data_1MDG # _model_server_result.job_id YEQhpQ5TY-t0Z4NXwc9w6Q _model_server_result.datetime_utc '2024-12-27 01:31:35' _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 1mdg # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"G","auth_seq_id":201}' # _entry.id 1MDG # _exptl.entry_id 1MDG _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 161.116 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'COBALT HEXAMMINE(III)' _entity.pdbx_number_of_molecules 1 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 90 _cell.angle_gamma 90 _cell.entry_id 1MDG _cell.length_a 35.956 _cell.length_b 35.956 _cell.length_c 38.045 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1MDG _symmetry.cell_setting ? _symmetry.Int_Tables_number 97 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'I 4 2 2' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2,3,4 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 2_555 -x,-y,z -1 0 0 0 -1 0 0 0 1 0 0 0 3 'crystal symmetry operation' 3_555 -y,x,z 0 -1 0 1 0 0 0 0 1 0 0 0 4 'crystal symmetry operation' 4_555 y,-x,z 0 1 0 -1 0 0 0 0 1 0 0 0 # _struct_asym.details ? _struct_asym.entity_id 3 _struct_asym.id G _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag 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 covale ? covale1 A O3' U 1 A U 1 1_555 A P BGM 2 A BGM 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.592 ? covale ? covale2 A O3' BGM 2 A BGM 2 1_555 A P A 3 A A 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.633 ? metalc ? metalc1 A O6 BGM 2 A BGM 2 1_555 B NA NA . A NA 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.865 ? metalc ? metalc2 A O6 BGM 2 A BGM 2 1_555 C NA NA . A NA 102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.823 ? metalc ? metalc3 A O6 G 4 A G 4 1_555 D NA NA . A NA 103 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.995 ? metalc ? metalc4 A O6 G 4 A G 4 1_555 E NA NA . A NA 104 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.752 ? metalc ? metalc5 A O6 G 5 A G 5 1_555 E NA NA . A NA 104 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.749 ? metalc ? metalc6 A O6 G 5 A G 5 1_555 F NA NA . A NA 105 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.83 ? metalc ? metalc7 A O4 U 6 A U 6 1_555 F NA NA . A NA 105 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.703 ? # _chem_comp.formula 'Co H18 N6 3' _chem_comp.formula_weight 161.116 _chem_comp.id NCO _chem_comp.mon_nstd_flag . _chem_comp.name 'COBALT HEXAMMINE(III)' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # 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 CO N1 NCO sing 121 n n CO N2 NCO sing 122 n n CO N3 NCO sing 123 n n CO N4 NCO sing 124 n n CO N5 NCO sing 125 n n CO N6 NCO sing 126 n n N1 HN11 NCO sing 127 n n N1 HN12 NCO sing 128 n n N1 HN13 NCO sing 129 n n N2 HN21 NCO sing 130 n n N2 HN22 NCO sing 131 n n N2 HN23 NCO sing 132 n n N3 HN31 NCO sing 133 n n N3 HN32 NCO sing 134 n n N3 HN33 NCO sing 135 n n N4 HN41 NCO sing 136 n n N4 HN42 NCO sing 137 n n N4 HN43 NCO sing 138 n n N5 HN51 NCO sing 139 n n N5 HN52 NCO sing 140 n n N5 HN53 NCO sing 141 n n N6 HN61 NCO sing 142 n n N6 HN62 NCO sing 143 n n N6 HN63 NCO sing 144 n n # _atom_sites.entry_id 1MDG _atom_sites.fract_transf_matrix[1][1] 0.027812 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.027812 _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] 0.026285 _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 B 2 NA A 1 101 101 NA NA1 . C 2 NA A 1 102 102 NA NA1 . D 2 NA A 1 103 103 NA NA1 . E 2 NA A 1 104 104 NA NA1 . F 2 NA A 1 105 105 NA NA1 . G 3 NCO A 1 201 201 NCO COB . H 4 HOH A 1 301 301 HOH WAT . H 4 HOH A 2 302 302 HOH WAT . H 4 HOH A 3 303 303 HOH WAT . H 4 HOH A 4 304 304 HOH WAT . H 4 HOH A 5 305 305 HOH WAT . H 4 HOH A 6 306 316 HOH WAT . H 4 HOH A 7 307 307 HOH WAT . H 4 HOH A 8 308 308 HOH WAT . H 4 HOH A 9 309 309 HOH WAT . H 4 HOH A 10 310 310 HOH WAT . H 4 HOH A 11 312 312 HOH WAT . H 4 HOH A 12 313 313 HOH WAT . H 4 HOH A 13 314 314 HOH WAT . H 4 HOH A 14 315 315 HOH WAT . H 4 HOH A 15 316 317 HOH WAT . H 4 HOH A 16 411 411 HOH WAT . # 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 CO CO NCO . . . G 3 -10.723 10.726 19.019 0.25 20.28 ? CO NCO 201 A 1 HETATM 2 N N1 NCO . . . G 3 -10.311 11.179 21.083 0.5 18.9 ? N1 NCO 201 A 1 HETATM 3 N N2 NCO . . . G 3 -11.179 10.293 16.958 0.5 18.95 ? N2 NCO 201 A 1 HETATM 4 N N3 NCO . . . G 3 -10.661 12.81 18.528 0.5 21.2 ? N3 NCO 201 A 1 HETATM 5 N N4 NCO . . . G 3 -12.81 10.659 19.517 0.5 21.2 ? N4 NCO 201 A 1 HETATM 6 N N5 NCO . . . G 3 -10.42 8.59 19.177 0.5 20.87 ? N5 NCO 201 A 1 HETATM 7 N N6 NCO . . . G 3 -8.581 10.417 18.877 0.5 20.89 ? N6 NCO 201 A 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 283 _model_server_stats.encode_time_ms 16 _model_server_stats.element_count 7 #