HHsearch alignment for GI: 254780424 and conserved domain: cd00569
>cd00569 HTH_Hin_like Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed helical bundle. The principal DNA-protein interface is formed by the third helix, the recognition helix, inserting itself into the major groove of the DNA. A diverse array of HTH domains participate in a variety of functions that depend on their DNA-binding properties. HTH_Hin represents one of the simplest versions of the HTH domains; the characterization of homologous relationships between various sequence-diverse HTH domain families remains difficult. The Hin recombinase induces the site-specific inversion of a chromosomal DNA segment containing a promoter, which controls the alternate expression of two genes by reversibly switching orientation. The Hin recombinase consists of a single polypeptide chain containing a D
Probab=91.64 E-value=0.27 Score=28.53 Aligned_cols=30 Identities=23% Similarity=0.432 Sum_probs=24.5
Q ss_pred HHHHHH--HHCCCCHHHHHHHHHHHHHHHHHH
Q ss_conf 999999--981997999999872469999998
Q gi|254780424|r 18 RIRLRR--MILGMSQEKLGECLGITFQQVQKY 47 (144)
Q Consensus 18 rIr~~R--~~~glTQ~eLA~~lGvs~s~is~~ 47 (144)
T Consensus 10 q~~~ar~l~~~G~~~~~iA~~~GVsr~Tiyr~ 41 (42)
T cd00569 10 QIEEARRLLAAGESVAEIARRLGVSRSTLYRY 41 (42)
T ss_pred HHHHHHHHHHCCCCHHHHHHHHCCCHHHHHHH
T ss_conf 99999999997898999999979799999865