HHsearch alignment for GI: 254780233 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=99.02 E-value=7.6e-09 Score=77.27 Aligned_cols=114 Identities=22% Similarity=0.336 Sum_probs=83.9
Q ss_pred CCCC---EEEEECCCCCCHHHHHHHHHHHCCCCCC--CCCCCCEECCCCHHHHHCCCEEEEEEEEEEECCEEEEEECCCC
Q ss_conf 2431---4999854689877889999998396142--3220000038857798709606467999998997999972898
Q gi|254780233|r 17 MQIR---NIAIIAHVDHGKTTLVDELLKQSGVFRD--NQRVSERVMDCNDLEKERGITILAKVTSIVWNDVRINIVDTPG 91 (624)
Q Consensus 17 ~~IR---NiaIiaHvDhGKTTL~d~LL~~sG~~~~--~~~v~~~vmD~~~~EreRGITI~a~~~~~~~~~~~iNiiDTPG 91 (624)
T Consensus 220 ~~l~~g~k~ai~G~~NvGKSSLLNa~l~~DrAiVS~~kGtTRD--------------~vE---~~~~L~G~~~~~lDTAG 282 (473)
T TIGR00450 220 EKLKDGFKLAIVGKPNVGKSSLLNALLKQDRAIVSDIKGTTRD--------------VVE---GDFELNGILVKLLDTAG 282 (473)
T ss_pred HHHCCCCEEEEECCCCCCHHHHHHHHHHCCCEEEECCCCCCCC--------------EEE---EEEEECCEEEEEEECCC
T ss_conf 9840894799964788757899998762287055276688320--------------442---05777467899851467
Q ss_pred CCCCHHHHHH--------HHHHHCEEEEEEECCCCCCHHHHHHHHHHHHCCCCEEEEEECCCCC
Q ss_conf 7540799999--------9874217899997687886478999999997299789999754366
Q gi|254780233|r 92 HADFGGEVER--------ILCMVESVVVLVDAAEGPMPQTKFVVGKALKIGLRPIVVVNKVDRS 147 (624)
Q Consensus 92 H~DF~gEVer--------~l~~~DgaiLvVdA~eGv~~QT~~vl~~A~~~~l~~IvvINKiDr~ 147 (624)
T Consensus 283 iR~~~~~~E~~GiekS~~~i~~A~LVi~~~D~~~~~~~ddf~li~~~~k~~k~~~~V~NK~DL~ 346 (473)
T TIGR00450 283 IREHADKVERLGIEKSFKAIKQADLVIYVLDASQPLTKDDFELIITLNKKKKPLILVLNKIDLA 346 (473)
T ss_pred CCCCHHHHHHHHHHHHHHHHHHCCEEEEEEECCCCCCHHHHHHHHHHHHCCCCEEEEECCCCCC
T ss_conf 5102004667768998999860573478887478988105899999732179779997350165