data_5CID # _model_server_result.job_id jRkqTAmJveiTdvupOxAyWg _model_server_result.datetime_utc '2024-11-06 02:49:07' _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 5cid # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":301}' # _entry.id 5CID # _exptl.entry_id 5CID _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 4 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 104.33 _cell.angle_gamma 90 _cell.entry_id 5CID _cell.length_a 45.38 _cell.length_b 111.906 _cell.length_c 87.894 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5CID _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1 21 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H,I,J,K,L,M _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 ? 3 E N N ? 3 G N N ? 3 H N N ? 3 J 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 B SG CYS 19 B CYS 14 1_555 G CAB HEC . B HEC 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.973 ? covale ? covale2 B SG CYS 22 B CYS 17 1_555 G CAC HEC . B HEC 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.973 ? covale ? covale3 D SG CYS 19 D CYS 14 1_555 J CAB HEC . D HEC 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.963 ? covale ? covale4 D SG CYS 22 D CYS 17 1_555 J CAC HEC . D HEC 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.952 ? metalc ? metalc1 A NE2 HIS 175 A HIS 175 1_555 E FE HEC . A HEC 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.078 ? metalc ? metalc2 B NE2 HIS 23 B HIS 18 1_555 G FE HEC . B HEC 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.019 ? metalc ? metalc3 B SD MET 85 B MET 80 1_555 G FE HEC . B HEC 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.252 ? metalc ? metalc4 C NE2 HIS 175 C HIS 175 1_555 H FE HEC . C HEC 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.068 ? metalc ? metalc5 D NE2 HIS 23 D HIS 18 1_555 J FE HEC . D HEC 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.007 ? metalc ? metalc6 D SD MET 85 D MET 80 1_555 J FE HEC . D HEC 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.246 ? # _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 146 n n FE NB HEC sing 147 n n FE NC HEC sing 148 n n FE ND HEC sing 149 n n CHA C1A HEC doub 150 n n CHA C4D HEC sing 151 n n CHA HHA HEC sing 152 n n CHB C4A HEC doub 153 n n CHB C1B HEC sing 154 n n CHB HHB HEC sing 155 n n CHC C4B HEC doub 156 n n CHC C1C HEC sing 157 n n CHC HHC HEC sing 158 n n CHD C4C HEC doub 159 n n CHD C1D HEC sing 160 n n CHD HHD HEC sing 161 n n NA C1A HEC sing 162 n y NA C4A HEC sing 163 n y C1A C2A HEC sing 164 n y C2A C3A HEC doub 165 n y C2A CAA HEC sing 166 n n C3A C4A HEC sing 167 n y C3A CMA HEC sing 168 n n CMA HMA1 HEC sing 169 n n CMA HMA2 HEC sing 170 n n CMA HMA3 HEC sing 171 n n CAA CBA HEC sing 172 n n CAA HAA1 HEC sing 173 n n CAA HAA2 HEC sing 174 n n CBA CGA HEC sing 175 n n CBA HBA1 HEC sing 176 n n CBA HBA2 HEC sing 177 n n CGA O1A HEC doub 178 n n CGA O2A HEC sing 179 n n O2A H2A HEC sing 180 n n NB C1B HEC sing 181 n y NB C4B HEC sing 182 n y C1B C2B HEC doub 183 n y C2B C3B HEC sing 184 n y C2B CMB HEC sing 185 n n C3B C4B HEC sing 186 n y C3B CAB HEC doub 187 e n CMB HMB1 HEC sing 188 n n CMB HMB2 HEC sing 189 n n CMB HMB3 HEC sing 190 n n CAB CBB HEC sing 191 n n CAB HAB HEC sing 192 n n CBB HBB1 HEC sing 193 n n CBB HBB2 HEC sing 194 n n CBB HBB3 HEC sing 195 n n NC C1C HEC sing 196 n y NC C4C HEC sing 197 n y C1C C2C HEC doub 198 n y C2C C3C HEC sing 199 n y C2C CMC HEC sing 200 n n C3C C4C HEC sing 201 n y C3C CAC HEC doub 202 e n CMC HMC1 HEC sing 203 n n CMC HMC2 HEC sing 204 n n CMC HMC3 HEC sing 205 n n CAC CBC HEC sing 206 n n CAC HAC HEC sing 207 n n CBC HBC1 HEC sing 208 n n CBC HBC2 HEC sing 209 n n CBC HBC3 HEC sing 210 n n ND C1D HEC sing 211 n y ND C4D HEC sing 212 n y C1D C2D HEC doub 213 n y C2D C3D HEC sing 214 n y C2D CMD HEC sing 215 n n C3D C4D HEC doub 216 n y C3D CAD HEC sing 217 n n CMD HMD1 HEC sing 218 n n CMD HMD2 HEC sing 219 n n CMD HMD3 HEC sing 220 n n CAD CBD HEC sing 221 n n CAD HAD1 HEC sing 222 n n CAD HAD2 HEC sing 223 n n CBD CGD HEC sing 224 n n CBD HBD1 HEC sing 225 n n CBD HBD2 HEC sing 226 n n CGD O1D HEC doub 227 n n CGD O2D HEC sing 228 n n O2D H2D HEC sing 229 n n # _atom_sites.entry_id 5CID _atom_sites.fract_transf_matrix[1][1] 0.022036 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.005629 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.008936 _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] 0.011743 _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 E 3 HEC A 1 301 296 HEC HEM . F 4 51V A 1 302 901 51V TOL . G 3 HEC B 1 201 104 HEC HEM . H 3 HEC C 1 301 296 HEC HEM . I 4 51V C 1 302 901 51V TOL . J 3 HEC D 1 201 104 HEC HEM . K 5 HOH A 1 401 4 HOH HOH . K 5 HOH A 2 402 8 HOH HOH . K 5 HOH A 3 403 1 HOH HOH . L 5 HOH B 1 301 2 HOH HOH . M 5 HOH C 1 401 6 HOH HOH . M 5 HOH C 2 402 3 HOH HOH . M 5 HOH C 3 403 9 HOH HOH . M 5 HOH C 4 404 7 HOH HOH . M 5 HOH C 5 405 5 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 . . . E 3 13.249 24.014 43.051 1 32.72 ? FE HEC 301 A 1 HETATM 2 C CHA HEC . . . E 3 10.305 23.992 41.408 1 48.52 ? CHA HEC 301 A 1 HETATM 3 C CHB HEC . . . E 3 11.48 23.316 46.08 1 42.63 ? CHB HEC 301 A 1 HETATM 4 C CHC HEC . . . E 3 16.161 23.972 44.937 1 36.08 ? CHC HEC 301 A 1 HETATM 5 C CHD HEC . . . E 3 15.047 23.985 40.221 1 44.21 ? CHD HEC 301 A 1 HETATM 6 N NA HEC . . . E 3 11.254 23.745 43.661 1 41.91 ? NA HEC 301 A 1 HETATM 7 C C1A HEC . . . E 3 10.216 23.698 42.752 1 43.01 ? C1A HEC 301 A 1 HETATM 8 C C2A HEC . . . E 3 9.02 23.294 43.462 1 45.69 ? C2A HEC 301 A 1 HETATM 9 C C3A HEC . . . E 3 9.341 23.109 44.746 1 51.84 ? C3A HEC 301 A 1 HETATM 10 C C4A HEC . . . E 3 10.756 23.389 44.905 1 50.75 ? C4A HEC 301 A 1 HETATM 11 C CMA HEC . . . E 3 8.372 22.677 45.873 1 46.45 ? CMA HEC 301 A 1 HETATM 12 C CAA HEC . . . E 3 7.615 23.112 42.847 1 39.82 ? CAA HEC 301 A 1 HETATM 13 C CBA HEC . . . E 3 7.608 21.972 41.838 1 42.06 ? CBA HEC 301 A 1 HETATM 14 C CGA HEC . . . E 3 6.217 21.84 41.274 1 52.19 ? CGA HEC 301 A 1 HETATM 15 O O1A HEC . . . E 3 5.268 22.374 41.91 1 49.63 ? O1A HEC 301 A 1 HETATM 16 O O2A HEC . . . E 3 6.054 21.205 40.196 1 54.92 ? O2A HEC 301 A 1 HETATM 17 N NB HEC . . . E 3 13.732 23.6 45.126 1 41.59 ? NB HEC 301 A 1 HETATM 18 C C1B HEC . . . E 3 12.839 23.537 46.183 1 43.51 ? C1B HEC 301 A 1 HETATM 19 C C2B HEC . . . E 3 13.572 23.756 47.419 1 49.68 ? C2B HEC 301 A 1 HETATM 20 C C3B HEC . . . E 3 14.867 23.93 47.101 1 42.7 ? C3B HEC 301 A 1 HETATM 21 C C4B HEC . . . E 3 14.988 23.841 45.656 1 40.83 ? C4B HEC 301 A 1 HETATM 22 C CMB HEC . . . E 3 12.915 23.757 48.824 1 44.13 ? CMB HEC 301 A 1 HETATM 23 C CAB HEC . . . E 3 16.077 24.206 48.023 1 41.28 ? CAB HEC 301 A 1 HETATM 24 C CBB HEC . . . E 3 15.989 24.511 49.321 1 48.22 ? CBB HEC 301 A 1 HETATM 25 N NC HEC . . . E 3 15.239 23.953 42.662 1 37.99 ? NC HEC 301 A 1 HETATM 26 C C1C HEC . . . E 3 16.286 23.996 43.56 1 41.32 ? C1C HEC 301 A 1 HETATM 27 C C2C HEC . . . E 3 17.526 24.076 42.798 1 39.73 ? C2C HEC 301 A 1 HETATM 28 C C3C HEC . . . E 3 17.208 24.072 41.489 1 38.09 ? C3C HEC 301 A 1 HETATM 29 C C4C HEC . . . E 3 15.766 24.001 41.393 1 38.56 ? C4C HEC 301 A 1 HETATM 30 C CMC HEC . . . E 3 18.934 24.138 43.43 1 33.8 ? CMC HEC 301 A 1 HETATM 31 C CAC HEC . . . E 3 18.115 24.147 40.23 1 35.57 ? CAC HEC 301 A 1 HETATM 32 C CBC HEC . . . E 3 19.429 24.403 40.233 1 34.99 ? CBC HEC 301 A 1 HETATM 33 N ND HEC . . . E 3 12.748 23.949 41.114 1 42.33 ? ND HEC 301 A 1 HETATM 34 C C1D HEC . . . E 3 13.679 24.049 40.091 1 44.29 ? C1D HEC 301 A 1 HETATM 35 C C2D HEC . . . E 3 12.978 24.228 38.844 1 48.18 ? C2D HEC 301 A 1 HETATM 36 C C3D HEC . . . E 3 11.49 24.237 39.211 1 47.8 ? C3D HEC 301 A 1 HETATM 37 C C4D HEC . . . E 3 11.448 24.05 40.644 1 42.57 ? C4D HEC 301 A 1 HETATM 38 C CMD HEC . . . E 3 13.6 24.387 37.441 1 43.81 ? CMD HEC 301 A 1 HETATM 39 C CAD HEC . . . E 3 10.302 24.387 38.239 1 48.77 ? CAD HEC 301 A 1 HETATM 40 C CBD HEC . . . E 3 10.13 23.055 37.514 1 44.79 ? CBD HEC 301 A 1 HETATM 41 C CGD HEC . . . E 3 8.85 23.061 36.724 1 47.35 ? CGD HEC 301 A 1 HETATM 42 O O1D HEC . . . E 3 8.404 21.955 36.311 1 48.83 ? O1D HEC 301 A 1 HETATM 43 O O2D HEC . . . E 3 8.282 24.167 36.514 1 46.37 ? O2D HEC 301 A 1 # _model_server_stats.io_time_ms 74 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 23 _model_server_stats.query_time_ms 256 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 43 #