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= psy12758
(308 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2I4I|A Chain A, Crystal Structure Of Human Dead-Box Rna Helicase Ddx3x
Length = 417
Score = 290 bits (742), Expect = 7e-79, Method: Compositional matrix adjust.
Identities = 146/251 (58%), Positives = 177/251 (70%), Gaps = 37/251 (14%)
Query: 58 PLPPQFDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLV 117
P F D++M EII NI L RY +PTPVQK+AIP+I RD+MACAQTGSGKTAAFL+
Sbjct: 12 PHIESFSDVEMGEIIMGNIELTRYTRPTPVQKHAIPIIKEKRDLMACAQTGSGKTAAFLL 71
Query: 118 PILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPC 177
PIL+Q+Y GP G + K+ G
Sbjct: 72 PILSQIYSDGP------GEALRAMKENGRYG----------------------------- 96
Query: 178 VVRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVYGGSNVGDQMRDLDRGCHL 237
R+K +P+ LVLAPTRELA QIY+EA+KF+YRS++RPCVVYGG+++G Q+RDL+RGCHL
Sbjct: 97 --RRKQYPISLVLAPTRELAVQIYEEARKFSYRSRVRPCVVYGGADIGQQIRDLERGCHL 154
Query: 238 LVATPGRLVDMLERGKIGLANCRFLVLDEADRMLDMGFEPQIRCIVQENGMPRTGDRQTL 297
LVATPGRLVDM+ERGKIGL C++LVLDEADRMLDMGFEPQIR IV+++ MP G R T+
Sbjct: 155 LVATPGRLVDMMERGKIGLDFCKYLVLDEADRMLDMGFEPQIRRIVEQDTMPPKGVRHTM 214
Query: 298 MFSATFPKEIQ 308
MFSATFPKEIQ
Sbjct: 215 MFSATFPKEIQ 225
>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 = 240 bits (613), Expect = 6e-64, Method: Compositional matrix adjust.
Identities = 123/246 (50%), Positives = 156/246 (63%), Gaps = 46/246 (18%)
Query: 63 FDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQ 122
FD++++ I NNI LA Y +PTP+QK AIP I+ RD+MACAQTGSGKTAAFL+PI+N
Sbjct: 25 FDELKLDPTIRNNILLASYQRPTPIQKNAIPAILEHRDIMACAQTGSGKTAAFLIPIINH 84
Query: 123 MYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVRKK 182
+ ++L Q Y K
Sbjct: 85 LV-----------------------------CQDLNQQRYS-----------------KT 98
Query: 183 VFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVYGGSNVGDQMRDLDRGCHLLVATP 242
+P L+LAPTRELA QI E++KF+ + LR CVVYGG++ Q+R++ GCHLLVATP
Sbjct: 99 AYPKCLILAPTRELAIQILSESQKFSLNTPLRSCVVYGGADTHSQIREVQMGCHLLVATP 158
Query: 243 GRLVDMLERGKIGLANCRFLVLDEADRMLDMGFEPQIRCIVQENGMPRTGDRQTLMFSAT 302
GRLVD +E+ KI L C+++VLDEADRMLDMGFEPQIR I++E+ MP +RQTLMFSAT
Sbjct: 159 GRLVDFIEKNKISLEFCKYIVLDEADRMLDMGFEPQIRKIIEESNMPSGINRQTLMFSAT 218
Query: 303 FPKEIQ 308
FPKEIQ
Sbjct: 219 FPKEIQ 224
>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 = 188 bits (477), Expect = 4e-48, Method: Compositional matrix adjust.
Identities = 111/253 (43%), Positives = 148/253 (58%), Gaps = 53/253 (20%)
Query: 57 LPLPPQ-FDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAF 115
+P P Q F + +II +N+ + Y PTP+QK +IPVI SGRD+MACAQTGSGKTAAF
Sbjct: 51 VPQPIQHFTSADLRDIIIDNVNKSGYKIPTPIQKCSIPVISSGRDLMACAQTGSGKTAAF 110
Query: 116 LVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLR 175
L+PIL+++ E P L L R
Sbjct: 111 LLPILSKLLED-------------------PHELELG----------------------R 129
Query: 176 PCVVRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVYGGSNVGDQMRDLDRGC 235
P VV +++PTRELA QI++EA+KFA+ S L+ +VYGG++ Q + RGC
Sbjct: 130 PQVV---------IVSPTRELAIQIFNEARKFAFESYLKIGIVYGGTSFRHQNECITRGC 180
Query: 236 HLLVATPGRLVDMLERGKIGLANCRFLVLDEADRMLDMGFEPQIRCIVQENGMPRTGDRQ 295
H+++ATPGRL+D ++R I + RF+VLDEADRMLDMGF +R I+ M + Q
Sbjct: 181 HVVIATPGRLLDFVDRTFITFEDTRFVVLDEADRMLDMGFSEDMRRIMTHVTM--RPEHQ 238
Query: 296 TLMFSATFPKEIQ 308
TLMFSATFP+EIQ
Sbjct: 239 TLMFSATFPEEIQ 251
>pdb|4A4D|A Chain A, Crystal Structure Of The N-Terminal Domain Of The Human
Dead-Box Rna Helicase Ddx5 (P68)
Length = 253
Score = 150 bits (379), Expect = 9e-37, Method: Compositional matrix adjust.
Identities = 92/237 (38%), Positives = 125/237 (52%), Gaps = 54/237 (22%)
Query: 72 ITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPT 131
+ + IA + +PT +Q PV +SG D++ AQTGSGKT ++L+P + + + P
Sbjct: 54 VMDVIARQNFTEPTAIQAQGWPVALSGLDMVGVAQTGSGKTLSYLLPAIVHINHQ---PF 110
Query: 132 PPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVRKKVFPLGLVLA 191
G G P+ LVLA
Sbjct: 111 LERGDG-----------------------------------------------PICLVLA 123
Query: 192 PTRELATQIYDEAKKFAYRSQLRPCVVYGGSNVGDQMRDLDRGCHLLVATPGRLVDMLER 251
PTRELA Q+ A ++ +L+ +YGG+ G Q+RDL+RG + +ATPGRL+D LE
Sbjct: 124 PTRELAQQVQQVAAEYCRACRLKSTCIYGGAPKGPQIRDLERGVEICIATPGRLIDFLEC 183
Query: 252 GKIGLANCRFLVLDEADRMLDMGFEPQIRCIVQENGMPRTGDRQTLMFSATFPKEIQ 308
GK L +LVLDEADRMLDMGFEPQIR IV + DRQTLM+SAT+PKE++
Sbjct: 184 GKTNLRRTTYLVLDEADRMLDMGFEPQIRKIVDQI----RPDRQTLMWSATWPKEVR 236
>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 = 150 bits (378), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 92/237 (38%), Positives = 125/237 (52%), Gaps = 54/237 (22%)
Query: 72 ITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPT 131
+ + IA + +PT +Q PV +SG D++ AQTGSGKT ++L+P + + + P
Sbjct: 40 VMDVIARQNFTEPTAIQAQGWPVALSGLDMVGVAQTGSGKTLSYLLPAIVHINHQ---PF 96
Query: 132 PPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVRKKVFPLGLVLA 191
G G P+ LVLA
Sbjct: 97 LERGDG-----------------------------------------------PICLVLA 109
Query: 192 PTRELATQIYDEAKKFAYRSQLRPCVVYGGSNVGDQMRDLDRGCHLLVATPGRLVDMLER 251
PTRELA Q+ A ++ +L+ +YGG+ G Q+RDL+RG + +ATPGRL+D LE
Sbjct: 110 PTRELAQQVQQVAAEYCRACRLKSTCIYGGAPKGPQIRDLERGVEICIATPGRLIDFLEC 169
Query: 252 GKIGLANCRFLVLDEADRMLDMGFEPQIRCIVQENGMPRTGDRQTLMFSATFPKEIQ 308
GK L +LVLDEADRMLDMGFEPQIR IV + DRQTLM+SAT+PKE++
Sbjct: 170 GKTNLRRTTYLVLDEADRMLDMGFEPQIRKIVDQI----RPDRQTLMWSATWPKEVR 222
>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 = 124 bits (310), Expect = 1e-28, Method: Compositional matrix adjust.
Identities = 77/226 (34%), Positives = 113/226 (50%), Gaps = 54/226 (23%)
Query: 83 KPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRK 142
KPTP+Q A P+I+ G D++ AQTG+GKT ++L+P L + P R +
Sbjct: 42 KPTPIQSQAWPIILQGIDLIVVAQTGTGKTLSYLMPGFIH------LDSQPISR----EQ 91
Query: 143 KVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVRKKVFPLGLVLAPTRELATQIYD 202
+ P LVL PTRELA + E K++Y+
Sbjct: 92 RNGPGMLVLTPTRELALHVEAECSKYSYKG------------------------------ 121
Query: 203 EAKKFAYRSQLRPCVVYGGSNVGDQMRDLDRGCHLLVATPGRLVDMLERGKIGLANCRFL 262
L+ +YGG N Q+ D+ +G +++ATPGRL D+ + L + +L
Sbjct: 122 ----------LKSICIYGGRNRNGQIEDISKGVDIIIATPGRLNDLQMNNSVNLRSITYL 171
Query: 263 VLDEADRMLDMGFEPQIRCIVQENGMPRTGDRQTLMFSATFPKEIQ 308
V+DEAD+MLDM FEPQIR I+ + DRQT+M SAT+P ++
Sbjct: 172 VIDEADKMLDMEFEPQIRKIL----LDVRPDRQTVMTSATWPDTVR 213
>pdb|3BER|A Chain A, Human Dead-Box Rna-Helicase Ddx47, Conserved Domain I In
Complex With Amp
Length = 249
Score = 122 bits (305), Expect = 3e-28, Method: Compositional matrix adjust.
Identities = 81/247 (32%), Positives = 124/247 (50%), Gaps = 60/247 (24%)
Query: 63 FDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQ 122
F D+ +T+++ + KPT +Q AIP+ + GRD++ A+TGSGKT AF +PILN
Sbjct: 45 FKDLGVTDVLCEACDQLGWTKPTKIQIEAIPLALQGRDIIGLAETGSGKTGAFALPILNA 104
Query: 123 MYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVRKK 182
+ L TP ++
Sbjct: 105 L-----LETP------------------------------------------------QR 111
Query: 183 VFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVYGGSNVGDQMRDLDRGCHLLVATP 242
+F LVL PTRELA QI ++ + ++ V+ GG + Q L + H+++ATP
Sbjct: 112 LF--ALVLTPTRELAFQISEQFEALGSSIGVQSAVIVGGIDSMSQSLALAKKPHIIIATP 169
Query: 243 GRLVDMLERGK-IGLANCRFLVLDEADRMLDMGFEPQIRCIVQENGMPRTGDRQTLMFSA 301
GRL+D LE K L ++LV+DEADR+L+M FE ++ I++ +PR DR+T +FSA
Sbjct: 170 GRLIDHLENTKGFNLRALKYLVMDEADRILNMDFETEVDKILKV--IPR--DRKTFLFSA 225
Query: 302 TFPKEIQ 308
T K++Q
Sbjct: 226 TMTKKVQ 232
>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 = 115 bits (287), Expect = 4e-26, Method: Compositional matrix adjust.
Identities = 80/243 (32%), Positives = 112/243 (46%), Gaps = 58/243 (23%)
Query: 62 QFDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILN 121
+F D + I + PTP+Q A+P+ + G+D++ A+TG+GKT AF +PI
Sbjct: 2 EFKDFPLKPEILEALHGRGLTTPTPIQAAALPLALEGKDLIGQARTGTGKTLAFALPIAE 61
Query: 122 QMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVRK 181
+ LAP++E +
Sbjct: 62 R----------------------------LAPSQERGRK--------------------- 72
Query: 182 KVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVYGGSNVGDQMRDLDRGCHLLVAT 241
P LVL PTRELA Q+ E A L+ VYGG+ G Q L RG +VAT
Sbjct: 73 ---PRALVLTPTRELALQVASELTAVA--PHLKVVAVYGGTGYGKQKEALLRGADAVVAT 127
Query: 242 PGRLVDMLERGKIGLANCRFLVLDEADRMLDMGFEPQIRCIVQENGMPRTGDRQTLMFSA 301
PGR +D L +G + L+ VLDEAD ML MGFE ++ ++ + P + RQTL+FSA
Sbjct: 128 PGRALDYLRQGVLDLSRVEVAVLDEADEMLSMGFEEEVEALL--SATPPS--RQTLLFSA 183
Query: 302 TFP 304
T P
Sbjct: 184 TLP 186
>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 = 113 bits (283), Expect = 1e-25, Method: Compositional matrix adjust.
Identities = 79/243 (32%), Positives = 112/243 (46%), Gaps = 58/243 (23%)
Query: 62 QFDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILN 121
+F D + I + PTP++ A+P+ + G+D++ A+TG+GKT AF +PI
Sbjct: 2 EFKDFPLKPEILEALHGRGLTTPTPIEAAALPLALEGKDLIGQARTGTGKTLAFALPIAE 61
Query: 122 QMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVRK 181
+ LAP++E +
Sbjct: 62 R----------------------------LAPSQERGRK--------------------- 72
Query: 182 KVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVYGGSNVGDQMRDLDRGCHLLVAT 241
P LVL PTRELA Q+ E A L+ VYGG+ G Q L RG +VAT
Sbjct: 73 ---PRALVLTPTRELALQVASELTAVA--PHLKVVAVYGGTGYGKQKEALLRGADAVVAT 127
Query: 242 PGRLVDMLERGKIGLANCRFLVLDEADRMLDMGFEPQIRCIVQENGMPRTGDRQTLMFSA 301
PGR +D L +G + L+ VLDEAD ML MGFE ++ ++ + P + RQTL+FSA
Sbjct: 128 PGRALDYLRQGVLDLSRVEVAVLDEADEMLSMGFEEEVEALL--SATPPS--RQTLLFSA 183
Query: 302 TFP 304
T P
Sbjct: 184 TLP 186
>pdb|1S2M|A Chain A, Crystal Structure Of The Dead Box Protein Dhh1p
Length = 400
Score = 111 bits (278), Expect = 5e-25, Method: Compositional matrix adjust.
Identities = 83/267 (31%), Positives = 128/267 (47%), Gaps = 62/267 (23%)
Query: 45 PSGGRNS---TDTFLLPLPPQFDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISGRDV 101
P G +++ TD L F+D + + I A ++KP+P+Q+ AIPV I+GRD+
Sbjct: 2 PLGSKDTRPQTDDVLNTKGNTFEDFYLKRELLMGIFEAGFEKPSPIQEEAIPVAITGRDI 61
Query: 102 MACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQI 161
+A A+ G+GKTAAF++P L ++ P K+ L++ PTRELA Q
Sbjct: 62 LARAKNGTGKTAAFVIPTLEKV--------------KPKLNKI--QALIMVPTRELALQT 105
Query: 162 YDEAKKFAYRSQLRPCVVRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVYGG 221
SQ VVR + V GG
Sbjct: 106 ----------SQ----VVR-------------------------TLGKHCGISCMVTTGG 126
Query: 222 SNVGDQMRDLDRGCHLLVATPGRLVDMLERGKIGLANCRFLVLDEADRMLDMGFEPQIRC 281
+N+ D + L+ H+LV TPGR++D+ R L++C ++DEAD+ML F+ I
Sbjct: 127 TNLRDDILRLNETVHILVGTPGRVLDLASRKVADLSDCSLFIMDEADKMLSRDFKTIIEQ 186
Query: 282 IVQENGMPRTGDRQTLMFSATFPKEIQ 308
I+ + +P T Q+L+FSATFP ++
Sbjct: 187 IL--SFLPPT--HQSLLFSATFPLTVK 209
>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 = 109 bits (272), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 81/251 (32%), Positives = 119/251 (47%), Gaps = 59/251 (23%)
Query: 57 LPLPPQFDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFL 116
+ + P FD + + E + I ++KP+ +Q+ AI II GRDV+A +Q+G+GKTA F
Sbjct: 33 VDVTPTFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFS 92
Query: 117 VPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRP 176
+ +L Q + T L+LAPTRELA QI
Sbjct: 93 ISVL-QCLDIQVRETQ---------------ALILAPTRELAVQI--------------- 121
Query: 177 CVVRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVYGGSNVGDQMRDLDRGCH 236
+K + LG + Q C+ GG+NVG+ +R LD G H
Sbjct: 122 ---QKGLLALGDYM-------------------NVQCHACI--GGTNVGEDIRKLDYGQH 157
Query: 237 LLVATPGRLVDMLERGKIGLANCRFLVLDEADRMLDMGFEPQIRCIVQENGMPRTGDRQT 296
++ TPGR+ DM+ R + + LVLDEAD ML+ GF+ QI + + +P Q
Sbjct: 158 VVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRY--LPPAT--QV 213
Query: 297 LMFSATFPKEI 307
++ SAT P EI
Sbjct: 214 VLISATLPHEI 224
>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 = 108 bits (271), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 81/251 (32%), Positives = 119/251 (47%), Gaps = 59/251 (23%)
Query: 57 LPLPPQFDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFL 116
+ + P FD + + E + I ++KP+ +Q+ AI II GRDV+A +Q+G+GKTA F
Sbjct: 34 VDVTPTFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFS 93
Query: 117 VPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRP 176
+ +L Q + T L+LAPTRELA QI
Sbjct: 94 ISVL-QCLDIQVRETQ---------------ALILAPTRELAVQI--------------- 122
Query: 177 CVVRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVYGGSNVGDQMRDLDRGCH 236
+K + LG + Q C+ GG+NVG+ +R LD G H
Sbjct: 123 ---QKGLLALGDYM-------------------NVQCHACI--GGTNVGEDIRKLDYGQH 158
Query: 237 LLVATPGRLVDMLERGKIGLANCRFLVLDEADRMLDMGFEPQIRCIVQENGMPRTGDRQT 296
++ TPGR+ DM+ R + + LVLDEAD ML+ GF+ QI + + +P Q
Sbjct: 159 VVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRY--LPPAT--QV 214
Query: 297 LMFSATFPKEI 307
++ SAT P EI
Sbjct: 215 VLISATLPHEI 225
>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 = 108 bits (271), Expect = 3e-24, Method: Compositional matrix adjust.
Identities = 81/251 (32%), Positives = 119/251 (47%), Gaps = 59/251 (23%)
Query: 57 LPLPPQFDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFL 116
+ + P FD + + E + I ++KP+ +Q+ AI II GRDV+A +Q+G+GKTA F
Sbjct: 34 VDVTPTFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFS 93
Query: 117 VPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRP 176
+ +L Q + T L+LAPTRELA QI
Sbjct: 94 ISVL-QCLDIQVRETQ---------------ALILAPTRELAVQI--------------- 122
Query: 177 CVVRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVYGGSNVGDQMRDLDRGCH 236
+K + LG + Q C+ GG+NVG+ +R LD G H
Sbjct: 123 ---QKGLLALGDYM-------------------NVQCHACI--GGTNVGEDIRKLDYGQH 158
Query: 237 LLVATPGRLVDMLERGKIGLANCRFLVLDEADRMLDMGFEPQIRCIVQENGMPRTGDRQT 296
++ TPGR+ DM+ R + + LVLDEAD ML+ GF+ QI + + +P Q
Sbjct: 159 VVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRY--LPPAT--QV 214
Query: 297 LMFSATFPKEI 307
++ SAT P EI
Sbjct: 215 VLISATLPHEI 225
>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 = 108 bits (270), Expect = 3e-24, Method: Compositional matrix adjust.
Identities = 81/251 (32%), Positives = 119/251 (47%), Gaps = 59/251 (23%)
Query: 57 LPLPPQFDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFL 116
+ + P FD + + E + I ++KP+ +Q+ AI II GRDV+A +Q+G+GKTA F
Sbjct: 12 VDVTPTFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFS 71
Query: 117 VPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRP 176
+ +L Q + T L+LAPTRELA QI
Sbjct: 72 ISVL-QCLDIQVRETQ---------------ALILAPTRELAVQI--------------- 100
Query: 177 CVVRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVYGGSNVGDQMRDLDRGCH 236
+K + LG + Q C+ GG+NVG+ +R LD G H
Sbjct: 101 ---QKGLLALGDYM-------------------NVQCHACI--GGTNVGEDIRKLDYGQH 136
Query: 237 LLVATPGRLVDMLERGKIGLANCRFLVLDEADRMLDMGFEPQIRCIVQENGMPRTGDRQT 296
++ TPGR+ DM+ R + + LVLDEAD ML+ GF+ QI + + +P Q
Sbjct: 137 VVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRY--LPPAT--QV 192
Query: 297 LMFSATFPKEI 307
++ SAT P EI
Sbjct: 193 VLISATLPHEI 203
>pdb|1VEC|A Chain A, Crystal Structure Of The N-Terminal Domain Of RckP54, A
Human Dead-Box Protein
pdb|1VEC|B Chain B, Crystal Structure Of The N-Terminal Domain Of RckP54, A
Human Dead-Box Protein
Length = 206
Score = 108 bits (269), Expect = 5e-24, Method: Compositional matrix adjust.
Identities = 72/247 (29%), Positives = 126/247 (51%), Gaps = 58/247 (23%)
Query: 62 QFDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILN 121
+F+D + + I ++KP+P+Q+ +IP+ +SGRD++A A+ G+GK+ A+L+P+L
Sbjct: 4 EFEDYCLKRELLMGIFEMGWEKPSPIQEESIPIALSGRDILARAKNGTGKSGAYLIPLLE 63
Query: 122 QMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVRK 181
++ KK +V+ PTRELA Q+ SQ+ C+
Sbjct: 64 RL----------------DLKKDNIQAMVIVPTRELALQV----------SQI--CIQVS 95
Query: 182 KVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVYGGSNVGDQMRDLDRGCHLLVAT 241
K V+A T GG+N+ D + LD H+++AT
Sbjct: 96 KHMGGAKVMATT--------------------------GGTNLRDDIMRLDDTVHVVIAT 129
Query: 242 PGRLVDMLERGKIGLANCRFLVLDEADRMLDMGFEPQIRCIVQENGMPRTGDRQTLMFSA 301
PGR++D++++G + + + +VLDEAD++L F + I+ +P+ +RQ L++SA
Sbjct: 130 PGRILDLIKKGVAKVDHVQMIVLDEADKLLSQDFVQIMEDIILT--LPK--NRQILLYSA 185
Query: 302 TFPKEIQ 308
TFP +Q
Sbjct: 186 TFPLSVQ 192
>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 = 103 bits (258), Expect = 9e-23, Method: Compositional matrix adjust.
Identities = 66/247 (26%), Positives = 115/247 (46%), Gaps = 62/247 (25%)
Query: 62 QFDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISGR-DVMACAQTGSGKTAAFLVPIL 120
F+++ +++ I N I ++KPT +Q IP+ ++ +++A A+TGSGKTA+F +P++
Sbjct: 7 NFNELNLSDNILNAIRNKGFEKPTDIQXKVIPLFLNDEYNIVAQARTGSGKTASFAIPLI 66
Query: 121 NQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVR 180
+ E + ++L PTRELA Q
Sbjct: 67 ELVNENNGIE-----------------AIILTPTRELAIQ-------------------- 89
Query: 181 KKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVYGGSNVGDQMRDLDRGCHLLVA 240
+ DE + L+ +YGG + Q++ L + +++V
Sbjct: 90 -------------------VADEIESLKGNKNLKIAKIYGGKAIYPQIKAL-KNANIVVG 129
Query: 241 TPGRLVDMLERGKIGLANCRFLVLDEADRMLDMGFEPQIRCIVQENGMPRTGDRQTLMFS 300
TPGR++D + RG + L N ++ +LDEAD L+ GF + I+ D++ L+FS
Sbjct: 130 TPGRILDHINRGTLNLKNVKYFILDEADEXLNXGFIKDVEKILN----ACNKDKRILLFS 185
Query: 301 ATFPKEI 307
AT P+EI
Sbjct: 186 ATXPREI 192
>pdb|3BOR|A Chain A, Crystal Structure Of The Deadc Domain Of Human Translation
Initiation Factor 4a-2
Length = 237
Score = 101 bits (251), Expect = 7e-22, Method: Compositional matrix adjust.
Identities = 80/246 (32%), Positives = 112/246 (45%), Gaps = 60/246 (24%)
Query: 63 FDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQ 122
FDD+ + E + I ++KP+ +Q+ AI I G DV+A AQ+G+GKTA F + IL Q
Sbjct: 32 FDDMNLKESLLRGIYAYGFEKPSAIQQRAIIPCIKGYDVIAQAQSGTGKTATFAISILQQ 91
Query: 123 MYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVRKK 182
+ E T LVLAPTRELA QI +K
Sbjct: 92 L-EIEFKETQ---------------ALVLAPTRELAQQI------------------QKV 117
Query: 183 VFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVYGGSNVGDQMRDLDRGC-HLLVAT 241
+ LG + T C+ GG+NV ++M+ L H++V T
Sbjct: 118 ILALGDYMGAT-------------------CHACI--GGTNVRNEMQKLQAEAPHIVVGT 156
Query: 242 PGRLVDMLERGKIGLANCRFLVLDEADRMLDMGFEPQIRCIVQENGMPRTGDRQTLMFSA 301
PGR+ DML R + + VLDEAD ML GF+ QI I Q+ Q ++ SA
Sbjct: 157 PGRVFDMLNRRYLSPKWIKMFVLDEADEMLSRGFKDQIYEIFQK----LNTSIQVVLLSA 212
Query: 302 TFPKEI 307
T P ++
Sbjct: 213 TMPTDV 218
>pdb|2PL3|A Chain A, Human Dead-Box Rna Helicase Ddx10, Dead Domain In Complex
With Adp
Length = 236
Score = 100 bits (250), Expect = 8e-22, Method: Compositional matrix adjust.
Identities = 70/248 (28%), Positives = 112/248 (45%), Gaps = 57/248 (22%)
Query: 62 QFDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILN 121
+F D +++ + A+Y T +QK I + + G+DV+ A+TGSGKT AFLVP+L
Sbjct: 26 RFSDFPLSKKTLKGLQEAQYRLVTEIQKQTIGLALQGKDVLGAAKTGSGKTLAFLVPVLE 85
Query: 122 QMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVRK 181
+Y T G
Sbjct: 86 ALYRLQWTSTDGLGV--------------------------------------------- 100
Query: 182 KVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVYGGSNVGDQMRDLDRGCHLLVAT 241
L+++PTRELA Q ++ +K ++ GG ++ + ++ ++LV T
Sbjct: 101 ------LIISPTRELAYQTFEVLRKVGKNHDFSAGLIIGGKDLKHEAERIN-NINILVCT 153
Query: 242 PGRLV-DMLERGKIGLANCRFLVLDEADRMLDMGFEPQIRCIVQENGMPRTGDRQTLMFS 300
PGRL+ M E + + LVLDEADR+LDMGF + +++ +P+ RQTL+FS
Sbjct: 154 PGRLLQHMDETVSFHATDLQMLVLDEADRILDMGFADTMNAVIE--NLPK--KRQTLLFS 209
Query: 301 ATFPKEIQ 308
AT K ++
Sbjct: 210 ATQTKSVK 217
>pdb|3EIQ|A Chain A, Crystal Structure Of Pdcd4-eif4a
pdb|3EIQ|D Chain D, Crystal Structure Of Pdcd4-eif4a
Length = 414
Score = 100 bits (249), Expect = 1e-21, Method: Compositional matrix adjust.
Identities = 79/246 (32%), Positives = 113/246 (45%), Gaps = 60/246 (24%)
Query: 63 FDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQ 122
FDD+ ++E + I ++KP+ +Q+ AI I G DV+A AQ+G+GKTA F + IL Q
Sbjct: 42 FDDMNLSESLLRGIYAYGFEKPSAIQQRAILPCIKGYDVIAQAQSGTGKTATFAISILQQ 101
Query: 123 MYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVRKK 182
+ L A LVLAPTRELA QI +K
Sbjct: 102 I--ELDLKATQA--------------LVLAPTRELAQQI------------------QKV 127
Query: 183 VFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVYGGSNVGDQMRDLDRGC-HLLVAT 241
V LG + + C+ GG+NV +++ L H++V T
Sbjct: 128 VMALGDYMGAS-------------------CHACI--GGTNVRAEVQKLQMEAPHIIVGT 166
Query: 242 PGRLVDMLERGKIGLANCRFLVLDEADRMLDMGFEPQIRCIVQENGMPRTGDRQTLMFSA 301
PGR+ DML R + + VLDEAD ML GF+ QI I Q+ + Q ++ SA
Sbjct: 167 PGRVFDMLNRRYLSPKYIKMFVLDEADEMLSRGFKDQIYDIFQK----LNSNTQVVLLSA 222
Query: 302 TFPKEI 307
T P ++
Sbjct: 223 TMPSDV 228
>pdb|3LY5|A Chain A, Ddx18 Dead-Domain
pdb|3LY5|B Chain B, Ddx18 Dead-Domain
Length = 262
Score = 96.7 bits (239), Expect = 1e-20, Method: Compositional matrix adjust.
Identities = 69/229 (30%), Positives = 114/229 (49%), Gaps = 56/229 (24%)
Query: 81 YDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPS 140
+ T +Q +I ++ GRD++A A+TGSGKT AFL+P + + + +P G
Sbjct: 74 FTNMTEIQHKSIRPLLEGRDLLAAAKTGSGKTLAFLIPAVELIVKLRFMPRNGTGV---- 129
Query: 141 RKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVRKKVFPLGLVLAPTRELATQI 200
L+L+PTRELA Q + K+ ++ V GL++
Sbjct: 130 --------LILSPTRELAMQTFGVLKE----------LMTHHVHTYGLIM---------- 161
Query: 201 YDEAKKFAYRSQLRPCVVYGGSNVGDQMRDLDRGCHLLVATPGRLVDMLERG-KIGLANC 259
GGSN + + L G +++VATPGRL+D ++ N
Sbjct: 162 -------------------GGSNRSAEAQKLGNGINIIVATPGRLLDHMQNTPGFMYKNL 202
Query: 260 RFLVLDEADRMLDMGFEPQIRCIVQENGMPRTGDRQTLMFSATFPKEIQ 308
+ LV+DEADR+LD+GFE +++ I++ +P RQT++FSAT ++++
Sbjct: 203 QCLVIDEADRILDVGFEEELKQIIKL--LPTR--RQTMLFSATQTRKVE 247
>pdb|3DKP|A Chain A, Human Dead-Box Rna-Helicase Ddx52, Conserved Domain I In
Complex With Adp
Length = 245
Score = 95.9 bits (237), Expect = 2e-20, Method: Compositional matrix adjust.
Identities = 83/278 (29%), Positives = 130/278 (46%), Gaps = 69/278 (24%)
Query: 41 LRNQPSGGRNSTDTFLLPLP----PQFD-DIQMTEIITNNIALARYDKPTPVQKYAIPVI 95
LRN+ TD LP P Q D + ++ + NI A + PTP+Q AIPV+
Sbjct: 7 LRNKHKIHVQGTD---LPDPIATFQQLDQEYKINSRLLQNILDAGFQMPTPIQMQAIPVM 63
Query: 96 ISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTR 155
+ GR+++A A TGSGKT AF +PIL Q+ + PA +G+ + L+++PTR
Sbjct: 64 LHGRELLASAPTGSGKTLAFSIPILMQLKQ-------PANKGFRA--------LIISPTR 108
Query: 156 ELATQIYDEAKKFAYRSQLRPCVVRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRP 215
ELA+QI+ E K + + R ++ K AKKF +S
Sbjct: 109 ELASQIHRELIKISEGTGFRIHMIHKAAVA------------------AKKFGPKS---- 146
Query: 216 CVVYGGSNVGDQMRDLDRGCHLLVATPGRLVDMLERG--KIGLANCRFLVLDEADRMLD- 272
+ +LV TP RL+ +L++ I LA+ +LV+DE+D++ +
Sbjct: 147 ----------------SKKFDILVTTPNRLIYLLKQDPPGIDLASVEWLVVDESDKLFED 190
Query: 273 --MGFEPQIRCIVQENGMPRTGDRQTLMFSATFPKEIQ 308
GF Q+ I + + MFSATF +++
Sbjct: 191 GKTGFRDQLASIFLACTSHKV---RRAMFSATFAYDVE 225
>pdb|2Z0M|A Chain A, Crystal Structure Of Hypothetical Atp-Dependent Rna
Helicase From Sulfolobus Tokodaii
Length = 337
Score = 91.7 bits (226), Expect = 5e-19, Method: Compositional matrix adjust.
Identities = 74/242 (30%), Positives = 111/242 (45%), Gaps = 68/242 (28%)
Query: 68 MTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERG 127
M E I I + T VQ IP+++ G++V+ A+TGSGKTAA+ +PIL
Sbjct: 1 MNEKIEQAIREMGFKNFTEVQSKTIPLMLQGKNVVVRAKTGSGKTAAYAIPILEL----- 55
Query: 128 PLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVRKKVFPLG 187
G S LV+ PTREL
Sbjct: 56 ---------GMKS--------LVVTPTREL------------------------------ 68
Query: 188 LVLAPTRELATQIYDEAKKFAYRSQLRPCVVYGGSNVGDQMRDLDRGCHLLVATPGRLVD 247
TR++A+ I D + + VYGG Q+ + R ++VATPGRL+D
Sbjct: 69 -----TRQVASHIRDIGRYM----DTKVAEVYGGMPYKAQINRV-RNADIVVATPGRLLD 118
Query: 248 MLERGKIGLANCRFLVLDEADRMLDMGFEPQIRCIVQENGMPRTGDRQ-TLMFSATFPKE 306
+ +G I L++ +++DEAD M +MGF I+ I + +T +R+ T +FSAT P+E
Sbjct: 119 LWSKGVIDLSSFEIVIIDEADLMFEMGFIDDIKII-----LAQTSNRKITGLFSATIPEE 173
Query: 307 IQ 308
I+
Sbjct: 174 IR 175
>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 = 90.9 bits (224), Expect = 9e-19, Method: Compositional matrix adjust.
Identities = 76/246 (30%), Positives = 107/246 (43%), Gaps = 60/246 (24%)
Query: 63 FDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQ 122
FDD+ ++E + I ++ P+ +Q+ AI I G DV+A AQ+G+G TA F + IL Q
Sbjct: 17 FDDMNLSESLLRGIYAYGFEXPSAIQQRAILPCIXGYDVIAQAQSGTGXTATFAISILQQ 76
Query: 123 MYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVRKK 182
+ E T LVLAPTRELA QI +
Sbjct: 77 I-ELDLXATQ---------------ALVLAPTRELAQQI------------------QXV 102
Query: 183 VFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVYGGSNVGDQMRDLDRGC-HLLVAT 241
V LG + + C+ GG+NV +++ L H++V T
Sbjct: 103 VMALGDYMGAS-------------------CHACI--GGTNVRAEVQXLQMEAPHIIVGT 141
Query: 242 PGRLVDMLERGKIGLANCRFLVLDEADRMLDMGFEPQIRCIVQENGMPRTGDRQTLMFSA 301
PGR+ DML R + VLDEAD ML GF QI I Q + Q ++ SA
Sbjct: 142 PGRVFDMLNRRYLSPXYIXMFVLDEADEMLSRGFXDQIYDIFQ----XLNSNTQVVLLSA 197
Query: 302 TFPKEI 307
T P ++
Sbjct: 198 TMPSDV 203
>pdb|2J0U|A Chain A, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 90.1 bits (222), Expect = 1e-18, Method: Compositional matrix adjust.
Identities = 74/247 (29%), Positives = 107/247 (43%), Gaps = 59/247 (23%)
Query: 61 PQFDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPIL 120
P FD + + E + I ++KP+ +Q+ AI II GRDV+A +Q
Sbjct: 1 PTFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQ-------------- 46
Query: 121 NQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVR 180
+G G + V L + RE TQ
Sbjct: 47 -------------SGTGKTATFSVSVLQCLDIQVRE--TQ-------------------- 71
Query: 181 KKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVYGGSNVGDQMRDLDRGCHLLVA 240
L+LAPTRELA Q+ ++ GG+NVG+ +R LD G H++
Sbjct: 72 ------ALILAPTRELAVQVQKGLLALGDYMNVQCHACIGGTNVGEDIRKLDYGQHVVAG 125
Query: 241 TPGRLVDMLERGKIGLANCRFLVLDEADRMLDMGFEPQIRCIVQENGMPRTGDRQTLMFS 300
TPGR+ DM+ R + + LVLDEAD ML+ GF+ QI + + +P Q ++ S
Sbjct: 126 TPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRY--LPPAT--QVVLIS 181
Query: 301 ATFPKEI 307
AT P EI
Sbjct: 182 ATLPHEI 188
>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 = 87.8 bits (216), Expect = 6e-18, Method: Compositional matrix adjust.
Identities = 71/261 (27%), Positives = 114/261 (43%), Gaps = 60/261 (22%)
Query: 46 SGGRNSTDTFLLPLPPQFDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACA 105
S R T LL P F+ + ++ + + A +++P+PVQ AIP+ G D++ A
Sbjct: 9 SSPRTRTGDVLLAEPADFESLLLSRPVLEGLRAAGFERPSPVQLKAIPLGRCGLDLIVQA 68
Query: 106 QTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEA 165
++G+GKT F L+ LVL L+TQI
Sbjct: 69 KSGTGKTCVFSTIALD--------------------------SLVL---ENLSTQI---- 95
Query: 166 KKFAYRSQLRPCVVRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVYGGSNVG 225
L+LAPTRE+A QI+ + + C V+ G
Sbjct: 96 ----------------------LILAPTREIAVQIHSVITAIGIKMEGLECHVFIGGTPL 133
Query: 226 DQMRDLDRGCHLLVATPGRLVDMLERGKIGLANCRFLVLDEADRMLDMG-FEPQIRCIVQ 284
Q + + CH+ V +PGR+ ++E + + R +LDEAD++L+ G F+ QI I
Sbjct: 134 SQDKTRLKKCHIAVGSPGRIKQLIELDYLNPGSIRLFILDEADKLLEEGSFQEQINWIY- 192
Query: 285 ENGMPRTGDRQTLMFSATFPK 305
+ +P +Q L SAT+P+
Sbjct: 193 -SSLP--ASKQMLAVSATYPE 210
>pdb|2J0U|B Chain B, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 87.8 bits (216), Expect = 6e-18, Method: Compositional matrix adjust.
Identities = 74/247 (29%), Positives = 107/247 (43%), Gaps = 59/247 (23%)
Query: 61 PQFDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPIL 120
P FD + + E + I ++KP+ +Q+ AI II GRDV+ AQ+ S
Sbjct: 1 PTFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVI--AQSQS----------- 47
Query: 121 NQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVR 180
G G + V L + RE TQ
Sbjct: 48 --------------GTGKTATFSVSVLQCLDIQVRE--TQ-------------------- 71
Query: 181 KKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVYGGSNVGDQMRDLDRGCHLLVA 240
L+LAPTRELA Q+ ++ GG+NVG+ +R LD G H++
Sbjct: 72 ------ALILAPTRELAVQVQKGLLALGDYMNVQSHACIGGTNVGEDIRKLDYGQHVVAG 125
Query: 241 TPGRLVDMLERGKIGLANCRFLVLDEADRMLDMGFEPQIRCIVQENGMPRTGDRQTLMFS 300
TPGR+ DM+ R + + LVLDEAD ML+ GF+ QI + + +P Q ++ S
Sbjct: 126 TPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRY--LPPAT--QVVLIS 181
Query: 301 ATFPKEI 307
AT P E+
Sbjct: 182 ATLPHEV 188
>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 = 85.5 bits (210), Expect = 4e-17, Method: Compositional matrix adjust.
Identities = 70/246 (28%), Positives = 110/246 (44%), Gaps = 60/246 (24%)
Query: 62 QFDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILN 121
+FDD+++ E + + +++P+ +Q+ AI II G DV+A AQ+G+GKT F + L
Sbjct: 23 KFDDMELDENLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAALQ 82
Query: 122 QMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVRK 181
+ + T P L+LAPTRELA QI +K
Sbjct: 83 R------IDTSVKA----------PQALMLAPTRELALQI------------------QK 108
Query: 182 KVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVYGGSNVGDQMRDLDRGCHLLVAT 241
V L F ++ C+ GG++ + L R ++V T
Sbjct: 109 VVMALA-------------------FHMDIKVHACI--GGTSFVEDAEGL-RDAQIVVGT 146
Query: 242 PGRLVDMLERGKIGLANCRFLVLDEADRMLDMGFEPQIRCIVQENGMPRTGDRQTLMFSA 301
PGR+ D ++R + + +LDEAD ML GF+ QI I +P T Q ++ SA
Sbjct: 147 PGRVFDNIQRRRFRTDKIKMFILDEADEMLSSGFKEQIYQIF--TLLPPTT--QVVLLSA 202
Query: 302 TFPKEI 307
T P ++
Sbjct: 203 TMPNDV 208
>pdb|1QVA|A Chain A, Yeast Initiation Factor 4a N-Terminal Domain
Length = 223
Score = 85.5 bits (210), Expect = 4e-17, Method: Compositional matrix adjust.
Identities = 69/246 (28%), Positives = 108/246 (43%), Gaps = 60/246 (24%)
Query: 62 QFDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILN 121
+FDD+++ E + + +++P+ +Q+ AI II G DV+A AQ+G+GKT F + L
Sbjct: 22 KFDDMELDEQLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAALQ 81
Query: 122 QMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVRK 181
R S K P L+LAPTRELA QI A+ ++
Sbjct: 82 --------------RIDTSVKA--PQALMLAPTRELALQIQKVVMALAFHMDIK------ 119
Query: 182 KVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVYGGSNVGDQMRDLDRGCHLLVAT 241
+ C+ GG++ + L R ++V T
Sbjct: 120 -------------------------------VHACI--GGTSFVEDAEGL-RDAQIVVGT 145
Query: 242 PGRLVDMLERGKIGLANCRFLVLDEADRMLDMGFEPQIRCIVQENGMPRTGDRQTLMFSA 301
PGR+ D ++R + + +LDEAD ML GF+ QI I +P T Q ++ SA
Sbjct: 146 PGRVFDNIQRRRFRTDKIKMFILDEADEMLSSGFKEQIYQIF--TLLPPT--TQVVLLSA 201
Query: 302 TFPKEI 307
T P ++
Sbjct: 202 TMPNDV 207
>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 = 85.1 bits (209), Expect = 4e-17, Method: Compositional matrix adjust.
Identities = 69/246 (28%), Positives = 108/246 (43%), Gaps = 60/246 (24%)
Query: 62 QFDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILN 121
+FDD+++ E + + +++P+ +Q+ AI II G DV+A AQ+G+GKT F + L
Sbjct: 15 KFDDMELDENLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAALQ 74
Query: 122 QMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVRK 181
R S K P L+LAPTRELA QI A+ ++
Sbjct: 75 --------------RIDTSVKA--PQALMLAPTRELALQIQKVVMALAFHMDIK------ 112
Query: 182 KVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVYGGSNVGDQMRDLDRGCHLLVAT 241
+ C+ GG++ + L R ++V T
Sbjct: 113 -------------------------------VHACI--GGTSFVEDAEGL-RDAQIVVGT 138
Query: 242 PGRLVDMLERGKIGLANCRFLVLDEADRMLDMGFEPQIRCIVQENGMPRTGDRQTLMFSA 301
PGR+ D ++R + + +LDEAD ML GF+ QI I +P T Q ++ SA
Sbjct: 139 PGRVFDNIQRRRFRTDKIKMFILDEADEMLSSGFKEQIYQIF--TLLPPT--TQVVLLSA 194
Query: 302 TFPKEI 307
T P ++
Sbjct: 195 TMPNDV 200
>pdb|1XTK|A Chain A, Structure Of Decd To Dead Mutation Of Human Uap56
Length = 390
Score = 84.7 bits (208), Expect = 5e-17, Method: Compositional matrix adjust.
Identities = 64/229 (27%), Positives = 101/229 (44%), Gaps = 58/229 (25%)
Query: 81 YDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPS 140
++ P+ VQ IP I G DV+ A++G GKTA F++ L Q+ P G+
Sbjct: 27 FEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQL-------EPVTGQVSV- 78
Query: 141 RKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVRKKVFPLGLVLAPTRELATQI 200
LV+ TRELA QI E ++F+
Sbjct: 79 --------LVMCHTRELAFQISKEYERFS------------------------------- 99
Query: 201 YDEAKKFAYRSQLRPCVVYGGSNVGDQMRDLDRGC-HLLVATPGRLVDMLERGKIGLANC 259
Y ++ V +GG ++ L + C H++V TPGR++ + + L +
Sbjct: 100 -------KYMPNVKVAVFFGGLSIKKDEEVLKKNCPHIVVGTPGRILALARNKSLNLKHI 152
Query: 260 RFLVLDEADRMLDMGFEPQIRCIVQENGMPRTGDRQTLMFSATFPKEIQ 308
+ +LDEAD+ML+ + +R VQE ++Q +MFSAT KEI+
Sbjct: 153 KHFILDEADKMLE---QLDMRRDVQEIFRMTPHEKQVMMFSATLSKEIR 198
>pdb|1XTI|A Chain A, Structure Of Wildtype Human Uap56
Length = 391
Score = 83.2 bits (204), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 63/229 (27%), Positives = 100/229 (43%), Gaps = 58/229 (25%)
Query: 81 YDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPS 140
++ P+ VQ IP I G DV+ A++G GKTA F++ L Q+ P G+
Sbjct: 28 FEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQL-------EPVTGQVSV- 79
Query: 141 RKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVRKKVFPLGLVLAPTRELATQI 200
LV+ TRELA QI E ++F+
Sbjct: 80 --------LVMCHTRELAFQISKEYERFS------------------------------- 100
Query: 201 YDEAKKFAYRSQLRPCVVYGGSNVGDQMRDLDRGC-HLLVATPGRLVDMLERGKIGLANC 259
Y ++ V +GG ++ L + C H++V TPGR++ + + L +
Sbjct: 101 -------KYMPNVKVAVFFGGLSIKKDEEVLKKNCPHIVVGTPGRILALARNKSLNLKHI 153
Query: 260 RFLVLDEADRMLDMGFEPQIRCIVQENGMPRTGDRQTLMFSATFPKEIQ 308
+ +LDE D+ML+ + +R VQE ++Q +MFSAT KEI+
Sbjct: 154 KHFILDECDKMLE---QLDMRRDVQEIFRMTPHEKQVMMFSATLSKEIR 199
>pdb|1XTJ|A Chain A, Structure Of Human Uap56 In Complex With Adp
Length = 386
Score = 83.2 bits (204), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 63/229 (27%), Positives = 100/229 (43%), Gaps = 58/229 (25%)
Query: 81 YDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPS 140
++ P+ VQ IP I G DV+ A++G GKTA F++ L Q+ P G+
Sbjct: 28 FEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQL-------EPVTGQVSV- 79
Query: 141 RKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVRKKVFPLGLVLAPTRELATQI 200
LV+ TRELA QI E ++F+
Sbjct: 80 --------LVMCHTRELAFQISKEYERFS------------------------------- 100
Query: 201 YDEAKKFAYRSQLRPCVVYGGSNVGDQMRDLDRGC-HLLVATPGRLVDMLERGKIGLANC 259
Y ++ V +GG ++ L + C H++V TPGR++ + + L +
Sbjct: 101 -------KYMPNVKVAVFFGGLSIKKDEEVLKKNCPHIVVGTPGRILALARNKSLNLKHI 153
Query: 260 RFLVLDEADRMLDMGFEPQIRCIVQENGMPRTGDRQTLMFSATFPKEIQ 308
+ +LDE D+ML+ + +R VQE ++Q +MFSAT KEI+
Sbjct: 154 KHFILDECDKMLE---QLDMRRDVQEIFRMTPHEKQVMMFSATLSKEIR 199
>pdb|1FUU|A Chain A, Yeast Initiation Factor 4a
pdb|1FUU|B Chain B, Yeast Initiation Factor 4a
Length = 394
Score = 81.3 bits (199), Expect = 6e-16, Method: Compositional matrix adjust.
Identities = 66/246 (26%), Positives = 106/246 (43%), Gaps = 60/246 (24%)
Query: 62 QFDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILN 121
+FDD ++ E + + +++P+ +Q+ AI II G DV+A AQ+G+GKT F + L
Sbjct: 22 KFDDXELDENLLRGVFGYGFEEPSAIQQRAIXPIIEGHDVLAQAQSGTGKTGTFSIAALQ 81
Query: 122 QMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVRK 181
++ + P A L LAPTRELA QI A+ ++
Sbjct: 82 RI--DTSVKAPQA--------------LXLAPTRELALQIQKVVXALAFHXDIK------ 119
Query: 182 KVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVYGGSNVGDQMRDLDRGCHLLVAT 241
+ C+ GG++ + L R ++V T
Sbjct: 120 -------------------------------VHACI--GGTSFVEDAEGL-RDAQIVVGT 145
Query: 242 PGRLVDMLERGKIGLANCRFLVLDEADRMLDMGFEPQIRCIVQENGMPRTGDRQTLMFSA 301
PGR+ D ++R + + +LDEAD L GF+ QI I +P T Q ++ SA
Sbjct: 146 PGRVFDNIQRRRFRTDKIKXFILDEADEXLSSGFKEQIYQIF--TLLPPTT--QVVLLSA 201
Query: 302 TFPKEI 307
T P ++
Sbjct: 202 TXPNDV 207
>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 = 81.3 bits (199), Expect = 6e-16, Method: Compositional matrix adjust.
Identities = 67/248 (27%), Positives = 105/248 (42%), Gaps = 60/248 (24%)
Query: 63 FDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQ 122
F D + + I ++ P+ VQ IP I G DV+ A++G GKTA F++
Sbjct: 16 FRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVL----- 70
Query: 123 MYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVRKK 182
A QL P +
Sbjct: 71 ----------------------------------------------ATLQQLEPVTGQVS 84
Query: 183 VFPLGLVLAPTRELATQIYDEAKKFA-YRSQLRPCVVYGGSNVGDQMRDLDRGC-HLLVA 240
V LV+ TRELA QI E ++F+ Y ++ V +GG ++ L + C H++V
Sbjct: 85 V----LVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEVLKKNCPHIVVG 140
Query: 241 TPGRLVDMLERGKIGLANCRFLVLDEADRMLDMGFEPQIRCIVQENGMPRTGDRQTLMFS 300
TPGR++ + + L + + +LDE D+ML+ + +R VQE ++Q +MFS
Sbjct: 141 TPGRILALARNKSLNLKHIKHFILDECDKMLE---QLDMRRDVQEIFRMTPHEKQVMMFS 197
Query: 301 ATFPKEIQ 308
AT KEI+
Sbjct: 198 ATLSKEIR 205
>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 = 81.3 bits (199), Expect = 7e-16, Method: Compositional matrix adjust.
Identities = 68/252 (26%), Positives = 103/252 (40%), Gaps = 65/252 (25%)
Query: 62 QFDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILN 121
QF I I R+ KPT +Q+ IP + G + +QTG+GKT A+L+
Sbjct: 5 QFTRFPFQPFIIEAIKTLRFYKPTEIQERIIPGALRGESXVGQSQTGTGKTHAYLL---- 60
Query: 122 QMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVRK 181
P + P R +V
Sbjct: 61 ----------PIXEKIKPERAEV------------------------------------- 73
Query: 182 KVFPLGLVLAPTRELATQIYDEAKKFAY-----RSQLRPCVVYGGSNVGDQMRDLDRGCH 236
++ APTRELATQIY E K R + C++ GG++ + L+ H
Sbjct: 74 ----QAVITAPTRELATQIYHETLKITKFCPKDRXIVARCLI-GGTDKQKALEKLNVQPH 128
Query: 237 LLVATPGRLVDMLERGKIGLANCRFLVLDEADRMLDMGFEPQIRCIVQENGMPRTGDRQT 296
+++ TPGR+ D + + + LV+DEAD LD GF + I P+ D Q
Sbjct: 129 IVIGTPGRINDFIREQALDVHTAHILVVDEADLXLDXGFITDVDQIAAR--XPK--DLQX 184
Query: 297 LMFSATFPKEIQ 308
L+FSAT P++++
Sbjct: 185 LVFSATIPEKLK 196
>pdb|3SQW|A Chain A, Structure Of Mss116p (Nte Deletion) Bound To Ssrna And
Amp-Pnp
Length = 579
Score = 78.2 bits (191), Expect = 5e-15, Method: Compositional matrix adjust.
Identities = 76/247 (30%), Positives = 114/247 (46%), Gaps = 68/247 (27%)
Query: 77 ALARYDKP--TPVQKYAIPVIISG--RDVMACAQTGSGKTAAFLVPILNQMYERGPLPTP 132
A+ R + P TPVQ+ I I+S DV+A A+TG+GKT AFL+
Sbjct: 35 AITRMEFPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLI--------------- 79
Query: 133 PAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVRKKVFPLGLVLAP 192
P+ L T KF + ++ +V AP
Sbjct: 80 -------------PIFQHLINT------------KFDSQYMVKAVIV-----------AP 103
Query: 193 TRELATQIYDEAKKFA---YRSQLRPCV-VYGGSNVGDQMRDLDR-GCHLLVATPGRLVD 247
TR+LA QI E KK Y + CV + GG++ M +++ ++++ATPGRL+D
Sbjct: 104 TRDLALQIEAEVKKIHDMNYGLKKYACVSLVGGTDFRAAMNKMNKLRPNIVIATPGRLID 163
Query: 248 MLERGKIGLANCRFL---VLDEADRMLDMGFEPQIRC---IVQENGMPRTGDRQTLMFSA 301
+LE K RF+ VLDEADR+L++GF + I+ E + +TL+FSA
Sbjct: 164 VLE--KYSNKFFRFVDYKVLDEADRLLEIGFRDDLETISGILNEKNSKSADNIKTLLFSA 221
Query: 302 TFPKEIQ 308
T ++Q
Sbjct: 222 TLDDKVQ 228
>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 = 75.9 bits (185), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 71/249 (28%), Positives = 105/249 (42%), Gaps = 66/249 (26%)
Query: 63 FDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQ 122
FDD+ ++E + I ++KP+ +Q+ AI I G DV+A AQ
Sbjct: 16 FDDMNLSESLLRGIYAYGFEKPSAIQQRAILPCIKGYDVIAQAQ---------------- 59
Query: 123 MYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTREL-ATQIYDEAKKFAYRSQLRPCVVRK 181
+G G + F + ++ +L ATQ
Sbjct: 60 -----------SGTG---KTATFAISILQQIELDLKATQ--------------------- 84
Query: 182 KVFPLGLVLAPTRELATQIYDEAKKFA--YRSQLRPCVVYGGSNVGDQMRDLDRGC-HLL 238
LVLAPTRELA QI + C+ GG+NV +++ L H++
Sbjct: 85 -----ALVLAPTRELAQQIQKVVMALGDYMGASCHACI--GGTNVRAEVQKLQMEAPHII 137
Query: 239 VATPGRLVDMLERGKIGLANCRFLVLDEADRMLDMGFEPQIRCIVQENGMPRTGDRQTLM 298
V TPGR+ DML R + + VLDEAD ML GF+ QI I Q+ + Q ++
Sbjct: 138 VGTPGRVFDMLNRRYLSPKYIKMFVLDEADEMLSRGFKDQIYDIFQK----LNSNTQVVL 193
Query: 299 FSATFPKEI 307
SAT P ++
Sbjct: 194 LSATMPSDV 202
>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 = 75.1 bits (183), Expect = 4e-14, Method: Compositional matrix adjust.
Identities = 75/247 (30%), Positives = 113/247 (45%), Gaps = 68/247 (27%)
Query: 77 ALARYDKP--TPVQKYAIPVIISG--RDVMACAQTGSGKTAAFLVPILNQMYERGPLPTP 132
A+ R + P TPVQ+ I I+S DV+A A+TG+GKT AF
Sbjct: 86 AITRMEFPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFAF----------------- 128
Query: 133 PAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVRKKVFPLGLVLAP 192
+ P+ L T KF + ++ +V AP
Sbjct: 129 -----------LIPIFQHLINT------------KFDSQYMVKAVIV-----------AP 154
Query: 193 TRELATQIYDEAKKFA---YRSQLRPCV-VYGGSNVGDQMRDLDR-GCHLLVATPGRLVD 247
TR+LA QI E KK Y + CV + GG++ M +++ ++++ATPGRL+D
Sbjct: 155 TRDLALQIEAEVKKIHDMNYGLKKYACVSLVGGTDFRAAMNKMNKLRPNIVIATPGRLID 214
Query: 248 MLERGKIGLANCRFL---VLDEADRMLDMGFEPQIRC---IVQENGMPRTGDRQTLMFSA 301
+LE K RF+ VLDEADR+L++GF + I+ E + +TL+FSA
Sbjct: 215 VLE--KYSNKFFRFVDYKVLDEADRLLEIGFRDDLETISGILNEKNSKSADNIKTLLFSA 272
Query: 302 TFPKEIQ 308
T ++Q
Sbjct: 273 TLDDKVQ 279
>pdb|3SQX|A Chain A, Structure Of Mss116p (Nte And C-Tail Double Deletion)
Bound To Ssrna And Amp-Pnp
Length = 512
Score = 75.1 bits (183), Expect = 5e-14, Method: Compositional matrix adjust.
Identities = 75/247 (30%), Positives = 113/247 (45%), Gaps = 68/247 (27%)
Query: 77 ALARYDKP--TPVQKYAIPVIISG--RDVMACAQTGSGKTAAFLVPILNQMYERGPLPTP 132
A+ R + P TPVQ+ I I+S DV+A A+TG+GKT AF
Sbjct: 35 AITRMEFPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFAF----------------- 77
Query: 133 PAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVRKKVFPLGLVLAP 192
+ P+ L T KF + ++ +V AP
Sbjct: 78 -----------LIPIFQHLINT------------KFDSQYMVKAVIV-----------AP 103
Query: 193 TRELATQIYDEAKKFA---YRSQLRPCV-VYGGSNVGDQMRDLDR-GCHLLVATPGRLVD 247
TR+LA QI E KK Y + CV + GG++ M +++ ++++ATPGRL+D
Sbjct: 104 TRDLALQIEAEVKKIHDMNYGLKKYACVSLVGGTDFRAAMNKMNKLRPNIVIATPGRLID 163
Query: 248 MLERGKIGLANCRFL---VLDEADRMLDMGFEPQIRC---IVQENGMPRTGDRQTLMFSA 301
+LE K RF+ VLDEADR+L++GF + I+ E + +TL+FSA
Sbjct: 164 VLE--KYSNKFFRFVDYKVLDEADRLLEIGFRDDLETISGILNEKNSKSADNIKTLLFSA 221
Query: 302 TFPKEIQ 308
T ++Q
Sbjct: 222 TLDDKVQ 228
>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 = 68.9 bits (167), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 60/253 (23%), Positives = 112/253 (44%), Gaps = 66/253 (26%)
Query: 59 LPPQFDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISG--RDVMACAQTGSGKTAAFL 116
+ FD++ + + I ++ KP+ +Q+ A+P+++ R+++A +Q+G+GKTAAF
Sbjct: 3 MAKSFDELGLAPELLKGIYAMKFQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAAFS 62
Query: 117 VPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRP 176
+ +L ++ + + P + LAP+RELA Q + ++ +++
Sbjct: 63 LTMLTRV----------------NPEDASPQAICLAPSRELARQTLEVVQEMGKFTKITS 106
Query: 177 CVVRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVYGGSNVGDQMRDLDRGCH 236
L++ + E QI
Sbjct: 107 ----------QLIVPDSFEKNKQI---------------------------------NAQ 123
Query: 237 LLVATPGRLVDMLERGKIGLANCRFLVLDEADRMLD-MGFEPQIRCIVQENGMPRTGDRQ 295
++V TPG ++D++ R + L + VLDEAD MLD G Q CI + +P+ D Q
Sbjct: 124 VIVGTPGTVLDLMRRKLMQLQKIKIFVLDEADNMLDQQGLGDQ--CIRVKRFLPK--DTQ 179
Query: 296 TLMFSATFPKEIQ 308
++FSATF ++
Sbjct: 180 LVLFSATFADAVR 192
>pdb|2KBE|A Chain A, Solution Structure Of Amino-Terminal Domain Of Dbp5p
Length = 226
Score = 68.9 bits (167), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 60/244 (24%), Positives = 109/244 (44%), Gaps = 66/244 (27%)
Query: 63 FDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISG--RDVMACAQTGSGKTAAFLVPIL 120
FD++ + + I ++ KP+ +Q+ A+P+++ R+++A +Q+G+GKTAAF + +L
Sbjct: 24 FDELGLAPELLKGIYAMKFQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAAFSLTML 83
Query: 121 NQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVR 180
++ + + P + LAP+RELA Q + ++ +++
Sbjct: 84 TRV----------------NPEDASPQAICLAPSRELARQTLEVVQEMGKFTKITS---- 123
Query: 181 KKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVYGGSNVGDQMRDLDRGCHLLVA 240
L++ + E QI ++V
Sbjct: 124 ------QLIVPDSFEKNKQI---------------------------------NAQVIVG 144
Query: 241 TPGRLVDMLERGKIGLANCRFLVLDEADRMLD-MGFEPQIRCIVQENGMPRTGDRQTLMF 299
TPG ++D++ R + L + VLDEAD MLD G Q CI + +P+ D Q ++F
Sbjct: 145 TPGTVLDLMRRKLMQLQKIKIFVLDEADNMLDQQGLGDQ--CIRVKRFLPK--DTQLVLF 200
Query: 300 SATF 303
SATF
Sbjct: 201 SATF 204
>pdb|3PEY|A Chain A, S. Cerevisiae Dbp5 Bound To Rna And Adp Bef3
Length = 395
Score = 68.9 bits (167), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 60/253 (23%), Positives = 112/253 (44%), Gaps = 66/253 (26%)
Query: 59 LPPQFDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISG--RDVMACAQTGSGKTAAFL 116
+ FD++ + + I ++ KP+ +Q+ A+P+++ R+++A +Q+G+GKTAAF
Sbjct: 3 MAKSFDELGLAPELLKGIYAMKFQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAAFS 62
Query: 117 VPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRP 176
+ +L ++ + + P + LAP+RELA Q + ++ +++
Sbjct: 63 LTMLTRV----------------NPEDASPQAICLAPSRELARQTLEVVQEMGKFTKITS 106
Query: 177 CVVRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVYGGSNVGDQMRDLDRGCH 236
L++ + E QI
Sbjct: 107 ----------QLIVPDSFEKNKQI---------------------------------NAQ 123
Query: 237 LLVATPGRLVDMLERGKIGLANCRFLVLDEADRMLD-MGFEPQIRCIVQENGMPRTGDRQ 295
++V TPG ++D++ R + L + VLDEAD MLD G Q CI + +P+ D Q
Sbjct: 124 VIVGTPGTVLDLMRRKLMQLQKIKIFVLDEADNMLDQQGLGDQ--CIRVKRFLPK--DTQ 179
Query: 296 TLMFSATFPKEIQ 308
++FSATF ++
Sbjct: 180 LVLFSATFADAVR 192
>pdb|3FHO|A Chain A, Structure Of S. Pombe Dbp5
pdb|3FHO|B Chain B, Structure Of S. Pombe Dbp5
Length = 508
Score = 63.9 bits (154), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 55/225 (24%), Positives = 102/225 (45%), Gaps = 66/225 (29%)
Query: 87 VQKYAIPVIISG--RDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKV 144
+Q+ A+P+++S R+++ +Q+G+GKTAAF + +L+++ +P P A
Sbjct: 145 IQEKALPLLLSNPPRNMIGQSQSGTGKTAAFALTMLSRV--DASVPKPQA---------- 192
Query: 145 FPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVRKKVFPLGLVLAPTRELATQIYDEA 204
+ LAP+RELA QI D + ++++ K P G +
Sbjct: 193 ----ICLAPSRELARQIMDVVTEMGKYTEVKTAFGIKDSVPKGAKI-------------- 234
Query: 205 KKFAYRSQLRPCVVYGGSNVGDQMRDLDRGCHLLVATPGRLVDMLERGKIGLANCRFLVL 264
+++ TPG ++D+++R ++ + + VL
Sbjct: 235 -----------------------------DAQIVIGTPGTVMDLMKRRQLDARDIKVFVL 265
Query: 265 DEADRMLD-MGFEPQIRCIVQENGMPRTGDRQTLMFSATFPKEIQ 308
DEAD MLD G Q I ++ +PR + Q ++FSATF + ++
Sbjct: 266 DEADNMLDQQGLGDQSMRI--KHLLPR--NTQIVLFSATFSERVE 306
>pdb|3FMO|B Chain B, Crystal Structure Of The Nucleoporin Nup214 In Complex
With The Dead- Box Helicase Ddx19
Length = 300
Score = 55.8 bits (133), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 63/249 (25%), Positives = 115/249 (46%), Gaps = 65/249 (26%)
Query: 63 FDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISG--RDVMACAQTGSGKTAAFLVPIL 120
F+++++ + + +++P+ +Q+ A+P++++ ++++A +Q+G+GKTAAF++ +L
Sbjct: 94 FEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVLAML 153
Query: 121 NQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVR 180
+Q+ PA + +P L L+PT ELA Q
Sbjct: 154 SQV--------EPANK--------YPQCLCLSPTYELALQT------------------- 178
Query: 181 KKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVYGGSNVGDQMRDLDRGCHLLVA 240
G V+ E + Y E K AY +R + G + +Q +++
Sbjct: 179 ------GKVI----EQMGKFYPEL-KLAYA--VRGNKLERGQKISEQ---------IVIG 216
Query: 241 TPGRLVDMLERGK-IGLANCRFLVLDEADRML-DMGFEPQIRCIVQENGMPRTGDRQTLM 298
TPG ++D + K I + VLDEAD M+ G + Q I + +PR Q L+
Sbjct: 217 TPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQ--SIRIQRMLPRNC--QMLL 272
Query: 299 FSATFPKEI 307
FSATF +
Sbjct: 273 FSATFEDSV 281
>pdb|3FHC|B Chain B, Crystal Structure Of Human Dbp5 In Complex With Nup214
Length = 235
Score = 55.5 bits (132), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 63/249 (25%), Positives = 115/249 (46%), Gaps = 65/249 (26%)
Query: 63 FDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISG--RDVMACAQTGSGKTAAFLVPIL 120
F+++++ + + +++P+ +Q+ A+P++++ ++++A +Q+G+GKTAAF++ +L
Sbjct: 27 FEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVLAML 86
Query: 121 NQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVR 180
+Q+ PA + +P L L+PT ELA Q
Sbjct: 87 SQV--------EPANK--------YPQCLCLSPTYELALQT------------------- 111
Query: 181 KKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVYGGSNVGDQMRDLDRGCHLLVA 240
G V+ E + Y E K AY +R + G + +Q +++
Sbjct: 112 ------GKVI----EQMGKFYPEL-KLAYA--VRGNKLERGQKISEQ---------IVIG 149
Query: 241 TPGRLVDMLERGK-IGLANCRFLVLDEADRML-DMGFEPQIRCIVQENGMPRTGDRQTLM 298
TPG ++D + K I + VLDEAD M+ G + Q I + +PR Q L+
Sbjct: 150 TPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQ--SIRIQRMLPRNC--QMLL 205
Query: 299 FSATFPKEI 307
FSATF +
Sbjct: 206 FSATFEDSV 214
>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 = 55.5 bits (132), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 63/249 (25%), Positives = 115/249 (46%), Gaps = 65/249 (26%)
Query: 63 FDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISG--RDVMACAQTGSGKTAAFLVPIL 120
F+++++ + + +++P+ +Q+ A+P++++ ++++A +Q+G+GKTAAF++ +L
Sbjct: 94 FEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVLAML 153
Query: 121 NQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVR 180
+Q+ PA + +P L L+PT ELA Q
Sbjct: 154 SQV--------EPANK--------YPQCLCLSPTYELALQT------------------- 178
Query: 181 KKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVYGGSNVGDQMRDLDRGCHLLVA 240
G V+ E + Y E K AY +R + G + +Q +++
Sbjct: 179 ------GKVI----EQMGKFYPEL-KLAY--AVRGNKLERGQKISEQ---------IVIG 216
Query: 241 TPGRLVDMLERGK-IGLANCRFLVLDEADRML-DMGFEPQIRCIVQENGMPRTGDRQTLM 298
TPG ++D + K I + VLDEAD M+ G + Q I + +PR Q L+
Sbjct: 217 TPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQ--SIRIQRMLPRNC--QMLL 272
Query: 299 FSATFPKEI 307
FSATF +
Sbjct: 273 FSATFEDSV 281
>pdb|3G0H|A Chain A, Human Dead-box Rna Helicase Ddx19, In Complex With An
Atp-analogue And Rna
Length = 424
Score = 55.1 bits (131), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 63/249 (25%), Positives = 115/249 (46%), Gaps = 65/249 (26%)
Query: 63 FDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISG--RDVMACAQTGSGKTAAFLVPIL 120
F+++++ + + +++P+ +Q+ A+P++++ ++++A +Q+G+GKTAAF++ +L
Sbjct: 43 FEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVLAML 102
Query: 121 NQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVR 180
+Q+ PA + +P L L+PT ELA Q
Sbjct: 103 SQV--------EPANK--------YPQCLCLSPTYELALQT------------------- 127
Query: 181 KKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVYGGSNVGDQMRDLDRGCHLLVA 240
G V+ E + Y E K AY +R + G + +Q +++
Sbjct: 128 ------GKVI----EQMGKFYPEL-KLAY--AVRGNKLERGQKISEQ---------IVIG 165
Query: 241 TPGRLVDMLERGK-IGLANCRFLVLDEADRML-DMGFEPQIRCIVQENGMPRTGDRQTLM 298
TPG ++D + K I + VLDEAD M+ G + Q I + +PR Q L+
Sbjct: 166 TPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQ--SIRIQRMLPRNC--QMLL 221
Query: 299 FSATFPKEI 307
FSATF +
Sbjct: 222 FSATFEDSV 230
>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 = 55.1 bits (131), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 63/249 (25%), Positives = 115/249 (46%), Gaps = 65/249 (26%)
Query: 63 FDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISG--RDVMACAQTGSGKTAAFLVPIL 120
F+++++ + + +++P+ +Q+ A+P++++ ++++A +Q+G+GKTAAF++ +L
Sbjct: 27 FEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVLAML 86
Query: 121 NQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVR 180
+Q+ PA + +P L L+PT ELA Q
Sbjct: 87 SQV--------EPANK--------YPQCLCLSPTYELALQT------------------- 111
Query: 181 KKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVYGGSNVGDQMRDLDRGCHLLVA 240
G V+ E + Y E K AY +R + G + +Q +++
Sbjct: 112 ------GKVI----EQMGKFYPEL-KLAY--AVRGNKLERGQKISEQ---------IVIG 149
Query: 241 TPGRLVDMLERGK-IGLANCRFLVLDEADRML-DMGFEPQIRCIVQENGMPRTGDRQTLM 298
TPG ++D + K I + VLDEAD M+ G + Q I + +PR Q L+
Sbjct: 150 TPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQ--SIRIQRMLPRNC--QMLL 205
Query: 299 FSATFPKEI 307
FSATF +
Sbjct: 206 FSATFEDSV 214
>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 = 55.1 bits (131), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 63/249 (25%), Positives = 115/249 (46%), Gaps = 65/249 (26%)
Query: 63 FDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISG--RDVMACAQTGSGKTAAFLVPIL 120
F+++++ + + +++P+ +Q+ A+P++++ ++++A +Q+G+GKTAAF++ +L
Sbjct: 64 FEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVLAML 123
Query: 121 NQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVR 180
+Q+ PA + +P L L+PT ELA Q
Sbjct: 124 SQV--------EPANK--------YPQCLCLSPTYELALQT------------------- 148
Query: 181 KKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVYGGSNVGDQMRDLDRGCHLLVA 240
G V+ E + Y E K AY +R + G + +Q +++
Sbjct: 149 ------GKVI----EQMGKFYPEL-KLAY--AVRGNKLERGQKISEQ---------IVIG 186
Query: 241 TPGRLVDMLERGK-IGLANCRFLVLDEADRML-DMGFEPQIRCIVQENGMPRTGDRQTLM 298
TPG ++D + K I + VLDEAD M+ G + Q I + +PR Q L+
Sbjct: 187 TPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQ--SIRIQRMLPRNC--QMLL 242
Query: 299 FSATFPKEI 307
FSATF +
Sbjct: 243 FSATFEDSV 251
>pdb|1OYW|A Chain A, Structure Of The Recq Catalytic Core
Length = 523
Score = 32.3 bits (72), Expect = 0.35, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 22/40 (55%)
Query: 81 YDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPIL 120
Y + P Q+ I ++SGRD + TG GK+ + +P L
Sbjct: 23 YQQFRPGQEEIIDTVLSGRDCLVVXPTGGGKSLCYQIPAL 62
>pdb|1OYY|A Chain A, Structure Of The Recq Catalytic Core Bound To Atp-Gamma-S
Length = 523
Score = 32.0 bits (71), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 22/40 (55%)
Query: 81 YDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPIL 120
Y + P Q+ I ++SGRD + TG GK+ + +P L
Sbjct: 23 YQQFRPGQEEIIDTVLSGRDCLVVMPTGGGKSLCYQIPAL 62
>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 = 30.8 bits (68), Expect = 0.86, Method: Compositional matrix adjust.
Identities = 26/84 (30%), Positives = 38/84 (45%), Gaps = 5/84 (5%)
Query: 188 LVLAPTRELATQIYDEAKKFAYRSQLRP--CVVYGGSNVGDQMRDLDRGCHLLVATPGRL 245
L+LAPT+ L Q A+ F L P V G ++ ++VATP +
Sbjct: 56 LMLAPTKPLVLQ---HAESFRRLFNLPPEKIVALTGEKSPEERSKAWARAKVIVATPQTI 112
Query: 246 VDMLERGKIGLANCRFLVLDEADR 269
+ L G+I L + +V DEA R
Sbjct: 113 ENDLLAGRISLEDVSLIVFDEAHR 136
>pdb|2GZA|A Chain A, Crystal Structure Of The Virb11 Atpase From The Brucella
Suis Type Iv Secretion System In Complex With Sulphate
pdb|2GZA|B Chain B, Crystal Structure Of The Virb11 Atpase From The Brucella
Suis Type Iv Secretion System In Complex With Sulphate
pdb|2GZA|C Chain C, Crystal Structure Of The Virb11 Atpase From The Brucella
Suis Type Iv Secretion System In Complex With Sulphate
Length = 361
Score = 29.3 bits (64), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 14/43 (32%), Positives = 22/43 (51%)
Query: 51 STDTFLLPLPPQFDDIQMTEIITNNIALARYDKPTPVQKYAIP 93
S + L PL P DD Q+TE+ N ++ + + YA+P
Sbjct: 21 SVNFHLEPLRPWLDDPQITEVCVNRPGEVFCERASAWEYYAVP 63
>pdb|2GP9|B Chain B, Crystal Structure Of The Slow Form Of Thrombin In A Self-
Inhibited Conformation
pdb|3BEI|B Chain B, Crystal Structure Of The Slow Form Of Thrombin In A
Self_inhibited Conformation
pdb|3BEF|B Chain B, Crystal Structure Of Thrombin Bound To The Extracellular
Fragment Of Par1
pdb|3BEF|E Chain E, Crystal Structure Of Thrombin Bound To The Extracellular
Fragment Of Par1
pdb|3QDZ|B Chain B, Crystal Structure Of The Human Thrombin Mutant D102n In
Complex With The Extracellular Fragment Of Human Par4.
pdb|3QDZ|D Chain D, Crystal Structure Of The Human Thrombin Mutant D102n In
Complex With The Extracellular Fragment Of Human Par4
Length = 259
Score = 28.9 bits (63), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 25/92 (27%), Positives = 37/92 (40%), Gaps = 6/92 (6%)
Query: 70 EIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPL 129
E + NIAL + KP Y PV + R+ A K L + +
Sbjct: 94 ENLDRNIALMKLKKPVAFSDYIHPVCLPDRETAASLLQAGYKGRVTGWGNLKETW----- 148
Query: 130 PTPPAGRGYPSRKKVFPLGLVLAPTRELATQI 161
T G+G PS +V L +V P + +T+I
Sbjct: 149 -TANVGKGQPSVLQVVNLPIVERPVCKDSTRI 179
>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 = 28.5 bits (62), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 21/84 (25%), Positives = 39/84 (46%), Gaps = 9/84 (10%)
Query: 41 LRNQPSGGRNSTDTFLLPLPPQFDDI----QMTEIITNNIALARYDKPTPVQKYAIPVII 96
L + +G N D+ P +D ++ +I+ N L ++ P+Q I V +
Sbjct: 3 LEDSDAGASNEYDS--SPAAWNKEDFPWSGKVKDILQNVFKLEKF---RPLQLETINVTM 57
Query: 97 SGRDVMACAQTGSGKTAAFLVPIL 120
+G++V TG GK+ + +P L
Sbjct: 58 AGKEVFLVMPTGGGKSLCYQLPAL 81
>pdb|3B5Y|A Chain A, Crystal Structure Of Msba From Salmonella Typhimurium With
Amppnp
pdb|3B5Y|B Chain B, Crystal Structure Of Msba From Salmonella Typhimurium With
Amppnp
pdb|3B5Y|C Chain C, Crystal Structure Of Msba From Salmonella Typhimurium With
Amppnp
pdb|3B5Y|D Chain D, Crystal Structure Of Msba From Salmonella Typhimurium With
Amppnp
pdb|3B5Z|A Chain A, Crystal Structure Of Msba From Salmonella Typhimurium With
Adp Vanadate
pdb|3B5Z|B Chain B, Crystal Structure Of Msba From Salmonella Typhimurium With
Adp Vanadate
pdb|3B5Z|C Chain C, Crystal Structure Of Msba From Salmonella Typhimurium With
Adp Vanadate
pdb|3B5Z|D Chain D, Crystal Structure Of Msba From Salmonella Typhimurium With
Adp Vanadate
pdb|3B60|A Chain A, Crystal Structure Of Msba From Salmonella Typhimurium With
Amppnp, Higher Resolution Form
pdb|3B60|B Chain B, Crystal Structure Of Msba From Salmonella Typhimurium With
Amppnp, Higher Resolution Form
pdb|3B60|C Chain C, Crystal Structure Of Msba From Salmonella Typhimurium With
Amppnp, Higher Resolution Form
pdb|3B60|D Chain D, Crystal Structure Of Msba From Salmonella Typhimurium With
Amppnp, Higher Resolution Form
Length = 582
Score = 28.5 bits (62), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 27/106 (25%), Positives = 42/106 (39%), Gaps = 19/106 (17%)
Query: 191 APTRELATQIYDEAKKFAYRSQLRPCVVYGGSNVGDQMRDLDRGCHLLVATPGRLVDMLE 250
A T E + + +EA + AY D + +D G ++ G L+ +
Sbjct: 440 ARTEEYSREQIEEAARMAY--------------AMDFINKMDNGLDTIIGENGVLLSGGQ 485
Query: 251 RGKIGLANCRF-----LVLDEADRMLDMGFEPQIRCIVQENGMPRT 291
R +I +A L+LDEA LD E I+ + E RT
Sbjct: 486 RQRIAIARALLRDSPILILDEATSALDTESERAIQAALDELQKNRT 531
>pdb|3QF4|B Chain B, Crystal Structure Of A Heterodimeric Abc Transporter In
Its Inward- Facing Conformation
Length = 598
Score = 28.5 bits (62), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 54/216 (25%), Positives = 81/216 (37%), Gaps = 41/216 (18%)
Query: 70 EIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMY--ERG 127
EI N+ + YDK PV K I G+ V TGSGKT +V +L + Y +RG
Sbjct: 354 EIEFKNVWFS-YDKKKPVLKDITFHIKPGQKVALVGPTGSGKTT--IVNLLMRFYDVDRG 410
Query: 128 PLPTPPAGRGYPSRKKV-FPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVRKKVFPL 186
+ R + +G+VL T +T + + K Y + P +++
Sbjct: 411 QILVDGIDIRKIKRSSLRSSIGIVLQDTILFSTTVKENLK---YGN---PGATDEEI--- 461
Query: 187 GLVLAPTRELATQIYDEAKKFAYRSQLRPCVVYGGSNV-GDQMRDLDRGCHLLVATPGRL 245
EA K + + G V D DL +G L+A
Sbjct: 462 ---------------KEAAKLTHSDHFIKHLPEGYETVLTDNGEDLSQGQRQLLAIT--- 503
Query: 246 VDMLERGKIGLANCRFLVLDEADRMLDMGFEPQIRC 281
+ LAN + L+LDEA +D E I+
Sbjct: 504 -------RAFLANPKILILDEATSNVDTKTEKSIQA 532
>pdb|2XGJ|A Chain A, Structure Of Mtr4, A Dexh Helicase Involved In Nuclear Rna
Processing And Surveillance
pdb|2XGJ|B Chain B, Structure Of Mtr4, A Dexh Helicase Involved In Nuclear Rna
Processing And Surveillance
Length = 1010
Score = 28.5 bits (62), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 19/58 (32%), Positives = 24/58 (41%)
Query: 57 LPLPPQFDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAA 114
+ LPP +D + E N A P Q AI I G V+ A T +GKT
Sbjct: 60 VALPPNYDYTPIAEHKRVNEARTYPFTLDPFQDTAISCIDRGESVLVSAHTSAGKTVV 117
>pdb|3L9O|A Chain A, Crystal Structure Of Mtr4, A Co-Factor Of The Nuclear
Exosome
Length = 1108
Score = 28.5 bits (62), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 19/58 (32%), Positives = 24/58 (41%)
Query: 57 LPLPPQFDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAA 114
+ LPP +D + E N A P Q AI I G V+ A T +GKT
Sbjct: 158 VALPPNYDYTPIAEHKRVNEARTYPFTLDPFQDTAISCIDRGESVLVSAHTSAGKTVV 215
>pdb|3JZ1|B Chain B, Crystal Structure Of Human Thrombin Mutant N143p In E:na+
Form
pdb|3JZ2|B Chain B, Crystal Structure Of Human Thrombin Mutant N143p In E Form
pdb|3QGN|B Chain B, The Allosteric E-E Equilibrium Is A Key Property Of The
Trypsin Fold
Length = 259
Score = 27.7 bits (60), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 28/97 (28%), Positives = 41/97 (42%), Gaps = 16/97 (16%)
Query: 70 EIITNNIALARYDKPTPVQKYAIPVIISGRDVMAC-AQTG-SGKTAAFLVPILNQMYERG 127
E + +IAL + KP Y PV + R+ A Q G G+ + G
Sbjct: 94 ENLDRDIALMKLKKPVAFSDYIHPVCLPDRETAASLLQAGYKGRVTGW-----------G 142
Query: 128 PLP---TPPAGRGYPSRKKVFPLGLVLAPTRELATQI 161
PL T G+G PS +V L +V P + +T+I
Sbjct: 143 PLKETWTANVGKGQPSVLQVVNLPIVERPVCKDSTRI 179
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 0.138 0.411
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,508,230
Number of Sequences: 62578
Number of extensions: 404163
Number of successful extensions: 968
Number of sequences better than 100.0: 61
Number of HSP's better than 100.0 without gapping: 53
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 765
Number of HSP's gapped (non-prelim): 111
length of query: 308
length of database: 14,973,337
effective HSP length: 99
effective length of query: 209
effective length of database: 8,778,115
effective search space: 1834626035
effective search space used: 1834626035
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: 51 (24.3 bits)