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