HHsearch alignment for GI: 254780947 and conserved domain: TIGR01389
>TIGR01389 recQ ATP-dependent DNA helicase RecQ; InterPro: IPR006293 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: 0004003 ATP-dependent DNA helicase activity, 0006310 DNA recombination, 0009432 SOS response.
Probab=97.04 E-value=0.037 Score=35.36 Aligned_cols=243 Identities=21% Similarity=0.292 Sum_probs=178.6
Q ss_pred HHHHCCCCCCEEEECCCCCCHHHHHHHHHHCCCCCEEE-EECHHHHCCCC----CCCCCCEEEEECHH-------HHHHH
Q ss_conf 98606789833541066630256777753122576089-85206542785----20236569972223-------30088
Q gi|254780947|r 695 SERFQGFSVRIASISRFVQTKEAALHKKSITEGQVDIV-IGTHALLNPKI----TFANLGLIIIDEEQ-------HFGVK 762 (1187)
Q Consensus 695 ~~Rf~~~pv~i~~lsRf~~~~e~~~i~~~l~~G~idiv-iGTH~ll~~~v----~f~~LgLliiDEEq-------rFGV~ 762 (1187)
T Consensus 70 Vd~L~~~Gv~Aa~lNSt~s~~E~~~i~~~~~~G~~~LLYvAPERL~~~~Fl~~L~~~~i~L~AvDEAHCvSQWGHDFRPe 149 (607)
T TIGR01389 70 VDQLRAAGVAAAYLNSTLSAKEQQEIEKALVNGELKLLYVAPERLEQDYFLNMLKRLTIALLAVDEAHCVSQWGHDFRPE 149 (607)
T ss_pred HHHHHHCCCEEEEECCCCCHHHHHHHHHHHHCCCEEEEEECCHHHHHHHHHHHHHCCCCEEEEEECCCCCCCCCCCCCHH
T ss_conf 99998607014520377888899999999841981577516713211899988731993089983250216688887565
Q ss_pred HH--HHHHHCCCCCC-EEEEECCCCCHHHH--HHHHCCCCCCEEECCCCCCCCEEEEEEECCHHHHHHHHHHHH--HHCC
Q ss_conf 89--98863167884-89995353408899--997122254122015788775379998579789899999898--7188
Q gi|254780947|r 763 HK--EALKETHTGVH-VLTLSATPIPRTLQ--LAITGVRELSLISMPPINRIACRTSISIFDPLVVRETLMREY--YRGG 835 (1187)
Q Consensus 763 ~K--e~lk~~~~~vd-vLtlsATPIPRTL~--msl~g~rd~S~i~tpP~~R~~v~T~v~~~~~~~i~~ai~rEl--~RgG 835 (1187)
T Consensus 150 Y~~L~~l~~~fp~~P~~iALTATAd~~t~~DI~~~L~L~~~~~f~~-SFdRpNl~~~v~~k~n~--~~~l~~yl~~~~~G 226 (607)
T TIGR01389 150 YRRLGELAERFPQVPTRIALTATADAETRQDIVELLRLKDANEFIS-SFDRPNLRFSVVKKNNK--KKFLLEYLKKHREG 226 (607)
T ss_pred HHHHHHHHHHCCCCCEEEEEECCCCHHHHHHHHHHCCCCCCCCCCC-CCCCHHHHHHHHHHCCC--CHHHHHHHHCCCCC
T ss_conf 8999999986789866998724899878999999708898654125-67751143343120378--13689997507999
Q ss_pred EEEEEECC-CCCHHHHHHHHHHHCCCCCEEEEECCCCHHHHHHHHHHHHCCCCCEEEECCCEECCCCCCCCCEEEEECHH
Q ss_conf 59998264-46928899999861654648886134674789999999963887579761020036332233266762502
Q gi|254780947|r 836 QSFYVCPR-LSDLEKCYTFLQSEVPELKIAMAHGQMSPKNLEDKMNAFYEGQYDVLLSTSIVESGLDLPKANTMIVQRAD 914 (1187)
Q Consensus 836 Qvf~v~nr-v~~i~~~~~~l~~l~p~~~i~vaHGqm~~~~le~~m~~F~~~~~dvLv~TtIiEsGlDip~aNTiii~~ad 914 (1187)
T Consensus 227 ~SGIIYa~sR~~VE~~~~~L~s~--G~~A~~YHAGL~~~~R~e~Q~~Fl~d~~~vmVAT~AFGMGIdKpnVR--FViH~d 302 (607)
T TIGR01389 227 QSGIIYASSRKKVEELAERLESQ--GISALAYHAGLSNKVRAENQEDFLYDDVKVMVATNAFGMGIDKPNVR--FVIHAD 302 (607)
T ss_pred CCEEEECCCHHHHHHHHHHHHHC--CCCEEECCCCCCHHHHHHHHHHHHHHCCEEEEEEECCCCCCCCCCCC--EEEEEC
T ss_conf 53478767704589999999747--96204036798776899997544462554888871235874787654--888636
Q ss_pred HCC-CCHHHHHHHHCCCCCCCCEEEEEECCC
Q ss_conf 358-860455322103567673699996688
Q gi|254780947|r 915 MFG-LAQLYQLRGRVGRSKIASFALFLLPEN 944 (1187)
Q Consensus 915 ~~G-LaqlyQlrGRVGRs~~~ayayl~~~~~ 944 (1187)
T Consensus 303 ~P~~~EsYYQE~GRAGRDGlpae~~lly~~~ 333 (607)
T TIGR01389 303 MPKNIESYYQEAGRAGRDGLPAEAILLYSLA 333 (607)
T ss_pred CCCCHHHHHCCCCCCCCCCCHHHHHHHCCHH
T ss_conf 8742111310355468875267786724777