data_4KMG # _model_server_result.job_id m-NrDVIP14WC_CUSCBYg8g _model_server_result.datetime_utc '2024-11-05 00:25:01' _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 4kmg # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":101}' # _entry.id 4KMG # _exptl.entry_id 4KMG _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 618.503 _entity.id 2 _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 92.3 _cell.angle_gamma 90 _cell.entry_id 4KMG _cell.length_a 106.11 _cell.length_b 28.98 _cell.length_c 24.68 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4KMG _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 1 2 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 ? monomeric 1 author_defined_assembly 1 PISA dimeric 2 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 1 1 A,B,C,D 2 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' 2_556 -x,y,-z+1 -1 0 0 0 1 0 0 0 -1 -0.990453 0 24.660118 # _struct_asym.details ? _struct_asym.entity_id 2 _struct_asym.id B _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 14 A CYS 14 1_555 B CAB HEC . A HEC 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.864 ? covale ? covale2 A SG CYS 17 A CYS 17 1_555 B CAC HEC . A HEC 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.832 ? metalc ? metalc1 A NE2 HIS 18 A HIS 18 1_555 B FE HEC . A HEC 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.046 ? metalc ? metalc2 A SD MET 58 A MET 58 1_555 B FE HEC . A HEC 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.315 ? metalc ? metalc3 A O ASN 83 A ASN 83 1_555 C NA NA . A NA 102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.235 ? metalc ? metalc4 A OG1 THR 86 A THR 86 1_555 C NA NA . A NA 102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.369 ? metalc ? metalc5 A O THR 86 A THR 86 1_555 C NA NA . A NA 102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.631 ? # _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 4KMG _atom_sites.fract_transf_matrix[1][1] 0.009424 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.000379 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.034507 _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] 0.040551 _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 HEC A 1 101 89 HEC HEM . C 3 NA A 1 102 1 NA NA . D 4 HOH A 1 201 2 HOH HOH . D 4 HOH A 2 202 3 HOH HOH . D 4 HOH A 3 203 4 HOH HOH . D 4 HOH A 4 204 5 HOH HOH . D 4 HOH A 5 205 6 HOH HOH . D 4 HOH A 6 206 7 HOH HOH . D 4 HOH A 7 207 8 HOH HOH . D 4 HOH A 8 208 9 HOH HOH . D 4 HOH A 9 209 10 HOH HOH . D 4 HOH A 10 210 11 HOH HOH . D 4 HOH A 11 211 12 HOH HOH . D 4 HOH A 12 212 13 HOH HOH . D 4 HOH A 13 213 14 HOH HOH . D 4 HOH A 14 214 15 HOH HOH . D 4 HOH A 15 215 16 HOH HOH . D 4 HOH A 16 216 17 HOH HOH . D 4 HOH A 17 217 18 HOH HOH . D 4 HOH A 18 218 19 HOH HOH . D 4 HOH A 19 219 20 HOH HOH . D 4 HOH A 20 220 21 HOH HOH . D 4 HOH A 21 221 22 HOH HOH . D 4 HOH A 22 222 23 HOH HOH . D 4 HOH A 23 223 24 HOH HOH . D 4 HOH A 24 224 25 HOH HOH . D 4 HOH A 25 225 26 HOH HOH . D 4 HOH A 26 226 27 HOH HOH . D 4 HOH A 27 227 28 HOH HOH . D 4 HOH A 28 228 29 HOH HOH . D 4 HOH A 29 229 30 HOH HOH . D 4 HOH A 30 230 31 HOH HOH . D 4 HOH A 31 231 32 HOH HOH . D 4 HOH A 32 232 33 HOH HOH . D 4 HOH A 33 233 34 HOH HOH . D 4 HOH A 34 234 35 HOH HOH . D 4 HOH A 35 235 36 HOH HOH . D 4 HOH A 36 236 37 HOH HOH . D 4 HOH A 37 237 38 HOH HOH . D 4 HOH A 38 238 39 HOH HOH . D 4 HOH A 39 239 40 HOH HOH . D 4 HOH A 40 240 41 HOH HOH . D 4 HOH A 41 241 42 HOH HOH . D 4 HOH A 42 242 43 HOH HOH . D 4 HOH A 43 243 44 HOH HOH . D 4 HOH A 44 244 45 HOH HOH . D 4 HOH A 45 245 46 HOH HOH . D 4 HOH A 46 246 47 HOH HOH . D 4 HOH A 47 247 48 HOH HOH . D 4 HOH A 48 248 49 HOH HOH . D 4 HOH A 49 249 50 HOH HOH . D 4 HOH A 50 250 51 HOH HOH . D 4 HOH A 51 251 52 HOH HOH . D 4 HOH A 52 252 53 HOH HOH . D 4 HOH A 53 253 54 HOH HOH . D 4 HOH A 54 254 55 HOH HOH . D 4 HOH A 55 255 56 HOH HOH . D 4 HOH A 56 256 57 HOH HOH . D 4 HOH A 57 257 58 HOH HOH . D 4 HOH A 58 258 59 HOH HOH . D 4 HOH A 59 259 60 HOH HOH . D 4 HOH A 60 260 61 HOH HOH . D 4 HOH A 61 261 62 HOH HOH . D 4 HOH A 62 262 63 HOH HOH . D 4 HOH A 63 263 64 HOH HOH . D 4 HOH A 64 264 65 HOH HOH . D 4 HOH A 65 265 66 HOH HOH . D 4 HOH A 66 266 68 HOH HOH . D 4 HOH A 67 267 69 HOH HOH . D 4 HOH A 68 268 70 HOH HOH . D 4 HOH A 69 269 71 HOH HOH . D 4 HOH A 70 270 72 HOH HOH . D 4 HOH A 71 271 73 HOH HOH . D 4 HOH A 72 272 74 HOH HOH . D 4 HOH A 73 273 75 HOH HOH . D 4 HOH A 74 274 76 HOH HOH . D 4 HOH A 75 275 77 HOH HOH . D 4 HOH A 76 276 78 HOH HOH . D 4 HOH A 77 277 79 HOH HOH . D 4 HOH A 78 278 80 HOH HOH . D 4 HOH A 79 279 81 HOH HOH . D 4 HOH A 80 280 82 HOH HOH . D 4 HOH A 81 281 83 HOH HOH . D 4 HOH A 82 282 84 HOH HOH . D 4 HOH A 83 283 86 HOH HOH . D 4 HOH A 84 284 87 HOH HOH . D 4 HOH A 85 285 88 HOH HOH . D 4 HOH A 86 286 89 HOH HOH . D 4 HOH A 87 287 91 HOH HOH . D 4 HOH A 88 288 92 HOH HOH . D 4 HOH A 89 289 93 HOH HOH . D 4 HOH A 90 290 94 HOH HOH . D 4 HOH A 91 291 95 HOH HOH . D 4 HOH A 92 292 96 HOH HOH . D 4 HOH A 93 293 97 HOH HOH . D 4 HOH A 94 294 98 HOH HOH . D 4 HOH A 95 295 99 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 . . . B 2 -19.857 -3.632 4.128 1 9.1 ? FE HEC 101 A 1 HETATM 2 C CHA HEC . . . B 2 -18.417 -4.423 1.155 1 7.94 ? CHA HEC 101 A 1 HETATM 3 C CHB HEC . . . B 2 -17.958 -0.799 4.358 1 8.03 ? CHB HEC 101 A 1 HETATM 4 C CHC HEC . . . B 2 -21.518 -2.71 6.909 1 10.11 ? CHC HEC 101 A 1 HETATM 5 C CHD HEC . . . B 2 -21.573 -6.565 4.074 1 9.52 ? CHD HEC 101 A 1 HETATM 6 N NA HEC . . . B 2 -18.42 -2.852 3.052 1 8.05 ? NA HEC 101 A 1 HETATM 7 C C1A HEC . . . B 2 -17.916 -3.291 1.855 1 7.57 ? C1A HEC 101 A 1 HETATM 8 C C2A HEC . . . B 2 -16.847 -2.439 1.368 1 8.89 ? C2A HEC 101 A 1 HETATM 9 C C3A HEC . . . B 2 -16.756 -1.411 2.267 1 7.56 ? C3A HEC 101 A 1 HETATM 10 C C4A HEC . . . B 2 -17.705 -1.666 3.315 1 7.52 ? C4A HEC 101 A 1 HETATM 11 C CMA HEC . . . B 2 -15.832 -0.204 2.158 1 9.34 ? CMA HEC 101 A 1 HETATM 12 C CAA HEC . . . B 2 -16.035 -2.743 0.125 1 8.17 ? CAA HEC 101 A 1 HETATM 13 C CBA HEC . . . B 2 -14.993 -3.816 0.437 1 9.68 ? CBA HEC 101 A 1 HETATM 14 C CGA HEC . . . B 2 -14.261 -4.395 -0.769 1 11.91 ? CGA HEC 101 A 1 HETATM 15 O O1A HEC . . . B 2 -14.62 -4.058 -1.89 1 15.91 ? O1A HEC 101 A 1 HETATM 16 O O2A HEC . . . B 2 -13.217 -5.088 -0.543 1 12.17 ? O2A HEC 101 A 1 HETATM 17 N NB HEC . . . B 2 -19.774 -2.062 5.385 1 8.21 ? NB HEC 101 A 1 HETATM 18 C C1B HEC . . . B 2 -18.936 -0.961 5.32 1 7.37 ? C1B HEC 101 A 1 HETATM 19 C C2B HEC . . . B 2 -19.285 -0.01 6.372 1 7.61 ? C2B HEC 101 A 1 HETATM 20 C C3B HEC . . . B 2 -20.295 -0.512 7.052 1 8.27 ? C3B HEC 101 A 1 HETATM 21 C C4B HEC . . . B 2 -20.595 -1.789 6.45 1 9.85 ? C4B HEC 101 A 1 HETATM 22 C CMB HEC . . . B 2 -18.563 1.268 6.515 1 9.32 ? CMB HEC 101 A 1 HETATM 23 C CAB HEC . . . B 2 -21.026 0.026 8.218 1 8.96 ? CAB HEC 101 A 1 HETATM 24 C CBB HEC . . . B 2 -21.559 1.433 7.931 1 9.48 ? CBB HEC 101 A 1 HETATM 25 N NC HEC . . . B 2 -21.281 -4.444 5.239 1 8.9 ? NC HEC 101 A 1 HETATM 26 C C1C HEC . . . B 2 -21.829 -3.951 6.395 1 8.85 ? C1C HEC 101 A 1 HETATM 27 C C2C HEC . . . B 2 -22.694 -4.931 7.053 1 10.99 ? C2C HEC 101 A 1 HETATM 28 C C3C HEC . . . B 2 -22.611 -6.07 6.306 1 10.76 ? C3C HEC 101 A 1 HETATM 29 C C4C HEC . . . B 2 -21.779 -5.754 5.154 1 9.61 ? C4C HEC 101 A 1 HETATM 30 C CMC HEC . . . B 2 -23.372 -4.715 8.359 1 12.78 ? CMC HEC 101 A 1 HETATM 31 C CAC HEC . . . B 2 -23.204 -7.434 6.542 1 13.96 ? CAC HEC 101 A 1 HETATM 32 C CBC HEC . . . B 2 -24.717 -7.473 6.648 1 16.03 ? CBC HEC 101 A 1 HETATM 33 N ND HEC . . . B 2 -19.968 -5.176 2.85 1 9.51 ? ND HEC 101 A 1 HETATM 34 C C1D HEC . . . B 2 -20.794 -6.277 2.954 1 8.66 ? C1D HEC 101 A 1 HETATM 35 C C2D HEC . . . B 2 -20.695 -7.077 1.74 1 10.57 ? C2D HEC 101 A 1 HETATM 36 C C3D HEC . . . B 2 -19.831 -6.442 0.834 1 11.09 ? C3D HEC 101 A 1 HETATM 37 C C4D HEC . . . B 2 -19.393 -5.255 1.589 1 9.11 ? C4D HEC 101 A 1 HETATM 38 C CMD HEC . . . B 2 -21.482 -8.323 1.484 1 11.4 ? CMD HEC 101 A 1 HETATM 39 C CAD HEC . . . B 2 -19.494 -6.861 -0.539 1 10 ? CAD HEC 101 A 1 HETATM 40 C CBD HEC . . . B 2 -20.543 -6.214 -1.468 1 13.23 ? CBD HEC 101 A 1 HETATM 41 C CGD HEC . . . B 2 -20.303 -6.76 -2.876 1 14.8 ? CGD HEC 101 A 1 HETATM 42 O O1D HEC . . . B 2 -21.16 -7.332 -3.487 1 17.72 ? O1D HEC 101 A 1 HETATM 43 O O2D HEC . . . B 2 -19.273 -6.432 -3.468 1 19.1 ? O2D HEC 101 A 1 # _model_server_stats.io_time_ms 8 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 379 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 43 #