HHsearch alignment for GI: 254780834 and conserved domain: cd01029

>cd01029 TOPRIM_primases TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG type primases are often closely associated with DNA helicases in primosome assemblies. The TOPRIM domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspartates (DxD). This glutamate and two aspartates, cluster together to form a highly acid surface patch. 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. The prototypical bacterial primase. Escherichia coli DnaG is a single subunit enzyme.
Probab=99.31  E-value=6.8e-12  Score=129.01  Aligned_cols=77  Identities=52%  Similarity=0.796  Sum_probs=70.3

Q ss_pred             EEEEECCHHHHHHHHHCCCCCCHHHHHCCCCHHHHHHHHHCCCEEEEEECCCCCCHHHHHHHHHHHHHHHHCCCCEEEEE
Q ss_conf             08997143889998743554211343213662678988512681899617886622577788888877753697306752
Q gi|254780834|r  273 FIILVEGYMDVLSLCQAGVQNVVSSLGTALTEYQLRLLWKLSPRIVLCFDGDDPGLRAAYKAIDLVLCHLIPGNRVNFVL  352 (648)
Q Consensus       273 ~~i~vEGy~Dvi~l~~~G~~n~va~~Gtalt~~~~~~l~r~~~~vvl~fDgD~AG~kAa~Ra~e~~l~~l~~g~~v~vv~  352 (648)
T Consensus         2 ~v~i~EG~~Dals~~~~g~~~~va~~G~~~~~~~~~~l~~~~~~vii~~D~D~aG~~~~~~~~~~~~~~---~~~~~i~~   78 (79)
T cd01029           2 EVIIVEGYMDVLALHQAGIKNVVAALGTANTEEQLRLLKRFARTVILAFDNDEAGKKAAARALELLLAL---GGRVRVPP   78 (79)
T ss_pred             EEEEEECHHHHHHHHHCCCCCCCCCCCCCCCHHHHHHHHCCCCCEEEEECCCHHHHHHHHHHHHHHHHC---CCEEEEEE
T ss_conf             399996479999999718654425887677499999985557765999688899999999999999977---99699851