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= 043190
(1492 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4F91|B Chain B, Brr2 Helicase Region
Length = 1724
Score = 1349 bits (3492), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 661/1490 (44%), Positives = 987/1490 (66%), Gaps = 17/1490 (1%)
Query: 1 VESTQRMIRIVGLSATLPNYLEVAQFLRVNPEMGLFFFDSSYRPIPLAQQYIGISEPNFA 60
+E TQ +R++GLSATLPNY +VA FLRV+P GLF+FD+S+RP+PL Q Y+GI+E
Sbjct: 238 IEMTQEDVRLIGLSATLPNYEDVATFLRVDPAKGLFYFDNSFRPVPLEQTYVGITEKKAI 297
Query: 61 ARNELLSEICYKKVVDSLRQGHQAMVFVHSRKDTVKTAQKLVDLARRYEDLEVFNNDTHP 120
R ++++EI Y+K+++ + +Q +VFVHSRK+T KTA+ + D+ + L +F +
Sbjct: 298 KRFQIMNEIVYEKIMEHAGK-NQVLVFVHSRKETGKTARAIRDMCLEKDTLGLFLREGSA 356
Query: 121 QLSLIKKDVMKSRNKDLIELFGLAVGVHHAGMLRSDRGLTERLFSEGLLKVLVCTATLAW 180
+++ + + +N +L +L +HHAGM R DR L E LF++ ++VLV TATLAW
Sbjct: 357 STEVLRTEAEQCKNLELKDLLPYGFAIHHAGMTRVDRTLVEDLFADKHIQVLVSTATLAW 416
Query: 181 GVNLPAHTVVIKGTQLYDPKAGGWRDLGMLDIF---GRAGRPQFDRSGEGIIITSHDKLA 237
GVNLPAHTV+IKGTQ+Y P+ G W +LG LDI GRAGRPQ+D GEGI+ITSH +L
Sbjct: 417 GVNLPAHTVIIKGTQVYSPEKGRWTELGALDILQMLGRAGRPQYDTKGEGILITSHGELQ 476
Query: 238 YYLRLLTSQLPIESQFISSLKDNLNAEVALGTVTNVKEACAWLGYTYLSIRMKLNPLAYG 297
YYL LL QLPIESQ +S L D LNAE+ LG V N K+A WLGY YL IRM +P YG
Sbjct: 477 YYLSLLNQQLPIESQMVSKLPDMLNAEIVLGNVQNAKDAVNWLGYAYLYIRMLRSPTLYG 536
Query: 298 IGWDEVIADPSLSLKQRALVTDAARALDKAKMMRFDEKSGNFYCTELGRIASHFYIQYSS 357
I D++ DP L ++ LV AA LDK ++++D+K+GNF TELGRIASH+YI +
Sbjct: 537 ISHDDLKGDPLLDQRRLDLVHTAALMLDKNNLVKYDKKTGNFQVTELGRIASHYYITNDT 596
Query: 358 VETYNEMLRRHMNDSEVIEMVSHSSEFENIVVRDEEQNELETLVQTLCPVEVKGGPSNKH 417
V+TYN++L+ +++ E+ + S SSEF+NI VR+EE+ EL+ L++ + P+ VK
Sbjct: 597 VQTYNQLLKPTLSEIELFRVFSLSSEFKNITVREEEKLELQKLLERV-PIPVKESIEEPS 655
Query: 418 GKISILIQLYISRGWIDTFSLVSDAAYISASLARIMRALFETCLRRGWCEMSLFMLEYCK 477
KI++L+Q +IS+ ++ F+L++D Y++ S R+MRA+FE L RGW +++ L CK
Sbjct: 656 AKINVLLQAFISQLKLEGFALMADMVYVTQSAGRLMRAIFEIVLNRGWAQLTDKTLNLCK 715
Query: 478 AVDRQIWPHQHPLRQFDKELPAEILRKLEERGADLDRLQEMEEKDIGALIRYTPGGRLVK 537
+D+++W PLRQF K LP E+++K+E++ +RL ++ +IG LIR G+ +
Sbjct: 716 MIDKRMWQSMCPLRQFRK-LPEEVVKKIEKKNFPFERLYDLNHNEIGELIRMPKMGKTIH 774
Query: 538 QYLGYFPSIQLSATVSPITRTVLKIGLAITPEFTWKDHFHGAAQRWWIIVQDSESDHIYH 597
+Y+ FP ++LS + PITR+ LK+ L ITP+F W + HG+++ +WI+V+D +S+ I H
Sbjct: 775 KYVHLFPKLELSVHLQPITRSTLKVELTITPDFQWDEKVHGSSEAFWILVEDVDSEVILH 834
Query: 598 SELFTLTKRMARGETQKLSFTVPIFEPHPPQYYIRAVSDSWLHAEAFYCISFHNLALPQA 657
E F L + A+ E ++F VP+FEP PPQY+IR VSD WL E +SF +L LP+
Sbjct: 835 HEYFLLKAKYAQDE-HLITFFVPVFEPLPPQYFIRVVSDRWLSCETQLPVSFRHLILPEK 893
Query: 658 RTSHTELLDLKPLPVTALGNNIYEALY--NFSHFNPIQTQIFHILYHTDNNVLLGAPTGS 715
TELLDL+PLPV+AL N+ +E+LY F FNPIQTQ+F+ +Y++D+NV +GAPTGS
Sbjct: 894 YPPPTELLDLQPLPVSALRNSAFESLYQDKFPFFNPIQTQVFNTVYNSDDNVFVGAPTGS 953
Query: 716 GKTISAELAMLHLFNTQSDMKVVYIAPLKAIVRERMNDWKDRLVSQLGKEMVEMTGDYTP 775
GKTI AE A+L + S+ + VYI P++A+ + DW ++ +L K++V +TG+ +
Sbjct: 954 GKTICAEFAILRMLLQSSEGRCVYITPMEALAEQVYMDWYEKFQDRLNKKVVLLTGETST 1013
Query: 776 DLMALLSADIIISTPEKWDGISRNWHSRNYVKKVGLMILDEIHLLGAERGPILEVIVSRM 835
DL L +IIISTPEKWD +SR W R V+ + L ++DE+HL+G E GP+LEVI SRM
Sbjct: 1014 DLKLLGKGNIIISTPEKWDILSRRWKQRKNVQNINLFVVDEVHLIGGENGPVLEVICSRM 1073
Query: 836 RYISSQTERAVRFIGLSTALANAGDLADWLGVGEIGLFNFKPSVRPVPLEVHIQGYPGKF 895
RYISSQ ER +R + LS++L+NA D+A WLG FNF P+VRPVPLE+HIQG+
Sbjct: 1074 RYISSQIERPIRIVALSSSLSNAKDVAHWLGCSATSTFNFHPNVRPVPLELHIQGFNISH 1133
Query: 896 YCPRMNSMNKPAYAAICTHSPTKPVLIFVSSRRQTRLTALDLIQFAASDETPRQFLGMPE 955
R+ SM KP Y AI HSP KPV++FV SR+QTRLTA+D++ A+D ++FL E
Sbjct: 1134 TQTRLLSMAKPVYHAITKHSPKKPVIVFVPSRKQTRLTAIDILTTCAADIQRQRFLHCTE 1193
Query: 956 EDLQMVLSQVTDQNLRQTLQFGIGLHHAGLNDKDRSLVEELFANNKIQVLVCTSTLAWGV 1015
+DL L +++D L++TL G+G H GL+ +R LVE+LF++ IQV+V + +L WG+
Sbjct: 1194 KDLIPYLEKLSDSTLKETLLNGVGYLHEGLSPMERRLVEQLFSSGAIQVVVASRSLCWGM 1253
Query: 1016 NLPAHLVIIKGTEYYDGKTKRYVDFPITDILQMMGRAGRPQYDQHGKAVILVHEPKKSFY 1075
N+ AHLVII T+YY+GK YVD+PI D+LQM+G A RP D G+ VI+ KK F+
Sbjct: 1254 NVAAHLVIIMDTQYYNGKIHAYVDYPIYDVLQMVGHANRPLQDDEGRCVIMCQGSKKDFF 1313
Query: 1076 KKFLYEPFPVESSLRDQLHDHFNAEIVSGTIFHKEDAVHYLSWTYLFRRLAINPAYYGLE 1135
KKFLYEP PVES L +HDHFNAEIV+ TI +K+DAV YL+WT+L+RR+ NP YY L+
Sbjct: 1314 KKFLYEPLPVESHLDHCMHDHFNAEIVTKTIENKQDAVDYLTWTFLYRRMTQNPNYYNLQ 1373
Query: 1136 DTEAEGLSSYLSRLVQNTFEDLEDSGCVKMTEDT-VEPTMLGTIASQYYLSYVTVSMFGS 1194
LS +LS LV+ T DLE S C+ + ++ V P LG IA+ YY++Y T+ +F
Sbjct: 1374 GISHRHLSDHLSELVEQTLSDLEQSKCISIEDEMDVAPLNLGMIAAYYYINYTTIELFSM 1433
Query: 1195 NIGPDTSLEVFLHILSGASEYDELPVRHNEDNHNEALSQRVRFAVDNNRLDDPHVKANLL 1254
++ T + + I+S A+EY+ +P+RH+EDN L+Q+V ++N + +DPHVK NLL
Sbjct: 1434 SLNAKTKVRGLIEIISNAAEYENIPIRHHEDNLLRQLAQKVPHKLNNPKFNDPHVKTNLL 1493
Query: 1255 FQAHFSRLDLPISDYVTDLKSVLDQSIRIIQAMIDICANSGWLSSSITCMHLLQMVMQGL 1314
QAH SR+ L ++ +D + +L ++IR+IQA +D+ +++GWLS ++ M L QMV Q +
Sbjct: 1494 LQAHLSRMQLS-AELQSDTEEILSKAIRLIQACVDVLSSNGWLSPALAAMELAQMVTQAM 1552
Query: 1315 WFEQDSALWMFPCMNNDLLGTLRARGISTVQQLLDIPKE--NLQTVIGNFPVSRLHQDLQ 1372
W +DS L P ++ + +G+ +V ++++ E N + + ++ + +
Sbjct: 1553 W-SKDSYLKQLPHFTSEHIKRCTDKGVESVFDIMEMEDEERNALLQLTDSQIADVARFCN 1611
Query: 1373 RFPRIQVKLRLQRRD-IDGENSLTLNIRMDKMNSWKNTSRAFALRFPKIKDEAWWLVLGN 1431
R+P I++ + +D I + + +++++ + T A FP+ ++E WW+V+G+
Sbjct: 1612 RYPNIELSYEVVDKDSIRSGGPVVVLVQLEREE--EVTGPVIAPLFPQKREEGWWVVIGD 1669
Query: 1432 TNTSELYALKRISFSDRLNTHMELPSGITTFQGMKLVVVSDCYLGFEQEH 1481
++ L ++KR++ + ++ + T L +SD Y+G +QE+
Sbjct: 1670 AKSNSLISIKRLTLQQKAKVKLDFVAPATGAHNYTLYFMSDAYMGCDQEY 1719
Score = 399 bits (1025), Expect = e-111, Method: Compositional matrix adjust.
Identities = 256/755 (33%), Positives = 396/755 (52%), Gaps = 26/755 (3%)
Query: 670 LPVTALGNNIYEALYNFSHFNPIQTQIFHILYHTDNNVLLGAPTGSGKTISAELAMLHLF 729
LPV L F N IQ++++ TD N+LL APTG+GKT A + ML
Sbjct: 61 LPVEKLPKYAQAGFEGFKTLNRIQSKLYRAALETDENLLLCAPTGAGKTNVALMCMLREI 120
Query: 730 NTQ---------SDMKVVYIAPLKAIVRERMNDWKDRLVSQLGKEMVEMTGDYTPDLMAL 780
D K++YIAP++++V+E + + RL + G + E+TGD+ +
Sbjct: 121 GKHINMDGTINVDDFKIIYIAPMRSLVQEMVGSFGKRLAT-YGITVAELTGDHQLCKEEI 179
Query: 781 LSADIIISTPEKWDGISRNWHSRNYVKKVGLMILDEIHLLGAERGPILEVIVSRMRYISS 840
+ II+ TPEKWD I+R R Y + V L+ILDEIHLL +RGP+LE +V+R
Sbjct: 180 SATQIIVCTPEKWDIITRKGGERTYTQLVRLIILDEIHLLHDDRGPVLEALVARAIRNIE 239
Query: 841 QTERAVRFIGLSTALANAGDLADWLGVGEI-GLFNFKPSVRPVPLEVHIQGYPGKFYCPR 899
T+ VR IGLS L N D+A +L V GLF F S RPVPLE G K R
Sbjct: 240 MTQEDVRLIGLSATLPNYEDVATFLRVDPAKGLFYFDNSFRPVPLEQTYVGITEKKAIKR 299
Query: 900 MNSMNKPAYAAICTHSPTKPVLIFVSSRRQTRLTALDLIQFAASDETPRQFL---GMPEE 956
MN+ Y I H+ VL+FV SR++T TA + +T FL E
Sbjct: 300 FQIMNEIVYEKIMEHAGKNQVLVFVHSRKETGKTARAIRDMCLEKDTLGLFLREGSASTE 359
Query: 957 DLQMVLSQVTDQNLRQTLQFGIGLHHAGLNDKDRSLVEELFANNKIQVLVCTSTLAWGVN 1016
L+ Q + L+ L +G +HHAG+ DR+LVE+LFA+ IQVLV T+TLAWGVN
Sbjct: 360 VLRTEAEQCKNLELKDLLPYGFAIHHAGMTRVDRTLVEDLFADKHIQVLVSTATLAWGVN 419
Query: 1017 LPAHLVIIKGTEYYDGKTKRYVDFPITDILQMMGRAGRPQYDQHGKAVILVHEPKKSFYK 1076
LPAH VIIKGT+ Y + R+ + DILQM+GRAGRPQYD G+ +++ + +Y
Sbjct: 420 LPAHTVIIKGTQVYSPEKGRWTELGALDILQMLGRAGRPQYDTKGEGILITSHGELQYYL 479
Query: 1077 KFLYEPFPVESSLRDQLHDHFNAEIVSGTIFHKEDAVHYLSWTYLFRRLAINPAYYGLED 1136
L + P+ES + +L D NAEIV G + + +DAV++L + YL+ R+ +P YG+
Sbjct: 480 SLLNQQLPIESQMVSKLPDMLNAEIVLGNVQNAKDAVNWLGYAYLYIRMLRSPTLYGISH 539
Query: 1137 TEAEG---LSSYLSRLVQNTFEDLEDSGCVKMTEDT--VEPTMLGTIASQYYLSYVTVSM 1191
+ +G L LV L+ + VK + T + T LG IAS YY++ TV
Sbjct: 540 DDLKGDPLLDQRRLDLVHTAALMLDKNNLVKYDKKTGNFQVTELGRIASHYYITNDTVQT 599
Query: 1192 FGSNIGPDTSLEVFLHILSGASEYDELPVRHNEDNHNEALSQRVRFAVDNNRLDDPHVKA 1251
+ + P S + S +SE+ + VR E + L +RV V + +++P K
Sbjct: 600 YNQLLKPTLSEIELFRVFSLSSEFKNITVREEEKLELQKLLERVPIPVKES-IEEPSAKI 658
Query: 1252 NLLFQAHFSRLDLPISDYVTDLKSVLDQSIRIIQAMIDICANSGWLSSSITCMHLLQMVM 1311
N+L QA S+L L + D+ V + R+++A+ +I N GW + ++L +M+
Sbjct: 659 NVLLQAFISQLKLEGFALMADMVYVTQSAGRLMRAIFEIVLNRGWAQLTDKTLNLCKMID 718
Query: 1312 QGLWFEQDSALWMFPCMNNDLLGTLRARGISTVQQLLDIPKENLQTVIGNFPVSR-LHQD 1370
+ +W + L F + +++ + + ++L D+ + +I + + +H+
Sbjct: 719 KRMW-QSMCPLRQFRKLPEEVVKKIEKKNFP-FERLYDLNHNEIGELIRMPKMGKTIHKY 776
Query: 1371 LQRFPRIQVKLRLQ---RRDIDGENSLTLNIRMDK 1402
+ FP++++ + LQ R + E ++T + + D+
Sbjct: 777 VHLFPKLELSVHLQPITRSTLKVELTITPDFQWDE 811
>pdb|4F92|B Chain B, Brr2 Helicase Region S1087l
pdb|4F93|B Chain B, Brr2 Helicase Region S1087l, Mg-Atp
Length = 1724
Score = 1347 bits (3486), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 660/1490 (44%), Positives = 986/1490 (66%), Gaps = 17/1490 (1%)
Query: 1 VESTQRMIRIVGLSATLPNYLEVAQFLRVNPEMGLFFFDSSYRPIPLAQQYIGISEPNFA 60
+E TQ +R++GLSATLPNY +VA FLRV+P GLF+FD+S+RP+PL Q Y+GI+E
Sbjct: 238 IEMTQEDVRLIGLSATLPNYEDVATFLRVDPAKGLFYFDNSFRPVPLEQTYVGITEKKAI 297
Query: 61 ARNELLSEICYKKVVDSLRQGHQAMVFVHSRKDTVKTAQKLVDLARRYEDLEVFNNDTHP 120
R ++++EI Y+K+++ + +Q +VFVHSRK+T KTA+ + D+ + L +F +
Sbjct: 298 KRFQIMNEIVYEKIMEHAGK-NQVLVFVHSRKETGKTARAIRDMCLEKDTLGLFLREGSA 356
Query: 121 QLSLIKKDVMKSRNKDLIELFGLAVGVHHAGMLRSDRGLTERLFSEGLLKVLVCTATLAW 180
+++ + + +N +L +L +HHAGM R DR L E LF++ ++VLV TATLAW
Sbjct: 357 STEVLRTEAEQCKNLELKDLLPYGFAIHHAGMTRVDRTLVEDLFADKHIQVLVSTATLAW 416
Query: 181 GVNLPAHTVVIKGTQLYDPKAGGWRDLGMLDIF---GRAGRPQFDRSGEGIIITSHDKLA 237
GVNLPAHTV+IKGTQ+Y P+ G W +LG LDI GRAGRPQ+D GEGI+ITSH +L
Sbjct: 417 GVNLPAHTVIIKGTQVYSPEKGRWTELGALDILQMLGRAGRPQYDTKGEGILITSHGELQ 476
Query: 238 YYLRLLTSQLPIESQFISSLKDNLNAEVALGTVTNVKEACAWLGYTYLSIRMKLNPLAYG 297
YYL LL QLPIESQ +S L D LNAE+ LG V N K+A WLGY YL IRM +P YG
Sbjct: 477 YYLSLLNQQLPIESQMVSKLPDMLNAEIVLGNVQNAKDAVNWLGYAYLYIRMLRSPTLYG 536
Query: 298 IGWDEVIADPSLSLKQRALVTDAARALDKAKMMRFDEKSGNFYCTELGRIASHFYIQYSS 357
I D++ DP L ++ LV AA LDK ++++D+K+GNF TELGRIASH+YI +
Sbjct: 537 ISHDDLKGDPLLDQRRLDLVHTAALMLDKNNLVKYDKKTGNFQVTELGRIASHYYITNDT 596
Query: 358 VETYNEMLRRHMNDSEVIEMVSHSSEFENIVVRDEEQNELETLVQTLCPVEVKGGPSNKH 417
V+TYN++L+ +++ E+ + S SSEF+NI VR+EE+ EL+ L++ + P+ VK
Sbjct: 597 VQTYNQLLKPTLSEIELFRVFSLSSEFKNITVREEEKLELQKLLERV-PIPVKESIEEPS 655
Query: 418 GKISILIQLYISRGWIDTFSLVSDAAYISASLARIMRALFETCLRRGWCEMSLFMLEYCK 477
KI++L+Q +IS+ ++ F+L++D Y++ R+MRA+FE L RGW +++ L CK
Sbjct: 656 AKINVLLQAFISQLKLEGFALMADMVYVTQLAGRLMRAIFEIVLNRGWAQLTDKTLNLCK 715
Query: 478 AVDRQIWPHQHPLRQFDKELPAEILRKLEERGADLDRLQEMEEKDIGALIRYTPGGRLVK 537
+D+++W PLRQF K LP E+++K+E++ +RL ++ +IG LIR G+ +
Sbjct: 716 MIDKRMWQSMCPLRQFRK-LPEEVVKKIEKKNFPFERLYDLNHNEIGELIRMPKMGKTIH 774
Query: 538 QYLGYFPSIQLSATVSPITRTVLKIGLAITPEFTWKDHFHGAAQRWWIIVQDSESDHIYH 597
+Y+ FP ++LS + PITR+ LK+ L ITP+F W + HG+++ +WI+V+D +S+ I H
Sbjct: 775 KYVHLFPKLELSVHLQPITRSTLKVELTITPDFQWDEKVHGSSEAFWILVEDVDSEVILH 834
Query: 598 SELFTLTKRMARGETQKLSFTVPIFEPHPPQYYIRAVSDSWLHAEAFYCISFHNLALPQA 657
E F L + A+ E ++F VP+FEP PPQY+IR VSD WL E +SF +L LP+
Sbjct: 835 HEYFLLKAKYAQDE-HLITFFVPVFEPLPPQYFIRVVSDRWLSCETQLPVSFRHLILPEK 893
Query: 658 RTSHTELLDLKPLPVTALGNNIYEALY--NFSHFNPIQTQIFHILYHTDNNVLLGAPTGS 715
TELLDL+PLPV+AL N+ +E+LY F FNPIQTQ+F+ +Y++D+NV +GAPTGS
Sbjct: 894 YPPPTELLDLQPLPVSALRNSAFESLYQDKFPFFNPIQTQVFNTVYNSDDNVFVGAPTGS 953
Query: 716 GKTISAELAMLHLFNTQSDMKVVYIAPLKAIVRERMNDWKDRLVSQLGKEMVEMTGDYTP 775
GKTI AE A+L + S+ + VYI P++A+ + DW ++ +L K++V +TG+ +
Sbjct: 954 GKTICAEFAILRMLLQSSEGRCVYITPMEALAEQVYMDWYEKFQDRLNKKVVLLTGETST 1013
Query: 776 DLMALLSADIIISTPEKWDGISRNWHSRNYVKKVGLMILDEIHLLGAERGPILEVIVSRM 835
DL L +IIISTPEKWD +SR W R V+ + L ++DE+HL+G E GP+LEVI SRM
Sbjct: 1014 DLKLLGKGNIIISTPEKWDILSRRWKQRKNVQNINLFVVDEVHLIGGENGPVLEVICSRM 1073
Query: 836 RYISSQTERAVRFIGLSTALANAGDLADWLGVGEIGLFNFKPSVRPVPLEVHIQGYPGKF 895
RYISSQ ER +R + LS++L+NA D+A WLG FNF P+VRPVPLE+HIQG+
Sbjct: 1074 RYISSQIERPIRIVALSSSLSNAKDVAHWLGCSATSTFNFHPNVRPVPLELHIQGFNISH 1133
Query: 896 YCPRMNSMNKPAYAAICTHSPTKPVLIFVSSRRQTRLTALDLIQFAASDETPRQFLGMPE 955
R+ SM KP Y AI HSP KPV++FV SR+QTRLTA+D++ A+D ++FL E
Sbjct: 1134 TQTRLLSMAKPVYHAITKHSPKKPVIVFVPSRKQTRLTAIDILTTCAADIQRQRFLHCTE 1193
Query: 956 EDLQMVLSQVTDQNLRQTLQFGIGLHHAGLNDKDRSLVEELFANNKIQVLVCTSTLAWGV 1015
+DL L +++D L++TL G+G H GL+ +R LVE+LF++ IQV+V + +L WG+
Sbjct: 1194 KDLIPYLEKLSDSTLKETLLNGVGYLHEGLSPMERRLVEQLFSSGAIQVVVASRSLCWGM 1253
Query: 1016 NLPAHLVIIKGTEYYDGKTKRYVDFPITDILQMMGRAGRPQYDQHGKAVILVHEPKKSFY 1075
N+ AHLVII T+YY+GK YVD+PI D+LQM+G A RP D G+ VI+ KK F+
Sbjct: 1254 NVAAHLVIIMDTQYYNGKIHAYVDYPIYDVLQMVGHANRPLQDDEGRCVIMCQGSKKDFF 1313
Query: 1076 KKFLYEPFPVESSLRDQLHDHFNAEIVSGTIFHKEDAVHYLSWTYLFRRLAINPAYYGLE 1135
KKFLYEP PVES L +HDHFNAEIV+ TI +K+DAV YL+WT+L+RR+ NP YY L+
Sbjct: 1314 KKFLYEPLPVESHLDHCMHDHFNAEIVTKTIENKQDAVDYLTWTFLYRRMTQNPNYYNLQ 1373
Query: 1136 DTEAEGLSSYLSRLVQNTFEDLEDSGCVKMTEDT-VEPTMLGTIASQYYLSYVTVSMFGS 1194
LS +LS LV+ T DLE S C+ + ++ V P LG IA+ YY++Y T+ +F
Sbjct: 1374 GISHRHLSDHLSELVEQTLSDLEQSKCISIEDEMDVAPLNLGMIAAYYYINYTTIELFSM 1433
Query: 1195 NIGPDTSLEVFLHILSGASEYDELPVRHNEDNHNEALSQRVRFAVDNNRLDDPHVKANLL 1254
++ T + + I+S A+EY+ +P+RH+EDN L+Q+V ++N + +DPHVK NLL
Sbjct: 1434 SLNAKTKVRGLIEIISNAAEYENIPIRHHEDNLLRQLAQKVPHKLNNPKFNDPHVKTNLL 1493
Query: 1255 FQAHFSRLDLPISDYVTDLKSVLDQSIRIIQAMIDICANSGWLSSSITCMHLLQMVMQGL 1314
QAH SR+ L ++ +D + +L ++IR+IQA +D+ +++GWLS ++ M L QMV Q +
Sbjct: 1494 LQAHLSRMQLS-AELQSDTEEILSKAIRLIQACVDVLSSNGWLSPALAAMELAQMVTQAM 1552
Query: 1315 WFEQDSALWMFPCMNNDLLGTLRARGISTVQQLLDIPKE--NLQTVIGNFPVSRLHQDLQ 1372
W +DS L P ++ + +G+ +V ++++ E N + + ++ + +
Sbjct: 1553 W-SKDSYLKQLPHFTSEHIKRCTDKGVESVFDIMEMEDEERNALLQLTDSQIADVARFCN 1611
Query: 1373 RFPRIQVKLRLQRRD-IDGENSLTLNIRMDKMNSWKNTSRAFALRFPKIKDEAWWLVLGN 1431
R+P I++ + +D I + + +++++ + T A FP+ ++E WW+V+G+
Sbjct: 1612 RYPNIELSYEVVDKDSIRSGGPVVVLVQLEREE--EVTGPVIAPLFPQKREEGWWVVIGD 1669
Query: 1432 TNTSELYALKRISFSDRLNTHMELPSGITTFQGMKLVVVSDCYLGFEQEH 1481
++ L ++KR++ + ++ + T L +SD Y+G +QE+
Sbjct: 1670 AKSNSLISIKRLTLQQKAKVKLDFVAPATGAHNYTLYFMSDAYMGCDQEY 1719
Score = 398 bits (1023), Expect = e-110, Method: Compositional matrix adjust.
Identities = 256/755 (33%), Positives = 396/755 (52%), Gaps = 26/755 (3%)
Query: 670 LPVTALGNNIYEALYNFSHFNPIQTQIFHILYHTDNNVLLGAPTGSGKTISAELAMLHLF 729
LPV L F N IQ++++ TD N+LL APTG+GKT A + ML
Sbjct: 61 LPVEKLPKYAQAGFEGFKTLNRIQSKLYRAALETDENLLLCAPTGAGKTNVALMCMLREI 120
Query: 730 NTQ---------SDMKVVYIAPLKAIVRERMNDWKDRLVSQLGKEMVEMTGDYTPDLMAL 780
D K++YIAP++++V+E + + RL + G + E+TGD+ +
Sbjct: 121 GKHINMDGTINVDDFKIIYIAPMRSLVQEMVGSFGKRLAT-YGITVAELTGDHQLCKEEI 179
Query: 781 LSADIIISTPEKWDGISRNWHSRNYVKKVGLMILDEIHLLGAERGPILEVIVSRMRYISS 840
+ II+ TPEKWD I+R R Y + V L+ILDEIHLL +RGP+LE +V+R
Sbjct: 180 SATQIIVCTPEKWDIITRKGGERTYTQLVRLIILDEIHLLHDDRGPVLEALVARAIRNIE 239
Query: 841 QTERAVRFIGLSTALANAGDLADWLGVGEI-GLFNFKPSVRPVPLEVHIQGYPGKFYCPR 899
T+ VR IGLS L N D+A +L V GLF F S RPVPLE G K R
Sbjct: 240 MTQEDVRLIGLSATLPNYEDVATFLRVDPAKGLFYFDNSFRPVPLEQTYVGITEKKAIKR 299
Query: 900 MNSMNKPAYAAICTHSPTKPVLIFVSSRRQTRLTALDLIQFAASDETPRQFL---GMPEE 956
MN+ Y I H+ VL+FV SR++T TA + +T FL E
Sbjct: 300 FQIMNEIVYEKIMEHAGKNQVLVFVHSRKETGKTARAIRDMCLEKDTLGLFLREGSASTE 359
Query: 957 DLQMVLSQVTDQNLRQTLQFGIGLHHAGLNDKDRSLVEELFANNKIQVLVCTSTLAWGVN 1016
L+ Q + L+ L +G +HHAG+ DR+LVE+LFA+ IQVLV T+TLAWGVN
Sbjct: 360 VLRTEAEQCKNLELKDLLPYGFAIHHAGMTRVDRTLVEDLFADKHIQVLVSTATLAWGVN 419
Query: 1017 LPAHLVIIKGTEYYDGKTKRYVDFPITDILQMMGRAGRPQYDQHGKAVILVHEPKKSFYK 1076
LPAH VIIKGT+ Y + R+ + DILQM+GRAGRPQYD G+ +++ + +Y
Sbjct: 420 LPAHTVIIKGTQVYSPEKGRWTELGALDILQMLGRAGRPQYDTKGEGILITSHGELQYYL 479
Query: 1077 KFLYEPFPVESSLRDQLHDHFNAEIVSGTIFHKEDAVHYLSWTYLFRRLAINPAYYGLED 1136
L + P+ES + +L D NAEIV G + + +DAV++L + YL+ R+ +P YG+
Sbjct: 480 SLLNQQLPIESQMVSKLPDMLNAEIVLGNVQNAKDAVNWLGYAYLYIRMLRSPTLYGISH 539
Query: 1137 TEAEG---LSSYLSRLVQNTFEDLEDSGCVKMTEDT--VEPTMLGTIASQYYLSYVTVSM 1191
+ +G L LV L+ + VK + T + T LG IAS YY++ TV
Sbjct: 540 DDLKGDPLLDQRRLDLVHTAALMLDKNNLVKYDKKTGNFQVTELGRIASHYYITNDTVQT 599
Query: 1192 FGSNIGPDTSLEVFLHILSGASEYDELPVRHNEDNHNEALSQRVRFAVDNNRLDDPHVKA 1251
+ + P S + S +SE+ + VR E + L +RV V + +++P K
Sbjct: 600 YNQLLKPTLSEIELFRVFSLSSEFKNITVREEEKLELQKLLERVPIPVKES-IEEPSAKI 658
Query: 1252 NLLFQAHFSRLDLPISDYVTDLKSVLDQSIRIIQAMIDICANSGWLSSSITCMHLLQMVM 1311
N+L QA S+L L + D+ V + R+++A+ +I N GW + ++L +M+
Sbjct: 659 NVLLQAFISQLKLEGFALMADMVYVTQLAGRLMRAIFEIVLNRGWAQLTDKTLNLCKMID 718
Query: 1312 QGLWFEQDSALWMFPCMNNDLLGTLRARGISTVQQLLDIPKENLQTVIGNFPVSR-LHQD 1370
+ +W + L F + +++ + + ++L D+ + +I + + +H+
Sbjct: 719 KRMW-QSMCPLRQFRKLPEEVVKKIEKKNFP-FERLYDLNHNEIGELIRMPKMGKTIHKY 776
Query: 1371 LQRFPRIQVKLRLQ---RRDIDGENSLTLNIRMDK 1402
+ FP++++ + LQ R + E ++T + + D+
Sbjct: 777 VHLFPKLELSVHLQPITRSTLKVELTITPDFQWDE 811
>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 = 197 bits (502), Expect = 3e-50, Method: Compositional matrix adjust.
Identities = 168/521 (32%), Positives = 258/521 (49%), Gaps = 62/521 (11%)
Query: 689 FNPIQTQIFHILYHTDNNVLLGAPTGSGKTISAELAMLHLFNTQSDMKVVYIAPLKAIVR 748
F P Q + N L+ PT SGKT+ AE+AM+H TQ K VYI PLKA+
Sbjct: 24 FYPPQAEALKSGILEGKNALISIPTASGKTLIAEIAMVHRILTQGG-KAVYIVPLKALAE 82
Query: 749 ERMNDWKDRLVSQLGKEMVEMTGDYTPDLMALLSADIIISTPEKWDGISRNWHSRNYVKK 808
E+ +++D ++G + TGDY L DIII+T EK+D + R H +++K
Sbjct: 83 EKFQEFQD--WEKIGLRVAMATGDYDSKDEWLGKYDIIIATAEKFDSLLR--HGSSWIKD 138
Query: 809 VGLMILDEIHLLGA-ERGPILEVIVSRMRYISSQTERAVRFIGLSTALANAGDLADWLGV 867
V +++ DEIHL+G+ +RG LEVI++ M + IGLS + N +LA+WL
Sbjct: 139 VKILVADEIHLIGSRDRGATLEVILAHML-------GKAQIIGLSATIGNPEELAEWLN- 190
Query: 868 GEIGLFNFKPSVRPVPLE--VHIQGYPG--KFYCPRMNSMNKPAYAAICTHSPTKPVLIF 923
E+ + ++ RPV L V QG+ R +S + Y AI K LIF
Sbjct: 191 AELIVSDW----RPVKLRRGVFYQGFVTWEDGSIDRFSSWEELVYDAI---RKKKGALIF 243
Query: 924 VSSRRQTRLTALDLIQFAASDETPRQFLGMPE--EDLQMVLSQVTDQNLRQTLQFGIGLH 981
V+ RR+ AL+L + S T + + E + L+ T++ L + ++ G+ H
Sbjct: 244 VNMRRKAERVALELSKKVKSLLTKPEIRALNELADSLE---ENPTNEKLAKAIRGGVAFH 300
Query: 982 HAGLNDKDRSLVEELFANNKIQVLVCTSTLAWGVNLPAHLVIIKGTEYYDGKTKRYVDF- 1040
HAGL +R LVEE F I+ +V T TL+ G+N PA VII+ RY DF
Sbjct: 301 HAGLGRDERVLVEENFRKGIIKAVVATPTLSAGINTPAFRVIIR-------DIWRYSDFG 353
Query: 1041 ----PITDILQMMGRAGRPQYDQHGKAVIL--VHEPKKSFYKKFLYEPFPVESSLRDQ-- 1092
PI ++ QM+GRAGRP+YD+ G+ +I+ +P++ +P + S L ++
Sbjct: 354 MERIPIIEVHQMLGRAGRPKYDEVGEGIIVSTSDDPREVMNHYIFGKPEKLFSQLSNESN 413
Query: 1093 LHDHFNAEIVSGTIFHKEDAVHYLSWT-YLFRRLAINPAYYGLEDTEAEGLSSYLSRLVQ 1151
L A I + E+ + ++S T Y ++R Y LE E + + L L++
Sbjct: 414 LRSQVLALIATFGYSTVEEILKFISNTFYAYQR----KDTYSLE----EKIRNILYFLLE 465
Query: 1152 NTFEDLEDSGCVKMTEDTVEPTMLGTIASQYYLSYVTVSMF 1192
N F ++ ED + P LG ++ Y+ T MF
Sbjct: 466 NEFIEIS-------LEDKIRPLSLGIRTAKLYIDPYTAKMF 499
Score = 97.8 bits (242), Expect = 4e-20, Method: Compositional matrix adjust.
Identities = 91/310 (29%), Positives = 155/310 (50%), Gaps = 61/310 (19%)
Query: 9 RIVGLSATLPNYLEVAQFLRVNPEMGLFFFDSSYRPIPLAQQ--YIGI------SEPNFA 60
+I+GLSAT+ N E+A++L N E+ + S +RP+ L + Y G S F+
Sbjct: 171 QIIGLSATIGNPEELAEWL--NAELIV----SDWRPVKLRRGVFYQGFVTWEDGSIDRFS 224
Query: 61 ARNELLSEICYKKVVDSLRQGHQAMVFVHSRKDTVKTAQKLVDLARRYEDLEVFNNDTHP 120
+ EL V D++R+ A++FV+ R+ + A ++L+++ + L T P
Sbjct: 225 SWEEL--------VYDAIRKKKGALIFVNMRRKAERVA---LELSKKVKSLL-----TKP 268
Query: 121 QLSLIKK--DVMKSR--NKDLIELFGLAVGVHHAGMLRSDRGLTERLFSEGLLKVLVCTA 176
++ + + D ++ N+ L + V HHAG+ R +R L E F +G++K +V T
Sbjct: 269 EIRALNELADSLEENPTNEKLAKAIRGGVAFHHAGLGRDERVLVEENFRKGIIKAVVATP 328
Query: 177 TLAWGVNLPAHTVVIKGTQLYDPKAGGWRDLGMLDI--------FGRAGRPQFDRSGEGI 228
TL+ G+N PA V+I+ Y D GM I GRAGRP++D GEGI
Sbjct: 329 TLSAGINTPAFRVIIRDIWRYS-------DFGMERIPIIEVHQMLGRAGRPKYDEVGEGI 381
Query: 229 IITSHDK----LAYYL----RLLTSQLPIESQFISSLKDNLNAEVALGTVTNVKEACAWL 280
I+++ D + +Y+ L SQL E S+L+ + A +A + V+E ++
Sbjct: 382 IVSTSDDPREVMNHYIFGKPEKLFSQLSNE----SNLRSQVLALIATFGYSTVEEILKFI 437
Query: 281 GYTYLSIRMK 290
T+ + + K
Sbjct: 438 SNTFYAYQRK 447
>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 = 197 bits (501), Expect = 4e-50, Method: Compositional matrix adjust.
Identities = 166/556 (29%), Positives = 274/556 (49%), Gaps = 76/556 (13%)
Query: 691 PIQTQIFHILYHTDNNVLLGAPTGSGKTISAELAMLHLFNTQSDMKVVYIAPLKAIVRER 750
P Q + ++ + N+LL PT +GKT+ AE+AM+ K +Y+ PL+A+ E+
Sbjct: 28 PPQAEAVEKVF-SGKNLLLAMPTAAGKTLLAEMAMVR--EAIKGGKSLYVVPLRALAGEK 84
Query: 751 MNDWKDRLVSQLGKEMVEMTGDYTPDLMALLSADIIISTPEKWDGISRNWHSRNYVKKVG 810
+K ++G + TGDY L DII++T EK D + RN S ++K V
Sbjct: 85 YESFKK--WEKIGLRIGISTGDYESRDEHLGDCDIIVTTSEKADSLIRNRAS--WIKAVS 140
Query: 811 LMILDEIHLLGAE-RGPILEVIVSRMRYISSQTERAVRFIGLSTALANAGDLADWLGVGE 869
+++DEIHLL +E RG LE++V++MR ++ +A+R IGLS N ++A+WL
Sbjct: 141 CLVVDEIHLLDSEKRGATLEILVTKMRRMN----KALRVIGLSATAPNVTEIAEWLDAD- 195
Query: 870 IGLFNFKPSVRPVPL------EVHIQGYPGKFYCPRMNSMNKPAYAAICTHSPTKPVLIF 923
+ RPVPL E ++ + G F R + + + VL+F
Sbjct: 196 ----YYVSDWRPVPLVEGVLCEGTLELFDGAFSTSRRVKFEELVEECVAENGG---VLVF 248
Query: 924 VSSRRQTRLTALDLIQFAAS---DETPRQFLGMPEEDLQMVLSQVTDQNLRQTLQFGIGL 980
S+RR TA+ L A +E + + + E + +M + L + ++ G
Sbjct: 249 ESTRRGAEKTAVKLSAITAKYVENEGLEKAI-LEENEGEM------SRKLAECVRKGAAF 301
Query: 981 HHAGLNDKDRSLVEELFANNKIQVLVCTSTLAWGVNLPAHLVIIKGTEYYDGKTKRYVDF 1040
HHAGL + R +VE+ F I+V+V T TLA GVNLPA VI++ +DG +KR
Sbjct: 302 HHAGLLNGQRRVVEDAFRRGNIKVVVATPTLAAGVNLPARRVIVRSLYRFDGYSKR---I 358
Query: 1041 PITDILQMMGRAGRPQYDQHGKAVILVHEPKKSF-YKKFLY-EPFPVESSLRDQLHDHFN 1098
+++ QM GRAGRP D+ G+A+I+V + + K++++ EP + S L + H F+
Sbjct: 359 KVSEYKQMAGRAGRPGMDERGEAIIIVGKRDREIAVKRYIFGEPERITSKLGVETHLRFH 418
Query: 1099 AE--IVSGTIFHKEDAVHYLSWTYLFRRLAINPAYYGLEDTEAEGLSSYLSRLVQNTFED 1156
+ I G E+ + + T+ F++ I+ LS L R+V+
Sbjct: 419 SLSIICDGYAKTLEELEDFFADTFFFKQNEIS-------------LSYELERVVRQ---- 461
Query: 1157 LEDSGCVKMTEDTVEPTMLGTIASQYYLSYVTVSMFG--------SNIGPDTSLEVFLHI 1208
LE+ G V + + PT LG++ S+ Y+ +T +F S+IG LH+
Sbjct: 462 LENWGMV-VEAAHLAPTKLGSLVSRLYIDPLTGFIFHDVLSRMELSDIGA-------LHL 513
Query: 1209 LSGASEYDELPVRHNE 1224
+ + + L VR +
Sbjct: 514 ICRTPDMERLTVRKTD 529
Score = 99.8 bits (247), Expect = 1e-20, Method: Compositional matrix adjust.
Identities = 72/237 (30%), Positives = 110/237 (46%), Gaps = 29/237 (12%)
Query: 5 QRMIRIVGLSATLPNYLEVAQFLRVNPEMGLFFFDSSYRPIPLAQQYI---------GIS 55
+ +R++GLSAT PN E+A++L + ++ S +RP+PL + + G
Sbjct: 170 NKALRVIGLSATAPNVTEIAEWLDAD------YYVSDWRPVPLVEGVLCEGTLELFDGAF 223
Query: 56 EPNFAARNELLSEICYKKVVDSLRQGHQAMVFVHSRKDTVKTAQKLVDLARRYEDLEVFN 115
+ + E L E C + + +VF +R+ KTA KL + +Y
Sbjct: 224 STSRRVKFEELVEEC-------VAENGGVLVFESTRRGAEKTAVKLSAITAKY-----VE 271
Query: 116 NDTHPQLSLIKKDVMKSRNKDLIELFGLAVGVHHAGMLRSDRGLTERLFSEGLLKVLVCT 175
N+ + L + + SR L E HHAG+L R + E F G +KV+V T
Sbjct: 272 NEGLEKAILEENEGEMSRK--LAECVRKGAAFHHAGLLNGQRRVVEDAFRRGNIKVVVAT 329
Query: 176 ATLAWGVNLPAHTVVIKGTQLYDPKAGGWRDLGMLDIFGRAGRPQFDRSGEGIIITS 232
TLA GVNLPA V+++ +D + + + GRAGRP D GE III
Sbjct: 330 PTLAAGVNLPARRVIVRSLYRFDGYSKRIKVSEYKQMAGRAGRPGMDERGEAIIIVG 386
>pdb|2VA8|A Chain A, Dna Repair Helicase Hel308
pdb|2VA8|B Chain B, Dna Repair Helicase Hel308
Length = 715
Score = 187 bits (476), Expect = 3e-47, Method: Compositional matrix adjust.
Identities = 149/456 (32%), Positives = 227/456 (49%), Gaps = 61/456 (13%)
Query: 665 LDLKPLPVTALGNNIYEALYN--FSHFNPIQTQIFHILYHTDNNVLLGAPTGSGKTISAE 722
L+ P+ L +N+ E + NP QT+ N +LL +PTGSGKT+ AE
Sbjct: 5 LEWMPIEDLKLPSNVIEIIKKRGIKKLNPPQTEAVKKGLLEGNRLLLTSPTGSGKTLIAE 64
Query: 723 LAMLHLFNTQSDMKVVYIAPLKAIVRERMNDWKDRLVSQLGKEMVEMTGDYTPDLMALLS 782
+ ++ F ++ K +Y+ PL+A+ E+ +KD +G ++ +GDY D L +
Sbjct: 65 MGIIS-FLLKNGGKAIYVTPLRALTNEKYLTFKD--WELIGFKVAMTSGDYDTDDAWLKN 121
Query: 783 ADIIISTPEKWDGISRNWHSRNYVKKVGLMILDEIHLLG-AERGPILEVIVSRMRYISSQ 841
DIII+T EK D + R H ++ +V +LDE+H L ERGP++E S
Sbjct: 122 YDIIITTYEKLDSLWR--HRPEWLNEVNYFVLDELHYLNDPERGPVVE----------SV 169
Query: 842 TERAVR--FIGLSTALANAGDLADWLGVGEIGLFNFKPSVRPVPLEVHIQG--YPGK--- 894
T RA R + LS ++N +A WLG + + RPVPL I+G YP +
Sbjct: 170 TIRAKRRNLLALSATISNYKQIAKWLGAEPVA-----TNWRPVPL---IEGVIYPERKKK 221
Query: 895 -FYCPRMNSMNKPAYA--AICTH-----SPTKPVLIFVSSRRQTRLTALDLIQFAASDET 946
+ ++ K + AI + S VL+F +SR+ TAL + +
Sbjct: 222 EYNVIFKDNTTKKVHGDDAIIAYTLDSLSKNGQVLVFRNSRKMAESTALKIANYM----- 276
Query: 947 PRQFLGMPEEDLQMVLSQVTD---------QNLRQTLQFGIGLHHAGLNDKDRSLVEELF 997
F+ + E L +L Q+ D + L+ + G+ HHAGL+ R L+EE F
Sbjct: 277 --NFVSLDENALSEILKQLDDIEEGGSDEKELLKSLISKGVAYHHAGLSKALRDLIEEGF 334
Query: 998 ANNKIQVLVCTSTLAWGVNLPAHLVIIKGTEYYDGKTKRYVD-FPITDILQMMGRAGRPQ 1056
KI+V+V T TLA GVNLPA VII ++ K Y D PI + QM GRAGRP
Sbjct: 335 RQRKIKVIVATPTLAAGVNLPARTVIIGDIYRFNKKIAGYYDEIPIMEYKQMSGRAGRPG 394
Query: 1057 YDQHGKAVILVHEPK---KSFYKKFLYEPFPVESSL 1089
+DQ G+++++V + + + F K L + P+ES L
Sbjct: 395 FDQIGESIVVVRDKEDVDRVFKKYVLSDVEPIESKL 430
Score = 103 bits (256), Expect = 1e-21, Method: Compositional matrix adjust.
Identities = 84/264 (31%), Positives = 131/264 (49%), Gaps = 27/264 (10%)
Query: 10 IVGLSATLPNYLEVAQFLRVNPEMGLFFFDSSYRPIPLAQQYIGISEPNFAARNELLSEI 69
++ LSAT+ NY ++A++L P +++RP+PL + I E N + +
Sbjct: 178 LLALSATISNYKQIAKWLGAEP------VATNWRPVPLIEGVI-YPERKKKEYNVIFKDN 230
Query: 70 CYKKV----------VDSLRQGHQAMVFVHSRKDTVKTAQKLVDLARRYEDLEVFNNDTH 119
KKV +DSL + Q +VF +SRK TA K+ + E ++
Sbjct: 231 TTKKVHGDDAIIAYTLDSLSKNGQVLVFRNSRKMAESTALKIANYMNFVSLDENALSEIL 290
Query: 120 PQLSLIKKDVMKSRNKDLIE-LFGLAVGVHHAGMLRSDRGLTERLFSEGLLKVLVCTATL 178
QL I++ S K+L++ L V HHAG+ ++ R L E F + +KV+V T TL
Sbjct: 291 KQLDDIEEG--GSDEKELLKSLISKGVAYHHAGLSKALRDLIEEGFRQRKIKVIVATPTL 348
Query: 179 AWGVNLPAHTVVIKGTQLYDPKAGGWRD----LGMLDIFGRAGRPQFDRSGEGIIITSHD 234
A GVNLPA TV+I ++ K G+ D + + GRAGRP FD+ GE I++
Sbjct: 349 AAGVNLPARTVIIGDIYRFNKKIAGYYDEIPIMEYKQMSGRAGRPGFDQIGESIVVVRDK 408
Query: 235 K---LAYYLRLLTSQLPIESQFIS 255
+ + +L+ PIES+ S
Sbjct: 409 EDVDRVFKKYVLSDVEPIESKLGS 432
>pdb|2Q0Z|X Chain X, Crystal Structure Of Q9p172SEC63 FROM HOMO SAPIENS.
Northeast Structural Genomics Target Hr1979
Length = 339
Score = 166 bits (419), Expect = 1e-40, Method: Compositional matrix adjust.
Identities = 93/327 (28%), Positives = 177/327 (54%), Gaps = 13/327 (3%)
Query: 1170 VEPTMLGTIASQYYLSYVTVSMFGSNIGPDTSLEVFLHILSGASEYDELPVRHNEDNHNE 1229
V P LG IA+ YY++Y T+ +F ++ T + + I+S A+EY+ +P+RH+EDN
Sbjct: 13 VAPLNLGXIAAYYYINYTTIELFSXSLNAKTKVRGLIEIISNAAEYENIPIRHHEDNLLR 72
Query: 1230 ALSQRVRFAVDNNRLDDPHVKANLLFQAHFSRLDLPISDYVTDLKSVLDQSIRIIQAMID 1289
L+Q+V ++N + +DPHVK NLL QAH SR L ++ +D + +L ++IR+IQA +D
Sbjct: 73 QLAQKVPHKLNNPKFNDPHVKTNLLLQAHLSRXQLS-AELQSDTEEILSKAIRLIQACVD 131
Query: 1290 ICANSGWLSSSITCMHLLQMVMQGLWFEQDSALWMFPCMNNDLLGTLRARGISTVQQLLD 1349
+ +++GWLS ++ L Q V Q W +DS L P ++ + +G+ +V D
Sbjct: 132 VLSSNGWLSPALAAXELAQXVTQAXW-SKDSYLKQLPHFTSEHIKRCTDKGVESV---FD 187
Query: 1350 I-----PKENLQTVIGNFPVSRLHQDLQRFPRIQVKLRLQRRD-IDGENSLTLNIRMDKM 1403
I + N + + ++ + + R+P I++ + +D I + + +++++
Sbjct: 188 IXEXEDEERNALLQLTDSQIADVARFCNRYPNIELSYEVVDKDSIRSGGPVVVLVQLERE 247
Query: 1404 NSWKNTSRAFALRFPKIKDEAWWLVLGNTNTSELYALKRISFSDRLNTHMELPSGITTFQ 1463
+ T A FP+ ++E WW+V+G+ ++ L ++KR++ + ++ + T
Sbjct: 248 E--EVTGPVIAPLFPQKREEGWWVVIGDAKSNSLISIKRLTLQQKAKVKLDFVAPATGAH 305
Query: 1464 GMKLVVVSDCYLGFEQEHSIEALVEQS 1490
L SD Y G +QE+ V+++
Sbjct: 306 NYTLYFXSDAYXGCDQEYKFSVDVKEA 332
Score = 79.3 bits (194), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 80/323 (24%), Positives = 150/323 (46%), Gaps = 32/323 (9%)
Query: 344 LGRIASHFYIQYSSVETYNEMLRRHMNDSEVIEMVSHSSEFENIVVRDEEQNELETLVQT 403
LG IA+++YI Y+++E ++ L +IE++S+++E+ENI +R E N L L Q
Sbjct: 18 LGXIAAYYYINYTTIELFSXSLNAKTKVRGLIEIISNAAEYENIPIRHHEDNLLRQLAQK 77
Query: 404 LCPVEVKGGPSNK-HGKISILIQLYISRGWIDTFSLVSDAAYISASLARIMRALFETCLR 462
+ P ++ N H K ++L+Q ++SR + + L SD I + R+++A +
Sbjct: 78 V-PHKLNNPKFNDPHVKTNLLLQAHLSRXQL-SAELQSDTEEILSKAIRLIQACVDVLSS 135
Query: 463 RGWCEMSLFMLEYCKAVDRQIWPHQHPLRQFDKELPAEILRKLEERGAD-LDRLQEMEEK 521
GW +L E + V + W L+Q +E +++ ++G + + + E E++
Sbjct: 136 NGWLSPALAAXELAQXVTQAXWSKDSYLKQL-PHFTSEHIKRCTDKGVESVFDIXEXEDE 194
Query: 522 DIGALIRYTPGGRL-VKQYLGYFPSIQLSATV---------SPIT------RTVLKIGLA 565
+ AL++ T V ++ +P+I+LS V P+ R G
Sbjct: 195 ERNALLQLTDSQIADVARFCNRYPNIELSYEVVDKDSIRSGGPVVVLVQLEREEEVTGPV 254
Query: 566 ITPEFTWKDHFHGAAQRWWIIVQDSESDHIYHSELFTLTKRMARGETQKLSFTVPIFEPH 625
I P F K + WW+++ D++S+ + + TL ++ KL F P H
Sbjct: 255 IAPLFPQKRE-----EGWWVVIGDAKSNSLISIKRLTLQQKA----KVKLDFVAPATGAH 305
Query: 626 PPQYYIRAVSDSWLHAEAFYCIS 648
Y + SD++ + Y S
Sbjct: 306 --NYTLYFXSDAYXGCDQEYKFS 326
>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 = 130 bits (328), Expect = 4e-30, Method: Compositional matrix adjust.
Identities = 91/318 (28%), Positives = 174/318 (54%), Gaps = 17/318 (5%)
Query: 1176 GTIASQYYLSYVTVSMFGSNIGPDTSLEVFLHILSGASEYDELPVRHNEDNHNEALSQR- 1234
G IAS Y +S+ T+ F S++ ++L+ L++LS A E++ +P+R + LS+R
Sbjct: 15 GLIASHYGVSFFTIQSFVSSLSNTSTLKNMLYVLSTAVEFESVPLRKGDRALLVKLSKRL 74
Query: 1235 -VRFAVDNNRLDDPHVKANLLFQAHFSRLDLPISDYVTDLKSVLDQSIRIIQAMIDICAN 1293
+RF ++ K LL QA+FSRL+LP+ D+ DLK +L++ + +I ++DI +
Sbjct: 75 PLRFP-EHTSSGSVSFKVFLLLQAYFSRLELPV-DFQNDLKDILEKVVPLINVVVDILSA 132
Query: 1294 SGWLSSSITCMHLLQMVMQGLWFEQDSALWMFPCMNNDLLGTLRARGISTVQQLLDIPKE 1353
+G+L+++ T M L QM++QG+W + D+ L P NN +L + + TV ++ + E
Sbjct: 133 NGYLNAT-TAMDLAQMLIQGVW-DVDNPLRQIPHFNNKILEKCKEINVETVYDIMALEDE 190
Query: 1354 NLQTV--IGNFPVSRLHQDLQRFPRIQVKLRLQRRD--IDG-ENSLTLNIRMD-KMNSWK 1407
+ + + ++++ + +P +++ L D I G + +T+ + D + + +
Sbjct: 191 ERDEILTLTDSQLAQVAAFVNNYPNVELTYSLNNSDSLISGVKQKITIQLTRDVEPENLQ 250
Query: 1408 NTSRAFALRFPKIKDEAWWLVLGNTNTSELYALKRISFSDRLNTH-MELPSGITTFQGMK 1466
TS ++P K E+WWLVLG + ELYA+K+++ + + +E + + +
Sbjct: 251 VTSE----KYPFDKLESWWLVLGEVSKKELYAIKKVTLNKETQQYELEFDTPTSGKHNLT 306
Query: 1467 LVVVSDCYLGFEQEHSIE 1484
+ V D YL ++E S E
Sbjct: 307 IWCVCDSYLDADKELSFE 324
Score = 48.9 bits (115), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 68/316 (21%), Positives = 136/316 (43%), Gaps = 30/316 (9%)
Query: 345 GRIASHFYIQYSSVETYNEMLRRHMNDSEVIEMVSHSSEFENIVVRDEEQNELETLVQTL 404
G IASH+ + + +++++ L ++ ++S + EFE++ +R ++ L L + L
Sbjct: 15 GLIASHYGVSFFTIQSFVSSLSNTSTLKNMLYVLSTAVEFESVPLRKGDRALLVKLSKRL 74
Query: 405 ---CPVEVKGGPSNKHGKISILIQLYISRGWIDTFSLVSDAAYISASLARIMRALFETCL 461
P G + K+ +L+Q Y SR + +D I + ++ + +
Sbjct: 75 PLRFPEHTSSGSVS--FKVFLLLQAYFSRLELPV-DFQNDLKDILEKVVPLINVVVDILS 131
Query: 462 RRGWCEMSLFMLEYCKAVDRQIWPHQHPLRQFDKELPAEILRKLEERGA----DLDRLQE 517
G+ + M + + + + +W +PLRQ +IL K +E D+ L++
Sbjct: 132 ANGYLNATTAM-DLAQMLIQGVWDVDNPLRQI-PHFNNKILEKCKEINVETVYDIMALED 189
Query: 518 MEEKDIGALIRYTPGGRLVKQYLGYFPSIQLSATV----SPITRTVLKIGLAIT----PE 569
E +I L V ++ +P+++L+ ++ S I+ KI + +T PE
Sbjct: 190 EERDEILTLTDSQLAQ--VAAFVNNYPNVELTYSLNNSDSLISGVKQKITIQLTRDVEPE 247
Query: 570 ---FTWKDHFHGAAQRWWIIVQDSESDHIYHSELFTLTKRMARGETQKLSFTVPIFEPHP 626
T + + + WW+++ + +Y + TL K + E L F P H
Sbjct: 248 NLQVTSEKYPFDKLESWWLVLGEVSKKELYAIKKVTLNKETQQYE---LEFDTPTSGKH- 303
Query: 627 PQYYIRAVSDSWLHAE 642
I V DS+L A+
Sbjct: 304 -NLTIWCVCDSYLDAD 318
>pdb|3HIB|A Chain A, Crystal Structure Of The Second Sec63 Domain Of Yeast Brr2
Length = 318
Score = 122 bits (306), Expect = 2e-27, Method: Compositional matrix adjust.
Identities = 90/320 (28%), Positives = 173/320 (54%), Gaps = 18/320 (5%)
Query: 1175 LGT-IASQYYLSYVTVSMFGSNIGPDTSLEVFLHILSGASEYDELPVRHNEDNHNEALSQ 1233
LG+ IAS Y +S+ T+ F S++ ++L+ L++LS A E++ +P+R + LS+
Sbjct: 3 LGSLIASHYGVSFFTIQSFVSSLSNTSTLKNXLYVLSTAVEFESVPLRKGDRALLVKLSK 62
Query: 1234 RV--RFAVDNNRLDDPHVKANLLFQAHFSRLDLPISDYVTDLKSVLDQSIRIIQAMIDIC 1291
R+ RF ++ K LL QA+FSRL+LP+ D+ DLK +L++ + +I ++DI
Sbjct: 63 RLPLRFP-EHTSSGSVSFKVFLLLQAYFSRLELPV-DFQNDLKDILEKVVPLINVVVDIL 120
Query: 1292 ANSGWLSSSITCMHLLQMVMQGLWFEQDSALWMFPCMNNDLLGTLRARGISTVQQLLDIP 1351
+ +G+L+++ T L Q ++QG+W + D+ L P NN +L + + TV + +
Sbjct: 121 SANGYLNAT-TAXDLAQXLIQGVW-DVDNPLRQIPHFNNKILEKCKEINVETVYDIXALE 178
Query: 1352 KENLQTVIG--NFPVSRLHQDLQRFPRIQVKLRLQRRD--IDG-ENSLTLNIRMD-KMNS 1405
E ++ + ++++ + +P +++ L D I G + +T+ + D + +
Sbjct: 179 DEERDEILTLTDSQLAQVAAFVNNYPNVELTYSLNNSDSLISGVKQKITIQLTRDVEPEN 238
Query: 1406 WKNTSRAFALRFPKIKDEAWWLVLGNTNTSELYALKRISFSDRLNTH-MELPSGITTFQG 1464
+ TS ++P K E+WWLVLG + ELYA+K+++ + + +E + +
Sbjct: 239 LQVTSE----KYPFDKLESWWLVLGEVSKKELYAIKKVTLNKETQQYELEFDTPTSGKHN 294
Query: 1465 MKLVVVSDCYLGFEQEHSIE 1484
+ + V D YL ++E S E
Sbjct: 295 LTIWCVCDSYLDADKELSFE 314
Score = 45.8 bits (107), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 66/314 (21%), Positives = 133/314 (42%), Gaps = 30/314 (9%)
Query: 347 IASHFYIQYSSVETYNEMLRRHMNDSEVIEMVSHSSEFENIVVRDEEQNELETLVQTL-- 404
IASH+ + + +++++ L + ++S + EFE++ +R ++ L L + L
Sbjct: 7 IASHYGVSFFTIQSFVSSLSNTSTLKNXLYVLSTAVEFESVPLRKGDRALLVKLSKRLPL 66
Query: 405 -CPVEVKGGPSNKHGKISILIQLYISRGWIDTFSLVSDAAYISASLARIMRALFETCLRR 463
P G + K+ +L+Q Y SR + +D I + ++ + +
Sbjct: 67 RFPEHTSSGSVS--FKVFLLLQAYFSRLELPV-DFQNDLKDILEKVVPLINVVVDILSAN 123
Query: 464 GWCEMSLFMLEYCKAVDRQIWPHQHPLRQFDKELPAEILRKLEERGA----DLDRLQEME 519
G+ + + + + + +W +PLRQ +IL K +E D+ L++ E
Sbjct: 124 GYLNATT-AXDLAQXLIQGVWDVDNPLRQI-PHFNNKILEKCKEINVETVYDIXALEDEE 181
Query: 520 EKDIGALIRYTPGGRLVKQYLGYFPSIQLSATV----SPITRTVLKIGLAIT----PE-- 569
+I L V ++ +P+++L+ ++ S I+ KI + +T PE
Sbjct: 182 RDEILTLTDSQLAQ--VAAFVNNYPNVELTYSLNNSDSLISGVKQKITIQLTRDVEPENL 239
Query: 570 -FTWKDHFHGAAQRWWIIVQDSESDHIYHSELFTLTKRMARGETQKLSFTVPIFEPHPPQ 628
T + + + WW+++ + +Y + TL K + E L F P H
Sbjct: 240 QVTSEKYPFDKLESWWLVLGEVSKKELYAIKKVTLNKETQQYE---LEFDTPTSGKH--N 294
Query: 629 YYIRAVSDSWLHAE 642
I V DS+L A+
Sbjct: 295 LTIWCVCDSYLDAD 308
>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 = 95.5 bits (236), Expect = 2e-19, Method: Compositional matrix adjust.
Identities = 104/426 (24%), Positives = 185/426 (43%), Gaps = 92/426 (21%)
Query: 706 NVLLGAPTGSGKTISAELAMLHLFNTQSDMKVVYIAPLKAIVRERMNDWKDRLVSQLGKE 765
+VL+ A T +GKT+ AE A+ + ++ +V+Y +P+KA+ ++ + L+++ G +
Sbjct: 103 SVLVSAHTSAGKTVVAEYAIAQ--SLKNKQRVIYTSPIKALSNQKYRE----LLAEFG-D 155
Query: 766 MVEMTGDYT--PDLMALLSADIIISTPEKWDGISRNWHSRNYVKKVGLMILDEIHLL-GA 822
+ MTGD T PD L+ I+ S + +++V +I DE+H +
Sbjct: 156 VGLMTGDITINPDAGCLVMTTEILR--------SMLYRGSEVMREVAWVIFDEVHYMRDK 207
Query: 823 ERGPILEVIVSRMRYISSQTERAVRFIGLSTALANAGDLADW------------------ 864
ERG + E + + VR++ LS + NA + A+W
Sbjct: 208 ERGVVWEETIILL-------PDKVRYVFLSATIPNAMEFAEWICKIHSQPCHIVYTNFRP 260
Query: 865 ----------------LGVGEIGLF---NFKPSVRPV-------PLEVHIQGYPGKFYCP 898
L V E F NF+ ++ + P +G G+ Y
Sbjct: 261 TPLQHYLFPAHGDGIYLVVDEKSTFREENFQKAMASISNQIGDDPNSTDSRGKKGQTY-- 318
Query: 899 RMNSMNKPAYAAICT------HSPTKPVLIFVSSRRQTRLTALDLIQFAASDETPRQFLG 952
+ S A I PV++F S+R AL + + + + ++ L
Sbjct: 319 KGGSAKGDAKGDIYKIVKMIWKKKYNPVIVFSFSKRDCEELALKMSKLDFNSDDEKEALT 378
Query: 953 ---------MPEEDLQMVLSQVTDQNLRQTLQFGIGLHHAGLNDKDRSLVEELFANNKIQ 1003
+PE D + L Q+ +++ L+ GIG+HH+GL + ++E LF ++
Sbjct: 379 KIFNNAIALLPETDRE--LPQI--KHILPLLRRGIGIHHSGLLPILKEVIEILFQEGFLK 434
Query: 1004 VLVCTSTLAWGVNLPAHLVIIKGTEYYDGKTKRYVDFPITDILQMMGRAGRPQYDQHGKA 1063
VL T T + G+N+PA V+ +DG+ R+V + +QM GRAGR D G
Sbjct: 435 VLFATETFSIGLNMPAKTVVFTSVRKWDGQQFRWVSG--GEYIQMSGRAGRRGLDDRGIV 492
Query: 1064 VILVHE 1069
++++ E
Sbjct: 493 IMMIDE 498
Score = 71.6 bits (174), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 78/282 (27%), Positives = 127/282 (45%), Gaps = 61/282 (21%)
Query: 8 IRIVGLSATLPNYLEVAQFLRVNPEMGLFFFDSSYRPIPLAQQYI------GI------- 54
+R V LSAT+PN +E A+++ +++RP PL Q Y+ GI
Sbjct: 224 VRYVFLSATIPNAMEFAEWICKIHSQPCHIVYTNFRPTPL-QHYLFPAHGDGIYLVVDEK 282
Query: 55 ---SEPNF-AARNELLSEI---------------CYK-------------KVVDSL--RQ 80
E NF A + ++I YK K+V + ++
Sbjct: 283 STFREENFQKAMASISNQIGDDPNSTDSRGKKGQTYKGGSAKGDAKGDIYKIVKMIWKKK 342
Query: 81 GHQAMVFVHSRKDTVKTAQKLVDLARRYED-----LEVFNNDTHPQLSLI-KKDVMKSRN 134
+ +VF S++D + A K+ L +D ++FNN ++L+ + D +
Sbjct: 343 YNPVIVFSFSKRDCEELALKMSKLDFNSDDEKEALTKIFNN----AIALLPETDRELPQI 398
Query: 135 KDLIELFGLAVGVHHAGMLRSDRGLTERLFSEGLLKVLVCTATLAWGVNLPAHTVVIKGT 194
K ++ L +G+HH+G+L + + E LF EG LKVL T T + G+N+PA TVV
Sbjct: 399 KHILPLLRRGIGIHHSGLLPILKEVIEILFQEGFLKVLFATETFSIGLNMPAKTVVFTSV 458
Query: 195 QLYDPKAGGWRDLG-MLDIFGRAGRPQFDRSGEGIIITSHDK 235
+ +D + W G + + GRAGR D GI+I D+
Sbjct: 459 RKWDGQQFRWVSGGEYIQMSGRAGRRGLD--DRGIVIMMIDE 498
>pdb|3L9O|A Chain A, Crystal Structure Of Mtr4, A Co-Factor Of The Nuclear
Exosome
Length = 1108
Score = 95.1 bits (235), Expect = 2e-19, Method: Compositional matrix adjust.
Identities = 104/426 (24%), Positives = 185/426 (43%), Gaps = 92/426 (21%)
Query: 706 NVLLGAPTGSGKTISAELAMLHLFNTQSDMKVVYIAPLKAIVRERMNDWKDRLVSQLGKE 765
+VL+ A T +GKT+ AE A+ + ++ +V+Y +P+KA+ ++ + L+++ G +
Sbjct: 201 SVLVSAHTSAGKTVVAEYAIAQ--SLKNKQRVIYTSPIKALSNQKYRE----LLAEFG-D 253
Query: 766 MVEMTGDYT--PDLMALLSADIIISTPEKWDGISRNWHSRNYVKKVGLMILDEIHLL-GA 822
+ MTGD T PD L+ I+ S + +++V +I DE+H +
Sbjct: 254 VGLMTGDITINPDAGCLVMTTEILR--------SMLYRGSEVMREVAWVIFDEVHYMRDK 305
Query: 823 ERGPILEVIVSRMRYISSQTERAVRFIGLSTALANAGDLADW------------------ 864
ERG + E + + VR++ LS + NA + A+W
Sbjct: 306 ERGVVWEETIILL-------PDKVRYVFLSATIPNAMEFAEWICKIHSQPCHIVYTNFRP 358
Query: 865 ----------------LGVGEIGLF---NFKPSVRPV-------PLEVHIQGYPGKFYCP 898
L V E F NF+ ++ + P +G G+ Y
Sbjct: 359 TPLQHYLFPAHGDGIYLVVDEKSTFREENFQKAMASISNQIGDDPNSTDSRGKKGQTY-- 416
Query: 899 RMNSMNKPAYAAICT------HSPTKPVLIFVSSRRQTRLTALDLIQFAASDETPRQFLG 952
+ S A I PV++F S+R AL + + + + ++ L
Sbjct: 417 KGGSAKGDAKGDIYKIVKMIWKKKYNPVIVFSFSKRDCEELALKMSKLDFNSDDEKEALT 476
Query: 953 ---------MPEEDLQMVLSQVTDQNLRQTLQFGIGLHHAGLNDKDRSLVEELFANNKIQ 1003
+PE D + L Q+ +++ L+ GIG+HH+GL + ++E LF ++
Sbjct: 477 KIFNNAIALLPETDRE--LPQI--KHILPLLRRGIGIHHSGLLPILKEVIEILFQEGFLK 532
Query: 1004 VLVCTSTLAWGVNLPAHLVIIKGTEYYDGKTKRYVDFPITDILQMMGRAGRPQYDQHGKA 1063
VL T T + G+N+PA V+ +DG+ R+V + +QM GRAGR D G
Sbjct: 533 VLFATETFSIGLNMPAKTVVFTSVRKWDGQQFRWVSG--GEYIQMSGRAGRRGLDDRGIV 590
Query: 1064 VILVHE 1069
++++ E
Sbjct: 591 IMMIDE 596
Score = 71.2 bits (173), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 75/272 (27%), Positives = 122/272 (44%), Gaps = 59/272 (21%)
Query: 8 IRIVGLSATLPNYLEVAQFLRVNPEMGLFFFDSSYRPIPLAQQYI------GI------- 54
+R V LSAT+PN +E A+++ +++RP PL Q Y+ GI
Sbjct: 322 VRYVFLSATIPNAMEFAEWICKIHSQPCHIVYTNFRPTPL-QHYLFPAHGDGIYLVVDEK 380
Query: 55 ---SEPNF-AARNELLSEI---------------CYK-------------KVVDSL--RQ 80
E NF A + ++I YK K+V + ++
Sbjct: 381 STFREENFQKAMASISNQIGDDPNSTDSRGKKGQTYKGGSAKGDAKGDIYKIVKMIWKKK 440
Query: 81 GHQAMVFVHSRKDTVKTAQKLVDLARRYED-----LEVFNNDTHPQLSLI-KKDVMKSRN 134
+ +VF S++D + A K+ L +D ++FNN ++L+ + D +
Sbjct: 441 YNPVIVFSFSKRDCEELALKMSKLDFNSDDEKEALTKIFNN----AIALLPETDRELPQI 496
Query: 135 KDLIELFGLAVGVHHAGMLRSDRGLTERLFSEGLLKVLVCTATLAWGVNLPAHTVVIKGT 194
K ++ L +G+HH+G+L + + E LF EG LKVL T T + G+N+PA TVV
Sbjct: 497 KHILPLLRRGIGIHHSGLLPILKEVIEILFQEGFLKVLFATETFSIGLNMPAKTVVFTSV 556
Query: 195 QLYDPKAGGWRDLG-MLDIFGRAGRPQFDRSG 225
+ +D + W G + + GRAGR D G
Sbjct: 557 RKWDGQQFRWVSGGEYIQMSGRAGRRGLDDRG 588
>pdb|4A4Z|A Chain A, Crystal Structure Of The S. Cerevisiae Dexh Helicase Ski2
Bound To Amppnp
Length = 997
Score = 71.6 bits (174), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 62/204 (30%), Positives = 101/204 (49%), Gaps = 26/204 (12%)
Query: 67 SEICYKKVVDSLRQGH--QAMVFVHSRKDTVKTAQKLVDLARRYEDLEVFNNDTHPQLSL 124
S+ + ++V+ LR+ +VFV S+K + A L E + NN Q+ +
Sbjct: 320 SKKTWPEIVNYLRKRELLPMVVFVFSKKRCEEYADWL-------EGINFCNNKEKSQIHM 372
Query: 125 -IKKDV--MKSRNKDLIE------LFGLAVGVHHAGMLRSDRGLTERLFSEGLLKVLVCT 175
I+K + +K ++DL + L + VHH G+L + L E LFS+G +KVL T
Sbjct: 373 FIEKSITRLKKEDRDLPQILKTRSLLERGIAVHHGGLLPIVKELIEILFSKGFIKVLFAT 432
Query: 176 ATLAWGVNLPAHTVVIKGTQLYDPKAGGWRDLG---MLDIFGRAGRPQFDRSGEGIIITS 232
T A G+NLP TV+ + +D G R+L + GRAGR D +G I++
Sbjct: 433 ETFAMGLNLPTRTVIFSSIRKHD--GNGLRELTPGEFTQMAGRAGRRGLDSTGTVIVMAY 490
Query: 233 HDKLAY-YLRLLTSQLP--IESQF 253
+ L+ + +T +P ++SQF
Sbjct: 491 NSPLSIATFKEVTMGVPTRLQSQF 514
Score = 68.6 bits (166), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 49/161 (30%), Positives = 74/161 (45%), Gaps = 19/161 (11%)
Query: 919 PVLIFVSSRRQTRLTA--LDLIQFAASDETPR---------QFLGMPEEDLQMVLSQVTD 967
P+++FV S+++ A L+ I F + E + L + DL +L
Sbjct: 338 PMVVFVFSKKRCEEYADWLEGINFCNNKEKSQIHMFIEKSITRLKKEDRDLPQILKT--- 394
Query: 968 QNLRQTLQFGIGLHHAGLNDKDRSLVEELFANNKIQVLVCTSTLAWGVNLPAHLVIIKGT 1027
R L+ GI +HH GL + L+E LF+ I+VL T T A G+NLP VI
Sbjct: 395 ---RSLLERGIAVHHGGLLPIVKELIEILFSKGFIKVLFATETFAMGLNLPTRTVIFSSI 451
Query: 1028 EYYDGKTKRYVDFPITDILQMMGRAGRPQYDQHGKAVILVH 1068
+DG R + + QM GRAGR D G +++ +
Sbjct: 452 RKHDGNGLR--ELTPGEFTQMAGRAGRRGLDSTGTVIVMAY 490
Score = 62.8 bits (151), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 58/222 (26%), Positives = 106/222 (47%), Gaps = 34/222 (15%)
Query: 678 NIYEALYNFSHFNPIQTQIFH--ILYHTD--NNVLLGAPTGSGKTISAE--LAMLHLFNT 731
N E + N + P + F +YH + ++V + A T +GKT+ AE +AM H
Sbjct: 24 NFDELIPNPARSWPFELDTFQKEAVYHLEQGDSVFVAAHTSAGKTVVAEYAIAMAH---- 79
Query: 732 QSDMKVVYIAPLKAIVRERMNDWKDRLVS-QLGKEMVEMTGDY--TPDLMALLSADIIIS 788
++ K +Y +P+KA+ ++ D+K+ +G +TGD PD L+ I+
Sbjct: 80 RNMTKTIYTSPIKALSNQKFRDFKETFDDVNIGL----ITGDVQINPDANCLIMTTEILR 135
Query: 789 TPEKWDGISRNWHSRNYVKKVGLMILDEIHLLG-AERGPILEVIVSRMRYISSQTERAVR 847
S + + ++ V +I DE+H + +RG + E ++ + + V+
Sbjct: 136 --------SMLYRGADLIRDVEFVIFDEVHYVNDQDRGVVWEEVIIML-------PQHVK 180
Query: 848 FIGLSTALANAGDLADWLG-VGEIGLFNFKPSVRPVPLEVHI 888
FI LS + N + A+W+G + ++ RPVPLE++I
Sbjct: 181 FILLSATVPNTYEFANWIGRTKQKNIYVISTPKRPVPLEINI 222
Score = 32.0 bits (71), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 18/62 (29%), Positives = 31/62 (50%), Gaps = 8/62 (12%)
Query: 8 IRIVGLSATLPNYLEVAQFLRVNPEMGLFFFDSSYRPIPLAQQYIGISEPNFAARNELLS 67
++ + LSAT+PN E A ++ + ++ + RP+PL E N A+ EL+
Sbjct: 179 VKFILLSATVPNTYEFANWIGRTKQKNIYVISTPKRPVPL--------EINIWAKKELIP 230
Query: 68 EI 69
I
Sbjct: 231 VI 232
>pdb|1HV8|A Chain A, Crystal Structure Of A Dead Box Protein From The
Hyperthermophile Methanococcus Jannaschii
pdb|1HV8|B Chain B, Crystal Structure Of A Dead Box Protein From The
Hyperthermophile Methanococcus Jannaschii
Length = 367
Score = 50.4 bits (119), Expect = 7e-06, Method: Composition-based stats.
Identities = 42/150 (28%), Positives = 73/150 (48%), Gaps = 15/150 (10%)
Query: 675 LGNNIYEALYN--FSHFNPIQTQIFHILYHTDNNVLLGAPTGSGKTISAELAMLHLFNTQ 732
L +NI A+ N F IQ ++ + + + N++ A TGSGKT S + ++ L N
Sbjct: 13 LSDNILNAIRNKGFEKPTDIQXKVIPLFLNDEYNIVAQARTGSGKTASFAIPLIELVNEN 72
Query: 733 SDMKVVYIAPLKAIVRERMNDWKDRLVSQLGKEMVEMTGDYT-----PDLMALLSADIII 787
+ ++ + + P RE D + S G + +++ Y P + AL +A+I++
Sbjct: 73 NGIEAIILTP----TRELAIQVADEIESLKGNKNLKIAKIYGGKAIYPQIKALKNANIVV 128
Query: 788 STPEK-WDGISRNWHSRNYVKKVGLMILDE 816
TP + D I+R + +K V ILDE
Sbjct: 129 GTPGRILDHINRGTLN---LKNVKYFILDE 155
>pdb|1GM5|A Chain A, Structure Of Recg Bound To Three-Way Dna Junction
Length = 780
Score = 45.8 bits (107), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 77/362 (21%), Positives = 141/362 (38%), Gaps = 82/362 (22%)
Query: 706 NVLLGAPTGSGKTISAELAMLHLFNTQSDMKVVYIAPLKAIVRERMNDWKDRLVSQLGKE 765
N LL GSGKT+ A+LA+L N ++ + ++ P + + + S+
Sbjct: 391 NRLLQGDVGSGKTVVAQLAILD--NYEAGFQTAFMVPTSILAIQHYRRTVESF-SKFNIH 447
Query: 766 MVEMTGDYTPDLMALLSA-------DIIISTPEKWDGISRNWHSRNYVKKVGLMILDEIH 818
+ + G TP + + D++I T I + H +N +GL+I+DE H
Sbjct: 448 VALLIGATTPSEKEKIKSGLRNGQIDVVIGT---HALIQEDVHFKN----LGLVIIDEQH 500
Query: 819 LLGAERGPILEVIVSRMRYISSQTERAVRFIGLSTALANAGDLADWLGVGEIGLFNFKPS 878
G ++ AL N G + D L + S
Sbjct: 501 RFGVKQ---------------------------REALMNKGKMVDTLVM----------S 523
Query: 879 VRPVPLEVHIQGYPGKFYCPRMNSM---NKPAYAAICTHSPTKPVLIFVSSRRQTRLTAL 935
P+P + + Y G ++ M K + V FV R++
Sbjct: 524 ATPIPRSMALAFY-GDLDVTVIDEMPPGRKEVQTMLVPMDRVNEVYEFV--RQEVMRGGQ 580
Query: 936 DLIQFAASDETPRQFLGMPEEDLQMVLSQVTDQNLRQTLQFGIGLHHAGLN--DKDRSLV 993
I + +E+ + + E + + +V + F +GL H L+ +KDR ++
Sbjct: 581 AFIVYPLIEESDKLNVKSAVEMYEYLSKEVFPE-------FKLGLMHGRLSQEEKDRVML 633
Query: 994 EELFANNKIQVLVCTSTLAWGVNLP-AHLVIIKGTEYYDGKTKRYVDFPITDILQMMGRA 1052
E FA + +LV T+ + G+++P A++++I+ E F + + Q+ GR
Sbjct: 634 E--FAEGRYDILVSTTVIEVGIDVPRANVMVIENPE----------RFGLAQLHQLRGRV 681
Query: 1053 GR 1054
GR
Sbjct: 682 GR 683
>pdb|1WP9|A Chain A, Crystal Structure Of Pyrococcus Furiosus Hef Helicase
Domain
pdb|1WP9|B Chain B, Crystal Structure Of Pyrococcus Furiosus Hef Helicase
Domain
pdb|1WP9|C Chain C, Crystal Structure Of Pyrococcus Furiosus Hef Helicase
Domain
pdb|1WP9|D Chain D, Crystal Structure Of Pyrococcus Furiosus Hef Helicase
Domain
pdb|1WP9|E Chain E, Crystal Structure Of Pyrococcus Furiosus Hef Helicase
Domain
pdb|1WP9|F Chain F, Crystal Structure Of Pyrococcus Furiosus Hef Helicase
Domain
Length = 494
Score = 43.1 bits (100), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 37/132 (28%), Positives = 71/132 (53%), Gaps = 9/132 (6%)
Query: 692 IQTQIFH-ILYHT--DNNVLLGAPTGSGKTISAELAMLHLFNTQSDMKVVYIAPLKAIVR 748
IQ +I+ ++Y + N L+ PTG GKT+ A + + T+ KV+ +AP K +V
Sbjct: 8 IQPRIYQEVIYAKCKETNCLIVLPTGLGKTLIAMMIAEYRL-TKYGGKVLMLAPTKPLVL 66
Query: 749 ERMNDWKDRLVSQLGKEMVEMTGDYTPD--LMALLSADIIISTPEKWDGISRNWHSRNYV 806
+ ++ RL + +++V +TG+ +P+ A A +I++TP+ + + R +
Sbjct: 67 QHAESFR-RLFNLPPEKIVALTGEKSPEERSKAWARAKVIVATPQTIE--NDLLAGRISL 123
Query: 807 KKVGLMILDEIH 818
+ V L++ DE H
Sbjct: 124 EDVSLIVFDEAH 135
Score = 32.3 bits (72), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 20/84 (23%), Positives = 42/84 (50%), Gaps = 13/84 (15%)
Query: 984 GLNDKDRSLVEELFANNKIQVLVCTSTLAWGVNLPAHLVIIKGTEYYDGKTKRYVDFPIT 1043
GL+ +++ L+ + FA + VLV TS G+++P +++ +Y+ P+
Sbjct: 402 GLSQREQKLILDEFARGEFNVLVATSVGEEGLDVPEVDLVV----FYE---------PVP 448
Query: 1044 DILQMMGRAGRPQYDQHGKAVILV 1067
++ + R GR G+ +IL+
Sbjct: 449 SAIRSIQRRGRTGRHMPGRVIILM 472
>pdb|2Z0M|A Chain A, Crystal Structure Of Hypothetical Atp-Dependent Rna
Helicase From Sulfolobus Tokodaii
Length = 337
Score = 40.4 bits (93), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 27/107 (25%), Positives = 56/107 (52%), Gaps = 9/107 (8%)
Query: 686 FSHFNPIQTQIFHILYHTDNNVLLGAPTGSGKTISAELAMLHLFNTQSDMKVVYIAPLKA 745
F +F +Q++ ++ NV++ A TGSGKT + + +L L MK + + P +
Sbjct: 14 FKNFTEVQSKTIPLMLQ-GKNVVVRAKTGSGKTAAYAIPILEL-----GMKSLVVTPTRE 67
Query: 746 IVRERMNDWKDRLVSQLGKEMVEMTGD--YTPDLMALLSADIIISTP 790
+ R+ + +D + + ++ E+ G Y + + +ADI+++TP
Sbjct: 68 LTRQVASHIRD-IGRYMDTKVAEVYGGMPYKAQINRVRNADIVVATP 113
>pdb|1OYY|A Chain A, Structure Of The Recq Catalytic Core Bound To Atp-Gamma-S
Length = 523
Score = 38.9 bits (89), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 36/140 (25%), Positives = 58/140 (41%), Gaps = 19/140 (13%)
Query: 963 SQVTDQNLR-QTLQFGIGLHHAGLNDKDRSLVEELFANNKIQVLVCTSTLAWGVNLPAHL 1021
++V D R Q+ +HAGL + R+ V+E F + +Q++V T G+N P
Sbjct: 247 AKVEDTAARLQSKGISAAAYHAGLENNVRADVQEKFQRDDLQIVVATVAFGMGINKPNVR 306
Query: 1022 VIIKGTEYYDGKTKRYVDFP--ITDILQMMGRAGRPQYDQHGKAVILVHEPKKSFYKKFL 1079
++ + D P I Q GRAGR D +L ++P + +
Sbjct: 307 FVV------------HFDIPRNIESYYQETGRAGR---DGLPAEAMLFYDPADMAWLRRC 351
Query: 1080 YEPFPVESSLRDQLHDHFNA 1099
E P + L+D NA
Sbjct: 352 LEEKP-QGQLQDIERHKLNA 370
>pdb|1OYW|A Chain A, Structure Of The Recq Catalytic Core
Length = 523
Score = 38.1 bits (87), Expect = 0.034, Method: Compositional matrix adjust.
Identities = 36/140 (25%), Positives = 57/140 (40%), Gaps = 19/140 (13%)
Query: 963 SQVTDQNLR-QTLQFGIGLHHAGLNDKDRSLVEELFANNKIQVLVCTSTLAWGVNLPAHL 1021
++V D R Q+ +HAGL + R+ V+E F + +Q++V T G+N P
Sbjct: 247 AKVEDTAARLQSKGISAAAYHAGLENNVRADVQEKFQRDDLQIVVATVAFGXGINKPNVR 306
Query: 1022 VIIKGTEYYDGKTKRYVDFP--ITDILQMMGRAGRPQYDQHGKAVILVHEPKKSFYKKFL 1079
++ + D P I Q GRAGR D L ++P + +
Sbjct: 307 FVV------------HFDIPRNIESYYQETGRAGR---DGLPAEAXLFYDPADXAWLRRC 351
Query: 1080 YEPFPVESSLRDQLHDHFNA 1099
E P + L+D NA
Sbjct: 352 LEEKP-QGQLQDIERHKLNA 370
>pdb|2EYQ|A Chain A, Crystal Structure Of Escherichia Coli Transcription-Repair
Coupling Factor
pdb|2EYQ|B Chain B, Crystal Structure Of Escherichia Coli Transcription-Repair
Coupling Factor
Length = 1151
Score = 38.1 bits (87), Expect = 0.042, Method: Compositional matrix adjust.
Identities = 24/95 (25%), Positives = 47/95 (49%), Gaps = 13/95 (13%)
Query: 978 IGLHHAGLNDKDRSLVEELFANNKIQVLVCTSTLAWGVNLP-AHLVIIKGTEYYDGKTKR 1036
I + H + +++ V F + + VLVCT+ + G+++P A+ +II+ ++
Sbjct: 841 IAIGHGQMRERELERVMNDFHHQRFNVLVCTTIIETGIDIPTANTIIIERADH------- 893
Query: 1037 YVDFPITDILQMMGRAGRPQYDQHGKAVILVHEPK 1071
F + + Q+ GR GR + + A +L PK
Sbjct: 894 ---FGLAQLHQLRGRVGRSHHQAY--AWLLTPHPK 923
>pdb|3SQX|A Chain A, Structure Of Mss116p (Nte And C-Tail Double Deletion)
Bound To Ssrna And Amp-Pnp
Length = 512
Score = 37.4 bits (85), Expect = 0.067, Method: Compositional matrix adjust.
Identities = 41/157 (26%), Positives = 72/157 (45%), Gaps = 16/157 (10%)
Query: 675 LGNNIYEAL--YNFSHFNPIQTQ-IFHILYHTDNNVLLGAPTGSGKTISAELAML-HLFN 730
L I++A+ F P+Q + I IL D++V+ A TG+GKT + + + HL N
Sbjct: 28 LDKEIHKAITRMEFPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIFQHLIN 87
Query: 731 TQSD----MKVVYIAPLKAI---VRERMNDWKDRLVSQLGKEMVEMTG--DYTPDL--MA 779
T+ D +K V +AP + + + + D V + G D+ + M
Sbjct: 88 TKFDSQYMVKAVIVAPTRDLALQIEAEVKKIHDMNYGLKKYACVSLVGGTDFRAAMNKMN 147
Query: 780 LLSADIIISTPEKWDGISRNWHSRNYVKKVGLMILDE 816
L +I+I+TP + + + S + + V +LDE
Sbjct: 148 KLRPNIVIATPGRLIDVLEKY-SNKFFRFVDYKVLDE 183
>pdb|3I5X|A Chain A, Structure Of Mss116p Bound To Ssrna And Amp-Pnp
pdb|3I5Y|A Chain A, Structure Of Mss116p Bound To Ssrna Containing A Single
5-Bru And Amp- Pnp
pdb|3I61|A Chain A, Structure Of Mss116p Bound To Ssrna And Adp-beryllium
Fluoride
pdb|3I62|A Chain A, Structure Of Mss116p Bound To Ssrna And Adp-aluminum
Fluoride
Length = 563
Score = 37.0 bits (84), Expect = 0.074, Method: Compositional matrix adjust.
Identities = 42/158 (26%), Positives = 75/158 (47%), Gaps = 18/158 (11%)
Query: 675 LGNNIYEAL--YNFSHFNPIQTQ-IFHILYHTDNNVLLGAPTGSGKTISAELAML-HLFN 730
L I++A+ F P+Q + I IL D++V+ A TG+GKT + + + HL N
Sbjct: 79 LDKEIHKAITRMEFPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIFQHLIN 138
Query: 731 TQSD----MKVVYIAPLKAIVRE------RMNDWKDRLVSQLGKEMVEMTGDYTPDL--M 778
T+ D +K V +AP + + + +++D L +V T D+ + M
Sbjct: 139 TKFDSQYMVKAVIVAPTRDLALQIEAEVKKIHDMNYGLKKYACVSLVGGT-DFRAAMNKM 197
Query: 779 ALLSADIIISTPEKWDGISRNWHSRNYVKKVGLMILDE 816
L +I+I+TP + + + S + + V +LDE
Sbjct: 198 NKLRPNIVIATPGRLIDVLEKY-SNKFFRFVDYKVLDE 234
>pdb|2V1X|A Chain A, Crystal Structure Of Human Recq-Like Dna Helicase
pdb|2V1X|B Chain B, Crystal Structure Of Human Recq-Like Dna Helicase
pdb|2WWY|A Chain A, Structure Of Human Recq-Like Helicase In Complex With A Dna
Substrate
pdb|2WWY|B Chain B, Structure Of Human Recq-Like Helicase In Complex With A Dna
Substrate
Length = 591
Score = 36.6 bits (83), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 23/83 (27%), Positives = 38/83 (45%), Gaps = 10/83 (12%)
Query: 972 QTLQFGIGLHHAGLNDKDRSLVEELFANNKIQVLVCTSTLAWGVNLPAHLVIIKGTEYYD 1031
Q L G +HA L +D++ V ++ N+IQV+V T G++ P +I +
Sbjct: 288 QNLGIHAGAYHANLEPEDKTTVHRKWSANEIQVVVATVAFGMGIDKPDVRFVIHHS---- 343
Query: 1032 GKTKRYVDFPITDILQMMGRAGR 1054
+ + + Q GRAGR
Sbjct: 344 ------MSKSMENYYQESGRAGR 360
Score = 32.0 bits (71), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 32/167 (19%), Positives = 69/167 (41%), Gaps = 31/167 (18%)
Query: 670 LPVTALGNNIYEALYNFSHFNPIQTQIFHILYHTDNNVLLGAPTGSGKTISAELAMLHLF 729
P + +I + ++ F P+Q + ++ V L PTG GK++ +L L
Sbjct: 26 FPWSGKVKDILQNVFKLEKFRPLQLETINVTM-AGKEVFLVMPTGGGKSLCYQLPALC-- 82
Query: 730 NTQSDMKVVYIAPLKAIVRERMNDWKDRLVSQLGKEMVEMTGDYTPDLMALLSAD----- 784
SD + I PL +++ +++ ++ QLG + + + + + A+
Sbjct: 83 ---SDGFTLVICPLISLMEDQL-----MVLKQLGISATMLNASSSKEHVKWVHAEMVNKN 134
Query: 785 ----IIISTPEK-------WDGISRNWHSRNYVKKVGLMILDEIHLL 820
+I TPEK + + + +R + + + +DE+H
Sbjct: 135 SELKLIYVTPEKIAKSKMFMSRLEKAYEARRFTR----IAVDEVHCC 177
>pdb|1S2M|A Chain A, Crystal Structure Of The Dead Box Protein Dhh1p
Length = 400
Score = 36.2 bits (82), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 29/113 (25%), Positives = 53/113 (46%), Gaps = 22/113 (19%)
Query: 958 LQMVLSQVTDQNLRQTLQFGIGLHHAGLNDKDRSLVEELFANNKIQVLVCTSTLAWGVNL 1017
++++ ++TD L + HA + ++R+ V F K++ LVC+ L G+++
Sbjct: 271 VELLAKKITD------LGYSCYYSHARMKQQERNKVFHEFRQGKVRTLVCSDLLTRGIDI 324
Query: 1018 PAHLVIIKGTEYYDGKTKRYVDFPIT--DILQMMGRAGRPQYDQHGKAVILVH 1068
A V+I DFP T L +GR+GR + G A+ L++
Sbjct: 325 QAVNVVIN------------FDFPKTAETYLHRIGRSGR--FGHLGLAINLIN 363
Score = 32.0 bits (71), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 30/101 (29%), Positives = 45/101 (44%), Gaps = 12/101 (11%)
Query: 141 FGLAVGVHHAGMLRSDRGLTERLFSEGLLKVLVCTATLAWGVNLPAHTVVIKGTQLYD-P 199
G + HA M + +R F +G ++ LVC+ L G+++ A VVI +D P
Sbjct: 281 LGYSCYYSHARMKQQERNKVFHEFRQGKVRTLVCSDLLTRGIDIQAVNVVIN----FDFP 336
Query: 200 KAGGWRDLGMLDIFGRAGRPQFDRSGEGI-IITSHDKLAYY 239
K L GR+GR F G I +I +D+ Y
Sbjct: 337 KTAET----YLHRIGRSGR--FGHLGLAINLINWNDRFNLY 371
>pdb|4A2P|A Chain A, Structure Of Duck Rig-I Helicase Domain
pdb|4A36|A Chain A, Structure Of Duck Rig-I Helicase Domain Bound To 19-Mer
Dsrna And Atp Transition State Analogue
pdb|4A36|B Chain B, Structure Of Duck Rig-I Helicase Domain Bound To 19-Mer
Dsrna And Atp Transition State Analogue
Length = 556
Score = 36.2 bits (82), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 35/122 (28%), Positives = 55/122 (45%), Gaps = 14/122 (11%)
Query: 706 NVLLGAPTGSGKTISAELAMLHLFNTQ---SDMKVVYIAPLKAIVRERMNDWKDRLVSQL 762
N L+ APTGSGKT + L H F KVV++A + ++ N +K Q
Sbjct: 24 NALICAPTGSGKTFVSILICEHHFQNMPAGRKAKVVFLATKVPVYEQQKNVFKHHFERQ- 82
Query: 763 GKEMVEMTGDYTPDL---MALLSADIIISTPEKWDGISRNWHSRNYVKKVG---LMILDE 816
G + ++G+ ++ + +DII+ TP+ I N + + LMI DE
Sbjct: 83 GYSVQGISGENFSNVSVEKVIEDSDIIVVTPQ----ILVNSFEDGTLTSLSIFTLMIFDE 138
Query: 817 IH 818
H
Sbjct: 139 CH 140
>pdb|3SQW|A Chain A, Structure Of Mss116p (Nte Deletion) Bound To Ssrna And
Amp-Pnp
Length = 579
Score = 35.8 bits (81), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 43/162 (26%), Positives = 76/162 (46%), Gaps = 18/162 (11%)
Query: 675 LGNNIYEAL--YNFSHFNPIQTQ-IFHILYHTDNNVLLGAPTGSGKTISAELAML-HLFN 730
L I++A+ F P+Q + I IL D++V+ A TG+GKT + + + HL N
Sbjct: 28 LDKEIHKAITRMEFPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIFQHLIN 87
Query: 731 TQSD----MKVVYIAPLKAIVRE------RMNDWKDRLVSQLGKEMVEMTGDYTPDL--M 778
T+ D +K V +AP + + + +++D L +V T D+ + M
Sbjct: 88 TKFDSQYMVKAVIVAPTRDLALQIEAEVKKIHDMNYGLKKYACVSLVGGT-DFRAAMNKM 146
Query: 779 ALLSADIIISTPEKWDGISRNWHSRNYVKKVGLMILDEIHLL 820
L +I+I+TP + + + S + + V +LDE L
Sbjct: 147 NKLRPNIVIATPGRLIDVLEKY-SNKFFRFVDYKVLDEADRL 187
>pdb|4A2W|A Chain A, Structure Of Full-Length Duck Rig-I
pdb|4A2W|B Chain B, Structure Of Full-Length Duck Rig-I
Length = 936
Score = 35.8 bits (81), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 35/122 (28%), Positives = 55/122 (45%), Gaps = 14/122 (11%)
Query: 706 NVLLGAPTGSGKTISAELAMLHLFNTQ---SDMKVVYIAPLKAIVRERMNDWKDRLVSQL 762
N L+ APTGSGKT + L H F KVV++A + ++ N +K Q
Sbjct: 265 NALICAPTGSGKTFVSILICEHHFQNMPAGRKAKVVFLATKVPVYEQQKNVFKHHFERQ- 323
Query: 763 GKEMVEMTGDYTPDL---MALLSADIIISTPEKWDGISRNWHSRNYVKKVG---LMILDE 816
G + ++G+ ++ + +DII+ TP+ I N + + LMI DE
Sbjct: 324 GYSVQGISGENFSNVSVEKVIEDSDIIVVTPQ----ILVNSFEDGTLTSLSIFTLMIFDE 379
Query: 817 IH 818
H
Sbjct: 380 CH 381
>pdb|4A2Q|A Chain A, Structure Of Duck Rig-I Tandem Cards And Helicase Domain
pdb|4A2Q|B Chain B, Structure Of Duck Rig-I Tandem Cards And Helicase Domain
pdb|4A2Q|D Chain D, Structure Of Duck Rig-I Tandem Cards And Helicase Domain
pdb|4A2Q|E Chain E, Structure Of Duck Rig-I Tandem Cards And Helicase Domain
Length = 797
Score = 35.4 bits (80), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 35/122 (28%), Positives = 55/122 (45%), Gaps = 14/122 (11%)
Query: 706 NVLLGAPTGSGKTISAELAMLHLFNTQ---SDMKVVYIAPLKAIVRERMNDWKDRLVSQL 762
N L+ APTGSGKT + L H F KVV++A + ++ N +K Q
Sbjct: 265 NALICAPTGSGKTFVSILICEHHFQNMPAGRKAKVVFLATKVPVYEQQKNVFKHHFERQ- 323
Query: 763 GKEMVEMTGDYTPDL---MALLSADIIISTPEKWDGISRNWHSRNYVKKVG---LMILDE 816
G + ++G+ ++ + +DII+ TP+ I N + + LMI DE
Sbjct: 324 GYSVQGISGENFSNVSVEKVIEDSDIIVVTPQ----ILVNSFEDGTLTSLSIFTLMIFDE 379
Query: 817 IH 818
H
Sbjct: 380 CH 381
>pdb|2RFM|A Chain A, Structure Of A Thermophilic Ankyrin Repeat Protein
pdb|2RFM|B Chain B, Structure Of A Thermophilic Ankyrin Repeat Protein
Length = 192
Score = 34.7 bits (78), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 19/49 (38%), Positives = 29/49 (59%)
Query: 464 GWCEMSLFMLEYCKAVDRQIWPHQHPLRQFDKELPAEILRKLEERGADL 512
G+ EMS F+LE+ V+ + + PL K +EI++KL E GAD+
Sbjct: 112 GYSEMSYFLLEHGANVNDRNLEGETPLIVASKYGRSEIVKKLLELGADI 160
>pdb|2WAX|A Chain A, Structure Of The Human Ddx6 C-Terminal Domain In Complex
With An Edc3-Fdf Peptide
pdb|2WAX|C Chain C, Structure Of The Human Ddx6 C-Terminal Domain In Complex
With An Edc3-Fdf Peptide
pdb|2WAY|A Chain A, Structure Of The Human Ddx6 C-Terminal Domain In Complex
With An Edc3-Fdf Peptide
pdb|2WAY|C Chain C, Structure Of The Human Ddx6 C-Terminal Domain In Complex
With An Edc3-Fdf Peptide
Length = 193
Score = 34.7 bits (78), Expect = 0.40, Method: Compositional matrix adjust.
Identities = 36/120 (30%), Positives = 51/120 (42%), Gaps = 12/120 (10%)
Query: 138 IELFGLAVGVHHAGMLRSDRGLTERLFSEGLLKVLVCTATLAWGVNLPAHTVVIKGTQLY 197
I G + HA M + R F GL + LVCT G+++ A VVI +
Sbjct: 64 ISQLGYSCFYIHAKMRQEHRNRVFHDFRNGLCRNLVCTDLFTRGIDIQAVNVVIN----F 119
Query: 198 D-PKAGGWRDLGMLDIFGRAGRPQFDRSGEGIIITSHDKLAYYLRLLTSQLPIESQFISS 256
D PK L GR+GR F G I + ++D + L+ + QL E + I S
Sbjct: 120 DFPKLAET----YLHRIGRSGR--FGHLGLAINLITYDD-RFNLKSIEEQLGTEIKPIPS 172
>pdb|3DKP|A Chain A, Human Dead-Box Rna-Helicase Ddx52, Conserved Domain I In
Complex With Adp
Length = 245
Score = 34.3 bits (77), Expect = 0.58, Method: Compositional matrix adjust.
Identities = 26/98 (26%), Positives = 47/98 (47%), Gaps = 17/98 (17%)
Query: 675 LGNNIYEALYNFSHFNPIQTQIFHILYHTDNNVLLGAPTGSGKTISAELAMLHLFNTQSD 734
L NI +A F PIQ Q ++ H +L APTGSGKT++ + +L ++
Sbjct: 40 LLQNILDA--GFQMPTPIQMQAIPVMLH-GRELLASAPTGSGKTLAFSIPILMQLKQPAN 96
Query: 735 --MKVVYIAPLKAIVRERMNDWKDRLVSQLGKEMVEMT 770
+ + I+P + L SQ+ +E+++++
Sbjct: 97 KGFRALIISPTR------------ELASQIHRELIKIS 122
>pdb|2VSN|A Chain A, Structure And Topological Arrangement Of An O-Glcnac
Transferase Homolog: Insight Into Molecular Control Of
Intracellular Glycosylation
pdb|2VSN|B Chain B, Structure And Topological Arrangement Of An O-Glcnac
Transferase Homolog: Insight Into Molecular Control Of
Intracellular Glycosylation
Length = 568
Score = 33.1 bits (74), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 18/50 (36%), Positives = 27/50 (54%), Gaps = 4/50 (8%)
Query: 860 DLADWLGVGEIGLFNFKPSVRPVPLEVHIQGYPGKFYCPRMNSMNKPAYA 909
DLA W G G +F ++RP P++V+ YPG P M+ + A+A
Sbjct: 288 DLAGWGGGGRPEVF----ALRPAPVQVNWLAYPGTSGAPWMDYVLGDAFA 333
>pdb|1XX6|A Chain A, X-Ray Structure Of Clostridium Acetobutylicum Thymidine
Kinase With Adp. Northeast Structural Genomics Target
Car26.
pdb|1XX6|B Chain B, X-Ray Structure Of Clostridium Acetobutylicum Thymidine
Kinase With Adp. Northeast Structural Genomics Target
Car26
Length = 191
Score = 32.7 bits (73), Expect = 1.7, Method: Composition-based stats.
Identities = 27/82 (32%), Positives = 38/82 (46%), Gaps = 5/82 (6%)
Query: 299 GWDEVIADPSLSLKQRALVTDAARA-LDKAKMMRFDEKSGNFYCTELGRIASHFYIQYSS 357
GW EVI P S K L+ RA + K K+ F + N Y E + SH + +
Sbjct: 8 GWVEVIVGPXYSGKSEELIRRIRRAKIAKQKIQVFKPEIDNRYSKE--DVVSHXGEKEQA 65
Query: 358 VETYN--EMLRRHMNDSEVIEM 377
V N E+L+ D+EVI +
Sbjct: 66 VAIKNSREILKYFEEDTEVIAI 87
>pdb|3RFU|A Chain A, Crystal Structure Of A Copper-Transporting Pib-Type Atpase
pdb|3RFU|B Chain B, Crystal Structure Of A Copper-Transporting Pib-Type Atpase
pdb|3RFU|C Chain C, Crystal Structure Of A Copper-Transporting Pib-Type Atpase
pdb|3RFU|D Chain D, Crystal Structure Of A Copper-Transporting Pib-Type Atpase
Length = 736
Score = 32.3 bits (72), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 24/69 (34%), Positives = 36/69 (52%), Gaps = 2/69 (2%)
Query: 722 ELAMLHLFNTQSDMKVVYIAPLKAIVRERMNDWKDRLVSQLGKE--MVEMTGDYTPDLMA 779
E+ ML + ++ V +K +V E M + K R+VS+L + +V M GD D A
Sbjct: 572 EIVMLTGDSKRTAEAVAGTLGIKKVVAEIMPEDKSRIVSELKDKGLIVAMAGDGVNDAPA 631
Query: 780 LLSADIIIS 788
L ADI I+
Sbjct: 632 LAKADIGIA 640
>pdb|2XZL|A Chain A, Upf1-Rna Complex
Length = 802
Score = 32.0 bits (71), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 25/102 (24%), Positives = 48/102 (47%), Gaps = 9/102 (8%)
Query: 682 ALYNFSHFNPIQTQ-IFHILYHTDNNVLLGAPTGSGKTISAELAMLHLFNTQSDMKVVYI 740
++ NF+ N Q+ + H+L + L+ P G+GKT+++ + HL D +++
Sbjct: 354 SIPNFAQLNSSQSNAVSHVLQRPLS--LIQGPPGTGKTVTSATIVYHLSKIHKD-RILVC 410
Query: 741 APLKAIVRERMNDWKDRLVSQLGKEMVEMTGDYTPDLMALLS 782
AP V +D LG ++V +T D+ + +S
Sbjct: 411 APSNVAVDHLAAKLRD-----LGLKVVRLTAKSREDVESSVS 447
>pdb|1YAA|A Chain A, Aspartate Aminotransferase From Saccharomyces Cerevisiae
Cytoplasm
pdb|1YAA|B Chain B, Aspartate Aminotransferase From Saccharomyces Cerevisiae
Cytoplasm
pdb|1YAA|C Chain C, Aspartate Aminotransferase From Saccharomyces Cerevisiae
Cytoplasm
pdb|1YAA|D Chain D, Aspartate Aminotransferase From Saccharomyces Cerevisiae
Cytoplasm
Length = 412
Score = 31.6 bits (70), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 25/97 (25%), Positives = 40/97 (41%), Gaps = 5/97 (5%)
Query: 757 RLVSQLGKEMVEMTGDYTPDLMALLSADIIISTPEKWDGISRNWHSRNYVKKVGLMI--L 814
L Q K+MV M+ T AL + + TP WD I ++ M+ L
Sbjct: 314 ELTEQWHKDMVTMSSRITKMRHALRDHLVKLGTPGNWDHIVNQCGMFSFTGLTPQMVKRL 373
Query: 815 DEIH---LLGAERGPILEVIVSRMRYISSQTERAVRF 848
+E H L+ + R I + + Y++ + VRF
Sbjct: 374 EETHAVYLVASGRASIAGLNQGNVEYVAKAIDEVVRF 410
>pdb|4A15|A Chain A, Crystal Structure Of An Xpd Dna Complex
Length = 620
Score = 31.2 bits (69), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 18/56 (32%), Positives = 33/56 (58%), Gaps = 9/56 (16%)
Query: 707 VLLGAPTGSGKTISAELAMLHLFNTQSDMKVVYIAPLKAIVRERMNDWKDRLVSQL 762
V L +PTGSGKTI A + L ++++ +KV+Y+ R N +++++ +L
Sbjct: 25 VALESPTGSGKTIMALKSALQ-YSSERKLKVLYLV--------RTNSQEEQVIKEL 71
>pdb|2VSF|A Chain A, Structure Of Xpd From Thermoplasma Acidophilum
Length = 602
Score = 31.2 bits (69), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 18/56 (32%), Positives = 33/56 (58%), Gaps = 9/56 (16%)
Query: 707 VLLGAPTGSGKTISAELAMLHLFNTQSDMKVVYIAPLKAIVRERMNDWKDRLVSQL 762
V L +PTGSGKTI A + L ++++ +KV+Y+ R N +++++ +L
Sbjct: 7 VALESPTGSGKTIMALKSALQ-YSSERKLKVLYLV--------RTNSQEEQVIKEL 53
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
0.321 0.136 0.407
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 43,327,186
Number of Sequences: 62578
Number of extensions: 1823134
Number of successful extensions: 4499
Number of sequences better than 100.0: 44
Number of HSP's better than 100.0 without gapping: 18
Number of HSP's successfully gapped in prelim test: 26
Number of HSP's that attempted gapping in prelim test: 4361
Number of HSP's gapped (non-prelim): 78
length of query: 1492
length of database: 14,973,337
effective HSP length: 111
effective length of query: 1381
effective length of database: 8,027,179
effective search space: 11085534199
effective search space used: 11085534199
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 58 (26.9 bits)