPMEALAEQVYMDWYEKFQDRLNKKVVLLTGETS 1012
Query: 213 HQMRALDYGVDAVVGTPGRVIDLIKRNALNLSEVQFVVLDEADQMLSVGFAED---VEVI 269
++ L G + ++ TP + D++ R VQ + L D++ +G E+ +EVI
Sbjct: 1013 TDLKLLGKG-NIIISTPEK-WDILSRRWKQRKNVQNINLFVVDEVHLIG-GENGPVLEVI 1069
Query: 270 LERL 273
R+
Sbjct: 1070 CSRM 1073
>pdb|3TBK|A Chain A, Mouse Rig-I Atpase Domain
Length = 555
Score = 36.2 bits (82), Expect = 0.052, Method: Compositional matrix adjust.
Identities = 19/36 (52%), Positives = 23/36 (63%), Gaps = 1/36 (2%)
Query: 385 TLSAFR-DGRFNILIATDVAARGLDVPNVDLIIHYE 419
L AFR G NILIAT VA G+D+ +L+I YE
Sbjct: 443 VLEAFRASGDNNILIATSVADEGIDIAECNLVILYE 478
>pdb|1D2M|A Chain A, Uvrb Protein Of Thermus Thermophilus Hb8; A Nucleotide
Excision Repair Enzyme
Length = 665
Score = 35.4 bits (80), Expect = 0.089, Method: Compositional matrix adjust.
Identities = 21/79 (26%), Positives = 38/79 (48%), Gaps = 9/79 (11%)
Query: 342 AKGGKCIVFTQTKRDADRLA-----HAMAKSYNCEPLHGDISQSQRERTLSAFRDGRFNI 396
A+G + +V T R A+ L H + Y LH ++ +R+ + R G ++
Sbjct: 438 ARGERTLVTVLTVRMAEELTSFLVEHGIRARY----LHHELDAFKRQALIRDLRLGHYDC 493
Query: 397 LIATDVAARGLDVPNVDLI 415
L+ ++ GLD+P V L+
Sbjct: 494 LVGINLLREGLDIPEVSLV 512
>pdb|3TMI|A Chain A, Structural Basis For Rna Recognition And Activation Of
Rig-I
Length = 695
Score = 35.4 bits (80), Expect = 0.090, Method: Compositional matrix adjust.
Identities = 18/35 (51%), Positives = 23/35 (65%), Gaps = 1/35 (2%)
Query: 386 LSAFR-DGRFNILIATDVAARGLDVPNVDLIIHYE 419
L AF+ G NILIAT VA G+D+ +L+I YE
Sbjct: 452 LDAFKASGDHNILIATSVADEGIDIAQCNLVILYE 486
Score = 30.0 bits (66), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 29/124 (23%), Positives = 55/124 (44%), Gaps = 3/124 (2%)
Query: 132 PAMQGRDMIGRARTGTGKTLAFGIPILDKIIKFNEKHGRGRNPLCLVLAPTRELAKQVEK 191
PAM+G++ I A TG GKT + I + +K + +G+ P E K V
Sbjct: 23 PAMKGKNTIICAPTGCGKTFV-SLLICEHHLKKFPQGQKGKVVFFANQIPVYEQQKSVFS 81
Query: 192 EFHESAPSLDTICVYGGTPISHQMRALDYGVDAVVGTPGRVIDLIKRNAL-NLSEVQFVV 250
++ E + G T + + + D ++ TP +++ +K+ + +LS ++
Sbjct: 82 KYFERH-GYRVTGISGATAENVPVEQIVENNDIIILTPQILVNNLKKGTIPSLSIFTLMI 140
Query: 251 LDEA 254
DE
Sbjct: 141 FDEC 144
>pdb|1C4O|A Chain A, Crystal Structure Of The Dna Nucleotide Excision Repair
Enzyme Uvrb From Thermus Thermophilus
Length = 664
Score = 35.4 bits (80), Expect = 0.091, Method: Compositional matrix adjust.
Identities = 21/79 (26%), Positives = 38/79 (48%), Gaps = 9/79 (11%)
Query: 342 AKGGKCIVFTQTKRDADRLA-----HAMAKSYNCEPLHGDISQSQRERTLSAFRDGRFNI 396
A+G + +V T R A+ L H + Y LH ++ +R+ + R G ++
Sbjct: 437 ARGERTLVTVLTVRMAEELTSFLVEHGIRARY----LHHELDAFKRQALIRDLRLGHYDC 492
Query: 397 LIATDVAARGLDVPNVDLI 415
L+ ++ GLD+P V L+
Sbjct: 493 LVGINLLREGLDIPEVSLV 511
>pdb|2YKG|A Chain A, Structural Insights Into Rna Recognition By Rig-I
Length = 696
Score = 35.4 bits (80), Expect = 0.093, Method: Compositional matrix adjust.
Identities = 18/35 (51%), Positives = 23/35 (65%), Gaps = 1/35 (2%)
Query: 386 LSAFR-DGRFNILIATDVAARGLDVPNVDLIIHYE 419
L AF+ G NILIAT VA G+D+ +L+I YE
Sbjct: 453 LDAFKASGDHNILIATSVADEGIDIAQCNLVILYE 487
>pdb|4AY2|A Chain A, Capturing 5' Tri-Phosphorylated Rna Duplex By Rig-I
Length = 687
Score = 35.4 bits (80), Expect = 0.097, Method: Compositional matrix adjust.
Identities = 18/35 (51%), Positives = 23/35 (65%), Gaps = 1/35 (2%)
Query: 386 LSAFR-DGRFNILIATDVAARGLDVPNVDLIIHYE 419
L AF+ G NILIAT VA G+D+ +L+I YE
Sbjct: 444 LDAFKASGDHNILIATSVADEGIDIAQCNLVILYE 478
>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 = 34.3 bits (77), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 28/122 (22%), Positives = 50/122 (40%), Gaps = 15/122 (12%)
Query: 334 IGQLITEHAKGGKCIVFTQTKRDADRLA--------HAMAKSYNCEPLHGDISQSQRERT 385
I +LI KG I++ +++D++++ HA A N EP ++ R
Sbjct: 257 IVKLINGRYKGQSGIIYCFSQKDSEQVTVSLQNLGIHAGAYHANLEPE----DKTTVHRK 312
Query: 386 LSAFRDGRFNILIATDVAARGLDVPNVDLIIHYELPNTSETFVHXXXXXXXXXXXXSAIL 445
SA +++AT G+D P+V +IH+ + + E + IL
Sbjct: 313 WSA---NEIQVVVATVAFGMGIDKPDVRFVIHHSMSKSMENYYQESGRAGRDDMKADCIL 369
Query: 446 IY 447
Y
Sbjct: 370 YY 371
>pdb|1FEH|A Chain A, Fe-Only Hydrogenase From Clostridium Pasteurianum
pdb|1C4A|A Chain A, Binding Of Exogenously Added Carbon Monoxide At The Active
Site Of The Fe-Only Hydrogenase (Cpi) From Clostridium
Pasteurianum
pdb|1C4C|A Chain A, Binding Of Exogenously Added Carbon Monoxide At The Active
Site Of The Fe-Only Hydrogenase (Cpi) From Clostridium
Pasteurianum
pdb|3C8Y|A Chain A, 1.39 Angstrom Crystal Structure Of Fe-Only Hydrogenase
Length = 574
Score = 32.3 bits (72), Expect = 0.83, Method: Compositional matrix adjust.
Identities = 38/178 (21%), Positives = 70/178 (39%), Gaps = 34/178 (19%)
Query: 139 MIGRARTGTGK-TLAFGIPILDK-----IIKFNEKHGRGRNPL----CLVLAPTRELAKQ 188
+ GR GK T + + L+K I +EK N L C++ P L+++
Sbjct: 149 LCGRCVNACGKNTETYAMKFLNKNGKTIIGAEDEKCFDDTNCLLCGQCIIACPVAALSEK 208
Query: 189 VEKEFHESAPSLDTICVYGGTPISHQMRALDYGVDAVVG---TPGRVIDLIKRNALNLSE 245
+D + P H + A+ V A +G G +D+ + L +
Sbjct: 209 ---------SHMDRVKNALNAPEKHVIVAMAPSVRASIGELFNMGFGVDVTGKIYTALRQ 259
Query: 246 VQFVVLDEADQMLSVGFAEDVEV------ILERLPQNRQSMMFSATMPPWIRSLTNKY 297
+ F D++ + F D+ + +++R+ N MF++ P W+R N Y
Sbjct: 260 LGF------DKIFDINFGADMTIMEEATELVQRIENNGPFPMFTSCCPGWVRQAENYY 311
>pdb|4A4Z|A Chain A, Crystal Structure Of The S. Cerevisiae Dexh Helicase Ski2
Bound To Amppnp
Length = 997
Score = 31.6 bits (70), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 41/189 (21%), Positives = 78/189 (41%), Gaps = 24/189 (12%)
Query: 103 KLDISQDIVAALARRGISKLFPIQKAVLEPAMQGRDMIGRARTGTGKTLAFGIPILDKII 162
K++ +++ AR +L QK + QG + A T GKT+ +
Sbjct: 21 KIENFDELIPNPARSWPFELDTFQKEAVYHLEQGDSVFVAAHTSAGKTV---------VA 71
Query: 163 KFNEKHGRGRNPLCLVLAPTRELAKQVEKEFHESAPSLDTICVYGGTPISHQMRALDYGV 222
++ + +P + L+ Q ++F E+ ++ + G I+ L
Sbjct: 72 EYAIAMAHRNMTKTIYTSPIKALSNQKFRDFKETFDDVNIGLITGDVQINPDANCLIMTT 131
Query: 223 DAVVGTPGRVIDLIKRNALNLSEVQFVVLDEA----DQMLSVGFAEDVEVILERLPQNRQ 278
+ + R DLI+ +V+FV+ DE DQ V + E ++ LPQ+ +
Sbjct: 132 EILRSMLYRGADLIR-------DVEFVIFDEVHYVNDQDRGVVWEE----VIIMLPQHVK 180
Query: 279 SMMFSATMP 287
++ SAT+P
Sbjct: 181 FILLSATVP 189
>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 = 31.6 bits (70), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 15/35 (42%), Positives = 23/35 (65%), Gaps = 1/35 (2%)
Query: 386 LSAFRDGRFN-ILIATDVAARGLDVPNVDLIIHYE 419
L AF+ + N +LIAT VA G+D+ +L++ YE
Sbjct: 686 LDAFKTSKDNRLLIATSVADEGIDIVQCNLVVLYE 720
>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 = 31.6 bits (70), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 15/35 (42%), Positives = 23/35 (65%), Gaps = 1/35 (2%)
Query: 386 LSAFRDGRFN-ILIATDVAARGLDVPNVDLIIHYE 419
L AF+ + N +LIAT VA G+D+ +L++ YE
Sbjct: 686 LDAFKTSKDNRLLIATSVADEGIDIVQCNLVVLYE 720
>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 = 31.6 bits (70), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 15/35 (42%), Positives = 23/35 (65%), Gaps = 1/35 (2%)
Query: 386 LSAFRDGRFN-ILIATDVAARGLDVPNVDLIIHYE 419
L AF+ + N +LIAT VA G+D+ +L++ YE
Sbjct: 445 LDAFKTSKDNRLLIATSVADEGIDIVQCNLVVLYE 479
>pdb|3B6E|A Chain A, Crystal Structure Of Human Dech-Box Rna Helicase Mda5
(Melanoma Differentiation-Associated Protein 5),
Dech-Domain
Length = 216
Score = 30.4 bits (67), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 13/30 (43%), Positives = 21/30 (70%)
Query: 121 KLFPIQKAVLEPAMQGRDMIGRARTGTGKT 150
+L P Q V +PA++G+++I TG+GKT
Sbjct: 33 QLRPYQMEVAQPALEGKNIIICLPTGSGKT 62
>pdb|3LLM|A Chain A, Crystal Structure Analysis Of A Rna Helicase
pdb|3LLM|B Chain B, Crystal Structure Analysis Of A Rna Helicase
Length = 235
Score = 28.9 bits (63), Expect = 9.0, Method: Compositional matrix adjust.
Identities = 22/64 (34%), Positives = 31/64 (48%), Gaps = 6/64 (9%)
Query: 103 KLDISQDIVAALARRGISKLFPIQK---AVLEPAMQGRDMIGRARTGTGKTLAFGIPILD 159
+L+ D+ A L R +L P++K +LE Q +I R TG GKT ILD
Sbjct: 43 QLEQDHDLQAILQER---ELLPVKKFESEILEAISQNSVVIIRGATGCGKTTQVPQFILD 99
Query: 160 KIIK 163
I+
Sbjct: 100 DFIQ 103
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
0.318 0.134 0.383
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 14,993,304
Number of Sequences: 62578
Number of extensions: 585807
Number of successful extensions: 1676
Number of sequences better than 100.0: 103
Number of HSP's better than 100.0 without gapping: 88
Number of HSP's successfully gapped in prelim test: 15
Number of HSP's that attempted gapping in prelim test: 1406
Number of HSP's gapped (non-prelim): 129
length of query: 618
length of database: 14,973,337
effective HSP length: 105
effective length of query: 513
effective length of database: 8,402,647
effective search space: 4310557911
effective search space used: 4310557911
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 54 (25.4 bits)