HHsearch alignment for GI: 254780150 and conserved domain: TIGR00450

>TIGR00450 thdF tRNA modification GTPase TrmE; InterPro: IPR004520 The GTP-binding domain of all TrmE/ThdF orthologues is found in the C-terminal portion of the molecule. The N-terminal half can be removed without affecting the GTP-binding/hydrolysis function of the GTP-binding domain. The last four amino acids of all orthologues of ThdF/TrmE are highly conserved, being either CIGK or CLGK. This matches the Caax (where 'a' represents an aliphatic amino acid, and 'x' represents any amino acid) motif for isoprenylation that anchors small GTP-binding proteins to cell membranes in eukaryotic cells. However, protein isoprenylation has never been shown to occur in bacteria. Interestingly, biochemical experiments have shown that the Escherichia coli TrmE protein peripherally associates with the membrane fraction . Although the biochemical properties of TrmE have been investigated for the E. coli and Thermotoga maritima proteins, nothing is known about the relationship of this protein to tRNA modification. Orthologues of TrmE are present in eukaryotes and bacteria, but are not present in archaea. In Saccharomyces cerevisiae, Mss1p is a nuclear-encoded mitochondrial protein that is the yeast orthologue of TrmE. Mss1p interacts with the 15S rRNA of the yeast mitochondria, which is equivalent to the 16S rRNA of bacteria. Subsequent analysis of the S. cerevisiae MTO1 gene suggests that MSS1 and MTO1 act together in a pathway involved in optimizing mitochondrial protein synthesis. TrmE may play a role in tRNA processing and may be directly or indirectly involved in regulating ribosome function.; GO: 0003924 GTPase activity, 0005525 GTP binding, 0006400 tRNA modification, 0005622 intracellular.
Probab=99.42  E-value=2.6e-12  Score=95.40  Aligned_cols=120  Identities=23%  Similarity=0.326  Sum_probs=88.5

Q ss_pred             HHCCCCEEEEEEEECCCCCHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHCCCEEEEEEEEEECCCEEEEEEECCC---CH
Q ss_conf             210388279999904689887899999987644420013126868698629206378999821990899984787---30
Q gi|254780150|r    6 YVRNKESLGLSTIGHVDHGKTTLTAAITKYYSEEKKEYGDIDSAPEEKLRGITIATAHVSYETDKRFYSHIDCPG---HA   82 (392)
Q Consensus         6 ~~~~k~~~ni~~iGhvd~GKSTL~~~L~~~~~~~~~~~~~~D~~~~E~~rGiTi~~~~~~~~~~~~~i~iiD~PG---H~   82 (392)
T Consensus       219 l~~l~~g~k~ai~G~~NvGKSSLLNa~l~~Dr------AiVS~-----~kGtTRD~vE~~~~L~G~~~~~lDTAGiR~~~  287 (473)
T TIGR00450       219 LEKLKDGFKLAIVGKPNVGKSSLLNALLKQDR------AIVSD-----IKGTTRDVVEGDFELNGILVKLLDTAGIREHA  287 (473)
T ss_pred             HHHHCCCCEEEEECCCCCCHHHHHHHHHHCCC------EEEEC-----CCCCCCCEEEEEEEECCEEEEEEECCCCCCCH
T ss_conf             99840894799964788757899998762287------05527-----66883204420577746789985146751020


Q ss_pred             HHH-----HHHHHHHHCCCCEEEEECCCCCCCCCHHHHHHHHHHCCCCCEEEEECCCCCC
Q ss_conf             246-----7798774002331452012344332106778888631876023310023335
Q gi|254780150|r   83 DYV-----KNMITGATQADGAILVCAAEDGPKPQTREHILLARQIGISSIVVYMNKVDAV  137 (392)
Q Consensus        83 ~f~-----~~mi~g~~~~D~ailvVda~~G~~~QT~eh~~l~~~lgi~~iIv~iNKmD~v  137 (392)
T Consensus       288 ~~~E~~GiekS~~~i~~A~LVi~~~D~~~~~~~ddf~li~~~~k~~-k~~~~V~NK~DL~  346 (473)
T TIGR00450       288 DKVERLGIEKSFKAIKQADLVIYVLDASQPLTKDDFELIITLNKKK-KPLILVLNKIDLA  346 (473)
T ss_pred             HHHHHHHHHHHHHHHHHCCEEEEEEECCCCCCHHHHHHHHHHHHCC-CCEEEEECCCCCC
T ss_conf             0466776899899986057347888747898810589999973217-9779997350165