RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy12758
(308 letters)
>2i4i_A ATP-dependent RNA helicase DDX3X; DEAD, structural genomics, SGC,
structural GE consortium, hydrolase; HET: AMP; 2.20A
{Homo sapiens}
Length = 417
Score = 374 bits (963), Expect = e-129
Identities = 143/246 (58%), Positives = 173/246 (70%), Gaps = 37/246 (15%)
Query: 63 FDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQ 122
F D++M EII NI L RY +PTPVQK+AIP+I RD+MACAQTGSGKTAAFL+PIL+Q
Sbjct: 17 FSDVEMGEIIMGNIELTRYTRPTPVQKHAIPIIKEKRDLMACAQTGSGKTAAFLLPILSQ 76
Query: 123 MYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVRKK 182
+Y GP A + R+K
Sbjct: 77 IYSDGPGEALRAMKENGRYG-------------------------------------RRK 99
Query: 183 VFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVYGGSNVGDQMRDLDRGCHLLVATP 242
+P+ LVLAPTRELA QIY+EA+KF+YRS++RPCVVYGG+++G Q+RDL+RGCHLLVATP
Sbjct: 100 QYPISLVLAPTRELAVQIYEEARKFSYRSRVRPCVVYGGADIGQQIRDLERGCHLLVATP 159
Query: 243 GRLVDMLERGKIGLANCRFLVLDEADRMLDMGFEPQIRCIVQENGMPRTGDRQTLMFSAT 302
GRLVDM+ERGKIGL C++LVLDEADRMLDMGFEPQIR IV+++ MP G R T+MFSAT
Sbjct: 160 GRLVDMMERGKIGLDFCKYLVLDEADRMLDMGFEPQIRRIVEQDTMPPKGVRHTMMFSAT 219
Query: 303 FPKEIQ 308
FPKEIQ
Sbjct: 220 FPKEIQ 225
>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 = 364 bits (936), Expect = e-128
Identities = 120/246 (48%), Positives = 152/246 (61%), Gaps = 46/246 (18%)
Query: 63 FDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQ 122
FD++++ I NNI LA Y +PTP+QK AIP I+ RD+MACAQTGSGKTAAFL+PI+N
Sbjct: 25 FDELKLDPTIRNNILLASYQRPTPIQKNAIPAILEHRDIMACAQTGSGKTAAFLIPIINH 84
Query: 123 MYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVRKK 182
+ + K
Sbjct: 85 LVCQDLNQQRY----------------------------------------------SKT 98
Query: 183 VFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVYGGSNVGDQMRDLDRGCHLLVATP 242
+P L+LAPTRELA QI E++KF+ + LR CVVYGG++ Q+R++ GCHLLVATP
Sbjct: 99 AYPKCLILAPTRELAIQILSESQKFSLNTPLRSCVVYGGADTHSQIREVQMGCHLLVATP 158
Query: 243 GRLVDMLERGKIGLANCRFLVLDEADRMLDMGFEPQIRCIVQENGMPRTGDRQTLMFSAT 302
GRLVD +E+ KI L C+++VLDEADRMLDMGFEPQIR I++E+ MP +RQTLMFSAT
Sbjct: 159 GRLVDFIEKNKISLEFCKYIVLDEADRMLDMGFEPQIRKIIEESNMPSGINRQTLMFSAT 218
Query: 303 FPKEIQ 308
FPKEIQ
Sbjct: 219 FPKEIQ 224
>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 = 358 bits (920), Expect = e-123
Identities = 102/246 (41%), Positives = 140/246 (56%), Gaps = 52/246 (21%)
Query: 63 FDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQ 122
F + +II +N+ + Y PTP+QK +IPVI SGRD+MACAQTGSGKTAAFL+PIL++
Sbjct: 58 FTSADLRDIIIDNVNKSGYKIPTPIQKCSIPVISSGRDLMACAQTGSGKTAAFLLPILSK 117
Query: 123 MYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVRKK 182
+ E +
Sbjct: 118 LLEDPHE--------------------------------------------------LEL 127
Query: 183 VFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVYGGSNVGDQMRDLDRGCHLLVATP 242
P ++++PTRELA QI++EA+KFA+ S L+ +VYGG++ Q + RGCH+++ATP
Sbjct: 128 GRPQVVIVSPTRELAIQIFNEARKFAFESYLKIGIVYGGTSFRHQNECITRGCHVVIATP 187
Query: 243 GRLVDMLERGKIGLANCRFLVLDEADRMLDMGFEPQIRCIVQENGMPRTGDRQTLMFSAT 302
GRL+D ++R I + RF+VLDEADRMLDMGF +R I+ M + QTLMFSAT
Sbjct: 188 GRLLDFVDRTFITFEDTRFVVLDEADRMLDMGFSEDMRRIMTHVTMR--PEHQTLMFSAT 245
Query: 303 FPKEIQ 308
FP+EIQ
Sbjct: 246 FPEEIQ 251
>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 = 313 bits (804), Expect = e-108
Identities = 92/246 (37%), Positives = 127/246 (51%), Gaps = 54/246 (21%)
Query: 63 FDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQ 122
F + + + IA + +PT +Q PV +SG D++ AQTGSGKT ++L+P +
Sbjct: 31 FYEANFPANVMDVIARQNFTEPTAIQAQGWPVALSGLDMVGVAQTGSGKTLSYLLPAIVH 90
Query: 123 MYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVRKK 182
+ + L +
Sbjct: 91 INHQPFL--------------------------------------------------ERG 100
Query: 183 VFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVYGGSNVGDQMRDLDRGCHLLVATP 242
P+ LVLAPTRELA Q+ A ++ +L+ +YGG+ G Q+RDL+RG + +ATP
Sbjct: 101 DGPICLVLAPTRELAQQVQQVAAEYCRACRLKSTCIYGGAPKGPQIRDLERGVEICIATP 160
Query: 243 GRLVDMLERGKIGLANCRFLVLDEADRMLDMGFEPQIRCIVQENGMPRTGDRQTLMFSAT 302
GRL+D LE GK L +LVLDEADRMLDMGFEPQIR IV + P DRQTLM+SAT
Sbjct: 161 GRLIDFLECGKTNLRRTTYLVLDEADRMLDMGFEPQIRKIV-DQIRP---DRQTLMWSAT 216
Query: 303 FPKEIQ 308
+PKE++
Sbjct: 217 WPKEVR 222
>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 = 285 bits (731), Expect = 3e-97
Identities = 76/237 (32%), Positives = 114/237 (48%), Gaps = 54/237 (22%)
Query: 72 ITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPT 131
+ +I KPTP+Q A P+I+ G D++ AQTG+GKT ++L+P + +
Sbjct: 31 LLKSIIRVGILKPTPIQSQAWPIILQGIDLIVVAQTGTGKTLSYLMPGFIHLDSQPISRE 90
Query: 132 PPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVRKKVFPLGLVLA 191
G P LVL
Sbjct: 91 QRNG-------------------------------------------------PGMLVLT 101
Query: 192 PTRELATQIYDEAKKFAYRSQLRPCVVYGGSNVGDQMRDLDRGCHLLVATPGRLVDMLER 251
PTRELA + E K++Y+ L+ +YGG N Q+ D+ +G +++ATPGRL D+
Sbjct: 102 PTRELALHVEAECSKYSYKG-LKSICIYGGRNRNGQIEDISKGVDIIIATPGRLNDLQMN 160
Query: 252 GKIGLANCRFLVLDEADRMLDMGFEPQIRCIVQENGMPRTGDRQTLMFSATFPKEIQ 308
+ L + +LV+DEAD+MLDM FEPQIR I+ + + DRQT+M SAT+P ++
Sbjct: 161 NSVNLRSITYLVIDEADKMLDMEFEPQIRKILLD--VRP--DRQTVMTSATWPDTVR 213
>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 = 281 bits (722), Expect = 1e-95
Identities = 70/262 (26%), Positives = 114/262 (43%), Gaps = 68/262 (25%)
Query: 58 PLPPQ-FDDIQMT----EIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKT 112
P P F + + NI A + PTP+Q AIPV++ GR+++A A TGSGKT
Sbjct: 21 PDPIATFQQLDQEYKINSRLLQNILDAGFQMPTPIQMQAIPVMLHGRELLASAPTGSGKT 80
Query: 113 AAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFAYRS 172
AF +PIL Q+ + PA +G
Sbjct: 81 LAFSIPILMQLKQ-------PANKG----------------------------------- 98
Query: 173 QLRPCVVRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVYGGSNVGDQ-MRDL 231
L+++PTRELA+QI+ E K + + R +++ + +
Sbjct: 99 ------------FRALIISPTRELASQIHRELIKISEGTGFRIHMIHKAAVAAKKFGPKS 146
Query: 232 DRGCHLLVATPGRLVDMLERGK--IGLANCRFLVLDEADRMLD---MGFEPQIRCIVQEN 286
+ +LV TP RL+ +L++ I LA+ +LV+DE+D++ + GF Q+ I
Sbjct: 147 SKKFDILVTTPNRLIYLLKQDPPGIDLASVEWLVVDESDKLFEDGKTGFRDQLASIFLAC 206
Query: 287 GMPRTGDRQTLMFSATFPKEIQ 308
+ + MFSATF +++
Sbjct: 207 TSHK---VRRAMFSATFAYDVE 225
>3oiy_A Reverse gyrase helicase domain; topoisomerase, DNA supercoiling,
archaea, isomeras; 2.35A {Thermotoga maritima} PDB:
3p4y_A 3p4x_A*
Length = 414
Score = 238 bits (610), Expect = 2e-76
Identities = 35/243 (14%), Positives = 64/243 (26%), Gaps = 69/243 (28%)
Query: 70 EIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPL 129
E + T Q+ I+ G+ A TG GKT ++ L +G
Sbjct: 8 EDFRSFFKKKFGKDLTGYQRLWAKRIVQGKSFTMVAPTGVGKTTFGMMTALWLA-RKGK- 65
Query: 130 PTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVRKKVFPLGLV 189
K ++ PT L Q + +K A
Sbjct: 66 -------------KS----ALVFPTVTLVKQTLERLQKLADEK----------------- 91
Query: 190 LAPTRELATQIYDEAKKFAYRSQLRPCVVYGGSNVGDQMRDLDR----GCHLLVATPGRL 245
++ Y ++ + H+LV + +
Sbjct: 92 -----------------------VKIFGFYSSMKKEEKEKFEKSFEEDDYHILVFSTQFV 128
Query: 246 VDMLERGKIGLANCRFLVLDEADRMLDMGFEPQIRCIVQENGMPRTGDRQTLMFSATFPK 305
R K+ F+ +D+ D +L ++ G+P + FS
Sbjct: 129 SK--NREKLSQKRFDFVFVDDVDAVLKASRNIDTLLMMV--GIPE--EIIRKAFSTIKQG 182
Query: 306 EIQ 308
+I
Sbjct: 183 KIY 185
>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 = 230 bits (588), Expect = 2e-75
Identities = 82/284 (28%), Positives = 126/284 (44%), Gaps = 60/284 (21%)
Query: 26 ESAPGSNPRVYVPPHLRNQPSGGRNSTDTFLLPLPPQFDDIQMTEIITNNIALARYDKPT 85
S + S S F D+ +T+++ + KPT
Sbjct: 8 SSGVDLGTENLYFQSMEEHDSPTEASQPIVEEEETKTFKDLGVTDVLCEACDQLGWTKPT 67
Query: 86 PVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVF 145
+Q AIP+ + GRD++ A+TGSGKT AF +PILN + E
Sbjct: 68 KIQIEAIPLALQGRDIIGLAETGSGKTGAFALPILNALLET------------------- 108
Query: 146 PLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVRKKVFPLGLVLAPTRELATQIYDEAK 205
+++F LVL PTRELA QI ++ +
Sbjct: 109 ----------------------------------PQRLF--ALVLTPTRELAFQISEQFE 132
Query: 206 KFAYRSQLRPCVVYGGSNVGDQMRDLDRGCHLLVATPGRLVDMLERGK-IGLANCRFLVL 264
++ V+ GG + Q L + H+++ATPGRL+D LE K L ++LV+
Sbjct: 133 ALGSSIGVQSAVIVGGIDSMSQSLALAKKPHIIIATPGRLIDHLENTKGFNLRALKYLVM 192
Query: 265 DEADRMLDMGFEPQIRCIVQENGMPRTGDRQTLMFSATFPKEIQ 308
DEADR+L+M FE ++ I++ +PR DR+T +FSAT K++Q
Sbjct: 193 DEADRILNMDFETEVDKILKV--IPR--DRKTFLFSATMTKKVQ 232
>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 = 220 bits (562), Expect = 1e-71
Identities = 68/250 (27%), Positives = 110/250 (44%), Gaps = 57/250 (22%)
Query: 60 PPQFDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPI 119
+F D +++ + A+Y T +QK I + + G+DV+ A+TGSGKT AFLVP+
Sbjct: 24 ITRFSDFPLSKKTLKGLQEAQYRLVTEIQKQTIGLALQGKDVLGAAKTGSGKTLAFLVPV 83
Query: 120 LNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVV 179
L +Y T G
Sbjct: 84 LEALYRLQWTSTDGLG-------------------------------------------- 99
Query: 180 RKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVYGGSNVGDQMRDLDRGCHLLV 239
L+++PTRELA Q ++ +K ++ GG ++ + + ++LV
Sbjct: 100 -------VLIISPTRELAYQTFEVLRKVGKNHDFSAGLIIGGKDLKHEAERI-NNINILV 151
Query: 240 ATPGRLVDMLERGK-IGLANCRFLVLDEADRMLDMGFEPQIRCIVQENGMPRTGDRQTLM 298
TPGRL+ ++ + + LVLDEADR+LDMGF + ++ +P+ RQTL+
Sbjct: 152 CTPGRLLQHMDETVSFHATDLQMLVLDEADRILDMGFADTMNAVI--ENLPKK--RQTLL 207
Query: 299 FSATFPKEIQ 308
FSAT K ++
Sbjct: 208 FSATQTKSVK 217
>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 = 215 bits (550), Expect = 4e-70
Identities = 80/246 (32%), Positives = 110/246 (44%), Gaps = 58/246 (23%)
Query: 63 FDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQ 122
F D + I + PTP+Q A+P+ + G+D++ A+TG+GKT AF +PI +
Sbjct: 3 FKDFPLKPEILEALHGRGLTTPTPIQAAALPLALEGKDLIGQARTGTGKTLAFALPIAER 62
Query: 123 MYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVRKK 182
LAP++E +
Sbjct: 63 ----------------------------LAPSQERGRK---------------------- 72
Query: 183 VFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVYGGSNVGDQMRDLDRGCHLLVATP 242
P LVL PTRELA Q+ E A L+ VYGG+ G Q L RG +VATP
Sbjct: 73 --PRALVLTPTRELALQVASELTAVA--PHLKVVAVYGGTGYGKQKEALLRGADAVVATP 128
Query: 243 GRLVDMLERGKIGLANCRFLVLDEADRMLDMGFEPQIRCIVQENGMPRTGDRQTLMFSAT 302
GR +D L +G + L+ VLDEAD ML MGFE ++ ++ P RQTL+FSAT
Sbjct: 129 GRALDYLRQGVLDLSRVEVAVLDEADEMLSMGFEEEVEALLSA--TPP--SRQTLLFSAT 184
Query: 303 FPKEIQ 308
P +
Sbjct: 185 LPSWAK 190
>1q0u_A Bstdead; DEAD protein, RNA binding protein; 1.85A {Geobacillus
stearothermophilus} SCOP: c.37.1.19
Length = 219
Score = 215 bits (550), Expect = 6e-70
Identities = 70/247 (28%), Positives = 107/247 (43%), Gaps = 55/247 (22%)
Query: 62 QFDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILN 121
QF I I R+ KPT +Q+ IP + G ++ +QTG+GKT A+L+PI+
Sbjct: 5 QFTRFPFQPFIIEAIKTLRFYKPTEIQERIIPGALRGESMVGQSQTGTGKTHAYLLPIME 64
Query: 122 QMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVRK 181
++ P R + ++ APTRELATQIY E K
Sbjct: 65 KIK--------------PERAE--VQAVITAPTRELATQIYHETLKIT------------ 96
Query: 182 KVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVYGGSNVGDQMRDLDRGCHLLVAT 241
K + + GG++ + L+ H+++ T
Sbjct: 97 -----------------------KFCPKDRMIVARCLIGGTDKQKALEKLNVQPHIVIGT 133
Query: 242 PGRLVDMLERGKIGLANCRFLVLDEADRMLDMGFEPQIRCIVQENGMPRTGDRQTLMFSA 301
PGR+ D + + + LV+DEAD MLDMGF + I MP+ D Q L+FSA
Sbjct: 134 PGRINDFIREQALDVHTAHILVVDEADLMLDMGFITDVDQIAAR--MPK--DLQMLVFSA 189
Query: 302 TFPKEIQ 308
T P++++
Sbjct: 190 TIPEKLK 196
>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 = 216 bits (552), Expect = 1e-69
Identities = 67/234 (28%), Positives = 110/234 (47%), Gaps = 56/234 (23%)
Query: 76 IALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAG 135
I + T +Q +I ++ GRD++A A+TGSGKT AFL+P + + + +P G
Sbjct: 69 IKEMGFTNMTEIQHKSIRPLLEGRDLLAAAKTGSGKTLAFLIPAVELIVKLRFMPRNGTG 128
Query: 136 RGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVRKKVFPLGLVLAPTRE 195
L+L+PTRE
Sbjct: 129 ---------------------------------------------------VLILSPTRE 137
Query: 196 LATQIYDEAKKFAYRSQLRPCVVYGGSNVGDQMRDLDRGCHLLVATPGRLVDMLERGK-I 254
LA Q + K+ ++ GGSN + + L G +++VATPGRL+D ++
Sbjct: 138 LAMQTFGVLKELMTHHVHTYGLIMGGSNRSAEAQKLGNGINIIVATPGRLLDHMQNTPGF 197
Query: 255 GLANCRFLVLDEADRMLDMGFEPQIRCIVQENGMPRTGDRQTLMFSATFPKEIQ 308
N + LV+DEADR+LD+GFE +++ I++ +P RQT++FSAT ++++
Sbjct: 198 MYKNLQCLVIDEADRILDVGFEEELKQIIKL--LPT--RRQTMLFSATQTRKVE 247
>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 = 222 bits (567), Expect = 1e-68
Identities = 68/294 (23%), Positives = 117/294 (39%), Gaps = 54/294 (18%)
Query: 22 SAKKESAPGSNPRVYVPPHLRNQPSGGRNSTDTFLLPLPPQFDDIQMTEIITNNIALARY 81
S + + + V+ ++ ++ + L ++ + + I I +
Sbjct: 33 SRPRTRSREDDDEVHFDKTTFSKLIHVPKEDNSKEVTLDSLLEEGVLDKEIHKAITRMEF 92
Query: 82 DKPTPVQKYAIPVIISG--RDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYP 139
TPVQ+ I I+S DV+A A+TG+GKT AFL+PI +
Sbjct: 93 PGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIFQHLINTKFDSQYMVK---- 148
Query: 140 SRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVRKKVFPLGLVLAPTRELATQ 199
+++APTR+LA QI E KK
Sbjct: 149 --------AVIVAPTRDLALQIEAEVKKIH------------------------------ 170
Query: 200 IYDEAKKFAYRSQLRPCVVYGGSNVGDQMRDLDR-GCHLLVATPGRLVDMLERGKIGLA- 257
+ + GG++ M +++ ++++ATPGRL+D+LE+
Sbjct: 171 -----DMNYGLKKYACVSLVGGTDFRAAMNKMNKLRPNIVIATPGRLIDVLEKYSNKFFR 225
Query: 258 NCRFLVLDEADRMLDMGFEPQIRCIVQ---ENGMPRTGDRQTLMFSATFPKEIQ 308
+ VLDEADR+L++GF + I E + +TL+FSAT ++Q
Sbjct: 226 FVDYKVLDEADRLLEIGFRDDLETISGILNEKNSKSADNIKTLLFSATLDDKVQ 279
>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 = 211 bits (539), Expect = 2e-68
Identities = 63/246 (25%), Positives = 118/246 (47%), Gaps = 58/246 (23%)
Query: 63 FDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQ 122
F+D + + I ++KP+P+Q+ +IP+ +SGRD++A A+ G+GK+ A+L+P+L +
Sbjct: 5 FEDYCLKRELLMGIFEMGWEKPSPIQEESIPIALSGRDILARAKNGTGKSGAYLIPLLER 64
Query: 123 MYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVRKK 182
+ + +V+ PTRELA Q+ + +
Sbjct: 65 L--------------DLKKDN--IQAMVIVPTRELALQVSQICIQVS------------- 95
Query: 183 VFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVYGGSNVGDQMRDLDRGCHLLVATP 242
+ + GG+N+ D + LD H+++ATP
Sbjct: 96 -------------------------KHMGGAKVMATTGGTNLRDDIMRLDDTVHVVIATP 130
Query: 243 GRLVDMLERGKIGLANCRFLVLDEADRMLDMGFEPQIRCIVQENGMPRTGDRQTLMFSAT 302
GR++D++++G + + + +VLDEAD++L F + I+ +P+ +RQ L++SAT
Sbjct: 131 GRILDLIKKGVAKVDHVQMIVLDEADKLLSQDFVQIMEDIILT--LPK--NRQILLYSAT 186
Query: 303 FPKEIQ 308
FP +Q
Sbjct: 187 FPLSVQ 192
>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 = 222 bits (567), Expect = 2e-68
Identities = 66/258 (25%), Positives = 106/258 (41%), Gaps = 54/258 (20%)
Query: 58 PLPPQFDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISG--RDVMACAQTGSGKTAAF 115
L ++ + + I I + TPVQ+ I I+S DV+A A+TG+GKT AF
Sbjct: 18 TLDSLLEEGVLDKEIHKAITRMEFPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFAF 77
Query: 116 LVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLR 175
L+PI + +++APTR+LA QI E KK
Sbjct: 78 LIPIFQHLINTKFDSQYMVK------------AVIVAPTRDLALQIEAEVKKIH------ 119
Query: 176 PCVVRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVYGGSNVGDQMRDLDR-G 234
+ + GG++ M +++
Sbjct: 120 -----------------------------DMNYGLKKYACVSLVGGTDFRAAMNKMNKLR 150
Query: 235 CHLLVATPGRLVDMLERGKIGLA-NCRFLVLDEADRMLDMGFEPQIRCIVQ---ENGMPR 290
++++ATPGRL+D+LE+ + VLDEADR+L++GF + I E
Sbjct: 151 PNIVIATPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLEIGFRDDLETISGILNEKNSKS 210
Query: 291 TGDRQTLMFSATFPKEIQ 308
+ +TL+FSAT ++Q
Sbjct: 211 ADNIKTLLFSATLDDKVQ 228
>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 = 216 bits (552), Expect = 6e-68
Identities = 75/264 (28%), Positives = 116/264 (43%), Gaps = 59/264 (22%)
Query: 45 PSGGRNSTDTFLLPLPPQFDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMAC 104
R TD L F+D + + I A ++KP+P+Q+ AIPV I+GRD++A
Sbjct: 5 SKDTRPQTDDVLNTKGNTFEDFYLKRELLMGIFEAGFEKPSPIQEEAIPVAITGRDILAR 64
Query: 105 AQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDE 164
A+ G+GKTAAF++P L ++ K L++ PTRELA Q
Sbjct: 65 AKNGTGKTAAFVIPTLEKV----------------KPKLNKIQALIMVPTRELALQTSQV 108
Query: 165 AKKFAYRSQLRPCVVRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVYGGSNV 224
+ + V GG+N+
Sbjct: 109 VRTLG------------------------KHCGISCM---------------VTTGGTNL 129
Query: 225 GDQMRDLDRGCHLLVATPGRLVDMLERGKIGLANCRFLVLDEADRMLDMGFEPQIRCIVQ 284
D + L+ H+LV TPGR++D+ R L++C ++DEAD+ML F+ I I+
Sbjct: 130 RDDILRLNETVHILVGTPGRVLDLASRKVADLSDCSLFIMDEADKMLSRDFKTIIEQILS 189
Query: 285 ENGMPRTGDRQTLMFSATFPKEIQ 308
+P Q+L+FSATFP ++
Sbjct: 190 F--LPP--THQSLLFSATFPLTVK 209
>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 = 211 bits (540), Expect = 4e-66
Identities = 75/248 (30%), Positives = 110/248 (44%), Gaps = 59/248 (23%)
Query: 61 PQFDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPIL 120
P FD + + E + I ++KP+ +Q+ AI II GRDV+A +Q+G+GKTA F + +L
Sbjct: 37 PTFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVL 96
Query: 121 NQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVR 180
+ + L+LAPTRELA QI ++
Sbjct: 97 QCL----------------DIQVRETQALILAPTRELAVQIQKGLLALGDYMNVQ----- 135
Query: 181 KKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVYGGSNVGDQMRDLDRGCHLLVA 240
A GG+NVG+ +R LD G H++
Sbjct: 136 --------CHA--------------------------CIGGTNVGEDIRKLDYGQHVVAG 161
Query: 241 TPGRLVDMLERGKIGLANCRFLVLDEADRMLDMGFEPQIRCIVQENGMPRTGDRQTLMFS 300
TPGR+ DM+ R + + LVLDEAD ML+ GF+ QI + + +P Q ++ S
Sbjct: 162 TPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRY--LP--PATQVVLIS 217
Query: 301 ATFPKEIQ 308
AT P EI
Sbjct: 218 ATLPHEIL 225
>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 = 205 bits (523), Expect = 3e-64
Identities = 65/228 (28%), Positives = 99/228 (43%), Gaps = 66/228 (28%)
Query: 81 YDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPS 140
+ T VQ IP+++ G++V+ A+TGSGKTAA+ +PIL E G
Sbjct: 14 FKNFTEVQSKTIPLMLQGKNVVVRAKTGSGKTAAYAIPIL----ELG------------- 56
Query: 141 RKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVRKKVFPLGLVLAPTRELATQI 200
LV+ PTREL Q+ + + V
Sbjct: 57 -----MKSLVVTPTRELTRQVASHIRDIGRYMDTK-------------VA---------- 88
Query: 201 YDEAKKFAYRSQLRPCVVYGGSNVGDQMRDLDRGCHLLVATPGRLVDMLERGKIGLANCR 260
VYGG Q+ + R ++VATPGRL+D+ +G I L++
Sbjct: 89 ----------------EVYGGMPYKAQINRV-RNADIVVATPGRLLDLWSKGVIDLSSFE 131
Query: 261 FLVLDEADRMLDMGFEPQIRCIVQENGMPRTGDRQTLMFSATFPKEIQ 308
+++DEAD M +MGF I+ I+ + + T +FSAT P+EI+
Sbjct: 132 IVIIDEADLMFEMGFIDDIKIILAQ--TSN--RKITGLFSATIPEEIR 175
>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 = 206 bits (526), Expect = 3e-64
Identities = 66/248 (26%), Positives = 105/248 (42%), Gaps = 60/248 (24%)
Query: 61 PQFDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPIL 120
+FDD+++ E + + +++P+ +Q+ AI II G DV+A AQ+G+GKT F + L
Sbjct: 21 YKFDDMELDENLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAAL 80
Query: 121 NQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVR 180
++ P L+LAPTRELA QI A+ ++
Sbjct: 81 QRI----------------DTSVKAPQALMLAPTRELALQIQKVVMALAFHMDIK----- 119
Query: 181 KKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVYGGSNVGDQMRDLDRGCHLLVA 240
V A GG++ + L R ++V
Sbjct: 120 --------VHA--------------------------CIGGTSFVEDAEGL-RDAQIVVG 144
Query: 241 TPGRLVDMLERGKIGLANCRFLVLDEADRMLDMGFEPQIRCIVQENGMPRTGDRQTLMFS 300
TPGR+ D ++R + + +LDEAD ML GF+ QI I +P Q ++ S
Sbjct: 145 TPGRVFDNIQRRRFRTDKIKMFILDEADEMLSSGFKEQIYQIFTL--LPP--TTQVVLLS 200
Query: 301 ATFPKEIQ 308
AT P ++
Sbjct: 201 ATMPNDVL 208
>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 = 200 bits (511), Expect = 6e-64
Identities = 75/249 (30%), Positives = 105/249 (42%), Gaps = 60/249 (24%)
Query: 61 PQFDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPIL 120
FDD+ + E + I ++KP+ +Q+ AI I G DV+A AQ+G+GKTA F + IL
Sbjct: 30 DNFDDMNLKESLLRGIYAYGFEKPSAIQQRAIIPCIKGYDVIAQAQSGTGKTATFAISIL 89
Query: 121 NQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVR 180
Q+ K+ LVLAPTRELA QI
Sbjct: 90 QQL--------------EIEFKE--TQALVLAPTRELAQQIQKVILALGDYMGAT----- 128
Query: 181 KKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVYGGSNVGDQMRDLD-RGCHLLV 239
A GG+NV ++M+ L H++V
Sbjct: 129 --------CHA--------------------------CIGGTNVRNEMQKLQAEAPHIVV 154
Query: 240 ATPGRLVDMLERGKIGLANCRFLVLDEADRMLDMGFEPQIRCIVQENGMPRTGDRQTLMF 299
TPGR+ DML R + + VLDEAD ML GF+ QI I Q+ + Q ++
Sbjct: 155 GTPGRVFDMLNRRYLSPKWIKMFVLDEADEMLSRGFKDQIYEIFQK--LNT--SIQVVLL 210
Query: 300 SATFPKEIQ 308
SAT P ++
Sbjct: 211 SATMPTDVL 219
>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 = 200 bits (510), Expect = 8e-64
Identities = 64/261 (24%), Positives = 105/261 (40%), Gaps = 60/261 (22%)
Query: 49 RNSTDTFLLPLPPQFDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTG 108
R T LL P F+ + ++ + + A +++P+PVQ AIP+ G D++ A++G
Sbjct: 12 RTRTGDVLLAEPADFESLLLSRPVLEGLRAAGFERPSPVQLKAIPLGRCGLDLIVQAKSG 71
Query: 109 SGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKF 168
+GKT F L+ + L+LAPTRE+A QI+
Sbjct: 72 TGKTCVFSTIALDSL--------------VLENLS--TQILILAPTREIAVQIHSVITAI 115
Query: 169 AYRSQLRPCVVRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVYGGSNVGDQM 228
L V GG+ +
Sbjct: 116 G--------------------------------------IKMEGLECHVFIGGTPLSQDK 137
Query: 229 RDLDRGCHLLVATPGRLVDMLERGKIGLANCRFLVLDEADRMLDMG-FEPQIRCIVQENG 287
L + CH+ V +PGR+ ++E + + R +LDEAD++L+ G F+ QI I
Sbjct: 138 TRL-KKCHIAVGSPGRIKQLIELDYLNPGSIRLFILDEADKLLEEGSFQEQINWIYSS-- 194
Query: 288 MPRTGDRQTLMFSATFPKEIQ 308
+P +Q L SAT+P+ +
Sbjct: 195 LPA--SKQMLAVSATYPEFLA 213
>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 = 199 bits (509), Expect = 9e-64
Identities = 68/248 (27%), Positives = 107/248 (43%), Gaps = 60/248 (24%)
Query: 61 PQFDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPIL 120
+FDD+++ E + + +++P+ +Q+ AI II G DV+A AQ+G+GKT F + L
Sbjct: 14 YKFDDMELDENLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAAL 73
Query: 121 NQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVR 180
++ S K P L+LAPTRELA QI A+ ++
Sbjct: 74 QRI--------------DTSVKA--PQALMLAPTRELALQIQKVVMALAFHMDIK----- 112
Query: 181 KKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVYGGSNVGDQMRDLDRGCHLLVA 240
V A GG++ + L R ++V
Sbjct: 113 --------VHA--------------------------CIGGTSFVEDAEGL-RDAQIVVG 137
Query: 241 TPGRLVDMLERGKIGLANCRFLVLDEADRMLDMGFEPQIRCIVQENGMPRTGDRQTLMFS 300
TPGR+ D ++R + + +LDEAD ML GF+ QI I +P Q ++ S
Sbjct: 138 TPGRVFDNIQRRRFRTDKIKMFILDEADEMLSSGFKEQIYQIFTL--LPP--TTQVVLLS 193
Query: 301 ATFPKEIQ 308
AT P ++
Sbjct: 194 ATMPNDVL 201
>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 = 205 bits (524), Expect = 1e-63
Identities = 73/249 (29%), Positives = 104/249 (41%), Gaps = 60/249 (24%)
Query: 61 PQFDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPIL 120
FDD+ ++E + I ++KP+ +Q+ AI I G DV+A AQ+G+GKTA F + IL
Sbjct: 40 DSFDDMNLSESLLRGIYAYGFEKPSAIQQRAILPCIKGYDVIAQAQSGTGKTATFAISIL 99
Query: 121 NQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVR 180
Q+ LVLAPTRELA QI
Sbjct: 100 QQI----------------ELDLKATQALVLAPTRELAQQIQKVVMALGDYMGAS----- 138
Query: 181 KKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVYGGSNVGDQMRDLDR-GCHLLV 239
A GG+NV +++ L H++V
Sbjct: 139 --------CHA--------------------------CIGGTNVRAEVQKLQMEAPHIIV 164
Query: 240 ATPGRLVDMLERGKIGLANCRFLVLDEADRMLDMGFEPQIRCIVQENGMPRTGDRQTLMF 299
TPGR+ DML R + + VLDEAD ML GF+ QI I Q+ + + Q ++
Sbjct: 165 GTPGRVFDMLNRRYLSPKYIKMFVLDEADEMLSRGFKDQIYDIFQK--LNS--NTQVVLL 220
Query: 300 SATFPKEIQ 308
SAT P ++
Sbjct: 221 SATMPSDVL 229
>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 = 203 bits (518), Expect = 3e-63
Identities = 67/247 (27%), Positives = 117/247 (47%), Gaps = 62/247 (25%)
Query: 63 FDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISGR-DVMACAQTGSGKTAAFLVPILN 121
F+++ +++ I N I ++KPT +Q IP+ ++ +++A A+TGSGKTA+F +P++
Sbjct: 8 FNELNLSDNILNAIRNKGFEKPTDIQMKVIPLFLNDEYNIVAQARTGSGKTASFAIPLIE 67
Query: 122 QMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVRK 181
+ + ++L PTRELA Q+ DE + L+
Sbjct: 68 LV--------------NENNG---IEAIILTPTRELAIQVADEIESLKGNKNLK------ 104
Query: 182 KVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVYGGSNVGDQMRDLDRGCHLLVAT 241
+ +YGG + Q++ L +++V T
Sbjct: 105 -------IAK--------------------------IYGGKAIYPQIKALKNA-NIVVGT 130
Query: 242 PGRLVDMLERGKIGLANCRFLVLDEADRMLDMGFEPQIRCIVQENGMPRTGDRQTLMFSA 301
PGR++D + RG + L N ++ +LDEAD ML+MGF + I+ + D++ L+FSA
Sbjct: 131 PGRILDHINRGTLNLKNVKYFILDEADEMLNMGFIKDVEKILNA--CNK--DKRILLFSA 186
Query: 302 TFPKEIQ 308
T P+EI
Sbjct: 187 TMPREIL 193
>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 = 197 bits (504), Expect = 5e-63
Identities = 63/248 (25%), Positives = 104/248 (41%), Gaps = 60/248 (24%)
Query: 63 FDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQ 122
F D + + I ++ P+ VQ IP I G DV+ A++G GKTA F++ L Q
Sbjct: 16 FRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQ 75
Query: 123 MYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVRKK 182
+ P + LV+ TRELA QI E ++F+
Sbjct: 76 L--------------EPVTGQ--VSVLVMCHTRELAFQISKEYERFS------------- 106
Query: 183 VFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVYGGSNVGDQMRDLDRGC-HLLVAT 241
Y ++ V +GG ++ L + C H++V T
Sbjct: 107 -------------------------KYMPNVKVAVFFGGLSIKKDEEVLKKNCPHIVVGT 141
Query: 242 PGRLVDMLERGKIGLANCRFLVLDEADRMLD-MGFEPQIRCIVQENGMPRTGDRQTLMFS 300
PGR++ + + L + + +LDE D+ML+ + ++ I + P ++Q +MFS
Sbjct: 142 PGRILALARNKSLNLKHIKHFILDECDKMLEQLDMRRDVQEIFRM--TPH--EKQVMMFS 197
Query: 301 ATFPKEIQ 308
AT KEI+
Sbjct: 198 ATLSKEIR 205
>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 = 200 bits (511), Expect = 6e-62
Identities = 64/248 (25%), Positives = 105/248 (42%), Gaps = 60/248 (24%)
Query: 63 FDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQ 122
F D + + I ++ P+ VQ IP I G DV+ A++G GKTA F++ L Q
Sbjct: 10 FRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQ 69
Query: 123 MYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVRKK 182
+ P +V LV+ TRELA QI E ++F+
Sbjct: 70 L--------------EPVTGQVS--VLVMCHTRELAFQISKEYERFS------------- 100
Query: 183 VFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVYGGSNVGDQMRDLDRGC-HLLVAT 241
Y ++ V +GG ++ L + C H++V T
Sbjct: 101 -------------------------KYMPNVKVAVFFGGLSIKKDEEVLKKNCPHIVVGT 135
Query: 242 PGRLVDMLERGKIGLANCRFLVLDEADRMLD-MGFEPQIRCIVQENGMPRTGDRQTLMFS 300
PGR++ + + L + + +LDE D+ML+ + ++ I + P ++Q +MFS
Sbjct: 136 PGRILALARNKSLNLKHIKHFILDECDKMLEQLDMRRDVQEIFRM--TPH--EKQVMMFS 191
Query: 301 ATFPKEIQ 308
AT KEI+
Sbjct: 192 ATLSKEIR 199
>3fho_A ATP-dependent RNA helicase DBP5; mRNA export, ATPase, translation
termination, binding, hydrolase, membrane, mRNA
transport; 2.80A {Schizosaccharomyces pombe}
Length = 508
Score = 186 bits (476), Expect = 1e-55
Identities = 51/225 (22%), Positives = 96/225 (42%), Gaps = 66/225 (29%)
Query: 87 VQKYAIPVIISG--RDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKV 144
+Q+ A+P+++S R+++ +Q+G+GKTAAF + +L+++
Sbjct: 145 IQEKALPLLLSNPPRNMIGQSQSGTGKTAAFALTMLSRV----------------DASVP 188
Query: 145 FPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVRKKVFPLGLVLAPTRELATQIYDEA 204
P + LAP+RELA QI D + ++++
Sbjct: 189 KPQAICLAPSRELARQIMDVVTEMGKYTEVKT---------------------------- 220
Query: 205 KKFAYRSQLRPCVVYGGSNVGDQMRDLDRGCHLLVATPGRLVDMLERGKIGLANCRFLVL 264
+G + +++ TPG ++D+++R ++ + + VL
Sbjct: 221 -------------AFGIK--DSVPKGAKIDAQIVIGTPGTVMDLMKRRQLDARDIKVFVL 265
Query: 265 DEADRMLDM-GFEPQIRCIVQENGMPRTGDRQTLMFSATFPKEIQ 308
DEAD MLD G Q I +PR + Q ++FSATF + ++
Sbjct: 266 DEADNMLDQQGLGDQSMRIKHL--LPR--NTQIVLFSATFSERVE 306
>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 = 178 bits (455), Expect = 2e-53
Identities = 52/250 (20%), Positives = 106/250 (42%), Gaps = 65/250 (26%)
Query: 63 FDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISG--RDVMACAQTGSGKTAAFLVPIL 120
F+++++ + + +++P+ +Q+ A+P++++ ++++A +Q+G+GKTAAF++ +L
Sbjct: 27 FEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVLAML 86
Query: 121 NQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVR 180
+Q+ +P L L+PT ELA Q ++
Sbjct: 87 SQV----------------EPANKYPQCLCLSPTYELALQTGKVIEQMG----------- 119
Query: 181 KKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVYGGSNVGDQMRDLDRGCHLLVA 240
+ +L+ G+ + + +++
Sbjct: 120 ---------------------------KFYPELKLAYAVRGNKLERGQK---ISEQIVIG 149
Query: 241 TPGRLVDMLERGK-IGLANCRFLVLDEADRMLD-MGFEPQIRCIVQENGMPRTGDRQTLM 298
TPG ++D + K I + VLDEAD M+ G + Q I + +PR + Q L+
Sbjct: 150 TPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRM--LPR--NCQMLL 205
Query: 299 FSATFPKEIQ 308
FSATF +
Sbjct: 206 FSATFEDSVW 215
>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 = 173 bits (441), Expect = 1e-52
Identities = 55/249 (22%), Positives = 108/249 (43%), Gaps = 65/249 (26%)
Query: 63 FDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISG--RDVMACAQTGSGKTAAFLVPIL 120
F+++++ + + +++P+ +Q+ A+P++++ ++++A +Q+G+GKTAAF++ +L
Sbjct: 94 FEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVLAML 153
Query: 121 NQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVR 180
+Q+ P+ K P L L+PT ELA Q ++
Sbjct: 154 SQV--------------EPANKY--PQCLCLSPTYELALQTGKVIEQMG----------- 186
Query: 181 KKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVYGGSNVGDQMRDLDRGCHLLVA 240
+ +L+ G+ + R +++
Sbjct: 187 ---------------------------KFYPELKLAYAVRGNKLE---RGQKISEQIVIG 216
Query: 241 TPGRLVDMLERGK-IGLANCRFLVLDEADRMLD-MGFEPQIRCIVQENGMPRTGDRQTLM 298
TPG ++D + K I + VLDEAD M+ G + Q I + +PR + Q L+
Sbjct: 217 TPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRM--LPR--NCQMLL 272
Query: 299 FSATFPKEI 307
FSATF +
Sbjct: 273 FSATFEDSV 281
>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 = 174 bits (444), Expect = 6e-52
Identities = 56/249 (22%), Positives = 105/249 (42%), Gaps = 66/249 (26%)
Query: 63 FDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISG--RDVMACAQTGSGKTAAFLVPIL 120
FD++ + + I ++ KP+ +Q+ A+P+++ R+++A +Q+G+GKTAAF + +L
Sbjct: 7 FDELGLAPELLKGIYAMKFQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAAFSLTML 66
Query: 121 NQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVR 180
++ + + P + LAP+RELA Q + ++
Sbjct: 67 TRV----------------NPEDASPQAICLAPSRELARQTLEVVQEMG----------- 99
Query: 181 KKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVYGGSNVGDQMRDLDRGCHLLVA 240
+ +V Q+ ++V
Sbjct: 100 ---------------------------KFTKITSQLIVPDSFEKNKQI-----NAQVIVG 127
Query: 241 TPGRLVDMLERGKIGLANCRFLVLDEADRMLDM-GFEPQIRCIVQENGMPRTGDRQTLMF 299
TPG ++D++ R + L + VLDEAD MLD G Q + + +P+ D Q ++F
Sbjct: 128 TPGTVLDLMRRKLMQLQKIKIFVLDEADNMLDQQGLGDQCIRVKRF--LPK--DTQLVLF 183
Query: 300 SATFPKEIQ 308
SATF ++
Sbjct: 184 SATFADAVR 192
>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 = 176 bits (448), Expect = 8e-52
Identities = 52/250 (20%), Positives = 106/250 (42%), Gaps = 65/250 (26%)
Query: 63 FDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISG--RDVMACAQTGSGKTAAFLVPIL 120
F+++++ + + +++P+ +Q+ A+P++++ ++++A +Q+G+GKTAAF++ +L
Sbjct: 94 FEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVLAML 153
Query: 121 NQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVR 180
+Q+ +P L L+PT ELA Q ++
Sbjct: 154 SQV----------------EPANKYPQCLCLSPTYELALQTGKVIEQMG----------- 186
Query: 181 KKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVYGGSNVGDQMRDLDRGCHLLVA 240
+ +L+ G+ + + +++
Sbjct: 187 ---------------------------KFYPELKLAYAVRGNKLERGQK---ISEQIVIG 216
Query: 241 TPGRLVDMLERGK-IGLANCRFLVLDEADRMLD-MGFEPQIRCIVQENGMPRTGDRQTLM 298
TPG ++D + K I + VLDEAD M+ G + Q I + +PR + Q L+
Sbjct: 217 TPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRM--LPR--NCQMLL 272
Query: 299 FSATFPKEIQ 308
FSATF +
Sbjct: 273 FSATFEDSVW 282
>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 = 73.3 bits (179), Expect = 9e-15
Identities = 33/223 (14%), Positives = 64/223 (28%), Gaps = 63/223 (28%)
Query: 83 KPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRK 142
+P Q+ + + TG GKT ++ I +
Sbjct: 9 QPRIYQEVIYAKCK-ETNCLIVLPTGLGKTLIAMM-IAEYRLTKYG-------------- 52
Query: 143 KVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVRKKVFPLGLVLAPTRELATQIYD 202
KV L+LAPT+ L Q +
Sbjct: 53 --------------------------------------GKV----LMLAPTKPLVLQHAE 70
Query: 203 EAKKFAYRSQLRPCVVYGGSNVGDQMRDLDRGCHLLVATPGRLVDMLERGKIGLANCRFL 262
++ + + G + ++ ++VATP + + L G+I L + +
Sbjct: 71 SFRRLFNLPPEKIVALTGEKSP-EERSKAWARAKVIVATPQTIENDLLAGRISLEDVSLI 129
Query: 263 VLDEADRMLDMGFEPQIRCIVQENGMPRTGDRQTLMFSATFPK 305
V DEA R + I + + + + +A+
Sbjct: 130 VFDEAHRAVGNYAYVFIAREYKR----QAKNPLVIGLTASPGS 168
>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 = 54.8 bits (132), Expect = 4e-09
Identities = 29/224 (12%), Positives = 69/224 (30%), Gaps = 66/224 (29%)
Query: 51 STDTFLLPLPPQFDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSG 110
+D+ + +++ + L Y Q + G++++ C TGSG
Sbjct: 7 GSDSGTMGSDSDEENVAARASPEPELQLRPY------QMEVAQPALEGKNIIICLPTGSG 60
Query: 111 KTA-AFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFA 169
KT A + + ++ +
Sbjct: 61 KTRVAVYI-AKD-HLDKKKKASE------------------------------------- 81
Query: 170 YRSQLRPCVVRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVYGGSNVGDQMR 229
KV +VL L Q++ + + + R + G + +
Sbjct: 82 ----------PGKV----IVLVNKVLLVEQLFRKEFQPFLKKWYRVIGLSGDTQLKISFP 127
Query: 230 DLDRGCHLLVATPGRLVDML------ERGKIGLANCRFLVLDEA 267
++ + C ++++T L + L E + L++ +++DE
Sbjct: 128 EVVKSCDIIISTAQILENSLLNLENGEDAGVQLSDFSLIIIDEC 171
>3tbk_A RIG-I helicase domain; DECH helicase, ATP binding, hydrolase; HET:
ANP; 2.14A {Mus musculus}
Length = 555
Score = 51.8 bits (123), Expect = 1e-07
Identities = 23/138 (16%), Positives = 47/138 (34%), Gaps = 10/138 (7%)
Query: 149 LVLAPTRELATQIYDEAKKFAYRSQLRPCVVRKKVFPLGLVLAPTRELATQIYDEAKKFA 208
++ APT T + + + PC + KV + A + Q ++
Sbjct: 23 IICAPTGCGKTFVS--LLICEHHLKKFPCGQKGKV----VFFANQIPVYEQQATVFSRYF 76
Query: 209 YRSQLRPCVVYGGSNVGDQMRDLDRGCHLLVATPGRLVDMLERGKIG-LANCRFLVLDEA 267
R + G ++ ++ + +++ TP LV+ L G I L+ ++ DE
Sbjct: 77 ERLGYNIASISGATSDSVSVQHIIEDNDIIILTPQILVNNLNNGAIPSLSVFTLMIFDEC 136
Query: 268 DRMLDMGFEPQIRCIVQE 285
I+
Sbjct: 137 HNTSK---NHPYNQIMFR 151
>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 = 51.5 bits (123), Expect = 2e-07
Identities = 21/119 (17%), Positives = 36/119 (30%), Gaps = 16/119 (13%)
Query: 188 LVLAPTRELATQIYDEAKKFAYRSQLRPCVVYGGSNVGDQMRDLDRGCHLLVATPGRLVD 247
LVL P+ K N+ +R + G + +T G+
Sbjct: 261 LVLNPSVAATLGFGAYMSK----------AHGIDPNIRTGVRTITTGAPVTYSTYGKF-- 308
Query: 248 MLERGKIGLANCRFLVLDEADRMLDMGFEPQIRCIVQENGMPRTGDRQTLMFSATFPKE 306
L G ++ DE D I ++ + G R ++ +AT P
Sbjct: 309 -LADGGCSGGAYDIIICDECHST-DSTTILGIGTVLDQ--AETAGARLVVLATATPPGS 363
>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 = 47.7 bits (112), Expect = 3e-06
Identities = 36/246 (14%), Positives = 61/246 (24%), Gaps = 60/246 (24%)
Query: 50 NSTDTFLLPLPPQFDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGS 109
D L + I + Y Q I+G++ + CA TGS
Sbjct: 221 EPDDNLSENLGSAAEGIGKPPPVYETKKARSY------QIELAQPAINGKNALICAPTGS 274
Query: 110 GKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFA 169
GKT ++ + ++ P K VF
Sbjct: 275 GKTFVSILICEH-HFQNMPAGRK--------AKVVF------------------------ 301
Query: 170 YRSQLRPCVVRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVYGGSNVGDQMR 229
LA + Q + K R + G + +
Sbjct: 302 --------------------LATKVPVYEQQKNVFKHHFERQGYSVQGISGENFSNVSVE 341
Query: 230 DLDRGCHLLVATPGRLVDMLERGKI-GLANCRFLVLDEADRMLDMGFEPQIRCIVQENGM 288
+ ++V TP LV+ E G + L+ ++ DE + E
Sbjct: 342 KVIEDSDIIVVTPQILVNSFEDGTLTSLSIFTLMIFDECHNTTGNHPYNVLMTRYLEQKF 401
Query: 289 PRTGDR 294
Sbjct: 402 NSASQL 407
>2ykg_A Probable ATP-dependent RNA helicase DDX58; hydrolase, innate
immunity; 2.50A {Homo sapiens} PDB: 3tmi_A*
Length = 696
Score = 47.3 bits (111), Expect = 4e-06
Identities = 32/198 (16%), Positives = 57/198 (28%), Gaps = 54/198 (27%)
Query: 83 KPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRK 142
KP Q + G++ + CA TG GKT L+ + ++ P +
Sbjct: 13 KPRNYQLELALPAMKGKNTIICAPTGCGKTFVSLLICEH-HLKKFP---------QGQKG 62
Query: 143 KVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVRKKVFPLGLVLAPTRELATQIYD 202
KV + A + Q
Sbjct: 63 KV-------------------------------------------VFFANQIPVYEQNKS 79
Query: 203 EAKKFAYRSQLRPCVVYGGSNVGDQMRDLDRGCHLLVATPGRLVDMLERGKIG-LANCRF 261
K+ R R + G + + + +++ TP LV+ L++G I L+
Sbjct: 80 VFSKYFERHGYRVTGISGATAENVPVEQIVENNDIIILTPQILVNNLKKGTIPSLSIFTL 139
Query: 262 LVLDEADRMLDMGFEPQI 279
++ DE I
Sbjct: 140 MIFDECHNTSKQHPYNMI 157
>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 = 45.2 bits (107), Expect = 2e-05
Identities = 18/84 (21%), Positives = 36/84 (42%), Gaps = 19/84 (22%)
Query: 86 PVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVF 145
P Q A+ + SG++++ T +GKT + ++ + + G K ++
Sbjct: 28 PPQAEAVEKVFSGKNLLLAMPTAAGKTLLAEMAMVREAIKGG--------------KSLY 73
Query: 146 PLGLVLAPTRELATQIYDEAKKFA 169
+ P R LA + Y+ KK+
Sbjct: 74 -----VVPLRALAGEKYESFKKWE 92
>2va8_A SSO2462, SKI2-type helicase; hydrolase, DNA repair, ATP-bindin
nucleotide-binding; 2.30A {Sulfolobus solfataricus}
Length = 715
Score = 44.3 bits (105), Expect = 3e-05
Identities = 18/85 (21%), Positives = 32/85 (37%), Gaps = 19/85 (22%)
Query: 86 PVQKYAIPVII-SGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKV 144
P Q A+ + G ++ + TGSGKT + I++ + + G K
Sbjct: 33 PPQTEAVKKGLLEGNRLLLTSPTGSGKTLIAEMGIISFLLKNG--------------GKA 78
Query: 145 FPLGLVLAPTRELATQIYDEAKKFA 169
+ + P R L + Y K +
Sbjct: 79 ----IYVTPLRALTNEKYLTFKDWE 99
>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 = 44.7 bits (105), Expect = 3e-05
Identities = 33/134 (24%), Positives = 50/134 (37%), Gaps = 37/134 (27%)
Query: 5 SNQNG------TGLEQQLAGLDLSAKKESAP-GSN-PRVYVPPHLRNQPSGGRNSTDTFL 56
S NG +G Q L GL+L+ +K AP G + R+ P + FL
Sbjct: 369 SLVNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQSRI---PFSERKLKFSNR----FL 421
Query: 57 ---LP-----LPPQFDDIQMTEIITNNIALARYDKPTPVQKYAIPV--IISGRDVMACAQ 106
P L P D I +++ NN++ D IPV G D+ +
Sbjct: 422 PVASPFHSHLLVPASDLIN-KDLVKNNVSFNAKD-------IQIPVYDTFDGSDL----R 469
Query: 107 TGSGKTAAFLVPIL 120
SG + +V +
Sbjct: 470 VLSGSISERIVDCI 483
Score = 35.0 bits (80), Expect = 0.036
Identities = 25/184 (13%), Positives = 60/184 (32%), Gaps = 51/184 (27%)
Query: 146 PLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVRKKVFP-LGLVL------APTRELA- 197
P+ L + E +I + + + + + +K+F + + L+
Sbjct: 1669 PVNLTIHFGGEKGKRIRENYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSA 1728
Query: 198 ---TQ---------IYDEAKK---------FA------YRSQLRPCVVYGGS-NVGDQMR 229
TQ +++ K FA Y + L ++ +
Sbjct: 1729 TQFTQPALTLMEKAAFEDLKSKGLIPADATFAGHSLGEY-AAL---ASLADVMSIESLVE 1784
Query: 230 DLDRGCHLLVATPGRLV-DMLERGKIGLANCRFLVLDEADRMLDMGFEPQIRCIVQENGM 288
+V G + + R ++G +N + ++ R+ + ++ +V+ G
Sbjct: 1785 --------VVFYRGMTMQVAVPRDELGRSNYGMIAIN-PGRVAASFSQEALQYVVERVG- 1834
Query: 289 PRTG 292
RTG
Sbjct: 1835 KRTG 1838
Score = 33.5 bits (76), Expect = 0.11
Identities = 14/47 (29%), Positives = 16/47 (34%), Gaps = 9/47 (19%)
Query: 263 VLDEADRML--DMGFEPQIRCIVQENGMPRTGDRQTLMFSATFPKEI 307
V + AD GF I IV N P T+ F K I
Sbjct: 1645 VWNRADNHFKDTYGFS--ILDIVINN--PVN---LTIHFGGEKGKRI 1684
>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 = 43.8 bits (102), Expect = 5e-05
Identities = 31/186 (16%), Positives = 53/186 (28%), Gaps = 54/186 (29%)
Query: 88 QKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPL 147
Q I+G++ + CA TGSGKT ++ + ++ P K VF
Sbjct: 12 QIELAQPAINGKNALICAPTGSGKTFVSILICEH-HFQNMPAGRK--------AKVVF-- 60
Query: 148 GLVLAPTRELATQIYDEAKKFAYRSQLRPCVVRKKVFPLGLVLAPTRELATQIYDEAKKF 207
LA + Q + K
Sbjct: 61 ------------------------------------------LATKVPVYEQQKNVFKHH 78
Query: 208 AYRSQLRPCVVYGGSNVGDQMRDLDRGCHLLVATPGRLVDMLERGKI-GLANCRFLVLDE 266
R + G + + + ++V TP LV+ E G + L+ ++ DE
Sbjct: 79 FERQGYSVQGISGENFSNVSVEKVIEDSDIIVVTPQILVNSFEDGTLTSLSIFTLMIFDE 138
Query: 267 ADRMLD 272
Sbjct: 139 CHNTTG 144
>2zj8_A DNA helicase, putative SKI2-type helicase; RECA fold, ATP-binding,
hydrolase, nucleotide- binding; 2.00A {Pyrococcus
furiosus} PDB: 2zj5_A* 2zj2_A 2zja_A*
Length = 720
Score = 43.7 bits (103), Expect = 6e-05
Identities = 31/212 (14%), Positives = 65/212 (30%), Gaps = 71/212 (33%)
Query: 56 LLPLPPQFDDIQMTEIITNNIALARYDKPTPVQKYAIPVII-SGRDVMACAQTGSGKTAA 114
L + + + + P Q A+ I G++ + T SGKT
Sbjct: 5 ELRVDERIKST---------LKERGIESFYPPQAEALKSGILEGKNALISIPTASGKTLI 55
Query: 115 FLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQL 174
+ +++++ +G K V+ + P + LA + + E + +
Sbjct: 56 AEIAMVHRILTQG-------------GKAVY-----IVPLKALAEEKFQEFQDWE----- 92
Query: 175 RPCVVRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVYGGSNVGDQMRDLDRG 234
+G LR + G + D+
Sbjct: 93 ----------KIG-------------------------LRVAMATGDYDSKDEWL---GK 114
Query: 235 CHLLVATPGRLVDMLERGKIGLANCRFLVLDE 266
+++AT + +L G + + + LV DE
Sbjct: 115 YDIIIATAEKFDSLLRHGSSWIKDVKILVADE 146
>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 = 41.1 bits (95), Expect = 4e-04
Identities = 35/223 (15%), Positives = 59/223 (26%), Gaps = 60/223 (26%)
Query: 50 NSTDTFLLPLPPQFDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGS 109
D L + I + Y Q I+G++ + CA TGS
Sbjct: 221 EPDDNLSENLGSAAEGIGKPPPVYETKKARSY------QIELAQPAINGKNALICAPTGS 274
Query: 110 GKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFA 169
GKT ++ + ++ P K VF
Sbjct: 275 GKTFVSILICEH-HFQNMPAGRK--------AKVVF------------------------ 301
Query: 170 YRSQLRPCVVRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVYGGSNVGDQMR 229
LA + Q + K R + G + +
Sbjct: 302 --------------------LATKVPVYEQQKNVFKHHFERQGYSVQGISGENFSNVSVE 341
Query: 230 DLDRGCHLLVATPGRLVDMLERGKI-GLANCRFLVLDEADRML 271
+ ++V TP LV+ E G + L+ ++ DE
Sbjct: 342 KVIEDSDIIVVTPQILVNSFEDGTLTSLSIFTLMIFDECHNTT 384
>3l9o_A ATP-dependent RNA helicase DOB1; REC-A fold,
winged-helix-turn-helix, antiparallel-coiled-COI domain,
ATP-binding, helicase, hydrolase; 3.39A {Saccharomyces
cerevisiae}
Length = 1108
Score = 40.6 bits (94), Expect = 6e-04
Identities = 20/56 (35%), Positives = 24/56 (42%), Gaps = 2/56 (3%)
Query: 58 PLPPQFDDIQMTEIITNNIALARYD-KPTPVQKYAIPVIISGRDVMACAQTGSGKT 112
LPP +D + E N A Y P Q AI I G V+ A T +GKT
Sbjct: 159 ALPPNYDYTPIAEHKRVNEA-RTYPFTLDPFQDTAISCIDRGESVLVSAHTSAGKT 213
>2xgj_A ATP-dependent RNA helicase DOB1; hydrolase-RNA complex, hydrolase,
tramp, exosome, DEAD, nucleotide-binding; HET: ADP;
2.90A {Saccharomyces cerevisiae}
Length = 1010
Score = 40.2 bits (93), Expect = 7e-04
Identities = 20/55 (36%), Positives = 24/55 (43%), Gaps = 2/55 (3%)
Query: 59 LPPQFDDIQMTEIITNNIALARYD-KPTPVQKYAIPVIISGRDVMACAQTGSGKT 112
LPP +D + E N A Y P Q AI I G V+ A T +GKT
Sbjct: 62 LPPNYDYTPIAEHKRVNEA-RTYPFTLDPFQDTAISCIDRGESVLVSAHTSAGKT 115
>4a15_A XPD helicase, ATP-dependent DNA helicase TA0057; hydrolase,
nucleotide excision repair,; 2.20A {Thermoplasma
acidophilum} PDB: 2vsf_A*
Length = 620
Score = 38.1 bits (89), Expect = 0.003
Identities = 24/144 (16%), Positives = 43/144 (29%), Gaps = 24/144 (16%)
Query: 94 VIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAP 153
+ V + TGSGKT L L ER + KV L
Sbjct: 18 SLQKSYGVALESPTGSGKTIMALKSALQYSSER--------------KLKVL----YLVR 59
Query: 154 TRELATQIYDEAKKFAYRSQLRPCVV--RKKVFPLGLVLAPTRELATQIYDEAKKFAYRS 211
T Q+ E + + ++R + R + L ++ E+ + + R
Sbjct: 60 TNSQEEQVIKELRSLSSTMKIRAIPMQGRVNMCILYRMVDDLHEINAESLAKFCNMKKRE 119
Query: 212 QLRP----CVVYGGSNVGDQMRDL 231
+ C + D+ +
Sbjct: 120 VMAGNEAACPYFNFKIRSDETKRF 143
>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 = 35.2 bits (81), Expect = 0.026
Identities = 16/77 (20%), Positives = 27/77 (35%), Gaps = 18/77 (23%)
Query: 86 PVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVF 145
P + + R + G+GKT L I+ + R +
Sbjct: 7 PDYEVDEDIFRKKRLTIMDLHPGAGKTKRILPSIVREALLRR--------------LRT- 51
Query: 146 PLGLVLAPTRELATQIY 162
L+LAPTR +A ++
Sbjct: 52 ---LILAPTRVVAAEME 65
Score = 27.1 bits (60), Expect = 8.6
Identities = 20/122 (16%), Positives = 38/122 (31%), Gaps = 26/122 (21%)
Query: 188 LVLAPTRELATQIYDEAKKFAYRSQLRPCVVYGGSNVGDQMRDLDRGCHLLVATPGRLVD 247
L+LAPTR +A ++ + + + Y V + + +
Sbjct: 52 LILAPTRVVAAEMEEALRGLP--------IRYQTPAVKSDHTGREI---VDLMCHATFTT 100
Query: 248 MLERGKIGLANCRFLVLDEA-----DRMLDMGFEPQIRCIVQENGMPRTGDRQTLMFSAT 302
L + N +V+DEA + G+ G+ + +AT
Sbjct: 101 RLLSST-RVPNYNLIVMDEAHFTDPCSVAARGYISTRV---------EMGEAAAIFMTAT 150
Query: 303 FP 304
P
Sbjct: 151 PP 152
>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 = 34.0 bits (78), Expect = 0.051
Identities = 17/71 (23%), Positives = 28/71 (39%), Gaps = 18/71 (25%)
Query: 94 VIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAP 153
++ G + G+GKT FL IL + R + LVLAP
Sbjct: 4 MLKKGMTTVLDFHPGAGKTRRFLPQILAECARRR--------------LRT----LVLAP 45
Query: 154 TRELATQIYDE 164
TR + +++ +
Sbjct: 46 TRVVLSEMKEA 56
Score = 32.5 bits (74), Expect = 0.15
Identities = 20/126 (15%), Positives = 39/126 (30%), Gaps = 34/126 (26%)
Query: 188 LVLAPTRELATQIYDEAKKFAYRSQLRPCVVYGGSNVGDQMRDL-DRGCH---LLVATPG 243
LVLAPTR + +++ + G +V + G +
Sbjct: 41 LVLAPTRVVLSEM---------------KEAFHGLDVKFHTQAFSAHGSGREVIDAMCHA 85
Query: 244 RLVDMLERGKIGLANCRFLVLDE-----ADRMLDMGFEPQIRCIVQENGMPRTGDRQTLM 298
L + + N +++DE + G+ R + T++
Sbjct: 86 TLTYRMLEP-TRVVNWEVIIMDEAHFLDPASIAARGWAAHRA---------RANESATIL 135
Query: 299 FSATFP 304
+AT P
Sbjct: 136 MTATPP 141
>3qe2_A CPR, P450R, NADPH--cytochrome P450 reductase; cypor, antley-bixler
syndrome, flavoprotein, FMN, FAD, oxidoreductase; HET:
FAD FMN NAP; 1.75A {Homo sapiens} PDB: 3qfc_A* 3qfr_A*
1amo_A* 1j9z_A* 1ja0_A* 1ja1_A* 3es9_A* 3ojw_A* 3ojx_A*
3fjo_A* 1b1c_A*
Length = 618
Score = 32.7 bits (75), Expect = 0.17
Identities = 13/80 (16%), Positives = 27/80 (33%), Gaps = 9/80 (11%)
Query: 194 RELATQIYDEAKKFAYRSQLRPCVVYGGSNVGDQMRDLDRGCHLLVATPG---------R 244
E A ++ +A ++ R Y +++ + +AT G
Sbjct: 33 EEFANRLSKDAHRYGMRGMSADPEEYDLADLSSLPEIDNALVVFCMATYGEGDPTDNAQD 92
Query: 245 LVDMLERGKIGLANCRFLVL 264
D L+ + L+ +F V
Sbjct: 93 FYDWLQETDVDLSGVKFAVF 112
>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 = 32.5 bits (74), Expect = 0.17
Identities = 17/88 (19%), Positives = 25/88 (28%), Gaps = 26/88 (29%)
Query: 83 KPTPVQKYAIPVIISGRDVMACAQTGSGKT--AAFLVPILNQMYERGPLPTPPAGRGYPS 140
Q+ A+ + + TGSGKT A + L
Sbjct: 93 SLRDYQEKALERWLVDKRGCIVLPTGSGKTHVAMAAINEL-------------------- 132
Query: 141 RKKVFPLGLVLAPTRELATQIYDEAKKF 168
L++ PT LA Q + F
Sbjct: 133 STPT----LIVVPTLALAEQWKERLGIF 156
Score = 32.5 bits (74), Expect = 0.19
Identities = 16/93 (17%), Positives = 26/93 (27%), Gaps = 23/93 (24%)
Query: 177 CVVRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVYGGSNVGDQMRDLDRGCH 236
+ L++ PT LA Q + F + G +
Sbjct: 130 NELSTPT----LIVVPTLALAEQWKERLGIFG----EEYVGEFSG--------RIKELKP 173
Query: 237 LLVATPGRLVDMLER--GKIGLANCRFLVLDEA 267
L V+T E+ + L L+ DE
Sbjct: 174 LTVSTYDSAYVNAEKLGNRFML-----LIFDEV 201
>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 = 32.7 bits (75), Expect = 0.18
Identities = 23/102 (22%), Positives = 36/102 (35%), Gaps = 31/102 (30%)
Query: 83 KPTPVQKYAIPVIISGRDVMACAQTGSGKT------AAFLVPILNQMYERGPLPTPPAGR 136
+P +QK I+ A A TG GKT + FL A +
Sbjct: 56 EPRAIQKMWAKRILRKESFAATAPTGVGKTSFGLAMSLFL-----------------ALK 98
Query: 137 GYPSRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCV 178
G K+ V+ PT L Q + +K+A ++ +
Sbjct: 99 G----KRC----YVIFPTSLLVIQAAETIRKYAEKAGVGTEN 132
Score = 32.0 bits (73), Expect = 0.28
Identities = 22/143 (15%), Positives = 47/143 (32%), Gaps = 29/143 (20%)
Query: 180 RKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPC--VVYGGSNVG----DQMRDLDR 233
K+ V+ PT L Q + +K+A ++ + + Y + + R
Sbjct: 99 GKRC----YVIFPTSLLVIQAAETIRKYAEKAGVGTENLIGYYHGRIPKREKENFMQNLR 154
Query: 234 GCHLLVATPGRLVDMLERGKIGLANCRFLVLDEADRMLD-----------MGFEPQIRCI 282
+++ T L L + F+ +D+ D +L +GF ++
Sbjct: 155 NFKIVITTTQFLSKHYRE----LGHFDFIFVDDVDAILKASKNVDKLLHLLGFHYDLK-- 208
Query: 283 VQENGMPRTGDRQTLMFSATFPK 305
++ +AT K
Sbjct: 209 --TKSWVGEARGCLMVSTATAKK 229
>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 = 31.7 bits (72), Expect = 0.26
Identities = 18/83 (21%), Positives = 28/83 (33%), Gaps = 26/83 (31%)
Query: 82 DKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSR 141
P ++K + V+ GSGKT L I+ R
Sbjct: 13 GSPNMLRKRQMTVLD--------LHPGSGKTRKILPQIIKD--------------AIQQR 50
Query: 142 KKVFPLGLVLAPTRELATQIYDE 164
+ VLAPTR +A ++ +
Sbjct: 51 LRT----AVLAPTRVVAAEMAEA 69
Score = 31.7 bits (72), Expect = 0.33
Identities = 20/122 (16%), Positives = 34/122 (27%), Gaps = 26/122 (21%)
Query: 188 LVLAPTRELATQIYDEAKKFAYRSQLRPCVVYGGSNVGDQMRDLDRGCHLLVATPGRLVD 247
VLAPTR +A ++ + + R+ + V L
Sbjct: 54 AVLAPTRVVAAEMAEALRGLPV-----------RYQTSAVQREHQGNEIVDVMCHATLTH 102
Query: 248 MLERGKIGLANCRFLVLDE-----ADRMLDMGFEPQIRCIVQENGMPRTGDRQTLMFSAT 302
L + N V+DE + G+ G+ + +AT
Sbjct: 103 RLMSPN-RVPNYNLFVMDEAHFTDPASIAARGYIATKV---------ELGEAAAIFMTAT 152
Query: 303 FP 304
P
Sbjct: 153 PP 154
>2v6i_A RNA helicase; membrane, hydrolase, transmembrane, RNA replication,
viral replication, nucleotide-binding; 2.10A {Kokobera
virus} PDB: 2v6j_A
Length = 431
Score = 31.3 bits (71), Expect = 0.35
Identities = 22/123 (17%), Positives = 43/123 (34%), Gaps = 28/123 (22%)
Query: 188 LVLAPTRELATQIYDEAKKFAYRSQLRPCVVYGGSNVGDQMRDLDRGCHLL-VATPGRLV 246
++LAPTR +A+++Y LR + + ++ G ++
Sbjct: 35 VILAPTRVVASEMY---------EALRGEPIR---YMTPAVQSERTGNEIVDFMCHSTFT 82
Query: 247 DMLERGKIGLANCRFLVLDEA-----DRMLDMGFEPQIRCIVQENGMPRTGDRQTLMFSA 301
L +G + + N ++DEA + G+ GD + +A
Sbjct: 83 MKLLQG-VRVPNYNLYIMDEAHFLDPASVAARGYIETRV---------SMGDAGAIFMTA 132
Query: 302 TFP 304
T P
Sbjct: 133 TPP 135
Score = 30.2 bits (68), Expect = 0.84
Identities = 12/57 (21%), Positives = 23/57 (40%), Gaps = 18/57 (31%)
Query: 105 AQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQI 161
G+GKT L ++ + R + ++LAPTR +A+++
Sbjct: 9 LHPGAGKTRRVLPQLVRE--------------AVKKRLRT----VILAPTRVVASEM 47
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna;
HET: CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 30.3 bits (67), Expect = 0.39
Identities = 8/21 (38%), Positives = 9/21 (42%), Gaps = 1/21 (4%)
Query: 13 EQQLAGLDLSAKKESAPGSNP 33
+Q L L S K A S P
Sbjct: 19 KQALKKLQASLKL-YADDSAP 38
>4a4z_A Antiviral helicase SKI2; hydrolase, ATPase, mRNA degradation,
exosome; HET: ANP; 2.40A {Saccharomyces cerevisiae} PDB:
4a4k_A
Length = 997
Score = 31.4 bits (70), Expect = 0.43
Identities = 10/28 (35%), Positives = 13/28 (46%)
Query: 86 PVQKYAIPVIISGRDVMACAQTGSGKTA 113
QK A+ + G V A T +GKT
Sbjct: 42 TFQKEAVYHLEQGDSVFVAAHTSAGKTV 69
>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 = 31.4 bits (71), Expect = 0.44
Identities = 23/122 (18%), Positives = 36/122 (29%), Gaps = 26/122 (21%)
Query: 188 LVLAPTRELATQIYDEAKKFAYRSQLRPCVVYGGSNVGDQMRDLDRGCHLLVATPGRLVD 247
VLAPTR +A ++ LR V R+ + V L
Sbjct: 274 AVLAPTRVVAAEMA---------EALRGLPVRY--LTPAVQREHSGNEIVDVMCHATLTH 322
Query: 248 MLERGKIGLANCRFLVLDE-----ADRMLDMGFEPQIRCIVQENGMPRTGDRQTLMFSAT 302
L + + N V+DE + G+ G+ + +AT
Sbjct: 323 RLMS-PLRVPNYNLFVMDEAHFTDPASIAARGYIATRV---------EAGEAAAIFMTAT 372
Query: 303 FP 304
P
Sbjct: 373 PP 374
>3h1t_A Type I site-specific restriction-modification system, R
(restriction) subunit; hydrolase, restriction enzyme
HSDR, ATP-binding; 2.30A {Vibrio vulnificus}
Length = 590
Score = 30.9 bits (70), Expect = 0.56
Identities = 20/96 (20%), Positives = 30/96 (31%), Gaps = 25/96 (26%)
Query: 83 KPTPVQKYAIP----VIISGRD----VMACAQTGSGKT--AAFLVPILNQMYERGPLPTP 132
P Q+ AI ++ G+ MA TG+GKT A + L
Sbjct: 178 SPRYYQQIAINRAVQSVLQGKKRSLITMA---TGTGKTVVAFQISWKL--------WSAR 226
Query: 133 PAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKF 168
G + ++ L LA L D+
Sbjct: 227 WNRTGDYRKPRI----LFLADRNVLVDDPKDKTFTP 258
>2whx_A Serine protease/ntpase/helicase NS3; transcription, hydrolase,
ATP-binding, reticulum, nucleotidyltransferase,
multifunctional enzyme; HET: ADP; 2.20A {Dengue virus 4}
PDB: 2vbc_A 2wzq_A
Length = 618
Score = 30.3 bits (68), Expect = 0.94
Identities = 20/124 (16%), Positives = 36/124 (29%), Gaps = 30/124 (24%)
Query: 188 LVLAPTRELATQIYDE--AKKFAYRSQLRPCVVYGGSNVGDQMRDLDRGCHLLVATPGRL 245
L+LAPTR +A ++ + Y++ G V +
Sbjct: 219 LILAPTRVVAAEMEEALRGLPIRYQTPAVKSDHTGREIV-------------DLMCHATF 265
Query: 246 VDMLERGKIGLANCRFLVLDE-----ADRMLDMGFEPQIRCIVQENGMPRTGDRQTLMFS 300
L + N +V+DE + G+ G+ + +
Sbjct: 266 TTRLLS-STRVPNYNLIVMDEAHFTDPCSVAARGYISTRV---------EMGEAAAIFMT 315
Query: 301 ATFP 304
AT P
Sbjct: 316 ATPP 319
Score = 29.5 bits (66), Expect = 1.4
Identities = 16/82 (19%), Positives = 28/82 (34%), Gaps = 18/82 (21%)
Query: 83 KPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRK 142
P + + R + G+GKT L I+ + R
Sbjct: 171 IGEPDYEVDEDIFRKKRLTIMDLHPGAGKTKRILPSIVRE--------------ALKRRL 216
Query: 143 KVFPLGLVLAPTRELATQIYDE 164
+ L+LAPTR +A ++ +
Sbjct: 217 RT----LILAPTRVVAAEMEEA 234
>2gk3_A Putative cytoplasmic protein; STM3548, structural genomics, PSI, P
structure initiative; 2.25A {Salmonella typhimurium}
SCOP: c.23.16.9
Length = 256
Score = 29.8 bits (66), Expect = 1.0
Identities = 20/114 (17%), Positives = 38/114 (33%), Gaps = 9/114 (7%)
Query: 7 QNGTGLEQQLAGLDLSAKKESAPGSNPRVYVPPHLRNQPSGGRNSTDTFLLPLPPQFDDI 66
+NG GL + G LS A + + L P + D P + +
Sbjct: 116 KNGGGL--LMIGGYLSFMGIEAKANYKNTVLAEVL---PVIMLDGDDRVEKPEGICAEAV 170
Query: 67 QMTEIITNNIA----LARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFL 116
+ N + Y++ + + I+ ++ + GKTA F+
Sbjct: 171 SPEHPVVNGFSDYPVFLGYNQAVARDDADVVLTINNDPLLVFGEYQQGKTACFM 224
>3crv_A XPD/RAD3 related DNA helicase; XPD helicase DNA repair cancer
aging, hydrolase; HET: FLC; 2.00A {Sulfolobus
acidocaldarius} PDB: 3crw_1*
Length = 551
Score = 30.0 bits (67), Expect = 1.1
Identities = 18/97 (18%), Positives = 27/97 (27%), Gaps = 26/97 (26%)
Query: 83 KPTPVQK-YAIPV---IISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGY 138
K Q+ V + + V A TGSGKT L+ L +
Sbjct: 3 KLRDWQEKLKDKVIEGLRNNFLVALNAPTGSGKTLFSLLVSLEVKPK------------- 49
Query: 139 PSRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLR 175
L + T IY + K + +
Sbjct: 50 ---------VLFVVRTHNEFYPIYRDLTKIREKRNIT 77
>3mcm_A 2-amino-4-hydroxy-6-hydroxymethyldihydropteridine
pyrophosphokinase/dihydropteroate...; folate, TIM
barrel, synthase, HPPK, DHPS; 2.20A {Francisella
tularensis subsp} PDB: 3mcn_A* 3mco_A*
Length = 442
Score = 29.7 bits (67), Expect = 1.2
Identities = 5/34 (14%), Positives = 13/34 (38%)
Query: 210 RSQLRPCVVYGGSNVGDQMRDLDRGCHLLVATPG 243
S + ++ G+N G + ++ L +
Sbjct: 18 GSHMVQYIIGIGTNSGFTIENIHLAITALESQQN 51
>2vl7_A XPD; helicase, unknown function; 2.25A {Sulfolobus tokodaii}
Length = 540
Score = 29.6 bits (66), Expect = 1.5
Identities = 16/78 (20%), Positives = 25/78 (32%), Gaps = 22/78 (28%)
Query: 95 IISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPT 154
+ G+ ++ A+ G GKT V G +KKV + T
Sbjct: 23 LKHGKTLLLNAKPGLGKTVFVEVL------------------GMQLKKKVL----IFTRT 60
Query: 155 RELATQIYDEAKKFAYRS 172
IY AK ++
Sbjct: 61 HSQLDSIYKNAKLLGLKT 78
>2d7d_A Uvrabc system protein B; helicase, protein-DNA-ADP ternary complex,
hydrolase/DNA complex; HET: ADP; 2.10A {Bacillus
subtilis} PDB: 2nmv_A* 2fdc_A* 1t5l_A 3uwx_B 1d9z_A*
1d9x_A 2d7d_B* 2nmv_B*
Length = 661
Score = 28.7 bits (65), Expect = 2.6
Identities = 19/64 (29%), Positives = 28/64 (43%), Gaps = 26/64 (40%)
Query: 107 TGSGKTA--AFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDE 164
TG+GKT + L+ +N+ PT LV+A + LA Q+Y E
Sbjct: 41 TGTGKTFTVSNLIKEVNK-------PT-----------------LVIAHNKTLAGQLYSE 76
Query: 165 AKKF 168
K+F
Sbjct: 77 FKEF 80
Score = 27.9 bits (63), Expect = 5.5
Identities = 10/20 (50%), Positives = 14/20 (70%)
Query: 188 LVLAPTRELATQIYDEAKKF 207
LV+A + LA Q+Y E K+F
Sbjct: 61 LVIAHNKTLAGQLYSEFKEF 80
>1c4o_A DNA nucleotide excision repair enzyme UVRB; uvrabc, helicase,
hypertherm protein, replication; HET: DNA BOG; 1.50A
{Thermus thermophilus} SCOP: c.37.1.19 c.37.1.19 PDB:
1d2m_A*
Length = 664
Score = 28.7 bits (65), Expect = 2.8
Identities = 17/64 (26%), Positives = 25/64 (39%), Gaps = 26/64 (40%)
Query: 107 TGSGKTA--AFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDE 164
TG+GKT A ++ L + P LVLAP + LA Q+ E
Sbjct: 37 TGTGKTVTMAKVIEALGR-------PA-----------------LVLAPNKILAAQLAAE 72
Query: 165 AKKF 168
++
Sbjct: 73 FREL 76
Score = 27.9 bits (63), Expect = 5.3
Identities = 9/20 (45%), Positives = 13/20 (65%)
Query: 188 LVLAPTRELATQIYDEAKKF 207
LVLAP + LA Q+ E ++
Sbjct: 57 LVLAPNKILAAQLAAEFREL 76
>1rif_A DAR protein, DNA helicase UVSW; bacteriophage, RECG, SF2, DNA
binding protein; HET: DNA; 2.00A {Enterobacteria phage
T4} SCOP: c.37.1.23
Length = 282
Score = 28.1 bits (61), Expect = 3.4
Identities = 17/89 (19%), Positives = 34/89 (38%), Gaps = 6/89 (6%)
Query: 188 LVLAPTRELATQIYDEAKKFAYRSQLRPCVVYGGSNVGDQMRDLDRGCHLLVATPGRLVD 247
L++ PT L TQ+ D+ + S + GG++ D+ ++ ++V T +V
Sbjct: 161 LIIVPTTALTTQMADDFVDYRLFSHAMIKKIGGGASKDDKYKN---DAPVVVGTWQTVVK 217
Query: 248 MLERGKIGLANCRFLVLDEADRMLDMGFE 276
K + ++ DE
Sbjct: 218 Q---PKEWFSQFGMMMNDECHLATGKSIS 243
>1e9r_A Conjugal transfer protein TRWB; coupling protein, bacterial
conjugation, F1-ATPase-like quaternary structure, ring
helicases; 2.4A {Escherichia coli} SCOP: c.37.1.11 PDB:
1e9s_A 1gki_A* 1gl7_A* 1gl6_A*
Length = 437
Score = 28.3 bits (63), Expect = 3.8
Identities = 10/48 (20%), Positives = 18/48 (37%), Gaps = 3/48 (6%)
Query: 82 DKPTPVQKYAIPVIISGRD--VMACAQTGSGKTAAFLVPILNQMYERG 127
+K V +P+ ++ TG+GK+ L + RG
Sbjct: 35 EKAKQVTVAGVPMPRDAEPRHLLVNGATGTGKS-VLLRELAYTGLLRG 81
>2bmb_A Folic acid synthesis protein FOL1; folate biosynthesis,
transferase, ligase, multifunctional enzyme; HET: PMM;
2.3A {Saccharomyces cerevisiae}
Length = 545
Score = 28.2 bits (63), Expect = 3.9
Identities = 7/23 (30%), Positives = 11/23 (47%)
Query: 221 GSNVGDQMRDLDRGCHLLVATPG 243
GSN+GD+ + + LL
Sbjct: 26 GSNIGDRFKHIQMALQLLSREKT 48
>3v98_A Arachidonate 5-lipoxygenase; dioxygenase, oxidoreductase; 2.07A
{Homo sapiens} PDB: 3v99_A* 3o8y_A 3v92_B
Length = 691
Score = 28.3 bits (62), Expect = 4.2
Identities = 10/55 (18%), Positives = 24/55 (43%), Gaps = 9/55 (16%)
Query: 30 GSNPRVYV---------PPHLRNQPSGGRNSTDTFLLPLPPQFDDIQMTEIITNN 75
G++ +Y+ HL ++ S R + D++ + + + +IQ+ I
Sbjct: 37 GTDDYIYLSLVGSAGCSEKHLLDKGSFERGAVDSYDVTVDEELGEIQLVRIEKRK 91
>3soz_A ORF 245 protein, cytoplasmic protein STM1381; structural genomics,
PSI-biology, midwest center for structu genomics, MCSG;
2.60A {Salmonella enterica subsp}
Length = 248
Score = 27.1 bits (59), Expect = 7.2
Identities = 16/111 (14%), Positives = 29/111 (26%), Gaps = 3/111 (2%)
Query: 7 QNGTGLEQQLAGLDLSAKKESAPGSNPRVYVPPHLRNQPSGGRNSTDTFLLPLPPQFDDI 66
G GL + G LS A + + L + +
Sbjct: 109 AEGGGL--LMIGGYLSFTGIEAKANYKNTVLAEVLPVDMLDVDDRVELPQGCKAVNTAVE 166
Query: 67 QMTEIITNNIA-LARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFL 116
+ + L Y+K + + I+G ++ GK F
Sbjct: 167 HVITQPFSEWPPLLGYNKLIAKENSQVLAEINGDPLLVMGTYHKGKVCCFA 217
>2fz4_A DNA repair protein RAD25; RECA-like domain, DNA damage recognition
domain, DNA binding; HET: DNA; 2.40A {Archaeoglobus
fulgidus} SCOP: c.37.1.19
Length = 237
Score = 26.9 bits (60), Expect = 7.3
Identities = 16/86 (18%), Positives = 25/86 (29%), Gaps = 22/86 (25%)
Query: 83 KPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRK 142
Q+ A+ + + TGSGKT + + E
Sbjct: 93 SLRDYQEKALERWLVDKRGCIVLPTGSGKT----HVAMAAINELS--------------T 134
Query: 143 KVFPLGLVLAPTRELATQIYDEAKKF 168
L++ PT LA Q + F
Sbjct: 135 PT----LIVVPTLALAEQWKERLGIF 156
>3kio_B Ribonuclease H2 subunit B; aicardi-goutieres syndrome, RNAse H2,
protein complex, autoimmune disease, endonuclease,
hydrolase, metal-binding; 2.90A {Mus musculus} PDB:
3p5j_B 3puf_B 3p56_B
Length = 332
Score = 27.1 bits (59), Expect = 7.7
Identities = 8/58 (13%), Positives = 18/58 (31%)
Query: 3 YESNQNGTGLEQQLAGLDLSAKKESAPGSNPRVYVPPHLRNQPSGGRNSTDTFLLPLP 60
+ +Q+ LE G + + V++ P S + + + L
Sbjct: 8 HHHSQDPNSLEVLFQGPMAGGRDRGDLAARQLVFLLPEHLKDASKKKKKSSLLFVKLA 65
>3u4q_A ATP-dependent helicase/nuclease subunit A; helicase, nuclease,
double strand DNA repair, protein-DNA CO hydrolase-DNA
complex; HET: DNA; 2.80A {Bacillus subtilis} PDB:
3u44_A*
Length = 1232
Score = 27.2 bits (60), Expect = 7.8
Identities = 15/31 (48%), Positives = 18/31 (58%), Gaps = 6/31 (19%)
Query: 85 TPVQKYAIPVIISGRD--VMACAQTGSGKTA 113
T Q AI + +G+D V A A GSGKTA
Sbjct: 12 TDDQWNAI--VSTGQDILVAAAA--GSGKTA 38
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
0.320 0.138 0.411
Gapped
Lambda K H
0.267 0.0478 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,777,018
Number of extensions: 294855
Number of successful extensions: 931
Number of sequences better than 10.0: 1
Number of HSP's gapped: 800
Number of HSP's successfully gapped: 133
Length of query: 308
Length of database: 6,701,793
Length adjustment: 93
Effective length of query: 215
Effective length of database: 4,105,140
Effective search space: 882605100
Effective search space used: 882605100
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 (21.8 bits)
S2: 57 (26.3 bits)