HHsearch alignment for GI: 254780814 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=95.76 E-value=0.0067 Score=41.64 Aligned_cols=79 Identities=24% Similarity=0.310 Sum_probs=48.8
Q ss_pred EEEEEECCCCCCCCCCCCCCCCEEEEECCCCCCCHHHCCHHHHHCCHHHHHHHHHHCCCCCCCCCCCCCCCCCC--EEEE
Q ss_conf 79998255754322334654430233005620334430587663236678888762578775332123567373--8998
Q gi|254780814|r 426 ELFLVEGDSAGGSAKQGRSRENQAILPLRGKILNVERARFDKMLSSQEIGTLITALGTGIGQDSFDINKLRYHK--IIIM 503 (803)
Q Consensus 426 eL~ivEGDSAggsak~gRdr~~qai~PLrGKilNv~~a~~~~i~~n~Ei~~l~~~lG~~~g~~~~~~~~lrY~k--iiim 503 (803)
T Consensus 2 ~l~IVE~~~d~~~i~~~~~~~-~~~~~~~G~~~~l~~------~~~~~~----------------~~l~~~~~~~eViia 58 (89)
T pfam01751 2 VLIIVEGPSDAIALAKAGGYK-GNVVALLGHLSDVIP------LTKEQL----------------KLLKKLAKKDEVILA 58 (89)
T ss_pred EEEEECCHHHHHHHHHHCCCC-EEEEEEECEECCCCC------CCHHHH----------------HHHHHHHCCCEEEEE
T ss_conf 899989889999999624888-799984157057655------424679----------------999986237749998
Q ss_pred ECCCCCCCCHHHHHHHHHHHHHHH
Q ss_conf 508888532899999999963077
Q gi|254780814|r 504 TDADVDGAHIRTLLLTFFFRQMPS 527 (803)
Q Consensus 504 tDaD~DG~HI~~Llltff~~~~~~ 527 (803)
T Consensus 59 tD~D~eGe~~a~~l~~~l~~~~~~ 82 (89)
T pfam01751 59 TDPDREGEAIAWKLLELLKPLGKK 82 (89)
T ss_pred CCCCHHHHHHHHHHHHHHHHCCCC
T ss_conf 798948999999999983122981