data_6KOB # _model_server_result.job_id 5VwjktAxHhYlw45g8i92Qw _model_server_result.datetime_utc '2025-01-11 20:06:17' _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 6kob # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"I","auth_seq_id":1001}' # _entry.id 6KOB # _exptl.entry_id 6KOB _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 852.837 _entity.id 5 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description HEME-A _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 107.47 _cell.angle_gamma 90 _cell.entry_id 6KOB _cell.length_a 110.889 _cell.length_b 158.07 _cell.length_c 147.009 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6KOB _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall 'P 2yb' _symmetry.space_group_name_H-M 'P 1 21 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 PISA tetrameric 4 author_and_software_defined_assembly 1 PISA tetrameric 4 author_and_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,I,J,K,L 1 1 E,F,G,H,M,N,O,P 2 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 ? 5 I N N ? 5 J N N ? 5 M N N ? 5 N 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 metalc ? metalc1 A NE2 HIS 102 A HIS 102 1_555 I FE HEA . A HEA 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.169 ? metalc ? metalc2 A ND1 HIS 280 A HIS 280 1_555 K CU CU . A CU 1003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.019 ? metalc ? metalc3 A NE2 HIS 329 A HIS 329 1_555 K CU CU . A CU 1003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? metalc ? metalc4 A NE2 HIS 330 A HIS 330 1_555 K CU CU . A CU 1003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? metalc ? metalc5 A NE2 HIS 417 A HIS 417 1_555 I FE HEA . A HEA 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.691 ? metalc ? metalc6 H NE2 HIS 102 E HIS 102 1_555 M FE HEA . E HEA 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.149 ? metalc ? metalc7 H ND1 HIS 280 E HIS 280 1_555 O CU CU . E CU 1003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? metalc ? metalc8 H NE2 HIS 329 E HIS 329 1_555 O CU CU . E CU 1003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.02 ? metalc ? metalc9 H NE2 HIS 330 E HIS 330 1_555 O CU CU . E CU 1003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.063 ? metalc ? metalc10 H NE2 HIS 417 E HIS 417 1_555 M FE HEA . E HEA 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.687 ? # _chem_comp.formula 'C49 H56 Fe N4 O6' _chem_comp.formula_weight 852.837 _chem_comp.id HEA _chem_comp.mon_nstd_flag . _chem_comp.name HEME-A _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 HEA sing 129 n n FE NB HEA sing 130 n n FE NC HEA sing 131 n n FE ND HEA sing 132 n n CHA C1A HEA doub 133 n n CHA C4D HEA sing 134 n n CHA HHA HEA sing 135 n n CHB C4A HEA doub 136 n n CHB C1B HEA sing 137 n n CHB HHB HEA sing 138 n n CHC C4B HEA doub 139 n n CHC C1C HEA sing 140 n n CHC HHC HEA sing 141 n n CHD C4C HEA sing 142 n n CHD C1D HEA doub 143 n n CHD HHD HEA sing 144 n n NA C1A HEA sing 145 n y NA C4A HEA sing 146 n y C1A C2A HEA sing 147 n y C2A C3A HEA doub 148 n y C2A CAA HEA sing 149 n n C3A C4A HEA sing 150 n y C3A CMA HEA sing 151 n n CMA OMA HEA doub 152 n n CMA HMA HEA sing 153 n n CAA CBA HEA sing 154 n n CAA HAA1 HEA sing 155 n n CAA HAA2 HEA sing 156 n n CBA CGA HEA sing 157 n n CBA HBA1 HEA sing 158 n n CBA HBA2 HEA sing 159 n n CGA O1A HEA doub 160 n n CGA O2A HEA sing 161 n n O2A H2A HEA sing 162 n n NB C1B HEA doub 163 n n NB C4B HEA sing 164 n n C1B C2B HEA sing 165 n n C2B C3B HEA doub 166 n n C2B CMB HEA sing 167 n n C3B C4B HEA sing 168 n n C3B C11 HEA sing 169 n n CMB HMB1 HEA sing 170 n n CMB HMB2 HEA sing 171 n n CMB HMB3 HEA sing 172 n n NC C1C HEA sing 173 n y NC C4C HEA sing 174 n y C1C C2C HEA doub 175 n y C2C C3C HEA sing 176 n y C2C CMC HEA sing 177 n n C3C C4C HEA doub 178 n y C3C CAC HEA sing 179 n n CMC HMC1 HEA sing 180 n n CMC HMC2 HEA sing 181 n n CMC HMC3 HEA sing 182 n n CAC CBC HEA doub 183 n n CAC HAC HEA sing 184 n n CBC HBC1 HEA sing 185 n n CBC HBC2 HEA sing 186 n n ND C1D HEA sing 187 n n ND C4D HEA doub 188 n n C1D C2D HEA sing 189 n n C2D C3D HEA doub 190 n n C2D CMD HEA sing 191 n n C3D C4D HEA sing 192 n n C3D CAD HEA sing 193 n n CMD HMD1 HEA sing 194 n n CMD HMD2 HEA sing 195 n n CMD HMD3 HEA sing 196 n n CAD CBD HEA sing 197 n n CAD HAD1 HEA sing 198 n n CAD HAD2 HEA sing 199 n n CBD CGD HEA sing 200 n n CBD HBD1 HEA sing 201 n n CBD HBD2 HEA sing 202 n n CGD O1D HEA doub 203 n n CGD O2D HEA sing 204 n n O2D H2D HEA sing 205 n n C11 O11 HEA sing 206 n n C11 C12 HEA sing 207 n n C11 H11 HEA sing 208 n n O11 HO1 HEA sing 209 n n C12 C13 HEA sing 210 n n C12 H121 HEA sing 211 n n C12 H122 HEA sing 212 n n C13 C14 HEA sing 213 n n C13 H131 HEA sing 214 n n C13 H132 HEA sing 215 n n C14 C15 HEA doub 216 e n C14 H14 HEA sing 217 n n C15 C16 HEA sing 218 n n C15 C26 HEA sing 219 n n C16 C17 HEA sing 220 n n C16 H161 HEA sing 221 n n C16 H162 HEA sing 222 n n C17 C18 HEA sing 223 n n C17 H171 HEA sing 224 n n C17 H172 HEA sing 225 n n C18 C19 HEA doub 226 e n C18 H18 HEA sing 227 n n C19 C20 HEA sing 228 n n C19 C27 HEA sing 229 n n C20 C21 HEA sing 230 n n C20 H201 HEA sing 231 n n C20 H202 HEA sing 232 n n C21 C22 HEA sing 233 n n C21 H211 HEA sing 234 n n C21 H212 HEA sing 235 n n C22 C23 HEA doub 236 n n C22 H22 HEA sing 237 n n C23 C24 HEA sing 238 n n C23 C25 HEA sing 239 n n C24 H241 HEA sing 240 n n C24 H242 HEA sing 241 n n C24 H243 HEA sing 242 n n C25 H251 HEA sing 243 n n C25 H252 HEA sing 244 n n C25 H253 HEA sing 245 n n C26 H261 HEA sing 246 n n C26 H262 HEA sing 247 n n C26 H263 HEA sing 248 n n C27 H271 HEA sing 249 n n C27 H272 HEA sing 250 n n C27 H273 HEA sing 251 n n # _atom_sites.entry_id 6KOB _atom_sites.fract_transf_matrix[1][1] 0.009018 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.002838 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.006326 _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] 0.007131 _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 I 5 HEA A 1 1001 1001 HEA HEA . J 5 HEA A 1 1002 1002 HEA HEA . K 6 CU A 1 1003 1105 CU CU . L 7 MQ7 A 1 1004 1201 MQ7 MQ7 . M 5 HEA E 1 1001 1001 HEA HEA . N 5 HEA E 1 1002 1002 HEA HEA . O 6 CU E 1 1003 1105 CU CU . P 7 MQ7 E 1 1004 1201 MQ7 MQ7 . # 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 HEA . . . I 5 111.013 81.432 34.621 1 130.12 ? FE HEA 1001 A 1 HETATM 2 C CHA HEA . . . I 5 108.818 82.633 32.373 1 129.07 ? CHA HEA 1001 A 1 HETATM 3 C CHB HEA . . . I 5 113.507 80.833 32.346 1 131.2 ? CHB HEA 1001 A 1 HETATM 4 C CHC HEA . . . I 5 112.559 79.39 36.91 1 116.76 ? CHC HEA 1001 A 1 HETATM 5 C CHD HEA . . . I 5 109.363 83.098 37.173 1 124.09 ? CHD HEA 1001 A 1 HETATM 6 N NA HEA . . . I 5 111.037 81.46 32.647 1 124.23 ? NA HEA 1001 A 1 HETATM 7 C C1A HEA . . . I 5 110.238 82.513 32.017 1 133.65 ? C1A HEA 1001 A 1 HETATM 8 C C2A HEA . . . I 5 110.965 83.343 31.01 1 134.35 ? C2A HEA 1001 A 1 HETATM 9 C C3A HEA . . . I 5 112.338 82.784 31.039 1 123.35 ? C3A HEA 1001 A 1 HETATM 10 C C4A HEA . . . I 5 112.346 81.679 32.03 1 124.39 ? C4A HEA 1001 A 1 HETATM 11 C CMA HEA . . . I 5 113.494 83.245 30.222 1 107.28 ? CMA HEA 1001 A 1 HETATM 12 O OMA HEA . . . I 5 114.338 82.453 29.818 1 113.36 ? OMA HEA 1001 A 1 HETATM 13 C CAA HEA . . . I 5 110.441 84.494 30.182 1 142.56 ? CAA HEA 1001 A 1 HETATM 14 C CBA HEA . . . I 5 109.427 83.995 29.159 1 125.52 ? CBA HEA 1001 A 1 HETATM 15 C CGA HEA . . . I 5 109.489 84.857 27.921 1 108.55 ? CGA HEA 1001 A 1 HETATM 16 O O1A HEA . . . I 5 109.426 84.305 26.802 1 97.07 ? O1A HEA 1001 A 1 HETATM 17 O O2A HEA . . . I 5 109.602 86.093 28.065 1 101.11 ? O2A HEA 1001 A 1 HETATM 18 N NB HEA . . . I 5 112.771 80.278 34.622 1 142.5 ? NB HEA 1001 A 1 HETATM 19 C C1B HEA . . . I 5 113.675 80.142 33.634 1 141.93 ? C1B HEA 1001 A 1 HETATM 20 C C2B HEA . . . I 5 114.823 79.257 33.942 1 146.07 ? C2B HEA 1001 A 1 HETATM 21 C C3B HEA . . . I 5 114.545 78.821 35.318 1 136.53 ? C3B HEA 1001 A 1 HETATM 22 C C4B HEA . . . I 5 113.262 79.512 35.62 1 135.72 ? C4B HEA 1001 A 1 HETATM 23 C CMB HEA . . . I 5 115.989 78.891 33.071 1 152.03 ? CMB HEA 1001 A 1 HETATM 24 N NC HEA . . . I 5 110.972 81.274 36.717 1 148.24 ? NC HEA 1001 A 1 HETATM 25 C C1C HEA . . . I 5 111.661 80.403 37.492 1 134.77 ? C1C HEA 1001 A 1 HETATM 26 C C2C HEA . . . I 5 111.437 80.511 38.959 1 123.41 ? C2C HEA 1001 A 1 HETATM 27 C C3C HEA . . . I 5 110.478 81.628 39.012 1 108.35 ? C3C HEA 1001 A 1 HETATM 28 C C4C HEA . . . I 5 110.271 82.019 37.597 1 124.35 ? C4C HEA 1001 A 1 HETATM 29 C CMC HEA . . . I 5 112.057 79.685 40.056 1 125.03 ? CMC HEA 1001 A 1 HETATM 30 C CAC HEA . . . I 5 109.844 82.265 40.198 1 94.7 ? CAC HEA 1001 A 1 HETATM 31 C CBC HEA . . . I 5 109.629 81.618 41.329 1 93.13 ? CBC HEA 1001 A 1 HETATM 32 N ND HEA . . . I 5 109.321 82.686 34.734 1 119.44 ? ND HEA 1001 A 1 HETATM 33 C C1D HEA . . . I 5 108.782 83.268 35.827 1 115.12 ? C1D HEA 1001 A 1 HETATM 34 C C2D HEA . . . I 5 107.58 84.109 35.57 1 110.37 ? C2D HEA 1001 A 1 HETATM 35 C C3D HEA . . . I 5 107.394 83.978 34.114 1 132.24 ? C3D HEA 1001 A 1 HETATM 36 C C4D HEA . . . I 5 108.517 83.085 33.734 1 118.24 ? C4D HEA 1001 A 1 HETATM 37 C CMD HEA . . . I 5 106.747 84.887 36.555 1 106.39 ? CMD HEA 1001 A 1 HETATM 38 C CAD HEA . . . I 5 106.336 84.596 33.23 1 153.78 ? CAD HEA 1001 A 1 HETATM 39 C CBD HEA . . . I 5 104.976 83.973 33.519 1 158.98 ? CBD HEA 1001 A 1 HETATM 40 C CGD HEA . . . I 5 104.067 84.192 32.335 1 157.2 ? CGD HEA 1001 A 1 HETATM 41 O O1D HEA . . . I 5 103.755 85.364 32.034 1 155.88 ? O1D HEA 1001 A 1 HETATM 42 O O2D HEA . . . I 5 103.66 83.194 31.702 1 169.38 ? O2D HEA 1001 A 1 HETATM 43 C C11 HEA . . . I 5 115.359 77.909 36.155 1 124.4 ? C11 HEA 1001 A 1 HETATM 44 O O11 HEA . . . I 5 115.255 78.254 37.542 1 135.71 ? O11 HEA 1001 A 1 HETATM 45 C C12 HEA . . . I 5 114.894 76.476 35.93 1 97.92 ? C12 HEA 1001 A 1 HETATM 46 C C13 HEA . . . I 5 114.752 75.723 37.247 1 74.89 ? C13 HEA 1001 A 1 HETATM 47 C C14 HEA . . . I 5 114.752 74.244 36.952 1 75.19 ? C14 HEA 1001 A 1 HETATM 48 C C15 HEA . . . I 5 114.961 73.339 37.917 1 80.13 ? C15 HEA 1001 A 1 HETATM 49 C C16 HEA . . . I 5 114.957 71.871 37.567 1 76.68 ? C16 HEA 1001 A 1 HETATM 50 C C17 HEA . . . I 5 115.812 71.654 36.324 1 79.32 ? C17 HEA 1001 A 1 HETATM 51 C C18 HEA . . . I 5 115.141 70.654 35.413 1 114.81 ? C18 HEA 1001 A 1 HETATM 52 C C19 HEA . . . I 5 115.771 69.533 35.033 1 129.44 ? C19 HEA 1001 A 1 HETATM 53 C C20 HEA . . . I 5 115.071 68.556 34.121 1 152.72 ? C20 HEA 1001 A 1 HETATM 54 C C21 HEA . . . I 5 116.007 68.101 33.009 1 165.42 ? C21 HEA 1001 A 1 HETATM 55 C C22 HEA . . . I 5 115.52 66.773 32.477 1 161.96 ? C22 HEA 1001 A 1 HETATM 56 C C23 HEA . . . I 5 115.044 66.657 31.229 1 151.73 ? C23 HEA 1001 A 1 HETATM 57 C C24 HEA . . . I 5 114.567 65.323 30.736 1 136.07 ? C24 HEA 1001 A 1 HETATM 58 C C25 HEA . . . I 5 114.985 67.853 30.326 1 151.81 ? C25 HEA 1001 A 1 HETATM 59 C C26 HEA . . . I 5 115.198 73.779 39.331 1 139.75 ? C26 HEA 1001 A 1 HETATM 60 C C27 HEA . . . I 5 117.163 69.245 35.512 1 97.02 ? C27 HEA 1001 A 1 # _model_server_stats.io_time_ms 50 _model_server_stats.parse_time_ms 29 _model_server_stats.create_model_time_ms 171 _model_server_stats.query_time_ms 440 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 60 #