data_3R1B # _model_server_result.job_id OA0WZt3pHKqZsp8PHp3Fhg _model_server_result.datetime_utc '2024-11-30 18:56:28' _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 3r1b # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"S","auth_seq_id":500}' # _entry.id 3R1B # _exptl.entry_id 3R1B _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 616.487 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'PROTOPORPHYRIN IX CONTAINING FE' _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 122.22 _cell.angle_gamma 90 _cell.entry_id 3R1B _cell.length_a 193.924 _cell.length_b 153.691 _cell.length_c 129.665 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3R1B _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 1 2 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 ? monomeric 1 author_defined_assembly 1 ? monomeric 1 author_defined_assembly 2 ? monomeric 1 author_defined_assembly 3 ? monomeric 1 author_defined_assembly 4 PISA dimeric 2 software_defined_assembly 5 PISA dimeric 2 software_defined_assembly 6 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,E,I,J,K,L 1 1 B,F,M,N,O,P 2 1 C,G,Q,R 3 1 D,H,S,T,U 4 1 A,D,E,H,I,J,K,L,S,T,U 5 1 B,C,F,G,M,N,O,P,Q,R 6 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 ? 3 I N N ? 3 M N N ? 3 Q N N ? 3 S N N # _pdbx_entity_branch.entity_id 2 _pdbx_entity_branch.type oligosaccharide # _pdbx_entity_branch_link.link_id 1 _pdbx_entity_branch_link.details ? _pdbx_entity_branch_link.entity_id 2 _pdbx_entity_branch_link.entity_branch_list_num_1 1 _pdbx_entity_branch_link.entity_branch_list_num_2 2 _pdbx_entity_branch_link.comp_id_1 GLC _pdbx_entity_branch_link.comp_id_2 FRU _pdbx_entity_branch_link.atom_id_1 C1 _pdbx_entity_branch_link.leaving_atom_id_1 O1 _pdbx_entity_branch_link.atom_stereo_config_1 . _pdbx_entity_branch_link.atom_id_2 O2 _pdbx_entity_branch_link.leaving_atom_id_2 HO2 _pdbx_entity_branch_link.atom_stereo_config_2 . _pdbx_entity_branch_link.value_order sing # loop_ _pdbx_branch_scheme.entity_id _pdbx_branch_scheme.hetero _pdbx_branch_scheme.asym_id _pdbx_branch_scheme.mon_id _pdbx_branch_scheme.num _pdbx_branch_scheme.pdb_asym_id _pdbx_branch_scheme.pdb_seq_num _pdbx_branch_scheme.pdb_mon_id _pdbx_branch_scheme.auth_asym_id _pdbx_branch_scheme.auth_seq_num _pdbx_branch_scheme.auth_mon_id 2 n E GLC 1 E 1 GLC A 601 SUC 2 n E FRU 2 E 2 FRU A 601 SUC 2 n F GLC 1 F 1 GLC B 602 SUC 2 n F FRU 2 F 2 FRU B 602 SUC 2 n G GLC 1 G 1 GLC C 603 SUC 2 n G FRU 2 G 2 FRU C 603 SUC 2 n H GLC 1 H 1 GLC D 604 SUC 2 n H FRU 2 H 2 FRU D 604 SUC # 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 OG1 THR 283 A THR 302 1_555 J C1 TB2 . A TB2 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.363 ? covale ? covale2 B OG1 THR 283 B THR 302 1_555 N C1 TB2 . B TB2 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.502 ? covale ? covale3 C OG1 THR 283 C THR 302 1_555 R C1 TB2 . C TB2 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.489 ? covale ? covale4 D OG1 THR 283 D THR 302 1_555 T C1 TB2 . D TB2 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.463 ? covale ? covale5 E C1 GLC . E GLC 1 1_555 E O2 FRU . E FRU 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.382 sing covale ? covale6 F C1 GLC . F GLC 1 1_555 F O2 FRU . F FRU 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.379 sing covale ? covale7 G C1 GLC . G GLC 1 1_555 G O2 FRU . G FRU 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.377 sing covale ? covale8 H C1 GLC . H GLC 1 1_555 H O2 FRU . H FRU 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.38 sing metalc ? metalc1 A SG CYS 417 A CYS 436 1_555 I FE HEM . A HEM 500 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.526 ? metalc ? metalc2 B SG CYS 417 B CYS 436 1_555 M FE HEM . B HEM 500 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.496 ? metalc ? metalc3 C SG CYS 417 C CYS 436 1_555 Q FE HEM . C HEM 500 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.556 ? metalc ? metalc4 D SG CYS 417 D CYS 436 1_555 S FE HEM . D HEM 500 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.631 ? # _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 255 n n CHA C4D HEM doub 256 n n CHA HHA HEM sing 257 n n CHB C4A HEM sing 258 n n CHB C1B HEM doub 259 n n CHB HHB HEM sing 260 n n CHC C4B HEM sing 261 n n CHC C1C HEM doub 262 n n CHC HHC HEM sing 263 n n CHD C4C HEM doub 264 n n CHD C1D HEM sing 265 n n CHD HHD HEM sing 266 n n C1A C2A HEM doub 267 n y C1A NA HEM sing 268 n y C2A C3A HEM sing 269 n y C2A CAA HEM sing 270 n n C3A C4A HEM doub 271 n y C3A CMA HEM sing 272 n n C4A NA HEM sing 273 n y CMA HMA HEM sing 274 n n CMA HMAA HEM sing 275 n n CMA HMAB HEM sing 276 n n CAA CBA HEM sing 277 n n CAA HAA HEM sing 278 n n CAA HAAA HEM sing 279 n n CBA CGA HEM sing 280 n n CBA HBA HEM sing 281 n n CBA HBAA HEM sing 282 n n CGA O1A HEM doub 283 n n CGA O2A HEM sing 284 n n C1B C2B HEM sing 285 n n C1B NB HEM sing 286 n n C2B C3B HEM doub 287 n n C2B CMB HEM sing 288 n n C3B C4B HEM sing 289 n n C3B CAB HEM sing 290 n n C4B NB HEM doub 291 n n CMB HMB HEM sing 292 n n CMB HMBA HEM sing 293 n n CMB HMBB HEM sing 294 n n CAB CBB HEM doub 295 n n CAB HAB HEM sing 296 n n CBB HBB HEM sing 297 n n CBB HBBA HEM sing 298 n n C1C C2C HEM sing 299 n y C1C NC HEM sing 300 n y C2C C3C HEM doub 301 n y C2C CMC HEM sing 302 n n C3C C4C HEM sing 303 n y C3C CAC HEM sing 304 n n C4C NC HEM sing 305 n y CMC HMC HEM sing 306 n n CMC HMCA HEM sing 307 n n CMC HMCB HEM sing 308 n n CAC CBC HEM doub 309 n n CAC HAC HEM sing 310 n n CBC HBC HEM sing 311 n n CBC HBCA HEM sing 312 n n C1D C2D HEM sing 313 n n C1D ND HEM doub 314 n n C2D C3D HEM doub 315 n n C2D CMD HEM sing 316 n n C3D C4D HEM sing 317 n n C3D CAD HEM sing 318 n n C4D ND HEM sing 319 n n CMD HMD HEM sing 320 n n CMD HMDA HEM sing 321 n n CMD HMDB HEM sing 322 n n CAD CBD HEM sing 323 n n CAD HAD HEM sing 324 n n CAD HADA HEM sing 325 n n CBD CGD HEM sing 326 n n CBD HBD HEM sing 327 n n CBD HBDA HEM sing 328 n n CGD O1D HEM doub 329 n n CGD O2D HEM sing 330 n n O2A H2A HEM sing 331 n n O2D H2D HEM sing 332 n n FE NA HEM sing 333 n n FE NB HEM sing 334 n n FE NC HEM sing 335 n n FE ND HEM sing 336 n n # _atom_sites.entry_id 3R1B _atom_sites.fract_transf_matrix[1][1] 0.005157 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.00325 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.006507 _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] 0.009116 _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 3 HEM A 1 500 500 HEM HEM . J 4 TB2 A 1 501 501 TB2 TB2 . K 5 CM5 A 1 605 605 CM5 CM5 . L 5 CM5 A 1 608 608 CM5 CM5 . M 3 HEM B 1 500 500 HEM HEM . N 4 TB2 B 1 501 501 TB2 TB2 . O 5 CM5 B 1 606 606 CM5 CM5 . P 5 CM5 B 1 607 607 CM5 CM5 . Q 3 HEM C 1 500 500 HEM HEM . R 4 TB2 C 1 501 501 TB2 TB2 . S 3 HEM D 1 500 500 HEM HEM . T 4 TB2 D 1 501 501 TB2 TB2 . U 5 CM5 D 1 610 610 CM5 CM5 . # 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 . . . S 3 76.695 -11.354 -14.943 1 99.67 ? CHA HEM 500 D 1 HETATM 2 C CHB HEM . . . S 3 75.159 -12.996 -10.642 1 105.33 ? CHB HEM 500 D 1 HETATM 3 C CHC HEM . . . S 3 72.931 -8.804 -9.714 1 103 ? CHC HEM 500 D 1 HETATM 4 C CHD HEM . . . S 3 73.521 -7.682 -14.396 1 96.79 ? CHD HEM 500 D 1 HETATM 5 C C1A HEM . . . S 3 76.583 -12.113 -13.796 1 99.53 ? C1A HEM 500 D 1 HETATM 6 C C2A HEM . . . S 3 77.374 -13.276 -13.437 1 104.68 ? C2A HEM 500 D 1 HETATM 7 C C3A HEM . . . S 3 76.952 -13.716 -12.254 1 102.21 ? C3A HEM 500 D 1 HETATM 8 C C4A HEM . . . S 3 75.866 -12.866 -11.816 1 99.98 ? C4A HEM 500 D 1 HETATM 9 C CMA HEM . . . S 3 77.516 -14.927 -11.483 1 104.85 ? CMA HEM 500 D 1 HETATM 10 C CAA HEM . . . S 3 78.533 -13.885 -14.257 1 107.97 ? CAA HEM 500 D 1 HETATM 11 C CBA HEM . . . S 3 78.001 -14.433 -15.576 1 114.22 ? CBA HEM 500 D 1 HETATM 12 C CGA HEM . . . S 3 79.163 -14.927 -16.396 1 118.27 ? CGA HEM 500 D 1 HETATM 13 O O1A HEM . . . S 3 80.309 -14.87 -15.893 1 116.77 ? O1A HEM 500 D 1 HETATM 14 O O2A HEM . . . S 3 78.941 -15.378 -17.55 1 121.26 ? O2A HEM 500 D 1 HETATM 15 C C1B HEM . . . S 3 74.535 -11.969 -9.968 1 102.16 ? C1B HEM 500 D 1 HETATM 16 C C2B HEM . . . S 3 74.26 -11.918 -8.546 1 96.06 ? C2B HEM 500 D 1 HETATM 17 C C3B HEM . . . S 3 73.644 -10.761 -8.284 1 97.8 ? C3B HEM 500 D 1 HETATM 18 C C4B HEM . . . S 3 73.509 -10.043 -9.535 1 103.34 ? C4B HEM 500 D 1 HETATM 19 C CMB HEM . . . S 3 74.628 -13.025 -7.536 1 105.96 ? CMB HEM 500 D 1 HETATM 20 C CAB HEM . . . S 3 73.146 -10.244 -6.913 1 103.55 ? CAB HEM 500 D 1 HETATM 21 C CBB HEM . . . S 3 73.294 -10.952 -5.788 1 101.81 ? CBB HEM 500 D 1 HETATM 22 C C1C HEM . . . S 3 72.958 -8.095 -10.897 1 103.45 ? C1C HEM 500 D 1 HETATM 23 C C2C HEM . . . S 3 72.594 -6.706 -11.086 1 102.01 ? C2C HEM 500 D 1 HETATM 24 C C3C HEM . . . S 3 72.766 -6.41 -12.375 1 100.64 ? C3C HEM 500 D 1 HETATM 25 C C4C HEM . . . S 3 73.236 -7.594 -13.055 1 98.32 ? C4C HEM 500 D 1 HETATM 26 C CMC HEM . . . S 3 72.106 -5.728 -9.996 1 108.33 ? CMC HEM 500 D 1 HETATM 27 C CAC HEM . . . S 3 72.505 -5.043 -13.042 1 109.36 ? CAC HEM 500 D 1 HETATM 28 C CBC HEM . . . S 3 72.973 -4.811 -14.271 1 115.06 ? CBC HEM 500 D 1 HETATM 29 C C1D HEM . . . S 3 74.405 -8.547 -15 1 101.34 ? C1D HEM 500 D 1 HETATM 30 C C2D HEM . . . S 3 74.775 -8.517 -16.395 1 105.16 ? C2D HEM 500 D 1 HETATM 31 C C3D HEM . . . S 3 75.779 -9.663 -16.569 1 105.87 ? C3D HEM 500 D 1 HETATM 32 C C4D HEM . . . S 3 75.9 -10.271 -15.263 1 104.92 ? C4D HEM 500 D 1 HETATM 33 C CMD HEM . . . S 3 74.275 -7.532 -17.476 1 106.98 ? CMD HEM 500 D 1 HETATM 34 C CAD HEM . . . S 3 76.491 -10.089 -17.875 1 120.36 ? CAD HEM 500 D 1 HETATM 35 C CBD HEM . . . S 3 77.867 -9.437 -17.921 1 118.34 ? CBD HEM 500 D 1 HETATM 36 C CGD HEM . . . S 3 78.891 -10.477 -18.279 1 117.85 ? CGD HEM 500 D 1 HETATM 37 O O1D HEM . . . S 3 80.069 -10.105 -18.499 1 127.97 ? O1D HEM 500 D 1 HETATM 38 O O2D HEM . . . S 3 78.536 -11.682 -18.29 1 107.27 ? O2D HEM 500 D 1 HETATM 39 N NA HEM . . . S 3 75.667 -11.899 -12.781 1 100.6 ? NA HEM 500 D 1 HETATM 40 N NB HEM . . . S 3 74.066 -10.809 -10.541 1 99.51 ? NB HEM 500 D 1 HETATM 41 N NC HEM . . . S 3 73.346 -8.606 -12.123 1 103.93 ? NC HEM 500 D 1 HETATM 42 N ND HEM . . . S 3 75.08 -9.585 -14.37 1 103.96 ? ND HEM 500 D 1 HETATM 43 FE FE HEM . . . S 3 74.64 -10.158 -12.416 1 94.78 ? FE HEM 500 D 1 # _model_server_stats.io_time_ms 23 _model_server_stats.parse_time_ms 36 _model_server_stats.create_model_time_ms 156 _model_server_stats.query_time_ms 1483 _model_server_stats.encode_time_ms 15 _model_server_stats.element_count 43 #