pandit              package:apTreeshape              R Documentation

_P_h_y_l_o_g_e_n_e_t_i_c _t_r_e_e_s _f_r_o_m _t_h_e _P_a_n_d_i_t _d_a_t_a_b_a_s_e

_D_e_s_c_r_i_p_t_i_o_n:

     This set contains two trees extracted from the Pandit
     Database,'cytochromc' and 'rhodopsin'.

_U_s_a_g_e:

     data(cytochromc)
     data(rhodopsin)

_F_o_r_m_a_t:

     These data are stored as objects of class '"treeshape"'.

_D_e_t_a_i_l_s:

     Cytochromes c (cytC) can be defined as electron-transfer
     proteins.This data set describes the phylogenetic relationships of
     cytC of mitochondria and bacteria.
       G-protein-coupled receptors, GPCRs, constitute a vast protein
     family that encompasses a wide range of functions (including
     various autocrine, paracrine and endocrine processes). The
     rhodopsin-like GPCRs themselves represent a widespread protein
     family that includes hormone, neurotransmitter and light
     receptors.

_S_o_u_r_c_e:

     Ambler, R. P. (May, 1991) Sequence variability in bacterial
     cytochromes c. _Biochimica et Biophysica Acta_, *1058*, 42-7, for
     more details about bacterial cytochromes c. 

     Attwood T. K. and Findlay J. B. (Feb., 1993) Design of a
     discriminating fingerprint for G-protein-coupled receptors.
     _Protein Engineering_, *6*, 176-67, for more details about
     G-protein-coupled receptors.

_E_x_a_m_p_l_e_s:

     ## Example tree in Treeshape format
     data(cytochromc) 
     plot(cytochromc)
     summary(cytochromc) 

     data(rhodopsin) 
     plot(rhodopsin)

