RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy12699
(1269 letters)
>3rc3_A ATP-dependent RNA helicase SUPV3L1, mitochondrial; SUV3, nucleus,
hydrolase; HET: ANP; 2.08A {Homo sapiens} PDB: 3rc8_A
Length = 677
Score = 445 bits (1145), Expect = e-142
Identities = 290/560 (51%), Positives = 363/560 (64%), Gaps = 123/560 (21%)
Query: 709 NRYLQHQAYISFRRYCLETQSLPVDLHVVLSDIIQGAGHVDDMFPYYLRHAKQMFPHLDC 768
+ L HQA+ISFR Y +++ SL VD+H+VL+DI GA H DD+FP++LRHAKQ+FP LDC
Sbjct: 71 DARLFHQAFISFRNYIMQSHSLDVDIHIVLNDICFGAAHADDLFPFFLRHAKQIFPVLDC 130
Query: 769 MDDLKKISDLRNPAEWYPNARSISRRIIFHAGPTNSGKTYHALERFLSAESGVYCGPLKI 828
DDL+KISDLR P WYP+AR++ R+IIFH+GPTNSG
Sbjct: 131 KDDLRKISDLRIPPNWYPDARAMQRKIIFHSGPTNSG----------------------- 167
Query: 829 HAGPTNSGKTYHALERFLSAESGVYCGPLKMLATEVFKKSNDRGTPCDLITGEEKKFIQG 888
KTYHA++++ SA+SGVYCGPLK+LA E+F+KSN G PCDL+TGEE+ +Q
Sbjct: 168 --------KTYHAIQKYFSAKSGVYCGPLKLLAHEIFEKSNAAGVPCDLVTGEERVTVQP 219
Query: 889 EEKPANHVACTVEMTSVNIPYEVAVIDEIQMMRDITRGWAWTRALLGLMAKEIHVCGEAG 948
K A+HV+CTVEM SV PYEVAVIDEIQM+RD RGWAWTRALLGL A+E+H+CGE
Sbjct: 220 NGKQASHVSCTVEMCSVTTPYEVAVIDEIQMIRDPARGWAWTRALLGLCAEEVHLCGEPA 279
Query: 949 AVDLVKAIMMTTNEDVEVYKYKRLTELQIEDSAVGSLDNIQPGDCIVCFSKNDVYTVSRG 1008
A+DLV +M TT E+VEV YKRLT + + D A+ SLDN++PGDCIVCFSKND+Y+VSR
Sbjct: 280 AIDLVMELMYTTGEEVEVRDYKRLTPISVLDHALESLDNLRPGDCIVCFSKNDIYSVSRQ 339
Query: 1009 IESRGTEVAVIYGSLPPTTKLAQASKFNDPDNPCKVMVATDAIGMGLNFRGIESRGTEVA 1068
IE RG E AVIYGSLPP TKLAQA KFNDP++PCK++VATDAIGMGLN
Sbjct: 340 IEIRGLESAVIYGSLPPGTKLAQAKKFNDPNDPCKILVATDAIGMGLNL----------- 388
Query: 1069 VIYGSLPPTTKLAQASKFNDPDNPCKVMVATDAIGMGLNLSIRRVIFYSLIKPSLNEKGE 1128
SIRR+IFYSLIKPS+NEKGE
Sbjct: 389 ----------------------------------------SIRRIIFYSLIKPSINEKGE 408
Query: 1129 REIDLISVSAALQIAGRAGRFNTHFEKLAGSHPALNEKGEREIDLISVSAALQIAGRAGR 1188
RE++ I+ S + LQIAGRAGR
Sbjct: 409 RELEPITTS--------------------------------QA--------LQIAGRAGR 428
Query: 1189 FNTHFEKGFVTTFKPDDLPILKNLLAQSPEPITKAGLHPTADQIELYAYHLPNSTLSNLM 1248
F++ F++G VTT +DL +LK +L + +PI AGLHPTA+QIE++AYHLP++TLSNL+
Sbjct: 429 FSSRFKEGEVTTMNHEDLSLLKEILKRPVDPIRAAGLHPTAEQIEMFAYHLPDATLSNLI 488
Query: 1249 DIFVSLSTVDDSLYFMCNIE 1268
DIFV S VD YF+CN++
Sbjct: 489 DIFVDFSQVDG-QYFVCNMD 507
Score = 75.0 bits (183), Expect = 8e-14
Identities = 65/95 (68%), Positives = 78/95 (82%)
Query: 367 NEVAVIDEIQMMRDITRGWAWTRALLGLMAKEIHVCGEAGAVDLVKAIMMTTNEDVEVYK 426
EVAVIDEIQM+RD RGWAWTRALLGL A+E+H+CGE A+DLV +M TT E+VEV
Sbjct: 240 YEVAVIDEIQMIRDPARGWAWTRALLGLCAEEVHLCGEPAAIDLVMELMYTTGEEVEVRD 299
Query: 427 YKRLTELQIEDSAVGSLDNIQPGDCIVCFSKNDVY 461
YKRLT + + D A+ SLDN++PGDCIVCFSKND+Y
Sbjct: 300 YKRLTPISVLDHALESLDNLRPGDCIVCFSKNDIY 334
Score = 59.9 bits (144), Expect = 4e-09
Identities = 33/94 (35%), Positives = 45/94 (47%), Gaps = 22/94 (23%)
Query: 478 GTSSKVLVRNKKSNTTNLFVPVHVKPNTDPTDANVGQELTVPVHVKPNTDPTDANVGQEL 537
GT+S K T+LFVP+ VKP D +VG ELT
Sbjct: 1 GTASSSASGGSKIPNTSLFVPLTVKPQGPSADGDVGAELT-------------------- 40
Query: 538 TGGSIDKSETVKILNKFYQRQEIKIAAMDHGLDN 571
+DK+E K+L+KFY+R+EI+ D+GLD
Sbjct: 41 --RPLDKNEVKKVLDKFYKRKEIQKLGADYGLDA 72
>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 = 76.8 bits (189), Expect = 3e-14
Identities = 74/370 (20%), Positives = 127/370 (34%), Gaps = 74/370 (20%)
Query: 820 GVYCGPLKIHAGPTNSGKTYHA----LERFLSAESGVYCGPLKMLATEV---FKKSNDRG 872
V+ G + A PT +GKT A + + +Y PL+ LA E FKK G
Sbjct: 36 KVFSGKNLLLAMPTAAGKTLLAEMAMVREAIKGGKSLYVVPLRALAGEKYESFKKWEKIG 95
Query: 873 TPCDLITGEEKKFIQGEEKPANHVA-CTVEM------TSVNIPYEVA--VIDEIQMMRDI 923
+ TG+ + + E + T E + V+ V+DEI ++
Sbjct: 96 LRIGISTGDYE--SRDEHLGDCDIIVTTSEKADSLIRNRASWIKAVSCLVVDEIHLLDSE 153
Query: 924 TRGWAW----TRA--------LLGLMA-----KEI-------HVCGEAGAVDLVKAIMMT 959
RG T+ ++GL A EI + + V LV+ ++
Sbjct: 154 KRGATLEILVTKMRRMNKALRVIGLSATAPNVTEIAEWLDADYYVSDWRPVPLVEGVLCE 213
Query: 960 TNEDVEVYKYKRLTELQIEDSAVGSLDNIQPGDCIV-CFSKNDVYTVSRGIESRGTEVAV 1018
++ + ++ E+ + +V ++ + +
Sbjct: 214 GTLELFDGAFSTSRRVKFEELVEECVAENGG--VLVFESTRRGAEKTAVKL--------- 262
Query: 1019 IYGSLPPTTKLAQASKFNDPDNPCKVMVATDAIGMGLNFRGIESRGTEVAVIYGSLPPTT 1078
A +K+ + + K ++ + M +G A + L
Sbjct: 263 ----------SAITAKYVENEGLEKAILEENEGEMSRKLAECVRKG--AAFHHAGLLNGQ 310
Query: 1079 KLAQASKFNDPDNPCKVMVATDAIGMGLNLSIRRVIFYSLIKPSLNEKGEREIDLISVSA 1138
+ F KV+VAT + G+NL RRVI SL + + I VS
Sbjct: 311 RRVVEDAFR--RGNIKVVVATPTLAAGVNLPARRVIVRSL------YRFDGYSKRIKVSE 362
Query: 1139 ALQIAGRAGR 1148
Q+AGRAGR
Sbjct: 363 YKQMAGRAGR 372
Score = 32.1 bits (73), Expect = 1.3
Identities = 6/17 (35%), Positives = 9/17 (52%)
Query: 371 VIDEIQMMRDITRGWAW 387
V+DEI ++ RG
Sbjct: 143 VVDEIHLLDSEKRGATL 159
>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 = 74.7 bits (183), Expect = 2e-13
Identities = 102/614 (16%), Positives = 189/614 (30%), Gaps = 196/614 (31%)
Query: 710 RYLQHQAYISFRRYCLETQSLPVDLHVVLSDIIQGAGHVDDMFPYYLR----HA-KQMFP 764
++L Y+S + L++ L++ YL HA
Sbjct: 63 KFLG---YVSSLVEPSKVGQFDQVLNLCLTEFENC----------YLEGNDIHALAAKLL 109
Query: 765 HLDCMDDLKKISDLRNPAEWYPNARSISRRIIFHAGPTNSGKTYHALERFLSAESGVYCG 824
+ +K ++N Y AR +++R +NS AL F + G
Sbjct: 110 QENDTTLVKTKELIKN----YITARIMAKRPF--DKKSNS-----AL--FRAVGEG---- 152
Query: 825 PLKIHA-----GPTNSG--------KTYHAL-ERFLSAESGVYCGPLKMLATEVFKKSND 870
++ A G T+ +TYH L + + L L
Sbjct: 153 NAQLVAIFGGQGNTDDYFEELRDLYQTYHVLVGDLIKFSAET----LSELIRTTLDAEKV 208
Query: 871 RGTPCDLITGEEKKFIQGEE-KPANHVACTVEMTSVNIPYEVAVIDEIQMMRDITRGWAW 929
+++ ++++ P ++ ++ P +I IQ+ +
Sbjct: 209 FTQGLNIL-----EWLENPSNTPDKDYLLSIP---ISCP----LIGVIQLAH-----YVV 251
Query: 930 TRALLGLMAKEI--HVCGEAGAV-DLVKAIMMTTNEDVEVYKYKRLTELQIEDSAVGSLD 986
T LLG E+ ++ G G LV A+ + + S +
Sbjct: 252 TAKLLGFTPGELRSYLKGATGHSQGLVTAVAI---------------------AETDSWE 290
Query: 987 NIQPGDCIVCFSKN--DVYTVSRGIESRGTEVAVIYGSLPPTTKLAQASKFNDPDNPCKV 1044
+ F + TV I R E SLPP+ + + S N+ P
Sbjct: 291 S---------FFVSVRKAITVLFFIGVRCYEAYPNT-SLPPS--ILEDSLENNEGVPSP- 337
Query: 1045 MVATDAIGMGLNFRGIESRGTEVAVIYGSLPPTTKLAQASKFNDPDNPCKVMVATDAIG- 1103
M++ L ++ V LP ++ S N N +V + G
Sbjct: 338 MLSI----SNLTQEQVQDY---VNKTNSHLPAGKQVE-ISLVNGAKN----LVVS---GP 382
Query: 1104 ----MGLNLSIRRVIFYSLIKPSLNEK----GEREIDLIS----VSAALQIAGRAGRFNT 1151
GLNL++R+ L++ ER++ + V++ F++
Sbjct: 383 PQSLYGLNLTLRKA----KAPSGLDQSRIPFSERKLKFSNRFLPVAS---------PFHS 429
Query: 1152 HFEKLAGSHPALNEKGEREIDLISVSAALQIAGRAGRFNTHFEKGFVTTFKPDDL----- 1206
H L + +N+ + + +QI ++T G DL
Sbjct: 430 HL--LVPASDLINKDLVKNNVSFNAK-DIQIP----VYDT--FDG-------SDLRVLSG 473
Query: 1207 PILKNLLAQSPEPITKAGLH-PTADQIELYAYHL----P--NSTLSNLMDI--------F 1251
I + ++ I + + T Q + A H+ P S L L
Sbjct: 474 SISERIVDC----IIRLPVKWETTTQFK--ATHILDFGPGGASGLGVLTHRNKDGTGVRV 527
Query: 1252 VSLSTVD---DSLY 1262
+ T+D D Y
Sbjct: 528 IVAGTLDINPDDDY 541
Score = 47.7 bits (113), Expect = 3e-05
Identities = 47/307 (15%), Positives = 88/307 (28%), Gaps = 106/307 (34%)
Query: 921 RDITRGWAWTRA------LLGLMAKEI----------HVCGEAGA--VDLVKAIMMTTNE 962
+D+ W RA G +I H GE G + A++ T
Sbjct: 1643 QDV-----WNRADNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKRIRENYSAMIFETIV 1697
Query: 963 DVEVYKYKRLTELQIEDSAV------GSLD---NIQPGDCIVCFSKNDVYTVSRGIESRG 1013
D ++ K E+ ++ G L QP + ++S+G
Sbjct: 1698 DGKLKTEKIFKEINEHSTSYTFRSEKGLLSATQFTQP--ALTLME----KAAFEDLKSKG 1751
Query: 1014 --TEVAVI-------YGSLPPTTKLAQASKFNDPDNPCKVMVATDAIGMGLNFRGIESRG 1064
A Y +L + A VM + + + +RG
Sbjct: 1752 LIPADATFAGHSLGEYAAL-----ASLAD----------VMSIESLVEV-VFYRG----- 1790
Query: 1065 TEVAVIYGSLPPTTKLAQASKFNDPDNPCKV-MVATDAIGMGLNLSIRRVIFYSLIKPSL 1123
Q + D M+A + + + S + + +++
Sbjct: 1791 --------------MTMQVAVPRDELGRSNYGMIAINPGRVAASFSQEALQY--VVERVG 1834
Query: 1124 NEKGEREIDLISV----SAALQ--IAG--RAGRFNTHFEKLAGSHPALNEKGEREIDLIS 1175
G L+ + Q AG RA + + LN ++ID+I
Sbjct: 1835 KRTGW----LVEIVNYNVENQQYVAAGDLRA------LDTVTN---VLNFIKLQKIDIIE 1881
Query: 1176 VSAALQI 1182
+ +L +
Sbjct: 1882 LQKSLSL 1888
Score = 44.3 bits (104), Expect = 3e-04
Identities = 81/484 (16%), Positives = 145/484 (29%), Gaps = 184/484 (38%)
Query: 2 IASSSKHLTQEQSEPLLINTSDDEEDTTNS-DILH-KNHTSHKDTPSSH--TKEAVS--- 54
I S++ L L+ T D E+ T +IL + S +TP +S
Sbjct: 188 IKFSAETL-----SELIRTTLDAEKVFTQGLNILEWLENPS--NTPDKDYLLSIPISCPL 240
Query: 55 -----LVNYDTTIAKIS----TALFYALCSLFITIVNKSVLTSYVF------PSFKIVAL 99
L +Y T AK+ L L T ++ ++T+ SF
Sbjct: 241 IGVIQLAHYVVT-AKLLGFTPGELRSYLKGA--TGHSQGLVTAVAIAETDSWESF----F 293
Query: 100 GQLLTTVVVL-YVGKKLRFIQ-FPNYHRNIFFELMPLPFIYLGNMVFGLGGTKELSLPMF 157
+ + VL ++G +R + +PN LP L + + G S PM
Sbjct: 294 VSVRKAITVLFFIG--VRCYEAYPN---------TSLPPSILEDSLENNEGVP--S-PML 339
Query: 158 TMLRRFSI--LMTMIAEYYVLHIVPNRSVKITVGMMIGGA---VIAALNDLGYNFQGYVF 212
+ + + + + + H+ + V+I++ + GA V++ G
Sbjct: 340 S-ISNLTQEQVQDYVNKTNS-HLPAGKQVEISL---VNGAKNLVVS----------GPPQ 384
Query: 213 VL--LNNFL---TAVNGV------YTKKKLDPKKDMGKYGLMFYSSVFMLPVTVIF--IY 259
L LN L A +G+ ++++K K +S+ F LPV F
Sbjct: 385 SLYGLNLTLRKAKAPSGLDQSRIPFSERK--LK----------FSNRF-LPVASPFHSHL 431
Query: 260 LSDDYAKVLEYEYLWDMWFQIQFILSCCMGFILNYSIMLCTQYNSALTTTIIGCLKNILL 319
L + + L +
Sbjct: 432 LVPASDLIN--KDLVKNNVSFN---------------------AKDIQIP---------- 458
Query: 320 TYLGMFIGGDYVYSVNNFIGINI-----SIIGSILYTIVTFKPAPV--KKQTVTNEVAVI 372
VY + G ++ SI I+ I+ PV + T ++
Sbjct: 459 -----------VYDTFD--GSDLRVLSGSISERIVDCIIR---LPVKWETTTQFKATHIL 502
Query: 373 D-------EI-QMMRDITRGWAWTRALLGLMAKEIHVCGEAGAVDLVKAIMMTTNEDVEV 424
D + + G R ++ AG +D N D +
Sbjct: 503 DFGPGGASGLGVLTHRNKDG-TGVRVIV------------AGTLD--------INPDDD- 540
Query: 425 YKYK 428
Y +K
Sbjct: 541 YGFK 544
Score = 34.6 bits (79), Expect = 0.24
Identities = 17/80 (21%), Positives = 36/80 (45%), Gaps = 21/80 (26%)
Query: 481 SKVLVRNKKSNTTNLFVPV----H---VKPNTDPTDANV--------GQELTVPVHVKPN 525
S++ +K +N F+PV H + P +D + ++ +++ +PV+
Sbjct: 405 SRIPFSERKLKFSNRFLPVASPFHSHLLVPASDLINKDLVKNNVSFNAKDIQIPVY---- 460
Query: 526 TDPTDANVGQELTGGSIDKS 545
D D + + L+ GSI +
Sbjct: 461 -DTFDGSDLRVLS-GSISER 478
Score = 29.6 bits (66), Expect = 9.9
Identities = 22/107 (20%), Positives = 30/107 (28%), Gaps = 25/107 (23%)
Query: 1159 SHPALNEKGEREIDLISVSAALQIAGRAGRFNTHFEKGFVTTFKPDDLPILKNLLAQSPE 1218
SH G E + V A A + F K LP A E
Sbjct: 12 SH------GSLEHV-LLVPTASFFI--ASQLQEQFNK---------ILPEPTEGFAADDE 53
Query: 1219 PITKAGLHP-----TADQIELYAYHLPNSTLSNLMDIFVS--LSTVD 1258
P T A L + +E + L+ + F + L D
Sbjct: 54 PTTPAELVGKFLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGND 100
>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 = 72.2 bits (177), Expect = 6e-13
Identities = 65/360 (18%), Positives = 120/360 (33%), Gaps = 70/360 (19%)
Query: 828 IHAGPTNSGKTYHA----LERFLSAES-GVYCGPLKMLATEV---FKKSNDRGTPCDLIT 879
+ + PT SGKT A + R L+ VY PLK LA E F+ G + T
Sbjct: 43 LISIPTASGKTLIAEIAMVHRILTQGGKAVYIVPLKALAEEKFQEFQDWEKIGLRVAMAT 102
Query: 880 GEEKKFIQGEEKPANHVA-CTVE----MTSVNIPY----EVAVIDEIQMMRDITRGWAW- 929
G+ + E + T E + + ++ V DEI ++ RG
Sbjct: 103 GDYD--SKDEWLGKYDIIIATAEKFDSLLRHGSSWIKDVKILVADEIHLIGSRDRGATLE 160
Query: 930 ---TRA-----LLGLMA-----KEI-------HVCGEAGAVDLVKAIMMTTNEDVEVYKY 969
++GL A +E+ + + V L + + E
Sbjct: 161 VILAHMLGKAQIIGLSATIGNPEELAEWLNAELIVSDWRPVKLRRGVFYQGFVTWEDGSI 220
Query: 970 KRLTELQIEDSAVGSLDNIQPGDCIV-CFSKNDVYTVSRGIESRGTEVAVIYGSLPPTTK 1028
R + E+ ++ + ++ + V+ + ++ + P
Sbjct: 221 DRFSS--WEELVYDAIRKKKG--ALIFVNMRRKAERVALEL----SKKVKSLLTKPEIRA 272
Query: 1029 LAQASKFNDPDNPCKVMVATDAIGMGLNFRGIESRGTEVAVIYGSLPPTTKLAQASKFND 1088
L + + + + + + G+ + G L ++ F
Sbjct: 273 LNELADSLEENPTNEKLAKAIRGGVAFHHAG--------------LGRDERVLVEENFRK 318
Query: 1089 PDNPCKVMVATDAIGMGLNLSIRRVIFYSLIKPSLNEKGEREIDLISVSAALQIAGRAGR 1148
K +VAT + G+N RVI + + ++ G I +I V Q+ GRAGR
Sbjct: 319 --GIIKAVVATPTLSAGINTPAFRVIIRDIWR--YSDFGMERIPIIEV---HQMLGRAGR 371
Score = 31.0 bits (70), Expect = 3.5
Identities = 7/29 (24%), Positives = 11/29 (37%), Gaps = 2/29 (6%)
Query: 361 KKQTVTNEVA--VIDEIQMMRDITRGWAW 387
+ +V V DEI ++ RG
Sbjct: 131 HGSSWIKDVKILVADEIHLIGSRDRGATL 159
>2va8_A SSO2462, SKI2-type helicase; hydrolase, DNA repair, ATP-bindin
nucleotide-binding; 2.30A {Sulfolobus solfataricus}
Length = 715
Score = 69.0 bits (169), Expect = 6e-12
Identities = 82/438 (18%), Positives = 133/438 (30%), Gaps = 111/438 (25%)
Query: 771 DLKKISDLRNPAEWYPN--ARSISR-----RIIFHAGPTNSGKTYHALERFLSAESGVYC 823
+ I DL+ P+ R I + G L +
Sbjct: 6 EWMPIEDLKLPSNVIEIIKKRGIKKLNPPQTEAVKKG-------------LLEGNRLLLT 52
Query: 824 GPLKIHAGPTNSGKT---YHALERFLSAESG--VYCGPLKMLATEV---FKKSNDRGTPC 875
P T SGKT + FL G +Y PL+ L E FK G
Sbjct: 53 SP-------TGSGKTLIAEMGIISFLLKNGGKAIYVTPLRALTNEKYLTFKDWELIGFKV 105
Query: 876 DLITGEEKKFIQGEEKPANHVA-CTVE----MTSVNIPY--EVA--VIDEIQMMRDITRG 926
+ +G+ + T E + + EV V+DE+ + D RG
Sbjct: 106 AMTSGDYD--TDDAWLKNYDIIITTYEKLDSLWRHRPEWLNEVNYFVLDELHYLNDPERG 163
Query: 927 WAW----TRA----LLGL---------MAK----------------EIHVCGEAGAVDLV 953
RA LL L +AK V
Sbjct: 164 PVVESVTIRAKRRNLLALSATISNYKQIAKWLGAEPVATNWRPVPLIEGVIYPER----- 218
Query: 954 KAIMMTTNEDVEVYKYKRLTELQIEDSAVGS-LDNIQPGD-CIV-CFSKNDVYTVSRGIE 1010
E ++K ++ +D+ + LD++ +V S+ + + I
Sbjct: 219 -----KKKEYNVIFKDNTTKKVHGDDAIIAYTLDSLSKNGQVLVFRNSRKMAESTALKIA 273
Query: 1011 SRGTEVAVIYGSLPPTTKLAQASKFNDPDNPCKVMVATDAIGMGLNFRGIESRGTEVAVI 1070
+ V++ +L K + + +++ I G VA
Sbjct: 274 NYMNFVSLDENALSEILKQLDDIE-EGGSDEKELL--KSLISKG------------VAYH 318
Query: 1071 YGSLPPTTKLAQASKFNDPDNPCKVMVATDAIGMGLNLSIRRVIFYSLIKPSLNEKGERE 1130
+ L + F KV+VAT + G+NL R VI + + N+K
Sbjct: 319 HAGLSKALRDLIEEGFRQ--RKIKVIVATPTLAAGVNLPARTVIIGDIYRF--NKKIAGY 374
Query: 1131 IDLISVSAALQIAGRAGR 1148
D I + Q++GRAGR
Sbjct: 375 YDEIPIMEYKQMSGRAGR 392
Score = 29.7 bits (67), Expect = 7.7
Identities = 9/22 (40%), Positives = 12/22 (54%), Gaps = 2/22 (9%)
Query: 365 VTNEVA--VIDEIQMMRDITRG 384
NEV V+DE+ + D RG
Sbjct: 142 WLNEVNYFVLDELHYLNDPERG 163
>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 = 56.0 bits (134), Expect = 7e-08
Identities = 110/741 (14%), Positives = 200/741 (26%), Gaps = 251/741 (33%)
Query: 313 CLKNILLTYLGMFIGGDYVYSVNNFIGINISIIGSILYTIVTFKPAPVKKQTVTNEVAVI 372
K+IL + F+ V + K ++ E I
Sbjct: 17 QYKDILSVFEDAFVDNFDCKDVQDMP-----------------------KSILSKEE--I 51
Query: 373 DEIQMMRDITRGWAWTRALLGLMAKEIHVCGEAGAVDLVKAIMMTTNEDVEVYKYKRLTE 432
D I M +D G T L + + E V E+V YK L
Sbjct: 52 DHIIMSKDAVSG---TLRLFWTLLSK----QEEMVQKFV--------EEVLRINYKFLMS 96
Query: 433 -LQIEDSAVGSLDNIQPGDCIVCFSKNDVYTHQGVYTLGAEWSLGIGTSSKVLVRNKKSN 491
++ E QP +Y Q R++ N
Sbjct: 97 PIKTE--------QRQPSM------MTRMYIEQ---------------------RDRLYN 121
Query: 492 TTNLFVPVHVKPNTDPTDA--NVGQELT----VPVH-------------VKPNTDPTDAN 532
+F +V P EL V + V +
Sbjct: 122 DNQVFAKYNV-SRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKM 180
Query: 533 VGQE--LTGGSIDKSETV-KILNKFYQRQEIKIAAMDHGLDNTPSSHTKEAVSLVNYDTT 589
+ L + + ETV ++L K + + + N + +
Sbjct: 181 DFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIK----------LRIHSI 230
Query: 590 IAKISTALF---YALCSLFITIVNKSVLTSYVFPSF----KIVALGQLLTT---VVVLYV 639
A++ L Y C L +V +V + + +F KI LLTT V ++
Sbjct: 231 QAELRRLLKSKPYENC-L---LVLLNVQNAKAWNAFNLSCKI-----LLTTRFKQVTDFL 281
Query: 640 GKKLRFIQFPNYHRNIF--FELMPLPFI-YLGNMVFGLGGTKELSLPMFTMLRRFSILMT 696
++H E+ L + YL + LP +L ++
Sbjct: 282 SAATTTHISLDHHSMTLTPDEVKSL-LLKYL--------DCRPQDLPR-EVLTTNPRRLS 331
Query: 697 MIAEYYVLHIVPNR--YLQHQAYISFRRY---CLETQS-------------LPVDLHV-- 736
+IAE + +H L P H+
Sbjct: 332 IIAE--SIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPT 389
Query: 737 -VLS------------DIIQGAGHVDDMFPYYL--RHAKQMFPHL-DCMDDLKKISDLRN 780
+LS + V+ + Y L + K+ + +LK +
Sbjct: 390 ILLSLIWFDVIKSDVMVV------VNKLHKYSLVEKQPKESTISIPSIYLELKVKLE--- 440
Query: 781 PAEWYPNARSISRRIIFHAGPTNSGKTYHALERFLSAESG-VYCGPLKIHAGPTNSGKTY 839
N ++ R I+ H N KT+ + + Y H G +
Sbjct: 441 ------NEYALHRSIVDH---YNIPKTFDSDDLIPPYLDQYFYS-----HIG-------H 479
Query: 840 HALERFLSAESGVYCGPLKMLATEVFKKSNDRGTPCDLITGEEKKFIQGEEKPANHVACT 899
H L+ E L VF D +F++ K
Sbjct: 480 H-LKNIEHPE-------RMTLFRMVF---------LDF------RFLEQ--K-------- 506
Query: 900 VEMTSVNIPYEVAVIDEIQMMRD----ITRGWAWTRALLGLMAKEIHVCGE----AGAVD 951
+ S ++++ +Q ++ I L+ + + E + D
Sbjct: 507 IRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLVNAILDFLPKIEENLICSKYTD 566
Query: 952 LVKAIMMTTNEDVEVYKYKRL 972
L++ +M +E + +K++
Sbjct: 567 LLRIALMAEDEAIFEEAHKQV 587
Score = 52.9 bits (126), Expect = 7e-07
Identities = 77/563 (13%), Positives = 168/563 (29%), Gaps = 144/563 (25%)
Query: 747 HVDDMFPYYLRHAKQMFPHLDCMDDLKKISDLRNPAEWYPNARSISRRIIFH--AGPTNS 804
D+ + F DC D + D+ +S+ I H
Sbjct: 17 QYKDILSVFEDAFVDNF---DCKD----VQDMPKSI--------LSKEEIDHIIMSKDAV 61
Query: 805 GKTYHALERFLSAESGVYCGPLKIHAGPTNSGKTYHALERFL-SAESGVYCGPLKMLATE 863
T LS + + ++F+ Y K L +
Sbjct: 62 SGTLRLFWTLLSKQEEMV--------------------QKFVEEVLRINY----KFLMSP 97
Query: 864 VFKKSNDRGTPCDLITGEEKKFIQGEEKPANHVACTVEMTSVNIPYEVAVIDEIQMMRDI 923
+ + + + +I+ ++ N V Y V+ + +R
Sbjct: 98 IKTEQRQP-------SMMTRMYIEQRDRLYNDN-------QVFAKYNVSRLQPYLKLR-- 141
Query: 924 TRGWAWTRALLGLM-AKEIHVCGEAG------AVDLVKAIMMTTNEDVEVYKYKRLTELQ 976
+ALL L AK + + G G A+D+ + + D +++ + L
Sbjct: 142 -------QALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIF-WLNLKNCN 193
Query: 977 IEDSAVGSLDN----IQPGDCIVCFSKNDVYTVSRGIESRGTEVAVIYGSLP-P------ 1025
++ + L I P + I S E+ + S P
Sbjct: 194 SPETVLEMLQKLLYQIDPNWTSRSDHS---SNIKLRIHSIQAELRRLLKSKPYENCLLVL 250
Query: 1026 ----TTKLAQASKFNDPDNPCKVMVAT-DAIGMGLNFRGIESRGTEVAVIYGSLPPTTK- 1079
K A F + CK+++ T + + T +++ + S+ T
Sbjct: 251 LNVQNAKAWNA--F---NLSCKILLTTRFK---QVTDFLSAATTTHISLDHHSMTLTPDE 302
Query: 1080 ----LAQASKFNDPDNPCKVMVATD--AIGMGLNLSIRRVIFYSLIKPSLNEKGEREIDL 1133
L + D P + ++ T+ + + + SIR + + ++ +
Sbjct: 303 VKSLLLKYLDCRPQDLP-REVLTTNPRRLSI-IAESIRD--GLATWDNWKHVNCDKLTTI 358
Query: 1134 ISVS-AALQIAGRAGRFNTHFEKLA----GSH-PA--L----NEKGEREIDLI----SVS 1177
I S L+ + F++L+ +H P L + + ++ ++
Sbjct: 359 IESSLNVLE----PAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKY 414
Query: 1178 AALQIAGRAGRFNTH---FEKGFVTTFKPDDLPIL-KNLLAQSPEPITKAGLHPTADQIE 1233
+ ++ + + E K ++ L ++++ P T ++
Sbjct: 415 SLVEKQPKESTISIPSIYLE----LKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLD 470
Query: 1234 LY-----AYHLPNSTLSNLMDIF 1251
Y +HL N M +F
Sbjct: 471 QYFYSHIGHHLKNIEHPERMTLF 493
Score = 46.4 bits (109), Expect = 6e-05
Identities = 71/543 (13%), Positives = 152/543 (27%), Gaps = 184/543 (33%)
Query: 32 DILHKN--------HTSHKDTPSSHTKEAVSLVN-----------YDTTIAKISTALFYA 72
++L N T + PS T+ + + Y+ + + L A
Sbjct: 85 EVLRINYKFLMSPIKTEQRQ-PSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQA 143
Query: 73 LCSL----FITI-----VNKSVLTSYV---------FPSFKI--VALGQLLTTVVVLYVG 112
L L + I K+ + V FKI + L + VL +
Sbjct: 144 LLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMD-FKIFWLNLKNCNSPETVLEML 202
Query: 113 KKLRFIQFPNYHRNI-------------------FFELMPLP--FIYLGNM-------VF 144
+KL + PN+ + P + L N+ F
Sbjct: 203 QKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAF 262
Query: 145 GLG-------------------GTKELSL----PMFTMLRRFSILMTMIAEYYVLHI--- 178
L T +SL T + +++ +Y L
Sbjct: 263 NLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTP----DEVKSLLLKY--LDCRPQ 316
Query: 179 -VPNRSVKI---TVGMMIGGAVIAALNDLGYNFQGYVFVLLNNFLTAVNGVYTKKKLDPK 234
+P + + +I ++ D + + V + T + L+P
Sbjct: 317 DLPREVLTTNPRRLS-IIA----ESIRDGLATWDNWKHVNCDKLTTIIESSL--NVLEP- 368
Query: 235 KDMGKYGLMFYSSVFMLPVTVIFIYLSDDY---AKVLEYEYLW-DMWFQ-IQFILSCCMG 289
+ K + + + P +L +W D+ + +++
Sbjct: 369 AEYRKM----FDRLSVFP---------PSAHIPTILL--SLIWFDVIKSDVMVVVNKLH- 412
Query: 290 FILNYSIMLCTQYNSALTTTIIGCL--------------KNILLTY----------LGMF 325
YS L + T +I ++I+ Y L
Sbjct: 413 ---KYS--LVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPP 467
Query: 326 IGGDYVYSVNNFIGINISIIG--------SILYTIVTFKPAPVKKQTVTNEV--AVIDEI 375
Y YS IG ++ I +++ F ++ + ++++ +
Sbjct: 468 YLDQYFYS---HIGHHLKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTL 524
Query: 376 QMMRD----ITRGWAWTRALLGLMAKEIHVCGE----AGAVDLVKAIMMTTNEDVEVYKY 427
Q ++ I L+ + + E + DL++ +M +E + +
Sbjct: 525 QQLKFYKPYICDNDPKYERLVNAILDFLPKIEENLICSKYTDLLRIALMAEDEAIFEEAH 584
Query: 428 KRL 430
K++
Sbjct: 585 KQV 587
Score = 39.1 bits (90), Expect = 0.012
Identities = 52/364 (14%), Positives = 111/364 (30%), Gaps = 89/364 (24%)
Query: 671 VFGLGGTKELSLPMFTMLRRFSILMTMIAEYYVLHIVPNRYLQHQAYI--SFRRYCLETQ 728
+ +L +F L + + +V ++ Y ++ + +
Sbjct: 54 IIMSKDAVSGTLRLFWTLLSKQ---EEMVQKFVEEVLRINY----KFLMSPIKTEQRQP- 105
Query: 729 SLPVDLHVVLSDIIQGAGHVDDMFPYYLRHAKQMFPHLDCMDDLKK-ISDLRNPAEWYPN 787
S+ +++ D + V F K L L++ + +LR PA+
Sbjct: 106 SMMTRMYIEQRDRLYNDNQV---FA------KYNVSRLQPYLKLRQALLELR-PAKN--- 152
Query: 788 ARSISRRIIFHAGPTNSGKTYHALERFLSAESGVYCGPLKIH---AGPTNSGKTY-HALE 843
++ G SGKT+ AL+ + KI NS +T L+
Sbjct: 153 -------VLID-GVLGSGKTWVALD-VCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQ 203
Query: 844 RFLSAESGVYCGPLKMLATEVFKKSNDRGTPCDLITGEEKKFIQGEEKP----------- 892
+ L + + SN + I E ++ ++ +
Sbjct: 204 KLLYQIDPNWT-------SRSDHSSNIK-LRIHSIQAELRRLLKSKPYENCLLVLLNVQN 255
Query: 893 ANHVA-----CTVEMTSVNIPYEVAVIDEI--QMMRDIT---RGWAWTRA-LLGLMAKEI 941
A C + +T+ V D + I+ T + L+ K +
Sbjct: 256 AKAWNAFNLSCKILLTTRFK----QVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYL 311
Query: 942 H---------VCGEAG-AVDLVKA---IMMTTNEDVEVYKYKRLTELQIEDSAVGSLDNI 988
V + ++ + T ++ + +LT + IE S L+ +
Sbjct: 312 DCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTI-IESS----LNVL 366
Query: 989 QPGD 992
+P +
Sbjct: 367 EPAE 370
Score = 32.5 bits (73), Expect = 1.2
Identities = 49/314 (15%), Positives = 101/314 (32%), Gaps = 98/314 (31%)
Query: 6 SKHLTQEQSEPLL---INTSDD----EEDTTN----SDI--LHKNHTSHKDTPSSHTKEA 52
S LT ++ + LL ++ E TTN S I ++ + D + K
Sbjct: 295 SMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWD----NWKH- 349
Query: 53 VSLVNYDTTIAKISTAL----------FYALCSLF-----IT------------------ 79
VN D I ++L + S+F I
Sbjct: 350 ---VNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMV 406
Query: 80 IVNKSVLTSYVFPSFKIVALGQLLTTVVVLYVGKKLRFIQFPNYHRNI-----------F 128
+VNK S V K + ++ +Y+ K++ HR+I
Sbjct: 407 VVNKLHKYSLVEKQPK-----ESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDS 461
Query: 129 FELMPLP-----FIYLGNMVFGLGGTKELSLPMFTMLRRFSILMTMIAEYYVLHIVPNRS 183
+L+P + ++G+ + + + ++L F M+ + + +
Sbjct: 462 DDLIPPYLDQYFYSHIGHHLKNIEHPERMTL--FRMV------------FLDFRFLEQKI 507
Query: 184 VKITVGMMIGGAVIAALNDLGYNFQGYVFV-------LLNNFLTAVNGVYTKKKLDPKKD 236
+ G+++ L L + ++ Y+ L+N L + + D
Sbjct: 508 RHDSTAWNASGSILNTLQQLKF-YKPYICDNDPKYERLVNAILDFLPKIEENLICSKYTD 566
Query: 237 MGKYGLMF-YSSVF 249
+ + LM ++F
Sbjct: 567 LLRIALMAEDEAIF 580
>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 = 52.1 bits (125), Expect = 8e-07
Identities = 25/94 (26%), Positives = 37/94 (39%), Gaps = 11/94 (11%)
Query: 1060 IESRGTEVAVIYGSLPPTTKLAQASKFNDPDNPCKVMVATDAIGMGLNLSIRRVI-FYSL 1118
+ G V V+ + ++ATD MG NL + RV+ +
Sbjct: 197 LRKAGKSVVVLNRKTFER-EYPTI-----KQKKPDFILATDIAEMGANLCVERVLDCRTA 250
Query: 1119 IKPSLNEKGEREIDL----ISVSAALQIAGRAGR 1148
KP L ++G + IS S+A Q GR GR
Sbjct: 251 FKPVLVDEGRKVAIKGPLRISASSAAQRRGRIGR 284
>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 = 50.3 bits (120), Expect = 4e-06
Identities = 23/95 (24%), Positives = 34/95 (35%), Gaps = 12/95 (12%)
Query: 1060 IESRGTEVAVIYGSLPPTTKLAQASKFNDPDNPCKVMVATDAIGMGLNLSIRRVI-F-YS 1117
++ G V + K + ++ TD MG N RVI S
Sbjct: 430 LQRAGKRVIQLNR------KSYDTEYPKCKNGDWDFVITTDISEMGANFGASRVIDCRKS 483
Query: 1118 LIKPSLNEKGEREIDL----ISVSAALQIAGRAGR 1148
+ L+E R I I+ ++A Q GR GR
Sbjct: 484 VKPTILDEGEGRVILSVPSAITSASAAQRRGRVGR 518
>4a4z_A Antiviral helicase SKI2; hydrolase, ATPase, mRNA degradation,
exosome; HET: ANP; 2.40A {Saccharomyces cerevisiae} PDB:
4a4k_A
Length = 997
Score = 46.4 bits (109), Expect = 6e-05
Identities = 35/95 (36%), Positives = 46/95 (48%), Gaps = 9/95 (9%)
Query: 1054 GLNFRGIESRGTEVAVIYGSLPPTTKLAQASKFNDPDNPCKVMVATDAIGMGLNLSIRRV 1113
L R + RG +AV +G L P K F+ KV+ AT+ MGLNL R V
Sbjct: 391 ILKTRSLLERG--IAVHHGGLLPIVKELIEILFSK--GFIKVLFATETFAMGLNLPTRTV 446
Query: 1114 IFYSLIKPSLNEKGEREIDLISVSAALQIAGRAGR 1148
IF S+ K + G R ++ Q+AGRAGR
Sbjct: 447 IFSSIRKH--DGNGLR---ELTPGEFTQMAGRAGR 476
Score = 38.3 bits (88), Expect = 0.019
Identities = 37/167 (22%), Positives = 66/167 (39%), Gaps = 25/167 (14%)
Query: 830 AGPTNSGKTY---HALERFLSAESGV-YCGPLKMLATEVFKKSNDRGTPCD--LITGEEK 883
A T++GKT +A+ + Y P+K L+ + F+ + + LITG+ +
Sbjct: 60 AAHTSAGKTVVAEYAIAMAHRNMTKTIYTSPIKALSNQKFRDFKETFDDVNIGLITGDVQ 119
Query: 884 KFIQGEEKPANHVACTVEMTSVNIPY---------EVAVIDEIQMMRDITRGWAWTRALL 934
I + AN + T E+ ++ Y E + DE+ + D RG W ++
Sbjct: 120 --INPD---ANCLIMTTEI-LRSMLYRGADLIRDVEFVIFDEVHYVNDQDRGVVWEEVII 173
Query: 935 GLMAKEIHVCGEAG---AVDLVKAIMMTTNEDVEV-YKYKRLTELQI 977
L + A + I T +++ V KR L+I
Sbjct: 174 MLPQHVKFILLSATVPNTYEFANWIGRTKQKNIYVISTPKRPVPLEI 220
>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 = 46.3 bits (109), Expect = 7e-05
Identities = 25/93 (26%), Positives = 44/93 (47%), Gaps = 9/93 (9%)
Query: 1056 NFRGIESRGTEVAVIYGSLPPTTKLAQASKFNDPDNPCKVMVATDAIGMGLNLSIRRVIF 1115
+ + RG + + + L P K F + KV+ AT+ +GLN+ + V+F
Sbjct: 400 HILPLLRRG--IGIHHSGLLPILKEVIEILFQE--GFLKVLFATETFSIGLNMPAKTVVF 455
Query: 1116 YSLIKPSLNEKGEREIDLISVSAALQIAGRAGR 1148
S+ K + + R +S +Q++GRAGR
Sbjct: 456 TSVRKW--DGQQFR---WVSGGEYIQMSGRAGR 483
Score = 42.1 bits (98), Expect = 0.001
Identities = 31/127 (24%), Positives = 56/127 (44%), Gaps = 17/127 (13%)
Query: 830 AGPTNSGKTY---HALERFLSAES-GVYCGPLKMLATEVFKKSNDRGTPCDLITGEEKKF 885
+ T++GKT +A+ + L + +Y P+K L+ + +++ L+TG+
Sbjct: 107 SAHTSAGKTVVAEYAIAQSLKNKQRVIYTSPIKALSNQKYRELLAEFGDVGLMTGDIT-- 164
Query: 886 IQGEEKPANHVACTVEM------TSVNIPYEVA--VIDEIQMMRDITRGWAWTRALLGLM 937
I + A + T E+ + EVA + DE+ MRD RG W ++ L
Sbjct: 165 INPD---AGCLVMTTEILRSMLYRGSEVMREVAWVIFDEVHYMRDKERGVVWEETIILLP 221
Query: 938 AKEIHVC 944
K +V
Sbjct: 222 DKVRYVF 228
>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 = 46.0 bits (108), Expect = 8e-05
Identities = 25/93 (26%), Positives = 44/93 (47%), Gaps = 9/93 (9%)
Query: 1056 NFRGIESRGTEVAVIYGSLPPTTKLAQASKFNDPDNPCKVMVATDAIGMGLNLSIRRVIF 1115
+ + RG + + + L P K F + KV+ AT+ +GLN+ + V+F
Sbjct: 498 HILPLLRRG--IGIHHSGLLPILKEVIEILFQE--GFLKVLFATETFSIGLNMPAKTVVF 553
Query: 1116 YSLIKPSLNEKGEREIDLISVSAALQIAGRAGR 1148
S+ K + + R +S +Q++GRAGR
Sbjct: 554 TSVRKW--DGQQFR---WVSGGEYIQMSGRAGR 581
Score = 42.1 bits (98), Expect = 0.001
Identities = 29/119 (24%), Positives = 53/119 (44%), Gaps = 17/119 (14%)
Query: 830 AGPTNSGKTY---HALERFLSAES-GVYCGPLKMLATEVFKKSNDRGTPCDLITGEEKKF 885
+ T++GKT +A+ + L + +Y P+K L+ + +++ L+TG+
Sbjct: 205 SAHTSAGKTVVAEYAIAQSLKNKQRVIYTSPIKALSNQKYRELLAEFGDVGLMTGDIT-- 262
Query: 886 IQGEEKPANHVACTVEM------TSVNIPYEVA--VIDEIQMMRDITRGWAWTRALLGL 936
I + A + T E+ + EVA + DE+ MRD RG W ++ L
Sbjct: 263 INPD---AGCLVMTTEILRSMLYRGSEVMREVAWVIFDEVHYMRDKERGVVWEETIILL 318
>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 = 45.2 bits (107), Expect = 1e-04
Identities = 22/95 (23%), Positives = 33/95 (34%), Gaps = 12/95 (12%)
Query: 1060 IESRGTEVAVIYGSLPPTTKLAQASKFNDPDNPCKVMVATDAIGMGLNLSIRRVI-F-YS 1117
++ G +V + + ++ TD MG N RVI S
Sbjct: 210 LQRAGKKVIQLNRKSY------DTEYPKCKNGDWDFVITTDISEMGANFGASRVIDCRKS 263
Query: 1118 LIKPSLNEKGEREIDL----ISVSAALQIAGRAGR 1148
+ L E R I I+ ++A Q GR GR
Sbjct: 264 VKPTILEEGEGRVILGNPSPITSASAAQRRGRVGR 298
Score = 40.6 bits (95), Expect = 0.003
Identities = 27/179 (15%), Positives = 45/179 (25%), Gaps = 27/179 (15%)
Query: 909 YEVAVIDEIQMMRDITRGWAWTRALLGLMAKEIHVCGEAGAVDLVKA---IMMTTNEDVE 965
Y + V+DE +T I E G + TT+ +
Sbjct: 113 YNLFVMDEAH----------FTDPASIAARGYIATKVELGEAAAIFMTATPPGTTDPFPD 162
Query: 966 VYKYKRLTELQIEDSAVGSL--DNIQPGDCIVCF--SKNDVYTVSRGIESRGTEVAVIYG 1021
+ +I D A S + V F S ++ ++ G +V +
Sbjct: 163 SNAPIHDLQDEIPDRAWSSGYEWITEYAGKTVWFVASVKMGNEIAMCLQRAGKKVIQLNR 222
Query: 1022 SLPPTTKLAQASKFNDPDNPCKVMVATDAIGMGLNFRGIES---RGTEVAVIYGSLPPT 1077
+ ++ TD MG NF G V
Sbjct: 223 KSY------DTEYPKCKNGDWDFVITTDISEMGANF-GASRVIDCRKSVKPTILEEGEG 274
>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 = 45.5 bits (107), Expect = 1e-04
Identities = 10/56 (17%), Positives = 23/56 (41%), Gaps = 1/56 (1%)
Query: 1064 GTEVAVIYGSLPPTTKLAQASKFNDPDNPCKVMVATDAIGMGLNLSI-RRVIFYSL 1118
G AV + + + A+ F + D +V++ ++ G N ++ + L
Sbjct: 528 GIRAAVFHEGMSIIERDRAAAWFAEEDTGAQVLLCSEIGSEGRNFQFASHMVMFDL 583
Score = 42.8 bits (100), Expect = 9e-04
Identities = 10/45 (22%), Positives = 20/45 (44%)
Query: 1013 GTEVAVIYGSLPPTTKLAQASKFNDPDNPCKVMVATDAIGMGLNF 1057
G AV + + + A+ F + D +V++ ++ G NF
Sbjct: 528 GIRAAVFHEGMSIIERDRAAAWFAEEDTGAQVLLCSEIGSEGRNF 572
>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 = 44.6 bits (105), Expect = 2e-04
Identities = 22/95 (23%), Positives = 30/95 (31%), Gaps = 12/95 (12%)
Query: 1060 IESRGTEVAVIYGSLPPTTKLAQASKFNDPDNPCKVMVATDAIGMGLNLSIRRVI--FYS 1117
+ G V + +V TD MG N RVI
Sbjct: 375 LRKSGKRVIQLSRKTF---DTEYPK---TKLTDWDFVVTTDISEMGANFRAGRVIDPRRC 428
Query: 1118 LIKPSLNEKGEREIDL----ISVSAALQIAGRAGR 1148
L L + ER I ++ ++A Q GR GR
Sbjct: 429 LKPVILTDGPERVILAGPIPVTPASAAQRRGRIGR 463
>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 = 44.6 bits (105), Expect = 2e-04
Identities = 16/86 (18%), Positives = 28/86 (32%), Gaps = 11/86 (12%)
Query: 1094 KVMVATDAIGMGLNLSIRRVI-FYSLIKPSLNEKGEREIDL------ISVSAALQIAGRA 1146
V+VATDA+ G VI + + +++ + + + Q GR
Sbjct: 441 VVVVATDALMTGYTGDFDSVIDCNTCVTQTVDFSLDPTFTIETTTVPQDAVSRSQRRGRT 500
Query: 1147 GRFNTHFEKLAGSHPALNEKGEREID 1172
GR + E+ D
Sbjct: 501 GRGRRGIYRFVTPG----ERPSGMFD 522
>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 = 43.7 bits (103), Expect = 4e-04
Identities = 22/95 (23%), Positives = 30/95 (31%), Gaps = 12/95 (12%)
Query: 1060 IESRGTEVAVIYGSLPPTTKLAQASKFNDPDNPCKVMVATDAIGMGLNLSIRRVI--FYS 1117
+ G V + +V TD MG N RVI
Sbjct: 208 LRKSGKRVIQLSRKTF---DTEYPK---TKLTDWDFVVTTDISEMGANFRAGRVIDPRRC 261
Query: 1118 LIKPSLNEKGEREIDL----ISVSAALQIAGRAGR 1148
L L + ER I ++ ++A Q GR GR
Sbjct: 262 LKPVILTDGPERVILAGPIPVTPASAAQRRGRIGR 296
>2v6i_A RNA helicase; membrane, hydrolase, transmembrane, RNA replication,
viral replication, nucleotide-binding; 2.10A {Kokobera
virus} PDB: 2v6j_A
Length = 431
Score = 42.1 bits (99), Expect = 9e-04
Identities = 22/92 (23%), Positives = 35/92 (38%), Gaps = 9/92 (9%)
Query: 1060 IESRGTEVAVIYGSLPPTTKLAQASKFNDPDNPCKVMVATDAIGMGLNLSIRRVIFYSL- 1118
++ G +V + + K ++ TD MG N RVI
Sbjct: 191 LQKAGKKVLYLNRKTFESEY--PKCKSEKW----DFVITTDISEMGANFKADRVIDPRKT 244
Query: 1119 IKP-SLNEKGERE-IDLISVSAALQIAGRAGR 1148
IKP L+ + + I+ ++A Q GR GR
Sbjct: 245 IKPILLDGRVSMQGPIAITPASAAQRRGRIGR 276
>1t5i_A C_terminal domain of A probable ATP-dependent RNA helicase; RECA-like
fold, PRE-mRNA processing protein; 1.90A {Homo sapiens}
SCOP: c.37.1.19
Length = 172
Score = 38.7 bits (91), Expect = 0.004
Identities = 17/97 (17%), Positives = 41/97 (42%), Gaps = 17/97 (17%)
Query: 965 EVYKYKRLTELQIEDSAVGSLDNIQPGDCIV-CFSKNDVYTVSRGIESRGTEVAVIYGSL 1023
+ K ++L +L LD ++ ++ S +++ + + I+ +
Sbjct: 15 DNEKNRKLFDL---------LDVLEFNQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGM 65
Query: 1024 PPTTKLAQASKFNDPDNPCKVMVATDAIGMGLNFRGI 1060
P +L++ +F D +++VAT+ G RG+
Sbjct: 66 PQEERLSRYQQFK--DFQRRILVATNLFG-----RGM 95
>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 = 38.8 bits (91), Expect = 0.011
Identities = 20/69 (28%), Positives = 35/69 (50%), Gaps = 4/69 (5%)
Query: 990 PGDC-IV-CFSKNDVYTVSRGIESRGTEVAVIYGSLPPTTKLAQASKFNDPDNPCKVMVA 1047
G I+ CFS+ D V+ +++ G + +L P K K++ + +V+VA
Sbjct: 266 KGQSGIIYCFSQKDSEQVTVSLQNLGIHAGAYHANLEPEDKTTVHRKWSANE--IQVVVA 323
Query: 1048 TDAIGMGLN 1056
T A GMG++
Sbjct: 324 TVAFGMGID 332
Score = 34.6 bits (80), Expect = 0.22
Identities = 20/57 (35%), Positives = 29/57 (50%), Gaps = 15/57 (26%)
Query: 1093 CKVMVATDAIGMGLNLS-IRRVIFYSLIKPSLNEKGEREIDLISVSAALQIAGRAGR 1148
+V+VAT A GMG++ +R VI +S+ K S+ Q +GRAGR
Sbjct: 318 IQVVVATVAFGMGIDKPDVRFVIHHSMSK--------------SMENYYQESGRAGR 360
>1oyw_A RECQ helicase, ATP-dependent DNA helicase; winged helix,
helix-turn-helix, ATP binding, Zn(2+) binding, hydrolase;
1.80A {Escherichia coli} SCOP: a.4.5.43 c.37.1.19
c.37.1.19 PDB: 1oyy_A*
Length = 523
Score = 35.6 bits (83), Expect = 0.11
Identities = 16/57 (28%), Positives = 28/57 (49%), Gaps = 15/57 (26%)
Query: 1093 CKVMVATDAIGMGLNLS-IRRVIFYSLIKPSLNEKGEREIDLISVSAALQIAGRAGR 1148
+++VAT A GMG+N +R V+ + + + ++ + Q GRAGR
Sbjct: 287 LQIVVATVAFGMGINKPNVRFVVHFDIPR--------------NIESYYQETGRAGR 329
Score = 31.7 bits (73), Expect = 1.8
Identities = 21/70 (30%), Positives = 33/70 (47%), Gaps = 4/70 (5%)
Query: 989 QPGDC-IV-CFSKNDVYTVSRGIESRGTEVAVIYGSLPPTTKLAQASKFNDPDNPCKVMV 1046
Q G I+ C S+ V + ++S+G A + L + KF D +++V
Sbjct: 234 QRGKSGIIYCNSRAKVEDTAARLQSKGISAAAYHAGLENNVRADVQEKFQRDD--LQIVV 291
Query: 1047 ATDAIGMGLN 1056
AT A GMG+N
Sbjct: 292 ATVAFGMGIN 301
>2rb4_A ATP-dependent RNA helicase DDX25; rossmann fold, structural genomics,
structural consortium, SGC, alternative initiation,
ATP-binding, devel protein; 2.80A {Homo sapiens}
Length = 175
Score = 34.1 bits (79), Expect = 0.12
Identities = 19/97 (19%), Positives = 39/97 (40%), Gaps = 17/97 (17%)
Query: 965 EVYKYKRLTELQIEDSAVGSLDNIQPGDCIV-CFSKNDVYTVSRGIESRGTEVAVIYGSL 1023
KY+ L + +I G I+ C ++ + ++ + G +V+++ G L
Sbjct: 18 RKDKYQALCNI---------YGSITIGQAIIFCQTRRNAKWLTVEMIQDGHQVSLLSGEL 68
Query: 1024 PPTTKLAQASKFNDPDNPCKVMVATDAIGMGLNFRGI 1060
+ + +F D KV++ T+ RGI
Sbjct: 69 TVEQRASIIQRFR--DGKEKVLITTNVCA-----RGI 98
>1fuk_A Eukaryotic initiation factor 4A; helicase, DEAD-box protein,
translation; 1.75A {Saccharomyces cerevisiae} SCOP:
c.37.1.19
Length = 165
Score = 33.7 bits (78), Expect = 0.16
Identities = 22/97 (22%), Positives = 42/97 (43%), Gaps = 17/97 (17%)
Query: 965 EVYKYKRLTELQIEDSAVGSLDNIQPGDCIV-CFSKNDVYTVSRGIESRGTEVAVIYGSL 1023
E YKY+ LT+L D+I ++ C ++ V ++ + + V+ IY L
Sbjct: 14 EEYKYECLTDL---------YDSISVTQAVIFCNTRRKVEELTTKLRNDKFTVSAIYSDL 64
Query: 1024 PPTTKLAQASKFNDPDNPCKVMVATDAIGMGLNFRGI 1060
P + +F +++++TD + RGI
Sbjct: 65 PQQERDTIMKEFRS--GSSRILISTDLLA-----RGI 94
>3fho_A ATP-dependent RNA helicase DBP5; mRNA export, ATPase, translation
termination, binding, hydrolase, membrane, mRNA
transport; 2.80A {Schizosaccharomyces pombe}
Length = 508
Score = 34.8 bits (81), Expect = 0.17
Identities = 26/97 (26%), Positives = 39/97 (40%), Gaps = 17/97 (17%)
Query: 965 EVYKYKRLTELQIEDSAVGSLDNIQPGDCIV-CFSKNDVYTVSRGIESRGTEVAVIYGSL 1023
E +KY L EL + G I+ C K+ ++R + + G VA + G+L
Sbjct: 341 EEHKYNVLVEL---------YGLLTIGQSIIFCKKKDTAEEIARRMTADGHTVACLTGNL 391
Query: 1024 PPTTKLAQASKFNDPDNPCKVMVATDAIGMGLNFRGI 1060
+ A F KV+V T+ I RGI
Sbjct: 392 EGAQRDAIMDSFR--VGTSKVLVTTNVIA-----RGI 421
>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 = 33.4 bits (77), Expect = 0.55
Identities = 18/97 (18%), Positives = 36/97 (37%), Gaps = 17/97 (17%)
Query: 965 EVYKYKRLTELQIEDSAVGSLDNIQPGDCIV-CFSKNDVYTVSRGIESRGTEVAVIYGSL 1023
K++ L L I ++ C ++ ++ + G +VA++ G +
Sbjct: 317 RDEKFQALCNL---------YGAITIAQAMIFCHTRKTASWLAAELSKEGHQVALLSGEM 367
Query: 1024 PPTTKLAQASKFNDPDNPCKVMVATDAIGMGLNFRGI 1060
+ A +F + KV+V T+ RGI
Sbjct: 368 MVEQRAAVIERFR--EGKEKVLVTTNVCA-----RGI 397
>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 = 32.5 bits (75), Expect = 0.86
Identities = 18/97 (18%), Positives = 36/97 (37%), Gaps = 17/97 (17%)
Query: 965 EVYKYKRLTELQIEDSAVGSLDNIQPGDCIV-CFSKNDVYTVSRGIESRGTEVAVIYGSL 1023
K++ L L I ++ C ++ ++ + G +VA++ G +
Sbjct: 250 RDEKFQALCNL---------YGAITIAQAMIFCHTRKTASWLAAELSKEGHQVALLSGEM 300
Query: 1024 PPTTKLAQASKFNDPDNPCKVMVATDAIGMGLNFRGI 1060
+ A +F + KV+V T+ RGI
Sbjct: 301 MVEQRAAVIERFR--EGKEKVLVTTNVCA-----RGI 330
>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 = 32.2 bits (74), Expect = 1.0
Identities = 17/97 (17%), Positives = 41/97 (42%), Gaps = 17/97 (17%)
Query: 965 EVYKYKRLTELQIEDSAVGSLDNIQPGDCIV-CFSKNDVYTVSRGIESRGTEVAVIYGSL 1023
+ K ++L +L LD ++ ++ S +++ + + I+ +
Sbjct: 234 DNEKNRKLFDL---------LDVLEFNQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGM 284
Query: 1024 PPTTKLAQASKFNDPDNPCKVMVATDAIGMGLNFRGI 1060
P +L++ +F D +++VAT+ G RG+
Sbjct: 285 PQEERLSRYQQFK--DFQRRILVATNLFG-----RGM 314
>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 = 31.4 bits (71), Expect = 2.5
Identities = 31/282 (10%), Positives = 67/282 (23%), Gaps = 52/282 (18%)
Query: 809 HALERFLSAESGVYCGPLKIHA---GPTNSGKTYH---------ALERFLSAESGVYCGP 856
AL+ G + I+ + L S V
Sbjct: 1193 LALKM----------G-VPIYGIVAMAATATDKIGRSVPAPGKGILTTAREHHSSVKYAS 1241
Query: 857 LKMLATEVFKKSNDRGTPCDLITGEEKKFIQ--GEEKPANHVACTVEMTSVNIPYEVAVI 914
+ ++ R E + ++ EE P+ + + I + A
Sbjct: 1242 PNLNMKYRKRQLVTREAQIKDWVENELEALKLEAEEIPSEDQNEFLLERTREI-HNEAES 1300
Query: 915 DEIQMMRDITRGWAWTRALLGLMAKEIHVCG-EAGAVDLVKAIMMTTNEDVEVYKYKRLT 973
+ + + + + G + + +T K
Sbjct: 1301 QLRAAQQQWGNDFYKRDPRIAPLRGALATYGLTIDDLGVASFHGTST-------KANDKN 1353
Query: 974 ELQIEDSAVGSLDNIQPGDCIVCFSKNDVYT-----VSRGIESRGTEVAVIYGSLPPTTK 1028
E + + L + I F K T + G + G +P
Sbjct: 1354 ESATINEMMKHLGRSEGNPVIGVFQKF--LTGHPKGAAGAWMMNGALQILNSGIIPGNRN 1411
Query: 1029 LAQASKFNDPDNPCKVMVATDAIGMGLNFRGIESRGTEVAVI 1070
DN K++ + + + +++ G I
Sbjct: 1412 A---------DNVDKILEQFEYV--LYPSKTLKTDGVRAVSI 1442
>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 = 30.6 bits (70), Expect = 3.2
Identities = 15/97 (15%), Positives = 37/97 (38%), Gaps = 17/97 (17%)
Query: 965 EVYKYKRLTELQIEDSAVGSLDNIQPGDCIV-CFSKNDVYTVSRGIESRGTEVAVIYGSL 1023
E +K L +L + + ++ ++ V ++ + +R V+ ++G +
Sbjct: 264 EEWKLDTLCDL---------YETLTITQAVIFINTRRKVDWLTEKMHARDFTVSAMHGDM 314
Query: 1024 PPTTKLAQASKFNDPDNPCKVMVATDAIGMGLNFRGI 1060
+ +F +V++ TD + RGI
Sbjct: 315 DQKERDVIMREFR--SGSSRVLITTDLLA-----RGI 344
>1w4r_A Thymidine kinase; type II, human, cytosolic, phosphorylation,
transferase; HET: TTP; 1.83A {Homo sapiens} PDB: 1xbt_A*
2wvj_A* 2j87_A*
Length = 195
Score = 30.0 bits (68), Expect = 3.3
Identities = 22/120 (18%), Positives = 33/120 (27%), Gaps = 17/120 (14%)
Query: 806 KTYHALERFLSAESGVYCGPLKIHAGPTNSGKTYHALERFLSAESGVYCGPLKMLATEVF 865
+ H L G +++ GP SGK+ + R + V
Sbjct: 2 RGSHHHHHHLVPRGSKTRGQIQVILGPMFSGKSTELMRRVRRFQ---IAQ----YKCLVI 54
Query: 866 KKSNDRGTPCDLITGEEKKFI--QGEEKPANHVACTVEMTSVNIPYEVAVIDEIQMMRDI 923
K + D T F A ++ + V IDE Q DI
Sbjct: 55 KYAKD--------TRYSSSFCTHDRNTMEALPACLLRDVAQEALGVAVIGIDEGQFFPDI 106
>3vkw_A Replicase large subunit; alpha/beta domain, helicase, transferase;
1.90A {Tomato mosaic virus}
Length = 446
Score = 30.9 bits (69), Expect = 3.3
Identities = 22/119 (18%), Positives = 36/119 (30%), Gaps = 12/119 (10%)
Query: 803 NSGKTYHALERFL-SAESGVYCGPLKIHAGPTNSGKTYHALERFLSAESGVYCGPLKMLA 861
+ L R L E V + + G GKT L R E + P + A
Sbjct: 139 SDMAKLRTLRRLLKDGEPHVSSAKVVLVDGVPGCGKTKEILSRVNFEEDLILV-PGRQAA 197
Query: 862 TEVFKKSNDRGTPCDLITGEEKKFIQGEEKPANHVACTVEMTSVNIPYEVAVIDEIQMM 920
+ +++N G I K ++ ++ IDE M+
Sbjct: 198 EMIRRRANASG-----IIVATKDNVR-----TVDSFLMNYGKGARCQFKRLFIDEGLML 246
>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 = 30.6 bits (70), Expect = 4.0
Identities = 22/97 (22%), Positives = 42/97 (43%), Gaps = 17/97 (17%)
Query: 965 EVYKYKRLTELQIEDSAVGSLDNIQPGDCIV-CFSKNDVYTVSRGIESRGTEVAVIYGSL 1023
E YKY+ LT+L D+I ++ C ++ V ++ + + V+ IY L
Sbjct: 243 EEYKYECLTDL---------YDSISVTQAVIFCNTRRKVEELTTKLRNDKFTVSAIYSDL 293
Query: 1024 PPTTKLAQASKFNDPDNPCKVMVATDAIGMGLNFRGI 1060
P + +F +++++TD + RGI
Sbjct: 294 PQQERDTIMKEFR--SGSSRILISTDLLA-----RGI 323
>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 = 29.8 bits (68), Expect = 6.2
Identities = 22/97 (22%), Positives = 39/97 (40%), Gaps = 17/97 (17%)
Query: 965 EVYKYKRLTELQIEDSAVGSLDNIQPGDCIV-CFSKNDVYTVSRGIESRGTEVAVIYGSL 1023
E K+ LTEL + G I+ +K + ++S G EV++++G L
Sbjct: 227 EADKFDVLTEL---------YGLMTIGSSIIFVATKKTANVLYGKLKSEGHEVSILHGDL 277
Query: 1024 PPTTKLAQASKFNDPDNPCKVMVATDAIGMGLNFRGI 1060
+ F + KV++ T+ + RGI
Sbjct: 278 QTQERDRLIDDFR--EGRSKVLITTNVLA-----RGI 307
>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling
protein; 2.85A {Arabidopsis thaliana}
Length = 338
Score = 29.6 bits (66), Expect = 6.4
Identities = 8/27 (29%), Positives = 14/27 (51%)
Query: 862 TEVFKKSNDRGTPCDLITGEEKKFIQG 888
F+ + P +L+ G+EKK + G
Sbjct: 82 QHKFEDTWHEQQPIELVLGKEKKELAG 108
>1q2l_A Protease III; hydrolase; 2.20A {Escherichia coli str} SCOP:
d.185.1.1 d.185.1.1 d.185.1.1 d.185.1.1
Length = 939
Score = 30.2 bits (67), Expect = 6.6
Identities = 22/194 (11%), Positives = 55/194 (28%), Gaps = 41/194 (21%)
Query: 272 YLWDMWFQIQFILSCCMGFILNYSIMLCTQYNSALTTTIIGCLKNIL--LTYLGMFIGGD 329
Y +F + + IL + + N + L L+ G
Sbjct: 513 YAPSRYFASEP--KADVSLILRNPKAMDSARNQVMFALNDYLAGLALDQLSNQASVGGIS 570
Query: 330 YVYSVNNFIGINIS--------IIGSILYTIVTFKPAP-----VKKQTVTN------EVA 370
+ + NN + +N + + ++L ++ K A
Sbjct: 571 FSTNANNGLMVNANGYTQRLPQLFQALLEGYFSYTATEDQLEQAKSWYNQMMDSAEKGKA 630
Query: 371 VIDEIQMMRDITRGWAWTRALLGLMAKEIHVCGEAGAVDLVKAIMMTTNEDVEVYKYKRL 430
I + +++ ++R + K + T ++V Y+
Sbjct: 631 FEQAIMPAQMLSQVPYFSRD------------------ERRKILPSITLKEVLAYRDALK 672
Query: 431 TELQIEDSAVGSLD 444
+ + E +G++
Sbjct: 673 SGARPEFMVIGNMT 686
>4eae_A LMO1068 protein; structural genomics, the center for structural
genomics of I diseases, csgid, niaid; HET: MSE; 1.32A
{Listeria monocytogenes}
Length = 190
Score = 28.7 bits (63), Expect = 8.4
Identities = 23/97 (23%), Positives = 41/97 (42%), Gaps = 6/97 (6%)
Query: 948 GAVDLVKAIMMTTNEDVEVYKYKRLTELQIEDSAVGSLDNIQPGDCIVCFSKNDVYTVSR 1007
G V + + ++ ++YK +++ L S GSLDN P + S +D Y +
Sbjct: 77 GYVITLDISIKNNSKKDKMYKADQISLLGASKSVGGSLDNFIPSGFHLIGSSSDPYNFTA 136
Query: 1008 GIESRG----TEVAVIYGSLPPTTKL--AQASKFNDP 1038
G +RG T Y L +++ S+F+
Sbjct: 137 GKTARGLLTFTMDEATYNDLAKDSQIGVPDPSRFDSS 173
>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 = 29.5 bits (67), Expect = 8.5
Identities = 17/97 (17%), Positives = 39/97 (40%), Gaps = 17/97 (17%)
Query: 965 EVYKYKRLTELQIEDSAVGSLDNIQPGDCIV-CFSKNDVYTVSRGIESRGTEVAVIYGSL 1023
E +K+ L +L D + ++ C +K V ++ + V+ ++G +
Sbjct: 260 EEWKFDTLCDL---------YDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDM 310
Query: 1024 PPTTKLAQASKFNDPDNPCKVMVATDAIGMGLNFRGI 1060
P + + +F +V+++TD RG+
Sbjct: 311 PQKERESIMKEFR--SGASRVLISTDVWA-----RGL 340
>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 = 29.4 bits (65), Expect = 9.7
Identities = 22/111 (19%), Positives = 36/111 (32%), Gaps = 20/111 (18%)
Query: 1042 CKVMVATDAIGMGLNFRGIESR---GTEVAVIYGSLPPTTKLAQASKFNDPDNPCKVMVA 1098
I L GI+++ G L + +F + V+VA
Sbjct: 368 TNYRETAKKIVNELVKDGIKAKRFVGQASKENDRGLSQREQKLILDEFARGE--FNVLVA 425
Query: 1099 TDAIGMGLNL-SIRRVIFYSLIKPSLNEKGEREIDLISVSAALQIAGRAGR 1148
T GL++ + V+FY + S ++Q GR GR
Sbjct: 426 TSVGEEGLDVPEVDLVVFYEPVP--------------SAIRSIQRRGRTGR 462
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.322 0.137 0.404
Gapped
Lambda K H
0.267 0.0468 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 19,354,321
Number of extensions: 1212694
Number of successful extensions: 2452
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2407
Number of HSP's successfully gapped: 83
Length of query: 1269
Length of database: 6,701,793
Length adjustment: 105
Effective length of query: 1164
Effective length of database: 3,770,088
Effective search space: 4388382432
Effective search space used: 4388382432
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 63 (28.7 bits)