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= 042373
(494 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4A4D|A Chain A, Crystal Structure Of The N-Terminal Domain Of The Human
Dead-Box Rna Helicase Ddx5 (P68)
Length = 253
Score = 134 bits (336), Expect = 2e-31, Method: Compositional matrix adjust.
Identities = 87/243 (35%), Positives = 118/243 (48%), Gaps = 49/243 (20%)
Query: 84 QLRKNFYTQ----AREITRMSPAYRKQLDLKIREKCAPKPIKTWRQTGLTTKILETFSKL 139
+ KNFY + AR + YR+ ++ +R PKP+ + + +++ ++
Sbjct: 2 KFEKNFYQEHPDLARRTAQEVETYRRSKEITVRGHNCPKPVLNFYEANFPANVMDVIARQ 61
Query: 140 NHENPVAIQAPASALIISGLDSVAITETGSGKTLAFLLPMLRHIWEQXXXXXXXXXXXXX 199
N P AIQA + +SGLD V + +TGSGKTL++LLP + HI Q
Sbjct: 62 NFTEPTAIQAQGWPVALSGLDMVGVAQTGSGKTLSYLLPAIVHINHQPFLERGDGPICLV 121
Query: 200 XMAPTGELVRQ---------------------------QVRR------------GRMIDL 220
+APT EL +Q Q+R GR+ID
Sbjct: 122 -LAPTRELAQQVQQVAAEYCRACRLKSTCIYGGAPKGPQIRDLERGVEICIATPGRLIDF 180
Query: 221 L-CKNGVKITNLTRVTYLVLDEADRMFDMGFEPQITRIVQNIRPDRQAVLFSPTFPPRVE 279
L C TNL R TYLVLDEADRM DMGFEPQI +IV IRPDRQ +++S T+P V
Sbjct: 181 LECGK----TNLRRTTYLVLDEADRMLDMGFEPQIRKIVDQIRPDRQTLMWSATWPKEVR 236
Query: 280 ILA 282
LA
Sbjct: 237 QLA 239
>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 = 128 bits (321), Expect = 8e-30, Method: Compositional matrix adjust.
Identities = 81/220 (36%), Positives = 109/220 (49%), Gaps = 45/220 (20%)
Query: 103 YRKQLDLKIREKCAPKPIKTWRQTGLTTKILETFSKLNHENPVAIQAPASALIISGLDSV 162
YR+ ++ +R PKP+ + + +++ ++ N P AIQA + +SGLD V
Sbjct: 11 YRRSKEITVRGHNCPKPVLNFYEANFPANVMDVIARQNFTEPTAIQAQGWPVALSGLDMV 70
Query: 163 AITETGSGKTLAFLLPMLRHIWEQXXXXXXXXXXXXXXMAPTGELVRQ------------ 210
+ +TGSGKTL++LLP + HI Q +APT EL +Q
Sbjct: 71 GVAQTGSGKTLSYLLPAIVHINHQPFLERGDGPICLV-LAPTRELAQQVQQVAAEYCRAC 129
Query: 211 ---------------QVRR------------GRMIDLL-CKNGVKITNLTRVTYLVLDEA 242
Q+R GR+ID L C TNL R TYLVLDEA
Sbjct: 130 RLKSTCIYGGAPKGPQIRDLERGVEICIATPGRLIDFLECGK----TNLRRTTYLVLDEA 185
Query: 243 DRMFDMGFEPQITRIVQNIRPDRQAVLFSPTFPPRVEILA 282
DRM DMGFEPQI +IV IRPDRQ +++S T+P V LA
Sbjct: 186 DRMLDMGFEPQIRKIVDQIRPDRQTLMWSATWPKEVRQLA 225
>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 = 92.4 bits (228), Expect = 5e-19, Method: Compositional matrix adjust.
Identities = 68/215 (31%), Positives = 100/215 (46%), Gaps = 43/215 (20%)
Query: 108 DLKIREK-CAPKPIKTWRQT-GLTTKILETFSKLNHENPVAIQAPASALIISGLDSVAIT 165
DLK EK PKP ++ +L++ ++ P IQ+ A +I+ G+D + +
Sbjct: 5 DLKSGEKRLIPKPTCRFKDAFQQYPDLLKSIIRVGILKPTPIQSQAWPIILQGIDLIVVA 64
Query: 166 ETGSGKTLAFLLPMLRHIWEQXXXXXXXXXXXXXXMAPTGEL---VRQQVRR-------- 214
+TG+GKTL++L+P H+ Q + PT EL V + +
Sbjct: 65 QTGTGKTLSYLMPGFIHLDSQPISREQRNGPGMLVLTPTRELALHVEAECSKYSYKGLKS 124
Query: 215 ---------------------------GRMIDLLCKNGVKITNLTRVTYLVLDEADRMFD 247
GR+ DL N V NL +TYLV+DEAD+M D
Sbjct: 125 ICIYGGRNRNGQIEDISKGVDIIIATPGRLNDLQMNNSV---NLRSITYLVIDEADKMLD 181
Query: 248 MGFEPQITRIVQNIRPDRQAVLFSPTFPPRVEILA 282
M FEPQI +I+ ++RPDRQ V+ S T+P V LA
Sbjct: 182 MEFEPQIRKILLDVRPDRQTVMTSATWPDTVRQLA 216
>pdb|2I4I|A Chain A, Crystal Structure Of Human Dead-Box Rna Helicase Ddx3x
Length = 417
Score = 84.0 bits (206), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 67/222 (30%), Positives = 94/222 (42%), Gaps = 58/222 (26%)
Query: 117 PKPIKTWRQTGLTTKILETFSKLNHENPVAIQAPASALIISGLDSVAITETGSGKTLAFL 176
P I+++ + I+ + P +Q A +I D +A +TGSGKT AFL
Sbjct: 11 PPHIESFSDVEMGEIIMGNIELTRYTRPTPVQKHAIPIIKEKRDLMACAQTGSGKTAAFL 70
Query: 177 LPMLRHIW------------EQXXXXXXXXXXXXXXMAPTGEL----------------- 207
LP+L I+ E +APT EL
Sbjct: 71 LPILSQIYSDGPGEALRAMKENGRYGRRKQYPISLVLAPTRELAVQIYEEARKFSYRSRV 130
Query: 208 ----------VRQQVRR------------GRMIDLLCKNGVKITNLTRVTYLVLDEADRM 245
+ QQ+R GR++D++ + + L YLVLDEADRM
Sbjct: 131 RPCVVYGGADIGQQIRDLERGCHLLVATPGRLVDMMERGKI---GLDFCKYLVLDEADRM 187
Query: 246 FDMGFEPQITRIV-QNIRPD---RQAVLFSPTFPPRVEILAR 283
DMGFEPQI RIV Q+ P R ++FS TFP +++LAR
Sbjct: 188 LDMGFEPQIRRIVEQDTMPPKGVRHTMMFSATFPKEIQMLAR 229
Score = 42.7 bits (99), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 24/62 (38%), Positives = 34/62 (54%), Gaps = 3/62 (4%)
Query: 292 IANSVRARGLDEKELELVINFDAPNDYEDYVHHCCQSWLK---SCAFRFISEENAIYATD 348
+A +V ARGLD ++ VINFD P+D E+YVH ++ A F +E N D
Sbjct: 331 VATAVAARGLDISNVKHVINFDLPSDIEEYVHRIGRTGRVGNLGLATSFFNERNINITKD 390
Query: 349 LV 350
L+
Sbjct: 391 LL 392
>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 = 82.4 bits (202), Expect = 6e-16, Method: Compositional matrix adjust.
Identities = 64/212 (30%), Positives = 93/212 (43%), Gaps = 62/212 (29%)
Query: 130 TKILETFSKL-------------NHENPVAIQAPASALIISGLDSVAITETGSGKTLAFL 176
T ++E F +L +++ P IQ A I+ D +A +TGSGKT AFL
Sbjct: 19 TNVIENFDELKLDPTIRNNILLASYQRPTPIQKNAIPAILEHRDIMACAQTGSGKTAAFL 78
Query: 177 LPMLRHIWEQXXXXXXXXXXXX---XXMAPTGELVRQ----------------------- 210
+P++ H+ Q +APT EL Q
Sbjct: 79 IPIINHLVCQDLNQQRYSKTAYPKCLILAPTRELAIQILSESQKFSLNTPLRSCVVYGGA 138
Query: 211 ----QVRR------------GRMIDLLCKNGVKITNLTRVTYLVLDEADRMFDMGFEPQI 254
Q+R GR++D + KN + +L Y+VLDEADRM DMGFEPQI
Sbjct: 139 DTHSQIREVQMGCHLLVATPGRLVDFIEKNKI---SLEFCKYIVLDEADRMLDMGFEPQI 195
Query: 255 TRIVQNIRP----DRQAVLFSPTFPPRVEILA 282
+I++ +RQ ++FS TFP ++ LA
Sbjct: 196 RKIIEESNMPSGINRQTLMFSATFPKEIQKLA 227
>pdb|2DB3|A Chain A, Structural Basis For Rna Unwinding By The Dead-Box Protein
Drosophila Vasa
pdb|2DB3|B Chain B, Structural Basis For Rna Unwinding By The Dead-Box Protein
Drosophila Vasa
pdb|2DB3|C Chain C, Structural Basis For Rna Unwinding By The Dead-Box Protein
Drosophila Vasa
pdb|2DB3|D Chain D, Structural Basis For Rna Unwinding By The Dead-Box Protein
Drosophila Vasa
Length = 434
Score = 80.9 bits (198), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 62/217 (28%), Positives = 101/217 (46%), Gaps = 45/217 (20%)
Query: 107 LDLKIREKCAPKPIKTWRQTGLTTKILETFSKLNHENPVAIQAPASALIISGLDSVAITE 166
+ +K+ P+PI+ + L I++ +K ++ P IQ + +I SG D +A +
Sbjct: 42 IPVKVTGSDVPQPIQHFTSADLRDIIIDNVNKSGYKIPTPIQKCSIPVISSGRDLMACAQ 101
Query: 167 TGSGKTLAFLLPMLRHIWEQXXXXXXXXXXXXXXMAPTGELVRQ---QVRR--------- 214
TGSGKT AFLLP+L + E ++PT EL Q + R+
Sbjct: 102 TGSGKTAAFLLPILSKLLEDPHELELGRPQVVI-VSPTRELAIQIFNEARKFAFESYLKI 160
Query: 215 ---------------------------GRMIDLLCKNGVKITNLTRVTYLVLDEADRMFD 247
GR++D + + + + TR ++VLDEADRM D
Sbjct: 161 GIVYGGTSFRHQNECITRGCHVVIATPGRLLDFVDRTFITFED-TR--FVVLDEADRMLD 217
Query: 248 MGFEPQITRIVQNI--RPDRQAVLFSPTFPPRVEILA 282
MGF + RI+ ++ RP+ Q ++FS TFP ++ +A
Sbjct: 218 MGFSEDMRRIMTHVTMRPEHQTLMFSATFPEEIQRMA 254
Score = 48.5 bits (114), Expect = 9e-06, Method: Compositional matrix adjust.
Identities = 32/87 (36%), Positives = 47/87 (54%), Gaps = 6/87 (6%)
Query: 284 KTNVCNLSIANSVRARGLDEKELELVINFDAPNDYEDYVHHCCQSWL-----KSCAFRFI 338
K + IA SV +RGLD K ++ VIN+D P+ +DYVH ++ ++ +F F
Sbjct: 347 KNGSMKVLIATSVASRGLDIKNIKHVINYDMPSKIDDYVHRIGRTGRVGNNGRATSF-FD 405
Query: 339 SEENAIYATDLVKAFELSELVVRDDLK 365
E++ A DLVK E S V D L+
Sbjct: 406 PEKDRAIAADLVKILEGSGQTVPDFLR 432
>pdb|3BER|A Chain A, Human Dead-Box Rna-Helicase Ddx47, Conserved Domain I In
Complex With Amp
Length = 249
Score = 77.0 bits (188), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 61/202 (30%), Positives = 86/202 (42%), Gaps = 47/202 (23%)
Query: 121 KTWRQTGLTTKILETFSKLNHENPVAIQAPASALIISGLDSVAITETGSGKTLAFLLPML 180
KT++ G+T + E +L P IQ A L + G D + + ETGSGKT AF LP+L
Sbjct: 43 KTFKDLGVTDVLCEACDQLGWTKPTKIQIEAIPLALQGRDIIGLAETGSGKTGAFALPIL 102
Query: 181 RHIWEQXXXXXXXXXXXXXXMAPTGELVRQQVRR-------------------------- 214
+ E + PT EL Q +
Sbjct: 103 NALLE------TPQRLFALVLTPTRELAFQISEQFEALGSSIGVQSAVIVGGIDSMSQSL 156
Query: 215 -------------GRMIDLLCKNGVKITNLTRVTYLVLDEADRMFDMGFEPQITRIVQNI 261
GR+ID L K NL + YLV+DEADR+ +M FE ++ +I++ I
Sbjct: 157 ALAKKPHIIIATPGRLIDHL--ENTKGFNLRALKYLVMDEADRILNMDFETEVDKILKVI 214
Query: 262 RPDRQAVLFSPTFPPRVEILAR 283
DR+ LFS T +V+ L R
Sbjct: 215 PRDRKTFLFSATMTKKVQKLQR 236
>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 = 66.2 bits (160), Expect = 4e-11, Method: Compositional matrix adjust.
Identities = 55/194 (28%), Positives = 74/194 (38%), Gaps = 43/194 (22%)
Query: 128 LTTKILETFSKLNHENPVAIQAPASALIISGLDSVAITETGSGKTLAFLLPMLRHIWEQX 187
L +ILE P IQA A L + G D + TG+GKTLAF LP+ +
Sbjct: 8 LKPEILEALHGRGLTTPTPIQAAALPLALEGKDLIGQARTGTGKTLAFALPIAERL---A 64
Query: 188 XXXXXXXXXXXXXMAPTGELVRQQVRR--------------------------------- 214
+ PT EL Q
Sbjct: 65 PSQERGRKPRALVLTPTRELALQVASELTAVAPHLKVVAVYGGTGYGKQKEALLRGADAV 124
Query: 215 ----GRMIDLLCKNGVKITNLTRVTYLVLDEADRMFDMGFEPQITRIVQNIRPDRQAVLF 270
GR +D L + + +L+RV VLDEAD M MGFE ++ ++ P RQ +LF
Sbjct: 125 VATPGRALDYLRQG---VLDLSRVEVAVLDEADEMLSMGFEEEVEALLSATPPSRQTLLF 181
Query: 271 SPTFPPRVEILARK 284
S T P + LA +
Sbjct: 182 SATLPSWAKRLAER 195
>pdb|2PL3|A Chain A, Human Dead-Box Rna Helicase Ddx10, Dead Domain In Complex
With Adp
Length = 236
Score = 65.5 bits (158), Expect = 6e-11, Method: Compositional matrix adjust.
Identities = 56/207 (27%), Positives = 84/207 (40%), Gaps = 38/207 (18%)
Query: 113 EKCAPKPIKTWRQTGLTTKILETFSKLNHENPVAIQAPASALIISGLDSVAITETGSGKT 172
EK I + L+ K L+ + + IQ L + G D + +TGSGKT
Sbjct: 17 EKINVNEITRFSDFPLSKKTLKGLQEAQYRLVTEIQKQTIGLALQGKDVLGAAKTGSGKT 76
Query: 173 LAFLLPMLRHIWEQXXXXXXXXXXXXXXMAPTGELVRQQVRRGRMID------------- 219
LAFL+P+L ++ ++PT EL Q R +
Sbjct: 77 LAFLVPVLEALYR--LQWTSTDGLGVLIISPTRELAYQTFEVLRKVGKNHDFSAGLIIGG 134
Query: 220 ---------------LLCKNGVKITNL--------TRVTYLVLDEADRMFDMGFEPQITR 256
L+C G + ++ T + LVLDEADR+ DMGF +
Sbjct: 135 KDLKHEAERINNINILVCTPGRLLQHMDETVSFHATDLQMLVLDEADRILDMGFADTMNA 194
Query: 257 IVQNIRPDRQAVLFSPTFPPRVEILAR 283
+++N+ RQ +LFS T V+ LAR
Sbjct: 195 VIENLPKKRQTLLFSATQTKSVKDLAR 221
>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 = 64.7 bits (156), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 54/194 (27%), Positives = 74/194 (38%), Gaps = 43/194 (22%)
Query: 128 LTTKILETFSKLNHENPVAIQAPASALIISGLDSVAITETGSGKTLAFLLPMLRHIWEQX 187
L +ILE P I+A A L + G D + TG+GKTLAF LP+ +
Sbjct: 8 LKPEILEALHGRGLTTPTPIEAAALPLALEGKDLIGQARTGTGKTLAFALPIAERL---A 64
Query: 188 XXXXXXXXXXXXXMAPTGELVRQQVRR--------------------------------- 214
+ PT EL Q
Sbjct: 65 PSQERGRKPRALVLTPTRELALQVASELTAVAPHLKVVAVYGGTGYGKQKEALLRGADAV 124
Query: 215 ----GRMIDLLCKNGVKITNLTRVTYLVLDEADRMFDMGFEPQITRIVQNIRPDRQAVLF 270
GR +D L + + +L+RV VLDEAD M MGFE ++ ++ P RQ +LF
Sbjct: 125 VATPGRALDYLRQG---VLDLSRVEVAVLDEADEMLSMGFEEEVEALLSATPPSRQTLLF 181
Query: 271 SPTFPPRVEILARK 284
S T P + LA +
Sbjct: 182 SATLPSWAKRLAER 195
>pdb|1S2M|A Chain A, Crystal Structure Of The Dead Box Protein Dhh1p
Length = 400
Score = 58.5 bits (140), Expect = 8e-09, Method: Compositional matrix adjust.
Identities = 52/197 (26%), Positives = 82/197 (41%), Gaps = 48/197 (24%)
Query: 122 TWRQTGLTTKILETFSKLNHENPVAIQAPASALIISGLDSVAITETGSGKTLAFLLPMLR 181
T+ L ++L + E P IQ A + I+G D +A + G+GKT AF++P L
Sbjct: 22 TFEDFYLKRELLMGIFEAGFEKPSPIQEEAIPVAITGRDILARAKNGTGKTAAFVIPTLE 81
Query: 182 HIWEQXXXXXXXXXXXXXXMAPTGELVRQ--QVRR------------------------- 214
+ + M PT EL Q QV R
Sbjct: 82 KVKPKLNKIQALI------MVPTRELALQTSQVVRTLGKHCGISCMVTTGGTNLRDDILR 135
Query: 215 ------------GRMIDLLCKNGVKITNLTRVTYLVLDEADRMFDMGFEPQITRIVQNIR 262
GR++DL + K+ +L+ + ++DEAD+M F+ I +I+ +
Sbjct: 136 LNETVHILVGTPGRVLDLASR---KVADLSDCSLFIMDEADKMLSRDFKTIIEQILSFLP 192
Query: 263 PDRQAVLFSPTFPPRVE 279
P Q++LFS TFP V+
Sbjct: 193 PTHQSLLFSATFPLTVK 209
Score = 32.3 bits (72), Expect = 0.59, Method: Compositional matrix adjust.
Identities = 13/37 (35%), Positives = 22/37 (59%)
Query: 292 IANSVRARGLDEKELELVINFDAPNDYEDYVHHCCQS 328
+ + + RG+D + + +VINFD P E Y+H +S
Sbjct: 313 VCSDLLTRGIDIQAVNVVINFDFPKTAETYLHRIGRS 349
>pdb|3LY5|A Chain A, Ddx18 Dead-Domain
pdb|3LY5|B Chain B, Ddx18 Dead-Domain
Length = 262
Score = 57.4 bits (137), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 53/190 (27%), Positives = 82/190 (43%), Gaps = 43/190 (22%)
Query: 133 LETFSKLNHENPVAIQAPASALIISGLDSVAITETGSGKTLAFLLPMLRHIWEQXXXXXX 192
L+ ++ N IQ + ++ G D +A +TGSGKTLAFL+P + I +
Sbjct: 66 LKAIKEMGFTNMTEIQHKSIRPLLEGRDLLAAAKTGSGKTLAFLIPAVELIVK--LRFMP 123
Query: 193 XXXXXXXXMAPTGELVRQQVRRGRMIDLLCK----------------------NGVKITN 230
++PT EL Q G + +L+ NG+ I
Sbjct: 124 RNGTGVLILSPTRELAMQTF--GVLKELMTHHVHTYGLIMGGSNRSAEAQKLGNGINIIV 181
Query: 231 LT-----------------RVTYLVLDEADRMFDMGFEPQITRIVQNIRPDRQAVLFSPT 273
T + LV+DEADR+ D+GFE ++ +I++ + RQ +LFS T
Sbjct: 182 ATPGRLLDHMQNTPGFMYKNLQCLVIDEADRILDVGFEEELKQIIKLLPTRRQTMLFSAT 241
Query: 274 FPPRVEILAR 283
+VE LAR
Sbjct: 242 QTRKVEDLAR 251
>pdb|2J0U|A Chain A, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 57.4 bits (137), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 54/194 (27%), Positives = 81/194 (41%), Gaps = 44/194 (22%)
Query: 122 TWRQTGLTTKILETFSKLNHENPVAIQAPASALIISGLDSVAITETGSGKTLAFLLPMLR 181
T+ GL +L E P AIQ A II G D +A +++G+GKT F + +L+
Sbjct: 2 TFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSVSVLQ 61
Query: 182 HIWEQXXXXXXXXXXXXXXMAPTGELVRQQVRRGRM-----IDLLCKNGVKITNL----- 231
+ Q +APT EL QV++G + +++ C + TN+
Sbjct: 62 CLDIQ------VRETQALILAPTRELA-VQVQKGLLALGDYMNVQCHACIGGTNVGEDIR 114
Query: 232 --------------------------TR-VTYLVLDEADRMFDMGFEPQITRIVQNIRPD 264
TR + LVLDEAD M + GF+ QI + + + P
Sbjct: 115 KLDYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPA 174
Query: 265 RQAVLFSPTFPPRV 278
Q VL S T P +
Sbjct: 175 TQVVLISATLPHEI 188
Score = 41.2 bits (95), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 20/62 (32%), Positives = 34/62 (54%), Gaps = 3/62 (4%)
Query: 284 KTNVCNLSIANSVRARGLDEKELELVINFDAPNDYEDYVHHCCQS---WLKSCAFRFISE 340
++ + I+ V ARGLD ++ L+IN+D PN+ E Y+H +S K A F+
Sbjct: 287 RSGASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAVNFVKN 346
Query: 341 EN 342
++
Sbjct: 347 DD 348
>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 = 57.4 bits (137), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 53/194 (27%), Positives = 81/194 (41%), Gaps = 44/194 (22%)
Query: 122 TWRQTGLTTKILETFSKLNHENPVAIQAPASALIISGLDSVAITETGSGKTLAFLLPMLR 181
T+ GL +L E P AIQ A II G D +A +++G+GKT F + +L+
Sbjct: 38 TFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQ 97
Query: 182 HIWEQXXXXXXXXXXXXXXMAPTGELVRQQVRRGRM-----IDLLCKNGVKITNL----- 231
+ Q +APT EL Q+++G + +++ C + TN+
Sbjct: 98 CLDIQ------VRETQALILAPTRELA-VQIQKGLLALGDYMNVQCHACIGGTNVGEDIR 150
Query: 232 --------------------------TR-VTYLVLDEADRMFDMGFEPQITRIVQNIRPD 264
TR + LVLDEAD M + GF+ QI + + + P
Sbjct: 151 KLDYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPA 210
Query: 265 RQAVLFSPTFPPRV 278
Q VL S T P +
Sbjct: 211 TQVVLISATLPHEI 224
Score = 41.6 bits (96), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 20/62 (32%), Positives = 34/62 (54%), Gaps = 3/62 (4%)
Query: 284 KTNVCNLSIANSVRARGLDEKELELVINFDAPNDYEDYVHHCCQS---WLKSCAFRFISE 340
++ + I+ V ARGLD ++ L+IN+D PN+ E Y+H +S K A F+
Sbjct: 323 RSGASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAINFVKN 382
Query: 341 EN 342
++
Sbjct: 383 DD 384
>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 = 53/194 (27%), Positives = 81/194 (41%), Gaps = 44/194 (22%)
Query: 122 TWRQTGLTTKILETFSKLNHENPVAIQAPASALIISGLDSVAITETGSGKTLAFLLPMLR 181
T+ GL +L E P AIQ A II G D +A +++G+GKT F + +L+
Sbjct: 39 TFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQ 98
Query: 182 HIWEQXXXXXXXXXXXXXXMAPTGELVRQQVRRGRM-----IDLLCKNGVKITNL----- 231
+ Q +APT EL Q+++G + +++ C + TN+
Sbjct: 99 CLDIQ------VRETQALILAPTRELA-VQIQKGLLALGDYMNVQCHACIGGTNVGEDIR 151
Query: 232 --------------------------TR-VTYLVLDEADRMFDMGFEPQITRIVQNIRPD 264
TR + LVLDEAD M + GF+ QI + + + P
Sbjct: 152 KLDYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPA 211
Query: 265 RQAVLFSPTFPPRV 278
Q VL S T P +
Sbjct: 212 TQVVLISATLPHEI 225
Score = 41.6 bits (96), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 20/62 (32%), Positives = 34/62 (54%), Gaps = 3/62 (4%)
Query: 284 KTNVCNLSIANSVRARGLDEKELELVINFDAPNDYEDYVHHCCQS---WLKSCAFRFISE 340
++ + I+ V ARGLD ++ L+IN+D PN+ E Y+H +S K A F+
Sbjct: 324 RSGASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAINFVKN 383
Query: 341 EN 342
++
Sbjct: 384 DD 385
>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 = 57.0 bits (136), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 53/194 (27%), Positives = 81/194 (41%), Gaps = 44/194 (22%)
Query: 122 TWRQTGLTTKILETFSKLNHENPVAIQAPASALIISGLDSVAITETGSGKTLAFLLPMLR 181
T+ GL +L E P AIQ A II G D +A +++G+GKT F + +L+
Sbjct: 17 TFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQ 76
Query: 182 HIWEQXXXXXXXXXXXXXXMAPTGELVRQQVRRGRM-----IDLLCKNGVKITNL----- 231
+ Q +APT EL Q+++G + +++ C + TN+
Sbjct: 77 CLDIQ------VRETQALILAPTRELA-VQIQKGLLALGDYMNVQCHACIGGTNVGEDIR 129
Query: 232 --------------------------TR-VTYLVLDEADRMFDMGFEPQITRIVQNIRPD 264
TR + LVLDEAD M + GF+ QI + + + P
Sbjct: 130 KLDYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPA 189
Query: 265 RQAVLFSPTFPPRV 278
Q VL S T P +
Sbjct: 190 TQVVLISATLPHEI 203
Score = 41.6 bits (96), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 20/62 (32%), Positives = 34/62 (54%), Gaps = 3/62 (4%)
Query: 284 KTNVCNLSIANSVRARGLDEKELELVINFDAPNDYEDYVHHCCQS---WLKSCAFRFISE 340
++ + I+ V ARGLD ++ L+IN+D PN+ E Y+H +S K A F+
Sbjct: 302 RSGASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAINFVKN 361
Query: 341 EN 342
++
Sbjct: 362 DD 363
>pdb|2HYI|C Chain C, Structure Of The Human Exon Junction Complex With A
Trapped Dead-Box Helicase Bound To Rna
pdb|2HYI|I Chain I, Structure Of The Human Exon Junction Complex With A
Trapped Dead-Box Helicase Bound To Rna
pdb|3EX7|C Chain C, The Crystal Structure Of Ejc In Its Transition State
pdb|3EX7|H Chain H, The Crystal Structure Of Ejc In Its Transition State
Length = 413
Score = 57.0 bits (136), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 53/194 (27%), Positives = 81/194 (41%), Gaps = 44/194 (22%)
Query: 122 TWRQTGLTTKILETFSKLNHENPVAIQAPASALIISGLDSVAITETGSGKTLAFLLPMLR 181
T+ GL +L E P AIQ A II G D +A +++G+GKT F + +L+
Sbjct: 39 TFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQ 98
Query: 182 HIWEQXXXXXXXXXXXXXXMAPTGELVRQQVRRGRM-----IDLLCKNGVKITNL----- 231
+ Q +APT EL Q+++G + +++ C + TN+
Sbjct: 99 CLDIQ------VRETQALILAPTRELA-VQIQKGLLALGDYMNVQCHACIGGTNVGEDIR 151
Query: 232 --------------------------TR-VTYLVLDEADRMFDMGFEPQITRIVQNIRPD 264
TR + LVLDEAD M + GF+ QI + + + P
Sbjct: 152 KLDYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPA 211
Query: 265 RQAVLFSPTFPPRV 278
Q VL S T P +
Sbjct: 212 TQVVLISATLPHEI 225
Score = 41.6 bits (96), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 20/62 (32%), Positives = 34/62 (54%), Gaps = 3/62 (4%)
Query: 284 KTNVCNLSIANSVRARGLDEKELELVINFDAPNDYEDYVHHCCQS---WLKSCAFRFISE 340
++ + I+ V ARGLD ++ L+IN+D PN+ E Y+H +S K A F+
Sbjct: 324 RSGASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAINFVKN 383
Query: 341 EN 342
++
Sbjct: 384 DD 385
>pdb|2J0U|B Chain B, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 57.0 bits (136), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 54/197 (27%), Positives = 81/197 (41%), Gaps = 50/197 (25%)
Query: 122 TWRQTGLTTKILETFSKLNHENPVAIQAPASALIISGLDSVAITETGSGKTLAFLLPMLR 181
T+ GL +L E P AIQ A II G D +A +++G+GKT F + +L+
Sbjct: 2 TFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSVSVLQ 61
Query: 182 HIWEQXXXXXXXXXXXXXXMAPTGEL---------------------------VRQQVRR 214
+ Q +APT EL V + +R+
Sbjct: 62 CLDIQ------VRETQALILAPTRELAVQVQKGLLALGDYMNVQSHACIGGTNVGEDIRK 115
Query: 215 ------------GRMIDLLCKNGVKITNLTR-VTYLVLDEADRMFDMGFEPQITRIVQNI 261
GR+ D++ + ++ TR + LVLDEAD M + GF+ QI + + +
Sbjct: 116 LDYGQHVVAGTPGRVFDMIRRRSLR----TRAIKMLVLDEADEMLNKGFKEQIYDVYRYL 171
Query: 262 RPDRQAVLFSPTFPPRV 278
P Q VL S T P V
Sbjct: 172 PPATQVVLISATLPHEV 188
Score = 41.6 bits (96), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 20/62 (32%), Positives = 34/62 (54%), Gaps = 3/62 (4%)
Query: 284 KTNVCNLSIANSVRARGLDEKELELVINFDAPNDYEDYVHHCCQS---WLKSCAFRFISE 340
++ + I+ V ARGLD ++ L+IN+D PN+ E Y+H +S K A F+
Sbjct: 287 RSGASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAVNFVKN 346
Query: 341 EN 342
++
Sbjct: 347 DD 348
>pdb|3EIQ|A Chain A, Crystal Structure Of Pdcd4-eif4a
pdb|3EIQ|D Chain D, Crystal Structure Of Pdcd4-eif4a
Length = 414
Score = 56.2 bits (134), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 52/205 (25%), Positives = 79/205 (38%), Gaps = 49/205 (23%)
Query: 120 IKTWRQTGLTTKILETFSKLNHENPVAIQAPASALIISGLDSVAITETGSGKTLAFLLPM 179
+ ++ L+ +L E P AIQ A I G D +A ++G+GKT F + +
Sbjct: 39 VDSFDDMNLSESLLRGIYAYGFEKPSAIQQRAILPCIKGYDVIAQAQSGTGKTATFAISI 98
Query: 180 LRHIWEQXXXXXXXXXXXXXXMAPTGEL---------------------------VRQQV 212
L+ I +APT EL VR +V
Sbjct: 99 LQQI------ELDLKATQALVLAPTRELAQQIQKVVMALGDYMGASCHACIGGTNVRAEV 152
Query: 213 RR-------------GRMIDLLCKNGVKITNLTRVTYLVLDEADRMFDMGFEPQITRIVQ 259
++ GR+ D+L + + + + VLDEAD M GF+ QI I Q
Sbjct: 153 QKLQMEAPHIIVGTPGRVFDMLNR---RYLSPKYIKMFVLDEADEMLSRGFKDQIYDIFQ 209
Query: 260 NIRPDRQAVLFSPTFPPRVEILARK 284
+ + Q VL S T P V + +K
Sbjct: 210 KLNSNTQVVLLSATMPSDVLEVTKK 234
Score = 37.7 bits (86), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 14/32 (43%), Positives = 23/32 (71%)
Query: 292 IANSVRARGLDEKELELVINFDAPNDYEDYVH 323
I + ARG+D +++ LVIN+D P + E+Y+H
Sbjct: 335 ITTDLLARGIDVQQVSLVINYDLPTNRENYIH 366
>pdb|2ZU6|A Chain A, Crystal Structure Of The Eif4a-Pdcd4 Complex
pdb|2ZU6|C Chain C, Crystal Structure Of The Eif4a-Pdcd4 Complex
pdb|2ZU6|D Chain D, Crystal Structure Of The Eif4a-Pdcd4 Complex
pdb|2ZU6|F Chain F, Crystal Structure Of The Eif4a-Pdcd4 Complex
Length = 388
Score = 55.8 bits (133), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 52/205 (25%), Positives = 79/205 (38%), Gaps = 49/205 (23%)
Query: 120 IKTWRQTGLTTKILETFSKLNHENPVAIQAPASALIISGLDSVAITETGSGKTLAFLLPM 179
+ ++ L+ +L E P AIQ A I G D +A ++G+GKT F + +
Sbjct: 13 VDSFDDMNLSESLLRGIYAYGFEKPSAIQQRAILPCIKGYDVIAQAQSGTGKTATFAISI 72
Query: 180 LRHIWEQXXXXXXXXXXXXXXMAPTGEL---------------------------VRQQV 212
L+ I +APT EL VR +V
Sbjct: 73 LQQI------ELDLKATQALVLAPTRELAQQIQKVVMALGDYMGASCHACIGGTNVRAEV 126
Query: 213 RR-------------GRMIDLLCKNGVKITNLTRVTYLVLDEADRMFDMGFEPQITRIVQ 259
++ GR+ D+L + + + + VLDEAD M GF+ QI I Q
Sbjct: 127 QKLQMEAPHIIVGTPGRVFDMLNR---RYLSPKYIKMFVLDEADEMLSRGFKDQIYDIFQ 183
Query: 260 NIRPDRQAVLFSPTFPPRVEILARK 284
+ + Q VL S T P V + +K
Sbjct: 184 KLNSNTQVVLLSATMPSDVLEVTKK 208
Score = 38.1 bits (87), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 14/32 (43%), Positives = 23/32 (71%)
Query: 292 IANSVRARGLDEKELELVINFDAPNDYEDYVH 323
I + ARG+D +++ LVIN+D P + E+Y+H
Sbjct: 309 ITTDLLARGIDVQQVSLVINYDLPTNRENYIH 340
>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 = 54.7 bits (130), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 49/202 (24%), Positives = 78/202 (38%), Gaps = 49/202 (24%)
Query: 122 TWRQTGLTTKILETFSKLNHENPVAIQAPASALIISG-LDSVAITETGSGKTLAFLLPML 180
+ + L+ IL E P IQ L ++ + VA TGSGKT +F +P++
Sbjct: 7 NFNELNLSDNILNAIRNKGFEKPTDIQXKVIPLFLNDEYNIVAQARTGSGKTASFAIPLI 66
Query: 181 RHIWEQXXXXXXXXXXXXXXMAPTGELVRQ---------------------------QVR 213
+ E + PT EL Q Q++
Sbjct: 67 ELVNENNGIEAII-------LTPTRELAIQVADEIESLKGNKNLKIAKIYGGKAIYPQIK 119
Query: 214 R-----------GRMIDLLCKNGVKITNLTRVTYLVLDEADRMFDMGFEPQITRIVQNIR 262
GR++D + + + NL V Y +LDEAD + GF + +I+
Sbjct: 120 ALKNANIVVGTPGRILDHINRGTL---NLKNVKYFILDEADEXLNXGFIKDVEKILNACN 176
Query: 263 PDRQAVLFSPTFPPRVEILARK 284
D++ +LFS T P + LA+K
Sbjct: 177 KDKRILLFSATXPREILNLAKK 198
Score = 32.3 bits (72), Expect = 0.66, Method: Compositional matrix adjust.
Identities = 14/37 (37%), Positives = 21/37 (56%)
Query: 292 IANSVRARGLDEKELELVINFDAPNDYEDYVHHCCQS 328
IA V +RG+D +L VIN+ P + E Y H ++
Sbjct: 293 IATDVXSRGIDVNDLNCVINYHLPQNPESYXHRIGRT 329
>pdb|3PEY|A Chain A, S. Cerevisiae Dbp5 Bound To Rna And Adp Bef3
Length = 395
Score = 53.1 bits (126), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 52/202 (25%), Positives = 84/202 (41%), Gaps = 47/202 (23%)
Query: 121 KTWRQTGLTTKILETFSKLNHENPVAIQAPASALIISG--LDSVAITETGSGKTLAFLLP 178
K++ + GL ++L+ + + P IQ A L++ + +A +++G+GKT AF L
Sbjct: 5 KSFDELGLAPELLKGIYAMKFQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAAFSLT 64
Query: 179 MLRHIWEQXXXXXXXXXXXXXXMAPTGELVRQQVRR------------------------ 214
ML + + +AP+ EL RQ +
Sbjct: 65 MLTRVNPEDASPQAIC------LAPSRELARQTLEVVQEMGKFTKITSQLIVPDSFEKNK 118
Query: 215 -----------GRMIDLLCKNGVKITNLTRVTYLVLDEADRMFDM-GFEPQITRIVQNIR 262
G ++DL+ + K+ L ++ VLDEAD M D G Q R+ + +
Sbjct: 119 QINAQVIVGTPGTVLDLMRR---KLMQLQKIKIFVLDEADNMLDQQGLGDQCIRVKRFLP 175
Query: 263 PDRQAVLFSPTFPPRVEILARK 284
D Q VLFS TF V A+K
Sbjct: 176 KDTQLVLFSATFADAVRQYAKK 197
Score = 31.6 bits (70), Expect = 0.98, Method: Compositional matrix adjust.
Identities = 17/61 (27%), Positives = 30/61 (49%), Gaps = 9/61 (14%)
Query: 292 IANSVRARGLDEKELELVINFDAPN------DYEDYVHHCCQS---WLKSCAFRFISEEN 342
I +V ARG+D + +V+N+D P D Y+H ++ K A F+ ++N
Sbjct: 298 ITTNVLARGIDIPTVSMVVNYDLPTLANGQADPATYIHRIGRTGRFGRKGVAISFVHDKN 357
Query: 343 A 343
+
Sbjct: 358 S 358
>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 = 53.1 bits (126), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 52/202 (25%), Positives = 84/202 (41%), Gaps = 47/202 (23%)
Query: 121 KTWRQTGLTTKILETFSKLNHENPVAIQAPASALIISG--LDSVAITETGSGKTLAFLLP 178
K++ + GL ++L+ + + P IQ A L++ + +A +++G+GKT AF L
Sbjct: 5 KSFDELGLAPELLKGIYAMKFQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAAFSLT 64
Query: 179 MLRHIWEQXXXXXXXXXXXXXXMAPTGELVRQQVRR------------------------ 214
ML + + +AP+ EL RQ +
Sbjct: 65 MLTRVNPEDASPQAIC------LAPSRELARQTLEVVQEMGKFTKITSQLIVPDSFEKNK 118
Query: 215 -----------GRMIDLLCKNGVKITNLTRVTYLVLDEADRMFDM-GFEPQITRIVQNIR 262
G ++DL+ + K+ L ++ VLDEAD M D G Q R+ + +
Sbjct: 119 QINAQVIVGTPGTVLDLMRR---KLMQLQKIKIFVLDEADNMLDQQGLGDQCIRVKRFLP 175
Query: 263 PDRQAVLFSPTFPPRVEILARK 284
D Q VLFS TF V A+K
Sbjct: 176 KDTQLVLFSATFADAVRQYAKK 197
Score = 31.6 bits (70), Expect = 0.97, Method: Compositional matrix adjust.
Identities = 17/61 (27%), Positives = 30/61 (49%), Gaps = 9/61 (14%)
Query: 292 IANSVRARGLDEKELELVINFDAPN------DYEDYVHHCCQS---WLKSCAFRFISEEN 342
I +V ARG+D + +V+N+D P D Y+H ++ K A F+ ++N
Sbjct: 298 ITTNVLARGIDIPTVSMVVNYDLPTLANGQADPATYIHRIGRTGRFGRKGVAISFVHDKN 357
Query: 343 A 343
+
Sbjct: 358 S 358
>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 = 53.1 bits (126), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 47/186 (25%), Positives = 79/186 (42%), Gaps = 37/186 (19%)
Query: 128 LTTKILETFSKLNHENPVAIQAPASALIISGLDSVAITETGSGKTLAFLLPMLRHI---- 183
L ++L ++ E P IQ + + +SG D +A + G+GK+ A+L+P+L +
Sbjct: 10 LKRELLMGIFEMGWEKPSPIQEESIPIALSGRDILARAKNGTGKSGAYLIPLLERLDLKK 69
Query: 184 -----------------WEQXXXXXXXXXXXXXXMAPTGEL-VRQQVRR----------- 214
Q MA TG +R + R
Sbjct: 70 DNIQAMVIVPTRELALQVSQICIQVSKHMGGAKVMATTGGTNLRDDIMRLDDTVHVVIAT 129
Query: 215 -GRMIDLLCKNGVKITNLTRVTYLVLDEADRMFDMGFEPQITRIVQNIRPDRQAVLFSPT 273
GR++DL+ K K+ + V +VLDEAD++ F + I+ + +RQ +L+S T
Sbjct: 130 PGRILDLIKKGVAKVDH---VQMIVLDEADKLLSQDFVQIMEDIILTLPKNRQILLYSAT 186
Query: 274 FPPRVE 279
FP V+
Sbjct: 187 FPLSVQ 192
>pdb|2KBE|A Chain A, Solution Structure Of Amino-Terminal Domain Of Dbp5p
Length = 226
Score = 53.1 bits (126), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 52/202 (25%), Positives = 84/202 (41%), Gaps = 47/202 (23%)
Query: 121 KTWRQTGLTTKILETFSKLNHENPVAIQAPASALIISG--LDSVAITETGSGKTLAFLLP 178
K++ + GL ++L+ + + P IQ A L++ + +A +++G+GKT AF L
Sbjct: 22 KSFDELGLAPELLKGIYAMKFQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAAFSLT 81
Query: 179 MLRHIWEQXXXXXXXXXXXXXXMAPTGELVRQQVR------------------------- 213
ML + + +AP+ EL RQ +
Sbjct: 82 MLTRVNPEDASPQAIC------LAPSRELARQTLEVVQEMGKFTKITSQLIVPDSFEKNK 135
Query: 214 ----------RGRMIDLLCKNGVKITNLTRVTYLVLDEADRMFDM-GFEPQITRIVQNIR 262
G ++DL+ + K+ L ++ VLDEAD M D G Q R+ + +
Sbjct: 136 QINAQVIVGTPGTVLDLMRR---KLMQLQKIKIFVLDEADNMLDQQGLGDQCIRVKRFLP 192
Query: 263 PDRQAVLFSPTFPPRVEILARK 284
D Q VLFS TF V A+K
Sbjct: 193 KDTQLVLFSATFADAVRQYAKK 214
>pdb|2Z0M|A Chain A, Crystal Structure Of Hypothetical Atp-Dependent Rna
Helicase From Sulfolobus Tokodaii
Length = 337
Score = 53.1 bits (126), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 46/189 (24%), Positives = 74/189 (39%), Gaps = 53/189 (28%)
Query: 128 LTTKILETFSKLNHENPVAIQAPASALIISGLDSVAITETGSGKTLAFLLPMLRHIWEQX 187
+ KI + ++ +N +Q+ L++ G + V +TGSGKT A+ +P+L
Sbjct: 1 MNEKIEQAIREMGFKNFTEVQSKTIPLMLQGKNVVVRAKTGSGKTAAYAIPILE------ 54
Query: 188 XXXXXXXXXXXXXMAPTGELVRQ---------------------------QVRR------ 214
+ PT EL RQ Q+ R
Sbjct: 55 ------LGMKSLVVTPTRELTRQVASHIRDIGRYMDTKVAEVYGGMPYKAQINRVRNADI 108
Query: 215 -----GRMIDLLCKNGVKITNLTRVTYLVLDEADRMFDMGFEPQITRIVQNIRPDRQAVL 269
GR++DL K + +L+ +++DEAD MF+MGF I I+ + L
Sbjct: 109 VVATPGRLLDLWSKG---VIDLSSFEIVIIDEADLMFEMGFIDDIKIILAQTSNRKITGL 165
Query: 270 FSPTFPPRV 278
FS T P +
Sbjct: 166 FSATIPEEI 174
Score = 38.9 bits (89), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 17/40 (42%), Positives = 24/40 (60%)
Query: 289 NLSIANSVRARGLDEKELELVINFDAPNDYEDYVHHCCQS 328
++ I V +RGLD +E VINFDAP D Y+H ++
Sbjct: 268 DMLITTDVASRGLDIPLVEKVINFDAPQDLRTYIHRIGRT 307
>pdb|3BOR|A Chain A, Crystal Structure Of The Deadc Domain Of Human Translation
Initiation Factor 4a-2
Length = 237
Score = 52.4 bits (124), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 50/195 (25%), Positives = 71/195 (36%), Gaps = 45/195 (23%)
Query: 128 LTTKILETFSKLNHENPVAIQAPASALIISGLDSVAITETGSGKTLAFLLPMLRHIWEQX 187
L +L E P AIQ A I G D +A ++G+GKT F + +L+ +
Sbjct: 37 LKESLLRGIYAYGFEKPSAIQQRAIIPCIKGYDVIAQAQSGTGKTATFAISILQQL---- 92
Query: 188 XXXXXXXXXXXXXMAPTGELVRQQVRR-----GRMIDLLCKNGVKITNLTR--------- 233
+APT EL QQ+++ G + C + TN+
Sbjct: 93 --EIEFKETQALVLAPTRELA-QQIQKVILALGDYMGATCHACIGGTNVRNEMQKLQAEA 149
Query: 234 ------------------------VTYLVLDEADRMFDMGFEPQITRIVQNIRPDRQAVL 269
+ VLDEAD M GF+ QI I Q + Q VL
Sbjct: 150 PHIVVGTPGRVFDMLNRRYLSPKWIKMFVLDEADEMLSRGFKDQIYEIFQKLNTSIQVVL 209
Query: 270 FSPTFPPRVEILARK 284
S T P V + +K
Sbjct: 210 LSATMPTDVLEVTKK 224
>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 = 50.8 bits (120), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 51/199 (25%), Positives = 74/199 (37%), Gaps = 49/199 (24%)
Query: 120 IKTWRQTGLTTKILETFSKLNHENPVAIQAPASALIISGLDSVAITETGSGKTLAFLLPM 179
+ ++ L+ +L E P AIQ A I G D +A ++G+G T F + +
Sbjct: 14 VDSFDDMNLSESLLRGIYAYGFEXPSAIQQRAILPCIXGYDVIAQAQSGTGXTATFAISI 73
Query: 180 LRHIWEQXXXXXXXXXXXXXXMAPTGEL---------------------------VRQQV 212
L+ I +APT EL VR +V
Sbjct: 74 LQQI------ELDLXATQALVLAPTRELAQQIQXVVMALGDYMGASCHACIGGTNVRAEV 127
Query: 213 RR-------------GRMIDLLCKNGVKITNLTRVTYLVLDEADRMFDMGFEPQITRIVQ 259
+ GR+ D+L + + + + VLDEAD M GF QI I Q
Sbjct: 128 QXLQMEAPHIIVGTPGRVFDMLNR---RYLSPXYIXMFVLDEADEMLSRGFXDQIYDIFQ 184
Query: 260 NIRPDRQAVLFSPTFPPRV 278
+ + Q VL S T P V
Sbjct: 185 XLNSNTQVVLLSATMPSDV 203
>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 = 50.1 bits (118), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 62/230 (26%), Positives = 86/230 (37%), Gaps = 50/230 (21%)
Query: 142 ENPVAIQAPASALIISGLDSVAITETGSGKTLAFLLPMLRHIWEQXXXXXXXXXXXXXXM 201
E P AIQ A II G D +A ++G+GKT F + L+ I +
Sbjct: 43 EEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAALQRI------DTSVKAPQALML 96
Query: 202 APTGELVRQQVRRGRM-----IDL---LCKNGVKIT---------------------NLT 232
APT EL Q +++ M +D+ C G N+
Sbjct: 97 APTRELALQ-IQKVVMALAFHMDIKVHACIGGTSFVEDAEGLRDAQIVVGTPGRVFDNIQ 155
Query: 233 R-------VTYLVLDEADRMFDMGFEPQITRIVQNIRPDRQAVLFSPTFPPRVEILARKT 285
R + +LDEAD M GF+ QI +I + P Q VL S T P V
Sbjct: 156 RRRFRTDKIKMFILDEADEMLSSGFKEQIYQIFTLLPPTTQVVLLSATMPNDV------L 209
Query: 286 NVCNLSIANSVRAR-GLDEKELELVINFDAPNDYEDYVHHCCQSWLKSCA 334
V + N VR DE LE + F + E+Y + C S +
Sbjct: 210 EVTTKFMRNPVRILVKKDELTLEGIKQFYVNVEEEEYKYECLTDLYDSIS 259
Score = 37.7 bits (86), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 14/32 (43%), Positives = 24/32 (75%)
Query: 292 IANSVRARGLDEKELELVINFDAPNDYEDYVH 323
I+ + ARG+D +++ LVIN+D P + E+Y+H
Sbjct: 315 ISTDLLARGIDVQQVSLVINYDLPANKENYIH 346
>pdb|3SQW|A Chain A, Structure Of Mss116p (Nte Deletion) Bound To Ssrna And
Amp-Pnp
Length = 579
Score = 47.0 bits (110), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 48/181 (26%), Positives = 73/181 (40%), Gaps = 57/181 (31%)
Query: 160 DSVAITETGSGKTLAFLLPMLRHIWEQXXXXXXXXXXXXXXMAPTGELVRQ---QVRR-- 214
D +A +TG+GKT AFL+P+ +H+ +APT +L Q +V++
Sbjct: 62 DVIARAKTGTGKTFAFLIPIFQHLIN--TKFDSQYMVKAVIVAPTRDLALQIEAEVKKIH 119
Query: 215 ---------------------------------------GRMIDLLCKNGVKITNLTRVT 235
GR+ID+L K K V
Sbjct: 120 DMNYGLKKYACVSLVGGTDFRAAMNKMNKLRPNIVIATPGRLIDVLEKYSNKFFRF--VD 177
Query: 236 YLVLDEADRMFDMGFEPQITRI--VQNIRPDRQA-----VLFSPTFPPRVEILARKTNVC 288
Y VLDEADR+ ++GF + I + N + + A +LFS T +V+ LA N+
Sbjct: 178 YKVLDEADRLLEIGFRDDLETISGILNEKNSKSADNIKTLLFSATLDDKVQKLA--NNIM 235
Query: 289 N 289
N
Sbjct: 236 N 236
>pdb|3DKP|A Chain A, Human Dead-Box Rna-Helicase Ddx52, Conserved Domain I In
Complex With Adp
Length = 245
Score = 47.0 bits (110), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 60/244 (24%), Positives = 101/244 (41%), Gaps = 56/244 (22%)
Query: 104 RKQLDLKIREKCAPKPIKTWRQTG----LTTKILETFSKLNHENPVAIQAPASALIISGL 159
R + + ++ P PI T++Q + +++L+ + P IQ A +++ G
Sbjct: 8 RNKHKIHVQGTDLPDPIATFQQLDQEYKINSRLLQNILDAGFQMPTPIQMQAIPVMLHGR 67
Query: 160 DSVAITETGSGKTLAFLLPMLRHIWEQXXXXXXXXXXXXXXMAPTGELVRQQVRR----- 214
+ +A TGSGKTLAF +P+L + + ++PT EL Q R
Sbjct: 68 ELLASAPTGSGKTLAFSIPILMQLKQ-----PANKGFRALIISPTRELASQIHRELIKIS 122
Query: 215 -----------------------------------GRMIDLLCKNGVKITNLTRVTYLVL 239
R+I LL ++ I +L V +LV+
Sbjct: 123 EGTGFRIHMIHKAAVAAKKFGPKSSKKFDILVTTPNRLIYLLKQDPPGI-DLASVEWLVV 181
Query: 240 DEADRMFD---MGFEPQITRIVQNIRPDR-QAVLFSPTFPPRVEILARKTNVCNLSIANS 295
DE+D++F+ GF Q+ I + + +FS TF VE K N+ N+ I+ S
Sbjct: 182 DESDKLFEDGKTGFRDQLASIFLACTSHKVRRAMFSATFAYDVEQWC-KLNLDNV-ISVS 239
Query: 296 VRAR 299
+ AR
Sbjct: 240 IGAR 243
>pdb|3I5X|A Chain A, Structure Of Mss116p Bound To Ssrna And Amp-Pnp
pdb|3I5Y|A Chain A, Structure Of Mss116p Bound To Ssrna Containing A Single
5-Bru And Amp- Pnp
pdb|3I61|A Chain A, Structure Of Mss116p Bound To Ssrna And Adp-beryllium
Fluoride
pdb|3I62|A Chain A, Structure Of Mss116p Bound To Ssrna And Adp-aluminum
Fluoride
Length = 563
Score = 46.6 bits (109), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 48/181 (26%), Positives = 73/181 (40%), Gaps = 57/181 (31%)
Query: 160 DSVAITETGSGKTLAFLLPMLRHIWEQXXXXXXXXXXXXXXMAPTGELVRQ---QVRR-- 214
D +A +TG+GKT AFL+P+ +H+ +APT +L Q +V++
Sbjct: 113 DVIARAKTGTGKTFAFLIPIFQHLIN--TKFDSQYMVKAVIVAPTRDLALQIEAEVKKIH 170
Query: 215 ---------------------------------------GRMIDLLCKNGVKITNLTRVT 235
GR+ID+L K K V
Sbjct: 171 DMNYGLKKYACVSLVGGTDFRAAMNKMNKLRPNIVIATPGRLIDVLEKYSNKFFRF--VD 228
Query: 236 YLVLDEADRMFDMGFEPQITRI--VQNIRPDRQA-----VLFSPTFPPRVEILARKTNVC 288
Y VLDEADR+ ++GF + I + N + + A +LFS T +V+ LA N+
Sbjct: 229 YKVLDEADRLLEIGFRDDLETISGILNEKNSKSADNIKTLLFSATLDDKVQKLA--NNIM 286
Query: 289 N 289
N
Sbjct: 287 N 287
>pdb|3SQX|A Chain A, Structure Of Mss116p (Nte And C-Tail Double Deletion)
Bound To Ssrna And Amp-Pnp
Length = 512
Score = 46.2 bits (108), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 48/181 (26%), Positives = 73/181 (40%), Gaps = 57/181 (31%)
Query: 160 DSVAITETGSGKTLAFLLPMLRHIWEQXXXXXXXXXXXXXXMAPTGELVRQ---QVRR-- 214
D +A +TG+GKT AFL+P+ +H+ +APT +L Q +V++
Sbjct: 62 DVIARAKTGTGKTFAFLIPIFQHLIN--TKFDSQYMVKAVIVAPTRDLALQIEAEVKKIH 119
Query: 215 ---------------------------------------GRMIDLLCKNGVKITNLTRVT 235
GR+ID+L K K V
Sbjct: 120 DMNYGLKKYACVSLVGGTDFRAAMNKMNKLRPNIVIATPGRLIDVLEKYSNKFFRF--VD 177
Query: 236 YLVLDEADRMFDMGFEPQITRI--VQNIRPDRQA-----VLFSPTFPPRVEILARKTNVC 288
Y VLDEADR+ ++GF + I + N + + A +LFS T +V+ LA N+
Sbjct: 178 YKVLDEADRLLEIGFRDDLETISGILNEKNSKSADNIKTLLFSATLDDKVQKLA--NNIM 235
Query: 289 N 289
N
Sbjct: 236 N 236
>pdb|1QVA|A Chain A, Yeast Initiation Factor 4a N-Terminal Domain
Length = 223
Score = 45.8 bits (107), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 50/184 (27%), Positives = 70/184 (38%), Gaps = 43/184 (23%)
Query: 128 LTTKILETFSKLNHENPVAIQAPASALIISGLDSVAITETGSGKTLAFLLPMLRHIWEQX 187
L ++L E P AIQ A II G D +A ++G+GKT F + L+ I
Sbjct: 28 LDEQLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAALQRI---- 83
Query: 188 XXXXXXXXXXXXXMAPTGELVRQQVRRGRM-----IDL---LCKNGVKIT---------- 229
+APT EL Q +++ M +D+ C G
Sbjct: 84 --DTSVKAPQALMLAPTRELALQ-IQKVVMALAFHMDIKVHACIGGTSFVEDAEGLRDAQ 140
Query: 230 -----------NLTR-------VTYLVLDEADRMFDMGFEPQITRIVQNIRPDRQAVLFS 271
N+ R + +LDEAD M GF+ QI +I + P Q VL S
Sbjct: 141 IVVGTPGRVFDNIQRRRFRTDKIKMFILDEADEMLSSGFKEQIYQIFTLLPPTTQVVLLS 200
Query: 272 PTFP 275
T P
Sbjct: 201 ATMP 204
>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 = 45.8 bits (107), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 48/172 (27%), Positives = 66/172 (38%), Gaps = 43/172 (25%)
Query: 140 NHENPVAIQAPASALIISGLDSVAITETGSGKTLAFLLPMLRHIWEQXXXXXXXXXXXXX 199
E P AIQ A II G D +A ++G+GKT F + L+ I
Sbjct: 33 GFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAALQRI------DTSVKAPQAL 86
Query: 200 XMAPTGELVRQQVRRGRM-----IDL---LCKNGVKIT---------------------N 230
+APT EL Q +++ M +D+ C G N
Sbjct: 87 MLAPTRELALQ-IQKVVMALAFHMDIKVHACIGGTSFVEDAEGLRDAQIVVGTPGRVFDN 145
Query: 231 LTR-------VTYLVLDEADRMFDMGFEPQITRIVQNIRPDRQAVLFSPTFP 275
+ R + +LDEAD M GF+ QI +I + P Q VL S T P
Sbjct: 146 IQRRRFRTDKIKMFILDEADEMLSSGFKEQIYQIFTLLPPTTQVVLLSATMP 197
>pdb|1FUU|A Chain A, Yeast Initiation Factor 4a
pdb|1FUU|B Chain B, Yeast Initiation Factor 4a
Length = 394
Score = 45.1 bits (105), Expect = 9e-05, Method: Compositional matrix adjust.
Identities = 60/229 (26%), Positives = 80/229 (34%), Gaps = 48/229 (20%)
Query: 142 ENPVAIQAPASALIISGLDSVAITETGSGKTLAFLLPMLRHIWEQXXXXXXXXXXXXXXM 201
E P AIQ A II G D +A ++G+GKT F + L+ I +
Sbjct: 42 EEPSAIQQRAIXPIIEGHDVLAQAQSGTGKTGTFSIAALQRI------DTSVKAPQALXL 95
Query: 202 APTGELVRQQVRRGRMIDL-------LCKNGVKIT---------------------NLTR 233
APT EL Q + + C G N+ R
Sbjct: 96 APTRELALQIQKVVXALAFHXDIKVHACIGGTSFVEDAEGLRDAQIVVGTPGRVFDNIQR 155
Query: 234 -------VTYLVLDEADRMFDMGFEPQITRIVQNIRPDRQAVLFSPTFPPRVEILARKTN 286
+ +LDEAD GF+ QI +I + P Q VL S T P V
Sbjct: 156 RRFRTDKIKXFILDEADEXLSSGFKEQIYQIFTLLPPTTQVVLLSATXPNDV------LE 209
Query: 287 VCNLSIANSVRAR-GLDEKELELVINFDAPNDYEDYVHHCCQSWLKSCA 334
V N VR DE LE + F + E+Y + C S +
Sbjct: 210 VTTKFXRNPVRILVKKDELTLEGIKQFYVNVEEEEYKYECLTDLYDSIS 258
Score = 37.4 bits (85), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 14/32 (43%), Positives = 24/32 (75%)
Query: 292 IANSVRARGLDEKELELVINFDAPNDYEDYVH 323
I+ + ARG+D +++ LVIN+D P + E+Y+H
Sbjct: 314 ISTDLLARGIDVQQVSLVINYDLPANKENYIH 345
>pdb|3FHO|A Chain A, Structure Of S. Pombe Dbp5
pdb|3FHO|B Chain B, Structure Of S. Pombe Dbp5
Length = 508
Score = 42.0 bits (97), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 49/173 (28%), Positives = 69/173 (39%), Gaps = 41/173 (23%)
Query: 147 IQAPASALIISG--LDSVAITETGSGKTLAFLLPMLRHIWEQXXXXXXXXXXXXXXMAPT 204
IQ A L++S + + +++G+GKT AF L ML + +AP+
Sbjct: 145 IQEKALPLLLSNPPRNMIGQSQSGTGKTAAFALTMLSRV------DASVPKPQAICLAPS 198
Query: 205 GELVRQ----------------------QVRRGRMID---LLCKNGVKITNLTR------ 233
EL RQ V +G ID ++ G + + R
Sbjct: 199 RELARQIMDVVTEMGKYTEVKTAFGIKDSVPKGAKIDAQIVIGTPGTVMDLMKRRQLDAR 258
Query: 234 -VTYLVLDEADRMFDM-GFEPQITRIVQNIRPDRQAVLFSPTFPPRVEILARK 284
+ VLDEAD M D G Q RI + + Q VLFS TF RVE A +
Sbjct: 259 DIKVFVLDEADNMLDQQGLGDQSMRIKHLLPRNTQIVLFSATFSERVEKYAER 311
Score = 29.3 bits (64), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 11/26 (42%), Positives = 18/26 (69%)
Query: 292 IANSVRARGLDEKELELVINFDAPND 317
+ +V ARG+D ++ LV+N+D P D
Sbjct: 412 VTTNVIARGIDVSQVNLVVNYDMPLD 437
>pdb|2JGN|A Chain A, Ddx3 Helicase Domain
pdb|2JGN|B Chain B, Ddx3 Helicase Domain
pdb|2JGN|C Chain C, Ddx3 Helicase Domain
Length = 185
Score = 41.2 bits (95), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 18/32 (56%), Positives = 24/32 (75%)
Query: 292 IANSVRARGLDEKELELVINFDAPNDYEDYVH 323
+A +V ARGLD ++ VINFD P+D E+YVH
Sbjct: 101 VATAVAARGLDISNVKHVINFDLPSDIEEYVH 132
>pdb|3G0H|A Chain A, Human Dead-box Rna Helicase Ddx19, In Complex With An
Atp-analogue And Rna
Length = 424
Score = 41.2 bits (95), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 47/198 (23%), Positives = 84/198 (42%), Gaps = 32/198 (16%)
Query: 120 IKTWRQTGLTTKILETFSKLNHENPVAIQAPASALIISG--LDSVAITETGSGKTLAFLL 177
+K++ + L ++L+ + P IQ A L+++ + +A +++G+GKT AF+L
Sbjct: 40 VKSFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVL 99
Query: 178 PMLRHIWEQXXXXXXXXXXXXXXMA-PTGELVRQ-----------------QVRRGRMID 219
ML + +A TG+++ Q ++ RG+ I
Sbjct: 100 AMLSQVEPANKYPQCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLERGQKIS 159
Query: 220 -----------LLCKNGVKITNLTRVTYLVLDEADRMF-DMGFEPQITRIVQNIRPDRQA 267
L + +K + ++ VLDEAD M G + Q RI + + + Q
Sbjct: 160 EQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRMLPRNCQM 219
Query: 268 VLFSPTFPPRVEILARKT 285
+LFS TF V A+K
Sbjct: 220 LLFSATFEDSVWKFAQKV 237
Score = 31.2 bits (69), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 18/45 (40%), Positives = 24/45 (53%), Gaps = 15/45 (33%)
Query: 285 TNVCNLSIANSVRARGLDEKELELVINFDAP------NDYEDYVH 323
TNVC ARG+D +++ +VINFD P D E Y+H
Sbjct: 339 TNVC---------ARGIDVEQVSVVINFDLPVDKDGNPDNETYLH 374
>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 = 41.2 bits (95), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 47/198 (23%), Positives = 84/198 (42%), Gaps = 32/198 (16%)
Query: 120 IKTWRQTGLTTKILETFSKLNHENPVAIQAPASALIISG--LDSVAITETGSGKTLAFLL 177
+K++ + L ++L+ + P IQ A L+++ + +A +++G+GKT AF+L
Sbjct: 61 VKSFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVL 120
Query: 178 PMLRHIWEQXXXXXXXXXXXXXXMA-PTGELVRQ-----------------QVRRGRMID 219
ML + +A TG+++ Q ++ RG+ I
Sbjct: 121 AMLSQVEPANKYPQCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLERGQKIS 180
Query: 220 -----------LLCKNGVKITNLTRVTYLVLDEADRMF-DMGFEPQITRIVQNIRPDRQA 267
L + +K + ++ VLDEAD M G + Q RI + + + Q
Sbjct: 181 EQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRMLPRNCQM 240
Query: 268 VLFSPTFPPRVEILARKT 285
+LFS TF V A+K
Sbjct: 241 LLFSATFEDSVWKFAQKV 258
Score = 31.2 bits (69), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 18/45 (40%), Positives = 24/45 (53%), Gaps = 15/45 (33%)
Query: 285 TNVCNLSIANSVRARGLDEKELELVINFDAP------NDYEDYVH 323
TNVC ARG+D +++ +VINFD P D E Y+H
Sbjct: 360 TNVC---------ARGIDVEQVSVVINFDLPVDKDGNPDNETYLH 395
>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 = 41.2 bits (95), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 47/198 (23%), Positives = 84/198 (42%), Gaps = 32/198 (16%)
Query: 120 IKTWRQTGLTTKILETFSKLNHENPVAIQAPASALIISG--LDSVAITETGSGKTLAFLL 177
+K++ + L ++L+ + P IQ A L+++ + +A +++G+GKT AF+L
Sbjct: 24 VKSFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVL 83
Query: 178 PMLRHIWEQXXXXXXXXXXXXXXMA-PTGELVRQ-----------------QVRRGRMID 219
ML + +A TG+++ Q ++ RG+ I
Sbjct: 84 AMLSQVEPANKYPQCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLERGQKIS 143
Query: 220 -----------LLCKNGVKITNLTRVTYLVLDEADRMF-DMGFEPQITRIVQNIRPDRQA 267
L + +K + ++ VLDEAD M G + Q RI + + + Q
Sbjct: 144 EQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRMLPRNCQM 203
Query: 268 VLFSPTFPPRVEILARKT 285
+LFS TF V A+K
Sbjct: 204 LLFSATFEDSVWKFAQKV 221
Score = 31.2 bits (69), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 18/45 (40%), Positives = 24/45 (53%), Gaps = 15/45 (33%)
Query: 285 TNVCNLSIANSVRARGLDEKELELVINFDAP------NDYEDYVH 323
TNVC ARG+D +++ +VINFD P D E Y+H
Sbjct: 323 TNVC---------ARGIDVEQVSVVINFDLPVDKDGNPDNETYLH 358
>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 = 40.8 bits (94), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 47/198 (23%), Positives = 84/198 (42%), Gaps = 32/198 (16%)
Query: 120 IKTWRQTGLTTKILETFSKLNHENPVAIQAPASALIISG--LDSVAITETGSGKTLAFLL 177
+K++ + L ++L+ + P IQ A L+++ + +A +++G+GKT AF+L
Sbjct: 91 VKSFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVL 150
Query: 178 PMLRHIWEQXXXXXXXXXXXXXXMA-PTGELVRQ-----------------QVRRGRMID 219
ML + +A TG+++ Q ++ RG+ I
Sbjct: 151 AMLSQVEPANKYPQCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLERGQKIS 210
Query: 220 -----------LLCKNGVKITNLTRVTYLVLDEADRMF-DMGFEPQITRIVQNIRPDRQA 267
L + +K + ++ VLDEAD M G + Q RI + + + Q
Sbjct: 211 EQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRMLPRNCQM 270
Query: 268 VLFSPTFPPRVEILARKT 285
+LFS TF V A+K
Sbjct: 271 LLFSATFEDSVWKFAQKV 288
Score = 31.2 bits (69), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 18/45 (40%), Positives = 24/45 (53%), Gaps = 15/45 (33%)
Query: 285 TNVCNLSIANSVRARGLDEKELELVINFDAP------NDYEDYVH 323
TNVC ARG+D +++ +VINFD P D E Y+H
Sbjct: 390 TNVC---------ARGIDVEQVSVVINFDLPVDKDGNPDNETYLH 425
>pdb|3FHC|B Chain B, Crystal Structure Of Human Dbp5 In Complex With Nup214
Length = 235
Score = 40.4 bits (93), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 47/198 (23%), Positives = 84/198 (42%), Gaps = 32/198 (16%)
Query: 120 IKTWRQTGLTTKILETFSKLNHENPVAIQAPASALIIS--GLDSVAITETGSGKTLAFLL 177
+K++ + L ++L+ + P IQ A L+++ + +A +++G+GKT AF+L
Sbjct: 24 VKSFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVL 83
Query: 178 PMLRHIWEQXXXXXXXXXXXXXXMA-PTGELVRQ-----------------QVRRGRMID 219
ML + +A TG+++ Q ++ RG+ I
Sbjct: 84 AMLSQVEPANKYPQCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLERGQKIS 143
Query: 220 -----------LLCKNGVKITNLTRVTYLVLDEADRMF-DMGFEPQITRIVQNIRPDRQA 267
L + +K + ++ VLDEAD M G + Q RI + + + Q
Sbjct: 144 EQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRMLPRNCQM 203
Query: 268 VLFSPTFPPRVEILARKT 285
+LFS TF V A+K
Sbjct: 204 LLFSATFEDSVWKFAQKV 221
>pdb|3FMO|B Chain B, Crystal Structure Of The Nucleoporin Nup214 In Complex
With The Dead- Box Helicase Ddx19
Length = 300
Score = 40.0 bits (92), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 47/198 (23%), Positives = 84/198 (42%), Gaps = 32/198 (16%)
Query: 120 IKTWRQTGLTTKILETFSKLNHENPVAIQAPASALIIS--GLDSVAITETGSGKTLAFLL 177
+K++ + L ++L+ + P IQ A L+++ + +A +++G+GKT AF+L
Sbjct: 91 VKSFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVL 150
Query: 178 PMLRHIWEQXXXXXXXXXXXXXXMA-PTGELVRQ-----------------QVRRGRMID 219
ML + +A TG+++ Q ++ RG+ I
Sbjct: 151 AMLSQVEPANKYPQCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLERGQKIS 210
Query: 220 -----------LLCKNGVKITNLTRVTYLVLDEADRMF-DMGFEPQITRIVQNIRPDRQA 267
L + +K + ++ VLDEAD M G + Q RI + + + Q
Sbjct: 211 EQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRMLPRNCQM 270
Query: 268 VLFSPTFPPRVEILARKT 285
+LFS TF V A+K
Sbjct: 271 LLFSATFEDSVWKFAQKV 288
>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 = 39.3 bits (90), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 44/193 (22%), Positives = 63/193 (32%), Gaps = 46/193 (23%)
Query: 132 ILETFSKLNHENPVAIQAPASALIISGLDSVAITETGSGKTLAFLLPMLRHIWEQXXXXX 191
I+E L P IQ + G V ++TG+GKT A+LLP+ I +
Sbjct: 15 IIEAIKTLRFYKPTEIQERIIPGALRGESXVGQSQTGTGKTHAYLLPIXEKIKPERAEVQ 74
Query: 192 XXXXXXXXXMAPTGELVRQQVRRGRMIDLLCKNGVKIT---------------------- 229
APT EL Q I C I
Sbjct: 75 AVI------TAPTRELATQIYHETLKITKFCPKDRXIVARCLIGGTDKQKALEKLNVQPH 128
Query: 230 ------------------NLTRVTYLVLDEADRMFDMGFEPQITRIVQNIRPDRQAVLFS 271
++ LV+DEAD D GF + +I D Q ++FS
Sbjct: 129 IVIGTPGRINDFIREQALDVHTAHILVVDEADLXLDXGFITDVDQIAARXPKDLQXLVFS 188
Query: 272 PTFPPRVEILARK 284
T P +++ +K
Sbjct: 189 ATIPEKLKPFLKK 201
>pdb|1T5I|A Chain A, Crystal Structure Of The C-Terminal Domain Of Uap56
Length = 172
Score = 37.7 bits (86), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 23/73 (31%), Positives = 39/73 (53%), Gaps = 6/73 (8%)
Query: 292 IANSVRARGLDEKELELVINFDAPNDYEDYVHHCCQS---WLKSCAFRFISEEN-AIYAT 347
+A ++ RG+D + + + N+D P D + Y+H ++ K A F+S+EN A
Sbjct: 86 VATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKGLAITFVSDENDAKILN 145
Query: 348 DLVKAFE--LSEL 358
D+ FE +SEL
Sbjct: 146 DVQDRFEVNISEL 158
>pdb|1XTK|A Chain A, Structure Of Decd To Dead Mutation Of Human Uap56
Length = 390
Score = 37.7 bits (86), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 23/73 (31%), Positives = 39/73 (53%), Gaps = 6/73 (8%)
Query: 292 IANSVRARGLDEKELELVINFDAPNDYEDYVHHCCQS---WLKSCAFRFISEEN-AIYAT 347
+A ++ RG+D + + + N+D P D + Y+H ++ K A F+S+EN A
Sbjct: 304 VATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKGLAITFVSDENDAKILN 363
Query: 348 DLVKAFE--LSEL 358
D+ FE +SEL
Sbjct: 364 DVQDRFEVNISEL 376
Score = 32.3 bits (72), Expect = 0.60, Method: Compositional matrix adjust.
Identities = 17/68 (25%), Positives = 31/68 (45%)
Query: 116 APKPIKTWRQTGLTTKILETFSKLNHENPVAIQAPASALIISGLDSVAITETGSGKTLAF 175
+P + +R L ++L E+P +Q I G+D + ++G GKT F
Sbjct: 2 SPGHMSGFRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVF 61
Query: 176 LLPMLRHI 183
+L L+ +
Sbjct: 62 VLATLQQL 69
Score = 31.2 bits (69), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 20/71 (28%), Positives = 37/71 (52%), Gaps = 4/71 (5%)
Query: 215 GRMIDLLCKNGVKITNLTRVTYLVLDEADRMFD-MGFEPQITRIVQNIRPDRQAVLFSPT 273
GR++ L +N K NL + + +LDEAD+M + + + I + ++Q ++FS T
Sbjct: 136 GRIL-ALARN--KSLNLKHIKHFILDEADKMLEQLDMRRDVQEIFRMTPHEKQVMMFSAT 192
Query: 274 FPPRVEILARK 284
+ + RK
Sbjct: 193 LSKEIRPVCRK 203
>pdb|1XTI|A Chain A, Structure Of Wildtype Human Uap56
Length = 391
Score = 37.7 bits (86), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 23/73 (31%), Positives = 39/73 (53%), Gaps = 6/73 (8%)
Query: 292 IANSVRARGLDEKELELVINFDAPNDYEDYVHHCCQS---WLKSCAFRFISEEN-AIYAT 347
+A ++ RG+D + + + N+D P D + Y+H ++ K A F+S+EN A
Sbjct: 305 VATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKGLAITFVSDENDAKILN 364
Query: 348 DLVKAFE--LSEL 358
D+ FE +SEL
Sbjct: 365 DVQDRFEVNISEL 377
Score = 30.4 bits (67), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 16/61 (26%), Positives = 28/61 (45%)
Query: 123 WRQTGLTTKILETFSKLNHENPVAIQAPASALIISGLDSVAITETGSGKTLAFLLPMLRH 182
+R L ++L E+P +Q I G+D + ++G GKT F+L L+
Sbjct: 10 FRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQ 69
Query: 183 I 183
+
Sbjct: 70 L 70
Score = 29.6 bits (65), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 19/71 (26%), Positives = 36/71 (50%), Gaps = 4/71 (5%)
Query: 215 GRMIDLLCKNGVKITNLTRVTYLVLDEADRMFD-MGFEPQITRIVQNIRPDRQAVLFSPT 273
GR++ L +N K NL + + +LDE D+M + + + I + ++Q ++FS T
Sbjct: 137 GRIL-ALARN--KSLNLKHIKHFILDECDKMLEQLDMRRDVQEIFRMTPHEKQVMMFSAT 193
Query: 274 FPPRVEILARK 284
+ + RK
Sbjct: 194 LSKEIRPVCRK 204
>pdb|1XTJ|A Chain A, Structure Of Human Uap56 In Complex With Adp
Length = 386
Score = 37.7 bits (86), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 23/73 (31%), Positives = 39/73 (53%), Gaps = 6/73 (8%)
Query: 292 IANSVRARGLDEKELELVINFDAPNDYEDYVHHCCQS---WLKSCAFRFISEEN-AIYAT 347
+A ++ RG+D + + + N+D P D + Y+H ++ K A F+S+EN A
Sbjct: 305 VATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKGLAITFVSDENDAKILN 364
Query: 348 DLVKAFE--LSEL 358
D+ FE +SEL
Sbjct: 365 DVQDRFEVNISEL 377
Score = 30.4 bits (67), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 16/61 (26%), Positives = 28/61 (45%)
Query: 123 WRQTGLTTKILETFSKLNHENPVAIQAPASALIISGLDSVAITETGSGKTLAFLLPMLRH 182
+R L ++L E+P +Q I G+D + ++G GKT F+L L+
Sbjct: 10 FRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQ 69
Query: 183 I 183
+
Sbjct: 70 L 70
Score = 29.6 bits (65), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 15/59 (25%), Positives = 29/59 (49%), Gaps = 1/59 (1%)
Query: 227 KITNLTRVTYLVLDEADRMFD-MGFEPQITRIVQNIRPDRQAVLFSPTFPPRVEILARK 284
K NL + + +LDE D+M + + + I + ++Q ++FS T + + RK
Sbjct: 146 KSLNLKHIKHFILDECDKMLEQLDMRRDVQEIFRMTPHEKQVMMFSATLSKEIRPVCRK 204
>pdb|2RB4|A Chain A, Crystal Structure Of The Helicase Domain Of Human Ddx25
Rna Helicase
pdb|2RB4|B Chain B, Crystal Structure Of The Helicase Domain Of Human Ddx25
Rna Helicase
Length = 175
Score = 37.4 bits (85), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 26/75 (34%), Positives = 38/75 (50%), Gaps = 9/75 (12%)
Query: 258 VQNIRPDRQAVLFSP--TFPPRVEILAR-KTNVCNLSIANSVRARGLDEKELELVINFDA 314
V+ I+ Q L S T R I+ R + + I +V ARG+D K++ +V+NFD
Sbjct: 52 VEMIQDGHQVSLLSGELTVEQRASIIQRFRDGKEKVLITTNVCARGIDVKQVTIVVNFDL 111
Query: 315 PN------DYEDYVH 323
P DYE Y+H
Sbjct: 112 PVKQGEEPDYETYLH 126
>pdb|1FUK|A Chain A, Crystal Structure Of The Carboxy Terminal Domain Of Yeast
Eif4a
Length = 165
Score = 37.0 bits (84), Expect = 0.024, Method: Compositional matrix adjust.
Identities = 14/32 (43%), Positives = 24/32 (75%)
Query: 292 IANSVRARGLDEKELELVINFDAPNDYEDYVH 323
I+ + ARG+D +++ LVIN+D P + E+Y+H
Sbjct: 85 ISTDLLARGIDVQQVSLVINYDLPANKENYIH 116
>pdb|2HJV|A Chain A, Structure Of The Second Domain (Residues 207-368) Of The
Bacillus Subtilis Yxin Protein
pdb|2HJV|B Chain B, Structure Of The Second Domain (Residues 207-368) Of The
Bacillus Subtilis Yxin Protein
Length = 163
Score = 37.0 bits (84), Expect = 0.028, Method: Compositional matrix adjust.
Identities = 16/32 (50%), Positives = 22/32 (68%)
Query: 292 IANSVRARGLDEKELELVINFDAPNDYEDYVH 323
+A V ARG+D + + LVIN+D P + E YVH
Sbjct: 90 VATDVAARGIDIENISLVINYDLPLEKESYVH 121
>pdb|2P6N|A Chain A, Human Dead-box Rna Helicase Ddx41, Helicase Domain
pdb|2P6N|B Chain B, Human Dead-box Rna Helicase Ddx41, Helicase Domain
Length = 191
Score = 35.8 bits (81), Expect = 0.061, Method: Compositional matrix adjust.
Identities = 14/35 (40%), Positives = 24/35 (68%)
Query: 289 NLSIANSVRARGLDEKELELVINFDAPNDYEDYVH 323
++ +A V ++GLD ++ VIN+D P + E+YVH
Sbjct: 106 DVLVATDVASKGLDFPAIQHVINYDMPEEIENYVH 140
>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 = 33.9 bits (76), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 41/179 (22%), Positives = 66/179 (36%), Gaps = 31/179 (17%)
Query: 128 LTTKILETFSKLNHENPVAIQAPASALIISGLDSVAITETGSGKTLAF------------ 175
L+ +LE E P +Q A L GLD + ++G+GKT F
Sbjct: 31 LSRPVLEGLRAAGFERPSPVQLKAIPLGRCGLDLIVQAKSGTGKTCVFSTIALDSLVLEN 90
Query: 176 ------LLPMLRHIWEQXXXXXXXXXXXXXXMAP----TGELVRQQVRRGRMIDLLCKNG 225
+L R I Q + G + Q R + + +
Sbjct: 91 LSTQILILAPTREIAVQIHSVITAIGIKMEGLECHVFIGGTPLSQDKTRLKKCHIAVGSP 150
Query: 226 VKITNLTRVTYL--------VLDEADRMFDMG-FEPQITRIVQNIRPDRQAVLFSPTFP 275
+I L + YL +LDEAD++ + G F+ QI I ++ +Q + S T+P
Sbjct: 151 GRIKQLIELDYLNPGSIRLFILDEADKLLEEGSFQEQINWIYSSLPASKQMLAVSATYP 209
>pdb|2YJT|D Chain D, Crystal Structure Of E. Coli Dead-Box Protein Srmb Bound
To Regulator Of Ribonuclease Activity A (Rraa)
Length = 170
Score = 33.1 bits (74), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 14/41 (34%), Positives = 23/41 (56%)
Query: 288 CNLSIANSVRARGLDEKELELVINFDAPNDYEDYVHHCCQS 328
N+ +A V ARG+D ++ V NFD P + Y+H ++
Sbjct: 81 VNVLVATDVAARGIDIPDVSHVFNFDMPRSGDTYLHRIGRT 121
>pdb|2WAX|A Chain A, Structure Of The Human Ddx6 C-Terminal Domain In Complex
With An Edc3-Fdf Peptide
pdb|2WAX|C Chain C, Structure Of The Human Ddx6 C-Terminal Domain In Complex
With An Edc3-Fdf Peptide
pdb|2WAY|A Chain A, Structure Of The Human Ddx6 C-Terminal Domain In Complex
With An Edc3-Fdf Peptide
pdb|2WAY|C Chain C, Structure Of The Human Ddx6 C-Terminal Domain In Complex
With An Edc3-Fdf Peptide
Length = 193
Score = 31.6 bits (70), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 13/40 (32%), Positives = 22/40 (55%)
Query: 284 KTNVCNLSIANSVRARGLDEKELELVINFDAPNDYEDYVH 323
+ +C + + RG+D + + +VINFD P E Y+H
Sbjct: 91 RNGLCRNLVCTDLFTRGIDIQAVNVVINFDFPKLAETYLH 130
>pdb|3I32|A Chain A, Dimeric Structure Of A Hera Helicase Fragment Including
The C-Terminal Reca Domain, The Dimerization Domain, And
The Rna Binding Domain
Length = 300
Score = 31.2 bits (69), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 13/32 (40%), Positives = 21/32 (65%)
Query: 292 IANSVRARGLDEKELELVINFDAPNDYEDYVH 323
+A V ARGLD +++LV+++ P+ E Y H
Sbjct: 83 VATDVAARGLDIPQVDLVVHYRMPDRAEAYQH 114
>pdb|3EAQ|A Chain A, Novel Dimerization Motif In The Dead Box Rna Helicase Hera
Form 2, Complete Dimer, Symmetric
pdb|3EAQ|B Chain B, Novel Dimerization Motif In The Dead Box Rna Helicase Hera
Form 2, Complete Dimer, Symmetric
pdb|3EAR|A Chain A, Novel Dimerization Motif In The Dead Box Rna Helicase
Hera: Form 1, Partial Dimer
pdb|3EAR|B Chain B, Novel Dimerization Motif In The Dead Box Rna Helicase
Hera: Form 1, Partial Dimer
pdb|3EAS|A Chain A, Novel Dimerization Motif In The Dead Box Rna Helicase
Hera: Form 1, Complete Dimer, Asymmetric
pdb|3EAS|B Chain B, Novel Dimerization Motif In The Dead Box Rna Helicase
Hera: Form 1, Complete Dimer, Asymmetric
Length = 212
Score = 30.4 bits (67), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 13/32 (40%), Positives = 21/32 (65%)
Query: 292 IANSVRARGLDEKELELVINFDAPNDYEDYVH 323
+A V ARGLD +++LV+++ P+ E Y H
Sbjct: 86 VATDVAARGLDIPQVDLVVHYRLPDRAEAYQH 117
>pdb|2KBF|A Chain A, Solution Structure Of Carboxyl-Terminal Domain Of Dbp5p
Length = 187
Score = 30.4 bits (67), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 17/61 (27%), Positives = 30/61 (49%), Gaps = 9/61 (14%)
Query: 292 IANSVRARGLDEKELELVINFDAPN------DYEDYVHHCCQS---WLKSCAFRFISEEN 342
I +V ARG+D + +V+N+D P D Y+H ++ K A F+ ++N
Sbjct: 90 ITTNVLARGIDIPTVSMVVNYDLPTLANGQADPATYIHRIGRTGRFGRKGVAISFVHDKN 149
Query: 343 A 343
+
Sbjct: 150 S 150
>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 = 30.0 bits (66), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 16/61 (26%), Positives = 28/61 (45%)
Query: 123 WRQTGLTTKILETFSKLNHENPVAIQAPASALIISGLDSVAITETGSGKTLAFLLPMLRH 182
+R L ++L E+P +Q I G+D + ++G GKT F+L L+
Sbjct: 16 FRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQ 75
Query: 183 I 183
+
Sbjct: 76 L 76
Score = 30.0 bits (66), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 15/59 (25%), Positives = 29/59 (49%), Gaps = 1/59 (1%)
Query: 227 KITNLTRVTYLVLDEADRMFD-MGFEPQITRIVQNIRPDRQAVLFSPTFPPRVEILARK 284
K NL + + +LDE D+M + + + I + ++Q ++FS T + + RK
Sbjct: 152 KSLNLKHIKHFILDECDKMLEQLDMRRDVQEIFRMTPHEKQVMMFSATLSKEIRPVCRK 210
>pdb|4DJI|A Chain A, Structure Of Glutamate-Gaba Antiporter Gadc
pdb|4DJI|B Chain B, Structure Of Glutamate-Gaba Antiporter Gadc
pdb|4DJK|A Chain A, Structure Of Glutamate-Gaba Antiporter Gadc
pdb|4DJK|B Chain B, Structure Of Glutamate-Gaba Antiporter Gadc
Length = 511
Score = 28.9 bits (63), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 14/44 (31%), Positives = 27/44 (61%), Gaps = 1/44 (2%)
Query: 136 FSKLNHENPVAIQAPASALIISGLDSVAITETGSGKTLAFLLPM 179
F+K+N +N V + S L+I+ + + +T TG G ++FL+ +
Sbjct: 329 FAKMN-KNGVPVTLVISQLVITSIALIILTNTGGGNNMSFLIAL 371
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 0.135 0.392
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,745,294
Number of Sequences: 62578
Number of extensions: 406566
Number of successful extensions: 1054
Number of sequences better than 100.0: 61
Number of HSP's better than 100.0 without gapping: 55
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 926
Number of HSP's gapped (non-prelim): 126
length of query: 494
length of database: 14,973,337
effective HSP length: 103
effective length of query: 391
effective length of database: 8,527,803
effective search space: 3334370973
effective search space used: 3334370973
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 53 (25.0 bits)