RPSBLAST alignment for GI: 255764498 and conserved domain: cd00798

>gnl|CDD|29499 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 sequences called arm- and core-sites. The C-terminal domain binds, cleaves and re-ligates DNA strands at the core-sites, while the N-terminal domain is largely responsible for high-affinity binding to the arm-type sites.. Length = 284
 Score =  230 bits (589), Expect = 3e-61
 Identities = 116/285 (40%), Positives = 167/285 (58%), Gaps = 11/285 (3%)

Query: 2   MSSERASSINTLSAYKRDLKEMQNFLNNKEISLSA-ASTNHLISYLNHLSQRKLVTSSQR 60
           ++ ER  S NTL+AY+RDL+    FL  + I   A  + + +  +L  L  + L   S  
Sbjct: 8   LAVERGLSENTLAAYRRDLERFLEFLEERGILFPADVTPDDIRRFLAELKDQGLSARSIA 67

Query: 61  RKISVIRQFYNFLCYEGLRKDNPSDTLELPKKNHILPKTLHKDTIANLLEQAKIEAENPA 120
           RK+S +R F+ FL  EGL   NP++ +E PK    LPK L  + +  LL         P 
Sbjct: 68  RKLSALRSFFKFLLREGLILANPAELIEPPKLKRSLPKVLTIEEVERLLAA-------PD 120

Query: 121 PGQWKRVRIFLLIELLYATGMRVSELVTLSAHTLNLTERTMIIQGKGNKERLVILSPSAL 180
                 +R   L+ELLY+TG+RVSELV L    ++L+   + ++GKGNKER+V L  +A+
Sbjct: 121 GDTPLGLRDRALLELLYSTGLRVSELVGLKLSDVDLSRGLIRVRGKGNKERIVPLGETAV 180

Query: 181 HALQMY-KKTCSSMKMTGNDLWLFPSSTKTGHLSRQVFARDLKALAARAGIQKKNISPHI 239
            ALQ Y +     +   G+   LF +  +   LSR+   + LK  A RAGI+KK ISPH 
Sbjct: 181 EALQRYLEVRRPLLLKVGDSDALFLN-QRGKRLSRRGVWKILKEYARRAGIEKK-ISPHT 238

Query: 240 IRHAFASHLLEGGADLRTIQILLGHTDISTTQIYTHLLPDKLQKL 284
           +RH+FA+HLLE GADLR +Q LLGH  ++TTQIYTH+  + L+++
Sbjct: 239 LRHSFATHLLENGADLRAVQELLGHASLATTQIYTHVSFEHLKEV 283