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= 013965
(433 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 = 335 bits (859), Expect = 3e-92, Method: Compositional matrix adjust.
Identities = 159/251 (63%), Positives = 189/251 (75%)
Query: 59 FEKNFYVESPSVAAMSXXXXXXXXXXXXITVEGRDVPKPVKSFRDVGFPDYVMQEISKAG 118
FEKNFY E P +A + ITV G + PKPV +F + FP VM I++
Sbjct: 3 FEKNFYQEHPDLARRTAQEVETYRRSKEITVRGHNCPKPVLNFYEANFPANVMDVIARQN 62
Query: 119 FFEPTPIQAQGWPMALKGRDLIGIAETGSGKTLAYLLPAIVHVNAQPFLAPGDGPIVLVL 178
F EPT IQAQGWP+AL G D++G+A+TGSGKTL+YLLPAIVH+N QPFL GDGPI LVL
Sbjct: 63 FTEPTAIQAQGWPVALSGLDMVGVAQTGSGKTLSYLLPAIVHINHQPFLERGDGPICLVL 122
Query: 179 APTRELAVQIQQESTKFGASSKIKSTCIYGGVPKGPQVRDLQKGVEIVIATPGRLIDMLE 238
APTRELA Q+QQ + ++ + ++KSTCIYGG PKGPQ+RDL++GVEI IATPGRLID LE
Sbjct: 123 APTRELAQQVQQVAAEYCRACRLKSTCIYGGAPKGPQIRDLERGVEICIATPGRLIDFLE 182
Query: 239 SHNTNLRRVTYLVLDEADRMLDMGFEPQIKKILSQIRPDRQTLYWSATWPKEVEHLARQY 298
TNLRR TYLVLDEADRMLDMGFEPQI+KI+ QIRPDRQTL WSATWPKEV LA +
Sbjct: 183 CGKTNLRRTTYLVLDEADRMLDMGFEPQIRKIVDQIRPDRQTLMWSATWPKEVRQLAEDF 242
Query: 299 LYNPYKVIIGS 309
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 = 322 bits (824), Expect = 4e-88, Method: Compositional matrix adjust.
Identities = 151/226 (66%), Positives = 180/226 (79%)
Query: 87 ITVEGRDVPKPVKSFRDVGFPDYVMQEISKAGFFEPTPIQAQGWPMALKGRDLIGIAETG 146
ITV G + PKPV +F + FP VM I++ F EPT IQAQGWP+AL G D++G+A+TG
Sbjct: 17 ITVRGHNCPKPVLNFYEANFPANVMDVIARQNFTEPTAIQAQGWPVALSGLDMVGVAQTG 76
Query: 147 SGKTLAYLLPAIVHVNAQPFLAPGDGPIVLVLAPTRELAVQIQQESTKFGASSKIKSTCI 206
SGKTL+YLLPAIVH+N QPFL GDGPI LVLAPTRELA Q+QQ + ++ + ++KSTCI
Sbjct: 77 SGKTLSYLLPAIVHINHQPFLERGDGPICLVLAPTRELAQQVQQVAAEYCRACRLKSTCI 136
Query: 207 YGGVPKGPQVRDLQKGVEIVIATPGRLIDMLESHNTNLRRVTYLVLDEADRMLDMGFEPQ 266
YGG PKGPQ+RDL++GVEI IATPGRLID LE TNLRR TYLVLDEADRMLDMGFEPQ
Sbjct: 137 YGGAPKGPQIRDLERGVEICIATPGRLIDFLECGKTNLRRTTYLVLDEADRMLDMGFEPQ 196
Query: 267 IKKILSQIRPDRQTLYWSATWPKEVEHLARQYLYNPYKVIIGSPDL 312
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 = 260 bits (664), Expect = 1e-69, Method: Compositional matrix adjust.
Identities = 144/342 (42%), Positives = 203/342 (59%), Gaps = 24/342 (7%)
Query: 87 ITVEGRDVPKPVKSFRDVGFPDYVMQEISKAGFFEPTPIQAQGWPMALKGRDLIGIAETG 146
+ G + P ++SF DV + +M I + PTP+Q P+ + RDL+ A+TG
Sbjct: 3 VEATGNNCPPHIESFSDVEMGEIIMGNIELTRYTRPTPVQKHAIPIIKEKRDLMACAQTG 62
Query: 147 SGKTLAYLLPAIVHVNAQPFLAPGDG----------------PIVLVLAPTRELAVQIQQ 190
SGKT A+LLP + + + PG+ PI LVLAPTRELAVQI +
Sbjct: 63 SGKTAAFLLPILSQIYSD---GPGEALRAMKENGRYGRRKQYPISLVLAPTRELAVQIYE 119
Query: 191 ESTKFGASSKIKSTCIYGGVPKGPQVRDLQKGVEIVIATPGRLIDMLESHNTNLRRVTYL 250
E+ KF S+++ +YGG G Q+RDL++G +++ATPGRL+DM+E L YL
Sbjct: 120 EARKFSYRSRVRPCVVYGGADIGQQIRDLERGCHLLVATPGRLVDMMERGKIGLDFCKYL 179
Query: 251 VLDEADRMLDMGFEPQIKKILSQI----RPDRQTLYWSATWPKEVEHLARQYLYNPYKVI 306
VLDEADRMLDMGFEPQI++I+ Q + R T+ +SAT+PKE++ LAR +L +
Sbjct: 180 VLDEADRMLDMGFEPQIRRIVEQDTMPPKGVRHTMMFSATFPKEIQMLARDFLDEYIFLA 239
Query: 307 IGSPDLKANHAIRQHVDIVSESQKYNKLVKLLEDIMDGSRILIFMDTKKGCDQITRQLRM 366
+G + I Q V V ES K + L+ LL S L+F++TKKG D + L
Sbjct: 240 VGRVG-STSENITQKVVWVEESDKRSFLLDLLNATGKDSLTLVFVETKKGADSLEDFLYH 298
Query: 367 DGWPALSIHGDKSQAERDWVLSEFKAGKSPIMTATDVAARGL 408
+G+ SIHGD+SQ +R+ L +F++GKSPI+ AT VAARGL
Sbjct: 299 EGYACTSIHGDRSQRDREEALHQFRSGKSPILVATAVAARGL 340
>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 = 237 bits (605), Expect = 8e-63, Method: Compositional matrix adjust.
Identities = 125/324 (38%), Positives = 198/324 (61%), Gaps = 5/324 (1%)
Query: 87 ITVEGRDVPKPVKSFRDVGFPDYVMQEISKAGFFEPTPIQAQGWPMALKGRDLIGIAETG 146
+ V G DVP+P++ F D ++ ++K+G+ PTPIQ P+ GRDL+ A+TG
Sbjct: 44 VKVTGSDVPQPIQHFTSADLRDIIIDNVNKSGYKIPTPIQKCSIPVISSGRDLMACAQTG 103
Query: 147 SGKTLAYLLPAIVHVNAQPFLAPGDGPIVLVLAPTRELAVQIQQESTKFGASSKIKSTCI 206
SGKT A+LLP + + P P V++++PTRELA+QI E+ KF S +K +
Sbjct: 104 SGKTAAFLLPILSKLLEDPHELELGRPQVVIVSPTRELAIQIFNEARKFAFESYLKIGIV 163
Query: 207 YGGVPKGPQVRDLQKGVEIVIATPGRLIDMLESHNTNLRRVTYLVLDEADRMLDMGFEPQ 266
YGG Q + +G +VIATPGRL+D ++ ++VLDEADRMLDMGF
Sbjct: 164 YGGTSFRHQNECITRGCHVVIATPGRLLDFVDRTFITFEDTRFVVLDEADRMLDMGFSED 223
Query: 267 IKKILSQI--RPDRQTLYWSATWPKEVEHLARQYLYNPYKVIIGSPDLKANHAIRQHVDI 324
+++I++ + RP+ QTL +SAT+P+E++ +A ++L N V IG A ++Q +
Sbjct: 224 MRRIMTHVTMRPEHQTLMFSATFPEEIQRMAGEFLKNYVFVAIGIVG-GACSDVKQTIYE 282
Query: 325 VSESQKYNKLVKLLEDIMDGSRILIFMDTKKGCDQITRQLRMDGWPALSIHGDKSQAERD 384
V++ K +KL+++L + DG+ ++F++TK+G D + L +P SIHGD+ Q++R+
Sbjct: 283 VNKYAKRSKLIEILSEQADGT--IVFVETKRGADFLASFLSEKEFPTTSIHGDRLQSQRE 340
Query: 385 WVLSEFKAGKSPIMTATDVAARGL 408
L +FK G ++ AT VA+RGL
Sbjct: 341 QALRDFKNGSMKVLIATSVASRGL 364
>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 = 228 bits (582), Expect = 4e-60, Method: Compositional matrix adjust.
Identities = 112/221 (50%), Positives = 157/221 (71%), Gaps = 5/221 (2%)
Query: 90 EGRDVPKPVKSFRDV--GFPDYVMQEISKAGFFEPTPIQAQGWPMALKGRDLIGIAETGS 147
E R +PKP F+D +PD +++ I + G +PTPIQ+Q WP+ L+G DLI +A+TG+
Sbjct: 10 EKRLIPKPTCRFKDAFQQYPD-LLKSIIRVGILKPTPIQSQAWPIILQGIDLIVVAQTGT 68
Query: 148 GKTLAYLLPAIVHVNAQPF-LAPGDGPIVLVLAPTRELAVQIQQESTKFGASSKIKSTCI 206
GKTL+YL+P +H+++QP +GP +LVL PTRELA+ ++ E +K+ +KS CI
Sbjct: 69 GKTLSYLMPGFIHLDSQPISREQRNGPGMLVLTPTRELALHVEAECSKYSYKG-LKSICI 127
Query: 207 YGGVPKGPQVRDLQKGVEIVIATPGRLIDMLESHNTNLRRVTYLVLDEADRMLDMGFEPQ 266
YGG + Q+ D+ KGV+I+IATPGRL D+ +++ NLR +TYLV+DEAD+MLDM FEPQ
Sbjct: 128 YGGRNRNGQIEDISKGVDIIIATPGRLNDLQMNNSVNLRSITYLVIDEADKMLDMEFEPQ 187
Query: 267 IKKILSQIRPDRQTLYWSATWPKEVEHLARQYLYNPYKVII 307
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 = 188 bits (477), Expect = 6e-48, Method: Compositional matrix adjust.
Identities = 113/319 (35%), Positives = 176/319 (55%), Gaps = 17/319 (5%)
Query: 100 SFRDVGFPDYVMQEISKAGFFEPTPIQAQGWPMALKGR-DLIGIAETGSGKTLAYLLPAI 158
+F ++ D ++ I GF +PT IQ + P+ L +++ A TGSGKT ++ +P I
Sbjct: 7 NFNELNLSDNILNAIRNKGFEKPTDIQXKVIPLFLNDEYNIVAQARTGSGKTASFAIPLI 66
Query: 159 VHVNAQPFLAPGDGPIVLVLAPTRELAVQIQQESTKFGASSKIKSTCIYGGVPKGPQVRD 218
VN +G ++L PTRELA+Q+ E + +K IYGG PQ++
Sbjct: 67 ELVN------ENNGIEAIILTPTRELAIQVADEIESLKGNKNLKIAKIYGGKAIYPQIKA 120
Query: 219 LQKGVEIVIATPGRLIDMLESHNTNLRRVTYLVLDEADRMLDMGFEPQIKKILSQIRPDR 278
L K IV+ TPGR++D + NL+ V Y +LDEAD L+ GF ++KIL+ D+
Sbjct: 121 L-KNANIVVGTPGRILDHINRGTLNLKNVKYFILDEADEXLNXGFIKDVEKILNACNKDK 179
Query: 279 QTLYWSATWPKEVEHLARQYLYNPYKVIIGSPDLKANHAIRQHVDIVSESQKYNKLVKLL 338
+ L +SAT P+E+ +LA++Y Y I K N I Q V+E++++ L +LL
Sbjct: 180 RILLFSATXPREILNLAKKYX-GDYSFI----KAKINANIEQSYVEVNENERFEALCRLL 234
Query: 339 EDIMDGSRILIFMDTKKGCDQITRQLRMDGWPALSIHGDKSQAERDWVLSEFKAGKSPIM 398
++ L+F TK+ ++ LR G+ A +IHGD SQ++R+ V+ FK K I+
Sbjct: 235 KN--KEFYGLVFCKTKRDTKELASXLRDIGFKAGAIHGDLSQSQREKVIRLFKQKKIRIL 292
Query: 399 TATDVAARGL--GNCACVI 415
ATDV +RG+ + CVI
Sbjct: 293 IATDVXSRGIDVNDLNCVI 311
>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 = 187 bits (476), Expect = 7e-48, Method: Compositional matrix adjust.
Identities = 94/219 (42%), Positives = 138/219 (63%), Gaps = 8/219 (3%)
Query: 98 VKSFRDVGFPDYVMQEISKAGFFEPTPIQAQGWPMALKGRDLIGIAETGSGKTLAYLLPA 157
+++F ++ + I A + PTPIQ P L+ RD++ A+TGSGKT A+L+P
Sbjct: 22 IENFDELKLDPTIRNNILLASYQRPTPIQKNAIPAILEHRDIMACAQTGSGKTAAFLIPI 81
Query: 158 IVHVNAQPF----LAPGDGPIVLVLAPTRELAVQIQQESTKFGASSKIKSTCIYGGVPKG 213
I H+ Q + P L+LAPTRELA+QI ES KF ++ ++S +YGG
Sbjct: 82 INHLVCQDLNQQRYSKTAYPKCLILAPTRELAIQILSESQKFSLNTPLRSCVVYGGADTH 141
Query: 214 PQVRDLQKGVEIVIATPGRLIDMLESHNTNLRRVTYLVLDEADRMLDMGFEPQIKKILSQ 273
Q+R++Q G +++ATPGRL+D +E + +L Y+VLDEADRMLDMGFEPQI+KI+ +
Sbjct: 142 SQIREVQMGCHLLVATPGRLVDFIEKNKISLEFCKYIVLDEADRMLDMGFEPQIRKIIEE 201
Query: 274 IRP----DRQTLYWSATWPKEVEHLARQYLYNPYKVIIG 308
+RQTL +SAT+PKE++ LA +LYN + +G
Sbjct: 202 SNMPSGINRQTLMFSATFPKEIQKLAADFLYNYIFMTVG 240
>pdb|2J0U|B Chain B, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 179 bits (454), Expect = 3e-45, Method: Compositional matrix adjust.
Identities = 100/309 (32%), Positives = 169/309 (54%), Gaps = 6/309 (1%)
Query: 100 SFRDVGFPDYVMQEISKAGFFEPTPIQAQGWPMALKGRDLIGIAETGSGKTLAYLLPAIV 159
+F +G + +++ I GF +P+ IQ + +KGRD+I +++G+GKT + + +
Sbjct: 2 TFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSVSVLQ 61
Query: 160 HVNAQPFLAPGDGPIVLVLAPTRELAVQIQQESTKFGASSKIKSTCIYGGVPKGPQVRDL 219
++ Q L+LAPTRELAVQ+Q+ G ++S GG G +R L
Sbjct: 62 CLDIQVRETQA-----LILAPTRELAVQVQKGLLALGDYMNVQSHACIGGTNVGEDIRKL 116
Query: 220 QKGVEIVIATPGRLIDMLESHNTNLRRVTYLVLDEADRMLDMGFEPQIKKILSQIRPDRQ 279
G +V TPGR+ DM+ + R + LVLDEAD ML+ GF+ QI + + P Q
Sbjct: 117 DYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQ 176
Query: 280 TLYWSATWPKEVEHLARQYLYNPYKVIIGSPDLKANHAIRQHVDIVSESQKYNKLVKLLE 339
+ SAT P EV + +++ +P ++++ +L + V + E K++ L L
Sbjct: 177 VVLISATLPHEVLEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLY- 235
Query: 340 DIMDGSRILIFMDTKKGCDQITRQLRMDGWPALSIHGDKSQAERDWVLSEFKAGKSPIMT 399
D + ++ +IF +TK+ D +T ++R + S+HGD Q ER+ ++ EF++G S ++
Sbjct: 236 DTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLI 295
Query: 400 ATDVAARGL 408
+TDV ARGL
Sbjct: 296 STDVWARGL 304
>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 = 178 bits (452), Expect = 5e-45, Method: Compositional matrix adjust.
Identities = 99/309 (32%), Positives = 168/309 (54%), Gaps = 6/309 (1%)
Query: 100 SFRDVGFPDYVMQEISKAGFFEPTPIQAQGWPMALKGRDLIGIAETGSGKTLAYLLPAIV 159
+F +G + +++ I GF +P+ IQ + +KGRD+I +++G+GKT + + +
Sbjct: 17 TFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQ 76
Query: 160 HVNAQPFLAPGDGPIVLVLAPTRELAVQIQQESTKFGASSKIKSTCIYGGVPKGPQVRDL 219
++ Q L+LAPTRELAVQIQ+ G ++ GG G +R L
Sbjct: 77 CLDIQVRETQA-----LILAPTRELAVQIQKGLLALGDYMNVQCHACIGGTNVGEDIRKL 131
Query: 220 QKGVEIVIATPGRLIDMLESHNTNLRRVTYLVLDEADRMLDMGFEPQIKKILSQIRPDRQ 279
G +V TPGR+ DM+ + R + LVLDEAD ML+ GF+ QI + + P Q
Sbjct: 132 DYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQ 191
Query: 280 TLYWSATWPKEVEHLARQYLYNPYKVIIGSPDLKANHAIRQHVDIVSESQKYNKLVKLLE 339
+ SAT P E+ + +++ +P ++++ +L + V + E K++ L L
Sbjct: 192 VVLISATLPHEILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLY- 250
Query: 340 DIMDGSRILIFMDTKKGCDQITRQLRMDGWPALSIHGDKSQAERDWVLSEFKAGKSPIMT 399
D + ++ +IF +TK+ D +T ++R + S+HGD Q ER+ ++ EF++G S ++
Sbjct: 251 DTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLI 310
Query: 400 ATDVAARGL 408
+TDV ARGL
Sbjct: 311 STDVWARGL 319
>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 = 178 bits (452), Expect = 5e-45, Method: Compositional matrix adjust.
Identities = 99/309 (32%), Positives = 168/309 (54%), Gaps = 6/309 (1%)
Query: 100 SFRDVGFPDYVMQEISKAGFFEPTPIQAQGWPMALKGRDLIGIAETGSGKTLAYLLPAIV 159
+F +G + +++ I GF +P+ IQ + +KGRD+I +++G+GKT + + +
Sbjct: 39 TFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQ 98
Query: 160 HVNAQPFLAPGDGPIVLVLAPTRELAVQIQQESTKFGASSKIKSTCIYGGVPKGPQVRDL 219
++ Q L+LAPTRELAVQIQ+ G ++ GG G +R L
Sbjct: 99 CLDIQVRETQA-----LILAPTRELAVQIQKGLLALGDYMNVQCHACIGGTNVGEDIRKL 153
Query: 220 QKGVEIVIATPGRLIDMLESHNTNLRRVTYLVLDEADRMLDMGFEPQIKKILSQIRPDRQ 279
G +V TPGR+ DM+ + R + LVLDEAD ML+ GF+ QI + + P Q
Sbjct: 154 DYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQ 213
Query: 280 TLYWSATWPKEVEHLARQYLYNPYKVIIGSPDLKANHAIRQHVDIVSESQKYNKLVKLLE 339
+ SAT P E+ + +++ +P ++++ +L + V + E K++ L L
Sbjct: 214 VVLISATLPHEILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLY- 272
Query: 340 DIMDGSRILIFMDTKKGCDQITRQLRMDGWPALSIHGDKSQAERDWVLSEFKAGKSPIMT 399
D + ++ +IF +TK+ D +T ++R + S+HGD Q ER+ ++ EF++G S ++
Sbjct: 273 DTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLI 332
Query: 400 ATDVAARGL 408
+TDV ARGL
Sbjct: 333 STDVWARGL 341
>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 = 178 bits (452), Expect = 5e-45, Method: Compositional matrix adjust.
Identities = 99/309 (32%), Positives = 168/309 (54%), Gaps = 6/309 (1%)
Query: 100 SFRDVGFPDYVMQEISKAGFFEPTPIQAQGWPMALKGRDLIGIAETGSGKTLAYLLPAIV 159
+F +G + +++ I GF +P+ IQ + +KGRD+I +++G+GKT + + +
Sbjct: 39 TFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQ 98
Query: 160 HVNAQPFLAPGDGPIVLVLAPTRELAVQIQQESTKFGASSKIKSTCIYGGVPKGPQVRDL 219
++ Q L+LAPTRELAVQIQ+ G ++ GG G +R L
Sbjct: 99 CLDIQVRETQA-----LILAPTRELAVQIQKGLLALGDYMNVQCHACIGGTNVGEDIRKL 153
Query: 220 QKGVEIVIATPGRLIDMLESHNTNLRRVTYLVLDEADRMLDMGFEPQIKKILSQIRPDRQ 279
G +V TPGR+ DM+ + R + LVLDEAD ML+ GF+ QI + + P Q
Sbjct: 154 DYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQ 213
Query: 280 TLYWSATWPKEVEHLARQYLYNPYKVIIGSPDLKANHAIRQHVDIVSESQKYNKLVKLLE 339
+ SAT P E+ + +++ +P ++++ +L + V + E K++ L L
Sbjct: 214 VVLISATLPHEILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLY- 272
Query: 340 DIMDGSRILIFMDTKKGCDQITRQLRMDGWPALSIHGDKSQAERDWVLSEFKAGKSPIMT 399
D + ++ +IF +TK+ D +T ++R + S+HGD Q ER+ ++ EF++G S ++
Sbjct: 273 DTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLI 332
Query: 400 ATDVAARGL 408
+TDV ARGL
Sbjct: 333 STDVWARGL 341
>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 = 178 bits (451), Expect = 5e-45, Method: Compositional matrix adjust.
Identities = 99/309 (32%), Positives = 168/309 (54%), Gaps = 6/309 (1%)
Query: 100 SFRDVGFPDYVMQEISKAGFFEPTPIQAQGWPMALKGRDLIGIAETGSGKTLAYLLPAIV 159
+F +G + +++ I GF +P+ IQ + +KGRD+I +++G+GKT + + +
Sbjct: 38 TFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQ 97
Query: 160 HVNAQPFLAPGDGPIVLVLAPTRELAVQIQQESTKFGASSKIKSTCIYGGVPKGPQVRDL 219
++ Q L+LAPTRELAVQIQ+ G ++ GG G +R L
Sbjct: 98 CLDIQVRETQA-----LILAPTRELAVQIQKGLLALGDYMNVQCHACIGGTNVGEDIRKL 152
Query: 220 QKGVEIVIATPGRLIDMLESHNTNLRRVTYLVLDEADRMLDMGFEPQIKKILSQIRPDRQ 279
G +V TPGR+ DM+ + R + LVLDEAD ML+ GF+ QI + + P Q
Sbjct: 153 DYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQ 212
Query: 280 TLYWSATWPKEVEHLARQYLYNPYKVIIGSPDLKANHAIRQHVDIVSESQKYNKLVKLLE 339
+ SAT P E+ + +++ +P ++++ +L + V + E K++ L L
Sbjct: 213 VVLISATLPHEILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLY- 271
Query: 340 DIMDGSRILIFMDTKKGCDQITRQLRMDGWPALSIHGDKSQAERDWVLSEFKAGKSPIMT 399
D + ++ +IF +TK+ D +T ++R + S+HGD Q ER+ ++ EF++G S ++
Sbjct: 272 DTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLI 331
Query: 400 ATDVAARGL 408
+TDV ARGL
Sbjct: 332 STDVWARGL 340
>pdb|2J0U|A Chain A, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 177 bits (449), Expect = 1e-44, Method: Compositional matrix adjust.
Identities = 98/309 (31%), Positives = 168/309 (54%), Gaps = 6/309 (1%)
Query: 100 SFRDVGFPDYVMQEISKAGFFEPTPIQAQGWPMALKGRDLIGIAETGSGKTLAYLLPAIV 159
+F +G + +++ I GF +P+ IQ + +KGRD+I +++G+GKT + + +
Sbjct: 2 TFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSVSVLQ 61
Query: 160 HVNAQPFLAPGDGPIVLVLAPTRELAVQIQQESTKFGASSKIKSTCIYGGVPKGPQVRDL 219
++ Q L+LAPTRELAVQ+Q+ G ++ GG G +R L
Sbjct: 62 CLDIQVRETQA-----LILAPTRELAVQVQKGLLALGDYMNVQCHACIGGTNVGEDIRKL 116
Query: 220 QKGVEIVIATPGRLIDMLESHNTNLRRVTYLVLDEADRMLDMGFEPQIKKILSQIRPDRQ 279
G +V TPGR+ DM+ + R + LVLDEAD ML+ GF+ QI + + P Q
Sbjct: 117 DYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQ 176
Query: 280 TLYWSATWPKEVEHLARQYLYNPYKVIIGSPDLKANHAIRQHVDIVSESQKYNKLVKLLE 339
+ SAT P E+ + +++ +P ++++ +L + V + E K++ L L
Sbjct: 177 VVLISATLPHEILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLY- 235
Query: 340 DIMDGSRILIFMDTKKGCDQITRQLRMDGWPALSIHGDKSQAERDWVLSEFKAGKSPIMT 399
D + ++ +IF +TK+ D +T ++R + S+HGD Q ER+ ++ EF++G S ++
Sbjct: 236 DTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLI 295
Query: 400 ATDVAARGL 408
+TDV ARGL
Sbjct: 296 STDVWARGL 304
>pdb|3BER|A Chain A, Human Dead-Box Rna-Helicase Ddx47, Conserved Domain I In
Complex With Amp
Length = 249
Score = 174 bits (440), Expect = 1e-43, Method: Compositional matrix adjust.
Identities = 98/212 (46%), Positives = 132/212 (62%), Gaps = 6/212 (2%)
Query: 99 KSFRDVGFPDYVMQEISKAGFFEPTPIQAQGWPMALKGRDLIGIAETGSGKTLAYLLPAI 158
K+F+D+G D + + + G+ +PT IQ + P+AL+GRD+IG+AETGSGKT A+ LP +
Sbjct: 43 KTFKDLGVTDVLCEACDQLGWTKPTKIQIEAIPLALQGRDIIGLAETGSGKTGAFALPIL 102
Query: 159 VHVNAQPFLAPGDGPIVLVLAPTRELAVQIQQESTKFGASSKIKSTCIYGGVPKGPQVRD 218
NA L LVL PTRELA QI ++ G+S ++S I GG+ Q
Sbjct: 103 ---NA--LLETPQRLFALVLTPTRELAFQISEQFEALGSSIGVQSAVIVGGIDSMSQSLA 157
Query: 219 LQKGVEIVIATPGRLIDMLE-SHNTNLRRVTYLVLDEADRMLDMGFEPQIKKILSQIRPD 277
L K I+IATPGRLID LE + NLR + YLV+DEADR+L+M FE ++ KIL I D
Sbjct: 158 LAKKPHIIIATPGRLIDHLENTKGFNLRALKYLVMDEADRILNMDFETEVDKILKVIPRD 217
Query: 278 RQTLYWSATWPKEVEHLARQYLYNPYKVIIGS 309
R+T +SAT K+V+ L R L NP K + S
Sbjct: 218 RKTFLFSATMTKKVQKLQRAALKNPVKCAVSS 249
>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 = 168 bits (426), Expect = 5e-42, Method: Compositional matrix adjust.
Identities = 98/316 (31%), Positives = 170/316 (53%), Gaps = 13/316 (4%)
Query: 96 KPVKSFRDVGFPDYVMQEISKAGFFEPTPIQAQGWPMALKGRDLIGIAETGSGKTLAYLL 155
K V F D+ + +++ + GF EP+ IQ + ++G D++ A++G+GKT + +
Sbjct: 19 KVVYKFDDMELDENLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSI 78
Query: 156 PAIVHVNAQPFLAPGDGPIVLVLAPTRELAVQIQQESTKFGASSKIKSTCIYGG---VPK 212
A+ ++ P L+LAPTRELA+QIQ+ IK GG V
Sbjct: 79 AALQRIDTSV-----KAPQALMLAPTRELALQIQKVVMALAFHMDIKVHACIGGTSFVED 133
Query: 213 GPQVRDLQKGVEIVIATPGRLIDMLESHNTNLRRVTYLVLDEADRMLDMGFEPQIKKILS 272
+RD Q IV+ TPGR+ D ++ ++ +LDEAD ML GF+ QI +I +
Sbjct: 134 AEGLRDAQ----IVVGTPGRVFDNIQRRRFRTDKIKMFILDEADEMLSSGFKEQIYQIFT 189
Query: 273 QIRPDRQTLYWSATWPKEVEHLARQYLYNPYKVIIGSPDLKANHAIRQHVDIVSESQKYN 332
+ P Q + SAT P +V + +++ NP ++++ +L + +V++ E KY
Sbjct: 190 LLPPTTQVVLLSATMPNDVLEVTTKFMRNPVRILVKKDELTLEGIKQFYVNVEEEEYKYE 249
Query: 333 KLVKLLEDIMDGSRILIFMDTKKGCDQITRQLRMDGWPALSIHGDKSQAERDWVLSEFKA 392
L L + I ++ +IF +T++ +++T +LR D + +I+ D Q ERD ++ EF++
Sbjct: 250 CLTDLYDSI-SVTQAVIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTIMKEFRS 308
Query: 393 GKSPIMTATDVAARGL 408
G S I+ +TD+ ARG+
Sbjct: 309 GSSRILISTDLLARGI 324
>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 = 163 bits (413), Expect = 2e-40, Method: Compositional matrix adjust.
Identities = 97/313 (30%), Positives = 167/313 (53%), Gaps = 9/313 (2%)
Query: 98 VKSFRDVGFPDYVMQEISKAGFFEPTPIQAQGWPMALKGRDLIGIAETGSGKTLAYLLPA 157
V SF D+ + +++ I GF +P+ IQ + +KG D+I A++G+GKT + +
Sbjct: 13 VDSFDDMNLSESLLRGIYAYGFEKPSAIQQRAILPCIKGYDVIAQAQSGTGKTATFAISI 72
Query: 158 IVHVNAQPFLAPGDGPIVLVLAPTRELAVQIQQESTKFGASSKIKSTCIYGGVPKGPQVR 217
+ Q LVLAPTRELA QIQ+ G GG +V+
Sbjct: 73 L-----QQIELDLKATQALVLAPTRELAQQIQKVVMALGDYMGASCHACIGGTNVRAEVQ 127
Query: 218 DLQ-KGVEIVIATPGRLIDMLESHNTNLRRVTYLVLDEADRMLDMGFEPQIKKILSQIRP 276
LQ + I++ TPGR+ DML + + + VLDEAD ML GF+ QI I ++
Sbjct: 128 KLQMEAPHIIVGTPGRVFDMLNRRYLSPKYIKMFVLDEADEMLSRGFKDQIYDIFQKLNS 187
Query: 277 DRQTLYWSATWPKEVEHLARQYLYNPYKVIIGSPDLKANHAIRQ-HVDIVSESQKYNKLV 335
+ Q + SAT P +V + ++++ +P ++++ +L IRQ ++++ E K + L
Sbjct: 188 NTQVVLLSATMPSDVLEVTKKFMRDPIRILVKKEELTL-EGIRQFYINVEREEWKLDTLC 246
Query: 336 KLLEDIMDGSRILIFMDTKKGCDQITRQLRMDGWPALSIHGDKSQAERDWVLSEFKAGKS 395
L E + ++ +IF++T++ D +T ++ + ++HGD Q ERD ++ EF++G S
Sbjct: 247 DLYE-TLTITQAVIFINTRRKVDWLTEKMHARDFTVSAMHGDMDQKERDVIMREFRSGSS 305
Query: 396 PIMTATDVAARGL 408
++ TD+ ARG+
Sbjct: 306 RVLITTDLLARGI 318
>pdb|3EIQ|A Chain A, Crystal Structure Of Pdcd4-eif4a
pdb|3EIQ|D Chain D, Crystal Structure Of Pdcd4-eif4a
Length = 414
Score = 163 bits (412), Expect = 2e-40, Method: Compositional matrix adjust.
Identities = 96/313 (30%), Positives = 167/313 (53%), Gaps = 9/313 (2%)
Query: 98 VKSFRDVGFPDYVMQEISKAGFFEPTPIQAQGWPMALKGRDLIGIAETGSGKTLAYLLPA 157
V SF D+ + +++ I GF +P+ IQ + +KG D+I A++G+GKT + +
Sbjct: 39 VDSFDDMNLSESLLRGIYAYGFEKPSAIQQRAILPCIKGYDVIAQAQSGTGKTATFAISI 98
Query: 158 IVHVNAQPFLAPGDGPIVLVLAPTRELAVQIQQESTKFGASSKIKSTCIYGGVPKGPQVR 217
+ + LVLAPTRELA QIQ+ G GG +V+
Sbjct: 99 LQQIELDL-----KATQALVLAPTRELAQQIQKVVMALGDYMGASCHACIGGTNVRAEVQ 153
Query: 218 DLQ-KGVEIVIATPGRLIDMLESHNTNLRRVTYLVLDEADRMLDMGFEPQIKKILSQIRP 276
LQ + I++ TPGR+ DML + + + VLDEAD ML GF+ QI I ++
Sbjct: 154 KLQMEAPHIIVGTPGRVFDMLNRRYLSPKYIKMFVLDEADEMLSRGFKDQIYDIFQKLNS 213
Query: 277 DRQTLYWSATWPKEVEHLARQYLYNPYKVIIGSPDLKANHAIRQ-HVDIVSESQKYNKLV 335
+ Q + SAT P +V + ++++ +P ++++ +L IRQ ++++ E K + L
Sbjct: 214 NTQVVLLSATMPSDVLEVTKKFMRDPIRILVKKEELTL-EGIRQFYINVEREEWKLDTLC 272
Query: 336 KLLEDIMDGSRILIFMDTKKGCDQITRQLRMDGWPALSIHGDKSQAERDWVLSEFKAGKS 395
L E + ++ +IF++T++ D +T ++ + ++HGD Q ERD ++ EF++G S
Sbjct: 273 DLYE-TLTITQAVIFINTRRKVDWLTEKMHARDFTVSAMHGDMDQKERDVIMREFRSGSS 331
Query: 396 PIMTATDVAARGL 408
++ TD+ ARG+
Sbjct: 332 RVLITTDLLARGI 344
>pdb|1FUU|A Chain A, Yeast Initiation Factor 4a
pdb|1FUU|B Chain B, Yeast Initiation Factor 4a
Length = 394
Score = 162 bits (410), Expect = 3e-40, Method: Compositional matrix adjust.
Identities = 97/316 (30%), Positives = 165/316 (52%), Gaps = 13/316 (4%)
Query: 96 KPVKSFRDVGFPDYVMQEISKAGFFEPTPIQAQGWPMALKGRDLIGIAETGSGKTLAYLL 155
K V F D + +++ + GF EP+ IQ + ++G D++ A++G+GKT + +
Sbjct: 18 KVVYKFDDXELDENLLRGVFGYGFEEPSAIQQRAIXPIIEGHDVLAQAQSGTGKTGTFSI 77
Query: 156 PAIVHVNAQPFLAPGDGPIVLVLAPTRELAVQIQQESTKFGASSKIKSTCIYGG---VPK 212
A+ ++ P L LAPTRELA+QIQ+ IK GG V
Sbjct: 78 AALQRIDTSV-----KAPQALXLAPTRELALQIQKVVXALAFHXDIKVHACIGGTSFVED 132
Query: 213 GPQVRDLQKGVEIVIATPGRLIDMLESHNTNLRRVTYLVLDEADRMLDMGFEPQIKKILS 272
+RD Q IV+ TPGR+ D ++ ++ +LDEAD L GF+ QI +I +
Sbjct: 133 AEGLRDAQ----IVVGTPGRVFDNIQRRRFRTDKIKXFILDEADEXLSSGFKEQIYQIFT 188
Query: 273 QIRPDRQTLYWSATWPKEVEHLARQYLYNPYKVIIGSPDLKANHAIRQHVDIVSESQKYN 332
+ P Q + SAT P +V + ++ NP ++++ +L + +V++ E KY
Sbjct: 189 LLPPTTQVVLLSATXPNDVLEVTTKFXRNPVRILVKKDELTLEGIKQFYVNVEEEEYKYE 248
Query: 333 KLVKLLEDIMDGSRILIFMDTKKGCDQITRQLRMDGWPALSIHGDKSQAERDWVLSEFKA 392
L L D + ++ +IF +T++ +++T +LR D + +I+ D Q ERD + EF++
Sbjct: 249 CLTDLY-DSISVTQAVIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTIXKEFRS 307
Query: 393 GKSPIMTATDVAARGL 408
G S I+ +TD+ ARG+
Sbjct: 308 GSSRILISTDLLARGI 323
>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 = 4e-40, Method: Compositional matrix adjust.
Identities = 89/202 (44%), Positives = 118/202 (58%), Gaps = 4/202 (1%)
Query: 101 FRDVGFPDYVMQEISKAGFFEPTPIQAQGWPMALKGRDLIGIAETGSGKTLAYLLPAIVH 160
F+D +++ + G PTPIQA P+AL+G+DLIG A TG+GKTLA+ LP +
Sbjct: 3 FKDFPLKPEILEALHGRGLTTPTPIQAAALPLALEGKDLIGQARTGTGKTLAFALP--IA 60
Query: 161 VNAQPFLAPGDGPIVLVLAPTRELAVQIQQESTKFGASSKIKSTCIYGGVPKGPQVRDLQ 220
P G P LVL PTRELA+Q+ E T + +K +YGG G Q L
Sbjct: 61 ERLAPSQERGRKPRALVLTPTRELALQVASELT--AVAPHLKVVAVYGGTGYGKQKEALL 118
Query: 221 KGVEIVIATPGRLIDMLESHNTNLRRVTYLVLDEADRMLDMGFEPQIKKILSQIRPDRQT 280
+G + V+ATPGR +D L +L RV VLDEAD ML MGFE +++ +LS P RQT
Sbjct: 119 RGADAVVATPGRALDYLRQGVLDLSRVEVAVLDEADEMLSMGFEEEVEALLSATPPSRQT 178
Query: 281 LYWSATWPKEVEHLARQYLYNP 302
L +SAT P + LA +Y+ NP
Sbjct: 179 LLFSATLPSWAKRLAERYMKNP 200
>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 (406), Expect = 9e-40, Method: Compositional matrix adjust.
Identities = 88/202 (43%), Positives = 118/202 (58%), Gaps = 4/202 (1%)
Query: 101 FRDVGFPDYVMQEISKAGFFEPTPIQAQGWPMALKGRDLIGIAETGSGKTLAYLLPAIVH 160
F+D +++ + G PTPI+A P+AL+G+DLIG A TG+GKTLA+ LP +
Sbjct: 3 FKDFPLKPEILEALHGRGLTTPTPIEAAALPLALEGKDLIGQARTGTGKTLAFALP--IA 60
Query: 161 VNAQPFLAPGDGPIVLVLAPTRELAVQIQQESTKFGASSKIKSTCIYGGVPKGPQVRDLQ 220
P G P LVL PTRELA+Q+ E T + +K +YGG G Q L
Sbjct: 61 ERLAPSQERGRKPRALVLTPTRELALQVASELT--AVAPHLKVVAVYGGTGYGKQKEALL 118
Query: 221 KGVEIVIATPGRLIDMLESHNTNLRRVTYLVLDEADRMLDMGFEPQIKKILSQIRPDRQT 280
+G + V+ATPGR +D L +L RV VLDEAD ML MGFE +++ +LS P RQT
Sbjct: 119 RGADAVVATPGRALDYLRQGVLDLSRVEVAVLDEADEMLSMGFEEEVEALLSATPPSRQT 178
Query: 281 LYWSATWPKEVEHLARQYLYNP 302
L +SAT P + LA +Y+ NP
Sbjct: 179 LLFSATLPSWAKRLAERYMKNP 200
>pdb|1S2M|A Chain A, Crystal Structure Of The Dead Box Protein Dhh1p
Length = 400
Score = 157 bits (398), Expect = 8e-39, Method: Compositional matrix adjust.
Identities = 96/320 (30%), Positives = 164/320 (51%), Gaps = 10/320 (3%)
Query: 99 KSFRDVGFPDYVMQEISKAGFFEPTPIQAQGWPMALKGRDLIGIAETGSGKTLAYLLPAI 158
+F D ++ I +AGF +P+PIQ + P+A+ GRD++ A+ G+GKT A+++P +
Sbjct: 21 NTFEDFYLKRELLMGIFEAGFEKPSPIQEEAIPVAITGRDILARAKNGTGKTAAFVIPTL 80
Query: 159 VHVNAQPFLAPGDGPIVLVLAPTRELAVQIQQESTKFGASSKIKSTCIYGGVPKGPQVRD 218
V +P L L++ PTRELA+Q Q G I GG +
Sbjct: 81 EKV--KPKLNKIQA---LIMVPTRELALQTSQVVRTLGKHCGISCMVTTGGTNLRDDILR 135
Query: 219 LQKGVEIVIATPGRLIDMLESHNTNLRRVTYLVLDEADRMLDMGFEPQIKKILSQIRPDR 278
L + V I++ TPGR++D+ +L + ++DEAD+ML F+ I++ILS + P
Sbjct: 136 LNETVHILVGTPGRVLDLASRKVADLSDCSLFIMDEADKMLSRDFKTIIEQILSFLPPTH 195
Query: 279 QTLYWSATWPKEVEHLARQYLYNPYKV-IIGSPDLKANHAIRQHVDIVSESQKYNKLVKL 337
Q+L +SAT+P V+ ++L+ PY++ ++ LK I Q+ V E QK + L L
Sbjct: 196 QSLLFSATFPLTVKEFMVKHLHKPYEINLMEELTLK---GITQYYAFVEERQKLHCLNTL 252
Query: 338 LEDIMDGSRILIFMDTKKGCDQITRQLRMDGWPALSIHGDKSQAERDWVLSEFKAGKSPI 397
+ I IF ++ + + +++ G+ H Q ER+ V EF+ GK
Sbjct: 253 FSKLQINQAI-IFCNSTNRVELLAKKITDLGYSCYYSHARMKQQERNKVFHEFRQGKVRT 311
Query: 398 MTATDVAARGLGNCACVIIV 417
+ +D+ RG+ A +++
Sbjct: 312 LVCSDLLTRGIDIQAVNVVI 331
>pdb|1XTK|A Chain A, Structure Of Decd To Dead Mutation Of Human Uap56
Length = 390
Score = 149 bits (377), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 89/318 (27%), Positives = 169/318 (53%), Gaps = 11/318 (3%)
Query: 95 PKPVKSFRDVGFPDYVMQEISKAGFFEPTPIQAQGWPMALKGRDLIGIAETGSGKTLAYL 154
P + FRD +++ I GF P+ +Q + P A+ G D++ A++G GKT ++
Sbjct: 3 PGHMSGFRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFV 62
Query: 155 LPAIVHVNAQPFLAPGDGPI-VLVLAPTRELAVQIQQESTKFGASS-KIKSTCIYGGVPK 212
L + L P G + VLV+ TRELA QI +E +F +K +GG+
Sbjct: 63 LATLQQ------LEPVTGQVSVLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSI 116
Query: 213 GPQVRDLQKGV-EIVIATPGRLIDMLESHNTNLRRVTYLVLDEADRMLD-MGFEPQIKKI 270
L+K IV+ TPGR++ + + + NL+ + + +LDEAD+ML+ + +++I
Sbjct: 117 KKDEEVLKKNCPHIVVGTPGRILALARNKSLNLKHIKHFILDEADKMLEQLDMRRDVQEI 176
Query: 271 LSQIRPDRQTLYWSATWPKEVEHLARQYLYNPYKVIIGSPDLKANHAIRQHVDIVSESQK 330
++Q + +SAT KE+ + R+++ +P ++ + H ++Q+ + +++K
Sbjct: 177 FRMTPHEKQVMMFSATLSKEIRPVCRKFMQDPMEIFVDDETKLTLHGLQQYYVKLKDNEK 236
Query: 331 YNKLVKLLEDIMDGSRILIFMDTKKGCDQITRQLRMDGWPALSIHGDKSQAERDWVLSEF 390
KL LL D+++ ++++IF+ + + C + + L +PA++IH Q ER +F
Sbjct: 237 NRKLFDLL-DVLEFNQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQF 295
Query: 391 KAGKSPIMTATDVAARGL 408
K + I+ AT++ RG+
Sbjct: 296 KDFQRRILVATNLFGRGM 313
>pdb|1XTJ|A Chain A, Structure Of Human Uap56 In Complex With Adp
Length = 386
Score = 147 bits (371), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 87/312 (27%), Positives = 166/312 (53%), Gaps = 11/312 (3%)
Query: 101 FRDVGFPDYVMQEISKAGFFEPTPIQAQGWPMALKGRDLIGIAETGSGKTLAYLLPAIVH 160
FRD +++ I GF P+ +Q + P A+ G D++ A++G GKT ++L +
Sbjct: 10 FRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQ 69
Query: 161 VNAQPFLAPGDGPI-VLVLAPTRELAVQIQQESTKFGASS-KIKSTCIYGGVPKGPQVRD 218
L P G + VLV+ TRELA QI +E +F +K +GG+
Sbjct: 70 ------LEPVTGQVSVLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEV 123
Query: 219 LQKGV-EIVIATPGRLIDMLESHNTNLRRVTYLVLDEADRMLD-MGFEPQIKKILSQIRP 276
L+K IV+ TPGR++ + + + NL+ + + +LDE D+ML+ + +++I
Sbjct: 124 LKKNCPHIVVGTPGRILALARNKSLNLKHIKHFILDECDKMLEQLDMRRDVQEIFRMTPH 183
Query: 277 DRQTLYWSATWPKEVEHLARQYLYNPYKVIIGSPDLKANHAIRQHVDIVSESQKYNKLVK 336
++Q + +SAT KE+ + R+++ +P ++ + H ++Q+ + +++K KL
Sbjct: 184 EKQVMMFSATLSKEIRPVCRKFMQDPMEIFVDDETKLTLHGLQQYYVKLKDNEKNRKLFD 243
Query: 337 LLEDIMDGSRILIFMDTKKGCDQITRQLRMDGWPALSIHGDKSQAERDWVLSEFKAGKSP 396
LL D+++ ++++IF+ + + C + + L +PA++IH Q ER +FK +
Sbjct: 244 LL-DVLEFNQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRR 302
Query: 397 IMTATDVAARGL 408
I+ AT++ RG+
Sbjct: 303 ILVATNLFGRGM 314
>pdb|1XTI|A Chain A, Structure Of Wildtype Human Uap56
Length = 391
Score = 147 bits (370), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 87/312 (27%), Positives = 166/312 (53%), Gaps = 11/312 (3%)
Query: 101 FRDVGFPDYVMQEISKAGFFEPTPIQAQGWPMALKGRDLIGIAETGSGKTLAYLLPAIVH 160
FRD +++ I GF P+ +Q + P A+ G D++ A++G GKT ++L +
Sbjct: 10 FRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQ 69
Query: 161 VNAQPFLAPGDGPI-VLVLAPTRELAVQIQQESTKFGASS-KIKSTCIYGGVPKGPQVRD 218
L P G + VLV+ TRELA QI +E +F +K +GG+
Sbjct: 70 ------LEPVTGQVSVLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEV 123
Query: 219 LQKGV-EIVIATPGRLIDMLESHNTNLRRVTYLVLDEADRMLD-MGFEPQIKKILSQIRP 276
L+K IV+ TPGR++ + + + NL+ + + +LDE D+ML+ + +++I
Sbjct: 124 LKKNCPHIVVGTPGRILALARNKSLNLKHIKHFILDECDKMLEQLDMRRDVQEIFRMTPH 183
Query: 277 DRQTLYWSATWPKEVEHLARQYLYNPYKVIIGSPDLKANHAIRQHVDIVSESQKYNKLVK 336
++Q + +SAT KE+ + R+++ +P ++ + H ++Q+ + +++K KL
Sbjct: 184 EKQVMMFSATLSKEIRPVCRKFMQDPMEIFVDDETKLTLHGLQQYYVKLKDNEKNRKLFD 243
Query: 337 LLEDIMDGSRILIFMDTKKGCDQITRQLRMDGWPALSIHGDKSQAERDWVLSEFKAGKSP 396
LL D+++ ++++IF+ + + C + + L +PA++IH Q ER +FK +
Sbjct: 244 LL-DVLEFNQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRR 302
Query: 397 IMTATDVAARGL 408
I+ AT++ RG+
Sbjct: 303 ILVATNLFGRGM 314
>pdb|3FHO|A Chain A, Structure Of S. Pombe Dbp5
pdb|3FHO|B Chain B, Structure Of S. Pombe Dbp5
Length = 508
Score = 142 bits (358), Expect = 3e-34, Method: Compositional matrix adjust.
Identities = 94/297 (31%), Positives = 157/297 (52%), Gaps = 15/297 (5%)
Query: 125 IQAQGWPMALKG--RDLIGIAETGSGKTLAYLLPAIVHVNAQPFLAPGDGPIVLVLAPTR 182
IQ + P+ L R++IG +++G+GKT A+ L + V+A P P + LAP+R
Sbjct: 145 IQEKALPLLLSNPPRNMIGQSQSGTGKTAAFALTMLSRVDAS---VPK--PQAICLAPSR 199
Query: 183 ELAVQIQQESTKFGASSKIKSTC-IYGGVPKGPQVRDLQKGVEIVIATPGRLIDMLESHN 241
ELA QI T+ G +++K+ I VPKG ++ +IVI TPG ++D+++
Sbjct: 200 ELARQIMDVVTEMGKYTEVKTAFGIKDSVPKGAKI-----DAQIVIGTPGTVMDLMKRRQ 254
Query: 242 TNLRRVTYLVLDEADRMLDM-GFEPQIKKILSQIRPDRQTLYWSATWPKEVEHLARQYLY 300
+ R + VLDEAD MLD G Q +I + + Q + +SAT+ + VE A ++
Sbjct: 255 LDARDIKVFVLDEADNMLDQQGLGDQSMRIKHLLPRNTQIVLFSATFSERVEKYAERFAP 314
Query: 301 NPYKVIIGSPDLKANHAIRQHVDIVSESQKYNKLVKLLEDIMDGSRILIFMDTKKGCDQI 360
N ++ + + +L + ++D SE KYN LV+L + G I IF K ++I
Sbjct: 315 NANEIRLKTEELSVEGIKQLYMDCQSEEHKYNVLVELYGLLTIGQSI-IFCKKKDTAEEI 373
Query: 361 TRQLRMDGWPALSIHGDKSQAERDWVLSEFKAGKSPIMTATDVAARGLGNCACVIIV 417
R++ DG + G+ A+RD ++ F+ G S ++ T+V ARG+ ++V
Sbjct: 374 ARRMTADGHTVACLTGNLEGAQRDAIMDSFRVGTSKVLVTTNVIARGIDVSQVNLVV 430
>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 = 141 bits (355), Expect = 9e-34, Method: Compositional matrix adjust.
Identities = 93/314 (29%), Positives = 169/314 (53%), Gaps = 15/314 (4%)
Query: 99 KSFRDVGFPDYVMQEISKAGFFEPTPIQAQGWPMALKG--RDLIGIAETGSGKTLAYLLP 156
KSF ++G +++ I F +P+ IQ + P+ L R++I +++G+GKT A+ L
Sbjct: 5 KSFDELGLAPELLKGIYAMKFQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAAFSLT 64
Query: 157 AIVHVNAQPFLAPGDG-PIVLVLAPTRELAVQIQQESTKFGASSKIKSTCIYGGVPKGPQ 215
+ VN P D P + LAP+RELA Q + + G +KI S I VP +
Sbjct: 65 MLTRVN------PEDASPQAICLAPSRELARQTLEVVQEMGKFTKITSQLI---VPDSFE 115
Query: 216 VRDLQKGVEIVIATPGRLIDMLESHNTNLRRVTYLVLDEADRMLDM-GFEPQIKKILSQI 274
++ Q ++++ TPG ++D++ L+++ VLDEAD MLD G Q ++ +
Sbjct: 116 -KNKQINAQVIVGTPGTVLDLMRRKLMQLQKIKIFVLDEADNMLDQQGLGDQCIRVKRFL 174
Query: 275 RPDRQTLYWSATWPKEVEHLARQYLYNPYKVIIGSPDLKANHAIRQHVDIVSESQKYNKL 334
D Q + +SAT+ V A++ + N + + + ++ + + ++D +E+ K++ L
Sbjct: 175 PKDTQLVLFSATFADAVRQYAKKIVPNANTLELQTNEVNVDAIKQLYMDCKNEADKFDVL 234
Query: 335 VKLLEDIMDGSRILIFMDTKKGCDQITRQLRMDGWPALSIHGDKSQAERDWVLSEFKAGK 394
+L + GS I IF+ TKK + + +L+ +G +HGD ERD ++ +F+ G+
Sbjct: 235 TELYGVMTIGSSI-IFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDDFREGR 293
Query: 395 SPIMTATDVAARGL 408
S ++ T+V ARG+
Sbjct: 294 SKVLITTNVLARGI 307
>pdb|3PEY|A Chain A, S. Cerevisiae Dbp5 Bound To Rna And Adp Bef3
Length = 395
Score = 140 bits (354), Expect = 1e-33, Method: Compositional matrix adjust.
Identities = 93/314 (29%), Positives = 169/314 (53%), Gaps = 15/314 (4%)
Query: 99 KSFRDVGFPDYVMQEISKAGFFEPTPIQAQGWPMALKG--RDLIGIAETGSGKTLAYLLP 156
KSF ++G +++ I F +P+ IQ + P+ L R++I +++G+GKT A+ L
Sbjct: 5 KSFDELGLAPELLKGIYAMKFQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAAFSLT 64
Query: 157 AIVHVNAQPFLAPGDG-PIVLVLAPTRELAVQIQQESTKFGASSKIKSTCIYGGVPKGPQ 215
+ VN P D P + LAP+RELA Q + + G +KI S I VP +
Sbjct: 65 MLTRVN------PEDASPQAICLAPSRELARQTLEVVQEMGKFTKITSQLI---VPDSFE 115
Query: 216 VRDLQKGVEIVIATPGRLIDMLESHNTNLRRVTYLVLDEADRMLDM-GFEPQIKKILSQI 274
++ Q ++++ TPG ++D++ L+++ VLDEAD MLD G Q ++ +
Sbjct: 116 -KNKQINAQVIVGTPGTVLDLMRRKLMQLQKIKIFVLDEADNMLDQQGLGDQCIRVKRFL 174
Query: 275 RPDRQTLYWSATWPKEVEHLARQYLYNPYKVIIGSPDLKANHAIRQHVDIVSESQKYNKL 334
D Q + +SAT+ V A++ + N + + + ++ + + ++D +E+ K++ L
Sbjct: 175 PKDTQLVLFSATFADAVRQYAKKIVPNANTLELQTNEVNVDAIKQLYMDCKNEADKFDVL 234
Query: 335 VKLLEDIMDGSRILIFMDTKKGCDQITRQLRMDGWPALSIHGDKSQAERDWVLSEFKAGK 394
+L + GS I IF+ TKK + + +L+ +G +HGD ERD ++ +F+ G+
Sbjct: 235 TELYGLMTIGSSI-IFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDDFREGR 293
Query: 395 SPIMTATDVAARGL 408
S ++ T+V ARG+
Sbjct: 294 SKVLITTNVLARGI 307
>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 = 78/211 (36%), Positives = 126/211 (59%), Gaps = 21/211 (9%)
Query: 100 SFRDVGFP-------DYVMQEISKAGFFEPTPIQAQGWPMALKGRDLIGIAETGSGKTLA 152
+F D F + ++ I + GF T IQ + L+GRDL+ A+TGSGKTLA
Sbjct: 48 AFEDTSFASLCNLVNENTLKAIKEMGFTNMTEIQHKSIRPLLEGRDLLAAAKTGSGKTLA 107
Query: 153 YLLPAIVHVNAQPFLAPGDGPIVLVLAPTRELAVQIQQESTKFGASSKIKSTCIY----- 207
+L+PA+ + F+ P +G VL+L+PTRELA+Q FG ++ + ++
Sbjct: 108 FLIPAVELIVKLRFM-PRNGTGVLILSPTRELAMQT------FGVLKELMTHHVHTYGLI 160
Query: 208 -GGVPKGPQVRDLQKGVEIVIATPGRLIDMLESHNTNL-RRVTYLVLDEADRMLDMGFEP 265
GG + + + L G+ I++ATPGRL+D +++ + + + LV+DEADR+LD+GFE
Sbjct: 161 MGGSNRSAEAQKLGNGINIIVATPGRLLDHMQNTPGFMYKNLQCLVIDEADRILDVGFEE 220
Query: 266 QIKKILSQIRPDRQTLYWSATWPKEVEHLAR 296
++K+I+ + RQT+ +SAT ++VE LAR
Sbjct: 221 ELKQIIKLLPTRRQTMLFSATQTRKVEDLAR 251
>pdb|2Z0M|A Chain A, Crystal Structure Of Hypothetical Atp-Dependent Rna
Helicase From Sulfolobus Tokodaii
Length = 337
Score = 130 bits (326), Expect = 2e-30, Method: Compositional matrix adjust.
Identities = 89/301 (29%), Positives = 156/301 (51%), Gaps = 27/301 (8%)
Query: 110 VMQEISKAGFFEPTPIQAQGWPMALKGRDLIGIAETGSGKTLAYLLPAIVHVNAQPFLAP 169
+ Q I + GF T +Q++ P+ L+G++++ A+TGSGKT AY +P I+ + +
Sbjct: 5 IEQAIREMGFKNFTEVQSKTIPLMLQGKNVVVRAKTGSGKTAAYAIP-ILELGMKS---- 59
Query: 170 GDGPIVLVLAPTRELAVQIQQESTKFGASSKIKSTCIYGGVPKGPQVRDLQKGVEIVIAT 229
LV+ PTREL Q+ G K +YGG+P Q+ + + +IV+AT
Sbjct: 60 ------LVVTPTRELTRQVASHIRDIGRYMDTKVAEVYGGMPYKAQINRV-RNADIVVAT 112
Query: 230 PGRLIDMLESHNTNLRRVTYLVLDEADRMLDMGFEPQIKKILSQIRPDRQTLYWSATWPK 289
PGRL+D+ +L +++DEAD M +MGF IK IL+Q + T +SAT P+
Sbjct: 113 PGRLLDLWSKGVIDLSSFEIVIIDEADLMFEMGFIDDIKIILAQTSNRKITGLFSATIPE 172
Query: 290 EVEHLARQYL--YNPYKVIIGSPDLKANHAIRQHVDIVSESQKYNKLVKLLEDIMDGSRI 347
E+ + + ++ Y + IG ++ +H + + +K+ L E+ G +
Sbjct: 173 EIRKVVKDFITNYEEIEACIGLANV-------EHKFVHVKDDWRSKVQALRENKDKG--V 223
Query: 348 LIFMDTKKGCDQITRQLRMDGWPALSIHGDKSQAERDWVLSEFKAGKSPIMTATDVAARG 407
++F+ T+ ++ R A+ + GD Q+ R+ + F+ G+ ++ TDVA+RG
Sbjct: 224 IVFVRTRNRVAKLVRLFD----NAIELRGDLPQSVRNRNIDAFREGEYDMLITTDVASRG 279
Query: 408 L 408
L
Sbjct: 280 L 280
>pdb|2PL3|A Chain A, Human Dead-Box Rna Helicase Ddx10, Dead Domain In Complex
With Adp
Length = 236
Score = 122 bits (307), Expect = 3e-28, Method: Compositional matrix adjust.
Identities = 77/212 (36%), Positives = 118/212 (55%), Gaps = 9/212 (4%)
Query: 98 VKSFRDVGFPDYVMQEISKAGFFEPTPIQAQGWPMALKGRDLIGIAETGSGKTLAYLLPA 157
+ F D ++ + +A + T IQ Q +AL+G+D++G A+TGSGKTLA+L+P
Sbjct: 24 ITRFSDFPLSKKTLKGLQEAQYRLVTEIQKQTIGLALQGKDVLGAAKTGSGKTLAFLVPV 83
Query: 158 IVHVNAQPFLAPGDGPIVLVLAPTRELAVQIQQESTKFGASSKIKSTCIYGGVPKGPQVR 217
+ + + + DG VL+++PTRELA Q + K G + + I GG +
Sbjct: 84 LEALYRLQWTST-DGLGVLIISPTRELAYQTFEVLRKVGKNHDFSAGLIIGGKDLKHEAE 142
Query: 218 DLQKGVEIVIATPGRLIDMLES----HNTNLRRVTYLVLDEADRMLDMGFEPQIKKILSQ 273
+ + I++ TPGRL+ ++ H T+L+ LVLDEADR+LDMGF + ++
Sbjct: 143 RIN-NINILVCTPGRLLQHMDETVSFHATDLQ---MLVLDEADRILDMGFADTMNAVIEN 198
Query: 274 IRPDRQTLYWSATWPKEVEHLARQYLYNPYKV 305
+ RQTL +SAT K V+ LAR L NP V
Sbjct: 199 LPKKRQTLLFSATQTKSVKDLARLSLKNPEYV 230
>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 = 5e-28, Method: Compositional matrix adjust.
Identities = 70/208 (33%), Positives = 116/208 (55%), Gaps = 15/208 (7%)
Query: 106 FPDYVMQEISKAGFFE-----PTPIQAQGWPMALKGRDLIGIAETGSGKTLAYLLPAIVH 160
F DY ++ G FE P+PIQ + P+AL GRD++ A+ G+GK+ AYL+P +
Sbjct: 5 FEDYCLKRELLMGIFEMGWEKPSPIQEESIPIALSGRDILARAKNGTGKSGAYLIPLLER 64
Query: 161 VNAQPFLAPGDGPIVLVLAPTRELAVQIQQ---ESTKFGASSKIKSTCIYGGVPKGPQVR 217
++ + D +V+ PTRELA+Q+ Q + +K +K+ +T GG +
Sbjct: 65 LDLKK-----DNIQAMVIVPTRELALQVSQICIQVSKHMGGAKVMATT--GGTNLRDDIM 117
Query: 218 DLQKGVEIVIATPGRLIDMLESHNTNLRRVTYLVLDEADRMLDMGFEPQIKKILSQIRPD 277
L V +VIATPGR++D+++ + V +VLDEAD++L F ++ I+ + +
Sbjct: 118 RLDDTVHVVIATPGRILDLIKKGVAKVDHVQMIVLDEADKLLSQDFVQIMEDIILTLPKN 177
Query: 278 RQTLYWSATWPKEVEHLARQYLYNPYKV 305
RQ L +SAT+P V+ +L PY++
Sbjct: 178 RQILLYSATFPLSVQKFMNSHLEKPYEI 205
>pdb|3SQX|A Chain A, Structure Of Mss116p (Nte And C-Tail Double Deletion)
Bound To Ssrna And Amp-Pnp
Length = 512
Score = 119 bits (299), Expect = 3e-27, Method: Compositional matrix adjust.
Identities = 104/329 (31%), Positives = 163/329 (49%), Gaps = 35/329 (10%)
Query: 110 VMQEISKAGFFEPTPIQAQGWP--MALKGRDLIGIAETGSGKTLAYLLPAIVHVNAQPFL 167
+ + I++ F TP+Q + ++ + D+I A+TG+GKT A+L+P H+ F
Sbjct: 32 IHKAITRMEFPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIFQHLINTKFD 91
Query: 168 APGDGPIVLVLAPTRELAVQIQQESTKFGASS----KIKSTCIYGGVPKGPQVRDLQK-G 222
+ V+V APTR+LA+QI+ E K + K + GG + + K
Sbjct: 92 SQYMVKAVIV-APTRDLALQIEAEVKKIHDMNYGLKKYACVSLVGGTDFRAAMNKMNKLR 150
Query: 223 VEIVIATPGRLIDMLESH-NTNLRRVTYLVLDEADRMLDMGFEPQIKKIL-------SQI 274
IVIATPGRLID+LE + N R V Y VLDEADR+L++GF ++ I S+
Sbjct: 151 PNIVIATPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLEIGFRDDLETISGILNEKNSKS 210
Query: 275 RPDRQTLYWSATWPKEVEHLARQYLYNPYKVIIGSPDL---KANHAIRQHVDIVSESQKY 331
+ +TL +SAT +V+ LA + + + + D +A+ I Q V I S+K+
Sbjct: 211 ADNIKTLLFSATLDDKVQKLANNIMNKKECLFLDTVDKNEPEAHERIDQSVVI---SEKF 267
Query: 332 -NKLVKLLEDIM-------DGSRILIFMDTKKG----CDQITRQLRMDGWPALSIHGDKS 379
N + +E I + +IF T K C + + + D P L HG +
Sbjct: 268 ANSIFAAVEHIKKQIKERDSNYKAIIFAPTVKFTSFLCSILKNEFKKD-LPILEFHGKIT 326
Query: 380 QAERDWVLSEFKAGKSPIMTATDVAARGL 408
Q +R ++ FK +S I+ TDV ARG+
Sbjct: 327 QNKRTSLVKRFKKDESGILVCTDVGARGM 355
>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 = 119 bits (298), Expect = 3e-27, Method: Compositional matrix adjust.
Identities = 104/329 (31%), Positives = 163/329 (49%), Gaps = 35/329 (10%)
Query: 110 VMQEISKAGFFEPTPIQAQGWP--MALKGRDLIGIAETGSGKTLAYLLPAIVHVNAQPFL 167
+ + I++ F TP+Q + ++ + D+I A+TG+GKT A+L+P H+ F
Sbjct: 83 IHKAITRMEFPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIFQHLINTKFD 142
Query: 168 APGDGPIVLVLAPTRELAVQIQQESTKFGASS----KIKSTCIYGGVPKGPQVRDLQK-G 222
+ V+V APTR+LA+QI+ E K + K + GG + + K
Sbjct: 143 SQYMVKAVIV-APTRDLALQIEAEVKKIHDMNYGLKKYACVSLVGGTDFRAAMNKMNKLR 201
Query: 223 VEIVIATPGRLIDMLESH-NTNLRRVTYLVLDEADRMLDMGFEPQIKKIL-------SQI 274
IVIATPGRLID+LE + N R V Y VLDEADR+L++GF ++ I S+
Sbjct: 202 PNIVIATPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLEIGFRDDLETISGILNEKNSKS 261
Query: 275 RPDRQTLYWSATWPKEVEHLARQYLYNPYKVIIGSPDL---KANHAIRQHVDIVSESQKY 331
+ +TL +SAT +V+ LA + + + + D +A+ I Q V I S+K+
Sbjct: 262 ADNIKTLLFSATLDDKVQKLANNIMNKKECLFLDTVDKNEPEAHERIDQSVVI---SEKF 318
Query: 332 -NKLVKLLEDIM-------DGSRILIFMDTKKG----CDQITRQLRMDGWPALSIHGDKS 379
N + +E I + +IF T K C + + + D P L HG +
Sbjct: 319 ANSIFAAVEHIKKQIKERDSNYKAIIFAPTVKFTSFLCSILKNEFKKD-LPILEFHGKIT 377
Query: 380 QAERDWVLSEFKAGKSPIMTATDVAARGL 408
Q +R ++ FK +S I+ TDV ARG+
Sbjct: 378 QNKRTSLVKRFKKDESGILVCTDVGARGM 406
>pdb|3SQW|A Chain A, Structure Of Mss116p (Nte Deletion) Bound To Ssrna And
Amp-Pnp
Length = 579
Score = 119 bits (297), Expect = 4e-27, Method: Compositional matrix adjust.
Identities = 104/329 (31%), Positives = 163/329 (49%), Gaps = 35/329 (10%)
Query: 110 VMQEISKAGFFEPTPIQAQGWP--MALKGRDLIGIAETGSGKTLAYLLPAIVHVNAQPFL 167
+ + I++ F TP+Q + ++ + D+I A+TG+GKT A+L+P H+ F
Sbjct: 32 IHKAITRMEFPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIFQHLINTKFD 91
Query: 168 APGDGPIVLVLAPTRELAVQIQQESTKFGASS----KIKSTCIYGGVPKGPQVRDLQK-G 222
+ V+V APTR+LA+QI+ E K + K + GG + + K
Sbjct: 92 SQYMVKAVIV-APTRDLALQIEAEVKKIHDMNYGLKKYACVSLVGGTDFRAAMNKMNKLR 150
Query: 223 VEIVIATPGRLIDMLESH-NTNLRRVTYLVLDEADRMLDMGFEPQIKKIL-------SQI 274
IVIATPGRLID+LE + N R V Y VLDEADR+L++GF ++ I S+
Sbjct: 151 PNIVIATPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLEIGFRDDLETISGILNEKNSKS 210
Query: 275 RPDRQTLYWSATWPKEVEHLARQYLYNPYKVIIGSPDL---KANHAIRQHVDIVSESQKY 331
+ +TL +SAT +V+ LA + + + + D +A+ I Q V I S+K+
Sbjct: 211 ADNIKTLLFSATLDDKVQKLANNIMNKKECLFLDTVDKNEPEAHERIDQSVVI---SEKF 267
Query: 332 -NKLVKLLEDIM-------DGSRILIFMDTKKG----CDQITRQLRMDGWPALSIHGDKS 379
N + +E I + +IF T K C + + + D P L HG +
Sbjct: 268 ANSIFAAVEHIKKQIKERDSNYKAIIFAPTVKFTSFLCSILKNEFKKD-LPILEFHGKIT 326
Query: 380 QAERDWVLSEFKAGKSPIMTATDVAARGL 408
Q +R ++ FK +S I+ TDV ARG+
Sbjct: 327 QNKRTSLVKRFKKDESGILVCTDVGARGM 355
>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 = 3e-26, Method: Compositional matrix adjust.
Identities = 73/207 (35%), Positives = 110/207 (53%), Gaps = 9/207 (4%)
Query: 100 SFRDVGFPDYVMQEISKAGFFEPTPIQAQGWPMALKGRDLIGIAETGSGKTLAYLLPAIV 159
F F ++++ I F++PT IQ + P AL+G +G ++TG+GKT AYLLP +
Sbjct: 5 QFTRFPFQPFIIEAIKTLRFYKPTEIQERIIPGALRGESXVGQSQTGTGKTHAYLLP--I 62
Query: 160 HVNAQPFLAPGDGPIVLVLAPTRELAVQIQQES---TKFGASSK-IKSTCIYGGVPKGPQ 215
+P A ++ APTRELA QI E+ TKF + I + C+ GG K
Sbjct: 63 XEKIKPERAEVQA---VITAPTRELATQIYHETLKITKFCPKDRXIVARCLIGGTDKQKA 119
Query: 216 VRDLQKGVEIVIATPGRLIDMLESHNTNLRRVTYLVLDEADRMLDMGFEPQIKKILSQIR 275
+ L IVI TPGR+ D + ++ LV+DEAD LD GF + +I ++
Sbjct: 120 LEKLNVQPHIVIGTPGRINDFIREQALDVHTAHILVVDEADLXLDXGFITDVDQIAARXP 179
Query: 276 PDRQTLYWSATWPKEVEHLARQYLYNP 302
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 (286), Expect = 9e-26, Method: Compositional matrix adjust.
Identities = 68/220 (30%), Positives = 114/220 (51%), Gaps = 12/220 (5%)
Query: 96 KPVKSFRDVGFPDYVMQEISKAGFFEPTPIQAQGWPMALKGRDLIGIAETGSGKTLAYLL 155
K V F D+ + +++ + GF EP+ IQ + ++G D++ A++G+GKT + +
Sbjct: 11 KVVYKFDDMELDENLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSI 70
Query: 156 PAIVHVNAQPFLAPGDGPIVLVLAPTRELAVQIQQESTKFGASSKIKSTCIYGG---VPK 212
A+ ++ P L+LAPTRELA+QIQ+ IK GG V
Sbjct: 71 AALQRIDTSV-----KAPQALMLAPTRELALQIQKVVMALAFHMDIKVHACIGGTSFVED 125
Query: 213 GPQVRDLQKGVEIVIATPGRLIDMLESHNTNLRRVTYLVLDEADRMLDMGFEPQIKKILS 272
+RD Q IV+ TPGR+ D ++ ++ +LDEAD ML GF+ QI +I +
Sbjct: 126 AEGLRDAQ----IVVGTPGRVFDNIQRRRFRTDKIKMFILDEADEMLSSGFKEQIYQIFT 181
Query: 273 QIRPDRQTLYWSATWPKEVEHLARQYLYNPYKVIIGSPDL 312
+ 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: 96 KPVKSFRDVGFPDYVMQEISKAGFFEPTPIQAQGWPMALKGRDLIGIAETGSGKTLAYLL 155
K V F D+ + +++ + GF EP+ IQ + ++G D++ A++G+GKT + +
Sbjct: 18 KVVYKFDDMELDEQLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSI 77
Query: 156 PAIVHVNAQPFLAPGDGPIVLVLAPTRELAVQIQQESTKFGASSKIKSTCIYGG---VPK 212
A+ ++ P L+LAPTRELA+QIQ+ IK GG V
Sbjct: 78 AALQRIDTSV-----KAPQALMLAPTRELALQIQKVVMALAFHMDIKVHACIGGTSFVED 132
Query: 213 GPQVRDLQKGVEIVIATPGRLIDMLESHNTNLRRVTYLVLDEADRMLDMGFEPQIKKILS 272
+RD Q IV+ TPGR+ D ++ ++ +LDEAD ML GF+ QI +I +
Sbjct: 133 AEGLRDAQ----IVVGTPGRVFDNIQRRRFRTDKIKMFILDEADEMLSSGFKEQIYQIFT 188
Query: 273 QIRPDRQTLYWSATWPKEVEHLARQYLYNPYKVII 307
+ 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 = 110 bits (276), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 79/237 (33%), Positives = 123/237 (51%), Gaps = 21/237 (8%)
Query: 87 ITVEGRDVPKPVKSFRDVG----FPDYVMQEISKAGFFEPTPIQAQGWPMALKGRDLIGI 142
I V+G D+P P+ +F+ + ++Q I AGF PTPIQ Q P+ L GR+L+
Sbjct: 13 IHVQGTDLPDPIATFQQLDQEYKINSRLLQNILDAGFQMPTPIQMQAIPVMLHGRELLAS 72
Query: 143 AETGSGKTLAYLLPAIVHVNAQPFLAPGDGPIVLVLAPTRELAVQIQQESTKFGASSKIK 202
A TGSGKTLA+ +P ++ + QP G L+++PTRELA QI +E K + +
Sbjct: 73 APTGSGKTLAFSIPILMQLK-QP---ANKGFRALIISPTRELASQIHRELIKISEGTGFR 128
Query: 203 STCIYGGVPK----GPQVRDLQKGVEIVIATPGRLIDMLESH--NTNLRRVTYLVLDEAD 256
I+ GP+ K +I++ TP RLI +L+ +L V +LV+DE+D
Sbjct: 129 IHMIHKAAVAAKKFGPKS---SKKFDILVTTPNRLIYLLKQDPPGIDLASVEWLVVDESD 185
Query: 257 RMLD---MGFEPQIKKILSQIRPDR-QTLYWSATWPKEVEHLARQYLYNPYKVIIGS 309
++ + 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: 91 GRDVPKPVKSFRDVGFPDYVMQ-----EISKAGFFEPTPIQAQGWPMALKGRDLIGIAET 145
G DV S GF D++++ I GF P+ +Q + P A+ G D++ A++
Sbjct: 1 GSDVKGSYVSIHSSGFRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKS 60
Query: 146 GSGKTLAYLLPAIVHVNAQPFLAPGDGPI-VLVLAPTRELAVQIQQESTKFGASS-KIKS 203
G GKT ++L + L P G + VLV+ TRELA QI +E +F +K
Sbjct: 61 GMGKTAVFVLATLQQ------LEPVTGQVSVLVMCHTRELAFQISKEYERFSKYMPNVKV 114
Query: 204 TCIYGGVPKGPQVRDLQKGV-EIVIATPGRLIDMLESHNTNLRRVTYLVLDEADRMLD-M 261
+GG+ L+K IV+ TPGR++ + + + NL+ + + +LDE D+ML+ +
Sbjct: 115 AVFFGGLSIKKDEEVLKKNCPHIVVGTPGRILALARNKSLNLKHIKHFILDECDKMLEQL 174
Query: 262 GFEPQIKKILSQIRPDRQTLYWSATWPKEVEHLARQYLYNPYKVII 307
+++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 (266), Expect = 2e-23, Method: Compositional matrix adjust.
Identities = 66/211 (31%), Positives = 109/211 (51%), Gaps = 6/211 (2%)
Query: 98 VKSFRDVGFPDYVMQEISKAGFFEPTPIQAQGWPMALKGRDLIGIAETGSGKTLAYLLPA 157
V +F D+ + +++ I GF +P+ IQ + +KG D+I A++G+GKT + +
Sbjct: 29 VDNFDDMNLKESLLRGIYAYGFEKPSAIQQRAIIPCIKGYDVIAQAQSGTGKTATFAISI 88
Query: 158 IVHVNAQPFLAPGDGPIVLVLAPTRELAVQIQQESTKFGASSKIKSTCIYGGVPKGPQVR 217
+ Q LVLAPTRELA QIQ+ G GG +++
Sbjct: 89 L-----QQLEIEFKETQALVLAPTRELAQQIQKVILALGDYMGATCHACIGGTNVRNEMQ 143
Query: 218 DLQ-KGVEIVIATPGRLIDMLESHNTNLRRVTYLVLDEADRMLDMGFEPQIKKILSQIRP 276
LQ + IV+ TPGR+ DML + + + VLDEAD ML GF+ QI +I ++
Sbjct: 144 KLQAEAPHIVVGTPGRVFDMLNRRYLSPKWIKMFVLDEADEMLSRGFKDQIYEIFQKLNT 203
Query: 277 DRQTLYWSATWPKEVEHLARQYLYNPYKVII 307
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: 98 VKSFRDVGFPDYVMQEISKAGFFEPTPIQAQGWPMALKGRDLIGIAETGSGKTLAYLLPA 157
V SF D+ + +++ I GF P+ IQ + + G D+I A++G+G T + +
Sbjct: 14 VDSFDDMNLSESLLRGIYAYGFEXPSAIQQRAILPCIXGYDVIAQAQSGTGXTATFAISI 73
Query: 158 IVHVNAQPFLAPGDGPIVLVLAPTRELAVQIQQESTKFGASSKIKSTCIYGGVPKGPQVR 217
+ + LVLAPTRELA QIQ G GG +V+
Sbjct: 74 LQQIELDLXATQA-----LVLAPTRELAQQIQXVVMALGDYMGASCHACIGGTNVRAEVQ 128
Query: 218 DLQ-KGVEIVIATPGRLIDMLESHNTNLRRVTYLVLDEADRMLDMGFEPQIKKILSQIRP 276
LQ + I++ TPGR+ DML + + VLDEAD ML GF QI I +
Sbjct: 129 XLQMEAPHIIVGTPGRVFDMLNRRYLSPXYIXMFVLDEADEMLSRGFXDQIYDIFQXLNS 188
Query: 277 DRQTLYWSATWPKEVEHLARQYLYNPYKVII 307
+ Q + SAT P +V + ++ +P ++++
Sbjct: 189 NTQVVLLSATMPSDVLEVTXXFMRDPIRILV 219
>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 = 101 bits (252), Expect = 8e-22, Method: Compositional matrix adjust.
Identities = 87/333 (26%), Positives = 158/333 (47%), Gaps = 23/333 (6%)
Query: 87 ITVEGRDVPKP---VKSFRDVGFPDYVMQEISKAGFFEPTPIQAQGWPMALKG--RDLIG 141
+ V RD P VKSF ++ ++Q + GF P+ IQ P+ L ++LI
Sbjct: 47 VEVLQRDPNSPLYSVKSFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIA 106
Query: 142 IAETGSGKTLAYLLPAIVHVNAQPFLAPGDG-PIVLVLAPTRELAVQ---IQQESTKFGA 197
+++G+GKT A++L + V P + P L L+PT ELA+Q + ++ KF
Sbjct: 107 QSQSGTGKTAAFVLAMLSQVE------PANKYPQCLCLSPTYELALQTGKVIEQMGKFYP 160
Query: 198 SSKIKSTCIYGGVPKGPQVRDLQKGVEIVIATPGRLIDMLESHN-TNLRRVTYLVLDEAD 256
K+ + +G ++ + +IVI TPG ++D + +++ VLDEAD
Sbjct: 161 ELKLAYAVRGNKLERGQKISE-----QIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEAD 215
Query: 257 RML-DMGFEPQIKKILSQIRPDRQTLYWSATWPKEVEHLARQYLYNPYKVIIGSPDLKAN 315
M+ G + Q +I + + Q L +SAT+ V A++ + +P + + + +
Sbjct: 216 VMIATQGHQDQSIRIQRMLPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKREEETLD 275
Query: 316 HAIRQHVDIVSESQKYNKLVKLLEDIMDGSRILIFMDTKKGCDQITRQLRMDGWPALSIH 375
+ +V S +K+ L L I ++ +IF T+K + +L +G +
Sbjct: 276 TIKQYYVLCSSRDEKFQALCNLYGAITI-AQAMIFCHTRKTASWLAAELSKEGHQVALLS 334
Query: 376 GDKSQAERDWVLSEFKAGKSPIMTATDVAARGL 408
G+ +R V+ F+ GK ++ T+V ARG+
Sbjct: 335 GEMMVEQRAAVIERFREGKEKVLVTTNVCARGI 367
>pdb|3G0H|A Chain A, Human Dead-box Rna Helicase Ddx19, In Complex With An
Atp-analogue And Rna
Length = 424
Score = 101 bits (251), Expect = 9e-22, Method: Compositional matrix adjust.
Identities = 87/333 (26%), Positives = 158/333 (47%), Gaps = 23/333 (6%)
Query: 87 ITVEGRDVPKP---VKSFRDVGFPDYVMQEISKAGFFEPTPIQAQGWPMALKG--RDLIG 141
+ V RD P VKSF ++ ++Q + GF P+ IQ P+ L ++LI
Sbjct: 26 VEVLQRDPNSPLYSVKSFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIA 85
Query: 142 IAETGSGKTLAYLLPAIVHVNAQPFLAPGDG-PIVLVLAPTRELAVQ---IQQESTKFGA 197
+++G+GKT A++L + V P + P L L+PT ELA+Q + ++ KF
Sbjct: 86 QSQSGTGKTAAFVLAMLSQVE------PANKYPQCLCLSPTYELALQTGKVIEQMGKFYP 139
Query: 198 SSKIKSTCIYGGVPKGPQVRDLQKGVEIVIATPGRLIDMLESHN-TNLRRVTYLVLDEAD 256
K+ + +G ++ + +IVI TPG ++D + +++ VLDEAD
Sbjct: 140 ELKLAYAVRGNKLERGQKISE-----QIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEAD 194
Query: 257 RML-DMGFEPQIKKILSQIRPDRQTLYWSATWPKEVEHLARQYLYNPYKVIIGSPDLKAN 315
M+ G + Q +I + + Q L +SAT+ V A++ + +P + + + +
Sbjct: 195 VMIATQGHQDQSIRIQRMLPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKREEETLD 254
Query: 316 HAIRQHVDIVSESQKYNKLVKLLEDIMDGSRILIFMDTKKGCDQITRQLRMDGWPALSIH 375
+ +V S +K+ L L I ++ +IF T+K + +L +G +
Sbjct: 255 TIKQYYVLCSSRDEKFQALCNLYGAITI-AQAMIFCHTRKTASWLAAELSKEGHQVALLS 313
Query: 376 GDKSQAERDWVLSEFKAGKSPIMTATDVAARGL 408
G+ +R V+ F+ GK ++ T+V ARG+
Sbjct: 314 GEMMVEQRAAVIERFREGKEKVLVTTNVCARGI 346
>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 = 101 bits (251), Expect = 9e-22, Method: Compositional matrix adjust.
Identities = 87/333 (26%), Positives = 158/333 (47%), Gaps = 23/333 (6%)
Query: 87 ITVEGRDVPKP---VKSFRDVGFPDYVMQEISKAGFFEPTPIQAQGWPMALKG--RDLIG 141
+ V RD P VKSF ++ ++Q + GF P+ IQ P+ L ++LI
Sbjct: 10 VEVLQRDPNSPLYSVKSFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIA 69
Query: 142 IAETGSGKTLAYLLPAIVHVNAQPFLAPGDG-PIVLVLAPTRELAVQ---IQQESTKFGA 197
+++G+GKT A++L + V P + P L L+PT ELA+Q + ++ KF
Sbjct: 70 QSQSGTGKTAAFVLAMLSQVE------PANKYPQCLCLSPTYELALQTGKVIEQMGKFYP 123
Query: 198 SSKIKSTCIYGGVPKGPQVRDLQKGVEIVIATPGRLIDMLESHN-TNLRRVTYLVLDEAD 256
K+ + +G ++ + +IVI TPG ++D + +++ VLDEAD
Sbjct: 124 ELKLAYAVRGNKLERGQKISE-----QIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEAD 178
Query: 257 RML-DMGFEPQIKKILSQIRPDRQTLYWSATWPKEVEHLARQYLYNPYKVIIGSPDLKAN 315
M+ G + Q +I + + Q L +SAT+ V A++ + +P + + + +
Sbjct: 179 VMIATQGHQDQSIRIQRMLPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKREEETLD 238
Query: 316 HAIRQHVDIVSESQKYNKLVKLLEDIMDGSRILIFMDTKKGCDQITRQLRMDGWPALSIH 375
+ +V S +K+ L L I ++ +IF T+K + +L +G +
Sbjct: 239 TIKQYYVLCSSRDEKFQALCNLYGAITI-AQAMIFCHTRKTASWLAAELSKEGHQVALLS 297
Query: 376 GDKSQAERDWVLSEFKAGKSPIMTATDVAARGL 408
G+ +R V+ F+ GK ++ T+V ARG+
Sbjct: 298 GEMMVEQRAAVIERFREGKEKVLVTTNVCARGI 330
>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 = 101 bits (251), Expect = 1e-21, Method: Compositional matrix adjust.
Identities = 87/333 (26%), Positives = 158/333 (47%), Gaps = 23/333 (6%)
Query: 87 ITVEGRDVPKP---VKSFRDVGFPDYVMQEISKAGFFEPTPIQAQGWPMALKG--RDLIG 141
+ V RD P VKSF ++ ++Q + GF P+ IQ P+ L ++LI
Sbjct: 77 VEVLQRDPNSPLYSVKSFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIA 136
Query: 142 IAETGSGKTLAYLLPAIVHVNAQPFLAPGDG-PIVLVLAPTRELAVQ---IQQESTKFGA 197
+++G+GKT A++L + V P + P L L+PT ELA+Q + ++ KF
Sbjct: 137 QSQSGTGKTAAFVLAMLSQVE------PANKYPQCLCLSPTYELALQTGKVIEQMGKFYP 190
Query: 198 SSKIKSTCIYGGVPKGPQVRDLQKGVEIVIATPGRLIDMLESHN-TNLRRVTYLVLDEAD 256
K+ + +G ++ + +IVI TPG ++D + +++ VLDEAD
Sbjct: 191 ELKLAYAVRGNKLERGQKISE-----QIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEAD 245
Query: 257 RML-DMGFEPQIKKILSQIRPDRQTLYWSATWPKEVEHLARQYLYNPYKVIIGSPDLKAN 315
M+ G + Q +I + + Q L +SAT+ V A++ + +P + + + +
Sbjct: 246 VMIATQGHQDQSIRIQRMLPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKREEETLD 305
Query: 316 HAIRQHVDIVSESQKYNKLVKLLEDIMDGSRILIFMDTKKGCDQITRQLRMDGWPALSIH 375
+ +V S +K+ L L I ++ +IF T+K + +L +G +
Sbjct: 306 TIKQYYVLCSSRDEKFQALCNLYGAIT-IAQAMIFCHTRKTASWLAAELSKEGHQVALLS 364
Query: 376 GDKSQAERDWVLSEFKAGKSPIMTATDVAARGL 408
G+ +R V+ F+ GK ++ T+V ARG+
Sbjct: 365 GEMMVEQRAAVIERFREGKEKVLVTTNVCARGI 397
>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: 110 VMQEISKAGFFEPTPIQAQGWPMALKGRDLIGIAETGSGKTLAYLLPAIVHVNAQPFLAP 169
V++ + AGF P+P+Q + P+ G DLI A++G+GKT + A+ + +
Sbjct: 35 VLEGLRAAGFERPSPVQLKAIPLGRCGLDLIVQAKSGTGKTCVFSTIALDSLVLENL--- 91
Query: 170 GDGPIVLVLAPTRELAVQIQQESTKFGASSK-IKSTCIYGGVPKGPQVRDLQKGVEIVIA 228
+L+LAPTRE+AVQI T G + ++ GG P L+K I +
Sbjct: 92 --STQILILAPTREIAVQIHSVITAIGIKMEGLECHVFIGGTPLSQDKTRLKK-CHIAVG 148
Query: 229 TPGRLIDMLESHNTNLRRVTYLVLDEADRMLDMG-FEPQIKKILSQIRPDRQTLYWSATW 287
+PGR+ ++E N + +LDEAD++L+ G F+ QI I S + +Q L SAT+
Sbjct: 149 SPGRIKQLIELDYLNPGSIRLFILDEADKLLEEGSFQEQINWIYSSLPASKQMLAVSATY 208
Query: 288 PKEVEHLARQYLYNPYKVIIGS 309
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 = 94.0 bits (232), Expect = 1e-19, Method: Compositional matrix adjust.
Identities = 64/207 (30%), Positives = 109/207 (52%), Gaps = 14/207 (6%)
Query: 99 KSFRDVGFPDYVMQEISKAGFFEPTPIQAQGWPMALKG--RDLIGIAETGSGKTLAYLLP 156
KSF ++G +++ I F +P+ IQ + P+ L R++I +++G+GKT A+ L
Sbjct: 22 KSFDELGLAPELLKGIYAMKFQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAAFSLT 81
Query: 157 AIVHVNAQPFLAPGDG-PIVLVLAPTRELAVQIQQESTKFGASSKIKSTCIYGGVPKGPQ 215
+ VN P D P + LAP+RELA Q + + G +KI S I VP +
Sbjct: 82 MLTRVN------PEDASPQAICLAPSRELARQTLEVVQEMGKFTKITSQLI---VPDSFE 132
Query: 216 VRDLQKGVEIVIATPGRLIDMLESHNTNLRRVTYLVLDEADRMLD-MGFEPQIKKILSQI 274
++ Q ++++ TPG ++D++ L+++ VLDEAD MLD G Q ++ +
Sbjct: 133 -KNKQINAQVIVGTPGTVLDLMRRKLMQLQKIKIFVLDEADNMLDQQGLGDQCIRVKRFL 191
Query: 275 RPDRQTLYWSATWPKEVEHLARQYLYN 301
D Q + +SAT+ V A++ + N
Sbjct: 192 PKDTQLVLFSATFADAVRQYAKKIVPN 218
>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 = 80.1 bits (196), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 43/91 (47%), Positives = 58/91 (63%)
Query: 318 IRQHVDIVSESQKYNKLVKLLEDIMDGSRILIFMDTKKGCDQITRQLRMDGWPALSIHGD 377
I Q V V ES K + L+ LL S L+F++TKKG D + L +G+ SIHGD
Sbjct: 20 ITQKVVWVEESDKRSFLLDLLNATGKDSLTLVFVETKKGADSLEDFLYHEGYACTSIHGD 79
Query: 378 KSQAERDWVLSEFKAGKSPIMTATDVAARGL 408
+SQ +R+ L +F++GKSPI+ AT VAARGL
Sbjct: 80 RSQRDREEALHQFRSGKSPILVATAVAARGL 110
>pdb|3FMO|B Chain B, Crystal Structure Of The Nucleoporin Nup214 In Complex
With The Dead- Box Helicase Ddx19
Length = 300
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: 87 ITVEGRDVPKP---VKSFRDVGFPDYVMQEISKAGFFEPTPIQAQGWPMALKG--RDLIG 141
+ V RD P VKSF ++ ++Q + GF P+ IQ P+ L ++LI
Sbjct: 77 VEVLQRDPNSPLYSVKSFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIA 136
Query: 142 IAETGSGKTLAYLLPAIVHVNAQPFLAPGDG-PIVLVLAPTRELAVQ---IQQESTKFGA 197
+++G+GKT A++L + V P + P L L+PT ELA+Q + ++ KF
Sbjct: 137 QSQSGTGKTAAFVLAMLSQVE------PANKYPQCLCLSPTYELALQTGKVIEQMGKFYP 190
Query: 198 SSKIKSTCIYGGVPKGPQVRDLQKGVEIVIATPGRLIDMLESHN-TNLRRVTYLVLDEAD 256
K+ + +G ++ + +IVI TPG ++D + +++ VLDEAD
Sbjct: 191 ELKLAYAVRGNKLERGQKISE-----QIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEAD 245
Query: 257 RML-DMGFEPQIKKILSQIRPDRQTLYWSATWPKEVEHLARQYLYNP 302
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 = 72.8 bits (177), Expect = 4e-13, Method: Compositional matrix adjust.
Identities = 64/227 (28%), Positives = 111/227 (48%), Gaps = 22/227 (9%)
Query: 87 ITVEGRDVPKP---VKSFRDVGFPDYVMQEISKAGFFEPTPIQAQGWPMALKG--RDLIG 141
+ V RD P VKSF ++ ++Q + GF P+ IQ P+ L ++LI
Sbjct: 10 VEVLQRDPNSPLYSVKSFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIA 69
Query: 142 IAETGSGKTLAYLLPAIVHVNAQPFLAPGDG-PIVLVLAPTRELAVQ---IQQESTKFGA 197
+++G+GKT A++L + V P + P L L+PT ELA+Q + ++ KF
Sbjct: 70 QSQSGTGKTAAFVLAMLSQVE------PANKYPQCLCLSPTYELALQTGKVIEQMGKFYP 123
Query: 198 SSKIKSTCIYGGVPKGPQVRDLQKGVEIVIATPGRLIDMLESHN-TNLRRVTYLVLDEAD 256
K+ + +G ++ + +IVI TPG ++D + +++ VLDEAD
Sbjct: 124 ELKLAYAVRGNKLERGQKISE-----QIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEAD 178
Query: 257 RML-DMGFEPQIKKILSQIRPDRQTLYWSATWPKEVEHLARQYLYNP 302
M+ G + Q +I + + Q L +SAT+ V A++ + +P
Sbjct: 179 VMIATQGHQDQSIRIQRMLPRNCQMLLFSATFEDSVWKFAQKVVPDP 225
>pdb|1FUK|A Chain A, Crystal Structure Of The Carboxy Terminal Domain Of Yeast
Eif4a
Length = 165
Score = 63.5 bits (153), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 32/94 (34%), Positives = 58/94 (61%), Gaps = 2/94 (2%)
Query: 316 HAIRQ-HVDIVSESQKYNKLVKLLEDIMDGSRILIFMDTKKGCDQITRQLRMDGWPALSI 374
I+Q +V++ E KY L L D + ++ +IF +T++ +++T +LR D + +I
Sbjct: 2 EGIKQFYVNVEEEEYKYECLTDLY-DSISVTQAVIFCNTRRKVEELTTKLRNDKFTVSAI 60
Query: 375 HGDKSQAERDWVLSEFKAGKSPIMTATDVAARGL 408
+ D Q ERD ++ EF++G S I+ +TD+ ARG+
Sbjct: 61 YSDLPQQERDTIMKEFRSGSSRILISTDLLARGI 94
>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 = 60.8 bits (146), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 29/63 (46%), Positives = 41/63 (65%)
Query: 346 RILIFMDTKKGCDQITRQLRMDGWPALSIHGDKSQAERDWVLSEFKAGKSPIMTATDVAA 405
R ++F TK ++I + L G PA ++HGD SQ ER+ VL F+ G+ ++ ATDVAA
Sbjct: 33 RAMVFTRTKAETEEIAQGLLRLGHPAQALHGDLSQGERERVLGAFRQGEVRVLVATDVAA 92
Query: 406 RGL 408
RGL
Sbjct: 93 RGL 95
>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 = 60.1 bits (144), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 28/63 (44%), Positives = 41/63 (65%)
Query: 346 RILIFMDTKKGCDQITRQLRMDGWPALSIHGDKSQAERDWVLSEFKAGKSPIMTATDVAA 405
R ++F TK ++I + L G PA ++HGD SQ ER+ V+ F+ G+ ++ ATDVAA
Sbjct: 30 RAMVFTRTKAETEEIAQGLLRLGHPAQALHGDMSQGERERVMGAFRQGEVRVLVATDVAA 89
Query: 406 RGL 408
RGL
Sbjct: 90 RGL 92
>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 = 57.4 bits (137), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 35/90 (38%), Positives = 49/90 (54%), Gaps = 4/90 (4%)
Query: 320 QHVDIVSESQKYNKLVKLLEDIMDGSR-ILIFMDTKKGCDQITRQLRMDGWPALSIHGDK 378
Q V+ V E K +V LLE + +LIF + K D I L + G A++IHG K
Sbjct: 32 QEVEYVKEEAK---MVYLLECLQKTPPPVLIFAEKKADVDAIHEYLLLKGVEAVAIHGGK 88
Query: 379 SQAERDWVLSEFKAGKSPIMTATDVAARGL 408
Q ER + F+ GK ++ ATDVA++GL
Sbjct: 89 DQEERTKAIEAFREGKKDVLVATDVASKGL 118
>pdb|2KBF|A Chain A, Solution Structure Of Carboxyl-Terminal Domain Of Dbp5p
Length = 187
Score = 55.8 bits (133), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 32/93 (34%), Positives = 57/93 (61%), Gaps = 2/93 (2%)
Query: 317 AIRQ-HVDIVSESQKYNKLVKLLEDIMDGSRILIFMDTKKGCDQITRQLRMDGWPALSIH 375
AI+Q ++D +E+ K++ L +L + GS I IF+ TKK + + +L+ +G +H
Sbjct: 8 AIKQLYMDCKNEADKFDVLTELYGLMTIGSSI-IFVATKKTANVLYGKLKSEGHEVSILH 66
Query: 376 GDKSQAERDWVLSEFKAGKSPIMTATDVAARGL 408
GD ERD ++ +F+ G+S ++ T+V ARG+
Sbjct: 67 GDLQTQERDRLIDDFREGRSKVLITTNVLARGI 99
>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 = 55.5 bits (132), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 36/96 (37%), Positives = 55/96 (57%), Gaps = 11/96 (11%)
Query: 316 HAIRQHVDIVSESQKYNKLVKLLEDIM---DGSRILIFMDTKKGCDQITRQLRMDGWPAL 372
HA+ Q V E K++ LL+D++ + +IF TK+ +Q+T +L G+P
Sbjct: 12 HAVIQ----VREENKFS----LLKDVLMTENPDSCIIFCRTKEHVNQLTDELDDLGYPCD 63
Query: 373 SIHGDKSQAERDWVLSEFKAGKSPIMTATDVAARGL 408
IHG Q +R V++EFK G+ + ATDVAARG+
Sbjct: 64 KIHGGMIQEDRFDVMNEFKRGEYRYLVATDVAARGI 99
>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 = 54.7 bits (130), Expect = 9e-08, Method: Compositional matrix adjust.
Identities = 32/93 (34%), Positives = 55/93 (59%), Gaps = 2/93 (2%)
Query: 317 AIRQ-HVDIVSESQKYNKLVKLLEDIMDGSRILIFMDTKKGCDQITRQLRMDGWPALSIH 375
AI+Q + D +E+ K++ L +L GS I IF+ TKK + + +L+ +G +H
Sbjct: 9 AIKQLYXDCKNEADKFDVLTELYGVXTIGSSI-IFVATKKTANVLYGKLKSEGHEVSILH 67
Query: 376 GDKSQAERDWVLSEFKAGKSPIMTATDVAARGL 408
GD ERD ++ +F+ G+S ++ T+V ARG+
Sbjct: 68 GDLQTQERDRLIDDFREGRSKVLITTNVLARGI 100
>pdb|3GFP|A Chain A, Structure Of The C-Terminal Domain Of The Dead-Box Protein
Dbp5
Length = 189
Score = 54.3 bits (129), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 32/93 (34%), Positives = 55/93 (59%), Gaps = 2/93 (2%)
Query: 317 AIRQ-HVDIVSESQKYNKLVKLLEDIMDGSRILIFMDTKKGCDQITRQLRMDGWPALSIH 375
AI+Q + D +E+ K++ L +L GS I IF+ TKK + + +L+ +G +H
Sbjct: 10 AIKQLYXDCKNEADKFDVLTELYGLXTIGSSI-IFVATKKTANVLYGKLKSEGHEVSILH 68
Query: 376 GDKSQAERDWVLSEFKAGKSPIMTATDVAARGL 408
GD ERD ++ +F+ G+S ++ T+V ARG+
Sbjct: 69 GDLQTQERDRLIDDFREGRSKVLITTNVLARGI 101
>pdb|1T5I|A Chain A, Crystal Structure Of The C-Terminal Domain Of Uap56
Length = 172
Score = 48.5 bits (114), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 26/93 (27%), Positives = 54/93 (58%), Gaps = 1/93 (1%)
Query: 316 HAIRQHVDIVSESQKYNKLVKLLEDIMDGSRILIFMDTKKGCDQITRQLRMDGWPALSIH 375
H ++Q+ + +++K KL LL D+++ ++++IF+ + + C + + L +PA++IH
Sbjct: 4 HGLQQYYVKLKDNEKNRKLFDLL-DVLEFNQVVIFVKSVQRCIALAQLLVEQNFPAIAIH 62
Query: 376 GDKSQAERDWVLSEFKAGKSPIMTATDVAARGL 408
Q ER +FK + I+ AT++ RG+
Sbjct: 63 RGMPQEERLSRYQQFKDFQRRILVATNLFGRGM 95
>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 = 42.0 bits (97), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 23/101 (22%), Positives = 46/101 (45%), Gaps = 1/101 (0%)
Query: 317 AIRQHVDIVSESQKYNKLVKLLEDIMDGSRILIFMDTKKGCDQITRQLRMDGWPALSIHG 376
+ Q+ V+E QK + L L + I IF ++ + + + +++ G+ IH
Sbjct: 18 GVTQYYAYVTERQKVHCLNTLFSRLQINQSI-IFCNSSQRVELLAKKISQLGYSCFYIHA 76
Query: 377 DKSQAERDWVLSEFKAGKSPIMTATDVAARGLGNCACVIIV 417
Q R+ V +F+ G + TD+ RG+ A +++
Sbjct: 77 KMRQEHRNRVFHDFRNGLCRNLVCTDLFTRGIDIQAVNVVI 117
>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: 120 FEPTPIQAQGWPMALKGRDLIGIAETGSGKTLAYLLPAIVHVNAQPFLAPGDGPIVLVLA 179
F+P Q + A+KG++ I A TG GKT LL H+ P G V+ A
Sbjct: 11 FKPRNYQLELALPAMKGKNTIICAPTGCGKTFVSLLICEHHLKKFP---QGQKGKVVFFA 67
Query: 180 PTRELAVQIQQES--TKFGASSKIKSTCIYGGVPKGPQVRDLQKGVEIVIATPGRLIDML 237
++ V QQ+S +K+ + T I G + V + + +I+I TP L++ L
Sbjct: 68 --NQIPVYEQQKSVFSKYFERHGYRVTGISGATAENVPVEQIVENNDIIILTPQILVNNL 125
Query: 238 ESHNT-NLRRVTYLVLDEA 255
+ +L T ++ DE
Sbjct: 126 KKGTIPSLSIFTLMIFDEC 144
>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 = 41.2 bits (95), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 27/103 (26%), Positives = 49/103 (47%), Gaps = 2/103 (1%)
Query: 316 HAIRQHVDIVSESQ-KYNKLVKLLEDIMDGSRILIFMDTKKGCDQITRQLRMDGWPALSI 374
+ IRQ+ + + KY L + I G I IF T++ +T ++ DG +
Sbjct: 6 NNIRQYYVLCEHRKDKYQALCNIYGSITIGQAI-IFCQTRRNAKWLTVEMIQDGHQVSLL 64
Query: 375 HGDKSQAERDWVLSEFKAGKSPIMTATDVAARGLGNCACVIIV 417
G+ + +R ++ F+ GK ++ T+V ARG+ I+V
Sbjct: 65 SGELTVEQRASIIQRFRDGKEKVLITTNVCARGIDVKQVTIVV 107
>pdb|4AY2|A Chain A, Capturing 5' Tri-Phosphorylated Rna Duplex By Rig-I
Length = 687
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: 120 FEPTPIQAQGWPMALKGRDLIGIAETGSGKTLAYLLPAIVHVNAQPFLAPGDGPIVLVLA 179
F+P Q + A+KG++ I A TG GKT LL H+ P G V+ A
Sbjct: 3 FKPRNYQLELALPAMKGKNTIICAPTGCGKTFVSLLICEHHLKKFP---QGQKGKVVFFA 59
Query: 180 PTRELAVQIQQESTKFGASSKIKSTCIYGGVPKGPQVRDLQKGVEIVIATPGRLIDMLES 239
+ Q + +K+ + T I G + V + + +I+I TP L++ L+
Sbjct: 60 NQIPVYEQNKSVFSKYFERHGYRVTGISGATAENVPVEQIVENNDIIILTPQILVNNLKK 119
Query: 240 HNT-NLRRVTYLVLDEA 255
+L T ++ DE
Sbjct: 120 GTIPSLSIFTLMIFDEC 136
>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: 120 FEPTPIQAQGWPMALKGRDLIGIAETGSGKTLAYLLPAIVHVNAQPFLAPGDGPIVLVLA 179
F+P Q + A+KG++ I A TG GKT LL H+ P G V+ A
Sbjct: 12 FKPRNYQLELALPAMKGKNTIICAPTGCGKTFVSLLICEHHLKKFP---QGQKGKVVFFA 68
Query: 180 PTRELAVQIQQESTKFGASSKIKSTCIYGGVPKGPQVRDLQKGVEIVIATPGRLIDMLES 239
+ Q + +K+ + T I G + V + + +I+I TP L++ L+
Sbjct: 69 NQIPVYEQNKSVFSKYFERHGYRVTGISGATAENVPVEQIVENNDIIILTPQILVNNLKK 128
Query: 240 HNT-NLRRVTYLVLDEA 255
+L T ++ DE
Sbjct: 129 GTIPSLSIFTLMIFDEC 145
>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 = 39.7 bits (91), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 70/304 (23%), Positives = 120/304 (39%), Gaps = 41/304 (13%)
Query: 110 VMQEISKAGFFEPTPIQAQGWPMALKGRDLIGIAETGSGKTLAYLLPAIVHVNAQPFLAP 169
++Q + K F P ++ MA G+++ + TG GK+L Y LPA+
Sbjct: 35 ILQNVFKLEKFRPLQLETINVTMA--GKEVFLVMPTGGGKSLCYQLPALC---------- 82
Query: 170 GDGPIVLVLAPTRELAVQIQQESTKFGASSKIKSTCIYGGVPKGPQVRDLQKGVE--IVI 227
DG LV+ P L + G S+ + + K + K E ++
Sbjct: 83 SDG-FTLVICPLISLMEDQLMVLKQLGISATMLNASSSKEHVKWVHAEMVNKNSELKLIY 141
Query: 228 ATPGRL------IDMLESHNTNLRRVTYLVLDEADRMLDMG--FEPQIKK--ILSQIRPD 277
TP ++ + LE RR T + +DE G F P K IL + P+
Sbjct: 142 VTPEKIAKSKMFMSRLEK-AYEARRFTRIAVDEVHCCSQWGHDFRPDYKALGILKRQFPN 200
Query: 278 RQTLYWSATWPKEVEHLARQYL----YNPYKVIIGSPDLKANHAIRQHVDIVSESQKY-N 332
+ +AT V A++ L + P+L + +RQ S ++ +
Sbjct: 201 ASLIGLTATATNHVLTDAQKILCIEKCFTFTASFNRPNLY--YEVRQK---PSNTEDFIE 255
Query: 333 KLVKLLEDIMDGSRILIFMDTKKGCDQITRQLRMDGWPALSIHG-----DKSQAERDWVL 387
+VKL+ G +I+ ++K +Q+T L+ G A + H DK+ R W
Sbjct: 256 DIVKLINGRYKGQSGIIYCFSQKDSEQVTVSLQNLGIHAGAYHANLEPEDKTTVHRKWSA 315
Query: 388 SEFK 391
+E +
Sbjct: 316 NEIQ 319
>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 = 38.9 bits (89), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 21/75 (28%), Positives = 40/75 (53%), Gaps = 1/75 (1%)
Query: 334 LVKLLEDIMDGSRILIFMDTKKGCDQITRQLRMDGWPALSIHGDKSQAERDWVLSEFKAG 393
LV LL+ + +R ++F+ ++ ++ LR G + G+ Q +R+ + G
Sbjct: 21 LVHLLKQ-PEATRSIVFVRKRERVHELANWLREAGINNCYLEGEMVQGKRNEAIKRLTEG 79
Query: 394 KSPIMTATDVAARGL 408
+ ++ ATDVAARG+
Sbjct: 80 RVNVLVATDVAARGI 94
>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 = 38.9 bits (89), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 18/52 (34%), Positives = 28/52 (53%), Gaps = 1/52 (1%)
Query: 357 CDQITRQLRMDGWPALSIHGDKSQAERDWVLSEFKAGKSPIMTATDVAARGL 408
C + + + D P L HG +Q +R ++ FK +S I+ TDV ARG+
Sbjct: 50 CSILKNEFKKD-LPILEFHGKITQNKRTSLVKRFKKDESGILVCTDVGARGM 100
>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 = 38.9 bits (89), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 18/52 (34%), Positives = 28/52 (53%), Gaps = 1/52 (1%)
Query: 357 CDQITRQLRMDGWPALSIHGDKSQAERDWVLSEFKAGKSPIMTATDVAARGL 408
C + + + D P L HG +Q +R ++ FK +S I+ TDV ARG+
Sbjct: 50 CSILKNEFKKD-LPILEFHGKITQNKRTSLVKRFKKDESGILVCTDVGARGM 100
>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 = 38.9 bits (89), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 18/52 (34%), Positives = 28/52 (53%), Gaps = 1/52 (1%)
Query: 357 CDQITRQLRMDGWPALSIHGDKSQAERDWVLSEFKAGKSPIMTATDVAARGL 408
C + + + D P L HG +Q +R ++ FK +S I+ TDV ARG+
Sbjct: 50 CSILKNEFKKD-LPILEFHGKITQNKRTSLVKRFKKDESGILVCTDVGARGM 100
>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 = 36.2 bits (82), Expect = 0.037, Method: Compositional matrix adjust.
Identities = 28/107 (26%), Positives = 50/107 (46%), Gaps = 11/107 (10%)
Query: 313 KANHAIRQHVDIVSESQKYNKLVKLLEDIMD---GSRILIFMDTKKGCDQITRQLRMDGW 369
KA + Q +I + K +KL +++ + + S+I++F + ++ +I +L DG
Sbjct: 327 KAISLLVQAKEIGLDHPKMDKLKEIIREQLQRKQNSKIIVFTNYRETAKKIVNELVKDGI 386
Query: 370 PALSIHGDK--------SQAERDWVLSEFKAGKSPIMTATDVAARGL 408
A G SQ E+ +L EF G+ ++ AT V GL
Sbjct: 387 KAKRFVGQASKENDRGLSQREQKLILDEFARGEFNVLVATSVGEEGL 433
Score = 32.0 bits (71), Expect = 0.72, Method: Compositional matrix adjust.
Identities = 32/114 (28%), Positives = 52/114 (45%), Gaps = 10/114 (8%)
Query: 145 TGSGKTLAYLLPAIVHVNAQPFLAPGDGPIVLVLAPTRELAVQIQQESTKFGASSKIKST 204
TG GKTL ++ A + G VL+LAPT+ L +Q + + K
Sbjct: 32 TGLGKTLIAMMIA-------EYRLTKYGGKVLMLAPTKPLVLQHAESFRRLFNLPPEKIV 84
Query: 205 CIYGGVPKGPQVRDLQ-KGVEIVIATPGRLIDMLESHNTNLRRVTYLVLDEADR 257
+ G K P+ R ++++ATP + + L + +L V+ +V DEA R
Sbjct: 85 ALTG--EKSPEERSKAWARAKVIVATPQTIENDLLAGRISLEDVSLIVFDEAHR 136
>pdb|2VA8|A Chain A, Dna Repair Helicase Hel308
pdb|2VA8|B Chain B, Dna Repair Helicase Hel308
Length = 715
Score = 34.3 bits (77), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 47/182 (25%), Positives = 70/182 (38%), Gaps = 18/182 (9%)
Query: 103 DVGFPDYVMQEISKAGFFEPTPIQAQGWPMAL-KGRDLIGIAETGSGKTLAYLLPAIVHV 161
D+ P V++ I K G + P Q + L +G L+ + TGSGKTL I +
Sbjct: 12 DLKLPSNVIEIIKKRGIKKLNPPQTEAVKKGLLEGNRLLLTSPTGSGKTL------IAEM 65
Query: 162 NAQPFLAPGDGPIVLVLAPTRELAVQIQQESTKFGASSKIKSTCIYGGVPKGPQVRD--L 219
FL G + V P R L + K+ + + G D
Sbjct: 66 GIISFLLKNGGKAIYV-TPLRALT------NEKYLTFKDWELIGFKVAMTSGDYDTDDAW 118
Query: 220 QKGVEIVIATPGRLIDMLESHNTNLRRVTYLVLDEADRMLDMGFEPQIKKILSQIRPDRQ 279
K +I+I T +L + L V Y VLDE + D P ++ + IR R+
Sbjct: 119 LKNYDIIITTYEKLDSLWRHRPEWLNEVNYFVLDELHYLNDPERGPVVESV--TIRAKRR 176
Query: 280 TL 281
L
Sbjct: 177 NL 178
>pdb|4I1S|A Chain A, Melanoma Differentiation Associated Protein-5 Helicase
Domain Complex With Inhibitor Non-structural Protein V
Length = 243
Score = 32.7 bits (73), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 15/39 (38%), Positives = 24/39 (61%)
Query: 379 SQAERDWVLSEFKAGKSPIMTATDVAARGLGNCACVIIV 417
+Q E+ V+S+F+ GK ++ AT VA GL C I++
Sbjct: 199 TQNEQREVISKFRTGKINLLIATTVAEEGLDIKECNIVI 237
>pdb|1OYW|A Chain A, Structure Of The Recq Catalytic Core
Length = 523
Score = 32.7 bits (73), Expect = 0.41, Method: Compositional matrix adjust.
Identities = 18/50 (36%), Positives = 28/50 (56%), Gaps = 2/50 (4%)
Query: 110 VMQEISKAGFFEPTPIQAQGWPMALKGRDLIGIAETGSGKTLAYLLPAIV 159
V+QE G+ + P Q + L GRD + + TG GK+L Y +PA++
Sbjct: 16 VLQETF--GYQQFRPGQEEIIDTVLSGRDCLVVXPTGGGKSLCYQIPALL 63
>pdb|4GL2|A Chain A, Structural Basis For Dsrna Duplex Backbone Recognition By
Mda5
pdb|4GL2|B Chain B, Structural Basis For Dsrna Duplex Backbone Recognition By
Mda5
Length = 699
Score = 32.7 bits (73), Expect = 0.42, Method: Compositional matrix adjust.
Identities = 15/39 (38%), Positives = 24/39 (61%)
Query: 379 SQAERDWVLSEFKAGKSPIMTATDVAARGLGNCACVIIV 417
+Q E+ V+S+F+ GK ++ AT VA GL C I++
Sbjct: 449 TQNEQKEVISKFRTGKINLLIATTVAEEGLDIKECNIVI 487
>pdb|1OYY|A Chain A, Structure Of The Recq Catalytic Core Bound To Atp-Gamma-S
Length = 523
Score = 32.3 bits (72), Expect = 0.52, Method: Compositional matrix adjust.
Identities = 18/50 (36%), Positives = 28/50 (56%), Gaps = 2/50 (4%)
Query: 110 VMQEISKAGFFEPTPIQAQGWPMALKGRDLIGIAETGSGKTLAYLLPAIV 159
V+QE G+ + P Q + L GRD + + TG GK+L Y +PA++
Sbjct: 16 VLQETF--GYQQFRPGQEEIIDTVLSGRDCLVVMPTGGGKSLCYQIPALL 63
>pdb|1GM5|A Chain A, Structure Of Recg Bound To Three-Way Dna Junction
Length = 780
Score = 31.6 bits (70), Expect = 0.88, Method: Compositional matrix adjust.
Identities = 20/81 (24%), Positives = 38/81 (46%), Gaps = 11/81 (13%)
Query: 339 EDIMDGSRILIFMDTKKGCDQITRQLRMDGWPALS-----------IHGDKSQAERDWVL 387
+++M G + I + D++ + ++ + LS +HG SQ E+D V+
Sbjct: 573 QEVMRGGQAFIVYPLIEESDKLNVKSAVEMYEYLSKEVFPEFKLGLMHGRLSQEEKDRVM 632
Query: 388 SEFKAGKSPIMTATDVAARGL 408
EF G+ I+ +T V G+
Sbjct: 633 LEFAEGRYDILVSTTVIEVGI 653
>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 = 31.6 bits (70), Expect = 0.98, Method: Compositional matrix adjust.
Identities = 43/174 (24%), Positives = 78/174 (44%), Gaps = 32/174 (18%)
Query: 216 VRDLQKGVEIVIATPGRLIDMLESHNTNLRRVTYLVLDEADRMLDMGFEPQIKKILSQI- 274
V+DL+ +E++IA R I E + T L+L A++ D+ E + IL +
Sbjct: 248 VKDLKDAIEVLIAEKRRRISTEEKLEECMDFATELIL--AEKRGDLTRENVNQCILEMLI 305
Query: 275 -RPDRQT------LYWSATWPKEVEHLARQYLYNPYKVIIGSPDLKANHAIRQHV--DIV 325
PD + L+ A P E + ++ + +IG D+K + + V + +
Sbjct: 306 AAPDTMSVSLFFMLFLIAKHPNVEEAIIKE-----IQTVIGERDIKIDDIQKLKVMENFI 360
Query: 326 SESQKYNKLVKLL------EDIMDGSRILIFMDTKKGCD---QITRQLRMDGWP 370
ES +Y +V L+ +D++DG + KKG + I R R++ +P
Sbjct: 361 YESMRYQPVVDLVMRKALEDDVIDGYPV------KKGTNIILNIGRMHRLEFFP 408
>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 = 2.2, Method: Compositional matrix adjust.
Identities = 21/78 (26%), Positives = 36/78 (46%), Gaps = 9/78 (11%)
Query: 331 YNKLVKLLEDIMDGSRILIFMDTKKGCDQITRQLRMDGWPALSIHGDKSQAERDWVLSEF 390
Y K + + + + G R LIF +KK CD++ +L G A++ + R +S
Sbjct: 195 YGKAIPI--ETIKGGRHLIFCHSKKKCDELAAKLSALGIHAVAYY-------RGLDVSVI 245
Query: 391 KAGKSPIMTATDVAARGL 408
A + ++ ATD G
Sbjct: 246 PASGNVVVVATDALMTGF 263
>pdb|1A1V|A Chain A, Hepatitis C Virus Ns3 Helicase Domain Complexed With
Single Stranded Sdna
Length = 476
Score = 30.4 bits (67), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 15/45 (33%), Positives = 26/45 (57%), Gaps = 2/45 (4%)
Query: 331 YNKLVKLLEDIMDGSRILIFMDTKKGCDQITRQLRMDGWPALSIH 375
Y K + L +++ G R LIF +KK CD++ +L G A++ +
Sbjct: 185 YGKAIPL--EVIKGGRHLIFCHSKKKCDELAAKLVALGINAVAYY 227
>pdb|1HEI|A Chain A, Structure Of The Hepatitis C Virus Rna Helicase Domain
pdb|1HEI|B Chain B, Structure Of The Hepatitis C Virus Rna Helicase Domain
Length = 451
Score = 30.0 bits (66), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 15/45 (33%), Positives = 26/45 (57%), Gaps = 2/45 (4%)
Query: 331 YNKLVKLLEDIMDGSRILIFMDTKKGCDQITRQLRMDGWPALSIH 375
Y K + L +++ G R LIF +KK CD++ +L G A++ +
Sbjct: 171 YGKAIPL--EVIKGGRHLIFCHSKKKCDELAAKLVALGINAVAYY 213
>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 = 2.6, Method: Compositional matrix adjust.
Identities = 14/45 (31%), Positives = 26/45 (57%), Gaps = 2/45 (4%)
Query: 331 YNKLVKLLEDIMDGSRILIFMDTKKGCDQITRQLRMDGWPALSIH 375
Y K + + +++ G R LIF +KK CD++ +L G A++ +
Sbjct: 161 YGKAIPI--EVIRGGRHLIFCHSKKKCDELAAKLSALGLNAVAYY 203
>pdb|1JR6|A Chain A, Solution Structure Of An Engineered Arginine-Rich
Subdomain 2 Of The Hepatitis C Virus Ns3 Rna Helicase
pdb|1ONB|A Chain A, Solution Structure Of An Engineered Arginine-Rich
Subdomain 2 Of The Hepatitis C Virus Ns3 Rna Helicase
Length = 142
Score = 30.0 bits (66), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 21/78 (26%), Positives = 35/78 (44%), Gaps = 9/78 (11%)
Query: 331 YNKLVKLLEDIMDGSRILIFMDTKKGCDQITRQLRMDGWPALSIHGDKSQAERDWVLSEF 390
Y K + L +++ G R LIF +KK CD++ +L G A++ + R +S
Sbjct: 28 YGKAIPL--EVIKGGRHLIFCHSKKKCDELAAKLVALGINAVAYY-------RGLDVSVI 78
Query: 391 KAGKSPIMTATDVAARGL 408
++ ATD G
Sbjct: 79 PTNGDVVVVATDALMTGF 96
>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 = 29.6 bits (65), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 43/157 (27%), Positives = 67/157 (42%), Gaps = 20/157 (12%)
Query: 139 LIGIAETGSGKTLAYLLPAIVHVNAQPFLAPGDGPIVLVLAPTRELAVQIQQESTKFGAS 198
++ + ETGSGKT +P V + P L + V P R A+ + Q +
Sbjct: 112 MVFVGETGSGKTTQ--IPQFVLFDEMPHL---ENTQVACTQPRRVAAMSVAQ---RVAEE 163
Query: 199 SKIKSTCIYGGVPKGPQVRDLQKGVEIVI---ATPGRLI-DMLESHNTNLRRVTYLVLDE 254
+K G G +R K I T G L+ + +E H +L R + ++LDE
Sbjct: 164 MDVKL-----GEEVGYSIRFENKTSNKTILKYMTDGMLLREAMEDH--DLSRYSCIILDE 216
Query: 255 A-DRMLDMGFEPQIKKILSQIRPDRQTLYWSATWPKE 290
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 = 29.6 bits (65), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 43/157 (27%), Positives = 67/157 (42%), Gaps = 20/157 (12%)
Query: 139 LIGIAETGSGKTLAYLLPAIVHVNAQPFLAPGDGPIVLVLAPTRELAVQIQQESTKFGAS 198
++ + ETGSGKT +P V + P L + V P R A+ + Q +
Sbjct: 112 MVFVGETGSGKTTQ--IPQFVLFDEMPHL---ENTQVACTQPRRVAAMSVAQ---RVAEE 163
Query: 199 SKIKSTCIYGGVPKGPQVRDLQKGVEIVI---ATPGRLI-DMLESHNTNLRRVTYLVLDE 254
+K G G +R K I T G L+ + +E H +L R + ++LDE
Sbjct: 164 MDVKL-----GEEVGYSIRFENKTSNKTILKYMTDGMLLREAMEDH--DLSRYSCIILDE 216
Query: 255 A-DRMLDMGFEPQIKKILSQIRPDRQTLYWSATWPKE 290
A +R L + K + + RPD + + SAT E
Sbjct: 217 AHERTLATDILMGLLKQVVKRRPDLKIIIMSATLDAE 253
>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 = 29.6 bits (65), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 13/39 (33%), Positives = 21/39 (53%)
Query: 350 FMDTKKGCDQITRQLRMDGWPALSIHGDKSQAERDWVLS 388
F T G R L++D PA+ ++G+ + AE DW +
Sbjct: 60 FYGTTXGKTFSKRTLKLDAPPAIHVYGNAAVAEFDWHFT 98
>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 = 28.9 bits (63), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 16/68 (23%), Positives = 31/68 (45%)
Query: 341 IMDGSRILIFMDTKKGCDQITRQLRMDGWPALSIHGDKSQAERDWVLSEFKAGKSPIMTA 400
I R+L+ TKK + +T L+ G +H + ER ++ + + GK ++
Sbjct: 448 IERNERVLVTTLTKKMSEDLTDYLKEIGIKVNYLHSEIKTLERIEIIRDLRLGKYDVLVG 507
Query: 401 TDVAARGL 408
++ GL
Sbjct: 508 INLLREGL 515
>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 = 28.9 bits (63), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 16/68 (23%), Positives = 31/68 (45%)
Query: 341 IMDGSRILIFMDTKKGCDQITRQLRMDGWPALSIHGDKSQAERDWVLSEFKAGKSPIMTA 400
I R+L+ TKK + +T L+ G +H + ER ++ + + GK ++
Sbjct: 442 IERNERVLVTTLTKKMSEDLTDYLKEIGIKVNYLHSEIKTLERIEIIRDLRLGKYDVLVG 501
Query: 401 TDVAARGL 408
++ GL
Sbjct: 502 INLLREGL 509
>pdb|1Z6A|A Chain A, Sulfolobus Solfataricus Swi2SNF2 ATPASE CORE DOMAIN
Length = 500
Score = 28.5 bits (62), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 26/89 (29%), Positives = 43/89 (48%), Gaps = 6/89 (6%)
Query: 325 VSESQKYNKLVKLLEDIMD-GSRILIF---MDTKKGCDQITRQLRMDGWPALSIHGDKSQ 380
V S K + ++++E+ +D G +I IF +D K I + P L +G+ S+
Sbjct: 321 VRRSGKMIRTMEIIEEALDEGDKIAIFTQFVDMGKIIRNIIEKELNTEVPFL--YGELSK 378
Query: 381 AERDWVLSEFKAGKSPIMTATDVAARGLG 409
ERD ++S+F+ S V A G G
Sbjct: 379 KERDDIISKFQNNPSVKFIVLSVKAGGFG 407
>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 = 8.3, Method: Compositional matrix adjust.
Identities = 55/269 (20%), Positives = 111/269 (41%), Gaps = 26/269 (9%)
Query: 106 FPDYVMQEISKAGFFEPTPIQAQGWPMALKGRDLIGIAETGSGKTLAYLLPAIVHVNAQP 165
Y + + + G E P QA+ G++L+ T +GKT LL + V
Sbjct: 10 ISSYAVGILKEEGIEELFPPQAEAVEKVFSGKNLLLAMPTAAGKT---LLAEMAMVREAI 66
Query: 166 FLAPGDGPIVLVLAPTRELAVQIQQESTKFGASSKIKSTCIYGGVPKGP-QVRDLQKG-V 223
G L + P R LA K+ + K + + G+ G + RD G
Sbjct: 67 -----KGGKSLYVVPLRALA------GEKYESFKKWEKIGLRIGISTGDYESRDEHLGDC 115
Query: 224 EIVIATPGRLIDMLESHNTNLRRVTYLVLDEADRMLDMGFEPQIKKILSQIRPDRQTLY- 282
+I++ T + ++ + + ++ V+ LV+DE + ++ +++++R + L
Sbjct: 116 DIIVTTSEKADSLIRNRASWIKAVSCLVVDEIHLLDSEKRGATLEILVTKMRRMNKALRV 175
Query: 283 --WSATWPKEV---EHLARQYLYNPYKVIIGSPDLKANHAIRQHVDIVSESQ--KYNKLV 335
SAT P E L Y + ++ + + + S S+ K+ +LV
Sbjct: 176 IGLSATAPNVTEIAEWLDADYYVSDWRPVPLVEGVLCEGTLELFDGAFSTSRRVKFEELV 235
Query: 336 KLLEDIMDGSRILIFMDTKKGCDQITRQL 364
+ E + + +L+F T++G ++ +L
Sbjct: 236 E--ECVAENGGVLVFESTRRGAEKTAVKL 262
>pdb|2HYD|A Chain A, Multidrug Abc Transporter Sav1866
pdb|2HYD|B Chain B, Multidrug Abc Transporter Sav1866
pdb|2ONJ|A Chain A, Structure Of The Multidrug Abc Transporter Sav1866 From S.
Aureus In Complex With Amp-Pnp
pdb|2ONJ|B Chain B, Structure Of The Multidrug Abc Transporter Sav1866 From S.
Aureus In Complex With Amp-Pnp
pdb|4A82|A Chain A, Fitted Model Of Staphylococcus Aureus Sav1866 Model Abc
Transporter In The Human Cystic Fibrosis Transmembrane
Conductance Regulator Volume Map Emd-1966.
pdb|4A82|B Chain B, Fitted Model Of Staphylococcus Aureus Sav1866 Model Abc
Transporter In The Human Cystic Fibrosis Transmembrane
Conductance Regulator Volume Map Emd-1966.
pdb|4A82|C Chain C, Fitted Model Of Staphylococcus Aureus Sav1866 Model Abc
Transporter In The Human Cystic Fibrosis Transmembrane
Conductance Regulator Volume Map Emd-1966.
pdb|4A82|D Chain D, Fitted Model Of Staphylococcus Aureus Sav1866 Model Abc
Transporter In The Human Cystic Fibrosis Transmembrane
Conductance Regulator Volume Map Emd-1966
Length = 578
Score = 28.5 bits (62), Expect = 8.5, Method: Compositional matrix adjust.
Identities = 40/171 (23%), Positives = 62/171 (36%), Gaps = 30/171 (17%)
Query: 135 KGRDLIGIAETGSGK-TLAYLLPAIVHVNAQPFLAPGDGPIVLVLAPTRELAVQIQQEST 193
KG + + +G GK TL L+P V + L G + R +QQ++
Sbjct: 366 KGETVAFVGMSGGGKSTLINLIPRFYDVTSGQILIDGHNIKDFLTGSLRNQIGLVQQDNI 425
Query: 194 KFGASSKIKSTCIYG-----------------------GVPKGPQVRDLQKGVEIVIATP 230
F S +K + G +P+G ++GV++
Sbjct: 426 LF--SDTVKENILLGRPTATDEEVVEAAKMANAHDFIMNLPQGYDTEVGERGVKLSGGQK 483
Query: 231 GRLIDMLESHNTNLRRVTYLVLDEADRMLDMGFEPQIKKILSQIRPDRQTL 281
RL L L+LDEA LD+ E I++ L + DR TL
Sbjct: 484 QRL----SIARIFLNNPPILILDEATSALDLESESIIQEALDVLSKDRTTL 530
>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 = 28.1 bits (61), Expect = 9.2, Method: Compositional matrix adjust.
Identities = 26/89 (29%), Positives = 43/89 (48%), Gaps = 6/89 (6%)
Query: 325 VSESQKYNKLVKLLEDIMD-GSRILIF---MDTKKGCDQITRQLRMDGWPALSIHGDKSQ 380
V S K + ++++E+ +D G +I IF +D K I + P L +G+ S+
Sbjct: 92 VRRSGKMIRTMEIIEEALDEGDKIAIFTQFVDMGKIIRNIIEKELNTEVPFL--YGELSK 149
Query: 381 AERDWVLSEFKAGKSPIMTATDVAARGLG 409
ERD ++S+F+ S V A G G
Sbjct: 150 KERDDIISKFQNNPSVKFIVLSVKAGGFG 178
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
0.320 0.137 0.410
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,496,901
Number of Sequences: 62578
Number of extensions: 469469
Number of successful extensions: 1366
Number of sequences better than 100.0: 97
Number of HSP's better than 100.0 without gapping: 72
Number of HSP's successfully gapped in prelim test: 25
Number of HSP's that attempted gapping in prelim test: 1178
Number of HSP's gapped (non-prelim): 103
length of query: 433
length of database: 14,973,337
effective HSP length: 102
effective length of query: 331
effective length of database: 8,590,381
effective search space: 2843416111
effective search space used: 2843416111
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 53 (25.0 bits)