>cd00008 53EXOc 5'-3' exonuclease; T5 type 5'-3' exonuclease domains may co-occur with DNA polymerase I (Pol I) domains, or be part of Pol I containing complexes. They digest dsDNA and ssDNA, releasing mono-,di- and tri-nucleotides, as well as oligonucleotides, and have also been reported to possess RNase H activity. Also called 5' nuclease family, involved in structure-specific cleavage of flaps formed by Pol I activity (similar to mammalian flap endonuclease I, FEN-1). A single nucleic acid strand may be threaded through the 5' nuclease enzyme before cleavage occurs. The domain binds two divalent metal ions which are necessary for activity.

Probab=96.42 E-value=0.0051 Score=41.32 Aligned_cols=62 Identities=23% Similarity=0.340 Sum_probs=39.5 Q ss_pred HHHHHHHHHHHHHHHCC---C-CHHCCCCCCHHHHHHHHHHHCCHHHHHHCCHHHHHHCCCCCHHHHHHHHHH Q ss_conf 88788989986432147---7-100488879899999999808889899389888862789998999999998 Q gi|255764496|r 538 HRFAITTHRKRRKKAAY---S-PLDEINGIGPLRKRLLLQSFGTVKMISRSSPETLASIEGISKKIACKIYNH 606 (616) Q Consensus 538 HRFAi~~hRk~r~k~~~---S-~Ld~I~GIG~k~~~~Ll~~Fgs~~~i~~As~eeL~~v~gi~~~~A~~I~~~ 606 (616) T Consensus 162 ~~~gv~p~q~~d~~aL~GD~sDnIpGV~GiG~KtA~kLl~~~gsle~i~~~~-~---~~---~~k~~~~l~~~ 227 (240) T cd00008 162 EKYGVTPAQIIDYKALMGDSSDNIPGVPGIGEKTAAKLLKEYGSLEGILENL-D---KI---KGKLREKLEEG 227 (240) T ss_pred HHCCCCHHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHHHHHCCHHHHHHHH-H---HC---CHHHHHHHHHC T ss_conf 9609899999876997287646889999857899999999809999999829-8---52---78999999968

HHsearch alignment for GI: 255764496 and conserved domain: cd00008