data_1ID9 # _model_server_result.job_id esdCVJWvmOIRSCQPoNIRWw _model_server_result.datetime_utc '2025-02-26 22:15:56' _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 1id9 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":12}' # _entry.id 1ID9 # _exptl.entry_id 1ID9 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 205.089 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'RHODIUM HEXAMINE ION' _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 105.7 _cell.angle_gamma 90 _cell.entry_id 1ID9 _cell.length_a 53.73 _cell.length_b 19.39 _cell.length_c 45.83 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1ID9 _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'C 1 2 1' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _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 # _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 covale ? covale1 A O3' C 8 A C 8 1_555 A P UFP 9 A UFP 9 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.594 ? covale ? covale2 B O3' C 8 B C 8 1_555 B P UFP 9 B UFP 9 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.616 ? hydrog WATSON-CRICK hydrog1 A N1 G 1 A G 1 1_555 B N3 C 8 B C 8 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog2 A N2 G 1 A G 1 1_555 B O2 C 8 B C 8 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog3 A O6 G 1 A G 1 1_555 B N4 C 8 B C 8 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog4 A N3 C 2 A C 2 1_555 B N1 G 7 B G 7 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog5 A N4 C 2 A C 2 1_555 B O6 G 7 B G 7 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog6 A O2 C 2 A C 2 1_555 B N2 G 7 B G 7 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog TYPE_28_PAIR hydrog7 A N3 U 3 A U 3 1_555 B O6 G 6 B G 6 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog TYPE_28_PAIR hydrog8 A O2 U 3 A U 3 1_555 B N1 G 6 B G 6 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog 'U-C MISPAIR' hydrog9 A O4 U 4 A U 4 1_555 B N4 C 5 B C 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog 'C-U MISPAIR' hydrog10 A N4 C 5 A C 5 1_555 B O4 U 4 B U 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog TYPE_28_PAIR hydrog11 A N1 G 6 A G 6 1_555 B O2 U 3 B U 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog TYPE_28_PAIR hydrog12 A O6 G 6 A G 6 1_555 B N3 U 3 B U 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog13 A N1 G 7 A G 7 1_555 B N3 C 2 B C 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog14 A N2 G 7 A G 7 1_555 B O2 C 2 B C 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog15 A O6 G 7 A G 7 1_555 B N4 C 2 B C 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog16 A N3 C 8 A C 8 1_555 B N1 G 1 B G 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog17 A N4 C 8 A C 8 1_555 B O6 G 1 B G 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog18 A O2 C 8 A C 8 1_555 B N2 G 1 B G 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? # _chem_comp.formula 'H18 N6 Rh 3' _chem_comp.formula_weight 205.089 _chem_comp.id RHD _chem_comp.mon_nstd_flag . _chem_comp.name 'RHODIUM HEXAMINE ION' _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 RH N1 RHD sing 79 n n RH N2 RHD sing 80 n n RH N3 RHD sing 81 n n RH N4 RHD sing 82 n n RH N5 RHD sing 83 n n RH N6 RHD sing 84 n n N1 HN11 RHD sing 85 n n N1 HN12 RHD sing 86 n n N1 HN13 RHD sing 87 n n N2 HN21 RHD sing 88 n n N2 HN22 RHD sing 89 n n N2 HN23 RHD sing 90 n n N3 HN31 RHD sing 91 n n N3 HN32 RHD sing 92 n n N3 HN33 RHD sing 93 n n N4 HN41 RHD sing 94 n n N4 HN42 RHD sing 95 n n N4 HN43 RHD sing 96 n n N5 HN51 RHD sing 97 n n N5 HN52 RHD sing 98 n n N5 HN53 RHD sing 99 n n N6 HN61 RHD sing 100 n n N6 HN62 RHD sing 101 n n N6 HN63 RHD sing 102 n n # _atom_sites.entry_id 1ID9 _atom_sites.fract_transf_matrix[1][1] 0.018605 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.00523 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.051546 _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] 0.02266 _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 RHD A 1 11 11 RHD RHO . D 2 RHD A 1 12 12 RHD RHO . E 3 CL A 1 32 32 CL CL . F 3 CL B 1 31 31 CL CL . G 4 HOH A 1 101 101 HOH HOH . G 4 HOH A 2 102 102 HOH HOH . G 4 HOH A 3 105 105 HOH HOH . G 4 HOH A 4 107 107 HOH HOH . G 4 HOH A 5 109 109 HOH HOH . G 4 HOH A 6 111 111 HOH HOH . G 4 HOH A 7 112 112 HOH HOH . G 4 HOH A 8 113 113 HOH HOH . G 4 HOH A 9 115 115 HOH HOH . G 4 HOH A 10 116 116 HOH HOH . G 4 HOH A 11 117 117 HOH HOH . G 4 HOH A 12 118 118 HOH HOH . G 4 HOH A 13 119 119 HOH HOH . G 4 HOH A 14 121 121 HOH HOH . G 4 HOH A 15 124 124 HOH HOH . G 4 HOH A 16 125 125 HOH HOH . G 4 HOH A 17 126 126 HOH HOH . G 4 HOH A 18 127 127 HOH HOH . G 4 HOH A 19 128 128 HOH HOH . G 4 HOH A 20 129 129 HOH HOH . G 4 HOH A 21 130 130 HOH HOH . G 4 HOH A 22 131 131 HOH HOH . G 4 HOH A 23 134 134 HOH HOH . G 4 HOH A 24 136 136 HOH HOH . G 4 HOH A 25 137 137 HOH HOH . G 4 HOH A 26 138 138 HOH HOH . G 4 HOH A 27 139 139 HOH HOH . G 4 HOH A 28 141 141 HOH HOH . G 4 HOH A 29 143 143 HOH HOH . G 4 HOH A 30 145 145 HOH HOH . G 4 HOH A 31 147 147 HOH HOH . G 4 HOH A 32 149 149 HOH HOH . H 4 HOH B 1 103 103 HOH HOH . H 4 HOH B 2 104 104 HOH HOH . H 4 HOH B 3 106 106 HOH HOH . H 4 HOH B 4 108 108 HOH HOH . H 4 HOH B 5 110 110 HOH HOH . H 4 HOH B 6 114 114 HOH HOH . H 4 HOH B 7 120 120 HOH HOH . H 4 HOH B 8 122 122 HOH HOH . H 4 HOH B 9 123 123 HOH HOH . H 4 HOH B 10 132 132 HOH HOH . H 4 HOH B 11 133 133 HOH HOH . H 4 HOH B 12 135 135 HOH HOH . H 4 HOH B 13 140 140 HOH HOH . H 4 HOH B 14 142 142 HOH HOH . H 4 HOH B 15 144 144 HOH HOH . H 4 HOH B 16 146 146 HOH HOH . H 4 HOH B 17 148 148 HOH HOH . H 4 HOH B 18 150 150 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 RH RH RHD . . . D 2 16.933 -8.858 -5.372 1 25.31 ? RH RHD 12 A 1 HETATM 2 N N1 RHD . . . D 2 15.155 -9.463 -6.637 1 32.08 ? N1 RHD 12 A 1 HETATM 3 N N2 RHD . . . D 2 16.79 -10.793 -4.234 1 17 ? N2 RHD 12 A 1 HETATM 4 N N3 RHD . . . D 2 18.706 -8.235 -4.135 1 23.74 ? N3 RHD 12 A 1 HETATM 5 N N4 RHD . . . D 2 17.049 -6.9 -6.496 1 20.03 ? N4 RHD 12 A 1 HETATM 6 N N5 RHD . . . D 2 18.294 -9.839 -6.869 1 27.31 ? N5 RHD 12 A 1 HETATM 7 N N6 RHD . . . D 2 15.516 -7.922 -3.873 1 24.65 ? N6 RHD 12 A 1 # _model_server_stats.io_time_ms 5 _model_server_stats.parse_time_ms 5 _model_server_stats.create_model_time_ms 1 _model_server_stats.query_time_ms 272 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 7 #