RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy15878
(693 letters)
>2va8_A SSO2462, SKI2-type helicase; hydrolase, DNA repair, ATP-bindin
nucleotide-binding; 2.30A {Sulfolobus solfataricus}
Length = 715
Score = 389 bits (1001), Expect = e-126
Identities = 158/674 (23%), Positives = 254/674 (37%), Gaps = 67/674 (9%)
Query: 2 VHEKYQSLAKAAEEFKFYLEEYAGVKGQYPPTKRQLNKKSIYICTIEKGSKLIGSLIQEN 61
+EKY + K E F + +G Y L I I T EK L +
Sbjct: 88 TNEKYLTF-KDWELIGFKVAMTSG---DYDTDDAWLKNYDIIITTYEKLDSLWRHRPE-- 141
Query: 62 RIDEIGLIVIDEFHMLNEPQRGPILECVVSKVLYLKKSIQIFAMSATIGNINALSTFIEG 121
++E+ V+DE H LN+P+RGP++E V + K + A+SATI N ++ ++
Sbjct: 142 WLNEVNYFVLDELHYLNDPERGPVVESVTIRA----KRRNLLALSATISNYKQIAKWLGA 197
Query: 122 ITYVENSRPTKHSEYV----TVDKRVFQSFDGKSLTEIYADNLDYSLTGSGPDAVLHLVQ 177
N RP E V K F + +++ D+ + L +
Sbjct: 198 EPVATNWRPVPLIEGVIYPERKKKEYNVIFKDNTTKKVHGDDAIIAY-------TLDSLS 250
Query: 178 GNLMVLIFCSSKIACSNLALRL-QFDRFPGTKEYKKQEKEDLIEALKEENDGKLSTNLEE 236
N VL+F +S+ + AL++ + F E E ++ ++E L+
Sbjct: 251 KNGQVLVFRNSRKMAESTALKIANYMNFVSLDENALSEILKQLDDIEEGGSD-EKELLKS 309
Query: 237 CILYGVAYHHADLTAGERRLIEEAYLAGTLQIICCTSTLAAGVNLPAQRVIIRDSYV--- 293
I GVAYHHA L+ R LIEE + +++I T TLAAGVNLPA+ VII D Y
Sbjct: 310 LISKGVAYHHAGLSKALRDLIEEGFRQRKIKVIVATPTLAAGVNLPARTVIIGDIYRFNK 369
Query: 294 ----GRDFISLNMYKQMVGRAGRTGLQESGESIMLCKTMQDFLR-FSSMMNAGPEPISSH 348
D I + YKQM GRAGR G + GESI++ + +D R F + + EPI S
Sbjct: 370 KIAGYYDEIPIMEYKQMSGRAGRPGFDQIGESIVVVRDKEDVDRVFKKYVLSDVEPIESK 429
Query: 349 MDP-PTLVDLILEVVAANLCSSLEDVKTLIKHTLFYQLKSPEDQQTFLETTLSEIVASLL 407
+ +L +++A S + ++ +L + ++ + LL
Sbjct: 430 LGSERAFYTFLLGILSAEGNLSEKQLENFAYESLLA--------KQLVDVYFDRAIRWLL 481
Query: 408 ASKGTMLTMNEAGHLSLTSIAKAAVQAGLSHDVCLIIYSDLLHNKLNFCLLNSLHMLFLV 467
+ +LT+ K ++ II L C L LH+L
Sbjct: 482 EHS--FIKEEG-NTFALTNFGKRVADLYINPFTADIIR-KGLEGHKASCELAYLHLLAFT 537
Query: 468 IPLEYRIPSDGILLSRSKVYDRYTKFHPQTLRVAEALGVTENLVALNVTGKLKDEKKALL 527
++ + L + E +DE +
Sbjct: 538 PDGPLVSVGRNEEEELIELLED----LDCELLIEEPYE--------------EDEYSLYI 579
Query: 528 CRFFHACILYDVLNFDNHQKVAKMYGIQNSHLQNFLNVTSYFASKVYRFCEELPELWCYK 587
A I+ D ++ + + Y I + L+N + + Y EL +L +
Sbjct: 580 NALKVALIMKDWMDEVDEDTILSKYNIGSGDLRNMVETMDWLTYSAYHLSREL-KLNEHA 638
Query: 588 QLLTDLPQTLMYCRAPNLRALMDLPGVKIGRARQLLNAGYSSLELIARADAKEMVAKIRH 647
L L + L L+ + GV RAR L N G L + K
Sbjct: 639 DKLRILNLRVRDGIKEELLELVQISGVGRKRARLLYNNGIKELGDVVMNPDK----VKNL 694
Query: 648 LPLRSARNLISAAK 661
L + ++ A
Sbjct: 695 LGQKLGEKVVQEAA 708
>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 = 384 bits (989), Expect = e-124
Identities = 162/683 (23%), Positives = 284/683 (41%), Gaps = 74/683 (10%)
Query: 2 VHEKYQSLAKAAEEFKFYLEEYAGVKGQYPPTKRQLNKKSIYICTIEKGSKLIGSLIQEN 61
EKY+S K E+ + G Y L I + T EK LI + + +
Sbjct: 81 AGEKYESFKKW-EKIGLRIGISTG---DYESRDEHLGDCDIIVTTSEKADSLIRN--RAS 134
Query: 62 RIDEIGLIVIDEFHMLNEPQRGPILECVVSKVLYLKKSIQIFAMSATIGNINALSTFIEG 121
I + +V+DE H+L+ +RG LE +V+K+ + K++++ +SAT N+ ++ +++
Sbjct: 135 WIKAVSCLVVDEIHLLDSEKRGATLEILVTKMRRMNKALRVIGLSATAPNVTEIAEWLDA 194
Query: 122 ITYVENSRPTKHSEYVTVDKRVFQSFDGKSLTEIYADNLDYSLTGSGPDAVLHLVQGNLM 181
YV + RP E V + + FDG S + V V N
Sbjct: 195 DYYVSDWRPVPLVEGVLCEGTLEL-FDGA---------FSTSRRVKFEELVEECVAENGG 244
Query: 182 VLIFCSSKIACSNLALRLQFDRFPGTKEYKKQEKEDLIEALKEENDGKLSTNLEECILYG 241
VL+F S++ A++L K E E L +A+ EEN+G++S L EC+ G
Sbjct: 245 VLVFESTRRGAEKTAVKL------SAITAKYVENEGLEKAILEENEGEMSRKLAECVRKG 298
Query: 242 VAYHHADLTAGERRLIEEAYLAGTLQIICCTSTLAAGVNLPAQRVIIRDSYVGRDF---I 298
A+HHA L G+RR++E+A+ G ++++ T TLAAGVNLPA+RVI+R Y + I
Sbjct: 299 AAFHHAGLLNGQRRVVEDAFRRGNIKVVVATPTLAAGVNLPARRVIVRSLYRFDGYSKRI 358
Query: 299 SLNMYKQMVGRAGRTGLQESGESIMLCKTMQDFLRFSSMMNAGPEPISSHMDP-PTLVDL 357
++ YKQM GRAGR G+ E GE+I++ + + PE I+S + L
Sbjct: 359 KVSEYKQMAGRAGRPGMDERGEAIIIVGKRDREIAVKRYIFGEPERITSKLGVETHLRFH 418
Query: 358 ILEVVAANLCSSLEDVKTLIKHTLFYQLKSPEDQQTFLETTLSEIVASLLASKGTMLTMN 417
L ++ +LE+++ T F++ + L L +V L M+
Sbjct: 419 SLSIICDGYAKTLEELEDFFADTFFFKQ-----NEISLSYELERVVRQLENWG--MVV-- 469
Query: 418 EAGHLSLTSIAKAAVQAGLSHDVCLIIYSDLLHNKLNFCLLNSLHMLFLVIPLEYRIPSD 477
EA HL+ T + + + I + L +++ + +LH++
Sbjct: 470 EAAHLAPTKLGSLVSRLYIDPLTGFIFHDVL--SRMELSDIGALHLICRT---------- 517
Query: 478 GILLSRSKVYDRYTKFHPQTLRVAEALGVTENLVALN----VTGKLKDEKKALLCRFFHA 533
T+R ++ E E L A
Sbjct: 518 -------------PDMERLTVRKTDSWVEEEAFRLRKELSYYPSDFSVEYDWFLSEVKTA 564
Query: 534 CILYDVLNFDNHQKVAKMYGIQNSHLQNFLNVTSYFASKVYRFCEELPELWCYKQLLTDL 593
L D + + ++ YGI L+ + + ++ + R EE+ ++ L
Sbjct: 565 LCLKDWIEEKDEDEICAKYGIAPGDLRRIVETAEWLSNAMNRIAEEVGNTS-----VSGL 619
Query: 594 PQTLMYCRAPNLRALMDLPGVKIGRARQLLNAGYSSLELIARADAKEMVAKIRHLPLRSA 653
+ + + L L+ + + RAR+L NAG + E I R K + A
Sbjct: 620 TERIKHGVKEELLELVRIRHIGRVRARKLYNAGIRNAEDIVRHREKV----ASLIGRGIA 675
Query: 654 RNLISAAKLHFITKMDKVEAMKN 676
++ + + + A+++
Sbjct: 676 ERVVEGISVKSLN-PESAAALEH 697
>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 = 374 bits (961), Expect = e-120
Identities = 142/669 (21%), Positives = 255/669 (38%), Gaps = 56/669 (8%)
Query: 2 VHEKYQSLAKAAEEFKFYLEEYAGVKGQYPPTKRQLNKKSIYICTIEKGSKLIGSLIQEN 61
EK+Q + E+ + G Y L K I I T EK L+ +
Sbjct: 81 AEEKFQEF-QDWEKIGLRVAMATG---DYDSKDEWLGKYDIIIATAEKFDSLLRH--GSS 134
Query: 62 RIDEIGLIVIDEFHMLNEPQRGPILECVVSKVLYLKKSIQIFAMSATIGNINALSTFIEG 121
I ++ ++V DE H++ RG LE +++ + QI +SATIGN L+ ++
Sbjct: 135 WIKDVKILVADEIHLIGSRDRGATLEVILAH---MLGKAQIIGLSATIGNPEELAEWLNA 191
Query: 122 ITYVENSRPTKHSEYVTVDKRVFQSFDGKSLTEIYADNLDYSLTGSGPDAVLHLVQGNLM 181
V + RP K V V D + V ++
Sbjct: 192 ELIVSDWRPVKLRRGVFYQGFVTWEDG-------SIDRFSSWE-----ELVYDAIRKKKG 239
Query: 182 VLIFCSSKIACSNLALRLQFDRFPGTKEYKKQEKEDLIEALKEENDGKLSTNLEECILYG 241
LIF + + +AL L + K E L E + + L + I G
Sbjct: 240 ALIFVNMRRKAERVALELS-KKVK--SLLTKPEIRALNELADSLEENPTNEKLAKAIRGG 296
Query: 242 VAYHHADLTAGERRLIEEAYLAGTLQIICCTSTLAAGVNLPAQRVIIRDSYV----GRDF 297
VA+HHA L ER L+EE + G ++ + T TL+AG+N PA RVIIRD + G +
Sbjct: 297 VAFHHAGLGRDERVLVEENFRKGIIKAVVATPTLSAGINTPAFRVIIRDIWRYSDFGMER 356
Query: 298 ISLNMYKQMVGRAGRTGLQESGESIMLCKTMQDFLRFSSMMNAGPEPISSH-MDPPTLVD 356
I + QM+GRAGR E GE I++ + + + PE + S + L
Sbjct: 357 IPIIEVHQMLGRAGRPKYDEVGEGIIVSTSDDPREVMNHYIFGKPEKLFSQLSNESNLRS 416
Query: 357 LILEVVAANLCSSLEDVKTLIKHTLFYQLKSPEDQQTFLETTLSEIVASLLASKGTMLTM 416
+L ++A S++E++ I +T + + LE + I+ LL ++ + +
Sbjct: 417 QVLALIATFGYSTVEEILKFISNTFYAYQRKDTYS---LEEKIRNILYFLLENE--FIEI 471
Query: 417 NEAGHLSLTSIAKAAVQAGLSHDVCLIIYSDLLHNKLNFCLLNSLHMLFL---VIPLEYR 473
+ + S+ + + + + + + H++ L + P Y
Sbjct: 472 SLEDKIRPLSLGIRTAKLYIDPYTAKMFKDKMEEVVKDPNPIGIFHLISLTPDITPFNYS 531
Query: 474 IPSDGILLSRSKVYDRYTKFHPQTLRVAEALGVTENLVALNVTGKLKDEKKALLCRFFHA 533
+ + + + L + ++G ++ F A
Sbjct: 532 -------------KREFERLEEEYYEFKDRLYFDDP----YISGYDPYLERKFFRAFKTA 574
Query: 534 CILYDVLNFDNHQKVAKMYGIQNSHLQNFLNVTSYFASKVYRFCEELPELWCYKQLLTDL 593
+L +N ++ + Y ++ + + + + + L L L
Sbjct: 575 LVLLAWINEVPEGEIVEKYSVEPGDIYRIVETAEWLVYSLKEIAKVLGAYEIVDYLE-TL 633
Query: 594 PQTLMYCRAPNLRALMDLPGVKIGRARQLLNAGYSSLELIARADAKEMVAKIRHLPLRSA 653
+ Y L LM LP V RAR L N+G+ S+E I++A +E++ KI + +++
Sbjct: 634 RVRVKYGIREELIPLMQLPLVGRRRARALYNSGFRSIEDISQARPEELL-KIEGIGVKTV 692
Query: 654 RNLISAAKL 662
+
Sbjct: 693 EAIFKFLGK 701
>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 = 139 bits (350), Expect = 3e-34
Identities = 77/371 (20%), Positives = 146/371 (39%), Gaps = 57/371 (15%)
Query: 61 NRIDEIGLIVIDEFHMLNEPQRGPILECVVSKVLYLKKSIQIFAMSATIGNINALSTFIE 120
+ E+ ++ DE H + + +RG + E + + L ++ +SATI N + +I
Sbjct: 286 EVMREVAWVIFDEVHYMRDKERGVVWEETI---ILLPDKVRYVFLSATIPNAMEFAEWIC 342
Query: 121 GI----TYV--ENSRPT--KHSEYVTVDKRVFQSFDGK-------------SLTEIYADN 159
I ++ N RPT +H + ++ D K S++ D+
Sbjct: 343 KIHSQPCHIVYTNFRPTPLQHYLFPAHGDGIYLVVDEKSTFREENFQKAMASISNQIGDD 402
Query: 160 LDYSLTGSG------------------PDAVLHLVQGNLM-VLIFCSSKIACSNLALRLQ 200
+ + + V + + V++F SK C LAL++
Sbjct: 403 PNSTDSRGKKGQTYKGGSAKGDAKGDIYKIVKMIWKKKYNPVIVFSFSKRDCEELALKMS 462
Query: 201 FDRF--PGTKEYKKQEKEDLIEALKEENDGKLST-NLEECILYGVAYHHADLTAGERRLI 257
F KE + + I L E + ++ + G+ HH+ L + +I
Sbjct: 463 KLDFNSDDEKEALTKIFNNAIALLPETDRELPQIKHILPLLRRGIGIHHSGLLPILKEVI 522
Query: 258 EEAYLAGTLQIICCTSTLAAGVNLPAQRVIIRDS--YVGRDF--ISLNMYKQMVGRAGRT 313
E + G L+++ T T + G+N+PA+ V+ + G+ F +S Y QM GRAGR
Sbjct: 523 EILFQEGFLKVLFATETFSIGLNMPAKTVVFTSVRKWDGQQFRWVSGGEYIQMSGRAGRR 582
Query: 314 GLQESGESIMLCKTMQDFLRFSSMMNAGPEPISSHMDPPTLVDLILEVVAANLCSSLEDV 373
GL + G IM+ + M+ + + S + L L +
Sbjct: 583 GLDDRGIVIMMIDEKMEPQVAKGMVKGQADRLDSAFHLGYNMILNL------MRVEGISP 636
Query: 374 KTLIKHTLFYQ 384
+ +++H+ F+Q
Sbjct: 637 EFMLEHS-FFQ 646
>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 = 139 bits (350), Expect = 4e-34
Identities = 77/371 (20%), Positives = 146/371 (39%), Gaps = 57/371 (15%)
Query: 61 NRIDEIGLIVIDEFHMLNEPQRGPILECVVSKVLYLKKSIQIFAMSATIGNINALSTFIE 120
+ E+ ++ DE H + + +RG + E + + L ++ +SATI N + +I
Sbjct: 188 EVMREVAWVIFDEVHYMRDKERGVVWEETI---ILLPDKVRYVFLSATIPNAMEFAEWIC 244
Query: 121 GI----TYV--ENSRPT--KHSEYVTVDKRVFQSFDGK-------------SLTEIYADN 159
I ++ N RPT +H + ++ D K S++ D+
Sbjct: 245 KIHSQPCHIVYTNFRPTPLQHYLFPAHGDGIYLVVDEKSTFREENFQKAMASISNQIGDD 304
Query: 160 LDYSLTGSG------------------PDAVLHLVQGNLM-VLIFCSSKIACSNLALRLQ 200
+ + + V + + V++F SK C LAL++
Sbjct: 305 PNSTDSRGKKGQTYKGGSAKGDAKGDIYKIVKMIWKKKYNPVIVFSFSKRDCEELALKMS 364
Query: 201 FDRF--PGTKEYKKQEKEDLIEALKEENDGKLST-NLEECILYGVAYHHADLTAGERRLI 257
F KE + + I L E + ++ + G+ HH+ L + +I
Sbjct: 365 KLDFNSDDEKEALTKIFNNAIALLPETDRELPQIKHILPLLRRGIGIHHSGLLPILKEVI 424
Query: 258 EEAYLAGTLQIICCTSTLAAGVNLPAQRVIIRDS--YVGRDF--ISLNMYKQMVGRAGRT 313
E + G L+++ T T + G+N+PA+ V+ + G+ F +S Y QM GRAGR
Sbjct: 425 EILFQEGFLKVLFATETFSIGLNMPAKTVVFTSVRKWDGQQFRWVSGGEYIQMSGRAGRR 484
Query: 314 GLQESGESIMLCKTMQDFLRFSSMMNAGPEPISSHMDPPTLVDLILEVVAANLCSSLEDV 373
GL + G IM+ + M+ + + S + L L +
Sbjct: 485 GLDDRGIVIMMIDEKMEPQVAKGMVKGQADRLDSAFHLGYNMILNL------MRVEGISP 538
Query: 374 KTLIKHTLFYQ 384
+ +++H+ F+Q
Sbjct: 539 EFMLEHS-FFQ 548
>4a4z_A Antiviral helicase SKI2; hydrolase, ATPase, mRNA degradation,
exosome; HET: ANP; 2.40A {Saccharomyces cerevisiae} PDB:
4a4k_A
Length = 997
Score = 96.1 bits (238), Expect = 1e-20
Identities = 51/193 (26%), Positives = 81/193 (41%), Gaps = 11/193 (5%)
Query: 169 PDAVLHLVQGNLM-VLIFCSSKIACSNLALRLQFDRFPGTKEYKKQEK---EDLIEALKE 224
P+ V +L + L+ +++F SK C A L+ F + K Q E I LK+
Sbjct: 325 PEIVNYLRKRELLPMVVFVFSKKRCEEYADWLEGINFC-NNKEKSQIHMFIEKSITRLKK 383
Query: 225 ENDGKLS-TNLEECILYGVAYHHADLTAGERRLIEEAYLAGTLQIICCTSTLAAGVNLPA 283
E+ + G+A HH L + LIE + G ++++ T T A G+NLP
Sbjct: 384 EDRDLPQILKTRSLLERGIAVHHGGLLPIVKELIEILFSKGFIKVLFATETFAMGLNLPT 443
Query: 284 QRVIIRDS--YVGRDF--ISLNMYKQMVGRAGRTGLQESGESIMLCKT-MQDFLRFSSMM 338
+ VI + G ++ + QM GRAGR GL +G I++ F +
Sbjct: 444 RTVIFSSIRKHDGNGLRELTPGEFTQMAGRAGRRGLDSTGTVIVMAYNSPLSIATFKEVT 503
Query: 339 NAGPEPISSHMDP 351
P + S
Sbjct: 504 MGVPTRLQSQFRL 516
Score = 48.7 bits (115), Expect = 7e-06
Identities = 21/97 (21%), Positives = 42/97 (43%), Gaps = 9/97 (9%)
Query: 61 NRIDEIGLIVIDEFHMLNEPQRGPILECVVSKVLYLKKSIQIFAMSATIGNINALSTFIE 120
+ I ++ ++ DE H +N+ RG + E V+ L + ++ +SAT+ N + +I
Sbjct: 143 DLIRDVEFVIFDEVHYVNDQDRGVVWEEVII---MLPQHVKFILLSATVPNTYEFANWIG 199
Query: 121 GI----TYVENS--RPTKHSEYVTVDKRVFQSFDGKS 151
YV ++ RP + K + + S
Sbjct: 200 RTKQKNIYVISTPKRPVPLEINIWAKKELIPVINQNS 236
>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 = 59.9 bits (144), Expect = 3e-09
Identities = 85/554 (15%), Positives = 169/554 (30%), Gaps = 164/554 (29%)
Query: 199 LQFDRFPGTKEYKKQE-KEDLIEALKEENDGKLSTNLEECILYGVAYHH----ADLTAGE 253
+ F+ G +Y+ ++ +A + D K ++ + IL H D +G
Sbjct: 7 MDFET--GEHQYQYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGT 64
Query: 254 RRLIE----------EAYLAGTLQI----ICCTSTLAAGVNLPAQRVIIRDSYVGRDFIS 299
RL + ++ L+I + S + P+ + R +
Sbjct: 65 LRLFWTLLSKQEEMVQKFVEEVLRINYKFL--MSPIKTEQRQPSMMTRMYIEQRDRLYND 122
Query: 300 LNMYKQM-VGRAG-----RTGLQE--SGESIMLCKTMQDFLRFSSMMNAGPEPISSHMDP 351
++ + V R R L E +++++ ++ +G
Sbjct: 123 NQVFAKYNVSRLQPYLKLRQALLELRPAKNVLID----------GVLGSGKT-------- 164
Query: 352 PTLVDLILEVVAANLCSSLEDVKTLIKHTLFY----QLKSPEDQQTFLETTLSEIVASLL 407
VA ++C S V+ + +F+ SPE L+ L +I +
Sbjct: 165 ---------WVALDVCLS-YKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWT 214
Query: 408 A----SKGTMLTMNEA-GHLSLTSIAKAAVQAGLSHDVCLIIYSDLLH----NKLNF-C- 456
+ S L ++ L +K ++ CL++ ++ + N N C
Sbjct: 215 SRSDHSSNIKLRIHSIQAELRRLLKSK-------PYENCLLVLLNVQNAKAWNAFNLSCK 267
Query: 457 -LL---NSLHMLFLVIPLEYRIPSDGIL--LSRSKVYD---RYTKFHPQTLRVAEALGVT 507
LL FL I D L+ +V +Y PQ L E L
Sbjct: 268 ILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLP-REVLTT- 325
Query: 508 ENLVALNVTGKLKDEKKALLCRFFHACILYDVLNFDNHQKVAKMYGIQNSHLQNFLNV-T 566
N L++ + + A + H +N D + +++ LNV
Sbjct: 326 -NPRRLSIIAESIRDGLATWDNWKH-------VNCDKLTTI----------IESSLNVLE 367
Query: 567 SYFASKVYRFCEELPE-----------LWCYKQLLTDLPQTLMYCRAPNLRALMDLPGVK 615
K++ P +W ++ ++
Sbjct: 368 PAEYRKMFDRLSVFPPSAHIPTILLSLIWF--DVIKSDVMVVV----------------- 408
Query: 616 IGRARQLLNAGYSSLELIARADAKEMVAKIRHLPLRSARNLISAAKLHFITKMDKVEAMK 675
+L YS L+ + KE I + L L + LH +
Sbjct: 409 ----NKLHK--YS---LVEK-QPKESTISIPSIYLELKVKLENEYALH-----------R 447
Query: 676 NLIQ--NLQKNYDN 687
+++ N+ K +D+
Sbjct: 448 SIVDHYNIPKTFDS 461
Score = 54.1 bits (129), Expect = 1e-07
Identities = 62/441 (14%), Positives = 120/441 (27%), Gaps = 151/441 (34%)
Query: 138 TVDKRVFQSFDGKSLTEIYADNLDYSLTGSGPDAVLHLVQGNLMVLIFCSSKIACSN--L 195
T K+V + T I D+ +LT PD V L+ L + +
Sbjct: 272 TRFKQVTDFLSAATTTHISLDHHSMTLT---PDEVKSLLLKYLDCRPQDLPREVLTTNPR 328
Query: 196 ALRL---QFDRFPGTKEYKKQEKEDLIEALKEENDGKLSTNLEECILYGVAYHHADLTAG 252
L + T + K D KL+T +E + L
Sbjct: 329 RLSIIAESIRDGLATWDNWKHVNCD-----------KLTTIIESSL--------NVLEPA 369
Query: 253 ERRLIEEAYLAGTLQIICCTSTLAAGVNLPAQRVIIRDSYVGRDFISLNMYKQMVGRAGR 312
E R + + L + ++P + + ++ ++
Sbjct: 370 EYR---KMFDR--LSV------FPPSAHIPTILLSL-------------IWFDVI----- 400
Query: 313 TGLQESGESIMLCKTMQDFLRFSSMMNAGPEPISSHMDPPTLVDLILEVVAANLCSSLED 372
+ ++ + L S++ P+ + + + LE L LE+
Sbjct: 401 ---KSDVMVVV------NKLHKYSLVEKQPKESTIS-----IPSIYLE-----LKVKLEN 441
Query: 373 VKTLIKHTLF---YQLKSPEDQQTFLETTLSEIVASLLASKGTMLTMNEAGHLSLTSIAK 429
L H Y + D + L + S + HL
Sbjct: 442 EYAL--HRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGH-----------HLK------ 482
Query: 430 AAVQAGLSHDVCLI--IYSDLLHNKLNFCLLNSLHMLFLVIPLEYRIPSDGI-------- 479
+ L ++ D F LE +I D
Sbjct: 483 ---NIEHPERMTLFRMVFLD-----FRF--------------LEQKIRHDSTAWNASGSI 520
Query: 480 --LLSRSKVYDRY-TKFHPQTLRVAEALGVTENLVALNVTGKLKDEKKALLCRFFHACIL 536
L + K Y Y P+ R+ A+ + + K E+ + + + +L
Sbjct: 521 LNTLQQLKFYKPYICDNDPKYERLVNAI---LDFL-------PKIEENLICSK--YTDLL 568
Query: 537 YDVLNFDN-------HQKVAK 550
L ++ H++V +
Sbjct: 569 RIALMAEDEAIFEEAHKQVQR 589
Score = 28.7 bits (63), Expect = 9.1
Identities = 1/28 (3%), Positives = 13/28 (46%)
Query: 663 HFITKMDKVEAMKNLIQNLQKNYDNIVH 690
+ ++++ ++ + L+ + ++
Sbjct: 129 YNVSRLQPYLKLRQALLELRPAKNVLID 156
>3rc3_A ATP-dependent RNA helicase SUPV3L1, mitochondrial; SUV3, nucleus,
hydrolase; HET: ANP; 2.08A {Homo sapiens} PDB: 3rc8_A
Length = 677
Score = 48.8 bits (115), Expect = 5e-06
Identities = 25/136 (18%), Positives = 48/136 (35%), Gaps = 12/136 (8%)
Query: 233 NLEECILYGVAYHHADLTAGERRLIEEAY--LAGTLQIICCTSTLAAGVNLPAQRVII-- 288
E A + L G + + + +I+ T + G+NL +R+I
Sbjct: 338 RQIEIRGLESAVIYGSLPPGTKLAQAKKFNDPNDPCKILVATDAIGMGLNLSIRRIIFYS 397
Query: 289 -----RDSYVGRDF--ISLNMYKQMVGRAGRTGLQESGESIMLCKTMQDFLRFSSMMNAG 341
+ R+ I+ + Q+ GRAGR + E + +D ++
Sbjct: 398 LIKPSINEKGERELEPITTSQALQIAGRAGRFSSRFK-EGEVTTMNHEDLSLLKEILKRP 456
Query: 342 PEPISSHMDPPTLVDL 357
+PI + PT +
Sbjct: 457 VDPIRAAGLHPTAEQI 472
>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 = 45.6 bits (108), Expect = 5e-05
Identities = 52/310 (16%), Positives = 95/310 (30%), Gaps = 32/310 (10%)
Query: 13 AEEFKFYLEEYAGVKGQYPPTKRQLNKKSIYICTIEKGSKLIGSLIQENRIDEIGLIVID 72
E + EEY G R K + + T + E + L++ D
Sbjct: 150 KERLGIFGEEYVGEFSG-----RIKELKPLTVSTYDSAYVNA-----EKLGNRFMLLIFD 199
Query: 73 EFHMLNEPQRGPILECVVSKVLYLKKSIQIFAMSATI----GNINALSTFIEGITYVENS 128
E H L I + ++ ++AT G L + G +
Sbjct: 200 EVHHLPAESYVQIAQMSIAPFRL--------GLTATFEREDGRHEILKEVVGGKVFELFP 251
Query: 129 RPTKHSEYVTVD-KRVFQSFDGKSLTEIYADNLDYSLTGSGPDAVLHLVQG-NLMVLIFC 186
KR+F E Y L + N +V+
Sbjct: 252 DSLAGKHLAKYTIKRIFVPLAEDERVEYEKREKVYKQFLRARGITLRRAEDFNKIVMASG 311
Query: 187 SSKIACSNLALRLQFDRFPGTKEYKKQEKEDLIEALKEENDGKLSTNLEEC----ILYGV 242
+ A L + R + K ++ +++E +++ + + E ++ +
Sbjct: 312 YDERAYEALRAWEEARRIAFNSKNKIRKLREILERHRKDKIIIFTRHNELVYRISKVFLI 371
Query: 243 AYHHADLTAGERRLIEEAYLAGTLQIICCTSTLAAGVNLPAQRVIIRDSYVGRDFISLNM 302
+ ER I E + G + I + L G+++P V + S G S
Sbjct: 372 PAITHRTSREEREEILEGFRTGRFRAIVSSQVLDEGIDVPDANVGVIMSGSG----SARE 427
Query: 303 YKQMVGRAGR 312
Y Q +GR R
Sbjct: 428 YIQRLGRILR 437
>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 = 45.0 bits (106), Expect = 9e-05
Identities = 44/268 (16%), Positives = 81/268 (30%), Gaps = 92/268 (34%)
Query: 466 LVI---PLEYRIP---SDGILLSRSKVYDRYTKFHPQTLR--------------VAEALG 505
L + LE+ + + + S+ + +++ K P+ V + LG
Sbjct: 9 LTLSHGSLEHVLLVPTASFFIASQLQ--EQFNKILPEPTEGFAADDEPTTPAELVGKFLG 66
Query: 506 VTENLVALNVTGKLKDEKKALLCRFFHACILY--DVLNFDNHQKVAKMYGIQNSHLQNFL 563
+LV + G+ L F C L D+ H AK+ ++ L
Sbjct: 67 YVSSLVEPSKVGQFDQVLNLCL-TEFENCYLEGNDI-----HALAAKLLQENDTTLVKTK 120
Query: 564 NV-TSYFAS-------------------------KVY----------RFCEELPELWC-Y 586
+ +Y + ++ + EEL +L+ Y
Sbjct: 121 ELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQTY 180
Query: 587 KQLLTDLPQTLMYCRAPNLRALMDLPGVKIGRARQLLNAGYSSLELIARADAKEMVAKIR 646
L+ DL + A L L+ A ++ G + LE +
Sbjct: 181 HVLVGDLIKFS----AETLSELIRTT----LDAEKVFTQGLNILEWLENPSNT------- 225
Query: 647 HLP----LRSAR---NLISAAKL-HFIT 666
P L S LI +L H++
Sbjct: 226 --PDKDYLLSIPISCPLIGVIQLAHYVV 251
Score = 43.1 bits (101), Expect = 4e-04
Identities = 87/491 (17%), Positives = 150/491 (30%), Gaps = 172/491 (35%)
Query: 328 MQDFLRFSSMMNAGPEPISSHMDPPTLVDLI---LEVVAANL----CSSLEDV-KTLIKH 379
+Q+ +F+ ++ E ++ +P T +L+ L V++ + + V +
Sbjct: 33 LQE--QFNKILPEPTEGFAADDEPTTPAELVGKFLGYVSSLVEPSKVGQFDQVLNLCLTE 90
Query: 380 TLFYQLKSPEDQQTFLETTLSEI---VASLLASKGTMLTMN--------EAGHLSLTSIA 428
F + +LE +I A LL T L A ++
Sbjct: 91 --F--------ENCYLEGN--DIHALAAKLLQENDTTLVKTKELIKNYITARIMAKRPFD 138
Query: 429 KA-------AVQAGLSHDVCLI-------------------IYSDLLHNKLNFC--LLNS 460
K AV G + + I Y L+ + + F L+
Sbjct: 139 KKSNSALFRAVGEGNAQ-LVAIFGGQGNTDDYFEELRDLYQTYHVLVGDLIKFSAETLSE 197
Query: 461 L------------HMLFLVIPLEY--RIPSDGILLS--RS------------KVYDRYTK 492
L L ++ LE P LLS S V +
Sbjct: 198 LIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLG 257
Query: 493 FHPQTLR--VAEALGVTENLV-----ALNVTGK--LKDEKKALLCRFFHAC--------- 534
F P LR + A G ++ LV A + + +KA+ FF
Sbjct: 258 FTPGELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNT 317
Query: 535 -----ILYDVLNFDNHQKVAK-MYGIQN---SHLQNFLNVTSYFASKVYRFCEELPELWC 585
IL D L +N++ V M I N +Q+++N + LP
Sbjct: 318 SLPPSILEDSL--ENNEGVPSPMLSISNLTQEQVQDYVN----------KTNSHLPA--- 362
Query: 586 YKQL------------LTDLPQTLMYCRAPNLRALMDLPGVKIGRA----RQL------- 622
KQ+ ++ PQ+L Y LR G+ R R+L
Sbjct: 363 GKQVEISLVNGAKNLVVSGPPQSL-YGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFL 421
Query: 623 -LNAGY-SSLELIARADAKEMVAKIRHLPLRSARNLISAAKLHFITKMDKVEAMKNLIQN 680
+ + + S L L A +++ K L +A + I D + +
Sbjct: 422 PVASPFHSHL-L---VPASDLINK----DLVKNNVSFNAKDIQ-IPVYDTFDG-----SD 467
Query: 681 LQKNYDNIVHN 691
L+ +I
Sbjct: 468 LRVLSGSISER 478
Score = 37.7 bits (87), Expect = 0.013
Identities = 52/297 (17%), Positives = 95/297 (31%), Gaps = 80/297 (26%)
Query: 140 DKRVFQSFDGKSLTEIYADN---LDYSLTGSGPDAVLHLVQGNLMVLIFCSSKIACSNLA 196
D ++ G S+ +I +N L G + N +IF +
Sbjct: 1650 DNHFKDTY-GFSILDIVINNPVNLTIHFGGEKGKRIRE----NYSAMIFETIV------- 1697
Query: 197 LRLQFDRFPGTKEYKKQEKEDLIEALKEENDGKLS-T-NLEECIL-YGVAYHHADLTAGE 253
D T++ K+ E G LS T + + A DL
Sbjct: 1698 -----DGKLKTEKIFKEINEHSTSYTFRSEKGLLSATQFTQPALTLMEKAA-FEDLK--S 1749
Query: 254 RRLI-EEAYLAG------T-LQIICCTS---TLAAGVNLPAQRVIIRDSYVGRDFISLNM 302
+ LI +A AG L + ++ + V + R + V RD + +
Sbjct: 1750 KGLIPADATFAGHSLGEYAAL---ASLADVMSIESLVEVVFYRGMTMQVAVPRDELGRSN 1806
Query: 303 YKQMV----GRAGRTGLQESGESIMLCKTMQDFLRFSSMMNAGPEPISSHMDPPTLVDLI 358
Y M+ GR + QE+ + ++ E + +
Sbjct: 1807 YG-MIAINPGRVAASFSQEALQYVV-------------------ERVGKRT------GWL 1840
Query: 359 LEVVAANL------CS-SLEDVKTLIKHTLFYQLKSPEDQQTFLETTLS-EIVASLL 407
+E+V N+ + L + T+ F +L+ + + L+ +LS E V L
Sbjct: 1841 VEIVNYNVENQQYVAAGDLRALDTVTNVLNFIKLQKIDIIE--LQKSLSLEEVEGHL 1895
Score = 33.9 bits (77), Expect = 0.22
Identities = 42/274 (15%), Positives = 87/274 (31%), Gaps = 80/274 (29%)
Query: 449 LHNKLNFCLLN-------SLHMLF----------LVIPLEYRIPSDGILLSRSKVYD--- 488
+ F +L+ +L + F + + DG L + K++
Sbjct: 1653 FKDTYGFSILDIVINNPVNLTIHFGGEKGKRIRENYSAMIFETIVDGKLKTE-KIFKEIN 1711
Query: 489 ----RYTKFHPQTLRVAEALGVTENL-VALNVTGK-----LKDEKKALLCRFF--H---- 532
YT + L T+ AL + K LK + F H
Sbjct: 1712 EHSTSYTFRSEK-----GLLSATQFTQPALTLMEKAAFEDLKSKGLIPADATFAGHSLGE 1766
Query: 533 ----ACILYDVLNFDNHQKVAKMYG--IQNSHLQNFLNVTSY--FA----SKVYRFCEEL 580
A + DV++ ++ +V G +Q + ++ L ++Y A F +E
Sbjct: 1767 YAALASLA-DVMSIESLVEVVFYRGMTMQVAVPRDELGRSNYGMIAINPGRVAASFSQEA 1825
Query: 581 PELWCYKQLLTDLPQTLMYCRAPNLRALMDLPGVKIGRARQLLNAGYSSLELIARADAKE 640
+ +++ +T N ++ +Q + AG +L A
Sbjct: 1826 LQYVV-ERVGK---RTGWLVEIVNY----NVEN------QQYVAAG----DLRALDTVTN 1867
Query: 641 MVAKIRHLPLRSARNLISAAKLHFITKMDKVEAM 674
++ I+ + I +L +++VE
Sbjct: 1868 VLNFIK------LQK-IDIIELQKSLSLEEVEGH 1894
Score = 29.6 bits (66), Expect = 4.9
Identities = 20/113 (17%), Positives = 33/113 (29%), Gaps = 26/113 (23%)
Query: 592 DLPQTLMYCRAPNLRA--LMDLPGVKIGRARQLLNAGYSSLELIAR-----ADAKEMVAK 644
+P T + A L+ LP G A + + EL+ + + E
Sbjct: 21 LVP-TASFFIASQLQEQFNKILPEPTEGFAAD--DEPTTPAELVGKFLGYVSSLVEPSKV 77
Query: 645 IRHLP-LRSA-----RNLISAAKLH-FITKMD-----KVEAMKNLIQNLQKNY 685
+ L + +H K+ + K LI KNY
Sbjct: 78 GQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTKELI----KNY 126
>1vq8_Y 50S ribosomal protein L32E; ribosome 50S, protein-protein complex,
RNA-RNA complex, PROT complex, peptidyl transferase
reaction; HET: 1MA OMU OMG UR3 PSU SPS; 2.20A
{Haloarcula marismortui} SCOP: c.9.2.1 PDB: 1vq4_Y*
1vq5_Y* 1vq6_Y* 1vq7_Y* 1s72_Y* 1vq9_Y* 1vqk_Y* 1vql_Y*
1vqm_Y* 1vqn_Y* 1vqo_Y* 1vqp_Y* 1yhq_Y* 1yi2_Y* 1yij_Y*
1yit_Y* 1yj9_Y* 1yjn_Y* 1yjw_Y* 2otj_Y* ...
Length = 241
Score = 42.9 bits (100), Expect = 1e-04
Identities = 15/80 (18%), Positives = 30/80 (37%)
Query: 608 LMDLPGVKIGRARQLLNAGYSSLELIARADAKEMVAKIRHLPLRSARNLISAAKLHFITK 667
L D+ GV +A L AG+ S+E + AD + +AR L ++
Sbjct: 17 LTDISGVGPSKAESLREAGFESVEDVRGADQSALADVSGIGNALAARIKADVGGLEVESE 76
Query: 668 MDKVEAMKNLIQNLQKNYDN 687
+ + + ++ +
Sbjct: 77 TEAEVEEEGGEEAPDEDVET 96
>3fho_A ATP-dependent RNA helicase DBP5; mRNA export, ATPase, translation
termination, binding, hydrolase, membrane, mRNA
transport; 2.80A {Schizosaccharomyces pombe}
Length = 508
Score = 44.1 bits (105), Expect = 1e-04
Identities = 58/347 (16%), Positives = 103/347 (29%), Gaps = 138/347 (39%)
Query: 62 RIDEIGLIVIDEF-HMLNEPQRG------PILECVVSKVLYLKKSIQIFAMSATIGNINA 114
+I + V+DE +ML+ Q+G I L ++ QI SAT
Sbjct: 256 DARDIKVFVLDEADNMLD--QQGLGDQSMRIKH-------LLPRNTQIVLFSAT------ 300
Query: 115 LSTFIEGIT--YVENSRPT----KHSE---------YVTVDKRVFQSFDGKSLTEIYADN 159
S +E + N K E Y+ ++ L E+Y
Sbjct: 301 FSERVEKYAERFAPN--ANEIRLKTEELSVEGIKQLYMDCQSE-EHKYN--VLVELY-GL 354
Query: 160 LDYSLTGSGPDAVLHLVQGNLMVLIFCSSKIACSNLALRLQFDRFPGTKEYKKQEKEDLI 219
L + +IFC K +A
Sbjct: 355 LTIGQS-----------------IIFCKKKDTAEEIA----------------------- 374
Query: 220 EALKEENDGKLSTNLEECILYGVAYHHADLTAGERRLIEEAYLAGTLQIICCTSTLAAG- 278
+ + + VA +L +R I +++ GT +++ T+ +A G
Sbjct: 375 RRMTADG-------------HTVACLTGNLEGAQRDAIMDSFRVGTSKVLVTTNVIARGI 421
Query: 279 --------VN--LPAQRVIIRD--SYV---GRDFISLNMYKQMVGRAGRTGLQ----ESG 319
VN +P + D +Y+ GR GR GR G+
Sbjct: 422 DVSQVNLVVNYDMPLDQAGRPDPQTYLHRIGR-----------TGRFGRVGVSINFVHDK 470
Query: 320 ESIMLCKTMQDFLRFSSMMNAGPEPISSHMDPPTLVDLILEVVAANL 366
+S +Q++ F + + + + + +VV L
Sbjct: 471 KSWEEMNAIQEY--FQRPI--------TRVPTDDY-EELEKVVKNAL 506
>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 = 41.3 bits (96), Expect = 8e-04
Identities = 25/128 (19%), Positives = 47/128 (36%), Gaps = 8/128 (6%)
Query: 197 LRLQFDRFPGTKEYKKQEKEDLIEALKEENDGKLSTNLEECILYGVAYHHADLTAGERRL 256
+R Q R +K + + + E K + + + L+ E++L
Sbjct: 352 IREQLQRKQNSKIIVFTNYRETAKKIVNE-LVKDGIKAKRFVGQASKENDRGLSQREQKL 410
Query: 257 IEEAYLAGTLQIICCTSTLAAGVNLPAQRVIIRDSYVGRDFISLNMYKQMVGRAGRTGLQ 316
I + + G ++ TS G+++P +++ V S Q GR GR
Sbjct: 411 ILDEFARGEFNVLVATSVGEEGLDVPEVDLVVFYEPVP----SAIRSIQRRGRTGR---H 463
Query: 317 ESGESIML 324
G I+L
Sbjct: 464 MPGRVIIL 471
>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 = 39.2 bits (92), Expect = 0.005
Identities = 32/150 (21%), Positives = 63/150 (42%), Gaps = 38/150 (25%)
Query: 211 KKQEKEDLIEALKEENDGK--------------LSTNLEECILYGVAYHHADLTAGERRL 256
+ ED+++ + G+ ++ +L+ ++ AYH A+L ++
Sbjct: 250 TEDFIEDIVKLINGRYKGQSGIIYCFSQKDSEQVTVSLQNLGIHAGAYH-ANLEPEDKTT 308
Query: 257 IEEAYLAGTLQIICCTSTLA--AGVNLPAQRVIIRDSYVGRDFISLNM------YKQMVG 308
+ + A +Q++ +T+A G++ P R +V I +M Y Q G
Sbjct: 309 VHRKWSANEIQVVV--ATVAFGMGIDKPDVR------FV----IHHSMSKSMENYYQESG 356
Query: 309 RAGRTGLQESGESIMLCKTMQDFLRFSSMM 338
RAGR ++ + I+ D R SSM+
Sbjct: 357 RAGRDDMK--ADCILYY-GFGDIFRISSMV 383
>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 = 37.8 bits (88), Expect = 0.012
Identities = 49/362 (13%), Positives = 108/362 (29%), Gaps = 77/362 (21%)
Query: 64 DEIGLIVIDEF-HMLN---EPQRGPILECVVSKVLYLKKSIQIFAMSAT----IGNINAL 115
+ V+DE +L I + K +I+ SAT + +
Sbjct: 225 RFVDYKVLDEADRLLEIGFRDDLETISGILNEKNSKSADNIKTLLFSATLDDKVQKLANN 284
Query: 116 STFIEGITYVENSRPTKHSEYVTVDKRVFQSFDGKSLTEIYADNLDYSLTGSGPDAVLHL 175
+ +++ +E ++ + QS + ++ S+ + +
Sbjct: 285 IMNKKECLFLD---TVDKNEPEAHER-IDQSV-------VISEKFANSIFAAVEHIKKQI 333
Query: 176 --VQGNLMVLIFCSSKIACSNLALRLQFDRFPGTKEYKKQEKEDLIEALKEENDGKLSTN 233
N +IF + S L L+ +
Sbjct: 334 KERDSNYKAIIFAPTVKFTSFLCSILKNEFKKD--------------------------- 366
Query: 234 LEECILYGVAYHHADLTAGERRLIEEAYLAGTLQIICCTSTLAAGVNLPAQRVII----- 288
+ H +T +R + + + I+ CT A G++ P ++
Sbjct: 367 ------LPILEFHGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVP 420
Query: 289 --RDSYVGRDFISLNMYKQMVGRAGRTGLQESGESIMLCKTMQDFLRFSSMMNAGPEPIS 346
+Y+ R +GR R+G + G S++ +D L F + +
Sbjct: 421 SELANYIHR-----------IGRTARSG--KEGSSVLFI--CKDELPFVRELEDAKNIVI 465
Query: 347 SHMDPPTLVDLILEVVAANLCSSLEDVKTLIKHTLFYQLKSPEDQQTFLETTLSEIVASL 406
+ + + I V + ED+ ++ + +S + F E + +AS
Sbjct: 466 AKQEKYEPSEEIKSEVLEAVTEEPEDISDIVISLISS-YRSCIKEYRFSERRILPEIAST 524
Query: 407 LA 408
Sbjct: 525 YG 526
>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 = 37.3 bits (86), Expect = 0.019
Identities = 40/277 (14%), Positives = 63/277 (22%), Gaps = 97/277 (35%)
Query: 55 GSLIQENRID--EIGLIVIDEFHMLNEPQRGPILECVVSKVLYLKKSIQIFAMSATIGNI 112
G + + +I+ DE H + + V+ + + +AT
Sbjct: 306 GKFLADGGCSGGAYDIIICDECHSTD-STTILGIGTVLDQAETAGA-RLVVLATATPPG- 362
Query: 113 NALSTFIEGITYVENSRPTKHSEYVTVDKRVFQSFDGKSLTEIYADNLDYSLTGSGPDAV 172
+ P + E V + F GK A ++ G
Sbjct: 363 -------------SVTVPHPNIEEVALSNTGEIPFYGK------AIPIEAIRGGR----- 398
Query: 173 LHLVQGNLMVLIFCSSKIACSNLALRLQFDRFPGTKEYKKQEKEDLIEALKEENDGKLST 232
LIFC K+ + L +
Sbjct: 399 ---------HLIFC------------------HSKKK---------CDELAAK------- 415
Query: 233 NLEECILYGVAYHHADLTAGERRLIEEAYLAGTLQIICCTSTLAAGVNLPAQRVI----- 287
L + VAY+ R L ++ T L G VI
Sbjct: 416 -LSGLGINAVAYY--------RGLDVSVIPTIGDVVVVATDALMTGYTGDFDSVIDCNTC 466
Query: 288 ---IRDSYVGRDF--------ISLNMYKQMVGRAGRT 313
D + F Q GR GR
Sbjct: 467 VTQTVDFSLDPTFTIETTTVPQDAVSRSQRRGRTGRG 503
>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 = 36.3 bits (84), Expect = 0.020
Identities = 21/123 (17%), Positives = 38/123 (30%), Gaps = 24/123 (19%)
Query: 7 QSLAKAAEEFKFYLEEYAGVKGQYPP---TKRQLNKKSIYICTIEKGSKLIGSLIQEN-- 61
Q K + F G+ G + I I T + L SL+
Sbjct: 97 QLFRKEFQPFLKKWYRVIGLSGDTQLKISFPEVVKSCDIIISTAQI---LENSLLNLENG 153
Query: 62 -----RIDEIGLIVIDEFH-----------MLNEPQRGPILECVVSKVLYLKKSIQIFAM 105
++ + LI+IDE H M + + + + + QI +
Sbjct: 154 EDAGVQLSDFSLIIIDECHHTNKEAVYNNIMRHYLMQKLKNNRLKKENKPVIPLPQILGL 213
Query: 106 SAT 108
+A+
Sbjct: 214 TAS 216
>2z43_A DNA repair and recombination protein RADA; archaea, filament, DNA
binding, molecular SWI RECA, DMC1; HET: DNA; 1.93A
{Sulfolobus solfataricus} PDB: 2bke_A* 2dfl_A* 2zub_A*
2zuc_A* 2zud_A*
Length = 324
Score = 36.3 bits (84), Expect = 0.025
Identities = 23/80 (28%), Positives = 43/80 (53%), Gaps = 1/80 (1%)
Query: 604 NLRALMDLPGVKIGRARQLLNAGYSSLELIARADAKEMVAKIRHLPLRSARNLISAAKLH 663
N++ + DLPG+ +L+ AGYSSLE +A A ++ ++ +PL +A+ +I A+
Sbjct: 10 NIKTINDLPGISQTVINKLIEAGYSSLETLAVASPQD-LSVAAGIPLSTAQKIIKEARDA 68
Query: 664 FITKMDKVEAMKNLIQNLQK 683
+ +K N++K
Sbjct: 69 LDIRFKTALEVKKERMNVKK 88
>1pzn_A RAD51, DNA repair and recombination protein RAD51, RADA; heptameric
ring, heptamer, ring, oligomer, RAD51 polymerizat motif;
HET: DNA; 2.85A {Pyrococcus furiosus} SCOP: a.60.4.1
c.37.1.11
Length = 349
Score = 36.1 bits (83), Expect = 0.031
Identities = 21/60 (35%), Positives = 33/60 (55%), Gaps = 1/60 (1%)
Query: 605 LRALMDLPGVKIGRARQLLNAGYSSLELIARADAKEMVAKIRHLPLRSARNLISAAKLHF 664
+R++ DLPGV A +L AGY +LE IA A E+ ++ + +A +I AA+
Sbjct: 34 IRSIEDLPGVGPATAEKLREAGYDTLEAIAVASPIEL-KEVAGISEGTALKIIQAARKAA 92
>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 = 36.0 bits (84), Expect = 0.046
Identities = 28/109 (25%), Positives = 42/109 (38%), Gaps = 20/109 (18%)
Query: 242 VAYHHADLTAGERRLIEEAYLAGTLQIICCTSTLAAGVNLPAQRVIIRDSYVGRDFISLN 301
AYH A L R ++E + LQI+ T G+N P R +V + +
Sbjct: 264 AAYH-AGLENNVRADVQEKFQRDDLQIVVATVAFGMGINKPNVR------FV----VHFD 312
Query: 302 M------YKQMVGRAGRTGLQESGESIMLCKTMQDFLRFSSMMNAGPEP 344
+ Y Q GRAGR GL E+++ D + P+
Sbjct: 313 IPRNIESYYQETGRAGRDGL--PAEAMLF-YDPADMAWLRRCLEEKPQG 358
>2i1q_A DNA repair and recombination protein RADA; ATPase, recombinase, ATP
complex, calcium stimulation, RECA, DMC1; HET: DNA ANP;
1.90A {Methanococcus voltae} SCOP: a.60.4.1 c.37.1.11
PDB: 1xu4_A* 2b21_A* 2fpk_A* 2fpl_A* 2fpm_A* 1t4g_A*
3fyh_A* 2f1j_A* 2f1i_A* 2f1h_A* 3ntu_A* 3ewa_A* 3ew9_A*
3etl_A* 4dc9_A* 2gdj_A*
Length = 322
Score = 35.7 bits (82), Expect = 0.046
Identities = 20/78 (25%), Positives = 30/78 (38%), Gaps = 1/78 (1%)
Query: 606 RALMDLPGVKIGRARQLLNAGYSSLELIARADAKEMVAKIRHLPLRSARNLISAAKLHFI 665
L DLPGV A +L+ AGY IA A E+ I + ++A +I A+
Sbjct: 3 DNLTDLPGVGPSTAEKLVEAGYIDFMKIATATVGEL-TDIEGISEKAAAKMIMGARDLCD 61
Query: 666 TKMDKVEAMKNLIQNLQK 683
+ + K
Sbjct: 62 LGFKSGIDLLKQRSTVWK 79
>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 = 35.0 bits (81), Expect = 0.085
Identities = 31/171 (18%), Positives = 59/171 (34%), Gaps = 55/171 (32%)
Query: 212 KQEKEDLIEALKEENDGKLSTNLEECILYGVAYHHADLTAGERRLIEEAYLAGTLQIICC 271
++ L L +E + VA ++ +R + E + G +++
Sbjct: 343 RKTASWLAAELSKEG-------------HQVALLSGEMMVEQRAAVIERFREGKEKVLVT 389
Query: 272 TSTLAAG---------VN--LPAQRVIIRD--SYV---GRDFISLNMYKQMVGRAGRTGL 315
T+ A G +N LP + D +Y+ GR GR G+ GL
Sbjct: 390 TNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGR-----------TGRFGKRGL 438
Query: 316 Q----ESGESIMLCKTMQDFLRFSSMMNAGPEPISSHMDPPTLVDLILEVV 362
+S S+ + +Q+ F+ + +D L D I ++
Sbjct: 439 AVNMVDSKHSMNILNRIQEH--FNKKIER--------LDTDDL-DEIEKIA 478
>1b22_A DNA repair protein RAD51; DNA binding, riken structural
genomics/proteomics initiative, RSGI, structural
genomics, DNA binding protein; HET: DNA; NMR {Homo
sapiens} SCOP: a.60.4.1
Length = 114
Score = 33.0 bits (75), Expect = 0.087
Identities = 16/75 (21%), Positives = 35/75 (46%), Gaps = 5/75 (6%)
Query: 609 MDLPGVKIGRARQLLNAGYSSLELIARADAKEMVAKIRHLPLRSARNLISAAK----LHF 664
++ G+ ++L AG+ ++E +A A KE+ I+ + A +++ A + F
Sbjct: 28 LEQCGINANDVKKLEEAGFHTVEAVAYAPKKEL-INIKGISEAKADKILAEAAKLVPMGF 86
Query: 665 ITKMDKVEAMKNLIQ 679
T + + +IQ
Sbjct: 87 TTATEFHQRRSEIIQ 101
>3lda_A DNA repair protein RAD51; DNA binding protein, ATP-binding, DNA
damage, DNA recombinat repair, nucleotide-binding; HET:
DNA; 2.50A {Saccharomyces cerevisiae} PDB: 1szp_A*
Length = 400
Score = 34.7 bits (79), Expect = 0.099
Identities = 12/76 (15%), Positives = 28/76 (36%), Gaps = 1/76 (1%)
Query: 608 LMDLPGVKIGRARQLLNAGYSSLELIARADAKEMVAKIRHLPLRSARNLISAAKLHFITK 667
+ + G+ + ++L +G + E +A A K++ +I+ + A L++ A
Sbjct: 85 KLQVNGITMADVKKLRESGLHTAEAVAYAPRKDL-LEIKGISEAKADKLLNEAARLVPMG 143
Query: 668 MDKVEAMKNLIQNLQK 683
L
Sbjct: 144 FVTAADFHMRRSELIC 159
>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 = 33.7 bits (78), Expect = 0.11
Identities = 27/157 (17%), Positives = 44/157 (28%), Gaps = 56/157 (35%)
Query: 182 VLIFCSSKIACSNLALRLQFDRFPGTKEYKKQEKEDLIEALKEENDGKLSTNLEECILYG 241
V+IF S C L + L E+N +
Sbjct: 34 VVIFVKSVQRC-----------------------IALAQLLVEQN-------------FP 57
Query: 242 VAYHHADLTAGERRLIEEAYLAGTLQIICCTSTLAAGVNLPAQRVII-------RDSYVG 294
H + ER + + +I+ T+ G+++ + D+Y+
Sbjct: 58 AIAIHRGMPQEERLSRYQQFKDFQRRILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLH 117
Query: 295 RDFISLNMYKQMVGRAGRTGLQESGESIMLCKTMQDF 331
R V RAGR G G +I D
Sbjct: 118 R-----------VARAGRFG--TKGLAITFVSDENDA 141
>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 = 33.4 bits (75), Expect = 0.12
Identities = 13/45 (28%), Positives = 18/45 (40%), Gaps = 15/45 (33%)
Query: 4 EKYQSLAKAAEEFKFYLEEYAGVKGQYPPTKRQLNKKSIYICTIE 48
EK Q+L K K Y ++ A P L K+ T+E
Sbjct: 18 EK-QALKKLQASLKLYADDSA-------PA---LAIKA----TME 47
Score = 29.1 bits (64), Expect = 3.1
Identities = 12/64 (18%), Positives = 15/64 (23%), Gaps = 37/64 (57%)
Query: 48 EKGS--KLIGSLIQENRIDEIGLIVIDEFHMLNEPQRGPILECVVSKVLYLKKSIQIFAM 105
EK + KL SL L P L A+
Sbjct: 18 EKQALKKLQASL------------------KLYADDSAPAL-----------------AI 42
Query: 106 SATI 109
AT+
Sbjct: 43 KATM 46
>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 = 34.1 bits (79), Expect = 0.14
Identities = 30/158 (18%), Positives = 47/158 (29%), Gaps = 60/158 (37%)
Query: 182 VLIFCSSKIACSNLALRLQFDRFPGTKEYKKQEKEDLIEALKEENDGKLSTNLEECILYG 241
V+IF S C L + L E+N +
Sbjct: 253 VVIFVKSVQRC-----------------------IALAQLLVEQN-------------FP 276
Query: 242 VAYHHADLTAGERRLIEEAYLAGTLQIICCTSTLAAGVNLPAQRVII---------RDSY 292
H + ER + + +I+ T+ G+++ +RV I D+Y
Sbjct: 277 AIAIHRGMPQEERLSRYQQFKDFQRRILVATNLFGRGMDI--ERVNIAFNYDMPEDSDTY 334
Query: 293 VGRDFISLNMYKQMVGRAGRTGLQESGESIMLCKTMQD 330
+ R V RAGR G G +I D
Sbjct: 335 LHR-----------VARAGRFG--TKGLAITFVSDEND 359
>1s2m_A Putative ATP-dependent RNA helicase DHH1; ATP-binding, RNA-binding,
RNA binding protein; 2.10A {Saccharomyces cerevisiae}
SCOP: c.37.1.19 c.37.1.19 PDB: 2wax_A* 2way_A
Length = 400
Score = 34.1 bits (79), Expect = 0.15
Identities = 25/120 (20%), Positives = 45/120 (37%), Gaps = 33/120 (27%)
Query: 212 KQEKEDLIEALKEENDGKLSTNLEECILYGVAYHHADLTAGERRLIEEAYLAGTLQIICC 271
E L + + + Y Y HA + ER + + G ++ + C
Sbjct: 268 TNRVELLAKKITDLG-------------YSCYYSHARMKQQERNKVFHEFRQGKVRTLVC 314
Query: 272 TSTLAAGVNLPAQRVII-------RDSYVGRDFISLNMYKQMVGRAGRTGLQESGESIML 324
+ L G+++ A V+I ++Y+ R +GR+GR G G +I L
Sbjct: 315 SDLLTRGIDIQAVNVVINFDFPKTAETYLHR-----------IGRSGRFG--HLGLAINL 361
>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 = 34.0 bits (78), Expect = 0.16
Identities = 50/366 (13%), Positives = 108/366 (29%), Gaps = 85/366 (23%)
Query: 64 DEIGLIVIDEF-HMLN---EPQRGPILECVVSKVLYLKKSIQIFAMSAT----IGNINAL 115
+ V+DE +L I + K +I+ SAT + +
Sbjct: 174 RFVDYKVLDEADRLLEIGFRDDLETISGILNEKNSKSADNIKTLLFSATLDDKVQKLANN 233
Query: 116 STFIEGITYVENSRPTKHSEYVTVDKRVFQSFDGKSLTEIYADNLDYSLTGSGPDAVLHL 175
+ +++ +E ++ + QS + ++ S+ + +
Sbjct: 234 IMNKKECLFLD---TVDKNEPEAHER-IDQSV-------VISEKFANSIFAAVEHIKKQI 282
Query: 176 --VQGNLMVLIFCSSKIACSNLALRLQFDRFPGTKEYKKQEKEDLIEALKEENDGKLSTN 233
N +IF + S L L+ + I
Sbjct: 283 KERDSNYKAIIFAPTVKFTSFLCSILKNEFKKDLP----------ILEF----------- 321
Query: 234 LEECILYGVAYHHADLTAGERRLIEEAYLAGTLQIICCTSTLAAGVNLPAQRVII----- 288
H +T +R + + + I+ CT A G++ P ++
Sbjct: 322 ------------HGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVP 369
Query: 289 --RDSYV---GRDFISLNMYKQMVGRAGRTGLQESGESIM-LCKTMQDFLRFSSMMNAGP 342
+Y+ GR R+G+ G S++ +CK F+R +
Sbjct: 370 SELANYIHRIGR-----------TARSGK-----EGSSVLFICKDELPFVRE---LEDAK 410
Query: 343 EPISSHMDPPTLVDLILEVVAANLCSSLEDVKTLIKHTLFYQLKSPEDQQTFLETTLSEI 402
+ + + + I V + ED+ ++ + +S + F E +
Sbjct: 411 NIVIAKQEKYEPSEEIKSEVLEAVTEEPEDISDIVISLISS-YRSCIKEYRFSERRILPE 469
Query: 403 VASLLA 408
+AS
Sbjct: 470 IASTYG 475
>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 = 33.0 bits (76), Expect = 0.19
Identities = 23/120 (19%), Positives = 44/120 (36%), Gaps = 40/120 (33%)
Query: 212 KQEKEDLIEALKEENDGKLSTNLEECILYGVAYHHADLTAGERRLIEEAYLAGTLQIICC 271
++ + L + ++ + V+ +LT +R I + + G +++
Sbjct: 44 RRNAKWLTVEMIQDG-------------HQVSLLSGELTVEQRASIIQRFRDGKEKVLIT 90
Query: 272 TSTLAAG---------VN--LPAQRVIIRD--SYV---GRDFISLNMYKQMVGRAGRTGL 315
T+ A G VN LP ++ D +Y+ GR GR G+ GL
Sbjct: 91 TNVCARGIDVKQVTIVVNFDLPVKQGEEPDYETYLHRIGR-----------TGRFGKKGL 139
>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 = 33.7 bits (78), Expect = 0.20
Identities = 23/120 (19%), Positives = 41/120 (34%), Gaps = 40/120 (33%)
Query: 212 KQEKEDLIEALKEENDGKLSTNLEECILYGVAYHHADLTAGERRLIEEAYLAGTLQIICC 271
++ L L +E + VA ++ +R + E + G +++
Sbjct: 276 RKTASWLAAELSKEG-------------HQVALLSGEMMVEQRAAVIERFREGKEKVLVT 322
Query: 272 TSTLAAG---------VN--LPAQRVIIRD--SYV---GRDFISLNMYKQMVGRAGRTGL 315
T+ A G +N LP + D +Y+ GR GR G+ GL
Sbjct: 323 TNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGR-----------TGRFGKRGL 371
>3gqu_A NOP5P protein; RNA binding domain, RNA binding protein; 2.50A
{Pyrococcus horikoshii} PDB: 3gqx_B
Length = 169
Score = 32.6 bits (74), Expect = 0.21
Identities = 18/70 (25%), Positives = 30/70 (42%), Gaps = 6/70 (8%)
Query: 572 KVYRFCEELPELWCYKQLLTDLPQTLMYCRAPNLRALMDLPGVKIGRARQLLNAGYSSLE 631
++ ++ L D M APNL+AL+ G K+G AR + AG L+
Sbjct: 4 RIQEQSGARDKMVIGAGGLEDYIDKAMDDVAPNLKALV---GAKLG-ARLISLAG--GLK 57
Query: 632 LIARADAKEM 641
+A + +
Sbjct: 58 ELAMLPSSTI 67
>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 = 33.7 bits (78), Expect = 0.21
Identities = 27/114 (23%), Positives = 48/114 (42%), Gaps = 34/114 (29%)
Query: 212 KQEKEDLIEALKEENDGKLSTNLEECILYGVAYHHADLTAGERRLIEEAYLAGTLQIICC 271
K++ + L E ++E N + V+ H D+ ER I + + +G +++
Sbjct: 286 KRKVDWLTEKMREAN-------------FTVSSMHGDMPQKERESIMKEFRSGASRVLIS 332
Query: 272 TSTLAAGVNLPAQRVII-------RDSYV---GRDFISLNMYKQMVGRAGRTGL 315
T A G+++P +II R+ Y+ GR GR GR G+
Sbjct: 333 TDVWARGLDVPQVSLIINYDLPNNRELYIHRIGR-----------SGRYGRKGV 375
>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 = 33.7 bits (78), Expect = 0.23
Identities = 24/114 (21%), Positives = 50/114 (43%), Gaps = 34/114 (29%)
Query: 212 KQEKEDLIEALKEENDGKLSTNLEECILYGVAYHHADLTAGERRLIEEAYLAGTLQIICC 271
+++ E+L L+ + + V+ ++DL ER I + + +G+ +I+
Sbjct: 269 RRKVEELTTKLRNDK-------------FTVSAIYSDLPQQERDTIMKEFRSGSSRILIS 315
Query: 272 TSTLAAGVNLPAQRVII-------RDSYV---GRDFISLNMYKQMVGRAGRTGL 315
T LA G+++ ++I +++Y+ GR GR GR G+
Sbjct: 316 TDLLARGIDVQQVSLVINYDLPANKENYIHRIGR-----------GGRFGRKGV 358
>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 = 33.3 bits (77), Expect = 0.27
Identities = 23/114 (20%), Positives = 48/114 (42%), Gaps = 34/114 (29%)
Query: 212 KQEKEDLIEALKEENDGKLSTNLEECILYGVAYHHADLTAGERRLIEEAYLAGTLQIICC 271
+++ + L E + + + V+ H D+ ER +I + +G+ +++
Sbjct: 290 RRKVDWLTEKMHARD-------------FTVSAMHGDMDQKERDVIMREFRSGSSRVLIT 336
Query: 272 TSTLAAGVNLPAQRVII-------RDSYV---GRDFISLNMYKQMVGRAGRTGL 315
T LA G+++ ++I R++Y+ GR GR GR G+
Sbjct: 337 TDLLARGIDVQQVSLVINYDLPTNRENYIHRIGR-----------GGRFGRKGV 379
>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 = 33.3 bits (76), Expect = 0.27
Identities = 29/223 (13%), Positives = 59/223 (26%), Gaps = 41/223 (18%)
Query: 12 AAEEFKFYLEEYAGVKGQYPPTKRQLNKKSIYICTIEKGSKLIGSLIQENRIDEIGLIVI 71
A E + L G+ +Y + + I + + L+ R+ LIV+
Sbjct: 60 VAAEMEEAL---RGLPIRYQTPAVKSDHTGREIVDLMCHATFTTRLLSSTRVPNYNLIVM 116
Query: 72 DEFHMLNEPQRGPILECVVSKVLYLKKSIQIFAMSATIGNINALSTFIEGITY-VENSRP 130
DE H + + M+AT G T S
Sbjct: 117 DEAHFTDPCS---VAARGYISTRVEMGEAAAIFMTAT----------PPGSTDPFPQSNS 163
Query: 131 TKHSEYVTVDKRVFQSFDGKSLTEIYADNLDYSLTGSGPDAVLHLVQGNLMVLIFCSSKI 190
+ +R + + + F S
Sbjct: 164 PIEDIEREIPERSWN------------------------TGFDWITDYQGKTVWFVPSIK 199
Query: 191 ACSNLALRLQFDRFPGTKEYKKQEKEDLIEALKEENDGKLSTN 233
A +++A L+ + +K + + + D ++T+
Sbjct: 200 AGNDIANCLRKSGKRVIQLSRKTFDTEYPKTKLTDWDFVVTTD 242
>2oca_A DAR protein, ATP-dependent DNA helicase UVSW; ATP-dependant
helicase, T4-bacteriophage, recombination, hydrolase;
2.70A {Enterobacteria phage T4}
Length = 510
Score = 32.6 bits (73), Expect = 0.45
Identities = 9/107 (8%), Positives = 31/107 (28%), Gaps = 4/107 (3%)
Query: 208 KEYKKQEKEDLIEALKEENDGKLSTNLEECILYGVAYHHADLTAGERRLIEEAYLAGTLQ 267
+ ++++ + + + ++ T + A +
Sbjct: 341 IKLAQKDENAFVMFKHVSHGKAIFDLIKNEYDKVYYVSGEVDTETRNIMKTLAENGKGII 400
Query: 268 IICCTSTLAAGVNLPAQRVIIRDSYVGRDFISLNMYKQMVGRAGRTG 314
I+ + G+++ ++ + S + Q +GR R
Sbjct: 401 IVASYGVFSTGISVKNLHHVV----LAHGVKSKIIVLQTIGRVLRKH 443
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 31.7 bits (71), Expect = 0.46
Identities = 11/58 (18%), Positives = 24/58 (41%), Gaps = 4/58 (6%)
Query: 208 KEYKK--QEKEDLIEALKEENDGKLSTNLEECILYGVAYHHADLTAGERRLIEEAYLA 263
+E +K QE + + +++E K +LEE + R+ ++A+
Sbjct: 92 EEQRKRLQELDAASKVMEQEWREKAKKDLEE--WNQRQSEQVEKNKINNRIADKAFYQ 147
>1fuk_A Eukaryotic initiation factor 4A; helicase, DEAD-box protein,
translation; 1.75A {Saccharomyces cerevisiae} SCOP:
c.37.1.19
Length = 165
Score = 31.4 bits (72), Expect = 0.58
Identities = 23/106 (21%), Positives = 46/106 (43%), Gaps = 31/106 (29%)
Query: 216 EDLIEALKEENDGKLSTNLEECILYGVAYHHADLTAGERRLIEEAYLAGTLQIICCTSTL 275
E+L L+ + + V+ ++DL ER I + + +G+ +I+ T L
Sbjct: 44 EELTTKLRNDK-------------FTVSAIYSDLPQQERDTIMKEFRSGSSRILISTDLL 90
Query: 276 AAGVNLPAQRVII-------RDSYVGRDFISLNMYKQMVGRAGRTG 314
A G+++ ++I +++Y+ R +GR GR G
Sbjct: 91 ARGIDVQQVSLVINYDLPANKENYIHR-----------IGRGGRFG 125
>2v6i_A RNA helicase; membrane, hydrolase, transmembrane, RNA replication,
viral replication, nucleotide-binding; 2.10A {Kokobera
virus} PDB: 2v6j_A
Length = 431
Score = 31.7 bits (72), Expect = 0.76
Identities = 12/84 (14%), Positives = 23/84 (27%), Gaps = 6/84 (7%)
Query: 57 LIQENRIDEIGLIVIDEFHMLNEPQRGPILECVVSKVLYLKKSIQIFAMSATIGNINALS 116
L+Q R+ L ++DE H L+ + + M+AT +
Sbjct: 85 LLQGVRVPNYNLYIMDEAHFLDPAS---VAARGYIETRVSMGDAGAIFMTAT---PPGTT 138
Query: 117 TFIEGITYVENSRPTKHSEYVTVD 140
T+ +
Sbjct: 139 EAFPPSNSPIIDEETRIPDKAWNS 162
>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 = 31.8 bits (72), Expect = 0.77
Identities = 11/53 (20%), Positives = 17/53 (32%), Gaps = 3/53 (5%)
Query: 57 LIQENRIDEIGLIVIDEFHMLNEPQRGPILECVVSKVLYLKKSIQIFAMSATI 109
L+ R+ LIV+DE H + + M+AT
Sbjct: 269 LLSSTRVPNYNLIVMDEAHFTDPCS---VAARGYISTRVEMGEAAAIFMTATP 318
>2wv9_A Flavivirin protease NS2B regulatory subunit, FLAV protease NS3
catalytic subunit; nucleotide-binding, capsid protein;
2.75A {Murray valley encephalitis virus}
Length = 673
Score = 31.4 bits (71), Expect = 1.0
Identities = 11/52 (21%), Positives = 16/52 (30%), Gaps = 3/52 (5%)
Query: 57 LIQENRIDEIGLIVIDEFHMLNEPQRGPILECVVSKVLYLKKSIQIFAMSAT 108
L+ R+ L V+DE H + I M+AT
Sbjct: 324 LMSPLRVPNYNLFVMDEAHFTDPAS---IAARGYIATRVEAGEAAAIFMTAT 372
>4evf_A Alpha-1 giardin, giardin subunit alpha-1; annexin, calcium-binding
protein, membrane-binding protein, binding protein;
1.90A {Giardia intestinalis} PDB: 4evh_A
Length = 295
Score = 30.5 bits (69), Expect = 1.4
Identities = 14/103 (13%), Positives = 29/103 (28%), Gaps = 20/103 (19%)
Query: 195 LALRLQFDRFPGTKEYKKQEKEDLIEALKEENDGKLSTNLEECILYGVAYHHADLTAGER 254
+ R K Y ++L + +K+ L EE +L + ++ A
Sbjct: 27 ASEYSAESREKIAKAYVASYGKELPDDIKKA----LKGGSEESLLMDLFSDRHEVRA--- 79
Query: 255 RLIEEAYLAGT-----LQIICCTSTLAAGVNLPAQRVIIRDSY 292
+ I +A + + P +Y
Sbjct: 80 QHIRDALSGRNDHMAFFDTVILCT--------PEDWHETVAAY 114
>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 = 31.0 bits (70), Expect = 1.6
Identities = 26/180 (14%), Positives = 54/180 (30%), Gaps = 36/180 (20%)
Query: 57 LIQENRIDEIGLIVIDEFHMLNEPQRGPILECVVSKVLYLKKSIQIFAMSATIGNINALS 116
+++ R+ +I++DE H L+ I + M+AT
Sbjct: 91 MLEPTRVVNWEVIIMDEAHFLDPAS---IAARGWAAHRARANESATILMTAT-------- 139
Query: 117 TFIEGITYVENSRPTKHSEYVTVDKRVFQSFDGKSLTEIYADNLDYSLTGSGPDAVLHLV 176
P S+ E ++ +G D +L
Sbjct: 140 -------------PPGTSDEFPHSNGE---------IEDVQTDIPSEPWNTGHDWILAD- 176
Query: 177 QGNLMVLIFCSSKIACSNLALRLQFDRFPGTKEYKKQEKEDLIEALKEENDGKLSTNLEE 236
+ F S A + +A L+ +K + + +++ D L+T++ E
Sbjct: 177 KRP--TAWFLPSIRAANVMAASLRKAGKSVVVLNRKTFEREYPTIKQKKPDFILATDIAE 234
>2gd9_A Hypothetical protein YYAP; structural genomics, joint center for
structural genomics, J protein structure initiative,
PSI-2, oxidoreductase; 2.30A {Bacillus subtilis}
Length = 189
Score = 29.6 bits (67), Expect = 2.1
Identities = 9/32 (28%), Positives = 15/32 (46%), Gaps = 3/32 (9%)
Query: 40 KSIYICTIEKGSKLIGSLIQENRIDEIGLIVI 71
K I++ G+ LI + I +DE L +
Sbjct: 120 KDIWLYG---GASLITTFINLGLVDEFRLSIH 148
>1o8x_A Tryparedoxin, TRYX, TXNI; tryparedoxin-I, synchrotron radiation,
disulfide bonds tryparedoxin, thioredoxin, trypanosome;
1.3A {Crithidia fasciculata} SCOP: c.47.1.10 PDB: 1okd_A
1qk8_A 1o85_A 1o8w_A 1o7u_A 1ezk_A 1ewx_A
Length = 146
Score = 29.3 bits (66), Expect = 2.4
Identities = 12/66 (18%), Positives = 26/66 (39%), Gaps = 5/66 (7%)
Query: 492 KFHPQTLRVAEALGVTENLVALNVTGKLKDEKKALLCRFFHACILYDV--LNFDNHQKVA 549
F PQ + + ++N + T DE++ +F V + QK++
Sbjct: 45 GFTPQLIEFYDKFHESKNFEVVFCTW---DEEEDGFAGYFAKMPWLAVPFAQSEAVQKLS 101
Query: 550 KMYGIQ 555
K + ++
Sbjct: 102 KHFNVE 107
>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 = 30.2 bits (69), Expect = 2.4
Identities = 29/120 (24%), Positives = 42/120 (35%), Gaps = 40/120 (33%)
Query: 212 KQEKEDLIEALKEENDGKLSTNLEECILYGVAYHHADLTAGERRLIEEAYLAGTLQIICC 271
K+ L LK E + V+ H DL ER + + + G +++
Sbjct: 253 KKTANVLYGKLKSEG-------------HEVSILHGDLQTQERDRLIDDFREGRSKVLIT 299
Query: 272 TSTLAAG---------VN--LPAQRVIIRD--SYV---GRDFISLNMYKQMVGRAGRTGL 315
T+ LA G VN LP D +Y+ GR GR GR G+
Sbjct: 300 TNVLARGIDIPTVSMVVNYDLPTLANGQADPATYIHRIGR-----------TGRFGRKGV 348
>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 = 29.8 bits (67), Expect = 3.0
Identities = 26/181 (14%), Positives = 50/181 (27%), Gaps = 38/181 (20%)
Query: 57 LIQENRIDEIGLIVIDEFHMLNEPQRGPILECVVSKVLYLKKSIQIFAMSATIGNINALS 116
L+ NR+ L V+DE H + I M+AT
Sbjct: 104 LMSPNRVPNYNLFVMDEAHFTDPAS---IAARGYIATKVELGEAAAIFMTAT-------- 152
Query: 117 TFIEGITY-VENSRPTKHSEYVTVDKRVFQSFDGKSLTEIYADNLDYSLTGSGPDAVLHL 175
G T +S H + R + +
Sbjct: 153 --PPGTTDPFPDSNAPIHDLQDEIPDRAWS------------------------SGYEWI 186
Query: 176 VQGNLMVLIFCSSKIACSNLALRLQFDRFPGTKEYKKQEKEDLIEALKEENDGKLSTNLE 235
+ + F +S + +A+ LQ + +K + + + D ++T++
Sbjct: 187 TEYAGKTVWFVASVKMGNEIAMCLQRAGKKVIQLNRKSYDTEYPKCKNGDWDFVITTDIS 246
Query: 236 E 236
E
Sbjct: 247 E 247
>3i32_A Heat resistant RNA dependent ATPase; RNA helicase, dimer, RNA
recognition motif, ATP-BIND helicase,
nucleotide-binding; 2.80A {Thermus thermophilus}
Length = 300
Score = 29.7 bits (67), Expect = 3.1
Identities = 42/212 (19%), Positives = 75/212 (35%), Gaps = 58/212 (27%)
Query: 212 KQEKEDLIEALKEENDGKLSTNLEECILYGVAYHHADLTAGERRLIEEAYLAGTLQIICC 271
K E E++ + L G + H D++ GER + A+ G ++++
Sbjct: 38 KAETEEIAQGL--LRLG-----------HPAQALHGDMSQGERERVMGAFRQGEVRVLVA 84
Query: 272 TSTLAAG---------VN--LPAQRVIIRDSYV---GRDFISLNMYKQMVGRAGRTGLQE 317
T A G V+ +P + ++Y GR GRAGR
Sbjct: 85 TDVAARGLDIPQVDLVVHYRMPDRA----EAYQHRSGR-----------TGRAGRG---- 125
Query: 318 SGESIMLCKTMQDFLRFSSMMNAGPEPISSHMDPPTLVDLILEVVAANLCSSLEDVKTLI 377
G ++L ++ ++ A ++PPT + V+ A L + +
Sbjct: 126 -GRVVLLY-GPRERRDVEALERAVGRRF-KRVNPPTPEE----VLEAKWRHLLARLARVP 178
Query: 378 KHTL-FYQLKSPEDQQTFLETTLSEIVASLLA 408
+ YQ + E+VA+LLA
Sbjct: 179 EKDYRLYQ----DFAGRLFAEGRVEVVAALLA 206
>3jtw_A Dihydrofolate reductase; YP_805003.1, structural GE joint center
for structural genomics, JCSG, protein structu
initiative; 1.90A {Pediococcus pentosaceus atcc 25745}
Length = 178
Score = 29.2 bits (66), Expect = 3.4
Identities = 11/37 (29%), Positives = 19/37 (51%), Gaps = 3/37 (8%)
Query: 35 RQLNKKSIYICTIEKGSKLIGSLIQENRIDEIGLIVI 71
++ K ++I G+K+I L+Q N ID L +
Sbjct: 106 QKEKGKDVWIVG---GAKIIDPLVQANLIDTYILTTV 139
>2ykg_A Probable ATP-dependent RNA helicase DDX58; hydrolase, innate
immunity; 2.50A {Homo sapiens} PDB: 3tmi_A*
Length = 696
Score = 29.9 bits (66), Expect = 3.7
Identities = 25/134 (18%), Positives = 52/134 (38%), Gaps = 8/134 (5%)
Query: 185 FCSSKIACSNLALRLQFDRFPGTKEYKKQEKEDLIEALKEENDGKLSTNLEEC-ILYGVA 243
+ K+ L+ ++ P T + L++ALK +G + + IL G
Sbjct: 377 NENPKLEDLCFILQEEYHLNPETITILFVKTRALVDALKNWIEGNPKLSFLKPGILTGRG 436
Query: 244 YHHAD---LTAGERRLIEEAYLAGTLQIICCTSTLAAGVNLPAQRVIIRDSYVGRDFISL 300
+ + ++ +++ +G I+ TS G+++ ++I YVG ++
Sbjct: 437 KTNQNTGMTLPAQKCILDAFKASGDHNILIATSVADEGIDIAQCNLVILYEYVG----NV 492
Query: 301 NMYKQMVGRAGRTG 314
Q GR G
Sbjct: 493 IKMIQTRGRGRARG 506
>2azn_A HTP reductase, putative 5-amino-6-(5-phosphoribosylamino)uracil;
oxidoreductase; HET: MA5 NAP EPE; 2.70A
{Methanocaldococcus jannaschii} SCOP: c.71.1.2
Length = 219
Score = 29.0 bits (66), Expect = 3.8
Identities = 6/20 (30%), Positives = 11/20 (55%)
Query: 47 IEKGSKLIGSLIQENRIDEI 66
+E G L + +E +DE+
Sbjct: 148 LEGGGTLNWGMFKEGLVDEV 167
>1x2i_A HEF helicase/nuclease; alpha helix, helix-hairpin-helix DNA binding
domain, homodimer, hydrolase; 1.45A {Pyrococcus
furiosus} SCOP: a.60.2.5
Length = 75
Score = 27.3 bits (61), Expect = 4.1
Identities = 11/37 (29%), Positives = 18/37 (48%), Gaps = 1/37 (2%)
Query: 607 ALMDLPGVKIGRARQLLNAGYSSLELIARADAKEMVA 643
+ LP V AR+LL + S+E + A E++
Sbjct: 15 IVEGLPHVSATLARRLLKH-FGSVERVFTASVAELMK 50
>2ozb_B U4/U6 small nuclear ribonucleoprotein PRP31; RNA-protein complex,
ribonucleoprotein particle (RNP), PRE-M splicing, U4/U6
DI-snRNA, U4/U6 DI-snRNP; 2.60A {Homo sapiens} SCOP:
a.183.1.1 PDB: 3siu_B 3siv_B
Length = 260
Score = 29.3 bits (65), Expect = 4.4
Identities = 13/67 (19%), Positives = 27/67 (40%), Gaps = 6/67 (8%)
Query: 572 KVYRFCEELPELWCYKQLLTDLPQTLMYCRAPNLRALMDLPGVKIGRARQLLNAGYSSLE 631
++ C+ EL K + + ++ M APNL ++ G A+ + L
Sbjct: 113 RLEEACDMALELNASKHRIYEYVESRMSFIAPNLSIII---GASTA-AK--IMGVAGGLT 166
Query: 632 LIARADA 638
+++ A
Sbjct: 167 NLSKMPA 173
>2hjv_A ATP-dependent RNA helicase DBPA; parallel alpha-beta, hydrolase;
1.95A {Bacillus subtilis}
Length = 163
Score = 28.6 bits (65), Expect = 4.5
Identities = 23/117 (19%), Positives = 36/117 (30%), Gaps = 42/117 (35%)
Query: 212 KQEKEDLIEALKEENDGKLSTNLEECILYGVAYHHADLTAGERRLIEEAYLAGTLQIICC 271
K+ L + L + Y H + +R + + G + +
Sbjct: 45 KEHVNQLTDELDDLG-------------YPCDKIHGGMIQEDRFDVMNEFKRGEYRYLVA 91
Query: 272 TSTLAAG---------VN--LPAQRVIIRDSYV---GRDFISLNMYKQMVGRAGRTG 314
T A G +N LP ++ +SYV GR GRAG G
Sbjct: 92 TDVAARGIDIENISLVINYDLPLEK----ESYVHRTGR-----------TGRAGNKG 133
>1v5w_A DMC1, meiotic recombination protein DMC1/LIM15 homolog; DNA-binding
protein, ring protein, octamer, AAA ATPase; 3.20A {Homo
sapiens} SCOP: c.37.1.11 PDB: 2zjb_A
Length = 343
Score = 28.7 bits (64), Expect = 6.4
Identities = 8/76 (10%), Positives = 24/76 (31%), Gaps = 1/76 (1%)
Query: 608 LMDLPGVKIGRARQLLNAGYSSLELIARADAKEMVAKIRHLPLRSARNLISAAKLHFITK 667
L+ G+ + ++L + G +++ I + + ++ L + AA
Sbjct: 29 LLQKHGINVADIKKLKSVGICTIKGIQMTTRRAL-CNVKGLSEAKVDKIKEAANKLIEPG 87
Query: 668 MDKVEAMKNLIQNLQK 683
+ +
Sbjct: 88 FLTAFEYSEKRKMVFH 103
>2g6v_A Riboflavin biosynthesis protein RIBD; RIBD APO structure,
structural genomics, structural proteomi europe, spine,
hydrolase, oxidoreductase; 2.60A {Escherichia coli} PDB:
2obc_A* 2o7p_A*
Length = 402
Score = 28.7 bits (65), Expect = 7.0
Identities = 8/20 (40%), Positives = 13/20 (65%)
Query: 47 IEKGSKLIGSLIQENRIDEI 66
+E G L G+L+Q +DE+
Sbjct: 325 VEAGPTLAGALLQAGLVDEL 344
>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 = 28.5 bits (64), Expect = 7.3
Identities = 14/64 (21%), Positives = 21/64 (32%), Gaps = 10/64 (15%)
Query: 14 EEFKFYLEEYAGVKGQYPPTKRQLNKKSIYICTIEKGSKLIGSLIQENRIDEIGLIVIDE 73
E + EEY G R K + + T + E + L++ DE
Sbjct: 151 ERLGIFGEEYVGEFSG-----RIKELKPLTVSTYDSAYVNA-----EKLGNRFMLLIFDE 200
Query: 74 FHML 77
H L
Sbjct: 201 VHHL 204
>2c6q_A GMP reductase 2; TIM barrel, metal-binding, NADP, oxidoreductase,
potassium; HET: IMP NDP; 1.70A {Homo sapiens} PDB:
2bzn_A* 2a7r_A* 2ble_A* 2bwg_A*
Length = 351
Score = 28.4 bits (64), Expect = 7.7
Identities = 19/82 (23%), Positives = 28/82 (34%), Gaps = 22/82 (26%)
Query: 332 LRFSSMMNAGPEPISSHMDPPTLVDL-----------ILE---VVAAN--LCSSLEDVKT 375
L F ++ P S + + VDL ++AAN + E K
Sbjct: 20 LDFKDVLLR---PKRSTLKSRSEVDLTRSFSFRNSKQTYSGVPIIAANMDTVGTFEMAKV 76
Query: 376 LIKHTLFYQL---KSPEDQQTF 394
L K +LF + S Q F
Sbjct: 77 LCKFSLFTAVHKHYSLVQWQEF 98
>2b3z_A Riboflavin biosynthesis protein RIBD; alpha/beta/alpha, deaminase
domain and reductase domain, hydrolase, oxidoreductase;
2.41A {Bacillus subtilis} SCOP: c.71.1.2 c.97.1.2 PDB:
2d5n_A* 3ex8_A*
Length = 373
Score = 28.6 bits (65), Expect = 7.9
Identities = 8/20 (40%), Positives = 12/20 (60%)
Query: 47 IEKGSKLIGSLIQENRIDEI 66
+E GS + GS ++E EI
Sbjct: 301 VEGGSAVHGSFVKEGCFQEI 320
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
0.321 0.136 0.387
Gapped
Lambda K H
0.267 0.0639 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 10,311,266
Number of extensions: 635883
Number of successful extensions: 1618
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1572
Number of HSP's successfully gapped: 88
Length of query: 693
Length of database: 6,701,793
Length adjustment: 100
Effective length of query: 593
Effective length of database: 3,909,693
Effective search space: 2318447949
Effective search space used: 2318447949
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: 61 (27.5 bits)