data_5CYT # _model_server_result.job_id SWXZD8QsZu4qG-WvyUsPRQ _model_server_result.datetime_utc '2024-11-09 02:06:08' _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 5cyt # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":105}' # _entry.id 5CYT # _exptl.entry_id 5CYT _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 90 _cell.angle_gamma 90 _cell.entry_id 5CYT _cell.length_a 37.33 _cell.length_b 87.1 _cell.length_c 34.44 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5CYT _symmetry.cell_setting ? _symmetry.Int_Tables_number 18 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 21 21 2' # _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 _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 # _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 C ACE 1 R ACE 0 1_555 A N GLY 2 R GLY 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.343 ? covale ? covale2 A SG CYS 15 R CYS 14 1_555 B CAB HEC . R HEC 105 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.82 ? covale ? covale3 A SG CYS 18 R CYS 17 1_555 B CAC HEC . R HEC 105 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.836 ? metalc ? metalc1 A NE2 HIS 19 R HIS 18 1_555 B FE HEC . R HEC 105 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.978 ? metalc ? metalc2 A SD MET 81 R MET 80 1_555 B FE HEC . R HEC 105 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.308 ? # _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 135 n n FE NB HEC sing 136 n n FE NC HEC sing 137 n n FE ND HEC sing 138 n n CHA C1A HEC doub 139 n n CHA C4D HEC sing 140 n n CHA HHA HEC sing 141 n n CHB C4A HEC doub 142 n n CHB C1B HEC sing 143 n n CHB HHB HEC sing 144 n n CHC C4B HEC doub 145 n n CHC C1C HEC sing 146 n n CHC HHC HEC sing 147 n n CHD C4C HEC doub 148 n n CHD C1D HEC sing 149 n n CHD HHD HEC sing 150 n n NA C1A HEC sing 151 n y NA C4A HEC sing 152 n y C1A C2A HEC sing 153 n y C2A C3A HEC doub 154 n y C2A CAA HEC sing 155 n n C3A C4A HEC sing 156 n y C3A CMA HEC sing 157 n n CMA HMA1 HEC sing 158 n n CMA HMA2 HEC sing 159 n n CMA HMA3 HEC sing 160 n n CAA CBA HEC sing 161 n n CAA HAA1 HEC sing 162 n n CAA HAA2 HEC sing 163 n n CBA CGA HEC sing 164 n n CBA HBA1 HEC sing 165 n n CBA HBA2 HEC sing 166 n n CGA O1A HEC doub 167 n n CGA O2A HEC sing 168 n n O2A H2A HEC sing 169 n n NB C1B HEC sing 170 n y NB C4B HEC sing 171 n y C1B C2B HEC doub 172 n y C2B C3B HEC sing 173 n y C2B CMB HEC sing 174 n n C3B C4B HEC sing 175 n y C3B CAB HEC doub 176 e n CMB HMB1 HEC sing 177 n n CMB HMB2 HEC sing 178 n n CMB HMB3 HEC sing 179 n n CAB CBB HEC sing 180 n n CAB HAB HEC sing 181 n n CBB HBB1 HEC sing 182 n n CBB HBB2 HEC sing 183 n n CBB HBB3 HEC sing 184 n n NC C1C HEC sing 185 n y NC C4C HEC sing 186 n y C1C C2C HEC doub 187 n y C2C C3C HEC sing 188 n y C2C CMC HEC sing 189 n n C3C C4C HEC sing 190 n y C3C CAC HEC doub 191 e n CMC HMC1 HEC sing 192 n n CMC HMC2 HEC sing 193 n n CMC HMC3 HEC sing 194 n n CAC CBC HEC sing 195 n n CAC HAC HEC sing 196 n n CBC HBC1 HEC sing 197 n n CBC HBC2 HEC sing 198 n n CBC HBC3 HEC sing 199 n n ND C1D HEC sing 200 n y ND C4D HEC sing 201 n y C1D C2D HEC doub 202 n y C2D C3D HEC sing 203 n y C2D CMD HEC sing 204 n n C3D C4D HEC doub 205 n y C3D CAD HEC sing 206 n n CMD HMD1 HEC sing 207 n n CMD HMD2 HEC sing 208 n n CMD HMD3 HEC sing 209 n n CAD CBD HEC sing 210 n n CAD HAD1 HEC sing 211 n n CAD HAD2 HEC sing 212 n n CBD CGD HEC sing 213 n n CBD HBD1 HEC sing 214 n n CBD HBD2 HEC sing 215 n n CGD O1D HEC doub 216 n n CGD O2D HEC sing 217 n n O2D H2D HEC sing 218 n n # _atom_sites.entry_id 5CYT _atom_sites.fract_transf_matrix[1][1] 0.026788 _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] 0.011481 _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] 0.029036 _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 R 1 105 105 HEC HEM . C 3 HOH R 1 106 1 HOH HOH . C 3 HOH R 2 107 2 HOH HOH . C 3 HOH R 3 108 3 HOH HOH . C 3 HOH R 4 109 4 HOH HOH . C 3 HOH R 5 110 5 HOH HOH . C 3 HOH R 6 111 6 HOH HOH . C 3 HOH R 7 112 7 HOH HOH . C 3 HOH R 8 113 8 HOH HOH . C 3 HOH R 9 114 10 HOH HOH . C 3 HOH R 10 115 11 HOH HOH . C 3 HOH R 11 116 12 HOH HOH . C 3 HOH R 12 117 13 HOH HOH . C 3 HOH R 13 118 14 HOH HOH . C 3 HOH R 14 119 15 HOH HOH . C 3 HOH R 15 120 16 HOH HOH . C 3 HOH R 16 121 18 HOH HOH . C 3 HOH R 17 122 19 HOH HOH . C 3 HOH R 18 123 20 HOH HOH . C 3 HOH R 19 124 21 HOH HOH . C 3 HOH R 20 125 22 HOH HOH . C 3 HOH R 21 126 23 HOH HOH . C 3 HOH R 22 127 24 HOH HOH . C 3 HOH R 23 128 25 HOH HOH . C 3 HOH R 24 129 26 HOH HOH . C 3 HOH R 25 130 27 HOH HOH . C 3 HOH R 26 131 28 HOH HOH . C 3 HOH R 27 132 29 HOH HOH . C 3 HOH R 28 133 30 HOH HOH . C 3 HOH R 29 134 31 HOH HOH . C 3 HOH R 30 135 32 HOH HOH . C 3 HOH R 31 136 33 HOH HOH . C 3 HOH R 32 137 34 HOH HOH . C 3 HOH R 33 138 35 HOH HOH . C 3 HOH R 34 139 36 HOH HOH . C 3 HOH R 35 140 37 HOH HOH . C 3 HOH R 36 141 38 HOH HOH . C 3 HOH R 37 142 39 HOH HOH . C 3 HOH R 38 143 40 HOH HOH . C 3 HOH R 39 144 42 HOH HOH . C 3 HOH R 40 145 43 HOH HOH . C 3 HOH R 41 146 44 HOH HOH . C 3 HOH R 42 147 46 HOH HOH . C 3 HOH R 43 148 47 HOH HOH . C 3 HOH R 44 149 48 HOH HOH . C 3 HOH R 45 150 49 HOH HOH . C 3 HOH R 46 151 50 HOH HOH . C 3 HOH R 47 152 51 HOH HOH . C 3 HOH R 48 153 52 HOH HOH . C 3 HOH R 49 154 53 HOH HOH . C 3 HOH R 50 155 54 HOH HOH . C 3 HOH R 51 156 55 HOH HOH . C 3 HOH R 52 157 56 HOH HOH . C 3 HOH R 53 158 57 HOH HOH . C 3 HOH R 54 159 58 HOH HOH . C 3 HOH R 55 160 60 HOH HOH . C 3 HOH R 56 161 61 HOH HOH . C 3 HOH R 57 162 62 HOH HOH . C 3 HOH R 58 163 63 HOH HOH . C 3 HOH R 59 164 64 HOH HOH . C 3 HOH R 60 165 65 HOH HOH . C 3 HOH R 61 166 66 HOH HOH . C 3 HOH R 62 167 67 HOH HOH . C 3 HOH R 63 168 68 HOH HOH . C 3 HOH R 64 169 69 HOH HOH . C 3 HOH R 65 170 70 HOH HOH . C 3 HOH R 66 171 71 HOH HOH . C 3 HOH R 67 172 72 HOH HOH . C 3 HOH R 68 173 73 HOH HOH . C 3 HOH R 69 174 74 HOH HOH . C 3 HOH R 70 175 75 HOH HOH . C 3 HOH R 71 176 76 HOH HOH . C 3 HOH R 72 177 77 HOH HOH . C 3 HOH R 73 178 78 HOH HOH . C 3 HOH R 74 179 79 HOH HOH . C 3 HOH R 75 180 80 HOH HOH . C 3 HOH R 76 181 81 HOH HOH . C 3 HOH R 77 182 82 HOH HOH . C 3 HOH R 78 183 83 HOH HOH . C 3 HOH R 79 184 84 HOH HOH . C 3 HOH R 80 185 85 HOH HOH . C 3 HOH R 81 186 86 HOH HOH . C 3 HOH R 82 187 87 HOH HOH . C 3 HOH R 83 188 88 HOH HOH . C 3 HOH R 84 189 89 HOH HOH . C 3 HOH R 85 190 90 HOH HOH . C 3 HOH R 86 191 91 HOH HOH . C 3 HOH R 87 192 92 HOH HOH . C 3 HOH R 88 193 93 HOH HOH . C 3 HOH R 89 194 94 HOH HOH . C 3 HOH R 90 195 95 HOH HOH . C 3 HOH R 91 196 96 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 10.848 -15.945 15.533 1 7.05 ? FE HEC 105 R 1 HETATM 2 C CHA HEC . . . B 2 13.696 -14.608 16.744 1 12.81 ? CHA HEC 105 R 1 HETATM 3 C CHB HEC . . . B 2 9.249 -12.951 15.815 1 17.9 ? CHB HEC 105 R 1 HETATM 4 C CHC HEC . . . B 2 8.09 -17.258 13.985 1 10.89 ? CHC HEC 105 R 1 HETATM 5 C CHD HEC . . . B 2 12.248 -19.092 15.679 1 13.03 ? CHD HEC 105 R 1 HETATM 6 N NA HEC . . . B 2 11.389 -14.101 16.13 1 8.64 ? NA HEC 105 R 1 HETATM 7 C C1A HEC . . . B 2 12.629 -13.743 16.542 1 11.55 ? C1A HEC 105 R 1 HETATM 8 C C2A HEC . . . B 2 12.651 -12.363 16.795 1 13.44 ? C2A HEC 105 R 1 HETATM 9 C C3A HEC . . . B 2 11.35 -11.895 16.582 1 15.47 ? C3A HEC 105 R 1 HETATM 10 C C4A HEC . . . B 2 10.587 -12.996 16.169 1 19.38 ? C4A HEC 105 R 1 HETATM 11 C CMA HEC . . . B 2 10.859 -10.458 16.696 1 9.75 ? CMA HEC 105 R 1 HETATM 12 C CAA HEC . . . B 2 13.828 -11.547 17.302 1 10.26 ? CAA HEC 105 R 1 HETATM 13 C CBA HEC . . . B 2 13.797 -11.526 18.819 1 13.39 ? CBA HEC 105 R 1 HETATM 14 C CGA HEC . . . B 2 14.828 -10.615 19.475 1 12.34 ? CGA HEC 105 R 1 HETATM 15 O O1A HEC . . . B 2 14.967 -10.656 20.704 1 12.63 ? O1A HEC 105 R 1 HETATM 16 O O2A HEC . . . B 2 15.795 -10.158 18.741 1 12.56 ? O2A HEC 105 R 1 HETATM 17 N NB HEC . . . B 2 8.969 -15.254 15.046 1 12.35 ? NB HEC 105 R 1 HETATM 18 C C1B HEC . . . B 2 8.502 -14.005 15.304 1 12.87 ? C1B HEC 105 R 1 HETATM 19 C C2B HEC . . . B 2 7.151 -13.952 14.955 1 14.2 ? C2B HEC 105 R 1 HETATM 20 C C3B HEC . . . B 2 6.853 -15.163 14.299 1 15.28 ? C3B HEC 105 R 1 HETATM 21 C C4B HEC . . . B 2 7.999 -15.948 14.397 1 12.29 ? C4B HEC 105 R 1 HETATM 22 C CMB HEC . . . B 2 6.206 -12.789 15.224 1 8.9 ? CMB HEC 105 R 1 HETATM 23 C CAB HEC . . . B 2 5.552 -15.573 13.605 1 12.92 ? CAB HEC 105 R 1 HETATM 24 C CBB HEC . . . B 2 5.271 -14.729 12.366 1 13.05 ? CBB HEC 105 R 1 HETATM 25 N NC HEC . . . B 2 10.305 -17.805 14.889 1 11.79 ? NC HEC 105 R 1 HETATM 26 C C1C HEC . . . B 2 9.151 -18.108 14.228 1 15.75 ? C1C HEC 105 R 1 HETATM 27 C C2C HEC . . . B 2 9.133 -19.457 13.937 1 12.6 ? C2C HEC 105 R 1 HETATM 28 C C3C HEC . . . B 2 10.213 -20.029 14.597 1 17.02 ? C3C HEC 105 R 1 HETATM 29 C C4C HEC . . . B 2 10.996 -18.97 15.092 1 14.59 ? C4C HEC 105 R 1 HETATM 30 C CMC HEC . . . B 2 8.021 -20.172 13.201 1 11.85 ? CMC HEC 105 R 1 HETATM 31 C CAC HEC . . . B 2 10.456 -21.517 14.817 1 14.53 ? CAC HEC 105 R 1 HETATM 32 C CBC HEC . . . B 2 10.554 -22.339 13.543 1 12.52 ? CBC HEC 105 R 1 HETATM 33 N ND HEC . . . B 2 12.637 -16.703 16.152 1 10.95 ? ND HEC 105 R 1 HETATM 34 C C1D HEC . . . B 2 13.021 -18.04 16.129 1 13.91 ? C1D HEC 105 R 1 HETATM 35 C C2D HEC . . . B 2 14.347 -18.151 16.569 1 9.85 ? C2D HEC 105 R 1 HETATM 36 C C3D HEC . . . B 2 14.792 -16.855 16.832 1 9.14 ? C3D HEC 105 R 1 HETATM 37 C C4D HEC . . . B 2 13.693 -15.982 16.591 1 10.57 ? C4D HEC 105 R 1 HETATM 38 C CMD HEC . . . B 2 15.142 -19.448 16.641 1 7.96 ? CMD HEC 105 R 1 HETATM 39 C CAD HEC . . . B 2 16.219 -16.45 17.189 1 8.47 ? CAD HEC 105 R 1 HETATM 40 C CBD HEC . . . B 2 16.895 -15.92 15.925 1 11.91 ? CBD HEC 105 R 1 HETATM 41 C CGD HEC . . . B 2 18.425 -15.761 15.988 1 12.05 ? CGD HEC 105 R 1 HETATM 42 O O1D HEC . . . B 2 19.073 -15.784 17.033 1 9.16 ? O1D HEC 105 R 1 HETATM 43 O O2D HEC . . . B 2 19.037 -15.527 14.866 1 12.15 ? O2D HEC 105 R 1 # _model_server_stats.io_time_ms 46 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 335 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 43 #