HHsearch alignment for GI: 254780187 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=96.44 E-value=0.0057 Score=39.98 Aligned_cols=50 Identities=28% Similarity=0.357 Sum_probs=46.1
Q ss_pred HHHHHHHHCCCCCHHHHHHHHHCCCEEECCEEEECCCEEECCCCEEEECC
Q ss_conf 88899862121247887887624978788889413534833884788611
Q gi|254780187|r 96 LDTIVYRAKFVPTIFAARQFVNHRHVLVNGRSVNIGSYRCKEGDVIEVKQ 145 (206)
Q Consensus 96 LD~~v~r~g~a~t~~~Arq~v~hg~i~vng~~v~~ps~~~k~gd~I~~~~ 145 (206)
T Consensus 11 LgQlLK~~~~i~sGG~AK~fL~e~~V~vNGe~e~RRGkKL~~gD~i~i~~ 60 (60)
T TIGR02988 11 LGQLLKELGIIDSGGQAKWFLQENEVLVNGELENRRGKKLYPGDVIEIPD 60 (60)
T ss_pred HHHHHHHHHHHCCHHHHHHHHHCCCEEECCEEECCCCCEECCCCEEEECC
T ss_conf 76786688562282578898706955547844045887004896688269