HHsearch alignment for GI: 254780834 and conserved domain: cd01027
>cd01027 TOPRIM_RNase_M5_like TOPRIM_ RNase M5_like: The topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain found in Ribonuclease M5: (RNase M5) and other small primase-like proteins from bacteria and archaea. RNase M5 catalyzes the maturation of 5S rRNA in low G+C Gram-positive bacteria. The TOPRIM domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspartates (DxD). The conserved glutamate may act as a general base in nucleotide polymerization by primases. The DXD motif may co-ordinate Mg2+, a cofactor required for full catalytic function.
Probab=97.84 E-value=4.3e-05 Score=66.47 Aligned_cols=66 Identities=23% Similarity=0.357 Sum_probs=59.8
Q ss_pred CEEEEECCHHHHHHHHHCCCC-CCHHHHHCCCCHHHHHHHHHCCCEEEEEECCCCCCHHHHHHHHHH
Q ss_conf 708997143889998743554-211343213662678988512681899617886622577788888
Q gi|254780834|r 272 SFIILVEGYMDVLSLCQAGVQ-NVVSSLGTALTEYQLRLLWKLSPRIVLCFDGDDPGLRAAYKAIDL 337 (648)
Q Consensus 272 ~~~i~vEGy~Dvi~l~~~G~~-n~va~~Gtalt~~~~~~l~r~~~~vvl~fDgD~AG~kAa~Ra~e~ 337 (648)
T Consensus 2 ~evIvVEGk~D~~~l~~~~~~~~ii~t~g~~~~~~~~~~i~~~~~~VIIlTD~D~~Gekirk~i~~~ 68 (81)
T cd01027 2 GEVIIVEGKNDTESLKKLGIEAEIIETNGSIINKETIELIKKAYRGVIILTDPDRKGEKIRKKLSEY 68 (81)
T ss_pred CEEEEEECCCHHHHHHHHCCCEEEEEECCCCCCHHHHHHHHHHCCCEEEEECCCCCHHHHHHHHHHH
T ss_conf 7699995561899999863781399989903459999999985598599968996707999999998