HHsearch alignment for GI: 254780784 and conserved domain: cd00105
>cd00105 KH-I K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that belong to different protein folds, but they share a single KH motif. The KH motif is folded into a beta alpha alpha beta unit. In addition to the core, type II KH domains (e.g. ribosomal protein S3) include N-terminal extension and type I KH domains (e.g. hnRNP K) contain C-terminal extension.
Probab=98.01 E-value=2.6e-05 Score=61.87 Aligned_cols=57 Identities=37% Similarity=0.618 Sum_probs=51.2
Q ss_pred EEEEECCCCEEEEECCCCHHHHHHHHHHCCEEEEECC------EEEEEEECCHHHHHHHHHHHH
Q ss_conf 9999771150000378607799899986888998088------089999689899999999999
Q gi|254780784|r 554 EIMAIPPDQIRNVIGMGGKVIRGIVEQTGAKVNIDDD------GTVKIASSSLAEIEAAREMIR 611 (699)
Q Consensus 554 ~~~~i~~~ki~~~iG~gG~~ik~i~~~~~~~i~i~d~------g~v~i~~~~~~~~~~a~~~i~ 611 (699)
T Consensus 2 ~~i~ip~~~~g~vIG~~G~~I~~I~~~~~~~I~i~~~~~~~~~~~v~i~G~-~~~v~~A~~~i~ 64 (64)
T cd00105 2 ERVLVPSSLVGRIIGKGGSTIKEIREETGAKIKIPDSGSGSEERIVTITGT-PEAVEKAKELIL 64 (64)
T ss_pred EEEEECHHHCCEEECCCCCHHHHHHHHCCCEEEECCCCCCCCCEEEEEEEC-HHHHHHHHHHHC
T ss_conf 899973665426799898134799997598999888899998338999969-999999999629