HHsearch alignment for GI: 254780834 and conserved domain: pfam01751
>pfam01751 Toprim Toprim domain. This is a conserved region from DNA primase. This corresponds to the Toprim domain common to DnaG primases, topoisomerases, OLD family nucleases and RecR proteins. Both DnaG motifs IV and V are present in the alignment, the DxD (V) motif may be involved in Mg2+ binding and mutations to the conserved glutamate (IV) completely abolish DnaG type primase activity. DNA primase EC:2.7.7.6 is a nucleotidyltransferase it synthesizes the oligoribonucleotide primers required for DNA replication on the lagging strand of the replication fork; it can also prime the leading stand and has been implicated in cell division. This family also includes the atypical archaeal A subunit from type II DNA topoisomerases. Type II DNA topoisomerases catalyse the relaxation of DNA supercoiling by causing transient double strand breaks.
Probab=98.83 E-value=1e-08 Score=99.90 Aligned_cols=79 Identities=39% Similarity=0.578 Sum_probs=72.1
Q ss_pred EEEEECCHHHHHHHHHCCC--CCCHHHHHCC-----CCHHHHHHHHHCCCE--EEEEECCCCCCHHHHHHHHHHHHHHHH
Q ss_conf 0899714388999874355--4211343213-----662678988512681--899617886622577788888877753
Q gi|254780834|r 273 FIILVEGYMDVLSLCQAGV--QNVVSSLGTA-----LTEYQLRLLWKLSPR--IVLCFDGDDPGLRAAYKAIDLVLCHLI 343 (648)
Q Consensus 273 ~~i~vEGy~Dvi~l~~~G~--~n~va~~Gta-----lt~~~~~~l~r~~~~--vvl~fDgD~AG~kAa~Ra~e~~l~~l~ 343 (648)
T Consensus 2 ~l~IVE~~~d~~~i~~~~~~~~~~~~~~G~~~~l~~~~~~~~~~l~~~~~~~eViiatD~D~eGe~~a~~l~~~l~~~-- 79 (89)
T pfam01751 2 VLIIVEGPSDAIALAKAGGYKGNVVALLGHLSDVIPLTKEQLKLLKKLAKKDEVILATDPDREGEAIAWKLLELLKPL-- 79 (89)
T ss_pred EEEEECCHHHHHHHHHHCCCCEEEEEEECEECCCCCCCHHHHHHHHHHHCCCEEEEECCCCHHHHHHHHHHHHHHHHC--
T ss_conf 899989889999999624888799984157057655424679999986237749998798948999999999983122--
Q ss_pred CCCCEEEEECC
Q ss_conf 69730675257
Q gi|254780834|r 344 PGNRVNFVLLS 354 (648)
Q Consensus 344 ~g~~v~vv~LP 354 (648)
T Consensus 80 -~~~v~ri~~~ 89 (89)
T pfam01751 80 -GKKVRRIFLP 89 (89)
T ss_pred -CCCEEEEECC
T ss_conf -9816999669