HHsearch alignment for GI: 254780334 and conserved domain: TIGR02239
>TIGR02239 recomb_RAD51 DNA repair protein RAD51; InterPro: IPR011941 Homologous recombination is an evolutionarily conserved mechanism for the repair of double-strand breaks in DNA and the generation of genetic diversity. The primary function of homologous recombination in mitotic cells is to repair double-strand breaks or single-strand gaps that form as a result of replication fork collapse, from processing of spontaneous damage, and from exposure to DNA-damaging agents. During meiosis, homologous recombination is essential to establish a physical connection between homologous chromosomes to ensure their correct disjunction at the first meiotic division. In addition, the high frequency of meiotic recombination contributes to diversity by creating new linkage arrangements between genes, or parts of genes . The central step of homologous recombination is synapsis, the process of bringing together the two homologous strands. Rad51, a eukaryotic homologue of the prokaryotic recombinase RecA, mediates this process in eukaryotes . Firstly a single-stranded DNA tail is coated by ATP-bound Rad51 to yield a nucleoprotein filament. This filament then searches for a homologous sequence within double-stranded DNA, and catalyses the exchange of strands between the single-stranded and double-stranded DNA substrates. The original broken end of the resulting branched DNA is now aligned with an appropriate matching sequence in an intact duplex, and is further processed by other enzymes . Rad51 contains an N-terminal alpha-helical DNA binding domain not found in RecA, and a RecA-like C-terminal ATPase domain , . The active form of this protein is a long helical filament where the catalytically active unit is a homodimer . ; GO: 0003684 damaged DNA binding, 0005524 ATP binding, 0008094 DNA-dependent ATPase activity, 0006281 DNA repair.
Probab=99.20 E-value=5e-11 Score=99.98 Aligned_cols=210 Identities=23% Similarity=0.341 Sum_probs=147.2
Q ss_pred CCCCCCCCCCCCHHHHHHHCCCCCCCCEEEEECCCCCCHHHHHHHHHHHHH------CCCCCEEEEECCCCHHH--HHHH
Q ss_conf 455666323781248888659857870899954987518899999999985------03981999986463047--8888
Q gi|254780334|r 65 SIEEESRIQTHIDELDRVTGGGFVRGSVILVGGDPGIGKSTLLMQTAASLA------YKKHRITYVSGEEAIGQ--IRLR 136 (479)
Q Consensus 65 ~~~~~~Ri~TGi~eLDrvLGGGl~~Gs~~Li~G~PGvGKSTL~Lqia~~~a------~~g~~vlYvS~EEs~~Q--i~~R 136 (479)
T Consensus 71 ~r~~~~~~~~Gs~~ld~~l~GG~e~Gsite~fGefr~Gk~q~Cht~~vtCql~~~~~G~~G~~lyid~e~tfr~~rl~~~ 150 (317)
T TIGR02239 71 KRKEVIQLTTGSKELDKLLEGGIETGSITEIFGEFRTGKTQLCHTLAVTCQLPVDQGGGEGKALYIDTEGTFRPERLLAI 150 (317)
T ss_pred HHHHHEECCCCHHHHHHHHCCCCCCCCHHHHHCCCCCCCHHHHHHEEEEEEECCCCCCCCCCEEEEECCCCCCHHHHHHH
T ss_conf 77654121035068999860875545032211000166202210011345301236787631688725653106899999
Q ss_pred HHHCCCCCCCHH----EECCCCHHHH------HHHHHHCCCCCEEEECHHHHHHHHHHCCCCCCHH--H--HHHHHHHHH
Q ss_conf 752015775100----0034788999------9999731698289972168766542044556367--9--999999999
Q gi|254780334|r 137 AQRLNTINSSVY----IAIETNVEDI------IATLITNEKPDLVIIDSIQTLWSQTAESSPGTVI--Q--VRTSVQAMI 202 (479)
Q Consensus 137 a~Rl~~~~~~i~----~~~e~~l~~i------l~~~i~~~~~~~vVIDSIQtl~~~~~~s~~Gsvs--Q--vre~~~~L~ 202 (479)
T Consensus 151 a~r~~l~~~~~l~nv~~ara~n~d~q~~ll~~a~~~~~~~~~~l~~vds~~alyr~d~~Gr-gel~~rq~~l~~flr~l~ 229 (317)
T TIGR02239 151 AERYGLNGEDVLDNVAYARAYNTDHQLKLLLQAAALMAESRYALLIVDSATALYRTDYSGR-GELSARQMHLAKFLRSLQ 229 (317)
T ss_pred HHHHCCCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHCCCEEEEHHHHHHHHHCCCCCC-HHHHHHHHHHHHHHHHHH
T ss_conf 9862688778888878876504168999999999988627721451133567763035550-458899999999999999
Q ss_pred HHHHHCCCEEEEEEEECC--CCCC----C-------CHHHHHHHHHEEEEEECCCCCCCCCCEEEEEEEECCCCCCCEEE
Q ss_conf 975307978999863036--6543----3-------11457877530278515556665442156763202567651279
Q gi|254780334|r 203 QYAKKNGVAMVLVGHVTK--EGQI----A-------GPRVIEHMVDAVLYFEGGTRNTQYDYRILRSVKNRFGPTDEIGV 269 (479)
Q Consensus 203 ~~AK~~~i~vilighvTK--~G~i----A-------Gp~~LeH~VD~vl~~ege~~~~~~~~R~Lr~~KNRfG~t~e~gv 269 (479)
T Consensus 230 ~la~~f~vav~~tnqv~~~~dG~~~~~~~~~~~kPiGG~i~ah~s~trl~l~k----G~G~~r~~k~~~sP~l~~~~~-~ 304 (317)
T TIGR02239 230 RLADEFGVAVVITNQVVAQVDGAASAMFAADAKKPIGGNIMAHASTTRLSLRK----GRGEQRICKIYDSPCLPESEA-V 304 (317)
T ss_pred HHHHHCCEEEEEECHHHHCCCCCHHHHHCCCCCCCCCCCEEEECCCEEEEEEC----CCCCCEEEEEECCCCCCCHHH-H
T ss_conf 88863454689742001003540234431445688675123201000234441----777310232310677520134-4
Q ss_pred EEECCCCCEEE
Q ss_conf 98515663110
Q gi|254780334|r 270 FEMSDKGLQEV 280 (479)
Q Consensus 270 f~m~~~Gl~~v 280 (479)
T Consensus 305 f~i~~~G~~d~ 315 (317)
T TIGR02239 305 FAIAEDGIGDA 315 (317)
T ss_pred HHHHHHCCCCC
T ss_conf 43344211223