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