RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy2764
(419 letters)
>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 = 411 bits (1056), Expect = e-135
Identities = 168/388 (43%), Positives = 235/388 (60%), Gaps = 11/388 (2%)
Query: 38 PKHVTQTEWAEMLDVSKPVLDFDAKVPIMAHTWPFELDVFQKQAIIKLEEHNHVFVTAHT 97
H + + A + + K A T+PF LD FQ AI ++ V V+AHT
Sbjct: 52 LSHQVRHQVALPPNY-DYTPIAEHKRVNEARTYPFTLDPFQDTAISCIDRGESVLVSAHT 110
Query: 98 SAGKTVIAEYAIALSQNHKTRTIYTSPIKALSNQKYRDFRETFQDVGLVTGDFQINTTAS 157
SAGKTV+AEYAIA S +K R IYTSPIKALSNQKYR+ F DVGL+TGD IN A
Sbjct: 111 SAGKTVVAEYAIAQSLKNKQRVIYTSPIKALSNQKYRELLAEFGDVGLMTGDITINPDAG 170
Query: 158 CLVMTTEILRSMLYRGSDVLRDLEYVIFDEVHYINDSERGHVWEEVLILLPKEVCIVMLS 217
CLVMTTEILRSMLYRGS+V+R++ +VIFDEVHY+ D ERG VWEE +ILLP +V V LS
Sbjct: 171 CLVMTTEILRSMLYRGSEVMREVAWVIFDEVHYMRDKERGVVWEETIILLPDKVRYVFLS 230
Query: 218 ATVPNTLEFADWVGNTKKTKVYVVSTLKRPVPLKHFLYVGPVLEKNQLFLIREAEGEFLT 277
AT+PN +EFA+W+ ++V T RP PL+H+L+ + ++L+ + + F
Sbjct: 231 ATIPNAMEFAEWICKIHSQPCHIVYTNFRPTPLQHYLFPAH---GDGIYLVVDEKSTFRE 287
Query: 278 RGYLAAKEVKCRKQ------LEKGGSGGGKLNGPFTRGAEKNLFISFLNYLRKSQNLPVV 331
+ A + + G G G +G K + + K + PV+
Sbjct: 288 ENFQKAMASISNQIGDDPNSTDSRGKKGQTYKGGSAKGDAKGDIYKIVKMIWKKKYNPVI 347
Query: 332 LFTLSRKRCDQNAANLLSMDFSTATEKSKIHRFFQDSIRNLQNEDDRALPQVKRLEQLLK 391
+F+ S++ C++ A + +DF++ EK + + F ++I L E DR LPQ+K + LL+
Sbjct: 348 VFSFSKRDCEELALKMSKLDFNSDDEKEALTKIFNNAIALL-PETDRELPQIKHILPLLR 406
Query: 392 NGIGVHHSGILPILKEIVEMLFQKGLVK 419
GIG+HHSG+LPILKE++E+LFQ+G +K
Sbjct: 407 RGIGIHHSGLLPILKEVIEILFQEGFLK 434
>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 = 409 bits (1052), Expect = e-133
Identities = 168/413 (40%), Positives = 238/413 (57%), Gaps = 17/413 (4%)
Query: 20 GSNRREVDIPILKISNTLPKHVTQTEWAEMLDVSKPVLDFDAKVPI-------MAHTWPF 72
S + + + + + + + PI A T+PF
Sbjct: 124 ASREVDASKGLTNSETLQVEQDGKVRLSHQVRHQVALPPNYDYTPIAEHKRVNEARTYPF 183
Query: 73 ELDVFQKQAIIKLEEHNHVFVTAHTSAGKTVIAEYAIALSQNHKTRTIYTSPIKALSNQK 132
LD FQ AI ++ V V+AHTSAGKTV+AEYAIA S +K R IYTSPIKALSNQK
Sbjct: 184 TLDPFQDTAISCIDRGESVLVSAHTSAGKTVVAEYAIAQSLKNKQRVIYTSPIKALSNQK 243
Query: 133 YRDFRETFQDVGLVTGDFQINTTASCLVMTTEILRSMLYRGSDVLRDLEYVIFDEVHYIN 192
YR+ F DVGL+TGD IN A CLVMTTEILRSMLYRGS+V+R++ +VIFDEVHY+
Sbjct: 244 YRELLAEFGDVGLMTGDITINPDAGCLVMTTEILRSMLYRGSEVMREVAWVIFDEVHYMR 303
Query: 193 DSERGHVWEEVLILLPKEVCIVMLSATVPNTLEFADWVGNTKKTKVYVVSTLKRPVPLKH 252
D ERG VWEE +ILLP +V V LSAT+PN +EFA+W+ ++V T RP PL+H
Sbjct: 304 DKERGVVWEETIILLPDKVRYVFLSATIPNAMEFAEWICKIHSQPCHIVYTNFRPTPLQH 363
Query: 253 FLYVGPVLEKNQLFLIREAEGEFLTRGYLAAKEVKCRKQLE------KGGSGGGKLNGPF 306
+L+ + ++L+ + + F + A + + G G G
Sbjct: 364 YLFPAH---GDGIYLVVDEKSTFREENFQKAMASISNQIGDDPNSTDSRGKKGQTYKGGS 420
Query: 307 TRGAEKNLFISFLNYLRKSQNLPVVLFTLSRKRCDQNAANLLSMDFSTATEKSKIHRFFQ 366
+G K + + K + PV++F+ S++ C++ A + +DF++ EK + + F
Sbjct: 421 AKGDAKGDIYKIVKMIWKKKYNPVIVFSFSKRDCEELALKMSKLDFNSDDEKEALTKIFN 480
Query: 367 DSIRNLQNEDDRALPQVKRLEQLLKNGIGVHHSGILPILKEIVEMLFQKGLVK 419
++I L E DR LPQ+K + LL+ GIG+HHSG+LPILKE++E+LFQ+G +K
Sbjct: 481 NAIALL-PETDRELPQIKHILPLLRRGIGIHHSGLLPILKEVIEILFQEGFLK 532
>4a4z_A Antiviral helicase SKI2; hydrolase, ATPase, mRNA degradation,
exosome; HET: ANP; 2.40A {Saccharomyces cerevisiae} PDB:
4a4k_A
Length = 997
Score = 403 bits (1037), Expect = e-132
Identities = 194/425 (45%), Positives = 267/425 (62%), Gaps = 54/425 (12%)
Query: 43 QTEWAEMLDVSKPVLDFDAKVPIMAHTWPFELDVFQKQAIIKLEEHNHVFVTAHTSAGKT 102
+ EWA ++D++ + +FD +P A +WPFELD FQK+A+ LE+ + VFV AHTSAGKT
Sbjct: 9 KKEWAHVVDLNHKIENFDELIPNPARSWPFELDTFQKEAVYHLEQGDSVFVAAHTSAGKT 68
Query: 103 VIAEYAIALSQNHKTRTIYTSPIKALSNQKYRDFRETF--QDVGLVTGDFQINTTASCLV 160
V+AEYAIA++ + T+TIYTSPIKALSNQK+RDF+ETF ++GL+TGD QIN A+CL+
Sbjct: 69 VVAEYAIAMAHRNMTKTIYTSPIKALSNQKFRDFKETFDDVNIGLITGDVQINPDANCLI 128
Query: 161 MTTEILRSMLYRGSDVLRDLEYVIFDEVHYINDSERGHVWEEVLILLPKEVCIVMLSATV 220
MTTEILRSMLYRG+D++RD+E+VIFDEVHY+ND +RG VWEEV+I+LP+ V ++LSATV
Sbjct: 129 MTTEILRSMLYRGADLIRDVEFVIFDEVHYVNDQDRGVVWEEVIIMLPQHVKFILLSATV 188
Query: 221 PNTLEFADWVGNTKKTKVYVVSTLKRPVPLKHFLYVGPVLEKNQLFLIREAEGEFLTRGY 280
PNT EFA+W+G TK+ +YV+ST KRPVPL+ ++ +L + EFL +
Sbjct: 189 PNTYEFANWIGRTKQKNIYVISTPKRPVPLEINIWAK-----KELIPVINQNSEFLEANF 243
Query: 281 LAAKEVKCRKQLE----------------------------------------------K 294
KE+ + +
Sbjct: 244 RKHKEILNGESAKGAPSKTDNGRGGSTARGGRGGSNTRDGRGGRGNSTRGGANRGGSRGA 303
Query: 295 GGSGGGKLNGPFTRGAEKNLFISFLNYLRKSQNLPVVLFTLSRKRCDQNAANLLSMDFST 354
G G K G K + +NYLRK + LP+V+F S+KRC++ A L ++F
Sbjct: 304 GAIGSNKRKFFTQDGPSKKTWPEIVNYLRKRELLPMVVFVFSKKRCEEYADWLEGINFCN 363
Query: 355 ATEKSKIHRFFQDSIRNLQNEDDRALPQVKRLEQLLKNGIGVHHSGILPILKEIVEMLFQ 414
EKS+IH F + SI L+ ED R LPQ+ + LL+ GI VHH G+LPI+KE++E+LF
Sbjct: 364 NKEKSQIHMFIEKSITRLKKED-RDLPQILKTRSLLERGIAVHHGGLLPIVKELIEILFS 422
Query: 415 KGLVK 419
KG +K
Sbjct: 423 KGFIK 427
>2va8_A SSO2462, SKI2-type helicase; hydrolase, DNA repair, ATP-bindin
nucleotide-binding; 2.30A {Sulfolobus solfataricus}
Length = 715
Score = 260 bits (666), Expect = 3e-80
Identities = 84/366 (22%), Positives = 158/366 (43%), Gaps = 54/366 (14%)
Query: 63 VPIMAHTWPFELDVFQKQAIIK-LEEHNHVFVTAHTSAGKTVIAEYAI-ALSQNHKTRTI 120
+ I+ +L+ Q +A+ K L E N + +T+ T +GKT+IAE I + + + I
Sbjct: 20 IEIIKKRGIKKLNPPQTEAVKKGLLEGNRLLLTSPTGSGKTLIAEMGIISFLLKNGGKAI 79
Query: 121 YTSPIKALSNQKYRDFR---ETFQDVGLVTGDFQINT----TASCLVMTTEILRSMLYRG 173
Y +P++AL+N+KY F+ V + +GD+ + ++ T E L S+
Sbjct: 80 YVTPLRALTNEKYLTFKDWELIGFKVAMTSGDYDTDDAWLKNYDIIITTYEKLDSLWRHR 139
Query: 174 SDVLRDLEYVIFDEVHYINDSERGHVWEEVLILLPKEVCIVMLSATVPNTLEFADWVGNT 233
+ L ++ Y + DE+HY+ND ERG V E + + K ++ LSAT+ N + A W+G
Sbjct: 140 PEWLNEVNYFVLDELHYLNDPERGPVV-ESVTIRAKRRNLLALSATISNYKQIAKWLG-- 196
Query: 234 KKTKVYVVSTLKRPVPLKHFLYVGPVLEKNQLFLIREAEGEFLTRGYLAAKEVKCRKQLE 293
V+T RPVPL + K + + + + A L
Sbjct: 197 ----AEPVATNWRPVPLIEGVIYPE--RKKKEYNVIFKDNTTKKVHGDDAIIAYTLDSLS 250
Query: 294 KGGSGGGKLNGPFTRGAEKNLFISFLNYLRKSQNLPVVLFTLSRKRCDQNAANLLSMDFS 353
K G V++F SRK + A + +
Sbjct: 251 KNG--------------------------------QVLVFRNSRKMAESTALKIANYMNF 278
Query: 354 TATEKSKIHRFFQDSIRNLQNEDDRALPQVKRLEQLLKNGIGVHHSGILPILKEIVEMLF 413
+ +++ + + L + ++ + + L+ L+ G+ HH+G+ L++++E F
Sbjct: 279 VSLDENALSEILK----QLDDIEEGGSDEKELLKSLISKGVAYHHAGLSKALRDLIEEGF 334
Query: 414 QKGLVK 419
++ +K
Sbjct: 335 RQRKIK 340
>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 = 205 bits (523), Expect = 1e-59
Identities = 76/373 (20%), Positives = 153/373 (41%), Gaps = 66/373 (17%)
Query: 57 LDFDAKVPIMAHTWPFE-LDVFQKQAI-IKLEEHNHVFVTAHTSAGKTVIAEYAIA-LSQ 113
L D ++ E Q +A+ + E + ++ T++GKT+IAE A+
Sbjct: 6 LRVDERIKSTLKERGIESFYPPQAEALKSGILEGKNALISIPTASGKTLIAEIAMVHRIL 65
Query: 114 NHKTRTIYTSPIKALSNQKYRDFRETFQ---DVGLVTGDFQINT----TASCLVMTTEIL 166
+ +Y P+KAL+ +K+++F++ + V + TGD+ ++ T E
Sbjct: 66 TQGGKAVYIVPLKALAEEKFQEFQDWEKIGLRVAMATGDYDSKDEWLGKYDIIIATAEKF 125
Query: 167 RSMLYRGSDVLRDLEYVIFDEVHYINDSERGHVWEEVLILLPKEVCIVMLSATVPNTLEF 226
S+L GS ++D++ ++ DE+H I +RG E +L + + I+ LSAT+ N E
Sbjct: 126 DSLLRHGSSWIKDVKILVADEIHLIGSRDRGATLEVILAHMLGKAQIIGLSATIGNPEEL 185
Query: 227 ADWVGNTKKTKVYVVSTLKRPVPLKHFLYVGPVLEKNQLFLIREAEGEFLTRGYLAAKEV 286
A+W+ ++ + RPV L+ ++ + + R ++ E
Sbjct: 186 AEWLN------AELIVSDWRPVKLRRGVFYQGFVTWEDGSIDR-----------FSSWEE 228
Query: 287 KCRKQLEKGGSGGGKLNGPFTRGAEKNLFISFLNYLRKSQNLPVVLFTLSRKRCDQNAAN 346
+ K ++F R++ ++ A
Sbjct: 229 LVYDAIRKKK--------------------------------GALIFVNMRRKAERVALE 256
Query: 347 LLSMDFSTATEKSKIHRFFQDSIRNLQNEDDRALPQVKRLEQLLKNGIGVHHSGILPILK 406
L S T+ R + +L+ P ++L + ++ G+ HH+G+ +
Sbjct: 257 LSKKVKSLLTKPEI--RALNELADSLEE-----NPTNEKLAKAIRGGVAFHHAGLGRDER 309
Query: 407 EIVEMLFQKGLVK 419
+VE F+KG++K
Sbjct: 310 VLVEENFRKGIIK 322
>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 = 203 bits (519), Expect = 4e-59
Identities = 69/357 (19%), Positives = 146/357 (40%), Gaps = 67/357 (18%)
Query: 73 ELDVFQKQAIIKLEEHNHVFVTAHTSAGKTVIAEYAIALSQNHKTRTIYTSPIKALSNQK 132
EL Q +A+ K+ ++ + T+AGKT++AE A+ +++Y P++AL+ +K
Sbjct: 25 ELFPPQAEAVEKVFSGKNLLLAMPTAAGKTLLAEMAMVREAIKGGKSLYVVPLRALAGEK 84
Query: 133 YRDFRETFQ---DVGLVTGDFQINTT----ASCLVMTTEILRSMLYRGSDVLRDLEYVIF 185
Y F++ + +G+ TGD++ +V T+E S++ + ++ + ++
Sbjct: 85 YESFKKWEKIGLRIGISTGDYESRDEHLGDCDIIVTTSEKADSLIRNRASWIKAVSCLVV 144
Query: 186 DEVHYINDSERGHVWEEVLILLP---KEVCIVMLSATVPNTLEFADWVGNTKKTKVYVVS 242
DE+H ++ +RG E ++ + K + ++ LSAT PN E A+W+
Sbjct: 145 DEIHLLDSEKRGATLEILVTKMRRMNKALRVIGLSATAPNVTEIAEWLD------ADYYV 198
Query: 243 TLKRPVPLKHFLYVGPVLEKNQLFLIREAEGEFLTRGYLAAKEVKCRKQLEKGGSGGGKL 302
+ RPVPL + LE
Sbjct: 199 SDWRPVPLVEGVLCEGTLELF--------------------------------------- 219
Query: 303 NGPFTRGAEKNLFISFLNYLRKSQNLPVVLFTLSRKRCDQNAANLLSMDFSTATEKSKIH 362
+ + L ++N V++F +R+ ++ A L ++ +
Sbjct: 220 --DGAFSTSRRVKFEELVEECVAENGGVLVFESTRRGAEKTAVKLSAITAKYVENEGLEK 277
Query: 363 RFFQDSIRNLQNEDDRALPQVKRLEQLLKNGIGVHHSGILPILKEIVEMLFQKGLVK 419
+++ + ++L + ++ G HH+G+L + +VE F++G +K
Sbjct: 278 AILEENEGEM----------SRKLAECVRKGAAFHHAGLLNGQRRVVEDAFRRGNIK 324
>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 = 90.6 bits (225), Expect = 2e-21
Identities = 32/179 (17%), Positives = 61/179 (34%), Gaps = 30/179 (16%)
Query: 53 SKPVLDFDAKVPIMAHTW----PFELDVFQKQAIIKLEEHNHVFVTAHTSAGKTVIAEYA 108
+ D+ +A +L +Q + E ++ + T +GKT +A Y
Sbjct: 9 DSGTMGSDSDEENVAARASPEPELQLRPYQMEVAQPALEGKNIIICLPTGSGKTRVAVYI 68
Query: 109 IA------LSQNHKTRTIYTSPIKALSNQKYRDFRETFQ----DVGLVTGDFQINTTASC 158
+ + I L Q +R + F V ++GD Q+ +
Sbjct: 69 AKDHLDKKKKASEPGKVIVLVNKVLLVEQLFRKEFQPFLKKWYRVIGLSGDTQLKISFPE 128
Query: 159 -------LVMTTEILRSMLYRGSDV------LRDLEYVIFDEVHYINDSERGHVWEEVL 204
++ T +IL + L + L D +I DE H+ N V+ ++
Sbjct: 129 VVKSCDIIISTAQILENSLLNLENGEDAGVQLSDFSLIIIDECHHTNK---EAVYNNIM 184
>3rc3_A ATP-dependent RNA helicase SUPV3L1, mitochondrial; SUV3, nucleus,
hydrolase; HET: ANP; 2.08A {Homo sapiens} PDB: 3rc8_A
Length = 677
Score = 71.9 bits (175), Expect = 1e-13
Identities = 49/317 (15%), Positives = 90/317 (28%), Gaps = 41/317 (12%)
Query: 4 EVLPHSLGRVLRGQNSGSNRREVDIPIL--KISNTLPKHVTQTEWAEMLDVSKPVLDFDA 61
L + VL G+ + P P + + ++ D+ P
Sbjct: 90 HSLDVDIHIVLNDICFGAAHADDLFPFFLRHAKQIFPVLDCKDDLRKISDLRIP------ 143
Query: 62 KVPIMAHTWPFELDVFQKQAIIKLEEHNHVFVTAHTSAGKTVIAEYAIALSQNHKTRTIY 121
W + + +F + T++GKT A ++ +Y
Sbjct: 144 ------PNW---------YPDARAMQRKIIFHSGPTNSGKTYHAIQKYFSAK----SGVY 184
Query: 122 TSPIKALSNQKYRDFRETFQDVGLVTGDFQINTTASCLVMTTEILRSMLYRGSDVLRDLE 181
P+K L+++ + LVTG+ ++ + + S V E
Sbjct: 185 CGPLKLLAHEIFEKSNAAGVPCDLVTGEERVTVQPNGKQAS---HVSCTVEMCSVTTPYE 241
Query: 182 YVIFDEVHYINDSERGHVWEEVLILLPKEVCIVMLSATVPNTLEF-ADWVGNTKKTKVYV 240
+ DE+ I D RG W L+ L E + + + G + + Y
Sbjct: 242 VAVIDEIQMIRDPARGWAWTRALLGLCAEEVHLCGEPAAIDLVMELMYTTGEEVEVRDYK 301
Query: 241 VSTLKRPVPLKHFLYVGPVLEKNQLFLIREAEGEFLTRGYLAAKEVKCRKQLEKGGSGGG 300
L + LE + F + + LE G
Sbjct: 302 R--------LTPISVLDHALESLDNLRPGDCIVCFSKNDIYSVSRQIEIRGLESAVIYGS 353
Query: 301 KLNGPFTRGAEKNLFIS 317
P T+ A+ F
Sbjct: 354 LP--PGTKLAQAKKFND 368
>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 = 66.8 bits (162), Expect = 5e-12
Identities = 75/452 (16%), Positives = 153/452 (33%), Gaps = 123/452 (27%)
Query: 43 QTEWAEMLDVSKP--VLDFDAKVPIMAHTWPFELDV--FQKQAIIKLEEHNHVFVTAHT- 97
Q ++ ++L V + V +FD K DV K I+ EE +H+ ++
Sbjct: 15 QYQYKDILSVFEDAFVDNFDCK------------DVQDMPKS-ILSKEEIDHIIMSKDAV 61
Query: 98 -----------SAGKTVIAEYAI-ALSQNH-----KTRTIYTSPIKALSNQKYRDFRETF 140
S + ++ ++ L N+ +T P ++ + Y + R+
Sbjct: 62 SGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQP--SMMTRMYIEQRDRL 119
Query: 141 QDVGLVTGDFQINTTASCLVMTTEILRSMLYR-------------GS-------DVLRD- 179
+ V + ++ L + LR L GS DV
Sbjct: 120 YNDNQVFAKYNVSR----LQPYLK-LRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSY 174
Query: 180 -LEYVIFDEVHYINDSERGHVWEEVLILLPKEVCIVMLSATVPNTLEFADWVGNTKKTKV 238
++ + ++ ++N + E VL +L K +L PN +D N K
Sbjct: 175 KVQCKMDFKIFWLNLKNC-NSPETVLEMLQK-----LLYQIDPNWTSRSDHSSNIKLRIH 228
Query: 239 YVVSTLKRPVPLKHFLYVGPVLEKNQLFLIREAEGEFLTRGYLAAKEVKCR-------KQ 291
+ + L+R + K + +N L ++ + A + C+ KQ
Sbjct: 229 SIQAELRRLLKSKPY--------ENCLLVLLNVQ----NAKAWNAFNLSCKILLTTRFKQ 276
Query: 292 LEKGGSGGG-------KLNGPFTRGAEKNLFISFLNYLRKSQNLPVVLFTLSRKRCDQNA 344
+ S + T K+L + +L+ + Q+LP + T + +R A
Sbjct: 277 VTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDC--RPQDLPREVLTTNPRRLSIIA 334
Query: 345 ANLLSM----DFSTATEKSKIHRFFQDSIRNLQNEDDRALPQVKRLEQLLKNGI---GVH 397
++ D K+ + S+ L+ + R K ++L + H
Sbjct: 335 ESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYR-----KMFDRL---SVFPPSAH 386
Query: 398 -HSGILPIL---------KEIVEMLFQKGLVK 419
+ +L ++ +V L + LV+
Sbjct: 387 IPTILLSLIWFDVIKSDVMVVVNKLHKYSLVE 418
Score = 40.6 bits (94), Expect = 0.001
Identities = 32/223 (14%), Positives = 68/223 (30%), Gaps = 45/223 (20%)
Query: 27 DIPILKISNTLPKHVTQTEWAEML-DVSKPVLDFDAKVPIMAHTWPFELDVFQKQAIIKL 85
I P + W +++ V++ K + P E + ++L
Sbjct: 384 SAHI-------PTILLSLIWFDVIKSDVMVVVNKLHKYS-LVEKQPKESTISIPSIYLEL 435
Query: 86 EEHNHVFVTAHTSAGKTVIAEYAI--ALSQNHKTRT-----IYTSPI-----KALSNQKY 133
+ H ++++ Y I + Y S I ++
Sbjct: 436 KVKLENEYALH----RSIVDHYNIPKTFDSDDLIPPYLDQYFY-SHIGHHLKNIEHPERM 490
Query: 134 RDFRETFQDVGLVTGDFQINTTASCLVMTTEILRSMLYRGSDVLRDLE----YVIFDEVH 189
FR F D + +I ++ + IL + L+ L+ Y+ ++
Sbjct: 491 TLFRMVFLDFRFLEQ--KIRHDSTAWNASGSIL--------NTLQQLKFYKPYICDNDPK 540
Query: 190 Y---INDSER-GHVWEEVLILLPKEVCIVMLSATVPNTLEFAD 228
Y +N EE LI K ++ ++ + F +
Sbjct: 541 YERLVNAILDFLPKIEENLI-CSKYTDLLRIALMAEDEAIFEE 582
>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 = 57.5 bits (138), Expect = 3e-09
Identities = 58/353 (16%), Positives = 114/353 (32%), Gaps = 21/353 (5%)
Query: 78 QKQAIIKLEEHNHVFVTAHTSAGKTVIAEYAIA-LSQNHKTRTIYTSPIKALSNQKYRDF 136
Q+ K +E N + T GKT+IA + + + +P K L Q F
Sbjct: 14 QEVIYAKCKETN-CLIVLPTGLGKTLIAMMIAEYRLTKYGGKVLMLAPTKPLVLQHAESF 72
Query: 137 RETFQ----DVGLVTGDFQIN------TTASCLVMTTEILRSMLYRGSDVLRDLEYVIFD 186
R F + +TG+ A +V T + + + L G L D+ ++FD
Sbjct: 73 RRLFNLPPEKIVALTGEKSPEERSKAWARAKVIVATPQTIENDLLAGRISLEDVSLIVFD 132
Query: 187 EVHYINDSERGHVWEEVLILLPKEVCIVMLSATVPNTLEFADWVGNTKKTKVYVVSTLKR 246
E H + K ++ L+A+ +T E V N + +
Sbjct: 133 EAHRAVGNYAYVFIAREYKRQAKNPLVIGLTASPGSTPEKIMEVINNLGIEHIEYRSENS 192
Query: 247 PVPLKHFLYVGPVLEKNQLFLIREAEGEFLTRGYLAAKEVKCRKQLEKGGSGGGKLNGPF 306
P + + + L + + + K L + G
Sbjct: 193 PDVRPYVKGIRFEWVRVDL----PEIYKEVRKLLREMLR-DALKPLAETGLLESSSPDIP 247
Query: 307 TRGAEKNLFISFLNYLRKSQNLPVVLFTLSRKRCDQNAANLLSMDFSTATEKSKIHRFFQ 366
+ + I + + +L +L + +A LL +A ++ I + ++
Sbjct: 248 KKEVLRAGQIINEEMAKGNHDLRGLLLYHAMALKLHHAIELLETQGLSA-LRAYIKKLYE 306
Query: 367 DSIRNLQNEDDRAL--PQVKRLEQLLKNGIGVHHSG-ILPILKEIVEMLFQKG 416
++ ++K+ LL + + LKEI+ Q+
Sbjct: 307 EAKAGSTKASKEIFSDKRMKKAISLLVQAKEIGLDHPKMDKLKEIIREQLQRK 359
>2ykg_A Probable ATP-dependent RNA helicase DDX58; hydrolase, innate
immunity; 2.50A {Homo sapiens} PDB: 3tmi_A*
Length = 696
Score = 57.3 bits (137), Expect = 6e-09
Identities = 28/146 (19%), Positives = 56/146 (38%), Gaps = 20/146 (13%)
Query: 66 MAHTW---PFELDVFQKQAIIKLEEHNHVFVTAHTSAGKTVIAEYAIA-----LSQNHKT 117
++ T PF+ +Q + + + + + A T GKT ++ Q K
Sbjct: 3 VSDTNLYSPFKPRNYQLELALPAMKGKNTIICAPTGCGKTFVSLLICEHHLKKFPQGQKG 62
Query: 118 RTIYTSPIKALSNQKYRDFRETFQ----DVGLVTGDFQINT-------TASCLVMTTEIL 166
+ ++ + + Q F + F+ V ++G N +++T +IL
Sbjct: 63 KVVFFANQIPVYEQNKSVFSKYFERHGYRVTGISGATAENVPVEQIVENNDIIILTPQIL 122
Query: 167 RSMLYRGS-DVLRDLEYVIFDEVHYI 191
+ L +G+ L +IFDE H
Sbjct: 123 VNNLKKGTIPSLSIFTLMIFDECHNT 148
>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 = 54.3 bits (131), Expect = 1e-08
Identities = 30/137 (21%), Positives = 51/137 (37%), Gaps = 9/137 (6%)
Query: 56 VLDFDAKVPIMAHTWPFELDVFQKQAIIKLEEHNHVFVTAHTSAGKTVIAEYAIALSQNH 115
V + +P L +Q++A+ + + T +GKT +A AI
Sbjct: 76 VDNAADPIPTPYFDAEISLRDYQEKALERWLVDKRGCIVLPTGSGKTHVAMAAIN---EL 132
Query: 116 KTRTIYTSPIKALSNQKYRDFRE-TFQDVGLVTGDFQINTTASCLVMTTEILRSMLYRGS 174
T T+ P AL+ Q + VG +G + L ++T S
Sbjct: 133 STPTLIVVPTLALAEQWKERLGIFGEEYVGEFSGRIKEL---KPLTVST--YDSAYVNAE 187
Query: 175 DVLRDLEYVIFDEVHYI 191
+ +IFDEVH++
Sbjct: 188 KLGNRFMLLIFDEVHHL 204
>3tbk_A RIG-I helicase domain; DECH helicase, ATP binding, hydrolase; HET:
ANP; 2.14A {Mus musculus}
Length = 555
Score = 54.9 bits (131), Expect = 2e-08
Identities = 24/151 (15%), Positives = 60/151 (39%), Gaps = 20/151 (13%)
Query: 71 PFELDVFQKQAIIKLEEHNHVFVTAHTSAGKTVIAEYAIA-----LSQNHKTRTIYTSPI 125
P + +Q + + ++ + + A T GKT ++ K + ++ +
Sbjct: 2 PLKPRNYQLELALPAKKGKNTIICAPTGCGKTFVSLLICEHHLKKFPCGQKGKVVFFANQ 61
Query: 126 KALSNQKYRDFRETFQ----DVGLVTGDFQINTTAS-------CLVMTTEILRSMLYRGS 174
+ Q+ F F+ ++ ++G + + +++T +IL + L G+
Sbjct: 62 IPVYEQQATVFSRYFERLGYNIASISGATSDSVSVQHIIEDNDIIILTPQILVNNLNNGA 121
Query: 175 -DVLRDLEYVIFDEVHYINDSERGHVWEEVL 204
L +IFDE H + + H + +++
Sbjct: 122 IPSLSVFTLMIFDECHN---TSKNHPYNQIM 149
>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 = 53.3 bits (128), Expect = 8e-08
Identities = 31/137 (22%), Positives = 50/137 (36%), Gaps = 9/137 (6%)
Query: 56 VLDFDAKVPIMAHTWPFELDVFQKQAIIKLEEHNHVFVTAHTSAGKTVIAEYAIALSQNH 115
V + +P L +Q++A+ + + T +GKT +A AI
Sbjct: 76 VDNAADPIPTPYFDAEISLRDYQEKALERWLVDKRGCIVLPTGSGKTHVAMAAIN---EL 132
Query: 116 KTRTIYTSPIKALSNQKYRDFRE-TFQDVGLVTGDFQINTTASCLVMTTEILRSMLYRGS 174
T T+ P AL+ Q + VG +G I V T + S
Sbjct: 133 STPTLIVVPTLALAEQWKERLGIFGEEYVGEFSGR--IKELKPLTVSTYD---SAYVNAE 187
Query: 175 DVLRDLEYVIFDEVHYI 191
+ +IFDEVH++
Sbjct: 188 KLGNRFMLLIFDEVHHL 204
>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 = 51.8 bits (124), Expect = 2e-07
Identities = 26/144 (18%), Positives = 56/144 (38%), Gaps = 14/144 (9%)
Query: 85 LEEHNHVFVTAHTSAGKT--VIAEYAIALSQNHKTRTIYTSPIKALSNQKYRDFRETFQD 142
L++ + H AGKT + + ++ RT+ +P + + ++ F D
Sbjct: 5 LKKGMTTVLDFHPGAGKTRRFLPQILAECARRRL-RTLVLAPTRVVLSEMKEAFHG--LD 61
Query: 143 VGLVTGDFQINTTASCLVMT-TE-ILRSMLYRGSDVLRDLEYVIFDEVHYINDSE---RG 197
V T F + + ++ L + + + + E +I DE H+++ + RG
Sbjct: 62 VKFHTQAFSAHGSGREVIDAMCHATLTYRMLEPTR-VVNWEVIIMDEAHFLDPASIAARG 120
Query: 198 HVWEEVLILLPKEVCIVMLSATVP 221
E ++++AT P
Sbjct: 121 WA---AHRARANESATILMTATPP 141
>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 = 50.7 bits (120), Expect = 5e-07
Identities = 24/123 (19%), Positives = 49/123 (39%), Gaps = 18/123 (14%)
Query: 85 LEEHNHVFVTAHTSAGKTVIAEYAIA-----LSQNHKTRTIYTSPIKALSNQKYRDFRET 139
+ N + A T +GKT ++ + K + ++ + + Q+ F+
Sbjct: 20 INGKN-ALICAPTGSGKTFVSILICEHHFQNMPAGRKAKVVFLATKVPVYEQQKNVFKHH 78
Query: 140 FQ----DVGLVTGDFQINTT-------ASCLVMTTEILRSMLYRGS-DVLRDLEYVIFDE 187
F+ V ++G+ N + + +V+T +IL + G+ L +IFDE
Sbjct: 79 FERQGYSVQGISGENFSNVSVEKVIEDSDIIVVTPQILVNSFEDGTLTSLSIFTLMIFDE 138
Query: 188 VHY 190
H
Sbjct: 139 CHN 141
>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 = 50.7 bits (120), Expect = 6e-07
Identities = 30/192 (15%), Positives = 66/192 (34%), Gaps = 22/192 (11%)
Query: 20 GSNRREVDIPILKISNTLPKHVTQTEWAEMLDVSKPVLDFDAKVPIMAHTWP----FELD 75
N ++VD + S + D + + + + P +
Sbjct: 192 EDNAKDVDSEMTDASEDCLEASMTYSEEAEPDDNLS-ENLGSAAEGIGKPPPVYETKKAR 250
Query: 76 VFQKQAIIKLEEHNHVFVTAHTSAGKTVIAEYAIA-----LSQNHKTRTIYTSPIKALSN 130
+Q + + + A T +GKT ++ + K + ++ + +
Sbjct: 251 SYQIELAQPAINGKNALICAPTGSGKTFVSILICEHHFQNMPAGRKAKVVFLATKVPVYE 310
Query: 131 QKYRDFRETFQ----DVGLVTGDFQINTT-------ASCLVMTTEILRSMLYRGS-DVLR 178
Q+ F+ F+ V ++G+ N + + +V+T +IL + G+ L
Sbjct: 311 QQKNVFKHHFERQGYSVQGISGENFSNVSVEKVIEDSDIIVVTPQILVNSFEDGTLTSLS 370
Query: 179 DLEYVIFDEVHY 190
+IFDE H
Sbjct: 371 IFTLMIFDECHN 382
>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 = 49.2 bits (116), Expect = 2e-06
Identities = 30/192 (15%), Positives = 66/192 (34%), Gaps = 22/192 (11%)
Query: 20 GSNRREVDIPILKISNTLPKHVTQTEWAEMLDVSKPVLDFDAKVPIMAHTWP----FELD 75
N ++VD + S + D + + + + P +
Sbjct: 192 EDNAKDVDSEMTDASEDCLEASMTYSEEAEPDDNLS-ENLGSAAEGIGKPPPVYETKKAR 250
Query: 76 VFQKQAIIKLEEHNHVFVTAHTSAGKTVIAEYAIA-----LSQNHKTRTIYTSPIKALSN 130
+Q + + + A T +GKT ++ + K + ++ + +
Sbjct: 251 SYQIELAQPAINGKNALICAPTGSGKTFVSILICEHHFQNMPAGRKAKVVFLATKVPVYE 310
Query: 131 QKYRDFRETFQ----DVGLVTGDFQINTT-------ASCLVMTTEILRSMLYRGS-DVLR 178
Q+ F+ F+ V ++G+ N + + +V+T +IL + G+ L
Sbjct: 311 QQKNVFKHHFERQGYSVQGISGENFSNVSVEKVIEDSDIIVVTPQILVNSFEDGTLTSLS 370
Query: 179 DLEYVIFDEVHY 190
+IFDE H
Sbjct: 371 IFTLMIFDECHN 382
>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 = 48.3 bits (115), Expect = 3e-06
Identities = 23/154 (14%), Positives = 53/154 (34%), Gaps = 11/154 (7%)
Query: 73 ELDVFQKQAIIKLEEHNHVFVTAHTSAGKT--VIAEYAIALSQNHKTRTIYTSPIKALSN 130
++ I + + H AGKT ++ RT+ +P + ++
Sbjct: 5 GEPDYEVDEDI-FRKKRLTIMDLHPGAGKTKRILPSIVREALLRRL-RTLILAPTRVVAA 62
Query: 131 QKYRDFRETFQDVGLVTGDFQINTTASCL--VMTTEILRSMLYRGSDVLRDLEYVIFDEV 188
+ R + T + + T + +M + L + + + ++ DE
Sbjct: 63 EMEEALRG--LPIRYQTPAVKSDHTGREIVDLMCHATFTTRLLSSTR-VPNYNLIVMDEA 119
Query: 189 HYIN-DSERGHVWEEVLILLPKEVCIVMLSATVP 221
H+ + S + + + + I M +AT P
Sbjct: 120 HFTDPCSVAARGYISTRVEMGEAAAIFM-TATPP 152
>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 = 46.6 bits (110), Expect = 1e-05
Identities = 76/467 (16%), Positives = 130/467 (27%), Gaps = 179/467 (38%)
Query: 16 GQNSGSNR------RE--------VDIPILKISNTLPKHVTQTEWAEM-----LDV---- 52
GQ G+ R+ V I + TL + + T AE L++
Sbjct: 162 GQ--GNTDDYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWL 219
Query: 53 ----SKPVLDFDAKVPIMAHTWPFELDVFQKQAIIKLEEHNHVFVTAH------------ 96
+ P D+ +PI + P +I + + H VTA
Sbjct: 220 ENPSNTPDKDYLLSIPI---SCP----------LIGVIQLAHYVVTAKLLGFTPGELRSY 266
Query: 97 ----TSAGKTVIAEYAIALSQNHKT-RTIYTSPIKALSNQKYRDFR--ETFQDVGLVTGD 149
T + ++ AIA + + + + S KA++ + R E + + L
Sbjct: 267 LKGATGHSQGLVTAVAIAET---DSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSI 323
Query: 150 FQINTTASCLVMTTEILRSMLYRGSDVLRDLEYV-IFDEVHYINDSERGHVWEEVLILLP 208
+ + + V + ML + +L + D V+ N LP
Sbjct: 324 LEDSLENNEGVPS-----PML-----SISNLTQEQVQDYVNKTNSH------------LP 361
Query: 209 KE--VCIVMLSATVPNTLEFADWVGNTKKTKVYVVSTLKRPVPLKHFLYVGPVLEKNQLF 266
V I ++ N K VVS GP
Sbjct: 362 AGKQVEISLV---------------NGAKN--LVVS--------------GPPQS----- 385
Query: 267 LIREAEGEFLTRGYLAAKEVKCRKQLEKGGSGGGKLNGPFTRGAEKNLF-ISFL------ 319
L + RK K SG + PF+ K F FL
Sbjct: 386 --------------LYGLNLTLRKA--KAPSGLDQSRIPFSE--RKLKFSNRFLPVASPF 427
Query: 320 --NYLRKSQNLPVVLFTLSRKRCDQNAANLLSMDFSTATEKSKIHRFFQDSIRNLQNEDD 377
+ L + ++ L + NA ++ + T D +R L
Sbjct: 428 HSHLLVPAS--DLINKDLVKNNVSFNAKDIQIPVYDTFDGS--------D-LRVLSGSIS 476
Query: 378 RAL-PQVKRL----EQLLKNGIGVHH---------SGILPILKEIVE 410
+ + RL E + H SG+ + +
Sbjct: 477 ERIVDCIIRLPVKWETTTQFKA--THILDFGPGGASGLGVLTHRNKD 521
Score = 39.6 bits (92), Expect = 0.002
Identities = 54/320 (16%), Positives = 102/320 (31%), Gaps = 95/320 (29%)
Query: 134 RDFRETFQDVGLVTGDFQINTTASCLVMTTE--------ILRSMLY-------------- 171
+F + L D I+ A+ L+ + ++++ Y
Sbjct: 89 TEFENCY----LEGND--IHALAAKLLQENDTTLVKTKELIKN--YITARIMAKRPFDKK 140
Query: 172 RGSDVLRDLE------YVIF----------DEVHYINDSERGHVWEEVLILLPKEVCIVM 215
S + R + IF +E+ + + V LI E +
Sbjct: 141 SNSALFRAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQTYHVLV--GDLIKFSAETLSEL 198
Query: 216 LSATV------PNTLEFADWVGNTKKT--KVYVVSTLKRPV--P------LKHFLYVGPV 259
+ T+ L +W+ N T K Y++S P+ P L H++ +
Sbjct: 199 IRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSI---PISCPLIGVIQLAHYVVTAKL 255
Query: 260 LEKNQLFLIREAEGEFLT---RGYLAAKEVKCRKQLEKGGSGGGKLNGPFTRGAEKNLFI 316
L L +G T +G + A + + S F K + +
Sbjct: 256 LGFTPGELRSYLKG--ATGHSQGLVTAVAI------AETDSWES-----FFVSVRKAITV 302
Query: 317 SFLNYLRKSQNLPVVLFTLS-RKRCDQNAANLLS-MDFS-TATEKSKIHRFFQDSIRNLQ 373
F +R + P S + +N + S M S + + ++ QD +
Sbjct: 303 LFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPM-LSISNLTQEQV----QDYVN--- 354
Query: 374 NEDDRALPQVKRLEQLLKNG 393
+ + LP K++E L NG
Sbjct: 355 -KTNSHLPAGKQVEISLVNG 373
Score = 27.7 bits (61), Expect = 9.1
Identities = 24/176 (13%), Positives = 44/176 (25%), Gaps = 53/176 (30%)
Query: 57 LDFDAKVPIMAHTWPFELDVFQKQA----IIKLEEHNHVFVTAHTSAGKTVIAEYAIALS 112
+D W D K I+ + +N V +T H K
Sbjct: 1633 MDLYKTSKAAQDVWN-RADNHFKDTYGFSILDIVINNPVNLTIHFGGEK----------- 1680
Query: 113 QNHKTRTIYTSPIKALSNQKYRDFRETFQDVGLVTGDFQINTTASCL---------VMTT 163
+ R Y++ I + F+++ + + + L +
Sbjct: 1681 -GKRIRENYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSATQFTQPALTLM 1739
Query: 164 E--ILRSMLYRGSDVLRDL-------EY--------VI-FDE----VHYINDSERG 197
E + +G EY V+ + V Y RG
Sbjct: 1740 EKAAFEDLKSKGLIPADATFAGHSLGEYAALASLADVMSIESLVEVVFY-----RG 1790
>2v6i_A RNA helicase; membrane, hydrolase, transmembrane, RNA replication,
viral replication, nucleotide-binding; 2.10A {Kokobera
virus} PDB: 2v6j_A
Length = 431
Score = 44.4 bits (105), Expect = 4e-05
Identities = 42/233 (18%), Positives = 75/233 (32%), Gaps = 47/233 (20%)
Query: 88 HNHVFVTAHTSAGKT--VIAEYAIALSQNHKTRTIYTSP--------IKALSNQKYRDFR 137
+ H AGKT V+ + + RT+ +P +AL + R
Sbjct: 2 RELTVLDLHPGAGKTRRVLPQLVREAVKKRL-RTVILAPTRVVASEMYEALRGEPIRYMT 60
Query: 138 ETFQDVGLVTGDFQINTTASCLVMTTEILRSMLYRGSDVLRDLEYVIFDEVHYINDSE-- 195
Q TG+ ++ M L +G + + I DE H+++ +
Sbjct: 61 PAVQSE--RTGNEIVD------FMCHSTFTMKLLQGVR-VPNYNLYIMDEAHFLDPASVA 111
Query: 196 -RGHVWEEVLILLPKEVCIVMLSATVPN-TLEFADWVGNTKKTKVYVVSTLKRPVPLKHF 253
RG++ + + I M +AT P T F + + +P
Sbjct: 112 ARGYIET--RVSMGDAGAIFM-TATPPGTTEAFP--------PSNSPIIDEETRIP---D 157
Query: 254 LYVGPVLEKNQLFLIREAEGEFLTRGYLA-AKEV-KCRKQLEKGGSGGGKLNG 304
E I E +G + ++ K+ + L+K G LN
Sbjct: 158 KAWNSGYE-----WITEFDGRTVW--FVHSIKQGAEIGTCLQKAGKKVLYLNR 203
>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 = 41.1 bits (96), Expect = 5e-04
Identities = 31/227 (13%), Positives = 76/227 (33%), Gaps = 29/227 (12%)
Query: 85 LEEHNHVFVTAHTSAGKT--VIAEYAIALSQNHKTRTIYTSPIKALSNQKYRDFRETFQD 142
+ + H AGKT ++ + RT+ +P + ++ + R
Sbjct: 183 FRKKRLTIMDLHPGAGKTKRILPSIVREALKRRL-RTLILAPTRVVAAEMEEALRG--LP 239
Query: 143 VGLVTGDFQINTTASCL--VMTTEILRSMLYRGSDVLRDLEYVIFDEVHYIN-DSERGHV 199
+ T + + T + +M + L + + + ++ DE H+ + S
Sbjct: 240 IRYQTPAVKSDHTGREIVDLMCHATFTTRLLSSTR-VPNYNLIVMDEAHFTDPCSVAARG 298
Query: 200 WEEVLILLPKEVCIVMLSATVPNTLEFADWVGNTKKTKVYVVSTLKRPVPLKHFLYVGPV 259
+ + + + I M +AT P + + + ++R +P + +
Sbjct: 299 YISTRVEMGEAAAIFM-TATPPGSTD-------PFPQSNSPIEDIEREIPERSW------ 344
Query: 260 LEKNQLFLIREAEGEFLTRGYLA-AKEV-KCRKQLEKGGSGGGKLNG 304
I + +G+ + ++ K L K G +L+
Sbjct: 345 --NTGFDWITDYQGKTVW--FVPSIKAGNDIANCLRKSGKRVIQLSR 387
>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 = 40.4 bits (94), Expect = 0.001
Identities = 30/175 (17%), Positives = 52/175 (29%), Gaps = 20/175 (11%)
Query: 61 AKVPIMAHTWPFELDVFQKQAIIKLEEHNHVFVTAHTSAGKT--VIAEYAIALSQNHKTR 118
V M T + + + A T +GK+ V A YA +
Sbjct: 205 VPVESMETTMRSPVFTDNSSPPAVPQSFQVAHLHAPTGSGKSTKVPAAYA-----AQGYK 259
Query: 119 TIYTSPIKALSNQKYRDFRETF-QDVGLVTGDFQINTTASCLVMT--TEILRSMLYRGSD 175
+ +P A + + D + TG I T A T +
Sbjct: 260 VLVLNPSVAATLGFGAYMSKAHGIDPNIRTGVRTITTGAPVTYSTYGKFLADGGCS---- 315
Query: 176 VLRDLEYVIFDEVHYIN---DSERGHVWEEVLILLPKEVCIVMLSATVPNTLEFA 227
+ +I DE H + G V ++ +V+ +AT P ++
Sbjct: 316 -GGAYDIIICDECHSTDSTTILGIGTVLDQAETA--GARLVVLATATPPGSVTVP 367
>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 = 39.8 bits (93), Expect = 0.001
Identities = 26/144 (18%), Positives = 53/144 (36%), Gaps = 14/144 (9%)
Query: 85 LEEHNHVFVTAHTSAGKT--VIAEYAIALSQNHKTRTIYTSPIKALSNQKYRDFRETFQD 142
L + + H +GKT ++ + Q RT +P + ++ + R
Sbjct: 18 LRKRQMTVLDLHPGSGKTRKILPQIIKDAIQQRL-RTAVLAPTRVVAAEMAEALRG--LP 74
Query: 143 VGLVTGDFQINTTASCL--VMTTEILRSMLYRGSDVLRDLEYVIFDEVHYINDSE---RG 197
V T Q + + VM L L + + + + DE H+ + + RG
Sbjct: 75 VRYQTSAVQREHQGNEIVDVMCHATLTHRLMSPNR-VPNYNLFVMDEAHFTDPASIAARG 133
Query: 198 HVWEEVLILLPKEVCIVMLSATVP 221
++ +V + + ++AT P
Sbjct: 134 YIATKVELGEAA---AIFMTATPP 154
>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 = 39.9 bits (93), Expect = 0.001
Identities = 44/262 (16%), Positives = 88/262 (33%), Gaps = 35/262 (13%)
Query: 53 SKPVLDFDAKVPIMAHTWPFELDVFQKQAIIKLEEHNHVFVTAHTSAGKT--VIAEYAIA 110
+ +L A V + E V + L++ + H AGKT ++ +
Sbjct: 206 NGVILGNGAYVSAIVQGERVEEPVPEAYNPEMLKKRQLTVLDLHPGAGKTRRILPQIIKD 265
Query: 111 LSQNHKTRTIYTSPIKALSNQKYRDFRETFQDVGLVTGDFQINTTASCL--VMTTEILRS 168
Q RT +P + ++ + R V +T Q + + + VM L
Sbjct: 266 AIQKRL-RTAVLAPTRVVAAEMAEALRG--LPVRYLTPAVQREHSGNEIVDVMCHATLTH 322
Query: 169 MLYRGSDVLRDLEYVIFDEVHYINDSE---RGHVWEEVLILLPKEVCIVMLSATVPN-TL 224
L + + + DE H+ + + RG++ V E + ++AT P +
Sbjct: 323 RLMSPLR-VPNYNLFVMDEAHFTDPASIAARGYIATRV---EAGEAAAIFMTATPPGTSD 378
Query: 225 EFADWVGNTKKTKVYVVSTLKRPVPLKHFLYVGPVLEKNQLFLIREAEGEFLTRGYLA-A 283
F V + +P + I + G+ + ++A
Sbjct: 379 PFP--------DTNSPVHDVSSEIP--------DRAWSSGFEWITDYAGKTVW--FVASV 420
Query: 284 KEV-KCRKQLEKGGSGGGKLNG 304
K + + L++ G +LN
Sbjct: 421 KMSNEIAQCLQRAGKRVIQLNR 442
>3llm_A ATP-dependent RNA helicase A; alpha-beta-alpha, structural
genomics, structural genomics consortium, SGC,
activator, ATP-binding, DNA-binding; HET: ADP; 2.80A
{Homo sapiens}
Length = 235
Score = 38.0 bits (89), Expect = 0.003
Identities = 43/183 (23%), Positives = 77/183 (42%), Gaps = 37/183 (20%)
Query: 74 LDVFQ-KQAIIKLEEHNHVFV-TAHTSAGKTV-----IAEYAIALSQNHKTRTIYTSP-- 124
L V + + I++ N V + T GKT I + I + + + T P
Sbjct: 60 LPVKKFESEILEAISQNSVVIIRGATGCGKTTQVPQFILDDFIQNDRAAECNIVVTQPRR 119
Query: 125 IKALSNQKYRDFRETFQDVGLVTGDFQI-------NTTASCLVMTTEILRSMLYRGSDVL 177
I A+S + R E ++ G G + + AS + T +L L G +
Sbjct: 120 ISAVSVAE-RVAFERGEEPGKSCG-YSVRFESILPRPHASIMFCTVGVLLRKLEAG---I 174
Query: 178 RDLEYVIFDEVHYINDSERGHVWEEVLILLPKEVC--------IVMLSATVPNTLEFADW 229
R + +VI DE+H ER + + L+++ ++V ++M SAT+ +T F ++
Sbjct: 175 RGISHVIVDEIH-----ER-DINTDFLLVVLRDVVQAYPEVRIVLM-SATI-DTSMFCEY 226
Query: 230 VGN 232
N
Sbjct: 227 FFN 229
>3oiy_A Reverse gyrase helicase domain; topoisomerase, DNA supercoiling,
archaea, isomeras; 2.35A {Thermotoga maritima} PDB:
3p4y_A 3p4x_A*
Length = 414
Score = 36.6 bits (85), Expect = 0.014
Identities = 33/233 (14%), Positives = 69/233 (29%), Gaps = 36/233 (15%)
Query: 47 AEMLDVSKPVLDFDAKV------PIMAHTWPFELDVFQKQAIIKLEEHNHVFVTAHTSAG 100
AE + + F K Q+ ++ + + A T G
Sbjct: 1 AEFWNEYEDFRSFFKKKFGKDLTGY------------QRLWAKRIVQGKSFTMVAPTGVG 48
Query: 101 KTVIAEYAI-ALSQ-NHKTRTIYTSPIKALSNQKYRDFRE-TFQDV------GLVTGDFQ 151
KT + AL ++ P L Q ++ + V + + +
Sbjct: 49 KT--TFGMMTALWLARKGKKSALVFPTVTLVKQTLERLQKLADEKVKIFGFYSSMKKEEK 106
Query: 152 INTTASCLVMTTEIL-----RSMLYRGSDVLRDLEYVIFDEVHYINDSERGHVWEEVLIL 206
S IL R + ++V D+V + + R +++
Sbjct: 107 EKFEKSFEEDDYHILVFSTQFVSKNREKLSQKRFDFVFVDDVDAVLKASRNIDTLLMMVG 166
Query: 207 LPKEVCIVMLSATVPNTLEFADWVGNTKKTKVYVVSTLKRPVPLKHFLYVGPV 259
+P+E+ S + + N K + V S +P ++ L+ +
Sbjct: 167 IPEEIIRKAFSTIKQGKIY--ERPKNLKPGILVVSSATAKPRGIRPLLFRDLL 217
>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 = 36.7 bits (85), Expect = 0.014
Identities = 29/169 (17%), Positives = 51/169 (30%), Gaps = 22/169 (13%)
Query: 42 TQTEWAEMLDVSKPVLDFDAKVPI--MAHTWPFELDVFQKQAIIKLEE-----HNHVFVT 94
T E + L + + D D + H + +Q+ AI + + +T
Sbjct: 145 TPDELFKRLCGDEGIKDEDLDTLLSPYHHVSGYSPRYYQQIAINRAVQSVLQGKKRSLIT 204
Query: 95 AHTSAGKTVIAEYAI-ALSQNHKTRTIYTSPIK--------ALSNQKYRDFRETFQDVGL 145
T GKTV+A L RT + L + F D
Sbjct: 205 MATGTGKTVVAFQISWKLWSARWNRTGDYRKPRILFLADRNVLVDDPKDKTFTPFGDARH 264
Query: 146 VTGDFQINTTASCLV-----MTTEILRSMLYRGSDVLRDLEYVIFDEVH 189
++ + + ++ R LY+ + +I DE H
Sbjct: 265 KIEGGKVVKSREIYFAIYQSIASDERRPGLYKEFPQ-DFFDLIIIDECH 312
>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 = 32.2 bits (72), Expect = 0.16
Identities = 9/37 (24%), Positives = 16/37 (43%), Gaps = 11/37 (29%)
Query: 78 QKQAIIKLEEHNHVFVTAHTSAGKTVIAEYAIALSQN 114
+KQA+ KL+ ++ K + A AL+
Sbjct: 18 EKQALKKLQ-----------ASLKLYADDSAPALAIK 43
Score = 30.3 bits (67), Expect = 0.71
Identities = 8/31 (25%), Positives = 14/31 (45%), Gaps = 6/31 (19%)
Query: 382 QVKRLEQLLKNGIGVHHSGILPIL--KEIVE 410
+K+L+ LK ++ P L K +E
Sbjct: 21 ALKKLQASLK----LYADDSAPALAIKATME 47
>3fho_A ATP-dependent RNA helicase DBP5; mRNA export, ATPase, translation
termination, binding, hydrolase, membrane, mRNA
transport; 2.80A {Schizosaccharomyces pombe}
Length = 508
Score = 32.5 bits (75), Expect = 0.23
Identities = 16/65 (24%), Positives = 28/65 (43%), Gaps = 10/65 (15%)
Query: 169 MLYRGSDVLRDLEYVIFDEVHYIND---SERGHV--WEEVLILLPKEVCIVMLSATVPNT 223
++ R RD++ + DE D ++G + LLP+ IV+ SAT
Sbjct: 249 LMKRRQLDARDIKVFVLDEA----DNMLDQQGLGDQSMRIKHLLPRNTQIVLFSATFSER 304
Query: 224 -LEFA 227
++A
Sbjct: 305 VEKYA 309
>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 = 31.4 bits (72), Expect = 0.57
Identities = 19/65 (29%), Positives = 25/65 (38%), Gaps = 9/65 (13%)
Query: 169 MLYRGSDVLRDLEYVIFDEVHYINDS--ERG--HVWEEVLILLPKEVCIVMLSATVPNT- 223
+ R L D I DE D R + E++L LP ++ SAT P T
Sbjct: 153 LASRKVADLSDCSLFIMDEA----DKMLSRDFKTIIEQILSFLPPTHQSLLFSATFPLTV 208
Query: 224 LEFAD 228
EF
Sbjct: 209 KEFMV 213
>3e1s_A Exodeoxyribonuclease V, subunit RECD; alpha and beta protein,
ATP-binding, nucleotide-binding, HYD; 2.20A {Deinococcus
radiodurans} PDB: 3gp8_A 3gpl_A*
Length = 574
Score = 30.8 bits (70), Expect = 0.84
Identities = 12/76 (15%), Positives = 23/76 (30%)
Query: 49 MLDVSKPVLDFDAKVPIMAHTWPFELDVFQKQAIIKLEEHNHVFVTAHTSAGKTVIAEYA 108
L + P + L Q + +L H V +T GK+ +
Sbjct: 165 TLLATPPADGAGNDDWAVPKKARKGLSEEQASVLDQLAGHRLVVLTGGPGTGKSTTTKAV 224
Query: 109 IALSQNHKTRTIYTSP 124
L+++ +P
Sbjct: 225 ADLAESLGLEVGLCAP 240
>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 = 29.1 bits (66), Expect = 2.2
Identities = 13/60 (21%), Positives = 25/60 (41%), Gaps = 13/60 (21%)
Query: 169 MLYRGSDVLRDLEYVIFDE-------VHYINDSERGHVWEEVLILLPKEVCIVMLSATVP 221
+ S L+ +++ I DE + D + E+ + P E ++M SAT+
Sbjct: 148 LARNKSLNLKHIKHFILDECDKMLEQLDMRRDVQ------EIFRMTPHEKQVMMFSATLS 201
>2wjy_A Regulator of nonsense transcripts 1; nonsense mediated decay,
zinc-finger, ATP-binding, metal-BIN UPF2, UPF1,
helicase, hydrolase; 2.50A {Homo sapiens} PDB: 2wjv_A
2iyk_A
Length = 800
Score = 29.5 bits (66), Expect = 2.4
Identities = 11/77 (14%), Positives = 24/77 (31%), Gaps = 2/77 (2%)
Query: 50 LDVSKPVLDFDAKVPIMAHTWPF-ELDVFQKQAIIKLEEHNHVFVTAHTSAGKT-VIAEY 107
L + ++P +L+ Q A+ + + + GKT A
Sbjct: 332 LGHEVEDVIIKCQLPKRFTAQGLPDLNHSQVYAVKTVLQRPLSLIQGPPGTGKTVTSATI 391
Query: 108 AIALSQNHKTRTIYTSP 124
L++ + +P
Sbjct: 392 VYHLARQGNGPVLVCAP 408
>3jzd_A Iron-containing alcohol dehydrogenase; YP_298327.1, putative
alcohol dehedrogenase, structural GENO joint center for
structural genomics; HET: MSE NAD PG4 P6G PGE; 2.10A
{Ralstonia eutropha}
Length = 358
Score = 29.1 bits (66), Expect = 2.4
Identities = 7/30 (23%), Positives = 14/30 (46%)
Query: 159 LVMTTEILRSMLYRGSDVLRDLEYVIFDEV 188
LV+ T ++ R +D+L L ++
Sbjct: 40 LVLCTPNQQAEAERIADLLGPLSAGVYAGA 69
>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 = 29.1 bits (66), Expect = 2.5
Identities = 9/68 (13%), Positives = 17/68 (25%), Gaps = 14/68 (20%)
Query: 169 MLYRGSDVLRDLEYVIFDEV-------HYINDSERGHVWEEVLILLPKEVCIVMLSATVP 221
++ + I DE + + LP ++ +SAT P
Sbjct: 156 LIELDYLNPGSIRLFILDEADKLLEEGSFQEQIN------WIYSSLPASKQMLAVSATYP 209
Query: 222 NT-LEFAD 228
Sbjct: 210 EFLANALT 217
>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 = 29.1 bits (66), Expect = 2.9
Identities = 14/67 (20%), Positives = 26/67 (38%), Gaps = 13/67 (19%)
Query: 169 MLYRGSDVLRDLEYVIFDE------VHYINDSERGHVWEEVLILLPKEVCIVMLSATVPN 222
ML R + ++ + DE + + ++ L +V+LSAT+P+
Sbjct: 173 MLNRRYLSPKYIKMFVLDEADEMLSRGFKDQI------YDIFQKLNSNTQVVLLSATMPS 226
Query: 223 T-LEFAD 228
LE
Sbjct: 227 DVLEVTK 233
>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 = 28.9 bits (65), Expect = 3.1
Identities = 12/58 (20%), Positives = 27/58 (46%), Gaps = 10/58 (17%)
Query: 177 LRDLEYVIFDEVHYIND---SERGHV--WEEVLILLPKEVCIVMLSATVPNT-LEFAD 228
+ ++ + DE D + +GH + +LP+ +++ SAT ++ +FA
Sbjct: 233 PKKIKVFVLDEA----DVMIATQGHQDQSIRIQRMLPRNCQMLLFSATFEDSVWKFAQ 286
>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 = 29.0 bits (66), Expect = 3.4
Identities = 16/67 (23%), Positives = 25/67 (37%), Gaps = 13/67 (19%)
Query: 169 MLYRGSDVLRDLEYVIFDE------VHYINDSERGHVWEEVLILLPKEVCIVMLSATVPN 222
+ R ++ I DE + ++ LLP +V+LSAT+PN
Sbjct: 152 NIQRRRFRTDKIKMFILDEADEMLSSGFKEQI------YQIFTLLPPTTQVVLLSATMPN 205
Query: 223 T-LEFAD 228
LE
Sbjct: 206 DVLEVTT 212
>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 = 28.8 bits (65), Expect = 4.1
Identities = 12/58 (20%), Positives = 27/58 (46%), Gaps = 10/58 (17%)
Query: 177 LRDLEYVIFDEVHYIND---SERGHV--WEEVLILLPKEVCIVMLSATVPNT-LEFAD 228
+ ++ + DE D + +GH + +LP+ +++ SAT ++ +FA
Sbjct: 233 PKKIKVFVLDEA----DVMIATQGHQDQSIRIQRMLPRNCQMLLFSATFEDSVWKFAQ 286
>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 = 28.7 bits (65), Expect = 4.2
Identities = 15/65 (23%), Positives = 29/65 (44%), Gaps = 10/65 (15%)
Query: 169 MLYRGSDVLRDLEYVIFDEVHYIND---SERGHV--WEEVLILLPKEVCIVMLSATVPNT 223
++ R L+ ++ + DE D ++G V LPK+ +V+ SAT +
Sbjct: 135 LMRRKLMQLQKIKIFVLDEA----DNMLDQQGLGDQCIRVKRFLPKDTQLVLFSATFADA 190
Query: 224 -LEFA 227
++A
Sbjct: 191 VRQYA 195
>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 = 27.9 bits (63), Expect = 4.6
Identities = 13/67 (19%), Positives = 32/67 (47%), Gaps = 13/67 (19%)
Query: 169 MLYRGSDVLRDLEYVIFDE------VHYINDSERGHVWEEVLILLPKEVCIVMLSATVPN 222
++ +G + ++ ++ DE ++ E ++++ LPK I++ SAT P
Sbjct: 136 LIKKGVAKVDHVQMIVLDEADKLLSQDFVQIME------DIILTLPKNRQILLYSATFPL 189
Query: 223 T-LEFAD 228
+ +F +
Sbjct: 190 SVQKFMN 196
>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 = 28.3 bits (64), Expect = 5.0
Identities = 12/58 (20%), Positives = 27/58 (46%), Gaps = 10/58 (17%)
Query: 177 LRDLEYVIFDEVHYIND---SERGHV--WEEVLILLPKEVCIVMLSATVPNT-LEFAD 228
+ ++ + DE D + +GH + +LP+ +++ SAT ++ +FA
Sbjct: 166 PKKIKVFVLDEA----DVMIATQGHQDQSIRIQRMLPRNCQMLLFSATFEDSVWKFAQ 219
>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 = 28.3 bits (64), Expect = 5.4
Identities = 16/67 (23%), Positives = 29/67 (43%), Gaps = 13/67 (19%)
Query: 169 MLYRGSDVLRDLEYVIFDEV------HYINDSERGHVWEEVLILLPKEVCIVMLSATVPN 222
M+ R S R ++ ++ DE + +V LP +V++SAT+P+
Sbjct: 169 MIRRRSLRTRAIKMLVLDEADEMLNKGFKEQI------YDVYRYLPPATQVVLISATLPH 222
Query: 223 T-LEFAD 228
LE +
Sbjct: 223 EILEMTN 229
>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 = 28.4 bits (64), Expect = 5.7
Identities = 7/41 (17%), Positives = 16/41 (39%), Gaps = 8/41 (19%)
Query: 334 TLSRKRCDQNAANLLSMDFS--------TATEKSKIHRFFQ 366
S+K +Q +L ++ +K+ +HR +
Sbjct: 274 CFSQKDSEQVTVSLQNLGIHAGAYHANLEPEDKTTVHRKWS 314
>3hl0_A Maleylacetate reductase; structur genomics, PSI-2, protein
structure initiative, midwest CENT structural genomics,
MCSG; HET: MSE NAD EPE; 1.60A {Agrobacterium tumefaciens
str}
Length = 353
Score = 28.0 bits (63), Expect = 6.2
Identities = 7/30 (23%), Positives = 12/30 (40%)
Query: 159 LVMTTEILRSMLYRGSDVLRDLEYVIFDEV 188
LV++T + + L L +F E
Sbjct: 38 LVLSTPQQKGDAEALASRLGRLAAGVFSEA 67
>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 = 27.9 bits (63), Expect = 6.2
Identities = 13/68 (19%), Positives = 25/68 (36%), Gaps = 14/68 (20%)
Query: 169 MLYRGSDVLRDLEYVIFDE-------VHYINDSERGHVWEEVLILLPKEVCIVMLSATVP 221
+ S L+ +++ I DE + D + E+ + P E ++M SAT+
Sbjct: 142 LARNKSLNLKHIKHFILDECDKMLEQLDMRRDVQ------EIFRMTPHEKQVMMFSATLS 195
Query: 222 NT-LEFAD 228
Sbjct: 196 KEIRPVCR 203
>3u0g_A Putative branched-chain amino acid aminotransfera; structural
genomics, seattle structural genomics center for
infectious disease; 1.90A {Burkholderia pseudomallei}
Length = 328
Score = 27.6 bits (62), Expect = 8.4
Identities = 12/39 (30%), Positives = 19/39 (48%), Gaps = 10/39 (25%)
Query: 60 DAKVPIMAHTWPFELDVF----------QKQAIIKLEEH 88
DAK+ ++ HT + + VF AI +L+EH
Sbjct: 42 DAKIHVLTHTLHYGMGVFEGVRAYKTADGGTAIFRLKEH 80
>2eiy_A ILVE, branched-chain amino acid aminotransferase; PLP-dependent
enzyme; HET: PLP; 1.35A {Thermus thermophilus} PDB:
1wrv_A* 2ej0_A* 2ej2_A* 2ej3_A*
Length = 308
Score = 27.6 bits (62), Expect = 8.5
Identities = 10/38 (26%), Positives = 18/38 (47%), Gaps = 9/38 (23%)
Query: 60 DAKVPIMAHTWPFELDVF---------QKQAIIKLEEH 88
+AK +++H + VF + AI +L+EH
Sbjct: 19 EAKTSVLSHALHYGTSVFEGIRAYETAKGPAIFRLKEH 56
>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 = 27.2 bits (61), Expect = 8.9
Identities = 36/175 (20%), Positives = 66/175 (37%), Gaps = 32/175 (18%)
Query: 78 QKQAIIKLEEHNHVFVTAHTSAGKTVIAEYAIALSQN-----HKTRTIYTSPIKALSNQK 132
Q++AII + V A + GKT A +AI++ Q +T+ + +P + L+ Q
Sbjct: 57 QQRAIIPCIKGYDVIAQAQSGTGKT--ATFAISILQQLEIEFKETQALVLAPTRELAQQI 114
Query: 133 YRDFRETFQDVGL----VTG----DFQI----NTTASCLVMTTEILRSMLYRGSDVLRDL 180
+ +G G ++ +V T + ML R + +
Sbjct: 115 QKVILALGDYMGATCHACIGGTNVRNEMQKLQAEAPHIVVGTPGRVFDMLNRRYLSPKWI 174
Query: 181 EYVIFDEVH------YINDSERGHVWEEVLILLPKEVCIVMLSATVPNT-LEFAD 228
+ + DE + + E+ L + +V+LSAT+P LE
Sbjct: 175 KMFVLDEADEMLSRGFKDQI------YEIFQKLNTSIQVVLLSATMPTDVLEVTK 223
>1iye_A Branched-chain amino acid aminotransferase; hexamer, PLP; HET:
PGU; 1.82A {Escherichia coli} SCOP: e.17.1.1 PDB:
1i1l_A* 1i1m_A* 1iyd_A* 1i1k_A* 1a3g_A*
Length = 309
Score = 27.2 bits (61), Expect = 9.5
Identities = 10/38 (26%), Positives = 16/38 (42%), Gaps = 9/38 (23%)
Query: 60 DAKVPIMAHTWPFELDVF---------QKQAIIKLEEH 88
DAKV +M+H + VF + + + EH
Sbjct: 20 DAKVHVMSHALHYGTSVFEGIRCYDSHKGPVVFRHREH 57
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 0.136 0.398
Gapped
Lambda K H
0.267 0.0625 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 6,365,667
Number of extensions: 378791
Number of successful extensions: 860
Number of sequences better than 10.0: 1
Number of HSP's gapped: 817
Number of HSP's successfully gapped: 66
Length of query: 419
Length of database: 6,701,793
Length adjustment: 96
Effective length of query: 323
Effective length of database: 4,021,377
Effective search space: 1298904771
Effective search space used: 1298904771
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: 59 (26.7 bits)