HHsearch alignment for GI: 254780382 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=100.00 E-value=0 Score=414.49 Aligned_cols=327 Identities=25% Similarity=0.370 Sum_probs=260.7
Q ss_pred HHHHH-CCCCCCCHHHHHHHHHHHCCCCEEEECCCCCCHHHHHHHHHHHHHHCCCCCCCCCEEEEECCCHHHHHHHHHHH
Q ss_conf 99997-87987898999999999769979998279851789999999999860652147827999828589999999998
Q gi|254780382|r 14 CAVLD-AGYVKPTPIQIKTIPLVLQRHDVCGIAQTGTGKTASFVLPMLTILEKGRARVRMPRTLILEPTRELAAQVADNF 92 (465)
Q Consensus 14 ~~l~~-~~~~~pt~iQ~~~i~~~l~g~dvi~~apTGsGKT~~~~lp~l~~l~~~~~~~~~~~~lil~PtreLa~Qi~~~~ 92 (465)
T Consensus 3 ~~L~~~FGY~~FR~gQe~II~~vL~g~~~l~vmPTGGGKSlCYQ~PALl--l~G-------lt~VISPLIsLMkDQVd~L 73 (607)
T TIGR01389 3 QVLKETFGYDDFRGGQEEIIEHVLDGRDVLVVMPTGGGKSLCYQVPALL--LKG-------LTVVISPLISLMKDQVDQL 73 (607)
T ss_pred CHHHHHCCCCCCCCHHHHHHHHHHCCCCEEEECCCCCCHHHHHHHHHHH--HCC-------CEEEECCHHHHHHHHHHHH
T ss_conf 0204446877677315899999847798589738998512777217887--289-------8799842363147799999
Q ss_pred HHHCCCCCCCCCCCCCCCCCCCCCCCC---C-CHHHHHHCCCCHHHHHHHCCCCCCCCCEEECCCCCCCCCCCC--CHHH
Q ss_conf 741023332210000122222222222---1-011221022102333320000001210010255100000001--0035
Q gi|254780382|r 93 EKYGKNYNLTVALLIGGIPFEAQNKKL---E-RGADVLICTPGRILDHFNRGKLLMNNIEILVIDEADRMLDMG--FIPY 166 (465)
Q Consensus 93 ~~~~~~~~l~~~~~~gg~~~~~~~~~l---~-~~~~IiV~TP~rl~~~l~~~~~~l~~~~~lViDEah~l~~~g--f~~~ 166 (465)
T Consensus 74 ~~----~Gv~Aa~lNSt~s~~E~~~i~~~~~~G~~~LLYvAPERL~~~~Fl~~L~~~~i~L~AvDEAHCvSQWGHDFRPe 149 (607)
T TIGR01389 74 RA----AGVAAAYLNSTLSAKEQQEIEKALVNGELKLLYVAPERLEQDYFLNMLKRLTIALLAVDEAHCVSQWGHDFRPE 149 (607)
T ss_pred HH----CCCEEEEECCCCCHHHHHHHHHHHHCCCEEEEEECCHHHHHHHHHHHHHCCCCEEEEEECCCCCCCCCCCCCHH
T ss_conf 86----07014520377888899999999841981577516713211899988731993089983250216688887565
Q ss_pred HHHHH---HHHCCCCCCCCCCCCCCCCCCCCCCCCC--CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHCCCC
Q ss_conf 78875---4310222223334321122221111222--221001344432123464211111222211024443210122
Q gi|254780382|r 167 IQNIT---SLVPFTRQTLLFSATMTDELQKVSENFL--QNPKRIEVNTPSSTAETIEHCFVATYAQYSKKCALLQQLLQS 241 (465)
Q Consensus 167 i~~i~---~~~~~~~q~i~~SAT~~~~v~~l~~~~l--~~~~~i~v~~~~~~~~~i~~~~~~~~~~~~~k~~~l~~l~~~ 241 (465)
T Consensus 150 Y~~L~~l~~~fp~~P~~iALTATAd~~t~~DI~~~L~L~~~~~f-~~SF--dRpNl~~~v---~~k~n~~~~l~~yl-~~ 222 (607)
T TIGR01389 150 YRRLGELAERFPQVPTRIALTATADAETRQDIVELLRLKDANEF-ISSF--DRPNLRFSV---VKKNNKKKFLLEYL-KK 222 (607)
T ss_pred HHHHHHHHHHCCCCCEEEEEECCCCHHHHHHHHHHCCCCCCCCC-CCCC--CCHHHHHHH---HHHCCCCHHHHHHH-HC
T ss_conf 89999999867898669987248998789999997088986541-2567--751143343---12037813689997-50
Q ss_pred CCCCCEEEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHCCCCCEEEEEHHHHHHHHCCCCCCEEEEEC
Q ss_conf 34565067762134432222222222332222234542033323444420135523888846646440788765002002
Q gi|254780382|r 242 QDTMKNGIIFCNQKKNVVNLCHSLEKQGFSVCAIHGNIDQRSRMKILSNFKEGTIQLMVASDLAARGLDIPDVGHVFNFD 321 (465)
Q Consensus 242 ~~~~~k~iIF~~t~~~~~~l~~~L~~~g~~v~~lhg~l~~~~R~~~~~~F~~g~~~vLV~Td~~~~GiDip~v~~VI~~d 321 (465)
T Consensus 223 ~~~G~SGIIYa~sR~~VE~~~~~L~s~G~~A~~YHAGL~~~~R~e~Q~~Fl~d~~~vmVAT~AFGMGIdKpnVRFViH~d 302 (607)
T TIGR01389 223 HREGQSGIIYASSRKKVEELAERLESQGISALAYHAGLSNKVRAENQEDFLYDDVKVMVATNAFGMGIDKPNVRFVIHAD 302 (607)
T ss_pred CCCCCCEEEECCCHHHHHHHHHHHHHCCCCEEECCCCCCHHHHHHHHHHHHHHCCEEEEEEECCCCCCCCCCCCEEEEEC
T ss_conf 79995347876770458999999974796204036798776899997544462554888871235874787654888636
Q ss_pred CCCCHHHHHHHHHCCCCCCCCEEEEEEECHHHHHHHHHH
Q ss_conf 467789988752102458885399997788899999999
Q gi|254780382|r 322 VPNRAENYIHRIGRTGRAGRHGKAFTLVAKEDIKHIDAI 360 (465)
Q Consensus 322 ~P~~~~~y~hR~GR~gR~g~~G~~i~~~~~~d~~~~~~i 360 (465)
T Consensus 303 ~P~~~EsYYQE~GRAGRDGlpae~~lly~~~D~~l~~~~ 341 (607)
T TIGR01389 303 MPKNIESYYQEAGRAGRDGLPAEAILLYSLADIALLKRF 341 (607)
T ss_pred CCCCHHHHHCCCCCCCCCCCHHHHHHHCCHHHHHHHHHH
T ss_conf 874211131035546887526778672477789999999