RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy13788
(1034 letters)
>2va8_A SSO2462, SKI2-type helicase; hydrolase, DNA repair, ATP-bindin
nucleotide-binding; 2.30A {Sulfolobus solfataricus}
Length = 715
Score = 357 bits (917), Expect = e-110
Identities = 87/336 (25%), Positives = 149/336 (44%), Gaps = 35/336 (10%)
Query: 675 LELQPLPVSALQQPQ--YESLYK--FSHFNPIQTQIFHCLYHTDNNVLLGAPTGSGKTIA 730
LEL+ +P+ L+ P E + K NP QT+ N +LL +PTGSGKT+
Sbjct: 3 LELEWMPIEDLKLPSNVIEIIKKRGIKKLNPPQTEAVKKGLLEGNRLLLTSPTGSGKTLI 62
Query: 731 AEITCFRVFKQCPEAKVVYIAPLKALVKERVADWKVKFEARLKKKVVELTGDVTPDIQAI 790
AE+ + K +Y+ PL+AL E+ +K +E + KV +GD D +
Sbjct: 63 AEMGIISFLLK-NGGKAIYVTPLRALTNEKYLTFK-DWEL-IGFKVAMTSGDYDTDDAWL 119
Query: 791 SSASVIVTTPEKWDGVSRSWQNRNYVQSVALIIIDEIHLLGE-DRGPVLEVIVSRVNFIS 849
+ +I+TT EK D + R ++ V ++DE+H L + +RGPV+E + R
Sbjct: 120 KNYDIIITTYEKLDSLWRHR--PEWLNEVNYFVLDELHYLNDPERGPVVESVTIRA---- 173
Query: 850 SYTKRNVRLVGLSTALANAKDLATWLNITKQGMYNFRPSVRPVPLEVHISGFPGK----- 904
+ L+ LS ++N K +A WL + RPVPL + K
Sbjct: 174 ----KRRNLLALSATISNYKQIAKWLGA-----EPVATNWRPVPLIEGVIYPERKKKEYN 224
Query: 905 -----QYCPRMAKMNKPIYTAIKQHSPEKPVMIFVSSRRQTRLTAIDLITILACETNPKM 959
++ + I + S V++F +SR+ TA+ + + + +
Sbjct: 225 VIFKDNTTKKVHGDDAIIAYTLDSLSKNGQVLVFRNSRKMAESTALKIANYMNFVSLDEN 284
Query: 960 WVHTSDAEMDNI--VDNIKDSNLKLTIAFGIGFHHA 993
+ ++D+I + + LK I+ G+ +HHA
Sbjct: 285 ALSEILKQLDDIEEGGSDEKELLKSLISKGVAYHHA 320
Score = 167 bits (425), Expect = 4e-43
Identities = 58/417 (13%), Positives = 128/417 (30%), Gaps = 88/417 (21%)
Query: 155 KGTEMYNAK-HGCYVHIGILDVLQIFGRAGRPQYNTSGHATIITPHEKLNH---YLSLLT 210
+N K G Y I I++ Q+ GRAGRP ++ G + ++ ++ +L+
Sbjct: 362 GDIYRFNKKIAGYYDEIPIMEYKQMSGRAGRPGFDQIGESIVVVRDKEDVDRVFKKYVLS 421
Query: 211 NQIPIESNFVANLADNLNAEVALGTIGNIDEAVRWLIIYINFVANLADNLNAEVALGTIG 270
+ PIES + A L ++
Sbjct: 422 DVEPIESKLGSERA-------------------------------FYTFLLGILSAEGNL 450
Query: 271 NIDEAVRWLSYSYLHVRMRINPREYGISYDEVATDPDLIQHRTTLIENAAQILDKAHMIR 330
+ + + S L ++ + A + L + I+
Sbjct: 451 SEKQLENFAYESLLAKQLV-----------------------DVYFDRAIRWLLEHSFIK 487
Query: 331 FNMRTRDLAITDLGRTASNYYIKHNDIELFTEHMTKV--LDDVGILSMISQAHEFEQLKV 388
A+T+ G+ ++ YI ++ + + ++ L +++ + + V
Sbjct: 488 EE--GNTFALTNFGKRVADLYINPFTADIIRKGLEGHKASCELAYLHLLAFTPDGPLVSV 545
Query: 389 RDEELHELDNLTQEC---CEIPIRGGSENVHGKVNILLQTLLSRGRVNSFSLVS------ 439
E EL L ++ I + +N L L+ + ++ +
Sbjct: 546 GRNEEEELIELLEDLDCELLIEEPYEEDEYSLYINALKVALIMKDWMDEVDEDTILSKYN 605
Query: 440 ----DLEYVNQNVIRIIRALFEITLHRNNAIMAARFLKFALMFETKQWPHETPLRQIKLV 495
DL + + + + + + ++ A + L L QI V
Sbjct: 606 IGSGDLRNMVETMDWLTYSAYHLSRELKLNEHADKLRILNLRVRDGIKEELLELVQISGV 665
Query: 496 TNRGYQSPILKPDILNKIEQRGL-TVEDLREMPAKEISYMLRDPHVGDKVKQCAWEI 551
+ G+ + D+ P K + + + +G+KV Q A +
Sbjct: 666 ----------GRKRARLLYNNGIKELGDVVMNPDKVKNLLGQ--KLGEKVVQEAARL 710
Score = 81.7 bits (202), Expect = 6e-16
Identities = 15/50 (30%), Positives = 26/50 (52%)
Query: 43 FKGVKSLNRIQSLVYDTAYHTNENLLICAPTGAGKTNVAMLTIAHQIKQH 92
+G+K LN Q+ LL+ +PTG+GKT +A + I + ++
Sbjct: 25 KRGIKKLNPPQTEAVKKGLLEGNRLLLTSPTGSGKTLIAEMGIISFLLKN 74
Score = 54.4 bits (131), Expect = 1e-07
Identities = 12/37 (32%), Positives = 21/37 (56%), Gaps = 2/37 (5%)
Query: 4 LTELVKLLIIDEVHLLH-GDRGPVIEALVARTLR-QI 38
V ++DE+H L+ +RGPV+E++ R R +
Sbjct: 142 WLNEVNYFVLDELHYLNDPERGPVVESVTIRAKRRNL 178
Score = 47.0 bits (112), Expect = 3e-05
Identities = 14/39 (35%), Positives = 20/39 (51%), Gaps = 1/39 (2%)
Query: 93 ISQGTEMYNAK-HGCYVHIGILDVLQIFGRAGRPQYNTS 130
I +N K G Y I I++ Q+ GRAGRP ++
Sbjct: 360 IIGDIYRFNKKIAGYYDEIPIMEYKQMSGRAGRPGFDQI 398
>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 = 327 bits (839), Expect = 6e-99
Identities = 91/328 (27%), Positives = 147/328 (44%), Gaps = 32/328 (9%)
Query: 671 HTNLLELQPLPVSALQQPQYESLYKFSHFNPIQTQIFHCLYHTDNNVLLGAPTGSGKTIA 730
+ L + S L++ ES F P Q + N L+ PT SGKT+
Sbjct: 2 RVDELRVDERIKSTLKERGIES------FYPPQAEALKSGILEGKNALISIPTASGKTLI 55
Query: 731 AEITCFRVFKQCPEAKVVYIAPLKALVKERVADWKVKFEARLKKKVVELTGDVTPDIQAI 790
AEI K VYI PLKAL +E+ +++ +E ++ +V TGD + +
Sbjct: 56 AEIAMVHRIL-TQGGKAVYIVPLKALAEEKFQEFQ-DWE-KIGLRVAMATGDYDSKDEWL 112
Query: 791 SSASVIVTTPEKWDGVSRSWQNRNYVQSVALIIIDEIHLLG-EDRGPVLEVIVSRVNFIS 849
+I+ T EK+D + R ++++ V +++ DEIHL+G DRG LEVI++
Sbjct: 113 GKYDIIIATAEKFDSLLRHG--SSWIKDVKILVADEIHLIGSRDRGATLEVILAH----- 165
Query: 850 SYTKRNVRLVGLSTALANAKDLATWLNITKQGMYNFRPSVRPVPLE--VHISGFPG--KQ 905
+++GLS + N ++LA WLN RPV L V GF
Sbjct: 166 --MLGKAQIIGLSATIGNPEELAEWLNAE-----LIVSDWRPVKLRRGVFYQGFVTWEDG 218
Query: 906 YCPRMAKMNKPIYTAIKQHSPEKPVMIFVSSRRQTRLTAIDLITILACETNPKMWVHTSD 965
R + + +Y AI++ K +IFV+ RR+ A++L + + +
Sbjct: 219 SIDRFSSWEELVYDAIRKK---KGALIFVNMRRKAERVALELSKKVKSLLTKP-EIRALN 274
Query: 966 AEMDNIVDNIKDSNLKLTIAFGIGFHHA 993
D++ +N + L I G+ FHHA
Sbjct: 275 ELADSLEENPTNEKLAKAIRGGVAFHHA 302
Score = 217 bits (554), Expect = 1e-59
Identities = 60/436 (13%), Positives = 129/436 (29%), Gaps = 88/436 (20%)
Query: 155 KGTEMYNAKHGCYVHIGILDVLQIFGRAGRPQYNTSGHATIITPHEKLNHYLS--LLTNQ 212
+ Y+ I I++V Q+ GRAGRP+Y+ G I++ + ++ +
Sbjct: 344 RDIWRYSD--FGMERIPIIEVHQMLGRAGRPKYDEVGEGIIVSTSDDPREVMNHYIFGKP 401
Query: 213 IPIESNFVANLADNLNAEVALGTIGNIDEAVRWLIIYINFVANLADNLNAEVALGTIGNI 272
+ S +NL + A +A +
Sbjct: 402 EKLFSQLS-------------------------------NESNLRSQVLALIATFGYSTV 430
Query: 273 DEAVRWLSYSYLHVRMRINPREYGISYDEVATDPDLIQHRTTLIENAAQILDKAHMIRFN 332
+E ++++S ++ + Y + I N L + I +
Sbjct: 431 EEILKFISNTFYAYQ---RKDTYSLE---------------EKIRNILYFLLENEFIEIS 472
Query: 333 MRTRDLAITDLGRTASNYYIKHNDIELFTEHMTKV---LDDVGILSMISQAHEFEQLKVR 389
+ LG + YI ++F + M +V + +GI +IS +
Sbjct: 473 -LEDKIRPLSLGIRTAKLYIDPYTAKMFKDKMEEVVKDPNPIGIFHLISLTPDITPFNYS 531
Query: 390 DEELHELDNLTQE------------CCEIPIRGGSENVHGKVNILLQTLLSRGRVNSFS- 436
E L+ E P K ++L ++
Sbjct: 532 KREFERLEEEYYEFKDRLYFDDPYISGYDPYLERKFFRAFKTALVLLAWINEVPEGEIVE 591
Query: 437 ----LVSDLEYVNQNVIRIIRALFEITLHRNNAIMAARFLKFALMFETKQWPHETPLRQI 492
D+ + + ++ +L EI + + + PL Q+
Sbjct: 592 KYSVEPGDIYRIVETAEWLVYSLKEIAKVLGAYEIVDYLETLRVRVKYGIREELIPLMQL 651
Query: 493 KLVTNRGYQSPILKPDILNKIEQRGL-TVEDLREMPAKEISYMLRDPHVGDKVKQCAWEI 551
LV + G ++ED+ + +E+ + +G K + ++
Sbjct: 652 PLV----------GRRRARALYNSGFRSIEDISQARPEELLKI---EGIGVKTVEAIFKF 698
Query: 552 PLLEIESKLLPITRTV 567
++ P T+
Sbjct: 699 LGKNVKISEKPRKSTL 714
Score = 68.3 bits (167), Expect = 9e-12
Identities = 14/49 (28%), Positives = 25/49 (51%)
Query: 44 KGVKSLNRIQSLVYDTAYHTNENLLICAPTGAGKTNVAMLTIAHQIKQH 92
+G++S Q+ + +N LI PT +GKT +A + + H+I
Sbjct: 19 RGIESFYPPQAEALKSGILEGKNALISIPTASGKTLIAEIAMVHRILTQ 67
Score = 49.1 bits (117), Expect = 8e-06
Identities = 13/36 (36%), Positives = 22/36 (61%), Gaps = 1/36 (2%)
Query: 4 LTELVKLLIIDEVHLLH-GDRGPVIEALVARTLRQI 38
+ VK+L+ DE+HL+ DRG +E ++A L +
Sbjct: 135 WIKDVKILVADEIHLIGSRDRGATLEVILAHMLGKA 170
Score = 44.1 bits (104), Expect = 2e-04
Identities = 12/35 (34%), Positives = 18/35 (51%), Gaps = 2/35 (5%)
Query: 96 GTEMYNAKHGCYVHIGILDVLQIFGRAGRPQYNTS 130
Y+ I I++V Q+ GRAGRP+Y+
Sbjct: 345 DIWRYSD--FGMERIPIIEVHQMLGRAGRPKYDEV 377
Score = 29.4 bits (66), Expect = 7.0
Identities = 10/53 (18%), Positives = 18/53 (33%), Gaps = 3/53 (5%)
Query: 112 ILDVLQIFG---RAGRPQYNTSDLGRTASNYYIKHNDIELFTEHMTKGTEMYN 161
IL L + + LG + YI ++F + M + + N
Sbjct: 459 ILYFLLENEFIEISLEDKIRPLSLGIRTAKLYIDPYTAKMFKDKMEEVVKDPN 511
>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 = 324 bits (831), Expect = 7e-98
Identities = 80/321 (24%), Positives = 146/321 (45%), Gaps = 30/321 (9%)
Query: 677 LQPLPVSALQQPQYESLYKFSHFNPIQTQIFHCLYHTDNNVLLGAPTGSGKTIAAEITCF 736
+ V L++ E L P Q + ++ + N+LL PT +GKT+ AE+
Sbjct: 10 ISSYAVGILKEEGIEEL------FPPQAEAVEKVF-SGKNLLLAMPTAAGKTLLAEMAMV 62
Query: 737 RVFKQCPEAKVVYIAPLKALVKERVADWKVKFEARLKKKVVELTGDVTPDIQAISSASVI 796
R + K +Y+ PL+AL E+ +K K+E ++ ++ TGD + + +I
Sbjct: 63 REAIK--GGKSLYVVPLRALAGEKYESFK-KWE-KIGLRIGISTGDYESRDEHLGDCDII 118
Query: 797 VTTPEKWDGVSRSWQNRNYVQSVALIIIDEIHLLG-EDRGPVLEVIVSRVNFISSYTKRN 855
VTT EK D + R+ +++++V+ +++DEIHLL E RG LE++V+++ +
Sbjct: 119 VTTSEKADSLIRNRA--SWIKAVSCLVVDEIHLLDSEKRGATLEILVTKMR----RMNKA 172
Query: 856 VRLVGLSTALANAKDLATWLNITKQGMYNFRPSVRPVPLEVHISGFPG-KQYCPRMAKMN 914
+R++GLS N ++A WL+ + RPVPL + + + +
Sbjct: 173 LRVIGLSATAPNVTEIAEWLDAD-----YYVSDWRPVPLVEGVLCEGTLELFDGAFSTSR 227
Query: 915 KPIYTAIKQH--SPEKPVMIFVSSRRQTRLTAIDLITILACETNPKMWVHTSDAEMDNIV 972
+ + + + + V++F S+RR TA+ L I A + +
Sbjct: 228 RVKFEELVEECVAENGGVLVFESTRRGAEKTAVKLSAITAKYVENEGLEK----AILEEN 283
Query: 973 DNIKDSNLKLTIAFGIGFHHA 993
+ L + G FHHA
Sbjct: 284 EGEMSRKLAECVRKGAAFHHA 304
Score = 200 bits (511), Expect = 4e-54
Identities = 59/408 (14%), Positives = 123/408 (30%), Gaps = 89/408 (21%)
Query: 155 KGTEMYNAKHGCYVHIGILDVLQIFGRAGRPQYNTSGHATIITPHEKLNHYLS-LLTNQI 213
+ ++ G I + + Q+ GRAGRP + G A II + + +
Sbjct: 346 RSLYRFD---GYSKRIKVSEYKQMAGRAGRPGMDERGEAIIIVGKRDREIAVKRYIFGEP 402
Query: 214 -PIESNFVANLADNLNAEVALGTIGNIDEAVRWLIIYINFVANLADNLNAEVALGTIGNI 272
I S +L + + + G +
Sbjct: 403 ERITSKLGVE-------------------------------THLRFHSLSIICDGYAKTL 431
Query: 273 DEAVRWLSYSYLHVRMRINPREYGISYDEVATDPDLIQHRTTLIENAAQILDKAHMIRFN 332
+E + + ++ + I+ +E + L+ M+
Sbjct: 432 EELEDFFADTFFFKQNEISLSYE--------------------LERVVRQLENWGMVV-- 469
Query: 333 MRTRDLAITDLGRTASNYYIKHNDIELFTEHMTKV-LDDVGILSMISQAHEFEQLKVRDE 391
LA T LG S YI +F + ++++ L D+G L +I + + E+L VR
Sbjct: 470 -EAAHLAPTKLGSLVSRLYIDPLTGFIFHDVLSRMELSDIGALHLICRTPDMERLTVRKT 528
Query: 392 ELHELDNLTQECCEIPIRGGSENV-------HGKVNILLQTLLSRGRVNSFSLV-----S 439
+ + + E+ +V K + L+ + +
Sbjct: 529 DSWVEEEAFRLRKELSYYPSDFSVEYDWFLSEVKTALCLKDWIEEKDEDEICAKYGIAPG 588
Query: 440 DLEYVNQNVIRIIRALFEITLHRNNAIMAARFLKFALMFETKQWPHETPLRQIKLVTNRG 499
DL + + + A+ I N ++ + L +I+ +
Sbjct: 589 DLRRIVETAEWLSNAMNRIAEEVGNTSVS----GLTERIKHGVKEELLELVRIRHI---- 640
Query: 500 YQSPILKPDILNKIEQRGL-TVEDLREMPAKEISYMLRDPHVGDKVKQ 546
K+ G+ ED+ K S + R + ++V +
Sbjct: 641 ------GRVRARKLYNAGIRNAEDIVRHREKVASLIGR--GIAERVVE 680
Score = 61.4 bits (149), Expect = 1e-09
Identities = 13/50 (26%), Positives = 27/50 (54%), Gaps = 1/50 (2%)
Query: 43 FKGVKSLNRIQSLVYDTAYHTNENLLICAPTGAGKTNVAMLTIAHQIKQH 92
+G++ L Q+ + + + +NLL+ PT AGKT +A + + + +
Sbjct: 20 EEGIEELFPPQAEAVEKVF-SGKNLLLAMPTAAGKTLLAEMAMVREAIKG 68
Score = 52.9 bits (127), Expect = 5e-07
Identities = 13/34 (38%), Positives = 19/34 (55%), Gaps = 1/34 (2%)
Query: 4 LTELVKLLIIDEVHLLH-GDRGPVIEALVARTLR 36
+ V L++DE+HLL RG +E LV + R
Sbjct: 135 WIKAVSCLVVDEIHLLDSEKRGATLEILVTKMRR 168
Score = 46.0 bits (109), Expect = 7e-05
Identities = 9/35 (25%), Positives = 15/35 (42%), Gaps = 3/35 (8%)
Query: 96 GTEMYNAKHGCYVHIGILDVLQIFGRAGRPQYNTS 130
++ G I + + Q+ GRAGRP +
Sbjct: 347 SLYRFD---GYSKRIKVSEYKQMAGRAGRPGMDER 378
Score = 30.2 bits (68), Expect = 4.6
Identities = 6/32 (18%), Positives = 12/32 (37%)
Query: 124 RPQYNTSDLGRTASNYYIKHNDIELFTEHMTK 155
+ LG S YI +F + +++
Sbjct: 471 AAHLAPTKLGSLVSRLYIDPLTGFIFHDVLSR 502
>2q0z_X Protein Pro2281; SEC63, SEC, NESG, HR1979, structural genomics,
translocase, northeast structural genomics consortium,
PSI-2; 2.00A {Homo sapiens} SCOP: a.289.1.1 b.1.18.22
Length = 339
Score = 168 bits (426), Expect = 3e-46
Identities = 70/343 (20%), Positives = 133/343 (38%), Gaps = 27/343 (7%)
Query: 328 MIRFNMRTRDLAITDLGRTASNYYIKHNDIELFTEHMTKVLDDVGILSMISQAHEFEQLK 387
+ D+A +LG A+ YYI + IELF+ + G++ +IS A E+E +
Sbjct: 3 HHHHHHSHMDVAPLNLGMIAAYYYINYTTIELFSMSLNAKTKVRGLIEIISNAAEYENIP 62
Query: 388 VRDEELHELDNLTQECCEIPIRGGSENVHGKVNILLQTLLSRGRVNSFSLVSDLEYVNQN 447
+R E + L L Q+ + H K N+LLQ LSR ++++ L SD E +
Sbjct: 63 IRHHEDNLLRQLAQKVPHKLNNPKFNDPHVKTNLLLQAHLSRMQLSA-ELQSDTEEILSK 121
Query: 448 VIRIIRALFEITLHRNNAIMAARFLKFALMFETKQWPHETPLRQIKLVTNRGYQSPILKP 507
IR+I+A ++ A ++ A M W ++ L+Q+ T
Sbjct: 122 AIRLIQACVDVLSSNGWLSPALAAMELAQMVTQAMWSKDSYLKQLPHFT---------SE 172
Query: 508 DILNKIEQRGLTVEDLREMPAKEISYML-RDPHVGDKVKQCAWEIPLLEIESKLLPITRT 566
I ++ +V D+ EM +E + +L V + P +E+ +++
Sbjct: 173 HIKRCTDKGVESVFDIMEMEDEERNALLQLTDSQIADVARFCNRYPNIELSYEVVDKDSI 232
Query: 567 VLKIHLTIKANFSWNDKNKSTY---------AEPFWIWVEDPDSDFIYHSEYFLLSKKQV 617
+ + ++ E +W+ + D S+ + + L +K
Sbjct: 233 RSGGPVVVLVQLEREEEVTGPVIAPLFPQKREEGWWVVIGDAKSNSLISIKRLTLQQKAK 292
Query: 618 ITKSEESLIMTIPLSDPLPNQYLIRAMSDRYLGSVVQHSMSFK 660
+ + + Y + MSD Y+G ++ S
Sbjct: 293 VK-------LDFVAPATGAHNYTLYFMSDAYMGCDQEYKFSVD 328
Score = 34.1 bits (77), Expect = 0.23
Identities = 11/29 (37%), Positives = 18/29 (62%)
Query: 131 DLGRTASNYYIKHNDIELFTEHMTKGTEM 159
+LG A+ YYI + IELF+ + T++
Sbjct: 17 NLGMIAAYYYINYTTIELFSMSLNAKTKV 45
>3im1_A Protein SNU246, PRE-mRNA-splicing helicase BRR2; ATPase, RNA
helicase, rnpase, RNA unwindase, molecular model mRNA
splicing; 1.65A {Saccharomyces cerevisiae} PDB: 3im2_A*
3hib_A
Length = 328
Score = 150 bits (380), Expect = 3e-40
Identities = 64/340 (18%), Positives = 123/340 (36%), Gaps = 31/340 (9%)
Query: 334 RTRDLAITDLGRTASNYYIKHNDIELFTEHMTKVLDDVGILSMISQAHEFEQLKVRDEEL 393
T ++ G AS+Y + I+ F ++ +L ++S A EFE + +R +
Sbjct: 5 ATEIISTLSNGLIASHYGVSFFTIQSFVSSLSNTSTLKNMLYVLSTAVEFESVPLRKGDR 64
Query: 394 HELDNLTQEC-CEIPIRGGSENVHGKVNILLQTLLSRGRVNSFSLVSDLEYVNQNVIRII 452
L L++ P S +V KV +LLQ SR + +DL+ + + V+ +I
Sbjct: 65 ALLVKLSKRLPLRFPEHTSSGSVSFKVFLLLQAYFSRLEL-PVDFQNDLKDILEKVVPLI 123
Query: 453 RALFEITLHRNNAIMAARFLKFALMFETKQWPHETPLRQIKLVTNRGYQSPILKPDILNK 512
+ +I + A + A M W + PLRQI P IL K
Sbjct: 124 NVVVDILSANGY-LNATTAMDLAQMLIQGVWDVDNPLRQI----------PHFNNKILEK 172
Query: 513 IEQRG-LTVEDLREMPAKEISYML-RDPHVGDKVKQCAWEIPLLEIESKLLPITRTVLKI 570
++ TV D+ + +E +L +V P +E+ L + +
Sbjct: 173 CKEINVETVYDIMALEDEERDEILTLTDSQLAQVAAFVNNYPNVELTYSLNNSDSLISGV 232
Query: 571 HLTIKANFSWNDKNKSTYA----------EPFWIWVEDPDSDFIYHSEYFLLSKKQVITK 620
I + + + ++ E +W+ + + +Y + L+K+ +
Sbjct: 233 KQKITIQLTRDVEPENLQVTSEKYPFDKLESWWLVLGEVSKKELYAIKKVTLNKETQQYE 292
Query: 621 SEESLIMTIPLSDPLPNQYLIRAMSDRYLGSVVQHSMSFK 660
+ + I + D YL + + S
Sbjct: 293 ------LEFDTPTSGKHNLTIWCVCDSYLDADKELSFEIN 326
Score = 32.2 bits (72), Expect = 0.75
Identities = 6/29 (20%), Positives = 13/29 (44%)
Query: 131 DLGRTASNYYIKHNDIELFTEHMTKGTEM 159
G AS+Y + I+ F ++ + +
Sbjct: 13 SNGLIASHYGVSFFTIQSFVSSLSNTSTL 41
>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 = 104 bits (259), Expect = 1e-22
Identities = 58/248 (23%), Positives = 105/248 (42%), Gaps = 24/248 (9%)
Query: 679 PLPVSALQQPQYESLYKFSHFNPIQTQIFHCLYHTDNNVLLGAPTGSGKTIAAEITCFRV 738
P++ ++ Y F+ +P Q C+ +VL+ A T +GKT+ AE +
Sbjct: 166 YTPIAEHKRVNEARTYPFT-LDPFQDTAISCI-DRGESVLVSAHTSAGKTVVAEYAIAQS 223
Query: 739 FKQCPEAKVVYIAPLKALVKERVADWKVKFEARLKKKVVELTGDVTPDIQAISSASVIVT 798
K +V+Y +P+KAL ++ + +F V +TGD+T + A +V
Sbjct: 224 LKNK--QRVIYTSPIKALSNQKYRELLAEFG-----DVGLMTGDITINPD----AGCLVM 272
Query: 799 TPEKWDGVSRSWQNRNYVQSVALIIIDEIHLLG-EDRGPVLEVIVSRVNFISSYTKRNVR 857
T E S ++ ++ VA +I DE+H + ++RG V E + VR
Sbjct: 273 TTEILR--SMLYRGSEVMREVAWVIFDEVHYMRDKERGVVWEETI-------ILLPDKVR 323
Query: 858 LVGLSTALANAKDLATWLNITK-QGMYNFRPSVRPVPLEVHISGFPGKQYCPRMAKMNKP 916
V LS + NA + A W+ Q + + RP PL+ ++ G + + +
Sbjct: 324 YVFLSATIPNAMEFAEWICKIHSQPCHIVYTNFRPTPLQHYLFPAHGDGIYLVVDEKSTF 383
Query: 917 IYTAIKQH 924
++
Sbjct: 384 REENFQKA 391
Score = 39.1 bits (90), Expect = 0.010
Identities = 13/28 (46%), Positives = 17/28 (60%)
Query: 64 NENLLICAPTGAGKTNVAMLTIAHQIKQ 91
E++L+ A T AGKT VA IA +K
Sbjct: 199 GESVLVSAHTSAGKTVVAEYAIAQSLKN 226
>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 = 103 bits (258), Expect = 1e-22
Identities = 58/248 (23%), Positives = 105/248 (42%), Gaps = 24/248 (9%)
Query: 679 PLPVSALQQPQYESLYKFSHFNPIQTQIFHCLYHTDNNVLLGAPTGSGKTIAAEITCFRV 738
P++ ++ Y F+ +P Q C+ +VL+ A T +GKT+ AE +
Sbjct: 68 YTPIAEHKRVNEARTYPFT-LDPFQDTAISCI-DRGESVLVSAHTSAGKTVVAEYAIAQS 125
Query: 739 FKQCPEAKVVYIAPLKALVKERVADWKVKFEARLKKKVVELTGDVTPDIQAISSASVIVT 798
K +V+Y +P+KAL ++ + +F V +TGD+T + A +V
Sbjct: 126 LKNK--QRVIYTSPIKALSNQKYRELLAEFG-----DVGLMTGDITINPD----AGCLVM 174
Query: 799 TPEKWDGVSRSWQNRNYVQSVALIIIDEIHLLG-EDRGPVLEVIVSRVNFISSYTKRNVR 857
T E S ++ ++ VA +I DE+H + ++RG V E + VR
Sbjct: 175 TTEILR--SMLYRGSEVMREVAWVIFDEVHYMRDKERGVVWEETI-------ILLPDKVR 225
Query: 858 LVGLSTALANAKDLATWLNITK-QGMYNFRPSVRPVPLEVHISGFPGKQYCPRMAKMNKP 916
V LS + NA + A W+ Q + + RP PL+ ++ G + + +
Sbjct: 226 YVFLSATIPNAMEFAEWICKIHSQPCHIVYTNFRPTPLQHYLFPAHGDGIYLVVDEKSTF 285
Query: 917 IYTAIKQH 924
++
Sbjct: 286 REENFQKA 293
Score = 38.6 bits (89), Expect = 0.011
Identities = 13/28 (46%), Positives = 17/28 (60%)
Query: 64 NENLLICAPTGAGKTNVAMLTIAHQIKQ 91
E++L+ A T AGKT VA IA +K
Sbjct: 101 GESVLVSAHTSAGKTVVAEYAIAQSLKN 128
>4a4z_A Antiviral helicase SKI2; hydrolase, ATPase, mRNA degradation,
exosome; HET: ANP; 2.40A {Saccharomyces cerevisiae} PDB:
4a4k_A
Length = 997
Score = 93.8 bits (232), Expect = 1e-19
Identities = 60/241 (24%), Positives = 113/241 (46%), Gaps = 28/241 (11%)
Query: 688 PQYESLYKFSHFNPIQTQIFHCLYHTDNNVLLGAPTGSGKTIAAEITCFRVFKQCPEAKV 747
P + F + Q + + L ++V + A T +GKT+ AE + K
Sbjct: 30 PNPARSWPFE-LDTFQKEAVYHL-EQGDSVFVAAHTSAGKTVVAEYAIAMAHRNM--TKT 85
Query: 748 VYIAPLKALVKERVADWKVKFEARLKKKVVELTGDVTPDIQAISSASVIVTTPEKWDGVS 807
+Y +P+KAL ++ D+K F+ + +TGDV + A+ ++ T E +
Sbjct: 86 IYTSPIKALSNQKFRDFKETFD---DVNIGLITGDVQINPD----ANCLIMTTE----IL 134
Query: 808 RS--WQNRNYVQSVALIIIDEIHLLGE-DRGPVLEVIVSRVNFISSYTKRNVRLVGLSTA 864
RS ++ + ++ V +I DE+H + + DRG V E ++ ++V+ + LS
Sbjct: 135 RSMLYRGADLIRDVEFVIFDEVHYVNDQDRGVVWEEVI-------IMLPQHVKFILLSAT 187
Query: 865 LANAKDLATWLNITKQGM-YNFRPSVRPVPLEVHISGFPGKQYCPRMAKMNKPIYTAIKQ 923
+ N + A W+ TKQ Y RPVPLE++I + K+ P + + ++ + ++
Sbjct: 188 VPNTYEFANWIGRTKQKNIYVISTPKRPVPLEINI--WAKKELIPVINQNSEFLEANFRK 245
Query: 924 H 924
H
Sbjct: 246 H 246
Score = 32.1 bits (72), Expect = 1.4
Identities = 10/47 (21%), Positives = 21/47 (44%), Gaps = 3/47 (6%)
Query: 176 LQIFGRAGRPQYNTSGHATIITPHEKL--NHYLSLLTNQ-IPIESNF 219
Q+ GRAGR +++G ++ + L + + ++S F
Sbjct: 468 TQMAGRAGRRGLDSTGTVIVMAYNSPLSIATFKEVTMGVPTRLQSQF 514
Score = 30.2 bits (67), Expect = 4.0
Identities = 10/32 (31%), Positives = 15/32 (46%)
Query: 60 AYHTNENLLICAPTGAGKTNVAMLTIAHQIKQ 91
+++ + A T AGKT VA IA +
Sbjct: 50 HLEQGDSVFVAAHTSAGKTVVAEYAIAMAHRN 81
>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 = 76.8 bits (189), Expect = 7e-16
Identities = 33/125 (26%), Positives = 56/125 (44%), Gaps = 12/125 (9%)
Query: 715 NNVLLGAPTGSGKT-IAAEIT---CFRVFKQCPEAKVVYIAPLKALVKERVADWKVKFEA 770
N+++ PTGSGKT +A I + K KV+ + LV++ F
Sbjct: 49 KNIIICLPTGSGKTRVAVYIAKDHLDKKKKASEPGKVIVLVNKVLLVEQLFRKEFQPFLK 108
Query: 771 RLKKKVVELTGDVTPDI---QAISSASVIVTTPEKWDG--VSRSWQNRNYVQ--SVALII 823
+ +V+ L+GD I + + S +I++T + + ++ VQ +LII
Sbjct: 109 K-WYRVIGLSGDTQLKISFPEVVKSCDIIISTAQILENSLLNLENGEDAGVQLSDFSLII 167
Query: 824 IDEIH 828
IDE H
Sbjct: 168 IDECH 172
Score = 41.7 bits (98), Expect = 5e-04
Identities = 11/24 (45%), Positives = 16/24 (66%)
Query: 64 NENLLICAPTGAGKTNVAMLTIAH 87
+N++IC PTG+GKT VA+
Sbjct: 48 GKNIIICLPTGSGKTRVAVYIAKD 71
>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 = 79.5 bits (195), Expect = 4e-15
Identities = 65/460 (14%), Positives = 146/460 (31%), Gaps = 135/460 (29%)
Query: 588 YAEPFWIWVEDPDSDFIYHSEYFLLSKKQVITKSEESLIMTIPLSDPLPNQYLI------ 641
+ + F V++ D + K +++K E I+ D + +
Sbjct: 25 FEDAF---VDNFD---CKDVQDMP---KSILSKEEIDHIIMSK--DAVSGTLRLFWTLLS 73
Query: 642 --RAMSDRYLGSVVQHSMSFKHLIVPELHPPHTNLLELQPLPVSALQQPQYESLY----K 695
M +++ V++ + F ++ + QP ++ + Q + LY
Sbjct: 74 KQEEMVQKFVEEVLRINYKF---LMSPIKTEQ-----RQPSMMTRMYIEQRDRLYNDNQV 125
Query: 696 FSHFN-----PIQTQIFHCLYH--TDNNVLLGAPTGSGKTIAAEITC----------FRV 738
F+ +N P ++ L NVL+ GSGKT A C F++
Sbjct: 126 FAKYNVSRLQPY-LKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKI 184
Query: 739 F----KQCPEAKVVYIAPLKALVKERVADWKVKFEARLKKKVVELTGDVTPDIQAISSAS 794
F K C + V + L+ L+ ++ D S++
Sbjct: 185 FWLNLKNCNSPETV-LEMLQKLL------------YQIDPNWTSR-----SD----HSSN 222
Query: 795 VIVTTPEKWDGVSRSWQNRNYVQSVALIIIDEIHLLGEDRGPVLE--------VIVSR-- 844
+ + + R +++ Y L+++ + ++ ++ +R
Sbjct: 223 IKLRIHSIQAELRRLLKSKPYENC--LLVLLNV----QNAK-AWNAFNLSCKILLTTRFK 275
Query: 845 --VNFISSYTKRNVRLVGLSTAL--ANAKDL-ATWLNITKQGMYNFRPSVRPV-PLEVHI 898
+F+S+ T ++ L S L K L +L+ Q + V P +
Sbjct: 276 QVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDL---PREVLTTNPR--RL 330
Query: 899 SGFPG------------KQYCPRMAKMNKPIYTAIKQHSPE------KPVMIFVSSRRQT 940
S K K+ I +++ P + +F
Sbjct: 331 SIIAESIRDGLATWDNWKHV--NCDKLTTIIESSLNVLEPAEYRKMFDRLSVF---PPSA 385
Query: 941 RLTAIDLITILACETNPKMWVHTSDAEMDNIVDNIKDSNL 980
+ L++++ W +++ +V+ + +L
Sbjct: 386 HIPT-ILLSLI--------WFDVIKSDVMVVVNKLHKYSL 416
Score = 65.6 bits (159), Expect = 7e-11
Identities = 86/549 (15%), Positives = 187/549 (34%), Gaps = 125/549 (22%)
Query: 5 TELVKLLIIDEVHLLHGDRGPVIEALVARTLRQIGQEVFKGVKSLNRIQSLVYDTAYHTN 64
++ + I++ L+ D + V+R Q K ++L ++
Sbjct: 105 PSMMTRMYIEQRDRLYNDNQVFAKYNVSR-----LQPYLKLRQALLELRP---------A 150
Query: 65 ENLLICAPTGAGKTNVAMLTI-AHQIKQHISQGTEMYNAKHGCYVHIG-------ILDVL 116
+N+LI G+GKT VA+ +++++ + ++ ++++ +L++L
Sbjct: 151 KNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFK--IF------WLNLKNCNSPETVLEML 202
Query: 117 QIFGRAGRPQYNTSDLGRTASNYYIKHNDIE-----LFTEHMTKGT-----EMYNAKH-- 164
Q P + +SN ++ + I+ L + + NAK
Sbjct: 203 QKLLYQIDPNWT--SRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWN 260
Query: 165 ----GCYV-----HIGILDVLQIFGRAGRPQYNTSGHATI-ITPHEKLN---HYLSLLTN 211
C + + D L A + + H ++ +TP E + YL
Sbjct: 261 AFNLSCKILLTTRFKQVTDFLS----AATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQ 316
Query: 212 QIPIESNFVANLADNLNAEVALGTIGN--IDEAVRWLIIYINFVANLADNLNAEVALGTI 269
+P E L I D W N+ ++N + L TI
Sbjct: 317 DLPREVLTTNPR--------RLSIIAESIRDGLATW----DNW-----KHVNCD-KLTTI 358
Query: 270 GNIDEAVRWLS---YSYLHVRMRINPREYGIS--------YDEVATDPDLIQ---HRTTL 315
I+ ++ L Y + R+ + P I +D + +D ++ H+ +L
Sbjct: 359 --IESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSL 416
Query: 316 IE-NAAQILDKAHMIRFNMRTRDLAITDLGRTASNYYIKHNDIELFTEHMTKVLDD---- 370
+E + I ++ + L R+ ++Y ++ + D
Sbjct: 417 VEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPK--TFDSDDLIPPYLDQYFY 474
Query: 371 --VGI-LSMISQAHEFEQLKVRDEELHELDNLTQECCEIPIRGGSENVHGKVNILLQTLL 427
+G L I ++ + L+ +I + N G + LQ L
Sbjct: 475 SHIGHHLKNIEHPERMTLFRMVFLDFRFLEQ------KIRHDSTAWNASGSILNTLQQL- 527
Query: 428 SRGRVNSFSLVSDLEYVNQNVIRIIRALFEITLHRNNAIMAARF---LKFALMFETKQWP 484
+ +D +Y R++ A+ + ++ +++ L+ ALM E +
Sbjct: 528 --KFYKPYICDNDPKYE-----RLVNAILDFLPKIEENLICSKYTDLLRIALMAEDEAI- 579
Query: 485 HETPLRQIK 493
E +Q++
Sbjct: 580 FEEAHKQVQ 588
Score = 54.9 bits (131), Expect = 1e-07
Identities = 92/678 (13%), Positives = 187/678 (27%), Gaps = 222/678 (32%)
Query: 203 NHYLSLLTNQ--------IPI-ESNFVANL-----ADNL-----NAEV-ALGTIGNIDEA 242
+H++ T + + + E FV N D E+ + +
Sbjct: 4 HHHMDFETGEHQYQYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSG 63
Query: 243 VRWLIIYINFVANLADNLN-AEVALGTIGNIDEAVRWLSYSYLHVRMRINPREYGISYDE 301
L + L+ + + + I+ Y +L ++ R+ +
Sbjct: 64 TLRLFWTL-----LSKQEEMVQKFVEEVLRIN-------YKFLMSPIKTEQRQPSMMTRM 111
Query: 302 VATDPDLIQHRTTLIENAAQILDKAHMIRFNMRTRDLAITDLGRTASNYYIKHNDIELFT 361
I+ R L N Q+ K ++ R L R A ++ +
Sbjct: 112 ------YIEQRDRL-YNDNQVFAKYNVSRLQP------YLKL-RQALLELRPAKNVLI-- 155
Query: 362 EH-MT---K------VLDDVGILSM---------ISQAHEFEQLKVRDEEL-HELD-NLT 400
+ K V + + + E + ++L +++D N T
Sbjct: 156 -DGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWT 214
Query: 401 QEC---CEIPIRGGSENVHGKVNILLQTLLSRGRVNSFSLVSDLEYVNQNV--IRIIRAL 455
I +R ++ ++ LL+ S+ N LV NV + A
Sbjct: 215 SRSDHSSNIKLR--IHSIQAELRRLLK---SKPYENCL-LVLL------NVQNAKAWNA- 261
Query: 456 FEI---TL--HRN----NAIMAARFLKFALMFETKQWPHETPLRQIKLVTNRGYQSPILK 506
F + L R + + AA +L + + + + Q L
Sbjct: 262 FNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQD--LP 319
Query: 507 PDILNKIEQRGLTV--EDLREMPAK----------------EISYMLRDPHVGDKVKQCA 548
++L R L++ E +R+ A E S + +P + ++
Sbjct: 320 REVL-TTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEP---AEYRKMF 375
Query: 549 WEIPLLEIESKLLPITRTVLKIHLTIKANFSWNDKNKSTYAEPFWIWVEDPDSDFIYHSE 608
L + I +L + IW + SD
Sbjct: 376 DR---LSVFPPSAHIPTILLSL-----------------------IWFDVIKSD----VM 405
Query: 609 YFL--LSKKQVITKSEESLIMTIPLSDPLPNQYLIRAMSDRYLGSVVQHSMSFKHLIVPE 666
+ L K ++ K + ++IP YL + K
Sbjct: 406 VVVNKLHKYSLVEKQPKESTISIP---------------SIYL------ELKVKLENEYA 444
Query: 667 LHPPHTNLLELQPLPVSALQQ---PQYESLYKFSHFNPIQTQIFHCLYHTDN-------- 715
LH ++++ +P + P Y Y +SH +H N
Sbjct: 445 LH---RSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIG----------HHLKNIEHPERMT 491
Query: 716 ---NVLL------------GAPTGSGKTIAAEITCFRVFKQCPEAKVVYIAPLKALVKER 760
V L + +I + + +K YI +
Sbjct: 492 LFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKP-------YICDNDPKYERL 544
Query: 761 VADWKVKFEARLKKKVVE 778
V F ++++ ++
Sbjct: 545 VNAIL-DFLPKIEENLIC 561
>3tbk_A RIG-I helicase domain; DECH helicase, ATP binding, hydrolase; HET:
ANP; 2.14A {Mus musculus}
Length = 555
Score = 74.9 bits (183), Expect = 6e-14
Identities = 38/190 (20%), Positives = 72/190 (37%), Gaps = 14/190 (7%)
Query: 716 NVLLGAPTGSGKTIAAEITCFRVFKQCPE---AKVVYIAPLKALVKERVADWKVKFEARL 772
N ++ APTG GKT + + C K+ P KVV+ A + +++ + FE RL
Sbjct: 21 NTIICAPTGCGKTFVSLLICEHHLKKFPCGQKGKVVFFANQIPVYEQQATVFSRYFE-RL 79
Query: 773 KKKVVELTGDVTPDI---QAISSASVIVTTPEKWDGVSRSWQNRNYVQSVALIIIDEIHL 829
+ ++G + + I +I+ TP+ + + L+I DE H
Sbjct: 80 GYNIASISGATSDSVSVQHIIEDNDIIILTPQILVNNLNN-GAIPSLSVFTLMIFDECHN 138
Query: 830 LGEDRGPVLEVIVSR--VNFISSYTKRNVRLVGLSTALAN--AKDLATWLNITKQGMYNF 885
+ I+ R + + ++VGL+ ++ AK + +
Sbjct: 139 --TSKNHPYNQIMFRYLDHKLGESRDPLPQVVGLTASVGVGDAKTAEEAMQHICKLCAAL 196
Query: 886 RPSVRPVPLE 895
SV +
Sbjct: 197 DASVIATVRD 206
Score = 44.9 bits (105), Expect = 1e-04
Identities = 16/40 (40%), Positives = 23/40 (57%), Gaps = 1/40 (2%)
Query: 53 QSLVYDTAYHTNENLLICAPTGAGKTNVAMLTIAHQIKQH 92
Q + A +N +ICAPTG GKT V++L H +K+
Sbjct: 9 QLELALPAK-KGKNTIICAPTGCGKTFVSLLICEHHLKKF 47
>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 = 70.0 bits (170), Expect = 3e-12
Identities = 44/228 (19%), Positives = 87/228 (38%), Gaps = 20/228 (8%)
Query: 653 VQHSMSFKHLIVPELHPPHTNLLELQPLPVSALQQPQYESLYKFSHFNPIQTQIF-HCLY 711
+ E P NL E + +P Y+ Q ++ +
Sbjct: 205 ASEDCLEASMTYSEEAEPDDNLSENLGSAAEGIGKPPPV--YETKKARSYQIELAQPAIN 262
Query: 712 HTDNNVLLGAPTGSGKTIAAEITCFRVFKQCPE---AKVVYIAPLKALVKERVADWKVKF 768
N L+ APTGSGKT + + C F+ P AKVV++A + ++ K F
Sbjct: 263 G--KNALICAPTGSGKTFVSILICEHHFQNMPAGRKAKVVFLATKVPVYEQ----QKNVF 316
Query: 769 EARLKKK---VVELTGDVTPDI---QAISSASVIVTTPEKWDGVSRSWQNRNYVQSVALI 822
+ +++ V ++G+ ++ + I + +IV TP+ S + L+
Sbjct: 317 KHHFERQGYSVQGISGENFSNVSVEKVIEDSDIIVVTPQILV-NSFEDGTLTSLSIFTLM 375
Query: 823 IIDEIHLLGEDRGPVLEVIVSRVNFISSYTKRNVRLVGLSTALANAKD 870
I DE H + P ++ + + + +++GL+ ++
Sbjct: 376 IFDECHNTTGNH-PYNVLMTRYLEQKFNSASQLPQILGLTASVGVGNA 422
Score = 43.0 bits (100), Expect = 6e-04
Identities = 17/53 (32%), Positives = 24/53 (45%), Gaps = 1/53 (1%)
Query: 40 QEVFKGVKSLNRIQSLVYDTAYHTNENLLICAPTGAGKTNVAMLTIAHQIKQH 92
K Q + A + +N LICAPTG+GKT V++L H +
Sbjct: 240 PPPVYETKKARSYQIELAQPAIN-GKNALICAPTGSGKTFVSILICEHHFQNM 291
>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 = 67.7 bits (164), Expect = 1e-11
Identities = 32/128 (25%), Positives = 58/128 (45%), Gaps = 14/128 (10%)
Query: 716 NVLLGAPTGSGKTIAAEITCFRVFKQCPE---AKVVYIAPLKALVKERVADWKVKFEARL 772
N L+ APTGSGKT + + C F+ P AKVV++A + +++ F+
Sbjct: 24 NALICAPTGSGKTFVSILICEHHFQNMPAGRKAKVVFLATKVPVYEQQKN----VFKHHF 79
Query: 773 KKK---VVELTGDVTPDI---QAISSASVIVTTPEKWDGVSRSWQNRNYVQSVALIIIDE 826
+++ V ++G+ ++ + I + +IV TP+ S + L+I DE
Sbjct: 80 ERQGYSVQGISGENFSNVSVEKVIEDSDIIVVTPQILV-NSFEDGTLTSLSIFTLMIFDE 138
Query: 827 IHLLGEDR 834
H +
Sbjct: 139 CHNTTGNH 146
Score = 48.4 bits (114), Expect = 1e-05
Identities = 17/47 (36%), Positives = 23/47 (48%), Gaps = 1/47 (2%)
Query: 46 VKSLNRIQSLVYDTAYHTNENLLICAPTGAGKTNVAMLTIAHQIKQH 92
K Q + A +N LICAPTG+GKT V++L H +
Sbjct: 5 TKKARSYQIELAQPAI-NGKNALICAPTGSGKTFVSILICEHHFQNM 50
>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 = 65.0 bits (157), Expect = 8e-11
Identities = 48/255 (18%), Positives = 94/255 (36%), Gaps = 22/255 (8%)
Query: 653 VQHSMSFKHLIVPELHPPHTNLLELQPLPVSALQQPQYESLYKFSHFNPIQTQIF-HCLY 711
+ E P NL E + +P Y+ Q ++ +
Sbjct: 205 ASEDCLEASMTYSEEAEPDDNLSENLGSAAEGIGKPPPV--YETKKARSYQIELAQPAIN 262
Query: 712 HTDNNVLLGAPTGSGKTIAAEITCFRVFKQCPE---AKVVYIAPLKALVKERVADWKVKF 768
N L+ APTGSGKT + + C F+ P AKVV++A + ++ K F
Sbjct: 263 G--KNALICAPTGSGKTFVSILICEHHFQNMPAGRKAKVVFLATKVPVYEQ----QKNVF 316
Query: 769 EARLKKK---VVELTGDVTPDI---QAISSASVIVTTPEKWDGVSRSWQNRNYVQSVALI 822
+ +++ V ++G+ ++ + I + +IV TP+ S + L+
Sbjct: 317 KHHFERQGYSVQGISGENFSNVSVEKVIEDSDIIVVTPQILV-NSFEDGTLTSLSIFTLM 375
Query: 823 IIDEIHLLGEDRGPVLEVIVSRVNFISSYTKRNVRLVGLSTAL--ANAKDLATWLNITKQ 880
I DE H + P ++ + + + +++GL+ ++ NAK++ +
Sbjct: 376 IFDECHNTTGNH-PYNVLMTRYLEQKFNSASQLPQILGLTASVGVGNAKNIEETIEHICS 434
Query: 881 GMYNFRPSVRPVPLE 895
E
Sbjct: 435 LCSYLDIQAISTVRE 449
Score = 41.9 bits (97), Expect = 0.001
Identities = 17/53 (32%), Positives = 24/53 (45%), Gaps = 1/53 (1%)
Query: 40 QEVFKGVKSLNRIQSLVYDTAYHTNENLLICAPTGAGKTNVAMLTIAHQIKQH 92
K Q + A + +N LICAPTG+GKT V++L H +
Sbjct: 240 PPPVYETKKARSYQIELAQPAIN-GKNALICAPTGSGKTFVSILICEHHFQNM 291
>2ykg_A Probable ATP-dependent RNA helicase DDX58; hydrolase, innate
immunity; 2.50A {Homo sapiens} PDB: 3tmi_A*
Length = 696
Score = 62.3 bits (150), Expect = 6e-10
Identities = 30/163 (18%), Positives = 66/163 (40%), Gaps = 14/163 (8%)
Query: 716 NVLLGAPTGSGKTIAAEITCFRVFKQCPE---AKVVYIAPLKALVKERVADWKVKFEARL 772
N ++ APTG GKT + + C K+ P+ KVV+ A + ++ K F
Sbjct: 30 NTIICAPTGCGKTFVSLLICEHHLKKFPQGQKGKVVFFANQIPVYEQ----NKSVFSKYF 85
Query: 773 KK---KVVELTGDVTPDI---QAISSASVIVTTPEKWDGVSRSWQNRNYVQSVALIIIDE 826
++ +V ++G ++ Q + + +I+ TP+ + + L+I DE
Sbjct: 86 ERHGYRVTGISGATAENVPVEQIVENNDIIILTPQILVNNLKK-GTIPSLSIFTLMIFDE 144
Query: 827 IHLLGEDRGPVLEVIVSRVNFISSYTKRNVRLVGLSTALANAK 869
H + + + + + +++GL+ ++
Sbjct: 145 CHNTSKQHPYNMIMFNYLDQKLGGSSGPLPQVIGLTASVGVGD 187
Score = 42.3 bits (98), Expect = 9e-04
Identities = 14/34 (41%), Positives = 20/34 (58%)
Query: 64 NENLLICAPTGAGKTNVAMLTIAHQIKQHISQGT 97
+N +ICAPTG GKT V++L H +K+
Sbjct: 28 GKNTIICAPTGCGKTFVSLLICEHHLKKFPQGQK 61
>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 = 60.6 bits (146), Expect = 2e-09
Identities = 39/133 (29%), Positives = 62/133 (46%), Gaps = 14/133 (10%)
Query: 701 PIQTQIF-HCLYHTDNNVLLGAPTGSGKTIAAEITCFRVFKQCPEAKVVYIAPLKALVKE 759
Q I+ C N L+ PTG GKT+ A + + KV+ +AP K LV +
Sbjct: 12 IYQEVIYAKCKET---NCLIVLPTGLGKTLIAMMIAEYRLTK-YGGKVLMLAPTKPLVLQ 67
Query: 760 RVADWKVKFEARLKKKVVELTGDVTPDI--QAISSASVIVTTPEKWDGVSRSWQNRNYV- 816
++ F +K+V LTG+ +P+ +A + A VIV TP+ + +
Sbjct: 68 HAESFRRLFN-LPPEKIVALTGEKSPEERSKAWARAKVIVATPQ----TIENDLLAGRIS 122
Query: 817 -QSVALIIIDEIH 828
+ V+LI+ DE H
Sbjct: 123 LEDVSLIVFDEAH 135
Score = 36.3 bits (83), Expect = 0.052
Identities = 11/29 (37%), Positives = 18/29 (62%)
Query: 64 NENLLICAPTGAGKTNVAMLTIAHQIKQH 92
N LI PTG GKT +AM+ +++ ++
Sbjct: 23 ETNCLIVLPTGLGKTLIAMMIAEYRLTKY 51
>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 = 57.8 bits (139), Expect = 2e-08
Identities = 99/619 (15%), Positives = 176/619 (28%), Gaps = 231/619 (37%)
Query: 190 SGHAT---IITPHEKLNHYLSLLTNQIPIESNFVAN-LADNLNAEVALGTIGNI--DE-- 241
++T ++ H L H LL +P S F+A+ L + N + T G DE
Sbjct: 2 DAYSTRPLTLS-HGSLEH--VLL---VPTASFFIASQLQEQFNKILPEPTEGFAADDEPT 55
Query: 242 AVRWLII-YINFVANLADNLNAEVALGTIGNIDEAVRW-LSY---SYL-----H------ 285
L+ ++ +V++L + +G D+ + L+ YL H
Sbjct: 56 TPAELVGKFLGYVSSLVEP-------SKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKL 108
Query: 286 ---VRMRINPREYGI-SY---DEVATDPDLIQHRTTLIENAAQILDKAHMIR-F----NM 333
+ + I +Y +A P + + L + A ++ F N
Sbjct: 109 LQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGE--GNAQLVAIFGGQGNT 166
Query: 334 RT-----RDLAITDLGRTASNYYIKHNDIELFTEHMTKVLDDVGILSMISQAHEFEQLKV 388
RDL Y H + + + L +I + E++
Sbjct: 167 DDYFEELRDL-----------YQTYHVLVGDLIKFSAETL-----SELIRTTLDAEKVFT 210
Query: 389 RDEELHE-LDN---------------------LTQECCEIPIRGGSENVHGKVNILLQTL 426
+ + E L+N + Q + G++ L+
Sbjct: 211 QGLNILEWLENPSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGA 270
Query: 427 LSRGR--VNS--FSLVSDLEYVNQNVIRIIRALFEITLHRNNAIMAARFLKFALMFETKQ 482
+ V + + E +V + I LF I + A
Sbjct: 271 TGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIGVRCYEA----------------- 313
Query: 483 WPHETP---LRQIKLVTNRGYQSPILKPDILNKIEQRGLTVEDL--------REMPAKE- 530
+P+ + + + L N G SP+L I LT E + +PA +
Sbjct: 314 YPNTSLPPSILEDSLENNEGVPSPMLS--I------SNLTQEQVQDYVNKTNSHLPAGKQ 365
Query: 531 --IS-----------------Y----MLRDPHVGDKVKQCAWEIPL----LEIESKLLPI 563
IS Y LR + Q IP L+ ++ LP+
Sbjct: 366 VEISLVNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQS--RIPFSERKLKFSNRFLPV 423
Query: 564 TRTVLKIHLTIKANFSWNDKNKSTYAEPFWIWVEDPDSDFIYHSEYFL----------LS 613
PF HS L L
Sbjct: 424 A-------------------------SPF-------------HSHL-LVPASDLINKDLV 444
Query: 614 KKQVITKSEESLIMTIPLSDPLPNQYLIRAMSDRYLGSVVQHSMSFKHLIVPE------- 666
K V +++ + IP+ D + +R +S +V I+
Sbjct: 445 KNNVSFNAKD---IQIPVYDTF-DGSDLRVLSGSISERIVD-------CIIRLPVKWETT 493
Query: 667 LHPPHTNLLELQPLPVSAL 685
T++L+ P S L
Sbjct: 494 TQFKATHILDFGPGGASGL 512
Score = 53.5 bits (128), Expect = 4e-07
Identities = 113/728 (15%), Positives = 198/728 (27%), Gaps = 321/728 (44%)
Query: 352 IKHNDIELFTEHMTKVLDDVGILSMISQAHEF--EQLKVRDEELHEL----DNLTQECCE 405
+ H +E +L + A F QL +++ L + + +
Sbjct: 11 LSHGSLE------------HVLL--VPTASFFIASQL--QEQFNKILPEPTEGFAAD--D 52
Query: 406 IPIRGGSENVHGKVNILLQTLLSRGRVNSFSLVSDLEYVNQNV--------IRIIRAL-- 455
P + L+ + F L YV+ V +++
Sbjct: 53 EP----TTPAE---------LVGK-----F-----LGYVSSLVEPSKVGQFDQVLNLCLT 89
Query: 456 -FEITLHRNNAI--MAARFLKFALMFETKQWPHETPLRQIKLVTNRGY-------QSPIL 505
FE N I +AA+ L+ ++T L + K + + Y + P
Sbjct: 90 EFENCYLEGNDIHALAAKLLQ----------ENDTTLVKTKELI-KNYITARIMAKRPFD 138
Query: 506 KPD---ILNKIE------------QRGLT---VEDLREMPAKEISYMLRDPHVGDKVKQC 547
K + + Q G T E+LR++ Y VGD +K
Sbjct: 139 KKSNSALFRAVGEGNAQLVAIFGGQ-GNTDDYFEELRDL------YQTYHVLVGDLIKFS 191
Query: 548 AWEIPLLEIESKLLPITRTVLKIHLTIKANFSWNDKNKSTYAEPFWI--WVEDPDSDFIY 605
A L + RT L + + + I W+E+P +
Sbjct: 192 A---------ETLSELIRTTLDA--------------EKVFTQGLNILEWLENPSN---T 225
Query: 606 HSEYFLLSKKQVITKSEESLIMTIPLSDPLPNQYLIRAMSDRYLGSVVQHSMSFKHLIVP 665
+ +LLS IP+S
Sbjct: 226 PDKDYLLS---------------IPIS--------------------------------- 237
Query: 666 ELHPPHTNLLELQPLPVSALQQ-PQYESLYKFSHFNPIQTQIFHCLYHTDNNVLLGAPTG 724
P+ + Q Y K F P + + L GA TG
Sbjct: 238 --------------CPLIGVIQLAHYVVTAKLLGFTPGEL----------RSYLKGA-TG 272
Query: 725 SGKTIAAEITCFRVFKQCPEAKVVYIAPLKALVKERVADWKVKFEARLKKKVVEL---TG 781
+ + A+ W+ F +K + + G
Sbjct: 273 HSQGLVT-----------------------AVAIAETDSWE-SFF-VSVRKAITVLFFIG 307
Query: 782 ----DVTPDIQAISSASVIVTTPEKWDGVSRSWQ------NRNYVQSVALIIIDEI--HL 829
+ P S++ + E +GV S + VQ +++ HL
Sbjct: 308 VRCYEAYP--NTSLPPSILEDSLENNEGVP-SPMLSISNLTQEQVQD----YVNKTNSHL 360
Query: 830 LGEDRGPVLEVIVSRVNFISSYTKRNV-------RLVGLSTALANAKDLATWLNITKQGM 882
+ V +S VN +N+ L GL+ L AK + L+ ++
Sbjct: 361 PAGKQ-----VEISLVN-----GAKNLVVSGPPQSLYGLNLTLRKAKAPSG-LDQSRIPF 409
Query: 883 YNFRP--SVR--PV--PLEVHISGFPGKQYCPRMAKMNKPIYT-------AIKQHSPEKP 929
+ S R PV P H + + I + + P
Sbjct: 410 SERKLKFSNRFLPVASP--FH---------SHLLVPASDLINKDLVKNNVSFNAKDIQIP 458
Query: 930 V--------MIFVSSRRQTRLTAIDLITILACETNPKMWVHTSDAEMDNIVDNIKDSNLK 981
V + +S R+ +D I L + W T+ + +I+D
Sbjct: 459 VYDTFDGSDLRVLSGSISERI--VDCIIRLPVK-----WETTTQFKATHILD-------- 503
Query: 982 LTIAFGIG 989
FG G
Sbjct: 504 ----FGPG 507
Score = 50.8 bits (121), Expect = 3e-06
Identities = 64/438 (14%), Positives = 120/438 (27%), Gaps = 163/438 (37%)
Query: 641 IRAMSDRYLGSVVQHSMSFKH-LIVP-ELHPPHTNLLE----LQPLPVSALQQ---P--Q 689
+ A S R L + H S +H L+VP + L E + P P P
Sbjct: 1 MDAYSTRPL--TLSHG-SLEHVLLVPTASFFIASQLQEQFNKILPEPTEGFAADDEPTTP 57
Query: 690 YESLYKFSHFNPIQTQIFHCLYHTDNNVLLGAPTGSGKTIAAEITCFRVFKQCPEAKVVY 749
E + KF + +++ + P +
Sbjct: 58 AELVGKFLGY-----------------------------VSSLVE--------PSKVGQF 80
Query: 750 IAPLKALVKERVADWKVKFEAR-LKKK-----VVELTGDVTPD-------IQAISSASVI 796
L + E FE L+ +L + I+ +A ++
Sbjct: 81 DQVLNLCLTE--------FENCYLEGNDIHALAAKLLQENDTTLVKTKELIKNYITARIM 132
Query: 797 VTTPEK-------WDGVSRSWQNRNYV----QSVALIIIDEIHLLGEDRGPVLEVIVSRV 845
P + V + Q +E+ L + ++
Sbjct: 133 AKRPFDKKSNSALFRAVGEG-NAQLVAIFGGQGNTDDYFEELRDLYQTYHVLVG------ 185
Query: 846 NFISSYTKRNVRLVGLSTALANAK-------DLATWLNITKQGMYNFRPSVRP------- 891
+ I + L L +A+ ++ WL PS P
Sbjct: 186 DLIKFSAET---LSELIRTTLDAEKVFTQGLNILEWLE---------NPSNTPDKDYLLS 233
Query: 892 VPLEVHISGFPG------KQYCPRMAKMNKPIYTAIKQH--SPEKPVMIF--VSSRRQTR 941
+P IS P Y K +P + + Q
Sbjct: 234 IP----IS-CPLIGVIQLAHY-----------VVTAKLLGFTPGELRSYLKGATGHSQGL 277
Query: 942 LTAIDLITILACETNPKMWVHTSDAEMDNIVDNIKDSNLKLTIAFGIGFHHAAAEAAQSS 1001
+TA+ I ++ W ++ +++ + +T+ F IG EA ++
Sbjct: 278 VTAV---AIAETDS----W--------ESFFVSVRKA---ITVLFFIGVR--CYEAYPNT 317
Query: 1002 ALQMPKLAALSSKENQNV 1019
+L P + S + N+ V
Sbjct: 318 SLP-PSILEDSLENNEGV 334
Score = 37.7 bits (87), Expect = 0.028
Identities = 46/279 (16%), Positives = 82/279 (29%), Gaps = 124/279 (44%)
Query: 94 SQ----GTEMYN----AKHGCYVHIGILDVLQIFGRAGRPQYNTSDLGRTASNYYIKHND 145
SQ G ++Y A+ ++ RA + G + + + +N
Sbjct: 1626 SQEQGMGMDLYKTSKAAQ-------------DVWNRADN--HFKDTYGFSILDI-VINNP 1669
Query: 146 IELFTEHMT--KG---TEMYNAKHGCYVHI--GILDVLQIFGRAGRPQYNTSGHATIIT- 197
+ L T H KG E Y+A + I G L +IF H+T T
Sbjct: 1670 VNL-TIHFGGEKGKRIRENYSA--MIFETIVDGKLKTEKIFKEINE-------HSTSYTF 1719
Query: 198 --PHEKLNHYLSLLTN--Q-------------------IPIESNF-----------VANL 223
L+ T Q IP ++ F + L
Sbjct: 1720 RSEKGLLS-----ATQFTQPALTLMEKAAFEDLKSKGLIPADATFAGHSLGEYAALAS-L 1773
Query: 224 ADNLNAEVAL-------------------------------GTIGNI--DEAVRWLIIYI 250
AD ++ E + G + EA+++++ +
Sbjct: 1774 ADVMSIESLVEVVFYRGMTMQVAVPRDELGRSNYGMIAINPGRVAASFSQEALQYVVERV 1833
Query: 251 ----NFVANLADNLNAE----VALGTIGNIDEAVRWLSY 281
++ + N N E VA G + +D L++
Sbjct: 1834 GKRTGWLVEIV-NYNVENQQYVAAGDLRALDTVTNVLNF 1871
Score = 33.1 bits (75), Expect = 0.58
Identities = 45/230 (19%), Positives = 73/230 (31%), Gaps = 85/230 (36%)
Query: 879 KQGM----YNFRPSVR-------------------------PVPLEVHISGFPGKQYCPR 909
+QGM Y + + PV L +H G GK+
Sbjct: 1628 EQGMGMDLYKTSKAAQDVWNRADNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKRIREN 1687
Query: 910 MAKM-----------NKPIYTAIKQHSPEKPVMIFVSSR---RQTRLT--AIDLITILAC 953
+ M + I+ I +HS F S + T+ T A+ L+ A
Sbjct: 1688 YSAMIFETIVDGKLKTEKIFKEINEHSTS---YTFRSEKGLLSATQFTQPALTLMEKAAF 1744
Query: 954 ET------NPKMWV---H--------TSDAEMDNIVDNIKDSNLKLTIAFGIGFHHAAA- 995
E P H S A+ V +I+ +++ G+ A
Sbjct: 1745 EDLKSKGLIPADATFAGHSLGEYAALASLAD----VMSIESL-VEVVFYRGMTMQVAVPR 1799
Query: 996 -EAAQSS----ALQMPKLAALSSKEN-QNVINRSTSANG------NFDFN 1033
E +S+ A+ ++AA S+E Q V+ R G N +N
Sbjct: 1800 DELGRSNYGMIAINPGRVAASFSQEALQYVVERVGKRTGWLVEIVN--YN 1847
Score = 29.6 bits (66), Expect = 8.0
Identities = 44/301 (14%), Positives = 87/301 (28%), Gaps = 125/301 (41%)
Query: 319 AAQILDKAHMIRFNMRTRDLAITDLGRT-----------ASNYYIKHNDIELFTEHMT-- 365
A + ++A T +I D+ I+ N + E +
Sbjct: 1642 AQDVWNRAD--NHFKDTYGFSILDIVINNPVNLTIHFGGEKGKRIRENYSAMIFETIVDG 1699
Query: 366 -----KVLDDVGI-LSMISQAHEFEQLKVRDEELHELDNLTQECCEIPIRGGSENVHGKV 419
K+ ++ + + E L TQ P
Sbjct: 1700 KLKTEKIFKEINEHSTSYTFRSE-------KGLLSATQF-TQ-----PA----------- 1735
Query: 420 NILL------QTLLSRGRVNSFSLV---SDL-EYVNQNVIRIIRALFEITLHRNNAIMAA 469
+ L + L S+G + + + S L EY AL A +A
Sbjct: 1736 -LTLMEKAAFEDLKSKGLIPADATFAGHS-LGEYA---------AL---------ASLAD 1775
Query: 470 RFLKFALMFETKQWPHETPLRQIKLVTNRGYQSPILKPDILNKIEQRGLTVEDLREMPAK 529
+ E+ +++V RG+T++ +P
Sbjct: 1776 -----VMSIES----------LVEVVF------------------YRGMTMQV--AVPRD 1800
Query: 530 EI---SY-MLR-DPHVGDKVKQCAWEIPLLEIESKLLPITRTVLKIHLTIKANFSWNDKN 584
E+ +Y M+ +P G + E L + ++ T +++I N+ N +N
Sbjct: 1801 ELGRSNYGMIAINP--GRVAASFSQEA-LQYVVERVGKRTGWLVEI-----VNY--NVEN 1850
Query: 585 K 585
+
Sbjct: 1851 Q 1851
>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 = 46.7 bits (111), Expect = 3e-05
Identities = 25/114 (21%), Positives = 40/114 (35%), Gaps = 20/114 (17%)
Query: 718 LLGAPTGSGKTIAAEITCFRVFKQCPEAKVVYIAPLKALVKERVADWKVKFEARLKKKVV 777
+ PTGSGKT A + + + P AL ++ WK + ++ V
Sbjct: 112 CIVLPTGSGKTHVA-MAAINELST----PTLIVVPTLALAEQ----WKERLGIFGEEYVG 162
Query: 778 ELTGDVTPDIQAISSASVIVTTPEKWDGVSRSWQNRNYVQSVALIIIDEIHLLG 831
E +G + V+T + S L+I DE+H L
Sbjct: 163 EFSGR------IKELKPLTVSTYD-----SAYVNAEKLGNRFMLLIFDEVHHLP 205
Score = 32.1 bits (73), Expect = 1.1
Identities = 9/26 (34%), Positives = 15/26 (57%), Gaps = 1/26 (3%)
Query: 68 LICAPTGAGKTNVAMLTIAHQIKQHI 93
I PTG+GKT+VA + +++
Sbjct: 112 CIVLPTGSGKTHVA-MAAINELSTPT 136
>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 = 43.9 bits (104), Expect = 1e-04
Identities = 28/144 (19%), Positives = 46/144 (31%), Gaps = 24/144 (16%)
Query: 703 QTQIFHCLYHTDNNVLLGAPTGSGKTIAAEITCFRVFKQCPEAKVVYIAPLKALVKERVA 762
Q + ++ PTGSGKT A + + + P AL ++
Sbjct: 98 QEKALERWLVDKRGCIV-LPTGSGKTHVA-MAAINELST----PTLIVVPTLALAEQ--- 148
Query: 763 DWKVKFEARLKKKVVELTGDVTPDIQAISSASVIVTTPEKWDGVSRSWQNRNYVQSVALI 822
WK + ++ V E +G + + V+T +D S L+
Sbjct: 149 -WKERLGIFGEEYVGEFSGRI------KELKPLTVST---YD--SAYVNAEKLGNRFMLL 196
Query: 823 IIDEIHLLGEDRGPVLEVIVSRVN 846
I DE+H L I
Sbjct: 197 IFDEVHHLP---AESYVQIAQMSI 217
Score = 32.7 bits (75), Expect = 0.43
Identities = 11/20 (55%), Positives = 13/20 (65%)
Query: 68 LICAPTGAGKTNVAMLTIAH 87
I PTG+GKT+VAM I
Sbjct: 112 CIVLPTGSGKTHVAMAAINE 131
>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 = 36.7 bits (85), Expect = 0.034
Identities = 22/130 (16%), Positives = 44/130 (33%), Gaps = 31/130 (23%)
Query: 710 LYHTDNNVLLGAPTGSGKT------IAAEITCFRVFKQCPEAKVVYIAPLKALVKERVAD 763
++ ++ G+GKT I E R+ + + +AP + + E
Sbjct: 15 IFRKKRLTIMDLHPGAGKTKRILPSIVREALLRRL-------RTLILAPTRVVAAE---- 63
Query: 764 WKVKFEARLKKKVVELTGDVTPDIQAISSASVIVT--TPEKWDGV-SRSWQNRNYVQSVA 820
E L+ + TP +++ + IV + + V +
Sbjct: 64 ----MEEALRGLPI---RYQTPAVKSDHTGREIVDLMC----HATFTTRLLSSTRVPNYN 112
Query: 821 LIIIDEIHLL 830
LI++DE H
Sbjct: 113 LIVMDEAHFT 122
Score = 31.0 bits (70), Expect = 2.1
Identities = 6/23 (26%), Positives = 10/23 (43%)
Query: 56 VYDTAYHTNENLLICAPTGAGKT 78
V + + ++ GAGKT
Sbjct: 11 VDEDIFRKKRLTIMDLHPGAGKT 33
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna; HET:
CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 34.5 bits (78), Expect = 0.062
Identities = 10/31 (32%), Positives = 15/31 (48%), Gaps = 5/31 (16%)
Query: 614 KKQVITKSEESLIMTIPLSDP-LPNQYLIRA 643
+KQ + K + SL + S P L I+A
Sbjct: 18 EKQALKKLQASLKLYADDSAPALA----IKA 44
Score = 31.8 bits (71), Expect = 0.53
Identities = 11/38 (28%), Positives = 17/38 (44%), Gaps = 10/38 (26%)
Query: 758 KERVADWKVKFEARLKKKVVELTGDVTPDIQAISSASV 795
K+ + K K +A LK D P + AI A++
Sbjct: 19 KQAL---K-KLQASLKL----YADDSAPAL-AI-KATM 46
>4dgw_C PRE-mRNA-splicing factor PRP11; zinc finger; 3.11A {Saccharomyces
cerevisiae}
Length = 231
Score = 34.3 bits (78), Expect = 0.14
Identities = 19/146 (13%), Positives = 39/146 (26%), Gaps = 43/146 (29%)
Query: 480 TKQWPHETPLRQIKLVTNRGYQSPILKPDILNKIEQRGLTVEDLREMPAKEISYML--RD 537
+ E + P+++ I++ +E + K +++ +
Sbjct: 121 QVNYSSEVKENSVDSDDKAKVP-PLIR--IVSGLELS--------DTKQKGKKFLVIAYE 169
Query: 538 PHVGDKVKQCAWEIPLLEIESKLLPITRTVLKIHLTIKANFSWNDKNKSTYAEPFWIWVE 597
P + A E+P EI + N+ + W
Sbjct: 170 PF-----ENIAIELPPNEILFSE--------------NNDMDNNNDGVDELNKKCTFW-- 208
Query: 598 DPDSDFIYHSEYFLLSKKQVITKSEE 623
D S Y++ Q K E
Sbjct: 209 DAIS-----KLYYV----QFFFKQAE 225
>1gku_B Reverse gyrase, TOP-RG; topoisomerase, DNA supercoiling, archaea,
helicase; 2.7A {Archaeoglobus fulgidus} SCOP: c.37.1.16
c.37.1.16 e.10.1.1 PDB: 1gl9_B*
Length = 1054
Score = 35.0 bits (81), Expect = 0.14
Identities = 21/115 (18%), Positives = 40/115 (34%), Gaps = 20/115 (17%)
Query: 721 APTGSGKTIAAEITCFRVFKQCPEAKVVYIAPLKALVK---ERVADWKVKFEARLKKKVV 777
APTG GKT +F + I P LV E + + K + +
Sbjct: 78 APTGVGKTSFGLAMS--LFLALKGKRCYVIFPTSLLVIQAAETIRKYAEKAGVGTENLIG 135
Query: 778 ELTGDVTPD-----IQAISSASVIVTTPEKWDGVSRSWQNRNY--VQSVALIIID 825
G + +Q + + +++TT + +++Y + I +D
Sbjct: 136 YYHGRIPKREKENFMQNLRNFKIVITTT--------QFLSKHYRELGHFDFIFVD 182
>3rc3_A ATP-dependent RNA helicase SUPV3L1, mitochondrial; SUV3, nucleus,
hydrolase; HET: ANP; 2.08A {Homo sapiens} PDB: 3rc8_A
Length = 677
Score = 34.5 bits (78), Expect = 0.20
Identities = 28/151 (18%), Positives = 47/151 (31%), Gaps = 23/151 (15%)
Query: 661 HLIVPELHPPHTNLLELQPLPVSALQQ-----PQYESLYKFSHFNPIQTQIFHCLYHTDN 715
H+++ ++ + +L P + +Q + L K S
Sbjct: 97 HIVLNDICFGAAHADDLFPFFLRHAKQIFPVLDCKDDLRKISDLRIPPNWYPDARAMQRK 156
Query: 716 NVLLGAPTGSGKTIAAEITCFRVFKQCPEAKVVYIAPLKALVKERVADWKVKFEARLKKK 775
+ PT SGKT A + + VY PLK L E + + +
Sbjct: 157 IIFHSGPTNSGKTYHA----IQKYFSAKSG--VYCGPLKLLAHE-IFE-------KSNAA 202
Query: 776 VVE---LTGD-VTPDIQAISSASVIVTTPEK 802
V +TG+ AS + T E
Sbjct: 203 GVPCDLVTGEERVTVQPNGKQASHVSCTVEM 233
Score = 30.7 bits (68), Expect = 3.0
Identities = 33/253 (13%), Positives = 67/253 (26%), Gaps = 64/253 (25%)
Query: 115 VLQIFGRAGRPQYNTSDLGRTASNYYIKHNDIELFTEHMTKGTEMYNAKHGCYVHIGILD 174
LQI GRAGR + G + + H D+ L E + + +
Sbjct: 419 ALQIAGRAGRFSSRFKE-GEVTT---MNHEDLSLLKEILKRPVD---------------- 458
Query: 175 VLQIFGRAGRPQYNTSGHATIITPHEKLNHYLSLLTNQIPIESNFVANLADNLNAEVALG 234
I P P L++ + + + ++ + D+ L
Sbjct: 459 --PIRAAGLHPTAEQIEMFAYHLPDATLSNLIDIFVDFSQVDGQYFVCNMDDFKFSAELI 516
Query: 235 TIGNIDEAVRWLI--------------IYINFVANLADN-------LNAEVAL-----GT 268
+ VR++ + F + N L +
Sbjct: 517 QHIPLSLRVRYVFCTAPINKKQPFVCSSLLQFARQYSRNEPLTFAWLRRYIKWPLLPPKN 576
Query: 269 IGNIDEA---VRWLS-YSYLHVRMRINPREYGISYDEVATDPDLIQHRTTLIENA-AQIL 323
I ++ + L Y +L R + ++ D LI+ ++ +
Sbjct: 577 IKDLMDLEAVHDVLDLYLWLSYR-----------FMDMFPDASLIRDLQKELDGIIQDGV 625
Query: 324 DKAHMIRFNMRTR 336
+ T
Sbjct: 626 HNITKLIKMSETH 638
>3i5x_A ATP-dependent RNA helicase MSS116; protein-RNA complex, RNA
helicase, DEAD-BOX, ATP-binding, HE hydrolase,
mitochondrion; HET: ANP; 1.90A {Saccharomyces
cerevisiae} PDB: 3i5y_A* 3i61_A* 3i62_A* 3sqx_A*
Length = 563
Score = 34.0 bits (78), Expect = 0.26
Identities = 14/37 (37%), Positives = 21/37 (56%), Gaps = 1/37 (2%)
Query: 695 KFSHFNPIQTQ-IFHCLYHTDNNVLLGAPTGSGKTIA 730
+F P+Q + I L D++V+ A TG+GKT A
Sbjct: 91 EFPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFA 127
>3sqw_A ATP-dependent RNA helicase MSS116, mitochondrial; RECA fold, RNA
dependent ATPase, RNA helicase; HET: ANP; 1.91A
{Saccharomyces cerevisiae S288C}
Length = 579
Score = 33.6 bits (77), Expect = 0.35
Identities = 14/37 (37%), Positives = 21/37 (56%), Gaps = 1/37 (2%)
Query: 695 KFSHFNPIQTQ-IFHCLYHTDNNVLLGAPTGSGKTIA 730
+F P+Q + I L D++V+ A TG+GKT A
Sbjct: 40 EFPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFA 76
>3oiy_A Reverse gyrase helicase domain; topoisomerase, DNA supercoiling,
archaea, isomeras; 2.35A {Thermotoga maritima} PDB:
3p4y_A 3p4x_A*
Length = 414
Score = 33.2 bits (76), Expect = 0.53
Identities = 23/136 (16%), Positives = 42/136 (30%), Gaps = 22/136 (16%)
Query: 701 PIQTQ-IFHCLYHTDNNVLLGAPTGSGKTIAAEITCFRVFKQCPEAKVVYIAPLKALVKE 759
Q + + APTG GKT +T ++ K + P LVK+
Sbjct: 24 GYQRLWAKRIVQGKS--FTMVAPTGVGKTTFGMMTA--LWLARKGKKSALVFPTVTLVKQ 79
Query: 760 RVADWKVKFEARLKKKVVELTG--DVTPDIQAISSAS-----VIVTTPEKWDGVSRSWQN 812
+ K A K K+ + S ++V + +N
Sbjct: 80 -TLERLQKL-ADEKVKIFGFYSSMKKEEKEKFEKSFEEDDYHILVFST------QFVSKN 131
Query: 813 RNYV--QSVALIIIDE 826
R + + + +D+
Sbjct: 132 REKLSQKRFDFVFVDD 147
Score = 32.0 bits (73), Expect = 1.2
Identities = 9/28 (32%), Positives = 15/28 (53%)
Query: 64 NENLLICAPTGAGKTNVAMLTIAHQIKQ 91
++ + APTG GKT M+T ++
Sbjct: 36 GKSFTMVAPTGVGKTTFGMMTALWLARK 63
>2v6i_A RNA helicase; membrane, hydrolase, transmembrane, RNA replication,
viral replication, nucleotide-binding; 2.10A {Kokobera
virus} PDB: 2v6j_A
Length = 431
Score = 32.5 bits (74), Expect = 0.72
Identities = 23/121 (19%), Positives = 42/121 (34%), Gaps = 31/121 (25%)
Query: 719 LGAPTGSGKT------IAAEITCFRVFKQCPEAKVVYIAPLKALVKERVADWKVKFEARL 772
L G+GKT + E R+ + V +AP + + + L
Sbjct: 7 LDLHPGAGKTRRVLPQLVREAVKKRL-------RTVILAPTRVVA-SEMY-------EAL 51
Query: 773 KKKVVELTGDVTPDIQAISSASVIVT--TPEKWDGV-SRSWQNRNYVQSVALIIIDEIHL 829
+ + + +TP +Q+ + + IV + V + L I+DE H
Sbjct: 52 RGEPI---RYMTPAVQSERTGNEIVDFMC----HSTFTMKLLQGVRVPNYNLYIMDEAHF 104
Query: 830 L 830
L
Sbjct: 105 L 105
>1e9r_A Conjugal transfer protein TRWB; coupling protein, bacterial
conjugation, F1-ATPase-like quaternary structure, ring
helicases; 2.4A {Escherichia coli} SCOP: c.37.1.11 PDB:
1e9s_A 1gki_A* 1gl7_A* 1gl6_A*
Length = 437
Score = 32.2 bits (73), Expect = 0.91
Identities = 7/33 (21%), Positives = 14/33 (42%), Gaps = 4/33 (12%)
Query: 64 NENLLICAPTGAGKTNVAMLTIAHQIKQHISQG 96
+LL+ TG GK+ + + + +G
Sbjct: 53 PRHLLVNGATGTGKSVL----LRELAYTGLLRG 81
>4a15_A XPD helicase, ATP-dependent DNA helicase TA0057; hydrolase,
nucleotide excision repair,; 2.20A {Thermoplasma
acidophilum} PDB: 2vsf_A*
Length = 620
Score = 32.0 bits (73), Expect = 1.1
Identities = 17/84 (20%), Positives = 32/84 (38%), Gaps = 5/84 (5%)
Query: 701 PIQTQIFHCLYHT---DNNVLLGAPTGSGKTIAAEITCFRVFKQCPEAKVVYIAPLKALV 757
Q + L + V L +PTGSGKTI A + + + + +
Sbjct: 6 QYQVEAIDFLRSSLQKSYGVALESPTGSGKTIMALKSALQYSSERKLKVLYLVR--TNSQ 63
Query: 758 KERVADWKVKFEARLKKKVVELTG 781
+E+V + +K + + + G
Sbjct: 64 EEQVIKELRSLSSTMKIRAIPMQG 87
>3ly5_A ATP-dependent RNA helicase DDX18; alpha-beta, structural genomics,
structural genomics consort ATP-binding, hydrolase,
nucleotide-binding, RNA-B; 2.80A {Homo sapiens}
Length = 262
Score = 31.5 bits (72), Expect = 1.1
Identities = 15/37 (40%), Positives = 20/37 (54%), Gaps = 3/37 (8%)
Query: 695 KFSHFNPIQTQ-IFHCLYHTDNNVLLGAPTGSGKTIA 730
F++ IQ + I L D +L A TGSGKT+A
Sbjct: 73 GFTNMTEIQHKSIRPLLEGRD--LLAAAKTGSGKTLA 107
>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 = 31.7 bits (72), Expect = 1.2
Identities = 18/123 (14%), Positives = 36/123 (29%), Gaps = 27/123 (21%)
Query: 715 NNVLLGAPTGSGKTIAAEITCFRVFKQCPEA------KVVYIAPLKALVKERVADWKVKF 768
+L G+GKT R Q + + +AP + ++ E + +
Sbjct: 9 MTTVLDFHPGAGKT-----R--RFLPQILAECARRRLRTLVLAPTRVVLSE-MKEAFHGL 60
Query: 769 EARLKKKVVELTGDVTPDIQAISSASVIVTTPEKWDGV-SRSWQNRNYVQSVALIIIDEI 827
+ + + G + + V + +II+DE
Sbjct: 61 DVKFHTQAFSAHGS--------GREVIDAMC----HATLTYRMLEPTRVVNWEVIIMDEA 108
Query: 828 HLL 830
H L
Sbjct: 109 HFL 111
>2vl7_A XPD; helicase, unknown function; 2.25A {Sulfolobus tokodaii}
Length = 540
Score = 31.9 bits (72), Expect = 1.2
Identities = 16/84 (19%), Positives = 26/84 (30%), Gaps = 13/84 (15%)
Query: 701 PIQTQIFHCLYHTDN---NVLLGAPTGSGKTIAAEITCFRVFKQCPEAKVVYIAPLKALV 757
Q + + +LL A G GKT+ E+ + KV+ + +
Sbjct: 10 QWQAEKLGEAINALKHGKTLLLNAKPGLGKTVFVEVLGM-----QLKKKVLIFTRTHSQL 64
Query: 758 KERVADWKVKFEARLKKKVVELTG 781
+ K L K L G
Sbjct: 65 DSIYKNAK-----LLGLKTGFLIG 83
>1tqz_A Necap1; endocytosis, structural genomics, endocytosis/exocytosis
complex; NMR {Mus musculus} SCOP: b.55.1.11
Length = 133
Score = 30.2 bits (68), Expect = 1.4
Identities = 18/70 (25%), Positives = 30/70 (42%), Gaps = 9/70 (12%)
Query: 729 IAAEITCFRVFKQCPEAKVVYIAPLKALVKERVADWKV---KFEARL------KKKVVEL 779
+AAE+ V P+ V I P + R +DWK+ + RL K ++L
Sbjct: 1 MAAELEYESVLCVKPDVSVYRIPPRASNRGYRASDWKLDQPDWTGRLRITSKGKIAYIKL 60
Query: 780 TGDVTPDIQA 789
V+ ++ A
Sbjct: 61 EDKVSGELFA 70
>1qde_A EIF4A, translation initiation factor 4A; DEAD box protein family,
gene regulation; 2.00A {Saccharomyces cerevisiae} SCOP:
c.37.1.19 PDB: 1qva_A
Length = 224
Score = 31.0 bits (71), Expect = 1.5
Identities = 24/104 (23%), Positives = 41/104 (39%), Gaps = 7/104 (6%)
Query: 701 PIQTQ-IFHCLYHTDNNVLLGAPTGSGKTIAAEI-TCFRVFKQCPEAKVVYIAPLKALVK 758
IQ + I + D VL A +G+GKT I R+ + + +AP + L
Sbjct: 39 AIQQRAIMPIIEGHD--VLAQAQSGTGKTGTFSIAALQRIDTSVKAPQALMLAPTRELA- 95
Query: 759 ERVADWKVKFEARLKKKVVELTG--DVTPDIQAISSASVIVTTP 800
++ + + KV G D + + A ++V TP
Sbjct: 96 LQIQKVVMALAFHMDIKVHACIGGTSFVEDAEGLRDAQIVVGTP 139
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 30.5 bits (68), Expect = 1.7
Identities = 4/17 (23%), Positives = 9/17 (52%)
Query: 759 ERVADWKVKFEARLKKK 775
E + W+ + RL++
Sbjct: 85 ESIRKWREEQRKRLQEL 101
>3hws_A ATP-dependent CLP protease ATP-binding subunit CL; CLPXP, AAA+
molecular machine, hexamer, asymmetric,, ATP-BIN
chaperone, metal-binding; HET: ADP; 3.25A {Escherichia
coli} PDB: 3hte_A
Length = 363
Score = 31.0 bits (71), Expect = 1.8
Identities = 12/17 (70%), Positives = 14/17 (82%)
Query: 716 NVLLGAPTGSGKTIAAE 732
N+LL PTGSGKT+ AE
Sbjct: 53 NILLIGPTGSGKTLLAE 69
>1um8_A ATP-dependent CLP protease ATP-binding subunit CL; CLPP binding
loop, chaperone; HET: ADP; 2.60A {Helicobacter pylori}
SCOP: c.37.1.20
Length = 376
Score = 31.1 bits (71), Expect = 2.0
Identities = 11/17 (64%), Positives = 14/17 (82%)
Query: 716 NVLLGAPTGSGKTIAAE 732
N+LL PTGSGKT+ A+
Sbjct: 74 NILLIGPTGSGKTLMAQ 90
>2pl3_A Probable ATP-dependent RNA helicase DDX10; DEAD, structural
genomics, structural genomic consortium, SGC, hydrolase;
HET: ADP; 2.15A {Homo sapiens}
Length = 236
Score = 30.3 bits (69), Expect = 3.0
Identities = 16/37 (43%), Positives = 19/37 (51%), Gaps = 3/37 (8%)
Query: 695 KFSHFNPIQTQ-IFHCLYHTDNNVLLGAPTGSGKTIA 730
++ IQ Q I L D VL A TGSGKT+A
Sbjct: 44 QYRLVTEIQKQTIGLALQGKD--VLGAAKTGSGKTLA 78
>3crv_A XPD/RAD3 related DNA helicase; XPD helicase DNA repair cancer
aging, hydrolase; HET: FLC; 2.00A {Sulfolobus
acidocaldarius} PDB: 3crw_1*
Length = 551
Score = 30.8 bits (69), Expect = 3.2
Identities = 17/84 (20%), Positives = 29/84 (34%), Gaps = 9/84 (10%)
Query: 701 PIQTQIFHCLYHT---DNNVLLGAPTGSGKTIAAEITCFRVFKQCPEAKVVYIAPLKALV 757
Q ++ + + V L APTGSGKT+ + + V KV+++
Sbjct: 6 DWQEKLKDKVIEGLRNNFLVALNAPTGSGKTLFSLLVSLEVKP-----KVLFVVRTHNEF 60
Query: 758 KERVADWKVKFEARLKKKVVELTG 781
+ K + L G
Sbjct: 61 -YPIYRDLTKIREKRNITFSFLVG 83
>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus
abyssi}
Length = 350
Score = 30.1 bits (67), Expect = 3.9
Identities = 18/158 (11%), Positives = 42/158 (26%), Gaps = 10/158 (6%)
Query: 710 LYHTDNNVLLGAPTGSGKTIAAEITCFRVFKQCPEAKVVYIAPLKALVKERVADWKVKFE 769
LL GK+ + R F E + I + + + +
Sbjct: 27 SLENYPLTLLLGIRRVGKS-----SLLRAF--LNERPGILIDCRELYAERGHITREELIK 79
Query: 770 ARLKKKVVELTGDVTPDIQAISSASVIVTTPEK-WDGVSRSWQNRNYVQSVALIIIDEIH 828
L+ + + +++ + + + V R + ++ DE
Sbjct: 80 -ELQSTISPFQKFQSKFKISLNLKFLTLEPRKLSLREVFRELNDLGEELGEFIVAFDEAQ 138
Query: 829 LLGEDRGPVLEVIVSRVN-FISSYTKRNVRLVGLSTAL 865
L + +++ S + L G L
Sbjct: 139 YLRFYGSRGGKELLALFAYAYDSLPNLKIILTGSEVGL 176
>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 = 30.2 bits (68), Expect = 4.1
Identities = 20/129 (15%), Positives = 41/129 (31%), Gaps = 29/129 (22%)
Query: 710 LYHTDNNVLLGAPTGSGKTIAAEITCFRVFKQCPEA------KVVYIAPLKALVKERVAD 763
+ +L GSGKT ++ Q + + +AP + +V +A+
Sbjct: 17 MLRKRQMTVLDLHPGSGKT-----R--KILPQIIKDAIQQRLRTAVLAPTR-VVAAEMAE 68
Query: 764 WKVKFEARLKKKVVELTGDVTPDIQAISSASVI-VTTPEKWDGV-SRSWQNRNYVQSVAL 821
L+ V + + ++ V + + N V + L
Sbjct: 69 -------ALRGLPVRY--QTSAVQREHQGNEIVDVMC----HATLTHRLMSPNRVPNYNL 115
Query: 822 IIIDEIHLL 830
++DE H
Sbjct: 116 FVMDEAHFT 124
Score = 29.8 bits (67), Expect = 5.1
Identities = 4/19 (21%), Positives = 8/19 (42%)
Query: 60 AYHTNENLLICAPTGAGKT 78
+ ++ G+GKT
Sbjct: 17 MLRKRQMTVLDLHPGSGKT 35
>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 = 29.9 bits (68), Expect = 4.2
Identities = 16/31 (51%), Positives = 20/31 (64%), Gaps = 3/31 (9%)
Query: 701 PIQTQ-IFHCLYHTDNNVLLGAPTGSGKTIA 730
PIQ Q I L+ + +L APTGSGKT+A
Sbjct: 54 PIQMQAIPVMLHGRE--LLASAPTGSGKTLA 82
Score = 29.1 bits (66), Expect = 6.6
Identities = 14/30 (46%), Positives = 19/30 (63%)
Query: 67 LLICAPTGAGKTNVAMLTIAHQIKQHISQG 96
LL APTG+GKT + I Q+KQ ++G
Sbjct: 69 LLASAPTGSGKTLAFSIPILMQLKQPANKG 98
>3qkg_A Protein AMBP; beta barrel, binding protein, bound chromophore,
human plasm system; 2.30A {Homo sapiens}
Length = 193
Score = 29.4 bits (65), Expect = 4.6
Identities = 14/82 (17%), Positives = 23/82 (28%)
Query: 474 FALMFETKQWPHETPLRQIKLVTNRGYQSPILKPDILNKIEQRGLTVEDLREMPAKEISY 533
+A+ K H P KL L D + G+ + + M +
Sbjct: 111 YAIFLTKKFSRHHGPTITAKLYGRAPQLRETLLQDFRVVAQGVGIPEDSIFTMADRGECV 170
Query: 534 MLRDPHVGDKVKQCAWEIPLLE 555
+ + AW P E
Sbjct: 171 PGEQEPEPILIPRSAWSHPQFE 192
>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 = 30.0 bits (67), Expect = 5.0
Identities = 12/39 (30%), Positives = 17/39 (43%), Gaps = 4/39 (10%)
Query: 62 HTNENLLICAPTGAGKTNVAMLTIAHQIKQHISQGTEMY 100
TN N I A GAGK+ A + + QG+ +
Sbjct: 33 RTNSNWTILAKPGAGKSFTAK----MLLLREYMQGSRVI 67
>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 = 29.9 bits (67), Expect = 5.0
Identities = 25/158 (15%), Positives = 50/158 (31%), Gaps = 39/158 (24%)
Query: 682 VSALQQPQYESLYKFSHFNPIQTQIFHCLYHTDNNVLLGAPTGSGKT------IAAEITC 735
VSA+ Q + + I + ++ G+GKT I E
Sbjct: 162 VSAITQAERIGEPDYEVDEDI--------FRKKRLTIMDLHPGAGKTKRILPSIVREALK 213
Query: 736 FRVFKQCPEAKVVYIAPLKALVKERVADWKVKFEARLKKKVVELTGDVTPDIQAISSASV 795
R+ + + +AP + + + L+ + TP +++ +
Sbjct: 214 RRL-------RTLILAPTRVVA-AEME-------EALRGLPI---RYQTPAVKSDHTGRE 255
Query: 796 IVT--TPEKWDGV-SRSWQNRNYVQSVALIIIDEIHLL 830
IV + + V + LI++DE H
Sbjct: 256 IVDLMC----HATFTTRLLSSTRVPNYNLIVMDEAHFT 289
>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding,
nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A
{Thermococcus onnurineus}
Length = 604
Score = 29.3 bits (66), Expect = 8.1
Identities = 12/68 (17%), Positives = 23/68 (33%), Gaps = 10/68 (14%)
Query: 38 IGQEVFKGVKSLNRIQSLVYDTAYHTNENLLICAPTGAGKTNVAMLTIAHQIKQHISQGT 97
IGQE V+ + TA + ++L+ G GK+ + + +
Sbjct: 44 IGQE--HAVEVI--------KTAANQKRHVLLIGEPGTGKSMLGQAMAELLPTETLEDIL 93
Query: 98 EMYNAKHG 105
N +
Sbjct: 94 VFPNPEDE 101
>3hnc_A Ribonucleoside-diphosphate reductase large subuni; oxidoreductase,
ribonucleotide reductase, allosteric enzyme, binding,
DNA replication; HET: TTP; 2.41A {Homo sapiens} PDB:
3hnd_A* 3hne_A* 3hnf_A*
Length = 792
Score = 29.4 bits (66), Expect = 8.4
Identities = 19/94 (20%), Positives = 36/94 (38%), Gaps = 4/94 (4%)
Query: 423 LQTLLSRGRVNSFSLVSDLEYVNQNVIRIIRALFEITLHRNNAIMAARFLKFALMFETKQ 482
+ + +S V+ +E ++ L T H + AI+AAR L ETK+
Sbjct: 36 PAQITMKVIQGLYSGVTTVE-LDTLAAETAATL--TTKHPDYAILAARIAVSNLHKETKK 92
Query: 483 WPHETPLRQIKLVT-NRGYQSPILKPDILNKIEQ 515
+ + + G SP++ L+ +
Sbjct: 93 VFSDVMEDLYNYINPHNGKHSPMVAKSTLDIVLA 126
>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 = 29.5 bits (66), Expect = 8.7
Identities = 7/33 (21%), Positives = 15/33 (45%), Gaps = 3/33 (9%)
Query: 745 AKVVYIAP---LKALVKERVADWKVKFEARLKK 774
+ + + P A+ ++R ++ K AR K
Sbjct: 1452 GQAIVVHPDYLYGAITEDRYNEYVAKVSAREKS 1484
>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI,
protein structure initiative; 1.90A {Geobacillus
stearothermophilus} SCOP: c.37.1.6
Length = 201
Score = 28.5 bits (64), Expect = 8.8
Identities = 17/91 (18%), Positives = 31/91 (34%), Gaps = 26/91 (28%)
Query: 69 ICAPTGAGKTNVAMLTIAHQIKQHISQGTEMYNAKHGCYVHIGILD----VLQIFGRAGR 124
I + +GKT T+A+Q+ Q + + G V + +D G
Sbjct: 27 IDGLSRSGKT-----TLANQLSQTLRE--------QGISVCVFHMDDHIVERAKRYHTGN 73
Query: 125 PQYNTSDLGRTASNYYIKHNDIELFTEHMTK 155
++ YY D+E T + +
Sbjct: 74 EEWF---------EYYYLQWDVEWLTHQLFR 95
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 0.135 0.398
Gapped
Lambda K H
0.267 0.0515 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 15,797,117
Number of extensions: 991751
Number of successful extensions: 2402
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2289
Number of HSP's successfully gapped: 121
Length of query: 1034
Length of database: 6,701,793
Length adjustment: 103
Effective length of query: 931
Effective length of database: 3,825,930
Effective search space: 3561940830
Effective search space used: 3561940830
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: 62 (28.2 bits)