HHsearch alignment for GI: 254781218 and conserved domain: pfam02376

>pfam02376 CUT CUT domain. The CUT domain is a DNA-binding motif which can bind independently or in cooperation with the homeodomain, often found downstream of the CUT domain. Multiple copies of the CUT domain can exist in one protein .

Probab=92.36  E-value=0.3  Score=27.56  Aligned_cols=40  Identities=30%  Similarity=0.422  Sum_probs=34.2

Q ss_pred             HHHHHHHHHHHHHHHHCCCCHHHHHHHH-CCCHHHHHHHHC
Q ss_conf             5467779999999997298389999997-799999999741
Q gi|254781218|r  109 LDPYAIGARLKSIRKDKGMSQIEFGKLL-GMPNSTLSNYEQ  148 (205)
Q Consensus       109 ~d~~~iG~rLk~lR~~~glsq~elA~~l-gis~~tis~~E~  148 (205)
T Consensus         3 ldT~~i~~~i~~eL~~~~I~Q~~Fa~~vL~rsQGtlSdLL~   43 (81)
T pfam02376         3 LDTAEIARRIKEELKRANISQALFAEVVLGRSQGSLSDLLR   43 (81)
T ss_pred             CCHHHHHHHHHHHHHHCCCCHHHHHHHHHCCCHHHHHHHHH
T ss_conf             88999999999999994976999999997318378999881