HHsearch alignment for GI: 254780949 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=94.38 E-value=0.041 Score=34.23 Aligned_cols=38 Identities=21% Similarity=0.308 Sum_probs=35.0
Q ss_pred CCCCHHHHHHHCCCCCCHHHHHHHHHCCCEEECCEEEC
Q ss_conf 69988999998499788689999987698798879804
Q gi|254780949|r 348 RGMGLLTLIVKAGFATSTNEARRHLKSNAIKINNSIIS 385 (418)
Q Consensus 348 ~~~~l~dlL~~~gL~~SksEARRlI~qGgV~IN~~kI~ 385 (418)
T Consensus 7 EyITLgQlLK~~~~i~sGG~AK~fL~e~~V~vNGe~e~ 44 (60)
T TIGR02988 7 EYITLGQLLKELGIIDSGGQAKWFLQENEVLVNGELEN 44 (60)
T ss_pred CEECHHHHHHHHHHHCCHHHHHHHHHCCCEEECCEEEC
T ss_conf 41627678668856228257889870695554784404