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= psy17912
(779 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 = 320 bits (821), Expect = 1e-87, Method: Compositional matrix adjust.
Identities = 154/264 (58%), Positives = 190/264 (71%), Gaps = 12/264 (4%)
Query: 75 QINKNLYTPNHLTVSRSQGEVESYLNHHDVTVKGRYYLLRLESRPGKCVPRPIQHFEECN 134
+ KN Y + R+ EVE+Y ++TV+G C P+P+ +F E N
Sbjct: 2 KFEKNFYQEHPDLARRTAQEVETYRRSKEITVRGH-----------NC-PKPVLNFYEAN 49
Query: 135 FPPYIMKKIYEMGFQAPTAIQAQGWPIALSGCDLVAIAKTGSGKTLGYIAPAIVHVNSQR 194
FP +M I F PTAIQAQGWP+ALSG D+V +A+TGSGKTL Y+ PAIVH+N Q
Sbjct: 50 FPANVMDVIARQNFTEPTAIQAQGWPVALSGLDMVGVAQTGSGKTLSYLLPAIVHINHQP 109
Query: 195 PLRSGEGPIVLVLAPTRELAQQIETVANDFGSATATRVACVFGGAPKGPQVKALQTGAEI 254
L G+GPI LVLAPTRELAQQ++ VA ++ A + C++GGAPKGPQ++ L+ G EI
Sbjct: 110 FLERGDGPICLVLAPTRELAQQVQQVAAEYCRACRLKSTCIYGGAPKGPQIRDLERGVEI 169
Query: 255 VIATPGRLIDYLEQGTINLHRTSYLVLDEADRMLDMGFEPQIRKIIGQIRPDRQVLMWSA 314
IATPGRLID+LE G NL RT+YLVLDEADRMLDMGFEPQIRKI+ QIRPDRQ LMWSA
Sbjct: 170 CIATPGRLIDFLECGKTNLRRTTYLVLDEADRMLDMGFEPQIRKIVDQIRPDRQTLMWSA 229
Query: 315 TWPKEVQKLAEDFLVDYVQLNIGS 338
TWPKEV++LAEDFL DY+ +NIG+
Sbjct: 230 TWPKEVRQLAEDFLKDYIHINIGA 253
>pdb|3FE2|A Chain A, Human Dead-Box Rna Helicase Ddx5 (P68), Conserved Domain I
In Complex With Adp
pdb|3FE2|B Chain B, Human Dead-Box Rna Helicase Ddx5 (P68), Conserved Domain I
In Complex With Adp
Length = 242
Score = 318 bits (816), Expect = 5e-87, Method: Compositional matrix adjust.
Identities = 152/250 (60%), Positives = 186/250 (74%), Gaps = 12/250 (4%)
Query: 90 RSQGEVESYLNHHDVTVKGRYYLLRLESRPGKCVPRPIQHFEECNFPPYIMKKIYEMGFQ 149
R+ EVE+Y ++TV+G C P+P+ +F E NFP +M I F
Sbjct: 3 RTAQEVETYRRSKEITVRGH-----------NC-PKPVLNFYEANFPANVMDVIARQNFT 50
Query: 150 APTAIQAQGWPIALSGCDLVAIAKTGSGKTLGYIAPAIVHVNSQRPLRSGEGPIVLVLAP 209
PTAIQAQGWP+ALSG D+V +A+TGSGKTL Y+ PAIVH+N Q L G+GPI LVLAP
Sbjct: 51 EPTAIQAQGWPVALSGLDMVGVAQTGSGKTLSYLLPAIVHINHQPFLERGDGPICLVLAP 110
Query: 210 TRELAQQIETVANDFGSATATRVACVFGGAPKGPQVKALQTGAEIVIATPGRLIDYLEQG 269
TRELAQQ++ VA ++ A + C++GGAPKGPQ++ L+ G EI IATPGRLID+LE G
Sbjct: 111 TRELAQQVQQVAAEYCRACRLKSTCIYGGAPKGPQIRDLERGVEICIATPGRLIDFLECG 170
Query: 270 TINLHRTSYLVLDEADRMLDMGFEPQIRKIIGQIRPDRQVLMWSATWPKEVQKLAEDFLV 329
NL RT+YLVLDEADRMLDMGFEPQIRKI+ QIRPDRQ LMWSATWPKEV++LAEDFL
Sbjct: 171 KTNLRRTTYLVLDEADRMLDMGFEPQIRKIVDQIRPDRQTLMWSATWPKEVRQLAEDFLK 230
Query: 330 DYVQLNIGSL 339
DY+ +NIG+L
Sbjct: 231 DYIHINIGAL 240
>pdb|2I4I|A Chain A, Crystal Structure Of Human Dead-Box Rna Helicase Ddx3x
Length = 417
Score = 237 bits (604), Expect = 2e-62, Method: Compositional matrix adjust.
Identities = 137/329 (41%), Positives = 194/329 (58%), Gaps = 20/329 (6%)
Query: 120 GKCVPRPIQHFEECNFPPYIMKKIYEMGFQAPTAIQAQGWPIALSGCDLVAIAKTGSGKT 179
G P I+ F + IM I + PT +Q PI DL+A A+TGSGKT
Sbjct: 7 GNNCPPHIESFSDVEMGEIIMGNIELTRYTRPTPVQKHAIPIIKEKRDLMACAQTGSGKT 66
Query: 180 LGYIAPAIVHVNSQRPL-------------RSGEGPIVLVLAPTRELAQQIETVANDFGS 226
++ P + + S P R + PI LVLAPTRELA QI A F
Sbjct: 67 AAFLLPILSQIYSDGPGEALRAMKENGRYGRRKQYPISLVLAPTRELAVQIYEEARKFSY 126
Query: 227 ATATRVACVFGGAPKGPQVKALQTGAEIVIATPGRLIDYLEQGTINLHRTSYLVLDEADR 286
+ R V+GGA G Q++ L+ G +++ATPGRL+D +E+G I L YLVLDEADR
Sbjct: 127 RSRVRPCVVYGGADIGQQIRDLERGCHLLVATPGRLVDMMERGKIGLDFCKYLVLDEADR 186
Query: 287 MLDMGFEPQIRKIIGQ--IRPD--RQVLMWSATWPKEVQKLAEDFLVDYVQLNIGSLNPT 342
MLDMGFEPQIR+I+ Q + P R +M+SAT+PKE+Q LA DFL +Y+ L +G + T
Sbjct: 187 MLDMGFEPQIRRIVEQDTMPPKGVRHTMMFSATFPKEIQMLARDFLDEYIFLAVGRVGST 246
Query: 343 ANHNIVQIVDVCQEHEKDYKLQGLLSQIGSERTSKTIIFVETKRKADDITRSVRNKGWAA 402
+ NI Q V +E +K L LL+ G + S T++FVETK+ AD + + ++G+A
Sbjct: 247 SE-NITQKVVWVEESDKRSFLLDLLNATGKD--SLTLVFVETKKGADSLEDFLYHEGYAC 303
Query: 403 VAIHGNKSQQERDRVLNEFRIGRASILVS 431
+IHG++SQ++R+ L++FR G++ ILV+
Sbjct: 304 TSIHGDRSQRDREEALHQFRSGKSPILVA 332
Score = 29.3 bits (64), Expect = 8.5, Method: Compositional matrix adjust.
Identities = 11/26 (42%), Positives = 21/26 (80%)
Query: 484 HYNKSQQERDRVLNEFRIGRASILVS 509
H ++SQ++R+ L++FR G++ ILV+
Sbjct: 307 HGDRSQRDREEALHQFRSGKSPILVA 332
Score = 29.3 bits (64), Expect = 8.5, Method: Compositional matrix adjust.
Identities = 11/26 (42%), Positives = 21/26 (80%)
Query: 510 HYNKSQQERDRVLNEFRIGRASILVS 535
H ++SQ++R+ L++FR G++ ILV+
Sbjct: 307 HGDRSQRDREEALHQFRSGKSPILVA 332
Score = 29.3 bits (64), Expect = 8.5, Method: Compositional matrix adjust.
Identities = 11/26 (42%), Positives = 21/26 (80%)
Query: 536 HYNKSQQERDRVLNEFRIGRASILVS 561
H ++SQ++R+ L++FR G++ ILV+
Sbjct: 307 HGDRSQRDREEALHQFRSGKSPILVA 332
Score = 29.3 bits (64), Expect = 8.5, Method: Compositional matrix adjust.
Identities = 11/26 (42%), Positives = 21/26 (80%)
Query: 562 HYNKSQQERDRVLNEFRIGRASILVS 587
H ++SQ++R+ L++FR G++ ILV+
Sbjct: 307 HGDRSQRDREEALHQFRSGKSPILVA 332
Score = 29.3 bits (64), Expect = 8.5, Method: Compositional matrix adjust.
Identities = 11/26 (42%), Positives = 21/26 (80%)
Query: 588 HYNKSQQERDRVLNEFRIGRASILVS 613
H ++SQ++R+ L++FR G++ ILV+
Sbjct: 307 HGDRSQRDREEALHQFRSGKSPILVA 332
Score = 29.3 bits (64), Expect = 8.5, Method: Compositional matrix adjust.
Identities = 11/26 (42%), Positives = 21/26 (80%)
Query: 614 HYNKSQQERDRVLNEFRIGRASILVS 639
H ++SQ++R+ L++FR G++ ILV+
Sbjct: 307 HGDRSQRDREEALHQFRSGKSPILVA 332
Score = 29.3 bits (64), Expect = 8.5, Method: Compositional matrix adjust.
Identities = 11/26 (42%), Positives = 21/26 (80%)
Query: 640 HYNKSQQERDRVLNEFRIGRASILVS 665
H ++SQ++R+ L++FR G++ ILV+
Sbjct: 307 HGDRSQRDREEALHQFRSGKSPILVA 332
>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 = 213 bits (542), Expect = 3e-55, Method: Compositional matrix adjust.
Identities = 119/315 (37%), Positives = 188/315 (59%), Gaps = 9/315 (2%)
Query: 120 GKCVPRPIQHFEECNFPPYIMKKIYEMGFQAPTAIQAQGWPIALSGCDLVAIAKTGSGKT 179
G VP+PIQHF + I+ + + G++ PT IQ P+ SG DL+A A+TGSGKT
Sbjct: 48 GSDVPQPIQHFTSADLRDIIIDNVNKSGYKIPTPIQKCSIPVISSGRDLMACAQTGSGKT 107
Query: 180 LGYIAPAIVHV-NSQRPLRSGEGPIVLVLAPTRELAQQIETVANDFGSATATRVACVFGG 238
++ P + + L G P V++++PTRELA QI A F + ++ V+GG
Sbjct: 108 AAFLLPILSKLLEDPHELELGR-PQVVIVSPTRELAIQIFNEARKFAFESYLKIGIVYGG 166
Query: 239 APKGPQVKALQTGAEIVIATPGRLIDYLEQGTINLHRTSYLVLDEADRMLDMGFEPQIRK 298
Q + + G +VIATPGRL+D++++ I T ++VLDEADRMLDMGF +R+
Sbjct: 167 TSFRHQNECITRGCHVVIATPGRLLDFVDRTFITFEDTRFVVLDEADRMLDMGFSEDMRR 226
Query: 299 IIGQI--RPDRQVLMWSATWPKEVQKLAEDFLVDYVQLNIGSLNPTANHNIVQIVDVCQE 356
I+ + RP+ Q LM+SAT+P+E+Q++A +FL +YV + IG + A ++ Q + +
Sbjct: 227 IMTHVTMRPEHQTLMFSATFPEEIQRMAGEFLKNYVFVAIGIVG-GACSDVKQTIYEVNK 285
Query: 357 HEKDYKLQGLLSQIGSERTSKTIIFVETKRKADDITRSVRNKGWAAVAIHGNKSQQERDR 416
+ K KL +L SE+ TI+FVETKR AD + + K + +IHG++ Q +R++
Sbjct: 286 YAKRSKLIEIL----SEQADGTIVFVETKRGADFLASFLSEKEFPTTSIHGDRLQSQREQ 341
Query: 417 VLNEFRIGRASILVS 431
L +F+ G +L++
Sbjct: 342 ALRDFKNGSMKVLIA 356
>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 = 194 bits (492), Expect = 2e-49, Method: Compositional matrix adjust.
Identities = 98/218 (44%), Positives = 140/218 (64%), Gaps = 3/218 (1%)
Query: 115 LESRPGKCVPRPIQHFEEC-NFPPYIMKKIYEMGFQAPTAIQAQGWPIALSGCDLVAIAK 173
L+S + +P+P F++ P ++K I +G PT IQ+Q WPI L G DL+ +A+
Sbjct: 6 LKSGEKRLIPKPTCRFKDAFQQYPDLLKSIIRVGILKPTPIQSQAWPIILQGIDLIVVAQ 65
Query: 174 TGSGKTLGYIAPAIVHVNSQRPLRSG-EGPIVLVLAPTRELAQQIETVANDFGSATATRV 232
TG+GKTL Y+ P +H++SQ R GP +LVL PTRELA +E + + S +
Sbjct: 66 TGTGKTLSYLMPGFIHLDSQPISREQRNGPGMLVLTPTRELALHVEAECSKY-SYKGLKS 124
Query: 233 ACVFGGAPKGPQVKALQTGAEIVIATPGRLIDYLEQGTINLHRTSYLVLDEADRMLDMGF 292
C++GG + Q++ + G +I+IATPGRL D ++NL +YLV+DEAD+MLDM F
Sbjct: 125 ICIYGGRNRNGQIEDISKGVDIIIATPGRLNDLQMNNSVNLRSITYLVIDEADKMLDMEF 184
Query: 293 EPQIRKIIGQIRPDRQVLMWSATWPKEVQKLAEDFLVD 330
EPQIRKI+ +RPDRQ +M SATWP V++LA +L D
Sbjct: 185 EPQIRKILLDVRPDRQTVMTSATWPDTVRQLALSYLKD 222
>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 = 192 bits (487), Expect = 8e-49, Method: Compositional matrix adjust.
Identities = 102/227 (44%), Positives = 142/227 (62%), Gaps = 10/227 (4%)
Query: 127 IQHFEECNFPPYIMKKIYEMGFQAPTAIQAQGWPIALSGCDLVAIAKTGSGKTLGYIAPA 186
I++F+E P I I +Q PT IQ P L D++A A+TGSGKT ++ P
Sbjct: 22 IENFDELKLDPTIRNNILLASYQRPTPIQKNAIPAILEHRDIMACAQTGSGKTAAFLIPI 81
Query: 187 IVHV-----NSQRPLRSGEGPIVLVLAPTRELAQQIETVANDFGSATATRVACVFGGAPK 241
I H+ N QR ++ P L+LAPTRELA QI + + F T R V+GGA
Sbjct: 82 INHLVCQDLNQQRYSKTAY-PKCLILAPTRELAIQILSESQKFSLNTPLRSCVVYGGADT 140
Query: 242 GPQVKALQTGAEIVIATPGRLIDYLEQGTINLHRTSYLVLDEADRMLDMGFEPQIRKIIG 301
Q++ +Q G +++ATPGRL+D++E+ I+L Y+VLDEADRMLDMGFEPQIRKII
Sbjct: 141 HSQIREVQMGCHLLVATPGRLVDFIEKNKISLEFCKYIVLDEADRMLDMGFEPQIRKIIE 200
Query: 302 QIRP----DRQVLMWSATWPKEVQKLAEDFLVDYVQLNIGSLNPTAN 344
+ +RQ LM+SAT+PKE+QKLA DFL +Y+ + +G + T++
Sbjct: 201 ESNMPSGINRQTLMFSATFPKEIQKLAADFLYNYIFMTVGRVGSTSD 247
>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 = 176 bits (446), Expect = 4e-44, Method: Compositional matrix adjust.
Identities = 103/304 (33%), Positives = 165/304 (54%), Gaps = 17/304 (5%)
Query: 129 HFEECNFPPYIMKKIYEMGFQAPTAIQAQGWPIALSG-CDLVAIAKTGSGKTLGYIAPAI 187
+F E N I+ I GF+ PT IQ + P+ L+ ++VA A+TGSGKT + P I
Sbjct: 7 NFNELNLSDNILNAIRNKGFEKPTDIQXKVIPLFLNDEYNIVAQARTGSGKTASFAIPLI 66
Query: 188 VHVNSQRPLRSGEGPIVLVLAPTRELAQQIETVANDFGSATATRVACVFGGAPKGPQVKA 247
VN + + ++L PTRELA Q+ ++A ++GG PQ+KA
Sbjct: 67 ELVNENNGIEA------IILTPTRELAIQVADEIESLKGNKNLKIAKIYGGKAIYPQIKA 120
Query: 248 LQTGAEIVIATPGRLIDYLEQGTINLHRTSYLVLDEADRMLDMGFEPQIRKIIGQIRPDR 307
L+ A IV+ TPGR++D++ +GT+NL Y +LDEAD L+ GF + KI+ D+
Sbjct: 121 LKN-ANIVVGTPGRILDHINRGTLNLKNVKYFILDEADEXLNXGFIKDVEKILNACNKDK 179
Query: 308 QVLMWSATWPKEVQKLAEDFLVDYVQLNIGSLNPTANHNIVQIVDVCQEHEKDYKLQGLL 367
++L++SAT P+E+ LA+ + DY + N NI Q E+E+ L LL
Sbjct: 180 RILLFSATXPREILNLAKKYXGDY-----SFIKAKINANIEQSYVEVNENERFEALCRLL 234
Query: 368 SQIGSERTSKTIIFVETKRKADDITRSVRNKGWAAVAIHGNKSQQERDRVLNEFRIGRAS 427
+ ++F +TKR ++ +R+ G+ A AIHG+ SQ +R++V+ F+ +
Sbjct: 235 KN----KEFYGLVFCKTKRDTKELASXLRDIGFKAGAIHGDLSQSQREKVIRLFKQKKIR 290
Query: 428 ILVS 431
IL++
Sbjct: 291 ILIA 294
>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 = 158 bits (399), Expect = 1e-38, Method: Composition-based stats.
Identities = 86/208 (41%), Positives = 123/208 (59%), Gaps = 6/208 (2%)
Query: 130 FEECNFPPYIMKKIYEMGFQAPTAIQAQGWPIALSGCDLVAIAKTGSGKTLGYIAPAIVH 189
F++ P I++ ++ G PT IQA P+AL G DL+ A+TG+GKTL + P
Sbjct: 3 FKDFPLKPEILEALHGRGLTTPTPIQAAALPLALEGKDLIGQARTGTGKTLAFALPIAER 62
Query: 190 VNSQRPLRSGEGPIVLVLAPTRELAQQIETVANDFGS-ATATRVACVFGGAPKGPQVKAL 248
+ + G P LVL PTRELA Q VA++ + A +V V+GG G Q +AL
Sbjct: 63 LAPSQ--ERGRKPRALVLTPTRELALQ---VASELTAVAPHLKVVAVYGGTGYGKQKEAL 117
Query: 249 QTGAEIVIATPGRLIDYLEQGTINLHRTSYLVLDEADRMLDMGFEPQIRKIIGQIRPDRQ 308
GA+ V+ATPGR +DYL QG ++L R VLDEAD ML MGFE ++ ++ P RQ
Sbjct: 118 LRGADAVVATPGRALDYLRQGVLDLSRVEVAVLDEADEMLSMGFEEEVEALLSATPPSRQ 177
Query: 309 VLMWSATWPKEVQKLAEDFLVDYVQLNI 336
L++SAT P ++LAE ++ + V +N+
Sbjct: 178 TLLFSATLPSWAKRLAERYMKNPVLINV 205
>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 = 157 bits (398), Expect = 2e-38, Method: Compositional matrix adjust.
Identities = 94/306 (30%), Positives = 164/306 (53%), Gaps = 9/306 (2%)
Query: 127 IQHFEECNFPPYIMKKIYEMGFQAPTAIQAQGWPIALSGCDLVAIAKTGSGKTLGYIAPA 186
+ F++ N +++ IY GF+ P+AIQ + + G D++A A++G+GKT +
Sbjct: 13 VDSFDDMNLSESLLRGIYAYGFEKPSAIQQRAILPCIKGYDVIAQAQSGTGKTATFAISI 72
Query: 187 IVHVNSQRPLRSGEGPIVLVLAPTRELAQQIETVANDFGSATATRVACVFGGAPKGPQVK 246
+ + + L++ + LVLAPTRELAQQI+ V G GG +V+
Sbjct: 73 LQQI--ELDLKATQA---LVLAPTRELAQQIQKVVMALGDYMGASCHACIGGTNVRAEVQ 127
Query: 247 ALQTGA-EIVIATPGRLIDYLEQGTINLHRTSYLVLDEADRMLDMGFEPQIRKIIGQIRP 305
LQ A I++ TPGR+ D L + ++ VLDEAD ML GF+ QI I ++
Sbjct: 128 KLQMEAPHIIVGTPGRVFDMLNRRYLSPKYIKMFVLDEADEMLSRGFKDQIYDIFQKLNS 187
Query: 306 DRQVLMWSATWPKEVQKLAEDFLVDYVQLNIGSLNPTANHNIVQIVDVCQEHEKDYKLQG 365
+ QV++ SAT P +V ++ + F+ D +++ + T ++V +E ++KL
Sbjct: 188 NTQVVLLSATMPSDVLEVTKKFMRDPIRILVKKEELTLEGIRQFYINVERE---EWKLDT 244
Query: 366 LLSQIGSERTSKTIIFVETKRKADDITRSVRNKGWAAVAIHGNKSQQERDRVLNEFRIGR 425
L + ++ +IF+ T+RK D +T + + + A+HG+ Q+ERD ++ EFR G
Sbjct: 245 LCDLYETLTITQAVIFINTRRKVDWLTEKMHARDFTVSAMHGDMDQKERDVIMREFRSGS 304
Query: 426 ASILVS 431
+ +L++
Sbjct: 305 SRVLIT 310
>pdb|3EIQ|A Chain A, Crystal Structure Of Pdcd4-eif4a
pdb|3EIQ|D Chain D, Crystal Structure Of Pdcd4-eif4a
Length = 414
Score = 157 bits (396), Expect = 3e-38, Method: Compositional matrix adjust.
Identities = 94/306 (30%), Positives = 164/306 (53%), Gaps = 9/306 (2%)
Query: 127 IQHFEECNFPPYIMKKIYEMGFQAPTAIQAQGWPIALSGCDLVAIAKTGSGKTLGYIAPA 186
+ F++ N +++ IY GF+ P+AIQ + + G D++A A++G+GKT +
Sbjct: 39 VDSFDDMNLSESLLRGIYAYGFEKPSAIQQRAILPCIKGYDVIAQAQSGTGKTATFAISI 98
Query: 187 IVHVNSQRPLRSGEGPIVLVLAPTRELAQQIETVANDFGSATATRVACVFGGAPKGPQVK 246
+ + + L++ + LVLAPTRELAQQI+ V G GG +V+
Sbjct: 99 LQQI--ELDLKATQA---LVLAPTRELAQQIQKVVMALGDYMGASCHACIGGTNVRAEVQ 153
Query: 247 ALQTGA-EIVIATPGRLIDYLEQGTINLHRTSYLVLDEADRMLDMGFEPQIRKIIGQIRP 305
LQ A I++ TPGR+ D L + ++ VLDEAD ML GF+ QI I ++
Sbjct: 154 KLQMEAPHIIVGTPGRVFDMLNRRYLSPKYIKMFVLDEADEMLSRGFKDQIYDIFQKLNS 213
Query: 306 DRQVLMWSATWPKEVQKLAEDFLVDYVQLNIGSLNPTANHNIVQIVDVCQEHEKDYKLQG 365
+ QV++ SAT P +V ++ + F+ D +++ + T ++V +E ++KL
Sbjct: 214 NTQVVLLSATMPSDVLEVTKKFMRDPIRILVKKEELTLEGIRQFYINVERE---EWKLDT 270
Query: 366 LLSQIGSERTSKTIIFVETKRKADDITRSVRNKGWAAVAIHGNKSQQERDRVLNEFRIGR 425
L + ++ +IF+ T+RK D +T + + + A+HG+ Q+ERD ++ EFR G
Sbjct: 271 LCDLYETLTITQAVIFINTRRKVDWLTEKMHARDFTVSAMHGDMDQKERDVIMREFRSGS 330
Query: 426 ASILVS 431
+ +L++
Sbjct: 331 SRVLIT 336
>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 = 156 bits (395), Expect = 3e-38, Method: Composition-based stats.
Identities = 85/208 (40%), Positives = 123/208 (59%), Gaps = 6/208 (2%)
Query: 130 FEECNFPPYIMKKIYEMGFQAPTAIQAQGWPIALSGCDLVAIAKTGSGKTLGYIAPAIVH 189
F++ P I++ ++ G PT I+A P+AL G DL+ A+TG+GKTL + P
Sbjct: 3 FKDFPLKPEILEALHGRGLTTPTPIEAAALPLALEGKDLIGQARTGTGKTLAFALPIAER 62
Query: 190 VNSQRPLRSGEGPIVLVLAPTRELAQQIETVANDFGS-ATATRVACVFGGAPKGPQVKAL 248
+ + G P LVL PTRELA Q VA++ + A +V V+GG G Q +AL
Sbjct: 63 LAPSQ--ERGRKPRALVLTPTRELALQ---VASELTAVAPHLKVVAVYGGTGYGKQKEAL 117
Query: 249 QTGAEIVIATPGRLIDYLEQGTINLHRTSYLVLDEADRMLDMGFEPQIRKIIGQIRPDRQ 308
GA+ V+ATPGR +DYL QG ++L R VLDEAD ML MGFE ++ ++ P RQ
Sbjct: 118 LRGADAVVATPGRALDYLRQGVLDLSRVEVAVLDEADEMLSMGFEEEVEALLSATPPSRQ 177
Query: 309 VLMWSATWPKEVQKLAEDFLVDYVQLNI 336
L++SAT P ++LAE ++ + V +N+
Sbjct: 178 TLLFSATLPSWAKRLAERYMKNPVLINV 205
>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 = 155 bits (391), Expect = 1e-37, Method: Compositional matrix adjust.
Identities = 96/307 (31%), Positives = 162/307 (52%), Gaps = 9/307 (2%)
Query: 125 RPIQHFEECNFPPYIMKKIYEMGFQAPTAIQAQGWPIALSGCDLVAIAKTGSGKTLGYIA 184
+ + F++ +++ ++ GF+ P+AIQ + + G D++A A++G+GKT +
Sbjct: 19 KVVYKFDDMELDENLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSI 78
Query: 185 PAIVHVNSQRPLRSGEGPIVLVLAPTRELAQQIETVANDFGSATATRVACVFGGAPKGPQ 244
A+ QR S + P L+LAPTRELA QI+ V +V GG
Sbjct: 79 AAL-----QRIDTSVKAPQALMLAPTRELALQIQKVVMALAFHMDIKVHACIGGTSFVED 133
Query: 245 VKALQTGAEIVIATPGRLIDYLEQGTINLHRTSYLVLDEADRMLDMGFEPQIRKIIGQIR 304
+ L+ A+IV+ TPGR+ D +++ + +LDEAD ML GF+ QI +I +
Sbjct: 134 AEGLR-DAQIVVGTPGRVFDNIQRRRFRTDKIKMFILDEADEMLSSGFKEQIYQIFTLLP 192
Query: 305 PDRQVLMWSATWPKEVQKLAEDFLVDYVQLNIGSLNPTANHNIVQIVDVCQEHEKDYKLQ 364
P QV++ SAT P +V ++ F+ + V++ + T V+V E++YK +
Sbjct: 193 PTTQVVLLSATMPNDVLEVTTKFMRNPVRILVKKDELTLEGIKQFYVNV---EEEEYKYE 249
Query: 365 GLLSQIGSERTSKTIIFVETKRKADDITRSVRNKGWAAVAIHGNKSQQERDRVLNEFRIG 424
L S ++ +IF T+RK +++T +RN + AI+ + QQERD ++ EFR G
Sbjct: 250 CLTDLYDSISVTQAVIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTIMKEFRSG 309
Query: 425 RASILVS 431
+ IL+S
Sbjct: 310 SSRILIS 316
Score = 32.0 bits (71), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 18/60 (30%), Positives = 35/60 (58%), Gaps = 3/60 (5%)
Query: 453 SILVSQ---YKESQQKRDRVLNEFRIGRASILVSHYNKSQQERDRVLNEFRIGRASILVS 509
SI V+Q + +++K + + + R + ++ + + QQERD ++ EFR G + IL+S
Sbjct: 257 SISVTQAVIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTIMKEFRSGSSRILIS 316
Score = 29.6 bits (65), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 12/21 (57%), Positives = 16/21 (76%)
Query: 567 QQERDRVLNEFRIGRASILVS 587
QQERD ++ EFR G + IL+S
Sbjct: 296 QQERDTIMKEFRSGSSRILIS 316
>pdb|2Z0M|A Chain A, Crystal Structure Of Hypothetical Atp-Dependent Rna
Helicase From Sulfolobus Tokodaii
Length = 337
Score = 149 bits (377), Expect = 4e-36, Method: Compositional matrix adjust.
Identities = 99/298 (33%), Positives = 163/298 (54%), Gaps = 35/298 (11%)
Query: 139 IMKKIYEMGFQAPTAIQAQGWPIALSGCDLVAIAKTGSGKTLGYIAPAIVHVNSQRPLRS 198
I + I EMGF+ T +Q++ P+ L G ++V AKTGSGKT Y P + + ++S
Sbjct: 5 IEQAIREMGFKNFTEVQSKTIPLMLQGKNVVVRAKTGSGKTAAYAIPIL-----ELGMKS 59
Query: 199 GEGPIVLVLAPTRELAQQIETVANDFGSATATRVACVFGGAPKGPQVKALQTGAEIVIAT 258
LV+ PTREL +Q+ + D G T+VA V+GG P Q+ ++ A+IV+AT
Sbjct: 60 ------LVVTPTRELTRQVASHIRDIGRYMDTKVAEVYGGMPYKAQINRVRN-ADIVVAT 112
Query: 259 PGRLIDYLEQGTINLHRTSYLVLDEADRMLDMGFEPQIRKIIGQIRPDRQVLMWSATWPK 318
PGRL+D +G I+L +++DEAD M +MGF I+ I+ Q + ++SAT P+
Sbjct: 113 PGRLLDLWSKGVIDLSSFEIVIIDEADLMFEMGFIDDIKIILAQTSNRKITGLFSATIPE 172
Query: 319 EVQKLAEDFLVDY--VQLNIGSLNPTANHNIVQIVDVCQEHEKDYKLQGLLSQIGSERTS 376
E++K+ +DF+ +Y ++ IG N H V + D D++ S++ + R +
Sbjct: 173 EIRKVVKDFITNYEEIEACIGLAN--VEHKFVHVKD-------DWR-----SKVQALREN 218
Query: 377 K---TIIFVETKRKADDITRSVRNKGWAAVAIHGNKSQQERDRVLNEFRIGRASILVS 431
K I+FV T+ + + R N A+ + G+ Q R+R ++ FR G +L++
Sbjct: 219 KDKGVIVFVRTRNRVAKLVRLFDN----AIELRGDLPQSVRNRNIDAFREGEYDMLIT 272
>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 = 149 bits (376), Expect = 6e-36, Method: Compositional matrix adjust.
Identities = 90/302 (29%), Positives = 154/302 (50%), Gaps = 8/302 (2%)
Query: 130 FEECNFPPYIMKKIYEMGFQAPTAIQAQGWPIALSGCDLVAIAKTGSGKTLGYIAPAIVH 189
F+ +++ IY GF+ P+AIQ + + G D++A +++G+GKT + +
Sbjct: 39 FDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQC 98
Query: 190 VNSQRPLRSGEGPIVLVLAPTRELAQQIETVANDFGSATATRVACVFGGAPKGPQVKALQ 249
++ Q +R + L+LAPTRELA QI+ G + GG G ++ L
Sbjct: 99 LDIQ--VRETQA---LILAPTRELAVQIQKGLLALGDYMNVQCHACIGGTNVGEDIRKLD 153
Query: 250 TGAEIVIATPGRLIDYLEQGTINLHRTSYLVLDEADRMLDMGFEPQIRKIIGQIRPDRQV 309
G +V TPGR+ D + + ++ LVLDEAD ML+ GF+ QI + + P QV
Sbjct: 154 YGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQV 213
Query: 310 LMWSATWPKEVQKLAEDFLVDYVQLNIGSLNPTANHNIVQIVDVCQEHEKDYKLQGLLSQ 369
++ SAT P E+ ++ F+ D +++ + T I Q + E +K L
Sbjct: 214 VLISATLPHEILEMTNKFMTDPIRILVKRDELTL-EGIKQFFVAVEREE--WKFDTLCDL 270
Query: 370 IGSERTSKTIIFVETKRKADDITRSVRNKGWAAVAIHGNKSQQERDRVLNEFRIGRASIL 429
+ ++ +IF TKRK D +T +R + ++HG+ Q+ER+ ++ EFR G + +L
Sbjct: 271 YDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVL 330
Query: 430 VS 431
+S
Sbjct: 331 IS 332
Score = 29.3 bits (64), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 13/51 (25%), Positives = 29/51 (56%)
Query: 459 YKESQQKRDRVLNEFRIGRASILVSHYNKSQQERDRVLNEFRIGRASILVS 509
+ +++K D + + R ++ H + Q+ER+ ++ EFR G + +L+S
Sbjct: 282 FCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLIS 332
>pdb|2J0U|A Chain A, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 149 bits (376), Expect = 6e-36, Method: Compositional matrix adjust.
Identities = 89/302 (29%), Positives = 154/302 (50%), Gaps = 8/302 (2%)
Query: 130 FEECNFPPYIMKKIYEMGFQAPTAIQAQGWPIALSGCDLVAIAKTGSGKTLGYIAPAIVH 189
F+ +++ IY GF+ P+AIQ + + G D++A +++G+GKT + +
Sbjct: 3 FDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSVSVLQC 62
Query: 190 VNSQRPLRSGEGPIVLVLAPTRELAQQIETVANDFGSATATRVACVFGGAPKGPQVKALQ 249
++ Q +R + L+LAPTRELA Q++ G + GG G ++ L
Sbjct: 63 LDIQ--VRETQA---LILAPTRELAVQVQKGLLALGDYMNVQCHACIGGTNVGEDIRKLD 117
Query: 250 TGAEIVIATPGRLIDYLEQGTINLHRTSYLVLDEADRMLDMGFEPQIRKIIGQIRPDRQV 309
G +V TPGR+ D + + ++ LVLDEAD ML+ GF+ QI + + P QV
Sbjct: 118 YGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQV 177
Query: 310 LMWSATWPKEVQKLAEDFLVDYVQLNIGSLNPTANHNIVQIVDVCQEHEKDYKLQGLLSQ 369
++ SAT P E+ ++ F+ D +++ + T I Q + E +K L
Sbjct: 178 VLISATLPHEILEMTNKFMTDPIRILVKRDELTL-EGIKQFFVAVEREE--WKFDTLCDL 234
Query: 370 IGSERTSKTIIFVETKRKADDITRSVRNKGWAAVAIHGNKSQQERDRVLNEFRIGRASIL 429
+ ++ +IF TKRK D +T +R + ++HG+ Q+ER+ ++ EFR G + +L
Sbjct: 235 YDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVL 294
Query: 430 VS 431
+S
Sbjct: 295 IS 296
Score = 29.3 bits (64), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 13/51 (25%), Positives = 29/51 (56%)
Query: 459 YKESQQKRDRVLNEFRIGRASILVSHYNKSQQERDRVLNEFRIGRASILVS 509
+ +++K D + + R ++ H + Q+ER+ ++ EFR G + +L+S
Sbjct: 246 FCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLIS 296
>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 = 149 bits (376), Expect = 6e-36, Method: Compositional matrix adjust.
Identities = 90/302 (29%), Positives = 154/302 (50%), Gaps = 8/302 (2%)
Query: 130 FEECNFPPYIMKKIYEMGFQAPTAIQAQGWPIALSGCDLVAIAKTGSGKTLGYIAPAIVH 189
F+ +++ IY GF+ P+AIQ + + G D++A +++G+GKT + +
Sbjct: 40 FDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQC 99
Query: 190 VNSQRPLRSGEGPIVLVLAPTRELAQQIETVANDFGSATATRVACVFGGAPKGPQVKALQ 249
++ Q +R + L+LAPTRELA QI+ G + GG G ++ L
Sbjct: 100 LDIQ--VRETQA---LILAPTRELAVQIQKGLLALGDYMNVQCHACIGGTNVGEDIRKLD 154
Query: 250 TGAEIVIATPGRLIDYLEQGTINLHRTSYLVLDEADRMLDMGFEPQIRKIIGQIRPDRQV 309
G +V TPGR+ D + + ++ LVLDEAD ML+ GF+ QI + + P QV
Sbjct: 155 YGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQV 214
Query: 310 LMWSATWPKEVQKLAEDFLVDYVQLNIGSLNPTANHNIVQIVDVCQEHEKDYKLQGLLSQ 369
++ SAT P E+ ++ F+ D +++ + T I Q + E +K L
Sbjct: 215 VLISATLPHEILEMTNKFMTDPIRILVKRDELTL-EGIKQFFVAVEREE--WKFDTLCDL 271
Query: 370 IGSERTSKTIIFVETKRKADDITRSVRNKGWAAVAIHGNKSQQERDRVLNEFRIGRASIL 429
+ ++ +IF TKRK D +T +R + ++HG+ Q+ER+ ++ EFR G + +L
Sbjct: 272 YDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVL 331
Query: 430 VS 431
+S
Sbjct: 332 IS 333
Score = 29.3 bits (64), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 13/51 (25%), Positives = 29/51 (56%)
Query: 459 YKESQQKRDRVLNEFRIGRASILVSHYNKSQQERDRVLNEFRIGRASILVS 509
+ +++K D + + R ++ H + Q+ER+ ++ EFR G + +L+S
Sbjct: 283 FCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLIS 333
>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 = 149 bits (376), Expect = 6e-36, Method: Compositional matrix adjust.
Identities = 90/302 (29%), Positives = 154/302 (50%), Gaps = 8/302 (2%)
Query: 130 FEECNFPPYIMKKIYEMGFQAPTAIQAQGWPIALSGCDLVAIAKTGSGKTLGYIAPAIVH 189
F+ +++ IY GF+ P+AIQ + + G D++A +++G+GKT + +
Sbjct: 40 FDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQC 99
Query: 190 VNSQRPLRSGEGPIVLVLAPTRELAQQIETVANDFGSATATRVACVFGGAPKGPQVKALQ 249
++ Q +R + L+LAPTRELA QI+ G + GG G ++ L
Sbjct: 100 LDIQ--VRETQA---LILAPTRELAVQIQKGLLALGDYMNVQCHACIGGTNVGEDIRKLD 154
Query: 250 TGAEIVIATPGRLIDYLEQGTINLHRTSYLVLDEADRMLDMGFEPQIRKIIGQIRPDRQV 309
G +V TPGR+ D + + ++ LVLDEAD ML+ GF+ QI + + P QV
Sbjct: 155 YGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQV 214
Query: 310 LMWSATWPKEVQKLAEDFLVDYVQLNIGSLNPTANHNIVQIVDVCQEHEKDYKLQGLLSQ 369
++ SAT P E+ ++ F+ D +++ + T I Q + E +K L
Sbjct: 215 VLISATLPHEILEMTNKFMTDPIRILVKRDELTL-EGIKQFFVAVEREE--WKFDTLCDL 271
Query: 370 IGSERTSKTIIFVETKRKADDITRSVRNKGWAAVAIHGNKSQQERDRVLNEFRIGRASIL 429
+ ++ +IF TKRK D +T +R + ++HG+ Q+ER+ ++ EFR G + +L
Sbjct: 272 YDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVL 331
Query: 430 VS 431
+S
Sbjct: 332 IS 333
Score = 29.3 bits (64), Expect = 8.1, Method: Compositional matrix adjust.
Identities = 13/51 (25%), Positives = 29/51 (56%)
Query: 459 YKESQQKRDRVLNEFRIGRASILVSHYNKSQQERDRVLNEFRIGRASILVS 509
+ +++K D + + R ++ H + Q+ER+ ++ EFR G + +L+S
Sbjct: 283 FCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLIS 333
>pdb|2J0U|B Chain B, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 149 bits (376), Expect = 7e-36, Method: Compositional matrix adjust.
Identities = 90/302 (29%), Positives = 154/302 (50%), Gaps = 8/302 (2%)
Query: 130 FEECNFPPYIMKKIYEMGFQAPTAIQAQGWPIALSGCDLVAIAKTGSGKTLGYIAPAIVH 189
F+ +++ IY GF+ P+AIQ + + G D++A +++G+GKT + +
Sbjct: 3 FDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSVSVLQC 62
Query: 190 VNSQRPLRSGEGPIVLVLAPTRELAQQIETVANDFGSATATRVACVFGGAPKGPQVKALQ 249
++ Q +R + L+LAPTRELA Q++ G + GG G ++ L
Sbjct: 63 LDIQ--VRETQA---LILAPTRELAVQVQKGLLALGDYMNVQSHACIGGTNVGEDIRKLD 117
Query: 250 TGAEIVIATPGRLIDYLEQGTINLHRTSYLVLDEADRMLDMGFEPQIRKIIGQIRPDRQV 309
G +V TPGR+ D + + ++ LVLDEAD ML+ GF+ QI + + P QV
Sbjct: 118 YGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQV 177
Query: 310 LMWSATWPKEVQKLAEDFLVDYVQLNIGSLNPTANHNIVQIVDVCQEHEKDYKLQGLLSQ 369
++ SAT P EV ++ F+ D +++ + T I Q + E +K L
Sbjct: 178 VLISATLPHEVLEMTNKFMTDPIRILVKRDELTL-EGIKQFFVAVEREE--WKFDTLCDL 234
Query: 370 IGSERTSKTIIFVETKRKADDITRSVRNKGWAAVAIHGNKSQQERDRVLNEFRIGRASIL 429
+ ++ +IF TKRK D +T +R + ++HG+ Q+ER+ ++ EFR G + +L
Sbjct: 235 YDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVL 294
Query: 430 VS 431
+S
Sbjct: 295 IS 296
Score = 29.3 bits (64), Expect = 8.4, Method: Compositional matrix adjust.
Identities = 13/51 (25%), Positives = 29/51 (56%)
Query: 459 YKESQQKRDRVLNEFRIGRASILVSHYNKSQQERDRVLNEFRIGRASILVS 509
+ +++K D + + R ++ H + Q+ER+ ++ EFR G + +L+S
Sbjct: 246 FCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLIS 296
>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 = 149 bits (376), Expect = 7e-36, Method: Compositional matrix adjust.
Identities = 90/302 (29%), Positives = 154/302 (50%), Gaps = 8/302 (2%)
Query: 130 FEECNFPPYIMKKIYEMGFQAPTAIQAQGWPIALSGCDLVAIAKTGSGKTLGYIAPAIVH 189
F+ +++ IY GF+ P+AIQ + + G D++A +++G+GKT + +
Sbjct: 18 FDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQC 77
Query: 190 VNSQRPLRSGEGPIVLVLAPTRELAQQIETVANDFGSATATRVACVFGGAPKGPQVKALQ 249
++ Q +R + L+LAPTRELA QI+ G + GG G ++ L
Sbjct: 78 LDIQ--VRETQA---LILAPTRELAVQIQKGLLALGDYMNVQCHACIGGTNVGEDIRKLD 132
Query: 250 TGAEIVIATPGRLIDYLEQGTINLHRTSYLVLDEADRMLDMGFEPQIRKIIGQIRPDRQV 309
G +V TPGR+ D + + ++ LVLDEAD ML+ GF+ QI + + P QV
Sbjct: 133 YGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQV 192
Query: 310 LMWSATWPKEVQKLAEDFLVDYVQLNIGSLNPTANHNIVQIVDVCQEHEKDYKLQGLLSQ 369
++ SAT P E+ ++ F+ D +++ + T I Q + E +K L
Sbjct: 193 VLISATLPHEILEMTNKFMTDPIRILVKRDELTL-EGIKQFFVAVEREE--WKFDTLCDL 249
Query: 370 IGSERTSKTIIFVETKRKADDITRSVRNKGWAAVAIHGNKSQQERDRVLNEFRIGRASIL 429
+ ++ +IF TKRK D +T +R + ++HG+ Q+ER+ ++ EFR G + +L
Sbjct: 250 YDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVL 309
Query: 430 VS 431
+S
Sbjct: 310 IS 311
Score = 29.3 bits (64), Expect = 8.2, Method: Compositional matrix adjust.
Identities = 13/51 (25%), Positives = 29/51 (56%)
Query: 459 YKESQQKRDRVLNEFRIGRASILVSHYNKSQQERDRVLNEFRIGRASILVS 509
+ +++K D + + R ++ H + Q+ER+ ++ EFR G + +L+S
Sbjct: 261 FCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLIS 311
>pdb|1FUU|A Chain A, Yeast Initiation Factor 4a
pdb|1FUU|B Chain B, Yeast Initiation Factor 4a
Length = 394
Score = 148 bits (374), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 95/307 (30%), Positives = 158/307 (51%), Gaps = 9/307 (2%)
Query: 125 RPIQHFEECNFPPYIMKKIYEMGFQAPTAIQAQGWPIALSGCDLVAIAKTGSGKTLGYIA 184
+ + F++ +++ ++ GF+ P+AIQ + + G D++A A++G+GKT +
Sbjct: 18 KVVYKFDDXELDENLLRGVFGYGFEEPSAIQQRAIXPIIEGHDVLAQAQSGTGKTGTFSI 77
Query: 185 PAIVHVNSQRPLRSGEGPIVLVLAPTRELAQQIETVANDFGSATATRVACVFGGAPKGPQ 244
A+ QR S + P L LAPTRELA QI+ V +V GG
Sbjct: 78 AAL-----QRIDTSVKAPQALXLAPTRELALQIQKVVXALAFHXDIKVHACIGGTSFVED 132
Query: 245 VKALQTGAEIVIATPGRLIDYLEQGTINLHRTSYLVLDEADRMLDMGFEPQIRKIIGQIR 304
+ L+ A+IV+ TPGR+ D +++ + +LDEAD L GF+ QI +I +
Sbjct: 133 AEGLR-DAQIVVGTPGRVFDNIQRRRFRTDKIKXFILDEADEXLSSGFKEQIYQIFTLLP 191
Query: 305 PDRQVLMWSATWPKEVQKLAEDFLVDYVQLNIGSLNPTANHNIVQIVDVCQEHEKDYKLQ 364
P QV++ SAT P +V ++ F + V++ + T V+V E++YK +
Sbjct: 192 PTTQVVLLSATXPNDVLEVTTKFXRNPVRILVKKDELTLEGIKQFYVNV---EEEEYKYE 248
Query: 365 GLLSQIGSERTSKTIIFVETKRKADDITRSVRNKGWAAVAIHGNKSQQERDRVLNEFRIG 424
L S ++ +IF T+RK +++T +RN + AI+ + QQERD + EFR G
Sbjct: 249 CLTDLYDSISVTQAVIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTIXKEFRSG 308
Query: 425 RASILVS 431
+ IL+S
Sbjct: 309 SSRILIS 315
Score = 30.4 bits (67), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 18/60 (30%), Positives = 34/60 (56%), Gaps = 3/60 (5%)
Query: 453 SILVSQ---YKESQQKRDRVLNEFRIGRASILVSHYNKSQQERDRVLNEFRIGRASILVS 509
SI V+Q + +++K + + + R + ++ + + QQERD + EFR G + IL+S
Sbjct: 256 SISVTQAVIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTIXKEFRSGSSRILIS 315
>pdb|1S2M|A Chain A, Crystal Structure Of The Dead Box Protein Dhh1p
Length = 400
Score = 144 bits (364), Expect = 2e-34, Method: Compositional matrix adjust.
Identities = 86/301 (28%), Positives = 150/301 (49%), Gaps = 10/301 (3%)
Query: 130 FEECNFPPYIMKKIYEMGFQAPTAIQAQGWPIALSGCDLVAIAKTGSGKTLGYIAPAIVH 189
FE+ ++ I+E GF+ P+ IQ + P+A++G D++A AK G+GKT ++ P +
Sbjct: 23 FEDFYLKRELLMGIFEAGFEKPSPIQEEAIPVAITGRDILARAKNGTGKTAAFVIPTLEK 82
Query: 190 VNSQRPLRSGEGPIVLVLAPTRELAQQIETVANDFGSATATRVACVFGGAPKGPQVKALQ 249
V + L + L++ PTRELA Q V G GG + L
Sbjct: 83 VKPK--LNKIQA---LIMVPTRELALQTSQVVRTLGKHCGISCMVTTGGTNLRDDILRLN 137
Query: 250 TGAEIVIATPGRLIDYLEQGTINLHRTSYLVLDEADRMLDMGFEPQIRKIIGQIRPDRQV 309
I++ TPGR++D + +L S ++DEAD+ML F+ I +I+ + P Q
Sbjct: 138 ETVHILVGTPGRVLDLASRKVADLSDCSLFIMDEADKMLSRDFKTIIEQILSFLPPTHQS 197
Query: 310 LMWSATWPKEVQKLAEDFLVDYVQLNIGSLNPTANHNIVQIVDVCQEHEKDYKLQGLLSQ 369
L++SAT+P V++ L ++N+ + I Q +E +K + L L S+
Sbjct: 198 LLFSATFPLTVKEFMVKHLHKPYEINL--MEELTLKGITQYYAFVEERQKLHCLNTLFSK 255
Query: 370 IGSERTSKTIIFVETKRKADDITRSVRNKGWAAVAIHGNKSQQERDRVLNEFRIGRASIL 429
+ + ++ IIF + + + + + + + G++ H QQER++V +EFR G+ L
Sbjct: 256 L---QINQAIIFCNSTNRVELLAKKITDLGYSCYYSHARMKQQERNKVFHEFRQGKVRTL 312
Query: 430 V 430
V
Sbjct: 313 V 313
Score = 30.4 bits (67), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 22/85 (25%), Positives = 43/85 (50%), Gaps = 10/85 (11%)
Query: 456 VSQYKESQQKRDRV------LNEFRIGRASILVSHYNKSQQERDRVLNEFRIGRASILVS 509
++QY ++R ++ ++ +I +A I + N+ + ++ + +G S S
Sbjct: 233 ITQYYAFVEERQKLHCLNTLFSKLQINQAIIFCNSTNRVELLAKKITD---LGY-SCYYS 288
Query: 510 HYNKSQQERDRVLNEFRIGRASILV 534
H QQER++V +EFR G+ LV
Sbjct: 289 HARMKQQERNKVFHEFRQGKVRTLV 313
Score = 30.0 bits (66), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 22/85 (25%), Positives = 42/85 (49%), Gaps = 10/85 (11%)
Query: 482 VSHYNKSQQERDRV------LNEFRIGRASILVSHYNKSQQERDRVLNEFRIGRASILVS 535
++ Y +ER ++ ++ +I +A I + N+ + ++ + +G S S
Sbjct: 233 ITQYYAFVEERQKLHCLNTLFSKLQINQAIIFCNSTNRVELLAKKITD---LGY-SCYYS 288
Query: 536 HYNKSQQERDRVLNEFRIGRASILV 560
H QQER++V +EFR G+ LV
Sbjct: 289 HARMKQQERNKVFHEFRQGKVRTLV 313
Score = 30.0 bits (66), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 22/85 (25%), Positives = 42/85 (49%), Gaps = 10/85 (11%)
Query: 508 VSHYNKSQQERDRV------LNEFRIGRASILVSHYNKSQQERDRVLNEFRIGRASILVS 561
++ Y +ER ++ ++ +I +A I + N+ + ++ + +G S S
Sbjct: 233 ITQYYAFVEERQKLHCLNTLFSKLQINQAIIFCNSTNRVELLAKKITD---LGY-SCYYS 288
Query: 562 HYNKSQQERDRVLNEFRIGRASILV 586
H QQER++V +EFR G+ LV
Sbjct: 289 HARMKQQERNKVFHEFRQGKVRTLV 313
Score = 30.0 bits (66), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 22/85 (25%), Positives = 42/85 (49%), Gaps = 10/85 (11%)
Query: 534 VSHYNKSQQERDRV------LNEFRIGRASILVSHYNKSQQERDRVLNEFRIGRASILVS 587
++ Y +ER ++ ++ +I +A I + N+ + ++ + +G S S
Sbjct: 233 ITQYYAFVEERQKLHCLNTLFSKLQINQAIIFCNSTNRVELLAKKITD---LGY-SCYYS 288
Query: 588 HYNKSQQERDRVLNEFRIGRASILV 612
H QQER++V +EFR G+ LV
Sbjct: 289 HARMKQQERNKVFHEFRQGKVRTLV 313
Score = 30.0 bits (66), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 22/85 (25%), Positives = 42/85 (49%), Gaps = 10/85 (11%)
Query: 560 VSHYNKSQQERDRV------LNEFRIGRASILVSHYNKSQQERDRVLNEFRIGRASILVS 613
++ Y +ER ++ ++ +I +A I + N+ + ++ + +G S S
Sbjct: 233 ITQYYAFVEERQKLHCLNTLFSKLQINQAIIFCNSTNRVELLAKKITD---LGY-SCYYS 288
Query: 614 HYNKSQQERDRVLNEFRIGRASILV 638
H QQER++V +EFR G+ LV
Sbjct: 289 HARMKQQERNKVFHEFRQGKVRTLV 313
Score = 30.0 bits (66), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 22/85 (25%), Positives = 42/85 (49%), Gaps = 10/85 (11%)
Query: 586 VSHYNKSQQERDRV------LNEFRIGRASILVSHYNKSQQERDRVLNEFRIGRASILVS 639
++ Y +ER ++ ++ +I +A I + N+ + ++ + +G S S
Sbjct: 233 ITQYYAFVEERQKLHCLNTLFSKLQINQAIIFCNSTNRVELLAKKITD---LGY-SCYYS 288
Query: 640 HYNKSQQERDRVLNEFRIGRASILV 664
H QQER++V +EFR G+ LV
Sbjct: 289 HARMKQQERNKVFHEFRQGKVRTLV 313
>pdb|3BER|A Chain A, Human Dead-Box Rna-Helicase Ddx47, Conserved Domain I In
Complex With Amp
Length = 249
Score = 137 bits (345), Expect = 2e-32, Method: Composition-based stats.
Identities = 82/195 (42%), Positives = 113/195 (57%), Gaps = 6/195 (3%)
Query: 145 EMGFQAPTAIQAQGWPIALSGCDLVAIAKTGSGKTLGYIAPAIVHVNSQRPLRSGEGPIV 204
++G+ PT IQ + P+AL G D++ +A+TGSGKT + P I++ + P R
Sbjct: 60 QLGWTKPTKIQIEAIPLALQGRDIIGLAETGSGKTGAFALP-ILNALLETPQRL----FA 114
Query: 205 LVLAPTRELAQQIETVANDFGSATATRVACVFGGAPKGPQVKALQTGAEIVIATPGRLID 264
LVL PTRELA QI GS+ + A + GG Q AL I+IATPGRLID
Sbjct: 115 LVLTPTRELAFQISEQFEALGSSIGVQSAVIVGGIDSMSQSLALAKKPHIIIATPGRLID 174
Query: 265 YLEQGT-INLHRTSYLVLDEADRMLDMGFEPQIRKIIGQIRPDRQVLMWSATWPKEVQKL 323
+LE NL YLV+DEADR+L+M FE ++ KI+ I DR+ ++SAT K+VQKL
Sbjct: 175 HLENTKGFNLRALKYLVMDEADRILNMDFETEVDKILKVIPRDRKTFLFSATMTKKVQKL 234
Query: 324 AEDFLVDYVQLNIGS 338
L + V+ + S
Sbjct: 235 QRAALKNPVKCAVSS 249
>pdb|3PEY|A Chain A, S. Cerevisiae Dbp5 Bound To Rna And Adp Bef3
Length = 395
Score = 135 bits (339), Expect = 1e-31, Method: Compositional matrix adjust.
Identities = 91/313 (29%), Positives = 165/313 (52%), Gaps = 27/313 (8%)
Query: 128 QHFEECNFPPYIMKKIYEMGFQAPTAIQAQGWPIALSGC--DLVAIAKTGSGKTLGYIAP 185
+ F+E P ++K IY M FQ P+ IQ + P+ L +++A +++G+GKT +
Sbjct: 5 KSFDELGLAPELLKGIYAMKFQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAAFSLT 64
Query: 186 AIVHVNSQRPLRSGEGPIVLVLAPTRELAQQIETVANDFGSATATRVACVFGGAPKGPQV 245
+ VN + P + LAP+RELA+Q V + G T + + +
Sbjct: 65 MLTRVNPE-----DASPQAICLAPSRELARQTLEVVQEMGKFTKITSQLIVPDSFE---- 115
Query: 246 KALQTGAEIVIATPGRLIDYLEQGTINLHRTSYLVLDEADRMLDM-GFEPQIRKIIGQIR 304
K Q A++++ TPG ++D + + + L + VLDEAD MLD G Q ++ +
Sbjct: 116 KNKQINAQVIVGTPGTVLDLMRRKLMQLQKIKIFVLDEADNMLDQQGLGDQCIRVKRFLP 175
Query: 305 PDRQVLMWSATWPKEVQKLAEDFL--VDYVQLNIGSLNPTANHNIVQIVDVCQEHEKDY- 361
D Q++++SAT+ V++ A+ + + ++L +N A I Q+ C+ +
Sbjct: 176 KDTQLVLFSATFADAVRQYAKKIVPNANTLELQTNEVNVDA---IKQLYMDCKNEADKFD 232
Query: 362 ---KLQGLLSQIGSERTSKTIIFVETKRKADDITRSVRNKGWAAVAIHGNKSQQERDRVL 418
+L GL++ IGS +IIFV TK+ A+ + ++++G +HG+ QERDR++
Sbjct: 233 VLTELYGLMT-IGS-----SIIFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLI 286
Query: 419 NEFRIGRASILVS 431
++FR GR+ +L++
Sbjct: 287 DDFREGRSKVLIT 299
Score = 32.7 bits (73), Expect = 0.73, Method: Compositional matrix adjust.
Identities = 24/79 (30%), Positives = 43/79 (54%), Gaps = 8/79 (10%)
Query: 435 KSQQERDRVLNEF----RIGRASILVSQYKESQQKRDRVLNEFRIGRASILVSHYNKSQQ 490
K++ ++ VL E IG + I V+ K + ++ +E SIL H + Q
Sbjct: 225 KNEADKFDVLTELYGLMTIGSSIIFVATKKTANVLYGKLKSEGH--EVSIL--HGDLQTQ 280
Query: 491 ERDRVLNEFRIGRASILVS 509
ERDR++++FR GR+ +L++
Sbjct: 281 ERDRLIDDFREGRSKVLIT 299
Score = 31.2 bits (69), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 11/28 (39%), Positives = 21/28 (75%)
Query: 508 VSHYNKSQQERDRVLNEFRIGRASILVS 535
+ H + QERDR++++FR GR+ +L++
Sbjct: 272 ILHGDLQTQERDRLIDDFREGRSKVLIT 299
Score = 31.2 bits (69), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 11/28 (39%), Positives = 21/28 (75%)
Query: 534 VSHYNKSQQERDRVLNEFRIGRASILVS 561
+ H + QERDR++++FR GR+ +L++
Sbjct: 272 ILHGDLQTQERDRLIDDFREGRSKVLIT 299
Score = 31.2 bits (69), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 11/28 (39%), Positives = 21/28 (75%)
Query: 560 VSHYNKSQQERDRVLNEFRIGRASILVS 587
+ H + QERDR++++FR GR+ +L++
Sbjct: 272 ILHGDLQTQERDRLIDDFREGRSKVLIT 299
Score = 31.2 bits (69), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 11/28 (39%), Positives = 21/28 (75%)
Query: 586 VSHYNKSQQERDRVLNEFRIGRASILVS 613
+ H + QERDR++++FR GR+ +L++
Sbjct: 272 ILHGDLQTQERDRLIDDFREGRSKVLIT 299
Score = 31.2 bits (69), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 11/28 (39%), Positives = 21/28 (75%)
Query: 612 VSHYNKSQQERDRVLNEFRIGRASILVS 639
+ H + QERDR++++FR GR+ +L++
Sbjct: 272 ILHGDLQTQERDRLIDDFREGRSKVLIT 299
Score = 31.2 bits (69), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 11/28 (39%), Positives = 21/28 (75%)
Query: 638 VSHYNKSQQERDRVLNEFRIGRASILVS 665
+ H + QERDR++++FR GR+ +L++
Sbjct: 272 ILHGDLQTQERDRLIDDFREGRSKVLIT 299
>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 = 134 bits (337), Expect = 2e-31, Method: Compositional matrix adjust.
Identities = 90/309 (29%), Positives = 161/309 (52%), Gaps = 19/309 (6%)
Query: 128 QHFEECNFPPYIMKKIYEMGFQAPTAIQAQGWPIALSGC--DLVAIAKTGSGKTLGYIAP 185
+ F+E P ++K IY M FQ P+ IQ + P+ L +++A +++G+GKT +
Sbjct: 5 KSFDELGLAPELLKGIYAMKFQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAAFSLT 64
Query: 186 AIVHVNSQRPLRSGEGPIVLVLAPTRELAQQIETVANDFGSATATRVACVFGGAPKGPQV 245
+ VN + P + LAP+RELA+Q V + G T + + +
Sbjct: 65 MLTRVNPE-----DASPQAICLAPSRELARQTLEVVQEMGKFTKITSQLIVPDSFE---- 115
Query: 246 KALQTGAEIVIATPGRLIDYLEQGTINLHRTSYLVLDEADRMLDM-GFEPQIRKIIGQIR 304
K Q A++++ TPG ++D + + + L + VLDEAD MLD G Q ++ +
Sbjct: 116 KNKQINAQVIVGTPGTVLDLMRRKLMQLQKIKIFVLDEADNMLDQQGLGDQCIRVKRFLP 175
Query: 305 PDRQVLMWSATWPKEVQKLAEDFL--VDYVQLNIGSLNPTANHNIVQIVDVCQEHEKDYK 362
D Q++++SAT+ V++ A+ + + ++L +N A I Q+ C+ +E D K
Sbjct: 176 KDTQLVLFSATFADAVRQYAKKIVPNANTLELQTNEVNVDA---IKQLYMDCK-NEAD-K 230
Query: 363 LQGLLSQIGSERTSKTIIFVETKRKADDITRSVRNKGWAAVAIHGNKSQQERDRVLNEFR 422
L G +IIFV TK+ A+ + ++++G +HG+ QERDR++++FR
Sbjct: 231 FDVLTELYGVMTIGSSIIFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDDFR 290
Query: 423 IGRASILVS 431
GR+ +L++
Sbjct: 291 EGRSKVLIT 299
Score = 32.7 bits (73), Expect = 0.73, Method: Compositional matrix adjust.
Identities = 24/79 (30%), Positives = 43/79 (54%), Gaps = 8/79 (10%)
Query: 435 KSQQERDRVLNEF----RIGRASILVSQYKESQQKRDRVLNEFRIGRASILVSHYNKSQQ 490
K++ ++ VL E IG + I V+ K + ++ +E SIL H + Q
Sbjct: 225 KNEADKFDVLTELYGVMTIGSSIIFVATKKTANVLYGKLKSEGH--EVSIL--HGDLQTQ 280
Query: 491 ERDRVLNEFRIGRASILVS 509
ERDR++++FR GR+ +L++
Sbjct: 281 ERDRLIDDFREGRSKVLIT 299
Score = 31.2 bits (69), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 11/28 (39%), Positives = 21/28 (75%)
Query: 508 VSHYNKSQQERDRVLNEFRIGRASILVS 535
+ H + QERDR++++FR GR+ +L++
Sbjct: 272 ILHGDLQTQERDRLIDDFREGRSKVLIT 299
Score = 31.2 bits (69), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 11/28 (39%), Positives = 21/28 (75%)
Query: 534 VSHYNKSQQERDRVLNEFRIGRASILVS 561
+ H + QERDR++++FR GR+ +L++
Sbjct: 272 ILHGDLQTQERDRLIDDFREGRSKVLIT 299
Score = 31.2 bits (69), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 11/28 (39%), Positives = 21/28 (75%)
Query: 560 VSHYNKSQQERDRVLNEFRIGRASILVS 587
+ H + QERDR++++FR GR+ +L++
Sbjct: 272 ILHGDLQTQERDRLIDDFREGRSKVLIT 299
Score = 31.2 bits (69), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 11/28 (39%), Positives = 21/28 (75%)
Query: 586 VSHYNKSQQERDRVLNEFRIGRASILVS 613
+ H + QERDR++++FR GR+ +L++
Sbjct: 272 ILHGDLQTQERDRLIDDFREGRSKVLIT 299
Score = 31.2 bits (69), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 11/28 (39%), Positives = 21/28 (75%)
Query: 612 VSHYNKSQQERDRVLNEFRIGRASILVS 639
+ H + QERDR++++FR GR+ +L++
Sbjct: 272 ILHGDLQTQERDRLIDDFREGRSKVLIT 299
Score = 31.2 bits (69), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 11/28 (39%), Positives = 21/28 (75%)
Query: 638 VSHYNKSQQERDRVLNEFRIGRASILVS 665
+ H + QERDR++++FR GR+ +L++
Sbjct: 272 ILHGDLQTQERDRLIDDFREGRSKVLIT 299
>pdb|3LY5|A Chain A, Ddx18 Dead-Domain
pdb|3LY5|B Chain B, Ddx18 Dead-Domain
Length = 262
Score = 129 bits (325), Expect = 5e-30, Method: Compositional matrix adjust.
Identities = 74/187 (39%), Positives = 115/187 (61%), Gaps = 4/187 (2%)
Query: 140 MKKIYEMGFQAPTAIQAQGWPIALSGCDLVAIAKTGSGKTLGYIAPAIVHVNSQRPL-RS 198
+K I EMGF T IQ + L G DL+A AKTGSGKTL ++ PA+ + R + R+
Sbjct: 66 LKAIKEMGFTNMTEIQHKSIRPLLEGRDLLAAAKTGSGKTLAFLIPAVELIVKLRFMPRN 125
Query: 199 GEGPIVLVLAPTRELAQQIETVANDFGSATATRVACVFGGAPKGPQVKALQTGAEIVIAT 258
G G VL+L+PTRELA Q V + + + GG+ + + + L G I++AT
Sbjct: 126 GTG--VLILSPTRELAMQTFGVLKELMTHHVHTYGLIMGGSNRSAEAQKLGNGINIIVAT 183
Query: 259 PGRLIDYLEQGTINLHRT-SYLVLDEADRMLDMGFEPQIRKIIGQIRPDRQVLMWSATWP 317
PGRL+D+++ +++ LV+DEADR+LD+GFE ++++II + RQ +++SAT
Sbjct: 184 PGRLLDHMQNTPGFMYKNLQCLVIDEADRILDVGFEEELKQIIKLLPTRRQTMLFSATQT 243
Query: 318 KEVQKLA 324
++V+ LA
Sbjct: 244 RKVEDLA 250
>pdb|1XTK|A Chain A, Structure Of Decd To Dead Mutation Of Human Uap56
Length = 390
Score = 122 bits (306), Expect = 8e-28, Method: Compositional matrix adjust.
Identities = 86/312 (27%), Positives = 158/312 (50%), Gaps = 13/312 (4%)
Query: 124 PRPIQHFEECNFPPYIMKKIYEMGFQAPTAIQAQGWPIALSGCDLVAIAKTGSGKTLGYI 183
P + F + P +++ I + GF+ P+ +Q + P A+ G D++ AK+G GKT
Sbjct: 3 PGHMSGFRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKT---- 58
Query: 184 APAIVHVNSQRPLRSGEGPI-VLVLAPTRELAQQIETVANDFGSATA-TRVACVFGGAPK 241
A+ + + + L G + VLV+ TRELA QI F +VA FGG
Sbjct: 59 --AVFVLATLQQLEPVTGQVSVLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSI 116
Query: 242 GPQVKALQTGA-EIVIATPGRLIDYLEQGTINLHRTSYLVLDEADRMLD-MGFEPQIRKI 299
+ L+ IV+ TPGR++ ++NL + +LDEAD+ML+ + +++I
Sbjct: 117 KKDEEVLKKNCPHIVVGTPGRILALARNKSLNLKHIKHFILDEADKMLEQLDMRRDVQEI 176
Query: 300 IGQIRPDRQVLMWSATWPKEVQKLAEDFLVDYVQLNIGSLNPTANHNIVQIVDVCQEHEK 359
++QV+M+SAT KE++ + F+ D +++ + H + Q +++EK
Sbjct: 177 FRMTPHEKQVMMFSATLSKEIRPVCRKFMQDPMEIFVDDETKLTLHGLQQYYVKLKDNEK 236
Query: 360 DYKLQGLLSQIGSERTSKTIIFVETKRKADDITRSVRNKGWAAVAIHGNKSQQERDRVLN 419
+ KL LL + ++ +IFV++ ++ + + + + + A+AIH Q+ER
Sbjct: 237 NRKLFDLLDVL---EFNQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQ 293
Query: 420 EFRIGRASILVS 431
+F+ + ILV+
Sbjct: 294 QFKDFQRRILVA 305
>pdb|3FHO|A Chain A, Structure Of S. Pombe Dbp5
pdb|3FHO|B Chain B, Structure Of S. Pombe Dbp5
Length = 508
Score = 121 bits (304), Expect = 1e-27, Method: Compositional matrix adjust.
Identities = 88/288 (30%), Positives = 150/288 (52%), Gaps = 29/288 (10%)
Query: 154 IQAQGWPIALSGC--DLVAIAKTGSGKTLGYIAPAIVHVNSQRPLRSGEGPIVLVLAPTR 211
IQ + P+ LS +++ +++G+GKT + + V++ P P + LAP+R
Sbjct: 145 IQEKALPLLLSNPPRNMIGQSQSGTGKTAAFALTMLSRVDASVP-----KPQAICLAPSR 199
Query: 212 ELAQQIETVANDFGSATATRVACVFG---GAPKGPQVKALQTGAEIVIATPGRLIDYLEQ 268
ELA+QI V + G T + A FG PKG ++ A +IVI TPG ++D +++
Sbjct: 200 ELARQIMDVVTEMGKYTEVKTA--FGIKDSVPKGAKIDA-----QIVIGTPGTVMDLMKR 252
Query: 269 GTINLHRTSYLVLDEADRMLDM-GFEPQIRKIIGQIRPDRQVLMWSATWPKEVQKLAEDF 327
++ VLDEAD MLD G Q +I + + Q++++SAT+ + V+K AE F
Sbjct: 253 RQLDARDIKVFVLDEADNMLDQQGLGDQSMRIKHLLPRNTQIVLFSATFSERVEKYAERF 312
Query: 328 LVDYVQLNIGSLNPTANHNIVQIVDVCQEHEKDY----KLQGLLSQIGSERTSKTIIFVE 383
+ ++ + + + I Q+ CQ E Y +L GLL+ IG ++IIF +
Sbjct: 313 APNANEIRLKT-EELSVEGIKQLYMDCQSEEHKYNVLVELYGLLT-IG-----QSIIFCK 365
Query: 384 TKRKADDITRSVRNKGWAAVAIHGNKSQQERDRVLNEFRIGRASILVS 431
K A++I R + G + GN +RD +++ FR+G + +LV+
Sbjct: 366 KKDTAEEIARRMTADGHTVACLTGNLEGAQRDAIMDSFRVGTSKVLVT 413
>pdb|1XTI|A Chain A, Structure Of Wildtype Human Uap56
Length = 391
Score = 120 bits (301), Expect = 3e-27, Method: Compositional matrix adjust.
Identities = 84/306 (27%), Positives = 155/306 (50%), Gaps = 13/306 (4%)
Query: 130 FEECNFPPYIMKKIYEMGFQAPTAIQAQGWPIALSGCDLVAIAKTGSGKTLGYIAPAIVH 189
F + P +++ I + GF+ P+ +Q + P A+ G D++ AK+G GKT A+
Sbjct: 10 FRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKT------AVFV 63
Query: 190 VNSQRPLRSGEGPI-VLVLAPTRELAQQIETVANDFGSATA-TRVACVFGGAPKGPQVKA 247
+ + + L G + VLV+ TRELA QI F +VA FGG +
Sbjct: 64 LATLQQLEPVTGQVSVLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEV 123
Query: 248 LQTGA-EIVIATPGRLIDYLEQGTINLHRTSYLVLDEADRMLD-MGFEPQIRKIIGQIRP 305
L+ IV+ TPGR++ ++NL + +LDE D+ML+ + +++I
Sbjct: 124 LKKNCPHIVVGTPGRILALARNKSLNLKHIKHFILDECDKMLEQLDMRRDVQEIFRMTPH 183
Query: 306 DRQVLMWSATWPKEVQKLAEDFLVDYVQLNIGSLNPTANHNIVQIVDVCQEHEKDYKLQG 365
++QV+M+SAT KE++ + F+ D +++ + H + Q +++EK+ KL
Sbjct: 184 EKQVMMFSATLSKEIRPVCRKFMQDPMEIFVDDETKLTLHGLQQYYVKLKDNEKNRKLFD 243
Query: 366 LLSQIGSERTSKTIIFVETKRKADDITRSVRNKGWAAVAIHGNKSQQERDRVLNEFRIGR 425
LL + ++ +IFV++ ++ + + + + + A+AIH Q+ER +F+ +
Sbjct: 244 LLDVL---EFNQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQ 300
Query: 426 ASILVS 431
ILV+
Sbjct: 301 RRILVA 306
>pdb|1XTJ|A Chain A, Structure Of Human Uap56 In Complex With Adp
Length = 386
Score = 120 bits (300), Expect = 4e-27, Method: Compositional matrix adjust.
Identities = 84/306 (27%), Positives = 155/306 (50%), Gaps = 13/306 (4%)
Query: 130 FEECNFPPYIMKKIYEMGFQAPTAIQAQGWPIALSGCDLVAIAKTGSGKTLGYIAPAIVH 189
F + P +++ I + GF+ P+ +Q + P A+ G D++ AK+G GKT A+
Sbjct: 10 FRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKT------AVFV 63
Query: 190 VNSQRPLRSGEGPI-VLVLAPTRELAQQIETVANDFGSATA-TRVACVFGGAPKGPQVKA 247
+ + + L G + VLV+ TRELA QI F +VA FGG +
Sbjct: 64 LATLQQLEPVTGQVSVLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEV 123
Query: 248 LQTGA-EIVIATPGRLIDYLEQGTINLHRTSYLVLDEADRMLD-MGFEPQIRKIIGQIRP 305
L+ IV+ TPGR++ ++NL + +LDE D+ML+ + +++I
Sbjct: 124 LKKNCPHIVVGTPGRILALARNKSLNLKHIKHFILDECDKMLEQLDMRRDVQEIFRMTPH 183
Query: 306 DRQVLMWSATWPKEVQKLAEDFLVDYVQLNIGSLNPTANHNIVQIVDVCQEHEKDYKLQG 365
++QV+M+SAT KE++ + F+ D +++ + H + Q +++EK+ KL
Sbjct: 184 EKQVMMFSATLSKEIRPVCRKFMQDPMEIFVDDETKLTLHGLQQYYVKLKDNEKNRKLFD 243
Query: 366 LLSQIGSERTSKTIIFVETKRKADDITRSVRNKGWAAVAIHGNKSQQERDRVLNEFRIGR 425
LL + ++ +IFV++ ++ + + + + + A+AIH Q+ER +F+ +
Sbjct: 244 LLDVL---EFNQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQ 300
Query: 426 ASILVS 431
ILV+
Sbjct: 301 RRILVA 306
>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 = 117 bits (294), Expect = 2e-26, Method: Compositional matrix adjust.
Identities = 70/211 (33%), Positives = 114/211 (54%), Gaps = 12/211 (5%)
Query: 129 HFEECNFPPYIMKKIYEMGFQAPTAIQAQGWPIALSGCDLVAIAKTGSGKTLGYIAPAIV 188
FE+ ++ I+EMG++ P+ IQ + PIALSG D++A AK G+GK+ Y+ P +
Sbjct: 4 EFEDYCLKRELLMGIFEMGWEKPSPIQEESIPIALSGRDILARAKNGTGKSGAYLIPLLE 63
Query: 189 HVNSQRPLRSGEGPIVLVLAPTRELAQQIET----VANDFGSATATRVACVFGGAPKGPQ 244
++ ++ + +V+ PTRELA Q+ V+ G A +V GG
Sbjct: 64 RLDLKK-----DNIQAMVIVPTRELALQVSQICIQVSKHMGGA---KVMATTGGTNLRDD 115
Query: 245 VKALQTGAEIVIATPGRLIDYLEQGTINLHRTSYLVLDEADRMLDMGFEPQIRKIIGQIR 304
+ L +VIATPGR++D +++G + +VLDEAD++L F + II +
Sbjct: 116 IMRLDDTVHVVIATPGRILDLIKKGVAKVDHVQMIVLDEADKLLSQDFVQIMEDIILTLP 175
Query: 305 PDRQVLMWSATWPKEVQKLAEDFLVDYVQLN 335
+RQ+L++SAT+P VQK L ++N
Sbjct: 176 KNRQILLYSATFPLSVQKFMNSHLEKPYEIN 206
>pdb|3BOR|A Chain A, Crystal Structure Of The Deadc Domain Of Human Translation
Initiation Factor 4a-2
Length = 237
Score = 114 bits (285), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 71/209 (33%), Positives = 113/209 (54%), Gaps = 6/209 (2%)
Query: 127 IQHFEECNFPPYIMKKIYEMGFQAPTAIQAQGWPIALSGCDLVAIAKTGSGKTLGYIAPA 186
+ +F++ N +++ IY GF+ P+AIQ + + G D++A A++G+GKT A
Sbjct: 29 VDNFDDMNLKESLLRGIYAYGFEKPSAIQQRAIIPCIKGYDVIAQAQSGTGKT----ATF 84
Query: 187 IVHVNSQRPLRSGEGPIVLVLAPTRELAQQIETVANDFGSATATRVACVFGGAPKGPQVK 246
+ + Q + E LVLAPTRELAQQI+ V G GG +++
Sbjct: 85 AISILQQLEIEFKETQ-ALVLAPTRELAQQIQKVILALGDYMGATCHACIGGTNVRNEMQ 143
Query: 247 ALQTGA-EIVIATPGRLIDYLEQGTINLHRTSYLVLDEADRMLDMGFEPQIRKIIGQIRP 305
LQ A IV+ TPGR+ D L + ++ VLDEAD ML GF+ QI +I ++
Sbjct: 144 KLQAEAPHIVVGTPGRVFDMLNRRYLSPKWIKMFVLDEADEMLSRGFKDQIYEIFQKLNT 203
Query: 306 DRQVLMWSATWPKEVQKLAEDFLVDYVQL 334
QV++ SAT P +V ++ + F+ D +++
Sbjct: 204 SIQVVLLSATMPTDVLEVTKKFMRDPIRI 232
>pdb|2PL3|A Chain A, Human Dead-Box Rna Helicase Ddx10, Dead Domain In Complex
With Adp
Length = 236
Score = 113 bits (283), Expect = 3e-25, Method: Compositional matrix adjust.
Identities = 78/223 (34%), Positives = 118/223 (52%), Gaps = 28/223 (12%)
Query: 121 KCVPRPIQHFEECN---------FP--PYIMKKIYEMGFQAPTAIQAQGWPIALSGCDLV 169
+ + R +Q++E+ N FP +K + E ++ T IQ Q +AL G D++
Sbjct: 7 ESISRLMQNYEKINVNEITRFSDFPLSKKTLKGLQEAQYRLVTEIQKQTIGLALQGKDVL 66
Query: 170 AIAKTGSGKTLGYIAPAIVHVNSQRPLRSGEGPIVLVLAPTRELAQQIETVANDFGSATA 229
AKTGSGKTL ++ P ++ + S +G VL+++PTRELA Q V G
Sbjct: 67 GAAKTGSGKTLAFLVP-VLEALYRLQWTSTDGLGVLIISPTRELAYQTFEVLRKVGKNHD 125
Query: 230 TRVACVFGGAPKGPQVKALQTGAE------IVIATPGRLIDYLEQGTINLHRTS--YLVL 281
+ GG K L+ AE I++ TPGRL+ ++++ T++ H T LVL
Sbjct: 126 FSAGLIIGG-------KDLKHEAERINNINILVCTPGRLLQHMDE-TVSFHATDLQMLVL 177
Query: 282 DEADRMLDMGFEPQIRKIIGQIRPDRQVLMWSATWPKEVQKLA 324
DEADR+LDMGF + +I + RQ L++SAT K V+ LA
Sbjct: 178 DEADRILDMGFADTMNAVIENLPKKRQTLLFSATQTKSVKDLA 220
>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 = 113 bits (283), Expect = 4e-25, Method: Composition-based stats.
Identities = 68/209 (32%), Positives = 109/209 (52%), Gaps = 6/209 (2%)
Query: 127 IQHFEECNFPPYIMKKIYEMGFQAPTAIQAQGWPIALSGCDLVAIAKTGSGKTLGYIAPA 186
+ F++ N +++ IY GF+ P+AIQ + + G D++A A++G+G T +
Sbjct: 14 VDSFDDMNLSESLLRGIYAYGFEXPSAIQQRAILPCIXGYDVIAQAQSGTGXTATFAISI 73
Query: 187 IVHVNSQRPLRSGEGPIVLVLAPTRELAQQIETVANDFGSATATRVACVFGGAPKGPQVK 246
+ + + L + + LVLAPTRELAQQI+ V G GG +V+
Sbjct: 74 LQQI--ELDLXATQA---LVLAPTRELAQQIQXVVMALGDYMGASCHACIGGTNVRAEVQ 128
Query: 247 ALQTGA-EIVIATPGRLIDYLEQGTINLHRTSYLVLDEADRMLDMGFEPQIRKIIGQIRP 305
LQ A I++ TPGR+ D L + ++ VLDEAD ML GF QI I +
Sbjct: 129 XLQMEAPHIIVGTPGRVFDMLNRRYLSPXYIXMFVLDEADEMLSRGFXDQIYDIFQXLNS 188
Query: 306 DRQVLMWSATWPKEVQKLAEDFLVDYVQL 334
+ QV++ SAT P +V ++ F+ D +++
Sbjct: 189 NTQVVLLSATMPSDVLEVTXXFMRDPIRI 217
>pdb|1QVA|A Chain A, Yeast Initiation Factor 4a N-Terminal Domain
Length = 223
Score = 108 bits (271), Expect = 8e-24, Method: Composition-based stats.
Identities = 66/208 (31%), Positives = 111/208 (53%), Gaps = 6/208 (2%)
Query: 127 IQHFEECNFPPYIMKKIYEMGFQAPTAIQAQGWPIALSGCDLVAIAKTGSGKTLGYIAPA 186
+ F++ +++ ++ GF+ P+AIQ + + G D++A A++G+GKT + A
Sbjct: 20 VYKFDDMELDEQLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAA 79
Query: 187 IVHVNSQRPLRSGEGPIVLVLAPTRELAQQIETVANDFGSATATRVACVFGGAPKGPQVK 246
+ QR S + P L+LAPTRELA QI+ V +V GG +
Sbjct: 80 L-----QRIDTSVKAPQALMLAPTRELALQIQKVVMALAFHMDIKVHACIGGTSFVEDAE 134
Query: 247 ALQTGAEIVIATPGRLIDYLEQGTINLHRTSYLVLDEADRMLDMGFEPQIRKIIGQIRPD 306
L+ A+IV+ TPGR+ D +++ + +LDEAD ML GF+ QI +I + P
Sbjct: 135 GLRD-AQIVVGTPGRVFDNIQRRRFRTDKIKMFILDEADEMLSSGFKEQIYQIFTLLPPT 193
Query: 307 RQVLMWSATWPKEVQKLAEDFLVDYVQL 334
QV++ SAT P +V ++ F+ + V++
Sbjct: 194 TQVVLLSATMPNDVLEVTTKFMRNPVRI 221
>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 = 108 bits (271), Expect = 9e-24, Method: Composition-based stats.
Identities = 66/208 (31%), Positives = 111/208 (53%), Gaps = 6/208 (2%)
Query: 127 IQHFEECNFPPYIMKKIYEMGFQAPTAIQAQGWPIALSGCDLVAIAKTGSGKTLGYIAPA 186
+ F++ +++ ++ GF+ P+AIQ + + G D++A A++G+GKT + A
Sbjct: 13 VYKFDDMELDENLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAA 72
Query: 187 IVHVNSQRPLRSGEGPIVLVLAPTRELAQQIETVANDFGSATATRVACVFGGAPKGPQVK 246
+ QR S + P L+LAPTRELA QI+ V +V GG +
Sbjct: 73 L-----QRIDTSVKAPQALMLAPTRELALQIQKVVMALAFHMDIKVHACIGGTSFVEDAE 127
Query: 247 ALQTGAEIVIATPGRLIDYLEQGTINLHRTSYLVLDEADRMLDMGFEPQIRKIIGQIRPD 306
L+ A+IV+ TPGR+ D +++ + +LDEAD ML GF+ QI +I + P
Sbjct: 128 GLRD-AQIVVGTPGRVFDNIQRRRFRTDKIKMFILDEADEMLSSGFKEQIYQIFTLLPPT 186
Query: 307 RQVLMWSATWPKEVQKLAEDFLVDYVQL 334
QV++ SAT P +V ++ F+ + V++
Sbjct: 187 TQVVLLSATMPNDVLEVTTKFMRNPVRI 214
>pdb|3SQW|A Chain A, Structure Of Mss116p (Nte Deletion) Bound To Ssrna And
Amp-Pnp
Length = 579
Score = 108 bits (271), Expect = 9e-24, Method: Compositional matrix adjust.
Identities = 100/331 (30%), Positives = 156/331 (47%), Gaps = 37/331 (11%)
Query: 130 FEECNFPPYIMKKIYEMGFQAPTAIQAQGWPIALSG--CDLVAIAKTGSGKTLGYIAPAI 187
EE I K I M F T +Q + LS D++A AKTG+GKT ++ P
Sbjct: 23 LEEGVLDKEIHKAITRMEFPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIF 82
Query: 188 VHV-----NSQRPLRSGEGPIVLVLAPTRELAQQIETVAN-----DFGSATATRVACVFG 237
H+ +SQ +++ +++APTR+LA QIE ++G V+ V G
Sbjct: 83 QHLINTKFDSQYMVKA------VIVAPTRDLALQIEAEVKKIHDMNYGLKKYACVSLVGG 136
Query: 238 GAPKGPQVKALQTGAEIVIATPGRLIDYLEQGTINLHR-TSYLVLDEADRMLDMGFEPQI 296
+ K + IVIATPGRLID LE+ + R Y VLDEADR+L++GF +
Sbjct: 137 TDFRAAMNKMNKLRPNIVIATPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLEIGFRDDL 196
Query: 297 RKIIGQIRPDR-------QVLMWSATWPKEVQKLAEDFLVDYVQLNIGSLN---PTANHN 346
I G + + L++SAT +VQKLA + + L + +++ P A+
Sbjct: 197 ETISGILNEKNSKSADNIKTLLFSATLDDKVQKLANNIMNKKECLFLDTVDKNEPEAHER 256
Query: 347 IVQIVDVCQEHEKDY--KLQGLLSQIGSERTS--KTIIFVETKRKADDITRSVRN---KG 399
I Q V + ++ ++ + QI ER S K IIF T + + ++N K
Sbjct: 257 IDQSVVISEKFANSIFAAVEHIKKQI-KERDSNYKAIIFAPTVKFTSFLCSILKNEFKKD 315
Query: 400 WAAVAIHGNKSQQERDRVLNEFRIGRASILV 430
+ HG +Q +R ++ F+ + ILV
Sbjct: 316 LPILEFHGKITQNKRTSLVKRFKKDESGILV 346
>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 = 108 bits (269), Expect = 2e-23, Method: Compositional matrix adjust.
Identities = 100/331 (30%), Positives = 156/331 (47%), Gaps = 37/331 (11%)
Query: 130 FEECNFPPYIMKKIYEMGFQAPTAIQAQGWPIALSG--CDLVAIAKTGSGKTLGYIAPAI 187
EE I K I M F T +Q + LS D++A AKTG+GKT ++ P
Sbjct: 74 LEEGVLDKEIHKAITRMEFPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIF 133
Query: 188 VHV-----NSQRPLRSGEGPIVLVLAPTRELAQQIETVAN-----DFGSATATRVACVFG 237
H+ +SQ +++ +++APTR+LA QIE ++G V+ V G
Sbjct: 134 QHLINTKFDSQYMVKA------VIVAPTRDLALQIEAEVKKIHDMNYGLKKYACVSLVGG 187
Query: 238 GAPKGPQVKALQTGAEIVIATPGRLIDYLEQGTINLHR-TSYLVLDEADRMLDMGFEPQI 296
+ K + IVIATPGRLID LE+ + R Y VLDEADR+L++GF +
Sbjct: 188 TDFRAAMNKMNKLRPNIVIATPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLEIGFRDDL 247
Query: 297 RKIIGQIRPDR-------QVLMWSATWPKEVQKLAEDFLVDYVQLNIGSLN---PTANHN 346
I G + + L++SAT +VQKLA + + L + +++ P A+
Sbjct: 248 ETISGILNEKNSKSADNIKTLLFSATLDDKVQKLANNIMNKKECLFLDTVDKNEPEAHER 307
Query: 347 IVQIVDVCQEHEKDY--KLQGLLSQIGSERTS--KTIIFVETKRKADDITRSVRN---KG 399
I Q V + ++ ++ + QI ER S K IIF T + + ++N K
Sbjct: 308 IDQSVVISEKFANSIFAAVEHIKKQI-KERDSNYKAIIFAPTVKFTSFLCSILKNEFKKD 366
Query: 400 WAAVAIHGNKSQQERDRVLNEFRIGRASILV 430
+ HG +Q +R ++ F+ + ILV
Sbjct: 367 LPILEFHGKITQNKRTSLVKRFKKDESGILV 397
>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 = 107 bits (268), Expect = 2e-23, Method: Composition-based stats.
Identities = 76/221 (34%), Positives = 111/221 (50%), Gaps = 19/221 (8%)
Query: 129 HFEECNFPPYIMKKIYEMGFQAPTAIQAQGWPIALSGCDLVAIAKTGSGKTLGYIAPAIV 188
F F P+I++ I + F PT IQ + P AL G V ++TG+GKT Y+ P
Sbjct: 5 QFTRFPFQPFIIEAIKTLRFYKPTEIQERIIPGALRGESXVGQSQTGTGKTHAYLLPIXE 64
Query: 189 HVNSQRPLRSGEGPIVLVLAPTRELAQQI--ETVA-NDFGSATATRVA-CVFGGAPKGPQ 244
+ +R ++ APTRELA QI ET+ F VA C+ GG K
Sbjct: 65 KIKPERAEVQA-----VITAPTRELATQIYHETLKITKFCPKDRXIVARCLIGGTDKQKA 119
Query: 245 VKALQTGAEIVIATPGRLIDYLEQGTINLHRTSYLVLDEADRMLDMGFEPQIRKIIGQIR 304
++ L IVI TPGR+ D++ + +++H LV+DEAD LD GF + +I +
Sbjct: 120 LEKLNVQPHIVIGTPGRINDFIREQALDVHTAHILVVDEADLXLDXGFITDVDQIAARXP 179
Query: 305 PDRQVLMWSATWPKEVQKLAEDFLVDYVQLNIGSLNPTANH 345
D Q L++SAT P++++ FL Y + NPT H
Sbjct: 180 KDLQXLVFSATIPEKLKP----FLKKYXE------NPTFVH 210
>pdb|3SQX|A Chain A, Structure Of Mss116p (Nte And C-Tail Double Deletion)
Bound To Ssrna And Amp-Pnp
Length = 512
Score = 107 bits (266), Expect = 4e-23, Method: Compositional matrix adjust.
Identities = 100/331 (30%), Positives = 156/331 (47%), Gaps = 37/331 (11%)
Query: 130 FEECNFPPYIMKKIYEMGFQAPTAIQAQGWPIALSG--CDLVAIAKTGSGKTLGYIAPAI 187
EE I K I M F T +Q + LS D++A AKTG+GKT ++ P
Sbjct: 23 LEEGVLDKEIHKAITRMEFPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIF 82
Query: 188 VHV-----NSQRPLRSGEGPIVLVLAPTRELAQQIETVAN-----DFGSATATRVACVFG 237
H+ +SQ +++ +++APTR+LA QIE ++G V+ V G
Sbjct: 83 QHLINTKFDSQYMVKA------VIVAPTRDLALQIEAEVKKIHDMNYGLKKYACVSLVGG 136
Query: 238 GAPKGPQVKALQTGAEIVIATPGRLIDYLEQGTINLHR-TSYLVLDEADRMLDMGFEPQI 296
+ K + IVIATPGRLID LE+ + R Y VLDEADR+L++GF +
Sbjct: 137 TDFRAAMNKMNKLRPNIVIATPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLEIGFRDDL 196
Query: 297 RKIIGQIRPDR-------QVLMWSATWPKEVQKLAEDFLVDYVQLNIGSLN---PTANHN 346
I G + + L++SAT +VQKLA + + L + +++ P A+
Sbjct: 197 ETISGILNEKNSKSADNIKTLLFSATLDDKVQKLANNIMNKKECLFLDTVDKNEPEAHER 256
Query: 347 IVQIVDVCQEHEKDY--KLQGLLSQIGSERTS--KTIIFVETKRKADDITRSVRN---KG 399
I Q V + ++ ++ + QI ER S K IIF T + + ++N K
Sbjct: 257 IDQSVVISEKFANSIFAAVEHIKKQI-KERDSNYKAIIFAPTVKFTSFLCSILKNEFKKD 315
Query: 400 WAAVAIHGNKSQQERDRVLNEFRIGRASILV 430
+ HG +Q +R ++ F+ + ILV
Sbjct: 316 LPILEFHGKITQNKRTSLVKRFKKDESGILV 346
>pdb|3G0H|A Chain A, Human Dead-box Rna Helicase Ddx19, In Complex With An
Atp-analogue And Rna
Length = 424
Score = 105 bits (262), Expect = 1e-22, Method: Compositional matrix adjust.
Identities = 84/310 (27%), Positives = 149/310 (48%), Gaps = 16/310 (5%)
Query: 127 IQHFEECNFPPYIMKKIYEMGFQAPTAIQAQGWPIALSGC--DLVAIAKTGSGKTLGYIA 184
++ FEE P +++ +Y MGF P+ IQ P+ L+ +L+A +++G+GKT ++
Sbjct: 40 VKSFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVL 99
Query: 185 PAIVHVNSQRPLRSGEGPIVLVLAPTRELAQQIETVANDFGSATATRVACVFGGAPKGPQ 244
+ V + + P L L+PT ELA Q V G A +G +
Sbjct: 100 AMLSQVEP-----ANKYPQCLCLSPTYELALQTGKVIEQMGKFYP---ELKLAYAVRGNK 151
Query: 245 VKALQTGAE-IVIATPGRLIDYLEQ-GTINLHRTSYLVLDEADRML-DMGFEPQIRKIIG 301
++ Q +E IVI TPG ++D+ + I+ + VLDEAD M+ G + Q +I
Sbjct: 152 LERGQKISEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQR 211
Query: 302 QIRPDRQVLMWSATWPKEVQKLAEDFLVDYVQLNIGSLNPTANHNIVQIVDVCQEHEKDY 361
+ + Q+L++SAT+ V K A+ + D + + T + I Q +C +D
Sbjct: 212 MLPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKREEETLD-TIKQYYVLC--SSRDE 268
Query: 362 KLQGLLSQIGSERTSKTIIFVETKRKADDITRSVRNKGWAAVAIHGNKSQQERDRVLNEF 421
K Q L + G+ ++ +IF T++ A + + +G + G ++R V+ F
Sbjct: 269 KFQALCNLYGAITIAQAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERF 328
Query: 422 RIGRASILVS 431
R G+ +LV+
Sbjct: 329 REGKEKVLVT 338
>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 = 105 bits (262), Expect = 1e-22, Method: Compositional matrix adjust.
Identities = 84/310 (27%), Positives = 149/310 (48%), Gaps = 16/310 (5%)
Query: 127 IQHFEECNFPPYIMKKIYEMGFQAPTAIQAQGWPIALSGC--DLVAIAKTGSGKTLGYIA 184
++ FEE P +++ +Y MGF P+ IQ P+ L+ +L+A +++G+GKT ++
Sbjct: 61 VKSFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVL 120
Query: 185 PAIVHVNSQRPLRSGEGPIVLVLAPTRELAQQIETVANDFGSATATRVACVFGGAPKGPQ 244
+ V + + P L L+PT ELA Q V G A +G +
Sbjct: 121 AMLSQVEP-----ANKYPQCLCLSPTYELALQTGKVIEQMGKFYP---ELKLAYAVRGNK 172
Query: 245 VKALQTGAE-IVIATPGRLIDYLEQ-GTINLHRTSYLVLDEADRML-DMGFEPQIRKIIG 301
++ Q +E IVI TPG ++D+ + I+ + VLDEAD M+ G + Q +I
Sbjct: 173 LERGQKISEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQR 232
Query: 302 QIRPDRQVLMWSATWPKEVQKLAEDFLVDYVQLNIGSLNPTANHNIVQIVDVCQEHEKDY 361
+ + Q+L++SAT+ V K A+ + D + + T + I Q +C +D
Sbjct: 233 MLPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKREEETLD-TIKQYYVLC--SSRDE 289
Query: 362 KLQGLLSQIGSERTSKTIIFVETKRKADDITRSVRNKGWAAVAIHGNKSQQERDRVLNEF 421
K Q L + G+ ++ +IF T++ A + + +G + G ++R V+ F
Sbjct: 290 KFQALCNLYGAITIAQAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERF 349
Query: 422 RIGRASILVS 431
R G+ +LV+
Sbjct: 350 REGKEKVLVT 359
>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 = 104 bits (260), Expect = 2e-22, Method: Compositional matrix adjust.
Identities = 84/310 (27%), Positives = 149/310 (48%), Gaps = 16/310 (5%)
Query: 127 IQHFEECNFPPYIMKKIYEMGFQAPTAIQAQGWPIALSGC--DLVAIAKTGSGKTLGYIA 184
++ FEE P +++ +Y MGF P+ IQ P+ L+ +L+A +++G+GKT ++
Sbjct: 24 VKSFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVL 83
Query: 185 PAIVHVNSQRPLRSGEGPIVLVLAPTRELAQQIETVANDFGSATATRVACVFGGAPKGPQ 244
+ V + + P L L+PT ELA Q V G A +G +
Sbjct: 84 AMLSQVEP-----ANKYPQCLCLSPTYELALQTGKVIEQMGKFYP---ELKLAYAVRGNK 135
Query: 245 VKALQTGAE-IVIATPGRLIDYLEQ-GTINLHRTSYLVLDEADRML-DMGFEPQIRKIIG 301
++ Q +E IVI TPG ++D+ + I+ + VLDEAD M+ G + Q +I
Sbjct: 136 LERGQKISEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQR 195
Query: 302 QIRPDRQVLMWSATWPKEVQKLAEDFLVDYVQLNIGSLNPTANHNIVQIVDVCQEHEKDY 361
+ + Q+L++SAT+ V K A+ + D + + T + I Q +C +D
Sbjct: 196 MLPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKREEETLD-TIKQYYVLC--SSRDE 252
Query: 362 KLQGLLSQIGSERTSKTIIFVETKRKADDITRSVRNKGWAAVAIHGNKSQQERDRVLNEF 421
K Q L + G+ ++ +IF T++ A + + +G + G ++R V+ F
Sbjct: 253 KFQALCNLYGAITIAQAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERF 312
Query: 422 RIGRASILVS 431
R G+ +LV+
Sbjct: 313 REGKEKVLVT 322
>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 = 104 bits (259), Expect = 2e-22, Method: Compositional matrix adjust.
Identities = 84/310 (27%), Positives = 149/310 (48%), Gaps = 16/310 (5%)
Query: 127 IQHFEECNFPPYIMKKIYEMGFQAPTAIQAQGWPIALSGC--DLVAIAKTGSGKTLGYIA 184
++ FEE P +++ +Y MGF P+ IQ P+ L+ +L+A +++G+GKT ++
Sbjct: 91 VKSFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVL 150
Query: 185 PAIVHVNSQRPLRSGEGPIVLVLAPTRELAQQIETVANDFGSATATRVACVFGGAPKGPQ 244
+ V + + P L L+PT ELA Q V G A +G +
Sbjct: 151 AMLSQVEP-----ANKYPQCLCLSPTYELALQTGKVIEQMGKFYPE---LKLAYAVRGNK 202
Query: 245 VKALQTGAE-IVIATPGRLIDYLEQ-GTINLHRTSYLVLDEADRML-DMGFEPQIRKIIG 301
++ Q +E IVI TPG ++D+ + I+ + VLDEAD M+ G + Q +I
Sbjct: 203 LERGQKISEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQR 262
Query: 302 QIRPDRQVLMWSATWPKEVQKLAEDFLVDYVQLNIGSLNPTANHNIVQIVDVCQEHEKDY 361
+ + Q+L++SAT+ V K A+ + D + + T + I Q +C +D
Sbjct: 263 MLPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKREEETLD-TIKQYYVLC--SSRDE 319
Query: 362 KLQGLLSQIGSERTSKTIIFVETKRKADDITRSVRNKGWAAVAIHGNKSQQERDRVLNEF 421
K Q L + G+ ++ +IF T++ A + + +G + G ++R V+ F
Sbjct: 320 KFQALCNLYGAITIAQAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERF 379
Query: 422 RIGRASILVS 431
R G+ +LV+
Sbjct: 380 REGKEKVLVT 389
>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 = 7e-20, Method: Compositional matrix adjust.
Identities = 74/237 (31%), Positives = 122/237 (51%), Gaps = 25/237 (10%)
Query: 120 GKCVPRPIQHFE----ECNFPPYIMKKIYEMGFQAPTAIQAQGWPIALSGCDLVAIAKTG 175
G +P PI F+ E +++ I + GFQ PT IQ Q P+ L G +L+A A TG
Sbjct: 17 GTDLPDPIATFQQLDQEYKINSRLLQNILDAGFQMPTPIQMQAIPVMLHGRELLASAPTG 76
Query: 176 SGKTLGYIAPAIVHVNSQRPLRSGEGPIVLVLAPTRELAQQIETVANDFGSATATRVACV 235
SGKTL + P ++ + ++P + +G L+++PTRELA QI T R+ +
Sbjct: 77 SGKTLAFSIPILMQL--KQP--ANKGFRALIISPTRELASQIHRELIKISEGTGFRIHMI 132
Query: 236 FGGAPKGPQVKALQTGA------EIVIATPGRLIDYLEQGT--INLHRTSYLVLDEADRM 287
A V A + G +I++ TP RLI L+Q I+L +LV+DE+D++
Sbjct: 133 HKAA-----VAAKKFGPKSSKKFDILVTTPNRLIYLLKQDPPGIDLASVEWLVVDESDKL 187
Query: 288 LD---MGFEPQIRKIIGQIRPDR-QVLMWSATWPKEVQKLAEDFLVDYVQLNIGSLN 340
+ GF Q+ I + + M+SAT+ +V++ + L + + ++IG+ N
Sbjct: 188 FEDGKTGFRDQLASIFLACTSHKVRRAMFSATFAYDVEQWCKLNLDNVISVSIGARN 244
>pdb|2KBE|A Chain A, Solution Structure Of Amino-Terminal Domain Of Dbp5p
Length = 226
Score = 94.4 bits (233), Expect = 2e-19, Method: Composition-based stats.
Identities = 59/201 (29%), Positives = 104/201 (51%), Gaps = 12/201 (5%)
Query: 128 QHFEECNFPPYIMKKIYEMGFQAPTAIQAQGWPIALSGC--DLVAIAKTGSGKTLGYIAP 185
+ F+E P ++K IY M FQ P+ IQ + P+ L +++A +++G+GKT +
Sbjct: 22 KSFDELGLAPELLKGIYAMKFQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAAFSLT 81
Query: 186 AIVHVNSQRPLRSGEGPIVLVLAPTRELAQQIETVANDFGSATATRVACVFGGAPKGPQV 245
+ VN + P + LAP+RELA+Q V + G T + + +
Sbjct: 82 MLTRVNPE-----DASPQAICLAPSRELARQTLEVVQEMGKFTKITSQLIVPDSFE---- 132
Query: 246 KALQTGAEIVIATPGRLIDYLEQGTINLHRTSYLVLDEADRMLD-MGFEPQIRKIIGQIR 304
K Q A++++ TPG ++D + + + L + VLDEAD MLD G Q ++ +
Sbjct: 133 KNKQINAQVIVGTPGTVLDLMRRKLMQLQKIKIFVLDEADNMLDQQGLGDQCIRVKRFLP 192
Query: 305 PDRQVLMWSATWPKEVQKLAE 325
D Q++++SAT+ V++ A+
Sbjct: 193 KDTQLVLFSATFADAVRQYAK 213
>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 = 93.6 bits (231), Expect = 4e-19, Method: Composition-based stats.
Identities = 62/209 (29%), Positives = 108/209 (51%), Gaps = 10/209 (4%)
Query: 130 FEECNFPPYIMKKIYEMGFQAPTAIQAQGWPIALSGCDLVAIAKTGSGKTLGYIAPAIVH 189
F + P +++ I + GF+ P+ +Q + P A+ G D++ AK+G GKT A+
Sbjct: 16 FRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKT------AVFV 69
Query: 190 VNSQRPLRSGEGPI-VLVLAPTRELAQQIETVANDFGSATA-TRVACVFGGAPKGPQVKA 247
+ + + L G + VLV+ TRELA QI F +VA FGG +
Sbjct: 70 LATLQQLEPVTGQVSVLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEV 129
Query: 248 LQTGA-EIVIATPGRLIDYLEQGTINLHRTSYLVLDEADRMLD-MGFEPQIRKIIGQIRP 305
L+ IV+ TPGR++ ++NL + +LDE D+ML+ + +++I
Sbjct: 130 LKKNCPHIVVGTPGRILALARNKSLNLKHIKHFILDECDKMLEQLDMRRDVQEIFRMTPH 189
Query: 306 DRQVLMWSATWPKEVQKLAEDFLVDYVQL 334
++QV+M+SAT KE++ + F+ D +++
Sbjct: 190 EKQVMMFSATLSKEIRPVCRKFMQDPMEI 218
>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 = 88.2 bits (217), Expect = 2e-17, Method: Compositional matrix adjust.
Identities = 66/219 (30%), Positives = 108/219 (49%), Gaps = 28/219 (12%)
Query: 130 FEECNFPPYIMKKIYEMGFQAPTAIQAQGWPIALSGCDLVAIAKTGSGKTLGYIAPAI-- 187
FE +++ + GF+ P+ +Q + P+ G DL+ AK+G+GKT + A+
Sbjct: 26 FESLLLSRPVLEGLRAAGFERPSPVQLKAIPLGRCGLDLIVQAKSGTGKTCVFSTIALDS 85
Query: 188 ---VHVNSQRPLRSGEGPIVLVLAPTRELAQQIETVANDFGSATATRVACVFGGAPKGPQ 244
++++Q +L+LAPTRE+A QI +V G VF G Q
Sbjct: 86 LVLENLSTQ----------ILILAPTREIAVQIHSVITAIGIKMEGLECHVFIGGTPLSQ 135
Query: 245 VKALQTGAEIVIATPGRL-----IDYLEQGTINLHRTSYLVLDEADRMLDMG-FEPQIRK 298
K I + +PGR+ +DYL G+I L +LDEAD++L+ G F+ QI
Sbjct: 136 DKTRLKKCHIAVGSPGRIKQLIELDYLNPGSIRL-----FILDEADKLLEEGSFQEQINW 190
Query: 299 IIGQIRPDRQVLMWSATWPKEVQKLAEDFLVD--YVQLN 335
I + +Q+L SAT+P+ + ++ D +V+LN
Sbjct: 191 IYSSLPASKQMLAVSATYPEFLANALTKYMRDPTFVRLN 229
>pdb|3FMO|B Chain B, Crystal Structure Of The Nucleoporin Nup214 In Complex
With The Dead- Box Helicase Ddx19
Length = 300
Score = 80.1 bits (196), Expect = 4e-15, Method: Compositional matrix adjust.
Identities = 62/209 (29%), Positives = 105/209 (50%), Gaps = 13/209 (6%)
Query: 127 IQHFEECNFPPYIMKKIYEMGFQAPTAIQAQGWPIALSGC--DLVAIAKTGSGKTLGYIA 184
++ FEE P +++ +Y MGF P+ IQ P+ L+ +L+A +++G+GKT ++
Sbjct: 91 VKSFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVL 150
Query: 185 PAIVHVNSQRPLRSGEGPIVLVLAPTRELAQQIETVANDFGSATATRVACVFGGAPKGPQ 244
+ V + + P L L+PT ELA Q V G A +G +
Sbjct: 151 AMLSQVEP-----ANKYPQCLCLSPTYELALQTGKVIEQMGKFYPE---LKLAYAVRGNK 202
Query: 245 VKALQTGAE-IVIATPGRLIDYLEQ-GTINLHRTSYLVLDEADRML-DMGFEPQIRKIIG 301
++ Q +E IVI TPG ++D+ + I+ + VLDEAD M+ G + Q +I
Sbjct: 203 LERGQKISEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQR 262
Query: 302 QIRPDRQVLMWSATWPKEVQKLAEDFLVD 330
+ + Q+L++SAT+ V K A+ + D
Sbjct: 263 MLPRNCQMLLFSATFEDSVWKFAQKVVPD 291
>pdb|3FHC|B Chain B, Crystal Structure Of Human Dbp5 In Complex With Nup214
Length = 235
Score = 79.3 bits (194), Expect = 7e-15, Method: Compositional matrix adjust.
Identities = 62/209 (29%), Positives = 105/209 (50%), Gaps = 13/209 (6%)
Query: 127 IQHFEECNFPPYIMKKIYEMGFQAPTAIQAQGWPIALSGC--DLVAIAKTGSGKTLGYIA 184
++ FEE P +++ +Y MGF P+ IQ P+ L+ +L+A +++G+GKT ++
Sbjct: 24 VKSFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVL 83
Query: 185 PAIVHVNSQRPLRSGEGPIVLVLAPTRELAQQIETVANDFGSATATRVACVFGGAPKGPQ 244
+ V + + P L L+PT ELA Q V G A +G +
Sbjct: 84 AMLSQVEP-----ANKYPQCLCLSPTYELALQTGKVIEQMGKFYPE---LKLAYAVRGNK 135
Query: 245 VKALQTGAE-IVIATPGRLIDYLEQ-GTINLHRTSYLVLDEADRML-DMGFEPQIRKIIG 301
++ Q +E IVI TPG ++D+ + I+ + VLDEAD M+ G + Q +I
Sbjct: 136 LERGQKISEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQR 195
Query: 302 QIRPDRQVLMWSATWPKEVQKLAEDFLVD 330
+ + Q+L++SAT+ V K A+ + D
Sbjct: 196 MLPRNCQMLLFSATFEDSVWKFAQKVVPD 224
>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 = 64.7 bits (156), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 34/90 (37%), Positives = 59/90 (65%), Gaps = 2/90 (2%)
Query: 342 TANHNIVQIVDVCQEHEKDYKLQGLLSQIGSERTSKTIIFVETKRKADDITRSVRNKGWA 401
+ + NI Q V +E +K L LL+ G + S T++FVETK+ AD + + ++G+A
Sbjct: 15 STSENITQKVVWVEESDKRSFLLDLLNATG--KDSLTLVFVETKKGADSLEDFLYHEGYA 72
Query: 402 AVAIHGNKSQQERDRVLNEFRIGRASILVS 431
+IHG++SQ++R+ L++FR G++ ILV+
Sbjct: 73 CTSIHGDRSQRDREEALHQFRSGKSPILVA 102
>pdb|1FUK|A Chain A, Crystal Structure Of The Carboxy Terminal Domain Of Yeast
Eif4a
Length = 165
Score = 59.3 bits (142), Expect = 8e-09, Method: Compositional matrix adjust.
Identities = 27/75 (36%), Positives = 45/75 (60%)
Query: 357 HEKDYKLQGLLSQIGSERTSKTIIFVETKRKADDITRSVRNKGWAAVAIHGNKSQQERDR 416
E++YK + L S ++ +IF T+RK +++T +RN + AI+ + QQERD
Sbjct: 12 EEEEYKYECLTDLYDSISVTQAVIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDT 71
Query: 417 VLNEFRIGRASILVS 431
++ EFR G + IL+S
Sbjct: 72 IMKEFRSGSSRILIS 86
Score = 31.6 bits (70), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 18/60 (30%), Positives = 35/60 (58%), Gaps = 3/60 (5%)
Query: 453 SILVSQ---YKESQQKRDRVLNEFRIGRASILVSHYNKSQQERDRVLNEFRIGRASILVS 509
SI V+Q + +++K + + + R + ++ + + QQERD ++ EFR G + IL+S
Sbjct: 27 SISVTQAVIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTIMKEFRSGSSRILIS 86
Score = 29.6 bits (65), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 12/21 (57%), Positives = 16/21 (76%)
Query: 567 QQERDRVLNEFRIGRASILVS 587
QQERD ++ EFR G + IL+S
Sbjct: 66 QQERDTIMKEFRSGSSRILIS 86
>pdb|3GFP|A Chain A, Structure Of The C-Terminal Domain Of The Dead-Box Protein
Dbp5
Length = 189
Score = 50.8 bits (120), Expect = 3e-06, Method: Composition-based stats.
Identities = 30/95 (31%), Positives = 52/95 (54%), Gaps = 2/95 (2%)
Query: 337 GSLNPTANHNIVQIVDVCQEHEKDYKLQGLLSQIGSERTSKTIIFVETKRKADDITRSVR 396
G+ N I Q+ C+ +E D K L G +IIFV TK+ A+ + ++
Sbjct: 1 GATNEVNVDAIKQLYXDCK-NEAD-KFDVLTELYGLXTIGSSIIFVATKKTANVLYGKLK 58
Query: 397 NKGWAAVAIHGNKSQQERDRVLNEFRIGRASILVS 431
++G +HG+ QERDR++++FR GR+ +L++
Sbjct: 59 SEGHEVSILHGDLQTQERDRLIDDFREGRSKVLIT 93
Score = 33.1 bits (74), Expect = 0.64, Method: Composition-based stats.
Identities = 26/83 (31%), Positives = 43/83 (51%), Gaps = 10/83 (12%)
Query: 433 YNKSQQERDR--VLNEF----RIGRASILVSQYKESQQKRDRVLNEFRIGRASILVSHYN 486
Y + E D+ VL E IG + I V+ K + ++ +E SIL H +
Sbjct: 15 YXDCKNEADKFDVLTELYGLXTIGSSIIFVATKKTANVLYGKLKSEGH--EVSIL--HGD 70
Query: 487 KSQQERDRVLNEFRIGRASILVS 509
QERDR++++FR GR+ +L++
Sbjct: 71 LQTQERDRLIDDFREGRSKVLIT 93
Score = 31.6 bits (70), Expect = 1.8, Method: Composition-based stats.
Identities = 11/30 (36%), Positives = 22/30 (73%)
Query: 506 ILVSHYNKSQQERDRVLNEFRIGRASILVS 535
+ + H + QERDR++++FR GR+ +L++
Sbjct: 64 VSILHGDLQTQERDRLIDDFREGRSKVLIT 93
Score = 31.6 bits (70), Expect = 1.8, Method: Composition-based stats.
Identities = 11/30 (36%), Positives = 22/30 (73%)
Query: 532 ILVSHYNKSQQERDRVLNEFRIGRASILVS 561
+ + H + QERDR++++FR GR+ +L++
Sbjct: 64 VSILHGDLQTQERDRLIDDFREGRSKVLIT 93
Score = 31.6 bits (70), Expect = 1.8, Method: Composition-based stats.
Identities = 11/30 (36%), Positives = 22/30 (73%)
Query: 558 ILVSHYNKSQQERDRVLNEFRIGRASILVS 587
+ + H + QERDR++++FR GR+ +L++
Sbjct: 64 VSILHGDLQTQERDRLIDDFREGRSKVLIT 93
Score = 31.6 bits (70), Expect = 1.8, Method: Composition-based stats.
Identities = 11/30 (36%), Positives = 22/30 (73%)
Query: 584 ILVSHYNKSQQERDRVLNEFRIGRASILVS 613
+ + H + QERDR++++FR GR+ +L++
Sbjct: 64 VSILHGDLQTQERDRLIDDFREGRSKVLIT 93
Score = 31.6 bits (70), Expect = 1.8, Method: Composition-based stats.
Identities = 11/30 (36%), Positives = 22/30 (73%)
Query: 610 ILVSHYNKSQQERDRVLNEFRIGRASILVS 639
+ + H + QERDR++++FR GR+ +L++
Sbjct: 64 VSILHGDLQTQERDRLIDDFREGRSKVLIT 93
Score = 31.6 bits (70), Expect = 1.8, Method: Composition-based stats.
Identities = 11/30 (36%), Positives = 22/30 (73%)
Query: 636 ILVSHYNKSQQERDRVLNEFRIGRASILVS 665
+ + H + QERDR++++FR GR+ +L++
Sbjct: 64 VSILHGDLQTQERDRLIDDFREGRSKVLIT 93
>pdb|2KBF|A Chain A, Solution Structure Of Carboxyl-Terminal Domain Of Dbp5p
Length = 187
Score = 50.1 bits (118), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 26/70 (37%), Positives = 47/70 (67%), Gaps = 6/70 (8%)
Query: 362 KLQGLLSQIGSERTSKTIIFVETKRKADDITRSVRNKGWAAVAIHGNKSQQERDRVLNEF 421
+L GL++ IGS +IIFV TK+ A+ + ++++G +HG+ QERDR++++F
Sbjct: 28 ELYGLMT-IGS-----SIIFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDDF 81
Query: 422 RIGRASILVS 431
R GR+ +L++
Sbjct: 82 REGRSKVLIT 91
Score = 33.1 bits (74), Expect = 0.54, Method: Compositional matrix adjust.
Identities = 24/79 (30%), Positives = 43/79 (54%), Gaps = 8/79 (10%)
Query: 435 KSQQERDRVLNEF----RIGRASILVSQYKESQQKRDRVLNEFRIGRASILVSHYNKSQQ 490
K++ ++ VL E IG + I V+ K + ++ +E SIL H + Q
Sbjct: 17 KNEADKFDVLTELYGLMTIGSSIIFVATKKTANVLYGKLKSEGH--EVSIL--HGDLQTQ 72
Query: 491 ERDRVLNEFRIGRASILVS 509
ERDR++++FR GR+ +L++
Sbjct: 73 ERDRLIDDFREGRSKVLIT 91
Score = 31.2 bits (69), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 19/79 (24%), Positives = 43/79 (54%), Gaps = 8/79 (10%)
Query: 487 KSQQERDRVLNEF----RIGRASILVSHYNKSQQERDRVLNEFRIGRASILVSHYNKSQQ 542
K++ ++ VL E IG + I V+ +++ + + + + + + H + Q
Sbjct: 17 KNEADKFDVLTELYGLMTIGSSIIFVA----TKKTANVLYGKLKSEGHEVSILHGDLQTQ 72
Query: 543 ERDRVLNEFRIGRASILVS 561
ERDR++++FR GR+ +L++
Sbjct: 73 ERDRLIDDFREGRSKVLIT 91
Score = 31.2 bits (69), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 19/79 (24%), Positives = 43/79 (54%), Gaps = 8/79 (10%)
Query: 513 KSQQERDRVLNEF----RIGRASILVSHYNKSQQERDRVLNEFRIGRASILVSHYNKSQQ 568
K++ ++ VL E IG + I V+ +++ + + + + + + H + Q
Sbjct: 17 KNEADKFDVLTELYGLMTIGSSIIFVA----TKKTANVLYGKLKSEGHEVSILHGDLQTQ 72
Query: 569 ERDRVLNEFRIGRASILVS 587
ERDR++++FR GR+ +L++
Sbjct: 73 ERDRLIDDFREGRSKVLIT 91
Score = 31.2 bits (69), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 19/79 (24%), Positives = 43/79 (54%), Gaps = 8/79 (10%)
Query: 539 KSQQERDRVLNEF----RIGRASILVSHYNKSQQERDRVLNEFRIGRASILVSHYNKSQQ 594
K++ ++ VL E IG + I V+ +++ + + + + + + H + Q
Sbjct: 17 KNEADKFDVLTELYGLMTIGSSIIFVA----TKKTANVLYGKLKSEGHEVSILHGDLQTQ 72
Query: 595 ERDRVLNEFRIGRASILVS 613
ERDR++++FR GR+ +L++
Sbjct: 73 ERDRLIDDFREGRSKVLIT 91
Score = 31.2 bits (69), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 19/79 (24%), Positives = 43/79 (54%), Gaps = 8/79 (10%)
Query: 565 KSQQERDRVLNEF----RIGRASILVSHYNKSQQERDRVLNEFRIGRASILVSHYNKSQQ 620
K++ ++ VL E IG + I V+ +++ + + + + + + H + Q
Sbjct: 17 KNEADKFDVLTELYGLMTIGSSIIFVA----TKKTANVLYGKLKSEGHEVSILHGDLQTQ 72
Query: 621 ERDRVLNEFRIGRASILVS 639
ERDR++++FR GR+ +L++
Sbjct: 73 ERDRLIDDFREGRSKVLIT 91
Score = 31.2 bits (69), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 19/79 (24%), Positives = 43/79 (54%), Gaps = 8/79 (10%)
Query: 591 KSQQERDRVLNEF----RIGRASILVSHYNKSQQERDRVLNEFRIGRASILVSHYNKSQQ 646
K++ ++ VL E IG + I V+ +++ + + + + + + H + Q
Sbjct: 17 KNEADKFDVLTELYGLMTIGSSIIFVA----TKKTANVLYGKLKSEGHEVSILHGDLQTQ 72
Query: 647 ERDRVLNEFRIGRASILVS 665
ERDR++++FR GR+ +L++
Sbjct: 73 ERDRLIDDFREGRSKVLIT 91
>pdb|3PEU|A Chain A, S. Cerevisiae Dbp5 L327v C-Terminal Domain Bound To Gle1
H337r And Ip6
pdb|3PEV|A Chain A, S. Cerevisiae Dbp5 L327v C-Terminal Domain Bound To Gle1
And Ip6
Length = 188
Score = 49.7 bits (117), Expect = 6e-06, Method: Composition-based stats.
Identities = 28/85 (32%), Positives = 49/85 (57%), Gaps = 2/85 (2%)
Query: 347 IVQIVDVCQEHEKDYKLQGLLSQIGSERTSKTIIFVETKRKADDITRSVRNKGWAAVAIH 406
I Q+ C+ +E D K L G +IIFV TK+ A+ + ++++G +H
Sbjct: 10 IKQLYXDCK-NEAD-KFDVLTELYGVXTIGSSIIFVATKKTANVLYGKLKSEGHEVSILH 67
Query: 407 GNKSQQERDRVLNEFRIGRASILVS 431
G+ QERDR++++FR GR+ +L++
Sbjct: 68 GDLQTQERDRLIDDFREGRSKVLIT 92
Score = 33.1 bits (74), Expect = 0.67, Method: Composition-based stats.
Identities = 26/83 (31%), Positives = 43/83 (51%), Gaps = 10/83 (12%)
Query: 433 YNKSQQERDR--VLNEF----RIGRASILVSQYKESQQKRDRVLNEFRIGRASILVSHYN 486
Y + E D+ VL E IG + I V+ K + ++ +E SIL H +
Sbjct: 14 YXDCKNEADKFDVLTELYGVXTIGSSIIFVATKKTANVLYGKLKSEGH--EVSIL--HGD 69
Query: 487 KSQQERDRVLNEFRIGRASILVS 509
QERDR++++FR GR+ +L++
Sbjct: 70 LQTQERDRLIDDFREGRSKVLIT 92
Score = 31.6 bits (70), Expect = 1.8, Method: Composition-based stats.
Identities = 11/30 (36%), Positives = 22/30 (73%)
Query: 506 ILVSHYNKSQQERDRVLNEFRIGRASILVS 535
+ + H + QERDR++++FR GR+ +L++
Sbjct: 63 VSILHGDLQTQERDRLIDDFREGRSKVLIT 92
Score = 31.6 bits (70), Expect = 1.8, Method: Composition-based stats.
Identities = 11/30 (36%), Positives = 22/30 (73%)
Query: 532 ILVSHYNKSQQERDRVLNEFRIGRASILVS 561
+ + H + QERDR++++FR GR+ +L++
Sbjct: 63 VSILHGDLQTQERDRLIDDFREGRSKVLIT 92
Score = 31.6 bits (70), Expect = 1.8, Method: Composition-based stats.
Identities = 11/30 (36%), Positives = 22/30 (73%)
Query: 558 ILVSHYNKSQQERDRVLNEFRIGRASILVS 587
+ + H + QERDR++++FR GR+ +L++
Sbjct: 63 VSILHGDLQTQERDRLIDDFREGRSKVLIT 92
Score = 31.6 bits (70), Expect = 1.8, Method: Composition-based stats.
Identities = 11/30 (36%), Positives = 22/30 (73%)
Query: 584 ILVSHYNKSQQERDRVLNEFRIGRASILVS 613
+ + H + QERDR++++FR GR+ +L++
Sbjct: 63 VSILHGDLQTQERDRLIDDFREGRSKVLIT 92
Score = 31.6 bits (70), Expect = 1.8, Method: Composition-based stats.
Identities = 11/30 (36%), Positives = 22/30 (73%)
Query: 610 ILVSHYNKSQQERDRVLNEFRIGRASILVS 639
+ + H + QERDR++++FR GR+ +L++
Sbjct: 63 VSILHGDLQTQERDRLIDDFREGRSKVLIT 92
Score = 31.6 bits (70), Expect = 1.8, Method: Composition-based stats.
Identities = 11/30 (36%), Positives = 22/30 (73%)
Query: 636 ILVSHYNKSQQERDRVLNEFRIGRASILVS 665
+ + H + QERDR++++FR GR+ +L++
Sbjct: 63 VSILHGDLQTQERDRLIDDFREGRSKVLIT 92
>pdb|2P6N|A Chain A, Human Dead-box Rna Helicase Ddx41, Helicase Domain
pdb|2P6N|B Chain B, Human Dead-box Rna Helicase Ddx41, Helicase Domain
Length = 191
Score = 48.5 bits (114), Expect = 1e-05, Method: Composition-based stats.
Identities = 30/89 (33%), Positives = 45/89 (50%), Gaps = 4/89 (4%)
Query: 343 ANHNIVQIVDVCQEHEKDYKLQGLLSQIGSERTSKTIIFVETKRKADDITRSVRNKGWAA 402
A+ +++Q V+ +E K L L + +IF E K D I + KG A
Sbjct: 26 ASLDVIQEVEYVKEEAKMVYLLECLQKT----PPPVLIFAEKKADVDAIHEYLLLKGVEA 81
Query: 403 VAIHGNKSQQERDRVLNEFRIGRASILVS 431
VAIHG K Q+ER + + FR G+ +LV+
Sbjct: 82 VAIHGGKDQEERTKAIEAFREGKKDVLVA 110
>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 = 45.8 bits (107), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 20/55 (36%), Positives = 34/55 (61%)
Query: 377 KTIIFVETKRKADDITRSVRNKGWAAVAIHGNKSQQERDRVLNEFRIGRASILVS 431
+ ++F TK + ++I + + G A A+HG+ SQ ER+RV+ FR G +LV+
Sbjct: 30 RAMVFTRTKAETEEIAQGLLRLGHPAQALHGDMSQGERERVMGAFRQGEVRVLVA 84
>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 = 44.3 bits (103), Expect = 3e-04, Method: Composition-based stats.
Identities = 21/55 (38%), Positives = 34/55 (61%)
Query: 377 KTIIFVETKRKADDITRSVRNKGWAAVAIHGNKSQQERDRVLNEFRIGRASILVS 431
+ ++F TK + ++I + + G A A+HG+ SQ ER+RVL FR G +LV+
Sbjct: 33 RAMVFTRTKAETEEIAQGLLRLGHPAQALHGDLSQGERERVLGAFRQGEVRVLVA 87
>pdb|1GL9|B Chain B, Archaeoglobus Fulgidus Reverse Gyrase Complexed With Adpnp
pdb|1GL9|C Chain C, Archaeoglobus Fulgidus Reverse Gyrase Complexed With Adpnp
Length = 1054
Score = 42.0 bits (97), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 73/304 (24%), Positives = 115/304 (37%), Gaps = 46/304 (15%)
Query: 133 CNFPP-YIMKKIYEMGFQA---PTAIQAQGWPIALSGCDLVAIAKTGSGKT-LGYIAPAI 187
C FP +++K+ E + P AIQ L A A TG GKT G
Sbjct: 35 CLFPEDFLLKEFVEFFRKCVGEPRAIQKMWAKRILRKESFAATAPTGVGKTSFGLAMSLF 94
Query: 188 VHVNSQRPLRSGEGPIVLVLAPTREL----AQQIETVANDFGSATATRVACVFGGAPKGP 243
+ + +R V+ PT L A+ I A G T + G PK
Sbjct: 95 LALKGKR---------CYVIFPTSLLVIQAAETIRKYAEKAGVGTENLIGYYHGRIPKRE 145
Query: 244 QVKALQT--GAEIVIATPGRLIDYLEQGTINLHRTSYLVLDEADRMLD-----------M 290
+ +Q +IVI T +L + L ++ +D+ D +L +
Sbjct: 146 KENFMQNLRNFKIVITTT----QFLSKHYRELGHFDFIFVDDVDAILKASKNVDKLLHLL 201
Query: 291 GFEPQIRKIIGQIRPDRQVLMWSATWPKEVQKLAEDFLVDYVQLNIGSLNPTANHNIVQI 350
GF + K + R LM S K+ +K AE F + +IGS T + +
Sbjct: 202 GFHYDL-KTKSWVGEARGCLMVSTATAKKGKK-AELFR-QLLNFDIGSSRITVRN----V 254
Query: 351 VDVCQEHEKDYKLQGLLSQIGSERTSKTIIFVETKRKADDITRSVRNKGWAAVAIHGNKS 410
DV E L +L ++G+ II+ T +A++I S++NK + K
Sbjct: 255 EDVAVNDESISTLSSILEKLGT----GGIIYARTGEEAEEIYESLKNKFRIGIVTATKKG 310
Query: 411 QQER 414
E+
Sbjct: 311 DYEK 314
>pdb|1GKU|B Chain B, Reverse Gyrase From Archaeoglobus Fulgidus
Length = 1054
Score = 42.0 bits (97), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 73/304 (24%), Positives = 115/304 (37%), Gaps = 46/304 (15%)
Query: 133 CNFPP-YIMKKIYEMGFQA---PTAIQAQGWPIALSGCDLVAIAKTGSGKT-LGYIAPAI 187
C FP +++K+ E + P AIQ L A A TG GKT G
Sbjct: 35 CLFPEDFLLKEFVEFFRKCVGEPRAIQKMWAKRILRKESFAATAPTGVGKTSFGLAMSLF 94
Query: 188 VHVNSQRPLRSGEGPIVLVLAPTREL----AQQIETVANDFGSATATRVACVFGGAPKGP 243
+ + +R V+ PT L A+ I A G T + G PK
Sbjct: 95 LALKGKR---------CYVIFPTSLLVIQAAETIRKYAEKAGVGTENLIGYYHGRIPKRE 145
Query: 244 QVKALQT--GAEIVIATPGRLIDYLEQGTINLHRTSYLVLDEADRMLD-----------M 290
+ +Q +IVI T +L + L ++ +D+ D +L +
Sbjct: 146 KENFMQNLRNFKIVITTT----QFLSKHYRELGHFDFIFVDDVDAILKASKNVDKLLHLL 201
Query: 291 GFEPQIRKIIGQIRPDRQVLMWSATWPKEVQKLAEDFLVDYVQLNIGSLNPTANHNIVQI 350
GF + K + R LM S K+ +K AE F + +IGS T + +
Sbjct: 202 GFHYDL-KTKSWVGEARGCLMVSTATAKKGKK-AELFR-QLLNFDIGSSRITVRN----V 254
Query: 351 VDVCQEHEKDYKLQGLLSQIGSERTSKTIIFVETKRKADDITRSVRNKGWAAVAIHGNKS 410
DV E L +L ++G+ II+ T +A++I S++NK + K
Sbjct: 255 EDVAVNDESISTLSSILEKLGT----GGIIYARTGEEAEEIYESLKNKFRIGIVTATKKG 310
Query: 411 QQER 414
E+
Sbjct: 311 DYEK 314
>pdb|2RB4|A Chain A, Crystal Structure Of The Helicase Domain Of Human Ddx25
Rna Helicase
pdb|2RB4|B Chain B, Crystal Structure Of The Helicase Domain Of Human Ddx25
Rna Helicase
Length = 175
Score = 41.6 bits (96), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 27/87 (31%), Positives = 45/87 (51%), Gaps = 2/87 (2%)
Query: 345 HNIVQIVDVCQEHEKDYKLQGLLSQIGSERTSKTIIFVETKRKADDITRSVRNKGWAAVA 404
+NI Q +C EH KD K Q L + GS + IIF +T+R A +T + G
Sbjct: 6 NNIRQYYVLC-EHRKD-KYQALCNIYGSITIGQAIIFCQTRRNAKWLTVEMIQDGHQVSL 63
Query: 405 IHGNKSQQERDRVLNEFRIGRASILVS 431
+ G + ++R ++ FR G+ +L++
Sbjct: 64 LSGELTVEQRASIIQRFRDGKEKVLIT 90
>pdb|2YKG|A Chain A, Structural Insights Into Rna Recognition By Rig-I
Length = 696
Score = 40.8 bits (94), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 49/214 (22%), Positives = 94/214 (43%), Gaps = 19/214 (8%)
Query: 162 ALSGCDLVAIAKTGSGKTLGYIAPAIVHVNSQRPLRSGEGPIVLVLAPTRELAQQIETVA 221
A+ G + + A TG GKT + H+ + G+ V+ A + +Q ++V
Sbjct: 25 AMKGKNTIICAPTGCGKTFVSLLICEHHL---KKFPQGQKGKVVFFANQIPVYEQNKSVF 81
Query: 222 NDFGSATATRVACVFGGAPKGPQVKALQTGAEIVIATPGRLIDYLEQGTI-NLHRTSYLV 280
+ + RV + G + V+ + +I+I TP L++ L++GTI +L + ++
Sbjct: 82 SKYFERHGYRVTGISGATAENVPVEQIVENNDIIILTPQILVNNLKKGTIPSLSIFTLMI 141
Query: 281 LDEAD--------RMLDMGFEPQIRKIIGQIRPDRQVLMWSATWPKEVQKLAEDFLVDYV 332
DE M+ + Q K+ G P QV+ +A+ K ++ L DY+
Sbjct: 142 FDECHNTSKQHPYNMIMFNYLDQ--KLGGSSGPLPQVIGLTASVGVGDAKTTDEAL-DYI 198
Query: 333 QLNIGSLN----PTANHNIVQIVDVCQEHEKDYK 362
SL+ T HN+ ++ V + +K ++
Sbjct: 199 CKLCASLDASVIATVKHNLEELEQVVYKPQKFFR 232
>pdb|3TMI|A Chain A, Structural Basis For Rna Recognition And Activation Of
Rig-I
Length = 695
Score = 39.7 bits (91), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 49/214 (22%), Positives = 94/214 (43%), Gaps = 19/214 (8%)
Query: 162 ALSGCDLVAIAKTGSGKTLGYIAPAIVHVNSQRPLRSGEGPIVLVLAPTRELAQQIETVA 221
A+ G + + A TG GKT + H+ + G+ V+ A + +Q ++V
Sbjct: 24 AMKGKNTIICAPTGCGKTFVSLLICEHHL---KKFPQGQKGKVVFFANQIPVYEQQKSVF 80
Query: 222 NDFGSATATRVACVFGGAPKGPQVKALQTGAEIVIATPGRLIDYLEQGTI-NLHRTSYLV 280
+ + RV + G + V+ + +I+I TP L++ L++GTI +L + ++
Sbjct: 81 SKYFERHGYRVTGISGATAENVPVEQIVENNDIIILTPQILVNNLKKGTIPSLSIFTLMI 140
Query: 281 LDEAD--------RMLDMGFEPQIRKIIGQIRPDRQVLMWSATWPKEVQKLAEDFLVDYV 332
DE M+ + Q K+ G P QV+ +A+ K ++ L DY+
Sbjct: 141 FDECHNTSKQHPYNMIMFNYLDQ--KLGGSSGPLPQVIGLTASVGVGDAKNTDEAL-DYI 197
Query: 333 QLNIGSLN----PTANHNIVQIVDVCQEHEKDYK 362
SL+ T HN+ ++ V + +K ++
Sbjct: 198 CKLCASLDASVIATVKHNLEELEQVVYKPQKFFR 231
>pdb|4AY2|A Chain A, Capturing 5' Tri-Phosphorylated Rna Duplex By Rig-I
Length = 687
Score = 39.7 bits (91), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 49/214 (22%), Positives = 94/214 (43%), Gaps = 19/214 (8%)
Query: 162 ALSGCDLVAIAKTGSGKTLGYIAPAIVHVNSQRPLRSGEGPIVLVLAPTRELAQQIETVA 221
A+ G + + A TG GKT + H+ + G+ V+ A + +Q ++V
Sbjct: 16 AMKGKNTIICAPTGCGKTFVSLLICEHHL---KKFPQGQKGKVVFFANQIPVYEQNKSVF 72
Query: 222 NDFGSATATRVACVFGGAPKGPQVKALQTGAEIVIATPGRLIDYLEQGTI-NLHRTSYLV 280
+ + RV + G + V+ + +I+I TP L++ L++GTI +L + ++
Sbjct: 73 SKYFERHGYRVTGISGATAENVPVEQIVENNDIIILTPQILVNNLKKGTIPSLSIFTLMI 132
Query: 281 LDEAD--------RMLDMGFEPQIRKIIGQIRPDRQVLMWSATWPKEVQKLAEDFLVDYV 332
DE M+ + Q K+ G P QV+ +A+ K ++ L DY+
Sbjct: 133 FDECHNTSKQHPYNMIMFNYLDQ--KLGGSSGPLPQVIGLTASVGVGDAKNTDEAL-DYI 189
Query: 333 QLNIGSLN----PTANHNIVQIVDVCQEHEKDYK 362
SL+ T HN+ ++ V + +K ++
Sbjct: 190 CKLCASLDASVIATVKHNLEELEQVVYKPQKFFR 223
>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 = 39.7 bits (91), Expect = 0.007, Method: Composition-based stats.
Identities = 24/87 (27%), Positives = 41/87 (47%), Gaps = 7/87 (8%)
Query: 345 HNIVQIVDVCQEHEKDYKLQGLLSQIGSERTSKTIIFVETKRKADDITRSVRNKGWAAVA 404
H ++Q+ ++ K L + +E IIF TK + +T + + G+
Sbjct: 12 HAVIQV-------REENKFSLLKDVLMTENPDSCIIFCRTKEHVNQLTDELDDLGYPCDK 64
Query: 405 IHGNKSQQERDRVLNEFRIGRASILVS 431
IHG Q++R V+NEF+ G LV+
Sbjct: 65 IHGGMIQEDRFDVMNEFKRGEYRYLVA 91
>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 = 39.3 bits (90), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 21/85 (24%), Positives = 43/85 (50%), Gaps = 3/85 (3%)
Query: 347 IVQIVDVCQEHEKDYKLQGLLSQIGSERTSKTIIFVETKRKADDITRSVRNKGWAAVAIH 406
+ Q E +K + L L S++ + +++IIF + ++ + + + + G++ IH
Sbjct: 19 VTQYYAYVTERQKVHCLNTLFSRL---QINQSIIFCNSSQRVELLAKKISQLGYSCFYIH 75
Query: 407 GNKSQQERDRVLNEFRIGRASILVS 431
Q+ R+RV ++FR G LV
Sbjct: 76 AKMRQEHRNRVFHDFRNGLCRNLVC 100
>pdb|1OYY|A Chain A, Structure Of The Recq Catalytic Core Bound To Atp-Gamma-S
Length = 523
Score = 38.5 bits (88), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 68/287 (23%), Positives = 124/287 (43%), Gaps = 50/287 (17%)
Query: 163 LSGCDLVAIAKTGSGKTLGYIAPAIVHVNSQRPLRSGEGPIVLVLAPTRELAQ-QIETVA 221
LSG D + + TG GK+L Y PA+ L +G + +V++P L + Q++ +
Sbjct: 38 LSGRDCLVVMPTGGGKSLCYQIPAL--------LLNG---LTVVVSPLISLMKDQVDQL- 85
Query: 222 NDFGSATATRVACVFGGAPKGPQVKAL---QTG-AEIVIATPGRLI--DYLEQGTINLHR 275
A AC+ + Q++ + +TG ++ P RL+ ++LE +
Sbjct: 86 ----QANGVAAACLNSTQTREQQLEVMTGCRTGQIRLLYIAPERLMLDNFLEH--LAHWN 139
Query: 276 TSYLVLDEADRMLDMG--FEPQIRKIIGQIR---PDRQVLMWSATWPKEVQKLAEDFLVD 330
L +DEA + G F P+ +GQ+R P + +AT ++ D
Sbjct: 140 PVLLAVDEAHCISQWGHDFRPEY-AALGQLRQRFPTLPFMALTATADDTTRQ-------D 191
Query: 331 YVQLNIGSLNPTANHNIVQIVDVCQEH------EKDYKLQGLLSQIGSERTSKTIIFVET 384
V+L +G +P ++QI + + EK L L+ + +R II+ +
Sbjct: 192 IVRL-LGLNDP-----LIQISSFDRPNIRYMLMEKFKPLDQLMRYVQEQRGKSGIIYCNS 245
Query: 385 KRKADDITRSVRNKGWAAVAIHGNKSQQERDRVLNEFRIGRASILVS 431
+ K +D +++KG +A A H R V +F+ I+V+
Sbjct: 246 RAKVEDTAARLQSKGISAAAYHAGLENNVRADVQEKFQRDDLQIVVA 292
>pdb|3UWX|B Chain B, Crystal Structure Of Uvra-Uvrb Complex
Length = 683
Score = 37.7 bits (86), Expect = 0.024, Method: Compositional matrix adjust.
Identities = 33/128 (25%), Positives = 59/128 (46%), Gaps = 18/128 (14%)
Query: 308 QVLMWSAT-WPKEVQKLAEDFLVDYVQLNIGSLNPTANHNIV--QIVDVCQE-HEKDYKL 363
Q++ SAT P E++ +V+ + G L+PT + QI D+ E HE+
Sbjct: 413 QIIYISATPGPYELEH--SPGVVEQIIRPTGLLDPTIDVRPTKGQIDDLIGEIHER---- 466
Query: 364 QGLLSQIGSERTSKTIIFVETKRKADDITRSVRNKGWAAVAIHGNKSQQERDRVLNEFRI 423
ER +T++ TK+ A+D+T ++ G +H ER ++ + R+
Sbjct: 467 --------VERNERTLVTTLTKKMAEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRL 518
Query: 424 GRASILVS 431
G+ +LV
Sbjct: 519 GKYDVLVG 526
>pdb|2FDC|A Chain A, Structural Basis Of Dna Damage Recognition And Processing
By Uvrb: Crystal Structure Of A UvrbDNA COMPLEX
pdb|2FDC|B Chain B, Structural Basis Of Dna Damage Recognition And Processing
By Uvrb: Crystal Structure Of A UvrbDNA COMPLEX
Length = 658
Score = 37.4 bits (85), Expect = 0.030, Method: Compositional matrix adjust.
Identities = 16/59 (27%), Positives = 31/59 (52%)
Query: 373 ERTSKTIIFVETKRKADDITRSVRNKGWAAVAIHGNKSQQERDRVLNEFRIGRASILVS 431
ER +T++ TK+ A+D+T ++ G +H ER ++ + R+G+ +LV
Sbjct: 443 ERNERTLVTTLTKKMAEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVG 501
>pdb|1D9Z|A Chain A, Crystal Structure Of The Dna Repair Protein Uvrb In
Complex With Atp
Length = 657
Score = 37.4 bits (85), Expect = 0.032, Method: Compositional matrix adjust.
Identities = 16/59 (27%), Positives = 31/59 (52%)
Query: 373 ERTSKTIIFVETKRKADDITRSVRNKGWAAVAIHGNKSQQERDRVLNEFRIGRASILVS 431
ER +T++ TK+ A+D+T ++ G +H ER ++ + R+G+ +LV
Sbjct: 442 ERNERTLVTTLTKKMAEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVG 500
>pdb|1T5L|A Chain A, Crystal Structure Of The Dna Repair Protein Uvrb Point
Mutant Y96a Revealing A Novel Fold For Domain 2
pdb|1T5L|B Chain B, Crystal Structure Of The Dna Repair Protein Uvrb Point
Mutant Y96a Revealing A Novel Fold For Domain 2
Length = 658
Score = 37.4 bits (85), Expect = 0.033, Method: Compositional matrix adjust.
Identities = 16/59 (27%), Positives = 31/59 (52%)
Query: 373 ERTSKTIIFVETKRKADDITRSVRNKGWAAVAIHGNKSQQERDRVLNEFRIGRASILVS 431
ER +T++ TK+ A+D+T ++ G +H ER ++ + R+G+ +LV
Sbjct: 443 ERNERTLVTTLTKKMAEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVG 501
>pdb|1D9X|A Chain A, Crystal Structure Of The Dna Repair Protein Uvrb
Length = 658
Score = 37.4 bits (85), Expect = 0.033, Method: Compositional matrix adjust.
Identities = 16/59 (27%), Positives = 31/59 (52%)
Query: 373 ERTSKTIIFVETKRKADDITRSVRNKGWAAVAIHGNKSQQERDRVLNEFRIGRASILVS 431
ER +T++ TK+ A+D+T ++ G +H ER ++ + R+G+ +LV
Sbjct: 443 ERNERTLVTTLTKKMAEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVG 501
>pdb|3NM1|A Chain A, The Crystal Structure Of Candida Glabrata Thi6, A
Bifunctional Enzyme Involved In Thiamin Biosyhthesis Of
Eukaryotes
pdb|3NM1|B Chain B, The Crystal Structure Of Candida Glabrata Thi6, A
Bifunctional Enzyme Involved In Thiamin Biosyhthesis Of
Eukaryotes
pdb|3NM1|C Chain C, The Crystal Structure Of Candida Glabrata Thi6, A
Bifunctional Enzyme Involved In Thiamin Biosyhthesis Of
Eukaryotes
pdb|3NM1|D Chain D, The Crystal Structure Of Candida Glabrata Thi6, A
Bifunctional Enzyme Involved In Thiamin Biosyhthesis Of
Eukaryotes
pdb|3NM1|E Chain E, The Crystal Structure Of Candida Glabrata Thi6, A
Bifunctional Enzyme Involved In Thiamin Biosyhthesis Of
Eukaryotes
pdb|3NM1|F Chain F, The Crystal Structure Of Candida Glabrata Thi6, A
Bifunctional Enzyme Involved In Thiamin Biosyhthesis Of
Eukaryotes
Length = 540
Score = 36.6 bits (83), Expect = 0.053, Method: Compositional matrix adjust.
Identities = 21/51 (41%), Positives = 33/51 (64%), Gaps = 8/51 (15%)
Query: 294 PQIRKIIGQIRPDRQVLMWSATWPKEVQKLAE--DFLVDYVQLNIGSLNPT 342
P IRK++G PD V+ WS +P+EV +L++ +VDY+ +G+L PT
Sbjct: 99 PMIRKLVG---PD-MVIGWSVGFPEEVDELSKMGPDMVDYI--GVGTLFPT 143
>pdb|1WP9|A Chain A, Crystal Structure Of Pyrococcus Furiosus Hef Helicase
Domain
pdb|1WP9|B Chain B, Crystal Structure Of Pyrococcus Furiosus Hef Helicase
Domain
pdb|1WP9|C Chain C, Crystal Structure Of Pyrococcus Furiosus Hef Helicase
Domain
pdb|1WP9|D Chain D, Crystal Structure Of Pyrococcus Furiosus Hef Helicase
Domain
pdb|1WP9|E Chain E, Crystal Structure Of Pyrococcus Furiosus Hef Helicase
Domain
pdb|1WP9|F Chain F, Crystal Structure Of Pyrococcus Furiosus Hef Helicase
Domain
Length = 494
Score = 36.6 bits (83), Expect = 0.056, Method: Compositional matrix adjust.
Identities = 38/123 (30%), Positives = 56/123 (45%), Gaps = 12/123 (9%)
Query: 166 CDLVAIAKTGSGKTLGYIAPAIVHVNSQRPLRSGEGPIVLVLAPTRELA-QQIETVANDF 224
+ + + TG GKTL IA I + G VL+LAPT+ L Q E+ F
Sbjct: 24 TNCLIVLPTGLGKTL--IAMMIAEYRLTK-----YGGKVLMLAPTKPLVLQHAESFRRLF 76
Query: 225 GSATATRVACVFGGAPKGPQVKALQTG-AEIVIATPGRLIDYLEQGTINLHRTSYLVLDE 283
VA K P+ ++ A++++ATP + + L G I+L S +V DE
Sbjct: 77 NLPPEKIVALT---GEKSPEERSKAWARAKVIVATPQTIENDLLAGRISLEDVSLIVFDE 133
Query: 284 ADR 286
A R
Sbjct: 134 AHR 136
Score = 31.6 bits (70), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 30/112 (26%), Positives = 51/112 (45%), Gaps = 19/112 (16%)
Query: 347 IVQIVDVCQEHEKDYKLQGLL-SQIGSERTSKTIIFVETKRKADDITRSVRNKGWAAVAI 405
+VQ ++ +H K KL+ ++ Q+ ++ SK I+F + A I + G A
Sbjct: 332 LVQAKEIGLDHPKMDKLKEIIREQLQRKQNSKIIVFTNYRETAKKIVNELVKDGIKAKRF 391
Query: 406 HGNKSQQERDRVLNEFRIGRASILVSQYNKSQQERDRVLNEFRIGRASILVS 457
G S+ E DR L SQ+E+ +L+EF G ++LV+
Sbjct: 392 VGQASK-ENDRGL-----------------SQREQKLILDEFARGEFNVLVA 425
>pdb|3NL2|A Chain A, The Crystal Structure Of Candida Glabrata Thi6, A
Bifunctional Enzyme Involved In Thiamin Biosyhthesis Of
Eukaryotes
pdb|3NL2|B Chain B, The Crystal Structure Of Candida Glabrata Thi6, A
Bifunctional Enzyme Involved In Thiamin Biosyhthesis Of
Eukaryotes
pdb|3NL2|C Chain C, The Crystal Structure Of Candida Glabrata Thi6, A
Bifunctional Enzyme Involved In Thiamin Biosyhthesis Of
Eukaryotes
pdb|3NL2|D Chain D, The Crystal Structure Of Candida Glabrata Thi6, A
Bifunctional Enzyme Involved In Thiamin Biosyhthesis Of
Eukaryotes
pdb|3NL2|E Chain E, The Crystal Structure Of Candida Glabrata Thi6, A
Bifunctional Enzyme Involved In Thiamin Biosyhthesis Of
Eukaryotes
pdb|3NL2|F Chain F, The Crystal Structure Of Candida Glabrata Thi6, A
Bifunctional Enzyme Involved In Thiamin Biosyhthesis Of
Eukaryotes
pdb|3NL3|A Chain A, The Crystal Structure Of Candida Glabrata Thi6, A
Bifunctional Enzyme Involved In Thiamin Biosyhthesis Of
Eukaryotes
pdb|3NL3|B Chain B, The Crystal Structure Of Candida Glabrata Thi6, A
Bifunctional Enzyme Involved In Thiamin Biosyhthesis Of
Eukaryotes
pdb|3NL3|C Chain C, The Crystal Structure Of Candida Glabrata Thi6, A
Bifunctional Enzyme Involved In Thiamin Biosyhthesis Of
Eukaryotes
pdb|3NL3|D Chain D, The Crystal Structure Of Candida Glabrata Thi6, A
Bifunctional Enzyme Involved In Thiamin Biosyhthesis Of
Eukaryotes
pdb|3NL3|E Chain E, The Crystal Structure Of Candida Glabrata Thi6, A
Bifunctional Enzyme Involved In Thiamin Biosyhthesis Of
Eukaryotes
pdb|3NL3|F Chain F, The Crystal Structure Of Candida Glabrata Thi6, A
Bifunctional Enzyme Involved In Thiamin Biosyhthesis Of
Eukaryotes
pdb|3NL5|A Chain A, The Crystal Structure Of Candida Glabrata Thi6, A
Bifunctional Enzyme Involved In Thiamin Biosyhthesis Of
Eukaryotes
pdb|3NL5|B Chain B, The Crystal Structure Of Candida Glabrata Thi6, A
Bifunctional Enzyme Involved In Thiamin Biosyhthesis Of
Eukaryotes
pdb|3NL5|C Chain C, The Crystal Structure Of Candida Glabrata Thi6, A
Bifunctional Enzyme Involved In Thiamin Biosyhthesis Of
Eukaryotes
pdb|3NL6|A Chain A, The Crystal Structure Of Candida Glabrata Thi6, A
Bifunctional Enzyme Involved In Thiamin Biosyhthesis Of
Eukaryotes
pdb|3NL6|B Chain B, The Crystal Structure Of Candida Glabrata Thi6, A
Bifunctional Enzyme Involved In Thiamin Biosyhthesis Of
Eukaryotes
pdb|3NL6|C Chain C, The Crystal Structure Of Candida Glabrata Thi6, A
Bifunctional Enzyme Involved In Thiamin Biosyhthesis Of
Eukaryotes
pdb|3NM3|A Chain A, The Crystal Structure Of Candida Glabrata Thi6, A
Bifunctional Enzyme Involved In Thiamin Biosyhthesis Of
Eukaryotes
pdb|3NM3|B Chain B, The Crystal Structure Of Candida Glabrata Thi6, A
Bifunctional Enzyme Involved In Thiamin Biosyhthesis Of
Eukaryotes
pdb|3NM3|C Chain C, The Crystal Structure Of Candida Glabrata Thi6, A
Bifunctional Enzyme Involved In Thiamin Biosyhthesis Of
Eukaryotes
pdb|3NM3|D Chain D, The Crystal Structure Of Candida Glabrata Thi6, A
Bifunctional Enzyme Involved In Thiamin Biosyhthesis Of
Eukaryotes
pdb|3NM3|E Chain E, The Crystal Structure Of Candida Glabrata Thi6, A
Bifunctional Enzyme Involved In Thiamin Biosyhthesis Of
Eukaryotes
pdb|3NM3|F Chain F, The Crystal Structure Of Candida Glabrata Thi6, A
Bifunctional Enzyme Involved In Thiamin Biosyhthesis Of
Eukaryotes
Length = 540
Score = 36.6 bits (83), Expect = 0.056, Method: Compositional matrix adjust.
Identities = 21/51 (41%), Positives = 33/51 (64%), Gaps = 8/51 (15%)
Query: 294 PQIRKIIGQIRPDRQVLMWSATWPKEVQKLAE--DFLVDYVQLNIGSLNPT 342
P IRK++G PD V+ WS +P+EV +L++ +VDY+ +G+L PT
Sbjct: 99 PMIRKLVG---PD-MVIGWSVGFPEEVDELSKMGPDMVDYI--GVGTLFPT 143
>pdb|1GM5|A Chain A, Structure Of Recg Bound To Three-Way Dna Junction
Length = 780
Score = 35.0 bits (79), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 16/27 (59%), Positives = 20/27 (74%)
Query: 405 IHGNKSQQERDRVLNEFRIGRASILVS 431
+HG SQ+E+DRV+ EF GR ILVS
Sbjct: 619 MHGRLSQEEKDRVMLEFAEGRYDILVS 645
Score = 34.3 bits (77), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 19/41 (46%), Positives = 25/41 (60%), Gaps = 5/41 (12%)
Query: 469 VLNEFRIGRASILVSHYNKSQQERDRVLNEFRIGRASILVS 509
V EF++G + H SQ+E+DRV+ EF GR ILVS
Sbjct: 610 VFPEFKLG-----LMHGRLSQEEKDRVMLEFAEGRYDILVS 645
Score = 34.3 bits (77), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 19/41 (46%), Positives = 25/41 (60%), Gaps = 5/41 (12%)
Query: 495 VLNEFRIGRASILVSHYNKSQQERDRVLNEFRIGRASILVS 535
V EF++G + H SQ+E+DRV+ EF GR ILVS
Sbjct: 610 VFPEFKLG-----LMHGRLSQEEKDRVMLEFAEGRYDILVS 645
Score = 34.3 bits (77), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 19/41 (46%), Positives = 25/41 (60%), Gaps = 5/41 (12%)
Query: 521 VLNEFRIGRASILVSHYNKSQQERDRVLNEFRIGRASILVS 561
V EF++G + H SQ+E+DRV+ EF GR ILVS
Sbjct: 610 VFPEFKLG-----LMHGRLSQEEKDRVMLEFAEGRYDILVS 645
Score = 34.3 bits (77), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 19/41 (46%), Positives = 25/41 (60%), Gaps = 5/41 (12%)
Query: 547 VLNEFRIGRASILVSHYNKSQQERDRVLNEFRIGRASILVS 587
V EF++G + H SQ+E+DRV+ EF GR ILVS
Sbjct: 610 VFPEFKLG-----LMHGRLSQEEKDRVMLEFAEGRYDILVS 645
Score = 34.3 bits (77), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 19/41 (46%), Positives = 25/41 (60%), Gaps = 5/41 (12%)
Query: 573 VLNEFRIGRASILVSHYNKSQQERDRVLNEFRIGRASILVS 613
V EF++G + H SQ+E+DRV+ EF GR ILVS
Sbjct: 610 VFPEFKLG-----LMHGRLSQEEKDRVMLEFAEGRYDILVS 645
Score = 34.3 bits (77), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 19/41 (46%), Positives = 25/41 (60%), Gaps = 5/41 (12%)
Query: 599 VLNEFRIGRASILVSHYNKSQQERDRVLNEFRIGRASILVS 639
V EF++G + H SQ+E+DRV+ EF GR ILVS
Sbjct: 610 VFPEFKLG-----LMHGRLSQEEKDRVMLEFAEGRYDILVS 645
Score = 34.3 bits (77), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 19/41 (46%), Positives = 25/41 (60%), Gaps = 5/41 (12%)
Query: 625 VLNEFRIGRASILVSHYNKSQQERDRVLNEFRIGRASILVS 665
V EF++G + H SQ+E+DRV+ EF GR ILVS
Sbjct: 610 VFPEFKLG-----LMHGRLSQEEKDRVMLEFAEGRYDILVS 645
Score = 31.2 bits (69), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 18/41 (43%), Positives = 24/41 (58%), Gaps = 5/41 (12%)
Query: 417 VLNEFRIGRASILVSQYNKSQQERDRVLNEFRIGRASILVS 457
V EF++G + SQ+E+DRV+ EF GR ILVS
Sbjct: 610 VFPEFKLG-----LMHGRLSQEEKDRVMLEFAEGRYDILVS 645
>pdb|1OYW|A Chain A, Structure Of The Recq Catalytic Core
Length = 523
Score = 34.7 bits (78), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 70/301 (23%), Positives = 121/301 (40%), Gaps = 44/301 (14%)
Query: 146 MGFQAPTAIQAQGWPIALSGCDLVAIAKTGSGKTLGYIAPAIVHVNSQRPLRSGEGPIVL 205
G+Q Q + LSG D + + TG GK+L Y PA+ L +G + +
Sbjct: 21 FGYQQFRPGQEEIIDTVLSGRDCLVVXPTGGGKSLCYQIPAL--------LLNG---LTV 69
Query: 206 VLAPTRELAQ-QIETVANDFGSATATRVACVFGGAPKGPQVK---ALQTG-AEIVIATPG 260
V++P L + Q++ + A AC+ + Q++ +TG ++ P
Sbjct: 70 VVSPLISLXKDQVDQL-----QANGVAAACLNSTQTREQQLEVXTGCRTGQIRLLYIAPE 124
Query: 261 RLI--DYLEQGTINLHRTSYLVLDEADRMLDMG--FEPQIRKIIGQIRPDRQVLMWSATW 316
RL ++LE + L +DEA + G F P+ +GQ+R L + A
Sbjct: 125 RLXLDNFLEH--LAHWNPVLLAVDEAHCISQWGHDFRPEY-AALGQLRQRFPTLPFXALT 181
Query: 317 PKEVQKLAEDFLVDYVQLN-----IGSLN-PTANHNIVQIVDVCQEHEKDYKLQGLLSQI 370
+D +V + LN I S + P + + EK L L +
Sbjct: 182 ATADDTTRQD-IVRLLGLNDPLIQISSFDRPNIRYXLX---------EKFKPLDQLXRYV 231
Query: 371 GSERTSKTIIFVETKRKADDITRSVRNKGWAAVAIHGNKSQQERDRVLNEFRIGRASILV 430
+R II+ ++ K +D +++KG +A A H R V +F+ I+V
Sbjct: 232 QEQRGKSGIIYCNSRAKVEDTAARLQSKGISAAAYHAGLENNVRADVQEKFQRDDLQIVV 291
Query: 431 S 431
+
Sbjct: 292 A 292
>pdb|4A2W|A Chain A, Structure Of Full-Length Duck Rig-I
pdb|4A2W|B Chain B, Structure Of Full-Length Duck Rig-I
Length = 936
Score = 33.5 bits (75), Expect = 0.42, Method: Compositional matrix adjust.
Identities = 30/124 (24%), Positives = 55/124 (44%), Gaps = 4/124 (3%)
Query: 162 ALSGCDLVAIAKTGSGKTLGYIAPAIVHVNSQRPLRSGEGPIVLVLAPTRELAQQIETVA 221
A++G + + A TGSGKT I H + + +G V+ LA + +Q + V
Sbjct: 260 AINGKNALICAPTGSGKTFVSILICEHHFQN---MPAGRKAKVVFLATKVPVYEQQKNVF 316
Query: 222 NDFGSATATRVACVFGGAPKGPQVKALQTGAEIVIATPGRLIDYLEQGTI-NLHRTSYLV 280
V + G V+ + ++I++ TP L++ E GT+ +L + ++
Sbjct: 317 KHHFERQGYSVQGISGENFSNVSVEKVIEDSDIIVVTPQILVNSFEDGTLTSLSIFTLMI 376
Query: 281 LDEA 284
DE
Sbjct: 377 FDEC 380
>pdb|4A2P|A Chain A, Structure Of Duck Rig-I Helicase Domain
pdb|4A36|A Chain A, Structure Of Duck Rig-I Helicase Domain Bound To 19-Mer
Dsrna And Atp Transition State Analogue
pdb|4A36|B Chain B, Structure Of Duck Rig-I Helicase Domain Bound To 19-Mer
Dsrna And Atp Transition State Analogue
Length = 556
Score = 33.5 bits (75), Expect = 0.44, Method: Compositional matrix adjust.
Identities = 30/124 (24%), Positives = 55/124 (44%), Gaps = 4/124 (3%)
Query: 162 ALSGCDLVAIAKTGSGKTLGYIAPAIVHVNSQRPLRSGEGPIVLVLAPTRELAQQIETVA 221
A++G + + A TGSGKT I H + + +G V+ LA + +Q + V
Sbjct: 19 AINGKNALICAPTGSGKTFVSILICEHHFQN---MPAGRKAKVVFLATKVPVYEQQKNVF 75
Query: 222 NDFGSATATRVACVFGGAPKGPQVKALQTGAEIVIATPGRLIDYLEQGTI-NLHRTSYLV 280
V + G V+ + ++I++ TP L++ E GT+ +L + ++
Sbjct: 76 KHHFERQGYSVQGISGENFSNVSVEKVIEDSDIIVVTPQILVNSFEDGTLTSLSIFTLMI 135
Query: 281 LDEA 284
DE
Sbjct: 136 FDEC 139
>pdb|3QUA|A Chain A, Crystal Structure Of A Putative Uncharacterized Protein
And Possible Molybdenum Cofactor Protein From
Mycobacterium Smegmatis
pdb|3QUA|B Chain B, Crystal Structure Of A Putative Uncharacterized Protein
And Possible Molybdenum Cofactor Protein From
Mycobacterium Smegmatis
Length = 199
Score = 33.1 bits (74), Expect = 0.58, Method: Composition-based stats.
Identities = 22/89 (24%), Positives = 44/89 (49%), Gaps = 10/89 (11%)
Query: 142 KIYEMGFQAPTAIQAQGWPIALSGCDLVAI------AKTGSGKTLGYIAPAIVHVNSQRP 195
++ E+ + ++I A+GW + G ++ A+ A+ G T+G I A+VH R
Sbjct: 37 ELLELAAEVGSSIAARGWTLVSGGGNVSAMGAVAQAARAKGGHTVGVIPKALVH----RE 92
Query: 196 LRSGEGPIVLVLAPTRELAQQIETVANDF 224
L + ++V RE +++E ++ F
Sbjct: 93 LADVDAAELIVTDTMRERKREMEHRSDAF 121
>pdb|2BHR|A Chain A, Dengue Virus Rna Helicase
pdb|2BHR|B Chain B, Dengue Virus Rna Helicase
pdb|2BMF|A Chain A, Dengue Virus Rna Helicase At 2.4a
pdb|2BMF|B Chain B, Dengue Virus Rna Helicase At 2.4a
Length = 451
Score = 33.1 bits (74), Expect = 0.59, Method: Compositional matrix adjust.
Identities = 29/84 (34%), Positives = 40/84 (47%), Gaps = 25/84 (29%)
Query: 175 GSGKTLGYIAPAIVHVNSQRPLRSGEGPIVLVLAPTRELAQQIETVANDFGSATATRVAC 234
G+GKT Y+ PAIV +R LR+ L+LAPTR +A ++E
Sbjct: 29 GAGKTKRYL-PAIVREAIKRGLRT------LILAPTRVVAAEMEE--------------- 66
Query: 235 VFGGAP---KGPQVKALQTGAEIV 255
G P + P ++A TG EIV
Sbjct: 67 ALRGLPIRYQTPAIRAEHTGREIV 90
>pdb|4A2Q|A Chain A, Structure Of Duck Rig-I Tandem Cards And Helicase Domain
pdb|4A2Q|B Chain B, Structure Of Duck Rig-I Tandem Cards And Helicase Domain
pdb|4A2Q|D Chain D, Structure Of Duck Rig-I Tandem Cards And Helicase Domain
pdb|4A2Q|E Chain E, Structure Of Duck Rig-I Tandem Cards And Helicase Domain
Length = 797
Score = 33.1 bits (74), Expect = 0.61, Method: Compositional matrix adjust.
Identities = 30/124 (24%), Positives = 55/124 (44%), Gaps = 4/124 (3%)
Query: 162 ALSGCDLVAIAKTGSGKTLGYIAPAIVHVNSQRPLRSGEGPIVLVLAPTRELAQQIETVA 221
A++G + + A TGSGKT I H + + +G V+ LA + +Q + V
Sbjct: 260 AINGKNALICAPTGSGKTFVSILICEHHFQN---MPAGRKAKVVFLATKVPVYEQQKNVF 316
Query: 222 NDFGSATATRVACVFGGAPKGPQVKALQTGAEIVIATPGRLIDYLEQGTI-NLHRTSYLV 280
V + G V+ + ++I++ TP L++ E GT+ +L + ++
Sbjct: 317 KHHFERQGYSVQGISGENFSNVSVEKVIEDSDIIVVTPQILVNSFEDGTLTSLSIFTLMI 376
Query: 281 LDEA 284
DE
Sbjct: 377 FDEC 380
>pdb|3V4R|A Chain A, Crystal Structure Of A Uvrb Dimer-Dna Complex
pdb|3V4R|B Chain B, Crystal Structure Of A Uvrb Dimer-Dna Complex
Length = 667
Score = 32.0 bits (71), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 16/72 (22%), Positives = 37/72 (51%), Gaps = 2/72 (2%)
Query: 362 KLQGLLSQIGS--ERTSKTIIFVETKRKADDITRSVRNKGWAAVAIHGNKSQQERDRVLN 419
++ L+ +I + ER + ++ TK+ ++D+T ++ G +H ER ++
Sbjct: 436 QIDDLIGEIQARIERNERVLVTTLTKKMSEDLTDYLKEIGIKVNYLHSEIKTLERIEIIR 495
Query: 420 EFRIGRASILVS 431
+ R+G+ +LV
Sbjct: 496 DLRLGKYDVLVG 507
>pdb|2D7D|A Chain A, Structural Insights Into The Cryptic Dna Dependent Atp-Ase
Activity Of Uvrb
pdb|2NMV|A Chain A, Damage Detection By The Uvrabc Pathway: Crystal Structure
Of Uvrb Bound To Fluorescein-Adducted Dna
Length = 661
Score = 32.0 bits (71), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 16/72 (22%), Positives = 37/72 (51%), Gaps = 2/72 (2%)
Query: 362 KLQGLLSQIGS--ERTSKTIIFVETKRKADDITRSVRNKGWAAVAIHGNKSQQERDRVLN 419
++ L+ +I + ER + ++ TK+ ++D+T ++ G +H ER ++
Sbjct: 430 QIDDLIGEIQARIERNERVLVTTLTKKMSEDLTDYLKEIGIKVNYLHSEIKTLERIEIIR 489
Query: 420 EFRIGRASILVS 431
+ R+G+ +LV
Sbjct: 490 DLRLGKYDVLVG 501
>pdb|3TBK|A Chain A, Mouse Rig-I Atpase Domain
Length = 555
Score = 31.6 bits (70), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 29/124 (23%), Positives = 51/124 (41%), Gaps = 4/124 (3%)
Query: 162 ALSGCDLVAIAKTGSGKTLGYIAPAIVHVNSQRPLRSGEGPIVLVLAPTRELAQQIETVA 221
A G + + A TG GKT + H+ + G+ V+ A + +Q TV
Sbjct: 16 AKKGKNTIICAPTGCGKTFVSLLICEHHL---KKFPCGQKGKVVFFANQIPVYEQQATVF 72
Query: 222 NDFGSATATRVACVFGGAPKGPQVKALQTGAEIVIATPGRLIDYLEQGTI-NLHRTSYLV 280
+ + +A + G V+ + +I+I TP L++ L G I +L + +
Sbjct: 73 SRYFERLGYNIASISGATSDSVSVQHIIEDNDIIILTPQILVNNLNNGAIPSLSVFTLXI 132
Query: 281 LDEA 284
DE
Sbjct: 133 FDEC 136
>pdb|1T5I|A Chain A, Crystal Structure Of The C-Terminal Domain Of Uap56
Length = 172
Score = 30.4 bits (67), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 22/87 (25%), Positives = 46/87 (52%), Gaps = 3/87 (3%)
Query: 345 HNIVQIVDVCQEHEKDYKLQGLLSQIGSERTSKTIIFVETKRKADDITRSVRNKGWAAVA 404
H + Q +++EK+ KL LL + ++ +IFV++ ++ + + + + + A+A
Sbjct: 4 HGLQQYYVKLKDNEKNRKLFDLLDVL---EFNQVVIFVKSVQRCIALAQLLVEQNFPAIA 60
Query: 405 IHGNKSQQERDRVLNEFRIGRASILVS 431
IH Q+ER +F+ + ILV+
Sbjct: 61 IHRGMPQEERLSRYQQFKDFQRRILVA 87
>pdb|2JLS|A Chain A, Dengue Virus 4 Ns3 Helicase In Complex With Adp
Length = 451
Score = 29.3 bits (64), Expect = 7.8, Method: Compositional matrix adjust.
Identities = 29/84 (34%), Positives = 39/84 (46%), Gaps = 25/84 (29%)
Query: 175 GSGKTLGYIAPAIVHVNSQRPLRSGEGPIVLVLAPTRELAQQIETVANDFGSATATRVAC 234
G+GKT I P+IV +R LR+ L+LAPTR +A ++E
Sbjct: 29 GAGKT-KRILPSIVREALKRRLRT------LILAPTRVVAAEMEE--------------- 66
Query: 235 VFGGAP---KGPQVKALQTGAEIV 255
G P + P VK+ TG EIV
Sbjct: 67 ALRGLPIRYQTPAVKSDHTGREIV 90
>pdb|2JLR|A Chain A, Dengue Virus 4 Ns3 Helicase In Complex With Amppnp
Length = 451
Score = 29.3 bits (64), Expect = 7.8, Method: Compositional matrix adjust.
Identities = 29/84 (34%), Positives = 39/84 (46%), Gaps = 25/84 (29%)
Query: 175 GSGKTLGYIAPAIVHVNSQRPLRSGEGPIVLVLAPTRELAQQIETVANDFGSATATRVAC 234
G+GKT I P+IV +R LR+ L+LAPTR +A ++E
Sbjct: 29 GAGKT-KRILPSIVREALKRRLRT------LILAPTRVVAAEMEE--------------- 66
Query: 235 VFGGAP---KGPQVKALQTGAEIV 255
G P + P VK+ TG EIV
Sbjct: 67 ALRGLPIRYQTPAVKSDHTGREIV 90
>pdb|2JLU|A Chain A, Dengue Virus 4 Ns3 Helicase In Complex With Ssrna
pdb|2JLU|B Chain B, Dengue Virus 4 Ns3 Helicase In Complex With Ssrna
pdb|2JLV|A Chain A, Dengue Virus 4 Ns3 Helicase In Complex With Ssrna And
Amppnp
pdb|2JLV|B Chain B, Dengue Virus 4 Ns3 Helicase In Complex With Ssrna And
Amppnp
pdb|2JLW|A Chain A, Dengue Virus 4 Ns3 Helicase In Complex With Ssrna2
pdb|2JLW|B Chain B, Dengue Virus 4 Ns3 Helicase In Complex With Ssrna2
pdb|2JLX|A Chain A, Dengue Virus 4 Ns3 Helicase In Complex With Ssrna And Adp-
Vanadate
pdb|2JLX|B Chain B, Dengue Virus 4 Ns3 Helicase In Complex With Ssrna And Adp-
Vanadate
pdb|2JLZ|A Chain A, Dengue Virus 4 Ns3 Helicase In Complex With Ssrna And Adp
pdb|2JLZ|B Chain B, Dengue Virus 4 Ns3 Helicase In Complex With Ssrna And Adp
Length = 451
Score = 29.3 bits (64), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 28/81 (34%), Positives = 37/81 (45%), Gaps = 19/81 (23%)
Query: 175 GSGKTLGYIAPAIVHVNSQRPLRSGEGPIVLVLAPTRELAQQIETVANDFGSATATRVAC 234
G+GKT I P+IV +R LR+ L+LAPTR +A ++E T
Sbjct: 29 GAGKT-KRILPSIVREALKRRLRT------LILAPTRVVAAEMEEALRGLPIRYQT---- 77
Query: 235 VFGGAPKGPQVKALQTGAEIV 255
P VK+ TG EIV
Sbjct: 78 --------PAVKSDHTGREIV 90
>pdb|3FIC|B Chain B, T. Thermophilus 70s Ribosome In Complex With Mrna, Trnas
And Ef- Tu.Gdp.Kirromycin Ternary Complex, Fitted To A
6.4 A Cryo-Em Map. This File Contains The 30s Subunit
And The Ligands
Length = 235
Score = 29.3 bits (64), Expect = 8.7, Method: Compositional matrix adjust.
Identities = 29/109 (26%), Positives = 47/109 (43%), Gaps = 16/109 (14%)
Query: 343 ANHNIVQIVDV---CQEHEKDYKLQGLLSQIGSERTSKTIIFVETKRKADDITR------ 393
A N + I+D+ +E E+ ++ L+ G TI+FV TK++A DI R
Sbjct: 28 AERNGIHIIDLQKTMEELERTFRFIEDLAMRGG-----TILFVGTKKQAQDIVRMEAERA 82
Query: 394 --SVRNKGWAAVAIHGNKSQQERDRVLNEFRIGRASILVSQYNKSQQER 440
N+ W + K+ +R L E AS + + K +Q R
Sbjct: 83 GMPYVNQRWLGGMLTNFKTISQRVHRLEELEALFASPEIEERPKKEQVR 131
>pdb|1FJG|B Chain B, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit In Complex With The Antibiotics Streptomycin,
Spectinomycin, And Paromomycin
pdb|1HR0|B Chain B, Crystal Structure Of Initiation Factor If1 Bound To The
30s Ribosomal Subunit
pdb|1HNW|B Chain B, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit In Complex With Tetracycline
pdb|1HNX|B Chain B, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit In Complex With Pactamycin
pdb|1HNZ|B Chain B, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit In Complex With Hygromycin B
pdb|1GIX|E Chain E, Crystal Structure Of The Ribosome At 5.5 A Resolution.
This File, 1gix, Contains The 30s Ribosome Subunit,
Three Trna, And Mrna Molecules. 50s Ribosome Subunit Is
In The File 1giy
pdb|1IBK|B Chain B, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit In Complex With The Antibiotic Paromomycin
pdb|1IBL|B Chain B, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit In Complex With A Messenger Rna Fragment And
Cognate Transfer Rna Anticodon Stem-Loop Bound At The A
Site And With The Antibiotic Paromomycin
pdb|1IBM|B Chain B, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit In Complex With A Messenger Rna Fragment And
Cognate Transfer Rna Anticodon Stem-Loop Bound At The A
Site
pdb|1JGO|E Chain E, The Path Of Messenger Rna Through The Ribosome. This File,
1jgo, Contains The 30s Ribosome Subunit, Three Trna, And
Mrna Molecules. 50s Ribosome Subunit Is In The File 1giy
pdb|1JGP|E Chain E, The Path Of Messenger Rna Through The Ribosome. This File,
1jgp, Contains The 30s Ribosome Subunit, Three Trna, And
Mrna Molecules. 50s Ribosome Subunit Is In The File 1giy
pdb|1JGQ|E Chain E, The Path Of Messenger Rna Through The Ribosome. This File,
1jgq, Contains The 30s Ribosome Subunit, Three Trna, And
Mrna Molecules. 50s Ribosome Subunit Is In The File 1giy
pdb|1J5E|B Chain B, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit
pdb|1N32|B Chain B, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit Bound To Codon And Near-Cognate Transfer Rna
Anticodon Stem-Loop Mismatched At The First Codon
Position At The A Site With Paromomycin
pdb|1N33|B Chain B, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit Bound To Codon And Near-Cognate Transfer Rna
Anticodon Stem-Loop Mismatched At The Second Codon
Position At The A Site With Paromomycin
pdb|1N34|B Chain B, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit In The Presence Of Codon And
Crystallographically Disordered Near-Cognate Transfer
Rna Anticodon Stem-Loop Mismatched At The First Codon
Position
pdb|1N36|B Chain B, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit In The Presence Of Crystallographically
Disordered Codon And Near-cognate Transfer Rna Anticodon
Stem-loop Mismatched At The Second Codon Position
pdb|1ML5|E Chain E, Structure Of The E. Coli Ribosomal Termination Complex
With Release Factor 2
pdb|1XMO|B Chain B, Crystal Structure Of Mnm5u34t6a37-Trnalysuuu Complexed
With Aag-Mrna In The Decoding Center
pdb|1XMQ|B Chain B, Crystal Structure Of T6a37-Asllysuuu Aaa-Mrna Bound To The
Decoding Center
pdb|1XNQ|B Chain B, Structure Of An Inosine-Adenine Wobble Base Pair Complex
In The Context Of The Decoding Center
pdb|1XNR|B Chain B, Crystal Structure Of An Inosine-Cytosine Wobble Base Pair
In The Context Of The Decoding Center
pdb|1YL4|E Chain E, Crystal Structure Of 70s Ribosome With Thrs Operator And
Trnas. 30s Subunit. The Coordinates For The 50s Subunit
Are In The Pdb Entry 1yl3
pdb|2B64|B Chain B, 30s Ribosomal Subunit, Trnas, Mrna And Release Factor Rf1
From A Crystal Structure Of The Whole Ribosomal Complex.
This File Contains The 30s Subunit, Trnas, Mrna And
Release Factor Rf1 From A Crystal Structure Of The Whole
Ribosomal Complex". The Entire Crystal Structure
Contains One 70s Ribosome, Trnas, Mrna And Release
Factor Rf1 And Is Described In Remark 400.
pdb|2B9M|B Chain B, 30s Ribosomal Subunit, Trnas, Mrna And Release Factor Rf2
From A Crystal Structure Of The Whole Ribosomal Complex.
This File Contains The 30s Ribosomal Subunit, Trnas,
Mrna And Release Factor Rf2 From A Crystal Structure Of
The Whole Ribosomal Complex". The Entire Crystal
Structure Contains One 70s Ribosome, Trnas, Mrna And
Release Factor Rf2 And Is Described In Remark 400.
pdb|2B9O|B Chain B, 30s Ribosomal Subunit, Trnas And Mrna From A Crystal
Structure Of The Whole Ribosomal Complex With A Stop
Codon In The A-Site. This File Contains The 30s Subunit,
Trnas And Mrna From A Crystal Structure Of The Whole
Ribosomal Complex With A Stop Codon In The A-Site And Is
Described In Remark 400.
pdb|2F4V|B Chain B, 30s Ribosome + Designer Antibiotic
pdb|2HHH|B Chain B, Crystal Structure Of Kasugamycin Bound To The 30s
Ribosomal Subunit
pdb|2J00|B Chain B, Structure Of The Thermus Thermophilus 70s Ribosome
Complexed With Mrna, Trna And Paromomycin (Part 1 Of 4).
This File Contains The 30s Subunit, Mrna, A-, P- And
E-Site Trnas And Paromomycin For Molecule I.
pdb|2J02|B Chain B, Structure Of The Thermus Thermophilus 70s Ribosome
Complexed With Mrna, Trna And Paromomycin (Part 3 Of 4)
This File Contains The 30s Subunit, Mrna, A-, P- And
E-Site Trnas And Paromomycin For Molecule Ii.
pdb|2HGI|E Chain E, Crystal Structure Of The 70s Thermus Thermophilus Ribosome
Showing How The 16s 3'-End Mimicks Mrna E And P Codons.
This Entry 2hgi Contains 30s Ribosomal Subunit. The 50s
Ribosomal Subunit Can Be Found In Pdb Entry 2hgj.
pdb|2HGP|E Chain E, Crystal Structure Of The 70s Thermus Thermophilus Ribosome
With Translocated And Rotated Shine-Dalgarno Duplex.
This Entry 2hgp Contains 30s Ribosomal Subunit. The 50s
Ribosomal Subunit Can Be Found In Pdb Entry 2hgq.
pdb|2HGR|E Chain E, 70s T.Th. Ribosome Functional Complex With Mrna And E- And
P-Site Trnas At 4.5a. This Entry 2hgr Contains 30s
Ribosomal Subunit. The 50s Ribosomal Subunit Can Be
Found In Pdb Entry 2hgu.
pdb|2OW8|CC Chain c, Crystal Structure Of A 70s Ribosome-Trna Complex Reveals
Functional Interactions And Rearrangements. This File,
2ow8, Contains The 30s Ribosome Subunit, Two Trna, And
Mrna Molecules. 50s Ribosome Subunit Is In The File
1vsa.
pdb|2UU9|B Chain B, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit Complexed With A Valine-asl With Cmo5u In
Position 34 Bound To An Mrna With A Gug-codon In The
A-site And Paromomycin.
pdb|2UUA|B Chain B, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit Complexed With A Valine-Asl With Cmo5u In
Position 34 Bound To An Mrna With A Guc-Codon In The
A-Site And Paromomycin.
pdb|2UUB|B Chain B, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit Complexed With A Valine-Asl With Cmo5u In
Position 34 Bound To An Mrna With A Guu-Codon In The
A-Site And Paromomycin.
pdb|2UUC|B Chain B, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit Complexed With A Valine-asl With Cmo5u In
Position 34 Bound To An Mrna With A Gua-codon In The
A-site And Paromomycin.
pdb|2UXC|B Chain B, Crystal Structure Of An Extended Trna Anticodon Stem Loop
In Complex With Its Cognate Mrna Ucgu In The Context Of
The Thermus Thermophilus 30s Subunit.
pdb|2UXB|B Chain B, Crystal Structure Of An Extended Trna Anticodon Stem Loop
In Complex With Its Cognate Mrna Gggu In The Context Of
The Thermus Thermophilus 30s Subunit.
pdb|2V46|B Chain B, Structure Of The Ribosome Recycling Factor Bound To The
Thermus Thermophilus 70s Ribosome With Mrna, Asl-Phe And
Trna-Fmet (Part 1 Of 4). This File Contains The 30s
Subunit, Mrna, P-Site Asl, E-Site Trna And Rrf For
Molecule 1.
pdb|2V48|B Chain B, Structure Of The Ribosome Recycling Factor Bound To The
Thermus Thermophilus 70s Ribosome With Mrna, Asl-Phe And
Trna-Fmet (Part 3 Of 4). This File Contains The 30s
Subunit, Mrna, P-Site Asl, E-Site Trna And Rrf For
Molecule 2.
pdb|2UXD|B Chain B, Crystal Structure Of An Extended Trna Anticodon Stem Loop
In Complex With Its Cognate Mrna Cggg In The Context Of
The Thermus Thermophilus 30s Subunit.
pdb|2QNH|CC Chain c, Interactions And Dynamics Of The Shine-Dalgarno Helix In
The 70s Ribosome. This File, 2qnh, Contains The 30s
Ribosome Subunit, Two Trna, And Mrna Molecules. 50s
Ribosome Subunit Is In The File 1vsp.
pdb|2OM7|N Chain N, Structural Basis For Interaction Of The Ribosome With The
Switch Regions Of Gtp-Bound Elongation Factors
pdb|2VQE|B Chain B, Modified Uridines With C5-methylene Substituents At The
First Position Of The Trna Anticodon Stabilize U-g
Wobble Pairing During Decoding
pdb|2VQF|B Chain B, Modified Uridines With C5-Methylene Substituents At The
First Position Of The Trna Anticodon Stabilize U-G
Wobble Pairing During Decoding
pdb|3D5A|B Chain B, Structural Basis For Translation Termination On The 70s
Ribosome. This File Contains The 30s Subunit, Release
Factor 1 (Rf1), Two Trna, And Mrna Molecules Of One 70s
Ribosome. The Entire Crystal Structure Contains Two 70s
Ribosomes As Described In Remark 400.
pdb|3D5C|B Chain B, Structural Basis For Translation Termination On The 70s
Ribosome. This File Contains The 30s Subunit, Release
Factor 1 (Rf1), Two Trna, And Mrna Molecules Of The
Second 70s Ribosome. The Entire Crystal Structure
Contains Two 70s Ribosomes As Described In Remark 400.
pdb|3F1E|B Chain B, Crystal Structure Of A Translation Termination Complex
Formed With Release Factor Rf2. This File Contains The
30s Subunit, Rf2, Two Trna, And Mrna Molecules Of One
70s Ribosome. The Entire Crystal Structure Contains Two
70s Ribosomes As Described In Remark 400.
pdb|3F1G|B Chain B, Crystal Structure Of A Translation Termination Complex
Formed With Release Factor Rf2. This File Contains The
30s Subunit, Rf2, Two Trna, And Mrna Molecules Of The
Second 70s Ribosome. The Entire Crystal Structure
Contains Two 70s Ribosomes As Described In Remark 400.
pdb|2WDG|B Chain B, Structure Of The Thermus Thermophilus 70s Ribosome In
Complex With Mrna, Paromomycin, Acylated A-Site Trna,
Deacylated P-Site Trna, And E-Site Trna. This File
Contains The 30s Subunit A-,P-, And E-Site Trnas And
Paromomycin For Molecule I.
pdb|2WDH|B Chain B, Structure Of The Thermus Thermophilus 70s Ribosome In
Complex With Mrna, Paromomycin, Acylated A-Site Trna,
Deacylated P-Site Trna, And E-Site Trna. This File
Contains The 30s Subunit A-,P-, And E-Site Trnas And
Paromomycin For Molecule Ii.
pdb|2WDK|B Chain B, Structure Of The Thermus Thermophilus 70s Ribosome In
Complex With Mrna, Paromomycin, Acylated A- And P-Site
Trnas, And E-Site Trna. This File Contains The 30s
Subunit A-,P-, And E-Site Trnas And Paromomycin For
Molecule I.
pdb|2WDM|B Chain B, Structure Of The Thermus Thermophilus 70s Ribosome In
Complex With Mrna, Paromomycin, Acylated A- And P-Site
Trnas, And E-Site Trna. This File Contains The 30s
Subunit A-,P-, And E-Site Trnas And Paromomycin For
Molecule Ii.
pdb|2WH1|B Chain B, Insights Into Translational Termination From The Structure
Of Rf2 Bound To The Ribosome
pdb|2WH3|B Chain B, Insights Into Translational Termination From The Structure
Of Rf2 Bound To The Ribosome). This File Contains The
30s Subunit.
pdb|3HUW|B Chain B, Structure Of Ef-P Bound To The 70s Ribosome; This File
Contains The 30s Subunit, Mrna, P-Site Trna And Ef-P For
Molecule I.
pdb|3HUY|B Chain B, Structure Of Ef-P Bound To The 70s Ribosome; This File
Contains The 30s Subunit, Mrna, P-Site Trna And Ef-P For
Molecule Ii.
pdb|2WRI|B Chain B, The Structure Of The Ribosome With Elongation Factor G
Trapped In The Post-Translocational State (Part 1 Of 4).
pdb|2WRK|B Chain B, The Structure Of The Ribosome With Elongation Factor G
Trapped In The Post-Translocational State (Part 3 Of 4).
pdb|2WRN|B Chain B, The Crystal Structure Of The 70s Ribosome Bound To Ef-Tu
And Trna (Part 1 Of 4).
pdb|2WRQ|B Chain B, The Crystal Structure Of The 70s Ribosome Bound To Ef-Tu
And Trna (Part 3 Of 4).
pdb|3KIQ|BB Chain b, Structure Of Rele Nuclease Bound To The 70s Ribosome
(Precleavage State; Part 1 Of 4)
pdb|3KIS|BB Chain b, Structure Of Rele Nuclease Bound To The 70s Ribosome
(Precleavage State; Part 3 Of 4)
pdb|3KIU|BB Chain b, Structure Of Rele Nuclease Bound To The 70s Ribosome
(Postcleavage State; Part 1 Of 4)
pdb|3KIX|BB Chain b, Structure Of Rele Nuclease Bound To The 70s Ribosome
(Postcleavage State; Part 3 Of 4)
pdb|3KNH|B Chain B, The Structures Of Viomycin Bound To The 70s Ribosome. This
File Contains The 30s Subunit For Molecule I
pdb|3KNJ|B Chain B, The Structures Of Viomycin Bound To The 70s Ribosome. This
File Contains The 30s Subunit For Molecule Ii'
pdb|3KNL|B Chain B, The Structures Of Capreomycin Bound To The 70s Ribosome.
This File Contains The 30s Subunit For Molecule I
pdb|3KNN|B Chain B, The Structures Of Capreomycin Bound To The 70s Ribosome.
This File Contains The 30s Subunit For Molecule Ii
pdb|3I8G|E Chain E, Elongation Complex Of The 70s Ribosome With Three Trnas
And Entry 3i8g Contains 30s Ribosomal Subnit.The 50s
Ribosomal Can Be Found In Pdb Entry 3i8f. Molecule B In
The Same Asym Unit Is Deposited As 3i8g (30s) And 3i8f
(50s).
pdb|3I8H|E Chain E, Elongation Complex Of The 70s Ribosome With Three Trnas
And Entry 3i8h Contains 30s Ribosomal Subnit. The 50s
Ribosomal Can Be Found In Pdb Entry 3i8i. Molecule A In
The Same Asym Unit Is Deposited As 3i8f (50s) And 3i8g
(30s).
pdb|3I9B|E Chain E, Initiation Complex Of 70s Ribosome With Two Trnas And
Mrna. 3i9b Contains 30s Ribosomal Subunit Of Molecule B.
The 50s Subunit Can Be Found In Pdb Entry 3i9c. Molecule
A In The S Asymmetric Unit Is Deposited As 3i9d (30s)
And 3i9e (50s)
pdb|3I9D|E Chain E, Initiation Complex Of 70s Ribosome With Two Trnas And
Mrna. 3i9d Contains 30s Ribosomal Subunit Of Molecule A.
The 50s Subunit Can Be Found In Pdb Entry 3i9e. Molecule
B In The S Asymmetric Unit Is Deposited As 3i9b (30s)
And 3i9c (50s)
pdb|2X9R|B Chain B, Structure Of The 70s Ribosome Bound To Release Factor 2
And A Substrate Analog Provides Insights Into Catalysis
Of Peptide Release
pdb|2X9T|B Chain B, Structure Of The 70s Ribosome Bound To Release Factor 2
And A Substrate Analog Provides Insights Into Catalysis
Of Peptide Release
pdb|2XFZ|B Chain B, Structure Of Cytotoxic Domain Of Colicin E3 Bound To The
70s Ribosome (Part 1 Of 4)
pdb|2XG1|B Chain B, Structure Of Cytotoxic Domain Of Colicin E3 Bound To The
70s Ribosome (Part 3 Of 4)
pdb|3OTO|B Chain B, Crystal Structure Of The 30s Ribosomal Subunit From A Ksga
Mutant Of Thermus Thermophilus (Hb8)
pdb|3OGE|B Chain B, Structure Of The Thermus Thermophilus Ribosome Complexed
With Chloramphenicol. This File Contains The 30s Subunit
Of One 70s Ribosome. The Entire Crystal Structure
Contains Two 70s Ribosomes.
pdb|3OGY|B Chain B, Structure Of The Thermus Thermophilus Ribosome Complexed
With Chloramphenicol. This File Contains The 30s Subunit
Of One 70s Ribosome. The Entire Crystal Structure
Contains Two 70s Ribosomes.
pdb|3OHC|B Chain B, Structure Of The Thermus Thermophilus Ribosome Complexed
With Erythromycin. This File Contains The 30s Subunit Of
One 70s Ribosome. The Entire Crystal Structure Contains
Two 70s Ribosomes.
pdb|3OHD|B Chain B, Structure Of The Thermus Thermophilus Ribosome Complexed
With Erythromycin. This File Contains The 30s Subunit Of
One 70s Ribosome. The Entire Crystal Structure Contains
Two 70s Ribosomes.
pdb|3OHY|B Chain B, Structure Of The Thermus Thermophilus 70s Ribosome
Complexed With Azithromycin. This File Contains The 30s
Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Two 70s Ribosomes.
pdb|3OI0|B Chain B, Structure Of The Thermus Thermophilus 70s Ribosome
Complexed With Azithromycin. This File Contains The 30s
Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Two 70s Ribosomes.
pdb|3OI2|B Chain B, Structure Of The Thermus Thermophilus 70s Ribosome
Complexed With Telithromycin. This File Contains The 30s
Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Two 70s Ribosomes.
pdb|3OI4|B Chain B, Structure Of The Thermus Thermophilus 70s Ribosome
Complexed With Telithromycin. This File Contains The 30s
Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Two 70s Ribosomes.
pdb|2XQD|B Chain B, The Structure Of Ef-Tu And Aminoacyl-Trna Bound To The 70s
Ribosome With A Gtp Analog
pdb|2XSY|B Chain B, Trna Tranlocation On The 70s Ribosome: The Pre-
Translocational Translocation Intermediate Ti(Pre)
pdb|2XUY|B Chain B, Trna Translocation On The 70s Ribosome: The Post-
Translocational Translocation Intermediate Ti(Post)
pdb|2Y0U|B Chain B, The Crystal Structure Of Ef-Tu And A9c-Trna-Trp Bound To A
Near-Cognate Codon On The 70s Ribosome
pdb|2Y0W|B Chain B, The Crystal Structure Of Ef-Tu And A9c-Trna-Trp Bound To A
Near-Cognate Codon On The 70s Ribosome
pdb|2Y0Y|B Chain B, The Crystal Structure Of Ef-Tu And G24a-Trna-Trp Bound To
A Near-Cognate Codon On The 70s Ribosome
pdb|2Y10|B Chain B, The Crystal Structure Of Ef-Tu And Trp-Trna-Trp Bound To A
Cognate Codon On The 70s Ribosome.
pdb|2Y12|B Chain B, The Crystal Structure Of Ef-Tu And G24a-Trna-Trp Bound To
A Near-Cognate Codon On The 70s Ribosome
pdb|2Y14|B Chain B, The Crystal Structure Of Ef-Tu And G24a-Trna-Trp Bound To
A Cognate Codon On The 70s Ribosome.
pdb|2Y16|B Chain B, The Crystal Structure Of Ef-Tu And G24a-Trna-Trp Bound To
A Cognate Codon On The 70s Ribosome.
pdb|2Y18|B Chain B, The Crystal Structure Of Ef-Tu And Trp-Trna-Trp Bound To A
Cognate Codon On The 70s Ribosome.
pdb|3ZVO|B Chain B, Crystal Structure Of The Hybrid State Of Ribosome In
Complex With The Guanosine Triphosphatase Release Factor
3
pdb|3T1H|B Chain B, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit Complexed With A Human Anti-Codon Stem Loop
(Hasl) Of Transfer Rna Lysine 3 (Trnalys3) Bound To An
Mrna With An Aaa-Codon In The A-Site And Paromomycin
pdb|3T1Y|B Chain B, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit Complexed With A Human Anti-Codon Stem Loop
(Hasl) Of Transfer Rna Lysine 3 (Trnalys3) Bound To An
Mrna With An Aag-Codon In The A-Site And Paromomycin
pdb|3UXS|B Chain B, The Structure Of Thermorubin In Complex With The 70s
Ribosome From Thermus Thermophilus. This File Contains
The 30s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Two 70s Ribosomes.
pdb|3UXT|B Chain B, The Structure Of Thermorubin In Complex With The 70s
Ribosome From Thermus Thermophilus. This File Contains
The 30s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Two 70s Ribosomes.'
pdb|3TVF|E Chain E, Crystal Structure Analysis Of Ribosomal Decoding. This
Entry Contains The 30s Ribosomal Subunit Of The First
70s Molecule In The Asymmetric Unit For The Cognate
Trna-Leu Complex
pdb|3TVG|E Chain E, Crystal Structure Analysis Of Ribosomal Decoding. This
Entry Contains The 30s Ribosomal Subunit Of The Second
70s Molecule In The Asymmetric Unit For The Cognate
Trna-Leu Complex
pdb|3UYD|E Chain E, Crystal Structure Analysis Of Ribosomal Decoding. This
Entry Contains The 30s Ribosomal Subunit Of The First
70s Molecule In The Asymmetric Unit For The Near-Cognate
Trna-Leu Complex
pdb|3UYF|E Chain E, Crystal Structure Analysis Of Ribosomal Decoding. This
Entry Contains The 30s Ribosomal Subunit Of The First
70s Molecule In The Asymmetric Unit For The Near-Cognate
Trna-Leu Complex
pdb|3UZ3|E Chain E, Crystal Structure Analysis Of Ribosomal Decoding. This
Entry Contains The 30s Ribosomal Subunit Of The First
70s Molecule In The Asymmetric Unit For The Near-Cognate
Trna-Leu Complex With Paromomycin.
pdb|3UZ4|E Chain E, Crystal Structure Analysis Of Ribosomal Decoding. This
Entry Contains The 30s Ribosomal Subunit Of The Second
70s Molecule In The Asymmetric Unit For The Near-Cognate
Trna-Leu Complex With Paromomycin.
pdb|3UZ6|E Chain E, Structure Analysis Of Ribosomal Decoding. This Entry
Contains The 30s Ribosomal Subunit Of The First 70s
Molecule In The Asymmetric Unit For The Cognate Trna-Tyr
Complex
pdb|3UZ7|E Chain E, Crystal Structure Analysis Of Ribosomal Decoding. This
Entry Contains The 30s Ribosomal Subunit Of The Second
70s Molecule In The Asymmetric Unit For The Cognate
Trna-Tyr Complex.
pdb|3UZG|E Chain E, Crystal Structure Analysis Of Ribosomal Decoding. This
Entry Contains The 30s Ribosomal Subunit Of The First
70s Molecule In The Asymmetric Unit For The Near-Cognate
Trna-Tyr Complex
pdb|3UZI|E Chain E, Crystal Structure Analysis Of Ribosomal Decoding. This
Entry Contains The 30s Ribosomal Subunit Of The Second
70s Molecule In The Asymmetric Unit For The Near-Cognate
Trna-Tyr Complex
pdb|3UZL|E Chain E, Crystal Structure Analysis Of Ribosomal Decoding. This
Entry Contains The 30s Ribosomal Subunit Of The First
70s Molecule In The Asymmetric Unit For The Near-Cognate
Trna-Tyr Complex With Paromomycin
pdb|3UZM|E Chain E, Crystal Structure Analysis Of Ribosomal Decoding. This
Entry Contains The 30s Ribosomal Subunit Of The Second
70s Molecule In The Asymmetric Unit For The Near-cognate
Trna-tyr Complex With Paromomycin
pdb|4ABR|B Chain B, Complex Of Smpb, A Tmrna Fragment And Ef-Tu-Gdp-Kirromycin
With The 70s Ribosome
pdb|4DH9|B Chain B, Crystal Structure Of Yaej Bound To The 70s Ribosome
pdb|4DHB|B Chain B, Crystal Structure Of Yaej Bound To The 70s Ribosome
pdb|3V22|B Chain B, Crystal Structure Of Rmf Bound To The 70s Ribosome. This
Pdb Entry Contains Coordinates For The 30s Subunit With
Bound Rmf Of The 1st Ribosome In The Asu
pdb|3V24|B Chain B, Crystal Structure Of Rmf Bound To The 70s Ribosome. This
Pdb Entry Contains Coordinates For The 30s Subunit With
Bound Rmf Of The 2nd Ribosome In The Asu
pdb|3V26|B Chain B, Crystal Structure Of Hpf Bound To The 70s Ribosome. This
Pdb Entry Contains Coordinates For The 30s Subunit With
Bound Hpf Of The 1st Ribosome In The Asu
pdb|3V28|B Chain B, Crystal Structure Of Hpf Bound To The 70s Ribosome. This
Pdb Entry Contains Coordinates For The 30s Subunit With
Bound Hpf Of The 2nd Ribosome In The Asu
pdb|3V2C|B Chain B, Crystal Structure Of Yfia Bound To The 70s Ribosome. This
Pdb Entry Contains Coordinates For The 30s Subunit With
Bound Yfia Of The 1st Ribosome In The Asu
pdb|3V2E|B Chain B, Crystal Structure Of Yfia Bound To The 70s Ribosome. This
Pdb Entry Contains Coordinates For The 30s Subunit With
Bound Yfia Of The 2nd Ribosome In The Asu
pdb|4AQY|B Chain B, Structure Of Ribosome-Apramycin Complexes
pdb|4DR1|B Chain B, Crystal Structure Of The Apo 30s Ribosomal Subunit From
Thermus Thermophilus (hb8)
pdb|4DR2|B Chain B, Crystal Structure Of The Thermus Thermophilus (hb8) 30s
Ribosomal Subunit With Multiple Copies Of Paromomycin
Molecules Bound
pdb|4DR3|B Chain B, Crystal Structure Of The Thermus Thermophilus (hb8) 30s
Ribosomal Subunit With Streptomycin Bound
pdb|4DR4|B Chain B, Crystal Structure Of The Thermus Thermophilus (hb8) 30s
Ribosomal Subunit With Codon, Cognate Transfer Rna
Anticodon Stem-loop And Multiple Copies Of Paromomycin
Molecules Bound
pdb|4DR5|B Chain B, Crystal Structure Of The Thermus Thermophilus (hb8) 30s
Ribosomal Subunit With Codon, Crystallographically
Disordered Cognate Transfer Rna Anticodon Stem-loop And
Streptomycin Bound
pdb|4DR6|B Chain B, Crystal Structure Of The Thermus Thermophilus (hb8) 30s
Ribosomal Subunit With Codon, Near-cognate Transfer Rna
Anticodon Stem-loop Mismatched At The First Codon
Position And Streptomycin Bound
pdb|4DR7|B Chain B, Crystal Structure Of The Thermus Thermophilus (hb8) 30s
Ribosomal Subunit With Codon, Crystallographically
Disordered Near-cognate Transfer Rna Anticodon Stem-loop
Mismatched At The Second Codon Position, And
Streptomycin Bound
pdb|4G5K|E Chain E, Crystal Structure Of The 70s Ribosome With Tetracycline.
This Entry Contains The 30s Subunit Of Molecule A.
pdb|4G5M|E Chain E, Crystal Structure Of The 70s Ribosome With Tetracycline.
This Entry Contains The 30s Subunit Of Molecule B.
pdb|4G5T|E Chain E, Crystal Structure Of The 70s Ribosome With Tigecycline.
This Entry Contains The 30s Subunit Of Molecule A.
pdb|4G5V|E Chain E, Crystal Structure Of The 70s Ribosome With Tigecycline.
This Entry Contains The 30s Subunit Of Molecule B.
pdb|4DUY|B Chain B, Crystal Structure Of The Thermus Thermophilus 30s
Ribosomal Subunit With A 16s Rrna Mutation, U13c
pdb|4DUZ|B Chain B, Crystal Structure Of The Thermus Thermophilus 30s
Ribosomal Subunit With A 16s Rrna Mutation, U13c, Bound
With Streptomycin
pdb|4DV0|B Chain B, Crystal Structure Of The Thermus Thermophilus 30s
Ribosomal Subunit With A 16s Rrna Mutation, U20g
pdb|4DV1|B Chain B, Crystal Structure Of The Thermus Thermophilus 30s
Ribosomal Subunit With A 16s Rrna Mutation, U20g, Bound
With Streptomycin
pdb|4DV2|B Chain B, Crystal Structure Of The Thermus Thermophilus 30s
Ribosomal Subunit With A 16s Rrna Mutation, C912a
pdb|4DV3|B Chain B, Crystal Structure Of The Thermus Thermophilus 30s
Ribosomal Subunit With A 16s Rrna Mutation, C912a, Bound
With Streptomycin
pdb|4DV4|B Chain B, Crystal Structure Of The Thermus Thermophilus 30s
Ribosomal Subunit With A 16s Rrna Mutation, A914g
pdb|4DV5|B Chain B, Crystal Structure Of The Thermus Thermophilus 30s
Ribosomal Subunit With A 16s Rrna Mutation, A914g, Bound
With Streptomycin
pdb|4DV6|B Chain B, Crystal Structure Of The Thermus Thermophilus 30s
Ribosomal Subunit With A 16s Rrna Mutation, A915g
pdb|4DV7|B Chain B, Crystal Structure Of The Thermus Thermophilus 30s
Ribosomal Subunit With A 16s Rrna Mutation, A915g, Bound
With Streptomycin
Length = 256
Score = 29.3 bits (64), Expect = 9.2, Method: Compositional matrix adjust.
Identities = 29/109 (26%), Positives = 47/109 (43%), Gaps = 16/109 (14%)
Query: 343 ANHNIVQIVDV---CQEHEKDYKLQGLLSQIGSERTSKTIIFVETKRKADDITR------ 393
A N + I+D+ +E E+ ++ L+ G TI+FV TK++A DI R
Sbjct: 34 AERNGIHIIDLQKTMEELERTFRFIEDLAMRGG-----TILFVGTKKQAQDIVRMEAERA 88
Query: 394 --SVRNKGWAAVAIHGNKSQQERDRVLNEFRIGRASILVSQYNKSQQER 440
N+ W + K+ +R L E AS + + K +Q R
Sbjct: 89 GMPYVNQRWLGGMLTNFKTISQRVHRLEELEALFASPEIEERPKKEQVR 137
>pdb|1PNS|B Chain B, Crystal Structure Of A Streptomycin Dependent Ribosome
From E. Coli, 30s Subunit Of 70s Ribosome. This File,
1pns, Contains The 30s Subunit, Two Trnas, And One Mrna
Molecule. The 50s Ribosomal Subunit Is In File 1pnu.
pdb|1PNX|B Chain B, Crystal Structure Of The Wild Type Ribosome From E. Coli,
30s Subunit Of 70s Ribosome. This File, 1pnx, Contains
Only Molecules Of The 30s Ribosomal Subunit. The 50s
Subunit Is In The Pdb File 1pny.
pdb|1VOQ|B Chain B, Crystal Structure Of Five 70s Ribosomes From Escherichia
Coli In Complex With Protein Y. This File Contains The
30s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Five 70s Ribosomes And Is Described
In Remark 400.
pdb|1VOS|B Chain B, Crystal Structure Of Five 70s Ribosomes From Escherichia
Coli In Complex With Protein Y. This File Contains The
30s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Five 70s Ribosomes And Is Described
In Remark 400.
pdb|1VOV|B Chain B, Crystal Structure Of Five 70s Ribosomes From Escherichia
Coli In Complex With Protein Y. This File Contains The
30s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Five 70s Ribosomes And Is Described
In Remark 400.
pdb|1VOX|B Chain B, Crystal Structure Of Five 70s Ribosomes From Escherichia
Coli In Complex With Protein Y. This File Contains The
30s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Five 70s Ribosomes And Is Described
In Remark 400.
pdb|1VOZ|B Chain B, Crystal Structure Of Five 70s Ribosomes From Escherichia
Coli In Complex With Protein Y. This File Contains The
30s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Five 70s Ribosomes And Is Described
In Remark 400.
pdb|3MR8|B Chain B, Recognition Of The Amber Stop Codon By Release Factor Rf1.
This Entry 3mr8 Contains 30s Ribosomal Subunit. The 50s
Ribosomal Subunit Can Be Found In Pdb Entry 3ms1.
Molecule B In The Same Asymmetric Unit Is Deposited As
3mrz (50s) And 3ms0 (30s).
pdb|3MS0|B Chain B, Recognition Of The Amber Stop Codon By Release Factor Rf1.
This Entry 3ms0 Contains 30s Ribosomal Subunit. The 50s
Ribosomal Subunit Can Be Found In Pdb Entry 3mrz.
Molecule A In The Same Asymmetric Unit Is Deposited As
3mr8 (30s) And 3ms1 (50s).
pdb|3PYN|B Chain B, Crystal Structure Of A Complex Containing Domain 3 From
The Psiv Igr Ires Rna Bound To The 70s Ribosome. This
File Contains The 30s Subunit Of The First 70s Ribosome.
pdb|3PYQ|B Chain B, Crystal Structure Of A Complex Containing Domain 3 From
The Psiv Igr Ires Rna Bound To The 70s Ribosome. This
File Contains The 30s Subunit Of The Second 70s
Ribosome.
pdb|3PYS|B Chain B, Crystal Structure Of A Complex Containing Domain 3 Of Crpv
Igr Ires Rna Bound To The 70s Ribosome. This File
Contains The 30s Subunit Of The First 70s Ribosome.
pdb|3PYU|B Chain B, Crystal Structure Of A Complex Containing Domain 3 Of Crpv
Igr Ires Rna Bound To The 70s Ribosome. This File
Contains The 30s Subunit Of The Second 70s Ribosome
Length = 234
Score = 29.3 bits (64), Expect = 9.2, Method: Compositional matrix adjust.
Identities = 29/109 (26%), Positives = 47/109 (43%), Gaps = 16/109 (14%)
Query: 343 ANHNIVQIVDV---CQEHEKDYKLQGLLSQIGSERTSKTIIFVETKRKADDITR------ 393
A N + I+D+ +E E+ ++ L+ G TI+FV TK++A DI R
Sbjct: 28 AERNGIHIIDLQKTMEELERTFRFIEDLAMRGG-----TILFVGTKKQAQDIVRMEAERA 82
Query: 394 --SVRNKGWAAVAIHGNKSQQERDRVLNEFRIGRASILVSQYNKSQQER 440
N+ W + K+ +R L E AS + + K +Q R
Sbjct: 83 GMPYVNQRWLGGMLTNFKTISQRVHRLEELEALFASPEIEERPKKEQVR 131
>pdb|1I94|B Chain B, Crystal Structures Of The Small Ribosomal Subunit With
Tetracycline, Edeine And If3
pdb|1I95|B Chain B, Crystal Structure Of The 30s Ribosomal Subunit From
Thermus Thermophilus In Complex With Edeine
pdb|1I96|B Chain B, Crystal Structure Of The 30s Ribosomal Subunit From
Thermus Thermophilus In Complex With The Translation
Initiation Factor If3 (C-Terminal Domain)
pdb|1I97|B Chain B, Crystal Structure Of The 30s Ribosomal Subunit From
Thermus Thermophilus In Complex With Tetracycline
pdb|2ZM6|B Chain B, Crystal Structure Of The Thermus Thermophilus 30s
Ribosomal Subunit
Length = 255
Score = 29.3 bits (64), Expect = 9.3, Method: Compositional matrix adjust.
Identities = 29/109 (26%), Positives = 47/109 (43%), Gaps = 16/109 (14%)
Query: 343 ANHNIVQIVDV---CQEHEKDYKLQGLLSQIGSERTSKTIIFVETKRKADDITR------ 393
A N + I+D+ +E E+ ++ L+ G TI+FV TK++A DI R
Sbjct: 33 AERNGIHIIDLQKTMEELERTFRFIEDLAMRGG-----TILFVGTKKQAQDIVRMEAERA 87
Query: 394 --SVRNKGWAAVAIHGNKSQQERDRVLNEFRIGRASILVSQYNKSQQER 440
N+ W + K+ +R L E AS + + K +Q R
Sbjct: 88 GMPYVNQRWLGGMLTNFKTISQRVHRLEELEALFASPEIEERPKKEQVR 136
>pdb|2E5L|B Chain B, A Snapshot Of The 30s Ribosomal Subunit Capturing Mrna Via
The Shine- Dalgarno Interaction
Length = 227
Score = 29.3 bits (64), Expect = 9.7, Method: Compositional matrix adjust.
Identities = 29/109 (26%), Positives = 47/109 (43%), Gaps = 16/109 (14%)
Query: 343 ANHNIVQIVDV---CQEHEKDYKLQGLLSQIGSERTSKTIIFVETKRKADDITR------ 393
A N + I+D+ +E E+ ++ L+ G TI+FV TK++A DI R
Sbjct: 33 AERNGIHIIDLQKTMEELERTFRFIEDLAMRGG-----TILFVGTKKQAQDIVRMEAERA 87
Query: 394 --SVRNKGWAAVAIHGNKSQQERDRVLNEFRIGRASILVSQYNKSQQER 440
N+ W + K+ +R L E AS + + K +Q R
Sbjct: 88 GMPYVNQRWLGGMLTNFKTISQRVHRLEELEALFASPEIEERPKKEQVR 136
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 0.134 0.392
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 20,340,863
Number of Sequences: 62578
Number of extensions: 803934
Number of successful extensions: 2461
Number of sequences better than 100.0: 100
Number of HSP's better than 100.0 without gapping: 72
Number of HSP's successfully gapped in prelim test: 28
Number of HSP's that attempted gapping in prelim test: 1991
Number of HSP's gapped (non-prelim): 311
length of query: 779
length of database: 14,973,337
effective HSP length: 106
effective length of query: 673
effective length of database: 8,340,069
effective search space: 5612866437
effective search space used: 5612866437
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: 55 (25.8 bits)