HHsearch alignment for GI: 255764498 and conserved domain: cd00798

>cd00798 INT_XerDC XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination of chromosomal replication, and stable plasmid inheritance. They share the same fold in their catalytic domain containing six conserved active site residues and the overall reaction mechanism with the DNA breaking-rejoining enzyme superfamily. In Escherichia coli, the Xer site-specific recombination system acts to convert dimeric chromosomes, which are formed by homologous recombination to monomers. Two related recombinases, XerC and XerD, bind cooperatively to a recombination site present in the E. coli chromosome. Each recombinase catalyzes the exchange of one pair of DNA strand in a reaction that proceeds through a Holliday junction intermediate. These enzymes can bridge two different and well-separated DNA sequen
Probab=92.37  E-value=0.092  Score=29.53  Aligned_cols=37  Identities=22%  Similarity=0.380  Sum_probs=31.1

Q ss_pred             HHHHHHHHH-HCCCCHHHHHHHHHHHHHHHHHHCCCCC
Q ss_conf             999999999-7799843532210112334321000122
Q gi|255764498|r   42 LISYLNHLS-QRKLVTSSQRRKISVIRQFYNFLCYEGL   78 (300)
Q Consensus        42 i~~~~~~l~-~~~~s~~T~~~~~~~l~~~~~~~~~~~~   78 (300)
T Consensus         1 i~~fl~~l~~~r~lS~~T~~~Y~~~l~~f~~~~~~~~~   38 (284)
T cd00798           1 IERFLDYLAVERGLSENTLAAYRRDLERFLEFLEERGI   38 (284)
T ss_pred             CHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHCCC
T ss_conf             97899999998590799999999999999999998299