HHsearch alignment for GI: 254780150 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=99.72 E-value=4.6e-17 Score=124.84 Aligned_cols=145 Identities=23% Similarity=0.280 Sum_probs=99.3
Q ss_pred EEEEEEECCCCCHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHCCCEEEEEEEEEECCCEEEEEEECCCCHHH--------
Q ss_conf 799999046898878999999876444200131268686986292063789998219908999847873024--------
Q gi|254780150|r 13 LGLSTIGHVDHGKTTLTAAITKYYSEEKKEYGDIDSAPEEKLRGITIATAHVSYETDKRFYSHIDCPGHADY-------- 84 (392)
Q Consensus 13 ~ni~~iGhvd~GKSTL~~~L~~~~~~~~~~~~~~D~~~~E~~rGiTi~~~~~~~~~~~~~i~iiD~PGH~~f-------- 84 (392)
T Consensus 2 ~~ValvG~pN~GKStL~N~l~g~~~------~ivs~-----~pgtTrd~~~~~~~~~~~~i~l~DTpG~~~~~~~~e~~~ 70 (157)
T cd04164 2 IKVVIVGKPNVGKSSLLNALAGRDR------AIVSD-----IAGTTRDVIEESIDIGGIPVRLIDTAGIRETEDEIEKIG 70 (157)
T ss_pred CEEEEECCCCCCHHHHHHHHHCCCC------EEECC-----CCCEEEECCEEEEEECCEEEEEEECCCCCCCCCHHHHHH
T ss_conf 7999988999989999999968973------34328-----898478632678953998899972677544457899999
Q ss_pred HHHHHHHHHCCCCEEEEECCCCCCCCCHHHHHHHHHHCCCCCEEEEECCCCCCCCHHHHHHCCCCCCEEEEEEEEEEEEE
Q ss_conf 67798774002331452012344332106778888631876023310023335612221101232100111014532210
Q gi|254780150|r 85 VKNMITGATQADGAILVCAAEDGPKPQTREHILLARQIGISSIVVYMNKVDAVDDDELLDISEYEIRDLLKEHKYSDDTP 164 (392)
Q Consensus 85 ~~~mi~g~~~~D~ailvVda~~G~~~QT~eh~~l~~~lgi~~iIv~iNKmD~v~~~~~~~~i~~~i~~~l~~~~~~~~~p 164 (392)
T Consensus 71 ~~~~~~~i~~aDlil~vvD~~~~~~~~~~~--~~~~~~~~p-~i~v~NKiDl~~~~~~~~~~--------------~~~~ 133 (157)
T cd04164 71 IERAREAIEEADLVLFVIDASRGLDEEDLE--ILELPADKP-IIVVLNKSDLLPDSELLSLL--------------AGKP 133 (157)
T ss_pred HHHHHHHCCCCCEEEEEEECCCCCCHHHHH--HHHHHCCCC-EEEEEECCCCCCCHHHHHHC--------------CCCC
T ss_conf 999986301576799998898778888999--998514799-89999676014866679852--------------8997
Q ss_pred CCCCEEEEEEECCCCCCCCCCCCCHHHHHHC
Q ss_conf 2331146764114445652123320344310
Q gi|254780150|r 165 IIRGSALCALQGTNKELGEDSIHALMKAVDT 195 (392)
Q Consensus 165 ii~~sa~~g~~~~n~~~~~~~~~~Ll~~i~~ 195 (392)
T Consensus 134 vi~ISA~~g~----------Gi~~L~~~I~e 154 (157)
T cd04164 134 IIAISAKTGE----------GLDELKEALLE 154 (157)
T ss_pred EEEEECCCCC----------CHHHHHHHHHH
T ss_conf 7999852795----------99999999999