data_2OD5 # _model_server_result.job_id AJ0v2GGxUEEgZrLnnlA5vw _model_server_result.datetime_utc '2025-01-15 07:04:20' _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 2od5 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":117}' # _entry.id 2OD5 # _exptl.entry_id 2OD5 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 69.085 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description IMIDAZOLE _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 120 _cell.entry_id 2OD5 _cell.length_a 64.406 _cell.length_b 64.406 _cell.length_c 133.246 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2OD5 _symmetry.cell_setting ? _symmetry.Int_Tables_number 180 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 62 2 2' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id ? monomeric 1 author_defined_assembly 1 PISA,PQS tetrameric 4 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,B,C,D,E,F,G,H,I 1 1 A,B,C,D,E,F,G,H,I 2 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' 4_655 -x+1,-y,z -1 0 0 0 -1 0 0 0 1 64.406 0 0 3 'crystal symmetry operation' 8_555 x-y,-y,-z 1 0 0 0 -1 0 0 0 -1 0 0 0 4 'crystal symmetry operation' 11_655 -x+y+1,y,-z -1 0 0 0 1 0 0 0 -1 64.406 0 0 # _struct_asym.details ? _struct_asym.entity_id 3 _struct_asym.id C _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 C SER 10 A SER 9 1_555 A N MSE 11 A MSE 10 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? covale ? covale2 A C MSE 11 A MSE 10 1_555 A N LYS 12 A LYS 11 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale3 A C THR 41 A THR 40 1_555 A N MSE 42 A MSE 41 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale4 A C MSE 42 A MSE 41 1_555 A N ARG 43 A ARG 42 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.324 ? # _chem_comp.formula 'C3 H5 N2 1' _chem_comp.formula_weight 69.085 _chem_comp.id IMD _chem_comp.mon_nstd_flag . _chem_comp.name IMIDAZOLE _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 N1 C2 IMD sing 219 n y N1 C5 IMD sing 220 n y N1 HN1 IMD sing 221 n n C2 N3 IMD doub 222 n y C2 H2 IMD sing 223 n n N3 C4 IMD sing 224 n y N3 HN3 IMD sing 225 n n C4 C5 IMD doub 226 n y C4 H4 IMD sing 227 n n C5 H5 IMD sing 228 n n # _atom_sites.entry_id 2OD5 _atom_sites.fract_transf_matrix[1][1] 0.01553 _atom_sites.fract_transf_matrix[1][2] 0.00896 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.01793 _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] 0.00751 _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 CL A 1 116 1 CL CL . C 3 IMD A 1 117 2 IMD IMD . D 4 EDO A 1 118 3 EDO EDO . E 4 EDO A 1 119 4 EDO EDO . F 4 EDO A 1 120 5 EDO EDO . G 5 1PE A 1 121 6 1PE 1PE . H 5 1PE A 1 122 7 1PE 1PE . I 6 HOH A 1 123 8 HOH HOH . I 6 HOH A 2 124 9 HOH HOH . I 6 HOH A 3 125 10 HOH HOH . I 6 HOH A 4 126 11 HOH HOH . I 6 HOH A 5 127 12 HOH HOH . I 6 HOH A 6 128 13 HOH HOH . I 6 HOH A 7 129 14 HOH HOH . I 6 HOH A 8 130 15 HOH HOH . I 6 HOH A 9 131 16 HOH HOH . I 6 HOH A 10 132 17 HOH HOH . I 6 HOH A 11 133 18 HOH HOH . I 6 HOH A 12 134 19 HOH HOH . I 6 HOH A 13 135 20 HOH HOH . I 6 HOH A 14 136 21 HOH HOH . I 6 HOH A 15 137 22 HOH HOH . I 6 HOH A 16 138 23 HOH HOH . I 6 HOH A 17 139 24 HOH HOH . I 6 HOH A 18 140 25 HOH HOH . I 6 HOH A 19 141 26 HOH HOH . I 6 HOH A 20 142 27 HOH HOH . I 6 HOH A 21 143 28 HOH HOH . I 6 HOH A 22 144 29 HOH HOH . I 6 HOH A 23 145 30 HOH HOH . I 6 HOH A 24 146 31 HOH HOH . I 6 HOH A 25 147 32 HOH HOH . I 6 HOH A 26 148 33 HOH HOH . I 6 HOH A 27 149 34 HOH HOH . I 6 HOH A 28 150 35 HOH HOH . I 6 HOH A 29 151 36 HOH HOH . I 6 HOH A 30 152 37 HOH HOH . I 6 HOH A 31 153 38 HOH HOH . I 6 HOH A 32 154 39 HOH HOH . I 6 HOH A 33 155 40 HOH HOH . I 6 HOH A 34 156 41 HOH HOH . I 6 HOH A 35 157 42 HOH HOH . I 6 HOH A 36 158 43 HOH HOH . I 6 HOH A 37 159 44 HOH HOH . I 6 HOH A 38 160 45 HOH HOH . I 6 HOH A 39 161 46 HOH HOH . I 6 HOH A 40 162 47 HOH HOH . I 6 HOH A 41 163 48 HOH HOH . I 6 HOH A 42 164 49 HOH HOH . I 6 HOH A 43 165 50 HOH HOH . I 6 HOH A 44 166 51 HOH HOH . I 6 HOH A 45 167 52 HOH HOH . I 6 HOH A 46 168 53 HOH HOH . I 6 HOH A 47 169 54 HOH HOH . I 6 HOH A 48 170 55 HOH HOH . I 6 HOH A 49 171 56 HOH HOH . I 6 HOH A 50 172 57 HOH HOH . I 6 HOH A 51 173 58 HOH HOH . I 6 HOH A 52 174 59 HOH HOH . I 6 HOH A 53 175 60 HOH HOH . I 6 HOH A 54 176 61 HOH HOH . I 6 HOH A 55 177 62 HOH HOH . I 6 HOH A 56 178 63 HOH HOH . I 6 HOH A 57 179 64 HOH HOH . I 6 HOH A 58 180 65 HOH HOH . I 6 HOH A 59 181 66 HOH HOH . I 6 HOH A 60 182 67 HOH HOH . I 6 HOH A 61 183 68 HOH HOH . I 6 HOH A 62 184 69 HOH HOH . I 6 HOH A 63 185 70 HOH HOH . I 6 HOH A 64 186 71 HOH HOH . I 6 HOH A 65 187 72 HOH HOH . I 6 HOH A 66 188 73 HOH HOH . I 6 HOH A 67 189 74 HOH HOH . I 6 HOH A 68 190 75 HOH HOH . I 6 HOH A 69 191 76 HOH HOH . I 6 HOH A 70 192 77 HOH HOH . I 6 HOH A 71 193 78 HOH HOH . I 6 HOH A 72 194 79 HOH HOH . I 6 HOH A 73 195 80 HOH HOH . I 6 HOH A 74 196 81 HOH HOH . I 6 HOH A 75 197 82 HOH HOH . I 6 HOH A 76 198 83 HOH HOH . I 6 HOH A 77 199 84 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 N N1 IMD . . . C 3 10.326 1.358 -0.705 0.5 38.41 ? N1 IMD 117 A 1 HETATM 2 C C2 IMD . . . C 3 9.363 0.582 -0.184 0.5 39.2 ? C2 IMD 117 A 1 HETATM 3 N N3 IMD . . . C 3 9.94 -0.512 0.374 0.5 37.58 ? N3 IMD 117 A 1 HETATM 4 C C4 IMD . . . C 3 11.275 -0.417 0.205 0.5 40.69 ? C4 IMD 117 A 1 HETATM 5 C C5 IMD . . . C 3 11.523 0.764 -0.485 0.5 37.95 ? C5 IMD 117 A 1 # _model_server_stats.io_time_ms 6 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 253 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 5 #