HHsearch alignment for GI: 254780265 and conserved domain: TIGR01029

>TIGR01029 rpsG_bact ribosomal protein S7; InterPro: IPR005717 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites , . About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many of ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome , . This model describes the bacterial and organellar branch of the ribosomal protein S7 family (includes prokaroytic S7 and eukaryotic S5).; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0015935 small ribosomal subunit.
Probab=100.00  E-value=0  Score=450.57  Aligned_cols=154  Identities=55%  Similarity=0.950  Sum_probs=153.2

Q ss_pred             CCCCCCCCCCCCCCCCCCHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHCCCCEEEEEEEEC
Q ss_conf             989997555799974378799999999976695999999999999866742488-6389999999842754047787524
Q gi|254780265|r    3 RRRRAVVREVLPDPKFSDFVVAKFMNAIMYGGKKSVAVSIVYGAFDLVEKKEKK-DPVALFRQALINVTPQFEVRTRRVG   81 (156)
Q Consensus         3 Rr~~~~kr~~~pD~~y~~~lv~kliN~lMk~GKK~~A~kIv~~al~~I~~~~~~-npi~il~~Ai~n~~P~~evk~~r~g   81 (156)
T Consensus         1 Rk~~a~kR~~~~Dp~Y~~~Lv~kfin~~M~~GKKs~A~~IvY~al~~i~~k~~~~~pl~vf~~AlenVkP~~EVk~RRVG   80 (159)
T TIGR01029         1 RKRRAEKRKILPDPVYGSVLVAKFINRVMKDGKKSLAESIVYKALERIAKKTGEEDPLEVFEKALENVKPLLEVKSRRVG   80 (159)
T ss_pred             CCCCCCCCCCCCCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHCCCCEEEEEEEEEC
T ss_conf             98987763179885124789999998731148630467899999999998718841688999998627872467645654


Q ss_pred             CCCEECEEECCHHHHHHHHHHHHHHHHHHC----CCCCHHHHHHHHHHHHHCCCCCCEECHHHHHHHHHHHHHHHCCCC
Q ss_conf             630000010485799999999999999857----999989999999999973888726307889999999888532569
Q gi|254780265|r   82 GAAYSVPGEITSKRSQALAIRWLIMAARKR----NETTMIDRLGGEIIDAANNRGVAVRKREETHKVAEANRAFSHYRW  156 (156)
Q Consensus        82 G~~yqvP~~i~~~r~~~lAirWii~~a~~r----~~~~~~~~La~Eii~A~~~~g~aikkK~elhk~A~aNRa~ah~Rw  156 (156)
T Consensus        81 GaTYQVP~EV~~~R~~aLA~RWi~~aArkR~~G~~~~~M~~~La~El~dA~~~~G~A~KKkEDtHrMAEANkAFaHyRW  159 (159)
T TIGR01029        81 GATYQVPVEVREERREALAIRWIVEAARKRRMGKSGKTMAERLANELLDAANNTGAAIKKKEDTHRMAEANKAFAHYRW  159 (159)
T ss_pred             CCCCCCCEEECCCHHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHCCCCCEEEEHHHHHHHHHHHHHHHCCCC
T ss_conf             8665022255761336679999999874236888997888899999999970588525403444208887446422699