data_1YCC # _model_server_result.job_id dAns9GodZGM-ab6Ux9ZeTg _model_server_result.datetime_utc '2025-08-05 06:21:56' _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 1ycc # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":118}' # _entry.id 1YCC # _exptl.entry_id 1YCC _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 618.503 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'HEME C' _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 1YCC _cell.length_a 36.46 _cell.length_b 36.46 _cell.length_c 136.86 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1YCC _symmetry.cell_setting ? _symmetry.Int_Tables_number 96 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 43 21 2' # _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 _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2 # 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' 7_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 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 SG CYS 19 A CYS 14 1_555 C CAB HEC . A HEC 118 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.766 ? covale ? covale2 A SG CYS 22 A CYS 17 1_555 C CAC HEC . A HEC 118 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.808 ? covale ? covale3 A C PRO 76 A PRO 71 1_555 A N M3L 77 A M3L 72 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.324 ? covale ? covale4 A C M3L 77 A M3L 72 1_555 A N LYS 78 A LYS 73 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.357 ? metalc ? metalc1 A NE2 HIS 23 A HIS 18 1_555 C FE HEC . A HEC 118 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.986 ? metalc ? metalc2 A SD MET 85 A MET 80 1_555 C FE HEC . A HEC 118 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.351 ? # _chem_comp.formula 'C34 H34 Fe N4 O4' _chem_comp.formula_weight 618.503 _chem_comp.id HEC _chem_comp.mon_nstd_flag . _chem_comp.name 'HEME C' _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 FE NA HEC sing 129 n n FE NB HEC sing 130 n n FE NC HEC sing 131 n n FE ND HEC sing 132 n n CHA C1A HEC doub 133 n n CHA C4D HEC sing 134 n n CHA HHA HEC sing 135 n n CHB C4A HEC doub 136 n n CHB C1B HEC sing 137 n n CHB HHB HEC sing 138 n n CHC C4B HEC doub 139 n n CHC C1C HEC sing 140 n n CHC HHC HEC sing 141 n n CHD C4C HEC doub 142 n n CHD C1D HEC sing 143 n n CHD HHD HEC sing 144 n n NA C1A HEC sing 145 n y NA C4A HEC sing 146 n y C1A C2A HEC sing 147 n y C2A C3A HEC doub 148 n y C2A CAA HEC sing 149 n n C3A C4A HEC sing 150 n y C3A CMA HEC sing 151 n n CMA HMA1 HEC sing 152 n n CMA HMA2 HEC sing 153 n n CMA HMA3 HEC sing 154 n n CAA CBA HEC sing 155 n n CAA HAA1 HEC sing 156 n n CAA HAA2 HEC sing 157 n n CBA CGA HEC sing 158 n n CBA HBA1 HEC sing 159 n n CBA HBA2 HEC sing 160 n n CGA O1A HEC doub 161 n n CGA O2A HEC sing 162 n n O2A H2A HEC sing 163 n n NB C1B HEC sing 164 n y NB C4B HEC sing 165 n y C1B C2B HEC doub 166 n y C2B C3B HEC sing 167 n y C2B CMB HEC sing 168 n n C3B C4B HEC sing 169 n y C3B CAB HEC doub 170 e n CMB HMB1 HEC sing 171 n n CMB HMB2 HEC sing 172 n n CMB HMB3 HEC sing 173 n n CAB CBB HEC sing 174 n n CAB HAB HEC sing 175 n n CBB HBB1 HEC sing 176 n n CBB HBB2 HEC sing 177 n n CBB HBB3 HEC sing 178 n n NC C1C HEC sing 179 n y NC C4C HEC sing 180 n y C1C C2C HEC doub 181 n y C2C C3C HEC sing 182 n y C2C CMC HEC sing 183 n n C3C C4C HEC sing 184 n y C3C CAC HEC doub 185 e n CMC HMC1 HEC sing 186 n n CMC HMC2 HEC sing 187 n n CMC HMC3 HEC sing 188 n n CAC CBC HEC sing 189 n n CAC HAC HEC sing 190 n n CBC HBC1 HEC sing 191 n n CBC HBC2 HEC sing 192 n n CBC HBC3 HEC sing 193 n n ND C1D HEC sing 194 n y ND C4D HEC sing 195 n y C1D C2D HEC doub 196 n y C2D C3D HEC sing 197 n y C2D CMD HEC sing 198 n n C3D C4D HEC doub 199 n y C3D CAD HEC sing 200 n n CMD HMD1 HEC sing 201 n n CMD HMD2 HEC sing 202 n n CMD HMD3 HEC sing 203 n n CAD CBD HEC sing 204 n n CAD HAD1 HEC sing 205 n n CAD HAD2 HEC sing 206 n n CBD CGD HEC sing 207 n n CBD HBD1 HEC sing 208 n n CBD HBD2 HEC sing 209 n n CGD O1D HEC doub 210 n n CGD O2D HEC sing 211 n n O2D H2D HEC sing 212 n n # _atom_sites.entry_id 1YCC _atom_sites.fract_transf_matrix[1][1] 0.027427 _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] 0.027427 _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] 0.007307 _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 SO4 A 1 117 117 SO4 SO4 . C 3 HEC A 1 118 1 HEC HEM . D 4 HOH A 1 119 105 HOH HOH . D 4 HOH A 2 120 106 HOH HOH . D 4 HOH A 3 121 107 HOH HOH . D 4 HOH A 4 122 108 HOH HOH . D 4 HOH A 5 123 109 HOH HOH . D 4 HOH A 6 124 110 HOH HOH . D 4 HOH A 7 125 111 HOH HOH . D 4 HOH A 8 126 112 HOH HOH . D 4 HOH A 9 127 113 HOH HOH . D 4 HOH A 10 128 114 HOH HOH . D 4 HOH A 11 129 115 HOH HOH . D 4 HOH A 12 130 116 HOH HOH . D 4 HOH A 13 131 118 HOH HOH . D 4 HOH A 14 132 119 HOH HOH . D 4 HOH A 15 133 120 HOH HOH . D 4 HOH A 16 134 121 HOH HOH . D 4 HOH A 17 135 122 HOH HOH . D 4 HOH A 18 136 123 HOH HOH . D 4 HOH A 19 137 124 HOH HOH . D 4 HOH A 20 138 125 HOH HOH . D 4 HOH A 21 139 126 HOH HOH . D 4 HOH A 22 140 127 HOH HOH . D 4 HOH A 23 141 128 HOH HOH . D 4 HOH A 24 142 129 HOH HOH . D 4 HOH A 25 143 130 HOH HOH . D 4 HOH A 26 144 131 HOH HOH . D 4 HOH A 27 145 132 HOH HOH . D 4 HOH A 28 146 133 HOH HOH . D 4 HOH A 29 147 134 HOH HOH . D 4 HOH A 30 148 135 HOH HOH . D 4 HOH A 31 149 136 HOH HOH . D 4 HOH A 32 150 137 HOH HOH . D 4 HOH A 33 151 138 HOH HOH . D 4 HOH A 34 152 139 HOH HOH . D 4 HOH A 35 153 140 HOH HOH . D 4 HOH A 36 154 141 HOH HOH . D 4 HOH A 37 155 142 HOH HOH . D 4 HOH A 38 156 143 HOH HOH . D 4 HOH A 39 157 144 HOH HOH . D 4 HOH A 40 158 145 HOH HOH . D 4 HOH A 41 159 146 HOH HOH . D 4 HOH A 42 160 147 HOH HOH . D 4 HOH A 43 161 148 HOH HOH . D 4 HOH A 44 162 149 HOH HOH . D 4 HOH A 45 163 150 HOH HOH . D 4 HOH A 46 164 151 HOH HOH . D 4 HOH A 47 165 152 HOH HOH . D 4 HOH A 48 166 153 HOH HOH . D 4 HOH A 49 167 154 HOH HOH . D 4 HOH A 50 168 155 HOH HOH . D 4 HOH A 51 169 156 HOH HOH . D 4 HOH A 52 170 157 HOH HOH . D 4 HOH A 53 171 158 HOH HOH . D 4 HOH A 54 172 159 HOH HOH . D 4 HOH A 55 173 160 HOH HOH . D 4 HOH A 56 174 161 HOH HOH . D 4 HOH A 57 175 162 HOH HOH . D 4 HOH A 58 176 163 HOH HOH . D 4 HOH A 59 177 164 HOH HOH . D 4 HOH A 60 178 165 HOH HOH . D 4 HOH A 61 179 166 HOH HOH . D 4 HOH A 62 180 167 HOH HOH . D 4 HOH A 63 181 168 HOH HOH . D 4 HOH A 64 182 169 HOH HOH . D 4 HOH A 65 183 170 HOH HOH . D 4 HOH A 66 184 171 HOH HOH . D 4 HOH A 67 185 172 HOH HOH . D 4 HOH A 68 186 173 HOH HOH . D 4 HOH A 69 187 174 HOH HOH . D 4 HOH A 70 188 175 HOH HOH . D 4 HOH A 71 189 176 HOH HOH . D 4 HOH A 72 190 177 HOH HOH . D 4 HOH A 73 191 178 HOH HOH . D 4 HOH A 74 192 179 HOH HOH . D 4 HOH A 75 193 180 HOH HOH . D 4 HOH A 76 194 181 HOH HOH . D 4 HOH A 77 195 182 HOH HOH . D 4 HOH A 78 196 183 HOH HOH . D 4 HOH A 79 197 184 HOH HOH . D 4 HOH A 80 198 185 HOH HOH . D 4 HOH A 81 199 186 HOH HOH . D 4 HOH A 82 200 187 HOH HOH . D 4 HOH A 83 201 188 HOH HOH . D 4 HOH A 84 202 189 HOH HOH . D 4 HOH A 85 203 190 HOH HOH . D 4 HOH A 86 204 191 HOH HOH . D 4 HOH A 87 205 192 HOH HOH . D 4 HOH A 88 206 193 HOH HOH . D 4 HOH A 89 207 194 HOH HOH . D 4 HOH A 90 208 195 HOH HOH . D 4 HOH A 91 209 196 HOH HOH . D 4 HOH A 92 210 197 HOH HOH . D 4 HOH A 93 211 198 HOH HOH . D 4 HOH A 94 212 199 HOH HOH . D 4 HOH A 95 213 200 HOH HOH . D 4 HOH A 96 214 201 HOH HOH . D 4 HOH A 97 215 202 HOH HOH . D 4 HOH A 98 216 203 HOH HOH . D 4 HOH A 99 217 204 HOH HOH . D 4 HOH A 100 218 205 HOH HOH . D 4 HOH A 101 219 206 HOH HOH . D 4 HOH A 102 220 207 HOH HOH . D 4 HOH A 103 221 208 HOH HOH . D 4 HOH A 104 222 209 HOH HOH . D 4 HOH A 105 223 210 HOH HOH . D 4 HOH A 106 224 211 HOH HOH . D 4 HOH A 107 225 212 HOH HOH . D 4 HOH A 108 226 213 HOH HOH . D 4 HOH A 109 227 214 HOH HOH . D 4 HOH A 110 228 215 HOH HOH . D 4 HOH A 111 229 216 HOH HOH . D 4 HOH A 112 230 217 HOH HOH . D 4 HOH A 113 231 218 HOH HOH . D 4 HOH A 114 232 219 HOH HOH . D 4 HOH A 115 233 220 HOH HOH . D 4 HOH A 116 234 221 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 FE FE HEC . . . C 3 2.804 20.977 13.203 1 5.88 ? FE HEC 118 A 1 HETATM 2 C CHA HEC . . . C 3 5.106 18.702 14.237 1 5.87 ? CHA HEC 118 A 1 HETATM 3 C CHB HEC . . . C 3 3.97 20.651 10.03 1 4.22 ? CHB HEC 118 A 1 HETATM 4 C CHC HEC . . . C 3 0.209 22.809 12.141 1 3.38 ? CHC HEC 118 A 1 HETATM 5 C CHD HEC . . . C 3 2.105 21.734 16.357 1 3.69 ? CHD HEC 118 A 1 HETATM 6 N NA HEC . . . C 3 4.231 19.906 12.368 1 4.19 ? NA HEC 118 A 1 HETATM 7 C C1A HEC . . . C 3 5.101 19.026 12.888 1 5.95 ? C1A HEC 118 A 1 HETATM 8 C C2A HEC . . . C 3 5.794 18.232 11.845 1 6.45 ? C2A HEC 118 A 1 HETATM 9 C C3A HEC . . . C 3 5.473 18.82 10.692 1 3.89 ? C3A HEC 118 A 1 HETATM 10 C C4A HEC . . . C 3 4.516 19.811 10.917 1 6.01 ? C4A HEC 118 A 1 HETATM 11 C CMA HEC . . . C 3 5.975 18.374 9.266 1 6.73 ? CMA HEC 118 A 1 HETATM 12 C CAA HEC . . . C 3 6.81 17.182 12.193 1 5.78 ? CAA HEC 118 A 1 HETATM 13 C CBA HEC . . . C 3 8.215 17.854 12.326 1 7.08 ? CBA HEC 118 A 1 HETATM 14 C CGA HEC . . . C 3 9.431 16.948 12.446 1 5.97 ? CGA HEC 118 A 1 HETATM 15 O O1A HEC . . . C 3 10.497 17.561 12.574 1 9.31 ? O1A HEC 118 A 1 HETATM 16 O O2A HEC . . . C 3 9.302 15.705 12.427 1 8.41 ? O2A HEC 118 A 1 HETATM 17 N NB HEC . . . C 3 2.192 21.629 11.411 1 2.15 ? NB HEC 118 A 1 HETATM 18 C C1B HEC . . . C 3 2.942 21.56 10.243 1 3.21 ? C1B HEC 118 A 1 HETATM 19 C C2B HEC . . . C 3 2.153 22.255 9.23 1 3.58 ? C2B HEC 118 A 1 HETATM 20 C C3B HEC . . . C 3 1.049 22.82 9.779 1 2.63 ? C3B HEC 118 A 1 HETATM 21 C C4B HEC . . . C 3 1.152 22.442 11.163 1 3.2 ? C4B HEC 118 A 1 HETATM 22 C CMB HEC . . . C 3 2.678 22.418 7.757 1 5.37 ? CMB HEC 118 A 1 HETATM 23 C CAB HEC . . . C 3 -0.025 23.701 9.197 1 5.49 ? CAB HEC 118 A 1 HETATM 24 C CBB HEC . . . C 3 -1.172 22.933 8.52 1 10.72 ? CBB HEC 118 A 1 HETATM 25 N NC HEC . . . C 3 1.422 22.066 14.13 1 3.42 ? NC HEC 118 A 1 HETATM 26 C C1C HEC . . . C 3 0.391 22.773 13.59 1 2.81 ? C1C HEC 118 A 1 HETATM 27 C C2C HEC . . . C 3 -0.404 23.54 14.466 1 3.38 ? C2C HEC 118 A 1 HETATM 28 C C3C HEC . . . C 3 0.103 23.199 15.669 1 3.06 ? C3C HEC 118 A 1 HETATM 29 C C4C HEC . . . C 3 1.283 22.361 15.466 1 4.09 ? C4C HEC 118 A 1 HETATM 30 C CMC HEC . . . C 3 -1.58 24.417 14.163 1 5.12 ? CMC HEC 118 A 1 HETATM 31 C CAC HEC . . . C 3 -0.143 23.797 17.089 1 4.88 ? CAC HEC 118 A 1 HETATM 32 C CBC HEC . . . C 3 -1.643 23.796 17.461 1 5.17 ? CBC HEC 118 A 1 HETATM 33 N ND HEC . . . C 3 3.478 20.351 14.983 1 5.48 ? ND HEC 118 A 1 HETATM 34 C C1D HEC . . . C 3 3.057 20.792 16.232 1 4.18 ? C1D HEC 118 A 1 HETATM 35 C C2D HEC . . . C 3 3.746 20.112 17.228 1 4.11 ? C2D HEC 118 A 1 HETATM 36 C C3D HEC . . . C 3 4.57 19.231 16.638 1 5.1 ? C3D HEC 118 A 1 HETATM 37 C C4D HEC . . . C 3 4.345 19.327 15.198 1 5.93 ? C4D HEC 118 A 1 HETATM 38 C CMD HEC . . . C 3 3.526 20.275 18.801 1 3.91 ? CMD HEC 118 A 1 HETATM 39 C CAD HEC . . . C 3 5.424 18.169 17.375 1 5.11 ? CAD HEC 118 A 1 HETATM 40 C CBD HEC . . . C 3 4.819 16.786 17.314 1 6.82 ? CBD HEC 118 A 1 HETATM 41 C CGD HEC . . . C 3 5.321 15.74 18.292 1 7.97 ? CGD HEC 118 A 1 HETATM 42 O O1D HEC . . . C 3 6.473 15.913 18.774 1 9.1 ? O1D HEC 118 A 1 HETATM 43 O O2D HEC . . . C 3 4.596 14.724 18.384 1 9.11 ? O2D HEC 118 A 1 # _model_server_stats.io_time_ms 62 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 323 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 43 #