RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy6275
(391 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 = 453 bits (1166), Expect = e-152
Identities = 224/365 (61%), Positives = 277/365 (75%), Gaps = 8/365 (2%)
Query: 22 VETLEACLHEVALPPDLEYQPLAQSKE-KPAREYPFVLDPFQKEAILCIENNQSVLVSAH 80
V H+VALPP+ +Y P+A+ K AR YPF LDPFQ AI CI+ +SVLVSAH
Sbjct: 50 VRLSHQVRHQVALPPNYDYTPIAEHKRVNEARTYPFTLDPFQDTAISCIDRGESVLVSAH 109
Query: 81 TSAGKTVVAEYAIASSLKQSQRVIYTTPIKALSNQKYREFEEQFKDVGLITGDVTINPSS 140
TSAGKTVVAEYAIA SLK QRVIYT+PIKALSNQKYRE +F DVGL+TGD+TINP +
Sbjct: 110 TSAGKTVVAEYAIAQSLKNKQRVIYTSPIKALSNQKYRELLAEFGDVGLMTGDITINPDA 169
Query: 141 SCLIMTTEILRNMLYRGSEITREVGWVIFDEIHYMRDKERGYVWEETLILLSDNVRFVFL 200
CL+MTTEILR+MLYRGSE+ REV WVIFDE+HYMRDKERG VWEET+ILL D VR+VFL
Sbjct: 170 GCLVMTTEILRSMLYRGSEVMREVAWVIFDEVHYMRDKERGVVWEETIILLPDKVRYVFL 229
Query: 201 SATIPNASQFAQWVSHLHHQPCHVVYTDYRPTPLQHYLFPNGGDGIHLIVDDN-KFKEHN 259
SATIPNA +FA+W+ +H QPCH+VYT++RPTPLQHYLFP GDGI+L+VD+ F+E N
Sbjct: 230 SATIPNAMEFAEWICKIHSQPCHIVYTNFRPTPLQHYLFPAHGDGIYLVVDEKSTFREEN 289
Query: 260 YQVAMNVLANAGDAAKAGDHKGGRKG------GPKGGVQTNCFKIVKMIMERNLAPVIVF 313
+Q AM ++N G+KG KG + + +KIVKMI ++ PVIVF
Sbjct: 290 FQKAMASISNQIGDDPNSTDSRGKKGQTYKGGSAKGDAKGDIYKIVKMIWKKKYNPVIVF 349
Query: 314 SFSKKDCEIYAMQMAKLNFNETEEVKLVDDVFSNAMDVLSEEDRKLPQIENILPLLRRGI 373
SFSK+DCE A++M+KL+FN +E + + +F+NA+ +L E DR+LPQI++ILPLLRRGI
Sbjct: 350 SFSKRDCEELALKMSKLDFNSDDEKEALTKIFNNAIALLPETDRELPQIKHILPLLRRGI 409
Query: 374 GIHHG 378
GIHH
Sbjct: 410 GIHHS 414
>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 = 450 bits (1158), Expect = e-149
Identities = 224/365 (61%), Positives = 277/365 (75%), Gaps = 8/365 (2%)
Query: 22 VETLEACLHEVALPPDLEYQPLAQSKE-KPAREYPFVLDPFQKEAILCIENNQSVLVSAH 80
V H+VALPP+ +Y P+A+ K AR YPF LDPFQ AI CI+ +SVLVSAH
Sbjct: 148 VRLSHQVRHQVALPPNYDYTPIAEHKRVNEARTYPFTLDPFQDTAISCIDRGESVLVSAH 207
Query: 81 TSAGKTVVAEYAIASSLKQSQRVIYTTPIKALSNQKYREFEEQFKDVGLITGDVTINPSS 140
TSAGKTVVAEYAIA SLK QRVIYT+PIKALSNQKYRE +F DVGL+TGD+TINP +
Sbjct: 208 TSAGKTVVAEYAIAQSLKNKQRVIYTSPIKALSNQKYRELLAEFGDVGLMTGDITINPDA 267
Query: 141 SCLIMTTEILRNMLYRGSEITREVGWVIFDEIHYMRDKERGYVWEETLILLSDNVRFVFL 200
CL+MTTEILR+MLYRGSE+ REV WVIFDE+HYMRDKERG VWEET+ILL D VR+VFL
Sbjct: 268 GCLVMTTEILRSMLYRGSEVMREVAWVIFDEVHYMRDKERGVVWEETIILLPDKVRYVFL 327
Query: 201 SATIPNASQFAQWVSHLHHQPCHVVYTDYRPTPLQHYLFPNGGDGIHLIVDDN-KFKEHN 259
SATIPNA +FA+W+ +H QPCH+VYT++RPTPLQHYLFP GDGI+L+VD+ F+E N
Sbjct: 328 SATIPNAMEFAEWICKIHSQPCHIVYTNFRPTPLQHYLFPAHGDGIYLVVDEKSTFREEN 387
Query: 260 YQVAMNVLANAGDAAKAGDHKGGRKG------GPKGGVQTNCFKIVKMIMERNLAPVIVF 313
+Q AM ++N G+KG KG + + +KIVKMI ++ PVIVF
Sbjct: 388 FQKAMASISNQIGDDPNSTDSRGKKGQTYKGGSAKGDAKGDIYKIVKMIWKKKYNPVIVF 447
Query: 314 SFSKKDCEIYAMQMAKLNFNETEEVKLVDDVFSNAMDVLSEEDRKLPQIENILPLLRRGI 373
SFSK+DCE A++M+KL+FN +E + + +F+NA+ +L E DR+LPQI++ILPLLRRGI
Sbjct: 448 SFSKRDCEELALKMSKLDFNSDDEKEALTKIFNNAIALLPETDRELPQIKHILPLLRRGI 507
Query: 374 GIHHG 378
GIHH
Sbjct: 508 GIHHS 512
>4a4z_A Antiviral helicase SKI2; hydrolase, ATPase, mRNA degradation,
exosome; HET: ANP; 2.40A {Saccharomyces cerevisiae} PDB:
4a4k_A
Length = 997
Score = 400 bits (1028), Expect = e-131
Identities = 157/400 (39%), Positives = 227/400 (56%), Gaps = 53/400 (13%)
Query: 30 HEVALPPDLEYQPLAQSK--EKPAREYPFVLDPFQKEAILCIENNQSVLVSAHTSAGKTV 87
E A DL ++ + PAR +PF LD FQKEA+ +E SV V+AHTSAGKTV
Sbjct: 10 KEWAHVVDLNHKIENFDELIPNPARSWPFELDTFQKEAVYHLEQGDSVFVAAHTSAGKTV 69
Query: 88 VAEYAIASSLKQSQRVIYTTPIKALSNQKYREFEEQF--KDVGLITGDVTINPSSSCLIM 145
VAEYAIA + + + IYT+PIKALSNQK+R+F+E F ++GLITGDV INP ++CLIM
Sbjct: 70 VAEYAIAMAHRNMTKTIYTSPIKALSNQKFRDFKETFDDVNIGLITGDVQINPDANCLIM 129
Query: 146 TTEILRNMLYRGSEITREVGWVIFDEIHYMRDKERGYVWEETLILLSDNVRFVFLSATIP 205
TTEILR+MLYRG+++ R+V +VIFDE+HY+ D++RG VWEE +I+L +V+F+ LSAT+P
Sbjct: 130 TTEILRSMLYRGADLIRDVEFVIFDEVHYVNDQDRGVVWEEVIIMLPQHVKFILLSATVP 189
Query: 206 NASQFAQWVSHLHHQPCHVVYTDYRPTPLQHYLFPNGGDGIHLIVDDN-KFKEHNYQVAM 264
N +FA W+ + +V+ T RP PL+ ++ + +++ N +F E N++
Sbjct: 190 NTYEFANWIGRTKQKNIYVISTPKRPVPLEINIWA--KKELIPVINQNSEFLEANFRKHK 247
Query: 265 NVLAN----------------------------------AGDAAKAGDHKGGRKGGPKGG 290
+L G++ + G ++GG +G G
Sbjct: 248 EILNGESAKGAPSKTDNGRGGSTARGGRGGSNTRDGRGGRGNSTRGGANRGGSRGAGAIG 307
Query: 291 ------------VQTNCFKIVKMIMERNLAPVIVFSFSKKDCEIYAMQMAKLNFNETEEV 338
+ +IV + +R L P++VF FSKK CE YA + +NF +E
Sbjct: 308 SNKRKFFTQDGPSKKTWPEIVNYLRKRELLPMVVFVFSKKRCEEYADWLEGINFCNNKEK 367
Query: 339 KLVDDVFSNAMDVLSEEDRKLPQIENILPLLRRGIGIHHG 378
+ ++ L +EDR LPQI LL RGI +HHG
Sbjct: 368 SQIHMFIEKSITRLKKEDRDLPQILKTRSLLERGIAVHHG 407
>2va8_A SSO2462, SKI2-type helicase; hydrolase, DNA repair, ATP-bindin
nucleotide-binding; 2.30A {Sulfolobus solfataricus}
Length = 715
Score = 282 bits (724), Expect = 5e-89
Identities = 78/358 (21%), Positives = 150/358 (41%), Gaps = 59/358 (16%)
Query: 38 LEYQPL--------AQSKEKPAREYPFVLDPFQKEAI-LCIENNQSVLVSAHTSAGKTVV 88
LE + + + E + L+P Q EA+ + +L+++ T +GKT++
Sbjct: 3 LELEWMPIEDLKLPSNVIEIIKKRGIKKLNPPQTEAVKKGLLEGNRLLLTSPTGSGKTLI 62
Query: 89 AEYAIASSLKQS-QRVIYTTPIKALSNQKYREF---EEQFKDVGLITGDVTINP----SS 140
AE I S L ++ + IY TP++AL+N+KY F E V + +GD + +
Sbjct: 63 AEMGIISFLLKNGGKAIYVTPLRALTNEKYLTFKDWELIGFKVAMTSGDYDTDDAWLKNY 122
Query: 141 SCLIMTTEILRNMLYRGSEITREVGWVIFDEIHYMRDKERGYVWEETLILLSDNVRFVFL 200
+I T E L ++ E EV + + DE+HY+ D ERG V E++ + + + L
Sbjct: 123 DIIITTYEKLDSLWRHRPEWLNEVNYFVLDELHYLNDPERGPVV-ESVTIRAKRRNLLAL 181
Query: 201 SATIPNASQFAQWVSHLHHQPCHVVYTDYRPTPL-QHYLFPNGGDGIHLIVDDNKFKEHN 259
SATI N Q A+W+ V T++RP PL + ++P + ++ + +
Sbjct: 182 SATISNYKQIAKWLG------AEPVATNWRPVPLIEGVIYPERKKKEYNVIFKDNTTKKV 235
Query: 260 YQVAMNVLANAGDAAKAGDHKGGRKGGPKGGVQTNCFKIVKMIMERNLAPVIVFSFSKKD 319
+ + + + + + V+VF S+K
Sbjct: 236 H--GDDAI---------------------------IAYTLDSLSKNG--QVLVFRNSRKM 264
Query: 320 CEIYAMQMAKLNFNETEEVKLVDDVFSNAMDVLSEEDRKLPQIENILPLLRRGIGIHH 377
E A+++A + + + ++ D+ + ++ L+ +G+ HH
Sbjct: 265 AESTALKIANYMNFVSLDENALSEILKQLDDIEEGGSDEKELLK---SLISKGVAYHH 319
>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 = 222 bits (568), Expect = 2e-66
Identities = 70/354 (19%), Positives = 141/354 (39%), Gaps = 66/354 (18%)
Query: 34 LPPDLEYQPLAQSKEKPAREYPFVLDPFQKEAILCIENNQSVLVSAHTSAGKTVVAEYAI 93
L + + KE+ E L P Q EA+ + + +++L++ T+AGKT++AE A+
Sbjct: 6 LAESISSYAVGILKEEGIEE----LFPPQAEAVEKVFSGKNLLLAMPTAAGKTLLAEMAM 61
Query: 94 ASSLKQSQRVIYTTPIKALSNQKYREFEEQFK---DVGLITGDVTINP----SSSCLIMT 146
+ + +Y P++AL+ +KY F++ K +G+ TGD ++ T
Sbjct: 62 VREAIKGGKSLYVVPLRALAGEKYESFKKWEKIGLRIGISTGDYESRDEHLGDCDIIVTT 121
Query: 147 TEILRNMLYRGSEITREVGWVIFDEIHYMRDKERGYVWEETLILL---SDNVRFVFLSAT 203
+E +++ + + V ++ DEIH + ++RG E + + + +R + LSAT
Sbjct: 122 SEKADSLIRNRASWIKAVSCLVVDEIHLLDSEKRGATLEILVTKMRRMNKALRVIGLSAT 181
Query: 204 IPNASQFAQWVSHLHHQPCHVVYTDYRPTPLQHYLFPNGGDGIHLIVDDNKFKEHNYQVA 263
PN ++ A+W+ +D+RP PL + + L D F
Sbjct: 182 APNVTEIAEWLD------ADYYVSDWRPVPLVEGVL--CEGTLELF--DGAFSTSRRVKF 231
Query: 264 MNVLANAGDAAKAGDHKGGRKGGPKGGVQTNCFKIVKMIMERNLAPVIVFSFSKKDCEIY 323
+ + + + E V+VF +++ E
Sbjct: 232 EEL-------------------------------VEECVAENG--GVLVFESTRRGAEKT 258
Query: 324 AMQMAKLNFNETEEVKLVDDVFSNAMDVLSEEDRKLPQIENILPLLRRGIGIHH 377
A++++ + E L + +S + + +R+G HH
Sbjct: 259 AVKLSAITAKYVENEGLEKAILEENEGEMSRKLAE---------CVRKGAAFHH 303
>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 = 220 bits (563), Expect = 1e-65
Identities = 72/329 (21%), Positives = 138/329 (41%), Gaps = 60/329 (18%)
Query: 58 LDPFQKEAILC-IENNQSVLVSAHTSAGKTVVAEYAIASSLKQS-QRVIYTTPIKALSNQ 115
P Q EA+ I ++ L+S T++GKT++AE A+ + + +Y P+KAL+ +
Sbjct: 24 FYPPQAEALKSGILEGKNALISIPTASGKTLIAEIAMVHRILTQGGKAVYIVPLKALAEE 83
Query: 116 KYREFEEQFK---DVGLITGDVTINP----SSSCLIMTTEILRNMLYRGSEITREVGWVI 168
K++EF++ K V + TGD +I T E ++L GS ++V ++
Sbjct: 84 KFQEFQDWEKIGLRVAMATGDYDSKDEWLGKYDIIIATAEKFDSLLRHGSSWIKDVKILV 143
Query: 169 FDEIHYMRDKERGYVWEETLILLSDNVRFVFLSATIPNASQFAQWVSHLHHQPCHVVYTD 228
DEIH + ++RG E L + + + LSATI N + A+W++ ++ +D
Sbjct: 144 ADEIHLIGSRDRGATLEVILAHMLGKAQIIGLSATIGNPEELAEWLN------AELIVSD 197
Query: 229 YRPTPLQHYLFPNGGDGIHLIVDDNKFKEHNYQVAMNVLANAGDAAKAGDHKGGRKGGPK 288
+RP L+ +F G V + + L
Sbjct: 198 WRPVKLRRGVFYQG------FVTWEDGSIDRFS-SWEEL--------------------- 229
Query: 289 GGVQTNCFKIVKMIMERNLAPVIVFSFSKKDCEIYAMQMAKLNFNETEEVKLVDDVFSNA 348
+ I ++ ++F ++ E A++++K + L+ A
Sbjct: 230 ---------VYDAIRKKK--GALIFVNMRRKAERVALELSK------KVKSLLTKPEIRA 272
Query: 349 MDVLSEEDRKLPQIENILPLLRRGIGIHH 377
++ L++ + P E + +R G+ HH
Sbjct: 273 LNELADSLEENPTNEKLAKAIRGGVAFHH 301
>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 = 95.3 bits (237), Expect = 5e-23
Identities = 35/177 (19%), Positives = 62/177 (35%), Gaps = 29/177 (16%)
Query: 33 ALPPDLEYQPLAQSKEKPAREYPFVLDPFQKEAILCIENNQSVLVSAHTSAGKTVVAEYA 92
+ D + + +A L P+Q E +++++ T +GKT VA Y
Sbjct: 12 TMGSDSDEENVAARASPEP---ELQLRPYQMEVAQPALEGKNIIICLPTGSGKTRVAVYI 68
Query: 93 IASSLKQSQ------RVIYTTPIKALSNQKYREFEEQFK----DVGLITGDVTINP---- 138
L + + +VI L Q +R+ + F V ++GD +
Sbjct: 69 AKDHLDKKKKASEPGKVIVLVNKVLLVEQLFRKEFQPFLKKWYRVIGLSGDTQLKISFPE 128
Query: 139 ---SSSCLIMTTEILRNMLYRGSEITR------EVGWVIFDEIHYMRDKERGYVWEE 186
S +I T +IL N L + +I DE H+ + V+
Sbjct: 129 VVKSCDIIISTAQILENSLLNLENGEDAGVQLSDFSLIIIDECHHTNKE---AVYNN 182
>3rc3_A ATP-dependent RNA helicase SUPV3L1, mitochondrial; SUV3, nucleus,
hydrolase; HET: ANP; 2.08A {Homo sapiens} PDB: 3rc8_A
Length = 677
Score = 69.2 bits (168), Expect = 8e-13
Identities = 26/173 (15%), Positives = 59/173 (34%), Gaps = 13/173 (7%)
Query: 71 NNQSVLVSAHTSAGKTVVAEYAIASSLKQSQRVIYTTPIKALSNQKYREFEEQFKDVGLI 130
+ + S T++GKT A ++ +Y P+K L+++ + + L+
Sbjct: 154 QRKIIFHSGPTNSGKTYHAIQK----YFSAKSGVYCGPLKLLAHEIFEKSNAAGVPCDLV 209
Query: 131 TGDVTINPSSSCLIMTTEILRNMLYRGSEITREVGWVIFDEIHYMRDKERGYVWEETLIL 190
TG+ + + + + +T + DEI +RD RG+ W L+
Sbjct: 210 TGEERVTVQPNGKQASHVSCTVEMCS---VTTPYEVAVIDEIQMIRDPARGWAWTRALLG 266
Query: 191 LSDNVRFVFLSATIPN------ASQFAQWVSHLHHQPCHVVYTDYRPTPLQHY 237
L + + + + + + + D+ L +
Sbjct: 267 LCAEEVHLCGEPAAIDLVMELMYTTGEEVEVRDYKRLTPISVLDHALESLDNL 319
>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 = 65.6 bits (159), Expect = 7e-12
Identities = 31/181 (17%), Positives = 59/181 (32%), Gaps = 11/181 (6%)
Query: 72 NQSVLVSAHTSAGKTVVAEYAIASSL-KQSQRVIYTTPIKALSNQKYREFEEQFK----D 126
+ L+ T GKT++A L K +V+ P K L Q F F
Sbjct: 23 ETNCLIVLPTGLGKTLIAMMIAEYRLTKYGGKVLMLAPTKPLVLQHAESFRRLFNLPPEK 82
Query: 127 VGLITGDVTINP------SSSCLIMTTEILRNMLYRGSEITREVGWVIFDEIHYMRDKER 180
+ +TG+ + + ++ T + + N L G +V ++FDE H
Sbjct: 83 IVALTGEKSPEERSKAWARAKVIVATPQTIENDLLAGRISLEDVSLIVFDEAHRAVGNYA 142
Query: 181 GYVWEETLILLSDNVRFVFLSATIPNASQFAQWVSHLHHQPCHVVYTDYRPTPLQHYLFP 240
+ N + L+A+ + + V + ++ P +
Sbjct: 143 YVFIAREYKRQAKNPLVIGLTASPGSTPEKIMEVINNLGIEHIEYRSENSPDVRPYVKGI 202
Query: 241 N 241
Sbjct: 203 R 203
>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 = 59.3 bits (144), Expect = 3e-10
Identities = 26/125 (20%), Positives = 48/125 (38%), Gaps = 9/125 (7%)
Query: 50 PAREYPFVLDPFQKEAILCIENNQSVLVSAHTSAGKTVVAEYAIASSLKQSQRVIYTTPI 109
P + L +Q++A+ ++ + T +GKT VA A + L ++ T
Sbjct: 86 PYFDAEISLRDYQEKALERWLVDKRGCIVLPTGSGKTHVA-MAAINELSTPTLIVVPT-- 142
Query: 110 KALSNQKYREFEEQFKD-VGLITGDVTINPSSSCLIMTTEILRNMLYRGSEITREVGWVI 168
AL+ Q ++ VG +G I + T + ++ +I
Sbjct: 143 LALAEQWKERLGIFGEEYVGEFSGR--IKELKPLTVSTYDSAYVNAE---KLGNRFMLLI 197
Query: 169 FDEIH 173
FDE+H
Sbjct: 198 FDEVH 202
>3tbk_A RIG-I helicase domain; DECH helicase, ATP binding, hydrolase; HET:
ANP; 2.14A {Mus musculus}
Length = 555
Score = 60.7 bits (146), Expect = 3e-10
Identities = 32/145 (22%), Positives = 53/145 (36%), Gaps = 24/145 (16%)
Query: 51 AREYPFVLDPFQKEAILCIENNQSVLVSAHTSAGKTVVAEYAIASSLKQSQ-----RVIY 105
R Y Q E L + ++ ++ A T GKT V+ LK+ +V++
Sbjct: 5 PRNY-------QLELALPAKKGKNTIICAPTGCGKTFVSLLICEHHLKKFPCGQKGKVVF 57
Query: 106 TTPIKALSNQKYREFEEQFKDVGLITGDVTINPSSSC-----------LIMTTEILRNML 154
+ Q+ F F+ +G ++ S S +I+T +IL N L
Sbjct: 58 FANQIPVYEQQATVFSRYFERLGYNIASISGATSDSVSVQHIIEDNDIIILTPQILVNNL 117
Query: 155 YRGS-EITREVGWVIFDEIHYMRDK 178
G+ +IFDE H
Sbjct: 118 NNGAIPSLSVFTLMIFDECHNTSKN 142
>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 = 59.1 bits (143), Expect = 8e-10
Identities = 32/158 (20%), Positives = 56/158 (35%), Gaps = 16/158 (10%)
Query: 48 EKPAREYPFVLDPFQKEAILCIENNQSVLVSAHTSAGKTVVAEYAIASSLKQSQRVIYTT 107
P + L +Q++A+ ++ + T +GKT VA AI + S +
Sbjct: 84 PTPYFDAEISLRDYQEKALERWLVDKRGCIVLPTGSGKTHVAMAAIN---ELSTPTLIVV 140
Query: 108 PIKALSNQKYREFEE-QFKDVGLITGDVTINPSSSCLIMTTEILRNMLYRGSEITREVGW 166
P AL+ Q + VG +G I + T + ++
Sbjct: 141 PTLALAEQWKERLGIFGEEYVGEFSGR--IKELKPLTVSTYDSAYVNA---EKLGNRFML 195
Query: 167 VIFDEIHYMRDKERGYVWEETLILLSDNVRFVF-LSAT 203
+IFDE+H++ + I F L+AT
Sbjct: 196 LIFDEVHHLPAESY------VQIAQMSIAPFRLGLTAT 227
>2ykg_A Probable ATP-dependent RNA helicase DDX58; hydrolase, innate
immunity; 2.50A {Homo sapiens} PDB: 3tmi_A*
Length = 696
Score = 59.2 bits (142), Expect = 1e-09
Identities = 33/139 (23%), Positives = 55/139 (39%), Gaps = 17/139 (12%)
Query: 55 PFVLDPFQKEAILCIENNQSVLVSAHTSAGKTVVAEYAIASSLKQ-----SQRVIYTTPI 109
PF +Q E L ++ ++ A T GKT V+ LK+ +V++
Sbjct: 11 PFKPRNYQLELALPAMKGKNTIICAPTGCGKTFVSLLICEHHLKKFPQGQKGKVVFFANQ 70
Query: 110 KALSNQKYREFEEQFK----DVGLITGDVTINP-------SSSCLIMTTEILRNMLYRGS 158
+ Q F + F+ V I+G N ++ +I+T +IL N L +G+
Sbjct: 71 IPVYEQNKSVFSKYFERHGYRVTGISGATAENVPVEQIVENNDIIILTPQILVNNLKKGT 130
Query: 159 -EITREVGWVIFDEIHYMR 176
+IFDE H
Sbjct: 131 IPSLSIFTLMIFDECHNTS 149
>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 = 58.8 bits (141), Expect = 1e-09
Identities = 33/149 (22%), Positives = 55/149 (36%), Gaps = 24/149 (16%)
Query: 47 KEKPAREYPFVLDPFQKEAILCIENNQSVLVSAHTSAGKTVVAEYAIASSLKQ-----SQ 101
+ K AR Y Q E N ++ L+ A T +GKT V+ +
Sbjct: 4 ETKKARSY-------QIELAQPAINGKNALICAPTGSGKTFVSILICEHHFQNMPAGRKA 56
Query: 102 RVIYTTPIKALSNQKYREFEEQFK----DVGLITGDVTIN-------PSSSCLIMTTEIL 150
+V++ + Q+ F+ F+ V I+G+ N S +++T +IL
Sbjct: 57 KVVFLATKVPVYEQQKNVFKHHFERQGYSVQGISGENFSNVSVEKVIEDSDIIVVTPQIL 116
Query: 151 RNMLYRGSEI-TREVGWVIFDEIHYMRDK 178
N G+ +IFDE H
Sbjct: 117 VNSFEDGTLTSLSIFTLMIFDECHNTTGN 145
>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 = 58.4 bits (140), Expect = 2e-09
Identities = 38/200 (19%), Positives = 69/200 (34%), Gaps = 29/200 (14%)
Query: 35 PPDLEYQPLAQSKEKPAREYPFVLDPFQKEAILCIENNQSVLVSAHTSAGKTVVAEYAIA 94
+ +P + K AR Y Q E N ++ L+ A T +GKT V+
Sbjct: 233 AAEGIGKPPPVYETKKARSY-------QIELAQPAINGKNALICAPTGSGKTFVSILICE 285
Query: 95 SSLKQ-----SQRVIYTTPIKALSNQKYREFEEQFK----DVGLITGDVTIN-------P 138
+ +V++ + Q+ F+ F+ V I+G+ N
Sbjct: 286 HHFQNMPAGRKAKVVFLATKVPVYEQQKNVFKHHFERQGYSVQGISGENFSNVSVEKVIE 345
Query: 139 SSSCLIMTTEILRNMLYRGSEI-TREVGWVIFDEIHYMRDKERG-----YVWEETLILLS 192
S +++T +IL N G+ +IFDE H E+ S
Sbjct: 346 DSDIIVVTPQILVNSFEDGTLTSLSIFTLMIFDECHNTTGNHPYNVLMTRYLEQKFNSAS 405
Query: 193 DNVRFVFLSATIPNASQFAQ 212
+ + L+A++ +
Sbjct: 406 QLPQILGLTASVGVGNAKNI 425
>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 = 56.4 bits (136), Expect = 7e-09
Identities = 29/186 (15%), Positives = 59/186 (31%), Gaps = 19/186 (10%)
Query: 68 CIENNQSVLVSAHTSAGK-TVVAEYAIASSLKQSQRVIYTTPIKALSNQKYREFEEQFKD 126
++ + ++ H AGK +A ++ R + P + + ++ F D
Sbjct: 4 MLKKGMTTVLDFHPGAGKTRRFLPQILAECARRRLRTLVLAPTRVVLSEMKEAFHGL--D 61
Query: 127 VGLITGDVTINPSSSCLIMT-TE-ILRNMLYRGSEITREVGWVIFDEIH---YMRDKERG 181
V T + + S +I L + + + +I DE H RG
Sbjct: 62 VKFHTQAFSAHGSGREVIDAMCHATLTYRMLEPTRVV-NWEVIIMDEAHFLDPASIAARG 120
Query: 182 YVWEETLILLSDNVRFVFLSATIPNASQFAQWVSHLHHQPCHVVYTDYRPTPL---QHYL 238
+ ++ + ++AT P S H + V TD P ++
Sbjct: 121 WA---AHRARANESATILMTATPPGTS---DEFPH-SNGEIEDVQTDIPSEPWNTGHDWI 173
Query: 239 FPNGGD 244
+
Sbjct: 174 LADKRP 179
>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 = 56.5 bits (135), Expect = 7e-09
Identities = 34/161 (21%), Positives = 58/161 (36%), Gaps = 24/161 (14%)
Query: 35 PPDLEYQPLAQSKEKPAREYPFVLDPFQKEAILCIENNQSVLVSAHTSAGKTVVAEYAIA 94
+ +P + K AR Y Q E N ++ L+ A T +GKT V+
Sbjct: 233 AAEGIGKPPPVYETKKARSY-------QIELAQPAINGKNALICAPTGSGKTFVSILICE 285
Query: 95 SSLKQ-----SQRVIYTTPIKALSNQKYREFEEQFK----DVGLITGDVTIN-------P 138
+ +V++ + Q+ F+ F+ V I+G+ N
Sbjct: 286 HHFQNMPAGRKAKVVFLATKVPVYEQQKNVFKHHFERQGYSVQGISGENFSNVSVEKVIE 345
Query: 139 SSSCLIMTTEILRNMLYRGSEI-TREVGWVIFDEIHYMRDK 178
S +++T +IL N G+ +IFDE H
Sbjct: 346 DSDIIVVTPQILVNSFEDGTLTSLSIFTLMIFDECHNTTGN 386
>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 = 54.9 bits (132), Expect = 2e-08
Identities = 23/177 (12%), Positives = 52/177 (29%), Gaps = 18/177 (10%)
Query: 69 IENNQSVLVSAHTSAGK-TVVAEYAIASSLKQSQRVIYTTPIKALSNQKYREFEEQFKDV 127
+ ++ H AGK + + +L + R + P + ++ +
Sbjct: 16 FRKKRLTIMDLHPGAGKTKRILPSIVREALLRRLRTLILAPTRVVAAEMEEALRGLPIRY 75
Query: 128 GLITGDVTINPSSSCLIMTTEILRNMLYRGSEITREVGWVIFDEIHYMRDKE---RGYVW 184
+M L + + ++ DE H+ RGY+
Sbjct: 76 QTPAVKSDHTGREIVDLMCHATFTTRLLSSTRV-PNYNLIVMDEAHFTDPCSVAARGYI- 133
Query: 185 EETLILLSDNVRFVFLSATIPNAS-QFAQWVSHLHHQPCHVVYTDY----RPTPLQH 236
+ + +F++AT P ++ F Q + P + + T
Sbjct: 134 --STRVEMGEAAAIFMTATPPGSTDPFPQ-----SNSPIEDIEREIPERSWNTGFDW 183
>2v6i_A RNA helicase; membrane, hydrolase, transmembrane, RNA replication,
viral replication, nucleotide-binding; 2.10A {Kokobera
virus} PDB: 2v6j_A
Length = 431
Score = 51.0 bits (122), Expect = 3e-07
Identities = 24/167 (14%), Positives = 47/167 (28%), Gaps = 22/167 (13%)
Query: 72 NQSVLVSAHTSAGK-TVVAEYAIASSLKQSQRVIYTTP--------IKALSNQKYREFEE 122
+ ++ H AGK V + ++K+ R + P +AL E
Sbjct: 2 RELTVLDLHPGAGKTRRVLPQLVREAVKKRLRTVILAPTRVVASEMYEALR-------GE 54
Query: 123 QFKDVGLITGDVTINPSSSCLIMTTEILRNMLYRGSEITREVGWVIFDEIHYMRDKERGY 182
+ + + M L +G + I DE H++
Sbjct: 55 PIRYMTPAVQSER-TGNEIVDFMCHSTFTMKLLQGVRV-PNYNLYIMDEAHFLDPASVAA 112
Query: 183 VWEETLILLSDNVRFVFLSATIPNASQFAQWVSHLHHQPCHVVYTDY 229
+ + +F++AT P + + P T
Sbjct: 113 RGYIETRVSMGDAGAIFMTATPPGTT----EAFPPSNSPIIDEETRI 155
>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 = 49.4 bits (118), Expect = 1e-06
Identities = 21/143 (14%), Positives = 47/143 (32%), Gaps = 12/143 (8%)
Query: 69 IENNQSVLVSAHTSAGK-TVVAEYAIASSLKQSQRVIYTTPIKALSNQKYREF--EEQFK 125
+ Q ++ H +GK + I +++Q R P + ++ +
Sbjct: 18 LRKRQMTVLDLHPGSGKTRKILPQIIKDAIQQRLRTAVLAPTRVVAAEMAEALRGLPVRY 77
Query: 126 DVGLITGDVTINPSSSCLIMTTEILRNMLYRGSEITREVGWVIFDEIHYMRDKE---RGY 182
+ + + +M L + L + + + DE H+ RGY
Sbjct: 78 QTSAVQREHQ--GNEIVDVMCHATLTHRLMSPNRV-PNYNLFVMDEAHFTDPASIAARGY 134
Query: 183 VWEETLILLSDNVRFVFLSATIP 205
+ + +F++AT P
Sbjct: 135 I---ATKVELGEAAAIFMTATPP 154
>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 = 47.3 bits (113), Expect = 2e-06
Identities = 46/171 (26%), Positives = 70/171 (40%), Gaps = 30/171 (17%)
Query: 62 QKEAIL-CIENNQSVLVSAHTSAGKTV-----VAEYAIASSLKQSQRVIYTTP--IKALS 113
+ IL I N V++ T GKT + + I + ++ T P I A+S
Sbjct: 65 FESEILEAISQNSVVIIRGATGCGKTTQVPQFILDDFIQNDRAAECNIVVTQPRRISAVS 124
Query: 114 NQKYREFEEQFKDVGLITG------DVTINPSSSCLIMTTEILRNMLYRGSEITREVGWV 167
+ R E+ ++ G G + P +S + T +L L G R + V
Sbjct: 125 VAE-RVAFERGEEPGKSCGYSVRFESILPRPHASIMFCTVGVLLRKLEAG---IRGISHV 180
Query: 168 IFDEIHYMRDKERGYVWEETLILLSD------NVRFVFLSATIPNASQFAQ 212
I DEIH ER + L++L D VR V +SATI + S F +
Sbjct: 181 IVDEIH-----ERDINTDFLLVVLRDVVQAYPEVRIVLMSATI-DTSMFCE 225
>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 = 45.6 bits (107), Expect = 3e-05
Identities = 55/378 (14%), Positives = 101/378 (26%), Gaps = 101/378 (26%)
Query: 39 EYQPLAQSKEKPAREYPFVLDPFQKEAILCIENNQSVLVSAHTSAGKTVVAEYAIASSLK 98
E + SK+ + + L + + V + + L+
Sbjct: 50 EIDHIIMSKDAVSGTL-RLFW------TLLSKQEEMV--------------QKFVEEVLR 88
Query: 99 QSQRVIYTTPIKALSNQK---YREFEEQFKDVGLITGDVTINPSSSCLIMTTEILRNMLY 155
+ + + + PIK Q R + EQ +D L + + + LR L
Sbjct: 89 INYKFLMS-PIKTEQRQPSMMTRMYIEQ-RDR-LYNDNQVFAKYNVSRLQPYLKLRQALL 145
Query: 156 RGSEITREVGWVIFDEIHYM-------------RDKERGYVWEETLILLSDNVRFVFLSA 202
R V+ I + + + + ++ L
Sbjct: 146 E----LRPAKNVL---IDGVLGSGKTWVALDVCLS-------YKVQCKMDFKIFWLNLKN 191
Query: 203 TIPNASQFAQWVSHLHHQ--PCHVVYTDYRPTPLQHYLFPNGGDGIHLIVD--DNKFKEH 258
+ + L +Q P +D+ IH I K
Sbjct: 192 CNSPETVLEM-LQKLLYQIDPNWTSRSDHSSNIKLR---------IHSIQAELRRLLKSK 241
Query: 259 NYQVAMNVLANAGDA--AKAGDHKGGRKGGPKGGVQTNCFKIVKMIMERNLAPVIVFSFS 316
Y+ + VL N +A A + C KI ++ R V F +
Sbjct: 242 PYENCLLVLLNVQNAKAWNAFNLS--------------C-KI--LLTTRF-KQVTDFLSA 283
Query: 317 KKDCEIYAMQMAKLNFNETEEVKLVDDVFSNAMDVLSEEDRKLP-QIENILPLLRRGIG- 374
I ++ + E L L + LP ++ P I
Sbjct: 284 ATTTHI-SLDHHSMTLTPDEVKSL----LLK---YLDCRPQDLPREVLTTNPRRLSIIAE 335
Query: 375 -IHHGVKPYGLWQSKKIN 391
I G+ + W K +N
Sbjct: 336 SIRDGLATWDNW--KHVN 351
Score = 35.6 bits (81), Expect = 0.033
Identities = 28/188 (14%), Positives = 65/188 (34%), Gaps = 27/188 (14%)
Query: 97 LKQSQRVIYTTPIKA-LSNQKYREFEEQFKDVGLITGDVTINPSSSCLI---MTTEILRN 152
K TT I++ L+ + E+ + F + + I LI + +
Sbjct: 347 WKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMV 406
Query: 153 M---LYRGSEITREVGWVIFDEIHYMRDKERGYVWEET----LILLSDNVRFVFLSATIP 205
+ L++ S + ++ I + + + + E I+ N+ F S +
Sbjct: 407 VVNKLHKYSLVEKQPKESTI-SIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLI 465
Query: 206 NASQFAQWVSHL-HH----QPCH------VVYTDYR--PTPLQH--YLFPNGGDGIHLIV 250
+ SH+ HH + +V+ D+R ++H + G ++ +
Sbjct: 466 PPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQ 525
Query: 251 DDNKFKEH 258
+K +
Sbjct: 526 QLKFYKPY 533
>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 = 45.0 bits (106), Expect = 3e-05
Identities = 28/160 (17%), Positives = 45/160 (28%), Gaps = 20/160 (12%)
Query: 60 PFQKEAILCIENNQSVLVSAHTSAGKT--VVAEYAIASSLKQSQRVIYTTPIKALSNQKY 117
++ Q + A T +GK+ V A Y Q +V+ P A +
Sbjct: 220 TDNSSPPAVPQSFQVAHLHAPTGSGKSTKVPAAY-----AAQGYKVLVLNPSVAATLGFG 274
Query: 118 REFEEQF-KDVGLITGDVTINPSSSCLIMT--TEILRNMLYRGSEITREVGWVIFDEIHY 174
+ D + TG TI + T + +I DE H
Sbjct: 275 AYMSKAHGIDPNIRTGVRTITTGAPVTYSTYGKFLADGGCS-----GGAYDIIICDECHS 329
Query: 175 MR---DKERGYVWEETLILLSDNVRFVFLSATIPNASQFA 211
G V ++ V +AT P +
Sbjct: 330 TDSTTILGIGTVLDQAETA--GARLVVLATATPPGSVTVP 367
>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 = 42.2 bits (99), Expect = 3e-04
Identities = 25/143 (17%), Positives = 52/143 (36%), Gaps = 12/143 (8%)
Query: 69 IENNQSVLVSAHTSAGK-TVVAEYAIASSLKQSQRVIYTTPIKALSNQKYREFEEQFKDV 127
++ Q ++ H AGK + I ++++ R P + ++ + V
Sbjct: 238 LKKRQLTVLDLHPGAGKTRRILPQIIKDAIQKRLRTAVLAPTRVVAAEMAEALRGLP--V 295
Query: 128 GLITGDVTINPSSSCLI--MTTEILRNMLYRGSEITREVGWVIFDEIHYMRDKE---RGY 182
+T V S + ++ M L + L + + DE H+ RGY
Sbjct: 296 RYLTPAVQREHSGNEIVDVMCHATLTHRLMSPLRV-PNYNLFVMDEAHFTDPASIAARGY 354
Query: 183 VWEETLILLSDNVRFVFLSATIP 205
+ + + +F++AT P
Sbjct: 355 IAT---RVEAGEAAAIFMTATPP 374
>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 = 41.5 bits (97), Expect = 5e-04
Identities = 24/167 (14%), Positives = 56/167 (33%), Gaps = 16/167 (9%)
Query: 69 IENNQSVLVSAHTSAGKTV-VAEYAIASSLKQSQRVIYTTPIKALSNQKYREFEEQFKDV 127
+ ++ H AGKT + + +LK+ R + P + ++ + +
Sbjct: 183 FRKKRLTIMDLHPGAGKTKRILPSIVREALKRRLRTLILAPTRVVAAEMEEALRGL--PI 240
Query: 128 GLITGDVTINPSSSCLI--MTTEILRNMLYRGSEITREVGWVIFDEIHYMRDKE---RGY 182
T V + + ++ M L + + ++ DE H+ RGY
Sbjct: 241 RYQTPAVKSDHTGREIVDLMCHATFTTRLLSSTRV-PNYNLIVMDEAHFTDPCSVAARGY 299
Query: 183 VWEETLILLSDNVRFVFLSATIPNASQFAQWVSHLHHQPCHVVYTDY 229
+ + +F++AT P ++ + P + +
Sbjct: 300 IST---RVEMGEAAAIFMTATPPGST----DPFPQSNSPIEDIEREI 339
>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 = 37.0 bits (85), Expect = 0.011
Identities = 45/260 (17%), Positives = 71/260 (27%), Gaps = 112/260 (43%)
Query: 188 LILLSDNVRFVFL--SATIPNASQ----FAQWVSH------LHHQPCHVV--------YT 227
L L ++ V L +A+ ASQ F + + +P Y
Sbjct: 9 LTLSHGSLEHVLLVPTASFFIASQLQEQFNKILPEPTEGFAADDEPTTPAELVGKFLGYV 68
Query: 228 DYRPTP-------------LQH----YLFPNGGDGIHLIV------DDNKFKEH-----N 259
P L YL G+ IH + +D + N
Sbjct: 69 SSLVEPSKVGQFDQVLNLCLTEFENCYL---EGNDIHALAAKLLQENDTTLVKTKELIKN 125
Query: 260 YQVAMNVLANAGD---------AAKAGDHK-----GGRKGGPKGGVQTNCFKIVKMIMER 305
Y A + D A G+ + GG+ G + F+ E
Sbjct: 126 YITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQ------GNTDDYFE------E- 172
Query: 306 NLAPVIVFSFSKKDCEIYAMQMAKLNFNETEEVKLVDDVFSNAMDVLSEEDRKLPQIENI 365
L ++Y +T V LV D+ + + LSE R E +
Sbjct: 173 -LR------------DLY----------QTYHV-LVGDLIKFSAETLSELIRTTLDAEKV 208
Query: 366 LPLLRRGIGIHHGVKPYGLW 385
+G+ I W
Sbjct: 209 FT---QGLNILE-------W 218
Score = 35.8 bits (82), Expect = 0.025
Identities = 37/285 (12%), Positives = 81/285 (28%), Gaps = 100/285 (35%)
Query: 152 NM---LYRGSEITREVGWVIFDEIHYMRDKERGYVWEETL-ILLSDNVRFVFLSATIPNA 207
M LY+ S+ ++V ++ D +++T + D V ++ TI
Sbjct: 1630 GMGMDLYKTSKAAQDV----WNRA----DN----HFKDTYGFSILDIVINNPVNLTIHFG 1677
Query: 208 SQFAQWVSHLHHQPCHVVYTDYRPTPLQHYLFPNGGDGIHLIV---DDNKFKE-HNYQVA 263
+ + + + D + + +F + + Q A
Sbjct: 1678 GEKGKRIRENYSAMIFETIVDGKLKTEK--IFKEINEHSTSYTFRSEKGLLSATQFTQPA 1735
Query: 264 M--------NVLANAG----DAAKAGDH----------KGG-----------RKGG---- 286
+ L + G DA AG H G
Sbjct: 1736 LTLMEKAAFEDLKSKGLIPADATFAG-HSLGEYAALASLADVMSIESLVEVVFYRGMTMQ 1794
Query: 287 ---PKGGVQTNCFKIV-----KMIMERNLAPV--IVFSFSKKD---CEIYAMQMAKLNFN 333
P+ + + + ++ ++ + + +V K+ EI N+N
Sbjct: 1795 VAVPRDELGRSNYGMIAINPGRVAASFSQEALQYVVERVGKRTGWLVEI-V------NYN 1847
Query: 334 ----------ETEEVKLVDDVFSNAMDVLSEEDRKLPQIENI-LP 367
+ + D +N ++ + KL +I+ I L
Sbjct: 1848 VENQQYVAAGDLRAL----DTVTNVLNFI-----KLQKIDIIELQ 1883
Score = 32.3 bits (73), Expect = 0.29
Identities = 50/345 (14%), Positives = 99/345 (28%), Gaps = 133/345 (38%)
Query: 1 MIYYCLFCRE------------SKTKACMKVIVVETLEACLHEVALPPDLEYQPLAQSKE 48
+ +Y + + + +V A+ +A++
Sbjct: 246 LAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVT----------AVA-------IAETDS 288
Query: 49 KPAREYPFVLDPFQKEAILCIENNQSVL----VSAHTSAGKTVVAEYAIASSLKQSQRVI 104
+ F I VL V + + T + + SL+ ++ V
Sbjct: 289 WES---------FFVSVRKAIT----VLFFIGVRCYEAYPNTSLPPSILEDSLENNEGV- 334
Query: 105 YTTP---IKALSNQKYREFEEQFKD---------VGLITGD----VTINPSSSCLIMTTE 148
+P I L+ ++ +++ + + L+ G V+ P S L
Sbjct: 335 -PSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQS--LYGLNL 391
Query: 149 ILRNM-LYRGSEITR--------EVGWVIFDEI------HYMRDKERGYVWEETLI--LL 191
LR G + +R + F + H + + + L+
Sbjct: 392 TLRKAKAPSGLDQSRIPFSERKLKFSNR-FLPVASPFHSHLLVPAS------DLINKDLV 444
Query: 192 SDNVRF--------VF----------LSATIPN------ASQFAQWVSHLHHQPCHVVYT 227
+NV F V+ LS +I +W + + H++
Sbjct: 445 KNNVSFNAKDIQIPVYDTFDGSDLRVLSGSISERIVDCIIRLPVKWETTTQFKATHIL-- 502
Query: 228 DYRP------TPLQHYLFPNGGDGIHLIV---------DDNKFKE 257
D+ P L H G G+ +IV DD FK+
Sbjct: 503 DFGPGGASGLGVLTHRNK--DGTGVRVIVAGTLDINPDDDYGFKQ 545
Score = 31.9 bits (72), Expect = 0.44
Identities = 21/117 (17%), Positives = 37/117 (31%), Gaps = 41/117 (35%)
Query: 87 VVAEYAIASSLKQSQRVI-------------YTTPIKALSNQ-------------KYR-- 118
+ E A LK S+ +I Y AL++ YR
Sbjct: 1737 TLMEKAAFEDLK-SKGLIPADATFAGHSLGEYA----ALASLADVMSIESLVEVVFYRGM 1791
Query: 119 ---EFEEQFKDVGLITGDVTINPSSSCLIMTTEILRNMLYRGSEITREVGWVIFDEI 172
+ + G + INP + E L+ ++ + + GW++ EI
Sbjct: 1792 TMQVAVPRDELGRSNYGMIAINPGRVAASFSQEALQYVV---ERVGKRTGWLV--EI 1843
>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 = 36.5 bits (84), Expect = 0.016
Identities = 27/166 (16%), Positives = 51/166 (30%), Gaps = 8/166 (4%)
Query: 29 LHEVALPPDLEYQPLAQSKEKPAREYPFV-LDPFQKEAILCIENNQSVLVSAHTSAGKT- 86
++ L ++E + K L+ Q A+ + L+ GKT
Sbjct: 327 IYHKLLGHEVEDVIIKCQLPKRFTAQGLPDLNHSQVYAVKTVLQRPLSLIQGPPGTGKTV 386
Query: 87 VVAEYAIASSLKQSQRVIYTTPI-KALSNQKYREFEEQFKDVGLITGDVTINPSSSCLIM 145
A + + + V+ P A+ + + K V L S +
Sbjct: 387 TSATIVYHLARQGNGPVLVCAPSNIAVDQLTEKIHQTGLKVVRLCAKSREAIDSPVSFLA 446
Query: 146 TTEILRNM-----LYRGSEITREVGWVIFDEIHYMRDKERGYVWEE 186
+RNM L + ++ E G + + R +R E
Sbjct: 447 LHNQIRNMDSMPELQKLQQLKDETGELSSADEKRYRALKRTAEREL 492
>4ag6_A VIRB4 ATPase, type IV secretory pathway VIRB4 components-like P;
hydrolase, type IV secretion, conjugation; 2.35A
{Thermoanaerobacter pseudethanolicus} PDB: 4ag5_A
Length = 392
Score = 35.4 bits (81), Expect = 0.031
Identities = 20/89 (22%), Positives = 35/89 (39%), Gaps = 16/89 (17%)
Query: 55 PFVLDPFQKEAILCIENNQSVLVSAHTSAGKTVVAEYAIASSLKQSQRVIYTTPIKALSN 114
++D +++ N + + A AGK+ A+ + Q RVI P
Sbjct: 21 LVLVDIWKRGGDR---TNSNWTILAKPGAGKSFTAKMLLLREYMQGSRVIIIDPE----- 72
Query: 115 QKYREFEEQFKDVG-----LITGDVTINP 138
RE++E + +G G+ INP
Sbjct: 73 ---REYKEMCRKLGGVWINCTGGEGKINP 98
>2gk6_A Regulator of nonsense transcripts 1; UPF1, helicase, NMD,
hydrolase; HET: ADP; 2.40A {Homo sapiens} PDB: 2gjk_A*
2gk7_A 2xzo_A* 2xzp_A
Length = 624
Score = 35.2 bits (81), Expect = 0.037
Identities = 14/82 (17%), Positives = 27/82 (32%), Gaps = 2/82 (2%)
Query: 29 LHEVALPPDLEYQPLAQSKEKPAREYPFV-LDPFQKEAILCIENNQSVLVSAHTSAGKTV 87
++ L ++E + K L+ Q A+ + L+ GKTV
Sbjct: 151 IYHKLLGHEVEDVIIKCQLPKRFTAQGLPDLNHSQVYAVKTVLQRPLSLIQGPPGTGKTV 210
Query: 88 -VAEYAIASSLKQSQRVIYTTP 108
A + + + V+ P
Sbjct: 211 TSATIVYHLARQGNGPVLVCAP 232
>3oiy_A Reverse gyrase helicase domain; topoisomerase, DNA supercoiling,
archaea, isomeras; 2.35A {Thermotoga maritima} PDB:
3p4y_A 3p4x_A*
Length = 414
Score = 33.9 bits (78), Expect = 0.086
Identities = 11/63 (17%), Positives = 21/63 (33%)
Query: 60 PFQKEAILCIENNQSVLVSAHTSAGKTVVAEYAIASSLKQSQRVIYTTPIKALSNQKYRE 119
+Q+ I +S + A T GKT ++ ++ P L Q
Sbjct: 24 GYQRLWAKRIVQGKSFTMVAPTGVGKTTFGMMTALWLARKGKKSALVFPTVTLVKQTLER 83
Query: 120 FEE 122
++
Sbjct: 84 LQK 86
>2pff_A Fatty acid synthase subunit alpha, 3-oxoacyl-[acyl-carrier-PR;
fatty acid synthase, acyl-carrier-protein, beta-ketoacyl
RED beta-ketoacyl synthase, dehydratase; 4.00A
{Saccharomyces cerevisiae}
Length = 1688
Score = 33.7 bits (77), Expect = 0.14
Identities = 37/202 (18%), Positives = 67/202 (33%), Gaps = 67/202 (33%)
Query: 72 NQSVLVSAHTSAGKTVVAEYAIASSLKQSQRVIYTTPIKALSNQKYREFEEQFKDVGLIT 131
++ VL+ T AGK + + L+ +V+ TT S Q ++ + G
Sbjct: 476 DKYVLI---TGAGKGSIGAEVLQGLLQGGAKVVVTT--SRFSKQVTDYYQSIYAKYG--- 527
Query: 132 GDVTINPSSSCLIMTTEILRNMLYRGS--EITREVGWVIFDEIHYMRDKERGYVWEETLI 189
S LI+ + N GS ++ + ++ Y +K G W+ I
Sbjct: 528 ------AKGSTLIV---VPFNQ---GSKQDVEALIEFI------YDTEKNGGLGWDLDAI 569
Query: 190 L----LSDNVRFVFLSATIPNASQFAQ----W--------------VSHLHHQPCHVVYT 227
+ + + + I + S+FA + +P V+
Sbjct: 570 IPFAAIPEQGIEL---EHIDSKSEFAHRIMLTNILRMMGCVKKQKSARGIETRPAQVIL- 625
Query: 228 DYRPTPLQHYLFPN----GGDG 245
P+ PN GGDG
Sbjct: 626 -----PMS----PNHGTFGGDG 638
>3cpe_A Terminase, DNA packaging protein GP17; large terminase, alternative
initiation, ATP-binding, DNA- binding, hydrolase,
nuclease; HET: DNA; 2.80A {Bacteriophage T4} PDB:
3ezk_A*
Length = 592
Score = 32.2 bits (72), Expect = 0.28
Identities = 18/170 (10%), Positives = 55/170 (32%), Gaps = 4/170 (2%)
Query: 55 PFVLDPFQKEAILCIENNQSVLVSAHTSAGKT--VVAEYAIASSLKQSQRVIYTTPIKAL 112
L +Q++ + + + + + + GKT V A + + V ++
Sbjct: 161 KVQLRDYQRDMLKIMSSKRMTVCNLSRQLGKTTVVAIFLAHFVCFNKDKAVGILAHKGSM 220
Query: 113 SNQKYREFEEQFKDV--GLITGDVTINPSSSCLIMTTEILRNMLYRGSEITREVGWVIFD 170
S + ++ + + L G V N S L + I + + +
Sbjct: 221 SAEVLDRTKQAIELLPDFLQPGIVEWNKGSIELDNGSSIGAYASSPDAVRGNSFAMIYIE 280
Query: 171 EIHYMRDKERGYVWEETLILLSDNVRFVFLSATIPNASQFAQWVSHLHHQ 220
+ ++ + ++ + +I + + + + W + + +
Sbjct: 281 DCAFIPNFHDSWLAIQPVISSGRRSKIIITTTPNGLNHFYDIWTAAVEGK 330
>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 = 32.0 bits (73), Expect = 0.33
Identities = 25/157 (15%), Positives = 49/157 (31%), Gaps = 22/157 (14%)
Query: 37 DLEYQPLAQSKEKPAREYPFVLDPFQKEAILCIE-----NNQSVLVSAHTSAGKTVVA-- 89
++ + L + +Q+ AI + L++ T GKTVVA
Sbjct: 158 GIKDEDLDTLLSPYHHVSGYSPRYYQQIAINRAVQSVLQGKKRSLITMATGTGKTVVAFQ 217
Query: 90 -------EYAIASSLKQSQRVIYTTPIKALSNQKYREFEEQFKDVGLITGDVTINPSSSC 142
+ + R+++ L + + F D + S
Sbjct: 218 ISWKLWSARWNRTGDYRKPRILFLADRNVLVDDPKDKTFTPFGDARHKIEGGKVVKSREI 277
Query: 143 LI-----MTTEILRNMLYRGSEITREV-GWVIFDEIH 173
+ ++ R LY+ E ++ +I DE H
Sbjct: 278 YFAIYQSIASDERRPGLYK--EFPQDFFDLIIIDECH 312
>3dmq_A RNA polymerase-associated protein RAPA; SWF2/SNF2, transcription
factor, RNA polymerase recycling, activator,
ATP-binding, DNA-binding; 3.20A {Escherichia coli K12}
Length = 968
Score = 31.2 bits (70), Expect = 0.65
Identities = 30/139 (21%), Positives = 54/139 (38%), Gaps = 24/139 (17%)
Query: 84 GKTVVAEYAIASSLKQS--QRVIYTTPIKALSNQKYREFEEQFK-DVGLITGDV------ 134
GKT+ A + L +RV+ P + L +Q E +F L +
Sbjct: 182 GKTIEAGMILHQQLLSGAAERVLIIVP-ETLQHQWLVEMLRRFNLRFALFDDERYAEAQH 240
Query: 135 -TINP--SSSCLIMTTEILRNMLYRGSEITREVGW--VIFDEIHYMRDKERG----YVWE 185
NP + +I + + R R + E W ++ DE H++ E Y
Sbjct: 241 DAYNPFDTEQLVICSLDFARRSKQRLEHL-CEAEWDLLVVDEAHHLVWSEDAPSREY--- 296
Query: 186 ETLILLSDNVR-FVFLSAT 203
+ + L+++V + L+AT
Sbjct: 297 QAIEQLAEHVPGVLLLTAT 315
>1w7j_A Myosin VA; motor protein, unconventional myosin, myosin V, chicken,
molecular motor, ATPase, ELC, IQ motif, muscle protein,
ATP-binding; HET: ADP; 2A {Gallus gallus} SCOP: b.34.3.1
c.37.1.9 PDB: 1w7i_A* 1oe9_A* 1w8j_A
Length = 795
Score = 30.3 bits (69), Expect = 1.3
Identities = 16/47 (34%), Positives = 28/47 (59%), Gaps = 9/47 (19%)
Query: 72 NQSVLVSAHTSAGKTVVAEY------AIASSLKQS---QRVIYTTPI 109
NQS++VS + AGKTV A+Y ++ S ++ ++V+ + PI
Sbjct: 156 NQSIIVSGESGAGKTVSAKYAMRYFATVSGSASEANVEEKVLASNPI 202
>1i84_S Smooth muscle myosin heavy chain; muscle protein, myosin
subfragment 2, heavy meromyosin, essential light chain,
motor protein; HET: MLY; 20.00A {Gallus gallus} SCOP:
i.15.1.1 PDB: 3j04_A 3dtp_B 3dtp_A
Length = 1184
Score = 30.2 bits (68), Expect = 1.5
Identities = 15/55 (27%), Positives = 25/55 (45%), Gaps = 2/55 (3%)
Query: 71 NNQSVLVSAHTSAGKTVVAEYAIA--SSLKQSQRVIYTTPIKALSNQKYREFEEQ 123
+QS+L + + AGKT + I + + S + T I + Y E E+Q
Sbjct: 168 EDQSILCTGESGAGKTENTKKVIQYLAVVASSHKGKKDTSITQGPSFSYGELEKQ 222
>2v26_A Myosin VI; calmodulin-binding, nucleotide-binding, membrane,
vanadate, transport, PRE- powerstroke, transition state,
protein transport; HET: ADP; 1.75A {Sus scrofa} PDB:
2bki_A 2bkh_A 3l9i_A 2x51_A 2vb6_A* 2vas_A*
Length = 784
Score = 29.9 bits (68), Expect = 1.9
Identities = 10/47 (21%), Positives = 21/47 (44%), Gaps = 11/47 (23%)
Query: 72 NQSVLVSAHTSAGKTVVAEYAI---------ASSLKQSQRVIYTTPI 109
+QS++VS + AGKT ++ + + R++ P+
Sbjct: 140 SQSIIVSGESGAGKTENTKFVLRYLTESYGTGQDID--DRIVEANPL 184
>1kk8_A Myosin heavy chain, striated muscle; actin-detached, mechanics of
motor, contractIle PROT; HET: ADP; 2.30A {Argopecten
irradians} SCOP: b.34.3.1 c.37.1.9 PDB: 1kk7_A* 1qvi_A*
1s5g_A* 1sr6_A 1b7t_A* 1kqm_A* 1kwo_A* 1l2o_A* 1dfl_A*
2w4t_C 2w4v_C 2w4w_C 1dfk_A 2ec6_A 2otg_A* 2os8_A*
2ovk_A 2ekv_A 2ekw_A 2oy6_A* ...
Length = 837
Score = 29.6 bits (67), Expect = 2.4
Identities = 9/24 (37%), Positives = 13/24 (54%)
Query: 70 ENNQSVLVSAHTSAGKTVVAEYAI 93
NQS L++ + AGKT + I
Sbjct: 167 RENQSCLITGESGAGKTENTKKVI 190
>1w9i_A Myosin II heavy chain; molecular motor, ATPase, motor domain,
mutant, muscle contraction; HET: ADP; 1.75A
{Dictyostelium discoideum} PDB: 1w9j_A* 1w9l_A* 1w9k_A*
1mma_A* 2aka_A 1d0x_A* 1d0y_A* 1d0z_A* 1d1a_A* 1d1b_A*
1d1c_A* 2xel_A* 1yv3_A* 3bz7_A* 3bz8_A* 3bz9_A* 1jwy_A*
1jx2_A* 3mjx_A* 2jhr_A* ...
Length = 770
Score = 29.5 bits (67), Expect = 2.4
Identities = 12/50 (24%), Positives = 21/50 (42%), Gaps = 12/50 (24%)
Query: 72 NQSVLVSAHTSAGKTVVAEYAI---------ASSLKQS---QRVIYTTPI 109
NQS+L++ + AGKT + I + Q+++ PI
Sbjct: 172 NQSLLITGESGAGKTENTKKVIQYLASVAGRNQANGSGVLEQQILQANPI 221
>1g8x_A Myosin II heavy chain fused to alpha-actinin 3; motor, lever ARM,
protein engineering, structural protein; HET: ADP; 2.80A
{Dictyostelium discoideum} SCOP: k.1.1.1
Length = 1010
Score = 29.2 bits (66), Expect = 2.7
Identities = 12/50 (24%), Positives = 21/50 (42%), Gaps = 12/50 (24%)
Query: 72 NQSVLVSAHTSAGKTVVAEYAI---------ASSLKQS---QRVIYTTPI 109
NQS+L++ + AGKT + I + Q+++ PI
Sbjct: 172 NQSLLITGESGAGKTENTKKVIQYLASVAGRNQANGSGVLEQQILQANPI 221
>4dq6_A Putative pyridoxal phosphate-dependent transferas; structural
genomics, niaid, national institute of allergy AN
infectious diseases; HET: PLP; 1.50A {Clostridium
difficile} PDB: 4dgt_A*
Length = 391
Score = 29.0 bits (66), Expect = 3.1
Identities = 27/114 (23%), Positives = 47/114 (41%), Gaps = 25/114 (21%)
Query: 74 SVLVSAHTSAGKTVVAE----YAIASSLKQSQRVIYTTPIKALSNQKYR----EFEEQFK 125
S+L++ T A ++ + S +K + R + +P++ L N Y + E + K
Sbjct: 104 SLLINELTKANDKIMIQEPVYSPFNSVVKNNNRELIISPLQKLENGNYIMDYEDIENKIK 163
Query: 126 DVGLITGDVTI-----NPSSSCLIMTTEILRNMLYRGSEITREVG-WVIFDEIH 173
DV L I NP T + L+ + +I + +I DEIH
Sbjct: 164 DVKLF-----ILCNPHNPVGRVW--TKDELKKLG----DICLKHNVKIISDEIH 206
>4db1_A Myosin-7; S1DC, cardiac, beta isoform, MYH7, myhcb, MYHC-beta,
contractIle protein; HET: ANP; 2.60A {Homo sapiens} PDB:
2w4a_M 2w4g_M 2w4h_M 2mys_A* 1m8q_A* 1mvw_A* 1o18_A*
1o19_A* 1o1a_A* 1o1b_A* 1o1c_A* 1o1d_A* 1o1e_A* 1o1f_A*
1o1g_A*
Length = 783
Score = 28.8 bits (65), Expect = 4.4
Identities = 10/22 (45%), Positives = 15/22 (68%)
Query: 72 NQSVLVSAHTSAGKTVVAEYAI 93
NQS+L++ + AGKTV + I
Sbjct: 171 NQSILITGESGAGKTVNTKRVI 192
>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus
abyssi}
Length = 350
Score = 28.5 bits (63), Expect = 4.4
Identities = 20/120 (16%), Positives = 38/120 (31%), Gaps = 10/120 (8%)
Query: 69 IENNQSVLVSAHTSAGKTVVAEYAI--ASSLKQSQRVIYTTPIKALSNQKYREFEEQFKD 126
+EN L+ GK+ + + + R +Y + +E +
Sbjct: 28 LENYPLTLLLGIRRVGKSSLLRAFLNERPGILIDCRELYAERGHITREELIKELQSTISP 87
Query: 127 VGLITGDVTINPSSSCLIMTT------EILRNMLYRGSEITREVGWVIFDEIHYMRDKER 180
I+ + L + E+ R + G E+ + V FDE Y+R
Sbjct: 88 FQKFQSKFKISLNLKFLTLEPRKLSLREVFRELNDLGEELGEFI--VAFDEAQYLRFYGS 145
>1x9d_A Endoplasmic reticulum mannosyl-oligosaccharide 1,
2-alpha-mannosidase; substrate analogue, glycosyl
hydrolase; HET: SMD; 1.41A {Homo sapiens} SCOP:
a.102.2.1 PDB: 1fo3_A* 1fo2_A* 1fmi_A
Length = 538
Score = 28.5 bits (63), Expect = 4.4
Identities = 15/60 (25%), Positives = 21/60 (35%), Gaps = 8/60 (13%)
Query: 153 MLYR--GSEITREVGWVIFDEI-HYMRDKERGY-----VWEETLILLSDNVRFVFLSATI 204
LYR G ++ GW I + R GY V + D + FL T+
Sbjct: 445 YLYRVTGDRKYQDWGWEILQSFSRFTRVPSGGYSSINNVQDPQKPEPRDKMESFFLGETL 504
>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 = 28.5 bits (64), Expect = 4.9
Identities = 7/70 (10%), Positives = 19/70 (27%)
Query: 39 EYQPLAQSKEKPAREYPFVLDPFQKEAILCIENNQSVLVSAHTSAGKTVVAEYAIASSLK 98
++ L Q + + ++ V+++ GK+ + +
Sbjct: 171 PADGAGNDDWAVPKKARKGLSEEQASVLDQLAGHRLVVLTGGPGTGKSTTTKAVADLAES 230
Query: 99 QSQRVIYTTP 108
V P
Sbjct: 231 LGLEVGLCAP 240
>2oap_1 GSPE-2, type II secretion system protein; hexameric ATPase,
hydrolase; HET: ANP; 2.95A {Archaeoglobus fulgidus} PDB:
2oaq_1
Length = 511
Score = 28.2 bits (63), Expect = 5.0
Identities = 9/20 (45%), Positives = 13/20 (65%)
Query: 67 LCIENNQSVLVSAHTSAGKT 86
L IE+ S +V T++GKT
Sbjct: 255 LAIEHKFSAIVVGETASGKT 274
>1fnn_A CDC6P, cell division control protein 6; ORC1, AAA protein, DNA
replication initation factor, cell cycle control factor;
HET: ADP; 2.00A {Pyrobaculum aerophilum} SCOP: a.4.5.11
c.37.1.20
Length = 389
Score = 27.8 bits (61), Expect = 6.2
Identities = 32/321 (9%), Positives = 82/321 (25%), Gaps = 47/321 (14%)
Query: 73 QSVLVSAHTSAGKTVVAEYAIASSLKQSQ--RVIYTTPIKALS-NQKYREFEEQFKDVGL 129
+ GKTV + K R +Y + E
Sbjct: 45 PRATLLGRPGTGKTVTLRK-LWELYKDKTTARFVYINGFIYRNFTAIIGEIARSLNIPFP 103
Query: 130 ITGDVTINPSSSCLIMTTEILRNMLYRGSEITREVGWVIFDEIHYMRDKERG---YVWEE 186
G ++ + +L +++ D+ + + +E
Sbjct: 104 RRG------------LSRDEFLALLVEHLRERDLYMFLVLDDAFNLAPDILSTFIRLGQE 151
Query: 187 TLILLSDNVRFVFLSATIPNASQFAQWVSHLHHQPCHVVYTDYRPTPLQHYL-------F 239
L + + V + + + ++ Y + L
Sbjct: 152 ADKLGAFRIALVIVGHNDAVLNNLDPSTRG-IMGKYVIRFSPYTKDQIFDILLDRAKAGL 210
Query: 240 PNG---GDGIHLIVD------DNKFKEHNYQVAMNVLANAGDAAKAGDHKGGRKGGPKGG 290
G D + +I D + ++A+++L + AA+ K
Sbjct: 211 AEGSYSEDILQMIADITGAQTPLDTNRGDARLAIDILYRSAYAAQQNGRK---------H 261
Query: 291 VQTNCFKIVKMIMERNLAPVIVFSFSKKDCEIYAMQMAKLNFNETEEVKL--VDDVFSNA 348
+ + + ++ ++ + + L + T + ++ +
Sbjct: 262 IAPEDVRKSSKEVLFGISEEVLIGLPLHEKLFLLAIVRSLKISHTPYITFGDAEESYKIV 321
Query: 349 MDVLSEEDRKLPQIENILPLL 369
+ E R Q+ + L L
Sbjct: 322 CEEYGERPRVHSQLWSYLNDL 342
>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 = 27.9 bits (63), Expect = 6.4
Identities = 37/165 (22%), Positives = 58/165 (35%), Gaps = 20/165 (12%)
Query: 60 PFQKEAILCIENNQSVLVSAHTSAGKTVVAEYAIA------SSLKQSQRVIYTTPIKALS 113
P Q+EAI + +L A GKT A + I L + Q +I P + L+
Sbjct: 46 PIQEEAIPVAITGRDILARAKNGTGKT--AAFVIPTLEKVKPKLNKIQALI-MVPTRELA 102
Query: 114 NQKYREFEEQFKDVGL----ITGDVTINPSSSCLIMTTEI-------LRNMLYRGSEITR 162
Q + K G+ TG + L T I + ++ R
Sbjct: 103 LQTSQVVRTLGKHCGISCMVTTGGTNLRDDILRLNETVHILVGTPGRVLDLASRKVADLS 162
Query: 163 EVGWVIFDEIHYMRDKERGYVWEETLILLSDNVRFVFLSATIPNA 207
+ I DE M ++ + E+ L L + + SAT P
Sbjct: 163 DCSLFIMDEADKMLSRDFKTIIEQILSFLPPTHQSLLFSATFPLT 207
>2ycu_A Non muscle myosin 2C, alpha-actinin; motor protein; HET: AOV; 2.25A
{Homo sapiens} PDB: 1br1_A* 1br4_A* 1br2_A*
Length = 995
Score = 28.1 bits (63), Expect = 6.7
Identities = 8/22 (36%), Positives = 13/22 (59%)
Query: 72 NQSVLVSAHTSAGKTVVAEYAI 93
+QS+L + + AGKT + I
Sbjct: 146 DQSILCTGESGAGKTENTKKVI 167
>3ab8_A Putative uncharacterized protein TTHA0350; tandem-type universal
stress protein, unknown function; HET: ATP; 1.70A
{Thermus thermophilus} PDB: 3ab7_A*
Length = 268
Score = 27.4 bits (61), Expect = 7.8
Identities = 13/78 (16%), Positives = 24/78 (30%)
Query: 201 SATIPNASQFAQWVSHLHHQPCHVVYTDYRPTPLQHYLFPNGGDGIHLIVDDNKFKEHNY 260
S A A+W+++ P V++ L G + + V + +
Sbjct: 10 SPQARGAEALAEWLAYKLSAPLTVLFVVDTRLARIPELLDFGALTVPVPVLRTELERALA 69
Query: 261 QVAMNVLANAGDAAKAGD 278
VL +A A
Sbjct: 70 LRGEAVLERVRQSALAAG 87
>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 = 27.2 bits (61), Expect = 7.8
Identities = 38/171 (22%), Positives = 64/171 (37%), Gaps = 26/171 (15%)
Query: 60 PFQKEAILCIENNQSVLVSAHTSAGKTVVAEYA--IASSLKQSQ----RVIYTTPIKALS 113
P Q +AI + + + +L SA T +GKT ++ I LKQ R + +P + L+
Sbjct: 54 PIQMQAIPVMLHGRELLASAPTGSGKT--LAFSIPILMQLKQPANKGFRALIISPTRELA 111
Query: 114 NQKYREFEEQFKDVGLIT-----GDVTINPSSSCLIMTTEI-------LRNMLYRGSEIT 161
+Q +RE + + G V +I L +L +
Sbjct: 112 SQIHRELIKISEGTGFRIHMIHKAAVAAKKFGPKSSKKFDILVTTPNRLIYLLKQDPPGI 171
Query: 162 --REVGWVIFDEIHYMRDKER-GYVWEETLIL---LSDNVRFVFLSATIPN 206
V W++ DE + + + G+ + I S VR SAT
Sbjct: 172 DLASVEWLVVDESDKLFEDGKTGFRDQLASIFLACTSHKVRRAMFSATFAY 222
>2e7z_A Acetylene hydratase AHY; tungstoprotein, DMSO reductase family,
iron-sulfur-cluster, lyase; HET: MGD; 1.26A {Pelobacter
acetylenicus}
Length = 727
Score = 27.6 bits (62), Expect = 7.9
Identities = 12/42 (28%), Positives = 18/42 (42%)
Query: 17 MKVIVVETLEACLHEVALPPDLEYQPLAQSKEKPAREYPFVL 58
KV + ++ L LP E S + A+EYP +L
Sbjct: 557 GKVELYSSVFEKLGYDPLPYYHEPLQTEISDPELAKEYPLIL 598
>3loi_A Putative uncharacterized protein; beta barrel, unknown function;
2.10A {Branchiostoma belcheri tsingtauense} PDB: 3lzz_A*
Length = 172
Score = 26.9 bits (59), Expect = 8.1
Identities = 3/36 (8%), Positives = 9/36 (25%)
Query: 215 SHLHHQPCHVVYTDYRPTPLQHYLFPNGGDGIHLIV 250
H + ++ ++ G I+
Sbjct: 66 DPFHRVKSDETFVHNLGGSMKIHMIHPDGSYSCSIL 101
>1lkx_A Myosin IE heavy chain; myosin motor domain, lever ARM, converter
domain, contractIle protein; HET: ADP; 3.00A
{Dictyostelium discoideum} SCOP: c.37.1.9
Length = 697
Score = 27.5 bits (62), Expect = 8.5
Identities = 8/24 (33%), Positives = 15/24 (62%)
Query: 70 ENNQSVLVSAHTSAGKTVVAEYAI 93
+ NQ V++S + AGKT ++ +
Sbjct: 92 QENQCVIISGESGAGKTEASKKIM 115
>1g8k_A Arsenite oxidase; molybdopterin, [3Fe-4S] cluster, [2Fe-2S] rieske,
oxidoreductase; HET: MGD; 1.64A {Alcaligenes faecalis}
SCOP: b.52.2.2 c.81.1.1 PDB: 1g8j_A*
Length = 825
Score = 27.4 bits (61), Expect = 9.8
Identities = 4/20 (20%), Positives = 9/20 (45%)
Query: 39 EYQPLAQSKEKPAREYPFVL 58
+ L + ++ +Y F L
Sbjct: 679 PWNGLPATVQQQKDKYRFWL 698
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 0.408
Gapped
Lambda K H
0.267 0.0821 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 6,092,754
Number of extensions: 366035
Number of successful extensions: 1020
Number of sequences better than 10.0: 1
Number of HSP's gapped: 983
Number of HSP's successfully gapped: 70
Length of query: 391
Length of database: 6,701,793
Length adjustment: 95
Effective length of query: 296
Effective length of database: 4,049,298
Effective search space: 1198592208
Effective search space used: 1198592208
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: 58 (25.9 bits)