- u -

• ubq_ras_distance() : protocols::chemically_conjugated_docking
• ubq_ras_rotation_angle() : protocols::chemically_conjugated_docking
• uint16_to_real() : core::scoring::motif
• uint8_to_real() : core::scoring::motif
• unfold_complex() : protocols::protein_interface_design::movers
• UNFOLDED_ENERGY_DATA_TAG() : protocols::unfolded_state_energy_calculator
• UNFOLDED_ENERGY_TERMS_TAG() : protocols::unfolded_state_energy_calculator
• UNFOLDED_MM_STD() : core::scoring
• UNFOLDED_RNA() : core::scoring
• UNFOLDED_SCORE12() : core::scoring
• UNFOLDED_SPLIT_MM_STD() : core::scoring
• UNFOLDED_SPLIT_TALARIS2013() : core::scoring
• UNFOLDED_SPLIT_USER_DEFINED() : core::scoring
• uniform_dof_distribution() : protocols::simple_moves
• union_interval() : protocols::forge::methods
• unique_chars() : protocols::flxbb
• unique_strs() : protocols::flxbb
• universal_main() : protocols::jobdist
• unpack_ubyte() : core::pack::interaction_graph
• UNSET() : protocols::loops::loop_mover
• unset_acceptor_ether_oxygens() : core::chemical
• update_atom_information_based_on_occupancy() : core::io::pose_from_sfr
• update_atom_map() : protocols::hybridization
• update_block_stack_variants() : core::pose
• update_bond_indices() : core::io::mmtf
• update_cached_lkb_resinfo() : core::scoring::lkball
• update_constraint_set_from_full_model_info() : core::pose::full_model_info
• update_cutpoint_virtual_atoms_if_connected() : core::conformation , core::pose
• update_disulfides_from_full_model_info() : core::pose::full_model_info
• update_edge_hbond_numbers() : core::pose::rna
• update_edge_hbond_numbers_careful_hydrogen() : core::pose::rna
• update_fixed_domain_from_extra_minimize_jump_pairs() : core::import_pose
• update_fixed_domain_from_extra_minimize_jump_res() : core::import_pose
• update_full_model_info_from_pose() : core::pose::full_model_info
• update_jump_atoms_for_mg_bound_water() : protocols::magnesium
• update_jump_res() : core::import_pose
• update_map() : core::pose::rna
• update_mg_hoh_fold_tree() : protocols::magnesium
• update_numbers_in_pdb_info() : protocols::magnesium
• update_partner_embeddings() : protocols::membrane
• update_pdb_info() : protocols::environment
• update_pdb_info_from_full_model_info() : core::pose::full_model_info
• update_pose_domain_map() : core::pose::full_model_info
• update_pose_domain_map_const() : core::pose::full_model_info
• update_pose_fold_tree() : core::import_pose
• update_pose_objects_from_full_model_info() : core::pose::full_model_info
• update_res_list_in_full_model_info_and_pdb_info() : core::pose::full_model_info
• update_scores() : protocols::recces
• update_sequence_separation() : protocols::star
• update_template_files() : protocols::tcr
• upper_is_symm_equivalent_of_lower() : core::conformation
• upstream_centroid_by_jump() : protocols::geometry