HHsearch alignment for GI: 254780814 and conserved domain: cd01030

>cd01030 TOPRIM_TopoIIA_like TOPRIM_TopoIIA_like: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to Saccharomyces cerevisiae Topoisomerase II. TopoIIA enzymes cut both strands of the duplex DNA to remove (relax) both positive and negative supercoils in DNA. These enzymes covalently attach to the 5' ends of the cut DNA, separate the free ends of the cleaved strands, pass another region of the duplex through this gap, then rejoin the ends. These proteins also catenate/ decatenate duplex rings. 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 strand joining and as a general acid in strand cleavage by topisomerases. The DXD motif may co-ordinate Mg2+, a cofactor required for full catalytic function.
Probab=100.00  E-value=0  Score=384.82  Aligned_cols=115  Identities=70%  Similarity=1.108  Sum_probs=113.9

Q ss_pred             EEEEEEECCCCCCCCCCCCCCCCEEEEECCCCCCCHHHCCHHHHHCCHHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEE
Q ss_conf             17999825575432233465443023300562033443058766323667888876257877533212356737389985
Q gi|254780814|r  425 SELFLVEGDSAGGSAKQGRSRENQAILPLRGKILNVERARFDKMLSSQEIGTLITALGTGIGQDSFDINKLRYHKIIIMT  504 (803)
Q Consensus       425 ~eL~ivEGDSAggsak~gRdr~~qai~PLrGKilNv~~a~~~~i~~n~Ei~~l~~~lG~~~g~~~~~~~~lrY~kiiimt  504 (803)
T Consensus         1 c~L~l~EGdSA~g~~~~~rd~~~~gv~pLrGK~lNv~~~~~~ki~~N~Ei~~l~~~LGl~~~~~~~~~~~LRYgkIii~t   80 (115)
T cd01030           1 CELILVEGDSAGGSAKQGRDRVFQAVFPLRGKILNVEKASLKKILKNEEIQNIIKALGLGIGKDDFDLDKLRYGKIIIMT   80 (115)
T ss_pred             CEEEEECCCCCHHHHHHHCCCCCEEEEECCCCCCCHHHCCHHHHHCCHHHHHHHHHHCCCCCCCCCCHHHCCCCCEEEEE
T ss_conf             97999647453455542048675899852781466666889898709789999999677989653536348627448987


Q ss_pred             CCCCCCCCHHHHHHHHHHHHHHHHHHCCEEEEECC
Q ss_conf             08888532899999999963077874895999438
Q gi|254780814|r  505 DADVDGAHIRTLLLTFFFRQMPSLIHNGFLYIIKP  539 (803)
Q Consensus       505 DaD~DG~HI~~Llltff~~~~~~li~~g~~yia~p  539 (803)
T Consensus        81 DaD~DG~HI~~Lll~ff~~~~P~L~~~G~vyi~~T  115 (115)
T cd01030          81 DADVDGSHIRTLLLTFFYRFWPSLLENGFLYIAQT  115 (115)
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHHHHHCCEEEEEEC
T ss_conf             89997579999999999998199998791799859