HHsearch alignment for GI: 254780222 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=96.02 E-value=0.0074 Score=38.90 Aligned_cols=78 Identities=33% Similarity=0.317 Sum_probs=49.7
Q ss_pred EEEEECCCC-CCCCHHHCCCCCCEEEEEECCEECCHHHHHHHHHHCCHHHHHHHHHHCCCCCCCCCCCCCCCCC--EEEE
Q ss_conf 799732767-6421001011222012211231314454108776322889999988256654333334655251--8999
Q gi|254780222|r 465 ELFIVEGDS-AGGSAKQARNRSNQAVLPLRGKILNVASAGSEKIRNNQQIMDLVQALGCRTRSQYREEDLRYEK--VIIM 541 (686)
Q Consensus 465 eL~lvEGDS-A~gsAk~grdr~~qgi~PLRGKiLNv~~as~~ki~~N~Ei~~l~~~lGl~~g~~~~~~~LRYgk--IiIm 541 (686)
T Consensus 2 ~l~IVE~~~d~~~i~~~~~~--~~~~~~~~G~~~~l~~------~~~~~~~~l~---------------~~~~~~eViia 58 (89)
T pfam01751 2 VLIIVEGPSDAIALAKAGGY--KGNVVALLGHLSDVIP------LTKEQLKLLK---------------KLAKKDEVILA 58 (89)
T ss_pred EEEEECCHHHHHHHHHHCCC--CEEEEEEECEECCCCC------CCHHHHHHHH---------------HHHCCCEEEEE
T ss_conf 89998988999999962488--8799984157057655------4246799999---------------86237749998
Q ss_pred ECCCCCCHHHHHHHHHHHHHHHHH
Q ss_conf 779877146889999999987088
Q gi|254780222|r 542 TDADVDGAHIASLLLTFFYQEMYD 565 (686)
Q Consensus 542 TDaD~DGsHI~~Lll~ff~~~~p~ 565 (686)
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