HHsearch alignment for GI: 254780484 and conserved domain: cd04163

>cd04163 Era Era subfamily. Era (E. coli Ras-like protein) is a multifunctional GTPase found in all bacteria except some eubacteria. It binds to the 16S ribosomal RNA (rRNA) of the 30S subunit and appears to play a role in the assembly of the 30S subunit, possibly by chaperoning the 16S rRNA. It also contacts several assembly elements of the 30S subunit. Era couples cell growth with cytokinesis and plays a role in cell division and energy metabolism. Homologs have also been found in eukaryotes. Era contains two domains: the N-terminal GTPase domain and a C-terminal domain KH domain that is critical for RNA binding. Both domains are important for Era function. Era is functionally able to compensate for deletion of RbfA, a cold-shock adaptation protein that is required for efficient processing of the 16S rRNA.
Probab=99.98  E-value=7.4e-31  Score=196.55  Aligned_cols=165  Identities=22%  Similarity=0.316  Sum_probs=122.4

Q ss_pred             CEEEEECCCCCCHHHHHHHHHCCCCEEEECCCCCEEEECCEEEEEEEEEEEECCCEEEEEECCHHHHHHHHHHHHHHHHH
Q ss_conf             68999748998898999997389737987388841452120266555678508964999976001011122447898888
Q gi|254780484|r   30 PEIAFSGRSNVGKSSLINILVNRKNLARTSNAPGRTQHLNFFVPKDFSNLKNNLPAMALVDMPGYGYARAPKKNVDSWGG  109 (212)
Q Consensus        30 p~VaivG~~NvGKSSLiNaL~g~~~~a~~~~~p~tt~~~~~~~~~~~~~~~~~~~~~~~~DtpG~~~~~~~~~~~~~~~~  109 (212)
T Consensus         4 ~~V~ivG~pN~GKSsL~N~L~~~~-~a~vs~~~gtTr~~------~~~~~~~~~~~~~l~DtpG~~~~~~~~~~-----~   71 (168)
T cd04163           4 GFVAIVGRPNVGKSTLLNALVGQK-ISIVSPKPQTTRNR------IRGIYTDDDAQIIFVDTPGIHKPKKKLGE-----R   71 (168)
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCC-EEEECCCCCEEECC------CEEEEEECCEEEEEEECCCCCCCHHHHHH-----H
T ss_conf             689999999999999999995897-03323889826344------23689849978999958986651456778-----9


Q ss_pred             HHHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHHHHCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHCCCCCCCEE
Q ss_conf             99877776642000001122357887545455432102575322122221111024689999999999753136898689
Q gi|254780484|r  110 LIVRYLSERSTLRCVYLLIDCRHGVKQIDQDVFSFLDKKAVSYQIVLTKIDKLSPTTAQETLEKTKYLIRNYPTAHPEVI  189 (212)
Q Consensus       110 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~i~  189 (212)
T Consensus        72 ~~~~~~~~l~~~D~il~vvD~~~~~~~~d~~i~~~l~~~~~~~iivlNK~Dl~~~~~~~~---~~~~~~~~-~~~~~~vi  147 (168)
T cd04163          72 MVKAAWSALKDVDLVLFVVDASEPIGEGDEFILELLKKSKTPVILVLNKIDLVKDKEDLL---PLLEKLKE-LGPFAEIF  147 (168)
T ss_pred             HHHHHHHHHHCCCEEEEEEECCCCCCHHHHHHHHHHHHCCCCEEEEEECEEECCCHHHHH---HHHHHHHH-HCCCCCEE
T ss_conf             999999865136558999978989866779999999980998599997887047877899---99999996-18999689


Q ss_pred             EEECCCCCCHHHHHHHHHHHH
Q ss_conf             998888899899999999872
Q gi|254780484|r  190 PTSSVKRKGIEVLRKAILETI  210 (212)
Q Consensus       190 ~vSA~~g~Gi~eL~~~I~~~l  210 (212)
T Consensus       148 ~iSA~~g~Gid~L~~~i~~~L  168 (168)
T cd04163         148 PISALKGENVDELLEEIVKYL  168 (168)
T ss_pred             EEECCCCCCHHHHHHHHHHHC
T ss_conf             997778969999999999539