HHsearch alignment for GI: 254781188 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=94.59 E-value=0.078 Score=33.45 Aligned_cols=46 Identities=17% Similarity=0.271 Sum_probs=39.8
Q ss_pred CCHHHHHHHHHHHHCCHHHHHHHHCCCCCCHHHHHHHHHCCHHHHHH
Q ss_conf 58999999999985892389996158898888999998339899999
Q gi|254781188|r 21 YSPELFAGILDQVANGKALGHVLRKVGMPKYSTFYRWIKKDLKLQEA 67 (185)
Q Consensus 21 Ys~Eiad~Ic~rIA~GeSLr~ICkd~gMPs~sTV~rWL~kdeEfreq 67 (185)
T Consensus 7 LTl~eKi~iI~~~e~G~s~~~lar~~gi~-~STl~~I~Knkekil~~ 52 (53)
T pfam04218 7 LTLREKIEVIQRSEEGESKASLARRFNVP-RSTLRDILKNKEKLLKE 52 (53)
T ss_pred ECHHHHHHHHHHHHCCCCHHHHHHHHCCC-HHHHHHHHHHHHHHHHH
T ss_conf 16999999999998589688999996987-97999999809999861