BLASTP 2.0.10 [Aug-26-1999]


Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, 
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), 
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs",  Nucleic Acids Res. 25:3389-3402.

Query= PAB0591 (PAB0591) DE:PUTATIVE DEAH ATP-DEPENDENT HELICASE
         (973 letters)

Database: ./suso.pep; /banques/blast2/nr.pep
           598,487 sequences; 189,106,746 total letters

Searching..................................................done

                                                                   Score     E
Sequences producing significant alignments:                        (bits)  Value

pir||A75135 probable DEAH ATP-dependent helicase PAB0591 - Pyroc...  1921  0.0
pir||D71079 hypothetical protein PH0900 - Pyrococcus horikoshii ...   834  0.0
pir||D72308 conserved hypothetical protein - Thermotoga maritima...   832  0.0
pir||E72734 hypothetical protein APE0413 - Aeropyrum pernix (str...   305  2e-81
gi|11499927 ATP-dependent RNA helicase HepA, putative [Archaeogl...   232  1e-59
gi|10803646 ORF H1186 [Halobacterium sp. NRC-1] >gi|7484100|pir|...   209  1e-52
sp|P54509|YQHH_BACSU HYPOTHETICAL HELICASE IN SINI-GCVT INTERGEN...   178  3e-43
dbj|BAB06536.1| (AP001516) helicase (Snf2/Rad54 family) [Bacillu...   175  2e-42
pir||T17395 probable DEAH ATP-dependent helicase - Dichelobacter...   166  8e-40
gi|10957432 ATP-dependent helicase HepA [Deinococcus radiodurans...   162  2e-38
dbj|BAB04688.1| (AP001510) SNF2 helicase [Bacillus halodurans]        138  3e-31
pir||H82068 RNA polymerase-associated protein HepA VC2506 [impor...   132  2e-29
sp|P23852|HEPA_ECOLI RNA POLYMERASE ASSOCIATED PROTEIN (ATP-DEPE...   117  6e-25
pir||G83231 RNA helicase HepA PA3308 [imported] - Pseudomonas ae...   115  3e-24
emb|CAA38617.1| (X54847) unnamed protein product [Escherichia coli]    93  1e-17
pir||S15944 hypothetical protein (polB 3' region) - Escherichia ...    93  1e-17
pir||S40575 hypothetical protein - Escherichia coli >gi|216479|d...    93  1e-17
pir||A41878 helicase homolog hepA - Escherichia coli (fragment)        93  1e-17
pir||T40879 probable helicase - fission yeast (Schizosaccharomyc...    91  5e-17
gi|11499053 ATP-dependent RNA helicase, putative [Archaeoglobus ...    83  1e-14
gb|AAF52824.1| (AE003626) CG5899 gene product [Drosophila melano...    81  5e-14
gi|6321275 DNA-dependent ATPase; Rad54p [Saccharomyces cerevisia...    79  2e-13
gb|AAB95091.2| (U45025) 89B helicase [Drosophila melanogaster]         75  5e-12
gb|AAF55260.1| (AE003711) Hel89B gene product [Drosophila melano...    75  5e-12
pir||T45606 hypothetical protein F13G24.10 - Arabidopsis thalian...    72  3e-11
dbj|BAB09945.1| (AB005249) contains similarity to HepA-related p...    72  3e-11
emb|CAC12619.1| (AL445067) RNA helicase (RIG-I) related protein ...    71  6e-11

>pir||A75135 probable DEAH ATP-dependent helicase PAB0591 - Pyrococcus abyssi
           (strain Orsay) >gi|5458305|emb|CAB49794.1| (AJ248285)
           PUTATIVE DEAH ATP-DEPENDENT HELICASE [Pyrococcus abyssi]
           Length = 973
           
 Score = 1921 bits (4921), Expect = 0.0
 Identities = 973/973 (100%), Positives = 973/973 (100%)

Query: 1   MNLPEALLRELVLHSPNLFYMSLAWPGRKKIEPFLHQLQPLYHAMIQRPVRMFIADEIGL 60
           MNLPEALLRELVLHSPNLFYMSLAWPGRKKIEPFLHQLQPLYHAMIQRPVRMFIADEIGL
Sbjct: 1   MNLPEALLRELVLHSPNLFYMSLAWPGRKKIEPFLHQLQPLYHAMIQRPVRMFIADEIGL 60

Query: 61  GKTIQALAIARYLNLKGEAKRILILVPKILREQWREEVERLGIIPIVIESGAEVESKLRR 120
           GKTIQALAIARYLNLKGEAKRILILVPKILREQWREEVERLGIIPIVIESGAEVESKLRR
Sbjct: 61  GKTIQALAIARYLNLKGEAKRILILVPKILREQWREEVERLGIIPIVIESGAEVESKLRR 120

Query: 121 KEGFFIVSIDLAKMPEHRDKFLEKEWDLVIIDEAHNVTLGTQRYEFVKDLVGKNKDLNVI 180
           KEGFFIVSIDLAKMPEHRDKFLEKEWDLVIIDEAHNVTLGTQRYEFVKDLVGKNKDLNVI
Sbjct: 121 KEGFFIVSIDLAKMPEHRDKFLEKEWDLVIIDEAHNVTLGTQRYEFVKDLVGKNKDLNVI 180

Query: 181 FLSATPHRGDPKDYLARLTLLDPTLIDDYSKLDSQEFYRRTMGTIIFRRTKSIVNELEGE 240
           FLSATPHRGDPKDYLARLTLLDPTLIDDYSKLDSQEFYRRTMGTIIFRRTKSIVNELEGE
Sbjct: 181 FLSATPHRGDPKDYLARLTLLDPTLIDDYSKLDSQEFYRRTMGTIIFRRTKSIVNELEGE 240

Query: 241 NIFRKCYFGAIVVGITEEEKEFFRRLNDVLSKLVKNTQKNSPQALLAVLVNKRASSSYSS 300
           NIFRKCYFGAIVVGITEEEKEFFRRLNDVLSKLVKNTQKNSPQALLAVLVNKRASSSYSS
Sbjct: 241 NIFRKCYFGAIVVGITEEEKEFFRRLNDVLSKLVKNTQKNSPQALLAVLVNKRASSSYSS 300

Query: 301 AMKTLNKIVESYSVREVNLGKVRDYIERLFGLGYEDVNLEGFSEYDDVIDKIIEEYSAVL 360
           AMKTLNKIVESYSVREVNLGKVRDYIERLFGLGYEDVNLEGFSEYDDVIDKIIEEYSAVL
Sbjct: 301 AMKTLNKIVESYSVREVNLGKVRDYIERLFGLGYEDVNLEGFSEYDDVIDKIIEEYSAVL 360

Query: 361 QESQVREFRELLDVLKRIKMDTKLNIVANVVKQHVERGEKVIIFTEFKDTLEYLRKNLPS 420
           QESQVREFRELLDVLKRIKMDTKLNIVANVVKQHVERGEKVIIFTEFKDTLEYLRKNLPS
Sbjct: 361 QESQVREFRELLDVLKRIKMDTKLNIVANVVKQHVERGEKVIIFTEFKDTLEYLRKNLPS 420

Query: 421 LAGLSDEDVSILHGGMPSGKVEEEIRKFEKHGKLLISTDVASEGLNLQVANVLINYEAPW 480
           LAGLSDEDVSILHGGMPSGKVEEEIRKFEKHGKLLISTDVASEGLNLQVANVLINYEAPW
Sbjct: 421 LAGLSDEDVSILHGGMPSGKVEEEIRKFEKHGKLLISTDVASEGLNLQVANVLINYEAPW 480

Query: 481 TPIKLEQRVGRVWRINQKRDVKAYTIFLDTEVDMYVLNNLYRKIMNIKEAIGGGPRVGIP 540
           TPIKLEQRVGRVWRINQKRDVKAYTIFLDTEVDMYVLNNLYRKIMNIKEAIGGGPRVGIP
Sbjct: 481 TPIKLEQRVGRVWRINQKRDVKAYTIFLDTEVDMYVLNNLYRKIMNIKEAIGGGPRVGIP 540

Query: 541 VLAEKILEGDFEKIWKDIPGDFEAREKISEYDIGYAILRREIEGYKRAILNTLRILRQSI 600
           VLAEKILEGDFEKIWKDIPGDFEAREKISEYDIGYAILRREIEGYKRAILNTLRILRQSI
Sbjct: 541 VLAEKILEGDFEKIWKDIPGDFEAREKISEYDIGYAILRREIEGYKRAILNTLRILRQSI 600

Query: 601 RGAVPQERVENIKRELELALGEDGLKKEDISDVVKDYLRELLGINVPEVTPILHRILVSG 660
           RGAVPQERVENIKRELELALGEDGLKKEDISDVVKDYLRELLGINVPEVTPILHRILVSG
Sbjct: 601 RGAVPQERVENIKRELELALGEDGLKKEDISDVVKDYLRELLGINVPEVTPILHRILVSG 660

Query: 661 EEIKRGIKVGVKKGKAELFLVKLVRDGNEIHRIPVMVENGEVVYGIKLLQRLVELLKDGY 720
           EEIKRGIKVGVKKGKAELFLVKLVRDGNEIHRIPVMVENGEVVYGIKLLQRLVELLKDGY
Sbjct: 661 EEIKRGIKVGVKKGKAELFLVKLVRDGNEIHRIPVMVENGEVVYGIKLLQRLVELLKDGY 720

Query: 721 VILGEANLDSPHLAKIIGVGRERLYKVREKYRKYERWLKRKMLKRDYLFTETQVVPEKIV 780
           VILGEANLDSPHLAKIIGVGRERLYKVREKYRKYERWLKRKMLKRDYLFTETQVVPEKIV
Sbjct: 721 VILGEANLDSPHLAKIIGVGRERLYKVREKYRKYERWLKRKMLKRDYLFTETQVVPEKIV 780

Query: 781 EFEPLGEKFKMAKLIPLGLLEHLGLSQEDISLPTKEDELLLTRNFVPLEDILKAEAEAMR 840
           EFEPLGEKFKMAKLIPLGLLEHLGLSQEDISLPTKEDELLLTRNFVPLEDILKAEAEAMR
Sbjct: 781 EFEPLGEKFKMAKLIPLGLLEHLGLSQEDISLPTKEDELLLTRNFVPLEDILKAEAEAMR 840

Query: 841 IVIELEKEKLRKEYGEEGWEVKDVSLHEHYDILVRHPDGEKYIEVKGHLPLLLQAELTEA 900
           IVIELEKEKLRKEYGEEGWEVKDVSLHEHYDILVRHPDGEKYIEVKGHLPLLLQAELTEA
Sbjct: 841 IVIELEKEKLRKEYGEEGWEVKDVSLHEHYDILVRHPDGEKYIEVKGHLPLLLQAELTEA 900

Query: 901 EAKFAKENEDKYWLYIVTNIRKRPIILKVFKPLSNPRIFLVTGKGELEITGQIKVKIKER 960
           EAKFAKENEDKYWLYIVTNIRKRPIILKVFKPLSNPRIFLVTGKGELEITGQIKVKIKER
Sbjct: 901 EAKFAKENEDKYWLYIVTNIRKRPIILKVFKPLSNPRIFLVTGKGELEITGQIKVKIKER 960

Query: 961 KRTLLSIGPIEGS 973
           KRTLLSIGPIEGS
Sbjct: 961 KRTLLSIGPIEGS 973


>pir||D71079 hypothetical protein PH0900 - Pyrococcus horikoshii
           >gi|3257311|dbj|BAA29994.1| (AP000004) 902aa long
           hypothetical protein [Pyrococcus horikoshii]
           Length = 902
           
 Score =  834 bits (2130), Expect = 0.0
 Identities = 448/938 (47%), Positives = 643/938 (67%), Gaps = 50/938 (5%)

Query: 45  MIQRPVRMFIADEIGLGKTIQALAIARYLNLKGEAKRILILVPKILREQWREEVER-LGI 103
           M+ RPVR+ IADEIGLGKTIQAL IA+YL+L+GE K+ LI+VPK+LREQWREEV+R L  
Sbjct: 1   MLIRPVRLMIADEIGLGKTIQALLIAKYLDLRGEIKKALIVVPKVLREQWREEVKRILEE 60

Query: 104 IPIVIESGAEVESKLRRKEGFFIVSIDLAKMPEHRDKFLEKEWDLVIIDEAHNVTLGTQR 163
            P +I+ G E+E KLRR   +FI+SIDLAK   +  +   ++WDLVI+DE HN TLGTQR
Sbjct: 61  APEIIDRGIEIERKLRRPRKYFIISIDLAK--RYTKEITSQDWDLVIVDEVHNATLGTQR 118

Query: 164 YEFVKDLVGKNKDLNVIFLSATPHRGDPKDYLARLTLLDPTLIDDYSKLDSQEFYRRTMG 223
           YEF+K+L  KNK+LNVIFLSATPHRG+ KDYLARL LLDPTL ++ S  + ++ Y RT G
Sbjct: 119 YEFLKELT-KNKNLNVIFLSATPHRGNNKDYLARLRLLDPTLPEEISPTNEKKLYMRTRG 177

Query: 224 TIIFRRTKSIVNELEGENIFRKCYFGAIVVGITEEEKEFFRRLNDVLSKLVKNTQKNSPQ 283
           T++ RRTK +VNELEGE +F+KC+FGAIVV +++EE++FF  LN  L +LVK+    SP 
Sbjct: 178 TLVLRRTKKVVNELEGE-VFKKCHFGAIVVDVSDEERKFFEELNRALFELVKDQADYSPL 236

Query: 284 ALLAVLVNKRASSSYSSAMKTLNKIVES-YSVREVNLGKVRDYIERLFGLGYEDVNLEGF 342
            LLAV++ KRASSSY +A+KTL +IVES +  R+     + +Y+E++F +GYE++ +E F
Sbjct: 237 TLLAVIIRKRASSSYEAALKTLTRIVESSHRGRKEKAKGIEEYVEKIFRMGYEELEIEEF 296

Query: 343 SEYDDVIDKIIEEYSAVLQESQVREFRELLDVLKRI-KMDTKLNIVANVVKQHVERGEKV 401
            E DD I KII+EY   L E Q+ + + +L++ K+I   D+KL ++++++  H+ +GEKV
Sbjct: 297 EEIDDAIHKIIDEYRGFLDERQLEKLKRVLELGKKIGNKDSKLEVISDIIAYHIRKGEKV 356

Query: 402 IIFTEFKDTLEYLRKNLPSLAG------LSDEDVSILHGGMPSGKVEEEIRKFEKHGKLL 455
           IIFTEF+DTLEY+   LP +        L  +D++ LHGGM S ++E EI+KF +   LL
Sbjct: 357 IIFTEFRDTLEYILGKLPGILRERHGILLESDDIAKLHGGMKSEEIEREIKKFHERSDLL 416

Query: 456 ISTDVASEGLNLQVANVLINYEAPWTPIKLEQRVGRVWRINQKRDVKAYTIFLDTEVDMY 515
           +STDVASEGLNL VA+V+INYEAPW+PIKLEQRVGR+WR+NQ+++  AYT+FL TE D+ 
Sbjct: 417 VSTDVASEGLNLHVASVVINYEAPWSPIKLEQRVGRIWRLNQRKETNAYTVFLATETDLD 476

Query: 516 VLNNLYRKIMNIKEAIGGGPRVGIPVLAEKILEGDFEKIWKDIPGDFEAR-EKISEYDIG 574
           VLNNLY+KIMNIKEAIG GP +G P     I +GDFE +W++   D E R E++SEY++ 
Sbjct: 477 VLNNLYKKIMNIKEAIGSGPIIGKP-----IFKGDFENLWRE---DVEERNEEVSEYELI 528

Query: 575 YAILRREIEGYKRAILNTLRILRQSIRGAVPQERVENIKRELELALGEDGLKKEDISDVV 634
            A ++ +++GY  A++ TLRIL+Q +  AVP     +IKREL L L       ED  D+ 
Sbjct: 529 LASIKGQLKGYAGALVRTLRILKQKVENAVPVNPAGSIKRELSLIL-------EDTPDI- 580

Query: 635 KDYLRELLGINVPEVTPILHRILVSGEEIKRGIKVGVK--KGKAELFLVKLV-RDGNEIH 691
            + L+ ++  NVP    ++  +L    +I+ GI+V VK   G  +++ V     +G E++
Sbjct: 581 -EVLKGIVEKNVPNPFRLVRALLRENSKIE-GIQVLVKGYNGSMDVYYVLFYDEEGREVY 638

Query: 692 RIPVMVENGEVVYGIKLLQRLVELLKDGYVILGEANLDSPHLAKIIGVGRERLYKVREKY 751
           R P++VENG    G  +L+R+ E+L   Y I+   +  + +  + + + R   + +  +Y
Sbjct: 639 RYPILVENGRYFIGFNILRRISEVLTKEYKIVKGVSKGTDYKVRTLIMDRV-YFPIIGRY 697

Query: 752 RKYERWLKRKMLKRDYLFTETQVVPEKIVEFEPLGE-KFKMAKLIPLGLLEHLGLSQEDI 810
             YE    +  +KRD LF   +V  +K++E + + E +F++ K +P+ +++ LGL   ++
Sbjct: 698 MDYE----KLSIKRDRLFKRIKVEIKKVLEIKGVSEGEFEIIKRVPVEIVKVLGLDFTNV 753

Query: 811 SLPTKEDELLLTRNFVPLEDILKAEAEAMRIVIELEKEKLRKEYGEEGWEVKDVSLHEHY 870
            LPT+E    L RNFVPL  IL++E +AM IV+ELEK +        G+ V+DVSL EHY
Sbjct: 754 ELPTEEYIKALERNFVPLNKILESERKAMEIVMELEKTR--------GYNVEDVSLREHY 805

Query: 871 DILVRHPDGEKYIEVKGHLPLLLQAELTEAEAKFAKENEDKYWLYIVTNIRKRPIILKVF 930
           DI       EKYIEVKGH P+L  AELTE E KFA +NEDKYW+YIV+NI + P+I+K++
Sbjct: 806 DIRAFKDGEEKYIEVKGHYPMLFLAELTEKEYKFALKNEDKYWIYIVSNIAREPVIVKIY 865

Query: 931 KPLSNPRIFLVTGKGELEITGQIKVKIKERKRTLLSIG 968
           KP S  R   +   GE ++  ++ +++ ++ R +L +G
Sbjct: 866 KPFSQDRKVFIVKNGE-DVEVKVDIEVNKKARHVLKLG 902


>pir||D72308 conserved hypothetical protein - Thermotoga maritima (strain MSB8)
           >gi|4981530|gb|AAD36069.1|AE001761_1 (AE001761)
           conserved hypothetical protein [Thermotoga maritima]
           Length = 967
           
 Score =  832 bits (2126), Expect = 0.0
 Identities = 452/960 (47%), Positives = 642/960 (66%), Gaps = 36/960 (3%)

Query: 45  MIQRPVRMFIADEIGLGKTIQALAIARYLNLKGEAKRILILVPKILREQWREEVERLGII 104
           M+ RPVR+ IADEIGLGKTIQALAIARYL L+GEAK+ILILVPKILREQW++E+ RLG  
Sbjct: 1   MLSRPVRILIADEIGLGKTIQALAIARYLELQGEAKKILILVPKILREQWKQEIRRLGGK 60

Query: 105 PIVIESGAEVESKLRRKEGF------FIVSIDLAKMPEHRDKFLEKEWDLVIIDEAHNVT 158
           P+VI +G+EVE KL RK  F      F+VSIDLAK   H +KF   +WDL+I+DE HNVT
Sbjct: 61  PVVITNGSEVERKLLRKATFNNAAEYFVVSIDLAKSQNHSEKFSAIDWDLLIVDEVHNVT 120

Query: 159 LGTQRYEFVKDLVGKNK-DLNVIFLSATPHRGDPKDYLARLTLLDPTLIDDYSKLDSQEF 217
             TQRY F+K L+ K+K DLN++FLSATPHRG+PKDY+ RL LLDPTL  D++ LDS++F
Sbjct: 121 YNTQRYNFLKSLIEKSKEDLNIVFLSATPHRGNPKDYIERLRLLDPTLTADWNALDSEKF 180

Query: 218 YRRTMGTIIFRRTKSIVNELEGENIFRKCYFGAIVVGITEEEKEFFRRLNDVLSKLVKNT 277
           YRRT G ++FRRTK +VN+LE   IF+KC F A++V ITEEEK FF  L++VL ++VK+ 
Sbjct: 181 YRRTHGVLVFRRTKKVVNDLEKREIFKKCDFNAVIVDITEEEKRFFEELDEVLFEMVKDV 240

Query: 278 QKNSPQALLAVLVNKRASSSYSSAMKTLNKIVESYSVREVNLGKVRDYIERLFGLGYEDV 337
             NSP ALLAVL+ KRA+SSY SA+KT+N I+++          + D I+++FGLGY+++
Sbjct: 241 HMNSPVALLAVLLRKRAASSYESALKTINNIIKNQYSGASGEDVLEDQIKQIFGLGYDEM 300

Query: 338 NLEGFSEYDDVIDKIIEEYSA--VLQESQVREFRELLDVLKRI-KMDTKLNIVANVVKQH 394
            LE  SE DD+I  II   +    L + Q+    ++L + K I K D+KL  +A V+  H
Sbjct: 301 ELEENSEIDDLISSIINSVAKRYPLDKGQINALEKILKIGKAIGKNDSKLKTLAEVLAYH 360

Query: 395 VERGEKVIIFTEFKDTLEYLRKNLPSL-----AGLSDE-DVSILHGGMPSGKVEEEIRKF 448
           +++ EKVI+FTEFKDTLEYLR NLP+L       LS+E D+S+LHGGM S ++E+++ KF
Sbjct: 361 LKKNEKVIVFTEFKDTLEYLRNNLPTLLEQEGIHLSEEKDISVLHGGMKSEEIEKQVEKF 420

Query: 449 EKHGKLLISTDVASEGLNLQVANVLINYEAPWTPIKLEQRVGRVWRINQKRDVKAYTIFL 508
              GKLLISTDVASEGLNLQVAN+LINYE PW+PIKLEQRVGR+WR+NQ ++  AYT+ L
Sbjct: 421 ANDGKLLISTDVASEGLNLQVANILINYEIPWSPIKLEQRVGRIWRLNQTKETIAYTLLL 480

Query: 509 DTEVDMYVLNNLYRKIMNIKEAIGGGPRVGIPVLAEKILEGDFEKIWKDIPGDFEAREKI 568
           + E D+ +L +LY+KI+NI +A+G GP VG PV   + L G+FE   +++  +  +   +
Sbjct: 481 NHEADLQILESLYQKILNITDAVGTGPNVGKPVFGTRTLSGNFEYRLENVQDEETSDSPV 540

Query: 569 SEYDIGY-AILRREIEGYKRAILNTLRILRQSIRGAVPQERVENIKRELELALGEDGLKK 627
           SE+++   AI RR ++   + I++TL+ LR  I   VP      I+ EL   L  D ++ 
Sbjct: 541 SEFELMLSAIKRRNLDEQTKRIISTLKSLRTKIEEVVPLNTCNEIQEELNSVLLPDDMES 600

Query: 628 EDISDVVKDYLRELLGINVPEVTPILHRILVS--GEEI--KRGIKVGVKKGKAE--LFLV 681
           E + + +K Y+       +  +   L +IL     E +  ++ +K+ VK    E  LF V
Sbjct: 601 EIVFEKLKKYISVFENSFINSIGSYLFKILTDRIHEPLLNEKCLKIAVKNESKEYRLFQV 660

Query: 682 KLVRDGNEIHRIPVMVENG-----EVVYGIKLLQRLVELLKDGYVILGEANLDSP---HL 733
           +++  G +I+  PV++E G     ++  G  LL++L ++    + ++  AN         
Sbjct: 661 EVIDRGRKIYEYPVLIEIGGNVSPQLYRGTSLLEKLADVFSKEWFVIEWANPKEKMDIQT 720

Query: 734 AKIIGVGRERLYKVREKYRKYERWLKRKMLKRDYLFTETQVVPEKIVEFEPLGEK-FKMA 792
           AK+I    + L  + +K+  Y+  L   ++K D LF        +I+  E L ++ F + 
Sbjct: 721 AKLIDRSAKDLQSIMDKHTDYDIKLNESLMKTDSLFRRLNTRSSEILRVEGLSDREFSVF 780

Query: 793 KLIPLGLLEHLGLSQEDISLPTKEDELLLTRNFVPLEDILKAEAEAMRIVIELEKEKLRK 852
           KL+   +LE LGLS + I LP  + E  + R+FVPLEDIL++E +AM IV+++EK++L +
Sbjct: 781 KLLHPSILEILGLSLDSIELPPSDYEKWMERSFVPLEDILESERKAMEIVMDIEKKRLIE 840

Query: 853 EYGEEG-WEVKDVSLHEHYDILVRHPDGEKYIEVKGHLPLLLQAELTEAEAKFAKENEDK 911
           +YGE   W+V+DVSL EHYDI V  P+GEKYIEVKGH PL L AELT AE +FA +N D+
Sbjct: 841 KYGESSDWKVEDVSLKEHYDIKVSEPEGEKYIEVKGHKPLWLSAELTAAEHRFANDNRDR 900

Query: 912 YWLYIVTNI-RKRPIILKVFKPLSNP--RIFLVTGKGELEITGQIKVKIKERKRTLLSIG 968
           YW+YIV+N+  K+P+ILK+F P  +   +I+LV    +++IT      IK ++R ++S+G
Sbjct: 901 YWIYIVSNLGGKKPVILKIFSPFDDEKRKIYLVHENKDIDITEIFGSTIKTKQRYVISLG 960


>pir||E72734 hypothetical protein APE0413 - Aeropyrum pernix (strain K1)
            >gi|5104053|dbj|BAA79369.1| (AP000059) 1039aa long
            hypothetical protein [Aeropyrum pernix]
            Length = 1039
            
 Score =  305 bits (772), Expect = 2e-81
 Identities = 293/1015 (28%), Positives = 477/1015 (46%), Gaps = 145/1015 (14%)

Query: 33   PFLHQLQPLYHAMIQRPVRMFIADEIGLGKTIQALAIARYLNLKGEAK--RILILVPKIL 90
            P LHQ + +  ++  +P R+ IAD IGLGKT+ AL I + +      K  R+LI VP +L
Sbjct: 29   PLLHQTEVVAKSLFIKPTRILIADVIGLGKTVTALRILKTIEHYKNQKLGRVLIAVPAVL 88

Query: 91   REQWREEVERLGIIPIVIESGAEVESKLRRKE---GFFIVSIDLAKMPEHRDKFLEKEWD 147
             EQW++E+  +GI PI+IE  + ++ + ++ E   G++I SID  K PE+       +WD
Sbjct: 89   VEQWKDEMRSMGINPILIERKS-LDFRAKQPELPSGWYIGSIDTLKRPEYMAFLQRNKWD 147

Query: 148  LVIIDEAHNVTL----GTQRYEFVKDLVGKNKDLNVIFLSATPHRGDPKDYLARLTLLDP 203
             +++DEAH + +       R+  +  L+ +N+D  V+ LSATPHRG   DYL+RL L+DP
Sbjct: 148  AIVVDEAHKLGVVGGEPNMRWRNLGKLIMENRDAIVLLLSATPHRGKANDYLSRLALVDP 207

Query: 204  TLIDDYSK------LDSQEFYRRTMGTIIFRRTKSIVNEL-EGENIFRKCYFGAIVVGIT 256
            TL+D  S        D  EFY+RT   I+FRR K  VN++ E   IF+ C   A+++   
Sbjct: 208  TLLDVTSVSTLEKVFDKPEFYQRTHNVILFRRNKDDVNKIYERAEIFKPCNMLAVLIEPN 267

Query: 257  EEEKEFFRRLNDVLSKLV-------------KNTQKNSPQALLAVLVNKRASSSYSSAMK 303
            + E+ F R + ++ +  +             K  +  S  ALL  L+ KR  SS  + +K
Sbjct: 268  DVERGFLRTITELTTSYLRSYYTYIVKELGWKTGRAQSIVALLRTLLVKRGLSSPQALVK 327

Query: 304  TLNKIVESYS--VREVNLGKVRDYIERLFGLGYEDVN------LEG-FSEYDDVIDKIIE 354
            T  K+VE     +  ++ G   D  ++      ED        L G   E D+ +D+  E
Sbjct: 328  TFGKLVEKRGRFIELIDRGYTPDEAQKKIAEEIEDYARKLDEILSGDIGEIDEELDEEFE 387

Query: 355  EYSAVLQESQVREFRELL--------DVLKRIKMDTKLNIVANVVKQHVER--------- 397
              +    +     FRE L        D+L    +D+K+  +  ++   +           
Sbjct: 388  RLAIYFDKLLDDMFREELKKAQKYAEDILVGKAVDSKVETLKKILGLVLYTPPEELPDEF 447

Query: 398  ----GEKVIIFTEFKDTLEYLRKNLPSLAG--LSDEDVSILHGGMPSGKVEEEIRKFEKH 451
                 +K I+FTEFKDT  YL + L   A     D  +  +      G++E+  R   + 
Sbjct: 448  KDLASQKAIVFTEFKDTATYLYEKLRKWAEDEFGDPGIVRVFTSENRGEIEDIKRWLSED 507

Query: 452  GK-LLISTDVASEGLNLQVANVLINYEAPWTPIKLEQRVGRVWRINQKRDVKAYTIFLDT 510
            G+ +L++TDVA EGLNLQ ANV+INYE  W+PI+LEQR+GRVWR  Q +    + +FL  
Sbjct: 508  GRRVLVTTDVAGEGLNLQYANVIINYEITWSPIRLEQRIGRVWRYGQDKTTYVFNLFLAD 567

Query: 511  EVDMYVLNNLYRKIMNIKEAIGG-----GPRVGIPVLAEKILE---GDFEKIWKDIPGD- 561
             ++  V   ++ K+  I  ++G      G +V +  +  ++LE    + E I   IP + 
Sbjct: 568  GLEKEVAETVFAKLYGISISVGKLEPILGEQVFLSTIRNELLEHAVEERETIGGLIPIEI 627

Query: 562  -FEARE-KISEYDIGYAILRREIEGYKRAILNTLRILRQSI---RGAVPQERVENIKREL 616
             FE R+  +SE  I   ++ ++   + +A +  L+ L + I   R    +   E ++ EL
Sbjct: 628  NFENRKISLSEARI-IELVAKDARAFVKAFIKALKRLVREIKYKRIFPVRADAEKVREEL 686

Query: 617  ELALG----ED----------------GLKKEDISDVV----KDYLRELLGINVPEV-TP 651
                G    ED                 L  E+  D +    KD     L I+ PE    
Sbjct: 687  LHLTGFRDMEDVVETLKNAGEAFSKILDLSFEEREDKILLRSKDGTVFELPISNPETFLK 746

Query: 652  ILHRILVSGEEIKRGIKVGVKKGKAELFLVKLVRDGNEIHRIPV-MVENGE-----VVYG 705
             L     + +  K  +    +K    L  V+++  G   +R P+ ++ N E     ++ G
Sbjct: 747  RLQAYFRTDDHAKYFVYQSSEKEVMLLSEVEVLIGGEIRYREPIGILANVETYSLTILRG 806

Query: 706  IKLLQRLVELLKDGYVILGEANLDSPHLAKIIGVGRERLYKVREKYRKYERWLKRKMLKR 765
             +L  +L+++L +   +     LD      ++ +  + +      +  YE  LK   +K 
Sbjct: 807  KELFSKLLKILDNSVPVDEVYGLDD-----VLNLIPQIMSSSPNTF--YETALKNGAVKL 859

Query: 766  DYLFTETQVVPEKIVEFEPLGEKFKMAKLIPLGLLEHLGLSQEDISLPTKEDELLLTRNF 825
              +  E + V EK+       +KF       + + E   +     +LP  +D        
Sbjct: 860  IKMLEEYEEVKEKLG-----AKKFFHTYEPQVKIREPTFIMISSANLPEVKD-------- 906

Query: 826  VPLEDILK-AEAEAMRIVIELEKEKLRKEYGEEGWEVKDVSLHEHYDI--LVRHPDG--- 879
            VP E++   AE EA+  V++ EK++ R        E   VS HEHYD+  + R  DG   
Sbjct: 907  VPSEEVWGWAEDEAISTVLDYEKQEDR--------EPTRVSGHEHYDVRSVKRGEDGSIK 958

Query: 880  -EKYIEVKGHLPLLLQAELTEAEAKFAKENEDKYWLYIVTNIR-KRPIILKVFKP 932
             E++IEVK  +   L   L   E K A++  D YWLYIV  +R ++P+IL +  P
Sbjct: 959  EERFIEVKTKIKRSLNFGLKSEEFKVAEKKGDNYWLYIVYGVRTEKPVILCIKNP 1013


>gi|11499927 ATP-dependent RNA helicase HepA, putative [Archaeoglobus fulgidus]
           >gi|7446070|pir||F69543 ATP-dependent RNA helicase HepA
           homolog - Archaeoglobus fulgidus
           >gi|2650747|gb|AAB91314.1| (AE001114) ATP-dependent RNA
           helicase HepA, putative [Archaeoglobus fulgidus]
           Length = 943
           
 Score =  232 bits (586), Expect = 1e-59
 Identities = 222/802 (27%), Positives = 401/802 (49%), Gaps = 92/802 (11%)

Query: 48  RPVRMFIADEIGLGKTIQALAIARYLNLKGEAKRILILVPKILREQWREEVE-RLGI-IP 105
           RPVR+ IA E GLGKTI A    + + ++    RILI+ P  ++ QW++E++ + G+ +P
Sbjct: 53  RPVRVLIAYETGLGKTILAGLFIKEMVIRNPNTRILIVTPPNVQYQWQDELKNKFGMHVP 112

Query: 106 IVIESGAEVESKLRRKEGFFIVSIDLAKMPEHRDKFLEKEWDLVIIDEAHNVTLGTQRYE 165
           ++ E+  + +  L++K  + I S+D  K      +  +  WD+V++DE H  T+  +R +
Sbjct: 113 LLTEADKQGKDPLKQK--WLIASMDTLKGENWLRRVEDHRWDIVVVDELHRATIKNRRAQ 170

Query: 166 FVKDLVGKNKDLNVIFLSATPHRGDPKDYLARLTLLDPTLIDDYSKLDSQEFYRRTMGTI 225
            ++ L  + K  +++ L+ATPH G    ++ RL+L++  + +   K    EF ++     
Sbjct: 171 LIQVLRDRTK--HMLALTATPHDGKEDQFVFRLSLINRNVDEQNWK----EFVKK----Y 220

Query: 226 IFRRTKSIVNELEGENIF-RKCYFGAIVVGITEEEKEFFRRLNDVLSKLVKNTQKNSPQA 284
            FRR K  V +LEG  IF +K Y   I +   EEEKEF+  +   +    K  ++ + ++
Sbjct: 221 TFRRRKRDVLDLEGRKIFPQKVYPLTIEIEPDEEEKEFYWEVEKYVRSYYKLAEEENKRS 280

Query: 285 --LLAVLVNKRASSSYSSAMKTL-NKIVESYSVREVNLGKVRDYIERLFGLGYEDVNLEG 341
             L+A +V +  SSS ++ ++ L N+    +      L    D ++ L     +    EG
Sbjct: 281 IGLVATIVGRAVSSSINAGVQVLKNRYRRLFEGFAEELEDAEDILDEL-----KQAEEEG 335

Query: 342 FSE-YDDVIDKIIEEYSAVLQESQVREFRELLDVLKRIK-------MDTKLNIVANVVKQ 393
             E  + +  KIIE  S  +++  V + +E+L+ L  +         D K   +  VV +
Sbjct: 336 DDEKLEKLRMKIIE--SVPVRKDLVEKEKEVLERLITLGEKLLERGRDKKTERLVQVVNE 393

Query: 394 HVERGEKVIIFTEFKDTLEYLRKNLPSLAGLSDEDVSILHGGMPSGKVEEEIRKFEKHGK 453
           H+E+G KVIIFT+F  TL++L +    + G  +  V  +HGG+   + +  I K     K
Sbjct: 394 HMEKGNKVIIFTQFLATLDHLERTFKEIYG--ENSVVTVHGGLTHEEKKNRIAKLWDSAK 451

Query: 454 LLISTDVASEGLNLQVANVLINYEAPWTPIKLEQRVGRVWRINQKRDVKAYTIFLDTEVD 513
           +LI+TD A E LNLQ ANV+I+YE PW P+   QRVGRV+R  Q++D+   ++    +++
Sbjct: 452 ILIATDAAGESLNLQAANVVIHYEIPWNPVVYIQRVGRVYRYGQEKDIYIQSMLPVFKIE 511

Query: 514 MYVLNNLYRKIMNIKEAIGGGPRVGIPVLAEKILEGDFE-KIWKDIPGD--FEAREKIS- 569
             VL  + +K+  I++    G    + ++   I E D E +IW+    D   +A E++S 
Sbjct: 512 RRVLEVILQKVETIEKDFDIG---SVEIIGTIISERDIENEIWRAYVEDRIEDAGEEVSK 568

Query: 570 EYDIGYAILRREIEGYKRAILNTLRILRQSI---RGAVPQERVENIKREL----ELALGE 622
           ++D G ++L++     ++A      +  + +   RG V     E++++ L    E  LGE
Sbjct: 569 KFDKGKSVLQKIRLVLEKAEAAKKHVRAEKLLEDRGIVEIITEEDLRKYLFYFGEAKLGE 628

Query: 623 DGLKKE----DISDV----------VKDYLRELLGINVPEVTPILHRIL-VSGEEIKRGI 667
                E    +I DV          +K    E+L  ++ +VT +  + L +    I++ +
Sbjct: 629 GKFYDEFTFFEIKDVRIHPEKILTEIKPSKAEIL--DLKDVTTLSEKELKLDNPAIRKAL 686

Query: 668 KVGV-----------KKGKAELFLVKLVR-DGNEIHRIPVMVENGEVVYGIKLLQRLVEL 715
            +G+           ++G  E+ L+KL    G  I+ IPV+V NG  +   + LQ L  +
Sbjct: 687 YIGMCQRGEAIFSGNEEGYGEIRLLKLFDFYGEPIYEIPVVVFNGS-IKPFRFLQTLEPV 745

Query: 716 LKDGYVILGEANLDSPHLAKIIGVGRERLY--KVREKYRKYERWLKRKML-----KRDYL 768
           +    +   E  L +   +K I + R+  Y  +V+E+ R Y +    K+L     + +Y 
Sbjct: 746 ILSDEI---EKELTADLESKEIEI-RDSSYISEVKEEQRLYLKERVNKVLDALSIEEEYY 801

Query: 769 --FTETQVVPEKIVEFEPLGEK 788
             F   +   +K+ E + + +K
Sbjct: 802 KRFLSDEQAKKKLQEIQEMKKK 823


>gi|10803646 ORF H1186 [Halobacterium sp. NRC-1] >gi|7484100|pir||T08316
           probable ATP-dependent helicase H1186 - Halobacterium
           sp.  (strain NRC-1) plasmid pNRC100
           >gi|2822377|gb|AAC82883.1| (AF016485) ORF H1186
           [Halobacterium sp. NRC-1] >gi|10584193|gb|AAG20812.1|
           (AE005149) ATP-dependent RNA helicase; HepA
           [Halobacterium sp. NRC-1]
           Length = 979
           
 Score =  209 bits (527), Expect = 1e-52
 Identities = 171/639 (26%), Positives = 300/639 (46%), Gaps = 66/639 (10%)

Query: 28  RKKIEPFLHQLQPLYHAMIQRPVRMFIADEIGLGKTIQALAIARYLNLKGEAKRILILVP 87
           R +IEP+  Q+Q  Y  +     R  I DE+GLGKTI+A  +   L  +G A+R+LI+ P
Sbjct: 97  RIEIEPY--QVQAAYEILNSYDHRYLIGDEVGLGKTIEAGIVTEELIARGRAQRVLIVAP 154

Query: 88  KILREQWREEVERLGIIPIVIESGAEVESKLRR--------KEGFFIVSIDLAKMPEHRD 139
             L  QW++E+        VI     V +            +E   I SID AK  +  +
Sbjct: 155 APLTVQWQQEMREKFDRNFVIYDRETVRTHRNSHPNQNVWLQEDLIITSIDFAKQDDVLE 214

Query: 140 KF--LEKEWDLVIIDEAHNVTLG---------TQRYEFVKDLVGKNKDLNVIFLSATPHR 188
               L+  WDL + DEAH++T           TQRY  V + V +N D  ++ L+ TPH+
Sbjct: 215 ALRNLDVPWDLAVFDEAHHLTARRGSDESIERTQRYT-VGEAVAENSDA-LLLLTGTPHK 272

Query: 189 GDPKDYLARLTLLDPTLIDDYSKLDSQEFYRRTMGTIIFRRTKSIVNELEGENIFRKCYF 248
           G    +   + LLDP      S++   E     +  ++ RR K  + E +G  +F +   
Sbjct: 273 GKSDQFYFMVNLLDPYRFGHESQIHPDE-----LDDLMIRRLKEDMYETDGTRMFPEKNI 327

Query: 249 GAIVVGITEEEKEFFRRLNDVLSKLVKNTQK--NSPQALLAVLVNKRASSSYSSAMKTLN 306
            A+ V ++  E++ +  + + + +     Q+  N       V+  KR  SS  +  K+L 
Sbjct: 328 EALGVEMSPAERKLYDDVTEYIREYYNLAQQEENKAAGFTMVIYQKRLVSSIYAIQKSLE 387

Query: 307 ---KIVESYSVREVNLGKVRDYIERLFGLGYEDVNLEGFSEYD-DVIDKIIEEYSAVLQE 362
              + +++ +V E     V++ I R           E  ++ + + ++  +E  +  L +
Sbjct: 388 NRMRAIQNDAVAEDLPDDVQELIPRY------STEPETLTDAERERVEAALETVTVTLNQ 441

Query: 363 SQVREFRELLDVLKRIKMDTKLNIVANVVKQHVER------GEKVIIFTEFKDTLEYLRK 416
           SQ++E  + +  L R     + +  A ++KQ V+R       EK++IFTE+ DTLEYLR 
Sbjct: 442 SQIQEELDRVKQLWRQAKSIETDSKAQMLKQFVDRILTEDPDEKILIFTEYTDTLEYLRD 501

Query: 417 NLPSLAGLSDEDVSILHGGMPSGKVEEEIRKFEKHGKLLISTDVASEGLNLQVANVLINY 476
            +      ++ D++ ++G +   +  +E+  FE    ++I+TD A EGLNLQ A+++ N+
Sbjct: 502 RV-----FAEYDIAQVYGDLDQDRRRQEMADFENEKNIMIATDAAQEGLNLQFAHIMANF 556

Query: 477 EAPWTPIKLEQRVGRVWRINQKRDVKAYTIFLDTEVDMYVLNNLYRKIMNIKEAIGGGPR 536
           + PW+P +++QR+GR+ R  Q+R V+   +F     +  +LN L  K   I+  +G    
Sbjct: 557 DLPWSPTRIDQRMGRLHRYGQERTVEIRNLFFKDTRESEILNLLVEKTDQIESDLGMRSD 616

Query: 537 VGIPVLAEKILEGDFEKIWKDIPGDFEAREKISEYDIGYAILRREIEGYKRAIL------ 590
           V   VL +  L+   + I   I  D    E +++ D      +  +E  +   L      
Sbjct: 617 VLGRVLEDVDLD---DTIMAAIAEDRPTDEVVADIDETIEERKNALETVENEFLIRDRFD 673

Query: 591 ------NTLRILRQSIRGAVPQERVENIKRELELALGED 623
                   L ++ +S  G V ++ +E + RE     G D
Sbjct: 674 LSDEDDEILDVIERSQHGDVSEDDIEVLVREFFDEFGGD 712


>sp|P54509|YQHH_BACSU HYPOTHETICAL HELICASE IN SINI-GCVT INTERGENIC REGION
           >gi|7446097|pir||G69958 SNF2 helicase homolog yqhH -
           Bacillus subtilis >gi|1303889|dbj|BAA12545.1| (D84432)
           YqhH [Bacillus subtilis] >gi|2634892|emb|CAB14389.1|
           (Z99116) similar to SNF2 helicase [Bacillus subtilis]
           Length = 557
           
 Score =  178 bits (446), Expect = 3e-43
 Identities = 147/535 (27%), Positives = 255/535 (47%), Gaps = 80/535 (14%)

Query: 33  PFLHQLQPLYHAMIQRPVRMFIADEIGLGKTIQALAIARYLNLKGEAKRILILVPKILRE 92
           P  HQL+     + +   +  +ADE+GLGKT++A  I +   ++G AK+ILILVP  L  
Sbjct: 60  PLPHQLEVAQKVVEKMNGKAILADEVGLGKTVEAGLILKEYMIRGLAKKILILVPASLVS 119

Query: 93  QWREEVERLGIIPIVIESGAEVESKLRRKEGFFIVSIDLAKMPEHRDKFLEKEWDLVIID 152
           QW +E++   +IP V     + +S +  +    + SID AK   HR+  L   +DLVIID
Sbjct: 120 QWVKELQEKFLIPAV----EQKKSYVWEQCDIVVSSIDTAKRSPHREIVLSIPYDLVIID 175

Query: 153 EAHNV-TLGTQRYEFVKDLVGKNKDLNVIFLSATPHRGDPKDYLARLTLLDPTLIDDYSK 211
           EAH +    T+ YEFV++LV K      + L+ATP +   ++    ++LL P  +   + 
Sbjct: 176 EAHKLKNSKTKNYEFVRNLVKK----YCLLLTATPIQNRIEEIFNLVSLLKPGHLGSQNH 231

Query: 212 LDSQEFYRRTMGTIIFRRTKSIVNELEGEN-------IFRKCYFGAIVVGITEEEKEFFR 264
              +EF ++          K +VN++   N        +++ +   + +  +  E+  + 
Sbjct: 232 F-QEEFAKKKSSLEAHEHLKDLVNKVMIRNRRHDTGLNWKQRHVETVPIQFSPSEQALY- 289

Query: 265 RLNDVLSKLVKNTQKNSPQALLAVL-VNKRASSSYSSAMKTLNKIVESYSVREVNLGKVR 323
              D +S+L  +   N P ++ +++ + +   SS  +   TL K+++    +   +    
Sbjct: 290 ---DEISRLKDSI--NKPASMFSIMTLQRECCSSREAVYMTLKKMLDQKEKQAPAID--- 341

Query: 324 DYIERLFGLGYEDVNLEGFSEYDDVIDKIIEEYSAVLQESQVREFRELLDVLKRIKMDTK 383
                                 +D I  +I+  + V Q S+     +++D++K+I     
Sbjct: 342 ----------------------EDTISVLIDRINQVTQNSKA---LQVVDLIKKI----- 371

Query: 384 LNIVANVVKQHVERGEKVIIFTEFKDTLEYLRKNLPSLAGLSDEDVSILHGGMPSGKVEE 443
                          +KVIIFTE++ T  YL+  L    G+S        GG   GK + 
Sbjct: 372 --------------DDKVIIFTEYRATQIYLQWFLQQ-NGISSVP---FRGGFKRGKKDW 413

Query: 444 EIRKFEKHGKLLISTDVASEGLNLQVANVLINYEAPWTPIKLEQRVGRVWRINQKRDVKA 503
               F    ++LI+T+   EG+NLQ  N +INY+ PW P++LEQR+GR+ R+ Q+RDV  
Sbjct: 414 MKDLFRGKIQVLIATEAGGEGINLQFCNHMINYDLPWNPMRLEQRIGRIHRLGQERDVHI 473

Query: 504 YTIFLDTEVDMYVLNNLYRKIMNIKEAIGGGPRVGIPVLAEKILEGDFEKIWKDI 558
           Y +     V+ ++L  LY KI   ++ +G      +  +  KI   +FE+   DI
Sbjct: 474 YNMATKHTVEEHILKLLYEKIHLFEKVVG-----ELDDILTKIQVNNFEEHLHDI 523


>dbj|BAB06536.1| (AP001516) helicase (Snf2/Rad54 family) [Bacillus halodurans]
           Length = 566
           
 Score =  175 bits (439), Expect = 2e-42
 Identities = 137/511 (26%), Positives = 230/511 (44%), Gaps = 75/511 (14%)

Query: 30  KIEPFLHQLQPLYHAMIQRPVRMFIADEIGLGKTIQALAIARYLNLKGEAKRILILVPKI 89
           +++PF HQ++     + Q   +  +ADE+GLGKTI+A  I +   ++G AK++LILVP  
Sbjct: 57  QLQPFPHQMEVAQTVIEQMNGKAILADEVGLGKTIEAGLILKEYMIRGLAKKVLILVPAS 116

Query: 90  LREQWREEVERLGIIPIVIESGAEVESKLRRKEGFFIVSIDLAKMPEHRDKFLEKEWDLV 149
           L  QW  E+     IP + +  A V  +        + SID AK   HRD  L + +DLV
Sbjct: 117 LVSQWAYELSSKFYIPAIPQKKAYVWEQY----DVVVASIDTAKRQPHRDIVLNQHYDLV 172

Query: 150 IIDEAHNV-TLGTQRYEFVKDLVGKNKDLNVIFLSATPHRGDPKDYLARLTLLDPTLIDD 208
           IIDEAH +    T+ Y F+K L    K    + L+ATP +   ++    ++LL P  + D
Sbjct: 173 IIDEAHKLKNPKTKNYAFIKSL----KRKYCLLLTATPVQNKLEEIFNLVSLLKPGHLGD 228

Query: 209 YSKLDSQEFYRRTMGTIIFRRTKSIVNELEGEN-------IFRKCYFGAIVVGITEEEKE 261
               + +E+           + K +VN++   N        + K     + +  +E E+ 
Sbjct: 229 LESFE-KEYRANKRAPKNEDKLKELVNKVMVRNRREETGIEWTKRIVQTVPITFSEGERA 287

Query: 262 FFRRLNDVLSKLVKNTQKNSPQALLAVLVNKRASSSYSSAMKTLNKIVESYSVREVNLGK 321
           F+  +  +  K   +   NS   L    + +   SS  +A  TL  ++            
Sbjct: 288 FYHAITKL--KQQPDVMTNSFSLL---TLQREICSSREAAFMTLKNMI------------ 330

Query: 322 VRDYIERLFGLGYEDVNLEGFSEYDDVIDKIIEEYSAVLQESQVREFRELLDVLKRIKMD 381
                            LE       +++ +IE+   +   ++  +  EL+  +      
Sbjct: 331 ---------------TKLEQEGRTSPILESLIEQVGTIEGHAKAEKALELIQQI------ 369

Query: 382 TKLNIVANVVKQHVERGEKVIIFTEFKDTLEYLRKNLPSLAGLSDEDVSILHGGMPSGKV 441
                            +KVIIFTE++ T  YL+  L    G+S        GG   GK 
Sbjct: 370 ----------------NDKVIIFTEYRATQLYLQWYLKQ-HGISSVP---FRGGFKRGKK 409

Query: 442 EEEIRKFEKHGKLLISTDVASEGLNLQVANVLINYEAPWTPIKLEQRVGRVWRINQKRDV 501
           +   + FE   ++LI+T+   EG+NLQ  + +INY+ PW P+++EQR+GR+ R+ Q  DV
Sbjct: 410 DWMRQLFENRAQVLIATEAGGEGINLQFCHHIINYDLPWNPMRIEQRIGRIHRLGQTEDV 469

Query: 502 KAYTIFLDTEVDMYVLNNLYRKIMNIKEAIG 532
           + Y   +   ++  +L  LY KI   +  +G
Sbjct: 470 RIYNFAVKDTIEEQILTLLYEKIQLFERVVG 500


>pir||T17395 probable DEAH ATP-dependent helicase - Dichelobacter nodosus
           >gi|2317808|gb|AAC33384.1| (U20246) putative DEAH
           ATP-dependent helicase [Dichelobacter nodosus]
           Length = 965
           
 Score =  166 bits (417), Expect = 8e-40
 Identities = 157/560 (28%), Positives = 254/560 (45%), Gaps = 61/560 (10%)

Query: 20  YMSLAWPGRKKIEPFLHQLQPLYHAMIQRPVRMFIADEIGLGKTIQALAIARYLNLKGEA 79
           Y+ LA P    + P  HQ+  L  A+    VR  +ADE+GLGKTI+A  + R L L+G  
Sbjct: 86  YVLLA-PMESNVIPLPHQIHALSRAISGDRVRYLLADEVGLGKTIEAGLVMRELKLRGLV 144

Query: 80  KRILILVPKILREQWREEVERLGIIPIVIESGAEVESKLRRKEGF------------FIV 127
           +R L++ PK +  QW  E++        +  G ++ +  R   G              IV
Sbjct: 145 RRTLVVSPKGIATQWVAEMQTHFNEQFQLVLGDDIGTLQRLAPGADHRSSAWSMFDQVIV 204

Query: 128 SIDLAKMPEHR----------------DKFLEKEWDLVIIDEAHNVTLGTQ---RYEFVK 168
           S+D  K  + R                +  +   WDLVI+DEAH +   T    RY+  K
Sbjct: 205 SLDSVKPMDKRRGWTAERVAEYNRSRFEDLITAGWDLVIVDEAHRLGGSTDQVARYKLGK 264

Query: 169 DLVGKNKDLNVIFLSATPHRGDPKDYLARLTLLDPTLIDDYSKLDSQEFYRRTMGTIIFR 228
            L        V+ LSATPH+G    +   + LLD    D +  +DS    R  + + + R
Sbjct: 265 GLAEAAP--YVLLLSATPHQGKTDAFHRLMNLLDD---DAFPDMDSVS--RERVASYVIR 317

Query: 229 RTKSIVNELEGENIFRKCYFGAIVVGITEEEKEFFRRLNDVLSKLVKN------TQKNSP 282
             K    + +G+ +F+        V   E   +  + L + ++  V+        +K   
Sbjct: 318 TEKRKAIDADGKPLFKPRRTQMAPVA-WESRHQLQQLLYEAVTDYVREGYNQALREKKRH 376

Query: 283 QALLAVLVNKRASSSYSSAMKTLNKIVESYSVREVNLG-KVRDYIERLFGLGYEDVNLEG 341
              L +L+ +   SS  +   TL + + +    E     ++ +      GL   D  +  
Sbjct: 377 IGFLMILMQRLVVSSTRAIRTTLERRLAALKDGEQQASLRLAELENGADGLESPDDEIAE 436

Query: 342 FSEYD--DVIDKIIEEYSAVLQESQVREFRELLDVLKRIKM---DTKLN-IVANVVKQHV 395
             + D  +++D++++ + + LQ S+      LLD   R +    D K   ++  + K   
Sbjct: 437 LYDMDGQELLDELLKSHVSALQ-SEGSHVETLLDAAVRCEQAGPDAKAEALIEWIYKLQA 495

Query: 396 ERGE---KVIIFTEFKDTLEYLRKNLPSLAGLSDEDVSILHGGMPSGKVEEEIRKFEKHG 452
           E  E   KV+IFTEF  T + L++ L +  G+S   V  L+G M   +       F K  
Sbjct: 496 EENEPDLKVLIFTEFVPTQQMLKEFLEA-RGIS---VVTLNGSMAMEERGAAQDAFRKSH 551

Query: 453 KLLISTDVASEGLNLQVANVLINYEAPWTPIKLEQRVGRVWRINQKRDVKAYTIFLDTEV 512
           ++L+STD   EGLNLQ A+V+INY+ PW P++LEQR+GRV RI Q + V+A     +  V
Sbjct: 552 RVLVSTDAGGEGLNLQFAHVIINYDIPWNPMRLEQRIGRVDRIGQPKTVQAINFVFEDSV 611

Query: 513 DMYVLNNLYRKIMNIKEAIG 532
           +  V   L +K+  I +  G
Sbjct: 612 EFRVREVLEQKLSVIFDEFG 631


>gi|10957432 ATP-dependent helicase HepA [Deinococcus radiodurans]
           >gi|7471169|pir||C75633 ATP-dependent helicase HepA -
           Deinococcus radiodurans  (strain R1)
           >gi|6460861|gb|AAF12565.1|AE001826_34 (AE001826)
           ATP-dependent helicase HepA [Deinococcus radiodurans]
           Length = 941
           
 Score =  162 bits (405), Expect = 2e-38
 Identities = 173/582 (29%), Positives = 271/582 (45%), Gaps = 68/582 (11%)

Query: 11  LVLHSPNLFYMSLAWP----GRKKIEPFLHQLQPLYHAMIQRPVRMFIADEIGLGKTIQA 66
           L+L++  L   S A P     R  +EP  +QL PL  A+ Q P R+ IAD++G+GKT++A
Sbjct: 72  LLLNAARLAVRSGAGPFRSLSRLGVEPRPYQLVPLLMALRQSPARLMIADDVGIGKTVEA 131

Query: 67  LAIARYLNLKGEAKRILILVPKILREQWREE------VERLGIIPIV---IESGAEVESK 117
             IAR L  +GE  R+ +L P  L  QW EE      ++ + ++P     +E G      
Sbjct: 132 ALIARELLDRGEIDRLTVLCPPHLAGQWVEELRVKFGIDAVAVLPGTARRLEKGCNPGQS 191

Query: 118 LRRKEGFFIVSIDLAKMPEHRDKFLEKEWDLVIIDEAHNVTLGT-------QRYEFVKDL 170
           +  +  F +VS+DL K    R  FL    D VI+DEAH    G        QRY  ++DL
Sbjct: 192 VFERYKFTVVSLDLVKSDRWRQDFLTNAPDFVIVDEAHASAEGEGMGTKRHQRYRLLEDL 251

Query: 171 VGKNKDLNVIFLSATPHRGDPKDYLARLTLLDPTLIDDYSKLD------SQEFYRRTMGT 224
             K +D ++I ++ATPH G    + + L LL+P    D+++L         E  R T+  
Sbjct: 252 ARK-EDRHLILVTATPHSGKEDAFRSLLRLLNP----DFARLPLDLSGAQNERARATLAR 306

Query: 225 -IIFRRTKSIVNELEGENIFRKCYFGAIVVGITEEEKEFFRRLNDVLS------KLVKNT 277
            ++ R  K I   L+ +  F       +   +  +    F   +DVL+       +    
Sbjct: 307 HLVQRGRKDIAEYLQEDTPFPTRRDAELHYALHPDYAALF---DDVLAYARESVHVPGEA 363

Query: 278 QKNSPQALLAVLVNKRA-SSSYSSAMKTLNKIVESYSVREVNLGKVRDYIERLFGLGYED 336
           Q  +     A L   RA +SS  +A  TL +   +    E +       I+R   LG E 
Sbjct: 364 QSRTRIRWWAALGLLRALASSPQAAAATLRERAIAADDGETD----EAVIDR---LGREL 416

Query: 337 VNLEGFSEYDDVIDKIIEEYSAVLQESQVREFRELLDVLKRI-----KMDTKLNIVANVV 391
           V L+     D  +D       A +   Q      LL +  R        D KL ++   V
Sbjct: 417 V-LDPEEGEDSALDM---TPGAQVDGEQSETTGRLLTLASRADALAGAKDNKLKLLTAQV 472

Query: 392 KQHVERGEKVIIFTEFKDTLEYLRKNLPSLAGLSDEDVSILHGGMPSGKVE--EEIRKFE 449
           +  V++G   I+F  F  T E + ++L   A    E +++     P  +V+  EE+ + E
Sbjct: 473 QGLVDQGFAPIVFCRFIATAEAVAEHLRG-ALKGSEVLAVTGRHTPDERVDRVEELARAE 531

Query: 450 KHGKLLISTDVASEGLNLQVA-NVLINYEAPWTPIKLEQRVGRVWRINQ-KRDVKAYTIF 507
           +  ++L++TD  SEG+NLQ A + +I+Y+ PW P +L+QR GRV R  Q   +V+  TI+
Sbjct: 532 R--RVLVATDCLSEGINLQAAFSAVIHYDLPWNPTRLDQREGRVDRYGQASPEVRVLTIY 589

Query: 508 -LDTEVDMYVLNNLYRKIMNIKEAIGGGPRVGIPVLAEKILE 548
             D  +D  +L  L RK   I+  +  G  V  P  AE +L+
Sbjct: 590 GEDNRIDTLILEVLVRKHRLIRATL--GTSVPAPEEAESLLD 629


>dbj|BAB04688.1| (AP001510) SNF2 helicase [Bacillus halodurans]
           Length = 577
           
 Score =  138 bits (344), Expect = 3e-31
 Identities = 125/493 (25%), Positives = 225/493 (45%), Gaps = 71/493 (14%)

Query: 54  IADEIGLGKTIQALAIARYLNLKGEAKRILILVPKILREQWREEVERLGIIPIVIESGAE 113
           +ADE+GLGKTI+A  I + L ++G    +LILVP  L EQWR+E+     I +      +
Sbjct: 73  LADEVGLGKTIEAGLIIKELLVRGLINSVLILVPAPLVEQWRDEMNDKFKIQLT-----D 127

Query: 114 VESKLRRKEGFFIVSIDLAKMPEHRDKFLEKE-WDLVIIDEAHNV-TLGTQRYEFVKDLV 171
           ++ +   ++   I S+      + R + + K  +DL+++DEAH +    TQ Y+FV   +
Sbjct: 128 LKEEGWEEQNLLISSMPYLVRSKKRQEIINKRTFDLLVVDEAHCLKNHRTQTYKFVYT-I 186

Query: 172 GKNKDLNVIFLSATPHRGDPKDYLARLTLLDPTLIDDYSKLDSQ-----------EFYRR 220
            KN   N + +SATP + D ++    + +L P  +    K   Q           E  R 
Sbjct: 187 QKN---NTLLMSATPIQNDMRELFNLVNILKPGFLKSRKKFREQFIVNRYTPKNIEALRD 243

Query: 221 TMGTIIFRRTKSIVNELEGENIFRKCYFGAIVVGITEEEKEFFRRLNDVLSKLVKNTQKN 280
            +  ++ R  +S         + R      + + +TE E+ F   + D      K   + 
Sbjct: 244 LLNKVMIRHRRSDTLVELPRRVIRN-----VEIELTEIERNFHNGVIDFCRDTYKKYMEG 298

Query: 281 SPQALLAVLVNKRASSSYSSAMKTLNKIVESYSVREVNLGKVRDYIERLFGLGYEDVNLE 340
             Q      +    +  +   +  L+ + ++ S  + +L  +R  +              
Sbjct: 299 DIQ------IGWDKTRVHLIVLILLSLLKQNCSSPQASLSTLRTKM-------------- 338

Query: 341 GFSEYDDVIDKIIEEYSAVLQESQVREFRELLDVLKRIKMDTKLNIVANVVKQHVERGEK 400
            F   D V DK              +   +L+ + +RI   +K   +  ++KQ     E+
Sbjct: 339 -FPRLDGV-DK--------------KNCLDLIQLGERITAPSKAIELLKLLKQS---DEQ 379

Query: 401 VIIFTEFKDTLEYLRKNLPSLAGLSDEDVSILHGGMPSGKVEEEIRKFE-KHGKLLISTD 459
            I+++E++ T++ L + L       D  V+  HG + S + ++ I +F+ K  ++ IS++
Sbjct: 380 AIVYSEYRVTIDLLSELLEE----HDFTVTTYHGRLSSREKQQSIERFKNKEAQVFISSE 435

Query: 460 VASEGLNLQVANVLINYEAPWTPIKLEQRVGRVWRINQKRDVKAYTIFLDTEVDMYVLNN 519
              +GLNLQ    LIN++ PW P+++EQR+GRV R  Q  DV+ YT+     +D Y+L  
Sbjct: 436 SGGQGLNLQFCRRLINFDLPWNPMRIEQRIGRVHRFGQVNDVEIYTMPTKGAIDEYLLYT 495

Query: 520 LYRKIMNIKEAIG 532
           L  K+   +  IG
Sbjct: 496 LTSKVNLFEVVIG 508


>pir||H82068 RNA polymerase-associated protein HepA VC2506 [imported] - Vibrio
           cholerae (group O1 strain N16961)
           >gi|9657088|gb|AAF95648.1| (AE004320) RNA
           polymerase-associated protein HepA [Vibrio cholerae]
           Length = 969
           
 Score =  132 bits (329), Expect = 2e-29
 Identities = 133/525 (25%), Positives = 232/525 (43%), Gaps = 83/525 (15%)

Query: 36  HQLQPLYHAMIQRPVRMFIADEIGLGKTIQALAIARYLNLKGEAKRILILVPKILREQWR 95
           HQL   +    +   R+ +ADE+GLGKTI+A  I     L G A+RILI+VP+ L+ QW 
Sbjct: 157 HQLYIAHEVGRRHAPRVLLADEVGLGKTIEAGMIIHQQVLTGRAERILIVVPETLQHQWL 216

Query: 96  EEVERLGIIPI-------VIESGAEVESKLRRKEGFFIVSID-LAKMPEHRDKFLEKEWD 147
            E+ R   +          +E+ +E ++    ++ + + S+D L K  +  ++ LE EWD
Sbjct: 217 VEMMRRFNLHFSIFDEERCVEAFSEADNPFETQQ-YVLCSLDFLRKSRQRFEQALEAEWD 275

Query: 148 LVIIDEAHNVTLGTQR----YEFVKDLVGKNKDLNVIFLSATPHRGDPKDYLARLTLLDP 203
           L+++DEAH++    ++    Y+ ++ L  +     V+ L+ATP +   + + ARL LLD 
Sbjct: 276 LLVVDEAHHLEWHPEKPSREYQVIEALAEQTP--GVLLLTATPEQLGRESHFARLRLLDA 333

Query: 204 TLIDDYSKLDSQE-------------FYRRTMGTIIFRRTKSIVNELEGENIFRKCYFGA 250
               DY     +E             F    +      +   +++E + E +F+     A
Sbjct: 334 DRFYDYEAFVKEEEQYAPVADAVTALFSGEKLSDEAKNKITELLSEQDVEPLFKALESHA 393

Query: 251 IVVGITEEEKEFFRRLND------VLSKLVKNTQKNSPQALLAVLVNKRASSSYSSAMKT 304
               I    +E    L D      VL +  +   K  P   +  L+     S Y+++M+ 
Sbjct: 394 SEDEIALARQELIDNLMDRHGTGRVLFRNTRAAIKGFPVRNVH-LLPLEIPSQYTTSMRV 452

Query: 305 LNKIVESYSVREVNLGKVRDYIERLFGLGYEDVNLEGFSEYDDVIDKIIEEYSAVLQESQ 364
              +           GK+      +  L  E++    F E++              +ES 
Sbjct: 453 AGMLG----------GKLTPEARAMKMLYPEEI----FQEFEG-------------EESS 485

Query: 365 VREFRELLDVLKRIKMDTKLNIVANVVKQHVERGEKVIIFTEFKDTLEYLRKNLPSLAGL 424
             +F            D+++N +   VK   +R EK+++      T   L + L    G+
Sbjct: 486 WWQF------------DSRVNWLLEKVK--AKRSEKILVIASRASTALQLEQALREREGI 531

Query: 425 SDEDVSILHGGM---PSGKVEEEIRKFEKHGKLLISTDVASEGLNLQVANVLINYEAPWT 481
                ++ H GM      K      + E   ++LI +++ SEG N Q AN L+ ++ P+ 
Sbjct: 532 R---ATVFHEGMSIIERDKAAAYFAQEEGGAQVLICSEIGSEGRNFQFANQLVMFDLPFN 588

Query: 482 PIKLEQRVGRVWRINQKRDVKAYTIFLDTEVDMYVLNNLYRKIMN 526
           P  LEQR+GR+ RI QKRD+  Y  +L TE    +L   +++ +N
Sbjct: 589 PDLLEQRIGRLDRIGQKRDIDVYVPYL-TETSQAILARWFQEGLN 632


>sp|P23852|HEPA_ECOLI RNA POLYMERASE ASSOCIATED PROTEIN (ATP-DEPENDENT HELICASE HEPA)
           >gi|7446087|pir||C64727 probable ATP-dependent helicase
           hepA - Escherichia coli >gi|1786245|gb|AAC73170.1|
           (AE000116) probable ATP-dependent RNA helicase
           [Escherichia coli K12]
           Length = 968
           
 Score =  117 bits (290), Expect = 6e-25
 Identities = 118/489 (24%), Positives = 221/489 (45%), Gaps = 46/489 (9%)

Query: 36  HQLQPLYHAMIQRPVRMFIADEIGLGKTIQALAIARYLNLKGEAKRILILVPKILREQWR 95
           HQL   +    +   R+ +ADE+GLGKTI+A  I     L G A+R+LI+VP+ L+ QW 
Sbjct: 157 HQLNIAHDVGRRHAPRVLLADEVGLGKTIEAGMILHQQLLSGAAERVLIIVPETLQHQWL 216

Query: 96  EEVERLGIIPIVI---ESGAEVESKLRR---KEGFFIVSIDLAKMPEHR-DKFLEKEWDL 148
            E+ R   +   +   E  AE +         E   I S+D A+  + R +   E EWDL
Sbjct: 217 VEMLRRFNLRFALFDDERYAEAQHDAYNPFDTEQLVICSLDFARRSKQRLEHLCEAEWDL 276

Query: 149 VIIDEAHNVTLG----TQRYEFVKDLVGKNKDLNVIFLSATPHRGDPKDYLARLTLLDPT 204
           +++DEAH++       ++ Y+ ++ L        V+ L+ATP +   + + ARL LLDP 
Sbjct: 277 LVVDEAHHLVWSEDAPSREYQAIEQLA--EHVPGVLLLTATPEQLGMESHFARLRLLDPN 334

Query: 205 LIDDYSK-LDSQEFYRRTMGTIIFRRTKSIVNELEGENIFRKCYFGAIVVGITEEEKEFF 263
              D+++ ++ Q+ YR     +         N+L  + +         ++G    E++  
Sbjct: 335 RFHDFAQFVEEQKNYRPVADAVAMLLAG---NKLSNDEL--------NMLGEMIGEQDIE 383

Query: 264 RRLNDVLSKLVKNTQKNSPQALLAVLVNKRASSSYSSAMKTLNKIVESYSVREVNLGKVR 323
             L    S       +++ Q L+++L+++  +S      +     V+ +  RE++  K+ 
Sbjct: 384 PLLQAANSD--SEDAQSARQELVSMLMDRHGTSRV--LFRNTRNGVKGFPKRELHTIKLP 439

Query: 324 DYIERLFGLGYEDVNLEGFSEYDDVIDKIIEEYSAVLQESQVREFRELLDVLKRIKMDTK 383
              +    +    +     S  D   D +  E   + QE +        D       D +
Sbjct: 440 LPTQYQTAIKVSGIMGARKSAEDRARDMLYPE--RIYQEFEG-------DNATWWNFDPR 490

Query: 384 LNIVANVVKQHVERGEKVIIFTEFKDTLEYLRKNLPSLAGLSDEDVSILHGGMPSGKVEE 443
           +  +   +  H  R +KV++      T   L + L    G+     ++ H GM   + + 
Sbjct: 491 VEWLMGYLTSH--RSQKVLVICAKAATALQLEQVLREREGIR---AAVFHEGMSIIERDR 545

Query: 444 EIRKFEKH---GKLLISTDVASEGLNLQVANVLINYEAPWTPIKLEQRVGRVWRINQKRD 500
               F +     ++L+ +++ SEG N Q A+ ++ ++ P+ P  LEQR+GR+ RI Q  D
Sbjct: 546 AAAWFAEEDTGAQVLLCSEIGSEGRNFQFASHMVMFDLPFNPDLLEQRIGRLDRIGQAHD 605

Query: 501 VKAYTIFLD 509
           ++ +  +L+
Sbjct: 606 IQIHVPYLE 614


>pir||G83231 RNA helicase HepA PA3308 [imported] - Pseudomonas aeruginosa
           (strain PAO1) >gi|9949437|gb|AAG06696.1|AE004753_4
           (AE004753) RNA helicase HepA [Pseudomonas aeruginosa]
           Length = 950
           
 Score =  115 bits (284), Expect = 3e-24
 Identities = 153/594 (25%), Positives = 247/594 (40%), Gaps = 75/594 (12%)

Query: 3   LPEALLRELVLHSPNLFYMSLAWP-GRKKIEPFLHQLQPLYHAMIQRPVRMFIADEIGLG 61
           LP   LR   L   +    S  W  G  + +P  HQL        +   R+ +ADE+GLG
Sbjct: 124 LPWFSLRYHTLERRSQLLQSSLWGLGGARAQPIAHQLHIAREVADRMAPRVLLADEVGLG 183

Query: 62  KTIQALAIARYLNLKGEAKRILILVPKILREQWREEVERLGIIPIVI---ESGAEVE-SK 117
           KTI+A  I     L G A R+LILVP+ L+ QW  E+ R   + + +   E  AE + S 
Sbjct: 184 KTIEAGLIIHRQLLSGRAGRVLILVPENLQHQWLVEMRRRFNLQVALFDKERFAESDASN 243

Query: 118 LRRKEGFFIVSIDLAKMPEH-RDKFLEKEWDLVIIDEAHNVTLGTQRYEFVKDLVGKNKD 176
                   +V+++  K  E  +D      WDL+++DEAH++     +      LV +  +
Sbjct: 244 PFEDTQLALVALEWLKEDERAQDALFAAGWDLLVVDEAHHLVWHQDQVSAEYALVEQLAE 303

Query: 177 L--NVIFLSATPHRGDPKDYLARLTLLDPTLIDDYSKLDSQEFYRRTMGTIIFRRTKSIV 234
           +   V+ L+ATP +     + ARL LLDP    D       E +RR      +R     V
Sbjct: 304 IIPGVLLLTATPEQLGQDSHFARLRLLDPNRFHDL------EAFRRESEQ--YRPVAEAV 355

Query: 235 NELEGENIFRKCYFGAIVVGITEEEKEFFRRLNDVLSKLVKNTQKNSPQALLAVLVNKRA 294
            EL           G++  G  +    F     D L   V+   + +   L+  L+++  
Sbjct: 356 QELLDH--------GSLSAGARKAIHGFLGSEGDELLASVEGGDEEARSRLVRELLDRHG 407

Query: 295 SSSYSSAMKTLNKIVESYSVREVN---LGKVRDYIERLFGLG---YEDVNLEGFSEYDDV 348
           +       +     V+ +  RE++   L     Y E   G     Y +VN +   E  D 
Sbjct: 408 TGRV--LFRNTRAAVQGFPQRELHAYPLPMPSQYEELPAGEHPDLYPEVNFQQQWEDGDD 465

Query: 349 IDKIIEEYSAVLQESQVREFRELLDVLKRIKMDTKLNIVANVVKQHVERGEKVIIFTEFK 408
            ++       V           L+D LK +K    L I A     H E         + +
Sbjct: 466 NNRWWRFDPRV---------EWLIDTLKMLKQFKVLVICA-----HAETA------LDLE 505

Query: 409 DTLEYLRKNLPSLAGLSDEDVSILHGGMPSGKVEEEIRKFEKHGKLLISTDVASEGLNLQ 468
           D L  LR  +   A +  E +SIL     +    +E    E   ++LI +++ SEG N Q
Sbjct: 506 DALR-LRSGIS--ATVFHEGMSILERDRAAAYFADE----EFGAQVLICSEIGSEGRNFQ 558

Query: 469 VANVLINYEAPWTPIKLEQRVGRVWRINQKRDVKAYTIFLDTEVDMYVLNNLYRKIMN-- 526
            A+ L+ ++ P  P  LEQR+GR+ RI Q+  ++ +   L+       L   Y + +N  
Sbjct: 559 FAHHLVLFDLPAHPDLLEQRIGRLDRIGQRHTIQLHVPHLENSAQQR-LFQWYHQALNAF 617

Query: 527 IKEAIGG-------GPRVGIPVLAEKILEGDFEKIWKDIPGDFEAREKISEYDI 573
           +     G       GPR+ +P     +L+G  +K W  +  +  AR +  E ++
Sbjct: 618 LNTCPTGNALQHEFGPRL-LP-----LLDGGEDKAWDALLAEGRARREALEAEL 665


>emb|CAA38617.1| (X54847) unnamed protein product [Escherichia coli]
           Length = 401
           
 Score = 93.2 bits (228), Expect = 1e-17
 Identities = 64/196 (32%), Positives = 104/196 (52%), Gaps = 14/196 (7%)

Query: 36  HQLQPLYHAMIQRPVRMFIADEIGLGKTIQALAIARYLNLKGEAKRILILVPKILREQWR 95
           HQL   +    +   R+ +ADE+GLGKTI+A  I     L G A+R+LI+VP+ L+ QW 
Sbjct: 157 HQLNIAHDVGRRHAPRVLLADEVGLGKTIEAGMILHQQLLSGAAERVLIIVPETLQHQWL 216

Query: 96  EEVERLGIIPIVI---ESGAEVESKLRR---KEGFFIVSIDLAKMPEHR-DKFLEKEWDL 148
            E+ R   +   +   E  AE +         E   I S+D A+  + R +   E EWDL
Sbjct: 217 VEMLRRFNLRFALFDDERYAEAQHDAYNPFDTEQLVICSLDFARRSKQRLEHLCEAEWDL 276

Query: 149 VIIDEAHNVTLG----TQRYEFVKDLVGKNKDLNVIFLSATPHRGDPKDYLARLTLLDPT 204
           +++DEAH++       ++ Y+ ++ L        V+ L+ATP +   + + ARL LLDP 
Sbjct: 277 LVVDEAHHLVWSEDAPSREYQAIEQLA--EHVPGVLLLTATPEQLGMESHFARLRLLDPN 334

Query: 205 LIDDYSK-LDSQEFYR 219
              D+++ ++ Q+ YR
Sbjct: 335 RFHDFAQFVEEQKNYR 350


>pir||S15944 hypothetical protein (polB 3' region) - Escherichia coli (fragment)
           >gi|227828|prf||1712306C polB-associated ORF
           [Escherichia coli]
           Length = 422
           
 Score = 93.2 bits (228), Expect = 1e-17
 Identities = 64/196 (32%), Positives = 104/196 (52%), Gaps = 14/196 (7%)

Query: 36  HQLQPLYHAMIQRPVRMFIADEIGLGKTIQALAIARYLNLKGEAKRILILVPKILREQWR 95
           HQL   +    +   R+ +ADE+GLGKTI+A  I     L G A+R+LI+VP+ L+ QW 
Sbjct: 157 HQLNIAHDVGRRHAPRVLLADEVGLGKTIEAGMILHQQLLSGAAERVLIIVPETLQHQWL 216

Query: 96  EEVERLGIIPIVI---ESGAEVESKLRR---KEGFFIVSIDLAKMPEHR-DKFLEKEWDL 148
            E+ R   +   +   E  AE +         E   I S+D A+  + R +   E EWDL
Sbjct: 217 VEMLRRFNLRFALFDDERYAEAQHDAYNPFDTEQLVICSLDFARRSKQRLEHLCEAEWDL 276

Query: 149 VIIDEAHNVTLG----TQRYEFVKDLVGKNKDLNVIFLSATPHRGDPKDYLARLTLLDPT 204
           +++DEAH++       ++ Y+ ++ L        V+ L+ATP +   + + ARL LLDP 
Sbjct: 277 LVVDEAHHLVWSEDAPSREYQAIEQLA--EHVPGVLLLTATPEQLGMESHFARLRLLDPN 334

Query: 205 LIDDYSK-LDSQEFYR 219
              D+++ ++ Q+ YR
Sbjct: 335 RFHDFAQFVEEQKNYR 350


>pir||S40575 hypothetical protein - Escherichia coli >gi|216479|dbj|BAA01330.1|
           (D10483) hypotheitical protein 422 (polB 3'
           region)(PIR:PQ0118) [Escherichia coli]
           Length = 567
           
 Score = 93.2 bits (228), Expect = 1e-17
 Identities = 64/196 (32%), Positives = 104/196 (52%), Gaps = 14/196 (7%)

Query: 36  HQLQPLYHAMIQRPVRMFIADEIGLGKTIQALAIARYLNLKGEAKRILILVPKILREQWR 95
           HQL   +    +   R+ +ADE+GLGKTI+A  I     L G A+R+LI+VP+ L+ QW 
Sbjct: 157 HQLNIAHDVGRRHAPRVLLADEVGLGKTIEAGMILHQQLLSGAAERVLIIVPETLQHQWL 216

Query: 96  EEVERLGIIPIVI---ESGAEVESKLRR---KEGFFIVSIDLAKMPEHR-DKFLEKEWDL 148
            E+ R   +   +   E  AE +         E   I S+D A+  + R +   E EWDL
Sbjct: 217 VEMLRRFNLRFALFDDERYAEAQHDAYNPFDTEQLVICSLDFARRSKQRLEHLCEAEWDL 276

Query: 149 VIIDEAHNVTLG----TQRYEFVKDLVGKNKDLNVIFLSATPHRGDPKDYLARLTLLDPT 204
           +++DEAH++       ++ Y+ ++ L        V+ L+ATP +   + + ARL LLDP 
Sbjct: 277 LVVDEAHHLVWSEDAPSREYQAIEQLA--EHVPGVLLLTATPEQLGMESHFARLRLLDPN 334

Query: 205 LIDDYSK-LDSQEFYR 219
              D+++ ++ Q+ YR
Sbjct: 335 RFHDFAQFVEEQKNYR 350


>pir||A41878 helicase homolog hepA - Escherichia coli (fragment)
           Length = 510
           
 Score = 93.2 bits (228), Expect = 1e-17
 Identities = 64/196 (32%), Positives = 104/196 (52%), Gaps = 14/196 (7%)

Query: 36  HQLQPLYHAMIQRPVRMFIADEIGLGKTIQALAIARYLNLKGEAKRILILVPKILREQWR 95
           HQL   +    +   R+ +ADE+GLGKTI+A  I     L G A+R+LI+VP+ L+ QW 
Sbjct: 157 HQLNIAHDVGRRHAPRVLLADEVGLGKTIEAGMILHQQLLSGAAERVLIIVPETLQHQWL 216

Query: 96  EEVERLGIIPIVI---ESGAEVESKLRR---KEGFFIVSIDLAKMPEHR-DKFLEKEWDL 148
            E+ R   +   +   E  AE +         E   I S+D A+  + R +   E EWDL
Sbjct: 217 VEMLRRFNLRFALFDDERYAEAQHDAYNPFDTEQLVICSLDFARRSKQRLEHLCEAEWDL 276

Query: 149 VIIDEAHNVTLG----TQRYEFVKDLVGKNKDLNVIFLSATPHRGDPKDYLARLTLLDPT 204
           +++DEAH++       ++ Y+ ++ L        V+ L+ATP +   + + ARL LLDP 
Sbjct: 277 LVVDEAHHLVWSEDAPSREYQAIEQLA--EHVPGVLLLTATPEQLGMESHFARLRLLDPN 334

Query: 205 LIDDYSK-LDSQEFYR 219
              D+++ ++ Q+ YR
Sbjct: 335 RFHDFAQFVEEQKNYR 350


>pir||T40879 probable helicase - fission yeast (Schizosaccharomyces pombe)
            >gi|3668152|emb|CAA21109.1| (AL031764) helicase with SNF2
            domain [Schizosaccharomyces pombe]
            Length = 1284
            
 Score = 91.3 bits (223), Expect = 5e-17
 Identities = 124/542 (22%), Positives = 226/542 (40%), Gaps = 89/542 (16%)

Query: 43   HAMIQRPVRMFIADEIGLGKTIQALAIARYLNLKGEAKRILILVPKILREQWREEVER-- 100
            H + Q+ +   +ADE+GLGKT Q +A    L  +G     L++VP    E W  E+ R  
Sbjct: 562  HLLYQQKLSGILADEMGLGKTCQVVAFFALLLEQGHHGPHLVVVPSSTLENWLRELARFC 621

Query: 101  --LGIIPIV--IESGAEVESKLRRKE---GFFIVSIDLAKMPEHRDKFLEKE-WDLVIID 152
              L + P     +  A +   +   E      + +  LA   +    FL+ + +D+ + D
Sbjct: 622  PSLRVEPYYGSQQERANIREAIEENEIKYDILVTTYQLATNNKEDRSFLKHQNFDVCVYD 681

Query: 153  EAHNVTLGTQRYEFVKDLVGKNKDLNVIFLSATPHRGDPKDYLARLTLLDPTLID----- 207
            E H   L  +  E  K L+  N +  ++ L+ TP + + K+ ++ L  + P + D     
Sbjct: 682  EGHY--LKNRMSERYKHLMNLNANFRLL-LTGTPLQNNLKELVSLLAFILPNMFDSDMDD 738

Query: 208  ---------------DYSKLDSQEFYR-RTMGT--IIFRRTKSIVNELEGEN-IFRKCYF 248
                           + + L  Q   R +TM T  ++ RR   ++N+L  +  I   C  
Sbjct: 739  LDVIFKAKPTADADIEQALLSKQRISRAKTMMTPFVLRRRKNQVLNDLPKKTQIIEHCK- 797

Query: 249  GAIVVGITEEEKEFFRRLNDVLSKLVKNTQKNSPQALLAVLVNKRASSSYSSAMKTLNKI 308
                  ++E + E + R     + L KN Q            NKR+ +   S  K+L   
Sbjct: 798  ------LSENQLEIYNRY----AALQKNQQLRRDDKR-----NKRSKNDEESDGKSL--- 839

Query: 309  VESYSVREVNLGKVRDYIERLFGLGYEDVNLEGFS-------EYDDVIDKIIEEYSAVLQ 361
              S     + L K  ++   LF   Y+D  L+  +       +Y +  ++ I E   V+ 
Sbjct: 840  --SAGHVLMQLRKAANHA-LLFRKFYDDEKLKQMAKDIMQEEQYKNANEQYIYEDMEVMS 896

Query: 362  ESQVREFRELLDVLKRIK------MDT-KLNIVANVVKQHVERGEKVIIFTEFKDTLEYL 414
            + ++         L+         MD+ K+ ++  ++ +  E G ++++F++F   L+ L
Sbjct: 897  DFELHRLCRSFPTLQSYTLKDDPWMDSGKIRVLKELLPKMKEEGSRILLFSQFTQMLDIL 956

Query: 415  RKNLPSLAGLSDEDVSILH-GGMPSGKVEEEI----RKFEKHGKLLISTDVASEGLNLQV 469
             + L +L       +S +   G    +V ++I     K E     L+ST     G+NL  
Sbjct: 957  EQVLDTLK------ISYVRLDGSTQVEVRQDIIDQFHKEEDVTVFLLSTKAGGFGINLAC 1010

Query: 470  ANVLINYEAPWTPIKLEQRVGRVWRINQKRDVKAYTIFLDTEVDMYVLNNLYRKIMNIKE 529
            ANV+I Y+  + P    Q   R  R+ Q R+V    +  D  ++ Y+     +K+ N K 
Sbjct: 1011 ANVVILYDCSYNPFDDLQAEDRAHRVGQVREVTVIRLITDNTIEEYI-----QKLANTKL 1065

Query: 530  AI 531
            A+
Sbjct: 1066 AL 1067


>gi|11499053 ATP-dependent RNA helicase, putative [Archaeoglobus fulgidus]
           >gi|7428313|pir||A69432 ATP-dependent RNA helicase
           homolog - Archaeoglobus fulgidus
           >gi|2649107|gb|AAB89786.1| (AE001002) ATP-dependent RNA
           helicase, putative [Archaeoglobus fulgidus]
           Length = 741
           
 Score = 83.1 bits (202), Expect = 1e-14
 Identities = 135/585 (23%), Positives = 245/585 (41%), Gaps = 78/585 (13%)

Query: 59  GLGKT-IQALAIA-RYLNLKGEAKRILILVP-KILREQWREEVERLGIIPIVIESGAEVE 115
           GLGKT I AL IA R LN  G   ++L L P K L EQ    ++R+  +  ++    EV 
Sbjct: 39  GLGKTTIAALVIASRLLNEDG---KVLFLAPTKPLVEQHARFLKRVLKVEEIVSLSGEVP 95

Query: 116 SKLRR----KEGFFIVSIDLAKMPEHRDKFLEKEWDLVIIDEAHNVTLGTQRYEFV-KDL 170
            + R+    K    + +  + +      +   ++  LV+ DEAH   +G   Y F+ K+ 
Sbjct: 96  PEKRKELWEKARIVVSTPQVVENDLLAGRISLEDVILVVFDEAHRA-VGNYAYVFIAKEY 154

Query: 171 VGKNKDLNVIFLSATPHRGDPKDYLARLTLLDPTLIDDYSKLDSQEFYRRTMGTIIFRRT 230
           +   K   ++ ++A+P   DP+  +  +  L    I+  ++ DS          I + + 
Sbjct: 155 LRTAKKPLILAMTASPG-SDPERIMEVIQNLGIEAIEVRTEWDSDVAPYVGKKRIEWIKV 213

Query: 231 KSIVNELEGENIFRKCYFGAIVVGITEEEKEFFRRLNDVLSKLVKNTQKNSPQALLAVLV 290
                  E +   ++C             K  F+RL ++  ++ +N+ K    AL   L 
Sbjct: 214 DIPEEMKEVKERLKECI------------KIRFKRLRELWIEVPENSSKRDLLALQEALQ 261

Query: 291 NKRASSSYSSAMKTLNKIVESYSVREVNLGKVRDYIERLFGLGYEDVNLEGFSEYDDVID 350
            + ASS  S   + L+ + E   ++                   E +  +G       + 
Sbjct: 262 AEAASSQSSEIFEALSILAEIMKLQHA----------------VELIETQGVKAVKSYLR 305

Query: 351 KIIEEYSAVLQESQVRE------FRELLDVLKRIKMD-TKLNIVANVVKQHVERG--EKV 401
           K++ E ++       +       F++ +  L + K++  KL  +  ++K+  E+    +V
Sbjct: 306 KLVREATSKGGSKAAKSIVGDPIFKKAVIALSKCKVEHPKLEKLKEILKEQFEKNPDSRV 365

Query: 402 IIFTEFKDTLEYLRKNLPSL------AGLSDEDVSILHGGMPSGKVEEEIRKFEKHG-KL 454
           I+FT ++D+ E L   L  L       G +  D      GM   +  E I KF +   K+
Sbjct: 366 IVFTNYRDSAEMLVNELSPLFPVAKFVGQASRDND---KGMRQKEQIETIDKFRRGVYKV 422

Query: 455 LISTDVASEGLNLQVANVLINYEAPWTPIKLEQRVGRVWRINQKRDVKAYTIFLDTEVDM 514
           L++T V  EGL++   ++++ YEA  + I+  QR GR  R  + R V   T     E   
Sbjct: 423 LVATSVGEEGLDIPSTDLVVFYEAVPSEIRAIQRKGRTGRGREGRIVVLVTKGTRDEAYY 482

Query: 515 YVL----NNLYRKIMNIKEAIGGGPR----------VGIPVLAE-KILEGDFEKIWKDIP 559
           Y        +Y KI+ IK  I    R           GI V+ + + L  +  K  ++I 
Sbjct: 483 YSSMKKERKMYDKILEIKRIIDRKQRSIGDYVLPEETGIKVIVDSRELRSEVVKHLREIG 542

Query: 560 GDFEARE-KISEYDIG--YAILRREIEGYKRAILNTLRILRQSIR 601
              E R  ++++Y +    A+ R+ +E +  +I+   R+  Q  R
Sbjct: 543 AKIEIRNLEVADYVVSDRVAVERKTVEDFLNSIIQKERLFSQVAR 587


>gb|AAF52824.1| (AE003626) CG5899 gene product [Drosophila melanogaster]
           Length = 844
           
 Score = 81.1 bits (197), Expect = 5e-14
 Identities = 119/526 (22%), Positives = 216/526 (40%), Gaps = 95/526 (18%)

Query: 45  MIQRPVRMFIADEIGLGKTIQALAIARYLNLKGEAKRI-LILVPKILREQWREEVERLGI 103
           M ++ +   +ADE+GLGKTIQ +A   YL   G ++   LI+VP    + W  E+ R   
Sbjct: 303 MHKQEMNGILADEMGLGKTIQVIAFLAYLKENGLSQAAHLIVVPSSTLDNWEAEISR-WC 361

Query: 104 IPIVIES--GAEVESKLRR----KEGF--FIVSID----LAKMPEHRDKFLEKEWDLVII 151
             +V+E   G++ E +  R    K+GF  F V +     +   PE R  F   + D VI 
Sbjct: 362 PELVVEKYHGSQDERRRMRGRFAKDGFTGFDVLLTTYHIVGSTPEERKMFRVCKLDYVIF 421

Query: 152 DEAHNV-TLGTQRYEFVKDLVGKNKDLNVIFLSATPHRGDPKDYLARLTLLDPTLI---- 206
           DEAH +  + TQRY    +L+  N  + ++ L+ TP + +  + ++ L  + P       
Sbjct: 422 DEAHMLKNMTTQRY---ANLITINARMRIL-LTGTPLQNNLLELISLLCFVMPKFFAKSI 477

Query: 207 -----------------DDYSKLDSQEFYR--RTMGTIIFRRTKSIVNELEGENIFRKCY 247
                            D+ S+    +  R  R M   + RR K  V     +N+ +K  
Sbjct: 478 EDIKSLFAKKGKSDGDQDEVSQFQETQIQRAKRIMKPFVLRRLKKDVL----KNLPKKLS 533

Query: 248 FGAIVVGITEEEKEFFRRLNDVLSKLVKNTQKNSPQALLAVLVNKRASSSYSSAMKTLNK 307
                V ++ ++K ++  L D  S        +S +A +A+++  R  +++   M     
Sbjct: 534 L-VEKVPMSSQQKIYYHELVDYYSNNKGEVCSSSERAGIAIMMEMRRIANHPLLM----- 587

Query: 308 IVESYSVREVNLGKVRDYIERLFGLGYEDVNLEGFSE-------YDDVIDKIIEEYSAVL 360
                          R Y        + D NL GFS+       +    ++ I E  AV+
Sbjct: 588 ---------------RHY--------FTDANLRGFSKRLANASSFKKTNEQYIFEELAVM 624

Query: 361 QESQV------REFRELLDVLKRIKMDTKLNIVANVVKQHVERGEKVIIFTEFKDTLEYL 414
            + QV       EF ++      I    K   +  ++ +    G +V++F++F   L+ +
Sbjct: 625 SDFQVYQMMNKHEFYDVKIPDNLICDSGKFLYLDTLLPKLKAEGHRVLLFSQFTMMLDIV 684

Query: 415 RKNLPSLAGLSDEDVSILHGGMPSGKVEEEIRKFEKHGKL---LISTDVASEGLNLQVAN 471
            + L     +       L G       ++ I  F     +   L+ST     G+NL  A+
Sbjct: 685 EEYL----RIRKFGFCRLDGATAVNVRQDLITDFNGDDSIFVFLLSTKAGGVGINLTAAD 740

Query: 472 VLINYEAPWTPIKLEQRVGRVWRINQKRDVKAYTIFLDTEVDMYVL 517
             + ++  + P   +Q   R  R+ Q+R V  Y +  ++ ++  +L
Sbjct: 741 TCVIHDIDFNPYNDKQAEDRCHRMGQQRPVTIYRLISESTIEEGIL 786


>gi|6321275 DNA-dependent ATPase; Rad54p [Saccharomyces cerevisiae]
           >gi|417577|sp|P32863|RA54_YEAST DNA REPAIR AND
           RECOMBINATION PROTEIN RAD54 >gi|83449|pir||JH0440 RAD54
           protein - yeast (Saccharomyces cerevisiae)
           >gi|172343|gb|AAA34949.1| (M63232) recombination and
           repair protein [Saccharomyces cerevisiae]
           >gi|728692|emb|CAA88534.1| (Z48618) RAD54 [Saccharomyces
           cerevisiae] >gi|1322760|emb|CAA96875.1| (Z72685) ORF
           YGL163c [Saccharomyces cerevisiae]
           Length = 898
           
 Score = 79.2 bits (192), Expect = 2e-13
 Identities = 112/483 (23%), Positives = 198/483 (40%), Gaps = 69/483 (14%)

Query: 54  IADEIGLGKTIQALAIARYLNLKG-EAKRIL----ILVPKILREQWREE-VERLG---II 104
           +ADE+GLGKT+Q +A+   L  +G + KR++    I+ P  L   W  E ++ LG   + 
Sbjct: 333 MADEMGLGKTLQCIALMWTLLRQGPQGKRLIDKCIIVCPSSLVNNWANELIKWLGPNTLT 392

Query: 105 PIVIESG-----------AEVESKLRRKEGFFIVS----IDLAKMPEHRDKFLEKEWDLV 149
           P+ ++             ++      + +G  IV     I    +  + D+       L+
Sbjct: 393 PLAVDGKKSSMGGGNTTVSQAIHAWAQAQGRNIVKPVLIISYETLRRNVDQLKNCNVGLM 452

Query: 150 IIDEAHNVTLGTQRYEFVKDLVGKNKDLNVIFLSATPHRGDPKDYLARLTLLDPTLIDDY 209
           + DE H +  G        D +   +    + LS TP + D  +Y A L+  +P L    
Sbjct: 453 LADEGHRLKNGDSLTFTALDSISCPRR---VILSGTPIQNDLSEYFALLSFSNPGL---- 505

Query: 210 SKLDSQEFYRRTMGTIIFRRTKSIVNELE---GENIFRKCYFGAIVVGITEEEKEFFRRL 266
             L S+  +R+     I R   +   + E   GE   +K          T   K   RR 
Sbjct: 506 --LGSRAEFRKNFENPILRGRDADATDKEITKGEAQLQKLS--------TIVSKFIIRRT 555

Query: 267 NDVLSKLVKNTQKNSPQALLAVLVNKRASSSYSSAMKTLNKIVESYSVREVNLGKVRDYI 326
           ND+L+K +    ++       + VN +   +     +  NK+++S  V++V  G      
Sbjct: 556 NDILAKYLPCKYEH------VIFVNLKPLQN-----ELYNKLIKSREVKKVVKGVGGSQP 604

Query: 327 ERLFGLGYEDVNLEGFSEYDDVIDKIIEEYSAVLQESQVREFRELLDVLKRIKMDTKLNI 386
            R  G+  +  N      ++D  D   +E    L +       +  DV  + K   K +I
Sbjct: 605 LRAIGILKKLCNHPNLLNFEDEFD---DEDDLELPDDYNMPGSKARDV--QTKYSAKFSI 659

Query: 387 VANVV-KQHVERGEKVIIFTEFKDTLEYLRKNLPSLAGLSDEDVSILHGGMPSGKVEEEI 445
           +   + K   E  +K+++ + +  TL+ + K    +          L G M   K ++ +
Sbjct: 660 LERFLHKIKTESDDKIVLISNYTQTLDLIEK----MCRYKHYSAVRLDGTMSINKRQKLV 715

Query: 446 RKF-EKHGK---LLISTDVASEGLNLQVANVLINYEAPWTPIKLEQRVGRVWRINQKRDV 501
            +F +  G+    L+S+     G+NL  AN LI  +  W P   +Q + RVWR  QK+D 
Sbjct: 716 DRFNDPEGQEFIFLLSSKAGGCGINLIGANRLILMDPDWNPAADQQALARVWRDGQKKDC 775

Query: 502 KAY 504
             Y
Sbjct: 776 FIY 778


>gb|AAB95091.2| (U45025) 89B helicase [Drosophila melanogaster]
           Length = 913
           
 Score = 74.5 bits (180), Expect = 5e-12
 Identities = 113/501 (22%), Positives = 199/501 (39%), Gaps = 60/501 (11%)

Query: 54  IADEIGLGKTIQALAIARYLNLKGEAKRI-----LILVPKILREQWREEVERLGIIPIVI 108
           + D++GLGKT+Q + I    ++  +   +     L++ P  L   W  EVE+      V+
Sbjct: 363 LCDDMGLGKTLQTICILAGDHMHRQTANLANLPSLVICPPTLTGHWVYEVEKFLDQGSVL 422

Query: 109 ES--------GAE-VESKLRRKEGFFIVSIDLAKMPEHRDKFLEKEWDLVIIDEAHNVTL 159
                     G E + S +  K    + S D  +  +  D F    ++  ++DE H +  
Sbjct: 423 RPLHYYGFPVGREKLRSDIGTKCNLVVASYDTVR--KDIDFFSGIHFNYCVLDEGHIIKN 480

Query: 160 G-TQRYEFVKDLVGKNKDLNVIFLSATPHRGDPKDYLARLTLLDPTLIDDYSKLDSQEFY 218
           G T+  + +K L   ++    + LS TP + +  +  +    L P  +    K   Q F 
Sbjct: 481 GKTKSSKAIKRLKANHR----LILSGTPIQNNVLELWSLFDFLMPGFLGT-EKQFVQRFS 535

Query: 219 RRTMGTIIFRRTKSIVNELEGENIFRKCYFGAIVVGITEEEKEFFRRLNDVLSKLVKNTQ 278
           R  + +   R  KS   E E   +  +     ++  +    KE      DVL  L     
Sbjct: 536 RPILSS---RDAKSSAKEQEAGVLAMEALHRQVLPFLLRRVKE------DVLKDLPPKIT 586

Query: 279 KNSPQALLAVLVNKRASSSYSSAMKTLNKIVESYSVREV--NLGKVRDYIERLFGLGYED 336
           ++    L  + +      S       L+K+ +S S   V  NL       + L  L    
Sbjct: 587 QDLLCELSPLQLRLYEDFSNKHLKDCLDKLGDSSSASMVTENLSAKTHIFQALRYLQNVC 646

Query: 337 VNLEGFSEYDDVIDKIIEEYSAVLQESQVREFRELLDVLKRIKMDTKLNIVANVVKQHVE 396
            + +      + + K+  + +         E    L  LK++ +D  + +    V QH  
Sbjct: 647 NHPKLVLRQSEELTKVTSQLALSNSSLDDIEHSAKLPALKQLLLDCGIGVQTESVSQH-- 704

Query: 397 RGEKVIIFTEFKDTLEY-----LRKNLPSLAGLSDEDVSILHGGMPSGKVEEEIRKFEKH 451
              + +IF + K  L+      LR++LPS+  L       L G +P+ + ++ +  F   
Sbjct: 705 ---RALIFCQLKAMLDIVEQDLLRRHLPSVTYLR------LDGSVPASQRQDIVNNFNSD 755

Query: 452 GK---LLISTDVASEGLNLQVANVLINYEAPWTPIKLEQRVGRVWRINQKRDVKAYTIFL 508
                LL++T V   GLNL  A+ +I  E  W P+K  Q + R  RI QK+ V  Y +  
Sbjct: 756 PSIDVLLLTTMVGGLGLNLTGADTVIFVEHDWNPMKDLQAMDRAHRIGQKKVVNVYRLI- 814

Query: 509 DTEVDMYVLNNLYRKIMNIKE 529
                    N+L  KIM +++
Sbjct: 815 -------TRNSLEEKIMGLQK 828


>gb|AAF55260.1| (AE003711) Hel89B gene product [Drosophila melanogaster]
            Length = 1861
            
 Score = 74.5 bits (180), Expect = 5e-12
 Identities = 113/501 (22%), Positives = 199/501 (39%), Gaps = 60/501 (11%)

Query: 54   IADEIGLGKTIQALAIARYLNLKGEAKRI-----LILVPKILREQWREEVERLGIIPIVI 108
            + D++GLGKT+Q + I    ++  +   +     L++ P  L   W  EVE+      V+
Sbjct: 1311 LCDDMGLGKTLQTICILAGDHMHRQTANLANLPSLVICPPTLTGHWVYEVEKFLDQGSVL 1370

Query: 109  ES--------GAE-VESKLRRKEGFFIVSIDLAKMPEHRDKFLEKEWDLVIIDEAHNVTL 159
                      G E + S +  K    + S D  +  +  D F    ++  ++DE H +  
Sbjct: 1371 RPLHYYGFPVGREKLRSDIGTKCNLVVASYDTVR--KDIDFFSGIHFNYCVLDEGHIIKN 1428

Query: 160  G-TQRYEFVKDLVGKNKDLNVIFLSATPHRGDPKDYLARLTLLDPTLIDDYSKLDSQEFY 218
            G T+  + +K L   ++    + LS TP + +  +  +    L P  +    K   Q F 
Sbjct: 1429 GKTKSSKAIKRLKANHR----LILSGTPIQNNVLELWSLFDFLMPGFLGT-EKQFVQRFS 1483

Query: 219  RRTMGTIIFRRTKSIVNELEGENIFRKCYFGAIVVGITEEEKEFFRRLNDVLSKLVKNTQ 278
            R  + +   R  KS   E E   +  +     ++  +    KE      DVL  L     
Sbjct: 1484 RPILSS---RDAKSSAKEQEAGVLAMEALHRQVLPFLLRRVKE------DVLKDLPPKIT 1534

Query: 279  KNSPQALLAVLVNKRASSSYSSAMKTLNKIVESYSVREV--NLGKVRDYIERLFGLGYED 336
            ++    L  + +      S       L+K+ +S S   V  NL       + L  L    
Sbjct: 1535 QDLLCELSPLQLRLYEDFSNKHLKDCLDKLGDSSSASMVTENLSAKTHIFQALRYLQNVC 1594

Query: 337  VNLEGFSEYDDVIDKIIEEYSAVLQESQVREFRELLDVLKRIKMDTKLNIVANVVKQHVE 396
             + +      + + K+  + +         E    L  LK++ +D  + +    V QH  
Sbjct: 1595 NHPKLVLRQSEELTKVTSQLALSNSSLDDIEHSAKLPALKQLLLDCGIGVQTESVSQH-- 1652

Query: 397  RGEKVIIFTEFKDTLEY-----LRKNLPSLAGLSDEDVSILHGGMPSGKVEEEIRKFEKH 451
               + +IF + K  L+      LR++LPS+  L       L G +P+ + ++ +  F   
Sbjct: 1653 ---RALIFCQLKAMLDIVEQDLLRRHLPSVTYLR------LDGSVPASQRQDIVNNFNSD 1703

Query: 452  GK---LLISTDVASEGLNLQVANVLINYEAPWTPIKLEQRVGRVWRINQKRDVKAYTIFL 508
                 LL++T V   GLNL  A+ +I  E  W P+K  Q + R  RI QK+ V  Y +  
Sbjct: 1704 PSIDVLLLTTMVGGLGLNLTGADTVIFVEHDWNPMKDLQAMDRAHRIGQKKVVNVYRLI- 1762

Query: 509  DTEVDMYVLNNLYRKIMNIKE 529
                     N+L  KIM +++
Sbjct: 1763 -------TRNSLEEKIMGLQK 1776


>pir||T45606 hypothetical protein F13G24.10 - Arabidopsis thaliana  (fragment)
           >gi|6562295|emb|CAB62593.1| (AL133421) putative protein
           (fragment) [Arabidopsis thaliana]
           Length = 786
           
 Score = 72.2 bits (174), Expect = 3e-11
 Identities = 52/156 (33%), Positives = 81/156 (51%), Gaps = 17/156 (10%)

Query: 46  IQRPVRMFIADEIGLGKTIQALAIARYLNLKGEAKRILILVPKILREQWREEVERLGIIP 105
           ++R  R FIADE+GLGKT+QA+AIA     +G    IL++ P +LR  W EE+ER   +P
Sbjct: 216 LRRGGRCFIADEMGLGKTLQAIAIAGCFISEGS---ILVVCPAVLRFTWAEELERW--LP 270

Query: 106 IVIESGAEVESKLRRKEGFF-----IVSIDLAKMPEHRDKFLEKEWDLVIIDEAHNVTLG 160
             + S   +    +    +      +V I    +   R   LE+EW L+I+DE+H++   
Sbjct: 271 SCLPSDVHLVFGHQDNPAYLPRWPKVVVISYKMLQHLRTTMLEREWALLIVDESHHLRCS 330

Query: 161 TQR-----YEFVKDLVGKNKDLNVIFLSATPHRGDP 191
            ++      + V D+  K K  ++I LS TP    P
Sbjct: 331 KKKSDPPEIKTVLDVAEKVK--HIILLSGTPSVSRP 364


>dbj|BAB09945.1| (AB005249) contains similarity to HepA-related protein
           Harp~gene_id:MXM12.5 [Arabidopsis thaliana]
           Length = 1178
           
 Score = 72.2 bits (174), Expect = 3e-11
 Identities = 52/156 (33%), Positives = 81/156 (51%), Gaps = 17/156 (10%)

Query: 46  IQRPVRMFIADEIGLGKTIQALAIARYLNLKGEAKRILILVPKILREQWREEVERLGIIP 105
           ++R  R FIADE+GLGKT+QA+AIA     +G    IL++ P +LR  W EE+ER   +P
Sbjct: 216 LRRGGRCFIADEMGLGKTLQAIAIAGCFISEGS---ILVVCPAVLRFTWAEELERW--LP 270

Query: 106 IVIESGAEVESKLRRKEGFF-----IVSIDLAKMPEHRDKFLEKEWDLVIIDEAHNVTLG 160
             + S   +    +    +      +V I    +   R   LE+EW L+I+DE+H++   
Sbjct: 271 SCLPSDVHLVFGHQDNPAYLPRWPKVVVISYKMLQHLRTTMLEREWALLIVDESHHLRCS 330

Query: 161 TQR-----YEFVKDLVGKNKDLNVIFLSATPHRGDP 191
            ++      + V D+  K K  ++I LS TP    P
Sbjct: 331 KKKSDPPEIKTVLDVAEKVK--HIILLSGTPSVSRP 364


>emb|CAC12619.1| (AL445067) RNA helicase (RIG-I) related protein [Thermoplasma
           acidophilum]
           Length = 508
           
 Score = 71.0 bits (171), Expect = 6e-11
 Identities = 121/526 (23%), Positives = 221/526 (42%), Gaps = 70/526 (13%)

Query: 31  IEPFLHQLQPLYHAMIQRPVRMFIADEIGLGKTI-QALAIARYLNLKGEAKRILILVPK- 88
           I+P  +QL    +++ Q  +   I    GLGKTI  A+ I ++    GE KR L++ P  
Sbjct: 3   IQPREYQLNVFKNSIGQNTL---IVMPTGLGKTIIAAMFIEKFY---GEKKRSLMVAPTK 56

Query: 89  -ILREQWREEVERLGIIPIVI-----ESGAEVESKLRRKEGFFIVSIDLAKMPEHRDKFL 142
            ++ +  R   +  GI    I     E  AE    +   +  F VS       + R   L
Sbjct: 57  PLVLQHARTIADSTGISENEIGVFTGEIDAEERELIWVTKKIF-VSTPQVVFNDMRSGIL 115

Query: 143 E-KEWDLVIIDEAHNVTLGTQRYEFVKDLVGKNKDLNVIFLSATPHRGDPKDYLARLTLL 201
           +  ++DL+I DEAH   +G   Y  +     K K   +I L+A+P  G  ++ +  + + 
Sbjct: 116 DITKFDLIIFDEAHRA-VGNYAYVDIAQEYLKYKKKLIIGLTASP--GSSREKIDEI-MA 171

Query: 202 DPTLIDDYSKLDSQEFYRRTMGTIIFRRTKSIVNELEGENIFRKCYFGAIVVGITEEEKE 261
           +  +    +K +  E  R+ + TI  +  K  + E +G                    KE
Sbjct: 172 NLGISKVIAKTEMDEDVRKYVKTIDVKLIK--IREPDGT-------------------KE 210

Query: 262 FFRRLNDVLSKLVKNTQKNSPQALLAVLVNKRASSSYSSAMKTLNKIVESYS----VREV 317
               ++ V+SKL++  + ++        + +      ++  K +N   E  S    VR +
Sbjct: 211 IVNMIDAVMSKLLEPVKSSN------FSIGRSRKDLVATMQKVINSAKEDRSLFQLVRRI 264

Query: 318 NLGKVRDYIERLFGLGYEDVNLEGFSEYDDVIDKIIEEYSAVLQESQVREFRELLDVLKR 377
                 DY++        DV L    E +   D  I    ++L  S + EF  L   L  
Sbjct: 265 TAAIRLDYLKEYIETQGIDVALHYLEEMEKSQDPGIRRAISML--SSLDEFATLRTKLML 322

Query: 378 IK---MDTKLNIVANVVKQHVERGEKVIIFTEFKDT----LEYLRKNLPSLAGLSDEDVS 430
                 + K+    ++++ +V    + I+FT ++ T    ++Y++KN  SL  +    + 
Sbjct: 323 AADGYTNPKMEKTLSIMESNVHGNARAIVFTHYRITSDLLMDYIQKNGTSLKPV--RFIG 380

Query: 431 ILHGGMPSGKVEEEIRKFEKHGK-----LLISTDVASEGLNLQVANVLINYEAPWTPIKL 485
               G   G  +++ +K  +  K     +LI+T +A EGL++   + +I YEA  + I+ 
Sbjct: 381 QADRGSDEGLSQDQQKKIIEDFKNNVYNVLIATSIAEEGLDIPDTDFVIFYEAVPSEIRY 440

Query: 486 EQRVGRVWRINQKRDVKAYTIFLDTEVDMYVLNNLYRKIMNIKEAI 531
            QR GR  R    R+ + Y +  +   DM    +  RK+  + + I
Sbjct: 441 IQRKGRTGR---SRNGQVYILVFENSRDMAYYYSSIRKVSRMTQTI 483


  Database: ./suso.pep
    Posted date:  Jul 6, 2001  5:57 PM
  Number of letters in database: 840,471
  Number of sequences in database:  2977
  
  Database: /banques/blast2/nr.pep
    Posted date:  Dec 14, 2000 12:46 PM
  Number of letters in database: 188,266,275
  Number of sequences in database:  595,510
  
Lambda     K      H
   0.319    0.141    0.394 

Gapped
Lambda     K      H
   0.270   0.0470    0.230 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 352630748
Number of Sequences: 2977
Number of extensions: 15790317
Number of successful extensions: 46951
Number of sequences better than 1.0e-10: 27
Number of HSP's better than  0.0 without gapping: 10
Number of HSP's successfully gapped in prelim test: 17
Number of HSP's that attempted gapping in prelim test: 46839
Number of HSP's gapped (non-prelim): 41
length of query: 973
length of database: 189,106,746
effective HSP length: 60
effective length of query: 913
effective length of database: 153,197,526
effective search space: 139869341238
effective search space used: 139869341238
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.8 bits)
X3: 64 (24.9 bits)
S1: 41 (21.7 bits)
S2: 170 (70.6 bits)