data_8VKC # _model_server_result.job_id LL4EH_hq_aO9qnqDVLOVog _model_server_result.datetime_utc '2024-11-30 20:41:02' _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 8vkc # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":201}' # _entry.id 8VKC # _exptl.entry_id 8VKC _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 616.487 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'PROTOPORPHYRIN IX CONTAINING FE' _entity.pdbx_number_of_molecules 2 _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 8VKC _cell.length_a 58.824 _cell.length_b 67.936 _cell.length_c 68.276 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8VKC _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # 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 ? monomeric 1 author_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,C,D,E,K 1 1 B,F,G,H,I,J,L 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 ? 2 C N N ? 2 F 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 89 AAA HIS 89 1_555 C FE HEM . AAA HEM 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.096 ? metalc ? metalc2 B NE2 HIS 89 BBB HIS 89 1_555 F FE HEM . BBB HEM 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.184 ? # _chem_comp.formula 'C34 H32 Fe N4 O4' _chem_comp.formula_weight 616.487 _chem_comp.id HEM _chem_comp.mon_nstd_flag . _chem_comp.name 'PROTOPORPHYRIN IX CONTAINING FE' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms HEME # 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 CHA C1A HEM sing 142 n n CHA C4D HEM doub 143 n n CHA HHA HEM sing 144 n n CHB C4A HEM sing 145 n n CHB C1B HEM doub 146 n n CHB HHB HEM sing 147 n n CHC C4B HEM sing 148 n n CHC C1C HEM doub 149 n n CHC HHC HEM sing 150 n n CHD C4C HEM doub 151 n n CHD C1D HEM sing 152 n n CHD HHD HEM sing 153 n n C1A C2A HEM doub 154 n y C1A NA HEM sing 155 n y C2A C3A HEM sing 156 n y C2A CAA HEM sing 157 n n C3A C4A HEM doub 158 n y C3A CMA HEM sing 159 n n C4A NA HEM sing 160 n y CMA HMA HEM sing 161 n n CMA HMAA HEM sing 162 n n CMA HMAB HEM sing 163 n n CAA CBA HEM sing 164 n n CAA HAA HEM sing 165 n n CAA HAAA HEM sing 166 n n CBA CGA HEM sing 167 n n CBA HBA HEM sing 168 n n CBA HBAA HEM sing 169 n n CGA O1A HEM doub 170 n n CGA O2A HEM sing 171 n n C1B C2B HEM sing 172 n n C1B NB HEM sing 173 n n C2B C3B HEM doub 174 n n C2B CMB HEM sing 175 n n C3B C4B HEM sing 176 n n C3B CAB HEM sing 177 n n C4B NB HEM doub 178 n n CMB HMB HEM sing 179 n n CMB HMBA HEM sing 180 n n CMB HMBB HEM sing 181 n n CAB CBB HEM doub 182 n n CAB HAB HEM sing 183 n n CBB HBB HEM sing 184 n n CBB HBBA HEM sing 185 n n C1C C2C HEM sing 186 n y C1C NC HEM sing 187 n y C2C C3C HEM doub 188 n y C2C CMC HEM sing 189 n n C3C C4C HEM sing 190 n y C3C CAC HEM sing 191 n n C4C NC HEM sing 192 n y CMC HMC HEM sing 193 n n CMC HMCA HEM sing 194 n n CMC HMCB HEM sing 195 n n CAC CBC HEM doub 196 n n CAC HAC HEM sing 197 n n CBC HBC HEM sing 198 n n CBC HBCA HEM sing 199 n n C1D C2D HEM sing 200 n n C1D ND HEM doub 201 n n C2D C3D HEM doub 202 n n C2D CMD HEM sing 203 n n C3D C4D HEM sing 204 n n C3D CAD HEM sing 205 n n C4D ND HEM sing 206 n n CMD HMD HEM sing 207 n n CMD HMDA HEM sing 208 n n CMD HMDB HEM sing 209 n n CAD CBD HEM sing 210 n n CAD HAD HEM sing 211 n n CAD HADA HEM sing 212 n n CBD CGD HEM sing 213 n n CBD HBD HEM sing 214 n n CBD HBDA HEM sing 215 n n CGD O1D HEM doub 216 n n CGD O2D HEM sing 217 n n O2A H2A HEM sing 218 n n O2D H2D HEM sing 219 n n FE NA HEM sing 220 n n FE NB HEM sing 221 n n FE NC HEM sing 222 n n FE ND HEM sing 223 n n # _atom_sites.entry_id 8VKC _atom_sites.fract_transf_matrix[1][1] 0.017 _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] 0.01472 _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] 0.014646 _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 C 2 HEM AAA 1 201 139 HEM HEM . D 3 NPO AAA 1 202 140 NPO NPO . E 4 GOL AAA 1 203 141 GOL GOL . F 2 HEM BBB 1 201 139 HEM HEM . G 3 NPO BBB 1 202 140 NPO NPO . H 5 SO4 BBB 1 203 1 SO4 SO4 . I 5 SO4 BBB 1 204 2 SO4 SO4 . J 5 SO4 BBB 1 205 3 SO4 SO4 . K 6 HOH AAA 1 301 63 HOH HOH . K 6 HOH AAA 2 302 43 HOH HOH . K 6 HOH AAA 3 303 74 HOH HOH . K 6 HOH AAA 4 304 27 HOH HOH . K 6 HOH AAA 5 305 67 HOH HOH . K 6 HOH AAA 6 306 13 HOH HOH . K 6 HOH AAA 7 307 100 HOH HOH . K 6 HOH AAA 8 308 64 HOH HOH . K 6 HOH AAA 9 309 78 HOH HOH . K 6 HOH AAA 10 310 72 HOH HOH . K 6 HOH AAA 11 311 23 HOH HOH . K 6 HOH AAA 12 312 11 HOH HOH . K 6 HOH AAA 13 313 30 HOH HOH . K 6 HOH AAA 14 314 73 HOH HOH . K 6 HOH AAA 15 315 25 HOH HOH . K 6 HOH AAA 16 316 40 HOH HOH . K 6 HOH AAA 17 317 48 HOH HOH . K 6 HOH AAA 18 318 99 HOH HOH . K 6 HOH AAA 19 319 79 HOH HOH . K 6 HOH AAA 20 320 65 HOH HOH . K 6 HOH AAA 21 321 39 HOH HOH . K 6 HOH AAA 22 322 34 HOH HOH . K 6 HOH AAA 23 323 80 HOH HOH . K 6 HOH AAA 24 324 68 HOH HOH . K 6 HOH AAA 25 325 66 HOH HOH . K 6 HOH AAA 26 326 102 HOH HOH . K 6 HOH AAA 27 327 82 HOH HOH . K 6 HOH AAA 28 328 17 HOH HOH . K 6 HOH AAA 29 329 32 HOH HOH . K 6 HOH AAA 30 330 24 HOH HOH . K 6 HOH AAA 31 331 76 HOH HOH . K 6 HOH AAA 32 332 56 HOH HOH . K 6 HOH AAA 33 333 101 HOH HOH . K 6 HOH AAA 34 334 55 HOH HOH . K 6 HOH AAA 35 335 69 HOH HOH . K 6 HOH AAA 36 336 37 HOH HOH . K 6 HOH AAA 37 337 61 HOH HOH . K 6 HOH AAA 38 338 77 HOH HOH . K 6 HOH AAA 39 339 19 HOH HOH . K 6 HOH AAA 40 340 75 HOH HOH . K 6 HOH AAA 41 341 81 HOH HOH . K 6 HOH AAA 42 342 70 HOH HOH . K 6 HOH AAA 43 343 58 HOH HOH . K 6 HOH AAA 44 344 44 HOH HOH . K 6 HOH AAA 45 345 3 HOH HOH . K 6 HOH AAA 46 346 46 HOH HOH . K 6 HOH AAA 47 347 62 HOH HOH . K 6 HOH AAA 48 348 71 HOH HOH . L 6 HOH BBB 1 301 47 HOH HOH . L 6 HOH BBB 2 302 105 HOH HOH . L 6 HOH BBB 3 303 98 HOH HOH . L 6 HOH BBB 4 304 88 HOH HOH . L 6 HOH BBB 5 305 22 HOH HOH . L 6 HOH BBB 6 306 53 HOH HOH . L 6 HOH BBB 7 307 6 HOH HOH . L 6 HOH BBB 8 308 16 HOH HOH . L 6 HOH BBB 9 309 86 HOH HOH . L 6 HOH BBB 10 310 90 HOH HOH . L 6 HOH BBB 11 311 14 HOH HOH . L 6 HOH BBB 12 312 36 HOH HOH . L 6 HOH BBB 13 313 92 HOH HOH . L 6 HOH BBB 14 314 87 HOH HOH . L 6 HOH BBB 15 315 91 HOH HOH . L 6 HOH BBB 16 316 4 HOH HOH . L 6 HOH BBB 17 317 7 HOH HOH . L 6 HOH BBB 18 318 9 HOH HOH . L 6 HOH BBB 19 319 52 HOH HOH . L 6 HOH BBB 20 320 50 HOH HOH . L 6 HOH BBB 21 321 18 HOH HOH . L 6 HOH BBB 22 322 42 HOH HOH . L 6 HOH BBB 23 323 8 HOH HOH . L 6 HOH BBB 24 324 10 HOH HOH . L 6 HOH BBB 25 325 49 HOH HOH . L 6 HOH BBB 26 326 103 HOH HOH . L 6 HOH BBB 27 327 106 HOH HOH . L 6 HOH BBB 28 328 93 HOH HOH . L 6 HOH BBB 29 329 94 HOH HOH . L 6 HOH BBB 30 330 28 HOH HOH . L 6 HOH BBB 31 331 54 HOH HOH . L 6 HOH BBB 32 332 38 HOH HOH . L 6 HOH BBB 33 333 95 HOH HOH . L 6 HOH BBB 34 334 29 HOH HOH . L 6 HOH BBB 35 335 45 HOH HOH . L 6 HOH BBB 36 336 84 HOH HOH . L 6 HOH BBB 37 337 15 HOH HOH . L 6 HOH BBB 38 338 96 HOH HOH . L 6 HOH BBB 39 339 12 HOH HOH . L 6 HOH BBB 40 340 41 HOH HOH . L 6 HOH BBB 41 341 33 HOH HOH . L 6 HOH BBB 42 342 60 HOH HOH . L 6 HOH BBB 43 343 31 HOH HOH . L 6 HOH BBB 44 344 35 HOH HOH . L 6 HOH BBB 45 345 26 HOH HOH . L 6 HOH BBB 46 346 5 HOH HOH . L 6 HOH BBB 47 347 97 HOH HOH . L 6 HOH BBB 48 348 104 HOH HOH . L 6 HOH BBB 49 349 83 HOH HOH . L 6 HOH BBB 50 350 21 HOH HOH . L 6 HOH BBB 51 351 20 HOH HOH . L 6 HOH BBB 52 352 107 HOH HOH . L 6 HOH BBB 53 353 85 HOH HOH . L 6 HOH BBB 54 354 89 HOH HOH . L 6 HOH BBB 55 355 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 C CHA HEM . . . F 2 4.762 27.598 -22.496 1 24.65 0 CHA HEM 201 BBB 1 HETATM 2 C CHB HEM . . . F 2 3.659 26.613 -17.87 1 21.54 0 CHB HEM 201 BBB 1 HETATM 3 C CHC HEM . . . F 2 7.91 28.442 -16.444 1 24.13 0 CHC HEM 201 BBB 1 HETATM 4 C CHD HEM . . . F 2 9.063 29.218 -21.042 1 29.33 0 CHD HEM 201 BBB 1 HETATM 5 C C1A HEM . . . F 2 4.076 27.223 -21.379 1 23.98 0 C1A HEM 201 BBB 1 HETATM 6 C C2A HEM . . . F 2 2.715 26.799 -21.378 1 21.7 0 C2A HEM 201 BBB 1 HETATM 7 C C3A HEM . . . F 2 2.421 26.527 -20.069 1 21.33 0 C3A HEM 201 BBB 1 HETATM 8 C C4A HEM . . . F 2 3.574 26.744 -19.261 1 22.24 0 C4A HEM 201 BBB 1 HETATM 9 C CMA HEM . . . F 2 1.092 26.067 -19.576 1 22.96 0 CMA HEM 201 BBB 1 HETATM 10 C CAA HEM . . . F 2 1.763 26.707 -22.571 1 20.33 0 CAA HEM 201 BBB 1 HETATM 11 C CBA HEM . . . F 2 1.433 28.187 -22.969 1 26.3 0 CBA HEM 201 BBB 1 HETATM 12 C CGA HEM . . . F 2 0.302 28.445 -23.911 0.7 25.16 0 CGA HEM 201 BBB 1 HETATM 13 O O1A HEM . . . F 2 -0.19 27.539 -24.559 0.7 23.63 0 O1A HEM 201 BBB 1 HETATM 14 O O2A HEM . . . F 2 -0.162 29.586 -24.046 0.65 23.92 0 O2A HEM 201 BBB 1 HETATM 15 C C1B HEM . . . F 2 4.732 27.045 -17.091 1 21.26 0 C1B HEM 201 BBB 1 HETATM 16 C C2B HEM . . . F 2 4.713 27.012 -15.644 1 21.04 0 C2B HEM 201 BBB 1 HETATM 17 C C3B HEM . . . F 2 5.903 27.557 -15.245 1 23.39 0 C3B HEM 201 BBB 1 HETATM 18 C C4B HEM . . . F 2 6.641 27.885 -16.49 1 22.19 0 C4B HEM 201 BBB 1 HETATM 19 C CMB HEM . . . F 2 3.589 26.555 -14.744 1 21.43 0 CMB HEM 201 BBB 1 HETATM 20 C CAB HEM . . . F 2 6.482 27.727 -13.883 1 24.56 0 CAB HEM 201 BBB 1 HETATM 21 C CBB HEM . . . F 2 6.018 27.132 -12.783 1 22.12 0 CBB HEM 201 BBB 1 HETATM 22 C C1C HEM . . . F 2 8.589 28.852 -17.57 1 24.09 0 C1C HEM 201 BBB 1 HETATM 23 C C2C HEM . . . F 2 9.776 29.587 -17.57 1 24.93 0 C2C HEM 201 BBB 1 HETATM 24 C C3C HEM . . . F 2 10.091 29.81 -18.909 1 24.49 0 C3C HEM 201 BBB 1 HETATM 25 C C4C HEM . . . F 2 9.075 29.214 -19.664 1 25.07 0 C4C HEM 201 BBB 1 HETATM 26 C CMC HEM . . . F 2 10.531 30.045 -16.323 1 25.34 0 CMC HEM 201 BBB 1 HETATM 27 C CAC HEM . . . F 2 11.239 30.551 -19.537 1 26.38 0 CAC HEM 201 BBB 1 HETATM 28 C CBC HEM . . . F 2 12.17 31.239 -18.876 1 25.93 0 CBC HEM 201 BBB 1 HETATM 29 C C1D HEM . . . F 2 7.975 28.833 -21.786 1 27.47 0 C1D HEM 201 BBB 1 HETATM 30 C C2D HEM . . . F 2 7.999 29.054 -23.22 1 27.22 0 C2D HEM 201 BBB 1 HETATM 31 C C3D HEM . . . F 2 6.798 28.613 -23.639 1 29.35 0 C3D HEM 201 BBB 1 HETATM 32 C C4D HEM . . . F 2 6.067 28.122 -22.427 1 24.97 0 C4D HEM 201 BBB 1 HETATM 33 C CMD HEM . . . F 2 9.133 29.635 -24.049 1 25.57 0 CMD HEM 201 BBB 1 HETATM 34 C CAD HEM . . . F 2 6.288 28.603 -25.064 1 31.05 0 CAD HEM 201 BBB 1 HETATM 35 C CBD HEM . . . F 2 6.265 29.96 -25.792 1 32.9 0 CBD HEM 201 BBB 1 HETATM 36 C CGD HEM . . . F 2 5.014 30.735 -25.543 1 43.3 0 CGD HEM 201 BBB 1 HETATM 37 O O1D HEM . . . F 2 4.634 31.522 -26.436 1 65.3 0 O1D HEM 201 BBB 1 HETATM 38 O O2D HEM . . . F 2 4.363 30.614 -24.493 1 33.58 0 O2D HEM 201 BBB 1 HETATM 39 N NA HEM . . . F 2 4.578 27.196 -20.063 1 24.87 0 NA HEM 201 BBB 1 HETATM 40 N NB HEM . . . F 2 5.899 27.563 -17.535 1 20.38 0 NB HEM 201 BBB 1 HETATM 41 N NC HEM . . . F 2 8.175 28.635 -18.852 1 22.99 0 NC HEM 201 BBB 1 HETATM 42 N ND HEM . . . F 2 6.824 28.294 -21.337 1 25.92 0 ND HEM 201 BBB 1 HETATM 43 FE FE HEM . . . F 2 6.404 27.79 -19.549 1 26.45 0 FE HEM 201 BBB 1 # _model_server_stats.io_time_ms 46 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 21 _model_server_stats.query_time_ms 229 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 43 #