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= 015712
(402 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 82.0 bits (201), Expect = 6e-16, Method: Compositional matrix adjust.
Identities = 52/187 (27%), Positives = 95/187 (50%), Gaps = 3/187 (1%)
Query: 131 KSSGSNA-EVVSSFQELGLKAEMIKAVEKMGLFVPSEIQCVGIPAVLNGKSVVLXXXXXX 189
K +GS+ + + F L+ +I V K G +P+ IQ IP + +G+ ++
Sbjct: 45 KVTGSDVPQPIQHFTSADLRDIIIDNVNKSGYKIPTPIQKCSIPVISSGRDLMACAQTGS 104
Query: 190 XRTLAYLLPLVQMLRRDEALLPMKPMHPRAIVLCTTEESADQGFHMAKFISHCARLDSSM 249
+T A+LLP++ L D L + P+ +++ T E A Q F+ A+ + + L +
Sbjct: 105 GKTAAFLLPILSKLLEDPHELELG--RPQVVIVSPTRELAIQIFNEARKFAFESYLKIGI 162
Query: 250 ENGGVSSKALEDVSNAPIGMLIATPSEVLQHIEDRNVSCDDIRYVVLDEADTLFDRGFGP 309
GG S + + ++IATP +L ++ ++ +D R+VVLDEAD + D GF
Sbjct: 163 VYGGTSFRHQNECITRGCHVVIATPGRLLDFVDRTFITFEDTRFVVLDEADRMLDMGFSE 222
Query: 310 EISKILN 316
++ +I+
Sbjct: 223 DMRRIMT 229
>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 = 73.9 bits (180), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 57/207 (27%), Positives = 98/207 (47%), Gaps = 6/207 (2%)
Query: 135 SNAEVVSSFQELGLKAEMIKAVEKMGLFVPSEIQCVGIPAVLNGKSVVLXXXXXXXRTLA 194
S V+ +F EL L + + P+ IQ IPA+L + ++ +T A
Sbjct: 17 SATNVIENFDELKLDPTIRNNILLASYQRPTPIQKNAIPAILEHRDIMACAQTGSGKTAA 76
Query: 195 YLLPLVQMLRRDE--ALLPMKPMHPRAIVLCTTEESADQGFHMAKFISHCARLDSSMENG 252
+L+P++ L + K +P+ ++L T E A Q ++ S L S + G
Sbjct: 77 FLIPIINHLVCQDLNQQRYSKTAYPKCLILAPTRELAIQILSESQKFSLNTPLRSCVVYG 136
Query: 253 GVSSKALEDVSNAPIGMLIATPSEVLQHIEDRNVSCDDIRYVVLDEADTLFDRGFGPEIS 312
G + + +L+ATP ++ IE +S + +Y+VLDEAD + D GF P+I
Sbjct: 137 GADTHSQIREVQMGCHLLVATPGRLVDFIEKNKISLEFCKYIVLDEADRMLDMGFEPQIR 196
Query: 313 KILNPLKDSALKSNGQGFQTILVTAAI 339
KI +++S + S G QT++ +A
Sbjct: 197 KI---IEESNMPS-GINRQTLMFSATF 219
>pdb|4A4D|A Chain A, Crystal Structure Of The N-Terminal Domain Of The Human
Dead-Box Rna Helicase Ddx5 (P68)
Length = 253
Score = 73.2 bits (178), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 52/181 (28%), Positives = 83/181 (45%), Gaps = 4/181 (2%)
Query: 140 VSSFQELGLKAEMIKAVEKMGLFVPSEIQCVGIPAVLNGKSVVLXXXXXXXRTLAYLLPL 199
V +F E A ++ + + P+ IQ G P L+G +V +TL+YLLP
Sbjct: 42 VLNFYEANFPANVMDVIARQNFTEPTAIQAQGWPVALSGLDMVGVAQTGSGKTLSYLLPA 101
Query: 200 VQMLRRDEALLPMKPMHPRAIVLCTTEESADQGFHMAKFISHCARLDSSMENGGV-SSKA 258
+ + L + P +VL T E A Q +A RL S+ GG
Sbjct: 102 IVHINHQPFL--ERGDGPICLVLAPTRELAQQVQQVAAEYCRACRLKSTCIYGGAPKGPQ 159
Query: 259 LEDVSNAPIGMLIATPSEVLQHIEDRNVSCDDIRYVVLDEADTLFDRGFGPEISKILNPL 318
+ D+ + + IATP ++ +E + Y+VLDEAD + D GF P+I KI++ +
Sbjct: 160 IRDLERG-VEICIATPGRLIDFLECGKTNLRRTTYLVLDEADRMLDMGFEPQIRKIVDQI 218
Query: 319 K 319
+
Sbjct: 219 R 219
>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 = 73.2 bits (178), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 52/181 (28%), Positives = 83/181 (45%), Gaps = 4/181 (2%)
Query: 140 VSSFQELGLKAEMIKAVEKMGLFVPSEIQCVGIPAVLNGKSVVLXXXXXXXRTLAYLLPL 199
V +F E A ++ + + P+ IQ G P L+G +V +TL+YLLP
Sbjct: 28 VLNFYEANFPANVMDVIARQNFTEPTAIQAQGWPVALSGLDMVGVAQTGSGKTLSYLLPA 87
Query: 200 VQMLRRDEALLPMKPMHPRAIVLCTTEESADQGFHMAKFISHCARLDSSMENGGV-SSKA 258
+ + L + P +VL T E A Q +A RL S+ GG
Sbjct: 88 IVHINHQPFL--ERGDGPICLVLAPTRELAQQVQQVAAEYCRACRLKSTCIYGGAPKGPQ 145
Query: 259 LEDVSNAPIGMLIATPSEVLQHIEDRNVSCDDIRYVVLDEADTLFDRGFGPEISKILNPL 318
+ D+ + + IATP ++ +E + Y+VLDEAD + D GF P+I KI++ +
Sbjct: 146 IRDLERG-VEICIATPGRLIDFLECGKTNLRRTTYLVLDEADRMLDMGFEPQIRKIVDQI 204
Query: 319 K 319
+
Sbjct: 205 R 205
>pdb|2I4I|A Chain A, Crystal Structure Of Human Dead-Box Rna Helicase Ddx3x
Length = 417
Score = 70.1 bits (170), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 52/198 (26%), Positives = 98/198 (49%), Gaps = 14/198 (7%)
Query: 131 KSSGSNAE-VVSSFQELGLKAEMIKAVEKMGLFVPSEIQCVGIPAVLNGKSVVLXXXXXX 189
+++G+N + SF ++ + ++ +E P+ +Q IP + + ++
Sbjct: 4 EATGNNCPPHIESFSDVEMGEIIMGNIELTRYTRPTPVQKHAIPIIKEKRDLMACAQTGS 63
Query: 190 XRTLAYLLPLVQMLRRD---EALLPMK--------PMHPRAIVLCTTEESADQGFHMAKF 238
+T A+LLP++ + D EAL MK +P ++VL T E A Q + A+
Sbjct: 64 GKTAAFLLPILSQIYSDGPGEALRAMKENGRYGRRKQYPISLVLAPTRELAVQIYEEARK 123
Query: 239 ISHCARLDSSMENGGVS-SKALEDVSNAPIGMLIATPSEVLQHIEDRNVSCDDIRYVVLD 297
S+ +R+ + GG + + D+ +L+ATP ++ +E + D +Y+VLD
Sbjct: 124 FSYRSRVRPCVVYGGADIGQQIRDLERG-CHLLVATPGRLVDMMERGKIGLDFCKYLVLD 182
Query: 298 EADTLFDRGFGPEISKIL 315
EAD + D GF P+I +I+
Sbjct: 183 EADRMLDMGFEPQIRRIV 200
>pdb|3BER|A Chain A, Human Dead-Box Rna-Helicase Ddx47, Conserved Domain I In
Complex With Amp
Length = 249
Score = 68.9 bits (167), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 47/179 (26%), Positives = 88/179 (49%), Gaps = 8/179 (4%)
Query: 138 EVVSSFQELGLKAEMIKAVEKMGLFVPSEIQCVGIPAVLNGKSVVLXXXXXXXRTLAYLL 197
E +F++LG+ + +A +++G P++IQ IP L G+ ++ +T A+ L
Sbjct: 40 EETKTFKDLGVTDVLCEACDQLGWTKPTKIQIEAIPLALQGRDIIGLAETGSGKTGAFAL 99
Query: 198 PLVQMLRRDEALLPMKPMHPRAIVLCTTEESADQGFHMAKFISHCARLDSSMENGGVSSK 257
P++ L P A+VL T E A Q + + + S++ GG+ S
Sbjct: 100 PILNALLE-------TPQRLFALVLTPTRELAFQISEQFEALGSSIGVQSAVIVGGIDSM 152
Query: 258 ALEDVSNAPIGMLIATPSEVLQHIED-RNVSCDDIRYVVLDEADTLFDRGFGPEISKIL 315
+ ++IATP ++ H+E+ + + ++Y+V+DEAD + + F E+ KIL
Sbjct: 153 SQSLALAKKPHIIIATPGRLIDHLENTKGFNLRALKYLVMDEADRILNMDFETEVDKIL 211
>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 = 67.0 bits (162), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 47/177 (26%), Positives = 86/177 (48%), Gaps = 12/177 (6%)
Query: 142 SFQELGLKAEMIKAVEKMGLFVPSEIQCVGIPAVLNGK-SVVLXXXXXXXRTLAYLLPLV 200
+F EL L ++ A+ G P++IQ IP LN + ++V +T ++ +PL+
Sbjct: 7 NFNELNLSDNILNAIRNKGFEKPTDIQXKVIPLFLNDEYNIVAQARTGSGKTASFAIPLI 66
Query: 201 QMLRRDEALLPMKPMHPRAIVLCTTEESADQGFHMAKFISHCARLDSSMENGGVS-SKAL 259
+++ + + AI+L T E A Q + + L + GG + +
Sbjct: 67 ELVNENNGI--------EAIILTPTRELAIQVADEIESLKGNKNLKIAKIYGGKAIYPQI 118
Query: 260 EDVSNAPIGMLIATPSEVLQHIEDRNVSCDDIRYVVLDEADTLFDRGFGPEISKILN 316
+ + NA I ++ TP +L HI ++ +++Y +LDEAD + GF ++ KILN
Sbjct: 119 KALKNANI--VVGTPGRILDHINRGTLNLKNVKYFILDEADEXLNXGFIKDVEKILN 173
>pdb|2DYD|A Chain A, Solution Structure Of The Pabc Domain From Triticum
Aevestium Poly(A)-Binding Protein
Length = 85
Score = 66.2 bits (160), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 35/54 (64%), Positives = 38/54 (70%)
Query: 342 MLGEQLSSLMECLERDNAGKVTAMLLEMDQAEVFDLTESQDALKKKVVEAMDSL 395
MLGE L L++ LE D A KVT MLLEMDQ EV L ES DALK KV EAM+ L
Sbjct: 25 MLGENLYPLVDQLEHDQAAKVTGMLLEMDQTEVLHLLESPDALKAKVAEAMEVL 78
>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 = 65.9 bits (159), Expect = 4e-11, Method: Compositional matrix adjust.
Identities = 49/176 (27%), Positives = 81/176 (46%), Gaps = 10/176 (5%)
Query: 143 FQELGLKAEMIKAVEKMGLFVPSEIQCVGIPAVLNGKSVVLXXXXXXXRTLAYLLPLVQM 202
F++ LK E+++A+ GL P+ IQ +P L GK ++ +TLA+ LP+ +
Sbjct: 3 FKDFPLKPEILEALHGRGLTTPTPIQAAALPLALEGKDLIGQARTGTGKTLAFALPIAER 62
Query: 203 LRRDEALLPMKPMHPRAIVLCTTEESADQ-GFHMAKFISHCARLDSSMENG-GVSSKALE 260
L + + PRA+VL T E A Q + H + G G +AL
Sbjct: 63 LAPSQE----RGRKPRALVLTPTRELALQVASELTAVAPHLKVVAVYGGTGYGKQKEALL 118
Query: 261 DVSNAPIGMLIATPSEVLQHIEDRNVSCDDIRYVVLDEADTLFDRGFGPEISKILN 316
++A ++ATP L ++ + + VLDEAD + GF E+ +L+
Sbjct: 119 RGADA----VVATPGRALDYLRQGVLDLSRVEVAVLDEADEMLSMGFEEEVEALLS 170
>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 = 65.9 bits (159), Expect = 4e-11, Method: Compositional matrix adjust.
Identities = 47/179 (26%), Positives = 84/179 (46%), Gaps = 13/179 (7%)
Query: 141 SSFQELGLKAEMIKAVEKMGLFVPSEIQCVGIPAVLNGKSVVLXXXXXXXRTLAYLLPLV 200
+ F + +I+A++ + + P+EIQ IP L G+S V +T AYLLP+
Sbjct: 4 TQFTRFPFQPFIIEAIKTLRFYKPTEIQERIIPGALRGESXVGQSQTGTGKTHAYLLPIX 63
Query: 201 QMLRRDEALLPMKPMHPRAIVLCTTEESADQGFH-MAKFISHCAR----LDSSMENGGVS 255
+ ++ + A + +A++ T E A Q +H K C + + + G
Sbjct: 64 EKIKPERAEV-------QAVITAPTRELATQIYHETLKITKFCPKDRXIVARCLIGGTDK 116
Query: 256 SKALEDVSNAPIGMLIATPSEVLQHIEDRNVSCDDIRYVVLDEADTLFDRGFGPEISKI 314
KALE ++ P ++I TP + I ++ + +V+DEAD D GF ++ +I
Sbjct: 117 QKALEKLNVQP-HIVIGTPGRINDFIREQALDVHTAHILVVDEADLXLDXGFITDVDQI 174
>pdb|2PL3|A Chain A, Human Dead-Box Rna Helicase Ddx10, Dead Domain In Complex
With Adp
Length = 236
Score = 64.3 bits (155), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 51/186 (27%), Positives = 90/186 (48%), Gaps = 9/186 (4%)
Query: 136 NAEVVSSFQELGLKAEMIKAVEKMGLFVPSEIQCVGIPAVLNGKSVVLXXXXXXXRTLAY 195
N ++ F + L + +K +++ + +EIQ I L GK V+ +TLA+
Sbjct: 20 NVNEITRFSDFPLSKKTLKGLQEAQYRLVTEIQKQTIGLALQGKDVLGAAKTGSGKTLAF 79
Query: 196 LLPLVQMLRRDEALLPMKPMHPRAIVLCTTEESADQGFHMAKFISHCARLDSSMENGGVS 255
L+P+++ L R L +++ T E A Q F + + + + + GG
Sbjct: 80 LVPVLEALYR---LQWTSTDGLGVLIISPTRELAYQTFEVLRKVGKNHDFSAGLIIGGKD 136
Query: 256 SKA-LEDVSNAPIGMLIATPSEVLQHIEDRNVS--CDDIRYVVLDEADTLFDRGFGPEIS 312
K E ++N I +L+ TP +LQH+ D VS D++ +VLDEAD + D GF ++
Sbjct: 137 LKHEAERINN--INILVCTPGRLLQHM-DETVSFHATDLQMLVLDEADRILDMGFADTMN 193
Query: 313 KILNPL 318
++ L
Sbjct: 194 AVIENL 199
>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 = 64.3 bits (155), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 48/176 (27%), Positives = 81/176 (46%), Gaps = 10/176 (5%)
Query: 143 FQELGLKAEMIKAVEKMGLFVPSEIQCVGIPAVLNGKSVVLXXXXXXXRTLAYLLPLVQM 202
F++ LK E+++A+ GL P+ I+ +P L GK ++ +TLA+ LP+ +
Sbjct: 3 FKDFPLKPEILEALHGRGLTTPTPIEAAALPLALEGKDLIGQARTGTGKTLAFALPIAER 62
Query: 203 LRRDEALLPMKPMHPRAIVLCTTEESADQ-GFHMAKFISHCARLDSSMENG-GVSSKALE 260
L + + PRA+VL T E A Q + H + G G +AL
Sbjct: 63 LAPSQE----RGRKPRALVLTPTRELALQVASELTAVAPHLKVVAVYGGTGYGKQKEALL 118
Query: 261 DVSNAPIGMLIATPSEVLQHIEDRNVSCDDIRYVVLDEADTLFDRGFGPEISKILN 316
++A ++ATP L ++ + + VLDEAD + GF E+ +L+
Sbjct: 119 RGADA----VVATPGRALDYLRQGVLDLSRVEVAVLDEADEMLSMGFEEEVEALLS 170
>pdb|3LY5|A Chain A, Ddx18 Dead-Domain
pdb|3LY5|B Chain B, Ddx18 Dead-Domain
Length = 262
Score = 63.9 bits (154), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 47/171 (27%), Positives = 87/171 (50%), Gaps = 18/171 (10%)
Query: 153 IKAVEKMGLFVPSEIQCVGIPAVLNGKSVVLXXXXXXXRTLAYLLPLVQMLRRDEALLPM 212
+KA+++MG +EIQ I +L G+ ++ +TLA+L+P V+++ + L
Sbjct: 66 LKAIKEMGFTNMTEIQHKSIRPLLEGRDLLAAAKTGSGKTLAFLIPAVELIVK----LRF 121
Query: 213 KPMHPRAI-VLCTTEESADQGFHMAK-FISHCARLDSSMENGGVSSKALEDVSNAPIGML 270
P + + +L T E A Q F + K ++H + G S + + N I ++
Sbjct: 122 MPRNGTGVLILSPTRELAMQTFGVLKELMTHHVHTYGLIMGGSNRSAEAQKLGNG-INII 180
Query: 271 IATPSEVLQHIED------RNVSCDDIRYVVLDEADTLFDRGFGPEISKIL 315
+ATP +L H+++ +N+ C +V+DEAD + D GF E+ +I+
Sbjct: 181 VATPGRLLDHMQNTPGFMYKNLQC-----LVIDEADRILDVGFEEELKQII 226
>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 = 60.8 bits (146), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 51/185 (27%), Positives = 91/185 (49%), Gaps = 27/185 (14%)
Query: 142 SFQELGLKAEMIKAVEKMGLFVPSEIQCVGIPAVLNGKSVVLXXXXXXXRTLAYLLPLV- 200
+FQ+ +++K++ ++G+ P+ IQ P +L G +++ +TL+YL+P
Sbjct: 24 AFQQY---PDLLKSIIRVGILKPTPIQSQAWPIILQGIDLIVVAQTGTGKTLSYLMPGFI 80
Query: 201 ----QMLRRDEALLPMKPMHPRAIVLCTTEESADQGFHMAKFISHCAR-----LDSSMEN 251
Q + R++ P +VL T E A H+ + C++ L S
Sbjct: 81 HLDSQPISREQR------NGPGMLVLTPTRELA---LHVE---AECSKYSYKGLKSICIY 128
Query: 252 GGVSSKA-LEDVSNAPIGMLIATPSEVLQHIEDRNVSCDDIRYVVLDEADTLFDRGFGPE 310
GG + +ED+S + ++IATP + + +V+ I Y+V+DEAD + D F P+
Sbjct: 129 GGRNRNGQIEDISKG-VDIIIATPGRLNDLQMNNSVNLRSITYLVIDEADKMLDMEFEPQ 187
Query: 311 ISKIL 315
I KIL
Sbjct: 188 IRKIL 192
>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 = 59.7 bits (143), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 47/170 (27%), Positives = 84/170 (49%), Gaps = 12/170 (7%)
Query: 141 SSFQELGLKAEMIKAVEKMGLFVPSEIQCVGIPAVLNGKSVVLXXXXXXXRTLAYLLPLV 200
+ F++ LK E++ + +MG PS IQ IP L+G+ ++ ++ AYL+PL+
Sbjct: 3 NEFEDYCLKRELLMGIFEMGWEKPSPIQEESIPIALSGRDILARAKNGTGKSGAYLIPLL 62
Query: 201 QMLRRDEALLPMKPMHPRAIVLCTTEESADQGFHMAKFIS-HCARLDSSMENGGVSSKAL 259
+ L +K + +A+V+ T E A Q + +S H GG + +
Sbjct: 63 ERLD-------LKKDNIQAMVIVPTRELALQVSQICIQVSKHMGGAKVMATTGGTNLR-- 113
Query: 260 EDVS--NAPIGMLIATPSEVLQHIEDRNVSCDDIRYVVLDEADTLFDRGF 307
+D+ + + ++IATP +L I+ D ++ +VLDEAD L + F
Sbjct: 114 DDIMRLDDTVHVVIATPGRILDLIKKGVAKVDHVQMIVLDEADKLLSQDF 163
>pdb|3BOR|A Chain A, Crystal Structure Of The Deadc Domain Of Human Translation
Initiation Factor 4a-2
Length = 237
Score = 58.2 bits (139), Expect = 9e-09, Method: Compositional matrix adjust.
Identities = 47/193 (24%), Positives = 81/193 (41%), Gaps = 24/193 (12%)
Query: 138 EVVSSFQELGLKAEMIKAVEKMGLFVPSEIQCVGIPAVLNGKSVVLXXXXXXXRTLAYLL 197
E+V +F ++ LK +++ + G PS IQ I + G V+ +T + +
Sbjct: 27 EIVDNFDDMNLKESLLRGIYAYGFEKPSAIQQRAIIPCIKGYDVIAQAQSGTGKTATFAI 86
Query: 198 PLVQMLRRDEALLPMKPMHPRAIVLCTTEESADQ--------GFHMAKFISHCARLDSSM 249
++Q L ++ +A+VL T E A Q G +M C
Sbjct: 87 SILQQLE-------IEFKETQALVLAPTRELAQQIQKVILALGDYMGATCHACI------ 133
Query: 250 ENGGVSSK-ALEDVSNAPIGMLIATPSEVLQHIEDRNVSCDDIRYVVLDEADTLFDRGFG 308
GG + + ++ + +++ TP V + R +S I+ VLDEAD + RGF
Sbjct: 134 --GGTNVRNEMQKLQAEAPHIVVGTPGRVFDMLNRRYLSPKWIKMFVLDEADEMLSRGFK 191
Query: 309 PEISKILNPLKDS 321
+I +I L S
Sbjct: 192 DQIYEIFQKLNTS 204
>pdb|1XTI|A Chain A, Structure Of Wildtype Human Uap56
Length = 391
Score = 57.4 bits (137), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 45/177 (25%), Positives = 86/177 (48%), Gaps = 15/177 (8%)
Query: 134 GSNAEVVSSFQELGLKAEMIKAVEKMGLFVPSEIQCVGIPAVLNGKSVVLXXXXXXXRTL 193
GS + S F++ LK E+++A+ G PSE+Q IP + G V+ +T
Sbjct: 1 GSPGHMSSGFRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTA 60
Query: 194 AYLLPLVQMLRRDEALLPMKPMHPRA--IVLCTTEESADQ-GFHMAKFISHCARLDSSME 250
++L +Q L +P+ + +V+C T E A Q +F + + ++
Sbjct: 61 VFVLATLQQL---------EPVTGQVSVLVMCHTRELAFQISKEYERFSKYMPNVKVAVF 111
Query: 251 NGGVSSKALEDV--SNAPIGMLIATPSEVLQHIEDRNVSCDDIRYVVLDEADTLFDR 305
GG+S K E+V N P +++ TP +L +++++ I++ +LDE D + ++
Sbjct: 112 FGGLSIKKDEEVLKKNCP-HIVVGTPGRILALARNKSLNLKHIKHFILDECDKMLEQ 167
>pdb|1QVA|A Chain A, Yeast Initiation Factor 4a N-Terminal Domain
Length = 223
Score = 57.4 bits (137), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 49/189 (25%), Positives = 83/189 (43%), Gaps = 24/189 (12%)
Query: 138 EVVSSFQELGLKAEMIKAVEKMGLFVPSEIQCVGIPAVLNGKSVVLXXXXXXXRTLAYLL 197
+VV F ++ L ++++ V G PS IQ I ++ G V+ +T + +
Sbjct: 18 KVVYKFDDMELDEQLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSI 77
Query: 198 PLVQMLRRDEALLPMKPMHPRAIVLCTTEESADQ--------GFHMAKFISHCARLDSSM 249
+Q R D ++ P+A++L T E A Q FHM + C S +
Sbjct: 78 AALQ--RIDTSV-----KAPQALMLAPTRELALQIQKVVMALAFHMDIKVHACIGGTSFV 130
Query: 250 ENGGVSSKALEDVSNAPIGMLIATPSEVLQHIEDRNVSCDDIRYVVLDEADTLFDRGFGP 309
E+ ++ L D +++ TP V +I+ R D I+ +LDEAD + GF
Sbjct: 131 ED----AEGLRDAQ-----IVVGTPGRVFDNIQRRRFRTDKIKMFILDEADEMLSSGFKE 181
Query: 310 EISKILNPL 318
+I +I L
Sbjct: 182 QIYQIFTLL 190
>pdb|1XTJ|A Chain A, Structure Of Human Uap56 In Complex With Adp
Length = 386
Score = 57.4 bits (137), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 45/177 (25%), Positives = 86/177 (48%), Gaps = 15/177 (8%)
Query: 134 GSNAEVVSSFQELGLKAEMIKAVEKMGLFVPSEIQCVGIPAVLNGKSVVLXXXXXXXRTL 193
GS + S F++ LK E+++A+ G PSE+Q IP + G V+ +T
Sbjct: 1 GSPGHMSSGFRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTA 60
Query: 194 AYLLPLVQMLRRDEALLPMKPMHPRA--IVLCTTEESADQ-GFHMAKFISHCARLDSSME 250
++L +Q L +P+ + +V+C T E A Q +F + + ++
Sbjct: 61 VFVLATLQQL---------EPVTGQVSVLVMCHTRELAFQISKEYERFSKYMPNVKVAVF 111
Query: 251 NGGVSSKALEDV--SNAPIGMLIATPSEVLQHIEDRNVSCDDIRYVVLDEADTLFDR 305
GG+S K E+V N P +++ TP +L +++++ I++ +LDE D + ++
Sbjct: 112 FGGLSIKKDEEVLKKNCP-HIVVGTPGRILALARNKSLNLKHIKHFILDECDKMLEQ 167
>pdb|3EIQ|A Chain A, Crystal Structure Of Pdcd4-eif4a
pdb|3EIQ|D Chain D, Crystal Structure Of Pdcd4-eif4a
Length = 414
Score = 57.0 bits (136), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 48/191 (25%), Positives = 80/191 (41%), Gaps = 24/191 (12%)
Query: 138 EVVSSFQELGLKAEMIKAVEKMGLFVPSEIQCVGIPAVLNGKSVVLXXXXXXXRTLAYLL 197
E+V SF ++ L +++ + G PS IQ I + G V+ +T + +
Sbjct: 37 EIVDSFDDMNLSESLLRGIYAYGFEKPSAIQQRAILPCIKGYDVIAQAQSGTGKTATFAI 96
Query: 198 PLVQMLRRDEALLPMKPMHPRAIVLCTTEESADQ--------GFHMAKFISHCARLDSSM 249
++Q + D +K +A+VL T E A Q G +M C
Sbjct: 97 SILQQIELD-----LKA--TQALVLAPTRELAQQIQKVVMALGDYMGASCHACI------ 143
Query: 250 ENGGVSSKA-LEDVSNAPIGMLIATPSEVLQHIEDRNVSCDDIRYVVLDEADTLFDRGFG 308
GG + +A ++ + +++ TP V + R +S I+ VLDEAD + RGF
Sbjct: 144 --GGTNVRAEVQKLQMEAPHIIVGTPGRVFDMLNRRYLSPKYIKMFVLDEADEMLSRGFK 201
Query: 309 PEISKILNPLK 319
+I I L
Sbjct: 202 DQIYDIFQKLN 212
>pdb|2Z0M|A Chain A, Crystal Structure Of Hypothetical Atp-Dependent Rna
Helicase From Sulfolobus Tokodaii
Length = 337
Score = 57.0 bits (136), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 50/166 (30%), Positives = 81/166 (48%), Gaps = 22/166 (13%)
Query: 154 KAVEKMGLFVPSEIQCVGIPAVLNGKSVVLXXXXXXXRTLAYLLPLVQMLRRDEALLPMK 213
+A+ +MG +E+Q IP +L GK+VV+ +T AY +P+++ L MK
Sbjct: 7 QAIREMGFKNFTEVQSKTIPLMLQGKNVVVRAKTGSGKTAAYAIPILE--------LGMK 58
Query: 214 PMHPRAIVLCTTEESADQGFHMAKFISHCAR-LDSSMEN--GGVSSKA-LEDVSNAPIGM 269
++V+ T E Q +A I R +D+ + GG+ KA + V NA I
Sbjct: 59 -----SLVVTPTRELTRQ---VASHIRDIGRYMDTKVAEVYGGMPYKAQINRVRNADI-- 108
Query: 270 LIATPSEVLQHIEDRNVSCDDIRYVVLDEADTLFDRGFGPEISKIL 315
++ATP +L + V++DEAD +F+ GF +I IL
Sbjct: 109 VVATPGRLLDLWSKGVIDLSSFEIVIIDEADLMFEMGFIDDIKIIL 154
>pdb|2J0Q|A Chain A, The Crystal Structure Of The Exon Junction Complex At 3.2
A Resolution
pdb|2J0Q|B Chain B, The Crystal Structure Of The Exon Junction Complex At 3.2
A Resolution
pdb|2J0S|A Chain A, The Crystal Structure Of The Exon Junction Complex At 2.2
A Resolution
Length = 410
Score = 57.0 bits (136), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 51/232 (21%), Positives = 96/232 (41%), Gaps = 35/232 (15%)
Query: 130 EKSSGSNAEVVSSFQELGLKAEMIKAVEKMGLFVPSEIQCVGIPAVLNGKSVVLXXXXXX 189
E + +V +F +GL+ ++++ + G PS IQ I ++ G+ V+
Sbjct: 26 EFETSEEVDVTPTFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGT 85
Query: 190 XRTLAYLLPLVQMLRRDEALLPMKPMHPRAIVLCTTEESADQ--------GFHMAKFISH 241
+T + + ++Q L ++ +A++L T E A Q G +M
Sbjct: 86 GKTATFSISVLQ-------CLDIQVRETQALILAPTRELAVQIQKGLLALGDYMNVQCHA 138
Query: 242 CARLDSSMENGGVSSKALEDVSNAPIG--MLIATPSEVLQHIEDRNVSCDDIRYVVLDEA 299
C GG + ED+ G ++ TP V I R++ I+ +VLDEA
Sbjct: 139 CI--------GG--TNVGEDIRKLDYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEA 188
Query: 300 DTLFDRGFGPEISKILNPLKDSALKSNGQGFQTILVTAAIAEMLGEQLSSLM 351
D + ++GF +I + L + Q +L++A + + E + M
Sbjct: 189 DEMLNKGFKEQIYDVYRYLPPAT--------QVVLISATLPHEILEMTNKFM 232
>pdb|2XB2|A Chain A, Crystal Structure Of The Core Mago-Y14-Eif4aiii-Barentsz-
Upf3b Assembly Shows How The Ejc Is Bridged To The Nmd
Machinery
pdb|2XB2|X Chain X, Crystal Structure Of The Core Mago-Y14-Eif4aiii-Barentsz-
Upf3b Assembly Shows How The Ejc Is Bridged To The Nmd
Machinery
Length = 411
Score = 57.0 bits (136), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 51/232 (21%), Positives = 96/232 (41%), Gaps = 35/232 (15%)
Query: 130 EKSSGSNAEVVSSFQELGLKAEMIKAVEKMGLFVPSEIQCVGIPAVLNGKSVVLXXXXXX 189
E + +V +F +GL+ ++++ + G PS IQ I ++ G+ V+
Sbjct: 27 EFETSEEVDVTPTFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGT 86
Query: 190 XRTLAYLLPLVQMLRRDEALLPMKPMHPRAIVLCTTEESADQ--------GFHMAKFISH 241
+T + + ++Q L ++ +A++L T E A Q G +M
Sbjct: 87 GKTATFSISVLQ-------CLDIQVRETQALILAPTRELAVQIQKGLLALGDYMNVQCHA 139
Query: 242 CARLDSSMENGGVSSKALEDVSNAPIG--MLIATPSEVLQHIEDRNVSCDDIRYVVLDEA 299
C GG + ED+ G ++ TP V I R++ I+ +VLDEA
Sbjct: 140 CI--------GG--TNVGEDIRKLDYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEA 189
Query: 300 DTLFDRGFGPEISKILNPLKDSALKSNGQGFQTILVTAAIAEMLGEQLSSLM 351
D + ++GF +I + L + Q +L++A + + E + M
Sbjct: 190 DEMLNKGFKEQIYDVYRYLPPAT--------QVVLISATLPHEILEMTNKFM 233
>pdb|2HYI|C Chain C, Structure Of The Human Exon Junction Complex With A
Trapped Dead-Box Helicase Bound To Rna
pdb|2HYI|I Chain I, Structure Of The Human Exon Junction Complex With A
Trapped Dead-Box Helicase Bound To Rna
pdb|3EX7|C Chain C, The Crystal Structure Of Ejc In Its Transition State
pdb|3EX7|H Chain H, The Crystal Structure Of Ejc In Its Transition State
Length = 413
Score = 57.0 bits (136), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 51/232 (21%), Positives = 96/232 (41%), Gaps = 35/232 (15%)
Query: 130 EKSSGSNAEVVSSFQELGLKAEMIKAVEKMGLFVPSEIQCVGIPAVLNGKSVVLXXXXXX 189
E + +V +F +GL+ ++++ + G PS IQ I ++ G+ V+
Sbjct: 27 EFETSEEVDVTPTFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGT 86
Query: 190 XRTLAYLLPLVQMLRRDEALLPMKPMHPRAIVLCTTEESADQ--------GFHMAKFISH 241
+T + + ++Q L ++ +A++L T E A Q G +M
Sbjct: 87 GKTATFSISVLQ-------CLDIQVRETQALILAPTRELAVQIQKGLLALGDYMNVQCHA 139
Query: 242 CARLDSSMENGGVSSKALEDVSNAPIG--MLIATPSEVLQHIEDRNVSCDDIRYVVLDEA 299
C GG + ED+ G ++ TP V I R++ I+ +VLDEA
Sbjct: 140 CI--------GG--TNVGEDIRKLDYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEA 189
Query: 300 DTLFDRGFGPEISKILNPLKDSALKSNGQGFQTILVTAAIAEMLGEQLSSLM 351
D + ++GF +I + L + Q +L++A + + E + M
Sbjct: 190 DEMLNKGFKEQIYDVYRYLPPAT--------QVVLISATLPHEILEMTNKFM 233
>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 = 56.6 bits (135), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 49/189 (25%), Positives = 82/189 (43%), Gaps = 24/189 (12%)
Query: 138 EVVSSFQELGLKAEMIKAVEKMGLFVPSEIQCVGIPAVLNGKSVVLXXXXXXXRTLAYLL 197
+VV F ++ L +++ V G PS IQ I ++ G V+ +T + +
Sbjct: 11 KVVYKFDDMELDENLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSI 70
Query: 198 PLVQMLRRDEALLPMKPMHPRAIVLCTTEESADQ--------GFHMAKFISHCARLDSSM 249
+Q R D ++ P+A++L T E A Q FHM + C S +
Sbjct: 71 AALQ--RIDTSV-----KAPQALMLAPTRELALQIQKVVMALAFHMDIKVHACIGGTSFV 123
Query: 250 ENGGVSSKALEDVSNAPIGMLIATPSEVLQHIEDRNVSCDDIRYVVLDEADTLFDRGFGP 309
E+ ++ L D +++ TP V +I+ R D I+ +LDEAD + GF
Sbjct: 124 ED----AEGLRDAQ-----IVVGTPGRVFDNIQRRRFRTDKIKMFILDEADEMLSSGFKE 174
Query: 310 EISKILNPL 318
+I +I L
Sbjct: 175 QIYQIFTLL 183
>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 = 56.6 bits (135), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 48/190 (25%), Positives = 80/190 (42%), Gaps = 24/190 (12%)
Query: 138 EVVSSFQELGLKAEMIKAVEKMGLFVPSEIQCVGIPAVLNGKSVVLXXXXXXXRTLAYLL 197
E+V SF ++ L +++ + G PS IQ I + G V+ +T + +
Sbjct: 11 EIVDSFDDMNLSESLLRGIYAYGFEKPSAIQQRAILPCIKGYDVIAQAQSGTGKTATFAI 70
Query: 198 PLVQMLRRDEALLPMKPMHPRAIVLCTTEESADQ--------GFHMAKFISHCARLDSSM 249
++Q + D +K +A+VL T E A Q G +M C
Sbjct: 71 SILQQIELD-----LKA--TQALVLAPTRELAQQIQKVVMALGDYMGASCHACI------ 117
Query: 250 ENGGVSSKA-LEDVSNAPIGMLIATPSEVLQHIEDRNVSCDDIRYVVLDEADTLFDRGFG 308
GG + +A ++ + +++ TP V + R +S I+ VLDEAD + RGF
Sbjct: 118 --GGTNVRAEVQKLQMEAPHIIVGTPGRVFDMLNRRYLSPKYIKMFVLDEADEMLSRGFK 175
Query: 309 PEISKILNPL 318
+I I L
Sbjct: 176 DQIYDIFQKL 185
>pdb|2HXY|A Chain A, Crystal Structure Of Human Apo-Eif4aiii
pdb|2HXY|B Chain B, Crystal Structure Of Human Apo-Eif4aiii
pdb|2HXY|C Chain C, Crystal Structure Of Human Apo-Eif4aiii
pdb|2HXY|D Chain D, Crystal Structure Of Human Apo-Eif4aiii
Length = 391
Score = 56.6 bits (135), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 51/232 (21%), Positives = 96/232 (41%), Gaps = 35/232 (15%)
Query: 130 EKSSGSNAEVVSSFQELGLKAEMIKAVEKMGLFVPSEIQCVGIPAVLNGKSVVLXXXXXX 189
E + +V +F +GL+ ++++ + G PS IQ I ++ G+ V+
Sbjct: 5 EFETSEEVDVTPTFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGT 64
Query: 190 XRTLAYLLPLVQMLRRDEALLPMKPMHPRAIVLCTTEESADQ--------GFHMAKFISH 241
+T + + ++Q L ++ +A++L T E A Q G +M
Sbjct: 65 GKTATFSISVLQ-------CLDIQVRETQALILAPTRELAVQIQKGLLALGDYMNVQCHA 117
Query: 242 CARLDSSMENGGVSSKALEDVSNAPIG--MLIATPSEVLQHIEDRNVSCDDIRYVVLDEA 299
C GG + ED+ G ++ TP V I R++ I+ +VLDEA
Sbjct: 118 CI--------GG--TNVGEDIRKLDYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEA 167
Query: 300 DTLFDRGFGPEISKILNPLKDSALKSNGQGFQTILVTAAIAEMLGEQLSSLM 351
D + ++GF +I + L + Q +L++A + + E + M
Sbjct: 168 DEMLNKGFKEQIYDVYRYLPPAT--------QVVLISATLPHEILEMTNKFM 211
>pdb|1XTK|A Chain A, Structure Of Decd To Dead Mutation Of Human Uap56
Length = 390
Score = 56.6 bits (135), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 44/171 (25%), Positives = 85/171 (49%), Gaps = 15/171 (8%)
Query: 140 VSSFQELGLKAEMIKAVEKMGLFVPSEIQCVGIPAVLNGKSVVLXXXXXXXRTLAYLLPL 199
+S F++ LK E+++A+ G PSE+Q IP + G V+ +T ++L
Sbjct: 6 MSGFRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLAT 65
Query: 200 VQMLRRDEALLPMKPMHPRA--IVLCTTEESADQ-GFHMAKFISHCARLDSSMENGGVSS 256
+Q L +P+ + +V+C T E A Q +F + + ++ GG+S
Sbjct: 66 LQQL---------EPVTGQVSVLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSI 116
Query: 257 KALEDV--SNAPIGMLIATPSEVLQHIEDRNVSCDDIRYVVLDEADTLFDR 305
K E+V N P +++ TP +L +++++ I++ +LDEAD + ++
Sbjct: 117 KKDEEVLKKNCP-HIVVGTPGRILALARNKSLNLKHIKHFILDEADKMLEQ 166
>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 = 56.2 bits (134), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 50/189 (26%), Positives = 82/189 (43%), Gaps = 24/189 (12%)
Query: 138 EVVSSFQELGLKAEMIKAVEKMGLFVPSEIQCVGIPAVLNGKSVVLXXXXXXXRTLAYLL 197
+VV F ++ L +++ V G PS IQ I ++ G V+ +T + +
Sbjct: 19 KVVYKFDDMELDENLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSI 78
Query: 198 PLVQMLRRDEALLPMKPMHPRAIVLCTTEESADQ--------GFHMAKFISHCARLDSSM 249
+Q R D ++ P+A++L T E A Q FHM + C S +
Sbjct: 79 AALQ--RIDTSV-----KAPQALMLAPTRELALQIQKVVMALAFHMDIKVHACIGGTSFV 131
Query: 250 ENGGVSSKALEDVSNAPIGMLIATPSEVLQHIEDRNVSCDDIRYVVLDEADTLFDRGFGP 309
E+ E + +A I ++ TP V +I+ R D I+ +LDEAD + GF
Sbjct: 132 EDA-------EGLRDAQI--VVGTPGRVFDNIQRRRFRTDKIKMFILDEADEMLSSGFKE 182
Query: 310 EISKILNPL 318
+I +I L
Sbjct: 183 QIYQIFTLL 191
>pdb|1S2M|A Chain A, Crystal Structure Of The Dead Box Protein Dhh1p
Length = 400
Score = 55.8 bits (133), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 43/181 (23%), Positives = 85/181 (46%), Gaps = 13/181 (7%)
Query: 141 SSFQELGLKAEMIKAVEKMGLFVPSEIQCVGIPAVLNGKSVVLXXXXXXXRTLAYLLPLV 200
++F++ LK E++ + + G PS IQ IP + G+ ++ +T A+++P +
Sbjct: 21 NTFEDFYLKRELLMGIFEAGFEKPSPIQEEAIPVAITGRDILARAKNGTGKTAAFVIPTL 80
Query: 201 QMLRRDEALLPMKPMHPRAIVLCTTEESADQGFHMAKFIS-HCARLDSSMENGGVSSKAL 259
+ ++ K +A+++ T E A Q + + + HC + + GG + +
Sbjct: 81 EKVKP-------KLNKIQALIMVPTRELALQTSQVVRTLGKHCG-ISCMVTTGGTNLR-- 130
Query: 260 EDVS--NAPIGMLIATPSEVLQHIEDRNVSCDDIRYVVLDEADTLFDRGFGPEISKILNP 317
+D+ N + +L+ TP VL + D ++DEAD + R F I +IL+
Sbjct: 131 DDILRLNETVHILVGTPGRVLDLASRKVADLSDCSLFIMDEADKMLSRDFKTIIEQILSF 190
Query: 318 L 318
L
Sbjct: 191 L 191
>pdb|2KBE|A Chain A, Solution Structure Of Amino-Terminal Domain Of Dbp5p
Length = 226
Score = 54.7 bits (130), Expect = 8e-08, Method: Compositional matrix adjust.
Identities = 47/183 (25%), Positives = 86/183 (46%), Gaps = 28/183 (15%)
Query: 142 SFQELGLKAEMIKAVEKMGLFVPSEIQCVGIPAVLNG--KSVVLXXXXXXXRTLAYLLPL 199
SF ELGL E++K + M PS+IQ +P +L+ ++++ +T A+ L +
Sbjct: 23 SFDELGLAPELLKGIYAMKFQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAAFSLTM 82
Query: 200 VQMLRRDEALLPMKPMHPRAIVLCTTEESADQGF----HMAKFISHCARL---DSSMENG 252
+ + ++A P+AI L + E A Q M KF ++L DS +N
Sbjct: 83 LTRVNPEDA-------SPQAICLAPSRELARQTLEVVQEMGKFTKITSQLIVPDSFEKNK 135
Query: 253 GVSSKALEDVSNAPIGMLIATPSEVLQHIEDRNVSCDDIRYVVLDEADTLFD-RGFGPEI 311
++++ +++ TP VL + + + I+ VLDEAD + D +G G +
Sbjct: 136 QINAQ-----------VIVGTPGTVLDLMRRKLMQLQKIKIFVLDEADNMLDQQGLGDQC 184
Query: 312 SKI 314
++
Sbjct: 185 IRV 187
>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 = 54.7 bits (130), Expect = 8e-08, Method: Compositional matrix adjust.
Identities = 45/176 (25%), Positives = 85/176 (48%), Gaps = 12/176 (6%)
Query: 134 GSNAEVVSS-FQELGLKAEMIKAVEKMGLFVPSEIQCVGIPAVLNGKSVVLXXXXXXXRT 192
GS + SS F++ LK E+++A+ G PSE+Q IP + G V+ +T
Sbjct: 6 GSYVSIHSSGFRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKT 65
Query: 193 LAYLLPLVQMLRRDEALLPMKPMHPRAIVLCTTEESADQ-GFHMAKFISHCARLDSSMEN 251
++L +Q L + + +V+C T E A Q +F + + ++
Sbjct: 66 AVFVLATLQQLEPVTGQVSV-------LVMCHTRELAFQISKEYERFSKYMPNVKVAVFF 118
Query: 252 GGVSSKALEDV--SNAPIGMLIATPSEVLQHIEDRNVSCDDIRYVVLDEADTLFDR 305
GG+S K E+V N P +++ TP +L +++++ I++ +LDE D + ++
Sbjct: 119 GGLSIKKDEEVLKKNCP-HIVVGTPGRILALARNKSLNLKHIKHFILDECDKMLEQ 173
>pdb|2J0U|B Chain B, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 54.7 bits (130), Expect = 9e-08, Method: Compositional matrix adjust.
Identities = 47/212 (22%), Positives = 91/212 (42%), Gaps = 19/212 (8%)
Query: 142 SFQELGLKAEMIKAVEKMGLFVPSEIQCVGIPAVLNGKSVVLXXXXXXXRTLAYLLPLVQ 201
+F +GL+ ++++ + G PS IQ I ++ G+ V+ +T + + ++Q
Sbjct: 2 TFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSVSVLQ 61
Query: 202 MLRRDEALLPMKPMHPRAIVLCTTEESADQGFHMAKFISHCARLDSSMENGGVSSKALED 261
L ++ +A++L T E A Q + + S GG + ED
Sbjct: 62 -------CLDIQVRETQALILAPTRELAVQVQKGLLALGDYMNVQSHACIGG--TNVGED 112
Query: 262 VSNAPIG--MLIATPSEVLQHIEDRNVSCDDIRYVVLDEADTLFDRGFGPEISKILNPLK 319
+ G ++ TP V I R++ I+ +VLDEAD + ++GF +I + L
Sbjct: 113 IRKLDYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLP 172
Query: 320 DSALKSNGQGFQTILVTAAIAEMLGEQLSSLM 351
+ Q +L++A + + E + M
Sbjct: 173 PAT--------QVVLISATLPHEVLEMTNKFM 196
>pdb|2J0U|A Chain A, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 53.9 bits (128), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 49/220 (22%), Positives = 92/220 (41%), Gaps = 35/220 (15%)
Query: 142 SFQELGLKAEMIKAVEKMGLFVPSEIQCVGIPAVLNGKSVVLXXXXXXXRTLAYLLPLVQ 201
+F +GL+ ++++ + G PS IQ I ++ G+ V+ +T + + ++Q
Sbjct: 2 TFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSVSVLQ 61
Query: 202 MLRRDEALLPMKPMHPRAIVLCTTEESADQ--------GFHMAKFISHCARLDSSMENGG 253
L ++ +A++L T E A Q G +M C GG
Sbjct: 62 -------CLDIQVRETQALILAPTRELAVQVQKGLLALGDYMNVQCHACI--------GG 106
Query: 254 VSSKALEDVSNAPIG--MLIATPSEVLQHIEDRNVSCDDIRYVVLDEADTLFDRGFGPEI 311
+ ED+ G ++ TP V I R++ I+ +VLDEAD + ++GF +I
Sbjct: 107 --TNVGEDIRKLDYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQI 164
Query: 312 SKILNPLKDSALKSNGQGFQTILVTAAIAEMLGEQLSSLM 351
+ L + Q +L++A + + E + M
Sbjct: 165 YDVYRYLPPAT--------QVVLISATLPHEILEMTNKFM 196
>pdb|3PEY|A Chain A, S. Cerevisiae Dbp5 Bound To Rna And Adp Bef3
Length = 395
Score = 53.5 bits (127), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 46/186 (24%), Positives = 87/186 (46%), Gaps = 15/186 (8%)
Query: 142 SFQELGLKAEMIKAVEKMGLFVPSEIQCVGIPAVLNG--KSVVLXXXXXXXRTLAYLLPL 199
SF ELGL E++K + M PS+IQ +P +L+ ++++ +T A+ L +
Sbjct: 6 SFDELGLAPELLKGIYAMKFQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAAFSLTM 65
Query: 200 VQMLRRDEALLPMKPMHPRAIVLCTTEESADQGFHMAKFISHCARLDSSMENGGVSSKAL 259
+ + ++A P+AI L + E A Q + + + ++ S + + +
Sbjct: 66 LTRVNPEDA-------SPQAICLAPSRELARQTLEVVQEMGKFTKITSQL----IVPDSF 114
Query: 260 EDVSNAPIGMLIATPSEVLQHIEDRNVSCDDIRYVVLDEADTLFD-RGFGPEISKILNPL 318
E +++ TP VL + + + I+ VLDEAD + D +G G + ++ L
Sbjct: 115 EKNKQINAQVIVGTPGTVLDLMRRKLMQLQKIKIFVLDEADNMLDQQGLGDQCIRVKRFL 174
Query: 319 -KDSAL 323
KD+ L
Sbjct: 175 PKDTQL 180
>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 = 53.5 bits (127), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 46/186 (24%), Positives = 87/186 (46%), Gaps = 15/186 (8%)
Query: 142 SFQELGLKAEMIKAVEKMGLFVPSEIQCVGIPAVLNG--KSVVLXXXXXXXRTLAYLLPL 199
SF ELGL E++K + M PS+IQ +P +L+ ++++ +T A+ L +
Sbjct: 6 SFDELGLAPELLKGIYAMKFQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAAFSLTM 65
Query: 200 VQMLRRDEALLPMKPMHPRAIVLCTTEESADQGFHMAKFISHCARLDSSMENGGVSSKAL 259
+ + ++A P+AI L + E A Q + + + ++ S + + +
Sbjct: 66 LTRVNPEDA-------SPQAICLAPSRELARQTLEVVQEMGKFTKITSQL----IVPDSF 114
Query: 260 EDVSNAPIGMLIATPSEVLQHIEDRNVSCDDIRYVVLDEADTLFD-RGFGPEISKILNPL 318
E +++ TP VL + + + I+ VLDEAD + D +G G + ++ L
Sbjct: 115 EKNKQINAQVIVGTPGTVLDLMRRKLMQLQKIKIFVLDEADNMLDQQGLGDQCIRVKRFL 174
Query: 319 -KDSAL 323
KD+ L
Sbjct: 175 PKDTQL 180
>pdb|2G9N|A Chain A, Structure Of The Dead Domain Of Human Eukaryotic
Initiation Factor 4a, Eif4a
pdb|2G9N|B Chain B, Structure Of The Dead Domain Of Human Eukaryotic
Initiation Factor 4a, Eif4a
Length = 221
Score = 53.1 bits (126), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 47/191 (24%), Positives = 76/191 (39%), Gaps = 24/191 (12%)
Query: 138 EVVSSFQELGLKAEMIKAVEKMGLFVPSEIQCVGIPAVLNGKSVVLXXXXXXXRTLAYLL 197
E+V SF ++ L +++ + G PS IQ I + G V+ T + +
Sbjct: 12 EIVDSFDDMNLSESLLRGIYAYGFEXPSAIQQRAILPCIXGYDVIAQAQSGTGXTATFAI 71
Query: 198 PLVQMLRRDEALLPMKPMHPRAIVLCTTEESADQ--------GFHMAKFISHCARLDSSM 249
++Q + D +A+VL T E A Q G +M C
Sbjct: 72 SILQQIELDLX-------ATQALVLAPTRELAQQIQXVVMALGDYMGASCHACI------ 118
Query: 250 ENGGVSSKA-LEDVSNAPIGMLIATPSEVLQHIEDRNVSCDDIRYVVLDEADTLFDRGFG 308
GG + +A ++ + +++ TP V + R +S I VLDEAD + RGF
Sbjct: 119 --GGTNVRAEVQXLQMEAPHIIVGTPGRVFDMLNRRYLSPXYIXMFVLDEADEMLSRGFX 176
Query: 309 PEISKILNPLK 319
+I I L
Sbjct: 177 DQIYDIFQXLN 187
>pdb|1FUU|A Chain A, Yeast Initiation Factor 4a
pdb|1FUU|B Chain B, Yeast Initiation Factor 4a
Length = 394
Score = 51.2 bits (121), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 48/189 (25%), Positives = 78/189 (41%), Gaps = 24/189 (12%)
Query: 138 EVVSSFQELGLKAEMIKAVEKMGLFVPSEIQCVGIPAVLNGKSVVLXXXXXXXRTLAYLL 197
+VV F + L +++ V G PS IQ I ++ G V+ +T + +
Sbjct: 18 KVVYKFDDXELDENLLRGVFGYGFEEPSAIQQRAIXPIIEGHDVLAQAQSGTGKTGTFSI 77
Query: 198 PLVQMLRRDEALLPMKPMHPRAIVLCTTEESADQ--------GFHMAKFISHCARLDSSM 249
+Q R D ++ P+A+ L T E A Q FH + C S +
Sbjct: 78 AALQ--RIDTSV-----KAPQALXLAPTRELALQIQKVVXALAFHXDIKVHACIGGTSFV 130
Query: 250 ENGGVSSKALEDVSNAPIGMLIATPSEVLQHIEDRNVSCDDIRYVVLDEADTLFDRGFGP 309
E+ ++ L D +++ TP V +I+ R D I+ +LDEAD GF
Sbjct: 131 ED----AEGLRDAQ-----IVVGTPGRVFDNIQRRRFRTDKIKXFILDEADEXLSSGFKE 181
Query: 310 EISKILNPL 318
+I +I L
Sbjct: 182 QIYQIFTLL 190
>pdb|3DKP|A Chain A, Human Dead-Box Rna-Helicase Ddx52, Conserved Domain I In
Complex With Adp
Length = 245
Score = 50.8 bits (120), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 39/168 (23%), Positives = 79/168 (47%), Gaps = 13/168 (7%)
Query: 144 QELGLKAEMIKAVEKMGLFVPSEIQCVGIPAVLNGKSVVLXXXXXXXRTLAYLLPLVQML 203
QE + + +++ + G +P+ IQ IP +L+G+ ++ +TLA+ +P++ L
Sbjct: 32 QEYKINSRLLQNILDAGFQMPTPIQMQAIPVMLHGRELLASAPTGSGKTLAFSIPILMQL 91
Query: 204 RRDEALLPMKPMHP--RAIVLCTTEESADQGFHMAKFISHCARLDSSM-ENGGVSSKALE 260
+ +P + RA+++ T E A Q IS M V++K
Sbjct: 92 K--------QPANKGFRALIISPTRELASQIHRELIKISEGTGFRIHMIHKAAVAAKKFG 143
Query: 261 DVSNAPIGMLIATPSEVLQHIEDRNVSCD--DIRYVVLDEADTLFDRG 306
S+ +L+ TP+ ++ ++ D + ++V+DE+D LF+ G
Sbjct: 144 PKSSKKFDILVTTPNRLIYLLKQDPPGIDLASVEWLVVDESDKLFEDG 191
>pdb|1G9L|A Chain A, Solution Structure Of The Pabc Domain Of Human Poly(A)
Binding Protein
Length = 144
Score = 49.3 bits (116), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 24/55 (43%), Positives = 38/55 (69%)
Query: 341 EMLGEQLSSLMECLERDNAGKVTAMLLEMDQAEVFDLTESQDALKKKVVEAMDSL 395
+MLGE+L L++ + AGK+T MLLE+D +E+ + ES ++L+ KV EA+ L
Sbjct: 68 QMLGERLFPLIQAMHPTLAGKITGMLLEIDNSELLHMLESPESLRSKVDEAVAVL 122
>pdb|1JGN|A Chain A, Solution Structure Of The C-Terminal Pabc Domain Of Human
Poly(A)-Binding Protein In Complex With The Peptide From
Paip2
pdb|1JH4|A Chain A, Solution Structure Of The C-Terminal Pabc Domain Of Human
Poly(A)-Binding Protein In Complex With The Peptide From
Paip1
Length = 98
Score = 48.9 bits (115), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 24/55 (43%), Positives = 38/55 (69%)
Query: 341 EMLGEQLSSLMECLERDNAGKVTAMLLEMDQAEVFDLTESQDALKKKVVEAMDSL 395
+MLGE+L L++ + AGK+T MLLE+D +E+ + ES ++L+ KV EA+ L
Sbjct: 22 QMLGERLFPLIQAMHPTLAGKITGMLLEIDNSELLHMLESPESLRSKVDEAVAVL 76
>pdb|3KUR|A Chain A, Crystal Structure Of The Mlle Domain Of Poly(A)-Binding
Protein
pdb|3KUR|B Chain B, Crystal Structure Of The Mlle Domain Of Poly(A)-Binding
Protein
pdb|3KUR|C Chain C, Crystal Structure Of The Mlle Domain Of Poly(A)-Binding
Protein
pdb|3KUR|D Chain D, Crystal Structure Of The Mlle Domain Of Poly(A)-Binding
Protein
pdb|3KUR|E Chain E, Crystal Structure Of The Mlle Domain Of Poly(A)-Binding
Protein
pdb|3KUR|F Chain F, Crystal Structure Of The Mlle Domain Of Poly(A)-Binding
Protein
pdb|3KUR|G Chain G, Crystal Structure Of The Mlle Domain Of Poly(A)-Binding
Protein
pdb|3KUR|H Chain H, Crystal Structure Of The Mlle Domain Of Poly(A)-Binding
Protein
Length = 79
Score = 48.5 bits (114), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 24/55 (43%), Positives = 38/55 (69%)
Query: 341 EMLGEQLSSLMECLERDNAGKVTAMLLEMDQAEVFDLTESQDALKKKVVEAMDSL 395
+MLGE+L L++ + AGK+T MLLE+D +E+ + ES ++L+ KV EA+ L
Sbjct: 22 QMLGERLFPLIQAMHPTLAGKITGMLLEIDNSELLHMLESPESLRSKVDEAVAVL 76
>pdb|3KUS|A Chain A, Crystal Structure Of The Mlle Domain Of Poly(A)-Binding
Protein In Complex With The Binding Region Of Paip2
pdb|3KUS|B Chain B, Crystal Structure Of The Mlle Domain Of Poly(A)-Binding
Protein In Complex With The Binding Region Of Paip2
pdb|3KUT|A Chain A, Crystal Structure Of The Mlle Domain Of Poly(a)-binding
Protein In Complex With The Binding Region Of Paip2
pdb|3KUT|B Chain B, Crystal Structure Of The Mlle Domain Of Poly(a)-binding
Protein In Complex With The Binding Region Of Paip2
pdb|3KTP|A Chain A, Structural Basis Of Gw182 Recognition By Poly(a)-binding
Protein
pdb|3KTR|A Chain A, Structural Basis Of Ataxin-2 Recognition By
Poly(A)-Binding
pdb|3KUI|A Chain A, Crystal Structure Of C-Terminal Domain Of Pabpc1 In
Complex Binding Region Of Erf3a
pdb|3KUJ|A Chain A, Crystal Structure Of C-Terminal Domain Of Pabpc1 In
Complex With Binding Region Of Erf3a
pdb|3PKN|A Chain A, Crystal Structure Of Mlle Domain Of Poly(A) Binding
Protein In Complex With Pam2 Motif Of La-Related Protein
4 (Larp4)
Length = 88
Score = 48.1 bits (113), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 24/55 (43%), Positives = 38/55 (69%)
Query: 341 EMLGEQLSSLMECLERDNAGKVTAMLLEMDQAEVFDLTESQDALKKKVVEAMDSL 395
+MLGE+L L++ + AGK+T MLLE+D +E+ + ES ++L+ KV EA+ L
Sbjct: 22 QMLGERLFPLIQAMHPTLAGKITGMLLEIDNSELLHMLESPESLRSKVDEAVAVL 76
>pdb|2X04|A Chain A, Crystal Structure Of The Pabc-Tnrc6c Complex
pdb|2X04|B Chain B, Crystal Structure Of The Pabc-Tnrc6c Complex
Length = 80
Score = 48.1 bits (113), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 24/55 (43%), Positives = 38/55 (69%)
Query: 341 EMLGEQLSSLMECLERDNAGKVTAMLLEMDQAEVFDLTESQDALKKKVVEAMDSL 395
+MLGE+L L++ + AGK+T MLLE+D +E+ + ES ++L+ KV EA+ L
Sbjct: 21 QMLGERLFPLIQAMHPTLAGKITGMLLEIDNSELLHMLESPESLRSKVDEAVAVL 75
>pdb|3PTH|A Chain A, The Pabc1 Mlle Domain Bound To The Variant Pam2 Motif Of
Larp4b
Length = 82
Score = 47.8 bits (112), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 24/55 (43%), Positives = 38/55 (69%)
Query: 341 EMLGEQLSSLMECLERDNAGKVTAMLLEMDQAEVFDLTESQDALKKKVVEAMDSL 395
+MLGE+L L++ + AGK+T MLLE+D +E+ + ES ++L+ KV EA+ L
Sbjct: 21 QMLGERLFPLIQAMHPTLAGKITGMLLEIDNSELLHMLESPESLRSKVDEAVAVL 75
>pdb|2RQG|B Chain B, Structure Of Gspt1ERF3A-Pabc
pdb|2RQH|B Chain B, Structure Of Gspt1ERF3A-Pabc
Length = 83
Score = 47.8 bits (112), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 24/55 (43%), Positives = 38/55 (69%)
Query: 341 EMLGEQLSSLMECLERDNAGKVTAMLLEMDQAEVFDLTESQDALKKKVVEAMDSL 395
+MLGE+L L++ + AGK+T MLLE+D +E+ + ES ++L+ KV EA+ L
Sbjct: 20 QMLGERLFPLIQAMHPTLAGKITGMLLEIDNSELLHMLESPESLRSKVDEAVAVL 74
>pdb|1NMR|A Chain A, Solution Structure Of C-Terminal Domain From Trypanosoma
Cruzi Poly(A)-Binding Protein
Length = 85
Score = 46.6 bits (109), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 29/79 (36%), Positives = 44/79 (55%), Gaps = 3/79 (3%)
Query: 321 SALKSNGQGFQTILVTAAIAE---MLGEQLSSLMECLERDNAGKVTAMLLEMDQAEVFDL 377
S+L S GQ T+L + +LGE+L + + + A KVT MLLEMD E+ +L
Sbjct: 2 SSLASQGQNLSTVLANLTPEQQKNVLGERLYNHIVAINPAAAAKVTGMLLEMDNGEILNL 61
Query: 378 TESQDALKKKVVEAMDSLH 396
++ L KV EA++ L+
Sbjct: 62 LDTPGLLDAKVQEALEVLN 80
>pdb|3FHC|B Chain B, Crystal Structure Of Human Dbp5 In Complex With Nup214
Length = 235
Score = 41.6 bits (96), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 41/167 (24%), Positives = 71/167 (42%), Gaps = 14/167 (8%)
Query: 140 VSSFQELGLKAEMIKAVEKMGLFVPSEIQCVGIPAVLN--GKSVVLXXXXXXXRTLAYLL 197
V SF+EL LK ++++ V MG PS+IQ +P +L ++++ +T A++L
Sbjct: 24 VKSFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVL 83
Query: 198 PLVQMLRRDEALLPMKPMHPRAIVLCTTEESADQGFHMAKFISHCARLDSSMENG-GVSS 256
++ + +P+ + L T E A K I + ++ V
Sbjct: 84 AMLSQVEPANK-------YPQCLCLSPTYELA---LQTGKVIEQMGKFYPELKLAYAVRG 133
Query: 257 KALEDVSNAPIGMLIATPSEVLQHIED-RNVSCDDIRYVVLDEADTL 302
LE ++I TP VL + + I+ VLDEAD +
Sbjct: 134 NKLERGQKISEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVM 180
>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 = 41.6 bits (96), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 59/252 (23%), Positives = 107/252 (42%), Gaps = 34/252 (13%)
Query: 131 KSSGSNAEVVSSFQELG-LKAEMIKAVEKMGLFVPSEIQCVGIPAVLNGKS--VVLXXXX 187
K S + S E G L E+ KA+ +M + +Q I +L+ + V+
Sbjct: 61 KEDNSKEVTLDSLLEEGVLDKEIHKAITRMEFPGLTPVQQKTIKPILSSEDHDVIARAKT 120
Query: 188 XXXRTLAYLLPLVQML---RRDEALLPMKPMHPRAIVLCTTEESA-----------DQGF 233
+T A+L+P+ Q L + D + +A+++ T + A D +
Sbjct: 121 GTGKTFAFLIPIFQHLINTKFDSQYMV------KAVIVAPTRDLALQIEAEVKKIHDMNY 174
Query: 234 HMAKFISHCARLDSSMENGGVSSKALEDVSNAPIGMLIATPSEVLQHIEDR-NVSCDDIR 292
+ K+ C S+ G A+ ++ ++IATP ++ +E N +
Sbjct: 175 GLKKYA--CV----SLVGGTDFRAAMNKMNKLRPNIVIATPGRLIDVLEKYSNKFFRFVD 228
Query: 293 YVVLDEADTLFDRGFGPEISKILNPLKDSALKSNGQGFQTILVTAAIAEMLGEQLSSLM- 351
Y VLDEAD L + GF ++ I L + KS +T+L +A + + + + +++M
Sbjct: 229 YKVLDEADRLLEIGFRDDLETISGILNEKNSKS-ADNIKTLLFSATLDDKVQKLANNIMN 287
Query: 352 --ECLERDNAGK 361
ECL D K
Sbjct: 288 KKECLFLDTVDK 299
>pdb|3FMO|B Chain B, Crystal Structure Of The Nucleoporin Nup214 In Complex
With The Dead- Box Helicase Ddx19
Length = 300
Score = 41.6 bits (96), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 41/168 (24%), Positives = 71/168 (42%), Gaps = 14/168 (8%)
Query: 140 VSSFQELGLKAEMIKAVEKMGLFVPSEIQCVGIPAVLN--GKSVVLXXXXXXXRTLAYLL 197
V SF+EL LK ++++ V MG PS+IQ +P +L ++++ +T A++L
Sbjct: 91 VKSFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVL 150
Query: 198 PLVQMLRRDEALLPMKPMHPRAIVLCTTEESADQGFHMAKFISHCARLDSSMENG-GVSS 256
++ + +P+ + L T E A K I + ++ V
Sbjct: 151 AMLSQVEPANK-------YPQCLCLSPTYELA---LQTGKVIEQMGKFYPELKLAYAVRG 200
Query: 257 KALEDVSNAPIGMLIATPSEVLQHIED-RNVSCDDIRYVVLDEADTLF 303
LE ++I TP VL + + I+ VLDEAD +
Sbjct: 201 NKLERGQKISEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMI 248
>pdb|3SQW|A Chain A, Structure Of Mss116p (Nte Deletion) Bound To Ssrna And
Amp-Pnp
Length = 579
Score = 41.2 bits (95), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 54/234 (23%), Positives = 101/234 (43%), Gaps = 33/234 (14%)
Query: 148 LKAEMIKAVEKMGLFVPSEIQCVGIPAVLNGKS--VVLXXXXXXXRTLAYLLPLVQML-- 203
L E+ KA+ +M + +Q I +L+ + V+ +T A+L+P+ Q L
Sbjct: 28 LDKEIHKAITRMEFPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIFQHLIN 87
Query: 204 -RRDEALLPMKPMHPRAIVLCTTEESA-----------DQGFHMAKFISHCARLDSSMEN 251
+ D + +A+++ T + A D + + K+ C S+
Sbjct: 88 TKFDSQYMV------KAVIVAPTRDLALQIEAEVKKIHDMNYGLKKYA--CV----SLVG 135
Query: 252 GGVSSKALEDVSNAPIGMLIATPSEVLQHIEDR-NVSCDDIRYVVLDEADTLFDRGFGPE 310
G A+ ++ ++IATP ++ +E N + Y VLDEAD L + GF +
Sbjct: 136 GTDFRAAMNKMNKLRPNIVIATPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLEIGFRDD 195
Query: 311 ISKILNPLKDSALKSNGQGFQTILVTAAIAEMLGEQLSSLM---ECLERDNAGK 361
+ I L + KS +T+L +A + + + + +++M ECL D K
Sbjct: 196 LETISGILNEKNSKS-ADNIKTLLFSATLDDKVQKLANNIMNKKECLFLDTVDK 248
>pdb|3SQX|A Chain A, Structure Of Mss116p (Nte And C-Tail Double Deletion)
Bound To Ssrna And Amp-Pnp
Length = 512
Score = 41.2 bits (95), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 59/252 (23%), Positives = 107/252 (42%), Gaps = 34/252 (13%)
Query: 131 KSSGSNAEVVSSFQELG-LKAEMIKAVEKMGLFVPSEIQCVGIPAVLNGKS--VVLXXXX 187
K S + S E G L E+ KA+ +M + +Q I +L+ + V+
Sbjct: 10 KEDNSKEVTLDSLLEEGVLDKEIHKAITRMEFPGLTPVQQKTIKPILSSEDHDVIARAKT 69
Query: 188 XXXRTLAYLLPLVQML---RRDEALLPMKPMHPRAIVLCTTEESA-----------DQGF 233
+T A+L+P+ Q L + D + +A+++ T + A D +
Sbjct: 70 GTGKTFAFLIPIFQHLINTKFDSQYMV------KAVIVAPTRDLALQIEAEVKKIHDMNY 123
Query: 234 HMAKFISHCARLDSSMENGGVSSKALEDVSNAPIGMLIATPSEVLQHIEDR-NVSCDDIR 292
+ K+ C S+ G A+ ++ ++IATP ++ +E N +
Sbjct: 124 GLKKYA--CV----SLVGGTDFRAAMNKMNKLRPNIVIATPGRLIDVLEKYSNKFFRFVD 177
Query: 293 YVVLDEADTLFDRGFGPEISKILNPLKDSALKSNGQGFQTILVTAAIAEMLGEQLSSLM- 351
Y VLDEAD L + GF ++ I L + KS +T+L +A + + + + +++M
Sbjct: 178 YKVLDEADRLLEIGFRDDLETISGILNEKNSKS-ADNIKTLLFSATLDDKVQKLANNIMN 236
Query: 352 --ECLERDNAGK 361
ECL D K
Sbjct: 237 KKECLFLDTVDK 248
>pdb|4IVE|A Chain A, Crystal Structure Of A Polyadenylate-binding Protein 3
(pabpc3) From Homo Sapiens At 2.30 A Resolution
pdb|4IVE|B Chain B, Crystal Structure Of A Polyadenylate-binding Protein 3
(pabpc3) From Homo Sapiens At 2.30 A Resolution
pdb|4IVE|C Chain C, Crystal Structure Of A Polyadenylate-binding Protein 3
(pabpc3) From Homo Sapiens At 2.30 A Resolution
pdb|4IVE|D Chain D, Crystal Structure Of A Polyadenylate-binding Protein 3
(pabpc3) From Homo Sapiens At 2.30 A Resolution
Length = 98
Score = 40.4 bits (93), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 22/56 (39%), Positives = 34/56 (60%)
Query: 341 EMLGEQLSSLMECLERDNAGKVTAMLLEMDQAEVFDLTESQDALKKKVVEAMDSLH 396
+ LGE+L L++ AGK+T LLE+D +E+ ES ++L+ KV EA+ L
Sbjct: 22 QXLGERLFPLIQAXHPTLAGKITGXLLEIDNSELLYXLESPESLRSKVDEAVAVLQ 77
>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 = 40.0 bits (92), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 42/167 (25%), Positives = 72/167 (43%), Gaps = 14/167 (8%)
Query: 140 VSSFQELGLKAEMIKAVEKMGLFVPSEIQCVGIPAVLN--GKSVVLXXXXXXXRTLAYLL 197
V SF+EL LK ++++ V MG PS+IQ +P +L ++++ +T A++L
Sbjct: 61 VKSFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVL 120
Query: 198 PLVQMLRRDEALLPMKPMHPRAIVLCTTEESADQGFHMAKFISHCARLDSSMENG-GVSS 256
++ + P +P+ + L T E A K I + ++ V
Sbjct: 121 AMLSQVE------PANK-YPQCLCLSPTYELA---LQTGKVIEQMGKFYPELKLAYAVRG 170
Query: 257 KALEDVSNAPIGMLIATPSEVLQHIED-RNVSCDDIRYVVLDEADTL 302
LE ++I TP VL + + I+ VLDEAD +
Sbjct: 171 NKLERGQKISEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVM 217
>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 = 40.0 bits (92), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 42/168 (25%), Positives = 72/168 (42%), Gaps = 14/168 (8%)
Query: 140 VSSFQELGLKAEMIKAVEKMGLFVPSEIQCVGIPAVLN--GKSVVLXXXXXXXRTLAYLL 197
V SF+EL LK ++++ V MG PS+IQ +P +L ++++ +T A++L
Sbjct: 91 VKSFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVL 150
Query: 198 PLVQMLRRDEALLPMKPMHPRAIVLCTTEESADQGFHMAKFISHCARLDSSMENG-GVSS 256
++ + P +P+ + L T E A K I + ++ V
Sbjct: 151 AMLSQVE------PANK-YPQCLCLSPTYELA---LQTGKVIEQMGKFYPELKLAYAVRG 200
Query: 257 KALEDVSNAPIGMLIATPSEVLQHIED-RNVSCDDIRYVVLDEADTLF 303
LE ++I TP VL + + I+ VLDEAD +
Sbjct: 201 NKLERGQKISEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMI 248
>pdb|3G0H|A Chain A, Human Dead-box Rna Helicase Ddx19, In Complex With An
Atp-analogue And Rna
Length = 424
Score = 40.0 bits (92), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 43/168 (25%), Positives = 73/168 (43%), Gaps = 14/168 (8%)
Query: 140 VSSFQELGLKAEMIKAVEKMGLFVPSEIQCVGIPAVLN--GKSVVLXXXXXXXRTLAYLL 197
V SF+EL LK ++++ V MG PS+IQ +P +L ++++ +T A++L
Sbjct: 40 VKSFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVL 99
Query: 198 PLVQMLRRDEALLPMKPMHPRAIVLCTTEESADQGFHMAKFISHCARLDSSMENG-GVSS 256
++ + P +P+ + L T E A Q K I + ++ V
Sbjct: 100 AMLSQVE------PANK-YPQCLCLSPTYELALQ---TGKVIEQMGKFYPELKLAYAVRG 149
Query: 257 KALEDVSNAPIGMLIATPSEVLQHIED-RNVSCDDIRYVVLDEADTLF 303
LE ++I TP VL + + I+ VLDEAD +
Sbjct: 150 NKLERGQKISEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMI 197
>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 = 40.0 bits (92), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 43/167 (25%), Positives = 73/167 (43%), Gaps = 14/167 (8%)
Query: 140 VSSFQELGLKAEMIKAVEKMGLFVPSEIQCVGIPAVLN--GKSVVLXXXXXXXRTLAYLL 197
V SF+EL LK ++++ V MG PS+IQ +P +L ++++ +T A++L
Sbjct: 24 VKSFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVL 83
Query: 198 PLVQMLRRDEALLPMKPMHPRAIVLCTTEESADQGFHMAKFISHCARLDSSMENG-GVSS 256
++ + P +P+ + L T E A Q K I + ++ V
Sbjct: 84 AMLSQVE------PANK-YPQCLCLSPTYELALQ---TGKVIEQMGKFYPELKLAYAVRG 133
Query: 257 KALEDVSNAPIGMLIATPSEVLQHIED-RNVSCDDIRYVVLDEADTL 302
LE ++I TP VL + + I+ VLDEAD +
Sbjct: 134 NKLERGQKISEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVM 180
>pdb|3NTW|A Chain A, Structure Of The Mlle Domain Of Edd In Complex With A Pam2
Peptide From Paip1
pdb|3NTW|C Chain C, Structure Of The Mlle Domain Of Edd In Complex With A Pam2
Peptide From Paip1
Length = 65
Score = 38.5 bits (88), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 20/53 (37%), Positives = 35/53 (66%)
Query: 341 EMLGEQLSSLMECLERDNAGKVTAMLLEMDQAEVFDLTESQDALKKKVVEAMD 393
+ LGE+L ++ ++ A K+T MLLE+ A++ L S+D+L+ +V EAM+
Sbjct: 8 QALGERLYPRVQAMQPAFASKITGMLLELSPAQLLLLLASEDSLRARVEEAME 60
>pdb|1I2T|A Chain A, X-Ray Structure Of The Human Hyperplastic Discs Protein:
An Ortholog Of The C-Terminal Domain Of Poly(A)-Binding
Protein
Length = 61
Score = 37.4 bits (85), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 20/53 (37%), Positives = 35/53 (66%)
Query: 341 EMLGEQLSSLMECLERDNAGKVTAMLLEMDQAEVFDLTESQDALKKKVVEAMD 393
+ LGE+L ++ ++ A K+T MLLE+ A++ L S+D+L+ +V EAM+
Sbjct: 3 QALGERLYPRVQAMQPAFASKITGMLLELSPAQLLLLLASEDSLRARVDEAME 55
>pdb|3FHO|A Chain A, Structure Of S. Pombe Dbp5
pdb|3FHO|B Chain B, Structure Of S. Pombe Dbp5
Length = 508
Score = 35.4 bits (80), Expect = 0.062, Method: Compositional matrix adjust.
Identities = 33/125 (26%), Positives = 59/125 (47%), Gaps = 12/125 (9%)
Query: 191 RTLAYLLPLVQMLRRDEALLPMKPMHPRAIVLCTTEESADQGFHMAKFISHCARLDSSME 250
+T A+ L ML R +A +P P+AI L + E A Q + + + ++
Sbjct: 171 KTAAFAL---TMLSRVDASVP----KPQAICLAPSRELARQIMDVVTEMGKYTEVKTAF- 222
Query: 251 NGGVSSKALEDVSNAPIGMLIATPSEVLQHIEDRNVSCDDIRYVVLDEADTLFD-RGFGP 309
G+ ++ + ++I TP V+ ++ R + DI+ VLDEAD + D +G G
Sbjct: 223 --GIKD-SVPKGAKIDAQIVIGTPGTVMDLMKRRQLDARDIKVFVLDEADNMLDQQGLGD 279
Query: 310 EISKI 314
+ +I
Sbjct: 280 QSMRI 284
>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 = 33.5 bits (75), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 25/82 (30%), Positives = 38/82 (46%), Gaps = 9/82 (10%)
Query: 271 IATPSEVLQHIEDRNVSCDDIRYVVLDEADTLFDRG-FGPEISKILNPLKDSALKSNGQG 329
+ +P + Q IE ++ IR +LDEAD L + G F +I+ I + L S
Sbjct: 147 VGSPGRIKQLIELDYLNPGSIRLFILDEADKLLEEGSFQEQINWIYSSLPASK------- 199
Query: 330 FQTILVTAAIAEMLGEQLSSLM 351
Q + V+A E L L+ M
Sbjct: 200 -QMLAVSATYPEFLANALTKYM 220
>pdb|1IFW|A Chain A, Solution Structure Of C-Terminal Domain Of Poly(A) Binding
Protein From Saccharomyces Cerevisiae
Length = 92
Score = 31.6 bits (70), Expect = 0.93, Method: Compositional matrix adjust.
Identities = 19/53 (35%), Positives = 30/53 (56%), Gaps = 2/53 (3%)
Query: 341 EMLGEQLSSLM--ECLERDNAGKVTAMLLEMDQAEVFDLTESQDALKKKVVEA 391
+ LGEQL + + + AGK+T M+L++ EVF L ES + ++ EA
Sbjct: 22 QALGEQLYKKVSAKTSNEEAAGKITGMILDLPPQEVFPLLESDELFEQHYKEA 74
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
0.314 0.130 0.349
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,328,300
Number of Sequences: 62578
Number of extensions: 326029
Number of successful extensions: 713
Number of sequences better than 100.0: 65
Number of HSP's better than 100.0 without gapping: 58
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 633
Number of HSP's gapped (non-prelim): 65
length of query: 402
length of database: 14,973,337
effective HSP length: 101
effective length of query: 301
effective length of database: 8,652,959
effective search space: 2604540659
effective search space used: 2604540659
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 52 (24.6 bits)