>gnl|CDD|176479 cd08642, DNA_pol_A_pol_I_A, Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication. Family A polymerase (polymerase I) functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication. DNA-dependent DNA polymerases can be classified in six main groups based upon phylogenetic relationships with E. coli polymerase I (classA), E. coli polymerase II (class B), E.coli polymerase III (class C), euryarchaaeota polymerase II (class D), human polymerase beta (class x), E. coli UmuC/DinB and eukaryotic RAP 30/Xeroderma pigmentosum variant (class Y). Family A polymerase are found primarily in organisms related to prokaryotes and include prokaryotic DNA polymerase I ,mitochondrial polymerase delta, and several bacteriphage polymerases including those from odd-numbered phage (T3, T5, and T7). Prokaryotic Pol Is have two functional domains located on the same polypeptide; a 5'-3' polymerase and 5'-3' exonuclease. Pol I uses its 5' nuclease activity to remove the ribonucleotide portion of newly synthesized Okazaki fragments and DNA polymerase activity to fill in the resulting gap. A combination of phylogenomic and signature sequence-based (or phonetic) approaches is used to understand the evolutionary relationships among bacteria. DNA polymerase I is one of the conserved proteins that is used to search for protein signatures. The structure of these polymerases resembles in overall morphology a cupped human right hand, with fingers (which bind an incoming nucleotide and interact with the single-stranded template), palm (which harbors the catalytic amino acid residues and also binds an incoming dNTP) and thumb (which binds double-stranded DNA) subdomains. Length = 378

 Score =  114 bits (287), Expect = 1e-25
 Identities = 45/95 (47%), Positives = 59/95 (62%), Gaps = 4/95 (4%)

Query: 583 ATSQLMRERT---YGGKLTENIVQAISRDILCEGMKNATKNGYDIVLTVHDEIVSETPDT 639
           A  + ++ER     GGKL ENIVQAI+RD L E M    K GYDIV+ VHDE+V E P+ 
Sbjct: 285 AAKKAVKERKTVKLGGKLVENIVQAIARDCLAEAMLRLEKAGYDIVMHVHDEVVIEVPEG 344

Query: 640 PYFSVGTLCSLMTKNPSWAKGLPLKAEGYEAKRYR 674
              S+  +  +M + P WA GLPL A+G+E+  Y 
Sbjct: 345 EG-SLEEVNEIMAQPPPWAPGLPLNADGFESPYYM 378