HHsearch alignment for GI: 254780187 and conserved domain: pfam00163
>pfam00163 Ribosomal_S4 Ribosomal protein S4/S9 N-terminal domain. This family includes small ribosomal subunit S9 from prokaryotes and S16 from metazoans. This domain is predicted to bind to ribosomal RNA. This domain is composed of four helices in the known structure. However the domain is discontinuous in sequence and the alignment for this family contains only the first three helices.
Probab=99.95 E-value=2.9e-28 Score=204.04 Aligned_cols=91 Identities=32% Similarity=0.448 Sum_probs=84.3
Q ss_pred CCCCCCEEEEEEECCCCCCCCCCC-CHHCCCCCCCCCCCCCC--CCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHH
Q ss_conf 764487123520058888888877-00013689987765443--341358999999884855515654799999998753
Q gi|254780187|r 2 SKRESSKHKIDRRIGENLWGRPKS-PVNTRSYGPGLHGQRRK--SKPSYFGLQLRAKQKMKKYYGDISEKKFRSIFKEAD 78 (206)
Q Consensus 2 ~r~~gpk~K~~RrlG~~l~~~~k~-~~~~r~~~pGqhg~~r~--~k~S~yg~qL~eKQKlr~~YG~~~ekq~~~~~~~A~ 78 (206)
T Consensus 1 aRy~GP~~K~~RR~g~~~~~~~~~~~~~~~~~~pg~hg~~~~~~rk~S~Yg~qL~EKQklr~~YG-l~ErQfr~y~~~A~ 79 (94)
T pfam00163 1 SRYRGPTLKLPRRLGELPRLTAKTKLAGEYGLRPGQHGWRVKKGRRLSRYLLRLDEKQKLRFFYG-LLERQLRRYGVLAK 79 (94)
T ss_pred CCCCCCHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHC-HHHHHHHHHHHHHH
T ss_conf 96657554431789998677677767676778999865344576526189887864307999805-30999999999997
Q ss_pred HCCCCCCHHHHHHHH
Q ss_conf 033443026899999
Q gi|254780187|r 79 RSRGDTSHNLISFLE 93 (206)
Q Consensus 79 ~~~g~t~~~ll~~LE 93 (206)
T Consensus 80 k~~G~TG~~Ll~lLE 94 (94)
T pfam00163 80 KLDGSLGLNLLDLLE 94 (94)
T ss_pred CCCCCHHHHHHHHHC
T ss_conf 479877999999809