data_2ZVU # _model_server_result.job_id JusK1aV4qCIJIKQshnc8IA _model_server_result.datetime_utc '2024-11-14 20:04:14' _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 2zvu # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":300}' # _entry.id 2ZVU # _exptl.entry_id 2ZVU _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 619.468 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '5-OXA-PROTOPORPHYRIN IX CONTAINING FE' _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 2ZVU _cell.length_a 65.346 _cell.length_b 65.346 _cell.length_c 120.24 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2ZVU _symmetry.cell_setting ? _symmetry.Int_Tables_number 154 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 32 2 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D _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 # _struct_conn.conn_type_id metalc _struct_conn.details ? _struct_conn.id metalc1 _struct_conn.ptnr1_label_asym_id A _struct_conn.ptnr1_label_atom_id NE2 _struct_conn.ptnr1_label_comp_id HIS _struct_conn.ptnr1_label_seq_id 25 _struct_conn.ptnr1_auth_asym_id A _struct_conn.ptnr1_auth_comp_id HIS _struct_conn.ptnr1_auth_seq_id 25 _struct_conn.ptnr1_symmetry 1_555 _struct_conn.ptnr2_label_asym_id B _struct_conn.ptnr2_label_atom_id FE _struct_conn.ptnr2_label_comp_id VEA _struct_conn.ptnr2_label_seq_id . _struct_conn.ptnr2_auth_asym_id A _struct_conn.ptnr2_auth_comp_id VEA _struct_conn.ptnr2_auth_seq_id 300 _struct_conn.ptnr2_symmetry 1_555 _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 2.14 _struct_conn.pdbx_value_order ? # _chem_comp.formula 'C33 H31 Fe N4 O5 5' _chem_comp.formula_weight 619.468 _chem_comp.id VEA _chem_comp.mon_nstd_flag . _chem_comp.name '5-OXA-PROTOPORPHYRIN IX CONTAINING FE' _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 C5B C2B VEA sing 367 n n C5A C3A VEA sing 368 n n C2B C1B VEA sing 369 n n C2B C3B VEA doub 370 n n CHB C1B VEA doub 371 n n CHB C4A VEA sing 372 n n CAB C3B VEA sing 373 n n CAB CBB VEA doub 374 n n C3A C4A VEA sing 375 n n C3A C2A VEA doub 376 n n C1B N4 VEA sing 377 n n C3B C4B VEA sing 378 n n C4A N2 VEA doub 379 n n O2A CGA VEA doub 380 n n C2A CAA VEA sing 381 n n C2A C1A VEA sing 382 n n CAA CBA VEA sing 383 n n N4 C4B VEA sing 384 n n N4 FE VEA sing 385 n n C4B O VEA doub 386 n n CGA CBA VEA sing 387 n n CGA O1A VEA sing 388 n n N2 C1A VEA sing 389 n n N2 FE VEA sing 390 n n C1A CHA VEA doub 391 n n O C1C VEA sing 392 n n FE N3 VEA sing 393 n n FE N1 VEA sing 394 n n CHA C4D VEA sing 395 n n C1C N3 VEA doub 396 n n C1C C2C VEA sing 397 n n N3 C4C VEA sing 398 n n N1 C4D VEA sing 399 n y N1 C1D VEA sing 400 n y C4D C3D VEA doub 401 n y C5C C2C VEA sing 402 n n C2C C3C VEA doub 403 n n C4C C3C VEA sing 404 n n C4C CHD VEA doub 405 n n C1D CHD VEA sing 406 n n C1D C2D VEA doub 407 n y C3C CAC VEA sing 408 n n C3D CAD VEA sing 409 n n C3D C2D VEA sing 410 n y CAD CBD VEA sing 411 n n C2D C5D VEA sing 412 n n O2D CGD VEA doub 413 n n CBD CGD VEA sing 414 n n CBC CAC VEA doub 415 n n CGD O1D VEA sing 416 n n O1D HO1D VEA sing 417 n n CBD HBD VEA sing 418 n n CBD HBDA VEA sing 419 n n CAD HAD VEA sing 420 n n CAD HADA VEA sing 421 n n C5D H5D VEA sing 422 n n C5D H5DA VEA sing 423 n n C5D H5DB VEA sing 424 n n CHA HHA VEA sing 425 n n CHD HHD VEA sing 426 n n CAC HAC VEA sing 427 n n CBC HBC VEA sing 428 n n CBC HBCA VEA sing 429 n n C5C H5C VEA sing 430 n n C5C H5CA VEA sing 431 n n C5C H5CB VEA sing 432 n n CAB HAB VEA sing 433 n n CBB HBB VEA sing 434 n n CBB HBBA VEA sing 435 n n C5B H5B VEA sing 436 n n C5B H5BA VEA sing 437 n n C5B H5BB VEA sing 438 n n CHB HHB VEA sing 439 n n C5A H5A VEA sing 440 n n C5A H5AA VEA sing 441 n n C5A H5AB VEA sing 442 n n CAA HAA VEA sing 443 n n CAA HAAA VEA sing 444 n n CBA HBA VEA sing 445 n n CBA HBAA VEA sing 446 n n O1A HO1A VEA sing 447 n n # _atom_sites.entry_id 2ZVU _atom_sites.fract_transf_matrix[1][1] 0.015303 _atom_sites.fract_transf_matrix[1][2] 0.008835 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.017671 _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] 0.008317 _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 VEA A 1 300 300 VEA VEA . C 3 FMT A 1 268 1 FMT FMT . D 4 HOH A 1 269 2 HOH HOH . D 4 HOH A 2 270 3 HOH HOH . D 4 HOH A 3 271 4 HOH HOH . D 4 HOH A 4 272 5 HOH HOH . D 4 HOH A 5 273 6 HOH HOH . D 4 HOH A 6 274 7 HOH HOH . D 4 HOH A 7 275 8 HOH HOH . D 4 HOH A 8 276 9 HOH HOH . D 4 HOH A 9 277 10 HOH HOH . D 4 HOH A 10 278 11 HOH HOH . D 4 HOH A 11 279 12 HOH HOH . D 4 HOH A 12 280 13 HOH HOH . D 4 HOH A 13 281 14 HOH HOH . D 4 HOH A 14 282 15 HOH HOH . D 4 HOH A 15 283 16 HOH HOH . D 4 HOH A 16 284 17 HOH HOH . D 4 HOH A 17 285 18 HOH HOH . D 4 HOH A 18 286 19 HOH HOH . D 4 HOH A 19 287 20 HOH HOH . D 4 HOH A 20 288 21 HOH HOH . D 4 HOH A 21 289 22 HOH HOH . D 4 HOH A 22 290 23 HOH HOH . D 4 HOH A 23 291 24 HOH HOH . D 4 HOH A 24 292 25 HOH HOH . D 4 HOH A 25 293 26 HOH HOH . D 4 HOH A 26 294 27 HOH HOH . D 4 HOH A 27 295 28 HOH HOH . D 4 HOH A 28 296 29 HOH HOH . D 4 HOH A 29 297 30 HOH HOH . D 4 HOH A 30 298 31 HOH HOH . D 4 HOH A 31 299 32 HOH HOH . D 4 HOH A 32 301 33 HOH HOH . D 4 HOH A 33 302 34 HOH HOH . D 4 HOH A 34 303 35 HOH HOH . D 4 HOH A 35 304 36 HOH HOH . D 4 HOH A 36 305 37 HOH HOH . D 4 HOH A 37 306 38 HOH HOH . D 4 HOH A 38 307 39 HOH HOH . D 4 HOH A 39 308 40 HOH HOH . D 4 HOH A 40 309 41 HOH HOH . D 4 HOH A 41 310 42 HOH HOH . D 4 HOH A 42 311 43 HOH HOH . D 4 HOH A 43 312 44 HOH HOH . D 4 HOH A 44 313 45 HOH HOH . D 4 HOH A 45 314 46 HOH HOH . D 4 HOH A 46 315 47 HOH HOH . D 4 HOH A 47 316 48 HOH HOH . D 4 HOH A 48 317 49 HOH HOH . D 4 HOH A 49 318 50 HOH HOH . D 4 HOH A 50 319 51 HOH HOH . D 4 HOH A 51 320 52 HOH HOH . D 4 HOH A 52 321 53 HOH HOH . D 4 HOH A 53 322 54 HOH HOH . D 4 HOH A 54 323 55 HOH HOH . D 4 HOH A 55 324 56 HOH HOH . D 4 HOH A 56 325 57 HOH HOH . D 4 HOH A 57 326 58 HOH HOH . D 4 HOH A 58 327 59 HOH HOH . D 4 HOH A 59 328 60 HOH HOH . D 4 HOH A 60 329 61 HOH HOH . D 4 HOH A 61 330 62 HOH HOH . D 4 HOH A 62 331 63 HOH HOH . D 4 HOH A 63 332 64 HOH HOH . D 4 HOH A 64 333 65 HOH HOH . D 4 HOH A 65 334 66 HOH HOH . D 4 HOH A 66 335 67 HOH HOH . D 4 HOH A 67 336 68 HOH HOH . D 4 HOH A 68 337 69 HOH HOH . D 4 HOH A 69 338 70 HOH HOH . D 4 HOH A 70 339 71 HOH HOH . D 4 HOH A 71 340 72 HOH HOH . D 4 HOH A 72 341 73 HOH HOH . D 4 HOH A 73 342 74 HOH HOH . D 4 HOH A 74 343 75 HOH HOH . D 4 HOH A 75 344 76 HOH HOH . D 4 HOH A 76 345 77 HOH HOH . D 4 HOH A 77 346 78 HOH HOH . D 4 HOH A 78 347 79 HOH HOH . D 4 HOH A 79 348 80 HOH HOH . D 4 HOH A 80 349 81 HOH HOH . D 4 HOH A 81 350 82 HOH HOH . D 4 HOH A 82 351 83 HOH HOH . D 4 HOH A 83 352 84 HOH HOH . D 4 HOH A 84 353 85 HOH HOH . D 4 HOH A 85 354 86 HOH HOH . D 4 HOH A 86 355 87 HOH HOH . D 4 HOH A 87 356 88 HOH HOH . D 4 HOH A 88 357 89 HOH HOH . D 4 HOH A 89 358 90 HOH HOH . D 4 HOH A 90 359 91 HOH HOH . D 4 HOH A 91 360 92 HOH HOH . D 4 HOH A 92 361 93 HOH HOH . D 4 HOH A 93 362 94 HOH HOH . D 4 HOH A 94 363 95 HOH HOH . D 4 HOH A 95 364 96 HOH HOH . D 4 HOH A 96 365 97 HOH HOH . D 4 HOH A 97 366 98 HOH HOH . D 4 HOH A 98 367 99 HOH HOH . D 4 HOH A 99 368 100 HOH HOH . D 4 HOH A 100 369 101 HOH HOH . D 4 HOH A 101 370 102 HOH HOH . D 4 HOH A 102 371 103 HOH HOH . D 4 HOH A 103 372 104 HOH HOH . D 4 HOH A 104 373 105 HOH HOH . D 4 HOH A 105 374 106 HOH HOH . D 4 HOH A 106 375 107 HOH HOH . D 4 HOH A 107 376 108 HOH HOH . D 4 HOH A 108 377 109 HOH HOH . D 4 HOH A 109 378 110 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 O O2D VEA . . . B 2 -15.813 16.619 -4.349 1 36.48 ? O2D VEA 300 A 1 HETATM 2 C CGD VEA . . . B 2 -16.736 16.52 -3.525 1 33.68 ? CGD VEA 300 A 1 HETATM 3 O O1D VEA . . . B 2 -16.532 16.593 -2.291 1 33 ? O1D VEA 300 A 1 HETATM 4 C CBD VEA . . . B 2 -18.131 16.265 -4.047 1 33.56 ? CBD VEA 300 A 1 HETATM 5 C CAD VEA . . . B 2 -18.83 17.466 -4.719 1 32.14 ? CAD VEA 300 A 1 HETATM 6 C C3D VEA . . . B 2 -20.289 17.015 -4.875 1 31.06 ? C3D VEA 300 A 1 HETATM 7 C C2D VEA . . . B 2 -21.368 18.004 -4.504 1 29.75 ? C2D VEA 300 A 1 HETATM 8 C C5D VEA . . . B 2 -21.542 18.188 -2.986 1 26.37 ? C5D VEA 300 A 1 HETATM 9 C C4D VEA . . . B 2 -20.76 16.548 -6.229 1 32.71 ? C4D VEA 300 A 1 HETATM 10 C CHA VEA . . . B 2 -19.923 16.04 -7.151 1 35.52 ? CHA VEA 300 A 1 HETATM 11 N N1 VEA . . . B 2 -22.107 16.665 -6.315 1 33.61 ? N1 VEA 300 A 1 HETATM 12 C C1D VEA . . . B 2 -22.526 17.388 -5.251 1 30.34 ? C1D VEA 300 A 1 HETATM 13 C CHD VEA . . . B 2 -23.801 17.562 -4.859 1 31.38 ? CHD VEA 300 A 1 HETATM 14 C C4C VEA . . . B 2 -25.025 17.091 -5.537 1 32.22 ? C4C VEA 300 A 1 HETATM 15 C C3C VEA . . . B 2 -26.425 17.249 -5.089 1 33.33 ? C3C VEA 300 A 1 HETATM 16 C CAC VEA . . . B 2 -26.803 17.933 -3.832 1 33.18 ? CAC VEA 300 A 1 HETATM 17 C CBC VEA . . . B 2 -27.608 18.964 -3.865 1 37.05 ? CBC VEA 300 A 1 HETATM 18 C C2C VEA . . . B 2 -27.245 16.644 -6.046 1 33.25 ? C2C VEA 300 A 1 HETATM 19 C C5C VEA . . . B 2 -28.759 16.528 -6.055 1 32.29 ? C5C VEA 300 A 1 HETATM 20 FE FE VEA . . . B 2 -23.224 15.956 -7.683 1 34.49 ? FE VEA 300 A 1 HETATM 21 N N2 VEA . . . B 2 -21.574 15.528 -8.868 1 34.79 ? N2 VEA 300 A 1 HETATM 22 C C1A VEA . . . B 2 -20.288 15.598 -8.518 1 36.32 ? C1A VEA 300 A 1 HETATM 23 N N3 VEA . . . B 2 -24.963 16.43 -6.685 1 33.57 ? N3 VEA 300 A 1 HETATM 24 C C1C VEA . . . B 2 -26.234 16.139 -7.034 1 32.95 ? C1C VEA 300 A 1 HETATM 25 O O VEA . . . B 2 -26.609 15.519 -8.091 1 35.16 ? O VEA 300 A 1 HETATM 26 C C4B VEA . . . B 2 -25.857 15.291 -9.116 1 35.15 ? C4B VEA 300 A 1 HETATM 27 C C3B VEA . . . B 2 -26.421 14.867 -10.434 1 35.45 ? C3B VEA 300 A 1 HETATM 28 C CAB VEA . . . B 2 -27.838 14.646 -10.799 1 37.25 ? CAB VEA 300 A 1 HETATM 29 C CBB VEA . . . B 2 -28.78 14.9 -9.922 1 40.18 ? CBB VEA 300 A 1 HETATM 30 C C2B VEA . . . B 2 -25.374 14.672 -11.313 1 35.95 ? C2B VEA 300 A 1 HETATM 31 C C5B VEA . . . B 2 -25.407 14.231 -12.764 1 35.99 ? C5B VEA 300 A 1 HETATM 32 N N4 VEA . . . B 2 -24.51 15.345 -9.192 1 35.51 ? N4 VEA 300 A 1 HETATM 33 C C1B VEA . . . B 2 -24.196 14.992 -10.463 1 35.82 ? C1B VEA 300 A 1 HETATM 34 C CHB VEA . . . B 2 -22.795 14.928 -10.939 1 36.79 ? CHB VEA 300 A 1 HETATM 35 C C4A VEA . . . B 2 -21.555 15.112 -10.139 1 35.59 ? C4A VEA 300 A 1 HETATM 36 C C3A VEA . . . B 2 -20.18 14.903 -10.659 1 36.43 ? C3A VEA 300 A 1 HETATM 37 C C5A VEA . . . B 2 -19.81 14.447 -12.047 1 37.59 ? C5A VEA 300 A 1 HETATM 38 C C2A VEA . . . B 2 -19.338 15.213 -9.604 1 36.91 ? C2A VEA 300 A 1 HETATM 39 C CAA VEA . . . B 2 -17.819 15.19 -9.568 1 40.32 ? CAA VEA 300 A 1 HETATM 40 C CBA VEA . . . B 2 -17.265 13.919 -8.925 1 48.45 ? CBA VEA 300 A 1 HETATM 41 C CGA VEA . . . B 2 -15.745 13.876 -9.035 1 54.34 ? CGA VEA 300 A 1 HETATM 42 O O1A VEA . . . B 2 -15.051 14.692 -8.361 1 55.82 ? O1A VEA 300 A 1 HETATM 43 O O2A VEA . . . B 2 -15.222 13.016 -9.804 1 56.8 ? O2A VEA 300 A 1 # _model_server_stats.io_time_ms 19 _model_server_stats.parse_time_ms 23 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 290 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 43 #