HHsearch alignment for GI: 254780709 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=98.08  E-value=0.00016  Score=52.07  Aligned_cols=147  Identities=20%  Similarity=0.323  Sum_probs=78.7

Q ss_pred             EEECCCCCCCCHHHHHHHHHHHHHHCCCCEEEEECCCCCHHHHHHHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHH
Q ss_conf             23113544444247899999998522674267743451245688999997530353212235866124542289999651
Q gi|254780709|r  113 VILVVGVNGVGKTTVIGKLSKKMSDAGLKVMLAAGDTFRSAAIDQLKIWADRTSADFVCSEIGSDAAALAYEAFKQAQAK  192 (321)
Q Consensus       113 vil~vG~nG~GKTTT~aKLA~~~~~~g~kV~lva~DtfR~aA~eQL~~~a~~~~v~~~~~~~~~dp~~v~~~a~~~a~~~  192 (321)
T Consensus         5 ~V~ivG~pN~GKSsL~N~L~------~~~~a~vs-~--~~g-------------tT-------r~~~~~~~------~~~   49 (168)
T cd04163           5 FVAIVGRPNVGKSTLLNALV------GQKISIVS-P--KPQ-------------TT-------RNRIRGIY------TDD   49 (168)
T ss_pred             EEEEECCCCCCHHHHHHHHH------CCCEEEEC-C--CCC-------------EE-------ECCCEEEE------EEC
T ss_conf             89999999999999999995------89703323-8--898-------------26-------34423689------849


Q ss_pred             CCCEEEEECCCCCCCHHHHHHH-H-HHHHHHHHCCCCCCCCEEEEECCCCCCHHH--HHHHHHHHHHCCCCEEEEECCCC
Q ss_conf             4875998654333211577899-9-989987630222343011231023352257--78999876435897699965457
Q gi|254780709|r  193 KVDVLIIDTAGRLHNNSILMAG-I-GKMIRVLKRLDPHAPHSVLQVLDATTGQNA--LRQVEMFHAVAGTTGLIMTKMDG  268 (321)
Q Consensus       193 ~~DvvliDTAGR~~~~~~lm~E-L-~ki~~v~~~~~~~~p~~~~lVlda~~gq~~--~~~a~~F~~~~~~~g~I~TKlD~  268 (321)
T Consensus        50 ~~~~~l~DtpG~~-~~~~~~~~~~~~~~~~~l~-----~~D~il~vvD~~~~~~~~d~~i~~~l~~~~~~~iivlNK~Dl  123 (168)
T cd04163          50 DAQIIFVDTPGIH-KPKKKLGERMVKAAWSALK-----DVDLVLFVVDASEPIGEGDEFILELLKKSKTPVILVLNKIDL  123 (168)
T ss_pred             CEEEEEEECCCCC-CCHHHHHHHHHHHHHHHHH-----CCCEEEEEEECCCCCCHHHHHHHHHHHHCCCCEEEEEECEEE
T ss_conf             9789999589866-5145677899999998651-----365589999789898667799999999809985999978870


Q ss_pred             CCCHHHHHHHHHH-----HCCCEEEEEC--CCCCCCCCC
Q ss_conf             8706999999999-----7698899975--898132555
Q gi|254780709|r  269 TARGGGLIPIVVT-----HKIPVYFLGV--GEGINDLEP  300 (321)
Q Consensus       269 ta~~G~~ls~~~~-----~~~Pi~fig~--Ge~i~Dl~~  300 (321)
T Consensus       124 ~~~~~~~~~~~~~~~~~~~~~~vi~iSA~~g~Gid~L~~  162 (168)
T cd04163         124 VKDKEDLLPLLEKLKELGPFAEIFPISALKGENVDELLE  162 (168)
T ss_pred             CCCHHHHHHHHHHHHHHCCCCCEEEEECCCCCCHHHHHH
T ss_conf             478778999999999618999689997778969999999