HHsearch alignment for GI: 254780949 and conserved domain: TIGR03069
>TIGR03069 PS_II_S4 photosystem II S4 domain protein. Members of this protein family are about 265 residues long and each contains an S4 RNA-binding domain of about 48 residues. The member from the Cyanobacterium, Synechocystis sp. PCC 6803, was detected as a novel polypeptide in a highly purified preparation of active photosystem II (Kashino, et al., 2002). The phylogenetic distribution, including Cyanobacteria and Arabidopsis, supports a role in photosystem II, although the high bit score cutoffs for this model reflect similar sequences in non-photosynthetic organisms such as Carboxydothermus hydrogenoformans, a Gram-positive bacterium.
Probab=96.39 E-value=0.0062 Score=39.63 Aligned_cols=45 Identities=20% Similarity=0.348 Sum_probs=41.7
Q ss_pred HHHHHHCCCCCCHHHHHHHHHCCCEEECCEEECCCCCEECHHHHC
Q ss_conf 999998499788689999987698798879804800023777714
Q gi|254780949|r 353 LTLIVKAGFATSTNEARRHLKSNAIKINNSIISNEKLQIKLQDFD 397 (418)
Q Consensus 353 ~dlL~~~gL~~SksEARRlI~qGgV~IN~~kI~d~~~~i~~~d~~ 397 (418)
T Consensus 186 LDavvs~~~~~SRska~~lI~~g~V~vN~~~v~~~s~~v~~gDii 230 (257)
T TIGR03069 186 IDAIASAGFGLSRSKIVDQIKAGRLRLNWKTVTQPSRELKVGDRL 230 (257)
T ss_pred HHHHHHHHHCCCHHHHHHHHHCCEEEECCEEECCCCCCCCCCCEE
T ss_conf 899999886657999999988496898999905787566899999