HHsearch alignment for GI: 254780715 and conserved domain: TIGR01024

>TIGR01024 rplS_bact ribosomal protein L19; InterPro: IPR001857 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 , . Ribosomal protein L19 is one of the proteins from the large ribosomal subunit , . In Escherichia coli, L19 is known to be located at the 30S-50S ribosomal subunit interface and may play a role in the structure and function of the aminoacyl-tRNA binding site. It belongs to a family of ribosomal proteins, including L19 from bacteria and the chloroplasts of red algae. L19 is a protein of 120 to 130 amino-acid residues.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome.
Probab=99.93  E-value=2.4e-26  Score=186.94  Aligned_cols=113  Identities=61%  Similarity=0.999  Sum_probs=107.3

Q ss_pred             CCHHHHHHHHHHHHHHHCCCCCCCCCCCEEEEEEEEECCCCCCCEEEEEEEEEECCCCCCCEEEEEEE-CCCCCCEEEEE
Q ss_conf             93589997999999760279897378998999999835887740123453543136666433886300-35613028999
Q gi|254780715|r    1 MNIIDELDHEEMVRIESKRSLPKFSPGDTLCVKTIITEGDKSRIQAYEGVCIARSGRGINKNFTVRKI-SYGEGMNRLFP   79 (141)
Q Consensus         1 Mnli~~le~~~~~~~~~k~~~P~f~~GD~v~V~~~i~eg~k~R~Q~F~GvvI~~~~~G~~stftvRki-~~g~GVE~~fp   79 (141)
T Consensus         1 ~~~~~~~~~~~~----~~~~~p~~~~gd~~~~~~~~~~g~~~~~~~~~g~~~~~~~~g~~~~~~~~~~g~~g~g~~~~f~   76 (116)
T TIGR01024         1 SNLIKELEQENQ----LKKDLPDFRPGDTVRVGVKIVEGGKERLQAFEGVVIARRGGGIGETFTVRKIGSYGVGVERIFP   76 (116)
T ss_pred             CHHHHHHHHHHH----HCCCCCCCCCCCEEEEEEEEEECCCCEEEECCCEEEEECCCCCCCEEEEEECCCCCCCCCEEEE
T ss_conf             903655444331----0012333457851468888740774100110314786417876512466422666666200100


Q ss_pred             CCCCCEEEEEEEECCHHHHHHHHHHCCCCCC-EEEHHHH
Q ss_conf             1078610122200020467876875088841-0220120
Q gi|254780715|r   80 LYSPMIQDITVIRRGKVRRSKLYYLQDLRGK-AARIKEN  117 (141)
Q Consensus        80 l~SP~i~~Iev~r~gkvRrakLyYLR~~~gk-~arik~~  117 (141)
T Consensus        77 ~~~p~~~~~~~~~~g~~~~~~~~y~~~~~g~~~~~~~~~  115 (116)
T TIGR01024        77 LHSPNIESIEVVRRGKVRRAKLYYLRERRGKAAAKIKER  115 (116)
T ss_pred             CCCCCCCEEEHHHCCCHHHHHHHHHHCCCCHHHHHHHHC
T ss_conf             136531000000003201233222220243012232104