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= 007814
(588 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2I4I|A Chain A, Crystal Structure Of Human Dead-Box Rna Helicase Ddx3x
Length = 417
Score = 292 bits (748), Expect = 4e-79, Method: Compositional matrix adjust.
Identities = 159/416 (38%), Positives = 238/416 (57%), Gaps = 35/416 (8%)
Query: 135 GEDIPPPIKNFKDMRFPEPILKKLKAKGIVQPTPIQVQGLPVVLSGRDMIGIAFTGSGKT 194
G + PP I++F D+ E I+ ++ +PTP+Q +P++ RD++ A TGSGKT
Sbjct: 7 GNNCPPHIESFSDVEMGEIIMGNIELTRYTRPTPVQKHAIPIIKEKRDLMACAQTGSGKT 66
Query: 195 LVFVLXXXXXXXXXXXXXXXVPGEG----------------PFCLIVCPSRELARQTYEV 238
F+L PGE P L++ P+RELA Q YE
Sbjct: 67 AAFLLPILSQIYSDG------PGEALRAMKENGRYGRRKQYPISLVLAPTRELAVQIYEE 120
Query: 239 VEQFLTPMRDAGYPDLRTLLCIGGVDMRSQLEVVKRGVHIVVATPGRLKDMLAKKKMNLD 298
+F R +R + GG D+ Q+ ++RG H++VATPGRL DM+ + K+ LD
Sbjct: 121 ARKFSYRSR------VRPCVVYGGADIGQQIRDLERGCHLLVATPGRLVDMMERGKIGLD 174
Query: 299 NCRYLTLDEADRLVDLGFEDDIREVFDHF----KAQRQTLLFSATMPTKIQNFARSALVK 354
C+YL LDEADR++D+GFE IR + + K R T++FSAT P +IQ AR L +
Sbjct: 175 FCKYLVLDEADRMLDMGFEPQIRRIVEQDTMPPKGVRHTMMFSATFPKEIQMLARDFLDE 234
Query: 355 PVTVNVGRAGAANLDVIQEVEYVKQEAKIVYLLECLQKTPPP--VLIFCENKADVDDIHE 412
+ + VGR G+ + ++ Q+V +V++ K +LL+ L T L+F E K D + +
Sbjct: 235 YIFLAVGRVGSTSENITQKVVWVEESDKRSFLLDLLNATGKDSLTLVFVETKKGADSLED 294
Query: 413 YLLLKGVEAVAVHGGKDQEEREYAISSFKAGKKDVLVATDVASKGLDFPDIQHVINYDMP 472
+L +G ++HG + Q +RE A+ F++GK +LVAT VA++GLD +++HVIN+D+P
Sbjct: 295 FLYHEGYACTSIHGDRSQRDREEALHQFRSGKSPILVATAVAARGLDISNVKHVINFDLP 354
Query: 473 AEIENYVHRIGRTGRCGKTGIATTFINKNQSETTLLDLKHLLQEAKQRIPPVLAEL 528
++IE YVHRIGRTGR G G+AT+F N+ T DL LL EAKQ +P L +
Sbjct: 355 SDIEEYVHRIGRTGRVGNLGLATSFFNERNINIT-KDLLDLLVEAKQEVPSWLENM 409
>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 = 274 bits (701), Expect = 8e-74, Method: Compositional matrix adjust.
Identities = 135/166 (81%), Positives = 146/166 (87%)
Query: 364 GAANLDVIQEVEYVKQEAKIVYLLECLQKTPPPVLIFCENKADVDDIHEYLLLKGVEAVA 423
GAA+LDVIQEVEYVK+EAK+VYLLECLQKTPPPVLIF E KADVD IHEYLLLKGVEAVA
Sbjct: 24 GAASLDVIQEVEYVKEEAKMVYLLECLQKTPPPVLIFAEKKADVDAIHEYLLLKGVEAVA 83
Query: 424 VHGGKDQEEREYAISSFKAGKKDVLVATDVASKGLDFPDIQHVINYDMPAEIENYVHRIG 483
+HGGKDQEER AI +F+ GKKDVLVATDVASKGLDFP IQHVINYDMP EIENYVHRIG
Sbjct: 84 IHGGKDQEERTKAIEAFREGKKDVLVATDVASKGLDFPAIQHVINYDMPEEIENYVHRIG 143
Query: 484 RTGRCGKTGIATTFINKNQSETTLLDLKHLLQEAKQRIPPVLAELN 529
RTG G TGIATTFINK E+ L+DLK LL EAKQ++PPVL L+
Sbjct: 144 RTGCSGNTGIATTFINKACDESVLMDLKALLLEAKQKVPPVLQVLH 189
>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 = 271 bits (694), Expect = 5e-73, Method: Compositional matrix adjust.
Identities = 154/399 (38%), Positives = 220/399 (55%), Gaps = 19/399 (4%)
Query: 133 VDGEDIPPPIKNFKDMRFPEPILKKLKAKGIVQPTPIQVQGLPVVLSGRDMIGIAFTGSG 192
V G D+P PI++F + I+ + G PTPIQ +PV+ SGRD++ A TGSG
Sbjct: 46 VTGSDVPQPIQHFTSADLRDIIIDNVNKSGYKIPTPIQKCSIPVISSGRDLMACAQTGSG 105
Query: 193 KTLVFVLXXXXXXXXXXXXXXXVPGE----GPFCLIVCPSRELARQTYEVVEQFLTPMRD 248
KT F+L P E P +IV P+RELA Q + +F
Sbjct: 106 KTAAFLLPILSKLLED-------PHELELGRPQVVIVSPTRELAIQIFNEARKF------ 152
Query: 249 AGYPDLRTLLCIGGVDMRSQLEVVKRGVHIVVATPGRLKDMLAKKKMNLDNCRYLTLDEA 308
A L+ + GG R Q E + RG H+V+ATPGRL D + + + ++ R++ LDEA
Sbjct: 153 AFESYLKIGIVYGGTSFRHQNECITRGCHVVIATPGRLLDFVDRTFITFEDTRFVVLDEA 212
Query: 309 DRLVDLGFEDDIREVFDH--FKAQRQTLLFSATMPTKIQNFARSALVKPVTVNVGRAGAA 366
DR++D+GF +D+R + H + + QTL+FSAT P +IQ A L V V +G G A
Sbjct: 213 DRMLDMGFSEDMRRIMTHVTMRPEHQTLMFSATFPEEIQRMAGEFLKNYVFVAIGIVGGA 272
Query: 367 NLDVIQEVEYVKQEAKIVYLLECLQKTPPPVLIFCENKADVDDIHEYLLLKGVEAVAVHG 426
DV Q + V + AK L+E L + ++F E K D + +L K ++HG
Sbjct: 273 CSDVKQTIYEVNKYAKRSKLIEILSEQADGTIVFVETKRGADFLASFLSEKEFPTTSIHG 332
Query: 427 GKDQEEREYAISSFKAGKKDVLVATDVASKGLDFPDIQHVINYDMPAEIENYVHRIGRTG 486
+ Q +RE A+ FK G VL+AT VAS+GLD +I+HVINYDMP++I++YVHRIGRTG
Sbjct: 333 DRLQSQREQALRDFKNGSMKVLIATSVASRGLDIKNIKHVINYDMPSKIDDYVHRIGRTG 392
Query: 487 RCGKTGIATTFINKNQSETTLLDLKHLLQEAKQRIPPVL 525
R G G AT+F + + DL +L+ + Q +P L
Sbjct: 393 RVGNNGRATSFFDPEKDRAIAADLVKILEGSGQTVPDFL 431
>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 = 189 bits (480), Expect = 3e-48, Method: Compositional matrix adjust.
Identities = 120/395 (30%), Positives = 201/395 (50%), Gaps = 22/395 (5%)
Query: 137 DIPPPIKNFKDMRFPEPILKKLKAKGIVQPTPIQVQGLPVVLSGRDMIGIAFTGSGKTLV 196
D+ P F M E +L+ + A G +P+ IQ + + ++ GRD+I + +G+GKT
Sbjct: 35 DVTP---TFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTAT 91
Query: 197 FVLXXXXXXXXXXXXXXXVPGEGPFCLIVCPSRELARQTYEVVEQFLTPMRDAGYPDLRT 256
F + LI+ P+RELA Q +++ L + D Y +++
Sbjct: 92 FSISVLQCLDIQVRETQ--------ALILAPTRELAVQ----IQKGLLALGD--YMNVQC 137
Query: 257 LLCIGGVDMRSQLEVVKRGVHIVVATPGRLKDMLAKKKMNLDNCRYLTLDEADRLVDLGF 316
CIGG ++ + + G H+V TPGR+ DM+ ++ + + L LDEAD +++ GF
Sbjct: 138 HACIGGTNVGEDIRKLDYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGF 197
Query: 317 EDDIREVFDHFKAQRQTLLFSATMPTKIQNFARSALVKPVTVNVGRAGAANLDVIQE--V 374
++ I +V+ + Q +L SAT+P +I + P+ + V R L+ I++ V
Sbjct: 198 KEQIYDVYRYLPPATQVVLISATLPHEILEMTNKFMTDPIRILVKR-DELTLEGIKQFFV 256
Query: 375 EYVKQEAKIVYLLECLQK-TPPPVLIFCENKADVDDIHEYLLLKGVEAVAVHGGKDQEER 433
++E K L + T +IFC K VD + E + ++HG Q+ER
Sbjct: 257 AVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKER 316
Query: 434 EYAISSFKAGKKDVLVATDVASKGLDFPDIQHVINYDMPAEIENYVHRIGRTGRCGKTGI 493
E + F++G VL++TDV ++GLD P + +INYD+P E Y+HRIGR+GR G+ G+
Sbjct: 317 ESIMKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGV 376
Query: 494 ATTFINKNQSETTLLDLKHLLQEAKQRIPPVLAEL 528
A F+ KN L D++ +P +A+L
Sbjct: 377 AINFV-KNDDIRILRDIEQYYSTQIDEMPMNVADL 410
>pdb|2XB2|A Chain A, Crystal Structure Of The Core Mago-Y14-Eif4aiii-Barentsz-
Upf3b Assembly Shows How The Ejc Is Bridged To The Nmd
Machinery
pdb|2XB2|X Chain X, Crystal Structure Of The Core Mago-Y14-Eif4aiii-Barentsz-
Upf3b Assembly Shows How The Ejc Is Bridged To The Nmd
Machinery
Length = 411
Score = 189 bits (480), Expect = 4e-48, Method: Compositional matrix adjust.
Identities = 120/395 (30%), Positives = 201/395 (50%), Gaps = 22/395 (5%)
Query: 137 DIPPPIKNFKDMRFPEPILKKLKAKGIVQPTPIQVQGLPVVLSGRDMIGIAFTGSGKTLV 196
D+ P F M E +L+ + A G +P+ IQ + + ++ GRD+I + +G+GKT
Sbjct: 35 DVTP---TFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTAT 91
Query: 197 FVLXXXXXXXXXXXXXXXVPGEGPFCLIVCPSRELARQTYEVVEQFLTPMRDAGYPDLRT 256
F + LI+ P+RELA Q +++ L + D Y +++
Sbjct: 92 FSISVLQCLDIQVRETQ--------ALILAPTRELAVQ----IQKGLLALGD--YMNVQC 137
Query: 257 LLCIGGVDMRSQLEVVKRGVHIVVATPGRLKDMLAKKKMNLDNCRYLTLDEADRLVDLGF 316
CIGG ++ + + G H+V TPGR+ DM+ ++ + + L LDEAD +++ GF
Sbjct: 138 HACIGGTNVGEDIRKLDYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGF 197
Query: 317 EDDIREVFDHFKAQRQTLLFSATMPTKIQNFARSALVKPVTVNVGRAGAANLDVIQE--V 374
++ I +V+ + Q +L SAT+P +I + P+ + V R L+ I++ V
Sbjct: 198 KEQIYDVYRYLPPATQVVLISATLPHEILEMTNKFMTDPIRILVKR-DELTLEGIKQFFV 256
Query: 375 EYVKQEAKIVYLLECLQK-TPPPVLIFCENKADVDDIHEYLLLKGVEAVAVHGGKDQEER 433
++E K L + T +IFC K VD + E + ++HG Q+ER
Sbjct: 257 AVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKER 316
Query: 434 EYAISSFKAGKKDVLVATDVASKGLDFPDIQHVINYDMPAEIENYVHRIGRTGRCGKTGI 493
E + F++G VL++TDV ++GLD P + +INYD+P E Y+HRIGR+GR G+ G+
Sbjct: 317 ESIMKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGV 376
Query: 494 ATTFINKNQSETTLLDLKHLLQEAKQRIPPVLAEL 528
A F+ KN L D++ +P +A+L
Sbjct: 377 AINFV-KNDDIRILRDIEQYYSTQIDEMPMNVADL 410
>pdb|2J0U|B Chain B, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 189 bits (480), Expect = 4e-48, Method: Compositional matrix adjust.
Identities = 118/388 (30%), Positives = 199/388 (51%), Gaps = 19/388 (4%)
Query: 144 NFKDMRFPEPILKKLKAKGIVQPTPIQVQGLPVVLSGRDMIGIAFTGSGKTLVFVLXXXX 203
F M E +L+ + A G +P+ IQ + + ++ GRD+I + +G+GKT F +
Sbjct: 2 TFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSVSVLQ 61
Query: 204 XXXXXXXXXXXVPGEGPFCLIVCPSRELARQTYEVVEQFLTPMRDAGYPDLRTLLCIGGV 263
LI+ P+RELA Q V++ L + D Y ++++ CIGG
Sbjct: 62 CLDIQVRETQ--------ALILAPTRELAVQ----VQKGLLALGD--YMNVQSHACIGGT 107
Query: 264 DMRSQLEVVKRGVHIVVATPGRLKDMLAKKKMNLDNCRYLTLDEADRLVDLGFEDDIREV 323
++ + + G H+V TPGR+ DM+ ++ + + L LDEAD +++ GF++ I +V
Sbjct: 108 NVGEDIRKLDYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDV 167
Query: 324 FDHFKAQRQTLLFSATMPTKIQNFARSALVKPVTVNVGRAGAANLDVIQE--VEYVKQEA 381
+ + Q +L SAT+P ++ + P+ + V R L+ I++ V ++E
Sbjct: 168 YRYLPPATQVVLISATLPHEVLEMTNKFMTDPIRILVKR-DELTLEGIKQFFVAVEREEW 226
Query: 382 KIVYLLECLQK-TPPPVLIFCENKADVDDIHEYLLLKGVEAVAVHGGKDQEEREYAISSF 440
K L + T +IFC K VD + E + ++HG Q+ERE + F
Sbjct: 227 KFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEF 286
Query: 441 KAGKKDVLVATDVASKGLDFPDIQHVINYDMPAEIENYVHRIGRTGRCGKTGIATTFINK 500
++G VL++TDV ++GLD P + +INYD+P E Y+HRIGR+GR G+ G+A F+ K
Sbjct: 287 RSGASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAVNFV-K 345
Query: 501 NQSETTLLDLKHLLQEAKQRIPPVLAEL 528
N L D++ +P +A+L
Sbjct: 346 NDDIRVLRDIEQYYSTQIDEMPMNVADL 373
>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 = 189 bits (480), Expect = 4e-48, Method: Compositional matrix adjust.
Identities = 120/395 (30%), Positives = 201/395 (50%), Gaps = 22/395 (5%)
Query: 137 DIPPPIKNFKDMRFPEPILKKLKAKGIVQPTPIQVQGLPVVLSGRDMIGIAFTGSGKTLV 196
D+ P F M E +L+ + A G +P+ IQ + + ++ GRD+I + +G+GKT
Sbjct: 34 DVTP---TFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTAT 90
Query: 197 FVLXXXXXXXXXXXXXXXVPGEGPFCLIVCPSRELARQTYEVVEQFLTPMRDAGYPDLRT 256
F + LI+ P+RELA Q +++ L + D Y +++
Sbjct: 91 FSISVLQCLDIQVRETQ--------ALILAPTRELAVQ----IQKGLLALGD--YMNVQC 136
Query: 257 LLCIGGVDMRSQLEVVKRGVHIVVATPGRLKDMLAKKKMNLDNCRYLTLDEADRLVDLGF 316
CIGG ++ + + G H+V TPGR+ DM+ ++ + + L LDEAD +++ GF
Sbjct: 137 HACIGGTNVGEDIRKLDYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGF 196
Query: 317 EDDIREVFDHFKAQRQTLLFSATMPTKIQNFARSALVKPVTVNVGRAGAANLDVIQE--V 374
++ I +V+ + Q +L SAT+P +I + P+ + V R L+ I++ V
Sbjct: 197 KEQIYDVYRYLPPATQVVLISATLPHEILEMTNKFMTDPIRILVKR-DELTLEGIKQFFV 255
Query: 375 EYVKQEAKIVYLLECLQK-TPPPVLIFCENKADVDDIHEYLLLKGVEAVAVHGGKDQEER 433
++E K L + T +IFC K VD + E + ++HG Q+ER
Sbjct: 256 AVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKER 315
Query: 434 EYAISSFKAGKKDVLVATDVASKGLDFPDIQHVINYDMPAEIENYVHRIGRTGRCGKTGI 493
E + F++G VL++TDV ++GLD P + +INYD+P E Y+HRIGR+GR G+ G+
Sbjct: 316 ESIMKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGV 375
Query: 494 ATTFINKNQSETTLLDLKHLLQEAKQRIPPVLAEL 528
A F+ KN L D++ +P +A+L
Sbjct: 376 AINFV-KNDDIRILRDIEQYYSTQIDEMPMNVADL 409
>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 = 189 bits (480), Expect = 4e-48, Method: Compositional matrix adjust.
Identities = 118/360 (32%), Positives = 182/360 (50%), Gaps = 21/360 (5%)
Query: 144 NFKDMRFPEPILKKLKAKGIVQPTPIQVQGLPVVLSGR-DMIGIAFTGSGKTLVFVLXXX 202
NF ++ + IL ++ KG +PT IQ + +P+ L+ +++ A TGSGKT F +
Sbjct: 7 NFNELNLSDNILNAIRNKGFEKPTDIQXKVIPLFLNDEYNIVAQARTGSGKTASFAIPLI 66
Query: 203 XXXXXXXXXXXXVPGEGPFCLIVCPSRELARQTYEVVEQFLTPMRDAGYPDLRTLLCIGG 262
G +I+ P+RELA Q + +E G +L+ GG
Sbjct: 67 ELVN---------ENNGIEAIILTPTRELAIQVADEIESL------KGNKNLKIAKIYGG 111
Query: 263 VDMRSQLEVVKRGVHIVVATPGRLKDMLAKKKMNLDNCRYLTLDEADRLVDLGFEDDIRE 322
+ Q++ +K +IVV TPGR+ D + + +NL N +Y LDEAD ++ GF D+ +
Sbjct: 112 KAIYPQIKALK-NANIVVGTPGRILDHINRGTLNLKNVKYFILDEADEXLNXGFIKDVEK 170
Query: 323 VFDHFKAQRQTLLFSATMPTKIQNFARSALVKPVTVNVGRAGAANLDVIQEVEYVKQEAK 382
+ + ++ LLFSAT P +I N A+ + N ++ Q V + +
Sbjct: 171 ILNACNKDKRILLFSATXPREILNLAKKYXGDYSFI----KAKINANIEQSYVEVNENER 226
Query: 383 IVYLLECLQKTPPPVLIFCENKADVDDIHEYLLLKGVEAVAVHGGKDQEEREYAISSFKA 442
L L+ L+FC+ K D ++ L G +A A+HG Q +RE I FK
Sbjct: 227 FEALCRLLKNKEFYGLVFCKTKRDTKELASXLRDIGFKAGAIHGDLSQSQREKVIRLFKQ 286
Query: 443 GKKDVLVATDVASKGLDFPDIQHVINYDMPAEIENYVHRIGRTGRCGKTGIATTFINKNQ 502
K +L+ATDV S+G+D D+ VINY +P E+Y HRIGRTGR GK G A + IN+ +
Sbjct: 287 KKIRILIATDVXSRGIDVNDLNCVINYHLPQNPESYXHRIGRTGRAGKKGKAISIINRRE 346
>pdb|2J0U|A Chain A, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 189 bits (479), Expect = 5e-48, Method: Compositional matrix adjust.
Identities = 119/388 (30%), Positives = 198/388 (51%), Gaps = 19/388 (4%)
Query: 144 NFKDMRFPEPILKKLKAKGIVQPTPIQVQGLPVVLSGRDMIGIAFTGSGKTLVFVLXXXX 203
F M E +L+ + A G +P+ IQ + + ++ GRD+I + +G+GKT F +
Sbjct: 2 TFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSVSVLQ 61
Query: 204 XXXXXXXXXXXVPGEGPFCLIVCPSRELARQTYEVVEQFLTPMRDAGYPDLRTLLCIGGV 263
LI+ P+RELA Q V++ L + D Y +++ CIGG
Sbjct: 62 CLDIQVRETQ--------ALILAPTRELAVQ----VQKGLLALGD--YMNVQCHACIGGT 107
Query: 264 DMRSQLEVVKRGVHIVVATPGRLKDMLAKKKMNLDNCRYLTLDEADRLVDLGFEDDIREV 323
++ + + G H+V TPGR+ DM+ ++ + + L LDEAD +++ GF++ I +V
Sbjct: 108 NVGEDIRKLDYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDV 167
Query: 324 FDHFKAQRQTLLFSATMPTKIQNFARSALVKPVTVNVGRAGAANLDVIQE--VEYVKQEA 381
+ + Q +L SAT+P +I + P+ + V R L+ I++ V ++E
Sbjct: 168 YRYLPPATQVVLISATLPHEILEMTNKFMTDPIRILVKR-DELTLEGIKQFFVAVEREEW 226
Query: 382 KIVYLLECLQK-TPPPVLIFCENKADVDDIHEYLLLKGVEAVAVHGGKDQEEREYAISSF 440
K L + T +IFC K VD + E + ++HG Q+ERE + F
Sbjct: 227 KFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEF 286
Query: 441 KAGKKDVLVATDVASKGLDFPDIQHVINYDMPAEIENYVHRIGRTGRCGKTGIATTFINK 500
++G VL++TDV ++GLD P + +INYD+P E Y+HRIGR+GR G+ G+A F+ K
Sbjct: 287 RSGASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAVNFV-K 345
Query: 501 NQSETTLLDLKHLLQEAKQRIPPVLAEL 528
N L D++ +P +A+L
Sbjct: 346 NDDIRVLRDIEQYYSTQIDEMPMNVADL 373
>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 = 189 bits (479), Expect = 5e-48, Method: Compositional matrix adjust.
Identities = 120/395 (30%), Positives = 201/395 (50%), Gaps = 22/395 (5%)
Query: 137 DIPPPIKNFKDMRFPEPILKKLKAKGIVQPTPIQVQGLPVVLSGRDMIGIAFTGSGKTLV 196
D+ P F M E +L+ + A G +P+ IQ + + ++ GRD+I + +G+GKT
Sbjct: 13 DVTP---TFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTAT 69
Query: 197 FVLXXXXXXXXXXXXXXXVPGEGPFCLIVCPSRELARQTYEVVEQFLTPMRDAGYPDLRT 256
F + LI+ P+RELA Q +++ L + D Y +++
Sbjct: 70 FSISVLQCLDIQVRETQ--------ALILAPTRELAVQ----IQKGLLALGD--YMNVQC 115
Query: 257 LLCIGGVDMRSQLEVVKRGVHIVVATPGRLKDMLAKKKMNLDNCRYLTLDEADRLVDLGF 316
CIGG ++ + + G H+V TPGR+ DM+ ++ + + L LDEAD +++ GF
Sbjct: 116 HACIGGTNVGEDIRKLDYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGF 175
Query: 317 EDDIREVFDHFKAQRQTLLFSATMPTKIQNFARSALVKPVTVNVGRAGAANLDVIQE--V 374
++ I +V+ + Q +L SAT+P +I + P+ + V R L+ I++ V
Sbjct: 176 KEQIYDVYRYLPPATQVVLISATLPHEILEMTNKFMTDPIRILVKR-DELTLEGIKQFFV 234
Query: 375 EYVKQEAKIVYLLECLQK-TPPPVLIFCENKADVDDIHEYLLLKGVEAVAVHGGKDQEER 433
++E K L + T +IFC K VD + E + ++HG Q+ER
Sbjct: 235 AVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKER 294
Query: 434 EYAISSFKAGKKDVLVATDVASKGLDFPDIQHVINYDMPAEIENYVHRIGRTGRCGKTGI 493
E + F++G VL++TDV ++GLD P + +INYD+P E Y+HRIGR+GR G+ G+
Sbjct: 295 ESIMKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGV 354
Query: 494 ATTFINKNQSETTLLDLKHLLQEAKQRIPPVLAEL 528
A F+ KN L D++ +P +A+L
Sbjct: 355 AINFV-KNDDIRILRDIEQYYSTQIDEMPMNVADL 388
>pdb|1S2M|A Chain A, Crystal Structure Of The Dead Box Protein Dhh1p
Length = 400
Score = 181 bits (460), Expect = 8e-46, Method: Compositional matrix adjust.
Identities = 112/391 (28%), Positives = 184/391 (47%), Gaps = 20/391 (5%)
Query: 143 KNFKDMRFPEPILKKLKAKGIVQPTPIQVQGLPVVLSGRDMIGIAFTGSGKTLVFVLXXX 202
F+D +L + G +P+PIQ + +PV ++GRD++ A G+GKT FV+
Sbjct: 21 NTFEDFYLKRELLMGIFEAGFEKPSPIQEEAIPVAITGRDILARAKNGTGKTAAFVIPTL 80
Query: 203 XXXXXXXXXXXXVPGEGPFCLIVCPSRELARQTYEVVEQFLTPMRDAGYPDLRTLLCIGG 262
LI+ P+RELA QT +VV + + ++ GG
Sbjct: 81 EKVKPKLNKIQ--------ALIMVPTRELALQTSQVVRTL------GKHCGISCMVTTGG 126
Query: 263 VDMRSQLEVVKRGVHIVVATPGRLKDMLAKKKMNLDNCRYLTLDEADRLVDLGFEDDIRE 322
++R + + VHI+V TPGR+ D+ ++K +L +C +DEAD+++ F+ I +
Sbjct: 127 TNLRDDILRLNETVHILVGTPGRVLDLASRKVADLSDCSLFIMDEADKMLSRDFKTIIEQ 186
Query: 323 VFDHFKAQRQTLLFSATMPTKIQNFARSALVKPVTVNVGRAGAANLDVIQEVEYVKQEAK 382
+ Q+LLFSAT P ++ F L KP +N+ + Q +V++ K
Sbjct: 187 ILSFLPPTHQSLLFSATFPLTVKEFMVKHLHKPYEINLMEELTLK-GITQYYAFVEERQK 245
Query: 383 IVYLLECLQKTP-PPVLIFCENKADVDDIHEYLLLKGVEAVAVHGGKDQEEREYAISSFK 441
+ L K +IFC + V+ + + + G H Q+ER F+
Sbjct: 246 LHCLNTLFSKLQINQAIIFCNSTNRVELLAKKITDLGYSCYYSHARMKQQERNKVFHEFR 305
Query: 442 AGKKDVLVATDVASKGLDFPDIQHVINYDMPAEIENYVHRIGRTGRCGKTGIATTFINKN 501
GK LV +D+ ++G+D + VIN+D P E Y+HRIGR+GR G G+A IN N
Sbjct: 306 QGKVRTLVCSDLLTRGIDIQAVNVVINFDFPKTAETYLHRIGRSGRFGHLGLAINLINWN 365
Query: 502 QSETTLLDLKHLLQEAKQRIPPVLAELNDPM 532
+L + QE I + A ++ +
Sbjct: 366 DR----FNLYKIEQELGTEIAAIPATIDKSL 392
>pdb|4A4D|A Chain A, Crystal Structure Of The N-Terminal Domain Of The Human
Dead-Box Rna Helicase Ddx5 (P68)
Length = 253
Score = 177 bits (450), Expect = 1e-44, Method: Compositional matrix adjust.
Identities = 93/248 (37%), Positives = 138/248 (55%), Gaps = 9/248 (3%)
Query: 114 IRRMSKKACDLIRKQWHIIVDGEDIPPPIKNFKDMRFPEPILKKLKAKGIVQPTPIQVQG 173
+ R + + + R+ I V G + P P+ NF + FP ++ + + +PT IQ QG
Sbjct: 14 LARRTAQEVETYRRSKEITVRGHNCPKPVLNFYEANFPANVMDVIARQNFTEPTAIQAQG 73
Query: 174 LPVVLSGRDMIGIAFTGSGKTLVFVLXXXXXXXXXXXXXXXVPGEGPFCLIVCPSRELAR 233
PV LSG DM+G+A TGSGKTL ++L G+GP CL++ P+RELA+
Sbjct: 74 WPVALSGLDMVGVAQTGSGKTLSYLLPAIVHINHQPFLER---GDGPICLVLAPTRELAQ 130
Query: 234 QTYEVVEQFLTPMRDAGYPDLRTLLCIGGVDMRSQLEVVKRGVHIVVATPGRLKDMLAKK 293
Q +V ++ R L++ GG Q+ ++RGV I +ATPGRL D L
Sbjct: 131 QVQQVAAEYCRACR------LKSTCIYGGAPKGPQIRDLERGVEICIATPGRLIDFLECG 184
Query: 294 KMNLDNCRYLTLDEADRLVDLGFEDDIREVFDHFKAQRQTLLFSATMPTKIQNFARSALV 353
K NL YL LDEADR++D+GFE IR++ D + RQTL++SAT P +++ A L
Sbjct: 185 KTNLRRTTYLVLDEADRMLDMGFEPQIRKIVDQIRPDRQTLMWSATWPKEVRQLAEDFLK 244
Query: 354 KPVTVNVG 361
+ +N+G
Sbjct: 245 DYIHINIG 252
>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 = 176 bits (446), Expect = 3e-44, Method: Compositional matrix adjust.
Identities = 92/236 (38%), Positives = 133/236 (56%), Gaps = 9/236 (3%)
Query: 126 RKQWHIIVDGEDIPPPIKNFKDMRFPEPILKKLKAKGIVQPTPIQVQGLPVVLSGRDMIG 185
R+ I V G + P P+ NF + FP ++ + + +PT IQ QG PV LSG DM+G
Sbjct: 12 RRSKEITVRGHNCPKPVLNFYEANFPANVMDVIARQNFTEPTAIQAQGWPVALSGLDMVG 71
Query: 186 IAFTGSGKTLVFVLXXXXXXXXXXXXXXXVPGEGPFCLIVCPSRELARQTYEVVEQFLTP 245
+A TGSGKTL ++L G+GP CL++ P+RELA+Q +V ++
Sbjct: 72 VAQTGSGKTLSYLLPAIVHINHQPFLER---GDGPICLVLAPTRELAQQVQQVAAEYCRA 128
Query: 246 MRDAGYPDLRTLLCIGGVDMRSQLEVVKRGVHIVVATPGRLKDMLAKKKMNLDNCRYLTL 305
R L++ GG Q+ ++RGV I +ATPGRL D L K NL YL L
Sbjct: 129 CR------LKSTCIYGGAPKGPQIRDLERGVEICIATPGRLIDFLECGKTNLRRTTYLVL 182
Query: 306 DEADRLVDLGFEDDIREVFDHFKAQRQTLLFSATMPTKIQNFARSALVKPVTVNVG 361
DEADR++D+GFE IR++ D + RQTL++SAT P +++ A L + +N+G
Sbjct: 183 DEADRMLDMGFEPQIRKIVDQIRPDRQTLMWSATWPKEVRQLAEDFLKDYIHINIG 238
>pdb|3EIQ|A Chain A, Crystal Structure Of Pdcd4-eif4a
pdb|3EIQ|D Chain D, Crystal Structure Of Pdcd4-eif4a
Length = 414
Score = 173 bits (438), Expect = 3e-43, Method: Compositional matrix adjust.
Identities = 120/409 (29%), Positives = 210/409 (51%), Gaps = 29/409 (7%)
Query: 124 LIRKQWHIIVDGEDIPPPIKNFKDMRFPEPILKKLKAKGIVQPTPIQVQGLPVVLSGRDM 183
+I W+ IVD +F DM E +L+ + A G +P+ IQ + + + G D+
Sbjct: 30 VIESNWNEIVD---------SFDDMNLSESLLRGIYAYGFEKPSAIQQRAILPCIKGYDV 80
Query: 184 IGIAFTGSGKTLVFVLXXXXXXXXXXXXXXXVPGEGPFCLIVCPSRELARQTYEVVEQFL 243
I A +G+GKT F + L++ P+RELA+Q +VV
Sbjct: 81 IAQAQSGTGKTATFAISILQQIELDLKATQ--------ALVLAPTRELAQQIQKVV---- 128
Query: 244 TPMRDAGYPDLRTLLCIGGVDMRSQLEVVK-RGVHIVVATPGRLKDMLAKKKMNLDNCRY 302
M Y CIGG ++R++++ ++ HI+V TPGR+ DML ++ ++ +
Sbjct: 129 --MALGDYMGASCHACIGGTNVRAEVQKLQMEAPHIIVGTPGRVFDMLNRRYLSPKYIKM 186
Query: 303 LTLDEADRLVDLGFEDDIREVFDHFKAQRQTLLFSATMPTKIQNFARSALVKPVTVNVGR 362
LDEAD ++ GF+D I ++F + Q +L SATMP+ + + + P+ + V +
Sbjct: 187 FVLDEADEMLSRGFKDQIYDIFQKLNSNTQVVLLSATMPSDVLEVTKKFMRDPIRILVKK 246
Query: 363 AGAANLDVIQE--VEYVKQEAKIVYLLECLQK-TPPPVLIFCENKADVDDIHEYLLLKGV 419
L+ I++ + ++E K+ L + + T +IF + VD + E + +
Sbjct: 247 E-ELTLEGIRQFYINVEREEWKLDTLCDLYETLTITQAVIFINTRRKVDWLTEKMHARDF 305
Query: 420 EAVAVHGGKDQEEREYAISSFKAGKKDVLVATDVASKGLDFPDIQHVINYDMPAEIENYV 479
A+HG DQ+ER+ + F++G VL+ TD+ ++G+D + VINYD+P ENY+
Sbjct: 306 TVSAMHGDMDQKERDVIMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPTNRENYI 365
Query: 480 HRIGRTGRCGKTGIATTFINKNQSETTLLDLKHLLQEAKQRIPPVLAEL 528
HRIGR GR G+ G+A + + + + TL D++ + + +P +A+L
Sbjct: 366 HRIGRGGRFGRKGVAINMVTE-EDKRTLRDIETFYNTSIEEMPLNVADL 413
>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 = 172 bits (436), Expect = 5e-43, Method: Compositional matrix adjust.
Identities = 120/409 (29%), Positives = 212/409 (51%), Gaps = 29/409 (7%)
Query: 124 LIRKQWHIIVDGEDIPPPIKNFKDMRFPEPILKKLKAKGIVQPTPIQVQGLPVVLSGRDM 183
+I W+ IVD +F DM E +L+ + A G +P+ IQ + + + G D+
Sbjct: 4 VIESNWNEIVD---------SFDDMNLSESLLRGIYAYGFEKPSAIQQRAILPCIKGYDV 54
Query: 184 IGIAFTGSGKTLVFVLXXXXXXXXXXXXXXXVPGEGPFCLIVCPSRELARQTYEVVEQFL 243
I A +G+GKT F + + + L++ P+RELA+Q +VV
Sbjct: 55 IAQAQSGTGKTATFAISILQQIE--------LDLKATQALVLAPTRELAQQIQKVV---- 102
Query: 244 TPMRDAGYPDLRTLLCIGGVDMRSQLEVVK-RGVHIVVATPGRLKDMLAKKKMNLDNCRY 302
M Y CIGG ++R++++ ++ HI+V TPGR+ DML ++ ++ +
Sbjct: 103 --MALGDYMGASCHACIGGTNVRAEVQKLQMEAPHIIVGTPGRVFDMLNRRYLSPKYIKM 160
Query: 303 LTLDEADRLVDLGFEDDIREVFDHFKAQRQTLLFSATMPTKIQNFARSALVKPVTVNVGR 362
LDEAD ++ GF+D I ++F + Q +L SATMP+ + + + P+ + V +
Sbjct: 161 FVLDEADEMLSRGFKDQIYDIFQKLNSNTQVVLLSATMPSDVLEVTKKFMRDPIRILVKK 220
Query: 363 AGAANLDVIQE--VEYVKQEAKIVYLLECLQK-TPPPVLIFCENKADVDDIHEYLLLKGV 419
L+ I++ + ++E K+ L + + T +IF + VD + E + +
Sbjct: 221 E-ELTLEGIRQFYINVEREEWKLDTLCDLYETLTITQAVIFINTRRKVDWLTEKMHARDF 279
Query: 420 EAVAVHGGKDQEEREYAISSFKAGKKDVLVATDVASKGLDFPDIQHVINYDMPAEIENYV 479
A+HG DQ+ER+ + F++G VL+ TD+ ++G+D + VINYD+P ENY+
Sbjct: 280 TVSAMHGDMDQKERDVIMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPTNRENYI 339
Query: 480 HRIGRTGRCGKTGIATTFINKNQSETTLLDLKHLLQEAKQRIPPVLAEL 528
HRIGR GR G+ G+A + + + + TL D++ + + +P +A+L
Sbjct: 340 HRIGRGGRFGRKGVAINMVTE-EDKRTLRDIETFYNTSIEEMPLNVADL 387
>pdb|1XTK|A Chain A, Structure Of Decd To Dead Mutation Of Human Uap56
Length = 390
Score = 171 bits (433), Expect = 1e-42, Method: Compositional matrix adjust.
Identities = 113/380 (29%), Positives = 196/380 (51%), Gaps = 23/380 (6%)
Query: 139 PPPIKNFKDMRFPEPILKKLKAKGIVQPTPIQVQGLPVVLSGRDMIGIAFTGSGKTLVFV 198
P + F+D +L+ + G P+ +Q + +P + G D++ A +G GKT VFV
Sbjct: 3 PGHMSGFRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFV 62
Query: 199 LXXXXXXXXXXXXXXXVPGEGPFCLIVCPSRELARQTYEVVEQFLTPMRDAGYPDLRTLL 258
L V G+ L++C +RELA Q + E+F M P+++ +
Sbjct: 63 LATLQQLEP-------VTGQVS-VLVMCHTRELAFQISKEYERFSKYM-----PNVKVAV 109
Query: 259 CIGGVDMRSQLEVVKRGV-HIVVATPGRLKDMLAKKKMNLDNCRYLTLDEADRLVD-LGF 316
GG+ ++ EV+K+ HIVV TPGR+ + K +NL + ++ LDEAD++++ L
Sbjct: 110 FFGGLSIKKDEEVLKKNCPHIVVGTPGRILALARNKSLNLKHIKHFILDEADKMLEQLDM 169
Query: 317 EDDIREVFDHFKAQRQTLLFSATMPTKIQNFARSALVKPVTVNVGRAGAANLDVIQEVEY 376
D++E+F ++Q ++FSAT+ +I+ R + P+ + V L +Q+ Y
Sbjct: 170 RRDVQEIFRMTPHEKQVMMFSATLSKEIRPVCRKFMQDPMEIFVDDETKLTLHGLQQY-Y 228
Query: 377 VK-----QEAKIVYLLECLQKTPPPVLIFCENKADVDDIHEYLLLKGVEAVAVHGGKDQE 431
VK + K+ LL+ L+ V+IF ++ + + L+ + A+A+H G QE
Sbjct: 229 VKLKDNEKNRKLFDLLDVLEFNQ--VVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQE 286
Query: 432 EREYAISSFKAGKKDVLVATDVASKGLDFPDIQHVINYDMPAEIENYVHRIGRTGRCGKT 491
ER FK ++ +LVAT++ +G+D + NYDMP + + Y+HR+ R GR G
Sbjct: 287 ERLSRYQQFKDFQRRILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTK 346
Query: 492 GIATTFINKNQSETTLLDLK 511
G+A TF++ L D++
Sbjct: 347 GLAITFVSDENDAKILNDVQ 366
>pdb|1XTI|A Chain A, Structure Of Wildtype Human Uap56
Length = 391
Score = 167 bits (424), Expect = 1e-41, Method: Compositional matrix adjust.
Identities = 111/374 (29%), Positives = 193/374 (51%), Gaps = 23/374 (6%)
Query: 145 FKDMRFPEPILKKLKAKGIVQPTPIQVQGLPVVLSGRDMIGIAFTGSGKTLVFVLXXXXX 204
F+D +L+ + G P+ +Q + +P + G D++ A +G GKT VFVL
Sbjct: 10 FRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQ 69
Query: 205 XXXXXXXXXXVPGEGPFCLIVCPSRELARQTYEVVEQFLTPMRDAGYPDLRTLLCIGGVD 264
V G+ L++C +RELA Q + E+F M P+++ + GG+
Sbjct: 70 LEP-------VTGQVS-VLVMCHTRELAFQISKEYERFSKYM-----PNVKVAVFFGGLS 116
Query: 265 MRSQLEVVKRGV-HIVVATPGRLKDMLAKKKMNLDNCRYLTLDEADRLVD-LGFEDDIRE 322
++ EV+K+ HIVV TPGR+ + K +NL + ++ LDE D++++ L D++E
Sbjct: 117 IKKDEEVLKKNCPHIVVGTPGRILALARNKSLNLKHIKHFILDECDKMLEQLDMRRDVQE 176
Query: 323 VFDHFKAQRQTLLFSATMPTKIQNFARSALVKPVTVNVGRAGAANLDVIQEVEYVK---- 378
+F ++Q ++FSAT+ +I+ R + P+ + V L +Q+ YVK
Sbjct: 177 IFRMTPHEKQVMMFSATLSKEIRPVCRKFMQDPMEIFVDDETKLTLHGLQQY-YVKLKDN 235
Query: 379 -QEAKIVYLLECLQKTPPPVLIFCENKADVDDIHEYLLLKGVEAVAVHGGKDQEEREYAI 437
+ K+ LL+ L+ V+IF ++ + + L+ + A+A+H G QEER
Sbjct: 236 EKNRKLFDLLDVLEFNQ--VVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRY 293
Query: 438 SSFKAGKKDVLVATDVASKGLDFPDIQHVINYDMPAEIENYVHRIGRTGRCGKTGIATTF 497
FK ++ +LVAT++ +G+D + NYDMP + + Y+HR+ R GR G G+A TF
Sbjct: 294 QQFKDFQRRILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKGLAITF 353
Query: 498 INKNQSETTLLDLK 511
++ L D++
Sbjct: 354 VSDENDAKILNDVQ 367
>pdb|1XTJ|A Chain A, Structure Of Human Uap56 In Complex With Adp
Length = 386
Score = 167 bits (423), Expect = 1e-41, Method: Compositional matrix adjust.
Identities = 111/374 (29%), Positives = 193/374 (51%), Gaps = 23/374 (6%)
Query: 145 FKDMRFPEPILKKLKAKGIVQPTPIQVQGLPVVLSGRDMIGIAFTGSGKTLVFVLXXXXX 204
F+D +L+ + G P+ +Q + +P + G D++ A +G GKT VFVL
Sbjct: 10 FRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQ 69
Query: 205 XXXXXXXXXXVPGEGPFCLIVCPSRELARQTYEVVEQFLTPMRDAGYPDLRTLLCIGGVD 264
V G+ L++C +RELA Q + E+F M P+++ + GG+
Sbjct: 70 LEP-------VTGQVS-VLVMCHTRELAFQISKEYERFSKYM-----PNVKVAVFFGGLS 116
Query: 265 MRSQLEVVKRGV-HIVVATPGRLKDMLAKKKMNLDNCRYLTLDEADRLVD-LGFEDDIRE 322
++ EV+K+ HIVV TPGR+ + K +NL + ++ LDE D++++ L D++E
Sbjct: 117 IKKDEEVLKKNCPHIVVGTPGRILALARNKSLNLKHIKHFILDECDKMLEQLDMRRDVQE 176
Query: 323 VFDHFKAQRQTLLFSATMPTKIQNFARSALVKPVTVNVGRAGAANLDVIQEVEYVK---- 378
+F ++Q ++FSAT+ +I+ R + P+ + V L +Q+ YVK
Sbjct: 177 IFRMTPHEKQVMMFSATLSKEIRPVCRKFMQDPMEIFVDDETKLTLHGLQQY-YVKLKDN 235
Query: 379 -QEAKIVYLLECLQKTPPPVLIFCENKADVDDIHEYLLLKGVEAVAVHGGKDQEEREYAI 437
+ K+ LL+ L+ V+IF ++ + + L+ + A+A+H G QEER
Sbjct: 236 EKNRKLFDLLDVLEFNQ--VVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRY 293
Query: 438 SSFKAGKKDVLVATDVASKGLDFPDIQHVINYDMPAEIENYVHRIGRTGRCGKTGIATTF 497
FK ++ +LVAT++ +G+D + NYDMP + + Y+HR+ R GR G G+A TF
Sbjct: 294 QQFKDFQRRILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKGLAITF 353
Query: 498 INKNQSETTLLDLK 511
++ L D++
Sbjct: 354 VSDENDAKILNDVQ 367
>pdb|2Z0M|A Chain A, Crystal Structure Of Hypothetical Atp-Dependent Rna
Helicase From Sulfolobus Tokodaii
Length = 337
Score = 164 bits (414), Expect = 2e-40, Method: Compositional matrix adjust.
Identities = 113/350 (32%), Positives = 182/350 (52%), Gaps = 35/350 (10%)
Query: 152 EPILKKLKAKGIVQPTPIQVQGLPVVLSGRDMIGIAFTGSGKTLVFVLXXXXXXXXXXXX 211
E I + ++ G T +Q + +P++L G++++ A TGSGKT + +
Sbjct: 3 EKIEQAIREMGFKNFTEVQSKTIPLMLQGKNVVVRAKTGSGKTAAYAIPILEL------- 55
Query: 212 XXXVPGEGPFCLIVCPSRELARQTYEVVEQFLTPMRDAG-YPDLRTLLCIGGVDMRSQLE 270
G L+V P+REL RQ + +RD G Y D + GG+ ++Q+
Sbjct: 56 -------GMKSLVVTPTRELTRQV-------ASHIRDIGRYMDTKVAEVYGGMPYKAQIN 101
Query: 271 VVKRGVHIVVATPGRLKDMLAKKKMNLDNCRYLTLDEADRLVDLGFEDDIREVFDHFKAQ 330
V R IVVATPGRL D+ +K ++L + + +DEAD + ++GF DDI+ + +
Sbjct: 102 RV-RNADIVVATPGRLLDLWSKGVIDLSSFEIVIIDEADLMFEMGFIDDIKIILAQTSNR 160
Query: 331 RQTLLFSATMPTKIQNFARSALVKPVTVNVGRAGAANLDVIQEVEYVKQE--AKIVYLLE 388
+ T LFSAT+P +I+ + + + G AN++ + +VK + +K+ L E
Sbjct: 161 KITGLFSATIPEEIRKVVKDFITNYEEIEAC-IGLANVE--HKFVHVKDDWRSKVQALRE 217
Query: 389 CLQKTPPPVLIFCENKADVDDIHEYLLLKGVEAVAVHGGKDQEEREYAISSFKAGKKDVL 448
K V++F + V + A+ + G Q R I +F+ G+ D+L
Sbjct: 218 NKDK---GVIVFVRTRNRVAKLVRLF----DNAIELRGDLPQSVRNRNIDAFREGEYDML 270
Query: 449 VATDVASKGLDFPDIQHVINYDMPAEIENYVHRIGRTGRCGKTGIATTFI 498
+ TDVAS+GLD P ++ VIN+D P ++ Y+HRIGRTGR G+ G A TFI
Sbjct: 271 ITTDVASRGLDIPLVEKVINFDAPQDLRTYIHRIGRTGRMGRKGEAITFI 320
>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 = 156 bits (395), Expect = 3e-38, Method: Compositional matrix adjust.
Identities = 115/392 (29%), Positives = 193/392 (49%), Gaps = 24/392 (6%)
Query: 142 IKNFKDMRFPEPILKKLKAKGIVQPTPIQVQGLPVVLSGRDMIGIAFTGSGKTLVFVLXX 201
+ F DM E +L+ + G +P+ IQ + + ++ G D++ A +G+GKT F +
Sbjct: 21 VYKFDDMELDENLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAA 80
Query: 202 XXXXXXXXXXXXXVPGEGPFCLIVCPSRELARQTYEVVEQFLTPMRDAGYPDLRTLLCIG 261
+ P L++ P+RELA Q +VV M A + D++ CIG
Sbjct: 81 LQRIDTSV--------KAPQALMLAPTRELALQIQKVV------MALAFHMDIKVHACIG 126
Query: 262 GVDMRSQLEVVKRGVHIVVATPGRLKDMLAKKKMNLDNCRYLTLDEADRLVDLGFEDDIR 321
G E + R IVV TPGR+ D + +++ D + LDEAD ++ GF++ I
Sbjct: 127 GTSFVEDAEGL-RDAQIVVGTPGRVFDNIQRRRFRTDKIKMFILDEADEMLSSGFKEQIY 185
Query: 322 EVFDHFKAQRQTLLFSATMPTKIQNFARSALVKPVTVNVGRAGAANLDVIQEVEYVKQEA 381
++F Q +L SATMP + + PV + V + L+ I++ YV E
Sbjct: 186 QIFTLLPPTTQVVLLSATMPNDVLEVTTKFMRNPVRILV-KKDELTLEGIKQF-YVNVEE 243
Query: 382 KIVYLLECLQKTPPPV-----LIFCENKADVDDIHEYLLLKGVEAVAVHGGKDQEEREYA 436
+ Y ECL + +IFC + V+++ L A++ Q+ER+
Sbjct: 244 E-EYKYECLTDLYDSISVTQAVIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTI 302
Query: 437 ISSFKAGKKDVLVATDVASKGLDFPDIQHVINYDMPAEIENYVHRIGRTGRCGKTGIATT 496
+ F++G +L++TD+ ++G+D + VINYD+PA ENY+HRIGR GR G+ G+A
Sbjct: 303 MKEFRSGSSRILISTDLLARGIDVQQVSLVINYDLPANKENYIHRIGRGGRFGRKGVAIN 362
Query: 497 FINKNQSETTLLDLKHLLQEAKQRIPPVLAEL 528
F+ N+ + +L+ + +P +A L
Sbjct: 363 FVT-NEDVGAMRELEKFYSTQIEELPSDIATL 393
>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 = 154 bits (389), Expect = 1e-37, Method: Compositional matrix adjust.
Identities = 88/240 (36%), Positives = 130/240 (54%), Gaps = 15/240 (6%)
Query: 142 IKNFKDMRFPEPILKKLKAKGIVQPTPIQVQGLPVVLSGRDMIGIAFTGSGKTLVFVLXX 201
I+NF +++ I + +PTPIQ +P +L RD++ A TGSGKT F++
Sbjct: 22 IENFDELKLDPTIRNNILLASYQRPTPIQKNAIPAILEHRDIMACAQTGSGKTAAFLIPI 81
Query: 202 XXXXXXXXXXXXXVPGEG-PFCLIVCPSRELARQTYEVVEQFL--TPMRDAGYPDLRTLL 258
P CLI+ P+RELA Q ++F TP LR+ +
Sbjct: 82 INHLVCQDLNQQRYSKTAYPKCLILAPTRELAIQILSESQKFSLNTP--------LRSCV 133
Query: 259 CIGGVDMRSQLEVVKRGVHIVVATPGRLKDMLAKKKMNLDNCRYLTLDEADRLVDLGFED 318
GG D SQ+ V+ G H++VATPGRL D + K K++L+ C+Y+ LDEADR++D+GFE
Sbjct: 134 VYGGADTHSQIREVQMGCHLLVATPGRLVDFIEKNKISLEFCKYIVLDEADRMLDMGFEP 193
Query: 319 DIREVFDHFKA----QRQTLLFSATMPTKIQNFARSALVKPVTVNVGRAGAANLDVIQEV 374
IR++ + RQTL+FSAT P +IQ A L + + VGR G+ + + QE+
Sbjct: 194 QIRKIIEESNMPSGINRQTLMFSATFPKEIQKLAADFLYNYIFMTVGRVGSTSDSIKQEI 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 = 152 bits (384), Expect = 5e-37, Method: Compositional matrix adjust.
Identities = 110/378 (29%), Positives = 182/378 (48%), Gaps = 33/378 (8%)
Query: 143 KNFKDMRFPEPILKKLKAKGIVQPTPIQVQGLPVVLSG--RDMIGIAFTGSGKTLVFVLX 200
K+F ++ +LK + A +P+ IQ + LP++L R+MI + +G+GKT F L
Sbjct: 5 KSFDELGLAPELLKGIYAMKFQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAAFSLT 64
Query: 201 XXXXXXXXXXXXXXVPGEGPFCLIVCPSRELARQTYEVVEQFLTPMRDAGYPDLRTLLCI 260
P + + PSRELARQT EVV++ + + + L +
Sbjct: 65 MLTRVNPEDA--------SPQAICLAPSRELARQTLEVVQEM------GKFTKITSQLIV 110
Query: 261 -GGVDMRSQLEVVKRGVHIVVATPGRLKDMLAKKKMNLDNCRYLTLDEADRLVDL-GFED 318
+ Q+ ++V TPG + D++ +K M L + LDEAD ++D G D
Sbjct: 111 PDSFEKNKQI-----NAQVIVGTPGTVLDLMRRKLMQLQKIKIFVLDEADNMLDQQGLGD 165
Query: 319 DIREVFDHFKAQRQTLLFSATMPTKIQNFARSALVKPVTVNVGRAGAANLDVIQEVEY-V 377
V Q +LFSAT ++ +A+ + T+ + + N+D I+++
Sbjct: 166 QCIRVKRFLPKDTQLVLFSATFADAVRQYAKKIVPNANTLEL-QTNEVNVDAIKQLYMDC 224
Query: 378 KQEAKIVYLLECLQ--KTPPPVLIFCENKADVDDIHEYLLLKGVEAVAVHGGKDQEEREY 435
K EA +L L T +IF K + ++ L +G E +HG +ER+
Sbjct: 225 KNEADKFDVLTELYGVMTIGSSIIFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDR 284
Query: 436 AISSFKAGKKDVLVATDVASKGLDFPDIQHVINYDMP------AEIENYVHRIGRTGRCG 489
I F+ G+ VL+ T+V ++G+D P + V+NYD+P A+ Y+HRIGRTGR G
Sbjct: 285 LIDDFREGRSKVLITTNVLARGIDIPTVSMVVNYDLPTLANGQADPATYIHRIGRTGRFG 344
Query: 490 KTGIATTFINKNQSETTL 507
+ G+A +F++ S L
Sbjct: 345 RKGVAISFVHDKNSFNIL 362
>pdb|3PEY|A Chain A, S. Cerevisiae Dbp5 Bound To Rna And Adp Bef3
Length = 395
Score = 152 bits (384), Expect = 5e-37, Method: Compositional matrix adjust.
Identities = 110/378 (29%), Positives = 182/378 (48%), Gaps = 33/378 (8%)
Query: 143 KNFKDMRFPEPILKKLKAKGIVQPTPIQVQGLPVVLSG--RDMIGIAFTGSGKTLVFVLX 200
K+F ++ +LK + A +P+ IQ + LP++L R+MI + +G+GKT F L
Sbjct: 5 KSFDELGLAPELLKGIYAMKFQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAAFSLT 64
Query: 201 XXXXXXXXXXXXXXVPGEGPFCLIVCPSRELARQTYEVVEQFLTPMRDAGYPDLRTLLCI 260
P + + PSRELARQT EVV++ + + + L +
Sbjct: 65 MLTRVNPEDA--------SPQAICLAPSRELARQTLEVVQEM------GKFTKITSQLIV 110
Query: 261 -GGVDMRSQLEVVKRGVHIVVATPGRLKDMLAKKKMNLDNCRYLTLDEADRLVDL-GFED 318
+ Q+ ++V TPG + D++ +K M L + LDEAD ++D G D
Sbjct: 111 PDSFEKNKQI-----NAQVIVGTPGTVLDLMRRKLMQLQKIKIFVLDEADNMLDQQGLGD 165
Query: 319 DIREVFDHFKAQRQTLLFSATMPTKIQNFARSALVKPVTVNVGRAGAANLDVIQEVEY-V 377
V Q +LFSAT ++ +A+ + T+ + + N+D I+++
Sbjct: 166 QCIRVKRFLPKDTQLVLFSATFADAVRQYAKKIVPNANTLEL-QTNEVNVDAIKQLYMDC 224
Query: 378 KQEAKIVYLLECLQ--KTPPPVLIFCENKADVDDIHEYLLLKGVEAVAVHGGKDQEEREY 435
K EA +L L T +IF K + ++ L +G E +HG +ER+
Sbjct: 225 KNEADKFDVLTELYGLMTIGSSIIFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDR 284
Query: 436 AISSFKAGKKDVLVATDVASKGLDFPDIQHVINYDMP------AEIENYVHRIGRTGRCG 489
I F+ G+ VL+ T+V ++G+D P + V+NYD+P A+ Y+HRIGRTGR G
Sbjct: 285 LIDDFREGRSKVLITTNVLARGIDIPTVSMVVNYDLPTLANGQADPATYIHRIGRTGRFG 344
Query: 490 KTGIATTFINKNQSETTL 507
+ G+A +F++ S L
Sbjct: 345 RKGVAISFVHDKNSFNIL 362
>pdb|1FUU|A Chain A, Yeast Initiation Factor 4a
pdb|1FUU|B Chain B, Yeast Initiation Factor 4a
Length = 394
Score = 145 bits (365), Expect = 8e-35, Method: Compositional matrix adjust.
Identities = 112/392 (28%), Positives = 185/392 (47%), Gaps = 24/392 (6%)
Query: 142 IKNFKDMRFPEPILKKLKAKGIVQPTPIQVQGLPVVLSGRDMIGIAFTGSGKTLVFVLXX 201
+ F D E +L+ + G +P+ IQ + + ++ G D++ A +G+GKT F +
Sbjct: 20 VYKFDDXELDENLLRGVFGYGFEEPSAIQQRAIXPIIEGHDVLAQAQSGTGKTGTFSIAA 79
Query: 202 XXXXXXXXXXXXXVPGEGPFCLIVCPSRELARQTYEVVEQFLTPMRDAGYPDLRTLLCIG 261
+ P L + P+RELA Q +VV A + D++ CIG
Sbjct: 80 LQRIDTSV--------KAPQALXLAPTRELALQIQKVVXAL------AFHXDIKVHACIG 125
Query: 262 GVDMRSQLEVVKRGVHIVVATPGRLKDMLAKKKMNLDNCRYLTLDEADRLVDLGFEDDIR 321
G E + R IVV TPGR+ D + +++ D + LDEAD + GF++ I
Sbjct: 126 GTSFVEDAEGL-RDAQIVVGTPGRVFDNIQRRRFRTDKIKXFILDEADEXLSSGFKEQIY 184
Query: 322 EVFDHFKAQRQTLLFSATMPTKIQNFARSALVKPVTVNVGRAGAANLDVIQEVEYVKQEA 381
++F Q +L SAT P + PV + V + L+ I++ YV E
Sbjct: 185 QIFTLLPPTTQVVLLSATXPNDVLEVTTKFXRNPVRILV-KKDELTLEGIKQF-YVNVEE 242
Query: 382 KIVYLLECLQKTPPPV-----LIFCENKADVDDIHEYLLLKGVEAVAVHGGKDQEEREYA 436
+ Y ECL + +IFC + V+++ L A++ Q+ER+
Sbjct: 243 E-EYKYECLTDLYDSISVTQAVIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTI 301
Query: 437 ISSFKAGKKDVLVATDVASKGLDFPDIQHVINYDMPAEIENYVHRIGRTGRCGKTGIATT 496
F++G +L++TD+ ++G+D + VINYD+PA ENY+HRIGR GR G+ G+A
Sbjct: 302 XKEFRSGSSRILISTDLLARGIDVQQVSLVINYDLPANKENYIHRIGRGGRFGRKGVAIN 361
Query: 497 FINKNQSETTLLDLKHLLQEAKQRIPPVLAEL 528
F+ N+ +L+ + +P +A L
Sbjct: 362 FVT-NEDVGAXRELEKFYSTQIEELPSDIATL 392
>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 = 144 bits (363), Expect = 1e-34, Method: Compositional matrix adjust.
Identities = 117/414 (28%), Positives = 195/414 (47%), Gaps = 40/414 (9%)
Query: 142 IKNFKDMRFPEPILKKLKAKGIVQPTPIQVQGLPVVLSG--RDMIGIAFTGSGKTLVFVL 199
+K+F+++R +L+ + A G +P+ IQ LP++L+ +++I + +G+GKT FVL
Sbjct: 91 VKSFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVL 150
Query: 200 XXXXXXXXXXXXXXXVPGEGPFCLIVCPSRELARQTYEVVEQFLTPMRDAGYPDLRTLLC 259
+ P CL + P+ ELA QT +V+EQ YP+L+
Sbjct: 151 AMLSQVEPA--------NKYPQCLCLSPTYELALQTGKVIEQM-----GKFYPELKLAYA 197
Query: 260 IGGVDM-RSQLEVVKRGVHIVVATPGRLKDMLAKKK-MNLDNCRYLTLDEADRLVDL-GF 316
+ G + R Q K IV+ TPG + D +K K ++ + LDEAD ++ G
Sbjct: 198 VRGNKLERGQ----KISEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGH 253
Query: 317 EDDIREVFDHFKAQRQTLLFSATMPTKIQNFARSALVKPVTVNVGRAGAANLDVIQEVEY 376
+D + Q LLFSAT + FA+ + P + + R LD I++ Y
Sbjct: 254 QDQSIRIQRMLPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKRE-EETLDTIKQY-Y 311
Query: 377 V---KQEAKIVYLLECLQK-TPPPVLIFCENKADVDDIHEYLLLKGVEAVAVHGGKDQEE 432
V ++ K L T +IFC + + L +G + + G E+
Sbjct: 312 VLCSSRDEKFQALCNLYGAITIAQAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQ 371
Query: 433 REYAISSFKAGKKDVLVATDVASKGLDFPDIQHVINYDMPA------EIENYVHRIGRTG 486
R I F+ GK+ VLV T+V ++G+D + VIN+D+P + E Y+HRIGRTG
Sbjct: 372 RAAVIERFREGKEKVLVTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRTG 431
Query: 487 RCGKTGIATTFINKNQSETTLLDLKHLLQEAKQRIPPVLAELNDPMEDVDAITN 540
R GK G+A ++ S L ++ + +R+ D +++++ I N
Sbjct: 432 RFGKRGLAVNMVDSKHSMNILNRIQEHFNKKIERLD------TDDLDEIEKIAN 479
>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 = 144 bits (362), Expect = 2e-34, Method: Compositional matrix adjust.
Identities = 117/414 (28%), Positives = 195/414 (47%), Gaps = 40/414 (9%)
Query: 142 IKNFKDMRFPEPILKKLKAKGIVQPTPIQVQGLPVVLSG--RDMIGIAFTGSGKTLVFVL 199
+K+F+++R +L+ + A G +P+ IQ LP++L+ +++I + +G+GKT FVL
Sbjct: 24 VKSFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVL 83
Query: 200 XXXXXXXXXXXXXXXVPGEGPFCLIVCPSRELARQTYEVVEQFLTPMRDAGYPDLRTLLC 259
+ P CL + P+ ELA QT +V+EQ YP+L+
Sbjct: 84 AMLSQVEPA--------NKYPQCLCLSPTYELALQTGKVIEQM-----GKFYPELKLAYA 130
Query: 260 IGGVDM-RSQLEVVKRGVHIVVATPGRLKDMLAKKK-MNLDNCRYLTLDEADRLVDL-GF 316
+ G + R Q K IV+ TPG + D +K K ++ + LDEAD ++ G
Sbjct: 131 VRGNKLERGQ----KISEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGH 186
Query: 317 EDDIREVFDHFKAQRQTLLFSATMPTKIQNFARSALVKPVTVNVGRAGAANLDVIQEVEY 376
+D + Q LLFSAT + FA+ + P + + R LD I++ Y
Sbjct: 187 QDQSIRIQRMLPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKRE-EETLDTIKQY-Y 244
Query: 377 V---KQEAKIVYLLECLQK-TPPPVLIFCENKADVDDIHEYLLLKGVEAVAVHGGKDQEE 432
V ++ K L T +IFC + + L +G + + G E+
Sbjct: 245 VLCSSRDEKFQALCNLYGAITIAQAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQ 304
Query: 433 REYAISSFKAGKKDVLVATDVASKGLDFPDIQHVINYDMPA------EIENYVHRIGRTG 486
R I F+ GK+ VLV T+V ++G+D + VIN+D+P + E Y+HRIGRTG
Sbjct: 305 RAAVIERFREGKEKVLVTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRTG 364
Query: 487 RCGKTGIATTFINKNQSETTLLDLKHLLQEAKQRIPPVLAELNDPMEDVDAITN 540
R GK G+A ++ S L ++ + +R+ D +++++ I N
Sbjct: 365 RFGKRGLAVNMVDSKHSMNILNRIQEHFNKKIERLD------TDDLDEIEKIAN 412
>pdb|3G0H|A Chain A, Human Dead-box Rna Helicase Ddx19, In Complex With An
Atp-analogue And Rna
Length = 424
Score = 142 bits (358), Expect = 5e-34, Method: Compositional matrix adjust.
Identities = 114/395 (28%), Positives = 187/395 (47%), Gaps = 34/395 (8%)
Query: 142 IKNFKDMRFPEPILKKLKAKGIVQPTPIQVQGLPVVLSG--RDMIGIAFTGSGKTLVFVL 199
+K+F+++R +L+ + A G +P+ IQ LP++L+ +++I + +G+GKT FVL
Sbjct: 40 VKSFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVL 99
Query: 200 XXXXXXXXXXXXXXXVPGEGPFCLIVCPSRELARQTYEVVEQFLTPMRDAGYPDLRTLLC 259
+ P CL + P+ ELA QT +V+EQ YP+L+
Sbjct: 100 AMLSQVEPA--------NKYPQCLCLSPTYELALQTGKVIEQM-----GKFYPELKLAYA 146
Query: 260 IGGVDM-RSQLEVVKRGVHIVVATPGRLKDMLAKKK-MNLDNCRYLTLDEADRLVDL-GF 316
+ G + R Q K IV+ TPG + D +K K ++ + LDEAD ++ G
Sbjct: 147 VRGNKLERGQ----KISEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGH 202
Query: 317 EDDIREVFDHFKAQRQTLLFSATMPTKIQNFARSALVKPVTVNVGRAGAANLDVIQEVEY 376
+D + Q LLFSAT + FA+ + P + + R LD I++ Y
Sbjct: 203 QDQSIRIQRMLPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKRE-EETLDTIKQY-Y 260
Query: 377 V---KQEAKIVYLLECLQK-TPPPVLIFCENKADVDDIHEYLLLKGVEAVAVHGGKDQEE 432
V ++ K L T +IFC + + L +G + + G E+
Sbjct: 261 VLCSSRDEKFQALCNLYGAITIAQAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQ 320
Query: 433 REYAISSFKAGKKDVLVATDVASKGLDFPDIQHVINYDMPA------EIENYVHRIGRTG 486
R I F+ GK+ VLV T+V ++G+D + VIN+D+P + E Y+HRIGRTG
Sbjct: 321 RAAVIERFREGKEKVLVTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRTG 380
Query: 487 RCGKTGIATTFINKNQSETTLLDLKHLLQEAKQRI 521
R GK G+A ++ S L ++ + +R+
Sbjct: 381 RFGKRGLAVNMVDSKHSMNILNRIQEHFNKKIERL 415
>pdb|3EWS|A Chain A, Human Dead-Box Rna-Helicase Ddx19 In Complex With Adp
pdb|3EWS|B Chain B, Human Dead-Box Rna-Helicase Ddx19 In Complex With Adp
Length = 445
Score = 142 bits (358), Expect = 5e-34, Method: Compositional matrix adjust.
Identities = 114/395 (28%), Positives = 187/395 (47%), Gaps = 34/395 (8%)
Query: 142 IKNFKDMRFPEPILKKLKAKGIVQPTPIQVQGLPVVLSG--RDMIGIAFTGSGKTLVFVL 199
+K+F+++R +L+ + A G +P+ IQ LP++L+ +++I + +G+GKT FVL
Sbjct: 61 VKSFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVL 120
Query: 200 XXXXXXXXXXXXXXXVPGEGPFCLIVCPSRELARQTYEVVEQFLTPMRDAGYPDLRTLLC 259
+ P CL + P+ ELA QT +V+EQ YP+L+
Sbjct: 121 AMLSQVEPA--------NKYPQCLCLSPTYELALQTGKVIEQM-----GKFYPELKLAYA 167
Query: 260 IGGVDM-RSQLEVVKRGVHIVVATPGRLKDMLAKKK-MNLDNCRYLTLDEADRLVDL-GF 316
+ G + R Q K IV+ TPG + D +K K ++ + LDEAD ++ G
Sbjct: 168 VRGNKLERGQ----KISEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGH 223
Query: 317 EDDIREVFDHFKAQRQTLLFSATMPTKIQNFARSALVKPVTVNVGRAGAANLDVIQEVEY 376
+D + Q LLFSAT + FA+ + P + + R LD I++ Y
Sbjct: 224 QDQSIRIQRMLPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKRE-EETLDTIKQY-Y 281
Query: 377 V---KQEAKIVYLLECLQK-TPPPVLIFCENKADVDDIHEYLLLKGVEAVAVHGGKDQEE 432
V ++ K L T +IFC + + L +G + + G E+
Sbjct: 282 VLCSSRDEKFQALCNLYGAITIAQAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQ 341
Query: 433 REYAISSFKAGKKDVLVATDVASKGLDFPDIQHVINYDMPA------EIENYVHRIGRTG 486
R I F+ GK+ VLV T+V ++G+D + VIN+D+P + E Y+HRIGRTG
Sbjct: 342 RAAVIERFREGKEKVLVTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRTG 401
Query: 487 RCGKTGIATTFINKNQSETTLLDLKHLLQEAKQRI 521
R GK G+A ++ S L ++ + +R+
Sbjct: 402 RFGKRGLAVNMVDSKHSMNILNRIQEHFNKKIERL 436
>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 = 141 bits (355), Expect = 1e-33, Method: Compositional matrix adjust.
Identities = 70/172 (40%), Positives = 108/172 (62%), Gaps = 3/172 (1%)
Query: 359 NVGRAGAANLDVIQEVEYVKQEAKIVYLLECLQKTPPP--VLIFCENKADVDDIHEYLLL 416
N+ G+ + ++ Q+V +V++ K +LL+ L T L+F E K D + ++L
Sbjct: 9 NLYFQGSTSENITQKVVWVEESDKRSFLLDLLNATGKDSLTLVFVETKKGADSLEDFLYH 68
Query: 417 KGVEAVAVHGGKDQEEREYAISSFKAGKKDVLVATDVASKGLDFPDIQHVINYDMPAEIE 476
+G ++HG + Q +RE A+ F++GK +LVAT VA++GLD +++HVIN+D+P++IE
Sbjct: 69 EGYACTSIHGDRSQRDREEALHQFRSGKSPILVATAVAARGLDISNVKHVINFDLPSDIE 128
Query: 477 NYVHRIGRTGRCGKTGIATTFINKNQSETTLLDLKHLLQEAKQRIPPVLAEL 528
YVHRIGRTGR G G+AT+F N+ T DL LL EAKQ +P L +
Sbjct: 129 EYVHRIGRTGRVGNLGLATSFFNERNINIT-KDLLDLLVEAKQEVPSWLENM 179
>pdb|3FHO|A Chain A, Structure Of S. Pombe Dbp5
pdb|3FHO|B Chain B, Structure Of S. Pombe Dbp5
Length = 508
Score = 139 bits (350), Expect = 5e-33, Method: Compositional matrix adjust.
Identities = 109/372 (29%), Positives = 173/372 (46%), Gaps = 43/372 (11%)
Query: 169 IQVQGLPVVLSG--RDMIGIAFTGSGKTLVFVLXXXXXXXXXXXXXXXVPGEGPFCLIVC 226
IQ + LP++LS R+MIG + +G+GKT F L VP CL
Sbjct: 145 IQEKALPLLLSNPPRNMIGQSQSGTGKTAAFALTMLSRVDAS------VPKPQAICL--A 196
Query: 227 PSRELARQTYEVVEQFLTPMRDAGYPDLRTLLCIGGVDMRSQLEVVKRGVHIVVATPGRL 286
PSRELARQ +VV + Y +++T I S + K IV+ TPG +
Sbjct: 197 PSRELARQIMDVVTEM------GKYTEVKTAFGIKD----SVPKGAKIDAQIVIGTPGTV 246
Query: 287 KDMLAKKKMNLDNCRYLTLDEADRLVDL-GFEDDIREVFDHFKAQRQTLLFSATMPTKIQ 345
D++ +++++ + + LDEAD ++D G D + Q +LFSAT +++
Sbjct: 247 MDLMKRRQLDARDIKVFVLDEADNMLDQQGLGDQSMRIKHLLPRNTQIVLFSATFSERVE 306
Query: 346 NFARSALVKPVTVNVGRAGAANLDVIQEVEYVKQ--------EAKIVYLLECLQK-TPPP 396
+A P N R L VE +KQ E K L+E T
Sbjct: 307 KYAER--FAP-NANEIRLKTEEL----SVEGIKQLYMDCQSEEHKYNVLVELYGLLTIGQ 359
Query: 397 VLIFCENKADVDDIHEYLLLKGVEAVAVHGGKDQEEREYAISSFKAGKKDVLVATDVASK 456
+IFC+ K ++I + G + G + +R+ + SF+ G VLV T+V ++
Sbjct: 360 SIIFCKKKDTAEEIARRMTADGHTVACLTGNLEGAQRDAIMDSFRVGTSKVLVTTNVIAR 419
Query: 457 GLDFPDIQHVINYDMPAEI------ENYVHRIGRTGRCGKTGIATTFINKNQSETTLLDL 510
G+D + V+NYDMP + + Y+HRIGRTGR G+ G++ F++ +S + +
Sbjct: 420 GIDVSQVNLVVNYDMPLDQAGRPDPQTYLHRIGRTGRFGRVGVSINFVHDKKSWEEMNAI 479
Query: 511 KHLLQEAKQRIP 522
+ Q R+P
Sbjct: 480 QEYFQRPITRVP 491
>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 = 136 bits (343), Expect = 3e-32, Method: Compositional matrix adjust.
Identities = 82/217 (37%), Positives = 110/217 (50%), Gaps = 13/217 (5%)
Query: 144 NFKDMRFPEPILKKLKAKGIVQPTPIQVQGLPVVLSGRDMIGIAFTGSGKTLVFVLXXXX 203
FKD IL+ L +G+ PTPIQ LP+ L G+D+IG A TG+GKTL F L
Sbjct: 2 EFKDFPLKPEILEALHGRGLTTPTPIQAAALPLALEGKDLIGQARTGTGKTLAFALPIAE 61
Query: 204 XXXXXXXXXXXVPGEGPFCLIVCPSRELARQTYEVVEQFLTPMRDAGYPDLRTLLCIGGV 263
G P L++ P+RELA Q V LT A P L+ + GG
Sbjct: 62 RLAPSQER-----GRKPRALVLTPTRELALQ----VASELT----AVAPHLKVVAVYGGT 108
Query: 264 DMRSQLEVVKRGVHIVVATPGRLKDMLAKKKMNLDNCRYLTLDEADRLVDLGFEDDIREV 323
Q E + RG VVATPGR D L + ++L LDEAD ++ +GFE+++ +
Sbjct: 109 GYGKQKEALLRGADAVVATPGRALDYLRQGVLDLSRVEVAVLDEADEMLSMGFEEEVEAL 168
Query: 324 FDHFKAQRQTLLFSATMPTKIQNFARSALVKPVTVNV 360
RQTLLFSAT+P+ + A + PV +NV
Sbjct: 169 LSATPPSRQTLLFSATLPSWAKRLAERYMKNPVLINV 205
>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 = 136 bits (342), Expect = 3e-32, Method: Compositional matrix adjust.
Identities = 79/225 (35%), Positives = 124/225 (55%), Gaps = 12/225 (5%)
Query: 138 IPPPIKNFKD--MRFPEPILKKLKAKGIVQPTPIQVQGLPVVLSGRDMIGIAFTGSGKTL 195
IP P FKD ++P+ +LK + GI++PTPIQ Q P++L G D+I +A TG+GKTL
Sbjct: 14 IPKPTCRFKDAFQQYPD-LLKSIIRVGILKPTPIQSQAWPIILQGIDLIVVAQTGTGKTL 72
Query: 196 VFVLXXXXXXXXXXXXXXXVPGEGPFCLIVCPSRELARQTYEVVEQFLTPMRDAGYPDLR 255
+++ GP L++ P+RELA ++ Y L+
Sbjct: 73 SYLMPGFIHLDSQPISREQ--RNGPGMLVLTPTRELALHVEAECSKY-------SYKGLK 123
Query: 256 TLLCIGGVDMRSQLEVVKRGVHIVVATPGRLKDMLAKKKMNLDNCRYLTLDEADRLVDLG 315
++ GG + Q+E + +GV I++ATPGRL D+ +NL + YL +DEAD+++D+
Sbjct: 124 SICIYGGRNRNGQIEDISKGVDIIIATPGRLNDLQMNNSVNLRSITYLVIDEADKMLDME 183
Query: 316 FEDDIREVFDHFKAQRQTLLFSATMPTKIQNFARSALVKPVTVNV 360
FE IR++ + RQT++ SAT P ++ A S L P+ V V
Sbjct: 184 FEPQIRKILLDVRPDRQTVMTSATWPDTVRQLALSYLKDPMIVYV 228
>pdb|3SQW|A Chain A, Structure Of Mss116p (Nte Deletion) Bound To Ssrna And
Amp-Pnp
Length = 579
Score = 135 bits (341), Expect = 4e-32, Method: Compositional matrix adjust.
Identities = 112/372 (30%), Positives = 173/372 (46%), Gaps = 53/372 (14%)
Query: 167 TPIQVQGLPVVLSG--RDMIGIAFTGSGKTLVFVLXXXXXXXXXXXXXXXVPGEGPFCLI 224
TP+Q + + +LS D+I A TG+GKT F++ + +I
Sbjct: 45 TPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIFQHLINTKFDSQYMVK----AVI 100
Query: 225 VCPSRELARQTYEVVEQFLTPMRDAGYPDLRTLLCI---GGVDMRSQL-EVVKRGVHIVV 280
V P+R+LA Q +E + + D Y L+ C+ GG D R+ + ++ K +IV+
Sbjct: 101 VAPTRDLALQ----IEAEVKKIHDMNYG-LKKYACVSLVGGTDFRAAMNKMNKLRPNIVI 155
Query: 281 ATPGRLKDMLAKKKMNLDN-CRYLTLDEADRLVDLGFEDDIREVFDHFKAQR-------Q 332
ATPGRL D+L K Y LDEADRL+++GF DD+ + + +
Sbjct: 156 ATPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLEIGFRDDLETISGILNEKNSKSADNIK 215
Query: 333 TLLFSATMPTKIQNFARSALVKPV-----TVNVGRAGA--------------ANLDVIQE 373
TLLFSAT+ K+Q A + + K TV+ A AN +
Sbjct: 216 TLLFSATLDDKVQKLANNIMNKKECLFLDTVDKNEPEAHERIDQSVVISEKFAN-SIFAA 274
Query: 374 VEYVKQEAK---IVYLLECLQKTPPPVLIFCENKADVDDIHEYLLLKGVEAVAVHGGKDQ 430
VE++K++ K Y T C I + K + + HG Q
Sbjct: 275 VEHIKKQIKERDSNYKAIIFAPTVKFTSFLCS-------ILKNEFKKDLPILEFHGKITQ 327
Query: 431 EEREYAISSFKAGKKDVLVATDVASKGLDFPDIQHVINYDMPAEIENYVHRIGRTGRCGK 490
+R + FK + +LV TDV ++G+DFP++ V+ +P+E+ NY+HRIGRT R GK
Sbjct: 328 NKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGK 387
Query: 491 TGIATTFINKNQ 502
G + FI K++
Sbjct: 388 EGSSVLFICKDE 399
>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 = 135 bits (340), Expect = 6e-32, Method: Compositional matrix adjust.
Identities = 112/372 (30%), Positives = 173/372 (46%), Gaps = 53/372 (14%)
Query: 167 TPIQVQGLPVVLSG--RDMIGIAFTGSGKTLVFVLXXXXXXXXXXXXXXXVPGEGPFCLI 224
TP+Q + + +LS D+I A TG+GKT F++ + +I
Sbjct: 96 TPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIFQHLINTKFDSQYMVK----AVI 151
Query: 225 VCPSRELARQTYEVVEQFLTPMRDAGYPDLRTLLCI---GGVDMRSQL-EVVKRGVHIVV 280
V P+R+LA Q +E + + D Y L+ C+ GG D R+ + ++ K +IV+
Sbjct: 152 VAPTRDLALQ----IEAEVKKIHDMNY-GLKKYACVSLVGGTDFRAAMNKMNKLRPNIVI 206
Query: 281 ATPGRLKDMLAKKKMNLDN-CRYLTLDEADRLVDLGFEDDIREVFDHFKAQR-------Q 332
ATPGRL D+L K Y LDEADRL+++GF DD+ + + +
Sbjct: 207 ATPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLEIGFRDDLETISGILNEKNSKSADNIK 266
Query: 333 TLLFSATMPTKIQNFARSALVKPV-----TVNVGRAGA--------------ANLDVIQE 373
TLLFSAT+ K+Q A + + K TV+ A AN +
Sbjct: 267 TLLFSATLDDKVQKLANNIMNKKECLFLDTVDKNEPEAHERIDQSVVISEKFAN-SIFAA 325
Query: 374 VEYVKQEAK---IVYLLECLQKTPPPVLIFCENKADVDDIHEYLLLKGVEAVAVHGGKDQ 430
VE++K++ K Y T C I + K + + HG Q
Sbjct: 326 VEHIKKQIKERDSNYKAIIFAPTVKFTSFLCS-------ILKNEFKKDLPILEFHGKITQ 378
Query: 431 EEREYAISSFKAGKKDVLVATDVASKGLDFPDIQHVINYDMPAEIENYVHRIGRTGRCGK 490
+R + FK + +LV TDV ++G+DFP++ V+ +P+E+ NY+HRIGRT R GK
Sbjct: 379 NKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGK 438
Query: 491 TGIATTFINKNQ 502
G + FI K++
Sbjct: 439 EGSSVLFICKDE 450
>pdb|3SQX|A Chain A, Structure Of Mss116p (Nte And C-Tail Double Deletion)
Bound To Ssrna And Amp-Pnp
Length = 512
Score = 135 bits (340), Expect = 6e-32, Method: Compositional matrix adjust.
Identities = 123/428 (28%), Positives = 195/428 (45%), Gaps = 64/428 (14%)
Query: 167 TPIQVQGLPVVLSG--RDMIGIAFTGSGKTLVFVLXXXXXXXXXXXXXXXVPGEGPFCLI 224
TP+Q + + +LS D+I A TG+GKT F++ + +I
Sbjct: 45 TPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIFQHLINTKFDSQYMVK----AVI 100
Query: 225 VCPSRELARQTYEVVEQFLTPMRDAGYPDLRTLLCI---GGVDMRSQL-EVVKRGVHIVV 280
V P+R+LA Q +E + + D Y L+ C+ GG D R+ + ++ K +IV+
Sbjct: 101 VAPTRDLALQ----IEAEVKKIHDMNY-GLKKYACVSLVGGTDFRAAMNKMNKLRPNIVI 155
Query: 281 ATPGRLKDMLAKKKMNLDN-CRYLTLDEADRLVDLGFEDDIREVFDHFKAQR-------Q 332
ATPGRL D+L K Y LDEADRL+++GF DD+ + + +
Sbjct: 156 ATPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLEIGFRDDLETISGILNEKNSKSADNIK 215
Query: 333 TLLFSATMPTKIQNFARSALVKPV-----TVNVGRAGA--------------ANLDVIQE 373
TLLFSAT+ K+Q A + + K TV+ A AN +
Sbjct: 216 TLLFSATLDDKVQKLANNIMNKKECLFLDTVDKNEPEAHERIDQSVVISEKFAN-SIFAA 274
Query: 374 VEYVKQEAK---IVYLLECLQKTPPPVLIFCENKADVDDIHEYLLLKGVEAVAVHGGKDQ 430
VE++K++ K Y T C I + K + + HG Q
Sbjct: 275 VEHIKKQIKERDSNYKAIIFAPTVKFTSFLCS-------ILKNEFKKDLPILEFHGKITQ 327
Query: 431 EEREYAISSFKAGKKDVLVATDVASKGLDFPDIQHVINYDMPAEIENYVHRIGRTGRCGK 490
+R + FK + +LV TDV ++G+DFP++ V+ +P+E+ NY+HRIGRT R GK
Sbjct: 328 NKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGK 387
Query: 491 TGIATTFINKNQSETT--LLDLKHLLQEAKQRIPP-------VLAELNDPMEDVD--AIT 539
G + FI K++ L D K+++ +++ P VL + + ED+ I+
Sbjct: 388 EGSSVLFICKDELPFVRELEDAKNIVIAKQEKYEPSEEIKSEVLEAVTEEPEDISDIVIS 447
Query: 540 NASGVKGC 547
S + C
Sbjct: 448 LISSYRSC 455
>pdb|3BER|A Chain A, Human Dead-Box Rna-Helicase Ddx47, Conserved Domain I In
Complex With Amp
Length = 249
Score = 135 bits (340), Expect = 7e-32, Method: Compositional matrix adjust.
Identities = 81/223 (36%), Positives = 121/223 (54%), Gaps = 21/223 (9%)
Query: 143 KNFKDMRFPEPILKKLKAKGIVQPTPIQVQGLPVVLSGRDMIGIAFTGSGKTLVFVLXXX 202
K FKD+ + + + G +PT IQ++ +P+ L GRD+IG+A TGSGKT F L
Sbjct: 43 KTFKDLGVTDVLCEACDQLGWTKPTKIQIEAIPLALQGRDIIGLAETGSGKTGAFALPIL 102
Query: 203 XXXXXXXXXXXXVPGEGP---FCLIVCPSRELARQTYEVVEQFLTPMRDAGYPDLRTLLC 259
E P F L++ P+RELA +++ EQF G +++ +
Sbjct: 103 NALL-----------ETPQRLFALVLTPTRELA---FQISEQFEALGSSIG---VQSAVI 145
Query: 260 IGGVDMRSQLEVVKRGVHIVVATPGRLKDMLAKKK-MNLDNCRYLTLDEADRLVDLGFED 318
+GG+D SQ + + HI++ATPGRL D L K NL +YL +DEADR++++ FE
Sbjct: 146 VGGIDSMSQSLALAKKPHIIIATPGRLIDHLENTKGFNLRALKYLVMDEADRILNMDFET 205
Query: 319 DIREVFDHFKAQRQTLLFSATMPTKIQNFARSALVKPVTVNVG 361
++ ++ R+T LFSATM K+Q R+AL PV V
Sbjct: 206 EVDKILKVIPRDRKTFLFSATMTKKVQKLQRAALKNPVKCAVS 248
>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 = 135 bits (340), Expect = 7e-32, Method: Compositional matrix adjust.
Identities = 81/217 (37%), Positives = 110/217 (50%), Gaps = 13/217 (5%)
Query: 144 NFKDMRFPEPILKKLKAKGIVQPTPIQVQGLPVVLSGRDMIGIAFTGSGKTLVFVLXXXX 203
FKD IL+ L +G+ PTPI+ LP+ L G+D+IG A TG+GKTL F L
Sbjct: 2 EFKDFPLKPEILEALHGRGLTTPTPIEAAALPLALEGKDLIGQARTGTGKTLAFALPIAE 61
Query: 204 XXXXXXXXXXXVPGEGPFCLIVCPSRELARQTYEVVEQFLTPMRDAGYPDLRTLLCIGGV 263
G P L++ P+RELA Q V LT A P L+ + GG
Sbjct: 62 RLAPSQER-----GRKPRALVLTPTRELALQ----VASELT----AVAPHLKVVAVYGGT 108
Query: 264 DMRSQLEVVKRGVHIVVATPGRLKDMLAKKKMNLDNCRYLTLDEADRLVDLGFEDDIREV 323
Q E + RG VVATPGR D L + ++L LDEAD ++ +GFE+++ +
Sbjct: 109 GYGKQKEALLRGADAVVATPGRALDYLRQGVLDLSRVEVAVLDEADEMLSMGFEEEVEAL 168
Query: 324 FDHFKAQRQTLLFSATMPTKIQNFARSALVKPVTVNV 360
RQTLLFSAT+P+ + A + PV +NV
Sbjct: 169 LSATPPSRQTLLFSATLPSWAKRLAERYMKNPVLINV 205
>pdb|3LY5|A Chain A, Ddx18 Dead-Domain
pdb|3LY5|B Chain B, Ddx18 Dead-Domain
Length = 262
Score = 120 bits (300), Expect = 3e-27, Method: Compositional matrix adjust.
Identities = 76/219 (34%), Positives = 120/219 (54%), Gaps = 20/219 (9%)
Query: 145 FKDMRFP-------EPILKKLKAKGIVQPTPIQVQGLPVVLSGRDMIGIAFTGSGKTLVF 197
F+D F E LK +K G T IQ + + +L GRD++ A TGSGKTL F
Sbjct: 49 FEDTSFASLCNLVNENTLKAIKEMGFTNMTEIQHKSIRPLLEGRDLLAAAKTGSGKTLAF 108
Query: 198 VLXXXXXXXXXXXXXXXVPGEGPFCLIVCPSRELARQTYEVVEQFLTP-MRDAGYPDLRT 256
++ +P G LI+ P+RELA QT+ V+++ +T + G
Sbjct: 109 LIPAVELIVKLRF----MPRNGTGVLILSPTRELAMQTFGVLKELMTHHVHTYG------ 158
Query: 257 LLCIGGVDMRSQLEVVKRGVHIVVATPGRLKD-MLAKKKMNLDNCRYLTLDEADRLVDLG 315
L +GG + ++ + + G++I+VATPGRL D M N + L +DEADR++D+G
Sbjct: 159 -LIMGGSNRSAEAQKLGNGINIIVATPGRLLDHMQNTPGFMYKNLQCLVIDEADRILDVG 217
Query: 316 FEDDIREVFDHFKAQRQTLLFSATMPTKIQNFARSALVK 354
FE++++++ +RQT+LFSAT K+++ AR +L K
Sbjct: 218 FEEELKQIIKLLPTRRQTMLFSATQTRKVEDLARISLKK 256
>pdb|2PL3|A Chain A, Human Dead-Box Rna Helicase Ddx10, Dead Domain In Complex
With Adp
Length = 236
Score = 117 bits (293), Expect = 2e-26, Method: Compositional matrix adjust.
Identities = 79/221 (35%), Positives = 115/221 (52%), Gaps = 14/221 (6%)
Query: 142 IKNFKDMRFPEPILKKLKAKGIVQPTPIQVQGLPVVLSGRDMIGIAFTGSGKTLVFVLXX 201
I F D + LK L+ T IQ Q + + L G+D++G A TGSGKTL F++
Sbjct: 24 ITRFSDFPLSKKTLKGLQEAQYRLVTEIQKQTIGLALQGKDVLGAAKTGSGKTLAFLVPV 83
Query: 202 XXXXXXXXXXXXXVPGEGPFCLIVCPSRELARQTYEVVEQFLTPMRDAG-YPDLRTLLCI 260
+G LI+ P+RELA QT+EV +R G D L I
Sbjct: 84 LEALYRLQW----TSTDGLGVLIISPTRELAYQTFEV-------LRKVGKNHDFSAGLII 132
Query: 261 GGVDMRSQLEVVKRGVHIVVATPGRL-KDMLAKKKMNLDNCRYLTLDEADRLVDLGFEDD 319
GG D++ + E + ++I+V TPGRL + M + + + L LDEADR++D+GF D
Sbjct: 133 GGKDLKHEAERIN-NINILVCTPGRLLQHMDETVSFHATDLQMLVLDEADRILDMGFADT 191
Query: 320 IREVFDHFKAQRQTLLFSATMPTKIQNFARSALVKPVTVNV 360
+ V ++ +RQTLLFSAT +++ AR +L P V V
Sbjct: 192 MNAVIENLPKKRQTLLFSATQTKSVKDLARLSLKNPEYVWV 232
>pdb|3BOR|A Chain A, Crystal Structure Of The Deadc Domain Of Human Translation
Initiation Factor 4a-2
Length = 237
Score = 115 bits (287), Expect = 9e-26, Method: Compositional matrix adjust.
Identities = 71/240 (29%), Positives = 117/240 (48%), Gaps = 24/240 (10%)
Query: 124 LIRKQWHIIVDGEDIPPPIKNFKDMRFPEPILKKLKAKGIVQPTPIQVQGLPVVLSGRDM 183
+I W+ IVD NF DM E +L+ + A G +P+ IQ + + + G D+
Sbjct: 20 VIESNWNEIVD---------NFDDMNLKESLLRGIYAYGFEKPSAIQQRAIIPCIKGYDV 70
Query: 184 IGIAFTGSGKTLVFVLXXXXXXXXXXXXXXXVPGEGPFCLIVCPSRELARQTYEVVEQFL 243
I A +G+GKT F + L++ P+RELA+Q +V+
Sbjct: 71 IAQAQSGTGKTATFAISILQQLEIEFKETQ--------ALVLAPTRELAQQIQKVI---- 118
Query: 244 TPMRDAGYPDLRTLLCIGGVDMRSQLEVVK-RGVHIVVATPGRLKDMLAKKKMNLDNCRY 302
+ Y CIGG ++R++++ ++ HIVV TPGR+ DML ++ ++ +
Sbjct: 119 --LALGDYMGATCHACIGGTNVRNEMQKLQAEAPHIVVGTPGRVFDMLNRRYLSPKWIKM 176
Query: 303 LTLDEADRLVDLGFEDDIREVFDHFKAQRQTLLFSATMPTKIQNFARSALVKPVTVNVGR 362
LDEAD ++ GF+D I E+F Q +L SATMPT + + + P+ + V +
Sbjct: 177 FVLDEADEMLSRGFKDQIYEIFQKLNTSIQVVLLSATMPTDVLEVTKKFMRDPIRILVKK 236
>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 = 108 bits (270), Expect = 9e-24, Method: Compositional matrix adjust.
Identities = 63/215 (29%), Positives = 109/215 (50%), Gaps = 13/215 (6%)
Query: 145 FKDMRFPEPILKKLKAKGIVQPTPIQVQGLPVVLSGRDMIGIAFTGSGKTLVFVLXXXXX 204
F+D +L + G +P+PIQ + +P+ LSGRD++ A G+GK+ +++
Sbjct: 5 FEDYCLKRELLMGIFEMGWEKPSPIQEESIPIALSGRDILARAKNGTGKSGAYLIPLLER 64
Query: 205 XXXXXXXXXXVPGEGPFCLIVCPSRELARQTYEVVEQFLTPMRDAGYPDLRTLLCIGGVD 264
+ + +++ P+RELA Q ++ Q M A + + GG +
Sbjct: 65 LD--------LKKDNIQAMVIVPTRELALQVSQICIQVSKHMGGA-----KVMATTGGTN 111
Query: 265 MRSQLEVVKRGVHIVVATPGRLKDMLAKKKMNLDNCRYLTLDEADRLVDLGFEDDIREVF 324
+R + + VH+V+ATPGR+ D++ K +D+ + + LDEAD+L+ F + ++
Sbjct: 112 LRDDIMRLDDTVHVVIATPGRILDLIKKGVAKVDHVQMIVLDEADKLLSQDFVQIMEDII 171
Query: 325 DHFKAQRQTLLFSATMPTKIQNFARSALVKPVTVN 359
RQ LL+SAT P +Q F S L KP +N
Sbjct: 172 LTLPKNRQILLYSATFPLSVQKFMNSHLEKPYEIN 206
>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 = 107 bits (267), Expect = 2e-23, Method: Compositional matrix adjust.
Identities = 69/238 (28%), Positives = 112/238 (47%), Gaps = 24/238 (10%)
Query: 124 LIRKQWHIIVDGEDIPPPIKNFKDMRFPEPILKKLKAKGIVQPTPIQVQGLPVVLSGRDM 183
+I W+ IVD +F DM E +L+ + A G P+ IQ + + + G D+
Sbjct: 5 VIESNWNEIVD---------SFDDMNLSESLLRGIYAYGFEXPSAIQQRAILPCIXGYDV 55
Query: 184 IGIAFTGSGKTLVFVLXXXXXXXXXXXXXXXVPGEGPFCLIVCPSRELARQTYEVVEQFL 243
I A +G+G T F + L++ P+RELA+Q VV
Sbjct: 56 IAQAQSGTGXTATFAISILQQIELDLXATQ--------ALVLAPTRELAQQIQXVV---- 103
Query: 244 TPMRDAGYPDLRTLLCIGGVDMRSQLEVVK-RGVHIVVATPGRLKDMLAKKKMNLDNCRY 302
M Y CIGG ++R++++ ++ HI+V TPGR+ DML ++ ++
Sbjct: 104 --MALGDYMGASCHACIGGTNVRAEVQXLQMEAPHIIVGTPGRVFDMLNRRYLSPXYIXM 161
Query: 303 LTLDEADRLVDLGFEDDIREVFDHFKAQRQTLLFSATMPTKIQNFARSALVKPVTVNV 360
LDEAD ++ GF D I ++F + Q +L SATMP+ + + P+ + V
Sbjct: 162 FVLDEADEMLSRGFXDQIYDIFQXLNSNTQVVLLSATMPSDVLEVTXXFMRDPIRILV 219
>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 = 100 bits (250), Expect = 2e-21, Method: Compositional matrix adjust.
Identities = 56/137 (40%), Positives = 79/137 (57%), Gaps = 1/137 (0%)
Query: 363 AGAANLDVIQEVEYVKQEAKIVYLLECLQ-KTPPPVLIFCENKADVDDIHEYLLLKGVEA 421
AG ++ V V++E K L + L + P +IFC K V+ + + L G
Sbjct: 3 AGLTTRNIEHAVIQVREENKFSLLKDVLMTENPDSCIIFCRTKEHVNQLTDELDDLGYPC 62
Query: 422 VAVHGGKDQEEREYAISSFKAGKKDVLVATDVASKGLDFPDIQHVINYDMPAEIENYVHR 481
+HGG QE+R ++ FK G+ LVATDVA++G+D +I VINYD+P E E+YVHR
Sbjct: 63 DKIHGGMIQEDRFDVMNEFKRGEYRYLVATDVAARGIDIENISLVINYDLPLEKESYVHR 122
Query: 482 IGRTGRCGKTGIATTFI 498
GRTGR G G A +F+
Sbjct: 123 TGRTGRAGNKGKAISFV 139
>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 = 100 bits (249), Expect = 2e-21, Method: Compositional matrix adjust.
Identities = 64/221 (28%), Positives = 105/221 (47%), Gaps = 15/221 (6%)
Query: 142 IKNFKDMRFPEPILKKLKAKGIVQPTPIQVQGLPVVLSGRDMIGIAFTGSGKTLVFVLXX 201
+ F DM E +L+ + G +P+ IQ + + ++ G D++ A +G+GKT F +
Sbjct: 13 VYKFDDMELDENLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAA 72
Query: 202 XXXXXXXXXXXXXVPGEGPFCLIVCPSRELARQTYEVVEQFLTPMRDAGYPDLRTLLCIG 261
+ P L++ P+RELA Q +VV M A + D++ CIG
Sbjct: 73 LQRIDTSV--------KAPQALMLAPTRELALQIQKVV------MALAFHMDIKVHACIG 118
Query: 262 GVDMRSQLEVVKRGVHIVVATPGRLKDMLAKKKMNLDNCRYLTLDEADRLVDLGFEDDIR 321
G E + R IVV TPGR+ D + +++ D + LDEAD ++ GF++ I
Sbjct: 119 GTSFVEDAEGL-RDAQIVVGTPGRVFDNIQRRRFRTDKIKMFILDEADEMLSSGFKEQIY 177
Query: 322 EVFDHFKAQRQTLLFSATMPTKIQNFARSALVKPVTVNVGR 362
++F Q +L SATMP + + PV + V +
Sbjct: 178 QIFTLLPPTTQVVLLSATMPNDVLEVTTKFMRNPVRILVKK 218
>pdb|1QVA|A Chain A, Yeast Initiation Factor 4a N-Terminal Domain
Length = 223
Score = 100 bits (249), Expect = 2e-21, Method: Compositional matrix adjust.
Identities = 64/219 (29%), Positives = 104/219 (47%), Gaps = 15/219 (6%)
Query: 142 IKNFKDMRFPEPILKKLKAKGIVQPTPIQVQGLPVVLSGRDMIGIAFTGSGKTLVFVLXX 201
+ F DM E +L+ + G +P+ IQ + + ++ G D++ A +G+GKT F +
Sbjct: 20 VYKFDDMELDEQLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAA 79
Query: 202 XXXXXXXXXXXXXVPGEGPFCLIVCPSRELARQTYEVVEQFLTPMRDAGYPDLRTLLCIG 261
+ P L++ P+RELA Q +VV M A + D++ CIG
Sbjct: 80 LQRIDTSV--------KAPQALMLAPTRELALQIQKVV------MALAFHMDIKVHACIG 125
Query: 262 GVDMRSQLEVVKRGVHIVVATPGRLKDMLAKKKMNLDNCRYLTLDEADRLVDLGFEDDIR 321
G E + R IVV TPGR+ D + +++ D + LDEAD ++ GF++ I
Sbjct: 126 GTSFVEDAEGL-RDAQIVVGTPGRVFDNIQRRRFRTDKIKMFILDEADEMLSSGFKEQIY 184
Query: 322 EVFDHFKAQRQTLLFSATMPTKIQNFARSALVKPVTVNV 360
++F Q +L SATMP + + PV + V
Sbjct: 185 QIFTLLPPTTQVVLLSATMPNDVLEVTTKFMRNPVRILV 223
>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 = 98.6 bits (244), Expect = 9e-21, Method: Compositional matrix adjust.
Identities = 66/230 (28%), Positives = 117/230 (50%), Gaps = 15/230 (6%)
Query: 133 VDGEDIPPPIKNFKDMRFPEPILKKLKAKGIVQPTPIQVQGLPVVLSGRDMIGIAFTGSG 192
V G + F+D +L+ + G P+ +Q + +P + G D++ A +G G
Sbjct: 4 VKGSYVSIHSSGFRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMG 63
Query: 193 KTLVFVLXXXXXXXXXXXXXXXVPGEGPFCLIVCPSRELARQTYEVVEQFLTPMRDAGYP 252
KT VFVL V G+ L++C +RELA Q + E+F M P
Sbjct: 64 KTAVFVLATLQQLEP-------VTGQVSV-LVMCHTRELAFQISKEYERFSKYM-----P 110
Query: 253 DLRTLLCIGGVDMRSQLEVVKRGV-HIVVATPGRLKDMLAKKKMNLDNCRYLTLDEADRL 311
+++ + GG+ ++ EV+K+ HIVV TPGR+ + K +NL + ++ LDE D++
Sbjct: 111 NVKVAVFFGGLSIKKDEEVLKKNCPHIVVGTPGRILALARNKSLNLKHIKHFILDECDKM 170
Query: 312 VD-LGFEDDIREVFDHFKAQRQTLLFSATMPTKIQNFARSALVKPVTVNV 360
++ L D++E+F ++Q ++FSAT+ +I+ R + P+ + V
Sbjct: 171 LEQLDMRRDVQEIFRMTPHEKQVMMFSATLSKEIRPVCRKFMQDPMEIFV 220
>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 = 93.2 bits (230), Expect = 4e-19, Method: Compositional matrix adjust.
Identities = 63/218 (28%), Positives = 105/218 (48%), Gaps = 15/218 (6%)
Query: 144 NFKDMRFPEPILKKLKAKGIVQPTPIQVQGLPVVLSGRDMIGIAFTGSGKTLVFVLXXXX 203
+F+ + P+L+ L+A G +P+P+Q++ +P+ G D+I A +G+GKT VF
Sbjct: 25 DFESLLLSRPVLEGLRAAGFERPSPVQLKAIPLGRCGLDLIVQAKSGTGKTCVFSTIALD 84
Query: 204 XXXXXXXXXXXVPGEGPFCLIVCPSRELARQTYEVVEQFLTPMRDAGYPDLRTLLCIGGV 263
LI+ P+RE+A Q + V+ M L + IGG
Sbjct: 85 SLVLENLSTQ--------ILILAPTREIAVQIHSVITAIGIKME-----GLECHVFIGGT 131
Query: 264 DMRSQLEVVKRGVHIVVATPGRLKDMLAKKKMNLDNCRYLTLDEADRLVDLG-FEDDIRE 322
+ SQ + + HI V +PGR+K ++ +N + R LDEAD+L++ G F++ I
Sbjct: 132 PL-SQDKTRLKKCHIAVGSPGRIKQLIELDYLNPGSIRLFILDEADKLLEEGSFQEQINW 190
Query: 323 VFDHFKAQRQTLLFSATMPTKIQNFARSALVKPVTVNV 360
++ A +Q L SAT P + N + P V +
Sbjct: 191 IYSSLPASKQMLAVSATYPEFLANALTKYMRDPTFVRL 228
>pdb|1Q0U|A Chain A, Crystal Structure Of The Bstdead N-Terminal Domain
pdb|1Q0U|B Chain B, Crystal Structure Of The Bstdead N-Terminal Domain
Length = 219
Score = 92.0 bits (227), Expect = 8e-19, Method: Compositional matrix adjust.
Identities = 67/218 (30%), Positives = 106/218 (48%), Gaps = 20/218 (9%)
Query: 149 RFP-EP-ILKKLKAKGIVQPTPIQVQGLPVVLSGRDMIGIAFTGSGKTLVFVLXXXXXXX 206
RFP +P I++ +K +PT IQ + +P L G +G + TG+GKT ++L
Sbjct: 8 RFPFQPFIIEAIKTLRFYKPTEIQERIIPGALRGESXVGQSQTGTGKTHAYLLPIXEKIK 67
Query: 207 XXXXXXXXVPGEGPFCLIVCPSRELARQTYEVVEQFLTPMRDAGY-PDLRTLLC---IGG 262
V I P+RELA Q Y ++ + P R ++ IGG
Sbjct: 68 PERAEVQAV--------ITAPTRELATQIYHET------LKITKFCPKDRXIVARCLIGG 113
Query: 263 VDMRSQLEVVKRGVHIVVATPGRLKDMLAKKKMNLDNCRYLTLDEADRLVDLGFEDDIRE 322
D + LE + HIV+ TPGR+ D + ++ +++ L +DEAD +D GF D+ +
Sbjct: 114 TDKQKALEKLNVQPHIVIGTPGRINDFIREQALDVHTAHILVVDEADLXLDXGFITDVDQ 173
Query: 323 VFDHFKAQRQTLLFSATMPTKIQNFARSALVKPVTVNV 360
+ Q L+FSAT+P K++ F + P V+V
Sbjct: 174 IAARXPKDLQXLVFSATIPEKLKPFLKKYXENPTFVHV 211
>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 = 89.4 bits (220), Expect = 5e-18, Method: Compositional matrix adjust.
Identities = 44/118 (37%), Positives = 69/118 (58%), Gaps = 2/118 (1%)
Query: 381 AKIVYLLECLQKTPPPVLIFCENKADVDDIHEYLLLKGVEAVAVHGGKDQEEREYAISSF 440
A +V+LL+ + T ++F + V ++ +L G+ + G Q +R AI
Sbjct: 19 ALLVHLLKQPEATRS--IVFVRKRERVHELANWLREAGINNCYLEGEMVQGKRNEAIKRL 76
Query: 441 KAGKKDVLVATDVASKGLDFPDIQHVINYDMPAEIENYVHRIGRTGRCGKTGIATTFI 498
G+ +VLVATDVA++G+D PD+ HV N+DMP + Y+HRIGRT R G+ G A + +
Sbjct: 77 TEGRVNVLVATDVAARGIDIPDVSHVFNFDMPRSGDTYLHRIGRTARAGRKGTAISLV 134
>pdb|3DKP|A Chain A, Human Dead-Box Rna-Helicase Ddx52, Conserved Domain I In
Complex With Adp
Length = 245
Score = 87.0 bits (214), Expect = 2e-17, Method: Compositional matrix adjust.
Identities = 67/250 (26%), Positives = 119/250 (47%), Gaps = 24/250 (9%)
Query: 123 DLIRKQWHIIVDGEDIPPPIKNFKDM----RFPEPILKKLKAKGIVQPTPIQVQGLPVVL 178
+ +R + I V G D+P PI F+ + + +L+ + G PTPIQ+Q +PV+L
Sbjct: 5 NFLRNKHKIHVQGTDLPDPIATFQQLDQEYKINSRLLQNILDAGFQMPTPIQMQAIPVML 64
Query: 179 SGRDMIGIAFTGSGKTLVFVLXXXXXXXXXXXXXXXVPGEGPF-CLIVCPSRELARQTYE 237
GR+++ A TGSGKTL F + P F LI+ P+RELA Q +
Sbjct: 65 HGRELLASAPTGSGKTLAFSIPILMQLKQ--------PANKGFRALIISPTRELASQIH- 115
Query: 238 VVEQFLTPMRDAGYPDLRTLLCIGGVDMRSQLEVVKRGVHIVVATPGRLKDMLAKK--KM 295
+ + G+ ++ V + + I+V TP RL +L + +
Sbjct: 116 --RELIKISEGTGFRI--HMIHKAAVAAKKFGPKSSKKFDILVTTPNRLIYLLKQDPPGI 171
Query: 296 NLDNCRYLTLDEADRLVD---LGFEDDIREVFDHFKAQR-QTLLFSATMPTKIQNFARSA 351
+L + +L +DE+D+L + GF D + +F + + + +FSAT ++ + +
Sbjct: 172 DLASVEWLVVDESDKLFEDGKTGFRDQLASIFLACTSHKVRRAMFSATFAYDVEQWCKLN 231
Query: 352 LVKPVTVNVG 361
L ++V++G
Sbjct: 232 LDNVISVSIG 241
>pdb|3GFP|A Chain A, Structure Of The C-Terminal Domain Of The Dead-Box Protein
Dbp5
Length = 189
Score = 85.1 bits (209), Expect = 1e-16, Method: Compositional matrix adjust.
Identities = 51/156 (32%), Positives = 81/156 (51%), Gaps = 9/156 (5%)
Query: 361 GRAGAANLDVIQEVEY-VKQEAKIVYLLECLQ--KTPPPVLIFCENKADVDDIHEYLLLK 417
G N+D I+++ K EA +L L T +IF K + ++ L +
Sbjct: 1 GATNEVNVDAIKQLYXDCKNEADKFDVLTELYGLXTIGSSIIFVATKKTANVLYGKLKSE 60
Query: 418 GVEAVAVHGGKDQEEREYAISSFKAGKKDVLVATDVASKGLDFPDIQHVINYDMP----- 472
G E +HG +ER+ I F+ G+ VL+ T+V ++G+D P + V+NYD+P
Sbjct: 61 GHEVSILHGDLQTQERDRLIDDFREGRSKVLITTNVLARGIDIPTVSXVVNYDLPTLANG 120
Query: 473 -AEIENYVHRIGRTGRCGKTGIATTFINKNQSETTL 507
A+ Y+HRIGRTGR G+ G+A +F++ S L
Sbjct: 121 QADPATYIHRIGRTGRFGRKGVAISFVHDKNSFNIL 156
>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 = 84.7 bits (208), Expect = 1e-16, Method: Composition-based stats.
Identities = 50/150 (33%), Positives = 80/150 (53%), Gaps = 9/150 (6%)
Query: 363 AGAANLDVIQEVEY-VKQEAKIVYLLECLQ--KTPPPVLIFCENKADVDDIHEYLLLKGV 419
A N+D I+++ K EA +L L T +IF K + ++ L +G
Sbjct: 2 ANEVNVDAIKQLYXDCKNEADKFDVLTELYGVXTIGSSIIFVATKKTANVLYGKLKSEGH 61
Query: 420 EAVAVHGGKDQEEREYAISSFKAGKKDVLVATDVASKGLDFPDIQHVINYDMP------A 473
E +HG +ER+ I F+ G+ VL+ T+V ++G+D P + V+NYD+P A
Sbjct: 62 EVSILHGDLQTQERDRLIDDFREGRSKVLITTNVLARGIDIPTVSXVVNYDLPTLANGQA 121
Query: 474 EIENYVHRIGRTGRCGKTGIATTFINKNQS 503
+ Y+HRIGRTGR G+ G+A +F++ S
Sbjct: 122 DPATYIHRIGRTGRFGRKGVAISFVHDKNS 151
>pdb|2KBF|A Chain A, Solution Structure Of Carboxyl-Terminal Domain Of Dbp5p
Length = 187
Score = 84.0 bits (206), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 42/121 (34%), Positives = 67/121 (55%), Gaps = 6/121 (4%)
Query: 393 TPPPVLIFCENKADVDDIHEYLLLKGVEAVAVHGGKDQEEREYAISSFKAGKKDVLVATD 452
T +IF K + ++ L +G E +HG +ER+ I F+ G+ VL+ T+
Sbjct: 34 TIGSSIIFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDDFREGRSKVLITTN 93
Query: 453 VASKGLDFPDIQHVINYDMP------AEIENYVHRIGRTGRCGKTGIATTFINKNQSETT 506
V ++G+D P + V+NYD+P A+ Y+HRIGRTGR G+ G+A +F++ S
Sbjct: 94 VLARGIDIPTVSMVVNYDLPTLANGQADPATYIHRIGRTGRFGRKGVAISFVHDKNSFNI 153
Query: 507 L 507
L
Sbjct: 154 L 154
>pdb|3FMO|B Chain B, Crystal Structure Of The Nucleoporin Nup214 In Complex
With The Dead- Box Helicase Ddx19
Length = 300
Score = 81.3 bits (199), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 65/226 (28%), Positives = 108/226 (47%), Gaps = 22/226 (9%)
Query: 142 IKNFKDMRFPEPILKKLKAKGIVQPTPIQVQGLPVVLSG--RDMIGIAFTGSGKTLVFVL 199
+K+F+++R +L+ + A G +P+ IQ LP++L+ +++I + +G+GKT FVL
Sbjct: 91 VKSFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVL 150
Query: 200 XXXXXXXXXXXXXXXVPGEGPFCLIVCPSRELARQTYEVVEQFLTPMRDAGYPDLRTLLC 259
+ P CL + P+ ELA QT +V+EQ YP+L+
Sbjct: 151 AMLSQVEPA--------NKYPQCLCLSPTYELALQTGKVIEQM-----GKFYPELKLAYA 197
Query: 260 IGGVDM-RSQLEVVKRGVHIVVATPGRLKDMLAKKK-MNLDNCRYLTLDEADRLVDL-GF 316
+ G + R Q K IV+ TPG + D +K K ++ + LDEAD ++ G
Sbjct: 198 VRGNKLERGQ----KISEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGH 253
Query: 317 EDDIREVFDHFKAQRQTLLFSATMPTKIQNFARSALVKPVTVNVGR 362
+D + Q LLFSAT + FA+ + P + + R
Sbjct: 254 QDQSIRIQRMLPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKR 299
>pdb|3FHC|B Chain B, Crystal Structure Of Human Dbp5 In Complex With Nup214
Length = 235
Score = 80.5 bits (197), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 65/226 (28%), Positives = 108/226 (47%), Gaps = 22/226 (9%)
Query: 142 IKNFKDMRFPEPILKKLKAKGIVQPTPIQVQGLPVVLS--GRDMIGIAFTGSGKTLVFVL 199
+K+F+++R +L+ + A G +P+ IQ LP++L+ +++I + +G+GKT FVL
Sbjct: 24 VKSFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVL 83
Query: 200 XXXXXXXXXXXXXXXVPGEGPFCLIVCPSRELARQTYEVVEQFLTPMRDAGYPDLRTLLC 259
+ P CL + P+ ELA QT +V+EQ YP+L+
Sbjct: 84 AMLSQVEPA--------NKYPQCLCLSPTYELALQTGKVIEQM-----GKFYPELKLAYA 130
Query: 260 IGGVDM-RSQLEVVKRGVHIVVATPGRLKDMLAKKK-MNLDNCRYLTLDEADRLVDL-GF 316
+ G + R Q K IV+ TPG + D +K K ++ + LDEAD ++ G
Sbjct: 131 VRGNKLERGQ----KISEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGH 186
Query: 317 EDDIREVFDHFKAQRQTLLFSATMPTKIQNFARSALVKPVTVNVGR 362
+D + Q LLFSAT + FA+ + P + + R
Sbjct: 187 QDQSIRIQRMLPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKR 232
>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 = 79.7 bits (195), Expect = 4e-15, Method: Compositional matrix adjust.
Identities = 44/134 (32%), Positives = 72/134 (53%), Gaps = 11/134 (8%)
Query: 425 HGGKDQEEREYAISSFKAGKKDVLVATDVASKGLDFPDIQHVINYDMPAEIENYVHRIGR 484
HG Q +R + FK + +LV TDV ++G+DFP++ V+ +P+E+ NY+HRIGR
Sbjct: 67 HGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGR 126
Query: 485 TGRCGKTGIATTFINKNQSETT--LLDLKHLLQEAKQRIPP-------VLAELNDPMEDV 535
T R GK G + FI K++ L D K+++ +++ P VL + + ED+
Sbjct: 127 TARSGKEGSSVLFICKDELPFVRELEDAKNIVIAKQEKYEPSEEIKSEVLEAVTEEPEDI 186
Query: 536 D--AITNASGVKGC 547
I+ S + C
Sbjct: 187 SDIVISLISSYRSC 200
>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 = 79.7 bits (195), Expect = 4e-15, Method: Compositional matrix adjust.
Identities = 44/134 (32%), Positives = 72/134 (53%), Gaps = 11/134 (8%)
Query: 425 HGGKDQEEREYAISSFKAGKKDVLVATDVASKGLDFPDIQHVINYDMPAEIENYVHRIGR 484
HG Q +R + FK + +LV TDV ++G+DFP++ V+ +P+E+ NY+HRIGR
Sbjct: 67 HGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGR 126
Query: 485 TGRCGKTGIATTFINKNQSETT--LLDLKHLLQEAKQRIPP-------VLAELNDPMEDV 535
T R GK G + FI K++ L D K+++ +++ P VL + + ED+
Sbjct: 127 TARSGKEGSSVLFICKDELPFVRELEDAKNIVIAKQEKYEPSEEIKSEVLEAVTEEPEDI 186
Query: 536 D--AITNASGVKGC 547
I+ S + C
Sbjct: 187 SDIVISLISSYRSC 200
>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 = 79.7 bits (195), Expect = 4e-15, Method: Compositional matrix adjust.
Identities = 44/134 (32%), Positives = 72/134 (53%), Gaps = 11/134 (8%)
Query: 425 HGGKDQEEREYAISSFKAGKKDVLVATDVASKGLDFPDIQHVINYDMPAEIENYVHRIGR 484
HG Q +R + FK + +LV TDV ++G+DFP++ V+ +P+E+ NY+HRIGR
Sbjct: 67 HGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGR 126
Query: 485 TGRCGKTGIATTFINKNQSETT--LLDLKHLLQEAKQRIPP-------VLAELNDPMEDV 535
T R GK G + FI K++ L D K+++ +++ P VL + + ED+
Sbjct: 127 TARSGKEGSSVLFICKDELPFVRELEDAKNIVIAKQEKYEPSEEIKSEVLEAVTEEPEDI 186
Query: 536 D--AITNASGVKGC 547
I+ S + C
Sbjct: 187 SDIVISLISSYRSC 200
>pdb|1T5I|A Chain A, Crystal Structure Of The C-Terminal Domain Of Uap56
Length = 172
Score = 79.0 bits (193), Expect = 8e-15, Method: Compositional matrix adjust.
Identities = 42/130 (32%), Positives = 71/130 (54%), Gaps = 2/130 (1%)
Query: 382 KIVYLLECLQKTPPPVLIFCENKADVDDIHEYLLLKGVEAVAVHGGKDQEEREYAISSFK 441
K+ LL+ L+ V+IF ++ + + L+ + A+A+H G QEER FK
Sbjct: 21 KLFDLLDVLEFNQ--VVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFK 78
Query: 442 AGKKDVLVATDVASKGLDFPDIQHVINYDMPAEIENYVHRIGRTGRCGKTGIATTFINKN 501
++ +LVAT++ +G+D + NYDMP + + Y+HR+ R GR G G+A TF++
Sbjct: 79 DFQRRILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKGLAITFVSDE 138
Query: 502 QSETTLLDLK 511
L D++
Sbjct: 139 NDAKILNDVQ 148
>pdb|2KBE|A Chain A, Solution Structure Of Amino-Terminal Domain Of Dbp5p
Length = 226
Score = 77.4 bits (189), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 59/211 (27%), Positives = 97/211 (45%), Gaps = 23/211 (10%)
Query: 143 KNFKDMRFPEPILKKLKAKGIVQPTPIQVQGLPVVLSG--RDMIGIAFTGSGKTLVFVLX 200
K+F ++ +LK + A +P+ IQ + LP++L R+MI + +G+GKT F L
Sbjct: 22 KSFDELGLAPELLKGIYAMKFQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAAFSLT 81
Query: 201 XXXXXXXXXXXXXXVPGEGPFCLIVCPSRELARQTYEVVEQFLTPMRDAGYPDLRTLLCI 260
P + + PSRELARQT EVV++ + + + L +
Sbjct: 82 MLTRVNPE--------DASPQAICLAPSRELARQTLEVVQEM------GKFTKITSQLIV 127
Query: 261 -GGVDMRSQLEVVKRGVHIVVATPGRLKDMLAKKKMNLDNCRYLTLDEADRLVD-LGFED 318
+ Q+ ++V TPG + D++ +K M L + LDEAD ++D G D
Sbjct: 128 PDSFEKNKQI-----NAQVIVGTPGTVLDLMRRKLMQLQKIKIFVLDEADNMLDQQGLGD 182
Query: 319 DIREVFDHFKAQRQTLLFSATMPTKIQNFAR 349
V Q +LFSAT ++ +A+
Sbjct: 183 QCIRVKRFLPKDTQLVLFSATFADAVRQYAK 213
>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 = 77.0 bits (188), Expect = 3e-14, Method: Compositional matrix adjust.
Identities = 37/88 (42%), Positives = 54/88 (61%)
Query: 393 TPPPVLIFCENKADVDDIHEYLLLKGVEAVAVHGGKDQEEREYAISSFKAGKKDVLVATD 452
+P ++F KA+ ++I + LL G A A+HG Q ERE + +F+ G+ VLVATD
Sbjct: 27 SPDRAMVFTRTKAETEEIAQGLLRLGHPAQALHGDMSQGERERVMGAFRQGEVRVLVATD 86
Query: 453 VASKGLDFPDIQHVINYDMPAEIENYVH 480
VA++GLD P + V++Y MP E Y H
Sbjct: 87 VAARGLDIPQVDLVVHYRMPDRAEAYQH 114
>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 = 73.9 bits (180), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 46/168 (27%), Positives = 76/168 (45%), Gaps = 13/168 (7%)
Query: 370 VIQEVEYVKQEAKIVYLLECLQKTPPPV-----LIFCENKADVDDIHEYLLLKGVEAVAV 424
V Q YV + K+ CL + +IFC + V+ + + + G +
Sbjct: 19 VTQYYAYVTERQKV----HCLNTLFSRLQINQSIIFCNSSQRVELLAKKISQLGYSCFYI 74
Query: 425 HGGKDQEEREYAISSFKAGKKDVLVATDVASKGLDFPDIQHVINYDMPAEIENYVHRIGR 484
H QE R F+ G LV TD+ ++G+D + VIN+D P E Y+HRIGR
Sbjct: 75 HAKMRQEHRNRVFHDFRNGLCRNLVCTDLFTRGIDIQAVNVVINFDFPKLAETYLHRIGR 134
Query: 485 TGRCGKTGIATTFINKNQSETTLLDLKHLLQEAKQRIPPVLAELNDPM 532
+GR G G+A I + +LK + ++ I P+ + ++ +
Sbjct: 135 SGRFGHLGLAINLITYDDR----FNLKSIEEQLGTEIKPIPSNIDKSL 178
>pdb|3EAQ|A Chain A, Novel Dimerization Motif In The Dead Box Rna Helicase Hera
Form 2, Complete Dimer, Symmetric
pdb|3EAQ|B Chain B, Novel Dimerization Motif In The Dead Box Rna Helicase Hera
Form 2, Complete Dimer, Symmetric
pdb|3EAR|A Chain A, Novel Dimerization Motif In The Dead Box Rna Helicase
Hera: Form 1, Partial Dimer
pdb|3EAR|B Chain B, Novel Dimerization Motif In The Dead Box Rna Helicase
Hera: Form 1, Partial Dimer
pdb|3EAS|A Chain A, Novel Dimerization Motif In The Dead Box Rna Helicase
Hera: Form 1, Complete Dimer, Asymmetric
pdb|3EAS|B Chain B, Novel Dimerization Motif In The Dead Box Rna Helicase
Hera: Form 1, Complete Dimer, Asymmetric
Length = 212
Score = 73.9 bits (180), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 36/88 (40%), Positives = 54/88 (61%)
Query: 393 TPPPVLIFCENKADVDDIHEYLLLKGVEAVAVHGGKDQEEREYAISSFKAGKKDVLVATD 452
+P ++F KA+ ++I + LL G A A+HG Q ERE + +F+ G+ VLVATD
Sbjct: 30 SPDRAMVFTRTKAETEEIAQGLLRLGHPAQALHGDLSQGERERVLGAFRQGEVRVLVATD 89
Query: 453 VASKGLDFPDIQHVINYDMPAEIENYVH 480
VA++GLD P + V++Y +P E Y H
Sbjct: 90 VAARGLDIPQVDLVVHYRLPDRAEAYQH 117
>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 = 73.6 bits (179), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 37/112 (33%), Positives = 61/112 (54%), Gaps = 6/112 (5%)
Query: 393 TPPPVLIFCENKADVDDIHEYLLLKGVEAVAVHGGKDQEEREYAISSFKAGKKDVLVATD 452
T +IFC+ + + + ++ G + + G E+R I F+ GK+ VL+ T+
Sbjct: 33 TIGQAIIFCQTRRNAKWLTVEMIQDGHQVSLLSGELTVEQRASIIQRFRDGKEKVLITTN 92
Query: 453 VASKGLDFPDIQHVINYDMPA------EIENYVHRIGRTGRCGKTGIATTFI 498
V ++G+D + V+N+D+P + E Y+HRIGRTGR GK G+A I
Sbjct: 93 VCARGIDVKQVTIVVNFDLPVKQGEEPDYETYLHRIGRTGRFGKKGLAFNMI 144
>pdb|1FUK|A Chain A, Crystal Structure Of The Carboxy Terminal Domain Of Yeast
Eif4a
Length = 165
Score = 66.2 bits (160), Expect = 4e-11, Method: Composition-based stats.
Identities = 46/149 (30%), Positives = 79/149 (53%), Gaps = 6/149 (4%)
Query: 385 YLLECLQK-----TPPPVLIFCENKADVDDIHEYLLLKGVEAVAVHGGKDQEEREYAISS 439
Y ECL + +IFC + V+++ L A++ Q+ER+ +
Sbjct: 16 YKYECLTDLYDSISVTQAVIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTIMKE 75
Query: 440 FKAGKKDVLVATDVASKGLDFPDIQHVINYDMPAEIENYVHRIGRTGRCGKTGIATTFIN 499
F++G +L++TD+ ++G+D + VINYD+PA ENY+HRIGR GR G+ G+A F+
Sbjct: 76 FRSGSSRILISTDLLARGIDVQQVSLVINYDLPANKENYIHRIGRGGRFGRKGVAINFVT 135
Query: 500 KNQSETTLLDLKHLLQEAKQRIPPVLAEL 528
N+ + +L+ + +P +A L
Sbjct: 136 -NEDVGAMRELEKFYSTQIEELPSDIATL 163
>pdb|1OYW|A Chain A, Structure Of The Recq Catalytic Core
Length = 523
Score = 65.5 bits (158), Expect = 7e-11, Method: Compositional matrix adjust.
Identities = 83/351 (23%), Positives = 137/351 (39%), Gaps = 44/351 (12%)
Query: 162 GIVQPTPIQVQGLPVVLSGRDMIGIAFTGSGKTLVFVLXXXXXXXXXXXXXXXVPGEGPF 221
G Q P Q + + VLSGRD + + TG GK+L + +
Sbjct: 22 GYQQFRPGQEEIIDTVLSGRDCLVVXPTGGGKSLCYQIPALLL--------------NGL 67
Query: 222 CLIVCPSRELARQTYEVVEQFLTPMRDAGYPDLRTLLCIGGVDMRSQLEVVKRG-----V 276
++V P L + + V+Q A C+ R Q V G +
Sbjct: 68 TVVVSPLISLXK---DQVDQLQANGVAAA--------CLNSTQTREQQLEVXTGCRTGQI 116
Query: 277 HIVVATPGRLKDMLAKKKMNLDNCRYLTLDEADRLVDLGFEDDIREVFDHFKAQRQ---T 333
++ P RL + + N L +DEA + G D R + RQ T
Sbjct: 117 RLLYIAPERLXLDNFLEHLAHWNPVLLAVDEAHCISQWGH--DFRPEYAALGQLRQRFPT 174
Query: 334 LLFSATMPTKIQNFARSALVKPVTVN-----VGRAGAANLDVIQEVEYVKQEAKIVYLLE 388
L F A T + R +V+ + +N + N+ ++ + Y+ E
Sbjct: 175 LPFXALTATA-DDTTRQDIVRLLGLNDPLIQISSFDRPNIRYXLXEKFKPLDQLXRYVQE 233
Query: 389 CLQKTPPPVLIFCENKADVDDIHEYLLLKGVEAVAVHGGKDQEEREYAISSFKAGKKDVL 448
K+ +I+C ++A V+D L KG+ A A H G + R F+ ++
Sbjct: 234 QRGKSG---IIYCNSRAKVEDTAARLQSKGISAAAYHAGLENNVRADVQEKFQRDDLQIV 290
Query: 449 VATDVASKGLDFPDIQHVINYDMPAEIENYVHRIGRTGRCGKTGIATTFIN 499
VAT G++ P+++ V+++D+P IE+Y GR GR G A F +
Sbjct: 291 VATVAFGXGINKPNVRFVVHFDIPRNIESYYQETGRAGRDGLPAEAXLFYD 341
>pdb|1OYY|A Chain A, Structure Of The Recq Catalytic Core Bound To Atp-Gamma-S
Length = 523
Score = 65.1 bits (157), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 32/102 (31%), Positives = 53/102 (51%)
Query: 398 LIFCENKADVDDIHEYLLLKGVEAVAVHGGKDQEEREYAISSFKAGKKDVLVATDVASKG 457
+I+C ++A V+D L KG+ A A H G + R F+ ++VAT G
Sbjct: 240 IIYCNSRAKVEDTAARLQSKGISAAAYHAGLENNVRADVQEKFQRDDLQIVVATVAFGMG 299
Query: 458 LDFPDIQHVINYDMPAEIENYVHRIGRTGRCGKTGIATTFIN 499
++ P+++ V+++D+P IE+Y GR GR G A F +
Sbjct: 300 INKPNVRFVVHFDIPRNIESYYQETGRAGRDGLPAEAMLFYD 341
>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 = 54.7 bits (130), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 28/90 (31%), Positives = 47/90 (52%)
Query: 398 LIFCENKADVDDIHEYLLLKGVEAVAVHGGKDQEEREYAISSFKAGKKDVLVATDVASKG 457
+I+C ++ D + + L G+ A A H + E++ + A + V+VAT G
Sbjct: 271 IIYCFSQKDSEQVTVSLQNLGIHAGAYHANLEPEDKTTVHRKWSANEIQVVVATVAFGMG 330
Query: 458 LDFPDIQHVINYDMPAEIENYVHRIGRTGR 487
+D PD++ VI++ M +ENY GR GR
Sbjct: 331 IDKPDVRFVIHHSMSKSMENYYQESGRAGR 360
>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 = 48.1 bits (113), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 32/106 (30%), Positives = 54/106 (50%), Gaps = 10/106 (9%)
Query: 391 QKTPPPVLIFCENKADVDDIHEYLLLKGVEAVAVHG--------GKDQEEREYAISSFKA 442
+K +++F + I L+ G++A G G Q E++ + F
Sbjct: 358 RKQNSKIIVFTNYRETAKKIVNELVKDGIKAKRFVGQASKENDRGLSQREQKLILDEFAR 417
Query: 443 GKKDVLVATDVASKGLDFPDIQHVINYD-MPAEIENYVHRIGRTGR 487
G+ +VLVAT V +GLD P++ V+ Y+ +P+ I + + R GRTGR
Sbjct: 418 GEFNVLVATSVGEEGLDVPEVDLVVFYEPVPSAIRS-IQRRGRTGR 462
>pdb|3P4X|A Chain A, Helicase Domain Of Reverse Gyrase From Thermotoga Maritima
pdb|3P4X|B Chain B, Helicase Domain Of Reverse Gyrase From Thermotoga Maritima
Length = 413
Score = 45.1 bits (105), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 33/140 (23%), Positives = 66/140 (47%), Gaps = 15/140 (10%)
Query: 356 VTVNVGRAGAANLDVIQEVEYVKQEAKIVYLLECLQKTPPPVLIFCENKADVDDIHEYLL 415
+ VGR + ++ + + K+V LLE + +LIF + + + +++EYL
Sbjct: 216 LNFTVGRLVSVARNITHVRISSRSKEKLVELLEIFR---DGILIFAQTEEEGKELYEYL- 271
Query: 416 LKGVEAVAVHGGKDQEEREYAISSFKAGKKDVLVATDVA----SKGLDFPD-IQHVINYD 470
+ + G+ E E FK GK ++L+ ++G+D P+ I++VI +
Sbjct: 272 ----KRFKFNVGETWSEFEKNFEDFKVGKINILIGVQAYYGKLTRGVDLPERIKYVIFWG 327
Query: 471 MPA--EIENYVHRIGRTGRC 488
P+ ++ Y+ GR+ R
Sbjct: 328 TPSGPDVYTYIQASGRSSRI 347
>pdb|3OIY|A Chain A, Helicase Domain Of Reverse Gyrase From Thermotoga Maritima
pdb|3OIY|B Chain B, Helicase Domain Of Reverse Gyrase From Thermotoga Maritima
Length = 414
Score = 45.1 bits (105), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 33/140 (23%), Positives = 66/140 (47%), Gaps = 15/140 (10%)
Query: 356 VTVNVGRAGAANLDVIQEVEYVKQEAKIVYLLECLQKTPPPVLIFCENKADVDDIHEYLL 415
+ VGR + ++ + + K+V LLE + +LIF + + + +++EYL
Sbjct: 217 LNFTVGRLVSVARNITHVRISSRSKEKLVELLEIFR---DGILIFAQTEEEGKELYEYL- 272
Query: 416 LKGVEAVAVHGGKDQEEREYAISSFKAGKKDVLVATDVA----SKGLDFPD-IQHVINYD 470
+ + G+ E E FK GK ++L+ ++G+D P+ I++VI +
Sbjct: 273 ----KRFKFNVGETWSEFEKNFEDFKVGKINILIGVQAYYGKLTRGVDLPERIKYVIFWG 328
Query: 471 MPA--EIENYVHRIGRTGRC 488
P+ ++ Y+ GR+ R
Sbjct: 329 TPSGPDVYTYIQASGRSSRI 348
>pdb|3P4Y|A Chain A, Helicase Domain Of Reverse Gyrase From Thermotoga Maritima
- P2 Form
Length = 415
Score = 45.1 bits (105), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 33/140 (23%), Positives = 66/140 (47%), Gaps = 15/140 (10%)
Query: 356 VTVNVGRAGAANLDVIQEVEYVKQEAKIVYLLECLQKTPPPVLIFCENKADVDDIHEYLL 415
+ VGR + ++ + + K+V LLE + +LIF + + + +++EYL
Sbjct: 218 LNFTVGRLVSVARNITHVRISSRSKEKLVELLEIFR---DGILIFAQTEEEGKELYEYL- 273
Query: 416 LKGVEAVAVHGGKDQEEREYAISSFKAGKKDVLVATDVA----SKGLDFPD-IQHVINYD 470
+ + G+ E E FK GK ++L+ ++G+D P+ I++VI +
Sbjct: 274 ----KRFKFNVGETWSEFEKNFEDFKVGKINILIGVQAYYGKLTRGVDLPERIKYVIFWG 329
Query: 471 MPA--EIENYVHRIGRTGRC 488
P+ ++ Y+ GR+ R
Sbjct: 330 TPSGPDVYTYIQASGRSSRI 349
>pdb|3DMQ|A Chain A, Crystal Structure Of Rapa, A Swi2SNF2 PROTEIN THAT
Recycles Rna Polymerase During Transcription
pdb|3DMQ|B Chain B, Crystal Structure Of Rapa, A Swi2SNF2 PROTEIN THAT
Recycles Rna Polymerase During Transcription
Length = 968
Score = 42.0 bits (97), Expect = 9e-04, Method: Compositional matrix adjust.
Identities = 27/98 (27%), Positives = 46/98 (46%), Gaps = 3/98 (3%)
Query: 397 VLIFCENKADVDDIHEYLLLK-GVEAVAVHGGKDQEEREYAISSF--KAGKKDVLVATDV 453
VL+ C A + + L + G+ A H G ER+ A + F + VL+ +++
Sbjct: 506 VLVICAKAATALQLEQVLREREGIRAAVFHEGXSIIERDRAAAWFAEEDTGAQVLLCSEI 565
Query: 454 ASKGLDFPDIQHVINYDMPAEIENYVHRIGRTGRCGKT 491
S+G +F H + +D+P + RIGR R G+
Sbjct: 566 GSEGRNFQFASHXVXFDLPFNPDLLEQRIGRLDRIGQA 603
>pdb|2VA8|A Chain A, Dna Repair Helicase Hel308
pdb|2VA8|B Chain B, Dna Repair Helicase Hel308
Length = 715
Score = 40.0 bits (92), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 88/418 (21%), Positives = 149/418 (35%), Gaps = 90/418 (21%)
Query: 146 KDMRFPEPILKKLKAKGIVQPTPIQVQGLPV-VLSGRDMIGIAFTGSGKTLVFVLXXXXX 204
+D++ P +++ +K +GI + P Q + + +L G ++ + TGSGKTL+
Sbjct: 11 EDLKLPSNVIEIIKKRGIKKLNPPQTEAVKKGLLEGNRLLLTSPTGSGKTLI-------- 62
Query: 205 XXXXXXXXXXVPGEGPFCLIVCPSRELARQTYEVVEQFLTPMRDAGYPDLRTLLCIGGVD 264
+ G + V P R L E++LT +D + + G D
Sbjct: 63 --AEMGIISFLLKNGGKAIYVTPLRALTN------EKYLT-FKDWELIGFKVAMTSGDYD 113
Query: 265 MRSQLEVVKRGVHIVVATPGRLKDMLAKKKMNLDNCRYLTLDEADRLVDLGFEDDIREVF 324
+ + I++ T +L + + L+ Y LDE L D + V
Sbjct: 114 TD---DAWLKNYDIIITTYEKLDSLWRHRPEWLNEVNYFVLDELHYLNDPERGPVVESV- 169
Query: 325 DHFKAQRQTLLFSATMPTKIQNFARSALVKPVTVNVG-----------RAGAANLDVIQE 373
+A+R+ LL + + + A+ +PV N +VI +
Sbjct: 170 -TIRAKRRNLLALSATISNYKQIAKWLGAEPVATNWRPVPLIEGVIYPERKKKEYNVIFK 228
Query: 374 VEYVKQ----EAKIVYLLECLQKTPPPVLIFCENK------------------------- 404
K+ +A I Y L+ L K VL+F ++
Sbjct: 229 DNTTKKVHGDDAIIAYTLDSLSKN-GQVLVFRNSRKMAESTALKIANYMNFVSLDENALS 287
Query: 405 ---ADVDDIHE----------YLLLKGVEAVAVHGGKDQEEREYAISSFKAGKKDVLVAT 451
+DDI E L+ KGV H G + R+ F+ K V+VAT
Sbjct: 288 EILKQLDDIEEGGSDEKELLKSLISKGV--AYHHAGLSKALRDLIEEGFRQRKIKVIVAT 345
Query: 452 DVASKGLDFPDIQHVIN--YDMPAEIENYVHRI---------GRTGRCGKTGIATTFI 498
+ G++ P +I Y +I Y I GR GR G I + +
Sbjct: 346 PTLAAGVNLPARTVIIGDIYRFNKKIAGYYDEIPIMEYKQMSGRAGRPGFDQIGESIV 403
>pdb|2FZL|A Chain A, Structure Of C-Terminal Domain Of Archaeoglobus Fulgidus
Xpb
Length = 219
Score = 39.3 bits (90), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 29/110 (26%), Positives = 49/110 (44%), Gaps = 6/110 (5%)
Query: 382 KIVYLLECLQK-TPPPVLIFCENKADVDDIHEYLLLKGVEAVAVHGGKDQEEREYAISSF 440
KI L E L++ ++IF + V I + L+ A+ +EERE + F
Sbjct: 101 KIRKLREILERHRKDKIIIFTRHNELVYRISKVFLIP-----AITHRTSREEREEILEGF 155
Query: 441 KAGKKDVLVATDVASKGLDFPDIQHVINYDMPAEIENYVHRIGRTGRCGK 490
+ G+ +V++ V +G+D PD + Y+ R+GR R K
Sbjct: 156 RTGRFRAIVSSQVLDEGIDVPDANVGVIMSGSGSAREYIQRLGRILRPSK 205
>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 = 39.3 bits (90), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 21/58 (36%), Positives = 33/58 (56%), Gaps = 3/58 (5%)
Query: 430 QEEREYAISSFKAGKKDVLVATDVASKGLDFPDIQHVINYDMPAEIENYVHRIGRTGR 487
Q E++ IS F+ GK ++L+AT VA +GLD + VI Y + + N + + GR
Sbjct: 450 QNEQKEVISKFRTGKINLLIATTVAEEGLDIKECNIVIRYGL---VTNEIAMVQARGR 504
>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 = 38.5 bits (88), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 29/110 (26%), Positives = 49/110 (44%), Gaps = 6/110 (5%)
Query: 382 KIVYLLECLQK-TPPPVLIFCENKADVDDIHEYLLLKGVEAVAVHGGKDQEEREYAISSF 440
KI L E L++ ++IF + V I + L+ A+ +EERE + F
Sbjct: 336 KIRKLREILERHRKDKIIIFTRHNELVYRISKVFLIP-----AITHRTSREEREEILEGF 390
Query: 441 KAGKKDVLVATDVASKGLDFPDIQHVINYDMPAEIENYVHRIGRTGRCGK 490
+ G+ +V++ V +G+D PD + Y+ R+GR R K
Sbjct: 391 RTGRFRAIVSSQVLDEGIDVPDANVGVIMSGSGSAREYIQRLGRILRPSK 440
>pdb|3UWX|B Chain B, Crystal Structure Of Uvra-Uvrb Complex
Length = 683
Score = 38.5 bits (88), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 32/129 (24%), Positives = 54/129 (41%), Gaps = 11/129 (8%)
Query: 397 VLIFCENKADVDDIHEYLLLKGVEAVAVHGGKDQEEREYAISSFKAGKKDVLVATDVASK 456
L+ K +D+ +YL G++ +H ER I + GK DVLV ++ +
Sbjct: 473 TLVTTLTKKMAEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLRE 532
Query: 457 GLDFPDIQHVINYDMPAE-----IENYVHRIGRTGRCGKTGIATTFINKNQSETTLLDLK 511
GLD P++ V D E + + IGR R + ++T ++
Sbjct: 533 GLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAARNANGHVIMY------ADTITKSME 586
Query: 512 HLLQEAKQR 520
+QE K+R
Sbjct: 587 IAIQETKRR 595
>pdb|1D9Z|A Chain A, Crystal Structure Of The Dna Repair Protein Uvrb In
Complex With Atp
Length = 657
Score = 38.5 bits (88), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 32/129 (24%), Positives = 54/129 (41%), Gaps = 11/129 (8%)
Query: 397 VLIFCENKADVDDIHEYLLLKGVEAVAVHGGKDQEEREYAISSFKAGKKDVLVATDVASK 456
L+ K +D+ +YL G++ +H ER I + GK DVLV ++ +
Sbjct: 447 TLVTTLTKKMAEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLRE 506
Query: 457 GLDFPDIQHVINYDMPAE-----IENYVHRIGRTGRCGKTGIATTFINKNQSETTLLDLK 511
GLD P++ V D E + + IGR R + ++T ++
Sbjct: 507 GLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAARNANGHVIMY------ADTITKSME 560
Query: 512 HLLQEAKQR 520
+QE K+R
Sbjct: 561 IAIQETKRR 569
>pdb|1D9X|A Chain A, Crystal Structure Of The Dna Repair Protein Uvrb
Length = 658
Score = 38.5 bits (88), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 32/129 (24%), Positives = 54/129 (41%), Gaps = 11/129 (8%)
Query: 397 VLIFCENKADVDDIHEYLLLKGVEAVAVHGGKDQEEREYAISSFKAGKKDVLVATDVASK 456
L+ K +D+ +YL G++ +H ER I + GK DVLV ++ +
Sbjct: 448 TLVTTLTKKMAEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLRE 507
Query: 457 GLDFPDIQHVINYDMPAE-----IENYVHRIGRTGRCGKTGIATTFINKNQSETTLLDLK 511
GLD P++ V D E + + IGR R + ++T ++
Sbjct: 508 GLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAARNANGHVIMY------ADTITKSME 561
Query: 512 HLLQEAKQR 520
+QE K+R
Sbjct: 562 IAIQETKRR 570
>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 = 38.5 bits (88), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 32/129 (24%), Positives = 54/129 (41%), Gaps = 11/129 (8%)
Query: 397 VLIFCENKADVDDIHEYLLLKGVEAVAVHGGKDQEEREYAISSFKAGKKDVLVATDVASK 456
L+ K +D+ +YL G++ +H ER I + GK DVLV ++ +
Sbjct: 448 TLVTTLTKKMAEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLRE 507
Query: 457 GLDFPDIQHVINYDMPAE-----IENYVHRIGRTGRCGKTGIATTFINKNQSETTLLDLK 511
GLD P++ V D E + + IGR R + ++T ++
Sbjct: 508 GLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAARNANGHVIMY------ADTITKSME 561
Query: 512 HLLQEAKQR 520
+QE K+R
Sbjct: 562 IAIQETKRR 570
>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 = 38.5 bits (88), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 32/129 (24%), Positives = 54/129 (41%), Gaps = 11/129 (8%)
Query: 397 VLIFCENKADVDDIHEYLLLKGVEAVAVHGGKDQEEREYAISSFKAGKKDVLVATDVASK 456
L+ K +D+ +YL G++ +H ER I + GK DVLV ++ +
Sbjct: 448 TLVTTLTKKMAEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLRE 507
Query: 457 GLDFPDIQHVINYDMPAE-----IENYVHRIGRTGRCGKTGIATTFINKNQSETTLLDLK 511
GLD P++ V D E + + IGR R + ++T ++
Sbjct: 508 GLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAARNANGHVIMY------ADTITKSME 561
Query: 512 HLLQEAKQR 520
+QE K+R
Sbjct: 562 IAIQETKRR 570
>pdb|4DDT|A Chain A, Thermotoga Maritima Reverse Gyrase, C2 Form 2
pdb|4DDU|A Chain A, Thermotoga Maritima Reverse Gyrase, C2 Form 1
pdb|4DDV|A Chain A, Thermotoga Maritima Reverse Gyrase, Triclinic Form
pdb|4DDV|B Chain B, Thermotoga Maritima Reverse Gyrase, Triclinic Form
pdb|4DDW|A Chain A, Thermotoga Maritima Reverse Gyrase, C-centered
Orthorhombic Form
pdb|4DDX|A Chain A, Thermotoga Maritima Reverse Gyrase, Primitive Monoclinic
Form
pdb|4DDX|B Chain B, Thermotoga Maritima Reverse Gyrase, Primitive Monoclinic
Form
Length = 1104
Score = 38.1 bits (87), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 29/123 (23%), Positives = 58/123 (47%), Gaps = 13/123 (10%)
Query: 356 VTVNVGRAGAANLDVIQEVEYVKQEAKIVYLLECLQKTPPPVLIFCENKADVDDIHEYLL 415
+ VGR + ++ + + K+V LLE + +LIF + + + +++EYL
Sbjct: 274 LNFTVGRLVSVARNITHVRISSRSKEKLVELLEIFR---DGILIFAQTEEEGKELYEYL- 329
Query: 416 LKGVEAVAVHGGKDQEEREYAISSFKAGKKDVLVATDVA----SKGLDFPD-IQHVINYD 470
+ + G+ E E FK GK ++L+ ++G+D P+ I++VI +
Sbjct: 330 ----KRFKFNVGETWSEFEKNFEDFKVGKINILIGVQAYYGKLTRGVDLPERIKYVIFWG 385
Query: 471 MPA 473
P+
Sbjct: 386 TPS 388
>pdb|4I1S|A Chain A, Melanoma Differentiation Associated Protein-5 Helicase
Domain Complex With Inhibitor Non-structural Protein V
Length = 243
Score = 37.7 bits (86), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 18/42 (42%), Positives = 26/42 (61%)
Query: 430 QEEREYAISSFKAGKKDVLVATDVASKGLDFPDIQHVINYDM 471
Q E+ IS F+ GK ++L+AT VA +GLD + VI Y +
Sbjct: 200 QNEQREVISKFRTGKINLLIATTVAEEGLDIKECNIVIRYGL 241
>pdb|1GM5|A Chain A, Structure Of Recg Bound To Three-Way Dna Junction
Length = 780
Score = 37.4 bits (85), Expect = 0.025, Method: Compositional matrix adjust.
Identities = 40/136 (29%), Positives = 65/136 (47%), Gaps = 26/136 (19%)
Query: 368 LDVIQEV-EYVKQE------AKIVY-LLECLQKTPPPVLIFCENKADVDDIHEYL---LL 416
+D + EV E+V+QE A IVY L+E K N +++EYL +
Sbjct: 561 MDRVNEVYEFVRQEVMRGGQAFIVYPLIEESDKL---------NVKSAVEMYEYLSKEVF 611
Query: 417 KGVEAVAVHGGKDQEEREYAISSFKAGKKDVLVATDVASKGLDFPDIQHVINYDMP---- 472
+ +HG QEE++ + F G+ D+LV+T V G+D P +V+ + P
Sbjct: 612 PEFKLGLMHGRLSQEEKDRVMLEFAEGRYDILVSTTVIEVGIDVPR-ANVMVIENPERFG 670
Query: 473 -AEIENYVHRIGRTGR 487
A++ R+GR G+
Sbjct: 671 LAQLHQLRGRVGRGGQ 686
>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 = 37.0 bits (84), Expect = 0.029, Method: Compositional matrix adjust.
Identities = 28/99 (28%), Positives = 44/99 (44%), Gaps = 5/99 (5%)
Query: 397 VLIFCENKADVDDIHEYLLLKGVEAVAVHGGKDQEEREYAISSFKAGKKDVLVATDVASK 456
VL+ K +D+ +YL G++ +H ER I + GK DVLV ++ +
Sbjct: 454 VLVTTLTKKMSEDLTDYLKEIGIKVNYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLRE 513
Query: 457 GLDFPDIQHVINYDMPAE-----IENYVHRIGRTGRCGK 490
GLD P++ V D E + + IGR R +
Sbjct: 514 GLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAARNAE 552
>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 = 37.0 bits (84), Expect = 0.029, Method: Compositional matrix adjust.
Identities = 28/99 (28%), Positives = 44/99 (44%), Gaps = 5/99 (5%)
Query: 397 VLIFCENKADVDDIHEYLLLKGVEAVAVHGGKDQEEREYAISSFKAGKKDVLVATDVASK 456
VL+ K +D+ +YL G++ +H ER I + GK DVLV ++ +
Sbjct: 448 VLVTTLTKKMSEDLTDYLKEIGIKVNYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLRE 507
Query: 457 GLDFPDIQHVINYDMPAE-----IENYVHRIGRTGRCGK 490
GLD P++ V D E + + IGR R +
Sbjct: 508 GLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAARNAE 546
>pdb|1D2M|A Chain A, Uvrb Protein Of Thermus Thermophilus Hb8; A Nucleotide
Excision Repair Enzyme
Length = 665
Score = 35.4 bits (80), Expect = 0.085, Method: Compositional matrix adjust.
Identities = 22/88 (25%), Positives = 40/88 (45%), Gaps = 5/88 (5%)
Query: 408 DDIHEYLLLKGVEAVAVHGGKDQEEREYAISSFKAGKKDVLVATDVASKGLDFPDIQHVI 467
+++ +L+ G+ A +H D +R+ I + G D LV ++ +GLD P++ V
Sbjct: 454 EELTSFLVEHGIRARYLHHELDAFKRQALIRDLRLGHYDCLVGINLLREGLDIPEVSLVA 513
Query: 468 NYDMPAE-----IENYVHRIGRTGRCGK 490
D E + + IGR R +
Sbjct: 514 ILDADKEGFLRSERSLIQTIGRAARNAR 541
>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 = 0.089, Method: Compositional matrix adjust.
Identities = 22/88 (25%), Positives = 40/88 (45%), Gaps = 5/88 (5%)
Query: 408 DDIHEYLLLKGVEAVAVHGGKDQEEREYAISSFKAGKKDVLVATDVASKGLDFPDIQHVI 467
+++ +L+ G+ A +H D +R+ I + G D LV ++ +GLD P++ V
Sbjct: 453 EELTSFLVEHGIRARYLHHELDAFKRQALIRDLRLGHYDCLVGINLLREGLDIPEVSLVA 512
Query: 468 NYDMPAE-----IENYVHRIGRTGRCGK 490
D E + + IGR R +
Sbjct: 513 ILDADKEGFLRSERSLIQTIGRAARNAR 540
>pdb|2ZJO|A Chain A, Crystal Structure Of Hepatitis C Virus Ns3 Helicase With A
Novel Inhibitor
Length = 482
Score = 33.1 bits (74), Expect = 0.47, Method: Compositional matrix adjust.
Identities = 23/68 (33%), Positives = 31/68 (45%), Gaps = 9/68 (13%)
Query: 398 LIFCENKADVDDIHEYLLLKGVEAVAVHGGKDQEEREYAISSFKAGKKDVLVATDVASKG 457
LIFC +K D++ L G+ AVA + G D +S A V+VATD G
Sbjct: 210 LIFCHSKKKCDELAAKLSALGIHAVAYYRGLD-------VSVIPASGNVVVVATDALMTG 262
Query: 458 L--DFPDI 463
DF +
Sbjct: 263 FTGDFDSV 270
>pdb|2HYD|A Chain A, Multidrug Abc Transporter Sav1866
pdb|2HYD|B Chain B, Multidrug Abc Transporter Sav1866
pdb|2ONJ|A Chain A, Structure Of The Multidrug Abc Transporter Sav1866 From S.
Aureus In Complex With Amp-Pnp
pdb|2ONJ|B Chain B, Structure Of The Multidrug Abc Transporter Sav1866 From S.
Aureus In Complex With Amp-Pnp
pdb|4A82|A Chain A, Fitted Model Of Staphylococcus Aureus Sav1866 Model Abc
Transporter In The Human Cystic Fibrosis Transmembrane
Conductance Regulator Volume Map Emd-1966.
pdb|4A82|B Chain B, Fitted Model Of Staphylococcus Aureus Sav1866 Model Abc
Transporter In The Human Cystic Fibrosis Transmembrane
Conductance Regulator Volume Map Emd-1966.
pdb|4A82|C Chain C, Fitted Model Of Staphylococcus Aureus Sav1866 Model Abc
Transporter In The Human Cystic Fibrosis Transmembrane
Conductance Regulator Volume Map Emd-1966.
pdb|4A82|D Chain D, Fitted Model Of Staphylococcus Aureus Sav1866 Model Abc
Transporter In The Human Cystic Fibrosis Transmembrane
Conductance Regulator Volume Map Emd-1966
Length = 578
Score = 32.7 bits (73), Expect = 0.56, Method: Compositional matrix adjust.
Identities = 25/73 (34%), Positives = 36/73 (49%), Gaps = 4/73 (5%)
Query: 270 EVVKRGVHIVVATPGRLKDMLAKKKMNLDNCRYLTLDEADRLVDLGFEDDIREVFDHFKA 329
EV +RGV + G K L+ ++ L+N L LDEA +DL E I+E D
Sbjct: 470 EVGERGVKL----SGGQKQRLSIARIFLNNPPILILDEATSALDLESESIIQEALDVLSK 525
Query: 330 QRQTLLFSATMPT 342
R TL+ + + T
Sbjct: 526 DRTTLIVAHRLST 538
>pdb|1A1V|A Chain A, Hepatitis C Virus Ns3 Helicase Domain Complexed With
Single Stranded Sdna
Length = 476
Score = 32.0 bits (71), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 22/65 (33%), Positives = 30/65 (46%), Gaps = 9/65 (13%)
Query: 398 LIFCENKADVDDIHEYLLLKGVEAVAVHGGKDQEEREYAISSFKAGKKDVLVATDVASKG 457
LIFC +K D++ L+ G+ AVA + G D +S V+VATD G
Sbjct: 200 LIFCHSKKKCDELAAKLVALGINAVAYYRGLD-------VSVIPTSGDVVVVATDALMTG 252
Query: 458 L--DF 460
DF
Sbjct: 253 FTGDF 257
>pdb|3RC3|A Chain A, Human Mitochondrial Helicase Suv3
Length = 677
Score = 31.6 bits (70), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 27/121 (22%), Positives = 50/121 (41%), Gaps = 16/121 (13%)
Query: 366 ANLDVIQEVEYVKQE-------------AKIVYLLECLQKTPPPVLIFCENKADVDDIHE 412
A +D++ E+ Y E + + + LE L P I C +K D+ +
Sbjct: 279 AAIDLVXELXYTTGEEVEVRDYKRLTPISVLDHALESLDNLRPGDCIVCFSKNDIYSVSR 338
Query: 413 YLLLKGVEAVAVHGGKDQEEREYAISSFKAGKK--DVLVATDVASKGLDFPDIQHVINYD 470
+ ++G+E+ ++G + F +LVATD GL+ I+ +I Y
Sbjct: 339 QIEIRGLESAVIYGSLPPGTKLAQAKKFNDPNDPCKILVATDAIGXGLNL-SIRRIIFYS 397
Query: 471 M 471
+
Sbjct: 398 L 398
>pdb|3RC8|A Chain A, Human Mitochondrial Helicase Suv3 In Complex With Short
Rna Fragment
Length = 677
Score = 31.6 bits (70), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 39/175 (22%), Positives = 65/175 (37%), Gaps = 36/175 (20%)
Query: 366 ANLDVIQEVEYVKQE-------------AKIVYLLECLQKTPPPVLIFCENKADVDDIHE 412
A +D++ E+ Y E + + + LE L P I C +K D+ +
Sbjct: 279 AAIDLVMELMYTTGEEVEVRDYKRLTPISVLDHALESLDNLRPGDCIVCFSKNDIYSVSR 338
Query: 413 YLLLKGVEAVAVHGGKDQEEREYAISSFKAGKK--DVLVATDVASKGLDFPDIQHVINYD 470
+ ++G+E+ ++G + F +LVATD GL+ I+ +I Y
Sbjct: 339 QIEIRGLESAVIYGSLPPGTKLAQAKKFNDPNDPCKILVATDAIGMGLNL-SIRRIIFYS 397
Query: 471 M--------------PAEIENYVHRIGRTGRCG---KTGIATTFINKNQSETTLL 508
+ P + GR GR K G TT N + +LL
Sbjct: 398 LIKPSINEKGERELEPITTSQALQIAGRAGRFSSRFKEGEVTTM---NHEDLSLL 449
>pdb|3A5F|A Chain A, High-Resolution Structure Of Dhdps From Clostridium
Botulinum In Complex With Pyruvate
pdb|3A5F|B Chain B, High-Resolution Structure Of Dhdps From Clostridium
Botulinum In Complex With Pyruvate
Length = 291
Score = 30.8 bits (68), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 22/87 (25%), Positives = 40/87 (45%), Gaps = 13/87 (14%)
Query: 438 SSFKAGKKDVLVATDVASKGLDFPDIQHVINYDMPAEIENYVHRIGRTGRCGKTGIATTF 497
S FK V + T + G+DF + +I + + ++ + + CG TG ATT
Sbjct: 1 SIFKG--SGVAIITPFTNTGVDFDKLSELIEWHIKSKTDAII-------VCGTTGEATTM 51
Query: 498 INKNQSETTLLDLKHLLQEAKQRIPPV 524
+ ET +K ++ + +RIP +
Sbjct: 52 TETERKET----IKFVIDKVNKRIPVI 74
>pdb|3IRD|A Chain A, Structure Of Dihydrodipicolinate Synthase From Clostridium
Botulinum
Length = 291
Score = 30.8 bits (68), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 22/87 (25%), Positives = 40/87 (45%), Gaps = 13/87 (14%)
Query: 438 SSFKAGKKDVLVATDVASKGLDFPDIQHVINYDMPAEIENYVHRIGRTGRCGKTGIATTF 497
S FK V + T + G+DF + +I + + ++ + + CG TG ATT
Sbjct: 1 SIFKG--SGVAIITPFTNTGVDFDKLSELIEWHIKSKTDAII-------VCGTTGEATTM 51
Query: 498 INKNQSETTLLDLKHLLQEAKQRIPPV 524
+ ET +K ++ + +RIP +
Sbjct: 52 TETERKET----IKFVIDKVNKRIPVI 74
>pdb|3MWY|W Chain W, Crystal Structure Of The Chromodomain-atpase Portion Of
The Yeast Chd1 Chromatin Remodeler
Length = 800
Score = 30.8 bits (68), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 25/108 (23%), Positives = 47/108 (43%), Gaps = 3/108 (2%)
Query: 386 LLECLQKTPPPVLIFCENKADVDDIHEYLLLKGVEAVAVHGGKDQEEREYAISSFKAGKK 445
LL L+K VLIF + +D + +YL +KG+ + G +R +I F +
Sbjct: 564 LLTRLKKDGHRVLIFSQMVRMLDILGDYLSIKGINFQRLDGTVPSAQRRISIDHFNSPDS 623
Query: 446 D---VLVATDVASKGLDFPDIQHVINYDMPAEIENYVHRIGRTGRCGK 490
+ L++T G++ V+ +D + + + R R G+
Sbjct: 624 NDFVFLLSTRAGGLGINLMTADTVVIFDSDWNPQADLQAMARAHRIGQ 671
>pdb|1XPI|A Chain A, Crystal Structure Of The Catalytic Domain Of E. Coli
Pseudouridine Synthase Rluc
pdb|1XPI|B Chain B, Crystal Structure Of The Catalytic Domain Of E. Coli
Pseudouridine Synthase Rluc
Length = 231
Score = 30.8 bits (68), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 17/69 (24%), Positives = 34/69 (49%)
Query: 352 LVKPVTVNVGRAGAANLDVIQEVEYVKQEAKIVYLLECLQKTPPPVLIFCENKADVDDIH 411
L KP V + VI+ + ++ EA+ + L+ L + VL+ + ++ + +H
Sbjct: 17 LNKPSGTAVHGGSGLSFGVIEGLRALRPEARFLELVHRLDRDTSGVLLVAKKRSALRSLH 76
Query: 412 EYLLLKGVE 420
E L KG++
Sbjct: 77 EQLREKGMQ 85
>pdb|1HEI|A Chain A, Structure Of The Hepatitis C Virus Rna Helicase Domain
pdb|1HEI|B Chain B, Structure Of The Hepatitis C Virus Rna Helicase Domain
Length = 451
Score = 30.8 bits (68), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 21/68 (30%), Positives = 31/68 (45%), Gaps = 9/68 (13%)
Query: 398 LIFCENKADVDDIHEYLLLKGVEAVAVHGGKDQEEREYAISSFKAGKKDVLVATDVASKG 457
LIFC +K D++ L+ G+ AVA + G D +S V+V+TD G
Sbjct: 186 LIFCHSKKKCDELAAKLVALGINAVAYYRGLD-------VSVIPTNGDVVVVSTDALMTG 238
Query: 458 L--DFPDI 463
DF +
Sbjct: 239 FTGDFDSV 246
>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 = 30.8 bits (68), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 23/85 (27%), Positives = 39/85 (45%), Gaps = 11/85 (12%)
Query: 158 LKAKGIVQPTPIQVQGLPVVLSGRDMIGIAFTGSGKTLVFVLXXXXXXXXXXXXXXXVPG 217
LK +GI + P Q + + V SG++++ T +GKTL+ +
Sbjct: 18 LKEEGIEELFPPQAEAVEKVFSGKNLLLAMPTAAGKTLLAEMAMVREAI----------- 66
Query: 218 EGPFCLIVCPSRELARQTYEVVEQF 242
+G L V P R LA + YE +++
Sbjct: 67 KGGKSLYVVPLRALAGEKYESFKKW 91
Score = 28.9 bits (63), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 22/92 (23%), Positives = 37/92 (40%), Gaps = 9/92 (9%)
Query: 425 HGGKDQEEREYAISSFKAGKKDVLVATDVASKGLDFPDIQHVI-------NYDMPAEIEN 477
H G +R +F+ G V+VAT + G++ P + ++ Y ++
Sbjct: 303 HAGLLNGQRRVVEDAFRRGNIKVVVATPTLAAGVNLPARRVIVRSLYRFDGYSKRIKVSE 362
Query: 478 YVHRIGRTGRCG--KTGIATTFINKNQSETTL 507
Y GR GR G + G A + K E +
Sbjct: 363 YKQMAGRAGRPGMDERGEAIIIVGKRDREIAV 394
>pdb|3TBK|A Chain A, Mouse Rig-I Atpase Domain
Length = 555
Score = 30.8 bits (68), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 17/52 (32%), Positives = 29/52 (55%), Gaps = 2/52 (3%)
Query: 437 ISSFKA-GKKDVLVATDVASKGLDFPDIQHVINYDMPAEIENYVHRIGRTGR 487
+ +F+A G ++L+AT VA +G+D + VI Y+ + + GR GR
Sbjct: 444 LEAFRASGDNNILIATSVADEGIDIAECNLVILYEYVGNVIKXIQTRGR-GR 494
>pdb|4AY2|A Chain A, Capturing 5' Tri-Phosphorylated Rna Duplex By Rig-I
Length = 687
Score = 30.4 bits (67), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 18/52 (34%), Positives = 28/52 (53%), Gaps = 2/52 (3%)
Query: 437 ISSFKA-GKKDVLVATDVASKGLDFPDIQHVINYDMPAEIENYVHRIGRTGR 487
+ +FKA G ++L+AT VA +G+D VI Y+ + + GR GR
Sbjct: 444 LDAFKASGDHNILIATSVADEGIDIAQCNLVILYEYVGNVIKMIQTRGR-GR 494
>pdb|3TMI|A Chain A, Structural Basis For Rna Recognition And Activation Of
Rig-I
Length = 695
Score = 30.4 bits (67), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 18/52 (34%), Positives = 28/52 (53%), Gaps = 2/52 (3%)
Query: 437 ISSFKA-GKKDVLVATDVASKGLDFPDIQHVINYDMPAEIENYVHRIGRTGR 487
+ +FKA G ++L+AT VA +G+D VI Y+ + + GR GR
Sbjct: 452 LDAFKASGDHNILIATSVADEGIDIAQCNLVILYEYVGNVIKMIQTRGR-GR 502
>pdb|2YKG|A Chain A, Structural Insights Into Rna Recognition By Rig-I
Length = 696
Score = 30.4 bits (67), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 18/52 (34%), Positives = 28/52 (53%), Gaps = 2/52 (3%)
Query: 437 ISSFKA-GKKDVLVATDVASKGLDFPDIQHVINYDMPAEIENYVHRIGRTGR 487
+ +FKA G ++L+AT VA +G+D VI Y+ + + GR GR
Sbjct: 453 LDAFKASGDHNILIATSVADEGIDIAQCNLVILYEYVGNVIKMIQTRGR-GR 503
>pdb|4AKK|A Chain A, Structure Of The Nasr Transcription Antiterminator
pdb|4AKK|B Chain B, Structure Of The Nasr Transcription Antiterminator
Length = 423
Score = 30.4 bits (67), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 21/87 (24%), Positives = 49/87 (56%), Gaps = 6/87 (6%)
Query: 10 EYVPIAKRRAMEAQKILQRKGQASTLEDELEKSKLAEVKPSLLVKASQLKRDQPEISPTE 69
+ +P+ +++A E Q++ GQ ++L+D LE+ KL E S+L+ ++ +Q + +
Sbjct: 338 QLLPLVRQQAHELQQL---SGQLASLKDALEERKLIEKAKSVLMTYQGMQEEQAWQALRK 394
Query: 70 QIVQQEKEMIENLSDRKTLMSVRELAK 96
+ + + M+E + L++V+ L +
Sbjct: 395 MAMDKNQRMVEIA---RALLTVKALWR 418
>pdb|1V9K|A Chain A, The Crystal Structure Of The Catalytic Domain Of
Pseudouridine Synthase Rluc From Escherichia Coli
pdb|1V9K|B Chain B, The Crystal Structure Of The Catalytic Domain Of
Pseudouridine Synthase Rluc From Escherichia Coli
Length = 228
Score = 30.0 bits (66), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 17/69 (24%), Positives = 33/69 (47%)
Query: 352 LVKPVTVNVGRAGAANLDVIQEVEYVKQEAKIVYLLECLQKTPPPVLIFCENKADVDDIH 411
L KP V + VI+ + ++ EA+ + L+ L + VL+ + ++ + +H
Sbjct: 14 LNKPSGTAVHGGSGLSFGVIEGLRALRPEARFLELVHRLDRDTSGVLLVAKKRSALRSLH 73
Query: 412 EYLLLKGVE 420
E L KG +
Sbjct: 74 EQLREKGXQ 82
>pdb|1JR6|A Chain A, Solution Structure Of An Engineered Arginine-Rich
Subdomain 2 Of The Hepatitis C Virus Ns3 Rna Helicase
pdb|1ONB|A Chain A, Solution Structure Of An Engineered Arginine-Rich
Subdomain 2 Of The Hepatitis C Virus Ns3 Rna Helicase
Length = 142
Score = 30.0 bits (66), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 22/68 (32%), Positives = 31/68 (45%), Gaps = 9/68 (13%)
Query: 398 LIFCENKADVDDIHEYLLLKGVEAVAVHGGKDQEEREYAISSFKAGKKDVLVATDVASKG 457
LIFC +K D++ L+ G+ AVA + G D +S V+VATD G
Sbjct: 43 LIFCHSKKKCDELAAKLVALGINAVAYYRGLD-------VSVIPTNGDVVVVATDALMTG 95
Query: 458 L--DFPDI 463
DF +
Sbjct: 96 FTGDFDSV 103
>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 = 29.6 bits (65), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 17/61 (27%), Positives = 28/61 (45%), Gaps = 1/61 (1%)
Query: 437 ISSFKAGKKD-VLVATDVASKGLDFPDIQHVINYDMPAEIENYVHRIGRTGRCGKTGIAT 495
+ +FK K + +L+AT VA +G+D V+ Y+ + + GR G I
Sbjct: 686 LDAFKTSKDNRLLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQVRGRGRAAGSKCILV 745
Query: 496 T 496
T
Sbjct: 746 T 746
>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 = 29.6 bits (65), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 17/61 (27%), Positives = 28/61 (45%), Gaps = 1/61 (1%)
Query: 437 ISSFKAGKKD-VLVATDVASKGLDFPDIQHVINYDMPAEIENYVHRIGRTGRCGKTGIAT 495
+ +FK K + +L+AT VA +G+D V+ Y+ + + GR G I
Sbjct: 686 LDAFKTSKDNRLLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQVRGRGRAAGSKCILV 745
Query: 496 T 496
T
Sbjct: 746 T 746
>pdb|4A2P|A Chain A, Structure Of Duck Rig-I Helicase Domain
pdb|4A36|A Chain A, Structure Of Duck Rig-I Helicase Domain Bound To 19-Mer
Dsrna And Atp Transition State Analogue
pdb|4A36|B Chain B, Structure Of Duck Rig-I Helicase Domain Bound To 19-Mer
Dsrna And Atp Transition State Analogue
Length = 556
Score = 29.6 bits (65), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 17/61 (27%), Positives = 28/61 (45%), Gaps = 1/61 (1%)
Query: 437 ISSFKAGKKD-VLVATDVASKGLDFPDIQHVINYDMPAEIENYVHRIGRTGRCGKTGIAT 495
+ +FK K + +L+AT VA +G+D V+ Y+ + + GR G I
Sbjct: 445 LDAFKTSKDNRLLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQVRGRGRAAGSKCILV 504
Query: 496 T 496
T
Sbjct: 505 T 505
>pdb|2L82|A Chain A, Solution Nmr Structure Of De Novo Designed Protein, P-Loop
Ntpase Fold, Northeast Structural Genomics Consortium
Target Or32
Length = 162
Score = 29.6 bits (65), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 16/56 (28%), Positives = 28/56 (50%)
Query: 397 VLIFCENKADVDDIHEYLLLKGVEAVAVHGGKDQEEREYAISSFKAGKKDVLVATD 452
V++ ++K + D E +GVE V+ KD + R+ A F++ DV +D
Sbjct: 82 VIVTTDDKEWIKDFIEEAKERGVEVFVVYNNKDDDRRKEAQQEFRSDGVDVRTVSD 137
>pdb|8OHM|A Chain A, Crystal Structure Of Rna Helicase From Genotype 1b
Hepatitis C Virus: Mechanism Of Unwinding Duplex Rna
Length = 435
Score = 29.3 bits (64), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 20/60 (33%), Positives = 27/60 (45%), Gaps = 7/60 (11%)
Query: 398 LIFCENKADVDDIHEYLLLKGVEAVAVHGGKDQEEREYAISSFKAGKKDVLVATDVASKG 457
LIFC +K D++ L G+ AVA + G D +S V+VATD G
Sbjct: 176 LIFCHSKKKCDELAAKLSALGLNAVAYYRGLD-------VSVIPTSGDVVVVATDALMTG 228
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
0.319 0.137 0.397
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 16,556,117
Number of Sequences: 62578
Number of extensions: 681212
Number of successful extensions: 2052
Number of sequences better than 100.0: 126
Number of HSP's better than 100.0 without gapping: 96
Number of HSP's successfully gapped in prelim test: 30
Number of HSP's that attempted gapping in prelim test: 1792
Number of HSP's gapped (non-prelim): 151
length of query: 588
length of database: 14,973,337
effective HSP length: 104
effective length of query: 484
effective length of database: 8,465,225
effective search space: 4097168900
effective search space used: 4097168900
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)