HHsearch alignment for GI: 254780332 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=97.04 E-value=0.018 Score=38.25 Aligned_cols=172 Identities=20% Similarity=0.270 Sum_probs=104.1
Q ss_pred CCCCCCCCCHHHHHHH-HHHCCCCEEEEECCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCEEEEEECCCCHHH
Q ss_conf 3664432101377655-641677267762131002769999999999851011123333321247975899958521799
Q gi|254780332|r 198 RLAGVSTGIQTLDKQM-GGLQRSDLIIIAGRPGMGKTSLATNIAYNVADAYKAELQTDGSYKTINGGIVGFYSLEMSSEQ 276 (504)
Q Consensus 198 ~~~Gi~TG~~~LD~~~-gGl~~G~l~Viaarpg~GKTalalniA~~~A~~~~~~~~~~~~~~~~~g~~Vl~fSlEMs~~e 276 (504)
T Consensus 74 ~~~~~~~Gs~~ld~~l~GG~e~Gsite~fGefr~Gk~q~Cht~~vtCql~--------~~~~G~~-G~~lyid~e~tfr- 143 (317)
T TIGR02239 74 EVIQLTTGSKELDKLLEGGIETGSITEIFGEFRTGKTQLCHTLAVTCQLP--------VDQGGGE-GKALYIDTEGTFR- 143 (317)
T ss_pred HHEECCCCHHHHHHHHCCCCCCCCHHHHHCCCCCCCHHHHHHEEEEEEEC--------CCCCCCC-CCEEEEECCCCCC-
T ss_conf 54121035068999860875545032211000166202210011345301--------2367876-3168872565310-
Q ss_pred HHHHHHHHHHHHCCCCCCCCCCCHHH-HHHHHHHHHHHHHCCEEEECCCCCCHHHHHHHHHHHCCCCCCCEEEECCHHHC
Q ss_conf 98789999874101100012137688-99899999998627807825899889999998864022444746776713532
Q gi|254780332|r 277 LATRIISEQTEVPSSKIRRGELTRPD-YEKIVACSQVMQKLPLYIDQTGGISMSQLATRARRLKRQRGLDLLIVDYIQLM 355 (504)
Q Consensus 277 l~~R~is~~s~I~~~~i~~g~l~~~e-~~~i~~a~~~l~~~~l~I~d~~~~ti~~I~~~~r~~~~~~gi~~vvIDYLqli 355 (504)
T Consensus 144 -~~rl~~~a~r~~l~--------~~~~l~nv~~ara----~n---~d----~q~~ll~~a~~~~~~~~~~l~~vds~~al 203 (317)
T TIGR02239 144 -PERLLAIAERYGLN--------GEDVLDNVAYARA----YN---TD----HQLKLLLQAAALMAESRYALLIVDSATAL 203 (317)
T ss_pred -HHHHHHHHHHHCCC--------HHHHHHHHHHHHH----HC---HH----HHHHHHHHHHHHHHHCCCEEEEHHHHHHH
T ss_conf -68999999862688--------7788888788765----04---16----89999999999886277214511335677
Q ss_pred -CCC--CC-CCCHHHHHHHHHHHHHHHHHHHHCCCEEEEEECCCCCCC
Q ss_conf -566--44-321137889999999999998827919997713822016
Q gi|254780332|r 356 -TTS--KK-IEENRVLEITGITMALKALAKELNIPIIALSQLSRQVEN 399 (504)
Q Consensus 356 -~~~--~~-~~~~r~~~i~~is~~lK~lA~e~~ipvi~lsQLnR~~e~ 399 (504)
T Consensus 204 yr~d~~Grgel~~rq~~l~~flr~l~~la~~f~vav~~tnqv~~~~dG 251 (317)
T TIGR02239 204 YRTDYSGRGELSARQMHLAKFLRSLQRLADEFGVAVVITNQVVAQVDG 251 (317)
T ss_pred HHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHCCEEEEEECHHHHCCCC
T ss_conf 630355504588999999999999998886345468974200100354