HHsearch alignment for GI: 254781217 and conserved domain: pfam04218

>pfam04218 CENP-B_N CENP-B N-terminal DNA-binding domain. Centromere Protein B (CENP-B) is a DNA-binding protein localized to the centromere. Within the N-terminal 125 residues, there is a DNA-binding region, which binds to a corresponding 17bp CENP-B box sequence. CENP-B dimers either bind two separate DNA molecules or alternatively, they may bind two CENP-B boxes on one DNA molecule, with the intervening stretch of DNA forming a loop structure. The CENP-B DNA-binding domain consists of two repeating domains, RP1 and RP2. This family corresponds to RP1 has been shown to consist of four helices in a helix-turn-helix structure.
Probab=94.55  E-value=0.074  Score=33.28  Aligned_cols=45  Identities=18%  Similarity=0.205  Sum_probs=36.4

Q ss_pred             CCHHHHHHHHHHHHCCHHHHHHHHCCCCCHHHHHHHHHHCHHHHHH
Q ss_conf             2999999999997489579999721799978999999848199999
Q gi|254781217|r    6 YTKERIDNILASFSGGLSLSQSCKKHGVTVVSFHGWVKQDREDLEK   51 (162)
Q Consensus         6 yt~el~d~Ic~~Ia~G~SLr~Ick~~gmp~~Tv~~Wl~kd~eef~e   51 (162)
T Consensus         7 LTl~eKi~iI~~~e~G~s~~~lar~~gi~~STl~~I~Kn-kekil~   51 (53)
T pfam04218         7 LTLREKIEVIQRSEEGESKASLARRFNVPRSTLRDILKN-KEKLLK   51 (53)
T ss_pred             ECHHHHHHHHHHHHCCCCHHHHHHHHCCCHHHHHHHHHH-HHHHHH
T ss_conf             169999999999985896889999969879799999980-999986