>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 = 47.9 bits (114), Expect = 4e-06
 Identities = 53/275 (19%), Positives = 103/275 (37%), Gaps = 28/275 (10%)

Query: 71  LKWLISEYRKSAHWGSLAVNSRISFESYFDQIIRKSGDFDYRKITTKHIRSGVES---RK 127
           L +L  E   S +     + +       F + + + G      +T   IR  +     + 
Sbjct: 5   LDYLAVERGLSEN----TLAAYRRDLERFLEFLEERGILFPADVTPDDIRRFLAELKDQG 60

Query: 128 HTPSSAIQFLTSMRVLFKWAVRQEYVAINPCLSVERPKRKTEGIRPWTKEDMQQFKSFWS 187
            +  S  + L+++R  FK+ +R+  +  NP   +E PK K    +  T E++++  +   
Sbjct: 61  LSARSIARKLSALRSFFKFLLREGLILANPAELIEPPKLKRSLPKVLTIEEVERLLAAPD 120

Query: 188 ----EGSQPRLAFEFLLYSGLRCSDSCRAGVQHLQNNIFSIKTQKTG------------- 230
                G + R   E L  +GLR S+     +  +  +   I+ +  G             
Sbjct: 121 GDTPLGLRDRALLELLYSTGLRVSELVGLKLSDVDLSRGLIRVRGKGNKERIVPLGETAV 180

Query: 231 TIITVELPDGFMKLLAMTPIGKETFFINNDKQKMNATQFSIWFKAKATKAGVNK--SAHG 288
             +   L      LL +     +  F+N   ++++        K  A +AG+ K  S H 
Sbjct: 181 EALQRYLEVRRPLLLKVGDS--DALFLNQRGKRLSRRGVWKILKEYARRAGIEKKISPHT 238

Query: 289 VRKFSATISADAGATAHELMATYGWKTVDQAETYT 323
           +R   AT   + GA    +    G  ++   + YT
Sbjct: 239 LRHSFATHLLENGADLRAVQELLGHASLATTQIYT 273