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