HHsearch alignment for GI: 254780610 and conserved domain: TIGR02988
>TIGR02988 YaaA_near_RecF S4 domain protein YaaA; InterPro: IPR014330 This small protein has a single S4 domain (IPR002942 from INTERPRO); it is also found in bacterial S4 ribosomal proteins, some pseudouridine synthases and tyrosyl-tRNA synthetases. The S4 domain may bind RNA. Members of this protein are found almost exclusively in the Firmicutes, and almost invariably just a few nucleotides upstream of the gene for the DNA replication and repair protein RecF. The few members that are not near recF are found instead near dnaA and/or dnaN, the usual neighbours of recF, near the origin of replication. The conserved location suggests a possible role in replication in the Firmicutes lineage..
Probab=95.67 E-value=0.023 Score=33.84 Aligned_cols=52 Identities=19% Similarity=0.203 Sum_probs=40.6
Q ss_pred CCCHHHHHHHHCCCCCCHHHHHHHHHCCCEEECCEEECCCCCEECCCCEEEEE
Q ss_conf 87578999987176889899999998599049989932867580489889997
Q gi|254780610|r 22 EGRIDRWLATSLKEQFSRSYVKILILNGFISINGMVSKNPNRKVVPGDSFLIT 74 (340)
Q Consensus 22 g~RLD~~L~~~l~~~~sR~~i~kli~~G~V~vnG~~~~~~~~~l~~gd~I~i~ 74 (340)
T Consensus 8 yITLgQlLK~~-~~i~sGG~AK~fL~e~~V~vNGe~e~RRGkKL~~gD~i~i~ 59 (60)
T TIGR02988 8 YITLGQLLKEL-GIIDSGGQAKWFLQENEVLVNGELENRRGKKLYPGDVIEIP 59 (60)
T ss_pred EECHHHHHHHH-HHHCCHHHHHHHHHCCCEEECCEEECCCCCEECCCCEEEEC
T ss_conf 16276786688-56228257889870695554784404588700489668826