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= 010876
(498 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4A4D|A Chain A, Crystal Structure Of The N-Terminal Domain Of The Human
Dead-Box Rna Helicase Ddx5 (P68)
Length = 253
Score = 337 bits (864), Expect = 9e-93, Method: Compositional matrix adjust.
Identities = 159/251 (63%), Positives = 189/251 (75%)
Query: 53 FEKNFYVESPSVAAMSXXXXXXXXXXXXITVEGRDVPKPVKSFRDVGFPDYVMQEISKAG 112
FEKNFY E P +A + ITV G + PKPV +F + FP VM I++
Sbjct: 3 FEKNFYQEHPDLARRTAQEVETYRRSKEITVRGHNCPKPVLNFYEANFPANVMDVIARQN 62
Query: 113 FFEPTPIQAQGWPMALKGRDLIGIAETGSGKTLAYLLPAIVHVNAQPFLAPGDGPIVLVL 172
F EPT IQAQGWP+AL G D++G+A+TGSGKTL+YLLPAIVH+N QPFL GDGPI LVL
Sbjct: 63 FTEPTAIQAQGWPVALSGLDMVGVAQTGSGKTLSYLLPAIVHINHQPFLERGDGPICLVL 122
Query: 173 APTRELAVQIQQESTKFGASSKIKSTCIYGGVPKGPQVRDLQKGVEIVIATPGRLIDMLE 232
APTRELA Q+QQ + ++ + ++KSTCIYGG PKGPQ+RDL++GVEI IATPGRLID LE
Sbjct: 123 APTRELAQQVQQVAAEYCRACRLKSTCIYGGAPKGPQIRDLERGVEICIATPGRLIDFLE 182
Query: 233 SHNTNLRRVTYLVLDEADRMLDMGFEPQIKKILSQIRPDRQTLYWSATWPKEVEHLARQY 292
TNLRR TYLVLDEADRMLDMGFEPQI+KI+ QIRPDRQTL WSATWPKEV LA +
Sbjct: 183 CGKTNLRRTTYLVLDEADRMLDMGFEPQIRKIVDQIRPDRQTLMWSATWPKEVRQLAEDF 242
Query: 293 LYNPYKVIIGS 303
L + + IG+
Sbjct: 243 LKDYIHINIGA 253
>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 = 323 bits (828), Expect = 1e-88, Method: Compositional matrix adjust.
Identities = 151/226 (66%), Positives = 180/226 (79%)
Query: 81 ITVEGRDVPKPVKSFRDVGFPDYVMQEISKAGFFEPTPIQAQGWPMALKGRDLIGIAETG 140
ITV G + PKPV +F + FP VM I++ F EPT IQAQGWP+AL G D++G+A+TG
Sbjct: 17 ITVRGHNCPKPVLNFYEANFPANVMDVIARQNFTEPTAIQAQGWPVALSGLDMVGVAQTG 76
Query: 141 SGKTLAYLLPAIVHVNAQPFLAPGDGPIVLVLAPTRELAVQIQQESTKFGASSKIKSTCI 200
SGKTL+YLLPAIVH+N QPFL GDGPI LVLAPTRELA Q+QQ + ++ + ++KSTCI
Sbjct: 77 SGKTLSYLLPAIVHINHQPFLERGDGPICLVLAPTRELAQQVQQVAAEYCRACRLKSTCI 136
Query: 201 YGGVPKGPQVRDLQKGVEIVIATPGRLIDMLESHNTNLRRVTYLVLDEADRMLDMGFEPQ 260
YGG PKGPQ+RDL++GVEI IATPGRLID LE TNLRR TYLVLDEADRMLDMGFEPQ
Sbjct: 137 YGGAPKGPQIRDLERGVEICIATPGRLIDFLECGKTNLRRTTYLVLDEADRMLDMGFEPQ 196
Query: 261 IKKILSQIRPDRQTLYWSATWPKEVEHLARQYLYNPYKVIIGSPDL 306
I+KI+ QIRPDRQTL WSATWPKEV LA +L + + IG+ +L
Sbjct: 197 IRKIVDQIRPDRQTLMWSATWPKEVRQLAEDFLKDYIHINIGALEL 242
>pdb|2I4I|A Chain A, Crystal Structure Of Human Dead-Box Rna Helicase Ddx3x
Length = 417
Score = 305 bits (781), Expect = 4e-83, Method: Compositional matrix adjust.
Identities = 169/412 (41%), Positives = 238/412 (57%), Gaps = 24/412 (5%)
Query: 81 ITVEGRDVPKPVKSFRDVGFPDYVMQEISKAGFFEPTPIQAQGWPMALKGRDLIGIAETG 140
+ G + P ++SF DV + +M I + PTP+Q P+ + RDL+ A+TG
Sbjct: 3 VEATGNNCPPHIESFSDVEMGEIIMGNIELTRYTRPTPVQKHAIPIIKEKRDLMACAQTG 62
Query: 141 SGKTLAYLLPAIVHVNAQPFLAPGDG----------------PIVLVLAPTRELAVQIQQ 184
SGKT A+LLP + + + PG+ PI LVLAPTRELAVQI +
Sbjct: 63 SGKTAAFLLPILSQIYSD---GPGEALRAMKENGRYGRRKQYPISLVLAPTRELAVQIYE 119
Query: 185 ESTKFGASSKIKSTCIYGGVPKGPQVRDLQKGVEIVIATPGRLIDMLESHNTNLRRVTYL 244
E+ KF S+++ +YGG G Q+RDL++G +++ATPGRL+DM+E L YL
Sbjct: 120 EARKFSYRSRVRPCVVYGGADIGQQIRDLERGCHLLVATPGRLVDMMERGKIGLDFCKYL 179
Query: 245 VLDEADRMLDMGFEPQIKKILSQ--IRPD--RQTLYWSATWPKEVEHLARQYLYNPYKVI 300
VLDEADRMLDMGFEPQI++I+ Q + P R T+ +SAT+PKE++ LAR +L +
Sbjct: 180 VLDEADRMLDMGFEPQIRRIVEQDTMPPKGVRHTMMFSATFPKEIQMLARDFLDEYIFLA 239
Query: 301 IGSPDLKANHAIRQHVDIVSESQKYNKLVKLLEDIMDGSRILIFMDTKKGCDQITRQLRM 360
+G + I Q V V ES K + L+ LL S L+F++TKKG D + L
Sbjct: 240 VGRVG-STSENITQKVVWVEESDKRSFLLDLLNATGKDSLTLVFVETKKGADSLEDFLYH 298
Query: 361 DGWPALSIHGDKSQAERDWVLSEFKAGKSPIMTATDVAARGLDVKDVKYVINYDFPGSLE 420
+G+ SIHGD+SQ +R+ L +F++GKSPI+ AT VAARGLD+ +VK+VIN+D P +E
Sbjct: 299 EGYACTSIHGDRSQRDREEALHQFRSGKSPILVATAVAARGLDISNVKHVINFDLPSDIE 358
Query: 421 DYVHXXXXXXXXXXXXXXXXFFTAANARFAKELITILEEAGQKVSPELAAMG 472
+YVH FF N K+L+ +L EA Q+V L M
Sbjct: 359 EYVHRIGRTGRVGNLGLATSFFNERNINITKDLLDLLVEAKQEVPSWLENMA 410
>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 = 280 bits (717), Expect = 9e-76, Method: Compositional matrix adjust.
Identities = 149/387 (38%), Positives = 231/387 (59%), Gaps = 6/387 (1%)
Query: 81 ITVEGRDVPKPVKSFRDVGFPDYVMQEISKAGFFEPTPIQAQGWPMALKGRDLIGIAETG 140
+ V G DVP+P++ F D ++ ++K+G+ PTPIQ P+ GRDL+ A+TG
Sbjct: 44 VKVTGSDVPQPIQHFTSADLRDIIIDNVNKSGYKIPTPIQKCSIPVISSGRDLMACAQTG 103
Query: 141 SGKTLAYLLPAIVHVNAQPFLAPGDGPIVLVLAPTRELAVQIQQESTKFGASSKIKSTCI 200
SGKT A+LLP + + P P V++++PTRELA+QI E+ KF S +K +
Sbjct: 104 SGKTAAFLLPILSKLLEDPHELELGRPQVVIVSPTRELAIQIFNEARKFAFESYLKIGIV 163
Query: 201 YGGVPKGPQVRDLQKGVEIVIATPGRLIDMLESHNTNLRRVTYLVLDEADRMLDMGFEPQ 260
YGG Q + +G +VIATPGRL+D ++ ++VLDEADRMLDMGF
Sbjct: 164 YGGTSFRHQNECITRGCHVVIATPGRLLDFVDRTFITFEDTRFVVLDEADRMLDMGFSED 223
Query: 261 IKKILSQI--RPDRQTLYWSATWPKEVEHLARQYLYNPYKVIIGSPDLKANHAIRQHVDI 318
+++I++ + RP+ QTL +SAT+P+E++ +A ++L N V IG A ++Q +
Sbjct: 224 MRRIMTHVTMRPEHQTLMFSATFPEEIQRMAGEFLKNYVFVAIGIVG-GACSDVKQTIYE 282
Query: 319 VSESQKYNKLVKLLEDIMDGSRILIFMDTKKGCDQITRQLRMDGWPALSIHGDKSQAERD 378
V++ K +KL+++L + DG+ ++F++TK+G D + L +P SIHGD+ Q++R+
Sbjct: 283 VNKYAKRSKLIEILSEQADGT--IVFVETKRGADFLASFLSEKEFPTTSIHGDRLQSQRE 340
Query: 379 WVLSEFKAGKSPIMTATDVAARGLDVKDVKYVINYDFPGSLEDYVHXXXXXXXXXXXXXX 438
L +FK G ++ AT VA+RGLD+K++K+VINYD P ++DYVH
Sbjct: 341 QALRDFKNGSMKVLIATSVASRGLDIKNIKHVINYDMPSKIDDYVHRIGRTGRVGNNGRA 400
Query: 439 XXFFTAANAR-FAKELITILEEAGQKV 464
FF R A +L+ ILE +GQ V
Sbjct: 401 TSFFDPEKDRAIAADLVKILEGSGQTV 427
>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 = 229 bits (584), Expect = 2e-60, Method: Compositional matrix adjust.
Identities = 112/221 (50%), Positives = 157/221 (71%), Gaps = 5/221 (2%)
Query: 84 EGRDVPKPVKSFRDV--GFPDYVMQEISKAGFFEPTPIQAQGWPMALKGRDLIGIAETGS 141
E R +PKP F+D +PD +++ I + G +PTPIQ+Q WP+ L+G DLI +A+TG+
Sbjct: 10 EKRLIPKPTCRFKDAFQQYPD-LLKSIIRVGILKPTPIQSQAWPIILQGIDLIVVAQTGT 68
Query: 142 GKTLAYLLPAIVHVNAQPF-LAPGDGPIVLVLAPTRELAVQIQQESTKFGASSKIKSTCI 200
GKTL+YL+P +H+++QP +GP +LVL PTRELA+ ++ E +K+ +KS CI
Sbjct: 69 GKTLSYLMPGFIHLDSQPISREQRNGPGMLVLTPTRELALHVEAECSKYSYKG-LKSICI 127
Query: 201 YGGVPKGPQVRDLQKGVEIVIATPGRLIDMLESHNTNLRRVTYLVLDEADRMLDMGFEPQ 260
YGG + Q+ D+ KGV+I+IATPGRL D+ +++ NLR +TYLV+DEAD+MLDM FEPQ
Sbjct: 128 YGGRNRNGQIEDISKGVDIIIATPGRLNDLQMNNSVNLRSITYLVIDEADKMLDMEFEPQ 187
Query: 261 IKKILSQIRPDRQTLYWSATWPKEVEHLARQYLYNPYKVII 301
I+KIL +RPDRQT+ SATWP V LA YL +P V +
Sbjct: 188 IRKILLDVRPDRQTVMTSATWPDTVRQLALSYLKDPMIVYV 228
>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 = 209 bits (531), Expect = 4e-54, Method: Compositional matrix adjust.
Identities = 121/332 (36%), Positives = 185/332 (55%), Gaps = 15/332 (4%)
Query: 94 SFRDVGFPDYVMQEISKAGFFEPTPIQAQGWPMALKGR-DLIGIAETGSGKTLAYLLPAI 152
+F ++ D ++ I GF +PT IQ + P+ L +++ A TGSGKT ++ +P I
Sbjct: 7 NFNELNLSDNILNAIRNKGFEKPTDIQXKVIPLFLNDEYNIVAQARTGSGKTASFAIPLI 66
Query: 153 VHVNAQPFLAPGDGPIVLVLAPTRELAVQIQQESTKFGASSKIKSTCIYGGVPKGPQVRD 212
VN +G ++L PTRELA+Q+ E + +K IYGG PQ++
Sbjct: 67 ELVN------ENNGIEAIILTPTRELAIQVADEIESLKGNKNLKIAKIYGGKAIYPQIKA 120
Query: 213 LQKGVEIVIATPGRLIDMLESHNTNLRRVTYLVLDEADRMLDMGFEPQIKKILSQIRPDR 272
L K IV+ TPGR++D + NL+ V Y +LDEAD L+ GF ++KIL+ D+
Sbjct: 121 L-KNANIVVGTPGRILDHINRGTLNLKNVKYFILDEADEXLNXGFIKDVEKILNACNKDK 179
Query: 273 QTLYWSATWPKEVEHLARQYLYNPYKVIIGSPDLKANHAIRQHVDIVSESQKYNKLVKLL 332
+ L +SAT P+E+ +LA++Y Y I K N I Q V+E++++ L +LL
Sbjct: 180 RILLFSATXPREILNLAKKYX-GDYSFI----KAKINANIEQSYVEVNENERFEALCRLL 234
Query: 333 EDIMDGSRILIFMDTKKGCDQITRQLRMDGWPALSIHGDKSQAERDWVLSEFKAGKSPIM 392
++ L+F TK+ ++ LR G+ A +IHGD SQ++R+ V+ FK K I+
Sbjct: 235 KN--KEFYGLVFCKTKRDTKELASXLRDIGFKAGAIHGDLSQSQREKVIRLFKQKKIRIL 292
Query: 393 TATDVAARGLDVKDVKYVINYDFPGSLEDYVH 424
ATDV +RG+DV D+ VINY P + E Y H
Sbjct: 293 IATDVXSRGIDVNDLNCVINYHLPQNPESYXH 324
>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 = 204 bits (518), Expect = 1e-52, Method: Compositional matrix adjust.
Identities = 110/331 (33%), Positives = 182/331 (54%), Gaps = 6/331 (1%)
Query: 94 SFRDVGFPDYVMQEISKAGFFEPTPIQAQGWPMALKGRDLIGIAETGSGKTLAYLLPAIV 153
+F +G + +++ I GF +P+ IQ + +KGRD+I +++G+GKT + + +
Sbjct: 38 TFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQ 97
Query: 154 HVNAQPFLAPGDGPIVLVLAPTRELAVQIQQESTKFGASSKIKSTCIYGGVPKGPQVRDL 213
++ Q L+LAPTRELAVQIQ+ G ++ GG G +R L
Sbjct: 98 CLDIQVRETQA-----LILAPTRELAVQIQKGLLALGDYMNVQCHACIGGTNVGEDIRKL 152
Query: 214 QKGVEIVIATPGRLIDMLESHNTNLRRVTYLVLDEADRMLDMGFEPQIKKILSQIRPDRQ 273
G +V TPGR+ DM+ + R + LVLDEAD ML+ GF+ QI + + P Q
Sbjct: 153 DYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQ 212
Query: 274 TLYWSATWPKEVEHLARQYLYNPYKVIIGSPDLKANHAIRQHVDIVSESQKYNKLVKLLE 333
+ SAT P E+ + +++ +P ++++ +L + V + E K++ L L
Sbjct: 213 VVLISATLPHEILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLY- 271
Query: 334 DIMDGSRILIFMDTKKGCDQITRQLRMDGWPALSIHGDKSQAERDWVLSEFKAGKSPIMT 393
D + ++ +IF +TK+ D +T ++R + S+HGD Q ER+ ++ EF++G S ++
Sbjct: 272 DTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLI 331
Query: 394 ATDVAARGLDVKDVKYVINYDFPGSLEDYVH 424
+TDV ARGLDV V +INYD P + E Y+H
Sbjct: 332 STDVWARGLDVPQVSLIINYDLPNNRELYIH 362
>pdb|2J0U|B Chain B, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 204 bits (518), Expect = 1e-52, Method: Compositional matrix adjust.
Identities = 111/331 (33%), Positives = 183/331 (55%), Gaps = 6/331 (1%)
Query: 94 SFRDVGFPDYVMQEISKAGFFEPTPIQAQGWPMALKGRDLIGIAETGSGKTLAYLLPAIV 153
+F +G + +++ I GF +P+ IQ + +KGRD+I +++G+GKT + + +
Sbjct: 2 TFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSVSVLQ 61
Query: 154 HVNAQPFLAPGDGPIVLVLAPTRELAVQIQQESTKFGASSKIKSTCIYGGVPKGPQVRDL 213
++ Q L+LAPTRELAVQ+Q+ G ++S GG G +R L
Sbjct: 62 CLDIQVRETQA-----LILAPTRELAVQVQKGLLALGDYMNVQSHACIGGTNVGEDIRKL 116
Query: 214 QKGVEIVIATPGRLIDMLESHNTNLRRVTYLVLDEADRMLDMGFEPQIKKILSQIRPDRQ 273
G +V TPGR+ DM+ + R + LVLDEAD ML+ GF+ QI + + P Q
Sbjct: 117 DYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQ 176
Query: 274 TLYWSATWPKEVEHLARQYLYNPYKVIIGSPDLKANHAIRQHVDIVSESQKYNKLVKLLE 333
+ SAT P EV + +++ +P ++++ +L + V + E K++ L L
Sbjct: 177 VVLISATLPHEVLEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLY- 235
Query: 334 DIMDGSRILIFMDTKKGCDQITRQLRMDGWPALSIHGDKSQAERDWVLSEFKAGKSPIMT 393
D + ++ +IF +TK+ D +T ++R + S+HGD Q ER+ ++ EF++G S ++
Sbjct: 236 DTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLI 295
Query: 394 ATDVAARGLDVKDVKYVINYDFPGSLEDYVH 424
+TDV ARGLDV V +INYD P + E Y+H
Sbjct: 296 STDVWARGLDVPQVSLIINYDLPNNRELYIH 326
>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 = 204 bits (518), Expect = 1e-52, Method: Compositional matrix adjust.
Identities = 110/331 (33%), Positives = 182/331 (54%), Gaps = 6/331 (1%)
Query: 94 SFRDVGFPDYVMQEISKAGFFEPTPIQAQGWPMALKGRDLIGIAETGSGKTLAYLLPAIV 153
+F +G + +++ I GF +P+ IQ + +KGRD+I +++G+GKT + + +
Sbjct: 39 TFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQ 98
Query: 154 HVNAQPFLAPGDGPIVLVLAPTRELAVQIQQESTKFGASSKIKSTCIYGGVPKGPQVRDL 213
++ Q L+LAPTRELAVQIQ+ G ++ GG G +R L
Sbjct: 99 CLDIQVRETQA-----LILAPTRELAVQIQKGLLALGDYMNVQCHACIGGTNVGEDIRKL 153
Query: 214 QKGVEIVIATPGRLIDMLESHNTNLRRVTYLVLDEADRMLDMGFEPQIKKILSQIRPDRQ 273
G +V TPGR+ DM+ + R + LVLDEAD ML+ GF+ QI + + P Q
Sbjct: 154 DYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQ 213
Query: 274 TLYWSATWPKEVEHLARQYLYNPYKVIIGSPDLKANHAIRQHVDIVSESQKYNKLVKLLE 333
+ SAT P E+ + +++ +P ++++ +L + V + E K++ L L
Sbjct: 214 VVLISATLPHEILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLY- 272
Query: 334 DIMDGSRILIFMDTKKGCDQITRQLRMDGWPALSIHGDKSQAERDWVLSEFKAGKSPIMT 393
D + ++ +IF +TK+ D +T ++R + S+HGD Q ER+ ++ EF++G S ++
Sbjct: 273 DTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLI 332
Query: 394 ATDVAARGLDVKDVKYVINYDFPGSLEDYVH 424
+TDV ARGLDV V +INYD P + E Y+H
Sbjct: 333 STDVWARGLDVPQVSLIINYDLPNNRELYIH 363
>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 = 204 bits (518), Expect = 1e-52, Method: Compositional matrix adjust.
Identities = 110/331 (33%), Positives = 182/331 (54%), Gaps = 6/331 (1%)
Query: 94 SFRDVGFPDYVMQEISKAGFFEPTPIQAQGWPMALKGRDLIGIAETGSGKTLAYLLPAIV 153
+F +G + +++ I GF +P+ IQ + +KGRD+I +++G+GKT + + +
Sbjct: 39 TFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQ 98
Query: 154 HVNAQPFLAPGDGPIVLVLAPTRELAVQIQQESTKFGASSKIKSTCIYGGVPKGPQVRDL 213
++ Q L+LAPTRELAVQIQ+ G ++ GG G +R L
Sbjct: 99 CLDIQVRETQA-----LILAPTRELAVQIQKGLLALGDYMNVQCHACIGGTNVGEDIRKL 153
Query: 214 QKGVEIVIATPGRLIDMLESHNTNLRRVTYLVLDEADRMLDMGFEPQIKKILSQIRPDRQ 273
G +V TPGR+ DM+ + R + LVLDEAD ML+ GF+ QI + + P Q
Sbjct: 154 DYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQ 213
Query: 274 TLYWSATWPKEVEHLARQYLYNPYKVIIGSPDLKANHAIRQHVDIVSESQKYNKLVKLLE 333
+ SAT P E+ + +++ +P ++++ +L + V + E K++ L L
Sbjct: 214 VVLISATLPHEILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLY- 272
Query: 334 DIMDGSRILIFMDTKKGCDQITRQLRMDGWPALSIHGDKSQAERDWVLSEFKAGKSPIMT 393
D + ++ +IF +TK+ D +T ++R + S+HGD Q ER+ ++ EF++G S ++
Sbjct: 273 DTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLI 332
Query: 394 ATDVAARGLDVKDVKYVINYDFPGSLEDYVH 424
+TDV ARGLDV V +INYD P + E Y+H
Sbjct: 333 STDVWARGLDVPQVSLIINYDLPNNRELYIH 363
>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 = 203 bits (517), Expect = 2e-52, Method: Compositional matrix adjust.
Identities = 110/331 (33%), Positives = 182/331 (54%), Gaps = 6/331 (1%)
Query: 94 SFRDVGFPDYVMQEISKAGFFEPTPIQAQGWPMALKGRDLIGIAETGSGKTLAYLLPAIV 153
+F +G + +++ I GF +P+ IQ + +KGRD+I +++G+GKT + + +
Sbjct: 17 TFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQ 76
Query: 154 HVNAQPFLAPGDGPIVLVLAPTRELAVQIQQESTKFGASSKIKSTCIYGGVPKGPQVRDL 213
++ Q L+LAPTRELAVQIQ+ G ++ GG G +R L
Sbjct: 77 CLDIQVRETQA-----LILAPTRELAVQIQKGLLALGDYMNVQCHACIGGTNVGEDIRKL 131
Query: 214 QKGVEIVIATPGRLIDMLESHNTNLRRVTYLVLDEADRMLDMGFEPQIKKILSQIRPDRQ 273
G +V TPGR+ DM+ + R + LVLDEAD ML+ GF+ QI + + P Q
Sbjct: 132 DYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQ 191
Query: 274 TLYWSATWPKEVEHLARQYLYNPYKVIIGSPDLKANHAIRQHVDIVSESQKYNKLVKLLE 333
+ SAT P E+ + +++ +P ++++ +L + V + E K++ L L
Sbjct: 192 VVLISATLPHEILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLY- 250
Query: 334 DIMDGSRILIFMDTKKGCDQITRQLRMDGWPALSIHGDKSQAERDWVLSEFKAGKSPIMT 393
D + ++ +IF +TK+ D +T ++R + S+HGD Q ER+ ++ EF++G S ++
Sbjct: 251 DTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLI 310
Query: 394 ATDVAARGLDVKDVKYVINYDFPGSLEDYVH 424
+TDV ARGLDV V +INYD P + E Y+H
Sbjct: 311 STDVWARGLDVPQVSLIINYDLPNNRELYIH 341
>pdb|2J0U|A Chain A, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 202 bits (513), Expect = 4e-52, Method: Compositional matrix adjust.
Identities = 109/331 (32%), Positives = 182/331 (54%), Gaps = 6/331 (1%)
Query: 94 SFRDVGFPDYVMQEISKAGFFEPTPIQAQGWPMALKGRDLIGIAETGSGKTLAYLLPAIV 153
+F +G + +++ I GF +P+ IQ + +KGRD+I +++G+GKT + + +
Sbjct: 2 TFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSVSVLQ 61
Query: 154 HVNAQPFLAPGDGPIVLVLAPTRELAVQIQQESTKFGASSKIKSTCIYGGVPKGPQVRDL 213
++ Q L+LAPTRELAVQ+Q+ G ++ GG G +R L
Sbjct: 62 CLDIQVRETQA-----LILAPTRELAVQVQKGLLALGDYMNVQCHACIGGTNVGEDIRKL 116
Query: 214 QKGVEIVIATPGRLIDMLESHNTNLRRVTYLVLDEADRMLDMGFEPQIKKILSQIRPDRQ 273
G +V TPGR+ DM+ + R + LVLDEAD ML+ GF+ QI + + P Q
Sbjct: 117 DYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQ 176
Query: 274 TLYWSATWPKEVEHLARQYLYNPYKVIIGSPDLKANHAIRQHVDIVSESQKYNKLVKLLE 333
+ SAT P E+ + +++ +P ++++ +L + V + E K++ L L
Sbjct: 177 VVLISATLPHEILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLY- 235
Query: 334 DIMDGSRILIFMDTKKGCDQITRQLRMDGWPALSIHGDKSQAERDWVLSEFKAGKSPIMT 393
D + ++ +IF +TK+ D +T ++R + S+HGD Q ER+ ++ EF++G S ++
Sbjct: 236 DTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLI 295
Query: 394 ATDVAARGLDVKDVKYVINYDFPGSLEDYVH 424
+TDV ARGLDV V +INYD P + E Y+H
Sbjct: 296 STDVWARGLDVPQVSLIINYDLPNNRELYIH 326
>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 = 197 bits (501), Expect = 1e-50, Method: Compositional matrix adjust.
Identities = 110/338 (32%), Positives = 186/338 (55%), Gaps = 13/338 (3%)
Query: 90 KPVKSFRDVGFPDYVMQEISKAGFFEPTPIQAQGWPMALKGRDLIGIAETGSGKTLAYLL 149
K V F D+ + +++ + GF EP+ IQ + ++G D++ A++G+GKT + +
Sbjct: 19 KVVYKFDDMELDENLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSI 78
Query: 150 PAIVHVNAQPFLAPGDGPIVLVLAPTRELAVQIQQESTKFGASSKIKSTCIYGG---VPK 206
A+ ++ P L+LAPTRELA+QIQ+ IK GG V
Sbjct: 79 AALQRIDTSV-----KAPQALMLAPTRELALQIQKVVMALAFHMDIKVHACIGGTSFVED 133
Query: 207 GPQVRDLQKGVEIVIATPGRLIDMLESHNTNLRRVTYLVLDEADRMLDMGFEPQIKKILS 266
+RD Q IV+ TPGR+ D ++ ++ +LDEAD ML GF+ QI +I +
Sbjct: 134 AEGLRDAQ----IVVGTPGRVFDNIQRRRFRTDKIKMFILDEADEMLSSGFKEQIYQIFT 189
Query: 267 QIRPDRQTLYWSATWPKEVEHLARQYLYNPYKVIIGSPDLKANHAIRQHVDIVSESQKYN 326
+ P Q + SAT P +V + +++ NP ++++ +L + +V++ E KY
Sbjct: 190 LLPPTTQVVLLSATMPNDVLEVTTKFMRNPVRILVKKDELTLEGIKQFYVNVEEEEYKYE 249
Query: 327 KLVKLLEDIMDGSRILIFMDTKKGCDQITRQLRMDGWPALSIHGDKSQAERDWVLSEFKA 386
L L + I ++ +IF +T++ +++T +LR D + +I+ D Q ERD ++ EF++
Sbjct: 250 CLTDLYDSI-SVTQAVIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTIMKEFRS 308
Query: 387 GKSPIMTATDVAARGLDVKDVKYVINYDFPGSLEDYVH 424
G S I+ +TD+ ARG+DV+ V VINYD P + E+Y+H
Sbjct: 309 GSSRILISTDLLARGIDVQQVSLVINYDLPANKENYIH 346
>pdb|3EIQ|A Chain A, Crystal Structure Of Pdcd4-eif4a
pdb|3EIQ|D Chain D, Crystal Structure Of Pdcd4-eif4a
Length = 414
Score = 192 bits (487), Expect = 5e-49, Method: Compositional matrix adjust.
Identities = 108/335 (32%), Positives = 183/335 (54%), Gaps = 9/335 (2%)
Query: 92 VKSFRDVGFPDYVMQEISKAGFFEPTPIQAQGWPMALKGRDLIGIAETGSGKTLAYLLPA 151
V SF D+ + +++ I GF +P+ IQ + +KG D+I A++G+GKT + +
Sbjct: 39 VDSFDDMNLSESLLRGIYAYGFEKPSAIQQRAILPCIKGYDVIAQAQSGTGKTATFAISI 98
Query: 152 IVHVNAQPFLAPGDGPIVLVLAPTRELAVQIQQESTKFGASSKIKSTCIYGGVPKGPQVR 211
+ + LVLAPTRELA QIQ+ G GG +V+
Sbjct: 99 LQQIELDL-----KATQALVLAPTRELAQQIQKVVMALGDYMGASCHACIGGTNVRAEVQ 153
Query: 212 DLQ-KGVEIVIATPGRLIDMLESHNTNLRRVTYLVLDEADRMLDMGFEPQIKKILSQIRP 270
LQ + I++ TPGR+ DML + + + VLDEAD ML GF+ QI I ++
Sbjct: 154 KLQMEAPHIIVGTPGRVFDMLNRRYLSPKYIKMFVLDEADEMLSRGFKDQIYDIFQKLNS 213
Query: 271 DRQTLYWSATWPKEVEHLARQYLYNPYKVIIGSPDLKANHAIRQ-HVDIVSESQKYNKLV 329
+ Q + SAT P +V + ++++ +P ++++ +L IRQ ++++ E K + L
Sbjct: 214 NTQVVLLSATMPSDVLEVTKKFMRDPIRILVKKEELTL-EGIRQFYINVEREEWKLDTLC 272
Query: 330 KLLEDIMDGSRILIFMDTKKGCDQITRQLRMDGWPALSIHGDKSQAERDWVLSEFKAGKS 389
L E + ++ +IF++T++ D +T ++ + ++HGD Q ERD ++ EF++G S
Sbjct: 273 DLYE-TLTITQAVIFINTRRKVDWLTEKMHARDFTVSAMHGDMDQKERDVIMREFRSGSS 331
Query: 390 PIMTATDVAARGLDVKDVKYVINYDFPGSLEDYVH 424
++ TD+ ARG+DV+ V VINYD P + E+Y+H
Sbjct: 332 RVLITTDLLARGIDVQQVSLVINYDLPTNRENYIH 366
>pdb|2ZU6|A Chain A, Crystal Structure Of The Eif4a-Pdcd4 Complex
pdb|2ZU6|C Chain C, Crystal Structure Of The Eif4a-Pdcd4 Complex
pdb|2ZU6|D Chain D, Crystal Structure Of The Eif4a-Pdcd4 Complex
pdb|2ZU6|F Chain F, Crystal Structure Of The Eif4a-Pdcd4 Complex
Length = 388
Score = 192 bits (487), Expect = 5e-49, Method: Compositional matrix adjust.
Identities = 109/335 (32%), Positives = 183/335 (54%), Gaps = 9/335 (2%)
Query: 92 VKSFRDVGFPDYVMQEISKAGFFEPTPIQAQGWPMALKGRDLIGIAETGSGKTLAYLLPA 151
V SF D+ + +++ I GF +P+ IQ + +KG D+I A++G+GKT + +
Sbjct: 13 VDSFDDMNLSESLLRGIYAYGFEKPSAIQQRAILPCIKGYDVIAQAQSGTGKTATFAISI 72
Query: 152 IVHVNAQPFLAPGDGPIVLVLAPTRELAVQIQQESTKFGASSKIKSTCIYGGVPKGPQVR 211
+ Q LVLAPTRELA QIQ+ G GG +V+
Sbjct: 73 L-----QQIELDLKATQALVLAPTRELAQQIQKVVMALGDYMGASCHACIGGTNVRAEVQ 127
Query: 212 DLQ-KGVEIVIATPGRLIDMLESHNTNLRRVTYLVLDEADRMLDMGFEPQIKKILSQIRP 270
LQ + I++ TPGR+ DML + + + VLDEAD ML GF+ QI I ++
Sbjct: 128 KLQMEAPHIIVGTPGRVFDMLNRRYLSPKYIKMFVLDEADEMLSRGFKDQIYDIFQKLNS 187
Query: 271 DRQTLYWSATWPKEVEHLARQYLYNPYKVIIGSPDLKANHAIRQ-HVDIVSESQKYNKLV 329
+ Q + SAT P +V + ++++ +P ++++ +L IRQ ++++ E K + L
Sbjct: 188 NTQVVLLSATMPSDVLEVTKKFMRDPIRILVKKEELTL-EGIRQFYINVEREEWKLDTLC 246
Query: 330 KLLEDIMDGSRILIFMDTKKGCDQITRQLRMDGWPALSIHGDKSQAERDWVLSEFKAGKS 389
L E + ++ +IF++T++ D +T ++ + ++HGD Q ERD ++ EF++G S
Sbjct: 247 DLYE-TLTITQAVIFINTRRKVDWLTEKMHARDFTVSAMHGDMDQKERDVIMREFRSGSS 305
Query: 390 PIMTATDVAARGLDVKDVKYVINYDFPGSLEDYVH 424
++ TD+ ARG+DV+ V VINYD P + E+Y+H
Sbjct: 306 RVLITTDLLARGIDVQQVSLVINYDLPTNRENYIH 340
>pdb|1FUU|A Chain A, Yeast Initiation Factor 4a
pdb|1FUU|B Chain B, Yeast Initiation Factor 4a
Length = 394
Score = 191 bits (484), Expect = 1e-48, Method: Compositional matrix adjust.
Identities = 109/338 (32%), Positives = 181/338 (53%), Gaps = 13/338 (3%)
Query: 90 KPVKSFRDVGFPDYVMQEISKAGFFEPTPIQAQGWPMALKGRDLIGIAETGSGKTLAYLL 149
K V F D + +++ + GF EP+ IQ + ++G D++ A++G+GKT + +
Sbjct: 18 KVVYKFDDXELDENLLRGVFGYGFEEPSAIQQRAIXPIIEGHDVLAQAQSGTGKTGTFSI 77
Query: 150 PAIVHVNAQPFLAPGDGPIVLVLAPTRELAVQIQQESTKFGASSKIKSTCIYGG---VPK 206
A+ ++ P L LAPTRELA+QIQ+ IK GG V
Sbjct: 78 AALQRIDTSV-----KAPQALXLAPTRELALQIQKVVXALAFHXDIKVHACIGGTSFVED 132
Query: 207 GPQVRDLQKGVEIVIATPGRLIDMLESHNTNLRRVTYLVLDEADRMLDMGFEPQIKKILS 266
+RD Q IV+ TPGR+ D ++ ++ +LDEAD L GF+ QI +I +
Sbjct: 133 AEGLRDAQ----IVVGTPGRVFDNIQRRRFRTDKIKXFILDEADEXLSSGFKEQIYQIFT 188
Query: 267 QIRPDRQTLYWSATWPKEVEHLARQYLYNPYKVIIGSPDLKANHAIRQHVDIVSESQKYN 326
+ P Q + SAT P +V + ++ NP ++++ +L + +V++ E KY
Sbjct: 189 LLPPTTQVVLLSATXPNDVLEVTTKFXRNPVRILVKKDELTLEGIKQFYVNVEEEEYKYE 248
Query: 327 KLVKLLEDIMDGSRILIFMDTKKGCDQITRQLRMDGWPALSIHGDKSQAERDWVLSEFKA 386
L L D + ++ +IF +T++ +++T +LR D + +I+ D Q ERD + EF++
Sbjct: 249 CLTDLY-DSISVTQAVIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTIXKEFRS 307
Query: 387 GKSPIMTATDVAARGLDVKDVKYVINYDFPGSLEDYVH 424
G S I+ +TD+ ARG+DV+ V VINYD P + E+Y+H
Sbjct: 308 GSSRILISTDLLARGIDVQQVSLVINYDLPANKENYIH 345
>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 = 189 bits (480), Expect = 3e-48, Method: Compositional matrix adjust.
Identities = 94/219 (42%), Positives = 138/219 (63%), Gaps = 8/219 (3%)
Query: 92 VKSFRDVGFPDYVMQEISKAGFFEPTPIQAQGWPMALKGRDLIGIAETGSGKTLAYLLPA 151
+++F ++ + I A + PTPIQ P L+ RD++ A+TGSGKT A+L+P
Sbjct: 22 IENFDELKLDPTIRNNILLASYQRPTPIQKNAIPAILEHRDIMACAQTGSGKTAAFLIPI 81
Query: 152 IVHVNAQPF----LAPGDGPIVLVLAPTRELAVQIQQESTKFGASSKIKSTCIYGGVPKG 207
I H+ Q + P L+LAPTRELA+QI ES KF ++ ++S +YGG
Sbjct: 82 INHLVCQDLNQQRYSKTAYPKCLILAPTRELAIQILSESQKFSLNTPLRSCVVYGGADTH 141
Query: 208 PQVRDLQKGVEIVIATPGRLIDMLESHNTNLRRVTYLVLDEADRMLDMGFEPQIKKILSQ 267
Q+R++Q G +++ATPGRL+D +E + +L Y+VLDEADRMLDMGFEPQI+KI+ +
Sbjct: 142 SQIREVQMGCHLLVATPGRLVDFIEKNKISLEFCKYIVLDEADRMLDMGFEPQIRKIIEE 201
Query: 268 IRP----DRQTLYWSATWPKEVEHLARQYLYNPYKVIIG 302
+RQTL +SAT+PKE++ LA +LYN + +G
Sbjct: 202 SNMPSGINRQTLMFSATFPKEIQKLAADFLYNYIFMTVG 240
>pdb|1S2M|A Chain A, Crystal Structure Of The Dead Box Protein Dhh1p
Length = 400
Score = 185 bits (470), Expect = 4e-47, Method: Compositional matrix adjust.
Identities = 106/333 (31%), Positives = 176/333 (52%), Gaps = 10/333 (3%)
Query: 93 KSFRDVGFPDYVMQEISKAGFFEPTPIQAQGWPMALKGRDLIGIAETGSGKTLAYLLPAI 152
+F D ++ I +AGF +P+PIQ + P+A+ GRD++ A+ G+GKT A+++P +
Sbjct: 21 NTFEDFYLKRELLMGIFEAGFEKPSPIQEEAIPVAITGRDILARAKNGTGKTAAFVIPTL 80
Query: 153 VHVNAQPFLAPGDGPIVLVLAPTRELAVQIQQESTKFGASSKIKSTCIYGGVPKGPQVRD 212
V +P L L++ PTRELA+Q Q G I GG +
Sbjct: 81 EKV--KPKLNKIQA---LIMVPTRELALQTSQVVRTLGKHCGISCMVTTGGTNLRDDILR 135
Query: 213 LQKGVEIVIATPGRLIDMLESHNTNLRRVTYLVLDEADRMLDMGFEPQIKKILSQIRPDR 272
L + V I++ TPGR++D+ +L + ++DEAD+ML F+ I++ILS + P
Sbjct: 136 LNETVHILVGTPGRVLDLASRKVADLSDCSLFIMDEADKMLSRDFKTIIEQILSFLPPTH 195
Query: 273 QTLYWSATWPKEVEHLARQYLYNPYKV-IIGSPDLKANHAIRQHVDIVSESQKYNKLVKL 331
Q+L +SAT+P V+ ++L+ PY++ ++ LK I Q+ V E QK + L L
Sbjct: 196 QSLLFSATFPLTVKEFMVKHLHKPYEINLMEELTLK---GITQYYAFVEERQKLHCLNTL 252
Query: 332 LEDIMDGSRILIFMDTKKGCDQITRQLRMDGWPALSIHGDKSQAERDWVLSEFKAGKSPI 391
+ I IF ++ + + +++ G+ H Q ER+ V EF+ GK
Sbjct: 253 FSKLQINQAI-IFCNSTNRVELLAKKITDLGYSCYYSHARMKQQERNKVFHEFRQGKVRT 311
Query: 392 MTATDVAARGLDVKDVKYVINYDFPGSLEDYVH 424
+ +D+ RG+D++ V VIN+DFP + E Y+H
Sbjct: 312 LVCSDLLTRGIDIQAVNVVINFDFPKTAETYLH 344
>pdb|3BER|A Chain A, Human Dead-Box Rna-Helicase Ddx47, Conserved Domain I In
Complex With Amp
Length = 249
Score = 175 bits (443), Expect = 6e-44, Method: Compositional matrix adjust.
Identities = 98/212 (46%), Positives = 132/212 (62%), Gaps = 6/212 (2%)
Query: 93 KSFRDVGFPDYVMQEISKAGFFEPTPIQAQGWPMALKGRDLIGIAETGSGKTLAYLLPAI 152
K+F+D+G D + + + G+ +PT IQ + P+AL+GRD+IG+AETGSGKT A+ LP +
Sbjct: 43 KTFKDLGVTDVLCEACDQLGWTKPTKIQIEAIPLALQGRDIIGLAETGSGKTGAFALPIL 102
Query: 153 VHVNAQPFLAPGDGPIVLVLAPTRELAVQIQQESTKFGASSKIKSTCIYGGVPKGPQVRD 212
NA L LVL PTRELA QI ++ G+S ++S I GG+ Q
Sbjct: 103 ---NA--LLETPQRLFALVLTPTRELAFQISEQFEALGSSIGVQSAVIVGGIDSMSQSLA 157
Query: 213 LQKGVEIVIATPGRLIDMLE-SHNTNLRRVTYLVLDEADRMLDMGFEPQIKKILSQIRPD 271
L K I+IATPGRLID LE + NLR + YLV+DEADR+L+M FE ++ KIL I D
Sbjct: 158 LAKKPHIIIATPGRLIDHLENTKGFNLRALKYLVMDEADRILNMDFETEVDKILKVIPRD 217
Query: 272 RQTLYWSATWPKEVEHLARQYLYNPYKVIIGS 303
R+T +SAT K+V+ L R L NP K + S
Sbjct: 218 RKTFLFSATMTKKVQKLQRAALKNPVKCAVSS 249
>pdb|1XTK|A Chain A, Structure Of Decd To Dead Mutation Of Human Uap56
Length = 390
Score = 169 bits (429), Expect = 3e-42, Method: Compositional matrix adjust.
Identities = 97/340 (28%), Positives = 181/340 (53%), Gaps = 11/340 (3%)
Query: 89 PKPVKSFRDVGFPDYVMQEISKAGFFEPTPIQAQGWPMALKGRDLIGIAETGSGKTLAYL 148
P + FRD +++ I GF P+ +Q + P A+ G D++ A++G GKT ++
Sbjct: 3 PGHMSGFRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFV 62
Query: 149 LPAIVHVNAQPFLAPGDGPI-VLVLAPTRELAVQIQQESTKFGASS-KIKSTCIYGGVPK 206
L + L P G + VLV+ TRELA QI +E +F +K +GG+
Sbjct: 63 LATLQQ------LEPVTGQVSVLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSI 116
Query: 207 GPQVRDLQKGV-EIVIATPGRLIDMLESHNTNLRRVTYLVLDEADRMLD-MGFEPQIKKI 264
L+K IV+ TPGR++ + + + NL+ + + +LDEAD+ML+ + +++I
Sbjct: 117 KKDEEVLKKNCPHIVVGTPGRILALARNKSLNLKHIKHFILDEADKMLEQLDMRRDVQEI 176
Query: 265 LSQIRPDRQTLYWSATWPKEVEHLARQYLYNPYKVIIGSPDLKANHAIRQHVDIVSESQK 324
++Q + +SAT KE+ + R+++ +P ++ + H ++Q+ + +++K
Sbjct: 177 FRMTPHEKQVMMFSATLSKEIRPVCRKFMQDPMEIFVDDETKLTLHGLQQYYVKLKDNEK 236
Query: 325 YNKLVKLLEDIMDGSRILIFMDTKKGCDQITRQLRMDGWPALSIHGDKSQAERDWVLSEF 384
KL LL D+++ ++++IF+ + + C + + L +PA++IH Q ER +F
Sbjct: 237 NRKLFDLL-DVLEFNQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQF 295
Query: 385 KAGKSPIMTATDVAARGLDVKDVKYVINYDFPGSLEDYVH 424
K + I+ AT++ RG+D++ V NYD P + Y+H
Sbjct: 296 KDFQRRILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLH 335
>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 = 95/334 (28%), Positives = 178/334 (53%), Gaps = 11/334 (3%)
Query: 95 FRDVGFPDYVMQEISKAGFFEPTPIQAQGWPMALKGRDLIGIAETGSGKTLAYLLPAIVH 154
FRD +++ I GF P+ +Q + P A+ G D++ A++G GKT ++L +
Sbjct: 10 FRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQ 69
Query: 155 VNAQPFLAPGDGPI-VLVLAPTRELAVQIQQESTKFGASS-KIKSTCIYGGVPKGPQVRD 212
L P G + VLV+ TRELA QI +E +F +K +GG+
Sbjct: 70 ------LEPVTGQVSVLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEV 123
Query: 213 LQKGV-EIVIATPGRLIDMLESHNTNLRRVTYLVLDEADRMLD-MGFEPQIKKILSQIRP 270
L+K IV+ TPGR++ + + + NL+ + + +LDE D+ML+ + +++I
Sbjct: 124 LKKNCPHIVVGTPGRILALARNKSLNLKHIKHFILDECDKMLEQLDMRRDVQEIFRMTPH 183
Query: 271 DRQTLYWSATWPKEVEHLARQYLYNPYKVIIGSPDLKANHAIRQHVDIVSESQKYNKLVK 330
++Q + +SAT KE+ + R+++ +P ++ + H ++Q+ + +++K KL
Sbjct: 184 EKQVMMFSATLSKEIRPVCRKFMQDPMEIFVDDETKLTLHGLQQYYVKLKDNEKNRKLFD 243
Query: 331 LLEDIMDGSRILIFMDTKKGCDQITRQLRMDGWPALSIHGDKSQAERDWVLSEFKAGKSP 390
LL D+++ ++++IF+ + + C + + L +PA++IH Q ER +FK +
Sbjct: 244 LL-DVLEFNQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRR 302
Query: 391 IMTATDVAARGLDVKDVKYVINYDFPGSLEDYVH 424
I+ AT++ RG+D++ V NYD P + Y+H
Sbjct: 303 ILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLH 336
>pdb|1XTI|A Chain A, Structure Of Wildtype Human Uap56
Length = 391
Score = 167 bits (422), Expect = 1e-41, Method: Compositional matrix adjust.
Identities = 95/334 (28%), Positives = 178/334 (53%), Gaps = 11/334 (3%)
Query: 95 FRDVGFPDYVMQEISKAGFFEPTPIQAQGWPMALKGRDLIGIAETGSGKTLAYLLPAIVH 154
FRD +++ I GF P+ +Q + P A+ G D++ A++G GKT ++L +
Sbjct: 10 FRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQ 69
Query: 155 VNAQPFLAPGDGPI-VLVLAPTRELAVQIQQESTKFGASS-KIKSTCIYGGVPKGPQVRD 212
L P G + VLV+ TRELA QI +E +F +K +GG+
Sbjct: 70 ------LEPVTGQVSVLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEV 123
Query: 213 LQKGV-EIVIATPGRLIDMLESHNTNLRRVTYLVLDEADRMLD-MGFEPQIKKILSQIRP 270
L+K IV+ TPGR++ + + + NL+ + + +LDE D+ML+ + +++I
Sbjct: 124 LKKNCPHIVVGTPGRILALARNKSLNLKHIKHFILDECDKMLEQLDMRRDVQEIFRMTPH 183
Query: 271 DRQTLYWSATWPKEVEHLARQYLYNPYKVIIGSPDLKANHAIRQHVDIVSESQKYNKLVK 330
++Q + +SAT KE+ + R+++ +P ++ + H ++Q+ + +++K KL
Sbjct: 184 EKQVMMFSATLSKEIRPVCRKFMQDPMEIFVDDETKLTLHGLQQYYVKLKDNEKNRKLFD 243
Query: 331 LLEDIMDGSRILIFMDTKKGCDQITRQLRMDGWPALSIHGDKSQAERDWVLSEFKAGKSP 390
LL D+++ ++++IF+ + + C + + L +PA++IH Q ER +FK +
Sbjct: 244 LL-DVLEFNQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRR 302
Query: 391 IMTATDVAARGLDVKDVKYVINYDFPGSLEDYVH 424
I+ AT++ RG+D++ V NYD P + Y+H
Sbjct: 303 ILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLH 336
>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 = 162 bits (409), Expect = 5e-40, Method: Compositional matrix adjust.
Identities = 89/202 (44%), Positives = 118/202 (58%), Gaps = 4/202 (1%)
Query: 95 FRDVGFPDYVMQEISKAGFFEPTPIQAQGWPMALKGRDLIGIAETGSGKTLAYLLPAIVH 154
F+D +++ + G PTPIQA P+AL+G+DLIG A TG+GKTLA+ LP +
Sbjct: 3 FKDFPLKPEILEALHGRGLTTPTPIQAAALPLALEGKDLIGQARTGTGKTLAFALP--IA 60
Query: 155 VNAQPFLAPGDGPIVLVLAPTRELAVQIQQESTKFGASSKIKSTCIYGGVPKGPQVRDLQ 214
P G P LVL PTRELA+Q+ E T + +K +YGG G Q L
Sbjct: 61 ERLAPSQERGRKPRALVLTPTRELALQVASELT--AVAPHLKVVAVYGGTGYGKQKEALL 118
Query: 215 KGVEIVIATPGRLIDMLESHNTNLRRVTYLVLDEADRMLDMGFEPQIKKILSQIRPDRQT 274
+G + V+ATPGR +D L +L RV VLDEAD ML MGFE +++ +LS P RQT
Sbjct: 119 RGADAVVATPGRALDYLRQGVLDLSRVEVAVLDEADEMLSMGFEEEVEALLSATPPSRQT 178
Query: 275 LYWSATWPKEVEHLARQYLYNP 296
L +SAT P + LA +Y+ NP
Sbjct: 179 LLFSATLPSWAKRLAERYMKNP 200
>pdb|3FHO|A Chain A, Structure Of S. Pombe Dbp5
pdb|3FHO|B Chain B, Structure Of S. Pombe Dbp5
Length = 508
Score = 161 bits (407), Expect = 8e-40, Method: Compositional matrix adjust.
Identities = 101/302 (33%), Positives = 163/302 (53%), Gaps = 15/302 (4%)
Query: 119 IQAQGWPMALKG--RDLIGIAETGSGKTLAYLLPAIVHVNAQPFLAPGDGPIVLVLAPTR 176
IQ + P+ L R++IG +++G+GKT A+ L + V+A P P + LAP+R
Sbjct: 145 IQEKALPLLLSNPPRNMIGQSQSGTGKTAAFALTMLSRVDAS---VPK--PQAICLAPSR 199
Query: 177 ELAVQIQQESTKFGASSKIKSTC-IYGGVPKGPQVRDLQKGVEIVIATPGRLIDMLESHN 235
ELA QI T+ G +++K+ I VPKG ++ +IVI TPG ++D+++
Sbjct: 200 ELARQIMDVVTEMGKYTEVKTAFGIKDSVPKGAKI-----DAQIVIGTPGTVMDLMKRRQ 254
Query: 236 TNLRRVTYLVLDEADRMLDM-GFEPQIKKILSQIRPDRQTLYWSATWPKEVEHLARQYLY 294
+ R + VLDEAD MLD G Q +I + + Q + +SAT+ + VE A ++
Sbjct: 255 LDARDIKVFVLDEADNMLDQQGLGDQSMRIKHLLPRNTQIVLFSATFSERVEKYAERFAP 314
Query: 295 NPYKVIIGSPDLKANHAIRQHVDIVSESQKYNKLVKLLEDIMDGSRILIFMDTKKGCDQI 354
N ++ + + +L + ++D SE KYN LV+L + G I IF K ++I
Sbjct: 315 NANEIRLKTEELSVEGIKQLYMDCQSEEHKYNVLVELYGLLTIGQSI-IFCKKKDTAEEI 373
Query: 355 TRQLRMDGWPALSIHGDKSQAERDWVLSEFKAGKSPIMTATDVAARGLDVKDVKYVINYD 414
R++ DG + G+ A+RD ++ F+ G S ++ T+V ARG+DV V V+NYD
Sbjct: 374 ARRMTADGHTVACLTGNLEGAQRDAIMDSFRVGTSKVLVTTNVIARGIDVSQVNLVVNYD 433
Query: 415 FP 416
P
Sbjct: 434 MP 435
>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 = 160 bits (405), Expect = 2e-39, Method: Compositional matrix adjust.
Identities = 88/202 (43%), Positives = 118/202 (58%), Gaps = 4/202 (1%)
Query: 95 FRDVGFPDYVMQEISKAGFFEPTPIQAQGWPMALKGRDLIGIAETGSGKTLAYLLPAIVH 154
F+D +++ + G PTPI+A P+AL+G+DLIG A TG+GKTLA+ LP +
Sbjct: 3 FKDFPLKPEILEALHGRGLTTPTPIEAAALPLALEGKDLIGQARTGTGKTLAFALP--IA 60
Query: 155 VNAQPFLAPGDGPIVLVLAPTRELAVQIQQESTKFGASSKIKSTCIYGGVPKGPQVRDLQ 214
P G P LVL PTRELA+Q+ E T + +K +YGG G Q L
Sbjct: 61 ERLAPSQERGRKPRALVLTPTRELALQVASELT--AVAPHLKVVAVYGGTGYGKQKEALL 118
Query: 215 KGVEIVIATPGRLIDMLESHNTNLRRVTYLVLDEADRMLDMGFEPQIKKILSQIRPDRQT 274
+G + V+ATPGR +D L +L RV VLDEAD ML MGFE +++ +LS P RQT
Sbjct: 119 RGADAVVATPGRALDYLRQGVLDLSRVEVAVLDEADEMLSMGFEEEVEALLSATPPSRQT 178
Query: 275 LYWSATWPKEVEHLARQYLYNP 296
L +SAT P + LA +Y+ NP
Sbjct: 179 LLFSATLPSWAKRLAERYMKNP 200
>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 = 159 bits (401), Expect = 5e-39, Method: Compositional matrix adjust.
Identities = 100/328 (30%), Positives = 178/328 (54%), Gaps = 15/328 (4%)
Query: 93 KSFRDVGFPDYVMQEISKAGFFEPTPIQAQGWPMALKG--RDLIGIAETGSGKTLAYLLP 150
KSF ++G +++ I F +P+ IQ + P+ L R++I +++G+GKT A+ L
Sbjct: 5 KSFDELGLAPELLKGIYAMKFQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAAFSLT 64
Query: 151 AIVHVNAQPFLAPGDG-PIVLVLAPTRELAVQIQQESTKFGASSKIKSTCIYGGVPKGPQ 209
+ VN P D P + LAP+RELA Q + + G +KI S I VP +
Sbjct: 65 MLTRVN------PEDASPQAICLAPSRELARQTLEVVQEMGKFTKITSQLI---VPDSFE 115
Query: 210 VRDLQKGVEIVIATPGRLIDMLESHNTNLRRVTYLVLDEADRMLDM-GFEPQIKKILSQI 268
++ Q ++++ TPG ++D++ L+++ VLDEAD MLD G Q ++ +
Sbjct: 116 -KNKQINAQVIVGTPGTVLDLMRRKLMQLQKIKIFVLDEADNMLDQQGLGDQCIRVKRFL 174
Query: 269 RPDRQTLYWSATWPKEVEHLARQYLYNPYKVIIGSPDLKANHAIRQHVDIVSESQKYNKL 328
D Q + +SAT+ V A++ + N + + + ++ + + ++D +E+ K++ L
Sbjct: 175 PKDTQLVLFSATFADAVRQYAKKIVPNANTLELQTNEVNVDAIKQLYMDCKNEADKFDVL 234
Query: 329 VKLLEDIMDGSRILIFMDTKKGCDQITRQLRMDGWPALSIHGDKSQAERDWVLSEFKAGK 388
+L + GS I IF+ TKK + + +L+ +G +HGD ERD ++ +F+ G+
Sbjct: 235 TELYGVMTIGSSI-IFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDDFREGR 293
Query: 389 SPIMTATDVAARGLDVKDVKYVINYDFP 416
S ++ T+V ARG+D+ V V+NYD P
Sbjct: 294 SKVLITTNVLARGIDIPTVSMVVNYDLP 321
>pdb|3PEY|A Chain A, S. Cerevisiae Dbp5 Bound To Rna And Adp Bef3
Length = 395
Score = 159 bits (401), Expect = 5e-39, Method: Compositional matrix adjust.
Identities = 100/328 (30%), Positives = 178/328 (54%), Gaps = 15/328 (4%)
Query: 93 KSFRDVGFPDYVMQEISKAGFFEPTPIQAQGWPMALKG--RDLIGIAETGSGKTLAYLLP 150
KSF ++G +++ I F +P+ IQ + P+ L R++I +++G+GKT A+ L
Sbjct: 5 KSFDELGLAPELLKGIYAMKFQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAAFSLT 64
Query: 151 AIVHVNAQPFLAPGDG-PIVLVLAPTRELAVQIQQESTKFGASSKIKSTCIYGGVPKGPQ 209
+ VN P D P + LAP+RELA Q + + G +KI S I VP +
Sbjct: 65 MLTRVN------PEDASPQAICLAPSRELARQTLEVVQEMGKFTKITSQLI---VPDSFE 115
Query: 210 VRDLQKGVEIVIATPGRLIDMLESHNTNLRRVTYLVLDEADRMLDM-GFEPQIKKILSQI 268
++ Q ++++ TPG ++D++ L+++ VLDEAD MLD G Q ++ +
Sbjct: 116 -KNKQINAQVIVGTPGTVLDLMRRKLMQLQKIKIFVLDEADNMLDQQGLGDQCIRVKRFL 174
Query: 269 RPDRQTLYWSATWPKEVEHLARQYLYNPYKVIIGSPDLKANHAIRQHVDIVSESQKYNKL 328
D Q + +SAT+ V A++ + N + + + ++ + + ++D +E+ K++ L
Sbjct: 175 PKDTQLVLFSATFADAVRQYAKKIVPNANTLELQTNEVNVDAIKQLYMDCKNEADKFDVL 234
Query: 329 VKLLEDIMDGSRILIFMDTKKGCDQITRQLRMDGWPALSIHGDKSQAERDWVLSEFKAGK 388
+L + GS I IF+ TKK + + +L+ +G +HGD ERD ++ +F+ G+
Sbjct: 235 TELYGLMTIGSSI-IFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDDFREGR 293
Query: 389 SPIMTATDVAARGLDVKDVKYVINYDFP 416
S ++ T+V ARG+D+ V V+NYD P
Sbjct: 294 SKVLITTNVLARGIDIPTVSMVVNYDLP 321
>pdb|2Z0M|A Chain A, Crystal Structure Of Hypothetical Atp-Dependent Rna
Helicase From Sulfolobus Tokodaii
Length = 337
Score = 150 bits (380), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 99/323 (30%), Positives = 170/323 (52%), Gaps = 27/323 (8%)
Query: 104 VMQEISKAGFFEPTPIQAQGWPMALKGRDLIGIAETGSGKTLAYLLPAIVHVNAQPFLAP 163
+ Q I + GF T +Q++ P+ L+G++++ A+TGSGKT AY +P I+ + +
Sbjct: 5 IEQAIREMGFKNFTEVQSKTIPLMLQGKNVVVRAKTGSGKTAAYAIP-ILELGMKS---- 59
Query: 164 GDGPIVLVLAPTRELAVQIQQESTKFGASSKIKSTCIYGGVPKGPQVRDLQKGVEIVIAT 223
LV+ PTREL Q+ G K +YGG+P Q+ + + +IV+AT
Sbjct: 60 ------LVVTPTRELTRQVASHIRDIGRYMDTKVAEVYGGMPYKAQINRV-RNADIVVAT 112
Query: 224 PGRLIDMLESHNTNLRRVTYLVLDEADRMLDMGFEPQIKKILSQIRPDRQTLYWSATWPK 283
PGRL+D+ +L +++DEAD M +MGF IK IL+Q + T +SAT P+
Sbjct: 113 PGRLLDLWSKGVIDLSSFEIVIIDEADLMFEMGFIDDIKIILAQTSNRKITGLFSATIPE 172
Query: 284 EVEHLARQYL--YNPYKVIIGSPDLKANHAIRQHVDIVSESQKYNKLVKLLEDIMDGSRI 341
E+ + + ++ Y + IG ++ +H + + +K+ L E+ G +
Sbjct: 173 EIRKVVKDFITNYEEIEACIGLANV-------EHKFVHVKDDWRSKVQALRENKDKG--V 223
Query: 342 LIFMDTKKGCDQITRQLRMDGWPALSIHGDKSQAERDWVLSEFKAGKSPIMTATDVAARG 401
++F+ T+ ++ R A+ + GD Q+ R+ + F+ G+ ++ TDVA+RG
Sbjct: 224 IVFVRTRNRVAKLVRLFD----NAIELRGDLPQSVRNRNIDAFREGEYDMLITTDVASRG 279
Query: 402 LDVKDVKYVINYDFPGSLEDYVH 424
LD+ V+ VIN+D P L Y+H
Sbjct: 280 LDIPLVEKVINFDAPQDLRTYIH 302
>pdb|3SQW|A Chain A, Structure Of Mss116p (Nte Deletion) Bound To Ssrna And
Amp-Pnp
Length = 579
Score = 134 bits (337), Expect = 1e-31, Method: Compositional matrix adjust.
Identities = 111/351 (31%), Positives = 174/351 (49%), Gaps = 35/351 (9%)
Query: 104 VMQEISKAGFFEPTPIQAQGWP--MALKGRDLIGIAETGSGKTLAYLLPAIVHVNAQPFL 161
+ + I++ F TP+Q + ++ + D+I A+TG+GKT A+L+P H+ F
Sbjct: 32 IHKAITRMEFPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIFQHLINTKFD 91
Query: 162 APGDGPIVLVLAPTRELAVQIQQESTKFGASS----KIKSTCIYGGVPKGPQVRDLQK-G 216
+ V+V APTR+LA+QI+ E K + K + GG + + K
Sbjct: 92 SQYMVKAVIV-APTRDLALQIEAEVKKIHDMNYGLKKYACVSLVGGTDFRAAMNKMNKLR 150
Query: 217 VEIVIATPGRLIDMLESH-NTNLRRVTYLVLDEADRMLDMGFEPQIKKIL-------SQI 268
IVIATPGRLID+LE + N R V Y VLDEADR+L++GF ++ I S+
Sbjct: 151 PNIVIATPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLEIGFRDDLETISGILNEKNSKS 210
Query: 269 RPDRQTLYWSATWPKEVEHLARQYLYNPYKVIIGSPDL---KANHAIRQHVDIVSESQKY 325
+ +TL +SAT +V+ LA + + + + D +A+ I Q V I S+K+
Sbjct: 211 ADNIKTLLFSATLDDKVQKLANNIMNKKECLFLDTVDKNEPEAHERIDQSVVI---SEKF 267
Query: 326 -NKLVKLLEDIM-------DGSRILIFMDTKKG----CDQITRQLRMDGWPALSIHGDKS 373
N + +E I + +IF T K C + + + D P L HG +
Sbjct: 268 ANSIFAAVEHIKKQIKERDSNYKAIIFAPTVKFTSFLCSILKNEFKKD-LPILEFHGKIT 326
Query: 374 QAERDWVLSEFKAGKSPIMTATDVAARGLDVKDVKYVINYDFPGSLEDYVH 424
Q +R ++ FK +S I+ TDV ARG+D +V V+ P L +Y+H
Sbjct: 327 QNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIH 377
>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 = 134 bits (337), Expect = 1e-31, Method: Compositional matrix adjust.
Identities = 111/351 (31%), Positives = 174/351 (49%), Gaps = 35/351 (9%)
Query: 104 VMQEISKAGFFEPTPIQAQGWP--MALKGRDLIGIAETGSGKTLAYLLPAIVHVNAQPFL 161
+ + I++ F TP+Q + ++ + D+I A+TG+GKT A+L+P H+ F
Sbjct: 83 IHKAITRMEFPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIFQHLINTKFD 142
Query: 162 APGDGPIVLVLAPTRELAVQIQQESTKFGASS----KIKSTCIYGGVPKGPQVRDLQK-G 216
+ V+V APTR+LA+QI+ E K + K + GG + + K
Sbjct: 143 SQYMVKAVIV-APTRDLALQIEAEVKKIHDMNYGLKKYACVSLVGGTDFRAAMNKMNKLR 201
Query: 217 VEIVIATPGRLIDMLESH-NTNLRRVTYLVLDEADRMLDMGFEPQIKKIL-------SQI 268
IVIATPGRLID+LE + N R V Y VLDEADR+L++GF ++ I S+
Sbjct: 202 PNIVIATPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLEIGFRDDLETISGILNEKNSKS 261
Query: 269 RPDRQTLYWSATWPKEVEHLARQYLYNPYKVIIGSPDL---KANHAIRQHVDIVSESQKY 325
+ +TL +SAT +V+ LA + + + + D +A+ I Q V I S+K+
Sbjct: 262 ADNIKTLLFSATLDDKVQKLANNIMNKKECLFLDTVDKNEPEAHERIDQSVVI---SEKF 318
Query: 326 -NKLVKLLEDIM-------DGSRILIFMDTKKG----CDQITRQLRMDGWPALSIHGDKS 373
N + +E I + +IF T K C + + + D P L HG +
Sbjct: 319 ANSIFAAVEHIKKQIKERDSNYKAIIFAPTVKFTSFLCSILKNEFKKD-LPILEFHGKIT 377
Query: 374 QAERDWVLSEFKAGKSPIMTATDVAARGLDVKDVKYVINYDFPGSLEDYVH 424
Q +R ++ FK +S I+ TDV ARG+D +V V+ P L +Y+H
Sbjct: 378 QNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIH 428
>pdb|3SQX|A Chain A, Structure Of Mss116p (Nte And C-Tail Double Deletion)
Bound To Ssrna And Amp-Pnp
Length = 512
Score = 134 bits (337), Expect = 1e-31, Method: Compositional matrix adjust.
Identities = 111/351 (31%), Positives = 174/351 (49%), Gaps = 35/351 (9%)
Query: 104 VMQEISKAGFFEPTPIQAQGWP--MALKGRDLIGIAETGSGKTLAYLLPAIVHVNAQPFL 161
+ + I++ F TP+Q + ++ + D+I A+TG+GKT A+L+P H+ F
Sbjct: 32 IHKAITRMEFPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIFQHLINTKFD 91
Query: 162 APGDGPIVLVLAPTRELAVQIQQESTKFGASS----KIKSTCIYGGVPKGPQVRDLQK-G 216
+ V+V APTR+LA+QI+ E K + K + GG + + K
Sbjct: 92 SQYMVKAVIV-APTRDLALQIEAEVKKIHDMNYGLKKYACVSLVGGTDFRAAMNKMNKLR 150
Query: 217 VEIVIATPGRLIDMLESH-NTNLRRVTYLVLDEADRMLDMGFEPQIKKIL-------SQI 268
IVIATPGRLID+LE + N R V Y VLDEADR+L++GF ++ I S+
Sbjct: 151 PNIVIATPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLEIGFRDDLETISGILNEKNSKS 210
Query: 269 RPDRQTLYWSATWPKEVEHLARQYLYNPYKVIIGSPDL---KANHAIRQHVDIVSESQKY 325
+ +TL +SAT +V+ LA + + + + D +A+ I Q V I S+K+
Sbjct: 211 ADNIKTLLFSATLDDKVQKLANNIMNKKECLFLDTVDKNEPEAHERIDQSVVI---SEKF 267
Query: 326 -NKLVKLLEDIM-------DGSRILIFMDTKKG----CDQITRQLRMDGWPALSIHGDKS 373
N + +E I + +IF T K C + + + D P L HG +
Sbjct: 268 ANSIFAAVEHIKKQIKERDSNYKAIIFAPTVKFTSFLCSILKNEFKKD-LPILEFHGKIT 326
Query: 374 QAERDWVLSEFKAGKSPIMTATDVAARGLDVKDVKYVINYDFPGSLEDYVH 424
Q +R ++ FK +S I+ TDV ARG+D +V V+ P L +Y+H
Sbjct: 327 QNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIH 377
>pdb|3LY5|A Chain A, Ddx18 Dead-Domain
pdb|3LY5|B Chain B, Ddx18 Dead-Domain
Length = 262
Score = 132 bits (333), Expect = 3e-31, Method: Compositional matrix adjust.
Identities = 79/211 (37%), Positives = 125/211 (59%), Gaps = 21/211 (9%)
Query: 94 SFRDVGFP-------DYVMQEISKAGFFEPTPIQAQGWPMALKGRDLIGIAETGSGKTLA 146
+F D F + ++ I + GF T IQ + L+GRDL+ A+TGSGKTLA
Sbjct: 48 AFEDTSFASLCNLVNENTLKAIKEMGFTNMTEIQHKSIRPLLEGRDLLAAAKTGSGKTLA 107
Query: 147 YLLPAIVHVNAQPFLAPGDGPIVLVLAPTRELAVQIQQESTKFGASSKIKST------CI 200
+L+PA+ + F+ P +G VL+L+PTRELA+Q FG ++ + I
Sbjct: 108 FLIPAVELIVKLRFM-PRNGTGVLILSPTRELAMQ------TFGVLKELMTHHVHTYGLI 160
Query: 201 YGGVPKGPQVRDLQKGVEIVIATPGRLIDMLESHNTNL-RRVTYLVLDEADRMLDMGFEP 259
GG + + + L G+ I++ATPGRL+D +++ + + + LV+DEADR+LD+GFE
Sbjct: 161 MGGSNRSAEAQKLGNGINIIVATPGRLLDHMQNTPGFMYKNLQCLVIDEADRILDVGFEE 220
Query: 260 QIKKILSQIRPDRQTLYWSATWPKEVEHLAR 290
++K+I+ + RQT+ +SAT ++VE LAR
Sbjct: 221 ELKQIIKLLPTRRQTMLFSATQTRKVEDLAR 251
>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 = 123 bits (309), Expect = 2e-28, Method: Compositional matrix adjust.
Identities = 67/161 (41%), Positives = 92/161 (57%)
Query: 312 IRQHVDIVSESQKYNKLVKLLEDIMDGSRILIFMDTKKGCDQITRQLRMDGWPALSIHGD 371
I Q V V ES K + L+ LL S L+F++TKKG D + L +G+ SIHGD
Sbjct: 20 ITQKVVWVEESDKRSFLLDLLNATGKDSLTLVFVETKKGADSLEDFLYHEGYACTSIHGD 79
Query: 372 KSQAERDWVLSEFKAGKSPIMTATDVAARGLDVKDVKYVINYDFPGSLEDYVHXXXXXXX 431
+SQ +R+ L +F++GKSPI+ AT VAARGLD+ +VK+VIN+D P +E+YVH
Sbjct: 80 RSQRDREEALHQFRSGKSPILVATAVAARGLDISNVKHVINFDLPSDIEEYVHRIGRTGR 139
Query: 432 XXXXXXXXXFFTAANARFAKELITILEEAGQKVSPELAAMG 472
FF N K+L+ +L EA Q+V L M
Sbjct: 140 VGNLGLATSFFNERNINITKDLLDLLVEAKQEVPSWLENMA 180
>pdb|2PL3|A Chain A, Human Dead-Box Rna Helicase Ddx10, Dead Domain In Complex
With Adp
Length = 236
Score = 123 bits (308), Expect = 3e-28, Method: Compositional matrix adjust.
Identities = 76/209 (36%), Positives = 117/209 (55%), Gaps = 9/209 (4%)
Query: 92 VKSFRDVGFPDYVMQEISKAGFFEPTPIQAQGWPMALKGRDLIGIAETGSGKTLAYLLPA 151
+ F D ++ + +A + T IQ Q +AL+G+D++G A+TGSGKTLA+L+P
Sbjct: 24 ITRFSDFPLSKKTLKGLQEAQYRLVTEIQKQTIGLALQGKDVLGAAKTGSGKTLAFLVPV 83
Query: 152 IVHVNAQPFLAPGDGPIVLVLAPTRELAVQIQQESTKFGASSKIKSTCIYGGVPKGPQVR 211
+ + + + DG VL+++PTRELA Q + K G + + I GG +
Sbjct: 84 LEALYRLQWTST-DGLGVLIISPTRELAYQTFEVLRKVGKNHDFSAGLIIGGKDLKHEAE 142
Query: 212 DLQKGVEIVIATPGRLIDMLES----HNTNLRRVTYLVLDEADRMLDMGFEPQIKKILSQ 267
+ + I++ TPGRL+ ++ H T+L+ LVLDEADR+LDMGF + ++
Sbjct: 143 RIN-NINILVCTPGRLLQHMDETVSFHATDLQ---MLVLDEADRILDMGFADTMNAVIEN 198
Query: 268 IRPDRQTLYWSATWPKEVEHLARQYLYNP 296
+ RQTL +SAT K V+ LAR L NP
Sbjct: 199 LPKKRQTLLFSATQTKSVKDLARLSLKNP 227
>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 = 122 bits (305), Expect = 6e-28, Method: Compositional matrix adjust.
Identities = 70/208 (33%), Positives = 116/208 (55%), Gaps = 15/208 (7%)
Query: 100 FPDYVMQEISKAGFFE-----PTPIQAQGWPMALKGRDLIGIAETGSGKTLAYLLPAIVH 154
F DY ++ G FE P+PIQ + P+AL GRD++ A+ G+GK+ AYL+P +
Sbjct: 5 FEDYCLKRELLMGIFEMGWEKPSPIQEESIPIALSGRDILARAKNGTGKSGAYLIPLLER 64
Query: 155 VNAQPFLAPGDGPIVLVLAPTRELAVQIQQ---ESTKFGASSKIKSTCIYGGVPKGPQVR 211
++ + D +V+ PTRELA+Q+ Q + +K +K+ +T GG +
Sbjct: 65 LDLKK-----DNIQAMVIVPTRELALQVSQICIQVSKHMGGAKVMATT--GGTNLRDDIM 117
Query: 212 DLQKGVEIVIATPGRLIDMLESHNTNLRRVTYLVLDEADRMLDMGFEPQIKKILSQIRPD 271
L V +VIATPGR++D+++ + V +VLDEAD++L F ++ I+ + +
Sbjct: 118 RLDDTVHVVIATPGRILDLIKKGVAKVDHVQMIVLDEADKLLSQDFVQIMEDIILTLPKN 177
Query: 272 RQTLYWSATWPKEVEHLARQYLYNPYKV 299
RQ L +SAT+P V+ +L PY++
Sbjct: 178 RQILLYSATFPLSVQKFMNSHLEKPYEI 205
>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 = 120 bits (300), Expect = 2e-27, Method: Compositional matrix adjust.
Identities = 95/347 (27%), Positives = 168/347 (48%), Gaps = 23/347 (6%)
Query: 81 ITVEGRDVPKP---VKSFRDVGFPDYVMQEISKAGFFEPTPIQAQGWPMALKG--RDLIG 135
+ V RD P VKSF ++ ++Q + GF P+ IQ P+ L ++LI
Sbjct: 47 VEVLQRDPNSPLYSVKSFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIA 106
Query: 136 IAETGSGKTLAYLLPAIVHVNAQPFLAPGDG-PIVLVLAPTRELAVQ---IQQESTKFGA 191
+++G+GKT A++L + V P + P L L+PT ELA+Q + ++ KF
Sbjct: 107 QSQSGTGKTAAFVLAMLSQVE------PANKYPQCLCLSPTYELALQTGKVIEQMGKFYP 160
Query: 192 SSKIKSTCIYGGVPKGPQVRDLQKGVEIVIATPGRLIDMLESHN-TNLRRVTYLVLDEAD 250
K+ + +G ++ + +IVI TPG ++D + +++ VLDEAD
Sbjct: 161 ELKLAYAVRGNKLERGQKISE-----QIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEAD 215
Query: 251 RML-DMGFEPQIKKILSQIRPDRQTLYWSATWPKEVEHLARQYLYNPYKVIIGSPDLKAN 309
M+ G + Q +I + + Q L +SAT+ V A++ + +P + + + +
Sbjct: 216 VMIATQGHQDQSIRIQRMLPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKREEETLD 275
Query: 310 HAIRQHVDIVSESQKYNKLVKLLEDIMDGSRILIFMDTKKGCDQITRQLRMDGWPALSIH 369
+ +V S +K+ L L I ++ +IF T+K + +L +G +
Sbjct: 276 TIKQYYVLCSSRDEKFQALCNLYGAITI-AQAMIFCHTRKTASWLAAELSKEGHQVALLS 334
Query: 370 GDKSQAERDWVLSEFKAGKSPIMTATDVAARGLDVKDVKYVINYDFP 416
G+ +R V+ F+ GK ++ T+V ARG+DV+ V VIN+D P
Sbjct: 335 GEMMVEQRAAVIERFREGKEKVLVTTNVCARGIDVEQVSVVINFDLP 381
>pdb|3G0H|A Chain A, Human Dead-box Rna Helicase Ddx19, In Complex With An
Atp-analogue And Rna
Length = 424
Score = 120 bits (300), Expect = 3e-27, Method: Compositional matrix adjust.
Identities = 95/347 (27%), Positives = 168/347 (48%), Gaps = 23/347 (6%)
Query: 81 ITVEGRDVPKP---VKSFRDVGFPDYVMQEISKAGFFEPTPIQAQGWPMALKG--RDLIG 135
+ V RD P VKSF ++ ++Q + GF P+ IQ P+ L ++LI
Sbjct: 26 VEVLQRDPNSPLYSVKSFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIA 85
Query: 136 IAETGSGKTLAYLLPAIVHVNAQPFLAPGDG-PIVLVLAPTRELAVQ---IQQESTKFGA 191
+++G+GKT A++L + V P + P L L+PT ELA+Q + ++ KF
Sbjct: 86 QSQSGTGKTAAFVLAMLSQVE------PANKYPQCLCLSPTYELALQTGKVIEQMGKFYP 139
Query: 192 SSKIKSTCIYGGVPKGPQVRDLQKGVEIVIATPGRLIDMLESHN-TNLRRVTYLVLDEAD 250
K+ + +G ++ + +IVI TPG ++D + +++ VLDEAD
Sbjct: 140 ELKLAYAVRGNKLERGQKISE-----QIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEAD 194
Query: 251 RML-DMGFEPQIKKILSQIRPDRQTLYWSATWPKEVEHLARQYLYNPYKVIIGSPDLKAN 309
M+ G + Q +I + + Q L +SAT+ V A++ + +P + + + +
Sbjct: 195 VMIATQGHQDQSIRIQRMLPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKREEETLD 254
Query: 310 HAIRQHVDIVSESQKYNKLVKLLEDIMDGSRILIFMDTKKGCDQITRQLRMDGWPALSIH 369
+ +V S +K+ L L I ++ +IF T+K + +L +G +
Sbjct: 255 TIKQYYVLCSSRDEKFQALCNLYGAITI-AQAMIFCHTRKTASWLAAELSKEGHQVALLS 313
Query: 370 GDKSQAERDWVLSEFKAGKSPIMTATDVAARGLDVKDVKYVINYDFP 416
G+ +R V+ F+ GK ++ T+V ARG+DV+ V VIN+D P
Sbjct: 314 GEMMVEQRAAVIERFREGKEKVLVTTNVCARGIDVEQVSVVINFDLP 360
>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 = 120 bits (300), Expect = 3e-27, Method: Compositional matrix adjust.
Identities = 95/347 (27%), Positives = 168/347 (48%), Gaps = 23/347 (6%)
Query: 81 ITVEGRDVPKP---VKSFRDVGFPDYVMQEISKAGFFEPTPIQAQGWPMALKG--RDLIG 135
+ V RD P VKSF ++ ++Q + GF P+ IQ P+ L ++LI
Sbjct: 77 VEVLQRDPNSPLYSVKSFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIA 136
Query: 136 IAETGSGKTLAYLLPAIVHVNAQPFLAPGDG-PIVLVLAPTRELAVQ---IQQESTKFGA 191
+++G+GKT A++L + V P + P L L+PT ELA+Q + ++ KF
Sbjct: 137 QSQSGTGKTAAFVLAMLSQVE------PANKYPQCLCLSPTYELALQTGKVIEQMGKFYP 190
Query: 192 SSKIKSTCIYGGVPKGPQVRDLQKGVEIVIATPGRLIDMLESHN-TNLRRVTYLVLDEAD 250
K+ + +G ++ + +IVI TPG ++D + +++ VLDEAD
Sbjct: 191 ELKLAYAVRGNKLERGQKISE-----QIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEAD 245
Query: 251 RML-DMGFEPQIKKILSQIRPDRQTLYWSATWPKEVEHLARQYLYNPYKVIIGSPDLKAN 309
M+ G + Q +I + + Q L +SAT+ V A++ + +P + + + +
Sbjct: 246 VMIATQGHQDQSIRIQRMLPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKREEETLD 305
Query: 310 HAIRQHVDIVSESQKYNKLVKLLEDIMDGSRILIFMDTKKGCDQITRQLRMDGWPALSIH 369
+ +V S +K+ L L I ++ +IF T+K + +L +G +
Sbjct: 306 TIKQYYVLCSSRDEKFQALCNLYGAIT-IAQAMIFCHTRKTASWLAAELSKEGHQVALLS 364
Query: 370 GDKSQAERDWVLSEFKAGKSPIMTATDVAARGLDVKDVKYVINYDFP 416
G+ +R V+ F+ GK ++ T+V ARG+DV+ V VIN+D P
Sbjct: 365 GEMMVEQRAAVIERFREGKEKVLVTTNVCARGIDVEQVSVVINFDLP 411
>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 = 119 bits (299), Expect = 3e-27, Method: Compositional matrix adjust.
Identities = 95/347 (27%), Positives = 168/347 (48%), Gaps = 23/347 (6%)
Query: 81 ITVEGRDVPKP---VKSFRDVGFPDYVMQEISKAGFFEPTPIQAQGWPMALKG--RDLIG 135
+ V RD P VKSF ++ ++Q + GF P+ IQ P+ L ++LI
Sbjct: 10 VEVLQRDPNSPLYSVKSFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIA 69
Query: 136 IAETGSGKTLAYLLPAIVHVNAQPFLAPGDG-PIVLVLAPTRELAVQ---IQQESTKFGA 191
+++G+GKT A++L + V P + P L L+PT ELA+Q + ++ KF
Sbjct: 70 QSQSGTGKTAAFVLAMLSQVE------PANKYPQCLCLSPTYELALQTGKVIEQMGKFYP 123
Query: 192 SSKIKSTCIYGGVPKGPQVRDLQKGVEIVIATPGRLIDMLESHN-TNLRRVTYLVLDEAD 250
K+ + +G ++ + +IVI TPG ++D + +++ VLDEAD
Sbjct: 124 ELKLAYAVRGNKLERGQKISE-----QIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEAD 178
Query: 251 RML-DMGFEPQIKKILSQIRPDRQTLYWSATWPKEVEHLARQYLYNPYKVIIGSPDLKAN 309
M+ G + Q +I + + Q L +SAT+ V A++ + +P + + + +
Sbjct: 179 VMIATQGHQDQSIRIQRMLPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKREEETLD 238
Query: 310 HAIRQHVDIVSESQKYNKLVKLLEDIMDGSRILIFMDTKKGCDQITRQLRMDGWPALSIH 369
+ +V S +K+ L L I ++ +IF T+K + +L +G +
Sbjct: 239 TIKQYYVLCSSRDEKFQALCNLYGAITI-AQAMIFCHTRKTASWLAAELSKEGHQVALLS 297
Query: 370 GDKSQAERDWVLSEFKAGKSPIMTATDVAARGLDVKDVKYVINYDFP 416
G+ +R V+ F+ GK ++ T+V ARG+DV+ V VIN+D P
Sbjct: 298 GEMMVEQRAAVIERFREGKEKVLVTTNVCARGIDVEQVSVVINFDLP 344
>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 = 115 bits (289), Expect = 4e-26, Method: Compositional matrix adjust.
Identities = 73/207 (35%), Positives = 110/207 (53%), Gaps = 9/207 (4%)
Query: 94 SFRDVGFPDYVMQEISKAGFFEPTPIQAQGWPMALKGRDLIGIAETGSGKTLAYLLPAIV 153
F F ++++ I F++PT IQ + P AL+G +G ++TG+GKT AYLLP +
Sbjct: 5 QFTRFPFQPFIIEAIKTLRFYKPTEIQERIIPGALRGESXVGQSQTGTGKTHAYLLP--I 62
Query: 154 HVNAQPFLAPGDGPIVLVLAPTRELAVQIQQES---TKFGASSK-IKSTCIYGGVPKGPQ 209
+P A ++ APTRELA QI E+ TKF + I + C+ GG K
Sbjct: 63 XEKIKPERAEVQA---VITAPTRELATQIYHETLKITKFCPKDRXIVARCLIGGTDKQKA 119
Query: 210 VRDLQKGVEIVIATPGRLIDMLESHNTNLRRVTYLVLDEADRMLDMGFEPQIKKILSQIR 269
+ L IVI TPGR+ D + ++ LV+DEAD LD GF + +I ++
Sbjct: 120 LEKLNVQPHIVIGTPGRINDFIREQALDVHTAHILVVDEADLXLDXGFITDVDQIAARXP 179
Query: 270 PDRQTLYWSATWPKEVEHLARQYLYNP 296
D Q L +SAT P++++ ++Y NP
Sbjct: 180 KDLQXLVFSATIPEKLKPFLKKYXENP 206
>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 = 114 bits (285), Expect = 1e-25, Method: Compositional matrix adjust.
Identities = 68/220 (30%), Positives = 114/220 (51%), Gaps = 12/220 (5%)
Query: 90 KPVKSFRDVGFPDYVMQEISKAGFFEPTPIQAQGWPMALKGRDLIGIAETGSGKTLAYLL 149
K V F D+ + +++ + GF EP+ IQ + ++G D++ A++G+GKT + +
Sbjct: 11 KVVYKFDDMELDENLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSI 70
Query: 150 PAIVHVNAQPFLAPGDGPIVLVLAPTRELAVQIQQESTKFGASSKIKSTCIYGG---VPK 206
A+ ++ P L+LAPTRELA+QIQ+ IK GG V
Sbjct: 71 AALQRIDTSV-----KAPQALMLAPTRELALQIQKVVMALAFHMDIKVHACIGGTSFVED 125
Query: 207 GPQVRDLQKGVEIVIATPGRLIDMLESHNTNLRRVTYLVLDEADRMLDMGFEPQIKKILS 266
+RD Q IV+ TPGR+ D ++ ++ +LDEAD ML GF+ QI +I +
Sbjct: 126 AEGLRDAQ----IVVGTPGRVFDNIQRRRFRTDKIKMFILDEADEMLSSGFKEQIYQIFT 181
Query: 267 QIRPDRQTLYWSATWPKEVEHLARQYLYNPYKVIIGSPDL 306
+ P Q + SAT P +V + +++ NP ++++ +L
Sbjct: 182 LLPPTTQVVLLSATMPNDVLEVTTKFMRNPVRILVKKDEL 221
>pdb|1QVA|A Chain A, Yeast Initiation Factor 4a N-Terminal Domain
Length = 223
Score = 113 bits (282), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 67/215 (31%), Positives = 112/215 (52%), Gaps = 12/215 (5%)
Query: 90 KPVKSFRDVGFPDYVMQEISKAGFFEPTPIQAQGWPMALKGRDLIGIAETGSGKTLAYLL 149
K V F D+ + +++ + GF EP+ IQ + ++G D++ A++G+GKT + +
Sbjct: 18 KVVYKFDDMELDEQLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSI 77
Query: 150 PAIVHVNAQPFLAPGDGPIVLVLAPTRELAVQIQQESTKFGASSKIKSTCIYGG---VPK 206
A+ ++ P L+LAPTRELA+QIQ+ IK GG V
Sbjct: 78 AALQRIDTSV-----KAPQALMLAPTRELALQIQKVVMALAFHMDIKVHACIGGTSFVED 132
Query: 207 GPQVRDLQKGVEIVIATPGRLIDMLESHNTNLRRVTYLVLDEADRMLDMGFEPQIKKILS 266
+RD Q IV+ TPGR+ D ++ ++ +LDEAD ML GF+ QI +I +
Sbjct: 133 AEGLRDAQ----IVVGTPGRVFDNIQRRRFRTDKIKMFILDEADEMLSSGFKEQIYQIFT 188
Query: 267 QIRPDRQTLYWSATWPKEVEHLARQYLYNPYKVII 301
+ P Q + SAT P +V + +++ NP ++++
Sbjct: 189 LLPPTTQVVLLSATMPNDVLEVTTKFMRNPVRILV 223
>pdb|3DKP|A Chain A, Human Dead-Box Rna-Helicase Ddx52, Conserved Domain I In
Complex With Adp
Length = 245
Score = 111 bits (277), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 79/237 (33%), Positives = 123/237 (51%), Gaps = 21/237 (8%)
Query: 81 ITVEGRDVPKPVKSFRDVG----FPDYVMQEISKAGFFEPTPIQAQGWPMALKGRDLIGI 136
I V+G D+P P+ +F+ + ++Q I AGF PTPIQ Q P+ L GR+L+
Sbjct: 13 IHVQGTDLPDPIATFQQLDQEYKINSRLLQNILDAGFQMPTPIQMQAIPVMLHGRELLAS 72
Query: 137 AETGSGKTLAYLLPAIVHVNAQPFLAPGDGPIVLVLAPTRELAVQIQQESTKFGASSKIK 196
A TGSGKTLA+ +P ++ + QP G L+++PTRELA QI +E K + +
Sbjct: 73 APTGSGKTLAFSIPILMQLK-QP---ANKGFRALIISPTRELASQIHRELIKISEGTGFR 128
Query: 197 STCIYGGVPK----GPQVRDLQKGVEIVIATPGRLIDMLESH--NTNLRRVTYLVLDEAD 250
I+ GP+ K +I++ TP RLI +L+ +L V +LV+DE+D
Sbjct: 129 IHMIHKAAVAAKKFGPKS---SKKFDILVTTPNRLIYLLKQDPPGIDLASVEWLVVDESD 185
Query: 251 RMLD---MGFEPQIKKILSQIRPDR-QTLYWSATWPKEVEHLARQYLYNPYKVIIGS 303
++ + GF Q+ I + + +SAT+ +VE + L N V IG+
Sbjct: 186 KLFEDGKTGFRDQLASIFLACTSHKVRRAMFSATFAYDVEQWCKLNLDNVISVSIGA 242
>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 = 109 bits (273), Expect = 3e-24, Method: Compositional matrix adjust.
Identities = 65/226 (28%), Positives = 117/226 (51%), Gaps = 15/226 (6%)
Query: 85 GRDVPKPVKSFRDVGFPDYVMQ-----EISKAGFFEPTPIQAQGWPMALKGRDLIGIAET 139
G DV S GF D++++ I GF P+ +Q + P A+ G D++ A++
Sbjct: 1 GSDVKGSYVSIHSSGFRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKS 60
Query: 140 GSGKTLAYLLPAIVHVNAQPFLAPGDGPI-VLVLAPTRELAVQIQQESTKFGASS-KIKS 197
G GKT ++L + L P G + VLV+ TRELA QI +E +F +K
Sbjct: 61 GMGKTAVFVLATLQQ------LEPVTGQVSVLVMCHTRELAFQISKEYERFSKYMPNVKV 114
Query: 198 TCIYGGVPKGPQVRDLQKGV-EIVIATPGRLIDMLESHNTNLRRVTYLVLDEADRMLD-M 255
+GG+ L+K IV+ TPGR++ + + + NL+ + + +LDE D+ML+ +
Sbjct: 115 AVFFGGLSIKKDEEVLKKNCPHIVVGTPGRILALARNKSLNLKHIKHFILDECDKMLEQL 174
Query: 256 GFEPQIKKILSQIRPDRQTLYWSATWPKEVEHLARQYLYNPYKVII 301
+++I ++Q + +SAT KE+ + R+++ +P ++ +
Sbjct: 175 DMRRDVQEIFRMTPHEKQVMMFSATLSKEIRPVCRKFMQDPMEIFV 220
>pdb|3BOR|A Chain A, Crystal Structure Of The Deadc Domain Of Human Translation
Initiation Factor 4a-2
Length = 237
Score = 107 bits (268), Expect = 1e-23, Method: Compositional matrix adjust.
Identities = 66/211 (31%), Positives = 109/211 (51%), Gaps = 6/211 (2%)
Query: 92 VKSFRDVGFPDYVMQEISKAGFFEPTPIQAQGWPMALKGRDLIGIAETGSGKTLAYLLPA 151
V +F D+ + +++ I GF +P+ IQ + +KG D+I A++G+GKT + +
Sbjct: 29 VDNFDDMNLKESLLRGIYAYGFEKPSAIQQRAIIPCIKGYDVIAQAQSGTGKTATFAISI 88
Query: 152 IVHVNAQPFLAPGDGPIVLVLAPTRELAVQIQQESTKFGASSKIKSTCIYGGVPKGPQVR 211
+ Q LVLAPTRELA QIQ+ G GG +++
Sbjct: 89 L-----QQLEIEFKETQALVLAPTRELAQQIQKVILALGDYMGATCHACIGGTNVRNEMQ 143
Query: 212 DLQ-KGVEIVIATPGRLIDMLESHNTNLRRVTYLVLDEADRMLDMGFEPQIKKILSQIRP 270
LQ + IV+ TPGR+ DML + + + VLDEAD ML GF+ QI +I ++
Sbjct: 144 KLQAEAPHIVVGTPGRVFDMLNRRYLSPKWIKMFVLDEADEMLSRGFKDQIYEIFQKLNT 203
Query: 271 DRQTLYWSATWPKEVEHLARQYLYNPYKVII 301
Q + SAT P +V + ++++ +P ++++
Sbjct: 204 SIQVVLLSATMPTDVLEVTKKFMRDPIRILV 234
>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 = 103 bits (257), Expect = 2e-22, Method: Compositional matrix adjust.
Identities = 64/211 (30%), Positives = 100/211 (47%), Gaps = 6/211 (2%)
Query: 92 VKSFRDVGFPDYVMQEISKAGFFEPTPIQAQGWPMALKGRDLIGIAETGSGKTLAYLLPA 151
V SF D+ + +++ I GF P+ IQ + + G D+I A++G+G T + +
Sbjct: 14 VDSFDDMNLSESLLRGIYAYGFEXPSAIQQRAILPCIXGYDVIAQAQSGTGXTATFAISI 73
Query: 152 IVHVNAQPFLAPGDGPIVLVLAPTRELAVQIQQESTKFGASSKIKSTCIYGGVPKGPQVR 211
+ + LVLAPTRELA QIQ G GG +V+
Sbjct: 74 LQQIELDLXATQA-----LVLAPTRELAQQIQXVVMALGDYMGASCHACIGGTNVRAEVQ 128
Query: 212 DLQ-KGVEIVIATPGRLIDMLESHNTNLRRVTYLVLDEADRMLDMGFEPQIKKILSQIRP 270
LQ + I++ TPGR+ DML + + VLDEAD ML GF QI I +
Sbjct: 129 XLQMEAPHIIVGTPGRVFDMLNRRYLSPXYIXMFVLDEADEMLSRGFXDQIYDIFQXLNS 188
Query: 271 DRQTLYWSATWPKEVEHLARQYLYNPYKVII 301
+ Q + SAT P +V + ++ +P ++++
Sbjct: 189 NTQVVLLSATMPSDVLEVTXXFMRDPIRILV 219
>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 = 96.7 bits (239), Expect = 2e-20, Method: Compositional matrix adjust.
Identities = 64/202 (31%), Positives = 106/202 (52%), Gaps = 8/202 (3%)
Query: 104 VMQEISKAGFFEPTPIQAQGWPMALKGRDLIGIAETGSGKTLAYLLPAIVHVNAQPFLAP 163
V++ + AGF P+P+Q + P+ G DLI A++G+GKT + A+ + +
Sbjct: 35 VLEGLRAAGFERPSPVQLKAIPLGRCGLDLIVQAKSGTGKTCVFSTIALDSLVLENL--- 91
Query: 164 GDGPIVLVLAPTRELAVQIQQESTKFGASSK-IKSTCIYGGVPKGPQVRDLQKGVEIVIA 222
+L+LAPTRE+AVQI T G + ++ GG P L+K I +
Sbjct: 92 --STQILILAPTREIAVQIHSVITAIGIKMEGLECHVFIGGTPLSQDKTRLKK-CHIAVG 148
Query: 223 TPGRLIDMLESHNTNLRRVTYLVLDEADRMLDMG-FEPQIKKILSQIRPDRQTLYWSATW 281
+PGR+ ++E N + +LDEAD++L+ G F+ QI I S + +Q L SAT+
Sbjct: 149 SPGRIKQLIELDYLNPGSIRLFILDEADKLLEEGSFQEQINWIYSSLPASKQMLAVSATY 208
Query: 282 PKEVEHLARQYLYNPYKVIIGS 303
P+ + + +Y+ +P V + S
Sbjct: 209 PEFLANALTKYMRDPTFVRLNS 230
>pdb|2KBE|A Chain A, Solution Structure Of Amino-Terminal Domain Of Dbp5p
Length = 226
Score = 94.4 bits (233), Expect = 1e-19, Method: Compositional matrix adjust.
Identities = 64/207 (30%), Positives = 109/207 (52%), Gaps = 14/207 (6%)
Query: 93 KSFRDVGFPDYVMQEISKAGFFEPTPIQAQGWPMALKG--RDLIGIAETGSGKTLAYLLP 150
KSF ++G +++ I F +P+ IQ + P+ L R++I +++G+GKT A+ L
Sbjct: 22 KSFDELGLAPELLKGIYAMKFQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAAFSLT 81
Query: 151 AIVHVNAQPFLAPGDG-PIVLVLAPTRELAVQIQQESTKFGASSKIKSTCIYGGVPKGPQ 209
+ VN P D P + LAP+RELA Q + + G +KI S I VP +
Sbjct: 82 MLTRVN------PEDASPQAICLAPSRELARQTLEVVQEMGKFTKITSQLI---VPDSFE 132
Query: 210 VRDLQKGVEIVIATPGRLIDMLESHNTNLRRVTYLVLDEADRMLD-MGFEPQIKKILSQI 268
++ Q ++++ TPG ++D++ L+++ VLDEAD MLD G Q ++ +
Sbjct: 133 -KNKQINAQVIVGTPGTVLDLMRRKLMQLQKIKIFVLDEADNMLDQQGLGDQCIRVKRFL 191
Query: 269 RPDRQTLYWSATWPKEVEHLARQYLYN 295
D Q + +SAT+ V A++ + N
Sbjct: 192 PKDTQLVLFSATFADAVRQYAKKIVPN 218
>pdb|1FUK|A Chain A, Crystal Structure Of The Carboxy Terminal Domain Of Yeast
Eif4a
Length = 165
Score = 90.5 bits (223), Expect = 2e-18, Method: Composition-based stats.
Identities = 44/115 (38%), Positives = 74/115 (64%), Gaps = 2/115 (1%)
Query: 311 AIRQ-HVDIVSESQKYNKLVKLLEDIMDGSRILIFMDTKKGCDQITRQLRMDGWPALSIH 369
I+Q +V++ E KY L L + I ++ +IF +T++ +++T +LR D + +I+
Sbjct: 3 GIKQFYVNVEEEEYKYECLTDLYDSI-SVTQAVIFCNTRRKVEELTTKLRNDKFTVSAIY 61
Query: 370 GDKSQAERDWVLSEFKAGKSPIMTATDVAARGLDVKDVKYVINYDFPGSLEDYVH 424
D Q ERD ++ EF++G S I+ +TD+ ARG+DV+ V VINYD P + E+Y+H
Sbjct: 62 SDLPQQERDTIMKEFRSGSSRILISTDLLARGIDVQQVSLVINYDLPANKENYIH 116
>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 = 89.7 bits (221), Expect = 4e-18, Method: Compositional matrix adjust.
Identities = 58/165 (35%), Positives = 82/165 (49%), Gaps = 5/165 (3%)
Query: 312 IRQHVDIVSESQKYNKLVKLLEDIMDGSR-ILIFMDTKKGCDQITRQLRMDGWPALSIHG 370
+ Q V+ V E K +V LLE + +LIF + K D I L + G A++IHG
Sbjct: 30 VIQEVEYVKEEAK---MVYLLECLQKTPPPVLIFAEKKADVDAIHEYLLLKGVEAVAIHG 86
Query: 371 DKSQAERDWVLSEFKAGKSPIMTATDVAARGLDVKDVKYVINYDFPGSLEDYVHXXXXXX 430
K Q ER + F+ GK ++ ATDVA++GLD +++VINYD P +E+YVH
Sbjct: 87 GKDQEERTKAIEAFREGKKDVLVATDVASKGLDFPAIQHVINYDMPEEIENYVHRIGRTG 146
Query: 431 XXXXXXXXXXFFT-AANARFAKELITILEEAGQKVSPELAAMGRG 474
F A + +L +L EA QKV P L + G
Sbjct: 147 CSGNTGIATTFINKACDESVLMDLKALLLEAKQKVPPVLQVLHCG 191
>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 = 84.3 bits (207), Expect = 1e-16, Method: Composition-based stats.
Identities = 52/147 (35%), Positives = 77/147 (52%), Gaps = 11/147 (7%)
Query: 310 HAIRQHVDIVSESQKYNKLVKLLEDIM---DGSRILIFMDTKKGCDQITRQLRMDGWPAL 366
HA+ Q V E K++ LL+D++ + +IF TK+ +Q+T +L G+P
Sbjct: 12 HAVIQ----VREENKFS----LLKDVLMTENPDSCIIFCRTKEHVNQLTDELDDLGYPCD 63
Query: 367 SIHGDKSQAERDWVLSEFKAGKSPIMTATDVAARGLDVKDVKYVINYDFPGSLEDYVHXX 426
IHG Q +R V++EFK G+ + ATDVAARG+D++++ VINYD P E YVH
Sbjct: 64 KIHGGMIQEDRFDVMNEFKRGEYRYLVATDVAARGIDIENISLVINYDLPLEKESYVHRT 123
Query: 427 XXXXXXXXXXXXXXFFTAANARFAKEL 453
F TA RF ++
Sbjct: 124 GRTGRAGNKGKAISFVTAFEKRFLADI 150
>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 = 77.4 bits (189), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 37/85 (43%), Positives = 52/85 (61%)
Query: 340 RILIFMDTKKGCDQITRQLRMDGWPALSIHGDKSQAERDWVLSEFKAGKSPIMTATDVAA 399
R ++F TK ++I + L G PA ++HGD SQ ER+ VL F+ G+ ++ ATDVAA
Sbjct: 33 RAMVFTRTKAETEEIAQGLLRLGHPAQALHGDLSQGERERVLGAFRQGEVRVLVATDVAA 92
Query: 400 RGLDVKDVKYVINYDFPGSLEDYVH 424
RGLD+ V V++Y P E Y H
Sbjct: 93 RGLDIPQVDLVVHYRLPDRAEAYQH 117
>pdb|3I32|A Chain A, Dimeric Structure Of A Hera Helicase Fragment Including
The C-Terminal Reca Domain, The Dimerization Domain, And
The Rna Binding Domain
Length = 300
Score = 77.0 bits (188), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 36/85 (42%), Positives = 52/85 (61%)
Query: 340 RILIFMDTKKGCDQITRQLRMDGWPALSIHGDKSQAERDWVLSEFKAGKSPIMTATDVAA 399
R ++F TK ++I + L G PA ++HGD SQ ER+ V+ F+ G+ ++ ATDVAA
Sbjct: 30 RAMVFTRTKAETEEIAQGLLRLGHPAQALHGDMSQGERERVMGAFRQGEVRVLVATDVAA 89
Query: 400 RGLDVKDVKYVINYDFPGSLEDYVH 424
RGLD+ V V++Y P E Y H
Sbjct: 90 RGLDIPQVDLVVHYRMPDRAEAYQH 114
>pdb|3FMO|B Chain B, Crystal Structure Of The Nucleoporin Nup214 In Complex
With The Dead- Box Helicase Ddx19
Length = 300
Score = 73.9 bits (180), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 64/227 (28%), Positives = 111/227 (48%), Gaps = 22/227 (9%)
Query: 81 ITVEGRDVPKP---VKSFRDVGFPDYVMQEISKAGFFEPTPIQAQGWPMALKG--RDLIG 135
+ V RD P VKSF ++ ++Q + GF P+ IQ P+ L ++LI
Sbjct: 77 VEVLQRDPNSPLYSVKSFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIA 136
Query: 136 IAETGSGKTLAYLLPAIVHVNAQPFLAPGDG-PIVLVLAPTRELAVQ---IQQESTKFGA 191
+++G+GKT A++L + V P + P L L+PT ELA+Q + ++ KF
Sbjct: 137 QSQSGTGKTAAFVLAMLSQVE------PANKYPQCLCLSPTYELALQTGKVIEQMGKFYP 190
Query: 192 SSKIKSTCIYGGVPKGPQVRDLQKGVEIVIATPGRLIDMLESHN-TNLRRVTYLVLDEAD 250
K+ + +G ++ + +IVI TPG ++D + +++ VLDEAD
Sbjct: 191 ELKLAYAVRGNKLERGQKISE-----QIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEAD 245
Query: 251 RML-DMGFEPQIKKILSQIRPDRQTLYWSATWPKEVEHLARQYLYNP 296
M+ G + Q +I + + Q L +SAT+ V A++ + +P
Sbjct: 246 VMIATQGHQDQSIRIQRMLPRNCQMLLFSATFEDSVWKFAQKVVPDP 292
>pdb|3FHC|B Chain B, Crystal Structure Of Human Dbp5 In Complex With Nup214
Length = 235
Score = 73.2 bits (178), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 64/227 (28%), Positives = 111/227 (48%), Gaps = 22/227 (9%)
Query: 81 ITVEGRDVPKP---VKSFRDVGFPDYVMQEISKAGFFEPTPIQAQGWPMALKG--RDLIG 135
+ V RD P VKSF ++ ++Q + GF P+ IQ P+ L ++LI
Sbjct: 10 VEVLQRDPNSPLYSVKSFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIA 69
Query: 136 IAETGSGKTLAYLLPAIVHVNAQPFLAPGDG-PIVLVLAPTRELAVQ---IQQESTKFGA 191
+++G+GKT A++L + V P + P L L+PT ELA+Q + ++ KF
Sbjct: 70 QSQSGTGKTAAFVLAMLSQVE------PANKYPQCLCLSPTYELALQTGKVIEQMGKFYP 123
Query: 192 SSKIKSTCIYGGVPKGPQVRDLQKGVEIVIATPGRLIDMLESHN-TNLRRVTYLVLDEAD 250
K+ + +G ++ + +IVI TPG ++D + +++ VLDEAD
Sbjct: 124 ELKLAYAVRGNKLERGQKISE-----QIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEAD 178
Query: 251 RML-DMGFEPQIKKILSQIRPDRQTLYWSATWPKEVEHLARQYLYNP 296
M+ G + Q +I + + Q L +SAT+ V A++ + +P
Sbjct: 179 VMIATQGHQDQSIRIQRMLPRNCQMLLFSATFEDSVWKFAQKVVPDP 225
>pdb|2KBF|A Chain A, Solution Structure Of Carboxyl-Terminal Domain Of Dbp5p
Length = 187
Score = 72.0 bits (175), Expect = 8e-13, Method: Compositional matrix adjust.
Identities = 39/107 (36%), Positives = 66/107 (61%), Gaps = 2/107 (1%)
Query: 311 AIRQ-HVDIVSESQKYNKLVKLLEDIMDGSRILIFMDTKKGCDQITRQLRMDGWPALSIH 369
AI+Q ++D +E+ K++ L +L + GS I IF+ TKK + + +L+ +G +H
Sbjct: 8 AIKQLYMDCKNEADKFDVLTELYGLMTIGSSI-IFVATKKTANVLYGKLKSEGHEVSILH 66
Query: 370 GDKSQAERDWVLSEFKAGKSPIMTATDVAARGLDVKDVKYVINYDFP 416
GD ERD ++ +F+ G+S ++ T+V ARG+D+ V V+NYD P
Sbjct: 67 GDLQTQERDRLIDDFREGRSKVLITTNVLARGIDIPTVSMVVNYDLP 113
>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 = 70.5 bits (171), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 39/107 (36%), Positives = 64/107 (59%), Gaps = 2/107 (1%)
Query: 311 AIRQ-HVDIVSESQKYNKLVKLLEDIMDGSRILIFMDTKKGCDQITRQLRMDGWPALSIH 369
AI+Q + D +E+ K++ L +L GS I IF+ TKK + + +L+ +G +H
Sbjct: 9 AIKQLYXDCKNEADKFDVLTELYGVXTIGSSI-IFVATKKTANVLYGKLKSEGHEVSILH 67
Query: 370 GDKSQAERDWVLSEFKAGKSPIMTATDVAARGLDVKDVKYVINYDFP 416
GD ERD ++ +F+ G+S ++ T+V ARG+D+ V V+NYD P
Sbjct: 68 GDLQTQERDRLIDDFREGRSKVLITTNVLARGIDIPTVSXVVNYDLP 114
>pdb|3GFP|A Chain A, Structure Of The C-Terminal Domain Of The Dead-Box Protein
Dbp5
Length = 189
Score = 70.1 bits (170), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 39/107 (36%), Positives = 64/107 (59%), Gaps = 2/107 (1%)
Query: 311 AIRQ-HVDIVSESQKYNKLVKLLEDIMDGSRILIFMDTKKGCDQITRQLRMDGWPALSIH 369
AI+Q + D +E+ K++ L +L GS I IF+ TKK + + +L+ +G +H
Sbjct: 10 AIKQLYXDCKNEADKFDVLTELYGLXTIGSSI-IFVATKKTANVLYGKLKSEGHEVSILH 68
Query: 370 GDKSQAERDWVLSEFKAGKSPIMTATDVAARGLDVKDVKYVINYDFP 416
GD ERD ++ +F+ G+S ++ T+V ARG+D+ V V+NYD P
Sbjct: 69 GDLQTQERDRLIDDFREGRSKVLITTNVLARGIDIPTVSXVVNYDLP 115
>pdb|1T5I|A Chain A, Crystal Structure Of The C-Terminal Domain Of Uap56
Length = 172
Score = 67.0 bits (162), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 34/115 (29%), Positives = 66/115 (57%), Gaps = 1/115 (0%)
Query: 310 HAIRQHVDIVSESQKYNKLVKLLEDIMDGSRILIFMDTKKGCDQITRQLRMDGWPALSIH 369
H ++Q+ + +++K KL LL D+++ ++++IF+ + + C + + L +PA++IH
Sbjct: 4 HGLQQYYVKLKDNEKNRKLFDLL-DVLEFNQVVIFVKSVQRCIALAQLLVEQNFPAIAIH 62
Query: 370 GDKSQAERDWVLSEFKAGKSPIMTATDVAARGLDVKDVKYVINYDFPGSLEDYVH 424
Q ER +FK + I+ AT++ RG+D++ V NYD P + Y+H
Sbjct: 63 RGMPQEERLSRYQQFKDFQRRILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLH 117
>pdb|2WAX|A Chain A, Structure Of The Human Ddx6 C-Terminal Domain In Complex
With An Edc3-Fdf Peptide
pdb|2WAX|C Chain C, Structure Of The Human Ddx6 C-Terminal Domain In Complex
With An Edc3-Fdf Peptide
pdb|2WAY|A Chain A, Structure Of The Human Ddx6 C-Terminal Domain In Complex
With An Edc3-Fdf Peptide
pdb|2WAY|C Chain C, Structure Of The Human Ddx6 C-Terminal Domain In Complex
With An Edc3-Fdf Peptide
Length = 193
Score = 67.0 bits (162), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 33/114 (28%), Positives = 57/114 (50%), Gaps = 1/114 (0%)
Query: 311 AIRQHVDIVSESQKYNKLVKLLEDIMDGSRILIFMDTKKGCDQITRQLRMDGWPALSIHG 370
+ Q+ V+E QK + L L + I IF ++ + + + +++ G+ IH
Sbjct: 18 GVTQYYAYVTERQKVHCLNTLFSRLQINQSI-IFCNSSQRVELLAKKISQLGYSCFYIHA 76
Query: 371 DKSQAERDWVLSEFKAGKSPIMTATDVAARGLDVKDVKYVINYDFPGSLEDYVH 424
Q R+ V +F+ G + TD+ RG+D++ V VIN+DFP E Y+H
Sbjct: 77 KMRQEHRNRVFHDFRNGLCRNLVCTDLFTRGIDIQAVNVVINFDFPKLAETYLH 130
>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 = 62.8 bits (151), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 31/97 (31%), Positives = 55/97 (56%), Gaps = 1/97 (1%)
Query: 328 LVKLLEDIMDGSRILIFMDTKKGCDQITRQLRMDGWPALSIHGDKSQAERDWVLSEFKAG 387
LV LL+ + +R ++F+ ++ ++ LR G + G+ Q +R+ + G
Sbjct: 21 LVHLLKQ-PEATRSIVFVRKRERVHELANWLREAGINNCYLEGEMVQGKRNEAIKRLTEG 79
Query: 388 KSPIMTATDVAARGLDVKDVKYVINYDFPGSLEDYVH 424
+ ++ ATDVAARG+D+ DV +V N+D P S + Y+H
Sbjct: 80 RVNVLVATDVAARGIDIPDVSHVFNFDMPRSGDTYLH 116
>pdb|2RB4|A Chain A, Crystal Structure Of The Helicase Domain Of Human Ddx25
Rna Helicase
pdb|2RB4|B Chain B, Crystal Structure Of The Helicase Domain Of Human Ddx25
Rna Helicase
Length = 175
Score = 60.1 bits (144), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 33/108 (30%), Positives = 56/108 (51%), Gaps = 2/108 (1%)
Query: 310 HAIRQHVDIVSESQ-KYNKLVKLLEDIMDGSRILIFMDTKKGCDQITRQLRMDGWPALSI 368
+ IRQ+ + + KY L + I G I IF T++ +T ++ DG +
Sbjct: 6 NNIRQYYVLCEHRKDKYQALCNIYGSITIGQAI-IFCQTRRNAKWLTVEMIQDGHQVSLL 64
Query: 369 HGDKSQAERDWVLSEFKAGKSPIMTATDVAARGLDVKDVKYVINYDFP 416
G+ + +R ++ F+ GK ++ T+V ARG+DVK V V+N+D P
Sbjct: 65 SGELTVEQRASIIQRFRDGKEKVLITTNVCARGIDVKQVTIVVNFDLP 112
>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 = 57.0 bits (136), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 81/341 (23%), Positives = 140/341 (41%), Gaps = 46/341 (13%)
Query: 104 VMQEISKAGFFEPTPIQAQGWPMALKGRDLIGIAETGSGKTLAYLLPAIVHVNAQPFLAP 163
++Q + K F P ++ MA G+++ + TG GK+L Y LPA+
Sbjct: 35 ILQNVFKLEKFRPLQLETINVTMA--GKEVFLVMPTGGGKSLCYQLPALC---------- 82
Query: 164 GDGPIVLVLAPTRELAVQIQQESTKFGASSKIKSTCIYGGVPKGPQVRDLQKGVEI--VI 221
DG LV+ P L + G S+ + + K + K E+ +
Sbjct: 83 SDG-FTLVICPLISLMEDQLMVLKQLGISATMLNASSSKEHVKWVHAEMVNKNSELKLIY 141
Query: 222 ATPGRL------IDMLESHNTNLRRVTYLVLDEADRMLDMG--FEPQIKK--ILSQIRPD 271
TP ++ + LE RR T + +DE G F P K IL + P+
Sbjct: 142 VTPEKIAKSKMFMSRLEKA-YEARRFTRIAVDEVHCCSQWGHDFRPDYKALGILKRQFPN 200
Query: 272 RQTLYWSATWPKEVEHLARQYLY----NPYKVIIGSPDLKANHAIRQHVDIVSESQKY-N 326
+ +AT V A++ L + P+L + +RQ S ++ +
Sbjct: 201 ASLIGLTATATNHVLTDAQKILCIEKCFTFTASFNRPNLY--YEVRQKP---SNTEDFIE 255
Query: 327 KLVKLLEDIMDGSRILIFMDTKKGCDQITRQLRMDGWPALSIHG-----DKSQAERDWVL 381
+VKL+ G +I+ ++K +Q+T L+ G A + H DK+ R W
Sbjct: 256 DIVKLINGRYKGQSGIIYCFSQKDSEQVTVSLQNLGIHAGAYHANLEPEDKTTVHRKWSA 315
Query: 382 SEFKAGKSPIMTATDVAARGLDVKDVKYVINYDFPGSLEDY 422
+E + ++ AT G+D DV++VI++ S+E+Y
Sbjct: 316 NEIQ-----VVVATVAFGMGIDKPDVRFVIHHSMSKSMENY 351
>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 = 53.9 bits (128), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 25/74 (33%), Positives = 39/74 (52%), Gaps = 1/74 (1%)
Query: 351 CDQITRQLRMDGWPALSIHGDKSQAERDWVLSEFKAGKSPIMTATDVAARGLDVKDVKYV 410
C + + + D P L HG +Q +R ++ FK +S I+ TDV ARG+D +V V
Sbjct: 50 CSILKNEFKKD-LPILEFHGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEV 108
Query: 411 INYDFPGSLEDYVH 424
+ P L +Y+H
Sbjct: 109 LQIGVPSELANYIH 122
>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 = 53.9 bits (128), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 25/74 (33%), Positives = 39/74 (52%), Gaps = 1/74 (1%)
Query: 351 CDQITRQLRMDGWPALSIHGDKSQAERDWVLSEFKAGKSPIMTATDVAARGLDVKDVKYV 410
C + + + D P L HG +Q +R ++ FK +S I+ TDV ARG+D +V V
Sbjct: 50 CSILKNEFKKD-LPILEFHGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEV 108
Query: 411 INYDFPGSLEDYVH 424
+ P L +Y+H
Sbjct: 109 LQIGVPSELANYIH 122
>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 = 53.9 bits (128), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 25/74 (33%), Positives = 39/74 (52%), Gaps = 1/74 (1%)
Query: 351 CDQITRQLRMDGWPALSIHGDKSQAERDWVLSEFKAGKSPIMTATDVAARGLDVKDVKYV 410
C + + + D P L HG +Q +R ++ FK +S I+ TDV ARG+D +V V
Sbjct: 50 CSILKNEFKKD-LPILEFHGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEV 108
Query: 411 INYDFPGSLEDYVH 424
+ P L +Y+H
Sbjct: 109 LQIGVPSELANYIH 122
>pdb|1OYY|A Chain A, Structure Of The Recq Catalytic Core Bound To Atp-Gamma-S
Length = 523
Score = 46.2 bits (108), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 68/328 (20%), Positives = 142/328 (43%), Gaps = 32/328 (9%)
Query: 104 VMQEISKAGFFEPTPIQAQGWPMALKGRDLIGIAETGSGKTLAYLLPAIVHVNAQPFLAP 163
V+QE G+ + P Q + L GRD + + TG GK+L Y +PA++ +N
Sbjct: 16 VLQETF--GYQQFRPGQEEIIDTVLSGRDCLVVMPTGGGKSLCYQIPALL-LNG------ 66
Query: 164 GDGPIVLVLAPTRELAVQIQQESTKFGASSKIKSTCIYGGVPKGPQVRDLQKG----VEI 219
+ +V++P + + ++ ++ + + C+ + Q+ + + +
Sbjct: 67 ----LTVVVSPL----ISLMKDQVDQLQANGVAAACLNSTQTREQQLEVMTGCRTGQIRL 118
Query: 220 VIATPGRL-IDMLESHNTNLRRVTYLVLDEADRMLDMG--FEPQIKKILSQIRPDRQTLY 276
+ P RL +D H + V L +DEA + G F P+ L Q+R TL
Sbjct: 119 LYIAPERLMLDNFLEHLAHWNPV-LLAVDEAHCISQWGHDFRPEYAA-LGQLRQRFPTLP 176
Query: 277 WSATWPKEVEHLARQYLYNPYKVIIGSPDLKANHAIRQHVDIVSESQKYNKLVKLLEDIM 336
+ A + RQ + + P ++ + R ++ + +K+ L +L+ +
Sbjct: 177 FMA-LTATADDTTRQDIVRLLG--LNDPLIQISSFDRPNIRYML-MEKFKPLDQLMRYVQ 232
Query: 337 D--GSRILIFMDTKKGCDQITRQLRMDGWPALSIHGDKSQAERDWVLSEFKAGKSPIMTA 394
+ G +I+ +++ + +L+ G A + H R V +F+ I+ A
Sbjct: 233 EQRGKSGIIYCNSRAKVEDTAARLQSKGISAAAYHAGLENNVRADVQEKFQRDDLQIVVA 292
Query: 395 TDVAARGLDVKDVKYVINYDFPGSLEDY 422
T G++ +V++V+++D P ++E Y
Sbjct: 293 TVAFGMGINKPNVRFVVHFDIPRNIESY 320
>pdb|1OYW|A Chain A, Structure Of The Recq Catalytic Core
Length = 523
Score = 45.8 bits (107), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 76/334 (22%), Positives = 140/334 (41%), Gaps = 44/334 (13%)
Query: 104 VMQEISKAGFFEPTPIQAQGWPMALKGRDLIGIAETGSGKTLAYLLPAIVHVNAQPFLAP 163
V+QE G+ + P Q + L GRD + + TG GK+L Y +PA++ +N
Sbjct: 16 VLQETF--GYQQFRPGQEEIIDTVLSGRDCLVVXPTGGGKSLCYQIPALL-LNG------ 66
Query: 164 GDGPIVLVLAPTRELAV-QIQQESTKFGASSKIKSTCIYGGVPKGPQVRDLQKGV----- 217
+ +V++P L Q+ Q A++ + ST Q R+ Q V
Sbjct: 67 ----LTVVVSPLISLXKDQVDQLQANGVAAACLNST----------QTREQQLEVXTGCR 112
Query: 218 ----EIVIATPGRL-IDMLESHNTNLRRVTYLVLDEADRMLDMG--FEPQIKKILSQIRP 270
++ P RL +D H + V L +DEA + G F P+ L Q+R
Sbjct: 113 TGQIRLLYIAPERLXLDNFLEHLAHWNPV-LLAVDEAHCISQWGHDFRPEYAA-LGQLRQ 170
Query: 271 DRQTLYWSATWPKEVEHLARQYLYNPYKVIIGSPDLKANHAIRQHVDIVSESQKYNKLVK 330
TL + A + RQ + + P ++ + R ++ +K+ L +
Sbjct: 171 RFPTLPFXA-LTATADDTTRQDIVRLLG--LNDPLIQISSFDRPNIRYXL-XEKFKPLDQ 226
Query: 331 LLEDIMD--GSRILIFMDTKKGCDQITRQLRMDGWPALSIHGDKSQAERDWVLSEFKAGK 388
L + + G +I+ +++ + +L+ G A + H R V +F+
Sbjct: 227 LXRYVQEQRGKSGIIYCNSRAKVEDTAARLQSKGISAAAYHAGLENNVRADVQEKFQRDD 286
Query: 389 SPIMTATDVAARGLDVKDVKYVINYDFPGSLEDY 422
I+ AT G++ +V++V+++D P ++E Y
Sbjct: 287 LQIVVATVAFGXGINKPNVRFVVHFDIPRNIESY 320
>pdb|1WP9|A Chain A, Crystal Structure Of Pyrococcus Furiosus Hef Helicase
Domain
pdb|1WP9|B Chain B, Crystal Structure Of Pyrococcus Furiosus Hef Helicase
Domain
pdb|1WP9|C Chain C, Crystal Structure Of Pyrococcus Furiosus Hef Helicase
Domain
pdb|1WP9|D Chain D, Crystal Structure Of Pyrococcus Furiosus Hef Helicase
Domain
pdb|1WP9|E Chain E, Crystal Structure Of Pyrococcus Furiosus Hef Helicase
Domain
pdb|1WP9|F Chain F, Crystal Structure Of Pyrococcus Furiosus Hef Helicase
Domain
Length = 494
Score = 45.8 bits (107), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 33/119 (27%), Positives = 58/119 (48%), Gaps = 11/119 (9%)
Query: 307 KANHAIRQHVDIVSESQKYNKLVKLLEDIMD---GSRILIFMDTKKGCDQITRQLRMDGW 363
KA + Q +I + K +KL +++ + + S+I++F + ++ +I +L DG
Sbjct: 327 KAISLLVQAKEIGLDHPKMDKLKEIIREQLQRKQNSKIIVFTNYRETAKKIVNELVKDGI 386
Query: 364 PALSIHGDKS--------QAERDWVLSEFKAGKSPIMTATDVAARGLDVKDVKYVINYD 414
A G S Q E+ +L EF G+ ++ AT V GLDV +V V+ Y+
Sbjct: 387 KAKRFVGQASKENDRGLSQREQKLILDEFARGEFNVLVATSVGEEGLDVPEVDLVVFYE 445
Score = 32.0 bits (71), Expect = 0.84, Method: Compositional matrix adjust.
Identities = 32/114 (28%), Positives = 52/114 (45%), Gaps = 10/114 (8%)
Query: 139 TGSGKTLAYLLPAIVHVNAQPFLAPGDGPIVLVLAPTRELAVQIQQESTKFGASSKIKST 198
TG GKTL ++ A + G VL+LAPT+ L +Q + + K
Sbjct: 32 TGLGKTLIAMMIA-------EYRLTKYGGKVLMLAPTKPLVLQHAESFRRLFNLPPEKIV 84
Query: 199 CIYGGVPKGPQVRDLQ-KGVEIVIATPGRLIDMLESHNTNLRRVTYLVLDEADR 251
+ G K P+ R ++++ATP + + L + +L V+ +V DEA R
Sbjct: 85 ALTG--EKSPEERSKAWARAKVIVATPQTIENDLLAGRISLEDVSLIVFDEAHR 136
>pdb|3TMI|A Chain A, Structural Basis For Rna Recognition And Activation Of
Rig-I
Length = 695
Score = 41.2 bits (95), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 39/139 (28%), Positives = 63/139 (45%), Gaps = 8/139 (5%)
Query: 114 FEPTPIQAQGWPMALKGRDLIGIAETGSGKTLAYLLPAIVHVNAQPFLAPGDGPIVLVLA 173
F+P Q + A+KG++ I A TG GKT LL H+ P G V+ A
Sbjct: 11 FKPRNYQLELALPAMKGKNTIICAPTGCGKTFVSLLICEHHLKKFP---QGQKGKVVFFA 67
Query: 174 PTRELAVQIQQES--TKFGASSKIKSTCIYGGVPKGPQVRDLQKGVEIVIATPGRLIDML 231
++ V QQ+S +K+ + T I G + V + + +I+I TP L++ L
Sbjct: 68 --NQIPVYEQQKSVFSKYFERHGYRVTGISGATAENVPVEQIVENNDIIILTPQILVNNL 125
Query: 232 ESHNT-NLRRVTYLVLDEA 249
+ +L T ++ DE
Sbjct: 126 KKGTIPSLSIFTLMIFDEC 144
Score = 32.0 bits (71), Expect = 0.92, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 25/44 (56%), Gaps = 1/44 (2%)
Query: 377 RDWVLSEFKA-GKSPIMTATDVAARGLDVKDVKYVINYDFPGSL 419
+ +L FKA G I+ AT VA G+D+ VI Y++ G++
Sbjct: 448 QKCILDAFKASGDHNILIATSVADEGIDIAQCNLVILYEYVGNV 491
>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 = 41.2 bits (95), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 18/41 (43%), Positives = 27/41 (65%)
Query: 373 SQAERDWVLSEFKAGKSPIMTATDVAARGLDVKDVKYVINY 413
+Q E+ V+S+F+ GK ++ AT VA GLD+K+ VI Y
Sbjct: 449 TQNEQKEVISKFRTGKINLLIATTVAEEGLDIKECNIVIRY 489
>pdb|4I1S|A Chain A, Melanoma Differentiation Associated Protein-5 Helicase
Domain Complex With Inhibitor Non-structural Protein V
Length = 243
Score = 40.4 bits (93), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 18/41 (43%), Positives = 27/41 (65%)
Query: 373 SQAERDWVLSEFKAGKSPIMTATDVAARGLDVKDVKYVINY 413
+Q E+ V+S+F+ GK ++ AT VA GLD+K+ VI Y
Sbjct: 199 TQNEQREVISKFRTGKINLLIATTVAEEGLDIKECNIVIRY 239
>pdb|4AY2|A Chain A, Capturing 5' Tri-Phosphorylated Rna Duplex By Rig-I
Length = 687
Score = 40.4 bits (93), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 36/137 (26%), Positives = 59/137 (43%), Gaps = 4/137 (2%)
Query: 114 FEPTPIQAQGWPMALKGRDLIGIAETGSGKTLAYLLPAIVHVNAQPFLAPGDGPIVLVLA 173
F+P Q + A+KG++ I A TG GKT LL H+ P G V+ A
Sbjct: 3 FKPRNYQLELALPAMKGKNTIICAPTGCGKTFVSLLICEHHLKKFP---QGQKGKVVFFA 59
Query: 174 PTRELAVQIQQESTKFGASSKIKSTCIYGGVPKGPQVRDLQKGVEIVIATPGRLIDMLES 233
+ Q + +K+ + T I G + V + + +I+I TP L++ L+
Sbjct: 60 NQIPVYEQNKSVFSKYFERHGYRVTGISGATAENVPVEQIVENNDIIILTPQILVNNLKK 119
Query: 234 HNT-NLRRVTYLVLDEA 249
+L T ++ DE
Sbjct: 120 GTIPSLSIFTLMIFDEC 136
Score = 32.0 bits (71), Expect = 0.91, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 25/44 (56%), Gaps = 1/44 (2%)
Query: 377 RDWVLSEFKA-GKSPIMTATDVAARGLDVKDVKYVINYDFPGSL 419
+ +L FKA G I+ AT VA G+D+ VI Y++ G++
Sbjct: 440 QKCILDAFKASGDHNILIATSVADEGIDIAQCNLVILYEYVGNV 483
>pdb|2YKG|A Chain A, Structural Insights Into Rna Recognition By Rig-I
Length = 696
Score = 40.0 bits (92), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 36/137 (26%), Positives = 59/137 (43%), Gaps = 4/137 (2%)
Query: 114 FEPTPIQAQGWPMALKGRDLIGIAETGSGKTLAYLLPAIVHVNAQPFLAPGDGPIVLVLA 173
F+P Q + A+KG++ I A TG GKT LL H+ P G V+ A
Sbjct: 12 FKPRNYQLELALPAMKGKNTIICAPTGCGKTFVSLLICEHHLKKFP---QGQKGKVVFFA 68
Query: 174 PTRELAVQIQQESTKFGASSKIKSTCIYGGVPKGPQVRDLQKGVEIVIATPGRLIDMLES 233
+ Q + +K+ + T I G + V + + +I+I TP L++ L+
Sbjct: 69 NQIPVYEQNKSVFSKYFERHGYRVTGISGATAENVPVEQIVENNDIIILTPQILVNNLKK 128
Query: 234 HNT-NLRRVTYLVLDEA 249
+L T ++ DE
Sbjct: 129 GTIPSLSIFTLMIFDEC 145
Score = 31.6 bits (70), Expect = 0.94, Method: Compositional matrix adjust.
Identities = 16/41 (39%), Positives = 24/41 (58%), Gaps = 1/41 (2%)
Query: 380 VLSEFKA-GKSPIMTATDVAARGLDVKDVKYVINYDFPGSL 419
+L FKA G I+ AT VA G+D+ VI Y++ G++
Sbjct: 452 ILDAFKASGDHNILIATSVADEGIDIAQCNLVILYEYVGNV 492
>pdb|1GM5|A Chain A, Structure Of Recg Bound To Three-Way Dna Junction
Length = 780
Score = 35.4 bits (80), Expect = 0.066, Method: Compositional matrix adjust.
Identities = 16/37 (43%), Positives = 23/37 (62%)
Query: 368 IHGDKSQAERDWVLSEFKAGKSPIMTATDVAARGLDV 404
+HG SQ E+D V+ EF G+ I+ +T V G+DV
Sbjct: 619 MHGRLSQEEKDRVMLEFAEGRYDILVSTTVIEVGIDV 655
>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 = 35.4 bits (80), Expect = 0.082, Method: Compositional matrix adjust.
Identities = 19/76 (25%), Positives = 36/76 (47%)
Query: 335 IMDGSRILIFMDTKKGCDQITRQLRMDGWPALSIHGDKSQAERDWVLSEFKAGKSPIMTA 394
I R+L+ TKK + +T L+ G +H + ER ++ + + GK ++
Sbjct: 448 IERNERVLVTTLTKKMSEDLTDYLKEIGIKVNYLHSEIKTLERIEIIRDLRLGKYDVLVG 507
Query: 395 TDVAARGLDVKDVKYV 410
++ GLD+ +V V
Sbjct: 508 INLLREGLDIPEVSLV 523
>pdb|2D7D|A Chain A, Structural Insights Into The Cryptic Dna Dependent Atp-Ase
Activity Of Uvrb
pdb|2NMV|A Chain A, Damage Detection By The Uvrabc Pathway: Crystal Structure
Of Uvrb Bound To Fluorescein-Adducted Dna
Length = 661
Score = 35.4 bits (80), Expect = 0.082, Method: Compositional matrix adjust.
Identities = 19/76 (25%), Positives = 36/76 (47%)
Query: 335 IMDGSRILIFMDTKKGCDQITRQLRMDGWPALSIHGDKSQAERDWVLSEFKAGKSPIMTA 394
I R+L+ TKK + +T L+ G +H + ER ++ + + GK ++
Sbjct: 442 IERNERVLVTTLTKKMSEDLTDYLKEIGIKVNYLHSEIKTLERIEIIRDLRLGKYDVLVG 501
Query: 395 TDVAARGLDVKDVKYV 410
++ GLD+ +V V
Sbjct: 502 INLLREGLDIPEVSLV 517
>pdb|2VA8|A Chain A, Dna Repair Helicase Hel308
pdb|2VA8|B Chain B, Dna Repair Helicase Hel308
Length = 715
Score = 34.7 bits (78), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 47/182 (25%), Positives = 70/182 (38%), Gaps = 18/182 (9%)
Query: 97 DVGFPDYVMQEISKAGFFEPTPIQAQGWPMAL-KGRDLIGIAETGSGKTLAYLLPAIVHV 155
D+ P V++ I K G + P Q + L +G L+ + TGSGKTL I +
Sbjct: 12 DLKLPSNVIEIIKKRGIKKLNPPQTEAVKKGLLEGNRLLLTSPTGSGKTL------IAEM 65
Query: 156 NAQPFLAPGDGPIVLVLAPTRELAVQIQQESTKFGASSKIKSTCIYGGVPKGPQVRD--L 213
FL G + V P R L + K+ + + G D
Sbjct: 66 GIISFLLKNGGKAIYV-TPLRALT------NEKYLTFKDWELIGFKVAMTSGDYDTDDAW 118
Query: 214 QKGVEIVIATPGRLIDMLESHNTNLRRVTYLVLDEADRMLDMGFEPQIKKILSQIRPDRQ 273
K +I+I T +L + L V Y VLDE + D P ++ + IR R+
Sbjct: 119 LKNYDIIITTYEKLDSLWRHRPEWLNEVNYFVLDELHYLNDPERGPVVESV--TIRAKRR 176
Query: 274 TL 275
L
Sbjct: 177 NL 178
>pdb|1C4O|A Chain A, Crystal Structure Of The Dna Nucleotide Excision Repair
Enzyme Uvrb From Thermus Thermophilus
Length = 664
Score = 33.9 bits (76), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 21/93 (22%), Positives = 44/93 (47%), Gaps = 4/93 (4%)
Query: 326 NKLVKLLEDIMD----GSRILIFMDTKKGCDQITRQLRMDGWPALSIHGDKSQAERDWVL 381
N+++ L+E I + G R L+ + T + +++T L G A +H + +R ++
Sbjct: 423 NQILDLMEGIRERAARGERTLVTVLTVRMAEELTSFLVEHGIRARYLHHELDAFKRQALI 482
Query: 382 SEFKAGKSPIMTATDVAARGLDVKDVKYVINYD 414
+ + G + ++ GLD+ +V V D
Sbjct: 483 RDLRLGHYDCLVGINLLREGLDIPEVSLVAILD 515
>pdb|1D2M|A Chain A, Uvrb Protein Of Thermus Thermophilus Hb8; A Nucleotide
Excision Repair Enzyme
Length = 665
Score = 33.9 bits (76), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 21/93 (22%), Positives = 44/93 (47%), Gaps = 4/93 (4%)
Query: 326 NKLVKLLEDIMD----GSRILIFMDTKKGCDQITRQLRMDGWPALSIHGDKSQAERDWVL 381
N+++ L+E I + G R L+ + T + +++T L G A +H + +R ++
Sbjct: 424 NQILDLMEGIRERAARGERTLVTVLTVRMAEELTSFLVEHGIRARYLHHELDAFKRQALI 483
Query: 382 SEFKAGKSPIMTATDVAARGLDVKDVKYVINYD 414
+ + G + ++ GLD+ +V V D
Sbjct: 484 RDLRLGHYDCLVGINLLREGLDIPEVSLVAILD 516
>pdb|3TBK|A Chain A, Mouse Rig-I Atpase Domain
Length = 555
Score = 33.1 bits (74), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 16/42 (38%), Positives = 26/42 (61%), Gaps = 1/42 (2%)
Query: 379 WVLSEFKA-GKSPIMTATDVAARGLDVKDVKYVINYDFPGSL 419
VL F+A G + I+ AT VA G+D+ + VI Y++ G++
Sbjct: 442 CVLEAFRASGDNNILIATSVADEGIDIAECNLVILYEYVGNV 483
>pdb|3JUX|A Chain A, Structure Of The Translocation Atpase Seca From Thermotoga
Maritima
Length = 822
Score = 32.0 bits (71), Expect = 0.76, Method: Compositional matrix adjust.
Identities = 26/97 (26%), Positives = 52/97 (53%), Gaps = 7/97 (7%)
Query: 313 RQHVDIV--SESQKYNKLVKLLED-IMDGSRILIFMDTKKGCDQITRQLRMDGWPALSIH 369
+ H D+V ++ +KY K+V+ +E G +L+ + + + ++ L+ G P ++
Sbjct: 446 KDHDDLVFRTQKEKYEKIVEEIEKRYKKGQPVLVGTTSIEKSELLSSMLKKKGIPHQVLN 505
Query: 370 GDKSQAERDWVLSEFKAGKSPIMT-ATDVAARGLDVK 405
+ E + V KAG+ ++T AT++A RG D+K
Sbjct: 506 AKYHEKEAEIVA---KAGQKGMVTIATNMAGRGTDIK 539
>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 = 32.0 bits (71), Expect = 0.81, Method: Compositional matrix adjust.
Identities = 26/97 (26%), Positives = 52/97 (53%), Gaps = 7/97 (7%)
Query: 313 RQHVDIV--SESQKYNKLVKLLED-IMDGSRILIFMDTKKGCDQITRQLRMDGWPALSIH 369
+ H D+V ++ +KY K+V+ +E G +L+ + + + ++ L+ G P ++
Sbjct: 446 KDHDDLVFRTQKEKYEKIVEEIEKRYKKGQPVLVGTTSIEKSELLSSMLKKKGIPHQVLN 505
Query: 370 GDKSQAERDWVLSEFKAGKSPIMT-ATDVAARGLDVK 405
+ E + V KAG+ ++T AT++A RG D+K
Sbjct: 506 AKYHEKEAEIVA---KAGQKGMVTIATNMAGRGTDIK 539
>pdb|2FWR|A Chain A, Structure Of Archaeoglobus Fulgidis Xpb
pdb|2FWR|B Chain B, Structure Of Archaeoglobus Fulgidis Xpb
pdb|2FWR|C Chain C, Structure Of Archaeoglobus Fulgidis Xpb
pdb|2FWR|D Chain D, Structure Of Archaeoglobus Fulgidis Xpb
Length = 472
Score = 32.0 bits (71), Expect = 0.89, Method: Compositional matrix adjust.
Identities = 27/102 (26%), Positives = 50/102 (49%), Gaps = 9/102 (8%)
Query: 326 NKLVKLLEDIMDGSR---ILIFMDTKKGCDQITRQLRMDGWPALSIHGDKSQAERDWVLS 382
NK+ KL E I++ R I+IF + +I++ + PA++ S+ ER+ +L
Sbjct: 335 NKIRKLRE-ILERHRKDKIIIFTRHNELVYRISKVFLI---PAIT--HRTSREEREEILE 388
Query: 383 EFKAGKSPIMTATDVAARGLDVKDVKYVINYDFPGSLEDYVH 424
F+ G+ + ++ V G+DV D + GS +Y+
Sbjct: 389 GFRTGRFRAIVSSQVLDEGIDVPDANVGVIMSGSGSAREYIQ 430
>pdb|2FZL|A Chain A, Structure Of C-Terminal Domain Of Archaeoglobus Fulgidus
Xpb
Length = 219
Score = 31.2 bits (69), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 27/102 (26%), Positives = 50/102 (49%), Gaps = 9/102 (8%)
Query: 326 NKLVKLLEDIMDGSR---ILIFMDTKKGCDQITRQLRMDGWPALSIHGDKSQAERDWVLS 382
NK+ KL E I++ R I+IF + +I++ + PA++ S+ ER+ +L
Sbjct: 100 NKIRKLRE-ILERHRKDKIIIFTRHNELVYRISKVFLI---PAIT--HRTSREEREEILE 153
Query: 383 EFKAGKSPIMTATDVAARGLDVKDVKYVINYDFPGSLEDYVH 424
F+ G+ + ++ V G+DV D + GS +Y+
Sbjct: 154 GFRTGRFRAIVSSQVLDEGIDVPDANVGVIMSGSGSAREYIQ 195
>pdb|3EQM|A Chain A, Crystal Structure Of Human Placental Aromatase Cytochrome
P450 In Complex With Androstenedione
pdb|3S79|A Chain A, Human Placental Aromatase Cytochrome P450 (Cyp19a1)
Refined At 2.75 Angstrom
pdb|3S7S|A Chain A, Crystal Structure Of Human Placental Aromatase Complexed
With Breast Cancer Drug Exemestane
pdb|4GL5|A Chain A, Structure Of Human Placental Aromatase Complexed With
Designed Inhibitor Hddg029 (Compound 4)
pdb|4GL7|A Chain A, Structure Of Human Placental Aromatase Complexed With
Designed Inhibitor Hddg046 (Compound 5)
Length = 503
Score = 30.8 bits (68), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 43/174 (24%), Positives = 78/174 (44%), Gaps = 32/174 (18%)
Query: 210 VRDLQKGVEIVIATPGRLIDMLESHNTNLRRVTYLVLDEADRMLDMGFEPQIKKILSQI- 268
V+DL+ +E++IA R I E + T L+L A++ D+ E + IL +
Sbjct: 248 VKDLKDAIEVLIAEKRRRISTEEKLEECMDFATELIL--AEKRGDLTRENVNQCILEMLI 305
Query: 269 -RPDRQT------LYWSATWPKEVEHLARQYLYNPYKVIIGSPDLKANHAIRQHV--DIV 319
PD + L+ A P E + ++ + +IG D+K + + V + +
Sbjct: 306 AAPDTMSVSLFFMLFLIAKHPNVEEAIIKE-----IQTVIGERDIKIDDIQKLKVMENFI 360
Query: 320 SESQKYNKLVKLL------EDIMDGSRILIFMDTKKGCD---QITRQLRMDGWP 364
ES +Y +V L+ +D++DG + KKG + I R R++ +P
Sbjct: 361 YESMRYQPVVDLVMRKALEDDVIDGYPV------KKGTNIILNIGRMHRLEFFP 408
>pdb|3KX2|B Chain B, Crystal Structure Of Prp43p In Complex With Adp
pdb|3KX2|A Chain A, Crystal Structure Of Prp43p In Complex With Adp
Length = 767
Score = 30.4 bits (67), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 43/157 (27%), Positives = 67/157 (42%), Gaps = 20/157 (12%)
Query: 133 LIGIAETGSGKTLAYLLPAIVHVNAQPFLAPGDGPIVLVLAPTRELAVQIQQESTKFGAS 192
++ + ETGSGKT +P V + P L + V P R A+ + Q +
Sbjct: 112 MVFVGETGSGKTTQ--IPQFVLFDEMPHL---ENTQVACTQPRRVAAMSVAQ---RVAEE 163
Query: 193 SKIKSTCIYGGVPKGPQVRDLQKGVEIVI---ATPGRLI-DMLESHNTNLRRVTYLVLDE 248
+K G G +R K I T G L+ + +E H +L R + ++LDE
Sbjct: 164 MDVKL-----GEEVGYSIRFENKTSNKTILKYMTDGMLLREAMEDH--DLSRYSCIILDE 216
Query: 249 A-DRMLDMGFEPQIKKILSQIRPDRQTLYWSATWPKE 284
A +R L + K + + RPD + + SAT E
Sbjct: 217 AHERTLATDILMGLLKQVVKRRPDLKIIIMSATLDAE 253
>pdb|2XAU|A Chain A, Crystal Structure Of The Prp43p Deah-Box Rna Helicase In
Complex With Adp
pdb|2XAU|B Chain B, Crystal Structure Of The Prp43p Deah-Box Rna Helicase In
Complex With Adp
Length = 773
Score = 30.4 bits (67), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 43/157 (27%), Positives = 67/157 (42%), Gaps = 20/157 (12%)
Query: 133 LIGIAETGSGKTLAYLLPAIVHVNAQPFLAPGDGPIVLVLAPTRELAVQIQQESTKFGAS 192
++ + ETGSGKT +P V + P L + V P R A+ + Q +
Sbjct: 112 MVFVGETGSGKTTQ--IPQFVLFDEMPHL---ENTQVACTQPRRVAAMSVAQ---RVAEE 163
Query: 193 SKIKSTCIYGGVPKGPQVRDLQKGVEIVI---ATPGRLI-DMLESHNTNLRRVTYLVLDE 248
+K G G +R K I T G L+ + +E H +L R + ++LDE
Sbjct: 164 MDVKL-----GEEVGYSIRFENKTSNKTILKYMTDGMLLREAMEDH--DLSRYSCIILDE 216
Query: 249 A-DRMLDMGFEPQIKKILSQIRPDRQTLYWSATWPKE 284
A +R L + K + + RPD + + SAT E
Sbjct: 217 AHERTLATDILMGLLKQVVKRRPDLKIIIMSATLDAE 253
>pdb|2ZJO|A Chain A, Crystal Structure Of Hepatitis C Virus Ns3 Helicase With A
Novel Inhibitor
Length = 482
Score = 30.4 bits (67), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 26/90 (28%), Positives = 40/90 (44%), Gaps = 10/90 (11%)
Query: 325 YNKLVKLLEDIMDGSRILIFMDTKKGCDQITRQLRMDGWPALSIHGDKSQAERDWVLSEF 384
Y K + + + + G R LIF +KK CD++ +L AL IH D +S
Sbjct: 195 YGKAIPI--ETIKGGRHLIFCHSKKKCDELAAKLS-----ALGIHAVAYYRGLD--VSVI 245
Query: 385 KAGKSPIMTATDVAARGLDVKDVKYVINYD 414
A + ++ ATD G D VI+ +
Sbjct: 246 PASGNVVVVATDALMTGF-TGDFDSVIDCN 274
>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 = 30.4 bits (67), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 21/78 (26%), Positives = 35/78 (44%), Gaps = 9/78 (11%)
Query: 325 YNKLVKLLEDIMDGSRILIFMDTKKGCDQITRQLRMDGWPALSIHGDKSQAERDWVLSEF 384
Y K + L +++ G R LIF +KK CD++ +L G A++ + R +S
Sbjct: 28 YGKAIPL--EVIKGGRHLIFCHSKKKCDELAAKLVALGINAVAYY-------RGLDVSVI 78
Query: 385 KAGKSPIMTATDVAARGL 402
++ ATD G
Sbjct: 79 PTNGDVVVVATDALMTGF 96
>pdb|1A1V|A Chain A, Hepatitis C Virus Ns3 Helicase Domain Complexed With
Single Stranded Sdna
Length = 476
Score = 30.4 bits (67), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 15/45 (33%), Positives = 26/45 (57%), Gaps = 2/45 (4%)
Query: 325 YNKLVKLLEDIMDGSRILIFMDTKKGCDQITRQLRMDGWPALSIH 369
Y K + L +++ G R LIF +KK CD++ +L G A++ +
Sbjct: 185 YGKAIPL--EVIKGGRHLIFCHSKKKCDELAAKLVALGINAVAYY 227
>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 = 30.0 bits (66), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 14/46 (30%), Positives = 25/46 (54%), Gaps = 1/46 (2%)
Query: 380 VLSEFKAGK-SPIMTATDVAARGLDVKDVKYVINYDFPGSLEDYVH 424
VL FK K + ++ AT VA G+D+ V+ Y++ G++ +
Sbjct: 444 VLDAFKTSKDNRLLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQ 489
>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 = 30.0 bits (66), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 14/46 (30%), Positives = 25/46 (54%), Gaps = 1/46 (2%)
Query: 380 VLSEFKAGK-SPIMTATDVAARGLDVKDVKYVINYDFPGSLEDYVH 424
VL FK K + ++ AT VA G+D+ V+ Y++ G++ +
Sbjct: 685 VLDAFKTSKDNRLLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQ 730
>pdb|8OHM|A Chain A, Crystal Structure Of Rna Helicase From Genotype 1b
Hepatitis C Virus: Mechanism Of Unwinding Duplex Rna
Length = 435
Score = 30.0 bits (66), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 14/45 (31%), Positives = 26/45 (57%), Gaps = 2/45 (4%)
Query: 325 YNKLVKLLEDIMDGSRILIFMDTKKGCDQITRQLRMDGWPALSIH 369
Y K + + +++ G R LIF +KK CD++ +L G A++ +
Sbjct: 161 YGKAIPI--EVIRGGRHLIFCHSKKKCDELAAKLSALGLNAVAYY 203
>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 = 3.7, Method: Compositional matrix adjust.
Identities = 14/41 (34%), Positives = 24/41 (58%), Gaps = 1/41 (2%)
Query: 380 VLSEFKAGK-SPIMTATDVAARGLDVKDVKYVINYDFPGSL 419
VL FK K + ++ AT VA G+D+ V+ Y++ G++
Sbjct: 685 VLDAFKTSKDNRLLIATSVADEGIDIVQCNLVVLYEYSGNV 725
>pdb|3SOY|A Chain A, Nuclear Transport Factor 2 (Ntf2-Like) Superfamily Protein
From Salmonella Enterica Subsp. Enterica Serovar
Typhimurium Str. Lt2
Length = 145
Score = 29.3 bits (64), Expect = 4.9, Method: Composition-based stats.
Identities = 13/36 (36%), Positives = 20/36 (55%)
Query: 344 FMDTKKGCDQITRQLRMDGWPALSIHGDKSQAERDW 379
F T G R L++D PA+ ++G+ + AE DW
Sbjct: 60 FYGTTXGKTFSKRTLKLDAPPAIHVYGNAAVAEFDW 95
>pdb|3K89|A Chain A, Structure Of X. Oryzae Pv. Oryzae Kacc10331, Xoo0880(Fabd)
Complexed With Glycerol
pdb|3R97|A Chain A, Crystal Structure Of Malonyl-Coa:acyl Carrier Protein
Transacylase (Fabd), Xoo0880, From Xanthomonas Oryzae
Pv. Oryzae Kacc10331
Length = 314
Score = 28.9 bits (63), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 18/49 (36%), Positives = 26/49 (53%), Gaps = 1/49 (2%)
Query: 118 PIQAQGWPMALKGRDLIGIAETGSGKTLAYLLPAI-VHVNAQPFLAPGD 165
P+Q G AL + + IAE G GK L+ L+ I ++A+P P D
Sbjct: 256 PVQWTGCVQALASQGITRIAECGPGKVLSGLIKRIDKSLDARPLATPAD 304
>pdb|1Z5Z|A Chain A, Sulfolobus Solfataricus Swi2SNF2 ATPASE C-Terminal Domain
pdb|1Z5Z|B Chain B, Sulfolobus Solfataricus Swi2SNF2 ATPASE C-Terminal Domain
Length = 271
Score = 28.9 bits (63), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 27/102 (26%), Positives = 51/102 (50%), Gaps = 8/102 (7%)
Query: 319 VSESQKYNKLVKLLEDIMD-GSRILIF---MDTKKGCDQITRQLRMDGWPALSIHGDKSQ 374
V S K + ++++E+ +D G +I IF +D K I + P L +G+ S+
Sbjct: 92 VRRSGKMIRTMEIIEEALDEGDKIAIFTQFVDMGKIIRNIIEKELNTEVPFL--YGELSK 149
Query: 375 AERDWVLSEFKAGKSP--IMTATDVAARGLDVKDVKYVINYD 414
ERD ++S+F+ S I+ + G+++ VI++D
Sbjct: 150 KERDDIISKFQNNPSVKFIVLSVKAGGFGINLTSANRVIHFD 191
>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 = 28.5 bits (62), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 55/269 (20%), Positives = 111/269 (41%), Gaps = 26/269 (9%)
Query: 100 FPDYVMQEISKAGFFEPTPIQAQGWPMALKGRDLIGIAETGSGKTLAYLLPAIVHVNAQP 159
Y + + + G E P QA+ G++L+ T +GKT LL + V
Sbjct: 10 ISSYAVGILKEEGIEELFPPQAEAVEKVFSGKNLLLAMPTAAGKT---LLAEMAMVREAI 66
Query: 160 FLAPGDGPIVLVLAPTRELAVQIQQESTKFGASSKIKSTCIYGGVPKGP-QVRDLQKG-V 217
G L + P R LA K+ + K + + G+ G + RD G
Sbjct: 67 -----KGGKSLYVVPLRALA------GEKYESFKKWEKIGLRIGISTGDYESRDEHLGDC 115
Query: 218 EIVIATPGRLIDMLESHNTNLRRVTYLVLDEADRMLDMGFEPQIKKILSQIRPDRQTLY- 276
+I++ T + ++ + + ++ V+ LV+DE + ++ +++++R + L
Sbjct: 116 DIIVTTSEKADSLIRNRASWIKAVSCLVVDEIHLLDSEKRGATLEILVTKMRRMNKALRV 175
Query: 277 --WSATWPKEV---EHLARQYLYNPYKVIIGSPDLKANHAIRQHVDIVSESQ--KYNKLV 329
SAT P E L Y + ++ + + + S S+ K+ +LV
Sbjct: 176 IGLSATAPNVTEIAEWLDADYYVSDWRPVPLVEGVLCEGTLELFDGAFSTSRRVKFEELV 235
Query: 330 KLLEDIMDGSRILIFMDTKKGCDQITRQL 358
+ E + + +L+F T++G ++ +L
Sbjct: 236 E--ECVAENGGVLVFESTRRGAEKTAVKL 262
>pdb|1Z6A|A Chain A, Sulfolobus Solfataricus Swi2SNF2 ATPASE CORE DOMAIN
Length = 500
Score = 28.5 bits (62), Expect = 8.3, Method: Compositional matrix adjust.
Identities = 27/102 (26%), Positives = 51/102 (50%), Gaps = 8/102 (7%)
Query: 319 VSESQKYNKLVKLLEDIMD-GSRILIF---MDTKKGCDQITRQLRMDGWPALSIHGDKSQ 374
V S K + ++++E+ +D G +I IF +D K I + P L +G+ S+
Sbjct: 321 VRRSGKMIRTMEIIEEALDEGDKIAIFTQFVDMGKIIRNIIEKELNTEVPFL--YGELSK 378
Query: 375 AERDWVLSEFKAGKSP--IMTATDVAARGLDVKDVKYVINYD 414
ERD ++S+F+ S I+ + G+++ VI++D
Sbjct: 379 KERDDIISKFQNNPSVKFIVLSVKAGGFGINLTSANRVIHFD 420
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.318 0.136 0.404
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 13,086,152
Number of Sequences: 62578
Number of extensions: 523385
Number of successful extensions: 1518
Number of sequences better than 100.0: 104
Number of HSP's better than 100.0 without gapping: 78
Number of HSP's successfully gapped in prelim test: 26
Number of HSP's that attempted gapping in prelim test: 1308
Number of HSP's gapped (non-prelim): 123
length of query: 498
length of database: 14,973,337
effective HSP length: 103
effective length of query: 395
effective length of database: 8,527,803
effective search space: 3368482185
effective search space used: 3368482185
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 53 (25.0 bits)