>cd00383 trans_reg_C Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and a response regulator. The former autophosphorylates in a histidine residue on detecting an external stimulus. The phosphate is then transferred to an invariant aspartate residue in a highly conserved receiver domain of the response regulator. Phosphorylation activates a variable effector domain of the response regulator, which triggers the cellular response. The C-terminal effector domain contains DNA and RNA polymerase binding sites. Several dimers or monomers bind head to tail to small tandem repeats upstream of the genes. The RNA polymerase binding sites interact with the alpha or sigma subunite of RNA polymerase.

Probab=95.08  E-value=0.05  Score=31.89  Aligned_cols=52  Identities=21%  Similarity=0.328  Sum_probs=44.0

Q ss_pred             CCCCCCCHHHHHHHHHHHCC----CCHHHHHHHHC-----CCHHHHHHHHHHHHHHHCCCC
Q ss_conf             98888897799999999859----99799999949-----998899999999999807998
Q gi|254780694|r  181 GKDFELTGREVECLTWISEG----KTSDEIAVILG-----ISRNTVNNYIASIMRKTATKT  232 (246)
Q Consensus       181 ~~~~~LT~RE~eVl~lia~G----~t~~eIA~~L~-----iS~~TV~~hl~~i~~KLgv~~  232 (246)
T Consensus        19 ~~~i~Lt~~E~~lL~~L~~~~~~vvsr~~l~~~vw~~~~~~~~~~l~~~I~rLRkkl~~~~   79 (95)
T cd00383          19 GEPVELTPKEFELLELLARNPGRVLSREQLLEAVWGDDYDVDDRTVDVHISRLRKKLEDDP   79 (95)
T ss_pred             CEEEECCHHHHHHHHHHHHCCCCCCCHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHCC
T ss_conf             9998779999999999987799745699999985397645574549999999999975268