Index

A

add_zinc_finger() (pdb_manip_py.pdb_manip.Coor method) align_principal_axis() (pdb_manip_py.pdb_manip.Coor method) align_seq() (pdb_manip_py.pdb_manip.Coor static method) align_seq_coor_to() (pdb_manip_py.pdb_manip.Coor method)

align_to() (pdb_manip_py.pdb_manip.Coor method) angle_vec() (pdb_manip_py.pdb_manip.Coor static method) atom_angle() (pdb_manip_py.pdb_manip.Coor static method) atom_dihed_angle() (pdb_manip_py.pdb_manip.Coor static method) atom_dist() (pdb_manip_py.pdb_manip.Coor static method)

C

center_of_mass() (pdb_manip_py.pdb_manip.Coor method) centroid() (pdb_manip_py.pdb_manip.Coor method) change_index_pdb_field() (pdb_manip_py.pdb_manip.Coor method) change_pdb_field() (pdb_manip_py.pdb_manip.Coor method) compute_pdb2pqr() (in module pdb_manip_py.pdb2pqr) compute_rmsd_to() (pdb_manip_py.pdb_manip.Coor method) (pdb_manip_py.pdb_manip.Multi_Coor method) compute_TMscore_to() (pdb_manip_py.pdb_manip.Coor method)

concat_pdb() (pdb_manip_py.pdb_manip.Coor static method) Coor (class in pdb_manip_py.pdb_manip) correct_chain() (pdb_manip_py.pdb_manip.Coor method) correct_cys_name() (pdb_manip_py.pdb_manip.Coor method) correct_his_name() (pdb_manip_py.pdb_manip.Coor method) correct_ion_octa() (pdb_manip_py.pdb_manip.Coor method) correct_protonated_res() (pdb_manip_py.pdb_manip.Coor method) correct_water_name() (pdb_manip_py.pdb_manip.Coor method) cryst_convert() (pdb_manip_py.pdb_manip.Coor method)

D

del_atom_index() (pdb_manip_py.pdb_manip.Coor method)

dist_under_index() (pdb_manip_py.pdb_manip.Coor method)

G

get_aa_DL_seq() (pdb_manip_py.pdb_manip.Coor method) get_aa_num() (pdb_manip_py.pdb_manip.Coor method) get_aa_seq() (pdb_manip_py.pdb_manip.Coor method) get_array() (pdb_manip_py.pdb_manip.Coor method) get_attribute_selection() (pdb_manip_py.pdb_manip.Coor method) get_box_dim() (pdb_manip_py.pdb_manip.Coor method) get_center_residue() (pdb_manip_py.pdb_manip.Coor method) get_common_atom() (pdb_manip_py.pdb_manip.Coor method)

get_gro_structure_string() (pdb_manip_py.pdb_manip.Coor method) get_index_dist_between() (pdb_manip_py.pdb_manip.Coor method) get_index_selection() (pdb_manip_py.pdb_manip.Coor method) get_mass_array() (pdb_manip_py.pdb_manip.Coor method) get_max_size() (pdb_manip_py.pdb_manip.Coor method) get_PDB() (pdb_manip_py.pdb_manip.Coor method) get_pqr_structure_string() (pdb_manip_py.pdb_manip.Coor method) get_structure_string() (pdb_manip_py.pdb_manip.Coor method)

I

insert_mol() (pdb_manip_py.pdb_manip.Coor method)

K

kabsch() (pdb_manip_py.pdb_manip.Coor static method)

M

make_peptide() (pdb_manip_py.pdb_manip.Coor method) makeQ() (pdb_manip_py.pdb_manip.Coor static method) makeW() (pdb_manip_py.pdb_manip.Coor static method)

module pdb_manip_py.pdb2pqr moment_inertia() (pdb_manip_py.pdb_manip.Coor method) Multi_Coor (class in pdb_manip_py.pdb_manip)

P

parse_gro_lines() (pdb_manip_py.pdb_manip.Coor method) parse_pdb_lines() (pdb_manip_py.pdb_manip.Coor method) pdb_manip_py.pdb2pqr module

plot_pseudo_3D() (pdb_manip_py.pdb_manip.Coor method) principal_axis() (pdb_manip_py.pdb_manip.Coor method)

Q

quaternion_rotate() (pdb_manip_py.pdb_manip.Coor static method)

quaternion_transform() (pdb_manip_py.pdb_manip.Coor static method)

R

read_file() (pdb_manip_py.pdb_manip.Coor method) read_pdb() (pdb_manip_py.pdb_manip.Coor method) (pdb_manip_py.pdb_manip.Multi_Coor method)

remove_alter_position() (pdb_manip_py.pdb_manip.Coor method) rotation_angle() (pdb_manip_py.pdb_manip.Coor method)

S

select_from_index() (pdb_manip_py.pdb_manip.Coor method)

select_part_dict() (pdb_manip_py.pdb_manip.Coor method)

T

translate() (pdb_manip_py.pdb_manip.Coor method)

V

view (pdb_manip_py.pdb_manip.Coor property)

W

water_to_ATOM() (pdb_manip_py.pdb_manip.Coor method) write_pdb() (pdb_manip_py.pdb_manip.Coor method) (pdb_manip_py.pdb_manip.Multi_Coor method)

write_pqr() (pdb_manip_py.pdb_manip.Coor method)