HHsearch alignment for GI: 254780788 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=91.80  E-value=1.1  Score=24.40  Aligned_cols=90  Identities=22%  Similarity=0.171  Sum_probs=66.4

Q ss_pred             CCCCCHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHCCCCCC
Q ss_conf             25888467888877321114777505888877653058899999999999999999999898775428435664077999
Q gi|254780788|r  365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEELCSIPGID  444 (526)
Q Consensus       365 ~LdVDE~iA~~LV~eGf~SiEeIa~a~~eeL~~IeGfdee~a~eL~~rA~~~L~~~~~~~~e~~~e~~~~e~L~~l~gl~  444 (526)
T Consensus         6 ~~g~~~~d~~~l~~~g~~~~~~~a~~~~k~l~~~~G~~~~k~~~~~~~~~~lv~~gf~~a~~---~~~~r~~~~~~~-~G   81 (317)
T TIGR02239         6 EKGIAAADIKKLKEAGLHTVESVAYAPKKQLLEIKGISEAKADKILAEAAKLVPLGFTTATE---LHKKRKEVIQLT-TG   81 (317)
T ss_pred             HCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHEECC-CC
T ss_conf             30542788999986136789998876555565424730778999999988776543677999---998776541210-35


Q ss_pred             HHHHHHHHHCCCCC
Q ss_conf             89999999879847
Q gi|254780788|r  445 SKIKVALGENGIKT  458 (526)
Q Consensus       445 ~~~~~~L~e~gIkt  458 (526)
T Consensus        82 s~~ld~~l~GG~e~   95 (317)
T TIGR02239        82 SKELDKLLEGGIET   95 (317)
T ss_pred             HHHHHHHHCCCCCC
T ss_conf             06899986087554