HHsearch alignment for GI: 254780941 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=3.1e-37 Score=260.77 Aligned_cols=154 Identities=29% Similarity=0.409 Sum_probs=133.1
Q ss_pred EEEEECCCCCCHHHHHHHHHCCCEEEECCCCCCEEEEEEEEEEECCEEEEEEECCCCHHHCCCCCCCCCCHHHHHHHHHH
Q ss_conf 89983389986889999986892021058888602127899973994899998798401012357532100234555532
Q gi|254780941|r 24 CVALVGATNAGKSTLVNRFVGAKVSIVTHKVQTTRSIVRGIVSEKESQIVFLDTPGIFNAKDSYHKLMIRLSWSTIKHAD 103 (311)
Q Consensus 24 ~VaivG~pN~GKSTL~N~l~g~~vsivS~k~~TTr~~i~gi~~~~~~qiifvDTPG~~~~~~~l~~~~~~~~~~~l~~aD 103 (311)
T Consensus 3 ~ValvG~pN~GKStL~N~l~g~~~~ivs~~pgtTrd~~~~~~~~~~~~i~l~DTpG~~~~~~~~e~~~~~~~~~~i~~aD 82 (157)
T cd04164 3 KVVIVGKPNVGKSSLLNALAGRDRAIVSDIAGTTRDVIEESIDIGGIPVRLIDTAGIRETEDEIEKIGIERAREAIEEAD 82 (157)
T ss_pred EEEEECCCCCCHHHHHHHHHCCCCEEECCCCCEEEECCEEEEEECCEEEEEEECCCCCCCCCHHHHHHHHHHHHHCCCCC
T ss_conf 99998899998999999996897334328898478632678953998899972677544457899999999986301576
Q ss_pred HHCCCCHHHHHHHCCHHHHHHHHHHCCCCCEEEEEECCCHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHHHHH
Q ss_conf 10011000010000000122345442872025787211010434578888641001233431100013874267899999
Q gi|254780941|r 104 IVCLVVDSHRELKVNIHDLLKEIAKRSSRLILILNKIDCVKPERLLEQAEIANKLVFIEKTFMVSATKGHGCDDVLNYLC 183 (311)
Q Consensus 104 iil~VvDa~~~~~~~~~~il~~l~~~~~p~IiVlNKiDlv~~~~l~~~~~~~~~~~~~~~i~~ISAk~g~Gid~L~~~L~ 183 (311)
T Consensus 83 lil~vvD~~~~~~~~~~~~~~~~--~~~p~i~v~NKiDl~~~~~~~~~-------~~~~~vi~ISA~~g~Gi~~L~~~I~ 153 (157)
T cd04164 83 LVLFVIDASRGLDEEDLEILELP--ADKPIIVVLNKSDLLPDSELLSL-------LAGKPIIAISAKTGEGLDELKEALL 153 (157)
T ss_pred EEEEEEECCCCCCHHHHHHHHHH--CCCCEEEEEECCCCCCCHHHHHH-------CCCCCEEEEECCCCCCHHHHHHHHH
T ss_conf 79999889877888899999851--47998999967601486667985-------2899779998527959999999999
Q ss_pred HHC
Q ss_conf 836
Q gi|254780941|r 184 STL 186 (311)
Q Consensus 184 ~~l 186 (311)
T Consensus 154 e~a 156 (157)
T cd04164 154 ELA 156 (157)
T ss_pred HHC
T ss_conf 972