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= 013623
(439 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 97.8 bits (242), Expect = 1e-20, Method: Compositional matrix adjust.
Identities = 54/151 (35%), Positives = 86/151 (56%), Gaps = 1/151 (0%)
Query: 268 KSFKELGCSDYMIESLKRQNFLRPSQIQAMAFPPVVEGKSCILADQSGSGKTLAYLLPVI 327
++F EL + ++ ++ RP+ IQ A P ++E + + Q+GSGKT A+L+P+I
Sbjct: 23 ENFDELKLDPTIRNNILLASYQRPTPIQKNAIPAILEHRDIMACAQTGSGKTAAFLIPII 82
Query: 328 QRLRQEELQGLSKSTSGSPRVVILAPTAELASQVLSNCRSLSKCGVPFRSMVVTGGFRQK 387
L ++L S + P+ +ILAPT ELA Q+LS + S P RS VV GG
Sbjct: 83 NHLVCQDLNQQRYSKTAYPKCLILAPTRELAIQILSESQKFS-LNTPLRSCVVYGGADTH 141
Query: 388 TQLENLQEGVDVLIATPGRFMFLIKEGILQL 418
+Q+ +Q G +L+ATPGR + I++ + L
Sbjct: 142 SQIREVQMGCHLLVATPGRLVDFIEKNKISL 172
>pdb|3IUY|A Chain A, Crystal Structure Of Ddx53 Dead-Box Domain
pdb|3IUY|B Chain B, Crystal Structure Of Ddx53 Dead-Box Domain
Length = 228
Score = 91.3 bits (225), Expect = 1e-18, Method: Compositional matrix adjust.
Identities = 47/129 (36%), Positives = 80/129 (62%), Gaps = 5/129 (3%)
Query: 279 MIESLKRQNFLRPSQIQAMAFPPVVEGKSCILADQSGSGKTLAYLLPVIQRLRQEELQGL 338
+++S+ R L+P+ IQ+ A+P +++G I+ Q+G+GKTL+YL+P L + Q +
Sbjct: 31 LLKSIIRVGILKPTPIQSQAWPIILQGIDLIVVAQTGTGKTLSYLMPGFIHL---DSQPI 87
Query: 339 SKSTSGSPRVVILAPTAELASQVLSNCRSLSKCGVPFRSMVVTGGFRQKTQLENLQEGVD 398
S+ P +++L PT ELA V + C S G +S+ + GG + Q+E++ +GVD
Sbjct: 88 SREQRNGPGMLVLTPTRELALHVEAECSKYSYKG--LKSICIYGGRNRNGQIEDISKGVD 145
Query: 399 VLIATPGRF 407
++IATPGR
Sbjct: 146 IIIATPGRL 154
>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 = 87.0 bits (214), Expect = 2e-17, Method: Compositional matrix adjust.
Identities = 53/149 (35%), Positives = 80/149 (53%), Gaps = 9/149 (6%)
Query: 270 FKELGCSDYMIESLKRQNFLRPSQIQAMAFPPVVEGKSCILADQSGSGKTLAYLLPVIQR 329
FK+ ++E+L + P+ IQA A P +EGK I ++G+GKTLA+ LP+ +R
Sbjct: 3 FKDFPLKPEILEALHGRGLTTPTPIQAAALPLALEGKDLIGQARTGTGKTLAFALPIAER 62
Query: 330 LRQEELQGLSKSTSGSPRVVILAPTAELASQVLSNCRSLSKCGVPFRSMVVTGGFRQKTQ 389
L + +G PR ++L PT ELA QV S L+ + + V GG Q
Sbjct: 63 LAPSQERG------RKPRALVLTPTRELALQVASE---LTAVAPHLKVVAVYGGTGYGKQ 113
Query: 390 LENLQEGVDVLIATPGRFMFLIKEGILQL 418
E L G D ++ATPGR + +++G+L L
Sbjct: 114 KEALLRGADAVVATPGRALDYLRQGVLDL 142
>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 = 85.9 bits (211), Expect = 4e-17, Method: Compositional matrix adjust.
Identities = 52/149 (34%), Positives = 80/149 (53%), Gaps = 9/149 (6%)
Query: 270 FKELGCSDYMIESLKRQNFLRPSQIQAMAFPPVVEGKSCILADQSGSGKTLAYLLPVIQR 329
FK+ ++E+L + P+ I+A A P +EGK I ++G+GKTLA+ LP+ +R
Sbjct: 3 FKDFPLKPEILEALHGRGLTTPTPIEAAALPLALEGKDLIGQARTGTGKTLAFALPIAER 62
Query: 330 LRQEELQGLSKSTSGSPRVVILAPTAELASQVLSNCRSLSKCGVPFRSMVVTGGFRQKTQ 389
L + +G PR ++L PT ELA QV S L+ + + V GG Q
Sbjct: 63 LAPSQERG------RKPRALVLTPTRELALQVASE---LTAVAPHLKVVAVYGGTGYGKQ 113
Query: 390 LENLQEGVDVLIATPGRFMFLIKEGILQL 418
E L G D ++ATPGR + +++G+L L
Sbjct: 114 KEALLRGADAVVATPGRALDYLRQGVLDL 142
>pdb|4A4D|A Chain A, Crystal Structure Of The N-Terminal Domain Of The Human
Dead-Box Rna Helicase Ddx5 (P68)
Length = 253
Score = 83.2 bits (204), Expect = 3e-16, Method: Compositional matrix adjust.
Identities = 50/150 (33%), Positives = 77/150 (51%), Gaps = 13/150 (8%)
Query: 269 SFKELGCSDYMIESLKRQNFLRPSQIQAMAFPPVVEGKSCILADQSGSGKTLAYLLPVIQ 328
+F E +++ + RQNF P+ IQA +P + G + Q+GSGKTL+YLLP I
Sbjct: 44 NFYEANFPANVMDVIARQNFTEPTAIQAQGWPVALSGLDMVGVAQTGSGKTLSYLLPAIV 103
Query: 329 RLRQEELQGLSKSTSGSPRVVILAPTAELASQV----LSNCRSLSKCGVPFRSMVVTGGF 384
+ + P ++LAPT ELA QV CR+ +S + GG
Sbjct: 104 HINHQPF----LERGDGPICLVLAPTRELAQQVQQVAAEYCRACR-----LKSTCIYGGA 154
Query: 385 RQKTQLENLQEGVDVLIATPGRFMFLIKEG 414
+ Q+ +L+ GV++ IATPGR + ++ G
Sbjct: 155 PKGPQIRDLERGVEICIATPGRLIDFLECG 184
>pdb|3FE2|A Chain A, Human Dead-Box Rna Helicase Ddx5 (P68), Conserved Domain I
In Complex With Adp
pdb|3FE2|B Chain B, Human Dead-Box Rna Helicase Ddx5 (P68), Conserved Domain I
In Complex With Adp
Length = 242
Score = 82.8 bits (203), Expect = 3e-16, Method: Compositional matrix adjust.
Identities = 50/150 (33%), Positives = 77/150 (51%), Gaps = 13/150 (8%)
Query: 269 SFKELGCSDYMIESLKRQNFLRPSQIQAMAFPPVVEGKSCILADQSGSGKTLAYLLPVIQ 328
+F E +++ + RQNF P+ IQA +P + G + Q+GSGKTL+YLLP I
Sbjct: 30 NFYEANFPANVMDVIARQNFTEPTAIQAQGWPVALSGLDMVGVAQTGSGKTLSYLLPAIV 89
Query: 329 RLRQEELQGLSKSTSGSPRVVILAPTAELASQV----LSNCRSLSKCGVPFRSMVVTGGF 384
+ + P ++LAPT ELA QV CR+ +S + GG
Sbjct: 90 HINHQPF----LERGDGPICLVLAPTRELAQQVQQVAAEYCRACR-----LKSTCIYGGA 140
Query: 385 RQKTQLENLQEGVDVLIATPGRFMFLIKEG 414
+ Q+ +L+ GV++ IATPGR + ++ G
Sbjct: 141 PKGPQIRDLERGVEICIATPGRLIDFLECG 170
>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 = 80.5 bits (197), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 48/160 (30%), Positives = 82/160 (51%), Gaps = 13/160 (8%)
Query: 268 KSFKELGCSDYMIESLKRQNFLRPSQIQAMAFPPVVEGKSCILADQSGSGKTLAYLLPVI 327
+ F D +I+++ + + P+ IQ + P + G+ + Q+GSGKT A+LLP++
Sbjct: 56 QHFTSADLRDIIIDNVNKSGYKIPTPIQKCSIPVISSGRDLMACAQTGSGKTAAFLLPIL 115
Query: 328 QRLRQEELQGLSKSTSGSPRVVILAPTAELASQVLSNCRSLSKCGVPFRSM----VVTGG 383
+L L+ + G P+VVI++PT ELA Q+ + R + F S +V GG
Sbjct: 116 SKL----LEDPHELELGRPQVVIVSPTRELAIQIFNEARKFA-----FESYLKIGIVYGG 166
Query: 384 FRQKTQLENLQEGVDVLIATPGRFMFLIKEGILQLINLRW 423
+ Q E + G V+IATPGR + + + + R+
Sbjct: 167 TSFRHQNECITRGCHVVIATPGRLLDFVDRTFITFEDTRF 206
>pdb|2I4I|A Chain A, Crystal Structure Of Human Dead-Box Rna Helicase Ddx3x
Length = 417
Score = 77.4 bits (189), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 48/160 (30%), Positives = 82/160 (51%), Gaps = 10/160 (6%)
Query: 268 KSFKELGCSDYMIESLKRQNFLRPSQIQAMAFPPVVEGKSCILADQSGSGKTLAYLLPVI 327
+SF ++ + ++ +++ + RP+ +Q A P + E + + Q+GSGKT A+LLP++
Sbjct: 15 ESFSDVEMGEIIMGNIELTRYTRPTPVQKHAIPIIKEKRDLMACAQTGSGKTAAFLLPIL 74
Query: 328 ---------QRLRQEELQGLSKSTSGSPRVVILAPTAELASQVLSNCRSLSKCGVPFRSM 378
+ LR + G P ++LAPT ELA Q+ R S R
Sbjct: 75 SQIYSDGPGEALRAMKENGRYGRRKQYPISLVLAPTRELAVQIYEEARKFSYRS-RVRPC 133
Query: 379 VVTGGFRQKTQLENLQEGVDVLIATPGRFMFLIKEGILQL 418
VV GG Q+ +L+ G +L+ATPGR + +++ G + L
Sbjct: 134 VVYGGADIGQQIRDLERGCHLLVATPGRLVDMMERGKIGL 173
>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 = 75.9 bits (185), Expect = 4e-14, Method: Compositional matrix adjust.
Identities = 47/156 (30%), Positives = 78/156 (50%), Gaps = 12/156 (7%)
Query: 266 SRKSFKELGCSDYMIESLKRQNFLRPSQIQAMAFPPVVEGKSCILADQSGSGKTLAYLLP 325
+ F ++IE++K F +P++IQ P + G+S + Q+G+GKT AYLLP
Sbjct: 2 AETQFTRFPFQPFIIEAIKTLRFYKPTEIQERIIPGALRGESXVGQSQTGTGKTHAYLLP 61
Query: 326 VIQRLRQEELQGLSKSTSGSPRVVILAPTAELASQVLSNCRSLSKCGVPFRSMV---VTG 382
+ ++++ E + VI APT ELA+Q+ ++K R +V + G
Sbjct: 62 IXEKIKPE---------RAEVQAVITAPTRELATQIYHETLKITKFCPKDRXIVARCLIG 112
Query: 383 GFRQKTQLENLQEGVDVLIATPGRFMFLIKEGILQL 418
G ++ LE L ++I TPGR I+E L +
Sbjct: 113 GTDKQKALEKLNVQPHIVIGTPGRINDFIREQALDV 148
>pdb|2KBE|A Chain A, Solution Structure Of Amino-Terminal Domain Of Dbp5p
Length = 226
Score = 74.3 bits (181), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 47/171 (27%), Positives = 86/171 (50%), Gaps = 16/171 (9%)
Query: 264 FFSRKSFKELGCSDYMIESLKRQNFLRPSQIQAMAFPPVVEG--KSCILADQSGSGKTLA 321
+S KSF ELG + +++ + F +PS+IQ A P ++ ++ I QSG+GKT A
Sbjct: 18 LYSAKSFDELGLAPELLKGIYAMKFQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAA 77
Query: 322 YLLPVIQRLRQEELQGLSKSTSGSPRVVILAPTAELASQVLSNCRSLSKCGVPFRSMVVT 381
+ L ++ R+ E+ SP+ + LAP+ ELA Q L + + K ++V
Sbjct: 78 FSLTMLTRVNPED---------ASPQAICLAPSRELARQTLEVVQEMGKFTKITSQLIVP 128
Query: 382 GGFRQKTQLENLQEGVDVLIATPGRFMFLIKEGILQLINLRWYARTASLNI 432
F + Q+ V++ TPG + L++ ++QL ++ + + N+
Sbjct: 129 DSFEKNKQI-----NAQVIVGTPGTVLDLMRRKLMQLQKIKIFVLDEADNM 174
>pdb|3BER|A Chain A, Human Dead-Box Rna-Helicase Ddx47, Conserved Domain I In
Complex With Amp
Length = 249
Score = 73.6 bits (179), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 47/142 (33%), Positives = 77/142 (54%), Gaps = 12/142 (8%)
Query: 268 KSFKELGCSDYMIESLKRQNFLRPSQIQAMAFPPVVEGKSCILADQSGSGKTLAYLLPVI 327
K+FK+LG +D + E+ + + +P++IQ A P ++G+ I ++GSGKT A+ LP++
Sbjct: 43 KTFKDLGVTDVLCEACDQLGWTKPTKIQIEAIPLALQGRDIIGLAETGSGKTGAFALPIL 102
Query: 328 QRLRQEELQGLSKSTSGSPRVVILAPTAELASQVLSNCRSL-SKCGVPFRSMVVTGGFRQ 386
L + T ++L PT ELA Q+ +L S GV +S V+ GG
Sbjct: 103 NALLE---------TPQRLFALVLTPTRELAFQISEQFEALGSSIGV--QSAVIVGGIDS 151
Query: 387 KTQLENLQEGVDVLIATPGRFM 408
+Q L + ++IATPGR +
Sbjct: 152 MSQSLALAKKPHIIIATPGRLI 173
>pdb|3LY5|A Chain A, Ddx18 Dead-Domain
pdb|3LY5|B Chain B, Ddx18 Dead-Domain
Length = 262
Score = 73.6 bits (179), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 43/146 (29%), Positives = 84/146 (57%), Gaps = 8/146 (5%)
Query: 265 FSRKSFKELG--CSDYMIESLKRQNFLRPSQIQAMAFPPVVEGKSCILADQSGSGKTLAY 322
F SF L ++ ++++K F ++IQ + P++EG+ + A ++GSGKTLA+
Sbjct: 49 FEDTSFASLCNLVNENTLKAIKEMGFTNMTEIQHKSIRPLLEGRDLLAAAKTGSGKTLAF 108
Query: 323 LLPVIQRLRQEELQGLSKSTSGSPRVVILAPTAELASQVLSNCRSLSKCGVPFRSMVVTG 382
L+P ++ + + L+ + ++ +G V+IL+PT ELA Q + L V +++ G
Sbjct: 109 LIPAVELIVK--LRFMPRNGTG---VLILSPTRELAMQTFGVLKELMTHHVHTYGLIM-G 162
Query: 383 GFRQKTQLENLQEGVDVLIATPGRFM 408
G + + + L G+++++ATPGR +
Sbjct: 163 GSNRSAEAQKLGNGINIIVATPGRLL 188
>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 = 72.8 bits (177), Expect = 4e-13, Method: Compositional matrix adjust.
Identities = 43/128 (33%), Positives = 72/128 (56%), Gaps = 13/128 (10%)
Query: 290 RPSQIQAMAFPPVVEGKSCILADQSGSGKTLAYLLPVIQRL--RQEELQGLSKSTSGSPR 347
+PS IQ + P + G+ + ++G+GK+ AYL+P+++RL +++ +Q +
Sbjct: 25 KPSPIQEESIPIALSGRDILARAKNGTGKSGAYLIPLLERLDLKKDNIQAM--------- 75
Query: 348 VVILAPTAELASQVLSNCRSLSKCGVPFRSMVVTGGFRQKTQLENLQEGVDVLIATPGRF 407
++ PT ELA QV C +SK + M TGG + + L + V V+IATPGR
Sbjct: 76 --VIVPTRELALQVSQICIQVSKHMGGAKVMATTGGTNLRDDIMRLDDTVHVVIATPGRI 133
Query: 408 MFLIKEGI 415
+ LIK+G+
Sbjct: 134 LDLIKKGV 141
>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 = 72.4 bits (176), Expect = 4e-13, Method: Compositional matrix adjust.
Identities = 48/167 (28%), Positives = 86/167 (51%), Gaps = 16/167 (9%)
Query: 268 KSFKELGCSDYMIESLKRQNFLRPSQIQAMAFPPVVEG--KSCILADQSGSGKTLAYLLP 325
KSF ELG + +++ + F +PS+IQ A P ++ ++ I QSG+GKT A+ L
Sbjct: 5 KSFDELGLAPELLKGIYAMKFQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAAFSLT 64
Query: 326 VIQRLRQEELQGLSKSTSGSPRVVILAPTAELASQVLSNCRSLSKCGVPFRSMVVTGGFR 385
++ R+ E+ SP+ + LAP+ ELA Q L + + K ++V F
Sbjct: 65 MLTRVNPED---------ASPQAICLAPSRELARQTLEVVQEMGKFTKITSQLIVPDSFE 115
Query: 386 QKTQLENLQEGVDVLIATPGRFMFLIKEGILQLINLRWYARTASLNI 432
+ Q+ N Q V++ TPG + L++ ++QL ++ + + N+
Sbjct: 116 KNKQI-NAQ----VIVGTPGTVLDLMRRKLMQLQKIKIFVLDEADNM 157
>pdb|3PEY|A Chain A, S. Cerevisiae Dbp5 Bound To Rna And Adp Bef3
Length = 395
Score = 72.4 bits (176), Expect = 5e-13, Method: Compositional matrix adjust.
Identities = 48/167 (28%), Positives = 86/167 (51%), Gaps = 16/167 (9%)
Query: 268 KSFKELGCSDYMIESLKRQNFLRPSQIQAMAFPPVVEG--KSCILADQSGSGKTLAYLLP 325
KSF ELG + +++ + F +PS+IQ A P ++ ++ I QSG+GKT A+ L
Sbjct: 5 KSFDELGLAPELLKGIYAMKFQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAAFSLT 64
Query: 326 VIQRLRQEELQGLSKSTSGSPRVVILAPTAELASQVLSNCRSLSKCGVPFRSMVVTGGFR 385
++ R+ E+ SP+ + LAP+ ELA Q L + + K ++V F
Sbjct: 65 MLTRVNPED---------ASPQAICLAPSRELARQTLEVVQEMGKFTKITSQLIVPDSFE 115
Query: 386 QKTQLENLQEGVDVLIATPGRFMFLIKEGILQLINLRWYARTASLNI 432
+ Q+ N Q V++ TPG + L++ ++QL ++ + + N+
Sbjct: 116 KNKQI-NAQ----VIVGTPGTVLDLMRRKLMQLQKIKIFVLDEADNM 157
>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 = 68.6 bits (166), Expect = 6e-12, Method: Compositional matrix adjust.
Identities = 44/157 (28%), Positives = 81/157 (51%), Gaps = 13/157 (8%)
Query: 269 SFKELGCSDYMIESLKRQNFLRPSQIQAMAFPPVVEGKSCILAD-QSGSGKTLAYLLPVI 327
+F EL SD ++ +++ + F +P+ IQ P + + I+A ++GSGKT ++ +P+I
Sbjct: 7 NFNELNLSDNILNAIRNKGFEKPTDIQXKVIPLFLNDEYNIVAQARTGSGKTASFAIPLI 66
Query: 328 QRLRQEELQGLSKSTSGSPRVVILAPTAELASQVLSNCRSLSKCGVPFRSMVVTGGFRQK 387
+ + + + +IL PT ELA QV SL K + + GG
Sbjct: 67 ELVNE----------NNGIEAIILTPTRELAIQVADEIESL-KGNKNLKIAKIYGGKAIY 115
Query: 388 TQLENLQEGVDVLIATPGRFMFLIKEGILQLINLRWY 424
Q++ L+ ++++ TPGR + I G L L N++++
Sbjct: 116 PQIKALKNA-NIVVGTPGRILDHINRGTLNLKNVKYF 151
>pdb|1S2M|A Chain A, Crystal Structure Of The Dead Box Protein Dhh1p
Length = 400
Score = 68.2 bits (165), Expect = 8e-12, Method: Compositional matrix adjust.
Identities = 41/141 (29%), Positives = 71/141 (50%), Gaps = 12/141 (8%)
Query: 269 SFKELGCSDYMIESLKRQNFLRPSQIQAMAFPPVVEGKSCILADQSGSGKTLAYLLPVIQ 328
+F++ ++ + F +PS IQ A P + G+ + ++G+GKT A+++P ++
Sbjct: 22 TFEDFYLKRELLMGIFEAGFEKPSPIQEEAIPVAITGRDILARAKNGTGKTAAFVIPTLE 81
Query: 329 RLRQEELQGLSKSTSGSPRVVILAPTAELASQVLSNCRSLSK-CGVPFRSMVVTGGFRQK 387
++ K + +I+ PT ELA Q R+L K CG+ MV TGG +
Sbjct: 82 KV---------KPKLNKIQALIMVPTRELALQTSQVVRTLGKHCGIS--CMVTTGGTNLR 130
Query: 388 TQLENLQEGVDVLIATPGRFM 408
+ L E V +L+ TPGR +
Sbjct: 131 DDILRLNETVHILVGTPGRVL 151
>pdb|3DKP|A Chain A, Human Dead-Box Rna-Helicase Ddx52, Conserved Domain I In
Complex With Adp
Length = 245
Score = 68.2 bits (165), Expect = 8e-12, Method: Compositional matrix adjust.
Identities = 47/151 (31%), Positives = 79/151 (52%), Gaps = 16/151 (10%)
Query: 269 SFKELGCSDYMIESLKRQNFL-----RPSQIQAMAFPPVVEGKSCILADQSGSGKTLAYL 323
+F++L +Y I S QN L P+ IQ A P ++ G+ + + +GSGKTLA+
Sbjct: 26 TFQQLD-QEYKINSRLLQNILDAGFQMPTPIQMQAIPVMLHGRELLASAPTGSGKTLAFS 84
Query: 324 LPVIQRLRQEELQGLSKSTSGSPRVVILAPTAELASQVLSNCRSLSKCGVPFR-SMVVTG 382
+P++ +L+Q +G R +I++PT ELASQ+ +S+ G FR M+
Sbjct: 85 IPILMQLKQPANKGF--------RALIISPTRELASQIHRELIKISE-GTGFRIHMIHKA 135
Query: 383 GFRQKTQLENLQEGVDVLIATPGRFMFLIKE 413
K + D+L+ TP R ++L+K+
Sbjct: 136 AVAAKKFGPKSSKKFDILVTTPNRLIYLLKQ 166
>pdb|2PL3|A Chain A, Human Dead-Box Rna Helicase Ddx10, Dead Domain In Complex
With Adp
Length = 236
Score = 64.3 bits (155), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 42/146 (28%), Positives = 76/146 (52%), Gaps = 7/146 (4%)
Query: 270 FKELGCSDYMIESLKRQNFLRPSQIQAMAFPPVVEGKSCILADQSGSGKTLAYLLPVIQR 329
F + S ++ L+ + ++IQ ++GK + A ++GSGKTLA+L+PV+
Sbjct: 27 FSDFPLSKKTLKGLQEAQYRLVTEIQKQTIGLALQGKDVLGAAKTGSGKTLAFLVPVL-- 84
Query: 330 LRQEELQGLSKSTSGSPRVVILAPTAELASQVLSNCRSLSKCGVPFRSMVVTGGFRQKTQ 389
E L L +++ V+I++PT ELA Q R + K F + ++ GG K +
Sbjct: 85 ---EALYRLQWTSTDGLGVLIISPTRELAYQTFEVLRKVGKNH-DFSAGLIIGGKDLKHE 140
Query: 390 LENLQEGVDVLIATPGRFMFLIKEGI 415
E + +++L+ TPGR + + E +
Sbjct: 141 AERIN-NINILVCTPGRLLQHMDETV 165
>pdb|2Z0M|A Chain A, Crystal Structure Of Hypothetical Atp-Dependent Rna
Helicase From Sulfolobus Tokodaii
Length = 337
Score = 63.2 bits (152), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 35/138 (25%), Positives = 74/138 (53%), Gaps = 17/138 (12%)
Query: 281 ESLKRQNFLRPSQIQAMAFPPVVEGKSCILADQSGSGKTLAYLLPVIQRLRQEELQGLSK 340
++++ F +++Q+ P +++GK+ ++ ++GSGKT AY +P+++
Sbjct: 7 QAIREMGFKNFTEVQSKTIPLMLQGKNVVVRAKTGSGKTAAYAIPILEL----------- 55
Query: 341 STSGSPRVVILAPTAELASQVLSNCRSLSKCGVPFRSMVVTGGFRQKTQLENLQEGVDVL 400
+ +++ PT EL QV S+ R + + + + V GG K Q+ ++ D++
Sbjct: 56 ----GMKSLVVTPTRELTRQVASHIRDIGRY-MDTKVAEVYGGMPYKAQINRVRNA-DIV 109
Query: 401 IATPGRFMFLIKEGILQL 418
+ATPGR + L +G++ L
Sbjct: 110 VATPGRLLDLWSKGVIDL 127
>pdb|3EIQ|A Chain A, Crystal Structure Of Pdcd4-eif4a
pdb|3EIQ|D Chain D, Crystal Structure Of Pdcd4-eif4a
Length = 414
Score = 59.3 bits (142), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 40/140 (28%), Positives = 71/140 (50%), Gaps = 13/140 (9%)
Query: 269 SFKELGCSDYMIESLKRQNFLRPSQIQAMAFPPVVEGKSCILADQSGSGKTLAYLLPVIQ 328
SF ++ S+ ++ + F +PS IQ A P ++G I QSG+GKT + + ++Q
Sbjct: 41 SFDDMNLSESLLRGIYAYGFEKPSAIQQRAILPCIKGYDVIAQAQSGTGKTATFAISILQ 100
Query: 329 RLRQEELQGLSKSTSGSPRVVILAPTAELASQVLSNCRSLSK-CGVPFRSMVVTGGFRQK 387
++ + K+T ++LAPT ELA Q+ +L G + + GG +
Sbjct: 101 QIELD-----LKATQA----LVLAPTRELAQQIQKVVMALGDYMGASCHACI--GGTNVR 149
Query: 388 TQLENLQ-EGVDVLIATPGR 406
+++ LQ E +++ TPGR
Sbjct: 150 AEVQKLQMEAPHIIVGTPGR 169
>pdb|2J0U|B Chain B, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 58.9 bits (141), Expect = 5e-09, Method: Compositional matrix adjust.
Identities = 44/146 (30%), Positives = 67/146 (45%), Gaps = 14/146 (9%)
Query: 269 SFKELGCSDYMIESLKRQNFLRPSQIQAMAFPPVVEGKSCILADQSGSGKTLAYLLPVIQ 328
+F +G + ++ + F +PS IQ A +++G+ I QSG+GKT + + V+Q
Sbjct: 2 TFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSVSVLQ 61
Query: 329 RL--RQEELQGLSKSTSGSPRVVILAPTAELASQVLSNCRSLSKCGVPFRSMVVTGGFRQ 386
L + E Q L ILAPT ELA QV +L + +S GG
Sbjct: 62 CLDIQVRETQAL-----------ILAPTRELAVQVQKGLLALGDY-MNVQSHACIGGTNV 109
Query: 387 KTQLENLQEGVDVLIATPGRFMFLIK 412
+ L G V+ TPGR +I+
Sbjct: 110 GEDIRKLDYGQHVVAGTPGRVFDMIR 135
>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 = 58.9 bits (141), Expect = 6e-09, Method: Compositional matrix adjust.
Identities = 40/140 (28%), Positives = 71/140 (50%), Gaps = 13/140 (9%)
Query: 269 SFKELGCSDYMIESLKRQNFLRPSQIQAMAFPPVVEGKSCILADQSGSGKTLAYLLPVIQ 328
SF ++ S+ ++ + F +PS IQ A P ++G I QSG+GKT + + ++Q
Sbjct: 15 SFDDMNLSESLLRGIYAYGFEKPSAIQQRAILPCIKGYDVIAQAQSGTGKTATFAISILQ 74
Query: 329 RLRQEELQGLSKSTSGSPRVVILAPTAELASQVLSNCRSLSK-CGVPFRSMVVTGGFRQK 387
++ + K+T ++LAPT ELA Q+ +L G + + GG +
Sbjct: 75 QIELD-----LKATQA----LVLAPTRELAQQIQKVVMALGDYMGASCHACI--GGTNVR 123
Query: 388 TQLENLQ-EGVDVLIATPGR 406
+++ LQ E +++ TPGR
Sbjct: 124 AEVQKLQMEAPHIIVGTPGR 143
>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 = 57.0 bits (136), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 42/146 (28%), Positives = 66/146 (45%), Gaps = 14/146 (9%)
Query: 269 SFKELGCSDYMIESLKRQNFLRPSQIQAMAFPPVVEGKSCILADQSGSGKTLAYLLPVIQ 328
+F +G + ++ + F +PS IQ A +++G+ I QSG+GKT + + V+Q
Sbjct: 38 TFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQ 97
Query: 329 RL--RQEELQGLSKSTSGSPRVVILAPTAELASQVLSNCRSLSKCGVPFRSMVVTGGFRQ 386
L + E Q L ILAPT ELA Q+ +L + + GG
Sbjct: 98 CLDIQVRETQAL-----------ILAPTRELAVQIQKGLLALGDY-MNVQCHACIGGTNV 145
Query: 387 KTQLENLQEGVDVLIATPGRFMFLIK 412
+ L G V+ TPGR +I+
Sbjct: 146 GEDIRKLDYGQHVVAGTPGRVFDMIR 171
>pdb|2J0U|A Chain A, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 57.0 bits (136), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 43/146 (29%), Positives = 66/146 (45%), Gaps = 14/146 (9%)
Query: 269 SFKELGCSDYMIESLKRQNFLRPSQIQAMAFPPVVEGKSCILADQSGSGKTLAYLLPVIQ 328
+F +G + ++ + F +PS IQ A +++G+ I QSG+GKT + + V+Q
Sbjct: 2 TFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSVSVLQ 61
Query: 329 RL--RQEELQGLSKSTSGSPRVVILAPTAELASQVLSNCRSLSKCGVPFRSMVVTGGFRQ 386
L + E Q L ILAPT ELA QV +L + + GG
Sbjct: 62 CLDIQVRETQAL-----------ILAPTRELAVQVQKGLLALGDY-MNVQCHACIGGTNV 109
Query: 387 KTQLENLQEGVDVLIATPGRFMFLIK 412
+ L G V+ TPGR +I+
Sbjct: 110 GEDIRKLDYGQHVVAGTPGRVFDMIR 135
>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 = 57.0 bits (136), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 42/146 (28%), Positives = 66/146 (45%), Gaps = 14/146 (9%)
Query: 269 SFKELGCSDYMIESLKRQNFLRPSQIQAMAFPPVVEGKSCILADQSGSGKTLAYLLPVIQ 328
+F +G + ++ + F +PS IQ A +++G+ I QSG+GKT + + V+Q
Sbjct: 39 TFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQ 98
Query: 329 RL--RQEELQGLSKSTSGSPRVVILAPTAELASQVLSNCRSLSKCGVPFRSMVVTGGFRQ 386
L + E Q L ILAPT ELA Q+ +L + + GG
Sbjct: 99 CLDIQVRETQAL-----------ILAPTRELAVQIQKGLLALGDY-MNVQCHACIGGTNV 146
Query: 387 KTQLENLQEGVDVLIATPGRFMFLIK 412
+ L G V+ TPGR +I+
Sbjct: 147 GEDIRKLDYGQHVVAGTPGRVFDMIR 172
>pdb|3BOR|A Chain A, Crystal Structure Of The Deadc Domain Of Human Translation
Initiation Factor 4a-2
Length = 237
Score = 57.0 bits (136), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 41/142 (28%), Positives = 69/142 (48%), Gaps = 17/142 (11%)
Query: 269 SFKELGCSDYMIESLKRQNFLRPSQIQAMAFPPVVEGKSCILADQSGSGKTLAYLLPVIQ 328
+F ++ + ++ + F +PS IQ A P ++G I QSG+GKT + + ++Q
Sbjct: 31 NFDDMNLKESLLRGIYAYGFEKPSAIQQRAIIPCIKGYDVIAQAQSGTGKTATFAISILQ 90
Query: 329 RLRQE--ELQGLSKSTSGSPRVVILAPTAELASQVLSNCRSLSK-CGVPFRSMVVTGGFR 385
+L E E Q L +LAPT ELA Q+ +L G + + GG
Sbjct: 91 QLEIEFKETQAL-----------VLAPTRELAQQIQKVILALGDYMGATCHACI--GGTN 137
Query: 386 QKTQLENLQ-EGVDVLIATPGR 406
+ +++ LQ E +++ TPGR
Sbjct: 138 VRNEMQKLQAEAPHIVVGTPGR 159
>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 = 57.0 bits (136), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 42/146 (28%), Positives = 66/146 (45%), Gaps = 14/146 (9%)
Query: 269 SFKELGCSDYMIESLKRQNFLRPSQIQAMAFPPVVEGKSCILADQSGSGKTLAYLLPVIQ 328
+F +G + ++ + F +PS IQ A +++G+ I QSG+GKT + + V+Q
Sbjct: 39 TFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQ 98
Query: 329 RL--RQEELQGLSKSTSGSPRVVILAPTAELASQVLSNCRSLSKCGVPFRSMVVTGGFRQ 386
L + E Q L ILAPT ELA Q+ +L + + GG
Sbjct: 99 CLDIQVRETQAL-----------ILAPTRELAVQIQKGLLALGDY-MNVQCHACIGGTNV 146
Query: 387 KTQLENLQEGVDVLIATPGRFMFLIK 412
+ L G V+ TPGR +I+
Sbjct: 147 GEDIRKLDYGQHVVAGTPGRVFDMIR 172
>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 = 56.6 bits (135), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 42/146 (28%), Positives = 66/146 (45%), Gaps = 14/146 (9%)
Query: 269 SFKELGCSDYMIESLKRQNFLRPSQIQAMAFPPVVEGKSCILADQSGSGKTLAYLLPVIQ 328
+F +G + ++ + F +PS IQ A +++G+ I QSG+GKT + + V+Q
Sbjct: 17 TFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQ 76
Query: 329 RL--RQEELQGLSKSTSGSPRVVILAPTAELASQVLSNCRSLSKCGVPFRSMVVTGGFRQ 386
L + E Q L ILAPT ELA Q+ +L + + GG
Sbjct: 77 CLDIQVRETQAL-----------ILAPTRELAVQIQKGLLALGDY-MNVQCHACIGGTNV 124
Query: 387 KTQLENLQEGVDVLIATPGRFMFLIK 412
+ L G V+ TPGR +I+
Sbjct: 125 GEDIRKLDYGQHVVAGTPGRVFDMIR 150
>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 = 54.7 bits (130), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 36/137 (26%), Positives = 66/137 (48%), Gaps = 11/137 (8%)
Query: 270 FKELGCSDYMIESLKRQNFLRPSQIQAMAFPPVVEGKSCILADQSGSGKTLAYLLPVIQR 329
F ++ + ++ + F PS IQ A P++EG + QSG+GKT + + +QR
Sbjct: 24 FDDMELDENLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAALQR 83
Query: 330 LRQEELQGLSKSTSGSPRVVILAPTAELASQVLSNCRSLSKCGVPFRSMVVTGGFRQKTQ 389
+ ++ +P+ ++LAPT ELA Q+ +L+ + + GG
Sbjct: 84 I---------DTSVKAPQALMLAPTRELALQIQKVVMALA-FHMDIKVHACIGGTSFVED 133
Query: 390 LENLQEGVDVLIATPGR 406
E L++ +++ TPGR
Sbjct: 134 AEGLRDA-QIVVGTPGR 149
>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 = 54.3 bits (129), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 36/137 (26%), Positives = 66/137 (48%), Gaps = 11/137 (8%)
Query: 270 FKELGCSDYMIESLKRQNFLRPSQIQAMAFPPVVEGKSCILADQSGSGKTLAYLLPVIQR 329
F ++ + ++ + F PS IQ A P++EG + QSG+GKT + + +QR
Sbjct: 16 FDDMELDENLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAALQR 75
Query: 330 LRQEELQGLSKSTSGSPRVVILAPTAELASQVLSNCRSLSKCGVPFRSMVVTGGFRQKTQ 389
+ ++ +P+ ++LAPT ELA Q+ +L+ + + GG
Sbjct: 76 I---------DTSVKAPQALMLAPTRELALQIQKVVMALA-FHMDIKVHACIGGTSFVED 125
Query: 390 LENLQEGVDVLIATPGR 406
E L++ +++ TPGR
Sbjct: 126 AEGLRDA-QIVVGTPGR 141
>pdb|1QVA|A Chain A, Yeast Initiation Factor 4a N-Terminal Domain
Length = 223
Score = 54.3 bits (129), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 36/137 (26%), Positives = 66/137 (48%), Gaps = 11/137 (8%)
Query: 270 FKELGCSDYMIESLKRQNFLRPSQIQAMAFPPVVEGKSCILADQSGSGKTLAYLLPVIQR 329
F ++ + ++ + F PS IQ A P++EG + QSG+GKT + + +QR
Sbjct: 23 FDDMELDEQLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAALQR 82
Query: 330 LRQEELQGLSKSTSGSPRVVILAPTAELASQVLSNCRSLSKCGVPFRSMVVTGGFRQKTQ 389
+ ++ +P+ ++LAPT ELA Q+ +L+ + + GG
Sbjct: 83 I---------DTSVKAPQALMLAPTRELALQIQKVVMALA-FHMDIKVHACIGGTSFVED 132
Query: 390 LENLQEGVDVLIATPGR 406
E L++ +++ TPGR
Sbjct: 133 AEGLRDA-QIVVGTPGR 148
>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 = 53.1 bits (126), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 37/141 (26%), Positives = 67/141 (47%), Gaps = 13/141 (9%)
Query: 268 KSFKELGCSDYMIESLKRQNFLRPSQIQAMAFPPVVEGKSCILADQSGSGKTLAYLLPVI 327
SF ++ S+ ++ + F PS IQ A P + G I QSG+G T + + ++
Sbjct: 15 DSFDDMNLSESLLRGIYAYGFEXPSAIQQRAILPCIXGYDVIAQAQSGTGXTATFAISIL 74
Query: 328 QRLRQEELQGLSKSTSGSPRVVILAPTAELASQVLSNCRSLSK-CGVPFRSMVVTGGFRQ 386
Q++ + + + ++LAPT ELA Q+ +L G + + GG
Sbjct: 75 QQIELD---------LXATQALVLAPTRELAQQIQXVVMALGDYMGASCHACI--GGTNV 123
Query: 387 KTQLENLQ-EGVDVLIATPGR 406
+ +++ LQ E +++ TPGR
Sbjct: 124 RAEVQXLQMEAPHIIVGTPGR 144
>pdb|1FUU|A Chain A, Yeast Initiation Factor 4a
pdb|1FUU|B Chain B, Yeast Initiation Factor 4a
Length = 394
Score = 52.8 bits (125), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 35/119 (29%), Positives = 57/119 (47%), Gaps = 11/119 (9%)
Query: 288 FLRPSQIQAMAFPPVVEGKSCILADQSGSGKTLAYLLPVIQRLRQEELQGLSKSTSGSPR 347
F PS IQ A P++EG + QSG+GKT + + +QR+ ++ +P+
Sbjct: 41 FEEPSAIQQRAIXPIIEGHDVLAQAQSGTGKTGTFSIAALQRI---------DTSVKAPQ 91
Query: 348 VVILAPTAELASQVLSNCRSLSKCGVPFRSMVVTGGFRQKTQLENLQEGVDVLIATPGR 406
+ LAPT ELA Q+ +L+ + GG E L++ +++ TPGR
Sbjct: 92 ALXLAPTRELALQIQKVVXALA-FHXDIKVHACIGGTSFVEDAEGLRDA-QIVVGTPGR 148
>pdb|1XTJ|A Chain A, Structure Of Human Uap56 In Complex With Adp
Length = 386
Score = 52.8 bits (125), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 36/138 (26%), Positives = 63/138 (45%), Gaps = 10/138 (7%)
Query: 288 FLRPSQIQAMAFPPVVEGKSCILADQSGSGKTLAYLLPVIQRLRQEELQGLSKSTSGSPR 347
F PS++Q P + G + +SG GKT ++L +Q+L + +G
Sbjct: 28 FEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQL---------EPVTGQVS 78
Query: 348 VVILAPTAELASQVLSNCRSLSKCGVPFRSMVVTGGFRQKTQLENLQEGV-DVLIATPGR 406
V+++ T ELA Q+ SK + V GG K E L++ +++ TPGR
Sbjct: 79 VLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEVLKKNCPHIVVGTPGR 138
Query: 407 FMFLIKEGILQLINLRWY 424
+ L + L L +++ +
Sbjct: 139 ILALARNKSLNLKHIKHF 156
>pdb|1XTI|A Chain A, Structure Of Wildtype Human Uap56
Length = 391
Score = 52.8 bits (125), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 36/138 (26%), Positives = 63/138 (45%), Gaps = 10/138 (7%)
Query: 288 FLRPSQIQAMAFPPVVEGKSCILADQSGSGKTLAYLLPVIQRLRQEELQGLSKSTSGSPR 347
F PS++Q P + G + +SG GKT ++L +Q+L + +G
Sbjct: 28 FEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQL---------EPVTGQVS 78
Query: 348 VVILAPTAELASQVLSNCRSLSKCGVPFRSMVVTGGFRQKTQLENLQEGV-DVLIATPGR 406
V+++ T ELA Q+ SK + V GG K E L++ +++ TPGR
Sbjct: 79 VLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEVLKKNCPHIVVGTPGR 138
Query: 407 FMFLIKEGILQLINLRWY 424
+ L + L L +++ +
Sbjct: 139 ILALARNKSLNLKHIKHF 156
>pdb|1XTK|A Chain A, Structure Of Decd To Dead Mutation Of Human Uap56
Length = 390
Score = 52.8 bits (125), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 36/138 (26%), Positives = 63/138 (45%), Gaps = 10/138 (7%)
Query: 288 FLRPSQIQAMAFPPVVEGKSCILADQSGSGKTLAYLLPVIQRLRQEELQGLSKSTSGSPR 347
F PS++Q P + G + +SG GKT ++L +Q+L + +G
Sbjct: 27 FEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQL---------EPVTGQVS 77
Query: 348 VVILAPTAELASQVLSNCRSLSKCGVPFRSMVVTGGFRQKTQLENLQEGV-DVLIATPGR 406
V+++ T ELA Q+ SK + V GG K E L++ +++ TPGR
Sbjct: 78 VLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEVLKKNCPHIVVGTPGR 137
Query: 407 FMFLIKEGILQLINLRWY 424
+ L + L L +++ +
Sbjct: 138 ILALARNKSLNLKHIKHF 155
>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 = 51.6 bits (122), Expect = 8e-07, Method: Compositional matrix adjust.
Identities = 37/156 (23%), Positives = 70/156 (44%), Gaps = 10/156 (6%)
Query: 270 FKELGCSDYMIESLKRQNFLRPSQIQAMAFPPVVEGKSCILADQSGSGKTLAYLLPVIQR 329
F++ ++ ++ F PS++Q P + G + +SG GKT ++L +Q+
Sbjct: 16 FRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQ 75
Query: 330 LRQEELQGLSKSTSGSPRVVILAPTAELASQVLSNCRSLSKCGVPFRSMVVTGGFRQKTQ 389
L + +G V+++ T ELA Q+ SK + V GG K
Sbjct: 76 L---------EPVTGQVSVLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKD 126
Query: 390 LENLQEGV-DVLIATPGRFMFLIKEGILQLINLRWY 424
E L++ +++ TPGR + L + L L +++ +
Sbjct: 127 EEVLKKNCPHIVVGTPGRILALARNKSLNLKHIKHF 162
>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 = 48.5 bits (114), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 31/99 (31%), Positives = 54/99 (54%), Gaps = 11/99 (11%)
Query: 264 FFSRKSFKELGCSDYMIESLKRQNFLRPSQIQAMAFPPVVEG--KSCILADQSGSGKTLA 321
+S KSF+EL +++ + F RPS+IQ A P ++ ++ I QSG+GKT A
Sbjct: 88 LYSVKSFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAA 147
Query: 322 YLLPVIQRLRQEELQGLSKSTSGSPRVVILAPTAELASQ 360
++L ++ ++ + + P+ + L+PT ELA Q
Sbjct: 148 FVLAMLSQV---------EPANKYPQCLCLSPTYELALQ 177
>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 = 48.1 bits (113), Expect = 9e-06, Method: Compositional matrix adjust.
Identities = 31/99 (31%), Positives = 54/99 (54%), Gaps = 11/99 (11%)
Query: 264 FFSRKSFKELGCSDYMIESLKRQNFLRPSQIQAMAFPPVVEG--KSCILADQSGSGKTLA 321
+S KSF+EL +++ + F RPS+IQ A P ++ ++ I QSG+GKT A
Sbjct: 21 LYSVKSFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAA 80
Query: 322 YLLPVIQRLRQEELQGLSKSTSGSPRVVILAPTAELASQ 360
++L ++ ++ + + P+ + L+PT ELA Q
Sbjct: 81 FVLAMLSQV---------EPANKYPQCLCLSPTYELALQ 110
>pdb|3FMO|B Chain B, Crystal Structure Of The Nucleoporin Nup214 In Complex
With The Dead- Box Helicase Ddx19
Length = 300
Score = 48.1 bits (113), Expect = 9e-06, Method: Compositional matrix adjust.
Identities = 40/148 (27%), Positives = 74/148 (50%), Gaps = 16/148 (10%)
Query: 264 FFSRKSFKELGCSDYMIESLKRQNFLRPSQIQAMAFPPVVEG--KSCILADQSGSGKTLA 321
+S KSF+EL +++ + F RPS+IQ A P ++ ++ I QSG+GKT A
Sbjct: 88 LYSVKSFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAA 147
Query: 322 YLLPVIQRLRQEELQGLSKSTSGSPRVVILAPTAELASQVLSNCRSLSKCGVPFRSMVVT 381
++L ++ ++ + + P+ + L+PT ELA L + + + G + + +
Sbjct: 148 FVLAMLSQV---------EPANKYPQCLCLSPTYELA---LQTGKVIEQMGKFYPELKLA 195
Query: 382 GGFRQKTQLENLQE-GVDVLIATPGRFM 408
R +LE Q+ ++I TPG +
Sbjct: 196 YAVR-GNKLERGQKISEQIVIGTPGTVL 222
>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 = 48.1 bits (113), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 31/99 (31%), Positives = 54/99 (54%), Gaps = 11/99 (11%)
Query: 264 FFSRKSFKELGCSDYMIESLKRQNFLRPSQIQAMAFPPVVEG--KSCILADQSGSGKTLA 321
+S KSF+EL +++ + F RPS+IQ A P ++ ++ I QSG+GKT A
Sbjct: 58 LYSVKSFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAA 117
Query: 322 YLLPVIQRLRQEELQGLSKSTSGSPRVVILAPTAELASQ 360
++L ++ ++ + + P+ + L+PT ELA Q
Sbjct: 118 FVLAMLSQV---------EPANKYPQCLCLSPTYELALQ 147
>pdb|3G0H|A Chain A, Human Dead-box Rna Helicase Ddx19, In Complex With An
Atp-analogue And Rna
Length = 424
Score = 48.1 bits (113), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 31/99 (31%), Positives = 54/99 (54%), Gaps = 11/99 (11%)
Query: 264 FFSRKSFKELGCSDYMIESLKRQNFLRPSQIQAMAFPPVVEG--KSCILADQSGSGKTLA 321
+S KSF+EL +++ + F RPS+IQ A P ++ ++ I QSG+GKT A
Sbjct: 37 LYSVKSFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAA 96
Query: 322 YLLPVIQRLRQEELQGLSKSTSGSPRVVILAPTAELASQ 360
++L ++ ++ + + P+ + L+PT ELA Q
Sbjct: 97 FVLAMLSQV---------EPANKYPQCLCLSPTYELALQ 126
>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 = 47.4 bits (111), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 45/158 (28%), Positives = 72/158 (45%), Gaps = 16/158 (10%)
Query: 270 FKELGCSDYMIESLKRQNFLRPSQIQAMAFPPVVEGKSCILADQSGSGKTLAYLLPVIQR 329
F+ L S ++E L+ F RPS +Q A P G I+ +SG+GKT + +
Sbjct: 26 FESLLLSRPVLEGLRAAGFERPSPVQLKAIPLGRCGLDLIVQAKSGTGKTCVFSTIALDS 85
Query: 330 LRQEELQGLSKSTSGSPRVVILAPTAELASQVLSNCRSLSKCGVPFRSMVVTGGF---RQ 386
L E L S +++ILAPT E+A Q+ S ++ V GG +
Sbjct: 86 LVLENL---------STQILILAPTREIAVQIHSVITAIGIKMEGLECHVFIGGTPLSQD 136
Query: 387 KTQLENLQEGVDVLIATPGRFMFLIKEGILQLINLRWY 424
KT+L+ + + +PGR LI+ L ++R +
Sbjct: 137 KTRLKKCH----IAVGSPGRIKQLIELDYLNPGSIRLF 170
>pdb|3FHC|B Chain B, Crystal Structure Of Human Dbp5 In Complex With Nup214
Length = 235
Score = 47.4 bits (111), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 31/99 (31%), Positives = 54/99 (54%), Gaps = 11/99 (11%)
Query: 264 FFSRKSFKELGCSDYMIESLKRQNFLRPSQIQAMAFPPVVEG--KSCILADQSGSGKTLA 321
+S KSF+EL +++ + F RPS+IQ A P ++ ++ I QSG+GKT A
Sbjct: 21 LYSVKSFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAA 80
Query: 322 YLLPVIQRLRQEELQGLSKSTSGSPRVVILAPTAELASQ 360
++L ++ ++ + + P+ + L+PT ELA Q
Sbjct: 81 FVLAMLSQV---------EPANKYPQCLCLSPTYELALQ 110
>pdb|3SQW|A Chain A, Structure Of Mss116p (Nte Deletion) Bound To Ssrna And
Amp-Pnp
Length = 579
Score = 47.0 bits (110), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 36/147 (24%), Positives = 68/147 (46%), Gaps = 12/147 (8%)
Query: 269 SFKELGCSDYMI-ESLKRQNFLRPSQIQAMAFPPVV--EGKSCILADQSGSGKTLAYLLP 325
S E G D I +++ R F + +Q P++ E I ++G+GKT A+L+P
Sbjct: 21 SLLEEGVLDKEIHKAITRMEFPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIP 80
Query: 326 VIQRLRQEELQGLSKSTSGSPRVVILAPTAELASQVLSNCRSLSKCGVPFRSMV---VTG 382
+ Q L + + + VI+APT +LA Q+ + + + + + G
Sbjct: 81 IFQHLINTKFD-----SQYMVKAVIVAPTRDLALQIEAEVKKIHDMNYGLKKYACVSLVG 135
Query: 383 GFRQKTQLENLQE-GVDVLIATPGRFM 408
G + + + + +++IATPGR +
Sbjct: 136 GTDFRAAMNKMNKLRPNIVIATPGRLI 162
>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 = 46.6 bits (109), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 36/147 (24%), Positives = 68/147 (46%), Gaps = 12/147 (8%)
Query: 269 SFKELGCSDYMI-ESLKRQNFLRPSQIQAMAFPPVV--EGKSCILADQSGSGKTLAYLLP 325
S E G D I +++ R F + +Q P++ E I ++G+GKT A+L+P
Sbjct: 72 SLLEEGVLDKEIHKAITRMEFPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIP 131
Query: 326 VIQRLRQEELQGLSKSTSGSPRVVILAPTAELASQVLSNCRSLSKCGVPFRSMV---VTG 382
+ Q L + + + VI+APT +LA Q+ + + + + + G
Sbjct: 132 IFQHLINTKF-----DSQYMVKAVIVAPTRDLALQIEAEVKKIHDMNYGLKKYACVSLVG 186
Query: 383 GFRQKTQLENLQE-GVDVLIATPGRFM 408
G + + + + +++IATPGR +
Sbjct: 187 GTDFRAAMNKMNKLRPNIVIATPGRLI 213
>pdb|3SQX|A Chain A, Structure Of Mss116p (Nte And C-Tail Double Deletion)
Bound To Ssrna And Amp-Pnp
Length = 512
Score = 46.2 bits (108), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 36/147 (24%), Positives = 68/147 (46%), Gaps = 12/147 (8%)
Query: 269 SFKELGCSDYMI-ESLKRQNFLRPSQIQAMAFPPVV--EGKSCILADQSGSGKTLAYLLP 325
S E G D I +++ R F + +Q P++ E I ++G+GKT A+L+P
Sbjct: 21 SLLEEGVLDKEIHKAITRMEFPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIP 80
Query: 326 VIQRLRQEELQGLSKSTSGSPRVVILAPTAELASQVLSNCRSLSKCGVPFRSMV---VTG 382
+ Q L + + + VI+APT +LA Q+ + + + + + G
Sbjct: 81 IFQHLINTKF-----DSQYMVKAVIVAPTRDLALQIEAEVKKIHDMNYGLKKYACVSLVG 135
Query: 383 GFRQKTQLENLQE-GVDVLIATPGRFM 408
G + + + + +++IATPGR +
Sbjct: 136 GTDFRAAMNKMNKLRPNIVIATPGRLI 162
>pdb|3FHO|A Chain A, Structure Of S. Pombe Dbp5
pdb|3FHO|B Chain B, Structure Of S. Pombe Dbp5
Length = 508
Score = 38.1 bits (87), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 33/142 (23%), Positives = 65/142 (45%), Gaps = 16/142 (11%)
Query: 293 QIQAMAFPPVVEG--KSCILADQSGSGKTLAYLLPVIQRLRQEELQGLSKSTSGSPRVVI 350
+IQ A P ++ ++ I QSG+GKT A+ L ++ R+ ++ P+ +
Sbjct: 144 KIQEKALPLLLSNPPRNMIGQSQSGTGKTAAFALTMLSRV---------DASVPKPQAIC 194
Query: 351 LAPTAELASQVLSNCRSLSKCGVPFRSMVVTGGFRQKTQLENLQEGVDVLIATPGRFMFL 410
LAP+ ELA Q++ + K + + G + + + ++I TPG M L
Sbjct: 195 LAPSRELARQIMDVVTEMGK----YTEVKTAFGIKDSVP-KGAKIDAQIVIGTPGTVMDL 249
Query: 411 IKEGILQLINLRWYARTASLNI 432
+K L +++ + + N+
Sbjct: 250 MKRRQLDARDIKVFVLDEADNM 271
>pdb|2ZJ2|A Chain A, Archaeal Dna Helicase Hjm Apo State In Form 1
pdb|2ZJ5|A Chain A, Archaeal Dna Helicase Hjm Complexed With Adp In Form 1
pdb|2ZJ8|A Chain A, Archaeal Dna Helicase Hjm Apo State In Form 2
pdb|2ZJA|A Chain A, Archaeal Dna Helicase Hjm Complexed With Amppcp In Form 2
Length = 720
Score = 37.4 bits (85), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 35/145 (24%), Positives = 65/145 (44%), Gaps = 19/145 (13%)
Query: 272 ELGCSDYMIESLKRQNF--LRPSQIQAMAFPPVVEGKSCILADQSGSGKTLAYLLPVIQR 329
EL + + +LK + P Q +A+ ++EGK+ +++ + SGKTL + ++ R
Sbjct: 5 ELRVDERIKSTLKERGIESFYPPQAEALK-SGILEGKNALISIPTASGKTLIAEIAMVHR 63
Query: 330 LRQEELQGLSKSTSGSPRVVILAPTAELASQVLSNCRSLSKCGVPFRSMVVTGGFRQKTQ 389
+ T G + V + P LA + + K G+ R + TG + K +
Sbjct: 64 I----------LTQGG-KAVYIVPLKALAEEKFQEFQDWEKIGL--RVAMATGDYDSKDE 110
Query: 390 LENLQEGVDVLIATPGRFMFLIKEG 414
D++IAT +F L++ G
Sbjct: 111 WLG---KYDIIIATAEKFDSLLRHG 132
>pdb|3TMI|A Chain A, Structural Basis For Rna Recognition And Activation Of
Rig-I
Length = 695
Score = 35.8 bits (81), Expect = 0.050, Method: Compositional matrix adjust.
Identities = 32/131 (24%), Positives = 57/131 (43%), Gaps = 14/131 (10%)
Query: 289 LRPSQIQAMAFPPVVEGKSCILADQSGSGKTLAYLLPVIQRLRQEELQGLSKSTSGSPRV 348
+P Q P ++GK+ I+ +G GKT LL + + L+ + G +V
Sbjct: 11 FKPRNYQLELALPAMKGKNTIICAPTGCGKTFVSLL-----ICEHHLKKFPQGQKG--KV 63
Query: 349 VILA---PTAELASQVLSNCRSLSKCGVPFRSMVVTGGFRQKTQLENLQEGVDVLIATPG 405
V A P E V S + + G +R ++G + +E + E D++I TP
Sbjct: 64 VFFANQIPVYEQQKSVFS--KYFERHG--YRVTGISGATAENVPVEQIVENNDIIILTPQ 119
Query: 406 RFMFLIKEGIL 416
+ +K+G +
Sbjct: 120 ILVNNLKKGTI 130
>pdb|4AY2|A Chain A, Capturing 5' Tri-Phosphorylated Rna Duplex By Rig-I
Length = 687
Score = 35.4 bits (80), Expect = 0.058, Method: Compositional matrix adjust.
Identities = 32/131 (24%), Positives = 57/131 (43%), Gaps = 14/131 (10%)
Query: 289 LRPSQIQAMAFPPVVEGKSCILADQSGSGKTLAYLLPVIQRLRQEELQGLSKSTSGSPRV 348
+P Q P ++GK+ I+ +G GKT LL + + L+ + G +V
Sbjct: 3 FKPRNYQLELALPAMKGKNTIICAPTGCGKTFVSLL-----ICEHHLKKFPQGQKG--KV 55
Query: 349 VILA---PTAELASQVLSNCRSLSKCGVPFRSMVVTGGFRQKTQLENLQEGVDVLIATPG 405
V A P E V S + + G +R ++G + +E + E D++I TP
Sbjct: 56 VFFANQIPVYEQNKSVFS--KYFERHG--YRVTGISGATAENVPVEQIVENNDIIILTPQ 111
Query: 406 RFMFLIKEGIL 416
+ +K+G +
Sbjct: 112 ILVNNLKKGTI 122
>pdb|2YKG|A Chain A, Structural Insights Into Rna Recognition By Rig-I
Length = 696
Score = 35.4 bits (80), Expect = 0.059, Method: Compositional matrix adjust.
Identities = 32/131 (24%), Positives = 57/131 (43%), Gaps = 14/131 (10%)
Query: 289 LRPSQIQAMAFPPVVEGKSCILADQSGSGKTLAYLLPVIQRLRQEELQGLSKSTSGSPRV 348
+P Q P ++GK+ I+ +G GKT LL + + L+ + G +V
Sbjct: 12 FKPRNYQLELALPAMKGKNTIICAPTGCGKTFVSLL-----ICEHHLKKFPQGQKG--KV 64
Query: 349 VILA---PTAELASQVLSNCRSLSKCGVPFRSMVVTGGFRQKTQLENLQEGVDVLIATPG 405
V A P E V S + + G +R ++G + +E + E D++I TP
Sbjct: 65 VFFANQIPVYEQNKSVFS--KYFERHG--YRVTGISGATAENVPVEQIVENNDIIILTPQ 120
Query: 406 RFMFLIKEGIL 416
+ +K+G +
Sbjct: 121 ILVNNLKKGTI 131
>pdb|1OYW|A Chain A, Structure Of The Recq Catalytic Core
Length = 523
Score = 32.0 bits (71), Expect = 0.71, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 29/56 (51%), Gaps = 3/56 (5%)
Query: 272 ELGCSDYMIESLKRQNFLRPSQIQAMAFPPVVEGKSCILADQSGSGKTLAYLLPVI 327
E G + E+ Q F RP Q + + V+ G+ C++ +G GK+L Y +P +
Sbjct: 10 ESGAKQVLQETFGYQQF-RPGQEEII--DTVLSGRDCLVVXPTGGGKSLCYQIPAL 62
>pdb|3TBK|A Chain A, Mouse Rig-I Atpase Domain
Length = 555
Score = 31.6 bits (70), Expect = 0.81, Method: Compositional matrix adjust.
Identities = 31/119 (26%), Positives = 50/119 (42%), Gaps = 14/119 (11%)
Query: 289 LRPSQIQAMAFPPVVEGKSCILADQSGSGKTLAYLLPVIQRLRQEELQGLSKSTSGSPRV 348
L+P Q P +GK+ I+ +G GKT LL + + L+ G +V
Sbjct: 3 LKPRNYQLELALPAKKGKNTIICAPTGCGKTFVSLL-----ICEHHLKKFPCGQKG--KV 55
Query: 349 VILA---PTAELASQVLSNCRSLSKCGVPFRSMVVTGGFRQKTQLENLQEGVDVLIATP 404
V A P E + V S R + G S ++G ++++ E D++I TP
Sbjct: 56 VFFANQIPVYEQQATVFS--RYFERLGYNIAS--ISGATSDSVSVQHIIEDNDIIILTP 110
>pdb|1OYY|A Chain A, Structure Of The Recq Catalytic Core Bound To Atp-Gamma-S
Length = 523
Score = 30.8 bits (68), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 29/56 (51%), Gaps = 3/56 (5%)
Query: 272 ELGCSDYMIESLKRQNFLRPSQIQAMAFPPVVEGKSCILADQSGSGKTLAYLLPVI 327
E G + E+ Q F RP Q + + V+ G+ C++ +G GK+L Y +P +
Sbjct: 10 ESGAKQVLQETFGYQQF-RPGQEEII--DTVLSGRDCLVVMPTGGGKSLCYQIPAL 62
>pdb|3DIN|A Chain A, Crystal Structure Of The Protein-Translocation Complex
Formed By The Secy Channel And The Seca Atpase
pdb|3DIN|B Chain B, Crystal Structure Of The Protein-Translocation Complex
Formed By The Secy Channel And The Seca Atpase
Length = 871
Score = 30.0 bits (66), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 16/46 (34%), Positives = 26/46 (56%), Gaps = 2/46 (4%)
Query: 281 ESLKRQNFLRPSQIQAMAFPPVVEGKSCILADQSGSGKTLAYLLPV 326
E+ +R +RP +Q M + EGK + ++G GKTLA +P+
Sbjct: 66 EAARRTLGMRPFDVQVMGGIALHEGKVAEM--KTGEGKTLAATMPI 109
>pdb|3JUX|A Chain A, Structure Of The Translocation Atpase Seca From Thermotoga
Maritima
Length = 822
Score = 30.0 bits (66), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 16/46 (34%), Positives = 26/46 (56%), Gaps = 2/46 (4%)
Query: 281 ESLKRQNFLRPSQIQAMAFPPVVEGKSCILADQSGSGKTLAYLLPV 326
E+ +R +RP +Q M + EGK + ++G GKTLA +P+
Sbjct: 66 EAARRTLGMRPFDVQVMGGIALHEGKVAEM--KTGEGKTLAATMPI 109
>pdb|3KVE|A Chain A, Structure Of Native L-Amino Acid Oxidase From Vipera
Ammodytes Ammodytes: Stabilization Of The Quaternary
Structure By Divalent Ions And Structural Changes In The
Dynamic Active Site
pdb|3KVE|B Chain B, Structure Of Native L-Amino Acid Oxidase From Vipera
Ammodytes Ammodytes: Stabilization Of The Quaternary
Structure By Divalent Ions And Structural Changes In The
Dynamic Active Site
pdb|3KVE|C Chain C, Structure Of Native L-Amino Acid Oxidase From Vipera
Ammodytes Ammodytes: Stabilization Of The Quaternary
Structure By Divalent Ions And Structural Changes In The
Dynamic Active Site
pdb|3KVE|D Chain D, Structure Of Native L-Amino Acid Oxidase From Vipera
Ammodytes Ammodytes: Stabilization Of The Quaternary
Structure By Divalent Ions And Structural Changes In The
Dynamic Active Site
Length = 486
Score = 30.0 bits (66), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 32/131 (24%), Positives = 51/131 (38%), Gaps = 29/131 (22%)
Query: 224 HEKSGTKI-----DRGWRSGGSIHNLQYEPTDCPKQ-----RHKYSA------------D 261
H +SGTKI + W G IH + TD P + H +S D
Sbjct: 320 HYRSGTKIFLTCSSKFWEDDG-IHGGK-STTDLPSRFIYYPNHNFSTGVGVIIAYGIGDD 377
Query: 262 GDFFSRKSFKELGCSDYMIESLKRQNFLRPSQIQAMAFPPVVEGKSCILADQSGSGKTLA 321
+FF FK+ C+D + L + L +IQ+ +P +++ S D+ G
Sbjct: 378 ANFFQALKFKD--CADIVFNDLSLIHQLPKEEIQSFCYPSMIQKWSL---DKYAMGAITT 432
Query: 322 YLLPVIQRLRQ 332
+ QR +
Sbjct: 433 FTPYQFQRFSE 443
>pdb|1REO|A Chain A, L-Amino Acid Oxidase From Agkistrodon Halys Pallas
pdb|1TDK|A Chain A, L-amino Acid Oxidase From Agkistrodon Halys In Complex
With Suicide Substrate L-vinylglycine
pdb|1TDN|A Chain A, L-Amino Acid Oxidase From Agkistrodon Halys In Complex
With L-Leucine
pdb|1TDO|A Chain A, L-Amino Acid Oxidae From Agkistrodon Halys In Complex With
L- Phenylalanine
Length = 486
Score = 29.6 bits (65), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 41/168 (24%), Positives = 66/168 (39%), Gaps = 39/168 (23%)
Query: 224 HEKSGTKI-----DRGWRSGGSIHNLQYEPTDCPKQ-----RHKYSA------------D 261
H +SGTKI + W G IH + TD P + H +++ D
Sbjct: 320 HYRSGTKIFLTCTKKFWEDEG-IHGGK-STTDLPSRFIYYPNHNFTSGVGVIIAYGIGDD 377
Query: 262 GDFFSRKSFKELGCSDYMIESLKRQNFLRPSQIQAMAFPPVVEGKSCILADQSGSGKTLA 321
+FF FK+ C+D +I L + L +IQ +P +++ S D+
Sbjct: 378 ANFFQALDFKD--CADIVINDLSLIHQLPREEIQTFCYPSMIQKWSL---DK-------- 424
Query: 322 YLLPVIQRLRQEELQGLSKSTSGSPRVVILA--PTAELASQVLSNCRS 367
Y + I + Q S+S + S + A TAE + S +S
Sbjct: 425 YAMGGITTFTPYQFQHFSESLTASVDRIYFAGEHTAEAHGWIDSTIKS 472
>pdb|3B6E|A Chain A, Crystal Structure Of Human Dech-Box Rna Helicase Mda5
(Melanoma Differentiation-Associated Protein 5),
Dech-Domain
Length = 216
Score = 28.9 bits (63), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 30/120 (25%), Positives = 52/120 (43%), Gaps = 19/120 (15%)
Query: 289 LRPSQIQAMAFPPVVEGKSCILADQSGSGKTLAYLLPVIQRLRQEELQGLSKSTSGSPRV 348
LRP Q++ P +EGK+ I+ +GSGKT + L ++ K S +V
Sbjct: 34 LRPYQMEVAQ--PALEGKNIIICLPTGSGKTRVAVYIAKDHLDKK------KKASEPGKV 85
Query: 349 VILAPTAELASQVLSNCRSLSKCGVPF-----RSMVVTGGFRQKTQLENLQEGVDVLIAT 403
++L L Q+ K PF R + ++G + K + + D++I+T
Sbjct: 86 IVLVNKVLLVEQL------FRKEFQPFLKKWYRVIGLSGDTQLKISFPEVVKSCDIIIST 139
>pdb|2XY7|A Chain A, Crystal Structure Of A Salicylic Aldehyde Base In The
Pre-Insertion Site Of Fragment Dna Polymerase I From
Bacillus Stearothermophilus
Length = 580
Score = 28.1 bits (61), Expect = 9.9, Method: Compositional matrix adjust.
Identities = 24/76 (31%), Positives = 30/76 (39%), Gaps = 7/76 (9%)
Query: 175 NALKQEGRLSKTTPSLENF---RELGEHIVDNDVPAES----IDKNISDYNSRSNKHEKS 227
AL Q GRLS T P+L+N E G I VP+ES + S R H
Sbjct: 312 QALTQTGRLSSTEPNLQNIPIRLEEGRKIRQAFVPSESDWLIFAADYSQIELRVLAHIAE 371
Query: 228 GTKIDRGWRSGGSIHN 243
+ +R IH
Sbjct: 372 DDNLMEAFRRDLDIHT 387
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
0.316 0.132 0.382
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,887,721
Number of Sequences: 62578
Number of extensions: 459842
Number of successful extensions: 1249
Number of sequences better than 100.0: 83
Number of HSP's better than 100.0 without gapping: 44
Number of HSP's successfully gapped in prelim test: 39
Number of HSP's that attempted gapping in prelim test: 1126
Number of HSP's gapped (non-prelim): 86
length of query: 439
length of database: 14,973,337
effective HSP length: 102
effective length of query: 337
effective length of database: 8,590,381
effective search space: 2894958397
effective search space used: 2894958397
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 53 (25.0 bits)