RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy10680
(537 letters)
>3fe2_A Probable ATP-dependent RNA helicase DDX5; DEAD, ADP, ATP-binding,
hydrolase, nucleotide- RNA-binding, methylation, mRNA
processing, mRNA S nucleus; HET: ADP; 2.60A {Homo
sapiens}
Length = 242
Score = 294 bits (755), Expect = 2e-97
Identities = 105/196 (53%), Positives = 123/196 (62%), Gaps = 35/196 (17%)
Query: 39 KNSGYGKPTSIQAQSWPICLSGRDLIGIAQTGSGKTLSLTIENTQVARGSQCGRSNTSKE 98
+ +PT+IQAQ WP+ LSG D++G+AQTGSGKTLS
Sbjct: 45 ARQNFTEPTAIQAQGWPVALSGLDMVGVAQTGSGKTLS---------------------- 82
Query: 99 ESSWWNNNVVDVKYILPALYHILKMPKLEEGDGPIALVLAPTRELAQQIQAVISIFSRTM 158
Y+LPA+ HI P LE GDGPI LVLAPTRELAQQ+Q V + + R
Sbjct: 83 -------------YLLPAIVHINHQPFLERGDGPICLVLAPTRELAQQVQQVAAEYCRAC 129
Query: 159 RIRHACLYGGTSKMYQTRDLCRGAEIVVATPGRLIDFLESGTTNVNRITYLVLDEADRML 218
R++ C+YGG K Q RDL RG EI +ATPGRLIDFLE G TN+ R TYLVLDEADRML
Sbjct: 130 RLKSTCIYGGAPKGPQIRDLERGVEICIATPGRLIDFLECGKTNLRRTTYLVLDEADRML 189
Query: 219 DMGFEPQIRKIIQMTR 234
DMGFEPQIRKI+ R
Sbjct: 190 DMGFEPQIRKIVDQIR 205
>2db3_A ATP-dependent RNA helicase VASA; DEAD-BOX, protein-RNA complex,
ATPase, riken structural genomics/proteomics initiative,
RSGI; HET: ANP; 2.20A {Drosophila melanogaster}
Length = 434
Score = 292 bits (749), Expect = 6e-94
Identities = 71/198 (35%), Positives = 98/198 (49%), Gaps = 35/198 (17%)
Query: 39 KNSGYGKPTSIQAQSWPICLSGRDLIGIAQTGSGKTLSLTIENTQVARGSQCGRSNTSKE 98
SGY PT IQ S P+ SGRDL+ AQTGSGKT +
Sbjct: 72 NKSGYKIPTPIQKCSIPVISSGRDLMACAQTGSGKTAA---------------------- 109
Query: 99 ESSWWNNNVVDVKYILPALYHILKMPKLEEGDGPIALVLAPTRELAQQIQAVISIFSRTM 158
++LP L +L+ P E P ++++PTRELA QI F+
Sbjct: 110 -------------FLLPILSKLLEDPHELELGRPQVVIVSPTRELAIQIFNEARKFAFES 156
Query: 159 RIRHACLYGGTSKMYQTRDLCRGAEIVVATPGRLIDFLESGTTNVNRITYLVLDEADRML 218
++ +YGGTS +Q + RG +V+ATPGRL+DF++ ++VLDEADRML
Sbjct: 157 YLKIGIVYGGTSFRHQNECITRGCHVVIATPGRLLDFVDRTFITFEDTRFVVLDEADRML 216
Query: 219 DMGFEPQIRKIIQMTRTR 236
DMGF +R+I+ R
Sbjct: 217 DMGFSEDMRRIMTHVTMR 234
Score = 178 bits (455), Expect = 1e-50
Identities = 52/107 (48%), Positives = 71/107 (66%), Gaps = 1/107 (0%)
Query: 401 YRAMGIHGDKSQWNRDQTLRDFRSGYINVLIASDVASRGLDVEDIKYVVNYDFPDNTENY 460
+ IHGD+ Q R+Q LRDF++G + VLIA+ VASRGLD+++IK+V+NYD P ++Y
Sbjct: 325 FPTTSIHGDRLQSQREQALRDFKNGSMKVLIATSVASRGLDIKNIKHVINYDMPSKIDDY 384
Query: 461 VHRIGRTARSTKTGISYTLFTPL-NGNKAQDLIDILNEAHQFVPDRL 506
VHRIGRT R G + + F P + A DL+ IL + Q VPD L
Sbjct: 385 VHRIGRTGRVGNNGRATSFFDPEKDRAIAADLVKILEGSGQTVPDFL 431
Score = 38.7 bits (91), Expect = 0.004
Identities = 14/25 (56%), Positives = 18/25 (72%)
Query: 13 EARLPYFRSGYINVLIASDVASRGL 37
E L F++G + VLIA+ VASRGL
Sbjct: 340 EQALRDFKNGSMKVLIATSVASRGL 364
>3iuy_A Probable ATP-dependent RNA helicase DDX53; REC-A-like, DEAD-BOX,
structural genomics, structural genomi consortium, SGC,
ATP-binding, hydrolase; HET: AMP; 2.40A {Homo sapiens}
Length = 228
Score = 280 bits (718), Expect = 3e-92
Identities = 81/197 (41%), Positives = 109/197 (55%), Gaps = 37/197 (18%)
Query: 39 KNSGYGKPTSIQAQSWPICLSGRDLIGIAQTGSGKTLSLTIENTQVARGSQCGRSNTSKE 98
G KPT IQ+Q+WPI L G DLI +AQTG+GKTLS
Sbjct: 36 IRVGILKPTPIQSQAWPIILQGIDLIVVAQTGTGKTLS---------------------- 73
Query: 99 ESSWWNNNVVDVKYILPALYHILKMPK-LEEGDGPIALVLAPTRELAQQIQAVISIFSRT 157
Y++P H+ P E+ +GP LVL PTRELA ++A S +S
Sbjct: 74 -------------YLMPGFIHLDSQPISREQRNGPGMLVLTPTRELALHVEAECSKYSYK 120
Query: 158 MRIRHACLYGGTSKMYQTRDLCRGAEIVVATPGRLIDFLESGTTNVNRITYLVLDEADRM 217
++ C+YGG ++ Q D+ +G +I++ATPGRL D + + N+ ITYLV+DEAD+M
Sbjct: 121 -GLKSICIYGGRNRNGQIEDISKGVDIIIATPGRLNDLQMNNSVNLRSITYLVIDEADKM 179
Query: 218 LDMGFEPQIRKIIQMTR 234
LDM FEPQIRKI+ R
Sbjct: 180 LDMEFEPQIRKILLDVR 196
>2i4i_A ATP-dependent RNA helicase DDX3X; DEAD, structural genomics, SGC,
structural GE consortium, hydrolase; HET: AMP; 2.20A
{Homo sapiens}
Length = 417
Score = 277 bits (710), Expect = 3e-88
Identities = 80/206 (38%), Positives = 101/206 (49%), Gaps = 48/206 (23%)
Query: 39 KNSGYGKPTSIQAQSWPICLSGRDLIGIAQTGSGKTLSLTIENTQVARGSQCGRSNTSKE 98
+ + Y +PT +Q + PI RDL+ AQTGSGKT +
Sbjct: 31 ELTRYTRPTPVQKHAIPIIKEKRDLMACAQTGSGKTAA---------------------- 68
Query: 99 ESSWWNNNVVDVKYILPALYHILKMPKLE-------------EGDGPIALVLAPTRELAQ 145
++LP L I E PI+LVLAPTRELA
Sbjct: 69 -------------FLLPILSQIYSDGPGEALRAMKENGRYGRRKQYPISLVLAPTRELAV 115
Query: 146 QIQAVISIFSRTMRIRHACLYGGTSKMYQTRDLCRGAEIVVATPGRLIDFLESGTTNVNR 205
QI FS R+R +YGG Q RDL RG ++VATPGRL+D +E G ++
Sbjct: 116 QIYEEARKFSYRSRVRPCVVYGGADIGQQIRDLERGCHLLVATPGRLVDMMERGKIGLDF 175
Query: 206 ITYLVLDEADRMLDMGFEPQIRKIIQ 231
YLVLDEADRMLDMGFEPQIR+I++
Sbjct: 176 CKYLVLDEADRMLDMGFEPQIRRIVE 201
Score = 186 bits (474), Expect = 1e-53
Identities = 51/115 (44%), Positives = 75/115 (65%)
Query: 401 YRAMGIHGDKSQWNRDQTLRDFRSGYINVLIASDVASRGLDVEDIKYVVNYDFPDNTENY 460
Y IHGD+SQ +R++ L FRSG +L+A+ VA+RGLD+ ++K+V+N+D P + E Y
Sbjct: 301 YACTSIHGDRSQRDREEALHQFRSGKSPILVATAVAARGLDISNVKHVINFDLPSDIEEY 360
Query: 461 VHRIGRTARSTKTGISYTLFTPLNGNKAQDLIDILNEAHQFVPDRLLLLAAKNKP 515
VHRIGRT R G++ + F N N +DL+D+L EA Q VP L +A ++
Sbjct: 361 VHRIGRTGRVGNLGLATSFFNERNINITKDLLDLLVEAKQEVPSWLENMAYEHHY 415
Score = 38.7 bits (91), Expect = 0.004
Identities = 13/25 (52%), Positives = 17/25 (68%)
Query: 13 EARLPYFRSGYINVLIASDVASRGL 37
E L FRSG +L+A+ VA+RGL
Sbjct: 316 EEALHQFRSGKSPILVATAVAARGL 340
>1wrb_A DJVLGB; RNA helicase, DEAD BOX, VASA, structural genomics, NPPSFA,
N project on protein structural and functional analyses;
2.40A {Dugesia japonica} SCOP: c.37.1.19
Length = 253
Score = 270 bits (693), Expect = 5e-88
Identities = 72/200 (36%), Positives = 101/200 (50%), Gaps = 39/200 (19%)
Query: 39 KNSGYGKPTSIQAQSWPICLSGRDLIGIAQTGSGKTLSLTIENTQVARGSQCGRSNTSKE 98
+ Y +PT IQ + P L RD++ AQTGSGKT +
Sbjct: 39 LLASYQRPTPIQKNAIPAILEHRDIMACAQTGSGKTAA---------------------- 76
Query: 99 ESSWWNNNVVDVKYILPALYHILK----MPKLEEGDGPIALVLAPTRELAQQIQAVISIF 154
+++P + H++ + + P L+LAPTRELA QI + F
Sbjct: 77 -------------FLIPIINHLVCQDLNQQRYSKTAYPKCLILAPTRELAIQILSESQKF 123
Query: 155 SRTMRIRHACLYGGTSKMYQTRDLCRGAEIVVATPGRLIDFLESGTTNVNRITYLVLDEA 214
S +R +YGG Q R++ G ++VATPGRL+DF+E ++ Y+VLDEA
Sbjct: 124 SLNTPLRSCVVYGGADTHSQIREVQMGCHLLVATPGRLVDFIEKNKISLEFCKYIVLDEA 183
Query: 215 DRMLDMGFEPQIRKIIQMTR 234
DRMLDMGFEPQIRKII+ +
Sbjct: 184 DRMLDMGFEPQIRKIIEESN 203
Score = 127 bits (321), Expect = 1e-33
Identities = 34/60 (56%), Positives = 45/60 (75%)
Query: 235 TRDLCRGAEIVVATPGRLIDFLESGTTNVNRITYLVLDEADRMLDMGFEPQIRKIIQMTR 294
R++ G ++VATPGRL+DF+E ++ Y+VLDEADRMLDMGFEPQIRKII+ +
Sbjct: 144 IREVQMGCHLLVATPGRLVDFIEKNKISLEFCKYIVLDEADRMLDMGFEPQIRKIIEESN 203
Score = 86.8 bits (216), Expect = 2e-19
Identities = 24/42 (57%), Positives = 31/42 (73%)
Query: 314 LHFLESGTTNVNRITYLVLDEADRMLDMGFEPQIRKIIQMTR 355
+ F+E ++ Y+VLDEADRMLDMGFEPQIRKII+ +
Sbjct: 162 VDFIEKNKISLEFCKYIVLDEADRMLDMGFEPQIRKIIEESN 203
>2z0m_A 337AA long hypothetical ATP-dependent RNA helicase DEAD;
ATP-binding, hydrolase, nucleotide-binding, RNA binding
protein, structural genomics; 1.90A {Sulfolobus
tokodaii}
Length = 337
Score = 262 bits (672), Expect = 1e-83
Identities = 103/459 (22%), Positives = 167/459 (36%), Gaps = 161/459 (35%)
Query: 39 KNSGYGKPTSIQAQSWPICLSGRDLIGIAQTGSGKTLSLTIENTQVARGSQCGRSNTSKE 98
+ G+ T +Q+++ P+ L G++++ A+TGSGKT + I
Sbjct: 10 REMGFKNFTEVQSKTIPLMLQGKNVVVRAKTGSGKTAAYAI------------------- 50
Query: 99 ESSWWNNNVVDVKYILPALYHILKMPKLEEGDGPIALVLAPTRELAQQIQAVISIFSRTM 158
P LE G +LV+ PTREL +Q+ + I R M
Sbjct: 51 -------------------------PILELG--MKSLVVTPTRELTRQVASHIRDIGRYM 83
Query: 159 RIRHACLYGGTSKMYQTRDLCRGAEIVVATPGRLIDFLESGTTNVNRITYLVLDEADRML 218
+ A +YGG
Sbjct: 84 DTKVAEVYGGMP------------------------------------------------ 95
Query: 219 DMGFEPQIRKIIQMTRTRDLCRGAEIVVATPGRLIDFLESGTTNVNRITYLVLDEADRML 278
++ QI ++ R A+IVVATPGRL+D G +++ +++DEAD M
Sbjct: 96 ---YKAQINRV----------RNADIVVATPGRLLDLWSKGVIDLSSFEIVIIDEADLMF 142
Query: 279 DMGFEPQIRKIIQMTRHAHPVVPVSLF-------ISERRDTILH-----FLESGTTNVNR 326
+MGF I+ I+ T + LF I + + G NV
Sbjct: 143 EMGFIDDIKIILAQTSNRKITG---LFSATIPEEIRKVVKDFITNYEEIEACIGLANVEH 199
Query: 327 ITYLVLDEADRMLDMGFEPQIRKIIQMTRFNTCVFLGYVLYFWFILVAGIERWVFMEINH 386
V D+ + + ++ + + VF
Sbjct: 200 KFVHVKDDWRSKV---------QALRENKDKGVI-------------------VF----- 226
Query: 387 NGTETKHYGV---SSSLYRAMGIHGDKSQWNRDQTLRDFRSGYINVLIASDVASRGLDVE 443
T++ V A+ + GD Q R++ + FR G ++LI +DVASRGLD+
Sbjct: 227 --VRTRN-RVAKLVRLFDNAIELRGDLPQSVRNRNIDAFREGEYDMLITTDVASRGLDIP 283
Query: 444 DIKYVVNYDFPDNTENYVHRIGRTARSTKTGISYTLFTP 482
++ V+N+D P + Y+HRIGRT R + G + T
Sbjct: 284 LVEKVINFDAPQDLRTYIHRIGRTGRMGRKGEAITFILN 322
Score = 36.3 bits (85), Expect = 0.018
Identities = 12/19 (63%), Positives = 15/19 (78%)
Query: 19 FRSGYINVLIASDVASRGL 37
FR G ++LI +DVASRGL
Sbjct: 262 FREGEYDMLITTDVASRGL 280
>3i5x_A ATP-dependent RNA helicase MSS116; protein-RNA complex, RNA
helicase, DEAD-BOX, ATP-binding, HE hydrolase,
mitochondrion; HET: ANP; 1.90A {Saccharomyces
cerevisiae} PDB: 3i5y_A* 3i61_A* 3i62_A* 3sqx_A*
Length = 563
Score = 255 bits (653), Expect = 2e-78
Identities = 93/480 (19%), Positives = 157/480 (32%), Gaps = 155/480 (32%)
Query: 39 KNSGYGKPTSIQAQSWPICLSG--RDLIGIAQTGSGKTLSLTIENTQVARGSQCGRSNTS 96
+ T +Q ++ LS D+I A+TG+GKT +
Sbjct: 88 TRMEFPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFA-------------------- 127
Query: 97 KEESSWWNNNVVDVKYILPALYHILKMPKLEEGDGPIALVLAPTRELAQQIQAVISIFSR 156
+++P H++ K + A+++APTR+LA QI+A +
Sbjct: 128 ---------------FLIPIFQHLINT-KFDSQYMVKAVIVAPTRDLALQIEAEVKKIHD 171
Query: 157 ----TMRIRHACLYGGTSKMYQTRDLCRGAEIVVATPGRLIDFLESGTTNVNRITYLVLD 212
+ L GGT
Sbjct: 172 MNYGLKKYACVSLVGGTD------------------------------------------ 189
Query: 213 EADRMLDMGFEPQIRKIIQMTRTRDLCRGAEIVVATPGRLIDFLESGTTNVNR-ITYLVL 271
F + K+ ++ IV+ATPGRLID LE + R + Y VL
Sbjct: 190 ---------FRAAMNKMNKL--------RPNIVIATPGRLIDVLEKYSNKFFRFVDYKVL 232
Query: 272 DEADRMLDMGFEPQIRKIIQMT---RHAHPVVPVSLFIS-----ERRD------------ 311
DEADR+L++GF + I + +L S + +
Sbjct: 233 DEADRLLEIGFRDDLETISGILNEKNSKSADNIKTLLFSATLDDKVQKLANNIMNKKECL 292
Query: 312 TILHFLESGTTNVNRIT--YLVLDEADRMLDMGFEPQIRKIIQMTR-------FNTCVFL 362
+ ++ RI ++ ++ + E ++I + T F
Sbjct: 293 FLDTVDKNEPEAHERIDQSVVISEKFANSIFAAVEHIKKQIKERDSNYKAIIFAPTVKF- 351
Query: 363 GYVLYFWFILVAGIERWVFMEINHNGTETKHYGVSSSLYRAMGIHGDKSQWNRDQTLRDF 422
+ IL ++ + HG +Q R ++ F
Sbjct: 352 --TSFLCSILKNEFKK----------------D-----LPILEFHGKITQNKRTSLVKRF 388
Query: 423 RSGYINVLIASDVASRGLDVEDIKYVVNYDFPDNTENYVHRIGRTARSTKTGISYTLFTP 482
+ +L+ +DV +RG+D ++ V+ P NY+HRIGRTARS K G S
Sbjct: 389 KKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEGSSVLFICK 448
Score = 36.3 bits (84), Expect = 0.027
Identities = 6/19 (31%), Positives = 12/19 (63%)
Query: 19 FRSGYINVLIASDVASRGL 37
F+ +L+ +DV +RG+
Sbjct: 388 FKKDESGILVCTDVGARGM 406
>3sqw_A ATP-dependent RNA helicase MSS116, mitochondrial; RECA fold, RNA
dependent ATPase, RNA helicase; HET: ANP; 1.91A
{Saccharomyces cerevisiae S288C}
Length = 579
Score = 254 bits (651), Expect = 8e-78
Identities = 92/480 (19%), Positives = 157/480 (32%), Gaps = 155/480 (32%)
Query: 39 KNSGYGKPTSIQAQSWPICLSG--RDLIGIAQTGSGKTLSLTIENTQVARGSQCGRSNTS 96
+ T +Q ++ LS D+I A+TG+GKT +
Sbjct: 37 TRMEFPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFA-------------------- 76
Query: 97 KEESSWWNNNVVDVKYILPALYHILKMPKLEEGDGPIALVLAPTRELAQQIQAVISIFSR 156
+++P H++ K + A+++APTR+LA QI+A +
Sbjct: 77 ---------------FLIPIFQHLINT-KFDSQYMVKAVIVAPTRDLALQIEAEVKKIHD 120
Query: 157 ----TMRIRHACLYGGTSKMYQTRDLCRGAEIVVATPGRLIDFLESGTTNVNRITYLVLD 212
+ L GGT
Sbjct: 121 MNYGLKKYACVSLVGGTD------------------------------------------ 138
Query: 213 EADRMLDMGFEPQIRKIIQMTRTRDLCRGAEIVVATPGRLIDFLESGTTNV-NRITYLVL 271
F + K+ ++ IV+ATPGRLID LE + + Y VL
Sbjct: 139 ---------FRAAMNKMNKL--------RPNIVIATPGRLIDVLEKYSNKFFRFVDYKVL 181
Query: 272 DEADRMLDMGFEPQIRKIIQMTRHAHPVVPVS----LF----------ISER------RD 311
DEADR+L++GF + I + + + LF ++
Sbjct: 182 DEADRLLEIGFRDDLETISGILNEKNSKSADNIKTLLFSATLDDKVQKLANNIMNKKECL 241
Query: 312 TILHFLESGTTNVNRIT--YLVLDEADRMLDMGFEPQIRKIIQMTR-------FNTCVFL 362
+ ++ RI ++ ++ + E ++I + T F
Sbjct: 242 FLDTVDKNEPEAHERIDQSVVISEKFANSIFAAVEHIKKQIKERDSNYKAIIFAPTVKF- 300
Query: 363 GYVLYFWFILVAGIERWVFMEINHNGTETKHYGVSSSLYRAMGIHGDKSQWNRDQTLRDF 422
+ IL ++ + HG +Q R ++ F
Sbjct: 301 --TSFLCSILKNEFKK----------------D-----LPILEFHGKITQNKRTSLVKRF 337
Query: 423 RSGYINVLIASDVASRGLDVEDIKYVVNYDFPDNTENYVHRIGRTARSTKTGISYTLFTP 482
+ +L+ +DV +RG+D ++ V+ P NY+HRIGRTARS K G S
Sbjct: 338 KKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEGSSVLFICK 397
Score = 35.9 bits (83), Expect = 0.035
Identities = 6/19 (31%), Positives = 12/19 (63%)
Query: 19 FRSGYINVLIASDVASRGL 37
F+ +L+ +DV +RG+
Sbjct: 337 FKKDESGILVCTDVGARGM 355
>3dkp_A Probable ATP-dependent RNA helicase DDX52; DEAD, ADP, structural
genomics, structural GEN consortium, SGC, rRNA,
ATP-binding, hydrolase; HET: ADP; 2.10A {Homo sapiens}
Length = 245
Score = 239 bits (611), Expect = 7e-76
Identities = 51/202 (25%), Positives = 84/202 (41%), Gaps = 45/202 (22%)
Query: 39 KNSGYGKPTSIQAQSWPICLSGRDLIGIAQTGSGKTLSLTIENTQVARGSQCGRSNTSKE 98
++G+ PT IQ Q+ P+ L GR+L+ A TGSGKTL+
Sbjct: 45 LDAGFQMPTPIQMQAIPVMLHGRELLASAPTGSGKTLA---------------------- 82
Query: 99 ESSWWNNNVVDVKYILPALYHILKMPKLEEGDGPIALVLAPTRELAQQIQAVISIFSRTM 158
+ +P L + + G AL+++PTRELA QI + S
Sbjct: 83 -------------FSIPILMQLKQPA----NKGFRALIISPTRELASQIHRELIKISEGT 125
Query: 159 RIRHACLYGGTSKMYQ-TRDLCRGAEIVVATPGRLIDFLESGTTNVN--RITYLVLDEAD 215
R ++ + + +I+V TP RLI L+ ++ + +LV+DE+D
Sbjct: 126 GFRIHMIHKAAVAAKKFGPKSSKKFDILVTTPNRLIYLLKQDPPGIDLASVEWLVVDESD 185
Query: 216 RMLD---MGFEPQIRKIIQMTR 234
++ + GF Q+ I
Sbjct: 186 KLFEDGKTGFRDQLASIFLACT 207
Score = 109 bits (276), Expect = 2e-27
Identities = 17/66 (25%), Positives = 31/66 (46%), Gaps = 5/66 (7%)
Query: 235 TRDLCRGAEIVVATPGRLIDFLESGTTNVN--RITYLVLDEADRMLD---MGFEPQIRKI 289
+ +I+V TP RLI L+ ++ + +LV+DE+D++ + GF Q+ I
Sbjct: 143 GPKSSKKFDILVTTPNRLIYLLKQDPPGIDLASVEWLVVDESDKLFEDGKTGFRDQLASI 202
Query: 290 IQMTRH 295
Sbjct: 203 FLACTS 208
>3oiy_A Reverse gyrase helicase domain; topoisomerase, DNA supercoiling,
archaea, isomeras; 2.35A {Thermotoga maritima} PDB:
3p4y_A 3p4x_A*
Length = 414
Score = 236 bits (603), Expect = 1e-72
Identities = 67/510 (13%), Positives = 150/510 (29%), Gaps = 129/510 (25%)
Query: 39 KNSGYGKPTSIQAQSWPICLSGRDLIGIAQTGSGKTLSLTIENTQVARGSQCGRSNTSKE 98
K T Q + G+ +A TG GKT
Sbjct: 15 KKKFGKDLTGYQRLWAKRIVQGKSFTMVAPTGVGKTTF---------------------- 52
Query: 99 ESSWWNNNVVDVKYILPALYHILKMPKLEEGDGPIALVLAPTRELAQQIQAVISIFSRTM 158
++ AL+ K G + ++ PT L +Q + +
Sbjct: 53 -------------GMMTALWLARK--------GKKSALVFPTVTLVKQTLERLQKLADE- 90
Query: 159 RIRHACLYGGTSKMYQTRDLCR----GAEIVVATPGRLIDFLESGTTNVNRITYLVLDEA 214
+++ Y K + + I+V + + + R ++ +D+
Sbjct: 91 KVKIFGFYSSMKKEEKEKFEKSFEEDDYHILVFSTQFVSK--NREKLSQKRFDFVFVDDV 148
Query: 215 DRMLDMGFEPQIRKIIQMTRTRDLCRGAEIVVATPGRLIDFLESGTTNVNRITYLVLDEA 274
D +L ++ P +I S
Sbjct: 149 DAVLKASRNIDTLLMMV---------------GIPEEIIRKAFSTI-------------- 179
Query: 275 DRMLDMGFEPQIRKIIQMTRHAHPVVPVSLFISERRDTILHFLESGTTNVNRITYLVLDE 334
+ +I + + + +V S R L F + V R+ + +
Sbjct: 180 -------KQGKIYERPKNLKPG-ILVVSSATAKPRGIRPLLFRDLLNFTVGRLVSVARNI 231
Query: 335 ADRMLDMGFEPQIRKIIQMTRFNTCVFLGYVLYFWFILVAGIERWVFMEINHNGTETKHY 394
+ + ++ +++++ R +F +T+
Sbjct: 232 THVRISSRSKEKLVELLEIFRDGILIF---------------------------AQTEEE 264
Query: 395 G--VSSSLYRAMGIHGDKSQWNRDQTLRDFRSGYINVLIASDV----ASRGLDV-EDIKY 447
G + L + + ++ ++ DF+ G IN+LI +RG+D+ E IKY
Sbjct: 265 GKELYEYL-KRFKFNVGETWSEFEKNFEDFKVGKINILIGVQAYYGKLTRGVDLPERIKY 323
Query: 448 VVNYDFPDNTEN--YVHRIGRTARSTKTGIS--YTLFTPLNGNKAQDLID-ILNEAHQFV 502
V+ + P + Y+ GR++R + ++ + + L +L A + +
Sbjct: 324 VIFWGTPSGPDVYTYIQASGRSSRILNGVLVKGVSVIFEEDEEIFESLKTRLLLIAEEEI 383
Query: 503 PDRLLLLAAK--NKPITTRQWKREYWRRKS 530
+ + ++ +R+ S
Sbjct: 384 IEEAEANWKELVHEVEESRRRSERELTDTS 413
Score = 32.4 bits (74), Expect = 0.35
Identities = 8/23 (34%), Positives = 12/23 (52%), Gaps = 4/23 (17%)
Query: 19 FRSGYINVLIASDV----ASRGL 37
F+ G IN+LI +RG+
Sbjct: 293 FKVGKINILIGVQAYYGKLTRGV 315
>3ber_A Probable ATP-dependent RNA helicase DDX47; DEAD, AMP, structural
genomics, structural GEN consortium, SGC, ATP-binding,
hydrolase; HET: AMP PGE; 1.40A {Homo sapiens}
Length = 249
Score = 195 bits (498), Expect = 4e-59
Identities = 69/195 (35%), Positives = 101/195 (51%), Gaps = 41/195 (21%)
Query: 39 KNSGYGKPTSIQAQSWPICLSGRDLIGIAQTGSGKTLSLTIENTQVARGSQCGRSNTSKE 98
G+ KPT IQ ++ P+ L GRD+IG+A+TGSGKT +
Sbjct: 59 DQLGWTKPTKIQIEAIPLALQGRDIIGLAETGSGKTGA---------------------- 96
Query: 99 ESSWWNNNVVDVKYILPALYHILKMPKLEEGDGPIALVLAPTRELAQQIQAVISIFSRTM 158
+ LP L +L+ P+ ALVL PTRELA QI ++
Sbjct: 97 -------------FALPILNALLETPQ-----RLFALVLTPTRELAFQISEQFEALGSSI 138
Query: 159 RIRHACLYGGTSKMYQTRDLCRGAEIVVATPGRLIDFLESGTT-NVNRITYLVLDEADRM 217
++ A + GG M Q+ L + I++ATPGRLID LE+ N+ + YLV+DEADR+
Sbjct: 139 GVQSAVIVGGIDSMSQSLALAKKPHIIIATPGRLIDHLENTKGFNLRALKYLVMDEADRI 198
Query: 218 LDMGFEPQIRKIIQM 232
L+M FE ++ KI+++
Sbjct: 199 LNMDFETEVDKILKV 213
>2jgn_A DBX, DDX3, ATP-dependent RNA helicase DDX3X; phosphorylation,
nucleotide-binding, hydrolase, RNA-binding, ATP-binding,
DNA-binding, nuclear protein; 1.91A {Homo sapiens}
Length = 185
Score = 184 bits (470), Expect = 6e-56
Identities = 51/113 (45%), Positives = 75/113 (66%)
Query: 401 YRAMGIHGDKSQWNRDQTLRDFRSGYINVLIASDVASRGLDVEDIKYVVNYDFPDNTENY 460
Y IHGD+SQ +R++ L FRSG +L+A+ VA+RGLD+ ++K+V+N+D P + E Y
Sbjct: 71 YACTSIHGDRSQRDREEALHQFRSGKSPILVATAVAARGLDISNVKHVINFDLPSDIEEY 130
Query: 461 VHRIGRTARSTKTGISYTLFTPLNGNKAQDLIDILNEAHQFVPDRLLLLAAKN 513
VHRIGRT R G++ + F N N +DL+D+L EA Q VP L +A ++
Sbjct: 131 VHRIGRTGRVGNLGLATSFFNERNINITKDLLDLLVEAKQEVPSWLENMAYEH 183
Score = 39.1 bits (92), Expect = 0.001
Identities = 13/25 (52%), Positives = 17/25 (68%)
Query: 13 EARLPYFRSGYINVLIASDVASRGL 37
E L FRSG +L+A+ VA+RGL
Sbjct: 86 EEALHQFRSGKSPILVATAVAARGL 110
>2pl3_A Probable ATP-dependent RNA helicase DDX10; DEAD, structural
genomics, structural genomic consortium, SGC, hydrolase;
HET: ADP; 2.15A {Homo sapiens}
Length = 236
Score = 183 bits (467), Expect = 7e-55
Identities = 54/195 (27%), Positives = 87/195 (44%), Gaps = 38/195 (19%)
Query: 39 KNSGYGKPTSIQAQSWPICLSGRDLIGIAQTGSGKTLSLTIENTQVARGSQCGRSNTSKE 98
+ + Y T IQ Q+ + L G+D++G A+TGSGKTL+
Sbjct: 41 QEAQYRLVTEIQKQTIGLALQGKDVLGAAKTGSGKTLA---------------------- 78
Query: 99 ESSWWNNNVVDVKYILPALYHILKMPKLEEGDGPIALVLAPTRELAQQIQAVISIFSRTM 158
+++P L L + DG L+++PTRELA Q V+ +
Sbjct: 79 -------------FLVPVL-EALYRLQWTSTDGLGVLIISPTRELAYQTFEVLRKVGKNH 124
Query: 159 RIRHACLYGGTSKMYQTRDLCRGAEIVVATPGRLIDFLESGTT-NVNRITYLVLDEADRM 217
+ GG ++ + I+V TPGRL+ ++ + + + LVLDEADR+
Sbjct: 125 DFSAGLIIGGKDLKHEAERI-NNINILVCTPGRLLQHMDETVSFHATDLQMLVLDEADRI 183
Query: 218 LDMGFEPQIRKIIQM 232
LDMGF + +I+
Sbjct: 184 LDMGFADTMNAVIEN 198
Score = 62.3 bits (152), Expect = 4e-11
Identities = 16/39 (41%), Positives = 24/39 (61%)
Query: 315 HFLESGTTNVNRITYLVLDEADRMLDMGFEPQIRKIIQM 353
H E+ + + + LVLDEADR+LDMGF + +I+
Sbjct: 160 HMDETVSFHATDLQMLVLDEADRILDMGFADTMNAVIEN 198
>3ly5_A ATP-dependent RNA helicase DDX18; alpha-beta, structural genomics,
structural genomics consort ATP-binding, hydrolase,
nucleotide-binding, RNA-B; 2.80A {Homo sapiens}
Length = 262
Score = 184 bits (468), Expect = 1e-54
Identities = 59/195 (30%), Positives = 97/195 (49%), Gaps = 37/195 (18%)
Query: 39 KNSGYGKPTSIQAQSWPICLSGRDLIGIAQTGSGKTLSLTIENTQVARGSQCGRSNTSKE 98
K G+ T IQ +S L GRDL+ A+TGSGKTL+
Sbjct: 70 KEMGFTNMTEIQHKSIRPLLEGRDLLAAAKTGSGKTLA---------------------- 107
Query: 99 ESSWWNNNVVDVKYILPALYHILKMPKLEEGDGPIALVLAPTRELAQQIQAVISIFSRTM 158
+++PA+ ++ + +G L+L+PTRELA Q V+
Sbjct: 108 -------------FLIPAV-ELIVKLRFMPRNGTGVLILSPTRELAMQTFGVLKELMTHH 153
Query: 159 RIRHACLYGGTSKMYQTRDLCRGAEIVVATPGRLIDFLE-SGTTNVNRITYLVLDEADRM 217
+ + GG+++ + + L G I+VATPGRL+D ++ + + LV+DEADR+
Sbjct: 154 VHTYGLIMGGSNRSAEAQKLGNGINIIVATPGRLLDHMQNTPGFMYKNLQCLVIDEADRI 213
Query: 218 LDMGFEPQIRKIIQM 232
LD+GFE ++++II++
Sbjct: 214 LDVGFEEELKQIIKL 228
Score = 87.0 bits (216), Expect = 2e-19
Identities = 25/56 (44%), Positives = 40/56 (71%), Gaps = 1/56 (1%)
Query: 238 LCRGAEIVVATPGRLIDFLE-SGTTNVNRITYLVLDEADRMLDMGFEPQIRKIIQM 292
L G I+VATPGRL+D ++ + + LV+DEADR+LD+GFE ++++II++
Sbjct: 173 LGNGINIIVATPGRLLDHMQNTPGFMYKNLQCLVIDEADRILDVGFEEELKQIIKL 228
Score = 61.2 bits (149), Expect = 1e-10
Identities = 15/39 (38%), Positives = 26/39 (66%)
Query: 315 HFLESGTTNVNRITYLVLDEADRMLDMGFEPQIRKIIQM 353
H + + LV+DEADR+LD+GFE ++++II++
Sbjct: 190 HMQNTPGFMYKNLQCLVIDEADRILDVGFEEELKQIIKL 228
>3fho_A ATP-dependent RNA helicase DBP5; mRNA export, ATPase, translation
termination, binding, hydrolase, membrane, mRNA
transport; 2.80A {Schizosaccharomyces pombe}
Length = 508
Score = 190 bits (486), Expect = 2e-54
Identities = 62/279 (22%), Positives = 106/279 (37%), Gaps = 59/279 (21%)
Query: 230 IQMTRTRDLCRGAEIVVATPGRLIDFLESGTTNVNRITYLVLDEADRMLDM-GFEPQIRK 288
I+ + + A+IV+ TPG ++D ++ + I VLDEAD MLD G Q +
Sbjct: 224 IKDSVPKGAKIDAQIVIGTPGTVMDLMKRRQLDARDIKVFVLDEADNMLDQQGLGDQSMR 283
Query: 289 IIQMTRHAHPVVPVS-------LFISER--RDTILHFLESGTTNVNRIT--YLVLDEADR 337
I + +V S +ER + L++ +V I Y+ +
Sbjct: 284 IKHLLPRNTQIVLFSATFSERVEKYAERFAPNANEIRLKTEELSVEGIKQLYMDCQSEEH 343
Query: 338 MLDMGFEPQIRKIIQMTRFNTCVFLGYVLYFWFILVAGIERWVFMEINHNGTETKHYGVS 397
++ + ++ + + +F + K
Sbjct: 344 KYNV-----LVELYGLLTIGQSI-------------------IF-------CKKKD-TA- 370
Query: 398 SSLYRAM--------GIHGDKSQWNRDQTLRDFRSGYINVLIASDVASRGLDVEDIKYVV 449
+ R M + G+ RD + FR G VL+ ++V +RG+DV + VV
Sbjct: 371 EEIARRMTADGHTVACLTGNLEGAQRDAIMDSFRVGTSKVLVTTNVIARGIDVSQVNLVV 430
Query: 450 NYDFPDN------TENYVHRIGRTARSTKTGISYTLFTP 482
NYD P + + Y+HRIGRT R + G+S
Sbjct: 431 NYDMPLDQAGRPDPQTYLHRIGRTGRFGRVGVSINFVHD 469
Score = 155 bits (393), Expect = 2e-41
Identities = 48/191 (25%), Positives = 80/191 (41%), Gaps = 53/191 (27%)
Query: 49 IQAQSWPICLSG--RDLIGIAQTGSGKTLSLTIENTQVARGSQCGRSNTSKEESSWWNNN 106
IQ ++ P+ LS R++IG +Q+G+GKT +
Sbjct: 145 IQEKALPLLLSNPPRNMIGQSQSGTGKTAA------------------------------ 174
Query: 107 VVDVKYILPALYHI---LKMPKLEEGDGPIALVLAPTRELAQQIQAVISIFSRTMRIRHA 163
+ L L + + P+ A+ LAP+RELA+QI V++ + ++
Sbjct: 175 -----FALTMLSRVDASVPKPQ--------AICLAPSRELARQIMDVVTEMGKYTEVK-- 219
Query: 164 CLYGGTSKMYQTRDLCRGAEIVVATPGRLIDFLESGTTNVNRITYLVLDEADRMLDM-GF 222
+G + A+IV+ TPG ++D ++ + I VLDEAD MLD G
Sbjct: 220 TAFGIKDS--VPKGAKIDAQIVIGTPGTVMDLMKRRQLDARDIKVFVLDEADNMLDQQGL 277
Query: 223 EPQIRKIIQMT 233
Q +I +
Sbjct: 278 GDQSMRIKHLL 288
Score = 39.8 bits (94), Expect = 0.002
Identities = 8/19 (42%), Positives = 13/19 (68%)
Query: 19 FRSGYINVLIASDVASRGL 37
FR G VL+ ++V +RG+
Sbjct: 403 FRVGTSKVLVTTNVIARGI 421
>2p6n_A ATP-dependent RNA helicase DDX41; DEAD, structural genomics,
structural genomic consortium, SGC, hydrolase; 2.60A
{Homo sapiens}
Length = 191
Score = 177 bits (452), Expect = 3e-53
Identities = 51/112 (45%), Positives = 67/112 (59%), Gaps = 1/112 (0%)
Query: 401 YRAMGIHGDKSQWNRDQTLRDFRSGYINVLIASDVASRGLDVEDIKYVVNYDFPDNTENY 460
A+ IHG K Q R + + FR G +VL+A+DVAS+GLD I++V+NYD P+ ENY
Sbjct: 79 VEAVAIHGGKDQEERTKAIEAFREGKKDVLVATDVASKGLDFPAIQHVINYDMPEEIENY 138
Query: 461 VHRIGRTARSTKTGISYTLFTP-LNGNKAQDLIDILNEAHQFVPDRLLLLAA 511
VHRIGRT S TGI+ T + + DL +L EA Q VP L +L
Sbjct: 139 VHRIGRTGCSGNTGIATTFINKACDESVLMDLKALLLEAKQKVPPVLQVLHC 190
Score = 39.9 bits (94), Expect = 7e-04
Identities = 12/25 (48%), Positives = 17/25 (68%)
Query: 13 EARLPYFRSGYINVLIASDVASRGL 37
+ FR G +VL+A+DVAS+GL
Sbjct: 94 TKAIEAFREGKKDVLVATDVASKGL 118
>2gxq_A Heat resistant RNA dependent ATPase; RNA helicase, atomic
resolution, AMP complex, ribosome biogenesis,
thermophilic, hydrolase; HET: AMP; 1.20A {Thermus
thermophilus HB27} PDB: 2gxs_A* 2gxu_A 3mwj_A 3mwk_A*
3mwl_A* 3nbf_A* 3nej_A
Length = 207
Score = 178 bits (453), Expect = 4e-53
Identities = 70/195 (35%), Positives = 97/195 (49%), Gaps = 39/195 (20%)
Query: 39 KNSGYGKPTSIQAQSWPICLSGRDLIGIAQTGSGKTLSLTIENTQVARGSQCGRSNTSKE 98
G PT IQA + P+ L G+DLIG A+TG+GKTL+
Sbjct: 17 HGRGLTTPTPIQAAALPLALEGKDLIGQARTGTGKTLAFA-------------------- 56
Query: 99 ESSWWNNNVVDVKYILPALYHILKMPKLEEGDGPIALVLAPTRELAQQIQAVISIFSRTM 158
LP + P E G P ALVL PTRELA Q+ + ++ + +
Sbjct: 57 ---------------LPIAERL--APSQERGRKPRALVLTPTRELALQVASELTAVAPHL 99
Query: 159 RIRHACLYGGTSKMYQTRDLCRGAEIVVATPGRLIDFLESGTTNVNRITYLVLDEADRML 218
++ +YGGT Q L RGA+ VVATPGR +D+L G +++R+ VLDEAD ML
Sbjct: 100 KV--VAVYGGTGYGKQKEALLRGADAVVATPGRALDYLRQGVLDLSRVEVAVLDEADEML 157
Query: 219 DMGFEPQIRKIIQMT 233
MGFE ++ ++ T
Sbjct: 158 SMGFEEEVEALLSAT 172
>1q0u_A Bstdead; DEAD protein, RNA binding protein; 1.85A {Geobacillus
stearothermophilus} SCOP: c.37.1.19
Length = 219
Score = 173 bits (442), Expect = 2e-51
Identities = 61/199 (30%), Positives = 82/199 (41%), Gaps = 44/199 (22%)
Query: 39 KNSGYGKPTSIQAQSWPICLSGRDLIGIAQTGSGKTLSLTIENTQVARGSQCGRSNTSKE 98
K + KPT IQ + P L G ++G +QTG+GKT +
Sbjct: 20 KTLRFYKPTEIQERIIPGALRGESMVGQSQTGTGKTHA---------------------- 57
Query: 99 ESSWWNNNVVDVKYILPALYHILKMPKLEEGDGPIALVLAPTRELAQQIQAVISIFSRTM 158
Y+LP + I E A++ APTRELA QI ++
Sbjct: 58 -------------YLLPIMEKIK-----PERAEVQAVITAPTRELATQIYHETLKITKFC 99
Query: 159 ----RIRHACLYGGTSKMYQTRDLCRGAEIVVATPGRLIDFLESGTTNVNRITYLVLDEA 214
I CL GGT K L IV+ TPGR+ DF+ +V+ LV+DEA
Sbjct: 100 PKDRMIVARCLIGGTDKQKALEKLNVQPHIVIGTPGRINDFIREQALDVHTAHILVVDEA 159
Query: 215 DRMLDMGFEPQIRKIIQMT 233
D MLDMGF + +I
Sbjct: 160 DLMLDMGFITDVDQIAARM 178
>1vec_A ATP-dependent RNA helicase P54; DEAD-box protein, RNA binding
protein; HET: TLA; 2.01A {Homo sapiens} SCOP: c.37.1.19
Length = 206
Score = 166 bits (424), Expect = 7e-49
Identities = 55/193 (28%), Positives = 87/193 (45%), Gaps = 41/193 (21%)
Query: 42 GYGKPTSIQAQSWPICLSGRDLIGIAQTGSGKTLSLTIENTQVARGSQCGRSNTSKEESS 101
G+ KP+ IQ +S PI LSGRD++ A+ G+GK+ +
Sbjct: 22 GWEKPSPIQEESIPIALSGRDILARAKNGTGKSGA------------------------- 56
Query: 102 WWNNNVVDVKYILPALYHILKMPKLEEGDGPIALVLAPTRELAQQIQAVISIFSRTMR-I 160
Y++P L + + D A+V+ PTRELA Q+ + S+ M
Sbjct: 57 ----------YLIPLLERLD-----LKKDNIQAMVIVPTRELALQVSQICIQVSKHMGGA 101
Query: 161 RHACLYGGTSKMYQTRDLCRGAEIVVATPGRLIDFLESGTTNVNRITYLVLDEADRMLDM 220
+ GGT+ L +V+ATPGR++D ++ G V+ + +VLDEAD++L
Sbjct: 102 KVMATTGGTNLRDDIMRLDDTVHVVIATPGRILDLIKKGVAKVDHVQMIVLDEADKLLSQ 161
Query: 221 GFEPQIRKIIQMT 233
F + II
Sbjct: 162 DFVQIMEDIILTL 174
>1qde_A EIF4A, translation initiation factor 4A; DEAD box protein family,
gene regulation; 2.00A {Saccharomyces cerevisiae} SCOP:
c.37.1.19 PDB: 1qva_A
Length = 224
Score = 165 bits (419), Expect = 6e-48
Identities = 61/192 (31%), Positives = 91/192 (47%), Gaps = 41/192 (21%)
Query: 42 GYGKPTSIQAQSWPICLSGRDLIGIAQTGSGKTLSLTIENTQVARGSQCGRSNTSKEESS 101
G+ +P++IQ ++ + G D++ AQ+G+GKT + +I
Sbjct: 33 GFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSI---------------------- 70
Query: 102 WWNNNVVDVKYILPALYHILKMPKLEEGDGPIALVLAPTRELAQQIQAVISIFSRTMRIR 161
AL I ++ P AL+LAPTRELA QIQ V+ + M I+
Sbjct: 71 -------------AALQRI--DTSVKA---PQALMLAPTRELALQIQKVVMALAFHMDIK 112
Query: 162 HACLYGGTSKMYQTRDLCRGAEIVVATPGRLIDFLESGTTNVNRITYLVLDEADRMLDMG 221
GGTS + L R A+IVV TPGR+ D ++ ++I +LDEAD ML G
Sbjct: 113 VHACIGGTSFVEDAEGL-RDAQIVVGTPGRVFDNIQRRRFRTDKIKMFILDEADEMLSSG 171
Query: 222 FEPQIRKIIQMT 233
F+ QI +I +
Sbjct: 172 FKEQIYQIFTLL 183
>1s2m_A Putative ATP-dependent RNA helicase DHH1; ATP-binding, RNA-binding,
RNA binding protein; 2.10A {Saccharomyces cerevisiae}
SCOP: c.37.1.19 c.37.1.19 PDB: 2wax_A* 2way_A
Length = 400
Score = 170 bits (432), Expect = 9e-48
Identities = 49/193 (25%), Positives = 84/193 (43%), Gaps = 42/193 (21%)
Query: 42 GYGKPTSIQAQSWPICLSGRDLIGIAQTGSGKTLSLTIENTQVARGSQCGRSNTSKEESS 101
G+ KP+ IQ ++ P+ ++GRD++ A+ G+GKT +
Sbjct: 40 GFEKPSPIQEEAIPVAITGRDILARAKNGTGKTAA------------------------- 74
Query: 102 WWNNNVVDVKYILPALYHILKMPKLEEGDGPI-ALVLAPTRELAQQIQAVISIFSRTMRI 160
+++P L K++ I AL++ PTRELA Q V+ + I
Sbjct: 75 ----------FVIPTL------EKVKPKLNKIQALIMVPTRELALQTSQVVRTLGKHCGI 118
Query: 161 RHACLYGGTSKMYQTRDLCRGAEIVVATPGRLIDFLESGTTNVNRITYLVLDEADRMLDM 220
GGT+ L I+V TPGR++D +++ + ++DEAD+ML
Sbjct: 119 SCMVTTGGTNLRDDILRLNETVHILVGTPGRVLDLASRKVADLSDCSLFIMDEADKMLSR 178
Query: 221 GFEPQIRKIIQMT 233
F+ I +I+
Sbjct: 179 DFKTIIEQILSFL 191
Score = 130 bits (330), Expect = 1e-33
Identities = 28/82 (34%), Positives = 45/82 (54%)
Query: 401 YRAMGIHGDKSQWNRDQTLRDFRSGYINVLIASDVASRGLDVEDIKYVVNYDFPDNTENY 460
Y H Q R++ +FR G + L+ SD+ +RG+D++ + V+N+DFP E Y
Sbjct: 283 YSCYYSHARMKQQERNKVFHEFRQGKVRTLVCSDLLTRGIDIQAVNVVINFDFPKTAETY 342
Query: 461 VHRIGRTARSTKTGISYTLFTP 482
+HRIGR+ R G++ L
Sbjct: 343 LHRIGRSGRFGHLGLAINLINW 364
Score = 36.4 bits (85), Expect = 0.021
Identities = 8/19 (42%), Positives = 13/19 (68%)
Query: 19 FRSGYINVLIASDVASRGL 37
FR G + L+ SD+ +RG+
Sbjct: 304 FRQGKVRTLVCSDLLTRGI 322
>3bor_A Human initiation factor 4A-II; translation initiation, DEAD BOX,
structural genomics, helic binding, HOST-virus
interaction, hydrolase; 1.85A {Homo sapiens} PDB:
2g9n_A*
Length = 237
Score = 163 bits (416), Expect = 3e-47
Identities = 66/200 (33%), Positives = 87/200 (43%), Gaps = 42/200 (21%)
Query: 35 RGLGKNSGYGKPTSIQAQSWPICLSGRDLIGIAQTGSGKTLSLTIENTQVARGSQCGRSN 94
RG+ G+ KP++IQ ++ C+ G D+I AQ+G+GKT + I
Sbjct: 43 RGI-YAYGFEKPSAIQQRAIIPCIKGYDVIAQAQSGTGKTATFAI--------------- 86
Query: 95 TSKEESSWWNNNVVDVKYILPALYHILKMPKLEEGDGPIALVLAPTRELAQQIQAVISIF 154
L + + +E ALVLAPTRELAQQIQ VI
Sbjct: 87 --------------------SILQQL--EIEFKE---TQALVLAPTRELAQQIQKVILAL 121
Query: 155 SRTMRIRHACLYGGTSKMYQTRDL-CRGAEIVVATPGRLIDFLESGTTNVNRITYLVLDE 213
M GGT+ + + L IVV TPGR+ D L + I VLDE
Sbjct: 122 GDYMGATCHACIGGTNVRNEMQKLQAEAPHIVVGTPGRVFDMLNRRYLSPKWIKMFVLDE 181
Query: 214 ADRMLDMGFEPQIRKIIQMT 233
AD ML GF+ QI +I Q
Sbjct: 182 ADEMLSRGFKDQIYEIFQKL 201
>2j0s_A ATP-dependent RNA helicase DDX48; mRNA processing, phosphorylation,
rRNA processing, mRNA splicing, mRNA transport; HET:
ANP; 2.21A {Homo sapiens} SCOP: c.37.1.19 c.37.1.19 PDB:
2j0q_A* 2hyi_C* 3ex7_C* 2xb2_A* 2hxy_A 2j0u_A 2j0u_B
2zu6_A
Length = 410
Score = 168 bits (428), Expect = 3e-47
Identities = 56/192 (29%), Positives = 83/192 (43%), Gaps = 40/192 (20%)
Query: 42 GYGKPTSIQAQSWPICLSGRDLIGIAQTGSGKTLSLTIENTQVARGSQCGRSNTSKEESS 101
G+ KP++IQ ++ + GRD+I +Q+G+GKT + +I
Sbjct: 56 GFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSI---------------------- 93
Query: 102 WWNNNVVDVKYILPALYHILKMPKLEEGDGPIALVLAPTRELAQQIQAVISIFSRTMRIR 161
L + + AL+LAPTRELA QIQ + M ++
Sbjct: 94 -------------SVLQCLD-----IQVRETQALILAPTRELAVQIQKGLLALGDYMNVQ 135
Query: 162 HACLYGGTSKMYQTRDLCRGAEIVVATPGRLIDFLESGTTNVNRITYLVLDEADRMLDMG 221
GGT+ R L G +V TPGR+ D + + I LVLDEAD ML+ G
Sbjct: 136 CHACIGGTNVGEDIRKLDYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKG 195
Query: 222 FEPQIRKIIQMT 233
F+ QI + +
Sbjct: 196 FKEQIYDVYRYL 207
Score = 131 bits (333), Expect = 6e-34
Identities = 33/82 (40%), Positives = 51/82 (62%)
Query: 401 YRAMGIHGDKSQWNRDQTLRDFRSGYINVLIASDVASRGLDVEDIKYVVNYDFPDNTENY 460
+ +HGD Q R+ +++FRSG VLI++DV +RGLDV + ++NYD P+N E Y
Sbjct: 301 FTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLPNNRELY 360
Query: 461 VHRIGRTARSTKTGISYTLFTP 482
+HRIGR+ R + G++
Sbjct: 361 IHRIGRSGRYGRKGVAINFVKN 382
Score = 58.7 bits (143), Expect = 2e-09
Identities = 14/42 (33%), Positives = 21/42 (50%)
Query: 313 ILHFLESGTTNVNRITYLVLDEADRMLDMGFEPQIRKIIQMT 354
+ + + I LVLDEAD ML+ GF+ QI + +
Sbjct: 166 VFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYL 207
Score = 37.5 bits (88), Expect = 0.008
Identities = 12/19 (63%), Positives = 15/19 (78%)
Query: 19 FRSGYINVLIASDVASRGL 37
FRSG VLI++DV +RGL
Sbjct: 322 FRSGASRVLISTDVWARGL 340
>1fuu_A Yeast initiation factor 4A; IF4A, helicase, DEAD-box protein,
translation; 2.50A {Saccharomyces cerevisiae} SCOP:
c.37.1.19 PDB: 2vso_A* 2vsx_A*
Length = 394
Score = 166 bits (422), Expect = 2e-46
Identities = 61/192 (31%), Positives = 89/192 (46%), Gaps = 41/192 (21%)
Query: 42 GYGKPTSIQAQSWPICLSGRDLIGIAQTGSGKTLSLTIENTQVARGSQCGRSNTSKEESS 101
G+ +P++IQ ++ + G D++ AQ+G+GKT + +I
Sbjct: 40 GFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSI---------------------- 77
Query: 102 WWNNNVVDVKYILPALYHILKMPKLEEGDGPIALVLAPTRELAQQIQAVISIFSRTMRIR 161
AL I P AL+LAPTRELA QIQ V+ + M I+
Sbjct: 78 -------------AALQRID-----TSVKAPQALMLAPTRELALQIQKVVMALAFHMDIK 119
Query: 162 HACLYGGTSKMYQTRDLCRGAEIVVATPGRLIDFLESGTTNVNRITYLVLDEADRMLDMG 221
GGTS + L R A+IVV TPGR+ D ++ ++I +LDEAD ML G
Sbjct: 120 VHACIGGTSFVEDAEGL-RDAQIVVGTPGRVFDNIQRRRFRTDKIKMFILDEADEMLSSG 178
Query: 222 FEPQIRKIIQMT 233
F+ QI +I +
Sbjct: 179 FKEQIYQIFTLL 190
Score = 131 bits (332), Expect = 6e-34
Identities = 33/82 (40%), Positives = 51/82 (62%)
Query: 401 YRAMGIHGDKSQWNRDQTLRDFRSGYINVLIASDVASRGLDVEDIKYVVNYDFPDNTENY 460
+ I+ D Q RD +++FRSG +LI++D+ +RG+DV+ + V+NYD P N ENY
Sbjct: 284 FTVSAIYSDLPQQERDTIMKEFRSGSSRILISTDLLARGIDVQQVSLVINYDLPANKENY 343
Query: 461 VHRIGRTARSTKTGISYTLFTP 482
+HRIGR R + G++ T
Sbjct: 344 IHRIGRGGRFGRKGVAINFVTN 365
Score = 37.5 bits (88), Expect = 0.010
Identities = 9/19 (47%), Positives = 15/19 (78%)
Query: 19 FRSGYINVLIASDVASRGL 37
FRSG +LI++D+ +RG+
Sbjct: 305 FRSGSSRILISTDLLARGI 323
>1hv8_A Putative ATP-dependent RNA helicase MJ0669; RNA-binding protein,
ATPase, RNA binding protein; 3.00A {Methanocaldococcus
jannaschii} SCOP: c.37.1.19 c.37.1.19
Length = 367
Score = 163 bits (416), Expect = 7e-46
Identities = 61/196 (31%), Positives = 93/196 (47%), Gaps = 43/196 (21%)
Query: 39 KNSGYGKPTSIQAQSWPICLSGR-DLIGIAQTGSGKTLSLTIENTQVARGSQCGRSNTSK 97
+N G+ KPT IQ + P+ L+ +++ A+TGSGKT S
Sbjct: 22 RNKGFEKPTDIQMKVIPLFLNDEYNIVAQARTGSGKTAS--------------------- 60
Query: 98 EESSWWNNNVVDVKYILPALYHILKMPKLEEGDGPIALVLAPTRELAQQIQAVISIFSRT 157
+ +P + + E +G A++L PTRELA Q+ I
Sbjct: 61 --------------FAIPLI------ELVNENNGIEAIILTPTRELAIQVADEIESLKGN 100
Query: 158 MRIRHACLYGGTSKMYQTRDLCRGAEIVVATPGRLIDFLESGTTNVNRITYLVLDEADRM 217
++ A +YGG + Q + L + A IVV TPGR++D + GT N+ + Y +LDEAD M
Sbjct: 101 KNLKIAKIYGGKAIYPQIKAL-KNANIVVGTPGRILDHINRGTLNLKNVKYFILDEADEM 159
Query: 218 LDMGFEPQIRKIIQMT 233
L+MGF + KI+
Sbjct: 160 LNMGFIKDVEKILNAC 175
Score = 136 bits (344), Expect = 1e-35
Identities = 38/82 (46%), Positives = 55/82 (67%)
Query: 401 YRAMGIHGDKSQWNRDQTLRDFRSGYINVLIASDVASRGLDVEDIKYVVNYDFPDNTENY 460
++A IHGD SQ R++ +R F+ I +LIA+DV SRG+DV D+ V+NY P N E+Y
Sbjct: 263 FKAGAIHGDLSQSQREKVIRLFKQKKIRILIATDVMSRGIDVNDLNCVINYHLPQNPESY 322
Query: 461 VHRIGRTARSTKTGISYTLFTP 482
+HRIGRT R+ K G + ++
Sbjct: 323 MHRIGRTGRAGKKGKAISIINR 344
Score = 36.7 bits (86), Expect = 0.017
Identities = 10/19 (52%), Positives = 14/19 (73%)
Query: 19 FRSGYINVLIASDVASRGL 37
F+ I +LIA+DV SRG+
Sbjct: 284 FKQKKIRILIATDVMSRGI 302
>3eiq_A Eukaryotic initiation factor 4A-I; PDCD4, anti-oncogene, apoptosis,
cell cycle, nucleus, phosph RNA-binding, ATP-binding,
helicase, hydrolase; 3.50A {Homo sapiens}
Length = 414
Score = 165 bits (419), Expect = 7e-46
Identities = 62/193 (32%), Positives = 81/193 (41%), Gaps = 41/193 (21%)
Query: 42 GYGKPTSIQAQSWPICLSGRDLIGIAQTGSGKTLSLTIENTQVARGSQCGRSNTSKEESS 101
G+ KP++IQ ++ C+ G D+I AQ+G+GKT + I
Sbjct: 59 GFEKPSAIQQRAILPCIKGYDVIAQAQSGTGKTATFAI---------------------- 96
Query: 102 WWNNNVVDVKYILPALYHILKMPKLEEGDGPIALVLAPTRELAQQIQAVISIFSRTMRIR 161
L I + ALVLAPTRELAQQIQ V+ M
Sbjct: 97 -------------SILQQIE-----LDLKATQALVLAPTRELAQQIQKVVMALGDYMGAS 138
Query: 162 HACLYGGTSKMYQTRDL-CRGAEIVVATPGRLIDFLESGTTNVNRITYLVLDEADRMLDM 220
GGT+ + + L I+V TPGR+ D L + I VLDEAD ML
Sbjct: 139 CHACIGGTNVRAEVQKLQMEAPHIIVGTPGRVFDMLNRRYLSPKYIKMFVLDEADEMLSR 198
Query: 221 GFEPQIRKIIQMT 233
GF+ QI I Q
Sbjct: 199 GFKDQIYDIFQKL 211
Score = 131 bits (332), Expect = 9e-34
Identities = 36/82 (43%), Positives = 52/82 (63%)
Query: 401 YRAMGIHGDKSQWNRDQTLRDFRSGYINVLIASDVASRGLDVEDIKYVVNYDFPDNTENY 460
+ +HGD Q RD +R+FRSG VLI +D+ +RG+DV+ + V+NYD P N ENY
Sbjct: 305 FTVSAMHGDMDQKERDVIMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPTNRENY 364
Query: 461 VHRIGRTARSTKTGISYTLFTP 482
+HRIGR R + G++ + T
Sbjct: 365 IHRIGRGGRFGRKGVAINMVTE 386
Score = 57.6 bits (140), Expect = 4e-09
Identities = 16/42 (38%), Positives = 19/42 (45%)
Query: 313 ILHFLESGTTNVNRITYLVLDEADRMLDMGFEPQIRKIIQMT 354
+ L + I VLDEAD ML GF+ QI I Q
Sbjct: 170 VFDMLNRRYLSPKYIKMFVLDEADEMLSRGFKDQIYDIFQKL 211
Score = 37.5 bits (88), Expect = 0.008
Identities = 10/19 (52%), Positives = 14/19 (73%)
Query: 19 FRSGYINVLIASDVASRGL 37
FRSG VLI +D+ +RG+
Sbjct: 326 FRSGSSRVLITTDLLARGI 344
>2oxc_A Probable ATP-dependent RNA helicase DDX20; DEAD, structural
genomics, structural genomics consortium, SGC,
hydrolase; HET: ADP; 1.30A {Homo sapiens} PDB: 3b7g_A*
Length = 230
Score = 154 bits (391), Expect = 8e-44
Identities = 51/194 (26%), Positives = 79/194 (40%), Gaps = 43/194 (22%)
Query: 42 GYGKPTSIQAQSWPICLSGRDLIGIAQTGSGKTLSLTIENTQVARGSQCGRSNTSKEESS 101
G+ +P+ +Q ++ P+ G DLI A++G+GKT
Sbjct: 43 GFERPSPVQLKAIPLGRCGLDLIVQAKSGTGKTCV------------------------- 77
Query: 102 WWNNNVVDVKYILPALYHILKMPKLEEGDGPIALVLAPTRELAQQIQAVISIFSRTMR-I 160
+ AL + + + L+LAPTRE+A QI +VI+ M +
Sbjct: 78 ----------FSTIALDSL--VLENLS---TQILILAPTREIAVQIHSVITAIGIKMEGL 122
Query: 161 RHACLYGGTSKMYQTRDLCRGAEIVVATPGRLIDFLESGTTNVNRITYLVLDEADRMLDM 220
GGT L + I V +PGR+ +E N I +LDEAD++L+
Sbjct: 123 ECHVFIGGTPLSQDKTRL-KKCHIAVGSPGRIKQLIELDYLNPGSIRLFILDEADKLLEE 181
Query: 221 G-FEPQIRKIIQMT 233
G F+ QI I
Sbjct: 182 GSFQEQINWIYSSL 195
Score = 51.1 bits (123), Expect = 2e-07
Identities = 15/43 (34%), Positives = 21/43 (48%), Gaps = 1/43 (2%)
Query: 313 ILHFLESGTTNVNRITYLVLDEADRMLDMG-FEPQIRKIIQMT 354
I +E N I +LDEAD++L+ G F+ QI I
Sbjct: 153 IKQLIELDYLNPGSIRLFILDEADKLLEEGSFQEQINWIYSSL 195
>1t6n_A Probable ATP-dependent RNA helicase; RECA-like fold, PRE-mRNA
processing protein; HET: FLC; 1.94A {Homo sapiens} SCOP:
c.37.1.19
Length = 220
Score = 150 bits (382), Expect = 1e-42
Identities = 51/196 (26%), Positives = 84/196 (42%), Gaps = 45/196 (22%)
Query: 42 GYGKPTSIQAQSWPICLSGRDLIGIAQTGSGKTLSLTIENTQVARGSQCGRSNTSKEESS 101
G+ P+ +Q + P + G D++ A++G GKT
Sbjct: 33 GFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAV------------------------- 67
Query: 102 WWNNNVVDVKYILPALYHILKMPKLEEGDGPI-ALVLAPTRELAQQIQAVISIFSRTMR- 159
++L L +LE G + LV+ TRELA QI FS+ M
Sbjct: 68 ----------FVLATL------QQLEPVTGQVSVLVMCHTRELAFQISKEYERFSKYMPN 111
Query: 160 IRHACLYGGTSKMYQTRDLCRGAE-IVVATPGRLIDFLESGTTNVNRITYLVLDEADRML 218
++ A +GG S L + IVV TPGR++ + + N+ I + +LDE D+ML
Sbjct: 112 VKVAVFFGGLSIKKDEEVLKKNCPHIVVGTPGRILALARNKSLNLKHIKHFILDECDKML 171
Query: 219 D-MGFEPQIRKIIQMT 233
+ + +++I +MT
Sbjct: 172 EQLDMRRDVQEIFRMT 187
Score = 48.8 bits (117), Expect = 1e-06
Identities = 13/43 (30%), Positives = 25/43 (58%), Gaps = 1/43 (2%)
Query: 313 ILHFLESGTTNVNRITYLVLDEADRMLD-MGFEPQIRKIIQMT 354
IL + + N+ I + +LDE D+ML+ + +++I +MT
Sbjct: 145 ILALARNKSLNLKHIKHFILDECDKMLEQLDMRRDVQEIFRMT 187
>1xti_A Probable ATP-dependent RNA helicase P47; alpha-beta fold, gene
regulation; 1.95A {Homo sapiens} SCOP: c.37.1.19
c.37.1.19 PDB: 1xtj_A* 1xtk_A
Length = 391
Score = 146 bits (372), Expect = 2e-39
Identities = 51/196 (26%), Positives = 84/196 (42%), Gaps = 45/196 (22%)
Query: 42 GYGKPTSIQAQSWPICLSGRDLIGIAQTGSGKTLSLTIENTQVARGSQCGRSNTSKEESS 101
G+ P+ +Q + P + G D++ A++G GKT
Sbjct: 27 GFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAV------------------------- 61
Query: 102 WWNNNVVDVKYILPALYHILKMPKLEEGDGPI-ALVLAPTRELAQQIQAVISIFSRTMR- 159
++L L +LE G + LV+ TRELA QI FS+ M
Sbjct: 62 ----------FVLATL------QQLEPVTGQVSVLVMCHTRELAFQISKEYERFSKYMPN 105
Query: 160 IRHACLYGGTSKMYQTRDLCRGAE-IVVATPGRLIDFLESGTTNVNRITYLVLDEADRML 218
++ A +GG S L + IVV TPGR++ + + N+ I + +LDE D+ML
Sbjct: 106 VKVAVFFGGLSIKKDEEVLKKNCPHIVVGTPGRILALARNKSLNLKHIKHFILDECDKML 165
Query: 219 D-MGFEPQIRKIIQMT 233
+ + +++I +MT
Sbjct: 166 EQLDMRRDVQEIFRMT 181
Score = 125 bits (315), Expect = 1e-31
Identities = 23/82 (28%), Positives = 44/82 (53%)
Query: 401 YRAMGIHGDKSQWNRDQTLRDFRSGYINVLIASDVASRGLDVEDIKYVVNYDFPDNTENY 460
+ A+ IH Q R + F+ +L+A+++ RG+D+E + NYD P++++ Y
Sbjct: 275 FPAIAIHRGMPQEERLSRYQQFKDFQRRILVATNLFGRGMDIERVNIAFNYDMPEDSDTY 334
Query: 461 VHRIGRTARSTKTGISYTLFTP 482
+HR+ R R G++ T +
Sbjct: 335 LHRVARAGRFGTKGLAITFVSD 356
Score = 49.5 bits (119), Expect = 2e-06
Identities = 13/43 (30%), Positives = 25/43 (58%), Gaps = 1/43 (2%)
Query: 313 ILHFLESGTTNVNRITYLVLDEADRMLD-MGFEPQIRKIIQMT 354
IL + + N+ I + +LDE D+ML+ + +++I +MT
Sbjct: 139 ILALARNKSLNLKHIKHFILDECDKMLEQLDMRRDVQEIFRMT 181
Score = 35.3 bits (82), Expect = 0.051
Identities = 5/19 (26%), Positives = 12/19 (63%)
Query: 19 FRSGYINVLIASDVASRGL 37
F+ +L+A+++ RG+
Sbjct: 296 FKDFQRRILVATNLFGRGM 314
>3pey_A ATP-dependent RNA helicase DBP5; RECA, DEAD-BOX, ATPase, helicase,
mRNA-export, nuclear pore, hydrolase-RNA complex; HET:
ADP; 1.40A {Saccharomyces cerevisiae} PDB: 3pew_A*
3pex_A* 3pez_A* 3rrm_A* 3rrn_A* 2kbe_A 3gfp_A 2kbf_A
3pev_A* 3peu_A*
Length = 395
Score = 146 bits (371), Expect = 3e-39
Identities = 46/196 (23%), Positives = 79/196 (40%), Gaps = 49/196 (25%)
Query: 42 GYGKPTSIQAQSWPICLSG--RDLIGIAQTGSGKTLSLTIENTQVARGSQCGRSNTSKEE 99
+ KP+ IQ ++ P+ L R++I +Q+G+GKT +
Sbjct: 24 KFQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAA----------------------- 60
Query: 100 SSWWNNNVVDVKYILPALYHILKMPKLEEGDGPIALVLAPTRELAQQIQAVISIFSRTMR 159
+ L L + E P A+ LAP+RELA+Q V+ + +
Sbjct: 61 ------------FSLTMLTRVN-----PEDASPQAICLAPSRELARQTLEVVQEMGKFTK 103
Query: 160 IR-HACLYGGTSKMYQTRDLCRGAEIVVATPGRLIDFLESGTTNVNRITYLVLDEADRML 218
I + ++ A+++V TPG ++D + + +I VLDEAD ML
Sbjct: 104 ITSQLIVPDS-----FEKNKQINAQVIVGTPGTVLDLMRRKLMQLQKIKIFVLDEADNML 158
Query: 219 DM-GFEPQIRKIIQMT 233
D G Q ++ +
Sbjct: 159 DQQGLGDQCIRVKRFL 174
Score = 123 bits (311), Expect = 5e-31
Identities = 31/88 (35%), Positives = 47/88 (53%), Gaps = 6/88 (6%)
Query: 401 YRAMGIHGDKSQWNRDQTLRDFRSGYINVLIASDVASRGLDVEDIKYVVNYDFP------ 454
+ +HGD RD+ + DFR G VLI ++V +RG+D+ + VVNYD P
Sbjct: 268 HEVSILHGDLQTQERDRLIDDFREGRSKVLITTNVLARGIDIPTVSMVVNYDLPTLANGQ 327
Query: 455 DNTENYVHRIGRTARSTKTGISYTLFTP 482
+ Y+HRIGRT R + G++ +
Sbjct: 328 ADPATYIHRIGRTGRFGRKGVAISFVHD 355
Score = 75.7 bits (187), Expect = 7e-15
Identities = 20/72 (27%), Positives = 35/72 (48%), Gaps = 1/72 (1%)
Query: 233 TRTRDLCRGAEIVVATPGRLIDFLESGTTNVNRITYLVLDEADRMLDM-GFEPQIRKIIQ 291
+ ++ A+++V TPG ++D + + +I VLDEAD MLD G Q ++ +
Sbjct: 113 SFEKNKQINAQVIVGTPGTVLDLMRRKLMQLQKIKIFVLDEADNMLDQQGLGDQCIRVKR 172
Query: 292 MTRHAHPVVPVS 303
+V S
Sbjct: 173 FLPKDTQLVLFS 184
Score = 50.2 bits (121), Expect = 8e-07
Identities = 14/44 (31%), Positives = 21/44 (47%), Gaps = 1/44 (2%)
Query: 312 TILHFLESGTTNVNRITYLVLDEADRMLDM-GFEPQIRKIIQMT 354
T+L + + +I VLDEAD MLD G Q ++ +
Sbjct: 131 TVLDLMRRKLMQLQKIKIFVLDEADNMLDQQGLGDQCIRVKRFL 174
Score = 36.8 bits (86), Expect = 0.014
Identities = 9/19 (47%), Positives = 13/19 (68%)
Query: 19 FRSGYINVLIASDVASRGL 37
FR G VLI ++V +RG+
Sbjct: 289 FREGRSKVLITTNVLARGI 307
>3fmo_B ATP-dependent RNA helicase DDX19B; nuclear porin, nuclear pore
complex, nucleocytoplasmic trans mRNA export, protein
interaction, beta-propeller; HET: ADP; 2.51A {Homo
sapiens}
Length = 300
Score = 142 bits (361), Expect = 7e-39
Identities = 48/197 (24%), Positives = 79/197 (40%), Gaps = 48/197 (24%)
Query: 42 GYGKPTSIQAQSWPICLSG--RDLIGIAQTGSGKTLSLTIENTQVARGSQCGRSNTSKEE 99
G+ +P+ IQ + P+ L+ ++LI +Q+G+GKT +
Sbjct: 111 GFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAA----------------------- 147
Query: 100 SSWWNNNVVDVKYILPALYHILKMPKLEEGDGPIALVLAPTRELAQQIQAVISIFSRTMR 159
++L L + P + P L L+PT ELA Q VI +
Sbjct: 148 ------------FVLAMLSQV--EPANKY---PQCLCLSPTYELALQTGKVIEQMGKFYP 190
Query: 160 -IRHACLYGGTSKMYQTRDLCRGAEIVVATPGRLIDFLE-SGTTNVNRITYLVLDEADRM 217
++ A G R +IV+ TPG ++D+ + +I VLDEAD M
Sbjct: 191 ELKLAYAVRGNK---LERGQKISEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVM 247
Query: 218 LD-MGFEPQIRKIIQMT 233
+ G + Q +I +M
Sbjct: 248 IATQGHQDQSIRIQRML 264
>3fht_A ATP-dependent RNA helicase DDX19B; DBP5, DEAD-box helicase, RNA
dependent ATPase, mRNA export, nucleocytoplasmic
transport, NUP214, CAN; HET: ANP; 2.20A {Homo sapiens}
PDB: 3ews_A* 3g0h_A* 3fhc_B
Length = 412
Score = 141 bits (357), Expect = 3e-37
Identities = 47/198 (23%), Positives = 77/198 (38%), Gaps = 50/198 (25%)
Query: 42 GYGKPTSIQAQSWPICLSG--RDLIGIAQTGSGKTLSLTIENTQVARGSQCGRSNTSKEE 99
G+ +P+ IQ + P+ L+ ++LI +Q+G+GKT +
Sbjct: 44 GFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAA----------------------- 80
Query: 100 SSWWNNNVVDVKYILPALYHI-LKMPKLEEGDGPIALVLAPTRELAQQIQAVISIFSRTM 158
++L L + P L L+PT ELA Q VI +
Sbjct: 81 ------------FVLAMLSQVEPANKY------PQCLCLSPTYELALQTGKVIEQMGKFY 122
Query: 159 R-IRHACLYGGTSKMYQTRDLCRGAEIVVATPGRLIDFLE-SGTTNVNRITYLVLDEADR 216
++ A G R +IV+ TPG ++D+ + +I VLDEAD
Sbjct: 123 PELKLAYAVRGNK---LERGQKISEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADV 179
Query: 217 MLD-MGFEPQIRKIIQMT 233
M+ G + Q +I +M
Sbjct: 180 MIATQGHQDQSIRIQRML 197
Score = 121 bits (305), Expect = 4e-30
Identities = 28/88 (31%), Positives = 46/88 (52%), Gaps = 6/88 (6%)
Query: 401 YRAMGIHGDKSQWNRDQTLRDFRSGYINVLIASDVASRGLDVEDIKYVVNYDFPDN---- 456
++ + G+ R + FR G VL+ ++V +RG+DVE + V+N+D P +
Sbjct: 291 HQVALLSGEMMVEQRAAVIERFREGKEKVLVTTNVCARGIDVEQVSVVINFDLPVDKDGN 350
Query: 457 --TENYVHRIGRTARSTKTGISYTLFTP 482
E Y+HRIGRT R K G++ +
Sbjct: 351 PDNETYLHRIGRTGRFGKRGLAVNMVDS 378
Score = 37.2 bits (87), Expect = 0.012
Identities = 8/19 (42%), Positives = 13/19 (68%)
Query: 19 FRSGYINVLIASDVASRGL 37
FR G VL+ ++V +RG+
Sbjct: 312 FREGKEKVLVTTNVCARGI 330
>2hjv_A ATP-dependent RNA helicase DBPA; parallel alpha-beta, hydrolase;
1.95A {Bacillus subtilis}
Length = 163
Score = 133 bits (338), Expect = 4e-37
Identities = 34/82 (41%), Positives = 49/82 (59%)
Query: 401 YRAMGIHGDKSQWNRDQTLRDFRSGYINVLIASDVASRGLDVEDIKYVVNYDFPDNTENY 460
Y IHG Q +R + +F+ G L+A+DVA+RG+D+E+I V+NYD P E+Y
Sbjct: 60 YPCDKIHGGMIQEDRFDVMNEFKRGEYRYLVATDVAARGIDIENISLVINYDLPLEKESY 119
Query: 461 VHRIGRTARSTKTGISYTLFTP 482
VHR GRT R+ G + + T
Sbjct: 120 VHRTGRTGRAGNKGKAISFVTA 141
Score = 37.1 bits (87), Expect = 0.005
Identities = 9/19 (47%), Positives = 14/19 (73%)
Query: 19 FRSGYINVLIASDVASRGL 37
F+ G L+A+DVA+RG+
Sbjct: 81 FKRGEYRYLVATDVAARGI 99
>3eaq_A Heat resistant RNA dependent ATPase; DEAD box RNA helicase, dimer,
ATP-binding, helicase, hydrolase, nucleotide-binding;
2.30A {Thermus thermophilus} PDB: 3ear_A 3eas_A
Length = 212
Score = 133 bits (337), Expect = 2e-36
Identities = 37/82 (45%), Positives = 51/82 (62%)
Query: 401 YRAMGIHGDKSQWNRDQTLRDFRSGYINVLIASDVASRGLDVEDIKYVVNYDFPDNTENY 460
+ A +HGD SQ R++ L FR G + VL+A+DVA+RGLD+ + VV+Y PD E Y
Sbjct: 56 HPAQALHGDLSQGERERVLGAFRQGEVRVLVATDVAARGLDIPQVDLVVHYRLPDRAEAY 115
Query: 461 VHRIGRTARSTKTGISYTLFTP 482
HR GRT R+ + G L+ P
Sbjct: 116 QHRSGRTGRAGRGGRVVLLYGP 137
Score = 36.5 bits (85), Expect = 0.010
Identities = 12/19 (63%), Positives = 16/19 (84%)
Query: 19 FRSGYINVLIASDVASRGL 37
FR G + VL+A+DVA+RGL
Sbjct: 77 FRQGEVRVLVATDVAARGL 95
>3fmp_B ATP-dependent RNA helicase DDX19B; nuclear porin, nuclear pore
complex, nucleocytoplasmic trans mRNA export, protein
interaction, beta-propeller; HET: ADP; 3.19A {Homo
sapiens}
Length = 479
Score = 139 bits (353), Expect = 3e-36
Identities = 47/198 (23%), Positives = 77/198 (38%), Gaps = 50/198 (25%)
Query: 42 GYGKPTSIQAQSWPICLSG--RDLIGIAQTGSGKTLSLTIENTQVARGSQCGRSNTSKEE 99
G+ +P+ IQ + P+ L+ ++LI +Q+G+GKT +
Sbjct: 111 GFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAA----------------------- 147
Query: 100 SSWWNNNVVDVKYILPALYHI-LKMPKLEEGDGPIALVLAPTRELAQQIQAVISIFSRTM 158
++L L + P L L+PT ELA Q VI +
Sbjct: 148 ------------FVLAMLSQVEPANKY------PQCLCLSPTYELALQTGKVIEQMGKFY 189
Query: 159 R-IRHACLYGGTSKMYQTRDLCRGAEIVVATPGRLIDFLE-SGTTNVNRITYLVLDEADR 216
++ A G R +IV+ TPG ++D+ + +I VLDEAD
Sbjct: 190 PELKLAYAVRGNK---LERGQKISEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADV 246
Query: 217 MLD-MGFEPQIRKIIQMT 233
M+ G + Q +I +M
Sbjct: 247 MIATQGHQDQSIRIQRML 264
Score = 121 bits (305), Expect = 8e-30
Identities = 28/88 (31%), Positives = 46/88 (52%), Gaps = 6/88 (6%)
Query: 401 YRAMGIHGDKSQWNRDQTLRDFRSGYINVLIASDVASRGLDVEDIKYVVNYDFPDN---- 456
++ + G+ R + FR G VL+ ++V +RG+DVE + V+N+D P +
Sbjct: 358 HQVALLSGEMMVEQRAAVIERFREGKEKVLVTTNVCARGIDVEQVSVVINFDLPVDKDGN 417
Query: 457 --TENYVHRIGRTARSTKTGISYTLFTP 482
E Y+HRIGRT R K G++ +
Sbjct: 418 PDNETYLHRIGRTGRFGKRGLAVNMVDS 445
Score = 37.3 bits (87), Expect = 0.011
Identities = 8/19 (42%), Positives = 13/19 (68%)
Query: 19 FRSGYINVLIASDVASRGL 37
FR G VL+ ++V +RG+
Sbjct: 379 FREGKEKVLVTTNVCARGI 397
>2yjt_D ATP-dependent RNA helicase SRMB, regulator of ribonuclease activity
A; hydrolase inhibitor-hydrolase complex, DEAD box RNA
helicase; 2.90A {Escherichia coli}
Length = 170
Score = 131 bits (332), Expect = 3e-36
Identities = 30/82 (36%), Positives = 52/82 (63%)
Query: 401 YRAMGIHGDKSQWNRDQTLRDFRSGYINVLIASDVASRGLDVEDIKYVVNYDFPDNTENY 460
+ G+ Q R++ ++ G +NVL+A+DVA+RG+D+ D+ +V N+D P + + Y
Sbjct: 55 INNCYLEGEMVQGKRNEAIKRLTEGRVNVLVATDVAARGIDIPDVSHVFNFDMPRSGDTY 114
Query: 461 VHRIGRTARSTKTGISYTLFTP 482
+HRIGRTAR+ + G + +L
Sbjct: 115 LHRIGRTARAGRKGTAISLVEA 136
Score = 37.5 bits (88), Expect = 0.003
Identities = 10/19 (52%), Positives = 15/19 (78%)
Query: 19 FRSGYINVLIASDVASRGL 37
G +NVL+A+DVA+RG+
Sbjct: 76 LTEGRVNVLVATDVAARGI 94
>3i32_A Heat resistant RNA dependent ATPase; RNA helicase, dimer, RNA
recognition motif, ATP-BIND helicase,
nucleotide-binding; 2.80A {Thermus thermophilus}
Length = 300
Score = 134 bits (338), Expect = 1e-35
Identities = 36/82 (43%), Positives = 51/82 (62%)
Query: 401 YRAMGIHGDKSQWNRDQTLRDFRSGYINVLIASDVASRGLDVEDIKYVVNYDFPDNTENY 460
+ A +HGD SQ R++ + FR G + VL+A+DVA+RGLD+ + VV+Y PD E Y
Sbjct: 53 HPAQALHGDMSQGERERVMGAFRQGEVRVLVATDVAARGLDIPQVDLVVHYRMPDRAEAY 112
Query: 461 VHRIGRTARSTKTGISYTLFTP 482
HR GRT R+ + G L+ P
Sbjct: 113 QHRSGRTGRAGRGGRVVLLYGP 134
Score = 36.7 bits (85), Expect = 0.013
Identities = 12/19 (63%), Positives = 16/19 (84%)
Query: 19 FRSGYINVLIASDVASRGL 37
FR G + VL+A+DVA+RGL
Sbjct: 74 FRQGEVRVLVATDVAARGL 92
>1fuk_A Eukaryotic initiation factor 4A; helicase, DEAD-box protein,
translation; 1.75A {Saccharomyces cerevisiae} SCOP:
c.37.1.19
Length = 165
Score = 117 bits (295), Expect = 5e-31
Identities = 33/94 (35%), Positives = 54/94 (57%), Gaps = 3/94 (3%)
Query: 401 YRAMGIHGDKSQWNRDQTLRDFRSGYINVLIASDVASRGLDVEDIKYVVNYDFPDNTENY 460
+ I+ D Q RD +++FRSG +LI++D+ +RG+DV+ + V+NYD P N ENY
Sbjct: 55 FTVSAIYSDLPQQERDTIMKEFRSGSSRILISTDLLARGIDVQQVSLVINYDLPANKENY 114
Query: 461 VHRIGRTARSTKTGISYTLFTPLNGNKAQDLIDI 494
+HRIGR R + G++ T + ++
Sbjct: 115 IHRIGRGGRFGRKGVAINFVTN---EDVGAMREL 145
Score = 32.9 bits (76), Expect = 0.11
Identities = 9/19 (47%), Positives = 15/19 (78%)
Query: 19 FRSGYINVLIASDVASRGL 37
FRSG +LI++D+ +RG+
Sbjct: 76 FRSGSSRILISTDLLARGI 94
>1t5i_A C_terminal domain of A probable ATP-dependent RNA helicase;
RECA-like fold, PRE-mRNA processing protein; 1.90A {Homo
sapiens} SCOP: c.37.1.19
Length = 172
Score = 116 bits (293), Expect = 1e-30
Identities = 23/82 (28%), Positives = 44/82 (53%)
Query: 401 YRAMGIHGDKSQWNRDQTLRDFRSGYINVLIASDVASRGLDVEDIKYVVNYDFPDNTENY 460
+ A+ IH Q R + F+ +L+A+++ RG+D+E + NYD P++++ Y
Sbjct: 56 FPAIAIHRGMPQEERLSRYQQFKDFQRRILVATNLFGRGMDIERVNIAFNYDMPEDSDTY 115
Query: 461 VHRIGRTARSTKTGISYTLFTP 482
+HR+ R R G++ T +
Sbjct: 116 LHRVARAGRFGTKGLAITFVSD 137
Score = 34.1 bits (79), Expect = 0.056
Identities = 5/19 (26%), Positives = 12/19 (63%)
Query: 19 FRSGYINVLIASDVASRGL 37
F+ +L+A+++ RG+
Sbjct: 77 FKDFQRRILVATNLFGRGM 95
>2rb4_A ATP-dependent RNA helicase DDX25; rossmann fold, structural
genomics, structural consortium, SGC, alternative
initiation, ATP-binding, devel protein; 2.80A {Homo
sapiens}
Length = 175
Score = 114 bits (288), Expect = 6e-30
Identities = 29/88 (32%), Positives = 48/88 (54%), Gaps = 6/88 (6%)
Query: 401 YRAMGIHGDKSQWNRDQTLRDFRSGYINVLIASDVASRGLDVEDIKYVVNYDFPDN---- 456
++ + G+ + R ++ FR G VLI ++V +RG+DV+ + VVN+D P
Sbjct: 59 HQVSLLSGELTVEQRASIIQRFRDGKEKVLITTNVCARGIDVKQVTIVVNFDLPVKQGEE 118
Query: 457 --TENYVHRIGRTARSTKTGISYTLFTP 482
E Y+HRIGRT R K G+++ +
Sbjct: 119 PDYETYLHRIGRTGRFGKKGLAFNMIEV 146
Score = 36.0 bits (84), Expect = 0.012
Identities = 9/19 (47%), Positives = 13/19 (68%)
Query: 19 FRSGYINVLIASDVASRGL 37
FR G VLI ++V +RG+
Sbjct: 80 FRDGKEKVLITTNVCARGI 98
>1wp9_A ATP-dependent RNA helicase, putative; ATPase, DNA replication, DNA
repair, DNA recombina hydrolase; 2.90A {Pyrococcus
furiosus} SCOP: c.37.1.19 c.37.1.19
Length = 494
Score = 116 bits (290), Expect = 7e-28
Identities = 77/527 (14%), Positives = 143/527 (27%), Gaps = 122/527 (23%)
Query: 45 KPTSIQAQSWPICLSGRDLIGIAQTGSGKTLSLTIENTQVARGSQCGRSNTSKEESSWWN 104
+P Q + C + + + TG GKTL +A
Sbjct: 9 QPRIYQEVIYAKCK-ETNCLIVLPTGLGKTL--------IA------------------- 40
Query: 105 NNVVDVKYILPALYHILKMPKLEEGDGPIALVLAPTRELAQQIQAVISIFSRTMRIRHAC 164
++ A Y + K L+LAPT+ L Q +
Sbjct: 41 --------MMIAEYRLTKYGG-------KVLMLAPTKPLVLQHAESFRRLFNLPPEKIVA 85
Query: 165 LYGGTSKMYQTRDLCRGAEIVVATPGRLIDFLESGTTNVNRITYLVLDEADRMLDMGFEP 224
L G S +++ A+++VATP + + L +G ++ ++ +V DEA R +
Sbjct: 86 LTGEKSPEERSKAW-ARAKVIVATPQTIENDLLAGRISLEDVSLIVFDEAHRAVGNYAYV 144
Query: 225 QIRKIIQMTRTRDLCRGA---------------------EIVVATPGRLIDFLESGTTNV 263
I + + L G I +
Sbjct: 145 FIAREYKRQAKNPLVIGLTASPGSTPEKIMEVINNLGIEHIEYRSENSPDVRPYVKGIRF 204
Query: 264 NRITYLVLDEADRMLDMGFEPQIRKIIQMTRHAHPVVPVSLFISERRDTILHFLESGTTN 323
+ + + + + E + + + +
Sbjct: 205 EWVRVDLPEIYKEVRKLLREMLRDALKPLAETGLLESSSPDIPKKEVLRAGQIINEEMAK 264
Query: 324 VNRITY---------LVLDEADRMLDMGF----------------------------EPQ 346
N L L A +L+ + +
Sbjct: 265 GNHDLRGLLLYHAMALKLHHAIELLETQGLSALRAYIKKLYEEAKAGSTKASKEIFSDKR 324
Query: 347 IRKIIQMTRFNTCVF--------LGYVLYFWFILVAGIERWVFMEINHNGTETKHYGVSS 398
++K I + + L ++ + VF + + +
Sbjct: 325 MKKAISLLVQAKEIGLDHPKMDKLKEIIREQLQRKQNSKIIVFTNYRETAKKIVNE-LVK 383
Query: 399 SLYRAMGIHGDK--------SQWNRDQTLRDFRSGYINVLIASDVASRGLDVEDIKYVVN 450
+A G SQ + L +F G NVL+A+ V GLDV ++ VV
Sbjct: 384 DGIKAKRFVGQASKENDRGLSQREQKLILDEFARGEFNVLVATSVGEEGLDVPEVDLVVF 443
Query: 451 YDFPDNTENYVHRIGRTARSTKTGISYTLFTPLNGNKAQDLIDILNE 497
Y+ + + R GRT R G L G + + +
Sbjct: 444 YEPVPSAIRSIQRRGRTGRH-MPGRVIILMA--KGTRDEAYYWSSRQ 487
Score = 31.7 bits (71), Expect = 0.58
Identities = 9/19 (47%), Positives = 11/19 (57%)
Query: 19 FRSGYINVLIASDVASRGL 37
F G NVL+A+ V GL
Sbjct: 415 FARGEFNVLVATSVGEEGL 433
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis,
programmed cell death; HET: DTP; 6.90A {Drosophila
melanogaster} PDB: 3iz8_A*
Length = 1221
Score = 61.4 bits (148), Expect = 6e-10
Identities = 66/437 (15%), Positives = 130/437 (29%), Gaps = 116/437 (26%)
Query: 103 WNNNVVDVKYILPALYHILKMPK-LEE-------------GDGPIALVLAPTRELAQQIQ 148
+N+N V KY + L LK+ + L E G G + L Q +
Sbjct: 120 YNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCK 179
Query: 149 AVISIFSRTMRIRHACLYGGTSKMYQT------RDLCRGAEIVVATPGRLIDFLESGTTN 202
IF + +++ +M Q + ++ R + S
Sbjct: 180 MDFKIF--WLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLR----IHSIQAE 233
Query: 203 VNRI--------TYLVLDE-AD-RMLDMGFEPQIRKIIQMTRTRDLCRGAEIVVATPGRL 252
+ R+ LVL + + + F + I +T TR +
Sbjct: 234 LRRLLKSKPYENCLLVLLNVQNAKAWNA-FNLSCK--ILLT-TRFKQ------------V 277
Query: 253 IDFLESGTTN----VNRITYLVLDEADRM----LDMGFE---PQIRKIIQMTRHAHPVVP 301
DFL + TT + L DE + LD + ++ +P
Sbjct: 278 TDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTT-------NPRR- 329
Query: 302 VSLF---ISERRDTILHFLESGTTNVNRI---TYLVLDEAD---RMLDMG-FEPQIR--- 348
+S+ I + T ++ + I + VL+ A+ + F P
Sbjct: 330 LSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPT 389
Query: 349 KIIQMTRFNTCVFLGYVLYFWFILVAGIERWVFMEINHNGTETKHYGVSSSLYRAMGIHG 408
++ + WF ++ V +++ K S I+
Sbjct: 390 ILLSL--------------IWFDVIKSDVMVVVNKLHKYSLVEKQP--KESTISIPSIYL 433
Query: 409 D-KSQWNRDQTLRDFRSGYINVLIASDVASRGLDVEDIKYVVNYDFPDNTENYVHR-IGR 466
+ K + + L ++ + D +D+ P + Y + IG
Sbjct: 434 ELKVKLENEYALH-------RSIVDHYNIPKTFDSDDL-------IPPYLDQYFYSHIGH 479
Query: 467 TARSTKTGISYTLFTPL 483
++ + TLF +
Sbjct: 480 HLKNIEHPERMTLFRMV 496
Score = 49.5 bits (117), Expect = 2e-06
Identities = 67/462 (14%), Positives = 135/462 (29%), Gaps = 119/462 (25%)
Query: 109 DVKYILPALYHILKMPKLEEGDGPIALVLAPTRE----------LAQQIQAVISIFSRTM 158
D K + IL +++ ++++ L++Q + V +
Sbjct: 34 DCKDVQDMPKSILSKEEIDH------IIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVL 87
Query: 159 RIRHACLYGGTSKMYQTRDLCRGAEIVVATPGRLIDFLESGTT-NVNRI-TYLVLDEADR 216
RI + L + + R + + RL + + NV+R+ YL L +A
Sbjct: 88 RINYKFLM--SPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALL 145
Query: 217 MLDMGFEPQIRKIIQ-M------TRTRDLCRGAEIVVATPGRLIDFLESGTTNVNRITYL 269
L P +I + D+C ++ + I +L N
Sbjct: 146 ELR----PAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFK-IFWLNLKNCN------- 193
Query: 270 VLDEADRMLDM--GFEPQIRKIIQMTRHAHPVVPVSLFISERRDTILHFLESGTTNVNRI 327
+ +L+M QI T + + L I + + L+S
Sbjct: 194 ---SPETVLEMLQKLLYQIDP--NWTSRSDHSSNIKLRIHSIQAELRRLLKS---KPYEN 245
Query: 328 TYLVLDE-AD-RMLDMGFEPQIRKIIQMTRFNTCVFLGYVLYFWFILVAGIERWVFMEIN 385
LVL + + + F KI+ TR V L A + ++ +
Sbjct: 246 CLLVLLNVQNAKAWNA-FNLSC-KILLTTR-FKQVT--------DFLSAATTTHISLDHH 294
Query: 386 HNG---TET-----KHYGVSS---------------SLYRAMGIHGDKSQWNRDQTLRDF 422
E K+ S+ I + W+ +
Sbjct: 295 SMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAES-IRDGLATWDN---WKHV 350
Query: 423 RSGYINVLIASDVASRGLDVEDIKYVVNYD----FPDNTENYVHRIGRTARSTKTGISYT 478
+ +I S + L+ + + +D FP + I
Sbjct: 351 NCDKLTTIIESSLNV--LEPAEYRK--MFDRLSVFPPSAH----------------IPTI 390
Query: 479 LFTPL-NGNKAQDLIDILNEAHQFVPDRLLLLAAKNKPITTR 519
L + + D++ ++N+ H + L+ + K T
Sbjct: 391 LLSLIWFDVIKSDVMVVVNKLH-----KYSLVEKQPKESTIS 427
Score = 37.1 bits (85), Expect = 0.016
Identities = 46/358 (12%), Positives = 103/358 (28%), Gaps = 114/358 (31%)
Query: 222 FEPQIRKIIQMTRTRDLCRG----AEI--VVATPG------RLIDFLESGTTNVNRITYL 269
FE +D+ + EI ++ + RL L S +
Sbjct: 25 FEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEE---MVQK 81
Query: 270 VLDEADRMLDMGFEPQIRKIIQMTRHAHPVVPVSLFISER----------------RDTI 313
++E R ++ F + I+ T P + ++I +R R
Sbjct: 82 FVEEVLR-INYKF---LMSPIK-TEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQP 136
Query: 314 LHFLESGTTNVNRITYLVLDEADRMLDMGFEPQIRK---IIQMTRFN--TCVFLGYVLYF 368
L + +++D +L G K + + C + F
Sbjct: 137 YLKLRQALLELRPAKNVLIDG---VLGSG------KTWVALDVCLSYKVQCKMDFKI--F 185
Query: 369 WF---------ILVAGIERWVFMEINHNGTETKHYGVSSSLYRAMGIHGDKSQWNRDQTL 419
W ++ +++ + +I+ N T + + L IH +++ R
Sbjct: 186 WLNLKNCNSPETVLEMLQK-LLYQIDPNWTSRSDHSSNIKL----RIHSIQAELRRLLKS 240
Query: 420 RDFRSGYINVLIASDVASRGLDVEDIKYVVNYDFPDNTENYVHRIGRTARSTKTGISYTL 479
+ Y N L+ +V++ K ++ + + L
Sbjct: 241 KP----YENCLLVLL------NVQNAKAWNAFNL-------------SCK--------IL 269
Query: 480 FTPLNGNKAQDLIDILNEAHQFVPDRLLLLAAKNKPITTRQWKREYWRRKSSEILAEW 537
T + + + D L+ A L + +T + +L ++
Sbjct: 270 LT----TRFKQVTDFLSAATTTHIS----LDHHSMTLTPDE---------VKSLLLKY 310
Score = 35.2 bits (80), Expect = 0.055
Identities = 59/428 (13%), Positives = 125/428 (29%), Gaps = 150/428 (35%)
Query: 3 QSVSVRLVSLEARLPYF--RSGYINVL-IASDVASRGLGKNSGYGKPTSIQA---QSWPI 56
++ +R+ S++A L Y N L + +V + + A
Sbjct: 221 SNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQN-----------AKAWNAFNLS---- 265
Query: 57 CLSGRDLIGIAQTGSGKTLSLTIENTQVARGSQCGRSNTSKEESSWWNNNVVDVKYILPA 116
C K L LT QV + + +
Sbjct: 266 C---------------KIL-LTTRFKQVT-------------------DFLSAATTTHIS 290
Query: 117 LYHILKMPKLEEGDGPIALVL-APTRELAQQIQA----VISIFSRTMRIRHACLYGGTSK 171
L H +E + L ++L +++ +SI + ++R A T
Sbjct: 291 LDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLA-----TWD 345
Query: 172 MYQTRDLCRGAEIVVATPGRLIDFLESGTT------------NVNRITYLVL-------D 212
++ + + I+ ++ ++ LE + + I ++L
Sbjct: 346 NWKHVNCDKLTTIIESS----LNVLEPAEYRKMFDRLSVFPPSAH-IPTILLSLIWFDVI 400
Query: 213 EADRMLDMGF---------EPQIRKIIQMTRTRDLCRGAEIVVATPGRLIDF------LE 257
++D M+ + +P+ I + +L E A ++D +
Sbjct: 401 KSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFD 460
Query: 258 SGTTNVNRI-----TYLV-----LDEADRM-------LDMGF-EPQIRKIIQMTRHAHPV 299
S + +++ ++ +RM LD F E +IR + +
Sbjct: 461 SDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSI 520
Query: 300 VPVSL-------FIS------ERR-DTILHFLESGTTNVNRITYL-------------VL 332
+ +I ER + IL FL N+ Y +
Sbjct: 521 LNTLQQLKFYKPYICDNDPKYERLVNAILDFLPKIEENLICSKYTDLLRIALMAEDEAIF 580
Query: 333 DEADRMLD 340
+EA + +
Sbjct: 581 EEAHKQVQ 588
>4a2p_A RIG-I, retinoic acid inducible protein I; hydrolase, superfamily 2
RNA helicase, ATP and dsRNA binding antiviral signalling
pathway; 3.00A {Anas platyrhynchos} PDB: 4a36_A*
Length = 556
Score = 54.9 bits (131), Expect = 4e-08
Identities = 21/82 (25%), Positives = 32/82 (39%), Gaps = 4/82 (4%)
Query: 417 QTLRDFRSGYIN-VLIASDVASRGLDVEDIKYVVNYDFPDNTENYVHRIGRTARSTKTGI 475
L F++ N +LIA+ VA G+D+ VV Y++ N + GR R G
Sbjct: 443 GVLDAFKTSKDNRLLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQVRGR-GR--AAGS 499
Query: 476 SYTLFTPLNGNKAQDLIDILNE 497
L T + + E
Sbjct: 500 KCILVTSKTEVVENEKCNRYKE 521
Score = 46.5 bits (109), Expect = 2e-05
Identities = 54/430 (12%), Positives = 132/430 (30%), Gaps = 54/430 (12%)
Query: 45 KPTSIQAQSWPICLSGRDLIGIAQTGSGKTLSLTIENTQVARGSQCGRSNTSKEESSWWN 104
K S Q + ++G++ + A TGSGKT V+
Sbjct: 7 KARSYQIELAQPAINGKNALICAPTGSGKTF--------VS------------------- 39
Query: 105 NNVVDVKYILPALYHILKMPKLEEGDGPIALVLAPTRELAQQIQAVISIFSRTMRIRHAC 164
IL +H MP G + LA + +Q + V
Sbjct: 40 --------ILICEHHFQNMPA---GRKAKVVFLATKVPVYEQQKNVFKHHFERQGYSVQG 88
Query: 165 LYGGTSKMYQTRDLCRGAEIVVATPGRLIDFLESGT-TNVNRITYLVLDEADRMLDMGFE 223
+ G + ++I+V TP L++ E GT T+++ T ++ DE
Sbjct: 89 ISGENFSNVSVEKVIEDSDIIVVTPQILVNSFEDGTLTSLSIFTLMIFDECHNTTGNHPY 148
Query: 224 PQIRKIIQMTRTRDLCRGAEIVVATPGRLIDFLESGTTNVNRITYL-----------VLD 272
+ + + +I+ T + ++ + I L V +
Sbjct: 149 NVLMTRYLEQKFNSASQLPQILGLTASVGVGNAKNIEETIEHICSLCSYLDIQAISTVRE 208
Query: 273 EADRMLDMGFEPQIRKIIQMTRHAHPVVPVSLFISERRDTILHFLESGTTNVNRITYLVL 332
+ +P+I + R +P + + + ++ + S V+ ++
Sbjct: 209 NIQELQRFMNKPEIDVRLVKRRIHNPFAAIISNLMSETEALMRTIYS----VDTLSQNSK 264
Query: 333 DEADRMLDMGFEPQIRKIIQMTRFNTCVFLGYVLYFWFILVAGIERWVFMEINHNGTETK 392
+ + ++ ++ + + FI + ++ I
Sbjct: 265 KDFGTQNYEHWIVVTQRKCRLLQLEDKEEESRICRALFICTEHLRKYNDALIISEDARII 324
Query: 393 HYGVSSSLYRAMGIHGDKSQWNRDQTLRDFRSGYINVLIASDVASRGLDVEDIKYVVNYD 452
+ + +G ++ + T + + ++ D + +E++ +++
Sbjct: 325 DALSYLTEFFTNVKNGPYTELEQHLTAKFQEKEPELIALSKDETNENPKLEELVCILDDA 384
Query: 453 FPDNTENYVH 462
+ N +
Sbjct: 385 YRYNPQTRTL 394
>4a2w_A RIG-I, retinoic acid inducible protein I; hydrolase, superfamily 2
RNA helicase, ATP and dsRNA binding antiviral signalling
pathway; 3.70A {Anas platyrhynchos}
Length = 936
Score = 54.6 bits (130), Expect = 7e-08
Identities = 21/98 (21%), Positives = 35/98 (35%), Gaps = 4/98 (4%)
Query: 401 YRAMGIHGDKSQWNRDQTLRDFRSGYIN-VLIASDVASRGLDVEDIKYVVNYDFPDNTEN 459
+ ++ L F++ N +LIA+ VA G+D+ VV Y++ N
Sbjct: 668 RGRRDQTTGMTLPSQKGVLDAFKTSKDNRLLIATSVADEGIDIVQCNLVVLYEYSGNVTK 727
Query: 460 YVHRIGRTARSTKTGISYTLFTPLNGNKAQDLIDILNE 497
+ GR R G L T + + E
Sbjct: 728 MIQVRGR-GR--AAGSKCILVTSKTEVVENEKCNRYKE 762
Score = 39.9 bits (92), Expect = 0.002
Identities = 35/175 (20%), Positives = 59/175 (33%), Gaps = 39/175 (22%)
Query: 45 KPTSIQAQSWPICLSGRDLIGIAQTGSGKTLSLTIENTQVARGSQCGRSNTSKEESSWWN 104
K S Q + ++G++ + A TGSGKT V+
Sbjct: 248 KARSYQIELAQPAINGKNALICAPTGSGKTF--------VS------------------- 280
Query: 105 NNVVDVKYILPALYHILKMPKLEEGDGPIALVLAPTRELAQQIQAVISIFSRTMRIRHAC 164
IL +H MP G + LA + +Q + V
Sbjct: 281 --------ILICEHHFQNMPA---GRKAKVVFLATKVPVYEQQKNVFKHHFERQGYSVQG 329
Query: 165 LYGGTSKMYQTRDLCRGAEIVVATPGRLIDFLESGT-TNVNRITYLVLDEADRML 218
+ G + ++I+V TP L++ E GT T+++ T ++ DE
Sbjct: 330 ISGENFSNVSVEKVIEDSDIIVVTPQILVNSFEDGTLTSLSIFTLMIFDECHNTT 384
Score = 29.5 bits (65), Expect = 3.1
Identities = 12/47 (25%), Positives = 23/47 (48%), Gaps = 1/47 (2%)
Query: 233 TRTRDLCRGAEIVVATPGRLIDFLESGT-TNVNRITYLVLDEADRML 278
+ ++I+V TP L++ E GT T+++ T ++ DE
Sbjct: 338 VSVEKVIEDSDIIVVTPQILVNSFEDGTLTSLSIFTLMIFDECHNTT 384
>2ykg_A Probable ATP-dependent RNA helicase DDX58; hydrolase, innate
immunity; 2.50A {Homo sapiens} PDB: 3tmi_A*
Length = 696
Score = 53.8 bits (128), Expect = 8e-08
Identities = 22/82 (26%), Positives = 35/82 (42%), Gaps = 4/82 (4%)
Query: 417 QTLRDFR-SGYINVLIASDVASRGLDVEDIKYVVNYDFPDNTENYVHRIGRTARSTKTGI 475
L F+ SG N+LIA+ VA G+D+ V+ Y++ N + GR
Sbjct: 451 CILDAFKASGDHNILIATSVADEGIDIAQCNLVILYEYVGNVIKMIQTRGRGRARGSK-- 508
Query: 476 SYTLFTPLNGNKAQDLIDILNE 497
L T G ++ I++ E
Sbjct: 509 -CFLLTSNAGVIEKEQINMYKE 529
Score = 46.1 bits (108), Expect = 2e-05
Identities = 35/185 (18%), Positives = 66/185 (35%), Gaps = 39/185 (21%)
Query: 45 KPTSIQAQSWPICLSGRDLIGIAQTGSGKTLSLTIENTQVARGSQCGRSNTSKEESSWWN 104
KP + Q + + G++ I A TG GKT V+
Sbjct: 13 KPRNYQLELALPAMKGKNTIICAPTGCGKTF--------VS------------------- 45
Query: 105 NNVVDVKYILPALYHILKMPKLEEGDGPIALVLAPTRELAQQIQAVISIFSRTMRIRHAC 164
+L +H+ K P+ G + A + +Q ++V S + R
Sbjct: 46 --------LLICEHHLKKFPQ---GQKGKVVFFANQIPVYEQNKSVFSKYFERHGYRVTG 94
Query: 165 LYGGTSKMYQTRDLCRGAEIVVATPGRLIDFLESGT-TNVNRITYLVLDEADRMLDMGFE 223
+ G T++ + +I++ TP L++ L+ GT +++ T ++ DE
Sbjct: 95 ISGATAENVPVEQIVENNDIIILTPQILVNNLKKGTIPSLSIFTLMIFDECHNTSKQHPY 154
Query: 224 PQIRK 228
I
Sbjct: 155 NMIMF 159
>3tbk_A RIG-I helicase domain; DECH helicase, ATP binding, hydrolase; HET:
ANP; 2.14A {Mus musculus}
Length = 555
Score = 53.0 bits (126), Expect = 1e-07
Identities = 23/94 (24%), Positives = 40/94 (42%), Gaps = 6/94 (6%)
Query: 407 HGDKSQWNRDQ--TLRDFR-SGYINVLIASDVASRGLDVEDIKYVVNYDFPDNTENYVHR 463
+ Q L FR SG N+LIA+ VA G+D+ + V+ Y++ N +
Sbjct: 430 NRATGMTLPAQKCVLEAFRASGDNNILIATSVADEGIDIAECNLVILYEYVGNVIKMIQT 489
Query: 464 IGRTARSTKTGISYTLFTPLNGNKAQDLIDILNE 497
GR R+ + L T ++ +++ E
Sbjct: 490 RGR-GRARDS--KCFLLTSSADVIEKEKANMIKE 520
Score = 50.7 bits (120), Expect = 9e-07
Identities = 59/401 (14%), Positives = 120/401 (29%), Gaps = 53/401 (13%)
Query: 57 CLSGRDLIGIAQTGSGKTLSLTIENTQVARGSQCGRSNTSKEESSWWNNNVVDVKYILPA 116
G++ I A TG GKT V+ +L
Sbjct: 16 AKKGKNTIICAPTGCGKTF--------VS---------------------------LLIC 40
Query: 117 LYHILKMPKLEEGDGPIALVLAPTRELAQQIQAVISIFSRTMRIRHACLYGGTSKMYQTR 176
+H+ K P G + A + +Q V S + + A + G TS +
Sbjct: 41 EHHLKKFPC---GQKGKVVFFANQIPVYEQQATVFSRYFERLGYNIASISGATSDSVSVQ 97
Query: 177 DLCRGAEIVVATPGRLIDFLESGT-TNVNRITYLVLDEADRMLDMGFEPQIRKIIQMTRT 235
+ +I++ TP L++ L +G +++ T ++ DE +I+
Sbjct: 98 HIIEDNDIIILTPQILVNNLNNGAIPSLSVFTLMIFDECHNTSK---NHPYNQIMFRYLD 154
Query: 236 RDLCRGAE----IVVATPGRLIDFLESGTTNVNRITYLV--LDEADRMLDMGFEPQIRKI 289
L + +V T + ++ + I L LD + ++ ++
Sbjct: 155 HKLGESRDPLPQVVGLTASVGVGDAKTAEEAMQHICKLCAALDASVIATVRDNVAELEQV 214
Query: 290 IQMTRHAHPVVPVSLFISERRDTILHFLESGTTNVNRITYLVLDEADRMLDMGFEPQIRK 349
+ + V I+ L T + + L + ++ + F Q +
Sbjct: 215 VYKPQKISRKVASRTS--NTFKCIISQLMKETEKLAKDVSEELGKLFQIQNREFGTQKYE 272
Query: 350 IIQMTRFNTCVFLGYVLYFWFILVAGIERWVF---MEINHNGTETKHYGVSSSLYRAMGI 406
+ C V + N ++ ++ +L
Sbjct: 273 QWIVGVHKACSVFQMADKEEESRVCKALFLYTSHLRKYNDALIISEDAQMTDALNYLKAF 332
Query: 407 HGDKSQWNRDQTLRDFRSGYINVLIASDVASRGLDVEDIKY 447
D + D+T R+ + L + SR E+ K
Sbjct: 333 FHDVREAAFDETERELTRRFEEKLEELEKVSRDPSNENPKL 373
>2fwr_A DNA repair protein RAD25; DNA unwinding, XPB, DNA binding protein;
HET: DNA; 2.60A {Archaeoglobus fulgidus} SCOP: c.37.1.19
c.37.1.19 PDB: 2fzl_A*
Length = 472
Score = 52.5 bits (126), Expect = 2e-07
Identities = 48/313 (15%), Positives = 89/313 (28%), Gaps = 42/313 (13%)
Query: 134 ALVLAPTRELAQQIQAVISIFSRTMRIRHACLYGGTSKMYQTRDLCRGAEIVVATPGRLI 193
L++ PT LA+Q + + IF + + G K + V+T
Sbjct: 136 TLIVVPTLALAEQWKERLGIFG----EEYVGEFSGRIK--------ELKPLTVSTYDSAY 183
Query: 194 DFLESGTTNVNRITYLVLDEADRMLDMGFEPQIRKIIQMTRTRDLCRGAEIVVATPGRLI 253
E NR L+ DE + +I QM+ R + AT R
Sbjct: 184 VNAEK---LGNRFMLLIFDEVHHLPA----ESYVQIAQMSIAP--FRLG--LTATFERED 232
Query: 254 DFLESGTTNVNRITYLVLDEADRMLDMGFEPQIRKIIQMTRHAHPVVPVSLFISERRDTI 313
E V + + ++ L + A +
Sbjct: 233 GRHEILKEVVGGKVFELFPDS---LAGKHLAKYTIKRIFVPLAEDERVEYEKREKVYKQF 289
Query: 314 LHFLESGTTNVNRITYLVLDEADRMLD---MGFEPQIRKIIQMTRFNTCVFLGYVLYFWF 370
L +V+ + + R+I ++ +
Sbjct: 290 LRARGITLRRAEDFNKIVMASGYDERAYEALRAWEEARRIAFNSKNKIRKLREILERH-- 347
Query: 371 ILVAGIERW-VFMEINHNGTETKHYGVSSSLYRAMGIHGDKSQWNRDQTLRDFRSGYINV 429
++ +F N S ++ I S+ R++ L FR+G
Sbjct: 348 ----RKDKIIIFTRHNELVYRI------SKVFLIPAITHRTSREEREEILEGFRTGRFRA 397
Query: 430 LIASDVASRGLDV 442
+++S V G+DV
Sbjct: 398 IVSSQVLDEGIDV 410
>4a2q_A RIG-I, retinoic acid inducible protein I; hydrolase, superfamily 2
RNA helicase, ATP and dsRNA binding antiviral signalling
pathway; 3.40A {Anas platyrhynchos}
Length = 797
Score = 52.7 bits (125), Expect = 3e-07
Identities = 21/82 (25%), Positives = 32/82 (39%), Gaps = 4/82 (4%)
Query: 417 QTLRDFRSGYIN-VLIASDVASRGLDVEDIKYVVNYDFPDNTENYVHRIGRTARSTKTGI 475
L F++ N +LIA+ VA G+D+ VV Y++ N + GR R G
Sbjct: 684 GVLDAFKTSKDNRLLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQVRGR-GR--AAGS 740
Query: 476 SYTLFTPLNGNKAQDLIDILNE 497
L T + + E
Sbjct: 741 KCILVTSKTEVVENEKCNRYKE 762
Score = 47.3 bits (111), Expect = 1e-05
Identities = 58/421 (13%), Positives = 120/421 (28%), Gaps = 67/421 (15%)
Query: 45 KPTSIQAQSWPICLSGRDLIGIAQTGSGKTLSLTIENTQVARGSQCGRSNTSKEESSWWN 104
K S Q + ++G++ + A TGSGKT V+
Sbjct: 248 KARSYQIELAQPAINGKNALICAPTGSGKTF--------VS------------------- 280
Query: 105 NNVVDVKYILPALYHILKMPKLEEGDGPIALVLAPTRELAQQIQAVISIFSRTMRIRHAC 164
IL +H MP G + LA + +Q + V
Sbjct: 281 --------ILICEHHFQNMPA---GRKAKVVFLATKVPVYEQQKNVFKHHFERQGYSVQG 329
Query: 165 LYGGTSKMYQTRDLCRGAEIVVATPGRLIDFLESGT-TNVNRITYLVLDEADRMLDMGFE 223
+ G + ++I+V TP L++ E GT T+++ T ++ DE
Sbjct: 330 ISGENFSNVSVEKVIEDSDIIVVTPQILVNSFEDGTLTSLSIFTLMIFDECHNTTGNHPY 389
Query: 224 PQIRKIIQMTRTRDLCRGAEIVVATPGRLIDFLESGTTNVNRITYLVLDEADRMLDMGFE 283
+ + + +I+ T + ++ + I L
Sbjct: 390 NVLMTRYLEQKFNSASQLPQILGLTASVGVGNAKNIEETIEHICSLC-----------SY 438
Query: 284 PQIRKIIQMTRHAHPVVPVSLFISERRDTILHFLESGTTNVNRITYLVLDEADRMLDMGF 343
I+ I + + + F+++ + I ++ E + ++ +
Sbjct: 439 LDIQAISTVRENIQELQR---FMNKPEIDVRLVKRRIHNPFAAIISNLMSETEALMRTIY 495
Query: 344 EPQIRKIIQMTRFNTCVFLGYVLYFWFILVAGIERWVFMEINHNGTETKHYGVSSSLYRA 403
F T + W ++ R + +E S + RA
Sbjct: 496 SVDTLSQNSKKDFGTQNY-----EHWIVVTQRKCRLLQLEDKEE---------ESRICRA 541
Query: 404 MGIHGDKSQWNRDQTLRDFRSGYINVLIASDVASRGLDVEDIKYVVNYDFPDNTENYVHR 463
+ I + + D + + I+ L + + + E
Sbjct: 542 LFICTEHLRKYNDALIISEDARIIDALSYLTEFFTNVKNGPYTELEQHLTAKFQEKEPEL 601
Query: 464 I 464
I
Sbjct: 602 I 602
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl RED beta-ketoacyl
synthase, dehydratase; 4.00A {Saccharomyces cerevisiae}
Length = 2006
Score = 50.4 bits (120), Expect = 1e-06
Identities = 54/288 (18%), Positives = 87/288 (30%), Gaps = 92/288 (31%)
Query: 270 VLDEADRML--DMGFEPQIRKIIQMTRHAHPVVPVSLFISER----RDTILHFLESGTTN 323
V + AD GF I I+ +PV F E+ R+ + +
Sbjct: 1645 VWNRADNHFKDTYGFS--ILDIVI----NNPVNLTIHFGGEKGKRIRENYSAMIFETIVD 1698
Query: 324 VNRITYLVLDEADRML-DMGFEPQIRKIIQMTRFNT--CVFL-GYVLY----FWFIL--- 372
T + E + F + + ++ T+F T + L + ++
Sbjct: 1699 GKLKTEKIFKEINEHSTSYTFRSE-KGLLSATQF-TQPALTLMEKAAFEDLKSKGLIPAD 1756
Query: 373 --VAGIERWVFMEINHN-GTETKHY----GVSSSL----------YRAMGIHGDKSQWNR 415
AG H+ G E Y ++ + YR M + R
Sbjct: 1757 ATFAG----------HSLG-E---YAALASLADVMSIESLVEVVFYRGMTMQVAVP---R 1799
Query: 416 DQTLRDFRSGYINVLIASDVASRGLDVEDIKYV--------------VNYDFPDNTEN-- 459
D+ R S Y + I + E ++YV VNY N EN
Sbjct: 1800 DELGR---SNYGMIAINPGRVAASFSQEALQYVVERVGKRTGWLVEIVNY----NVENQQ 1852
Query: 460 YVHRI-GRTARSTKTGISYTLFTPLNGNKAQDLIDILNEAHQFVPDRL 506
YV G + T+ LN K Q IDI+ + +
Sbjct: 1853 YV--AAG-----DLRALD-TVTNVLNFIKLQK-IDIIELQKSLSLEEV 1891
Score = 40.8 bits (95), Expect = 0.001
Identities = 41/277 (14%), Positives = 70/277 (25%), Gaps = 113/277 (40%)
Query: 60 GRDLIGIAQTGSGKTLSLTIENTQVARGSQCGRSNTSKEESSWWNNNVVDVKYILPALYH 119
LS T + TQ A + ++ A +
Sbjct: 1711 NEHSTSYTFRSEKGLLSAT-QFTQPA---------------------LTLMEK---AAFE 1745
Query: 120 ILKMPKLEEGDGPI-------------ALVLAPTRELAQQIQAVISIFSRTMRIRHACLY 166
LK +G P AL + LA V+S + +
Sbjct: 1746 DLK----SKGLIPADATFAGHSLGEYAALA-S----LAD----VMS-IESLVEVVFY--- 1788
Query: 167 GGTSKMYQTRDLCRGAEIVVATPGRLIDFLESGTTNVNRITYLVLDEADRMLDMGFEPQI 226
RG + VA P E G +N ++ R+ + +
Sbjct: 1789 -------------RGMTMQVAVPRD-----ELGRSNYG----MIAINPGRVAASFSQEAL 1826
Query: 227 RKIIQM--TRTRDL-------CRGAEIVVATPGRLIDFLESGTTNVNRITYLVLDEADRM 277
+ +++ RT L + V A G LD +
Sbjct: 1827 QYVVERVGKRTGWLVEIVNYNVENQQYVAA-----------GDLR-------ALDTVTNV 1868
Query: 278 LDMGFEPQIRKIIQMTRHAHPVVPVSLFISERRDTIL 314
L+ +I II++ SL + E +
Sbjct: 1869 LNFIKLQKI-DIIEL--------QKSLSLEEVEGHLF 1896
Score = 32.7 bits (74), Expect = 0.36
Identities = 41/268 (15%), Positives = 66/268 (24%), Gaps = 101/268 (37%)
Query: 300 VPVSLFI--SERRDTILHFLESGTTNVNRITYLVLDEADRMLDMGFEPQ------IRKII 351
VP + F S+ ++ L T D+ EP +
Sbjct: 22 VPTASFFIASQLQEQFNKILPEPTEG------FAADD---------EPTTPAELVGK--- 63
Query: 352 QMTRFNTCVFLGYVLYFWFILVAGIERWVFMEINHNGTETKHYGVSSSLYRAMGIHGDKS 411
FLGYV E G +
Sbjct: 64 ---------FLGYVSSL--------------------VEPSKVGQFDQVLNLC------- 87
Query: 412 QWNRDQTLRDFRSGY-----INVLIASDVASRGLDVEDIKYVV-NY-------DFPDNTE 458
L +F + Y I+ L A + + K ++ NY P +
Sbjct: 88 -------LTEFENCYLEGNDIHALAAKLLQENDTTLVKTKELIKNYITARIMAKRPF-DK 139
Query: 459 NYVHRIGRTARSTKTGISYTLFTPLNGNKAQ--------DLIDILNEAHQFVPDRLLLLA 510
+ R + +F G Q +L D+ H V D L+ +
Sbjct: 140 KSNSALFRAVGEGNAQL-VAIF---GG---QGNTDDYFEELRDLYQTYHVLVGD-LIKFS 191
Query: 511 AKN-KPITTRQWKREYWRRKSSEILAEW 537
A+ + E + IL W
Sbjct: 192 AETLSELIRTTLDAEKVFTQGLNILE-W 218
>3b6e_A Interferon-induced helicase C domain-containing P; DECH, DEXD/H
RNA-binding helicase, innate immunity, IFIH1, S
genomics; 1.60A {Homo sapiens}
Length = 216
Score = 47.1 bits (112), Expect = 3e-06
Identities = 31/165 (18%), Positives = 54/165 (32%), Gaps = 45/165 (27%)
Query: 57 CLSGRDLIGIAQTGSGKTLSLTIENTQVARGSQCGRSNTSKEESSWWNNNVVDVKYILPA 116
L G+++I TGSGKT VA + A
Sbjct: 45 ALEGKNIIICLPTGSGKTR--------VA---------------------------VYIA 69
Query: 117 LYHILKMPKLEEGDGPIALVLAPTRELA-QQIQAVISIFSRTMRIRHACLYGGTSKMYQT 175
H+ K K + +VL L Q + F + R L G T
Sbjct: 70 KDHLDKKKK--ASEPGKVIVLVNKVLLVEQLFRKEFQPFLKKW-YRVIGLSGDTQLKISF 126
Query: 176 RDLCRGAEIVVATPGRLIDFL------ESGTTNVNRITYLVLDEA 214
++ + +I+++T L + L E ++ + +++DE
Sbjct: 127 PEVVKSCDIIISTAQILENSLLNLENGEDAGVQLSDFSLIIIDEC 171
>3o8b_A HCV NS3 protease/helicase; ntpase, RNA, translocation, protein-RNA
compl protease/ntpase/helicase, hydrolase; 1.95A
{Hepatitis c virus} PDB: 3o8c_A* 3o8d_A* 3o8r_A* 4a92_A*
1cu1_A 2zjo_A* 1a1v_A* 1hei_A 3kqn_A* 3kql_A* 3kqu_A*
3kqh_A 3kqk_A 8ohm_A 2f55_A 1jr6_A 1onb_A
Length = 666
Score = 48.5 bits (115), Expect = 5e-06
Identities = 22/115 (19%), Positives = 35/115 (30%), Gaps = 14/115 (12%)
Query: 122 KMPKLEEGDGPIALVLAPTRELAQQIQAVISIFSRTMRIRHACLYGGTSKMYQTRDLCRG 181
K+P G LVL P+ A + A + R + G
Sbjct: 248 KVPAAYAAQGYKVLVLNPSVAATLGFGA---------YMSKA-HGIDPNIRTGVRTITTG 297
Query: 182 AEIVVATPGRLIDFLESGTTNVNRITYLVLDEADRMLDMGFEPQIRKIIQMTRTR 236
A + +T G+ FL G + ++ DE D I ++ T
Sbjct: 298 APVTYSTYGK---FLADGGCSGGAYDIIICDECHST-DSTTILGIGTVLDQAETA 348
Score = 43.1 bits (101), Expect = 2e-04
Identities = 48/286 (16%), Positives = 82/286 (28%), Gaps = 72/286 (25%)
Query: 214 ADRMLD-MGFEPQIRKIIQMTRTRDLCRGAEIVVATPGRLIDFLESGTTNVNRITYLVLD 272
M G +P IR T R + GA + +T G+ FL G + ++ D
Sbjct: 274 GAYMSKAHGIDPNIR-----TGVRTITTGAPVTYSTYGK---FLADGGCSGGAYDIIICD 325
Query: 273 EADRMLDMGFEPQIRKIIQMTRHAHPVVPVSLFISERRDTILHFLESGTTNVNRITYLVL 332
E D I ++ ++ L + T +
Sbjct: 326 ECHST-DSTTILGIGTVLDQAET-------------AGARLV-VLATATPPGSVTVPHPN 370
Query: 333 DEADRMLDMGFEPQIRKIIQMTRFNTCVFLGYVLYFWFILVAGIERWVFMEINHNGTETK 392
E + + G P K I + G L F + + +
Sbjct: 371 IEEVALSNTGEIPFYGKAIPIEAIRG----GRHLIF----CHSKK-----KCDE------ 411
Query: 393 HYGVSSSLYRAMGIHGDKSQWNRDQTLRDFRSGYINVLIASDVASRGLDVEDIKYVV--- 449
+++ L +GI+ R + + V++A+D G D V+
Sbjct: 412 ---LAAKL-SGLGINAVAY--YRGLDVSVIPTIGDVVVVATDALMTGYTG-DFDSVIDCN 464
Query: 450 -----NYDF-------------PDNTENYVHRIGRTARSTKTGISY 477
DF P + + R GRT R + GI
Sbjct: 465 TCVTQTVDFSLDPTFTIETTTVPQDAVSRSQRRGRTGR-GRRGIYR 509
>3dmq_A RNA polymerase-associated protein RAPA; SWF2/SNF2, transcription
factor, RNA polymerase recycling, activator,
ATP-binding, DNA-binding; 3.20A {Escherichia coli K12}
Length = 968
Score = 47.0 bits (111), Expect = 1e-05
Identities = 21/71 (29%), Positives = 31/71 (43%), Gaps = 2/71 (2%)
Query: 401 YRAMGIHGDKSQWNRDQTLRDFRS--GYINVLIASDVASRGLDVEDIKYVVNYDFPDNTE 458
RA H S RD+ F VL+ S++ S G + + ++V +D P N +
Sbjct: 529 IRAAVFHEGMSIIERDRAAAWFAEEDTGAQVLLCSEIGSEGRNFQFASHMVMFDLPFNPD 588
Query: 459 NYVHRIGRTAR 469
RIGR R
Sbjct: 589 LLEQRIGRLDR 599
>1yks_A Genome polyprotein [contains: flavivirin protease NS3 catalytic
subunit]; helicase, flavivirus, DEAD-BOX, ATPase,
rtpase, hydrolase; 1.80A {Yellow fever virus} SCOP:
c.37.1.14 c.37.1.14 PDB: 1ymf_A*
Length = 440
Score = 34.4 bits (79), Expect = 0.081
Identities = 31/210 (14%), Positives = 51/210 (24%), Gaps = 78/210 (37%)
Query: 60 GRDLIGIAQTGSGKTLSLTIENTQVARGSQCGRSNTSKEESSWWNNNVVDVKYILPALYH 119
G + G+GKT + LP +
Sbjct: 8 GMTTVLDFHPGAGKT-------RRF-----------------------------LPQILA 31
Query: 120 ILKMPKLEEGDGPIALVLAPTRELAQQIQAVISIFSRTMRIRHACLYGGTSKMYQTRDLC 179
+ LVLAPTR + +++ + +G ++
Sbjct: 32 -----ECARRRLRT-LVLAPTRVVLSEMKEAFHGLDVKFHTQAFSAHGSGREV------- 78
Query: 180 RGAEIVVATPGRLIDFLESGTTNVNRITYLVLDE-----ADRMLDMGFEPQI-----RKI 229
I L + T V +++DE + G+
Sbjct: 79 ----IDAMCHATLTYRMLEP-TRVVNWEVIIMDEAHFLDPASIAARGWAAHRARANESAT 133
Query: 230 IQMTRTRDLCRGAEIVVATP-GRLIDFLES 258
I MT ATP G +F S
Sbjct: 134 ILMT-------------ATPPGTSDEFPHS 150
>2wv9_A Flavivirin protease NS2B regulatory subunit, FLAV protease NS3
catalytic subunit; nucleotide-binding, capsid protein;
2.75A {Murray valley encephalitis virus}
Length = 673
Score = 32.6 bits (74), Expect = 0.34
Identities = 31/171 (18%), Positives = 41/171 (23%), Gaps = 44/171 (25%)
Query: 135 LVLAPTRELAQQIQAVISIFSRTMRIRHACLYGGTSKMYQTRDLCRGAEIVVATPGRLID 194
VLAPTR +A M L R+ + V L
Sbjct: 274 AVLAPTRVVA-----------AEMAEALRGLPVRYLTPAVQREHSGNEIVDVMCHATLTH 322
Query: 195 FLESGTTNVNRITYLVLDE-----ADRMLDMGFEPQI-----RKIIQMTRTRDLCRGAEI 244
L S V V+DE + G+ I MT
Sbjct: 323 RLMSP-LRVPNYNLFVMDEAHFTDPASIAARGYIATRVEAGEAAAIFMT----------- 370
Query: 245 VVATP-GRLIDFLESGTTNVNRITYLVLDEADRMLDMGFEPQIRKIIQMTR 294
ATP G F + V D + + D + I
Sbjct: 371 --ATPPGTSDPFPD--------TNSPVHDVSSEIPDRAWSSGFEWITDYAG 411
>2oca_A DAR protein, ATP-dependent DNA helicase UVSW; ATP-dependant
helicase, T4-bacteriophage, recombination, hydrolase;
2.70A {Enterobacteria phage T4}
Length = 510
Score = 32.2 bits (72), Expect = 0.47
Identities = 18/101 (17%), Positives = 41/101 (40%), Gaps = 3/101 (2%)
Query: 381 FMEINHNGTETKHYGVSSSLYRAMGIHGDKSQWNRDQTLRDFRSGYINVLIAS-DVASRG 439
F ++H + + + + + G+ R+ +G +++AS V S G
Sbjct: 354 FKHVSHG--KAIFDLIKNEYDKVYYVSGEVDTETRNIMKTLAENGKGIIIVASYGVFSTG 411
Query: 440 LDVEDIKYVVNYDFPDNTENYVHRIGRTARSTKTGISYTLF 480
+ V+++ +VV + + IGR R + T++
Sbjct: 412 ISVKNLHHVVLAHGVKSKIIVLQTIGRVLRKHGSKTIATVW 452
>2jlq_A Serine protease subunit NS3; ribonucleoprotein, nucleotide-binding,
viral nucleoprotein, endoplasmic reticulum, helicase,
hydrolase; 1.67A {Dengue virus 4} PDB: 2jly_A* 2jls_A*
2jlu_A 2jlv_A* 2jlw_A 2jlx_A* 2jlz_A* 2jlr_A* 2bmf_A
2bhr_A
Length = 451
Score = 31.7 bits (72), Expect = 0.66
Identities = 36/210 (17%), Positives = 55/210 (26%), Gaps = 78/210 (37%)
Query: 60 GRDLIGIAQTGSGKTLSLTIENTQVARGSQCGRSNTSKEESSWWNNNVVDVKYILPALYH 119
R I G+GKT ++ LP++
Sbjct: 19 KRLTIMDLHPGAGKT-------KRI-----------------------------LPSIVR 42
Query: 120 ILKMPKLEEGDGPIALVLAPTRELAQQIQAVISIFSRTMRIRHACLYGGTSKMYQTRDLC 179
+ L+LAPTR +A +++ + L D
Sbjct: 43 -----EALLRRLRT-LILAPTRVVAAEMEEAL-----------RGLPIRYQTPAVKSDHT 85
Query: 180 RGAEIVVATPGRLIDFLESGTTNVNRITYLVLDEA-----DRMLDMGF-----EPQIRKI 229
+ + L S T V +V+DEA + G+ E
Sbjct: 86 GREIVDLMCHATFTTRLLSS-TRVPNYNLIVMDEAHFTDPCSVAARGYISTRVEMGEAAA 144
Query: 230 IQMTRTRDLCRGAEIVVATP-GRLIDFLES 258
I MT ATP G F +S
Sbjct: 145 IFMT-------------ATPPGSTDPFPQS 161
>1gku_B Reverse gyrase, TOP-RG; topoisomerase, DNA supercoiling, archaea,
helicase; 2.7A {Archaeoglobus fulgidus} SCOP: c.37.1.16
c.37.1.16 e.10.1.1 PDB: 1gl9_B*
Length = 1054
Score = 31.6 bits (72), Expect = 0.75
Identities = 14/48 (29%), Positives = 19/48 (39%), Gaps = 9/48 (18%)
Query: 414 NRDQTLRDFRSGYINVLIASDVAS------RGLDV-EDIKYVVNYDFP 454
+ F G I+ LI A RGLD+ E I++ V P
Sbjct: 307 TKKGDYEKFVEGEIDHLIG--TAHYYGTLVRGLDLPERIRFAVFVGCP 352
>1xfs_A NC_840354, conserved hypothetical protein; structural genomics,
protein structure initiative, NESG, ALP protein, PSI;
1.70A {Nitrosomonas europaea} SCOP: d.129.3.5
Length = 178
Score = 30.3 bits (68), Expect = 0.85
Identities = 14/91 (15%), Positives = 26/91 (28%), Gaps = 13/91 (14%)
Query: 259 GTTNVNRITYLVLDEADRM-----LDMGFEPQIRKIIQMTRHAHPVVPVSLFISERRDTI 313
G N +L + + R+ L + P + AH V+ + +
Sbjct: 68 GNKFPNSGCFLEVTDEKRLIWTSALVKNYRPAVPATTSDKECAHIVMTAVIELQPTSS-- 125
Query: 314 LHFLESGTTNVNRITYLVLDEADRMLDMGFE 344
GT + + +MGF
Sbjct: 126 ------GTRYTACAMHNTPGQRKLHEEMGFH 150
>2z83_A Helicase/nucleoside triphosphatase; hydrolase, membrane,
nucleotide-binding, RNA replication, transmembrane,
viral protein; 1.80A {Japanese encephalitis virus} PDB:
2v8o_A 2qeq_A
Length = 459
Score = 31.3 bits (71), Expect = 0.93
Identities = 34/175 (19%), Positives = 47/175 (26%), Gaps = 52/175 (29%)
Query: 135 LVLAPTRELAQQIQAVISIFSRTMRIRHACLYGGTSKMYQT----RDLCRGAEIVVATPG 190
VLAPTR +A ++ A G YQT R+ + V
Sbjct: 54 AVLAPTRVVAAEM---------------AEALRGLPVRYQTSAVQREHQGNEIVDVMCHA 98
Query: 191 RLIDFLESGTTNVNRITYLVLDE-----ADRMLDMGFEPQIR-----KIIQMTRTRDLCR 240
L L S V V+DE + G+ I MT
Sbjct: 99 TLTHRLMSP-NRVPNYNLFVMDEAHFTDPASIAARGYIATKVELGEAAAIFMT------- 150
Query: 241 GAEIVVATP-GRLIDFLESGTTNVNRITYLVLDEADRMLDMGFEPQIRKIIQMTR 294
ATP G F + + D D + D + I +
Sbjct: 151 ------ATPPGTTDPFPD--------SNAPIHDLQDEIPDRAWSSGYEWITEYAG 191
>1iir_A Glycosyltransferase GTFB; rossmann fold; 1.80A {Amycolatopsis
orientalis} SCOP: c.87.1.5
Length = 415
Score = 29.8 bits (67), Expect = 2.2
Identities = 12/81 (14%), Positives = 23/81 (28%), Gaps = 17/81 (20%)
Query: 180 RGAEIVVATPGRLIDFLES-GTTNVNRITYLVLDEADRMLDM----GFEPQIRKII---- 230
GA++ + P + L G + ++ + + R +R+
Sbjct: 27 LGADVRMCAPPDCAERLAEVG------VPHVPVGPSARAPIQRAKPLTAEDVRRFTTEAI 80
Query: 231 --QMTRTRDLCRGAEIVVATP 249
Q G VV T
Sbjct: 81 ATQFDEIPAAAEGCAAVVTTG 101
>1oyw_A RECQ helicase, ATP-dependent DNA helicase; winged helix,
helix-turn-helix, ATP binding, Zn(2+) binding,
hydrolase; 1.80A {Escherichia coli} SCOP: a.4.5.43
c.37.1.19 c.37.1.19 PDB: 1oyy_A*
Length = 523
Score = 29.4 bits (67), Expect = 3.4
Identities = 18/70 (25%), Positives = 33/70 (47%), Gaps = 2/70 (2%)
Query: 401 YRAMGIHGDKSQWNRDQTLRDFRSGYINVLIASDVA-SRGLDVEDIKYVVNYDFPDNTEN 459
A H R F+ + +++A+ VA G++ ++++VV++D P N E+
Sbjct: 261 ISAAAYHAGLENNVRADVQEKFQRDDLQIVVAT-VAFGMGINKPNVRFVVHFDIPRNIES 319
Query: 460 YVHRIGRTAR 469
Y GR R
Sbjct: 320 YYQETGRAGR 329
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 28.6 bits (63), Expect = 3.5
Identities = 13/52 (25%), Positives = 19/52 (36%), Gaps = 22/52 (42%)
Query: 503 PDRLLLLAAKNKPITTRQWKREY-----------------WRRKSSEILAEW 537
DRL +P + R+W+ E WR K+ + L EW
Sbjct: 77 ADRL-----TQEPESIRKWREEQRKRLQELDAASKVMEQEWREKAKKDLEEW 123
>1id3_B Histone H4; nucleosome core particle, chromatin, protein/DNA
interaction, nucleoprotein, supercoiled DNA; 3.10A
{Saccharomyces cerevisiae} SCOP: a.22.1.1
Length = 102
Score = 27.7 bits (61), Expect = 3.7
Identities = 12/34 (35%), Positives = 17/34 (50%)
Query: 263 VNRITYLVLDEADRMLDMGFEPQIRKIIQMTRHA 296
V RI+ L+ +E +L E IR + T HA
Sbjct: 43 VKRISGLIYEEVRAVLKSFLESVIRDSVTYTEHA 76
>2v6i_A RNA helicase; membrane, hydrolase, transmembrane, RNA replication,
viral replication, nucleotide-binding; 2.10A {Kokobera
virus} PDB: 2v6j_A
Length = 431
Score = 29.0 bits (65), Expect = 4.5
Identities = 32/208 (15%), Positives = 46/208 (22%), Gaps = 74/208 (35%)
Query: 60 GRDLIGIAQTGSGKTLSLTIENTQVARGSQCGRSNTSKEESSWWNNNVVDVKYILPALYH 119
+ G+GKT +V LP L
Sbjct: 2 RELTVLDLHPGAGKT-------RRV-----------------------------LPQL-- 23
Query: 120 ILKMPKLEEG---DGPIALVLAPTRELAQQIQAVISIFSRTMRIRHACLYGGTSKMYQTR 176
+ E ++LAPTR +A M
Sbjct: 24 ------VREAVKKRLRT-VILAPTRVVA-----------SEMYEALRGEPIRYMTPAVQS 65
Query: 177 DLCRGAEIVVATPGRLIDFLESGTTNVNRITYLVLDEA-----DRMLDMGFEPQIRKIIQ 231
+ + L G V ++DEA + G+ I
Sbjct: 66 ERTGNEIVDFMCHSTFTMKLLQG-VRVPNYNLYIMDEAHFLDPASVAARGY------IET 118
Query: 232 MTRTRDLCRGAEIVVATP-GRLIDFLES 258
D A + ATP G F S
Sbjct: 119 RVSMGDAG--AIFMTATPPGTTEAFPPS 144
>2c2x_A Methylenetetrahydrofolate dehydrogenase- methenyltetrahydrofolate
cyclohydrolase; NADP; 2.0A {Mycobacterium tuberculosis}
PDB: 2c2y_A
Length = 281
Score = 28.2 bits (64), Expect = 5.8
Identities = 12/22 (54%), Positives = 13/22 (59%), Gaps = 3/22 (13%)
Query: 233 TRTRDL---CRGAEIVVATPGR 251
T TRDL R A+IVVA G
Sbjct: 192 TGTRDLPALTRQADIVVAAVGV 213
>2p6r_A Afuhel308 helicase; protein-DNA complex, SF2 helicase, archaeal
helicase, DNA repair,, DNA binding protein/DNA complex;
3.00A {Archaeoglobus fulgidus} SCOP: a.4.5.43 a.289.1.2
c.37.1.19 c.37.1.19 PDB: 2p6u_A
Length = 702
Score = 28.6 bits (64), Expect = 6.3
Identities = 12/37 (32%), Positives = 19/37 (51%)
Query: 39 KNSGYGKPTSIQAQSWPICLSGRDLIGIAQTGSGKTL 75
K G + QA++ SG++L+ T +GKTL
Sbjct: 19 KEEGIEELFPPQAEAVEKVFSGKNLLLAMPTAAGKTL 55
>3ne5_A Cation efflux system protein CUSA; transmembrane helix, metal
transport; 2.90A {Escherichia coli} PDB: 3k07_A 3k0i_A
3kso_A 3kss_A
Length = 1054
Score = 28.7 bits (65), Expect = 6.6
Identities = 9/48 (18%), Positives = 17/48 (35%), Gaps = 13/48 (27%)
Query: 123 MPKLEEGDGPIALVLAP------TRELAQQIQAVI-------SIFSRT 157
+P++ EGD P + Q+ +I +F +T
Sbjct: 569 LPQINEGDLLYMPSTLPGISAAEAASMLQKTDKLIMSVPEVARVFGKT 616
>1rrv_A Glycosyltransferase GTFD; GT-B, glycosyltransferase, rossmann fold,
glycopeptide, VACO antibiotic, transferase-antibiotic
complex; HET: OMZ GHP OMY 3FG TYD BGC; 2.00A
{Amycolatopsis orientalis} SCOP: c.87.1.5
Length = 416
Score = 28.3 bits (63), Expect = 6.9
Identities = 14/81 (17%), Positives = 25/81 (30%), Gaps = 18/81 (22%)
Query: 180 RGAEIVVATPGRLIDFLES-GTTNVNRITYLVL-DEADRMLDMGFEP----QIRKIIQMT 233
G + + P + L G + ++ + ML G P + +++ MT
Sbjct: 27 LGVQTRMCAPPAAEERLAEVG------VPHVPVGLPQHMMLQEGMPPPPPEEEQRLAAMT 80
Query: 234 RT------RDLCRGAEIVVAT 248
G VVA
Sbjct: 81 VEMQFDAVPGAAEGCAAVVAV 101
>1fx0_B ATP synthase beta chain; latent ATPase, thermal stability,
potential tentoxin binding hydrolase; 3.20A {Spinacia
oleracea} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB: 1kmh_B*
Length = 498
Score = 28.1 bits (63), Expect = 7.7
Identities = 8/44 (18%), Positives = 20/44 (45%), Gaps = 7/44 (15%)
Query: 107 VVDVKY---ILPALYHILKMPKLEEGDGPIALVLAPTRELAQQI 147
V++V + +P +Y+ L + + P+ + E+ Q +
Sbjct: 30 VLNVAFPPGKMPNIYNALIVKGRDTAGQPMNVTC----EVQQLL 69
>2v1x_A ATP-dependent DNA helicase Q1; DNA strand annealing, mismatch
repair, nucleotide-binding, DNA-binding, polymorphism,
nuclear protein, ATPase; HET: ADP; 2.00A {Homo sapiens}
PDB: 2wwy_A*
Length = 591
Score = 28.0 bits (63), Expect = 9.4
Identities = 17/67 (25%), Positives = 33/67 (49%), Gaps = 2/67 (2%)
Query: 401 YRAMGIHGDKSQWNRDQTLRDFRSGYINVLIASDVA-SRGLDVEDIKYVVNYDFPDNTEN 459
A H + ++ R + + I V++A+ VA G+D D+++V+++ + EN
Sbjct: 292 IHAGAYHANLEPEDKTTVHRKWSANEIQVVVAT-VAFGMGIDKPDVRFVIHHSMSKSMEN 350
Query: 460 YVHRIGR 466
Y GR
Sbjct: 351 YYQESGR 357
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.322 0.137 0.407
Gapped
Lambda K H
0.267 0.0852 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 8,364,994
Number of extensions: 519438
Number of successful extensions: 1691
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1587
Number of HSP's successfully gapped: 241
Length of query: 537
Length of database: 6,701,793
Length adjustment: 98
Effective length of query: 439
Effective length of database: 3,965,535
Effective search space: 1740869865
Effective search space used: 1740869865
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 60 (26.7 bits)