HHsearch alignment for GI: 254780648 and conserved domain: cd04164
>cd04164 trmE TrmE (MnmE, ThdF, MSS1) is a 3-domain protein found in bacteria and eukaryotes. It controls modification of the uridine at the wobble position (U34) of tRNAs that read codons ending with A or G in the mixed codon family boxes. TrmE contains a GTPase domain that forms a canonical Ras-like fold. It functions a molecular switch GTPase, and apparently uses a conformational change associated with GTP hydrolysis to promote the tRNA modification reaction, in which the conserved cysteine in the C-terminal domain is thought to function as a catalytic residue. In bacteria that are able to survive in extremely low pH conditions, TrmE regulates glutamate-dependent acid resistance.
Probab=100.00 E-value=1.3e-34 Score=229.75 Aligned_cols=150 Identities=23% Similarity=0.269 Sum_probs=123.3
Q ss_pred EEEEECCCCCCCEEEEEECCCCCH-HHHHHHCCCEECCEEEEECCEEEEEECCCCCCCCCCCCCCCH-HHHHHHHHHHHH
Q ss_conf 124421677753035410145401-212110000001026632986899822642124731167751-234433333578
Q gi|254780648|r 162 IGIIGLPNAGKSTFLASVTRAKPK-IADYPFTTLYPNLGIVKEGYKEFILADIPGIIKNAHQGAGIG-DRFLKHTERTHV 239 (335)
Q Consensus 162 VglVG~PNaGKSTLln~ls~ak~k-Ia~ypFTT~~P~lGvv~~~~~~~~i~D~PGlIegA~~~~glG-~~FLrhIer~~v 239 (335)
T Consensus 4 ValvG~pN~GKStL~N~l~g~~~~ivs~~pgtTrd~~~~~~~~~~~~i~l~DTpG~~~~~~~~e~~~~~~~~~~i~~aDl 83 (157)
T cd04164 4 VVIVGKPNVGKSSLLNALAGRDRAIVSDIAGTTRDVIEESIDIGGIPVRLIDTAGIRETEDEIEKIGIERAREAIEEADL 83 (157)
T ss_pred EEEECCCCCCHHHHHHHHHCCCCEEECCCCCEEEECCEEEEEECCEEEEEEECCCCCCCCCHHHHHHHHHHHHHCCCCCE
T ss_conf 99988999989999999968973343288984786326789539988999726775444578999999999863015767
Q ss_pred HHHHCCCCCCCHHHHHHHHHHHHHHHHHHHCCCCEEEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEECCCCCCHHHHH
Q ss_conf 87520222211013466678998777667505988999974658998899999999998629948999888788999999
Q gi|254780648|r 240 LLHIVSALEENVQAAYQCILDELSAYNSELRKKIEIVGLSQIDTVDSDTLARKKNELATQCGQVPFEFSSITGHGIPQIL 319 (335)
Q Consensus 240 Ll~VVD~s~~d~~~~~~~I~~EL~~y~~~L~~Kp~IIVlNKiDl~~~e~~~~~~~~l~~~~~~~vi~ISA~tg~GI~eL~ 319 (335)
T Consensus 84 il~vvD~~~~~~~~~~~~~~--------~~~~~p~i~v~NKiDl~~~~~~~------~~~~~~~vi~ISA~~g~Gi~~L~ 149 (157)
T cd04164 84 VLFVIDASRGLDEEDLEILE--------LPADKPIIVVLNKSDLLPDSELL------SLLAGKPIIAISAKTGEGLDELK 149 (157)
T ss_pred EEEEEECCCCCCHHHHHHHH--------HHCCCCEEEEEECCCCCCCHHHH------HHCCCCCEEEEECCCCCCHHHHH
T ss_conf 99998898778888999998--------51479989999676014866679------85289977999852795999999
Q ss_pred HHHHHH
Q ss_conf 999999
Q gi|254780648|r 320 ECLHDK 325 (335)
Q Consensus 320 ~~I~e~ 325 (335)
T Consensus 150 ~~I~e~ 155 (157)
T cd04164 150 EALLEL 155 (157)
T ss_pred HHHHHH
T ss_conf 999997