data_5KZY # _model_server_result.job_id cD-h5I1B49A9zOqvw1qgRA _model_server_result.datetime_utc '2025-06-18 10:22:49' _model_server_result.server_version 0.9.12 _model_server_result.query_name ligand _model_server_result.source_id pdb-bcif _model_server_result.entry_id 5kzy # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":1201}' # _entry.id 5KZY # _exptl.entry_id 5KZY _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 411.62 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description Cyclopamine _entity.pdbx_number_of_molecules 2 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 96.44 _cell.angle_gamma 90 _cell.entry_id 5KZY _cell.length_a 43.725 _cell.length_b 54.592 _cell.length_c 51.863 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5KZY _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1 21 1' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id PISA monomeric 1 author_and_software_defined_assembly 1 PISA monomeric 1 author_and_software_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,C,E 1 1 B,D,F 2 1 # _pdbx_struct_oper_list.id 1 _pdbx_struct_oper_list.type 'identity operation' _pdbx_struct_oper_list.name 1_555 _pdbx_struct_oper_list.symmetry_operation x,y,z _pdbx_struct_oper_list.matrix[1][1] 1 _pdbx_struct_oper_list.matrix[1][2] 0 _pdbx_struct_oper_list.matrix[1][3] 0 _pdbx_struct_oper_list.matrix[2][1] 0 _pdbx_struct_oper_list.matrix[2][2] 1 _pdbx_struct_oper_list.matrix[2][3] 0 _pdbx_struct_oper_list.matrix[3][1] 0 _pdbx_struct_oper_list.matrix[3][2] 0 _pdbx_struct_oper_list.matrix[3][3] 1 _pdbx_struct_oper_list.vector[1] 0 _pdbx_struct_oper_list.vector[2] 0 _pdbx_struct_oper_list.vector[3] 0 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 2 C N N ? 2 D N N # loop_ _struct_conn.conn_type_id _struct_conn.details _struct_conn.id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_atom_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_atom_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_PDB_id _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order disulf ? disulf1 A SG CYS 4 A CYS 37 1_555 A SG CYS 118 A CYS 151 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf2 A SG CYS 10 A CYS 43 1_555 A SG CYS 74 A CYS 107 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf3 A SG CYS 18 A CYS 51 1_555 A SG CYS 67 A CYS 100 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? disulf ? disulf4 A SG CYS 58 A CYS 91 1_555 A SG CYS 94 A CYS 127 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf5 A SG CYS 87 A CYS 120 1_555 A SG CYS 109 A CYS 142 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf6 B SG CYS 10 B CYS 43 1_555 B SG CYS 74 B CYS 107 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf7 B SG CYS 18 B CYS 51 1_555 B SG CYS 67 B CYS 100 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? disulf ? disulf8 B SG CYS 58 B CYS 91 1_555 B SG CYS 94 B CYS 127 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf9 B SG CYS 87 B CYS 120 1_555 B SG CYS 109 B CYS 142 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? # _chem_comp.formula 'C27 H41 N O2' _chem_comp.formula_weight 411.62 _chem_comp.id CY8 _chem_comp.mon_nstd_flag . _chem_comp.name Cyclopamine _chem_comp.type non-polymer _chem_comp.pdbx_synonyms (3alpha,8alpha,14beta,22S,23R)-17,23-epoxyveratraman-3-ol # loop_ _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.comp_id _chem_comp_bond.value_order _chem_comp_bond.pdbx_ordinal _chem_comp_bond.pdbx_stereo_config _chem_comp_bond.pdbx_aromatic_flag N03 C29 CY8 sing 70 n n N03 C16 CY8 sing 71 n n C26 C12 CY8 sing 72 n n C29 C28 CY8 sing 73 n n C28 C30 CY8 sing 74 n n C28 C24 CY8 sing 75 n n C13 C11 CY8 sing 76 n n C13 C08 CY8 sing 77 n n C18 C16 CY8 sing 78 n n C18 C24 CY8 sing 79 n n C18 O01 CY8 sing 80 n n C11 C06 CY8 sing 81 n n C16 C12 CY8 sing 82 n n C12 C08 CY8 sing 83 n n C08 O01 CY8 sing 84 n n C08 C14 CY8 sing 85 n n C15 C05 CY8 sing 86 n n C15 C20 CY8 sing 87 n n C06 C05 CY8 sing 88 n n C06 C09 CY8 sing 89 n n C05 C04 CY8 sing 90 n n C20 C17 CY8 doub 91 n n C14 C09 CY8 doub 92 n n C14 C27 CY8 sing 93 n n C09 C10 CY8 sing 94 n n C04 C10 CY8 sing 95 n n C04 C07 CY8 sing 96 n n C17 C07 CY8 sing 97 n n C17 C22 CY8 sing 98 n n C07 C21 CY8 sing 99 n n C07 C19 CY8 sing 100 n n C22 C25 CY8 sing 101 n n C19 C23 CY8 sing 102 n n C25 O02 CY8 sing 103 n n C25 C23 CY8 sing 104 n n O02 H1 CY8 sing 105 n n N03 H2 CY8 sing 106 n n C04 H4 CY8 sing 107 n n C05 H5 CY8 sing 108 n n C06 H6 CY8 sing 109 n n C10 H7 CY8 sing 110 n n C10 H8 CY8 sing 111 n n C11 H9 CY8 sing 112 n n C11 H10 CY8 sing 113 n n C12 H11 CY8 sing 114 n n C13 H12 CY8 sing 115 n n C13 H13 CY8 sing 116 n n C15 H14 CY8 sing 117 n n C15 H15 CY8 sing 118 n n C16 H16 CY8 sing 119 n n C18 H17 CY8 sing 120 n n C19 H18 CY8 sing 121 n n C19 H19 CY8 sing 122 n n C20 H20 CY8 sing 123 n n C21 H21 CY8 sing 124 n n C21 H22 CY8 sing 125 n n C21 H23 CY8 sing 126 n n C22 H24 CY8 sing 127 n n C22 H25 CY8 sing 128 n n C23 H26 CY8 sing 129 n n C23 H27 CY8 sing 130 n n C24 H28 CY8 sing 131 n n C24 H29 CY8 sing 132 n n C25 H30 CY8 sing 133 n n C26 H31 CY8 sing 134 n n C26 H32 CY8 sing 135 n n C26 H33 CY8 sing 136 n n C27 H34 CY8 sing 137 n n C27 H35 CY8 sing 138 n n C27 H36 CY8 sing 139 n n C28 H37 CY8 sing 140 n n C29 H38 CY8 sing 141 n n C29 H39 CY8 sing 142 n n C30 H40 CY8 sing 143 n n C30 H41 CY8 sing 144 n n C30 H42 CY8 sing 145 n n # _atom_sites.entry_id 5KZY _atom_sites.fract_transf_matrix[1][1] 0.02287 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.002581 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.018318 _atom_sites.fract_transf_matrix[2][3] 0 _atom_sites.fract_transf_matrix[3][1] 0 _atom_sites.fract_transf_matrix[3][2] 0 _atom_sites.fract_transf_matrix[3][3] 0.019404 _atom_sites.fract_transf_vector[1] 0 _atom_sites.fract_transf_vector[2] 0 _atom_sites.fract_transf_vector[3] 0 # loop_ _pdbx_nonpoly_scheme.asym_id _pdbx_nonpoly_scheme.entity_id _pdbx_nonpoly_scheme.mon_id _pdbx_nonpoly_scheme.pdb_strand_id _pdbx_nonpoly_scheme.ndb_seq_num _pdbx_nonpoly_scheme.pdb_seq_num _pdbx_nonpoly_scheme.auth_seq_num _pdbx_nonpoly_scheme.pdb_mon_id _pdbx_nonpoly_scheme.auth_mon_id _pdbx_nonpoly_scheme.pdb_ins_code C 2 CY8 A 1 1201 1201 CY8 CY8 . D 2 CY8 B 1 1201 1201 CY8 CY8 . E 3 HOH A 1 1301 5 HOH HOH . E 3 HOH A 2 1302 20 HOH HOH . E 3 HOH A 3 1303 7 HOH HOH . E 3 HOH A 4 1304 1 HOH HOH . E 3 HOH A 5 1305 10 HOH HOH . E 3 HOH A 6 1306 35 HOH HOH . E 3 HOH A 7 1307 36 HOH HOH . E 3 HOH A 8 1308 6 HOH HOH . E 3 HOH A 9 1309 25 HOH HOH . E 3 HOH A 10 1310 38 HOH HOH . E 3 HOH A 11 1311 45 HOH HOH . E 3 HOH A 12 1312 8 HOH HOH . E 3 HOH A 13 1313 9 HOH HOH . E 3 HOH A 14 1314 28 HOH HOH . E 3 HOH A 15 1315 24 HOH HOH . E 3 HOH A 16 1316 40 HOH HOH . E 3 HOH A 17 1317 3 HOH HOH . E 3 HOH A 18 1318 2 HOH HOH . E 3 HOH A 19 1319 21 HOH HOH . E 3 HOH A 20 1320 12 HOH HOH . E 3 HOH A 21 1321 13 HOH HOH . E 3 HOH A 22 1322 14 HOH HOH . E 3 HOH A 23 1323 42 HOH HOH . E 3 HOH A 24 1324 19 HOH HOH . E 3 HOH A 25 1325 33 HOH HOH . E 3 HOH A 26 1326 43 HOH HOH . F 3 HOH B 1 1301 32 HOH HOH . F 3 HOH B 2 1302 4 HOH HOH . F 3 HOH B 3 1303 22 HOH HOH . F 3 HOH B 4 1304 27 HOH HOH . F 3 HOH B 5 1305 17 HOH HOH . F 3 HOH B 6 1306 16 HOH HOH . F 3 HOH B 7 1307 11 HOH HOH . F 3 HOH B 8 1308 15 HOH HOH . F 3 HOH B 9 1309 37 HOH HOH . F 3 HOH B 10 1310 41 HOH HOH . F 3 HOH B 11 1311 26 HOH HOH . F 3 HOH B 12 1312 29 HOH HOH . F 3 HOH B 13 1313 39 HOH HOH . F 3 HOH B 14 1314 44 HOH HOH . F 3 HOH B 15 1315 23 HOH HOH . F 3 HOH B 16 1316 18 HOH HOH . F 3 HOH B 17 1317 30 HOH HOH . F 3 HOH B 18 1318 34 HOH HOH . F 3 HOH B 19 1319 31 HOH HOH . # loop_ _atom_site.group_PDB _atom_site.id _atom_site.type_symbol _atom_site.label_atom_id _atom_site.label_comp_id _atom_site.label_seq_id _atom_site.label_alt_id _atom_site.pdbx_PDB_ins_code _atom_site.label_asym_id _atom_site.label_entity_id _atom_site.Cartn_x _atom_site.Cartn_y _atom_site.Cartn_z _atom_site.occupancy _atom_site.B_iso_or_equiv _atom_site.pdbx_formal_charge _atom_site.auth_atom_id _atom_site.auth_comp_id _atom_site.auth_seq_id _atom_site.auth_asym_id _atom_site.pdbx_PDB_model_num HETATM 1 O O01 CY8 . . . C 2 7.24 6.909 -2.523 1 57.41 ? O01 CY8 1201 A 1 HETATM 2 O O02 CY8 . . . C 2 -1.146 2.738 1.595 1 51.74 ? O02 CY8 1201 A 1 HETATM 3 N N03 CY8 . . . C 2 9.407 9.523 -3.661 1 59.14 ? N03 CY8 1201 A 1 HETATM 4 C C04 CY8 . . . C 2 2.457 5.495 -1.806 1 47.48 ? C04 CY8 1201 A 1 HETATM 5 C C05 CY8 . . . C 2 3.316 4.615 -2.694 1 47.54 ? C05 CY8 1201 A 1 HETATM 6 C C06 CY8 . . . C 2 4.039 5.574 -3.625 1 47.71 ? C06 CY8 1201 A 1 HETATM 7 C C07 CY8 . . . C 2 1.985 4.73 -0.582 1 48.23 ? C07 CY8 1201 A 1 HETATM 8 C C08 CY8 . . . C 2 6.391 7.393 -3.576 1 53.64 ? C08 CY8 1201 A 1 HETATM 9 C C09 CY8 . . . C 2 4.176 6.767 -2.736 1 49.94 ? C09 CY8 1201 A 1 HETATM 10 C C10 CY8 . . . C 2 3.254 6.767 -1.541 1 47.6 ? C10 CY8 1201 A 1 HETATM 11 C C11 CY8 . . . C 2 5.422 5.115 -4.06 1 47.99 ? C11 CY8 1201 A 1 HETATM 12 C C12 CY8 . . . C 2 7.065 8.648 -4.138 1 57.62 ? C12 CY8 1201 A 1 HETATM 13 C C13 CY8 . . . C 2 6.205 6.298 -4.623 1 48.4 ? C13 CY8 1201 A 1 HETATM 14 C C14 CY8 . . . C 2 5.045 7.738 -2.984 1 52.8 ? C14 CY8 1201 A 1 HETATM 15 C C15 CY8 . . . C 2 2.422 3.584 -3.35 1 47.52 ? C15 CY8 1201 A 1 HETATM 16 C C16 CY8 . . . C 2 8.167 8.932 -3.138 1 57.77 ? C16 CY8 1201 A 1 HETATM 17 C C17 CY8 . . . C 2 1.433 3.391 -1.027 1 47.81 ? C17 CY8 1201 A 1 HETATM 18 C C18 CY8 . . . C 2 8.509 7.551 -2.645 1 57.83 ? C18 CY8 1201 A 1 HETATM 19 C C19 CY8 . . . C 2 0.903 5.525 0.135 1 51.35 ? C19 CY8 1201 A 1 HETATM 20 C C20 CY8 . . . C 2 1.684 2.861 -2.244 1 47.74 ? C20 CY8 1201 A 1 HETATM 21 C C21 CY8 . . . C 2 3.154 4.487 0.362 1 51.87 ? C21 CY8 1201 A 1 HETATM 22 C C22 CY8 . . . C 2 0.587 2.589 -0.068 1 48.22 ? C22 CY8 1201 A 1 HETATM 23 C C23 CY8 . . . C 2 0.232 4.687 1.214 1 52.64 ? C23 CY8 1201 A 1 HETATM 24 C C24 CY8 . . . C 2 9.309 7.712 -1.364 1 60.86 ? C24 CY8 1201 A 1 HETATM 25 C C25 CY8 . . . C 2 -0.457 3.483 0.586 1 50.61 ? C25 CY8 1201 A 1 HETATM 26 C C26 CY8 . . . C 2 7.612 8.468 -5.547 1 59.54 ? C26 CY8 1201 A 1 HETATM 27 C C27 CY8 . . . C 2 4.662 9.154 -2.669 1 54.91 ? C27 CY8 1201 A 1 HETATM 28 C C28 CY8 . . . C 2 10.579 8.502 -1.692 1 61.84 ? C28 CY8 1201 A 1 HETATM 29 C C29 CY8 . . . C 2 10.275 9.777 -2.491 1 60.52 ? C29 CY8 1201 A 1 HETATM 30 C C30 CY8 . . . C 2 11.34 8.842 -0.415 1 63.22 ? C30 CY8 1201 A 1 # _model_server_stats.io_time_ms 0 _model_server_stats.parse_time_ms 17 _model_server_stats.create_model_time_ms 19 _model_server_stats.query_time_ms 536 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 30 #