Sequence alignment between 3d5a(U) and UniProt seq P62613 (RSHX_THET2):

P62613 (RSHX_THET2): Small ribosomal subunit protein bTHX from Thermus thermophilus (strain ATCC BAA-163 / DSM 7039 / HB27) 
                 10        20       
         ---------+---------+-------
UniProt: MGKGDRRTRRGKIWRGTYGKYRPRKKK
PDB seq: -GKGDRRTRRGKIWRGTYGKYRPRK--
          --------+---------+-----  
                 10        20