HHsearch alignment for GI: 254780991 and conserved domain: TIGR00614
>TIGR00614 recQ_fam ATP-dependent DNA helicase, RecQ family; InterPro: IPR004589 The ATP-dependent DNA helicase RecQ (3.6.1 from EC) is involved in genome maintenance . All homologues tested to date unwind paired DNA, translocating in a 3' to 5' direction and several have a preference for forked or 4-way DNA structures (e.g. Holliday junctions) or for G-quartet DNA. The yeast protein, Sgs1, is present in numerous foci that coincide with sites of de novo synthesis DNA, such as the replication fork, and protein levels peak during S-phase. A model has been proposed for Sgs1p action in the S-phase checkpoint response, both as a 'sensor' for damage during replication and a 'resolvase' for structures that arise at paused forks, such as the four-way 'chickenfoot' structure. The action of Sgs1p may serve to maintain the proper amount and integrity of ss DNA that is necessary for the binding of RPA (replication protein A, the eukaryotic ss DNA-binding protein)DNA pol complexes. Sgs1p would thus function by detecting (or resolving) aberrant DNA structures, and would thus contribute to the full activation of the DNA-dependent protein kinase, Mec1p and the effector kinase, Rad53p. Its ability to bind both the large subunit of RPA and the RecA-like protein Rad51p, place it in a unique position to resolve inappropriate fork structures that can occur when either the leading or lagging strand synthesis is stalled. Thus, RecQ helicases integrate checkpoint activation and checkpoint response. ; GO: 0008026 ATP-dependent helicase activity, 0006310 DNA recombination.
Probab=99.62 E-value=1.1e-12 Score=113.46 Aligned_cols=328 Identities=16% Similarity=0.181 Sum_probs=218.5
Q ss_pred EEEEECCCCCCCHHHHHHHHHHHHHCCCCEEEEEEECCCCHHHHHHHHHHHCCCCEEEEECCHHHHHHHHHHHHHHCCCC
Q ss_conf 47751888888438999999998873973379986337646999999999719978999316346899999999867898
Q gi|254780991|r 141 FQMQTDYHPSGDQPAAIAQLLKGIHSREKVQLLLGVTGSGKTFTMAKVIEAMQRPAIVMAPNKILAAQLYSEFKNFFPHN 220 (805)
Q Consensus 141 f~l~~~~~P~gdQ~~Ai~~L~~~l~~g~~~qlL~GVTGSGKTevya~lI~~~gr~aLvLvPei~La~QL~~rfk~~Fp~n 220 (805)
T Consensus 7 FG~-~~Frp~--Q~e~I~~~L~----g~RD~~vvMpTG~GKSLCYQ~Pa~~~~G~t~VIsPLiSLm~DQV~~L~~-~~i~ 78 (497)
T TIGR00614 7 FGL-SSFRPV--QLEVINAVLE----GRRDCLVVMPTGGGKSLCYQLPALYSDGLTLVISPLISLMEDQVLQLKA-SGIP 78 (497)
T ss_pred CCC-CCCCHH--HHHHHHHHHC----CCCCEEEEECCCCCHHHHHHHHHHHCCCCEEEECCHHHHHHHHHHHHHH-CCCC
T ss_conf 574-445514--8999998754----8975699815898603676405675089649973636568999999874-4863
Q ss_pred EEEEEEECCCCCCCCCCCCCCCCCHHHHCCCCHHHHHHHHHHHHHH--HCCCCEEEECCHHHHC---CCCCHH------H
Q ss_conf 3899862134444210155543210221035889999999999998--5499849982778961---689834------7
Q gi|254780991|r 221 AVEYFVSYYDYYQPEAYVPRTDTYIEKESSINEQIDRMRHSATRSL--LERNDCIVVSSVSCIY---GIGSVE------S 289 (805)
Q Consensus 221 ~V~~f~S~~~~yqpEay~p~~d~~i~k~~s~n~~i~~~R~~a~~~l--~~~~~~IVVgsrSAIf---gl~~P~------~ 289 (805)
T Consensus 79 A~-~L~-------------------------s~~s~~~~~~v~~~~~~k~g~~kllYvtPE~~~~~~~ll~~Le~~Y~~~ 132 (497)
T TIGR00614 79 AT-FLN-------------------------SSQSKEQQKEVLTDLSKKDGKLKLLYVTPEKISKSKSLLQTLEKLYERK 132 (497)
T ss_pred EE-CCC-------------------------CCCCHHHHHHHHHHHHHHCCCEEEEEECHHHHHCCHHHHHHHHHHHHHC
T ss_conf 01-044-------------------------3257789999999987307975899716346534647899999988644
Q ss_pred HHCCEEEEECCCCCCHHHHHHHHHHCCCCCCHHHHHHHHHCCCCEEEECCCCCHHHHHHHHCCCCCCHHHHHCCCCCCCC
Q ss_conf 72257999419811178753234311765633877545331872478317888778887310444200222101666400
Q gi|254780991|r 290 YSQMIVQLKIGDSVEQKELLSSLVKQQYKRQDIGIIRGTFRVCGDSIEIFPSHLEDVAWRVSMFGNDIEEISEFYPLTGQ 369 (805)
Q Consensus 290 ~lglIIvdEehd~~~~~~~~~~l~~~~Y~R~D~a~~RG~f~~rg~ILdsatps~Es~~~Rie~f~deIe~I~~fDplT~~ 369 (805)
T Consensus 133 ~~~~iAvDEAHCiSqWGHDFR~~----Y~~--LG~Lk~~fP~vP~~ALTATA~~~~------------------------ 182 (497)
T TIGR00614 133 GITLIAVDEAHCISQWGHDFRPD----YKA--LGSLKQKFPNVPIMALTATASPSV------------------------ 182 (497)
T ss_pred CCEEEEEECEEEECCCCCCCCHH----HHH--HHHHHHHCCCCCEEEEECCCCHHH------------------------
T ss_conf 96699983215435888874079----999--657888548874364340578678------------------------
Q ss_pred HHHHCCCCCCHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHH
Q ss_conf 11100001000000002563678875455899899899887544332110012444477775332112014510113331
Q gi|254780991|r 370 KIRNVETIKIYANSHYVTPRPTLNTAMKYIKEELKMRLIELEKEGRLLEAQRLEQRITYDLEMLETTGSCQSIENYSRYL 449 (805)
Q Consensus 370 ~~~~~~~~~i~Pa~~~v~~~e~l~~a~~~i~~el~~rl~~~~~~~~~~ea~rL~qR~~~dle~l~e~G~~~gienyS~~L 449 (805)
T Consensus 183 ------------------------------~~Di~~~L---~---------------------l~~------p~~~~~SF 202 (497)
T TIGR00614 183 ------------------------------REDILRIL---N---------------------LKN------PQVFITSF 202 (497)
T ss_pred ------------------------------HHHHHHHH---C---------------------CCC------CCEEEECC
T ss_conf ------------------------------99999872---2---------------------136------62464046
Q ss_pred CCCCCCCCCHHHHHCCCCCCEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHCCCCCCCC
Q ss_conf 14465556202330265442132101234475445432456541333235766554443222111010012155545444
Q gi|254780991|r 450 TGRNPGEPPPTLFEYIPEDSLLFVDESHVTIPQISGMYRGDFHRKATLAEYGFRLPSCMDNRPLRFEEWNCLRPTTIVVS 529 (805)
Q Consensus 450 ~~r~~ge~P~tL~dY~p~d~ll~idesh~~~pqi~~~~~~d~~RK~~l~~~gfrlp~~~~n~pl~f~e~~~~~~~~~~~s 529 (805)
T Consensus 203 ------dRPNl~y~v~~K---------------------------~---------------------------------- 215 (497)
T TIGR00614 203 ------DRPNLYYEVRRK---------------------------T---------------------------------- 215 (497)
T ss_pred ------CCCCCEEEEECC---------------------------C----------------------------------
T ss_conf ------687630340057---------------------------8----------------------------------
Q ss_pred CCCCCCCCHHHHHHHHHHHHCCCCCCCCCCEECCCCCHHHHHHHHHHH----HHHCCCCC-CCCCHHHHHHHHHHHHHHH
Q ss_conf 686754201322002343201244677200001331016889999998----63023212-4662147899999999863
Q gi|254780991|r 530 ATPGSWELEQCQGIIVEQIIRPTGLVDPPVEIRSARTQVEDVYDEINL----AAQQGLRI-LLTVLTKRMAEDLTEYLYE 604 (805)
Q Consensus 530 atPg~~e~e~~~~~~~eqi~rptg~idp~ieir~~~~qvddl~~ei~~----~~~~~~R~-l~~~~tkr~~e~l~~~~~~ 604 (805)
T Consensus 216 --------------------------------~n~~~~~~dl~~f~~~~~~s~~~~~G~sGIIYC~SR~~~e~~a~~L~~ 263 (497)
T TIGR00614 216 --------------------------------SNTKKILEDLLRFIVKKASSAWEFKGKSGIIYCPSRKKSEQVAAELQK 263 (497)
T ss_pred --------------------------------CCHHHHHHHHHHHHHHHCCCCCCCCCCCEEEECCCCHHHHHHHHHHHH
T ss_conf --------------------------------970258999999987520356524588302752872348999999975
Q ss_pred CCCEEEECCCCCCHHHHHHHHHHHH-CCCCCEEEEHHHHHCCCCCCCCCEEEEECCCCCCCCCCHHHHHHHHHHHCC-CC
Q ss_conf 5966873257645789999999973-189869998458753578777117999628856744460137766543127-99
Q gi|254780991|r 605 RNIRVRYMHSEVKTLERIEIIRDLR-LGKFDVLVGINLLREGLDIPECGLVAILDADKEGFLRSKTSLIQTIGRAAR-NV 682 (805)
Q Consensus 605 ~~i~~~~~h~~~~~~~r~~il~~~~-~g~~diLvgt~~~akGlD~p~v~lV~i~dAD~~~f~~~~~~~~q~~GRagR-~~ 682 (805)
T Consensus 264 ~G~~a~aYHAGl~~~~R~~V~~~f~nrD~~QvVvATvAFGMGInKpdvRfViH~~-----~Pk~~EsYYQE~GRAGRDgl 338 (497)
T TIGR00614 264 LGIAAGAYHAGLEISARKEVQHKFQNRDEIQVVVATVAFGMGINKPDVRFVIHYS-----LPKSMESYYQESGRAGRDGL 338 (497)
T ss_pred CCCEEEHHHCCCCHHHHHHHHHHHHCCCCCEEEEEEEECCCCCCCCCCCEEEEEC-----CCCCCCCCCCCCCCCCCCCC
T ss_conf 5861002402688647789999875038857999872126888763536788507-----88562110135555678973
Q ss_pred CCEEEEEECCCCHH
Q ss_conf 86699982489889
Q gi|254780991|r 683 NSKVILYADTITKS 696 (805)
Q Consensus 683 ~G~~il~ad~~t~~ 696 (805)
T Consensus 339 ~s~c~lfy~~aD~~ 352 (497)
T TIGR00614 339 PSECVLFYAPADIA 352 (497)
T ss_pred CCCEEEEECHHHHH
T ss_conf 20102330435699