>cd06590 RNaseH_typeII_bacteria_HIII_like bacterial Ribonuclease HIII-like. 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). 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. Several bacteria, such as Bacillus subtilis, have two different type II RNases H, RNases HII and HIII. RNases HIII are distinguished by having a large (70-90 residues) N-terminal extension of unknown function. In addition, the active site of RNase HIII differs from that of other RNases H; replacing the fourth residue (aspartate) of the acidic "DEDD" motif with a glutamate. Most prokaryotic and eukaryotic genomes contain multiple RNase H genes, however, no prokaryotic genomes contain the combination of both RNase HI and HIII. This mutual exclusive gen

Probab=100.00 E-value=0 Score=338.80 Aligned_cols=178 Identities=30% Similarity=0.358 Sum_probs=147.5 Q ss_pred EEEECCCCCCCCCCEEEEEEEECCCCC----CCCCCCCCCCCHHHHHHHHHHHCCCCEEEEECCCHHHHHHHCHHHH--- Q ss_conf 998427877752225599999870108----2331152028999998755211012307885156799852047999--- Q gi|254781076|r 27 AGIDEVGRGALAGPVVVAAIILDPNNI----PFGINDSKKISHKKREELYEKITSSAIISISSASHQYIDKHNIHKA--- 99 (209) Q Consensus 27 iGvDEaGRG~~~GPlvvaav~~~~~~~----~~~i~DSK~Ls~~~R~~l~~~i~~~~~~~i~~~~~~eID~~ni~~A--- 99 (209) T Consensus 1 IGiDEaGRG~l~GPvv~aav~~~~~~~~~l~~lgv~DSKkLs~kkR~~l~~~I~~~~~~~~~~~~~~~~n~~~~~~~n~n 80 (208) T cd06590 1 IGSDEVGKGDYFGPLVVAAVYVDKENISKLKKLGVKDSKKLTDKKIIRLAPKIKKKIPYSVLSLGPEKYNELYKKGKNLN 80 (208) T ss_pred CCCCCCCCCCCHHCCEEEEEEECHHHHHHHHHCCCCCHHHCCHHHHHHHHHHHHHHCCEEEEEECHHHHHHHHHHHHHHH T ss_conf 98767787765102078999986575477876598532125899999999999984866899987899999998798899 Q ss_pred --HHHHHHHHCCCCC---CCCCCCCCCCCCCC-----------CCCCEEEEEECCCCCCCHHHHHHHHHHHHHHHHHHHH Q ss_conf --8865432100257---53211012653224-----------6621226871147865200236666547758999999 Q gi|254781076|r 100 --TLDAIYHAVENLQ---VIPRSALIDGRSIP-----------EDLPCQAFAVIKGDSISLSIAAASIIAKVTRDRLMRI 163 (209) Q Consensus 100 --~~~a~~~ai~~l~---~~~~~ilIDg~~~~-----------~~~~~~~~~i~KgD~~~~~VaaASIiAKv~RD~~m~~ 163 (209) T Consensus 81 ~~~~~~~~~ai~~~~~~~~~~~~v~iD~~~~~~~~~~~l~~~~~~~~~~~~~~~KgD~k~~~VaAASIiAKv~rd~~m~~ 160 (208) T cd06590 81 KLKALLHNKAINNLLEKPKKPVAILIDQFASEKVYKRYLKKEKKIVKEPLIFRTKAESKHLAVAAASILARYAFLEKMEK 160 (208) T ss_pred HHHHHHHHHHHHHHHHCCCCCCEEEECCCCCCHHHHHHHHCCCCCCCCCEEEEECHHHHHHHHHHHHHHHHHHHHHHHHH T ss_conf 99999999999999836899998998898870478898731367889876998223332278899999999999999999 Q ss_pred HHHHCCCCCCCCCCCCCCHHHHHH---HHHCCCCCCCCC---CHHHHHHH Q ss_conf 988777988102899999899999---998285830107---84888640 Q gi|254781076|r 164 AHKKYPDYGFDSHVGYPTAKHQQV---IKEKGPSCIHRL---TFRPLRNL 207 (209) Q Consensus 164 l~~~~p~Ygf~~nkGYgT~~H~~a---i~~~G~~~~HR~---Sf~~vk~l 207 (209) T Consensus 161 l~~~---Yg~~~~kGyGt~~~~~a~~~i~~yG~~~lhr~~k~~f~~~k~~ 207 (208) T cd06590 161 LSKQ---YGMKLPKGASSKVDEQAAEIIKKYGLEELKKVAKLHFKNTKKA 207 (208) T ss_pred HHHH---CCCCCCCCCCCHHHHHHHHHHHHHCCHHHHHHHHHHCHHHHHH T ss_conf 8786---4987688998288999999999849618788998702158750

HHsearch alignment for GI: 254781076 and conserved domain: cd06590