HHsearch alignment for GI: 254780229 and conserved domain: TIGR00632
>TIGR00632 vsr DNA mismatch endonuclease Vsr; InterPro: IPR004603 This entry represents VSR (very short patch repair) endonucleases, which occur in a variety of bacteria. VSR recognises a TG mismatched base pair, generated after spontaneous deamination of methylated cytosines, and cleaves the phosphate backbone on the 5' side of the thymine . GT mismatches can lead to C-to-T transition mutations if not repaired. VSR repairs the mismatches in favour of the G-containing strand. In Escherichia coli, this endonuclease nicks double-stranded DNA within the sequence CT(AT)GN or NT(AT)GG next to the thymidine residue, which is mismatched to 2'-deoxyguanosine . The incision is mismatch-dependent and strand specific. The structure of VSR is similar to the core structure of restriction endonucleases, which have a 3-layer alpha/beta/alpha topology . ; GO: 0004519 endonuclease activity, 0006298 mismatch repair.
Probab=95.75 E-value=0.0087 Score=44.00 Aligned_cols=77 Identities=25% Similarity=0.453 Sum_probs=56.8
Q ss_pred CHHHHHHHHHHHHCCCEEE----EC--CCCCCEECCEEEECCCCCCCEEEEEECCCHHHCCCC-----------------
Q ss_conf 9899999999997899897----06--575771012573368988831799974580236832-----------------
Q gi|254780229|r 1663 SDFAVSVVNELEKTGFACD----SQ--LGDMGFSIDVVVRDPNNPGHYLMGIECDGAMYNSAK----------------- 1719 (1775)
Q Consensus 1663 s~fe~~v~~~L~~~G~~v~----~q--vg~~~~riDl~v~~p~~pg~~~l~iecDG~~yh~~~----------------- 1719 (1775)
T Consensus 41 T~pE~~l~s~L~~lGlryRkdfl~~~~~G~~g-~PD~vf------~~~k~~iFidGCFWHg~~C~~~~~~p~s~~~fW~~ 113 (143)
T TIGR00632 41 TKPEKALASLLFALGLRYRKDFLLRDKDGLPG-TPDIVF------KEYKVVIFIDGCFWHGHDCDILGKVPKSRKDFWSP 113 (143)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCC-CCCEEE------CCCEEEEEECCCEECCCCCCCCCCCCCCCHHCCHH
T ss_conf 81789999999998899888987523689854-675443------47358886027300587674014788664230368
Q ss_pred ---CHHHHHHHHHHHHHHCCCCEEEEECHH
Q ss_conf ---486777444899995699099932216
Q gi|254780229|r 1720 ---SARDRDRLRQEVLERMGWRIRRIWSVD 1746 (1775)
Q Consensus 1720 ---~ardrD~~Rq~vLe~~GW~~~Riws~d 1746 (1775)
T Consensus 114 Ki~~N~~RD~~~~~~L~~~GWrv~~vW~~~ 143 (143)
T TIGR00632 114 KIEKNVERDRRVNDALAEEGWRVLRVWECE 143 (143)
T ss_pred HHHHHHHCCCCHHHHHHHCCCEEEEEECCC
T ss_conf 887425303117899984599898961379