data_5JP7 # _model_server_result.job_id y9ACNlKLJ1aYVL_DfmtBFA _model_server_result.datetime_utc '2024-11-27 00:10:21' _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 5jp7 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":201}' # _entry.id 5JP7 # _exptl.entry_id 5JP7 _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 120 _cell.entry_id 5JP7 _cell.length_a 53.309 _cell.length_b 53.309 _cell.length_c 180.722 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5JP7 _symmetry.cell_setting ? _symmetry.Int_Tables_number 179 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 65 2 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _pdbx_struct_assembly.details author_and_software_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 1,2 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 10_665 -y+1,-x+1,-z+1/6 0.5 -0.866025 0 -0.866025 -0.5 0 0 0 -1 26.6545 46.166948 30.120333 # _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 PCA 1 A PCA 1 1_555 A N PHE 2 A PHE 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.351 ? covale ? covale2 A SG CYS 116 A CYS 116 1_555 B CAB HEC . A HEC 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.979 ? covale ? covale3 A SG CYS 119 A CYS 119 1_555 B CAC HEC . A HEC 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.963 ? metalc ? metalc1 A NE2 HIS 120 A HIS 120 1_555 B FE HEC . A HEC 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.098 ? # _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 129 n n FE NB HEC sing 130 n n FE NC HEC sing 131 n n FE ND HEC sing 132 n n CHA C1A HEC doub 133 n n CHA C4D HEC sing 134 n n CHA HHA HEC sing 135 n n CHB C4A HEC doub 136 n n CHB C1B HEC sing 137 n n CHB HHB HEC sing 138 n n CHC C4B HEC doub 139 n n CHC C1C HEC sing 140 n n CHC HHC HEC sing 141 n n CHD C4C HEC doub 142 n n CHD C1D HEC sing 143 n n CHD HHD HEC sing 144 n n NA C1A HEC sing 145 n y NA C4A HEC sing 146 n y C1A C2A HEC sing 147 n y C2A C3A HEC doub 148 n y C2A CAA HEC sing 149 n n C3A C4A HEC sing 150 n y C3A CMA HEC sing 151 n n CMA HMA1 HEC sing 152 n n CMA HMA2 HEC sing 153 n n CMA HMA3 HEC sing 154 n n CAA CBA HEC sing 155 n n CAA HAA1 HEC sing 156 n n CAA HAA2 HEC sing 157 n n CBA CGA HEC sing 158 n n CBA HBA1 HEC sing 159 n n CBA HBA2 HEC sing 160 n n CGA O1A HEC doub 161 n n CGA O2A HEC sing 162 n n O2A H2A HEC sing 163 n n NB C1B HEC sing 164 n y NB C4B HEC sing 165 n y C1B C2B HEC doub 166 n y C2B C3B HEC sing 167 n y C2B CMB HEC sing 168 n n C3B C4B HEC sing 169 n y C3B CAB HEC doub 170 e n CMB HMB1 HEC sing 171 n n CMB HMB2 HEC sing 172 n n CMB HMB3 HEC sing 173 n n CAB CBB HEC sing 174 n n CAB HAB HEC sing 175 n n CBB HBB1 HEC sing 176 n n CBB HBB2 HEC sing 177 n n CBB HBB3 HEC sing 178 n n NC C1C HEC sing 179 n y NC C4C HEC sing 180 n y C1C C2C HEC doub 181 n y C2C C3C HEC sing 182 n y C2C CMC HEC sing 183 n n C3C C4C HEC sing 184 n y C3C CAC HEC doub 185 e n CMC HMC1 HEC sing 186 n n CMC HMC2 HEC sing 187 n n CMC HMC3 HEC sing 188 n n CAC CBC HEC sing 189 n n CAC HAC HEC sing 190 n n CBC HBC1 HEC sing 191 n n CBC HBC2 HEC sing 192 n n CBC HBC3 HEC sing 193 n n ND C1D HEC sing 194 n y ND C4D HEC sing 195 n y C1D C2D HEC doub 196 n y C2D C3D HEC sing 197 n y C2D CMD HEC sing 198 n n C3D C4D HEC doub 199 n y C3D CAD HEC sing 200 n n CMD HMD1 HEC sing 201 n n CMD HMD2 HEC sing 202 n n CMD HMD3 HEC sing 203 n n CAD CBD HEC sing 204 n n CAD HAD1 HEC sing 205 n n CAD HAD2 HEC sing 206 n n CBD CGD HEC sing 207 n n CBD HBD1 HEC sing 208 n n CBD HBD2 HEC sing 209 n n CGD O1D HEC doub 210 n n CGD O2D HEC sing 211 n n O2D H2D HEC sing 212 n n # _atom_sites.entry_id 5JP7 _atom_sites.fract_transf_matrix[1][1] 0.018759 _atom_sites.fract_transf_matrix[1][2] 0.01083 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.021661 _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] 0.005533 _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 1 201 128 HEC HEC . C 3 HOH A 1 301 114 HOH HOH . C 3 HOH A 2 302 133 HOH HOH . C 3 HOH A 3 303 81 HOH HOH . C 3 HOH A 4 304 68 HOH HOH . C 3 HOH A 5 305 122 HOH HOH . C 3 HOH A 6 306 21 HOH HOH . C 3 HOH A 7 307 102 HOH HOH . C 3 HOH A 8 308 30 HOH HOH . C 3 HOH A 9 309 39 HOH HOH . C 3 HOH A 10 310 42 HOH HOH . C 3 HOH A 11 311 157 HOH HOH . C 3 HOH A 12 312 67 HOH HOH . C 3 HOH A 13 313 77 HOH HOH . C 3 HOH A 14 314 97 HOH HOH . C 3 HOH A 15 315 82 HOH HOH . C 3 HOH A 16 316 58 HOH HOH . C 3 HOH A 17 317 80 HOH HOH . C 3 HOH A 18 318 38 HOH HOH . C 3 HOH A 19 319 25 HOH HOH . C 3 HOH A 20 320 84 HOH HOH . C 3 HOH A 21 321 3 HOH HOH . C 3 HOH A 22 322 44 HOH HOH . C 3 HOH A 23 323 35 HOH HOH . C 3 HOH A 24 324 36 HOH HOH . C 3 HOH A 25 325 79 HOH HOH . C 3 HOH A 26 326 116 HOH HOH . C 3 HOH A 27 327 128 HOH HOH . C 3 HOH A 28 328 11 HOH HOH . C 3 HOH A 29 329 5 HOH HOH . C 3 HOH A 30 330 15 HOH HOH . C 3 HOH A 31 331 48 HOH HOH . C 3 HOH A 32 332 92 HOH HOH . C 3 HOH A 33 333 32 HOH HOH . C 3 HOH A 34 334 2 HOH HOH . C 3 HOH A 35 335 66 HOH HOH . C 3 HOH A 36 336 7 HOH HOH . C 3 HOH A 37 337 43 HOH HOH . C 3 HOH A 38 338 166 HOH HOH . C 3 HOH A 39 339 123 HOH HOH . C 3 HOH A 40 340 52 HOH HOH . C 3 HOH A 41 341 12 HOH HOH . C 3 HOH A 42 342 134 HOH HOH . C 3 HOH A 43 343 65 HOH HOH . C 3 HOH A 44 344 71 HOH HOH . C 3 HOH A 45 345 28 HOH HOH . C 3 HOH A 46 346 73 HOH HOH . C 3 HOH A 47 347 50 HOH HOH . C 3 HOH A 48 348 9 HOH HOH . C 3 HOH A 49 349 14 HOH HOH . C 3 HOH A 50 350 29 HOH HOH . C 3 HOH A 51 351 153 HOH HOH . C 3 HOH A 52 352 10 HOH HOH . C 3 HOH A 53 353 76 HOH HOH . C 3 HOH A 54 354 49 HOH HOH . C 3 HOH A 55 355 40 HOH HOH . C 3 HOH A 56 356 13 HOH HOH . C 3 HOH A 57 357 96 HOH HOH . C 3 HOH A 58 358 57 HOH HOH . C 3 HOH A 59 359 88 HOH HOH . C 3 HOH A 60 360 197 HOH HOH . C 3 HOH A 61 361 46 HOH HOH . C 3 HOH A 62 362 78 HOH HOH . C 3 HOH A 63 363 23 HOH HOH . C 3 HOH A 64 364 62 HOH HOH . C 3 HOH A 65 365 27 HOH HOH . C 3 HOH A 66 366 75 HOH HOH . C 3 HOH A 67 367 169 HOH HOH . C 3 HOH A 68 368 119 HOH HOH . C 3 HOH A 69 369 129 HOH HOH . C 3 HOH A 70 370 6 HOH HOH . C 3 HOH A 71 371 61 HOH HOH . C 3 HOH A 72 372 85 HOH HOH . C 3 HOH A 73 373 131 HOH HOH . C 3 HOH A 74 374 70 HOH HOH . C 3 HOH A 75 375 18 HOH HOH . C 3 HOH A 76 376 120 HOH HOH . C 3 HOH A 77 377 168 HOH HOH . C 3 HOH A 78 378 17 HOH HOH . C 3 HOH A 79 379 55 HOH HOH . C 3 HOH A 80 380 16 HOH HOH . C 3 HOH A 81 381 87 HOH HOH . C 3 HOH A 82 382 37 HOH HOH . C 3 HOH A 83 383 171 HOH HOH . C 3 HOH A 84 384 31 HOH HOH . C 3 HOH A 85 385 130 HOH HOH . C 3 HOH A 86 386 90 HOH HOH . C 3 HOH A 87 387 20 HOH HOH . C 3 HOH A 88 388 41 HOH HOH . C 3 HOH A 89 389 98 HOH HOH . C 3 HOH A 90 390 83 HOH HOH . C 3 HOH A 91 391 72 HOH HOH . C 3 HOH A 92 392 100 HOH HOH . C 3 HOH A 93 393 172 HOH HOH . C 3 HOH A 94 394 64 HOH HOH . C 3 HOH A 95 395 107 HOH HOH . C 3 HOH A 96 396 51 HOH HOH . C 3 HOH A 97 397 19 HOH HOH . C 3 HOH A 98 398 24 HOH HOH . C 3 HOH A 99 399 124 HOH HOH . C 3 HOH A 100 400 89 HOH HOH . C 3 HOH A 101 401 176 HOH HOH . C 3 HOH A 102 402 74 HOH HOH . C 3 HOH A 103 403 22 HOH HOH . C 3 HOH A 104 404 8 HOH HOH . C 3 HOH A 105 405 115 HOH HOH . C 3 HOH A 106 406 1 HOH HOH . C 3 HOH A 107 407 186 HOH HOH . C 3 HOH A 108 408 94 HOH HOH . C 3 HOH A 109 409 56 HOH HOH . C 3 HOH A 110 410 54 HOH HOH . C 3 HOH A 111 411 33 HOH HOH . C 3 HOH A 112 412 135 HOH HOH . C 3 HOH A 113 413 63 HOH HOH . C 3 HOH A 114 414 69 HOH HOH . C 3 HOH A 115 415 113 HOH HOH . C 3 HOH A 116 416 118 HOH HOH . C 3 HOH A 117 417 117 HOH HOH . C 3 HOH A 118 418 181 HOH HOH . C 3 HOH A 119 419 144 HOH HOH . C 3 HOH A 120 420 47 HOH HOH . C 3 HOH A 121 421 93 HOH HOH . C 3 HOH A 122 422 34 HOH HOH . C 3 HOH A 123 423 53 HOH HOH . C 3 HOH A 124 424 45 HOH HOH . C 3 HOH A 125 425 59 HOH HOH . C 3 HOH A 126 426 26 HOH HOH . C 3 HOH A 127 427 101 HOH HOH . C 3 HOH A 128 428 4 HOH HOH . C 3 HOH A 129 429 159 HOH HOH . C 3 HOH A 130 430 125 HOH HOH . C 3 HOH A 131 431 177 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 6.792 38.851 21.633 1 17.1 ? FE HEC 201 A 1 HETATM 2 C CHA HEC . . . B 2 8.495 35.867 21.485 1 18.18 ? CHA HEC 201 A 1 HETATM 3 C CHB HEC . . . B 2 7.021 39.144 18.278 1 17.3 ? CHB HEC 201 A 1 HETATM 4 C CHC HEC . . . B 2 4.614 41.478 21.703 1 15.14 ? CHC HEC 201 A 1 HETATM 5 C CHD HEC . . . B 2 6.442 38.42 24.965 1 18.2 ? CHD HEC 201 A 1 HETATM 6 N NA HEC . . . B 2 7.601 37.691 20.147 1 18.13 ? NA HEC 201 A 1 HETATM 7 C C1A HEC . . . B 2 8.324 36.518 20.287 1 19.39 ? C1A HEC 201 A 1 HETATM 8 C C2A HEC . . . B 2 8.771 36.115 19.015 1 19.95 ? C2A HEC 201 A 1 HETATM 9 C C3A HEC . . . B 2 8.341 37.067 18.122 1 19.41 ? C3A HEC 201 A 1 HETATM 10 C C4A HEC . . . B 2 7.615 38.039 18.846 1 17.91 ? C4A HEC 201 A 1 HETATM 11 C CMA HEC . . . B 2 8.582 37.041 16.63 1 21.09 ? CMA HEC 201 A 1 HETATM 12 C CAA HEC . . . B 2 9.576 34.845 18.705 1 21.38 ? CAA HEC 201 A 1 HETATM 13 C CBA HEC . . . B 2 8.71 33.605 18.501 1 26 ? CBA HEC 201 A 1 HETATM 14 C CGA HEC . . . B 2 9.515 32.403 18.002 1 32.3 ? CGA HEC 201 A 1 HETATM 15 O O1A HEC . . . B 2 10.756 32.461 17.834 1 36.54 ? O1A HEC 201 A 1 HETATM 16 O O2A HEC . . . B 2 8.819 31.414 17.761 1 43.61 ? O2A HEC 201 A 1 HETATM 17 N NB HEC . . . B 2 5.891 40.059 20.201 1 16.71 ? NB HEC 201 A 1 HETATM 18 C C1B HEC . . . B 2 6.232 40.106 18.892 1 18.62 ? C1B HEC 201 A 1 HETATM 19 C C2B HEC . . . B 2 5.639 41.224 18.293 1 19.54 ? C2B HEC 201 A 1 HETATM 20 C C3B HEC . . . B 2 4.888 41.858 19.255 1 15.93 ? C3B HEC 201 A 1 HETATM 21 C C4B HEC . . . B 2 5.1 41.12 20.439 1 15.23 ? C4B HEC 201 A 1 HETATM 22 C CMB HEC . . . B 2 5.796 41.673 16.849 1 22.58 ? CMB HEC 201 A 1 HETATM 23 C CAB HEC . . . B 2 3.947 43.02 19.188 1 16.31 ? CAB HEC 201 A 1 HETATM 24 C CBB HEC . . . B 2 3.076 43.132 17.951 1 17.06 ? CBB HEC 201 A 1 HETATM 25 N NC HEC . . . B 2 5.651 39.763 23.078 1 16.07 ? NC HEC 201 A 1 HETATM 26 C C1C HEC . . . B 2 4.886 40.844 22.904 1 15.49 ? C1C HEC 201 A 1 HETATM 27 C C2C HEC . . . B 2 4.434 41.284 24.176 1 15.86 ? C2C HEC 201 A 1 HETATM 28 C C3C HEC . . . B 2 4.96 40.438 25.111 1 15.58 ? C3C HEC 201 A 1 HETATM 29 C C4C HEC . . . B 2 5.735 39.492 24.41 1 16.4 ? C4C HEC 201 A 1 HETATM 30 C CMC HEC . . . B 2 3.558 42.493 24.314 1 16.46 ? CMC HEC 201 A 1 HETATM 31 C CAC HEC . . . B 2 4.795 40.388 26.617 1 17.45 ? CAC HEC 201 A 1 HETATM 32 C CBC HEC . . . B 2 3.641 41.103 27.264 1 19.48 ? CBC HEC 201 A 1 HETATM 33 N ND HEC . . . B 2 7.35 37.374 22.978 1 17.57 ? ND HEC 201 A 1 HETATM 34 C C1D HEC . . . B 2 7.178 37.449 24.317 1 17.69 ? C1D HEC 201 A 1 HETATM 35 C C2D HEC . . . B 2 7.8 36.357 24.933 1 17.33 ? C2D HEC 201 A 1 HETATM 36 C C3D HEC . . . B 2 8.341 35.563 23.958 1 17.74 ? C3D HEC 201 A 1 HETATM 37 C C4D HEC . . . B 2 8.057 36.24 22.748 1 18.06 ? C4D HEC 201 A 1 HETATM 38 C CMD HEC . . . B 2 7.849 36.074 26.419 1 18.05 ? CMD HEC 201 A 1 HETATM 39 C CAD HEC . . . B 2 9.047 34.204 24.199 1 19.17 ? CAD HEC 201 A 1 HETATM 40 C CBD HEC . . . B 2 8.03 33.058 24.076 1 20 ? CBD HEC 201 A 1 HETATM 41 C CGD HEC . . . B 2 8.658 31.689 24.285 1 18.92 ? CGD HEC 201 A 1 HETATM 42 O O1D HEC . . . B 2 8.15 30.947 25.168 1 21.09 ? O1D HEC 201 A 1 HETATM 43 O O2D HEC . . . B 2 9.649 31.365 23.58 1 21.12 ? O2D HEC 201 A 1 # _model_server_stats.io_time_ms 14 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 251 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 43 #