HHsearch alignment for GI: 254780634 and conserved domain: TIGR02143

>TIGR02143 trmA_only tRNA (uracil-5-)-methyltransferase; InterPro: IPR011869 This family consists exclusively of proteins believed to act as tRNA (uracil-5-)-methyltransferase. All members of this entry belong to the Proteobacteria. ; GO: 0009021 tRNA (uracil-5-)-methyltransferase activity, 0008033 tRNA processing.
Probab=97.41  E-value=0.00079  Score=45.76  Aligned_cols=123  Identities=23%  Similarity=0.399  Sum_probs=100.0

Q ss_pred             CCCCCCCCCCCEEEECCCCCCHHHHHHHHHHCCCCEEHHHHCCHHHHHHHHHHHHHCCCCCCEEE-----------ECCC
Q ss_conf             21123666662586013468827999999861688100552498999999999875028860882-----------1554
Q gi|254780634|r  223 VSNLTAITNSSQILDFCAGGGGKTLALSMLLNNKGQIHAWDNNKSRMAPIVARIKRAGIHNVQLH-----------SSWE  291 (429)
Q Consensus       223 ~~~~l~~~~g~~vLD~CAapGGKt~~la~~~~~~g~i~A~D~~~~Rl~~l~~~~~r~g~~~v~~~-----------~~~~  291 (429)
T Consensus       195 A~~~~~~~~g~DLLELYCGNGNFsLaLA~~f~---rVLATEiaK~SV~aAq~Ni~~N~idNv~i~RlSAEEft~A~~~~R  271 (361)
T TIGR02143       195 ALEVTQNSKGMDLLELYCGNGNFSLALAQNFE---RVLATEIAKPSVNAAQYNIAANKIDNVQIIRLSAEEFTEAMNGVR  271 (361)
T ss_pred             HHHHHCCCCCCCCCEEECCCCCCHHHHHHHHH---HHHHHHCCCCCHHHHHHHHHCCCCCCEEHHHHHHHHHHHHHCCCC
T ss_conf             99983588887201000267531044565333---455430240247999999871798831010232799999860377


Q ss_pred             CCCCCC--C------CCCEEEECCCCCCCHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHCCCCEEEEEECCCCH
Q ss_conf             344572--3------24678962754450444442236672496789999998789999999960898389997758882
Q gi|254780634|r  292 SLRNLQ--E------HFTTVLVDAPCSGTGTWRRRPDIKWRLSQKNLIERTEEQKKILEESAQFVRPEGYLVYITCSILP  363 (429)
Q Consensus       292 ~~~~~~--~------~fd~vl~DaPCSg~G~~rr~Pe~~w~~~~~~~~~~~~lQ~~iL~~a~~~lk~gG~lvYsTCS~~~  363 (429)
T Consensus       272 ~F~RL~d~gIdL~~Y~f~tiFVDPPRaGl-------------D~---------------~t~~Lv~~y~rIlYISC--NP  321 (361)
T TIGR02143       272 EFRRLKDGGIDLKSYNFNTIFVDPPRAGL-------------DP---------------DTVKLVQKYERILYISC--NP  321 (361)
T ss_pred             CCCCCCCCCCCCCCCCCCEEEECCCCCCC-------------CH---------------HHHHHHHHCCCEEEEEC--CH
T ss_conf             65465668863342025602677988888-------------98---------------99999962598799846--96


Q ss_pred             HHCHHHHHHHHHHCC
Q ss_conf             429998999998579
Q gi|254780634|r  364 EENIQQINYFLSKNP  378 (429)
Q Consensus       364 ~Ene~vv~~fL~~~~  378 (429)
T Consensus       322 ~TL~~NL~~L~~TH~  336 (361)
T TIGR02143       322 ETLKENLEQLSETHR  336 (361)
T ss_pred             HHHHHHHHHHHHCCE
T ss_conf             899999998860653