data_2CDV # _model_server_result.job_id UHOorz6lbcaBU0FNtc97gw _model_server_result.datetime_utc '2024-11-22 09:47:42' _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 2cdv # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":109}' # _entry.id 2CDV # _exptl.entry_id 2CDV _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 4 _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 2CDV _cell.length_a 52.9 _cell.length_b 68.1 _cell.length_c 34.9 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2CDV _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 21 21 21' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _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 _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 B N N ? 2 C N N ? 2 D N N ? 2 E 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 SG CYS 30 A CYS 30 1_555 D CAB HEC . A HEC 110 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.772 ? covale ? covale2 A SG CYS 33 A CYS 33 1_555 D CAC HEC . A HEC 110 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.85 ? covale ? covale3 A SG CYS 46 A CYS 46 1_555 C CAB HEC . A HEC 109 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.843 ? covale ? covale4 A SG CYS 51 A CYS 51 1_555 C CAC HEC . A HEC 109 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.864 ? covale ? covale5 A SG CYS 79 A CYS 79 1_555 E CAB HEC . A HEC 111 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.815 ? covale ? covale6 A SG CYS 82 A CYS 82 1_555 E CAC HEC . A HEC 111 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.8 ? covale ? covale7 A SG CYS 100 A CYS 100 1_555 B CAB HEC . A HEC 108 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.849 ? covale ? covale8 A SG CYS 105 A CYS 105 1_555 B CAC HEC . A HEC 108 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.779 ? metalc ? metalc1 A NE2 HIS 22 A HIS 22 1_555 D FE HEC . A HEC 110 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.021 ? metalc ? metalc2 A NE2 HIS 25 A HIS 25 1_555 E FE HEC . A HEC 111 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.121 ? metalc ? metalc3 A NE2 HIS 34 A HIS 34 1_555 D FE HEC . A HEC 110 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.876 ? metalc ? metalc4 A NE2 HIS 35 A HIS 35 1_555 C FE HEC . A HEC 109 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.063 ? metalc ? metalc5 A NE2 HIS 52 A HIS 52 1_555 C FE HEC . A HEC 109 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.054 ? metalc ? metalc6 A NE2 HIS 70 A HIS 70 1_555 B FE HEC . A HEC 108 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.932 ? metalc ? metalc7 A NE2 HIS 83 A HIS 83 1_555 E FE HEC . A HEC 111 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.949 ? metalc ? metalc8 A NE2 HIS 106 A HIS 106 1_555 B FE HEC . A HEC 108 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.936 ? # _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 103 n n FE NB HEC sing 104 n n FE NC HEC sing 105 n n FE ND HEC sing 106 n n CHA C1A HEC doub 107 n n CHA C4D HEC sing 108 n n CHA HHA HEC sing 109 n n CHB C4A HEC doub 110 n n CHB C1B HEC sing 111 n n CHB HHB HEC sing 112 n n CHC C4B HEC doub 113 n n CHC C1C HEC sing 114 n n CHC HHC HEC sing 115 n n CHD C4C HEC doub 116 n n CHD C1D HEC sing 117 n n CHD HHD HEC sing 118 n n NA C1A HEC sing 119 n y NA C4A HEC sing 120 n y C1A C2A HEC sing 121 n y C2A C3A HEC doub 122 n y C2A CAA HEC sing 123 n n C3A C4A HEC sing 124 n y C3A CMA HEC sing 125 n n CMA HMA1 HEC sing 126 n n CMA HMA2 HEC sing 127 n n CMA HMA3 HEC sing 128 n n CAA CBA HEC sing 129 n n CAA HAA1 HEC sing 130 n n CAA HAA2 HEC sing 131 n n CBA CGA HEC sing 132 n n CBA HBA1 HEC sing 133 n n CBA HBA2 HEC sing 134 n n CGA O1A HEC doub 135 n n CGA O2A HEC sing 136 n n O2A H2A HEC sing 137 n n NB C1B HEC sing 138 n y NB C4B HEC sing 139 n y C1B C2B HEC doub 140 n y C2B C3B HEC sing 141 n y C2B CMB HEC sing 142 n n C3B C4B HEC sing 143 n y C3B CAB HEC doub 144 e n CMB HMB1 HEC sing 145 n n CMB HMB2 HEC sing 146 n n CMB HMB3 HEC sing 147 n n CAB CBB HEC sing 148 n n CAB HAB HEC sing 149 n n CBB HBB1 HEC sing 150 n n CBB HBB2 HEC sing 151 n n CBB HBB3 HEC sing 152 n n NC C1C HEC sing 153 n y NC C4C HEC sing 154 n y C1C C2C HEC doub 155 n y C2C C3C HEC sing 156 n y C2C CMC HEC sing 157 n n C3C C4C HEC sing 158 n y C3C CAC HEC doub 159 e n CMC HMC1 HEC sing 160 n n CMC HMC2 HEC sing 161 n n CMC HMC3 HEC sing 162 n n CAC CBC HEC sing 163 n n CAC HAC HEC sing 164 n n CBC HBC1 HEC sing 165 n n CBC HBC2 HEC sing 166 n n CBC HBC3 HEC sing 167 n n ND C1D HEC sing 168 n y ND C4D HEC sing 169 n y C1D C2D HEC doub 170 n y C2D C3D HEC sing 171 n y C2D CMD HEC sing 172 n n C3D C4D HEC doub 173 n y C3D CAD HEC sing 174 n n CMD HMD1 HEC sing 175 n n CMD HMD2 HEC sing 176 n n CMD HMD3 HEC sing 177 n n CAD CBD HEC sing 178 n n CAD HAD1 HEC sing 179 n n CAD HAD2 HEC sing 180 n n CBD CGD HEC sing 181 n n CBD HBD1 HEC sing 182 n n CBD HBD2 HEC sing 183 n n CGD O1D HEC doub 184 n n CGD O2D HEC sing 185 n n O2D H2D HEC sing 186 n n # _atom_sites.entry_id 2CDV _atom_sites.fract_transf_matrix[1][1] 0.018904 _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] 0.014684 _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] 0.028653 _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 1 108 1 HEC HEM . C 2 HEC A 1 109 2 HEC HEM . D 2 HEC A 1 110 3 HEC HEM . E 2 HEC A 1 111 4 HEC HEM . F 3 HOH A 1 112 5 HOH HOH . F 3 HOH A 2 113 6 HOH HOH . F 3 HOH A 3 114 7 HOH HOH . F 3 HOH A 4 115 8 HOH HOH . F 3 HOH A 5 116 9 HOH HOH . F 3 HOH A 6 117 10 HOH HOH . F 3 HOH A 7 118 11 HOH HOH . F 3 HOH A 8 119 12 HOH HOH . F 3 HOH A 9 120 13 HOH HOH . F 3 HOH A 10 121 14 HOH HOH . F 3 HOH A 11 122 15 HOH HOH . F 3 HOH A 12 123 16 HOH HOH . F 3 HOH A 13 124 17 HOH HOH . F 3 HOH A 14 125 18 HOH HOH . F 3 HOH A 15 126 19 HOH HOH . F 3 HOH A 16 127 20 HOH HOH . F 3 HOH A 17 128 21 HOH HOH . F 3 HOH A 18 129 22 HOH HOH . F 3 HOH A 19 130 23 HOH HOH . F 3 HOH A 20 131 24 HOH HOH . F 3 HOH A 21 132 25 HOH HOH . F 3 HOH A 22 133 26 HOH HOH . F 3 HOH A 23 134 27 HOH HOH . F 3 HOH A 24 135 28 HOH HOH . F 3 HOH A 25 136 29 HOH HOH . F 3 HOH A 26 137 30 HOH HOH . F 3 HOH A 27 138 31 HOH HOH . F 3 HOH A 28 139 32 HOH HOH . F 3 HOH A 29 140 33 HOH HOH . F 3 HOH A 30 141 34 HOH HOH . F 3 HOH A 31 142 35 HOH HOH . F 3 HOH A 32 143 36 HOH HOH . F 3 HOH A 33 144 37 HOH HOH . F 3 HOH A 34 145 38 HOH HOH . F 3 HOH A 35 146 39 HOH HOH . F 3 HOH A 36 147 40 HOH HOH . F 3 HOH A 37 148 41 HOH HOH . F 3 HOH A 38 149 42 HOH HOH . F 3 HOH A 39 150 43 HOH HOH . F 3 HOH A 40 151 44 HOH HOH . F 3 HOH A 41 152 45 HOH HOH . F 3 HOH A 42 153 46 HOH HOH . F 3 HOH A 43 154 47 HOH HOH . F 3 HOH A 44 155 48 HOH HOH . F 3 HOH A 45 156 49 HOH HOH . F 3 HOH A 46 157 50 HOH HOH . F 3 HOH A 47 158 51 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 2 32.715 51.231 18.771 1 6.68 ? FE HEC 109 A 1 HETATM 2 C CHA HEC . . . C 2 34.047 49.464 16.191 1 6.9 ? CHA HEC 109 A 1 HETATM 3 C CHB HEC . . . C 2 32.711 48.365 20.685 1 4.93 ? CHB HEC 109 A 1 HETATM 4 C CHC HEC . . . C 2 31.961 53.075 21.45 1 5.01 ? CHC HEC 109 A 1 HETATM 5 C CHD HEC . . . C 2 31.972 53.823 16.717 1 6.44 ? CHD HEC 109 A 1 HETATM 6 N NA HEC . . . C 2 33.277 49.294 18.494 1 5.57 ? NA HEC 109 A 1 HETATM 7 C C1A HEC . . . C 2 33.692 48.727 17.3 1 5.87 ? C1A HEC 109 A 1 HETATM 8 C C2A HEC . . . C 2 33.998 47.319 17.536 1 5.78 ? C2A HEC 109 A 1 HETATM 9 C C3A HEC . . . C 2 33.617 46.993 18.769 1 4.55 ? C3A HEC 109 A 1 HETATM 10 C C4A HEC . . . C 2 33.207 48.253 19.42 1 5.23 ? C4A HEC 109 A 1 HETATM 11 C CMA HEC . . . C 2 33.605 45.657 19.47 1 3.75 ? CMA HEC 109 A 1 HETATM 12 C CAA HEC . . . C 2 34.466 46.389 16.383 1 5.12 ? CAA HEC 109 A 1 HETATM 13 C CBA HEC . . . C 2 33.294 45.916 15.548 1 6.24 ? CBA HEC 109 A 1 HETATM 14 C CGA HEC . . . C 2 33.618 44.949 14.451 1 7.66 ? CGA HEC 109 A 1 HETATM 15 O O1A HEC . . . C 2 34.848 44.681 14.325 1 8.85 ? O1A HEC 109 A 1 HETATM 16 O O2A HEC . . . C 2 32.659 44.443 13.829 1 7.75 ? O2A HEC 109 A 1 HETATM 17 N NB HEC . . . C 2 32.402 50.811 20.682 1 5.66 ? NB HEC 109 A 1 HETATM 18 C C1B HEC . . . C 2 32.431 49.57 21.3 1 5.67 ? C1B HEC 109 A 1 HETATM 19 C C2B HEC . . . C 2 32 49.725 22.66 1 5.15 ? C2B HEC 109 A 1 HETATM 20 C C3B HEC . . . C 2 31.869 51.043 22.907 1 4.89 ? C3B HEC 109 A 1 HETATM 21 C C4B HEC . . . C 2 32.038 51.716 21.668 1 5.01 ? C4B HEC 109 A 1 HETATM 22 C CMB HEC . . . C 2 31.995 48.537 23.653 1 6.42 ? CMB HEC 109 A 1 HETATM 23 C CAB HEC . . . C 2 31.438 51.733 24.251 1 5.42 ? CAB HEC 109 A 1 HETATM 24 C CBB HEC . . . C 2 32.28 51.551 25.335 1 4.16 ? CBB HEC 109 A 1 HETATM 25 N NC HEC . . . C 2 32.047 53.097 19.016 1 5.48 ? NC HEC 109 A 1 HETATM 26 C C1C HEC . . . C 2 31.836 53.699 20.24 1 5.21 ? C1C HEC 109 A 1 HETATM 27 C C2C HEC . . . C 2 31.402 55.072 20.012 1 4.96 ? C2C HEC 109 A 1 HETATM 28 C C3C HEC . . . C 2 31.346 55.254 18.703 1 5.15 ? C3C HEC 109 A 1 HETATM 29 C C4C HEC . . . C 2 31.814 54.037 18.059 1 5.32 ? C4C HEC 109 A 1 HETATM 30 C CMC HEC . . . C 2 31.092 56.001 21.215 1 4.04 ? CMC HEC 109 A 1 HETATM 31 C CAC HEC . . . C 2 30.855 56.486 17.914 1 6.27 ? CAC HEC 109 A 1 HETATM 32 C CBC HEC . . . C 2 31.517 57.642 18.167 1 6.87 ? CBC HEC 109 A 1 HETATM 33 N ND HEC . . . C 2 32.959 51.575 16.848 1 7.16 ? ND HEC 109 A 1 HETATM 34 C C1D HEC . . . C 2 32.595 52.72 16.146 1 7.5 ? C1D HEC 109 A 1 HETATM 35 C C2D HEC . . . C 2 33.151 52.652 14.816 1 7.94 ? C2D HEC 109 A 1 HETATM 36 C C3D HEC . . . C 2 33.685 51.468 14.665 1 8.4 ? C3D HEC 109 A 1 HETATM 37 C C4D HEC . . . C 2 33.659 50.797 15.951 1 8.24 ? C4D HEC 109 A 1 HETATM 38 C CMD HEC . . . C 2 33.036 53.824 13.798 1 8.28 ? CMD HEC 109 A 1 HETATM 39 C CAD HEC . . . C 2 34.661 50.973 13.54 1 10.52 ? CAD HEC 109 A 1 HETATM 40 C CBD HEC . . . C 2 36.079 51.533 13.977 1 12.84 ? CBD HEC 109 A 1 HETATM 41 C CGD HEC . . . C 2 37.1 51.184 12.933 1 15.47 ? CGD HEC 109 A 1 HETATM 42 O O1D HEC . . . C 2 38.226 51.718 13.048 1 16.8 ? O1D HEC 109 A 1 HETATM 43 O O2D HEC . . . C 2 36.686 50.361 12.055 1 16.12 ? O2D HEC 109 A 1 # _model_server_stats.io_time_ms 16 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 283 _model_server_stats.encode_time_ms 7 _model_server_stats.element_count 43 #