>cd06266 RNaseH_typeII Ribonuclease H type II. Ribonuclease H (RNase H) is classified into two families, type I (prokaryotic RNase HI, eukaryotic RNase H1 and viral RNase H) and type II (prokaryotic RNase HII and HIII, and eukaryotic RNase H2/HII). RNase H endonucleolytically hydrolyzes an RNA strand when it is annealed to a complementary DNA strand in the presence of divalent cations, in DNA replication and repair. The enzyme can be found in bacteria, archaea, and eukaryotes. Most prokaryotic and eukaryotic genomes contain multiple RNase H genes, however, no prokaryotic genome contained the combination of only RNase HI and HIII. Despite a lack of evidence for homology from sequence comparisons, type I and type II RNase H share a common fold and similar steric configurations of the four acidic active-site residues, suggesting identical or very similar catalytic mechanisms. It appears that type I and type II RNases H also have overlapping functions in cells, as over-expression of Escheri

Probab=100.00 E-value=0 Score=389.53 Aligned_cols=179 Identities=53% Similarity=0.779 Sum_probs=167.3 Q ss_pred EEEECCCCCCCCCCEEEEEEEECCCCC----CCCCCCCCCCCHHHHHHHHHHHCCCC-EEEEECCCHHHHHHHCHHHHHH Q ss_conf 998427877752225599999870108----23311520289999987552110123-0788515679985204799988 Q gi|254781076|r 27 AGIDEVGRGALAGPVVVAAIILDPNNI----PFGINDSKKISHKKREELYEKITSSA-IISISSASHQYIDKHNIHKATL 101 (209) Q Consensus 27 iGvDEaGRG~~~GPlvvaav~~~~~~~----~~~i~DSK~Ls~~~R~~l~~~i~~~~-~~~i~~~~~~eID~~ni~~A~~ 101 (209) T Consensus 1 ~GiDEaGRG~~~GP~vvaav~~~~~~~~~l~~~gv~DSK~Ls~~kR~~l~~~I~~~~~~~~v~~~s~~~Id~~ni~~~~~ 80 (193) T cd06266 1 AGIDEAGRGPLAGPVVAAAVILPKENIEILKILGVKDSKKLSEKKREELFEEIKEEALAYAIGIISPEEIDELNILQATA 80 (193) T ss_pred CCCCCCCCCCCCCCEEEEEEEECHHHHHHHHHCCCCCHHHCCHHHHHHHHHHHCCCCEEEEEEECCHHHHHHCCHHHHHH T ss_conf 99857786772044068999981354003432577511018999999998752356448999967899997557899999 Q ss_pred HHHHHHCCCCCCCCCCCCCCCCCCCC--------CCCEEEEEECCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCCCC Q ss_conf 65432100257532110126532246--------6212268711478652002366665477589999999887779881 Q gi|254781076|r 102 DAIYHAVENLQVIPRSALIDGRSIPE--------DLPCQAFAVIKGDSISLSIAAASIIAKVTRDRLMRIAHKKYPDYGF 173 (209) Q Consensus 102 ~a~~~ai~~l~~~~~~ilIDg~~~~~--------~~~~~~~~i~KgD~~~~~VaaASIiAKv~RD~~m~~l~~~~p~Ygf 173 (209) T Consensus 81 ~~~~~ai~~l~~~~~~v~vD~~~~~~~~~~~~~~~~~~~~~~~~kaD~~~~~VaAASIiAKv~RD~~m~~l~~~~p~y~~ 160 (193) T cd06266 81 LAMARAILNLGVKPDEVLVDGNGVPEKYFALEKKFLPIPVTAIVKGDSKSPSVAAASILAKVTRDRLMEELDEEYPGYGF 160 (193) T ss_pred HHHHHHHHHCCCCCCEEEECCCCCHHHHHHHHCCCCCCCEEEEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCC T ss_conf 99999999648999999989999827776542026898717886155421788899999999999999999987879998 Q ss_pred CCCCCCCCHHHHHHHHHCCCC-CCCCCCHHHHH Q ss_conf 028999998999999982858-30107848886 Q gi|254781076|r 174 DSHVGYPTAKHQQVIKEKGPS-CIHRLTFRPLR 205 (209) Q Consensus 174 ~~nkGYgT~~H~~ai~~~G~~-~~HR~Sf~~vk 205 (209) T Consensus 161 ~~g~GY~t~~h~~~~~~~g~~~~~hR~sf~~~~ 193 (193) T cd06266 161 AKGKGYPTDPHTEAILKYGPTEPIHRRSFKTVK 193 (193) T ss_pred CCCCCCCCHHHHHHHHHHCCCCHHHCCCCCCCC T ss_conf 577583999999999986859566566876869

HHsearch alignment for GI: 254781076 and conserved domain: cd06266