>gnl|CDD|129194 TIGR00086, smpB, SsrA-binding protein. This model describes the SsrA-binding protein, also called tmRNA binding protein, small protein B, and SmpB. The small, stable RNA SsrA (also called tmRNA or 10Sa RNA) recognizes stalled ribosomes such as occur during translation from message that lacks a stop codon. It becomes charged with Ala like a tRNA, then acts as mRNA to resume translation started with the defective mRNA. The short C-terminal peptide tag added by the SsrA system marks the abortively translated protein for degradation. SmpB binds SsrA after its aminoacylation but before the coupling of the Ala to the nascent polypeptide chain and is an essential part of the SsrA peptide tagging system. SmpB has been associated with the survival of bacterial pathogens in conditions of stress. It is universal in the first 100 sequenced bacterial genomes. Length = 144

 Score =  190 bits (485), Expect = 1e-49
 Identities = 73/144 (50%), Positives = 103/144 (71%)

Query: 13  VVSDNRKARYNYHIVRSFEAGIVLTGTEVKSLRVSKVNISDSYATFENDEIWLTNSYIPE 72
           +++ N+KA ++Y I+ ++EAGIVL G+EVKS+R  KV++ DSY   +  E+WL N +I  
Sbjct: 1   LIASNKKAFFDYEILDTYEAGIVLKGSEVKSIRAGKVSLKDSYVIIKKGELWLKNMHIAP 60

Query: 73  YLQANRFNHYPRRNRKLLLSKREIHRLYAAVRRDGMTLVPMKIYFNAKGLAKIDLALAQG 132
           Y   N FNH PRR RKLLL K+EI +L   V+  G+TLVP+K+YF  KG  K+++ALA+G
Sbjct: 61  YKFGNYFNHDPRRPRKLLLHKKEIDKLQGKVKEKGLTLVPLKLYFKNKGKVKVEIALAKG 120

Query: 133 KKNYDKRETEKKRDWDRQKHRILR 156
           KK +DKRE+ KKRD  R+  R L+
Sbjct: 121 KKLHDKRESIKKRDAKRELKRALK 144