BLASTP 2.2.26 [Sep-21-2011]
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.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= 000849
(1254 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4F91|B Chain B, Brr2 Helicase Region
Length = 1724
Score = 1450 bits (3753), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 744/1385 (53%), Positives = 934/1385 (67%), Gaps = 186/1385 (13%)
Query: 1 MKRGDRQLVEDLFCDGHVQVLVSTANLAWGVNLPAHTVIIKGTQVYNPEKGAWTELSPLD 60
M R DR LVEDLF D H+QVLVSTA LAWGVNLPAHTVIIKGTQVY+PEKG WTEL LD
Sbjct: 388 MTRVDRTLVEDLFADKHIQVLVSTATLAWGVNLPAHTVIIKGTQVYSPEKGRWTELGALD 447
Query: 61 IMQMLGRAGRPQYDSYGEGIIITGHSELQYYLSLMNQQLPIESQFVSKLAELLNAEIVLG 120
I+QMLGRAGRPQYD+ GEGI+IT H ELQYYLSL+NQQLPIESQ VSKL ++LNAEIVLG
Sbjct: 448 ILQMLGRAGRPQYDTKGEGILITSHGELQYYLSLLNQQLPIESQMVSKLPDMLNAEIVLG 507
Query: 121 TVQNAKEACNWIEYTYLYTRMLRNPVLYGLSPEVL--DITLGERITDLIHTAANVLDRNN 178
VQNAK+A NW+ Y YLY RMLR+P LYG+S + L D L +R DL+HTAA +LD+NN
Sbjct: 508 NVQNAKDAVNWLGYAYLYIRMLRSPTLYGISHDDLKGDPLLDQRRLDLVHTAALMLDKNN 567
Query: 179 LVKYGRKSGYFQ------------------------------------------------ 190
LVKY +K+G FQ
Sbjct: 568 LVKYDKKTGNFQVTELGRIASHYYITNDTVQTYNQLLKPTLSEIELFRVFSLSSEFKNIT 627
Query: 191 -SEKIKMELAKLLDRVPIPVKESLEEPSAKINVLLQTYISQLKLEGLSLTSDM-----SA 244
E+ K+EL KLL+RVPIPVKES+EEPSAKINVLLQ +ISQLKLEG +L +DM SA
Sbjct: 628 VREEEKLELQKLLERVPIPVKESIEEPSAKINVLLQAFISQLKLEGFALMADMVYVTQSA 687
Query: 245 GRLSRALFEIVLKRGWSQLAEKALKLSKMVTKRMWSVQTPLRQFNGIPNEILMKLEKKDF 304
GRL RA+FEIVL RGW+QL +K L L KM+ KRMW PLRQF +P E++ K+EKK+F
Sbjct: 688 GRLMRAIFEIVLNRGWAQLTDKTLNLCKMIDKRMWQSMCPLRQFRKLPEEVVKKIEKKNF 747
Query: 305 --------------------FLGK-------------------PITRTVLRVELTITPDF 325
+GK PITR+ L+VELTITPDF
Sbjct: 748 PFERLYDLNHNEIGELIRMPKMGKTIHKYVHLFPKLELSVHLQPITRSTLKVELTITPDF 807
Query: 326 QWDDKVHGYVELFWVIVEDNDGDYILHHEYFLLKKQYTEEDHSLNFTVPIYEPLPPQ--- 382
QWD+KVHG E FW++VED D + ILHHEYFLLK +Y +++H + F VP++EPLPPQ
Sbjct: 808 QWDEKVHGSSEAFWILVEDVDSEVILHHEYFLLKAKYAQDEHLITFFVPVFEPLPPQYFI 867
Query: 383 -------------------HLILPEKFPPPTELLDLQLLPVTALQNPSYEALYQN-YKLF 422
HLILPEK+PPPTELLDLQ LPV+AL+N ++E+LYQ+ + F
Sbjct: 868 RVVSDRWLSCETQLPVSFRHLILPEKYPPPTELLDLQPLPVSALRNSAFESLYQDKFPFF 927
Query: 423 NPIQTQVFAVLYNTEDNVLVAALSRKLMFARLPAKQRITAALPNIILVLQLAPTGSGKTI 482
NPIQTQVF +YN++DNV V A PTGSGKTI
Sbjct: 928 NPIQTQVFNTVYNSDDNVFVGA------------------------------PTGSGKTI 957
Query: 483 CAEFAILRNHQRASETGVMRAVYIAPIEALAKQRYCDWERKFGKELGMCVVELTVETAMD 542
CAEFAILR ++SE R VYI P+EALA+Q Y DW KF L VV LT ET+ D
Sbjct: 958 CAEFAILRMLLQSSEG---RCVYITPMEALAEQVYMDWYEKFQDRLNKKVVLLTGETSTD 1014
Query: 543 LKLLEKGQIIISTPEKWDALSRRWKQRKYVQQVSLFIIDELHLIGGQGGPVLEVIVARMR 602
LKLL KG IIISTPEKWD LSRRWKQRK VQ ++LF++DE+HLIGG+ GPVLEVI +RMR
Sbjct: 1015 LKLLGKGNIIISTPEKWDILSRRWKQRKNVQNINLFVVDEVHLIGGENGPVLEVICSRMR 1074
Query: 603 YIASQVENKIRIVALSTSLANAKDLGEWIGASSHGVFNFPPGVRPVPLEIQIQGVDITNF 662
YI+SQ+E IRIVALS+SL+NAKD+ W+G S+ FNF P VRPVPLE+ IQG +I++
Sbjct: 1075 YISSQIERPIRIVALSSSLSNAKDVAHWLGCSATSTFNFHPNVRPVPLELHIQGFNISHT 1134
Query: 663 EARMKAMTKPTYTAIMQHAKNEKPALVFVPSRKYARLTAVDLMIYSCKDSDQKSAFLLCS 722
+ R+ +M KP Y AI +H+ +KP +VFVPSRK RLTA+D++ +C Q+ FL C+
Sbjct: 1135 QTRLLSMAKPVYHAITKHSP-KKPVIVFVPSRKQTRLTAIDILT-TCAADIQRQRFLHCT 1192
Query: 723 AKEVEPHVSIIQEEMLRATLRLGVGYLHEGLNKSDQEVVSTLFEAGKIKVCVMSSSMCWE 782
K++ P++ + + L+ TL GVGYLHEGL+ ++ +V LF +G I+V V S S+CW
Sbjct: 1193 EKDLIPYLEKLSDSTLKETLLNGVGYLHEGLSPMERRLVEQLFSSGAIQVVVASRSLCWG 1252
Query: 783 VPLTAHLATGRKMLILTT-----------------LLQMMGHAGRPLLDNSEKCVILCHA 825
+ + AHL ++I+ T +LQM+GHA RPL D+ +CVI+C
Sbjct: 1253 MNVAAHL-----VIIMDTQYYNGKIHAYVDYPIYDVLQMVGHANRPLQDDEGRCVIMCQG 1307
Query: 826 PHKEYYKKFLYEAFPVESHLHHFLHDNFNAEIVAGVIENKQDAVDYLTWTF---RLTQNP 882
K+++KKFLYE PVESHL H +HD+FNAEIV IENKQDAVDYLTWTF R+TQNP
Sbjct: 1308 SKKDFFKKFLYEPLPVESHLDHCMHDHFNAEIVTKTIENKQDAVDYLTWTFLYRRMTQNP 1367
Query: 883 NYYNLQGVSHRHLSDHLSELVENTISDLEATRSIIMEDDMDLCPSNYGMIASYYYISYKT 942
NYYNLQG+SHRHLSDHLSELVE T+SDLE ++ I +ED+MD+ P N GMIA+YYYI+Y T
Sbjct: 1368 NYYNLQGISHRHLSDHLSELVEQTLSDLEQSKCISIEDEMDVAPLNLGMIAAYYYINYTT 1427
Query: 943 IECFSSSLTSKTKMKGLLEVLASASEYAQLPIRPGEEELVRRLINHQRFSFANPKCTDPH 1002
IE FS SL +KTK++GL+E++++A+EY +PIR E+ L+R+L NPK DPH
Sbjct: 1428 IELFSMSLNAKTKVRGLIEIISNAAEYENIPIRHHEDNLLRQLAQKVPHKLNNPKFNDPH 1487
Query: 1003 VKANALLQAHFSARHMEGNLKLDQEKVLLSASRLLQAMVDVISSNGWLSLALLAMEVSQM 1062
VK N LLQAH S + L+ D E++L A RL+QA VDV+SSNGWLS AL AME++QM
Sbjct: 1488 VKTNLLLQAHLSRMQLSAELQSDTEEILSKAIRLIQACVDVLSSNGWLSPALAAMELAQM 1547
Query: 1063 VTQGMWEHDSMLLQLPHFTKDLAKRCQENPGRSIETVFXXXXXXXXXXXXXXQMSDVQLL 1122
VTQ MW DS L QLPHFT + KRC + + +E+VF Q++D Q+
Sbjct: 1548 VTQAMWSKDSYLKQLPHFTSEHIKRCTD---KGVESVFDIMEMEDEERNALLQLTDSQIA 1604
Query: 1123 DIARFCNRFPNIDMSYKVQDSENVRAGGEDTTLQVVLERDLGGRTELGPVYSNRYPKAKE 1182
D+ARFCNR+PNI++SY+V D +++R+GG L V LER+ GPV + +P+ +E
Sbjct: 1605 DVARFCNRYPNIELSYEVVDKDSIRSGGPVVVL-VQLERE---EEVTGPVIAPLFPQKRE 1660
Query: 1183 EGWWLVVDDAKTNQLLAIKRVSLQRKSRAKLDFAAPVEGGKKTYTLDFMCDSYMGCDQEY 1242
EGWW+V+ DAK+N L++IKR++LQ+K++ KLDF AP G YTL FM D+YMGCDQEY
Sbjct: 1661 EGWWVVIGDAKSNSLISIKRLTLQQKAKVKLDFVAPATGA-HNYTLYFMSDAYMGCDQEY 1719
Query: 1243 SFTVD 1247
F+VD
Sbjct: 1720 KFSVD 1724
Score = 272 bits (695), Expect = 1e-72, Method: Compositional matrix adjust.
Identities = 237/891 (26%), Positives = 401/891 (45%), Gaps = 118/891 (13%)
Query: 400 QLLPVTALQNPSY-EALYQNYKLFNPIQTQVFAVLYNTEDNVLVAALSRKLMFARLPAKQ 458
QLLPV L P Y +A ++ +K N IQ++++ T++N+L+ A
Sbjct: 59 QLLPVEKL--PKYAQAGFEGFKTLNRIQSKLYRAALETDENLLLCA-------------- 102
Query: 459 RITAALPNIILVLQLAPTGSGKTICAEFAILR------NHQRASETGVMRAVYIAPIEAL 512
PTG+GKT A +LR N + +YIAP+ +L
Sbjct: 103 ----------------PTGAGKTNVALMCMLREIGKHINMDGTINVDDFKIIYIAPMRSL 146
Query: 513 AKQRYCDWERKFGKEL---GMCVVELTVETAMDLKLLEKGQIIISTPEKWDALSRRWKQR 569
++ FGK L G+ V ELT + + + + QII+ TPEKWD ++R+ +R
Sbjct: 147 VQEMVGS----FGKRLATYGITVAELTGDHQLCKEEISATQIIVCTPEKWDIITRKGGER 202
Query: 570 KYVQQVSLFIIDELHLIGGQGGPVLEVIVARMRYIASQVENKIRIVALSTSLANAKDLGE 629
Y Q V L I+DE+HL+ GPVLE +VAR + +R++ LS +L N +D+
Sbjct: 203 TYTQLVRLIILDEIHLLHDDRGPVLEALVARAIRNIEMTQEDVRLIGLSATLPNYEDVAT 262
Query: 630 WIGAS-SHGVFNFPPGVRPVPLEIQIQGVDITNFEARMKAMTKPTYTAIMQHA-KNEKPA 687
++ + G+F F RPVPLE G+ R + M + Y IM+HA KN+
Sbjct: 263 FLRVDPAKGLFYFDNSFRPVPLEQTYVGITEKKAIKRFQIMNEIVYEKIMEHAGKNQ--V 320
Query: 688 LVFVPSRKYARLTAVDLMIYSCKDSDQKSAFLLCSAKEVEPHVSIIQEEM-------LRA 740
LVFV SRK TA + C + D FL +E +++ E L+
Sbjct: 321 LVFVHSRKETGKTARAIRDM-CLEKDTLGLFL----REGSASTEVLRTEAEQCKNLELKD 375
Query: 741 TLRLGVGYLHEGLNKSDQEVVSTLFEAGKIKVCVMSSSMCWEVPLTAHLATGRKMLILT- 799
L G H G+ + D+ +V LF I+V V ++++ W V L AH + + +
Sbjct: 376 LLPYGFAIHHAGMTRVDRTLVEDLFADKHIQVLVSTATLAWGVNLPAHTVIIKGTQVYSP 435
Query: 800 -----------TLLQMMGHAGRPLLDNSEKCVILCHAPHKEYYKKFLYEAFPVESHLHHF 848
+LQM+G AGRP D + +++ +YY L + P+ES +
Sbjct: 436 EKGRWTELGALDILQMLGRAGRPQYDTKGEGILITSHGELQYYLSLLNQQLPIESQMVSK 495
Query: 849 LHDNFNAEIVAGVIENKQDAVDYLTWTF---RLTQNPNYYNLQGVSHRHLSDHLSELVEN 905
L D NAEIV G ++N +DAV++L + + R+ ++P Y G+SH L L++
Sbjct: 496 LPDMLNAEIVLGNVQNAKDAVNWLGYAYLYIRMLRSPTLY---GISHDDLKG--DPLLDQ 550
Query: 906 TISDLEATRSIIMEDD----MDLCPSNY-----GMIASYYYISYKTIECFSSSLTSKTKM 956
DL T +++++ + D N+ G IAS+YYI+ T++ ++ L
Sbjct: 551 RRLDLVHTAALMLDKNNLVKYDKKTGNFQVTELGRIASHYYITNDTVQTYNQLLKPTLSE 610
Query: 957 KGLLEVLASASEYAQLPIRPGEEELVRRLINHQRFSFANPKCTDPHVKANALLQAHFSAR 1016
L V + +SE+ + +R E+ +++L+ +P K N LLQA S
Sbjct: 611 IELFRVFSLSSEFKNITVREEEKLELQKLLERVPIP-VKESIEEPSAKINVLLQAFISQL 669
Query: 1017 HMEG-NLKLDQEKVLLSASRLLQAMVDVISSNGWLSLALLAMEVSQMVTQGMWEHDSMLL 1075
+EG L D V SA RL++A+ +++ + GW L + + +M+ + MW+ L
Sbjct: 670 KLEGFALMADMVYVTQSAGRLMRAIFEIVLNRGWAQLTDKTLNLCKMIDKRMWQSMCPLR 729
Query: 1076 QLPHFTKDLAKRCQENPGRSIETVFXXXXXXXXXXXXXXQMSDVQLLDIARFCNRFPNID 1135
Q +++ K+ E E ++ +M I ++ + FP ++
Sbjct: 730 QFRKLPEEVVKKI-EKKNFPFERLYDLNHNEIGELIRMPKMGKT----IHKYVHLFPKLE 784
Query: 1136 MSYKVQDSENVRAGGEDTTLQVVLERDLGGRTELGPVYS-NRYPKAKEEGWWLVVDDAKT 1194
+S +Q +TL+V L + P + + E +W++V+D +
Sbjct: 785 LSVHLQPITR-------STLKVEL--------TITPDFQWDEKVHGSSEAFWILVEDVDS 829
Query: 1195 NQLLAIKRVSLQRK---SRAKLDFAAPV-EGGKKTYTLDFMCDSYMGCDQE 1241
+L + L+ K + F PV E Y + + D ++ C+ +
Sbjct: 830 EVILHHEYFLLKAKYAQDEHLITFFVPVFEPLPPQYFIRVVSDRWLSCETQ 880
>pdb|4F92|B Chain B, Brr2 Helicase Region S1087l
pdb|4F93|B Chain B, Brr2 Helicase Region S1087l, Mg-Atp
Length = 1724
Score = 1448 bits (3748), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 743/1385 (53%), Positives = 933/1385 (67%), Gaps = 186/1385 (13%)
Query: 1 MKRGDRQLVEDLFCDGHVQVLVSTANLAWGVNLPAHTVIIKGTQVYNPEKGAWTELSPLD 60
M R DR LVEDLF D H+QVLVSTA LAWGVNLPAHTVIIKGTQVY+PEKG WTEL LD
Sbjct: 388 MTRVDRTLVEDLFADKHIQVLVSTATLAWGVNLPAHTVIIKGTQVYSPEKGRWTELGALD 447
Query: 61 IMQMLGRAGRPQYDSYGEGIIITGHSELQYYLSLMNQQLPIESQFVSKLAELLNAEIVLG 120
I+QMLGRAGRPQYD+ GEGI+IT H ELQYYLSL+NQQLPIESQ VSKL ++LNAEIVLG
Sbjct: 448 ILQMLGRAGRPQYDTKGEGILITSHGELQYYLSLLNQQLPIESQMVSKLPDMLNAEIVLG 507
Query: 121 TVQNAKEACNWIEYTYLYTRMLRNPVLYGLSPEVL--DITLGERITDLIHTAANVLDRNN 178
VQNAK+A NW+ Y YLY RMLR+P LYG+S + L D L +R DL+HTAA +LD+NN
Sbjct: 508 NVQNAKDAVNWLGYAYLYIRMLRSPTLYGISHDDLKGDPLLDQRRLDLVHTAALMLDKNN 567
Query: 179 LVKYGRKSGYFQ------------------------------------------------ 190
LVKY +K+G FQ
Sbjct: 568 LVKYDKKTGNFQVTELGRIASHYYITNDTVQTYNQLLKPTLSEIELFRVFSLSSEFKNIT 627
Query: 191 -SEKIKMELAKLLDRVPIPVKESLEEPSAKINVLLQTYISQLKLEGLSLTSDMS-----A 244
E+ K+EL KLL+RVPIPVKES+EEPSAKINVLLQ +ISQLKLEG +L +DM A
Sbjct: 628 VREEEKLELQKLLERVPIPVKESIEEPSAKINVLLQAFISQLKLEGFALMADMVYVTQLA 687
Query: 245 GRLSRALFEIVLKRGWSQLAEKALKLSKMVTKRMWSVQTPLRQFNGIPNEILMKLEKKDF 304
GRL RA+FEIVL RGW+QL +K L L KM+ KRMW PLRQF +P E++ K+EKK+F
Sbjct: 688 GRLMRAIFEIVLNRGWAQLTDKTLNLCKMIDKRMWQSMCPLRQFRKLPEEVVKKIEKKNF 747
Query: 305 --------------------FLGK-------------------PITRTVLRVELTITPDF 325
+GK PITR+ L+VELTITPDF
Sbjct: 748 PFERLYDLNHNEIGELIRMPKMGKTIHKYVHLFPKLELSVHLQPITRSTLKVELTITPDF 807
Query: 326 QWDDKVHGYVELFWVIVEDNDGDYILHHEYFLLKKQYTEEDHSLNFTVPIYEPLPPQ--- 382
QWD+KVHG E FW++VED D + ILHHEYFLLK +Y +++H + F VP++EPLPPQ
Sbjct: 808 QWDEKVHGSSEAFWILVEDVDSEVILHHEYFLLKAKYAQDEHLITFFVPVFEPLPPQYFI 867
Query: 383 -------------------HLILPEKFPPPTELLDLQLLPVTALQNPSYEALYQN-YKLF 422
HLILPEK+PPPTELLDLQ LPV+AL+N ++E+LYQ+ + F
Sbjct: 868 RVVSDRWLSCETQLPVSFRHLILPEKYPPPTELLDLQPLPVSALRNSAFESLYQDKFPFF 927
Query: 423 NPIQTQVFAVLYNTEDNVLVAALSRKLMFARLPAKQRITAALPNIILVLQLAPTGSGKTI 482
NPIQTQVF +YN++DNV V A PTGSGKTI
Sbjct: 928 NPIQTQVFNTVYNSDDNVFVGA------------------------------PTGSGKTI 957
Query: 483 CAEFAILRNHQRASETGVMRAVYIAPIEALAKQRYCDWERKFGKELGMCVVELTVETAMD 542
CAEFAILR ++SE R VYI P+EALA+Q Y DW KF L VV LT ET+ D
Sbjct: 958 CAEFAILRMLLQSSEG---RCVYITPMEALAEQVYMDWYEKFQDRLNKKVVLLTGETSTD 1014
Query: 543 LKLLEKGQIIISTPEKWDALSRRWKQRKYVQQVSLFIIDELHLIGGQGGPVLEVIVARMR 602
LKLL KG IIISTPEKWD LSRRWKQRK VQ ++LF++DE+HLIGG+ GPVLEVI +RMR
Sbjct: 1015 LKLLGKGNIIISTPEKWDILSRRWKQRKNVQNINLFVVDEVHLIGGENGPVLEVICSRMR 1074
Query: 603 YIASQVENKIRIVALSTSLANAKDLGEWIGASSHGVFNFPPGVRPVPLEIQIQGVDITNF 662
YI+SQ+E IRIVALS+SL+NAKD+ W+G S+ FNF P VRPVPLE+ IQG +I++
Sbjct: 1075 YISSQIERPIRIVALSSSLSNAKDVAHWLGCSATSTFNFHPNVRPVPLELHIQGFNISHT 1134
Query: 663 EARMKAMTKPTYTAIMQHAKNEKPALVFVPSRKYARLTAVDLMIYSCKDSDQKSAFLLCS 722
+ R+ +M KP Y AI +H+ +KP +VFVPSRK RLTA+D++ +C Q+ FL C+
Sbjct: 1135 QTRLLSMAKPVYHAITKHSP-KKPVIVFVPSRKQTRLTAIDILT-TCAADIQRQRFLHCT 1192
Query: 723 AKEVEPHVSIIQEEMLRATLRLGVGYLHEGLNKSDQEVVSTLFEAGKIKVCVMSSSMCWE 782
K++ P++ + + L+ TL GVGYLHEGL+ ++ +V LF +G I+V V S S+CW
Sbjct: 1193 EKDLIPYLEKLSDSTLKETLLNGVGYLHEGLSPMERRLVEQLFSSGAIQVVVASRSLCWG 1252
Query: 783 VPLTAHLATGRKMLILTT-----------------LLQMMGHAGRPLLDNSEKCVILCHA 825
+ + AHL ++I+ T +LQM+GHA RPL D+ +CVI+C
Sbjct: 1253 MNVAAHL-----VIIMDTQYYNGKIHAYVDYPIYDVLQMVGHANRPLQDDEGRCVIMCQG 1307
Query: 826 PHKEYYKKFLYEAFPVESHLHHFLHDNFNAEIVAGVIENKQDAVDYLTWTF---RLTQNP 882
K+++KKFLYE PVESHL H +HD+FNAEIV IENKQDAVDYLTWTF R+TQNP
Sbjct: 1308 SKKDFFKKFLYEPLPVESHLDHCMHDHFNAEIVTKTIENKQDAVDYLTWTFLYRRMTQNP 1367
Query: 883 NYYNLQGVSHRHLSDHLSELVENTISDLEATRSIIMEDDMDLCPSNYGMIASYYYISYKT 942
NYYNLQG+SHRHLSDHLSELVE T+SDLE ++ I +ED+MD+ P N GMIA+YYYI+Y T
Sbjct: 1368 NYYNLQGISHRHLSDHLSELVEQTLSDLEQSKCISIEDEMDVAPLNLGMIAAYYYINYTT 1427
Query: 943 IECFSSSLTSKTKMKGLLEVLASASEYAQLPIRPGEEELVRRLINHQRFSFANPKCTDPH 1002
IE FS SL +KTK++GL+E++++A+EY +PIR E+ L+R+L NPK DPH
Sbjct: 1428 IELFSMSLNAKTKVRGLIEIISNAAEYENIPIRHHEDNLLRQLAQKVPHKLNNPKFNDPH 1487
Query: 1003 VKANALLQAHFSARHMEGNLKLDQEKVLLSASRLLQAMVDVISSNGWLSLALLAMEVSQM 1062
VK N LLQAH S + L+ D E++L A RL+QA VDV+SSNGWLS AL AME++QM
Sbjct: 1488 VKTNLLLQAHLSRMQLSAELQSDTEEILSKAIRLIQACVDVLSSNGWLSPALAAMELAQM 1547
Query: 1063 VTQGMWEHDSMLLQLPHFTKDLAKRCQENPGRSIETVFXXXXXXXXXXXXXXQMSDVQLL 1122
VTQ MW DS L QLPHFT + KRC + + +E+VF Q++D Q+
Sbjct: 1548 VTQAMWSKDSYLKQLPHFTSEHIKRCTD---KGVESVFDIMEMEDEERNALLQLTDSQIA 1604
Query: 1123 DIARFCNRFPNIDMSYKVQDSENVRAGGEDTTLQVVLERDLGGRTELGPVYSNRYPKAKE 1182
D+ARFCNR+PNI++SY+V D +++R+GG L V LER+ GPV + +P+ +E
Sbjct: 1605 DVARFCNRYPNIELSYEVVDKDSIRSGGPVVVL-VQLERE---EEVTGPVIAPLFPQKRE 1660
Query: 1183 EGWWLVVDDAKTNQLLAIKRVSLQRKSRAKLDFAAPVEGGKKTYTLDFMCDSYMGCDQEY 1242
EGWW+V+ DAK+N L++IKR++LQ+K++ KLDF AP G YTL FM D+YMGCDQEY
Sbjct: 1661 EGWWVVIGDAKSNSLISIKRLTLQQKAKVKLDFVAPATGA-HNYTLYFMSDAYMGCDQEY 1719
Query: 1243 SFTVD 1247
F+VD
Sbjct: 1720 KFSVD 1724
Score = 269 bits (688), Expect = 6e-72, Method: Compositional matrix adjust.
Identities = 236/891 (26%), Positives = 400/891 (44%), Gaps = 118/891 (13%)
Query: 400 QLLPVTALQNPSY-EALYQNYKLFNPIQTQVFAVLYNTEDNVLVAALSRKLMFARLPAKQ 458
QLLPV L P Y +A ++ +K N IQ++++ T++N+L+ A
Sbjct: 59 QLLPVEKL--PKYAQAGFEGFKTLNRIQSKLYRAALETDENLLLCA-------------- 102
Query: 459 RITAALPNIILVLQLAPTGSGKTICAEFAILR------NHQRASETGVMRAVYIAPIEAL 512
PTG+GKT A +LR N + +YIAP+ +L
Sbjct: 103 ----------------PTGAGKTNVALMCMLREIGKHINMDGTINVDDFKIIYIAPMRSL 146
Query: 513 AKQRYCDWERKFGKEL---GMCVVELTVETAMDLKLLEKGQIIISTPEKWDALSRRWKQR 569
++ FGK L G+ V ELT + + + + QII+ TPEKWD ++R+ +R
Sbjct: 147 VQEMVGS----FGKRLATYGITVAELTGDHQLCKEEISATQIIVCTPEKWDIITRKGGER 202
Query: 570 KYVQQVSLFIIDELHLIGGQGGPVLEVIVARMRYIASQVENKIRIVALSTSLANAKDLGE 629
Y Q V L I+DE+HL+ GPVLE +VAR + +R++ LS +L N +D+
Sbjct: 203 TYTQLVRLIILDEIHLLHDDRGPVLEALVARAIRNIEMTQEDVRLIGLSATLPNYEDVAT 262
Query: 630 WIGAS-SHGVFNFPPGVRPVPLEIQIQGVDITNFEARMKAMTKPTYTAIMQHA-KNEKPA 687
++ + G+F F RPVPLE G+ R + M + Y IM+HA KN+
Sbjct: 263 FLRVDPAKGLFYFDNSFRPVPLEQTYVGITEKKAIKRFQIMNEIVYEKIMEHAGKNQ--V 320
Query: 688 LVFVPSRKYARLTAVDLMIYSCKDSDQKSAFLLCSAKEVEPHVSIIQEEM-------LRA 740
LVFV SRK TA + C + D FL +E +++ E L+
Sbjct: 321 LVFVHSRKETGKTARAIRDM-CLEKDTLGLFL----REGSASTEVLRTEAEQCKNLELKD 375
Query: 741 TLRLGVGYLHEGLNKSDQEVVSTLFEAGKIKVCVMSSSMCWEVPLTAHLATGRKMLILT- 799
L G H G+ + D+ +V LF I+V V ++++ W V L AH + + +
Sbjct: 376 LLPYGFAIHHAGMTRVDRTLVEDLFADKHIQVLVSTATLAWGVNLPAHTVIIKGTQVYSP 435
Query: 800 -----------TLLQMMGHAGRPLLDNSEKCVILCHAPHKEYYKKFLYEAFPVESHLHHF 848
+LQM+G AGRP D + +++ +YY L + P+ES +
Sbjct: 436 EKGRWTELGALDILQMLGRAGRPQYDTKGEGILITSHGELQYYLSLLNQQLPIESQMVSK 495
Query: 849 LHDNFNAEIVAGVIENKQDAVDYLTWTF---RLTQNPNYYNLQGVSHRHLSDHLSELVEN 905
L D NAEIV G ++N +DAV++L + + R+ ++P Y G+SH L L++
Sbjct: 496 LPDMLNAEIVLGNVQNAKDAVNWLGYAYLYIRMLRSPTLY---GISHDDLKG--DPLLDQ 550
Query: 906 TISDLEATRSIIMEDD----MDLCPSNY-----GMIASYYYISYKTIECFSSSLTSKTKM 956
DL T +++++ + D N+ G IAS+YYI+ T++ ++ L
Sbjct: 551 RRLDLVHTAALMLDKNNLVKYDKKTGNFQVTELGRIASHYYITNDTVQTYNQLLKPTLSE 610
Query: 957 KGLLEVLASASEYAQLPIRPGEEELVRRLINHQRFSFANPKCTDPHVKANALLQAHFSAR 1016
L V + +SE+ + +R E+ +++L+ +P K N LLQA S
Sbjct: 611 IELFRVFSLSSEFKNITVREEEKLELQKLLERVPIP-VKESIEEPSAKINVLLQAFISQL 669
Query: 1017 HMEG-NLKLDQEKVLLSASRLLQAMVDVISSNGWLSLALLAMEVSQMVTQGMWEHDSMLL 1075
+EG L D V A RL++A+ +++ + GW L + + +M+ + MW+ L
Sbjct: 670 KLEGFALMADMVYVTQLAGRLMRAIFEIVLNRGWAQLTDKTLNLCKMIDKRMWQSMCPLR 729
Query: 1076 QLPHFTKDLAKRCQENPGRSIETVFXXXXXXXXXXXXXXQMSDVQLLDIARFCNRFPNID 1135
Q +++ K+ E E ++ +M I ++ + FP ++
Sbjct: 730 QFRKLPEEVVKKI-EKKNFPFERLYDLNHNEIGELIRMPKMGKT----IHKYVHLFPKLE 784
Query: 1136 MSYKVQDSENVRAGGEDTTLQVVLERDLGGRTELGPVYS-NRYPKAKEEGWWLVVDDAKT 1194
+S +Q +TL+V L + P + + E +W++V+D +
Sbjct: 785 LSVHLQPITR-------STLKVEL--------TITPDFQWDEKVHGSSEAFWILVEDVDS 829
Query: 1195 NQLLAIKRVSLQRK---SRAKLDFAAPV-EGGKKTYTLDFMCDSYMGCDQE 1241
+L + L+ K + F PV E Y + + D ++ C+ +
Sbjct: 830 EVILHHEYFLLKAKYAQDEHLITFFVPVFEPLPPQYFIRVVSDRWLSCETQ 880
>pdb|2Q0Z|X Chain X, Crystal Structure Of Q9p172SEC63 FROM HOMO SAPIENS.
Northeast Structural Genomics Target Hr1979
Length = 339
Score = 325 bits (832), Expect = 1e-88, Method: Compositional matrix adjust.
Identities = 166/329 (50%), Positives = 224/329 (68%), Gaps = 8/329 (2%)
Query: 923 DLCPSNYGMIASYYYISYKTIECFSSSLTSKTKMKGLLEVLASASEYAQLPIRPGEEELV 982
D+ P N G IA+YYYI+Y TIE FS SL +KTK++GL+E++++A+EY +PIR E+ L+
Sbjct: 12 DVAPLNLGXIAAYYYINYTTIELFSXSLNAKTKVRGLIEIISNAAEYENIPIRHHEDNLL 71
Query: 983 RRLINHQRFSFANPKCTDPHVKANALLQAHFSARHMEGNLKLDQEKVLLSASRLLQAMVD 1042
R+L NPK DPHVK N LLQAH S + L+ D E++L A RL+QA VD
Sbjct: 72 RQLAQKVPHKLNNPKFNDPHVKTNLLLQAHLSRXQLSAELQSDTEEILSKAIRLIQACVD 131
Query: 1043 VISSNGWLSLALLAMEVSQMVTQGMWEHDSMLLQLPHFTKDLAKRCQENPGRSIETVFXX 1102
V+SSNGWLS AL A E++Q VTQ W DS L QLPHFT + KRC + + +E+VF
Sbjct: 132 VLSSNGWLSPALAAXELAQXVTQAXWSKDSYLKQLPHFTSEHIKRCTD---KGVESVFDI 188
Query: 1103 XXXXXXXXXXXXQMSDVQLLDIARFCNRFPNIDMSYKVQDSENVRAGGEDTTLQVVLERD 1162
Q++D Q+ D+ARFCNR+PNI++SY+V D +++R+GG L V LER+
Sbjct: 189 XEXEDEERNALLQLTDSQIADVARFCNRYPNIELSYEVVDKDSIRSGGPVVVL-VQLERE 247
Query: 1163 LGGRTELGPVYSNRYPKAKEEGWWLVVDDAKTNQLLAIKRVSLQRKSRAKLDFAAPVEGG 1222
GPV + +P+ +EEGWW+V+ DAK+N L++IKR++LQ+K++ KLDF AP G
Sbjct: 248 ---EEVTGPVIAPLFPQKREEGWWVVIGDAKSNSLISIKRLTLQQKAKVKLDFVAPATGA 304
Query: 1223 KKTYTLDFMCDSYMGCDQEYSFTVDVKEA 1251
YTL F D+Y GCDQEY F+VDVKEA
Sbjct: 305 -HNYTLYFXSDAYXGCDQEYKFSVDVKEA 332
Score = 36.6 bits (83), Expect = 0.080, Method: Compositional matrix adjust.
Identities = 32/111 (28%), Positives = 54/111 (48%), Gaps = 7/111 (6%)
Query: 198 LAKLLDRVPIPVKE-SLEEPSAKINVLLQTYISQLKLEGLSLTSDM-----SAGRLSRAL 251
L +L +VP + +P K N+LLQ ++S+ +L L SD A RL +A
Sbjct: 71 LRQLAQKVPHKLNNPKFNDPHVKTNLLLQAHLSRXQLSA-ELQSDTEEILSKAIRLIQAC 129
Query: 252 FEIVLKRGWSQLAEKALKLSKMVTKRMWSVQTPLRQFNGIPNEILMKLEKK 302
+++ GW A A +L++ VT+ WS + L+Q +E + + K
Sbjct: 130 VDVLSSNGWLSPALAAXELAQXVTQAXWSKDSYLKQLPHFTSEHIKRCTDK 180
>pdb|3IM1|A Chain A, Structure Of The C-Terminal Sec63 Unit Of Yeast Brr2,
P212121 Form
pdb|3IM2|A Chain A, Structure Of The C-Terminal Sec63 Unit Of Yeast Brr2, P41212
Form
Length = 328
Score = 189 bits (479), Expect = 1e-47, Method: Compositional matrix adjust.
Identities = 110/325 (33%), Positives = 193/325 (59%), Gaps = 16/325 (4%)
Query: 930 GMIASYYYISYKTIECFSSSLTSKTKMKGLLEVLASASEYAQLPIRPGEEELVRRLINHQ 989
G+IAS+Y +S+ TI+ F SSL++ + +K +L VL++A E+ +P+R G+ L+ +L +
Sbjct: 15 GLIASHYGVSFFTIQSFVSSLSNTSTLKNMLYVLSTAVEFESVPLRKGDRALLVKL--SK 72
Query: 990 RFSFANPKCTDP---HVKANALLQAHFSARHMEGNLKLDQEKVLLSASRLLQAMVDVISS 1046
R P+ T K LLQA+FS + + + D + +L L+ +VD++S+
Sbjct: 73 RLPLRFPEHTSSGSVSFKVFLLLQAYFSRLELPVDFQNDLKDILEKVVPLINVVVDILSA 132
Query: 1047 NGWLSLALLAMEVSQMVTQGMWEHDSMLLQLPHFTKDLAKRCQENPGRSIETVFXXXXXX 1106
NG+L+ A AM+++QM+ QG+W+ D+ L Q+PHF + ++C+E ++ETV+
Sbjct: 133 NGYLN-ATTAMDLAQMLIQGVWDVDNPLRQIPHFNNKILEKCKE---INVETVYDIMALE 188
Query: 1107 XXXXXXXXQMSDVQLLDIARFCNRFPNIDMSYKVQDSENVRAG-GEDTTLQVVLERDLGG 1165
++D QL +A F N +PN++++Y + +S+++ +G + T+Q L RD+
Sbjct: 189 DEERDEILTLTDSQLAQVAAFVNNYPNVELTYSLNNSDSLISGVKQKITIQ--LTRDV-- 244
Query: 1166 RTELGPVYSNRYPKAKEEGWWLVVDDAKTNQLLAIKRVSLQRKSRA-KLDFAAPVEGGKK 1224
E V S +YP K E WWLV+ + +L AIK+V+L ++++ +L+F P GK
Sbjct: 245 EPENLQVTSEKYPFDKLESWWLVLGEVSKKELYAIKKVTLNKETQQYELEFDTPT-SGKH 303
Query: 1225 TYTLDFMCDSYMGCDQEYSFTVDVK 1249
T+ +CDSY+ D+E SF ++VK
Sbjct: 304 NLTIWCVCDSYLDADKELSFEINVK 328
Score = 39.7 bits (91), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 34/108 (31%), Positives = 54/108 (50%), Gaps = 9/108 (8%)
Query: 198 LAKLLDRVPI--PVKESLEEPSAKINVLLQTYISQLKLEGLSLTSDMS-----AGRLSRA 250
L KL R+P+ P S S K+ +LLQ Y S+L+L + +D+ L
Sbjct: 67 LVKLSKRLPLRFPEHTSSGSVSFKVFLLLQAYFSRLEL-PVDFQNDLKDILEKVVPLINV 125
Query: 251 LFEIVLKRGWSQLAEKALKLSKMVTKRMWSVQTPLRQFNGIPNEILMK 298
+ +I+ G+ A A+ L++M+ + +W V PLRQ N+IL K
Sbjct: 126 VVDILSANGYLN-ATTAMDLAQMLIQGVWDVDNPLRQIPHFNNKILEK 172
>pdb|3HIB|A Chain A, Crystal Structure Of The Second Sec63 Domain Of Yeast Brr2
Length = 318
Score = 180 bits (456), Expect = 5e-45, Method: Compositional matrix adjust.
Identities = 108/325 (33%), Positives = 190/325 (58%), Gaps = 16/325 (4%)
Query: 930 GMIASYYYISYKTIECFSSSLTSKTKMKGLLEVLASASEYAQLPIRPGEEELVRRLINHQ 989
+IAS+Y +S+ TI+ F SSL++ + +K L VL++A E+ +P+R G+ L+ +L +
Sbjct: 5 SLIASHYGVSFFTIQSFVSSLSNTSTLKNXLYVLSTAVEFESVPLRKGDRALLVKL--SK 62
Query: 990 RFSFANPKCTDP---HVKANALLQAHFSARHMEGNLKLDQEKVLLSASRLLQAMVDVISS 1046
R P+ T K LLQA+FS + + + D + +L L+ +VD++S+
Sbjct: 63 RLPLRFPEHTSSGSVSFKVFLLLQAYFSRLELPVDFQNDLKDILEKVVPLINVVVDILSA 122
Query: 1047 NGWLSLALLAMEVSQMVTQGMWEHDSMLLQLPHFTKDLAKRCQENPGRSIETVFXXXXXX 1106
NG+L+ A A +++Q + QG+W+ D+ L Q+PHF + ++C+E ++ETV+
Sbjct: 123 NGYLN-ATTAXDLAQXLIQGVWDVDNPLRQIPHFNNKILEKCKE---INVETVYDIXALE 178
Query: 1107 XXXXXXXXQMSDVQLLDIARFCNRFPNIDMSYKVQDSENVRAG-GEDTTLQVVLERDLGG 1165
++D QL +A F N +PN++++Y + +S+++ +G + T+Q L RD+
Sbjct: 179 DEERDEILTLTDSQLAQVAAFVNNYPNVELTYSLNNSDSLISGVKQKITIQ--LTRDV-- 234
Query: 1166 RTELGPVYSNRYPKAKEEGWWLVVDDAKTNQLLAIKRVSLQRKSRA-KLDFAAPVEGGKK 1224
E V S +YP K E WWLV+ + +L AIK+V+L ++++ +L+F P GK
Sbjct: 235 EPENLQVTSEKYPFDKLESWWLVLGEVSKKELYAIKKVTLNKETQQYELEFDTPT-SGKH 293
Query: 1225 TYTLDFMCDSYMGCDQEYSFTVDVK 1249
T+ +CDSY+ D+E SF ++VK
Sbjct: 294 NLTIWCVCDSYLDADKELSFEINVK 318
Score = 36.2 bits (82), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 33/108 (30%), Positives = 52/108 (48%), Gaps = 9/108 (8%)
Query: 198 LAKLLDRVPI--PVKESLEEPSAKINVLLQTYISQLKLEGLSLTSDMS-----AGRLSRA 250
L KL R+P+ P S S K+ +LLQ Y S+L+L + +D+ L
Sbjct: 57 LVKLSKRLPLRFPEHTSSGSVSFKVFLLLQAYFSRLEL-PVDFQNDLKDILEKVVPLINV 115
Query: 251 LFEIVLKRGWSQLAEKALKLSKMVTKRMWSVQTPLRQFNGIPNEILMK 298
+ +I+ G+ A A L++ + + +W V PLRQ N+IL K
Sbjct: 116 VVDILSANGYLN-ATTAXDLAQXLIQGVWDVDNPLRQIPHFNNKILEK 162
>pdb|2P6R|A Chain A, Crystal Structure Of Superfamily 2 Helicase Hel308 In
Complex With Unwound Dna
pdb|2P6U|A Chain A, Apo Structure Of The Hel308 Superfamily 2 Helicase
Length = 702
Score = 117 bits (292), Expect = 5e-26, Method: Compositional matrix adjust.
Identities = 128/498 (25%), Positives = 220/498 (44%), Gaps = 76/498 (15%)
Query: 466 NIILVLQLAPTGSGKTICAEFAILRNHQRASETGVMRAVYIAPIEALAKQRY---CDWER 522
N++L + PT +GKT+ AE A++R + +++Y+ P+ ALA ++Y WE
Sbjct: 42 NLLLAM---PTAAGKTLLAEMAMVREAIKGG-----KSLYVVPLRALAGEKYESFKKWE- 92
Query: 523 KFGKELGMCVVELTVETAMDLKLLEKGQIIISTPEKWDALSRRWKQRKYVQQVSLFIIDE 582
K G +G+ T + + L II++T EK D+L R + +++ VS ++DE
Sbjct: 93 KIGLRIGIS----TGDYESRDEHLGDCDIIVTTSEKADSLIR--NRASWIKAVSCLVVDE 146
Query: 583 LHLIGGQG-GPVLEVIVARMRYIASQVENKIRIVALSTSLANAKDLGEWIGASSHGVFNF 641
+HL+ + G LE++V +MR ++ +R++ LS + N ++ EW+ A +
Sbjct: 147 IHLLDSEKRGATLEILVTKMR----RMNKALRVIGLSATAPNVTEIAEWLDADY-----Y 197
Query: 642 PPGVRPVPLEIQIQGV----DITNFEARMKAMTKPTYTAIMQHAKNEKPA-LVFVPSRKY 696
RPVPL ++GV + F+ + + +++ E LVF +R+
Sbjct: 198 VSDWRPVPL---VEGVLCEGTLELFDGAFSTSRRVKFEELVEECVAENGGVLVFESTRRG 254
Query: 697 ARLTAVDLMIYSCK---DSDQKSAFLLCSAKEVEPHVSIIQEEMLRATLRLGVGYLHEGL 753
A TAV L + K + + A L +E E +S L +R G + H GL
Sbjct: 255 AEKTAVKLSAITAKYVENEGLEKAIL----EENEGEMS----RKLAECVRKGAAFHHAGL 306
Query: 754 NKSDQEVVSTLFEAGKIKVCVMSSSMCWEVPLTAHLATGR---------KMLILTTLLQM 804
+ VV F G IKV V + ++ V L A R K + ++ QM
Sbjct: 307 LNGQRRVVEDAFRRGNIKVVVATPTLAAGVNLPARRVIVRSLYRFDGYSKRIKVSEYKQM 366
Query: 805 MGHAGRPLLDNSEKCVILCHAPHKEY-YKKFLY-EAFPVESHLHHFLHDNFNAE--IVAG 860
G AGRP +D + +I+ +E K++++ E + S L H F++ I G
Sbjct: 367 AGRAGRPGMDERGEAIIIVGKRDREIAVKRYIFGEPERITSKLGVETHLRFHSLSIICDG 426
Query: 861 VIENKQDAVDYLTWTFRLTQNPNYYNLQGVSHRHLSDHLSELVENTISDLEATRSIIMED 920
+ ++ D+ TF QN LS +E + LE ++ +
Sbjct: 427 YAKTLEELEDFFADTFFFKQN--------------EISLSYELERVVRQLENWGMVV--E 470
Query: 921 DMDLCPSNYGMIASYYYI 938
L P+ G + S YI
Sbjct: 471 AAHLAPTKLGSLVSRLYI 488
Score = 69.3 bits (168), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 36/81 (44%), Positives = 49/81 (60%), Gaps = 3/81 (3%)
Query: 4 GDRQLVEDLFCDGHVQVLVSTANLAWGVNLPAHTVIIKGTQVYNPEKGAWTELSPLDIMQ 63
G R++VED F G+++V+V+T LA GVNLPA VI++ ++ G + + Q
Sbjct: 309 GQRRVVEDAFRRGNIKVVVATPTLAAGVNLPARRVIVRSLYRFD---GYSKRIKVSEYKQ 365
Query: 64 MLGRAGRPQYDSYGEGIIITG 84
M GRAGRP D GE III G
Sbjct: 366 MAGRAGRPGMDERGEAIIIVG 386
>pdb|2ZJ2|A Chain A, Archaeal Dna Helicase Hjm Apo State In Form 1
pdb|2ZJ5|A Chain A, Archaeal Dna Helicase Hjm Complexed With Adp In Form 1
pdb|2ZJ8|A Chain A, Archaeal Dna Helicase Hjm Apo State In Form 2
pdb|2ZJA|A Chain A, Archaeal Dna Helicase Hjm Complexed With Amppcp In Form 2
Length = 720
Score = 117 bits (292), Expect = 5e-26, Method: Compositional matrix adjust.
Identities = 133/518 (25%), Positives = 229/518 (44%), Gaps = 93/518 (17%)
Query: 475 PTGSGKTICAEFAILRNHQRASETGVMRAVYIAPIEALAK---QRYCDWERKFGKELGMC 531
PT SGKT+ AE A++ H+ ++ G +AVYI P++ALA+ Q + DWE+ +G+
Sbjct: 47 PTASGKTLIAEIAMV--HRILTQGG--KAVYIVPLKALAEEKFQEFQDWEK-----IGLR 97
Query: 532 VVELTVETAMDLKLLEKGQIIISTPEKWDALSRRWKQRKYVQQVSLFIIDELHLIGGQG- 590
V T + + L K III+T EK+D+L R +++ V + + DE+HLIG +
Sbjct: 98 VAMATGDYDSKDEWLGKYDIIIATAEKFDSLLRHGSS--WIKDVKILVADEIHLIGSRDR 155
Query: 591 GPVLEVIVARMRYIASQVENKIRIVALSTSLANAKDLGEWIGASSHGVFNFPPGVRPVPL 650
G LEVI+A M K +I+ LS ++ N ++L EW+ A RPV L
Sbjct: 156 GATLEVILAHML-------GKAQIIGLSATIGNPEELAEWLNAEL-----IVSDWRPVKL 203
Query: 651 EIQIQGVDITNFEA-------RMKAMTKPTYTAIMQHAKNEKPALVFVPSRKYARLTAVD 703
+GV F R + + Y AI + +K AL+FV R+ A A++
Sbjct: 204 R---RGVFYQGFVTWEDGSIDRFSSWEELVYDAI----RKKKGALIFVNMRRKAERVALE 256
Query: 704 LMIYSCKDSDQKSAFLLCSAKEVEPHVSIIQE-----------EMLRATLRLGVGYLHEG 752
L +K LL +P + + E E L +R GV + H G
Sbjct: 257 L--------SKKVKSLLT-----KPEIRALNELADSLEENPTNEKLAKAIRGGVAFHHAG 303
Query: 753 LNKSDQEVVSTLFEAGKIKVCVMSSSMCWEVPLTAHLAT----------GRKMLILTTLL 802
L + ++ +V F G IK V + ++ + A G + + + +
Sbjct: 304 LGRDERVLVEENFRKGIIKAVVATPTLSAGINTPAFRVIIRDIWRYSDFGMERIPIIEVH 363
Query: 803 QMMGHAGRPLLDNSEKCVILCHAPH-KEYYKKFLYEAFPVESHLHHFLHDNFNAEIVAGV 861
QM+G AGRP D + +I+ + +E +++ P + N ++++A +
Sbjct: 364 QMLGRAGRPKYDEVGEGIIVSTSDDPREVMNHYIF-GKPEKLFSQLSNESNLRSQVLALI 422
Query: 862 I----ENKQDAVDYLTWTFRLTQNPNYYNLQGVSHRHLSDHLSELVENTISDLEATRSII 917
++ + +++ TF Q + Y+L+ + + L L+EN + I
Sbjct: 423 ATFGYSTVEEILKFISNTFYAYQRKDTYSLE----EKIRNILYFLLENEFIE------IS 472
Query: 918 MEDDMDLCPSNYGMIASYYYISYKTIECFSSSLTSKTK 955
+ED + P + G+ + YI T + F + K
Sbjct: 473 LED--KIRPLSLGIRTAKLYIDPYTAKMFKDKMEEVVK 508
Score = 75.1 bits (183), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 59/192 (30%), Positives = 97/192 (50%), Gaps = 20/192 (10%)
Query: 1 MKRGDRQLVEDLFCDGHVQVLVSTANLAWGVNLPAHTVIIKGTQVYNPEKGAWTELSPLD 60
+ R +R LVE+ F G ++ +V+T L+ G+N PA VII+ Y+ + ++
Sbjct: 304 LGRDERVLVEENFRKGIIKAVVATPTLSAGINTPAFRVIIRDIWRYS--DFGMERIPIIE 361
Query: 61 IMQMLGRAGRPQYDSYGEGIIITGHSE----LQYYL----SLMNQQLPIESQFVSKLAEL 112
+ QMLGRAGRP+YD GEGII++ + + +Y+ + QL ES S++ L
Sbjct: 362 VHQMLGRAGRPKYDEVGEGIIVSTSDDPREVMNHYIFGKPEKLFSQLSNESNLRSQVLAL 421
Query: 113 L------NAEIVLGTVQNAKEACNWIEYTYLYTRMLRNPVLYGLSPEVLDITLGERITDL 166
+ E +L + N A + TY +RN + + L E ++I+L ++I L
Sbjct: 422 IATFGYSTVEEILKFISNTFYAYQRKD-TYSLEEKIRNILYFLLENEFIEISLEDKIRPL 480
Query: 167 ---IHTAANVLD 175
I TA +D
Sbjct: 481 SLGIRTAKLYID 492
>pdb|2VA8|A Chain A, Dna Repair Helicase Hel308
pdb|2VA8|B Chain B, Dna Repair Helicase Hel308
Length = 715
Score = 116 bits (290), Expect = 9e-26, Method: Compositional matrix adjust.
Identities = 113/411 (27%), Positives = 190/411 (46%), Gaps = 64/411 (15%)
Query: 470 VLQLAPTGSGKTICAEFAILRNHQRASETGVMRAVYIAPIEALAKQRYC---DWERKFGK 526
+L +PTGSGKT+ AE I+ + +A+Y+ P+ AL ++Y DWE
Sbjct: 49 LLLTSPTGSGKTLIAEMGIISFLLKNGG----KAIYVTPLRALTNEKYLTFKDWEL---- 100
Query: 527 ELGMCVVELTVETAMDLKLLEKGQIIISTPEKWDALSRRWKQR-KYVQQVSLFIIDELHL 585
+G V + + D L+ III+T EK D+L W+ R +++ +V+ F++DELH
Sbjct: 101 -IGFKVAMTSGDYDTDDAWLKNYDIIITTYEKLDSL---WRHRPEWLNEVNYFVLDELHY 156
Query: 586 IGG-QGGPVLEVIVARMRYIASQVENKIRIVALSTSLANAKDLGEWIGASSHGVFNFPPG 644
+ + GPV+E + R + + ++ALS +++N K + +W+GA
Sbjct: 157 LNDPERGPVVESVTIRAK--------RRNLLALSATISNYKQIAKWLGAEP-----VATN 203
Query: 645 VRPVPLEIQIQGVDITNFEARMKAMTKPTYTAIMQHAKNEKPA------------LVFVP 692
RPVPL I+GV + + + T H + A LVF
Sbjct: 204 WRPVPL---IEGVIYPERKKKEYNVIFKDNTTKKVHGDDAIIAYTLDSLSKNGQVLVFRN 260
Query: 693 SRKYARLTAVDLMIYSCKDSDQKSAF--LLCSAKEVEPHVSIIQEEMLRATLRLGVGYLH 750
SRK A TA+ + Y S ++A +L ++E S ++E+L++ + GV Y H
Sbjct: 261 SRKMAESTALKIANYMNFVSLDENALSEILKQLDDIEEGGSD-EKELLKSLISKGVAYHH 319
Query: 751 EGLNKSDQEVVSTLFEAGKIKVCVMSSSMCWEVPLTAH-------------LATGRKMLI 797
GL+K+ ++++ F KIKV V + ++ V L A +A +
Sbjct: 320 AGLSKALRDLIEEGFRQRKIKVIVATPTLAAGVNLPARTVIIGDIYRFNKKIAGYYDEIP 379
Query: 798 LTTLLQMMGHAGRPLLDNSEKCVILCHAPH--KEYYKKF-LYEAFPVESHL 845
+ QM G AGRP D + +++ +KK+ L + P+ES L
Sbjct: 380 IMEYKQMSGRAGRPGFDQIGESIVVVRDKEDVDRVFKKYVLSDVEPIESKL 430
Score = 69.3 bits (168), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 44/112 (39%), Positives = 63/112 (56%), Gaps = 10/112 (8%)
Query: 6 RQLVEDLFCDGHVQVLVSTANLAWGVNLPAHTVIIKGTQVYNPE-KGAWTELSPLDIMQM 64
R L+E+ F ++V+V+T LA GVNLPA TVII +N + G + E+ ++ QM
Sbjct: 327 RDLIEEGFRQRKIKVIVATPTLAAGVNLPARTVIIGDIYRFNKKIAGYYDEIPIMEYKQM 386
Query: 65 LGRAGRPQYDSYGEGIIITGHSE------LQYYLSLMNQQLPIESQFVSKLA 110
GRAGRP +D GE I++ E +Y LS + PIES+ S+ A
Sbjct: 387 SGRAGRPGFDQIGESIVVVRDKEDVDRVFKKYVLSDVE---PIESKLGSERA 435
>pdb|3L9O|A Chain A, Crystal Structure Of Mtr4, A Co-Factor Of The Nuclear
Exosome
Length = 1108
Score = 68.6 bits (166), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 100/422 (23%), Positives = 173/422 (40%), Gaps = 113/422 (26%)
Query: 470 VLQLAPTGSGKTICAEFAI---LRNHQRASETGVMRAVYIAPIEALAKQRYCDWERKFGK 526
VL A T +GKT+ AE+AI L+N QR +Y +PI+AL+ Q+Y + +FG
Sbjct: 202 VLVSAHTSAGKTVVAEYAIAQSLKNKQRV--------IYTSPIKALSNQKYRELLAEFG- 252
Query: 527 ELGMCVVELTVETAMDLKLLEKGQIIISTPEKWDALSRRWKQRKYVQQVSLFIIDELHLI 586
++G+ ++T+ + G ++++T L ++ + +++V+ I DE+H +
Sbjct: 253 DVGLMTGDITINP-------DAGCLVMTTEILRSML---YRGSEVMREVAWVIFDEVHYM 302
Query: 587 GGQGGPVL--EVIVARMRYIASQVENKIRIVALSTSLANAKDLGEWI----GASSHGVF- 639
+ V+ E I+ + +K+R V LS ++ NA + EWI H V+
Sbjct: 303 RDKERGVVWEETIIL--------LPDKVRYVFLSATIPNAMEFAEWICKIHSQPCHIVYT 354
Query: 640 NFPPGVRPVPLE---IQIQGVDI------------TNFEARMKAMTK-----PTYT---- 675
NF RP PL+ G I NF+ M +++ P T
Sbjct: 355 NF----RPTPLQHYLFPAHGDGIYLVVDEKSTFREENFQKAMASISNQIGDDPNSTDSRG 410
Query: 676 ----------------------AIMQHAKNEKPALVFVPSRKYARLTAVDLMIYSCKDSD 713
M K P +VF S++ A+ + D
Sbjct: 411 KKGQTYKGGSAKGDAKGDIYKIVKMIWKKKYNPVIVFSFSKRDCEELALKMSKLDFNSDD 470
Query: 714 QKSAF--LLCSAKEVEPHVS--IIQEEMLRATLRLGVGYLHEGLNKSDQEVVSTLFEAGK 769
+K A + +A + P + Q + + LR G+G H GL +EV+ LF+ G
Sbjct: 471 EKEALTKIFNNAIALLPETDRELPQIKHILPLLRRGIGIHHSGLLPILKEVIEILFQEGF 530
Query: 770 IKVCVMSSSMCWEVPLTAHLATGRKMLILTTL----------------LQMMGHAGRPLL 813
+KV + + + + A K ++ T++ +QM G AGR L
Sbjct: 531 LKVLFATETFSIGLNMPA------KTVVFTSVRKWDGQQFRWVSGGEYIQMSGRAGRRGL 584
Query: 814 DN 815
D+
Sbjct: 585 DD 586
Score = 50.1 bits (118), Expect = 9e-06, Method: Compositional matrix adjust.
Identities = 24/72 (33%), Positives = 44/72 (61%), Gaps = 2/72 (2%)
Query: 6 RQLVEDLFCDGHVQVLVSTANLAWGVNLPAHTVIIKGTQVYNPEKGAWTELSPLDIMQML 65
++++E LF +G ++VL +T + G+N+PA TV+ + ++ ++ W +S + +QM
Sbjct: 519 KEVIEILFQEGFLKVLFATETFSIGLNMPAKTVVFTSVRKWDGQQFRW--VSGGEYIQMS 576
Query: 66 GRAGRPQYDSYG 77
GRAGR D G
Sbjct: 577 GRAGRRGLDDRG 588
>pdb|2XGJ|A Chain A, Structure Of Mtr4, A Dexh Helicase Involved In Nuclear Rna
Processing And Surveillance
pdb|2XGJ|B Chain B, Structure Of Mtr4, A Dexh Helicase Involved In Nuclear Rna
Processing And Surveillance
Length = 1010
Score = 68.2 bits (165), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 100/422 (23%), Positives = 173/422 (40%), Gaps = 113/422 (26%)
Query: 470 VLQLAPTGSGKTICAEFAI---LRNHQRASETGVMRAVYIAPIEALAKQRYCDWERKFGK 526
VL A T +GKT+ AE+AI L+N QR +Y +PI+AL+ Q+Y + +FG
Sbjct: 104 VLVSAHTSAGKTVVAEYAIAQSLKNKQRV--------IYTSPIKALSNQKYRELLAEFG- 154
Query: 527 ELGMCVVELTVETAMDLKLLEKGQIIISTPEKWDALSRRWKQRKYVQQVSLFIIDELHLI 586
++G+ ++T+ + G ++++T L ++ + +++V+ I DE+H +
Sbjct: 155 DVGLMTGDITINP-------DAGCLVMTTEILRSML---YRGSEVMREVAWVIFDEVHYM 204
Query: 587 GGQGGPVL--EVIVARMRYIASQVENKIRIVALSTSLANAKDLGEWI----GASSHGVF- 639
+ V+ E I+ + +K+R V LS ++ NA + EWI H V+
Sbjct: 205 RDKERGVVWEETIIL--------LPDKVRYVFLSATIPNAMEFAEWICKIHSQPCHIVYT 256
Query: 640 NFPPGVRPVPLE---IQIQGVDI------------TNFEARMKAMTK-----PTYT---- 675
NF RP PL+ G I NF+ M +++ P T
Sbjct: 257 NF----RPTPLQHYLFPAHGDGIYLVVDEKSTFREENFQKAMASISNQIGDDPNSTDSRG 312
Query: 676 ----------------------AIMQHAKNEKPALVFVPSRKYARLTAVDLMIYSCKDSD 713
M K P +VF S++ A+ + D
Sbjct: 313 KKGQTYKGGSAKGDAKGDIYKIVKMIWKKKYNPVIVFSFSKRDCEELALKMSKLDFNSDD 372
Query: 714 QKSAF--LLCSAKEVEPHVS--IIQEEMLRATLRLGVGYLHEGLNKSDQEVVSTLFEAGK 769
+K A + +A + P + Q + + LR G+G H GL +EV+ LF+ G
Sbjct: 373 EKEALTKIFNNAIALLPETDRELPQIKHILPLLRRGIGIHHSGLLPILKEVIEILFQEGF 432
Query: 770 IKVCVMSSSMCWEVPLTAHLATGRKMLILTTL----------------LQMMGHAGRPLL 813
+KV + + + + A K ++ T++ +QM G AGR L
Sbjct: 433 LKVLFATETFSIGLNMPA------KTVVFTSVRKWDGQQFRWVSGGEYIQMSGRAGRRGL 486
Query: 814 DN 815
D+
Sbjct: 487 DD 488
Score = 50.1 bits (118), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 24/72 (33%), Positives = 44/72 (61%), Gaps = 2/72 (2%)
Query: 6 RQLVEDLFCDGHVQVLVSTANLAWGVNLPAHTVIIKGTQVYNPEKGAWTELSPLDIMQML 65
++++E LF +G ++VL +T + G+N+PA TV+ + ++ ++ W +S + +QM
Sbjct: 421 KEVIEILFQEGFLKVLFATETFSIGLNMPAKTVVFTSVRKWDGQQFRW--VSGGEYIQMS 478
Query: 66 GRAGRPQYDSYG 77
GRAGR D G
Sbjct: 479 GRAGRRGLDDRG 490
>pdb|4A4Z|A Chain A, Crystal Structure Of The S. Cerevisiae Dexh Helicase Ski2
Bound To Amppnp
Length = 997
Score = 65.9 bits (159), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 50/188 (26%), Positives = 90/188 (47%), Gaps = 25/188 (13%)
Query: 470 VLQLAPTGSGKTICAEFAILRNHQRASETGVMRAVYIAPIEALAKQRYCDWERKFGKELG 529
V A T +GKT+ AE+AI H+ ++T +Y +PI+AL+ Q++ D++ F
Sbjct: 57 VFVAAHTSAGKTVVAEYAIAMAHRNMTKT-----IYTSPIKALSNQKFRDFKETFDD--- 108
Query: 530 MCVVELTVETAMDLKLLEKGQIIISTPEKWDALSRRWKQRKYVQQVSLFIIDELHLIGGQ 589
V + + T D+++ +I T E ++ ++ ++ V I DE+H + Q
Sbjct: 109 ---VNIGLITG-DVQINPDANCLIMTTEILRSML--YRGADLIRDVEFVIFDEVHYVNDQ 162
Query: 590 GGPVL--EVIVARMRYIASQVENKIRIVALSTSLANAKDLGEWIGASSH-GVFNFPPGVR 646
V+ EVI+ + ++ + LS ++ N + WIG + ++ R
Sbjct: 163 DRGVVWEEVII--------MLPQHVKFILLSATVPNTYEFANWIGRTKQKNIYVISTPKR 214
Query: 647 PVPLEIQI 654
PVPLEI I
Sbjct: 215 PVPLEINI 222
Score = 60.5 bits (145), Expect = 6e-09, Method: Compositional matrix adjust.
Identities = 32/83 (38%), Positives = 47/83 (56%), Gaps = 2/83 (2%)
Query: 6 RQLVEDLFCDGHVQVLVSTANLAWGVNLPAHTVIIKGTQVYNPEKGAWTELSPLDIMQML 65
++L+E LF G ++VL +T A G+NLP TVI + + + EL+P + QM
Sbjct: 414 KELIEILFSKGFIKVLFATETFAMGLNLPTRTVIF--SSIRKHDGNGLRELTPGEFTQMA 471
Query: 66 GRAGRPQYDSYGEGIIITGHSEL 88
GRAGR DS G I++ +S L
Sbjct: 472 GRAGRRGLDSTGTVIVMAYNSPL 494
Score = 38.9 bits (89), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 42/183 (22%), Positives = 76/183 (41%), Gaps = 40/183 (21%)
Query: 670 TKPTYTAIMQHAKNEK--PALVFVPSRKYARLTAVDLMIYSCKD-SDQKSAFLLCSAKE- 725
+K T+ I+ + + + P +VFV S+K C++ +D C+ KE
Sbjct: 320 SKKTWPEIVNYLRKRELLPMVVFVFSKK------------RCEEYADWLEGINFCNNKEK 367
Query: 726 ------VEPHVSIIQEE--------MLRATLRLGVGYLHEGLNKSDQEVVSTLFEAGKIK 771
+E ++ +++E R+ L G+ H GL +E++ LF G IK
Sbjct: 368 SQIHMFIEKSITRLKKEDRDLPQILKTRSLLERGIAVHHGGLLPIVKELIEILFSKGFIK 427
Query: 772 VCVMSSS--MCWEVP--------LTAHLATGRKMLILTTLLQMMGHAGRPLLDNSEKCVI 821
V + + M +P + H G + L QM G AGR LD++ ++
Sbjct: 428 VLFATETFAMGLNLPTRTVIFSSIRKHDGNGLRELTPGEFTQMAGRAGRRGLDSTGTVIV 487
Query: 822 LCH 824
+ +
Sbjct: 488 MAY 490
>pdb|3EIQ|A Chain A, Crystal Structure Of Pdcd4-eif4a
pdb|3EIQ|D Chain D, Crystal Structure Of Pdcd4-eif4a
Length = 414
Score = 40.0 bits (92), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 35/120 (29%), Positives = 57/120 (47%), Gaps = 15/120 (12%)
Query: 470 VLQLAPTGSGKTICAEFAILRNHQRASETGVMRAVYIAPIEALAKQ------RYCDWERK 523
V+ A +G+GKT A FAI Q + +A+ +AP LA+Q D+
Sbjct: 80 VIAQAQSGTGKT--ATFAISILQQIELDLKATQALVLAPTRELAQQIQKVVMALGDY--- 134
Query: 524 FGKELGMCVVELTVETAMDLKLLEKGQIIISTPEK-WDALSRRWKQRKYVQQVSLFIIDE 582
G C+ V + +E II+ TP + +D L+RR+ KY++ +F++DE
Sbjct: 135 MGASCHACIGGTNVRAEVQKLQMEAPHIIVGTPGRVFDMLNRRYLSPKYIK---MFVLDE 191
>pdb|2ZU6|A Chain A, Crystal Structure Of The Eif4a-Pdcd4 Complex
pdb|2ZU6|C Chain C, Crystal Structure Of The Eif4a-Pdcd4 Complex
pdb|2ZU6|D Chain D, Crystal Structure Of The Eif4a-Pdcd4 Complex
pdb|2ZU6|F Chain F, Crystal Structure Of The Eif4a-Pdcd4 Complex
Length = 388
Score = 39.7 bits (91), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 35/120 (29%), Positives = 57/120 (47%), Gaps = 15/120 (12%)
Query: 470 VLQLAPTGSGKTICAEFAILRNHQRASETGVMRAVYIAPIEALAKQ------RYCDWERK 523
V+ A +G+GKT A FAI Q + +A+ +AP LA+Q D+
Sbjct: 54 VIAQAQSGTGKT--ATFAISILQQIELDLKATQALVLAPTRELAQQIQKVVMALGDY--- 108
Query: 524 FGKELGMCVVELTVETAMDLKLLEKGQIIISTPEK-WDALSRRWKQRKYVQQVSLFIIDE 582
G C+ V + +E II+ TP + +D L+RR+ KY++ +F++DE
Sbjct: 109 MGASCHACIGGTNVRAEVQKLQMEAPHIIVGTPGRVFDMLNRRYLSPKYIK---MFVLDE 165
>pdb|3BOR|A Chain A, Crystal Structure Of The Deadc Domain Of Human Translation
Initiation Factor 4a-2
Length = 237
Score = 37.7 bits (86), Expect = 0.039, Method: Compositional matrix adjust.
Identities = 35/120 (29%), Positives = 56/120 (46%), Gaps = 15/120 (12%)
Query: 470 VLQLAPTGSGKTICAEFAILRNHQRASETGVMRAVYIAPIEALAKQ------RYCDWERK 523
V+ A +G+GKT A FAI Q E +A+ +AP LA+Q D+
Sbjct: 70 VIAQAQSGTGKT--ATFAISILQQLEIEFKETQALVLAPTRELAQQIQKVILALGDY--- 124
Query: 524 FGKELGMCVVELTVETAMDLKLLEKGQIIISTPEK-WDALSRRWKQRKYVQQVSLFIIDE 582
G C+ V M E I++ TP + +D L+RR+ K+++ +F++DE
Sbjct: 125 MGATCHACIGGTNVRNEMQKLQAEAPHIVVGTPGRVFDMLNRRYLSPKWIK---MFVLDE 181
>pdb|2G9N|A Chain A, Structure Of The Dead Domain Of Human Eukaryotic
Initiation Factor 4a, Eif4a
pdb|2G9N|B Chain B, Structure Of The Dead Domain Of Human Eukaryotic
Initiation Factor 4a, Eif4a
Length = 221
Score = 36.6 bits (83), Expect = 0.098, Method: Composition-based stats.
Identities = 36/135 (26%), Positives = 57/135 (42%), Gaps = 13/135 (9%)
Query: 455 PAKQRITAALPNIILVLQLAPTGSGKTICAEFAILRNHQRASETGVMRAVYIAPIEALAK 514
P+ + A LP I +A SG A FAI Q + +A+ +AP LA+
Sbjct: 38 PSAIQQRAILPCIXGYDVIAQAQSGTGXTATFAISILQQIELDLXATQALVLAPTRELAQ 97
Query: 515 Q------RYCDWERKFGKELGMCVVELTVETAMDLKLLEKGQIIISTPEK-WDALSRRWK 567
Q D+ G C+ V + +E II+ TP + +D L+RR+
Sbjct: 98 QIQXVVMALGDY---MGASCHACIGGTNVRAEVQXLQMEAPHIIVGTPGRVFDMLNRRYL 154
Query: 568 QRKYVQQVSLFIIDE 582
Y + +F++DE
Sbjct: 155 SPXY---IXMFVLDE 166
>pdb|1WRB|A Chain A, Crystal Structure Of The N-Terminal Reca-Like Domain Of
Djvlgb, A Pranarian Vasa-Like Rna Helicase
pdb|1WRB|B Chain B, Crystal Structure Of The N-Terminal Reca-Like Domain Of
Djvlgb, A Pranarian Vasa-Like Rna Helicase
Length = 253
Score = 34.7 bits (78), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 32/130 (24%), Positives = 59/130 (45%), Gaps = 14/130 (10%)
Query: 438 DNVLVAALSRKLMFARLPAKQRITAALPNIILVLQLAPTGSGKTICAEFAILR------- 490
+N+L+A+ R P ++ A+ ++ A TGSGKT I+
Sbjct: 36 NNILLASYQRPT-----PIQKNAIPAILEHRDIMACAQTGSGKTAAFLIPIINHLVCQDL 90
Query: 491 NHQRASETGVMRAVYIAPIEALAKQRYCDWER-KFGKELGMCVVELTVETAMDLKLLEKG 549
N QR S+T + + +AP LA Q + ++ L CVV +T ++ ++ G
Sbjct: 91 NQQRYSKTAYPKCLILAPTRELAIQILSESQKFSLNTPLRSCVVYGGADTHSQIREVQMG 150
Query: 550 -QIIISTPEK 558
++++TP +
Sbjct: 151 CHLLVATPGR 160
>pdb|3DKP|A Chain A, Human Dead-Box Rna-Helicase Ddx52, Conserved Domain I In
Complex With Adp
Length = 245
Score = 33.9 bits (76), Expect = 0.53, Method: Compositional matrix adjust.
Identities = 19/46 (41%), Positives = 26/46 (56%), Gaps = 1/46 (2%)
Query: 470 VLQLAPTGSGKTICAEFAILRNHQRASETGVMRAVYIAPIEALAKQ 515
+L APTGSGKT+ IL ++ + G RA+ I+P LA Q
Sbjct: 69 LLASAPTGSGKTLAFSIPILMQLKQPANKG-FRALIISPTRELASQ 113
>pdb|1GM5|A Chain A, Structure Of Recg Bound To Three-Way Dna Junction
Length = 780
Score = 33.9 bits (76), Expect = 0.57, Method: Compositional matrix adjust.
Identities = 36/118 (30%), Positives = 52/118 (44%), Gaps = 18/118 (15%)
Query: 476 TGSGKTICAEFAILRNHQRASETGVMRAVYIAPIEALAKQRY---CDWERKFGKELGMCV 532
GSGKT+ A+ AIL N++ +T M P LA Q Y + KF + + +
Sbjct: 398 VGSGKTVVAQLAILDNYEAGFQTAFM-----VPTSILAIQHYRRTVESFSKFNIHVALLI 452
Query: 533 VELTVETAMDLKL-LEKGQI--IISTPEKWDALSRRWKQRKYVQQVSLFIIDELHLIG 587
T +K L GQI +I T AL ++ + + + L IIDE H G
Sbjct: 453 GATTPSEKEKIKSGLRNGQIDVVIGT----HAL---IQEDVHFKNLGLVIIDEQHRFG 503
>pdb|3KEO|A Chain A, Crystal Structure Of A Rex-Family Transcriptional
Regulatory Protein From Streptococcus Agalactiae
Complexed With Nad+
pdb|3KEO|B Chain B, Crystal Structure Of A Rex-Family Transcriptional
Regulatory Protein From Streptococcus Agalactiae
Complexed With Nad+
pdb|3KEQ|A Chain A, Crystal Structure Of A Rex-Family Transcriptional
Regulatory Protein From Streptococcus Agalactiae
Complexed With Nad+
pdb|3KEQ|B Chain B, Crystal Structure Of A Rex-Family Transcriptional
Regulatory Protein From Streptococcus Agalactiae
Complexed With Nad+
pdb|3KET|A Chain A, Crystal Structure Of A Rex-Family Transcriptional
Regulatory Protein From Streptococcus Agalactiae Bound
To A Palindromic Operator
Length = 212
Score = 31.2 bits (69), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 29/103 (28%), Positives = 44/103 (42%), Gaps = 6/103 (5%)
Query: 562 LSRRWKQRKYVQQVSLFIIDELHLIGG---QGGPVLEVIVARMRYIASQVENKIRIVALS 618
L R+ R +Q F +D L+G G PV + I S +E I V S
Sbjct: 100 LHYRFHDRNKMQISMAFDLDSNDLVGKTTEDGIPVYGISTINDHLIDSDIETAILTVP-S 158
Query: 619 TSLANAKDLGEWIGASSHGVFNFPPGVRPVPLEIQIQGVDITN 661
T D+ + A G+ +F P +P +I +Q VD+T+
Sbjct: 159 TEAQEVADI--LVKAGIKGILSFSPVHLTLPKDIIVQYVDLTS 199
>pdb|2VPJ|A Chain A, Crystal Structure Of The Kelch Domain Of Human Klhl12
Length = 301
Score = 31.2 bits (69), Expect = 3.5, Method: Composition-based stats.
Identities = 28/94 (29%), Positives = 43/94 (45%), Gaps = 11/94 (11%)
Query: 550 QIIISTPEKWDALSRRW-------KQRKYVQQVSLFIIDELHLIGGQGGPVLEVIVARMR 602
Q I EK+D ++ W ++R+YV VSL D +++IGG G V +
Sbjct: 27 QSPIDVVEKYDPKTQEWSFLPSITRKRRYVASVSLH--DRIYVIGGYDGRSRLSSVECLD 84
Query: 603 YIASQ--VENKIRIVALSTSLANAKDLGEWIGAS 634
Y A + V + + + LA A LG+ I S
Sbjct: 85 YTADEDGVWYSVAPMNVRRGLAGATTLGDMIYVS 118
>pdb|2V1U|A Chain A, Structure Of The Aeropyrum Pernix Orc1 Protein In Complex
With Dna
Length = 387
Score = 30.4 bits (67), Expect = 7.1, Method: Composition-based stats.
Identities = 38/175 (21%), Positives = 79/175 (45%), Gaps = 26/175 (14%)
Query: 476 TGSGKTICAEFAILRNHQRASETGVMRAVYIAPIEALAKQRYCDWERKFGKELGMCVVEL 535
TG+GKT A + R RAS GV+ + PI A+ R + V
Sbjct: 53 TGTGKTAVARLVLRRLEARASSLGVL----VKPIYVNARHRETPYR-----------VAS 97
Query: 536 TVETAMDLKLLEKGQIIISTPEKWDALSRRWKQRKYVQQVSLFIIDELHLIGGQGGPVLE 595
+ A+ +++ G +S E ++ L +R + ++ + + ++DE+ + + G +
Sbjct: 98 AIAEAVGVRVPFTG---LSVGEVYERLVKRLSR---LRGIYIIVLDEIDFLPKRPGG--Q 149
Query: 596 VIVARMRYIASQVENK--IRIVALSTSLANAKDLGEWIGASSHGV-FNFPPGVRP 647
++ R+ I ++ ++ + +V ++ SL ++L + +S V FPP P
Sbjct: 150 DLLYRITRINQELGDRVWVSLVGITNSLGFVENLEPRVKSSLGEVELVFPPYTAP 204
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.320 0.135 0.397
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 35,705,104
Number of Sequences: 62578
Number of extensions: 1450928
Number of successful extensions: 3413
Number of sequences better than 100.0: 24
Number of HSP's better than 100.0 without gapping: 11
Number of HSP's successfully gapped in prelim test: 13
Number of HSP's that attempted gapping in prelim test: 3300
Number of HSP's gapped (non-prelim): 49
length of query: 1254
length of database: 14,973,337
effective HSP length: 110
effective length of query: 1144
effective length of database: 8,089,757
effective search space: 9254682008
effective search space used: 9254682008
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 57 (26.6 bits)