data_8VQS # _model_server_result.job_id oK89SvcifJO22jFBJQDvvg _model_server_result.datetime_utc '2025-08-16 09:52:37' _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 8vqs # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":201}' # _entry.id 8VQS # _exptl.entry_id 8VQS _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 8VQS _cell.length_a 59.092 _cell.length_b 67.684 _cell.length_c 67.684 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8VQS _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 PISA monomeric 1 author_and_software_defined_assembly 1 PISA monomeric 1 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,C,D,E,F,G,H,I,J,K,L,Q 1 1 B,M,N,O,P,R 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 M 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 A HIS 89 1_555 C FE HEM . A HEM 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.163 ? metalc ? metalc2 B NE2 HIS 89 B HIS 89 1_555 M FE HEM . B HEM 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.287 ? # _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 167 n n CHA C4D HEM doub 168 n n CHA HHA HEM sing 169 n n CHB C4A HEM sing 170 n n CHB C1B HEM doub 171 n n CHB HHB HEM sing 172 n n CHC C4B HEM sing 173 n n CHC C1C HEM doub 174 n n CHC HHC HEM sing 175 n n CHD C4C HEM doub 176 n n CHD C1D HEM sing 177 n n CHD HHD HEM sing 178 n n C1A C2A HEM doub 179 n y C1A NA HEM sing 180 n y C2A C3A HEM sing 181 n y C2A CAA HEM sing 182 n n C3A C4A HEM doub 183 n y C3A CMA HEM sing 184 n n C4A NA HEM sing 185 n y CMA HMA HEM sing 186 n n CMA HMAA HEM sing 187 n n CMA HMAB HEM sing 188 n n CAA CBA HEM sing 189 n n CAA HAA HEM sing 190 n n CAA HAAA HEM sing 191 n n CBA CGA HEM sing 192 n n CBA HBA HEM sing 193 n n CBA HBAA HEM sing 194 n n CGA O1A HEM doub 195 n n CGA O2A HEM sing 196 n n C1B C2B HEM sing 197 n n C1B NB HEM sing 198 n n C2B C3B HEM doub 199 n n C2B CMB HEM sing 200 n n C3B C4B HEM sing 201 n n C3B CAB HEM sing 202 n n C4B NB HEM doub 203 n n CMB HMB HEM sing 204 n n CMB HMBA HEM sing 205 n n CMB HMBB HEM sing 206 n n CAB CBB HEM doub 207 n n CAB HAB HEM sing 208 n n CBB HBB HEM sing 209 n n CBB HBBA HEM sing 210 n n C1C C2C HEM sing 211 n y C1C NC HEM sing 212 n y C2C C3C HEM doub 213 n y C2C CMC HEM sing 214 n n C3C C4C HEM sing 215 n y C3C CAC HEM sing 216 n n C4C NC HEM sing 217 n y CMC HMC HEM sing 218 n n CMC HMCA HEM sing 219 n n CMC HMCB HEM sing 220 n n CAC CBC HEM doub 221 n n CAC HAC HEM sing 222 n n CBC HBC HEM sing 223 n n CBC HBCA HEM sing 224 n n C1D C2D HEM sing 225 n n C1D ND HEM doub 226 n n C2D C3D HEM doub 227 n n C2D CMD HEM sing 228 n n C3D C4D HEM sing 229 n n C3D CAD HEM sing 230 n n C4D ND HEM sing 231 n n CMD HMD HEM sing 232 n n CMD HMDA HEM sing 233 n n CMD HMDB HEM sing 234 n n CAD CBD HEM sing 235 n n CAD HAD HEM sing 236 n n CAD HADA HEM sing 237 n n CBD CGD HEM sing 238 n n CBD HBD HEM sing 239 n n CBD HBDA HEM sing 240 n n CGD O1D HEM doub 241 n n CGD O2D HEM sing 242 n n O2A H2A HEM sing 243 n n O2D H2D HEM sing 244 n n FE NA HEM sing 245 n n FE NB HEM sing 246 n n FE NC HEM sing 247 n n FE ND HEM sing 248 n n # _atom_sites.entry_id 8VQS _atom_sites.fract_transf_matrix[1][1] 0.016923 _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] 0.014775 _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] 0.014775 _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 A 1 201 139 HEM HEM . D 3 GOL A 1 202 140 GOL GOL . E 3 GOL A 1 203 141 GOL GOL . F 3 GOL A 1 204 142 GOL GOL . G 4 A1ADK A 1 205 143 A1ADK CHN . H 5 DMS A 1 206 144 DMS DMS . I 3 GOL A 1 207 145 GOL GOL . J 6 SO4 A 1 208 1 SO4 SO4 . K 6 SO4 A 1 209 2 SO4 SO4 . L 6 SO4 A 1 210 4 SO4 SO4 . M 2 HEM B 1 201 139 HEM HEM . N 4 A1ADK B 1 202 140 A1ADK CHN . O 3 GOL B 1 203 141 GOL GOL . P 6 SO4 B 1 204 3 SO4 SO4 . Q 7 HOH A 1 301 52 HOH HOH . Q 7 HOH A 2 302 110 HOH HOH . Q 7 HOH A 3 303 1 HOH HOH . Q 7 HOH A 4 304 98 HOH HOH . Q 7 HOH A 5 305 4 HOH HOH . Q 7 HOH A 6 306 78 HOH HOH . Q 7 HOH A 7 307 9 HOH HOH . Q 7 HOH A 8 308 7 HOH HOH . Q 7 HOH A 9 309 113 HOH HOH . Q 7 HOH A 10 310 80 HOH HOH . Q 7 HOH A 11 311 111 HOH HOH . Q 7 HOH A 12 312 92 HOH HOH . Q 7 HOH A 13 313 93 HOH HOH . Q 7 HOH A 14 314 100 HOH HOH . Q 7 HOH A 15 315 47 HOH HOH . Q 7 HOH A 16 316 103 HOH HOH . Q 7 HOH A 17 317 70 HOH HOH . Q 7 HOH A 18 318 5 HOH HOH . Q 7 HOH A 19 319 2 HOH HOH . Q 7 HOH A 20 320 84 HOH HOH . Q 7 HOH A 21 321 17 HOH HOH . Q 7 HOH A 22 322 43 HOH HOH . Q 7 HOH A 23 323 64 HOH HOH . Q 7 HOH A 24 324 16 HOH HOH . Q 7 HOH A 25 325 29 HOH HOH . Q 7 HOH A 26 326 10 HOH HOH . Q 7 HOH A 27 327 73 HOH HOH . Q 7 HOH A 28 328 6 HOH HOH . Q 7 HOH A 29 329 106 HOH HOH . Q 7 HOH A 30 330 102 HOH HOH . Q 7 HOH A 31 331 104 HOH HOH . Q 7 HOH A 32 332 44 HOH HOH . Q 7 HOH A 33 333 90 HOH HOH . Q 7 HOH A 34 334 3 HOH HOH . Q 7 HOH A 35 335 69 HOH HOH . Q 7 HOH A 36 336 45 HOH HOH . Q 7 HOH A 37 337 34 HOH HOH . Q 7 HOH A 38 338 49 HOH HOH . Q 7 HOH A 39 339 31 HOH HOH . Q 7 HOH A 40 340 94 HOH HOH . Q 7 HOH A 41 341 12 HOH HOH . Q 7 HOH A 42 342 46 HOH HOH . Q 7 HOH A 43 343 39 HOH HOH . Q 7 HOH A 44 344 95 HOH HOH . Q 7 HOH A 45 345 22 HOH HOH . Q 7 HOH A 46 346 28 HOH HOH . Q 7 HOH A 47 347 97 HOH HOH . Q 7 HOH A 48 348 42 HOH HOH . Q 7 HOH A 49 349 26 HOH HOH . Q 7 HOH A 50 350 11 HOH HOH . Q 7 HOH A 51 351 108 HOH HOH . Q 7 HOH A 52 352 79 HOH HOH . Q 7 HOH A 53 353 96 HOH HOH . Q 7 HOH A 54 354 56 HOH HOH . Q 7 HOH A 55 355 109 HOH HOH . Q 7 HOH A 56 356 112 HOH HOH . Q 7 HOH A 57 357 105 HOH HOH . Q 7 HOH A 58 358 74 HOH HOH . Q 7 HOH A 59 359 76 HOH HOH . Q 7 HOH A 60 360 75 HOH HOH . R 7 HOH B 1 301 13 HOH HOH . R 7 HOH B 2 302 72 HOH HOH . R 7 HOH B 3 303 38 HOH HOH . R 7 HOH B 4 304 89 HOH HOH . R 7 HOH B 5 305 63 HOH HOH . R 7 HOH B 6 306 83 HOH HOH . R 7 HOH B 7 307 32 HOH HOH . R 7 HOH B 8 308 48 HOH HOH . R 7 HOH B 9 309 82 HOH HOH . R 7 HOH B 10 310 15 HOH HOH . R 7 HOH B 11 311 62 HOH HOH . R 7 HOH B 12 312 65 HOH HOH . R 7 HOH B 13 313 33 HOH HOH . R 7 HOH B 14 314 85 HOH HOH . R 7 HOH B 15 315 67 HOH HOH . R 7 HOH B 16 316 59 HOH HOH . R 7 HOH B 17 317 27 HOH HOH . R 7 HOH B 18 318 60 HOH HOH . R 7 HOH B 19 319 19 HOH HOH . R 7 HOH B 20 320 35 HOH HOH . R 7 HOH B 21 321 87 HOH HOH . R 7 HOH B 22 322 25 HOH HOH . R 7 HOH B 23 323 53 HOH HOH . R 7 HOH B 24 324 50 HOH HOH . R 7 HOH B 25 325 55 HOH HOH . R 7 HOH B 26 326 14 HOH HOH . R 7 HOH B 27 327 30 HOH HOH . R 7 HOH B 28 328 8 HOH HOH . R 7 HOH B 29 329 20 HOH HOH . R 7 HOH B 30 330 36 HOH HOH . R 7 HOH B 31 331 41 HOH HOH . R 7 HOH B 32 332 24 HOH HOH . R 7 HOH B 33 333 58 HOH HOH . R 7 HOH B 34 334 61 HOH HOH . R 7 HOH B 35 335 51 HOH HOH . R 7 HOH B 36 336 37 HOH HOH . R 7 HOH B 37 337 81 HOH HOH . R 7 HOH B 38 338 91 HOH HOH . R 7 HOH B 39 339 18 HOH HOH . R 7 HOH B 40 340 40 HOH HOH . R 7 HOH B 41 341 57 HOH HOH . R 7 HOH B 42 342 21 HOH HOH . R 7 HOH B 43 343 77 HOH HOH . R 7 HOH B 44 344 107 HOH HOH . R 7 HOH B 45 345 68 HOH HOH . R 7 HOH B 46 346 101 HOH HOH . R 7 HOH B 47 347 23 HOH HOH . R 7 HOH B 48 348 66 HOH HOH . R 7 HOH B 49 349 99 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 . . . C 2 19.67 5.329 -23.054 1 36.28 0 CHA HEM 201 A 1 HETATM 2 C CHB HEM . . . C 2 18.503 0.775 -24.259 1 37.98 0 CHB HEM 201 A 1 HETATM 3 C CHC HEM . . . C 2 22.709 -0.794 -22.541 1 43.21 0 CHC HEM 201 A 1 HETATM 4 C CHD HEM . . . C 2 23.971 3.81 -21.534 1 45.3 0 CHD HEM 201 A 1 HETATM 5 C C1A HEM . . . C 2 19.024 4.204 -23.462 1 42.2 0 C1A HEM 201 A 1 HETATM 6 C C2A HEM . . . C 2 17.706 4.218 -23.98 1 43.01 0 C2A HEM 201 A 1 HETATM 7 C C3A HEM . . . C 2 17.353 2.965 -24.326 1 38.3 0 C3A HEM 201 A 1 HETATM 8 C C4A HEM . . . C 2 18.472 2.137 -24.062 1 41.59 0 C4A HEM 201 A 1 HETATM 9 C CMA HEM . . . C 2 16 2.585 -24.88 1 40.62 0 CMA HEM 201 A 1 HETATM 10 C CAA HEM . . . C 2 16.795 5.413 -24.114 1 47.8 0 CAA HEM 201 A 1 HETATM 11 C CBA HEM . . . C 2 16.126 5.629 -22.751 1 60.85 0 CBA HEM 201 A 1 HETATM 12 C CGA HEM . . . C 2 15.553 7.027 -22.681 1 68.86 0 CGA HEM 201 A 1 HETATM 13 O O1A HEM . . . C 2 14.316 7.115 -22.627 1 63.71 0 O1A HEM 201 A 1 HETATM 14 O O2A HEM . . . C 2 16.303 8.052 -22.683 1 86.08 0 O2A HEM 201 A 1 HETATM 15 C C1B HEM . . . C 2 19.555 -0.044 -23.877 1 35.94 0 C1B HEM 201 A 1 HETATM 16 C C2B HEM . . . C 2 19.507 -1.502 -23.973 1 38.83 0 C2B HEM 201 A 1 HETATM 17 C C3B HEM . . . C 2 20.691 -1.979 -23.468 1 36.93 0 C3B HEM 201 A 1 HETATM 18 C C4B HEM . . . C 2 21.434 -0.741 -23.083 1 39.85 0 C4B HEM 201 A 1 HETATM 19 C CMB HEM . . . C 2 18.375 -2.343 -24.493 1 38.54 0 CMB HEM 201 A 1 HETATM 20 C CAB HEM . . . C 2 21.195 -3.366 -23.375 1 38.65 0 CAB HEM 201 A 1 HETATM 21 C CBB HEM . . . C 2 20.57 -4.403 -23.942 1 46.29 0 CBB HEM 201 A 1 HETATM 22 C C1C HEM . . . C 2 23.415 0.311 -22.102 1 43.21 0 C1C HEM 201 A 1 HETATM 23 C C2C HEM . . . C 2 24.652 0.275 -21.401 1 46.99 0 C2C HEM 201 A 1 HETATM 24 C C3C HEM . . . C 2 25.018 1.59 -21.114 1 45.33 0 C3C HEM 201 A 1 HETATM 25 C C4C HEM . . . C 2 23.979 2.418 -21.623 1 43.81 0 C4C HEM 201 A 1 HETATM 26 C CMC HEM . . . C 2 25.44 -0.987 -21.029 1 47.25 0 CMC HEM 201 A 1 HETATM 27 C CAC HEM . . . C 2 26.217 2.057 -20.362 1 51.47 0 CAC HEM 201 A 1 HETATM 28 C CBC HEM . . . C 2 27.052 1.255 -19.67 1 50.02 0 CBC HEM 201 A 1 HETATM 29 C C1D HEM . . . C 2 22.843 4.563 -21.893 1 39.25 0 C1D HEM 201 A 1 HETATM 30 C C2D HEM . . . C 2 22.835 5.992 -21.647 1 42 0 C2D HEM 201 A 1 HETATM 31 C C3D HEM . . . C 2 21.601 6.406 -22.035 1 43.68 0 C3D HEM 201 A 1 HETATM 32 C C4D HEM . . . C 2 20.915 5.217 -22.576 1 37.99 0 C4D HEM 201 A 1 HETATM 33 C CMD HEM . . . C 2 23.959 6.801 -20.996 1 44.25 0 CMD HEM 201 A 1 HETATM 34 C CAD HEM . . . C 2 20.973 7.796 -22.014 1 48.82 0 CAD HEM 201 A 1 HETATM 35 C CBD HEM . . . C 2 21.463 8.74 -20.913 1 52.92 0 CBD HEM 201 A 1 HETATM 36 C CGD HEM . . . C 2 20.769 8.463 -19.6 1 62.74 0 CGD HEM 201 A 1 HETATM 37 O O1D HEM . . . C 2 19.528 8.618 -19.491 1 70.34 0 O1D HEM 201 A 1 HETATM 38 O O2D HEM . . . C 2 21.431 8.088 -18.61 0.2 62.68 0 O2D HEM 201 A 1 HETATM 39 N NA HEM . . . C 2 19.479 2.911 -23.531 1 41.13 0 NA HEM 201 A 1 HETATM 40 N NB HEM . . . C 2 20.68 0.344 -23.343 1 37.04 0 NB HEM 201 A 1 HETATM 41 N NC HEM . . . C 2 23.005 1.601 -22.222 1 40.6 0 NC HEM 201 A 1 HETATM 42 N ND HEM . . . C 2 21.682 4.147 -22.479 1 38.46 0 ND HEM 201 A 1 HETATM 43 FE FE HEM . . . C 2 21.257 2.36 -23.019 1 44.7 0 FE HEM 201 A 1 # _model_server_stats.io_time_ms 9 _model_server_stats.parse_time_ms 14 _model_server_stats.create_model_time_ms 17 _model_server_stats.query_time_ms 336 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 43 #