data_5CNE # _model_server_result.job_id vspRnnGFb_v0csVK_jKlpg _model_server_result.datetime_utc '2024-11-28 09:51:50' _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 5cne # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":201}' # _entry.id 5CNE # _exptl.entry_id 5CNE _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 1 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 106.5 _cell.angle_gamma 90 _cell.entry_id 5CNE _cell.length_a 63.6 _cell.length_b 28.8 _cell.length_c 35.6 _cell.Z_PDB 2 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5CNE _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1 21 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,E,F _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 93 _struct_conn.ptnr1_auth_asym_id A _struct_conn.ptnr1_auth_comp_id HIS _struct_conn.ptnr1_auth_seq_id 93 _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 HEM _struct_conn.ptnr2_label_seq_id . _struct_conn.ptnr2_auth_asym_id A _struct_conn.ptnr2_auth_comp_id HEM _struct_conn.ptnr2_auth_seq_id 201 _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 2.218 _struct_conn.pdbx_value_order ? # _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 117 n n CHA C4D HEM doub 118 n n CHA HHA HEM sing 119 n n CHB C4A HEM sing 120 n n CHB C1B HEM doub 121 n n CHB HHB HEM sing 122 n n CHC C4B HEM sing 123 n n CHC C1C HEM doub 124 n n CHC HHC HEM sing 125 n n CHD C4C HEM doub 126 n n CHD C1D HEM sing 127 n n CHD HHD HEM sing 128 n n C1A C2A HEM doub 129 n y C1A NA HEM sing 130 n y C2A C3A HEM sing 131 n y C2A CAA HEM sing 132 n n C3A C4A HEM doub 133 n y C3A CMA HEM sing 134 n n C4A NA HEM sing 135 n y CMA HMA HEM sing 136 n n CMA HMAA HEM sing 137 n n CMA HMAB HEM sing 138 n n CAA CBA HEM sing 139 n n CAA HAA HEM sing 140 n n CAA HAAA HEM sing 141 n n CBA CGA HEM sing 142 n n CBA HBA HEM sing 143 n n CBA HBAA HEM sing 144 n n CGA O1A HEM doub 145 n n CGA O2A HEM sing 146 n n C1B C2B HEM sing 147 n n C1B NB HEM sing 148 n n C2B C3B HEM doub 149 n n C2B CMB HEM sing 150 n n C3B C4B HEM sing 151 n n C3B CAB HEM sing 152 n n C4B NB HEM doub 153 n n CMB HMB HEM sing 154 n n CMB HMBA HEM sing 155 n n CMB HMBB HEM sing 156 n n CAB CBB HEM doub 157 n n CAB HAB HEM sing 158 n n CBB HBB HEM sing 159 n n CBB HBBA HEM sing 160 n n C1C C2C HEM sing 161 n y C1C NC HEM sing 162 n y C2C C3C HEM doub 163 n y C2C CMC HEM sing 164 n n C3C C4C HEM sing 165 n y C3C CAC HEM sing 166 n n C4C NC HEM sing 167 n y CMC HMC HEM sing 168 n n CMC HMCA HEM sing 169 n n CMC HMCB HEM sing 170 n n CAC CBC HEM doub 171 n n CAC HAC HEM sing 172 n n CBC HBC HEM sing 173 n n CBC HBCA HEM sing 174 n n C1D C2D HEM sing 175 n n C1D ND HEM doub 176 n n C2D C3D HEM doub 177 n n C2D CMD HEM sing 178 n n C3D C4D HEM sing 179 n n C3D CAD HEM sing 180 n n C4D ND HEM sing 181 n n CMD HMD HEM sing 182 n n CMD HMDA HEM sing 183 n n CMD HMDB HEM sing 184 n n CAD CBD HEM sing 185 n n CAD HAD HEM sing 186 n n CAD HADA HEM sing 187 n n CBD CGD HEM sing 188 n n CBD HBD HEM sing 189 n n CBD HBDA HEM sing 190 n n CGD O1D HEM doub 191 n n CGD O2D HEM sing 192 n n O2A H2A HEM sing 193 n n O2D H2D HEM sing 194 n n FE NA HEM sing 195 n n FE NB HEM sing 196 n n FE NC HEM sing 197 n n FE ND HEM sing 198 n n # _atom_sites.entry_id 5CNE _atom_sites.fract_transf_matrix[1][1] 0.015723 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.004657 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.034722 _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] 0.029296 _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 HEM A 1 201 154 HEM HEM . C 3 SO4 A 1 202 156 SO4 SO4 . D 3 SO4 A 1 203 900 SO4 SO4 . E 4 CMO A 1 204 155 CMO CMO . F 5 HOH A 1 301 24 HOH HOH . F 5 HOH A 2 302 52 HOH HOH . F 5 HOH A 3 303 81 HOH HOH . F 5 HOH A 4 304 69 HOH HOH . F 5 HOH A 5 305 14 HOH HOH . F 5 HOH A 6 306 19 HOH HOH . F 5 HOH A 7 307 47 HOH HOH . F 5 HOH A 8 308 37 HOH HOH . F 5 HOH A 9 309 64 HOH HOH . F 5 HOH A 10 310 6 HOH HOH . F 5 HOH A 11 311 50 HOH HOH . F 5 HOH A 12 312 49 HOH HOH . F 5 HOH A 13 313 43 HOH HOH . F 5 HOH A 14 314 57 HOH HOH . F 5 HOH A 15 315 12 HOH HOH . F 5 HOH A 16 316 30 HOH HOH . F 5 HOH A 17 317 4 HOH HOH . F 5 HOH A 18 318 31 HOH HOH . F 5 HOH A 19 319 32 HOH HOH . F 5 HOH A 20 320 26 HOH HOH . F 5 HOH A 21 321 48 HOH HOH . F 5 HOH A 22 322 44 HOH HOH . F 5 HOH A 23 323 65 HOH HOH . F 5 HOH A 24 324 7 HOH HOH . F 5 HOH A 25 325 34 HOH HOH . F 5 HOH A 26 326 53 HOH HOH . F 5 HOH A 27 327 45 HOH HOH . F 5 HOH A 28 328 55 HOH HOH . F 5 HOH A 29 329 61 HOH HOH . F 5 HOH A 30 330 16 HOH HOH . F 5 HOH A 31 331 5 HOH HOH . F 5 HOH A 32 332 39 HOH HOH . F 5 HOH A 33 333 1 HOH HOH . F 5 HOH A 34 334 42 HOH HOH . F 5 HOH A 35 335 13 HOH HOH . F 5 HOH A 36 336 9 HOH HOH . F 5 HOH A 37 337 10 HOH HOH . F 5 HOH A 38 338 72 HOH HOH . F 5 HOH A 39 339 63 HOH HOH . F 5 HOH A 40 340 28 HOH HOH . F 5 HOH A 41 341 15 HOH HOH . F 5 HOH A 42 342 18 HOH HOH . F 5 HOH A 43 343 23 HOH HOH . F 5 HOH A 44 344 40 HOH HOH . F 5 HOH A 45 345 29 HOH HOH . F 5 HOH A 46 346 46 HOH HOH . F 5 HOH A 47 347 17 HOH HOH . F 5 HOH A 48 348 62 HOH HOH . F 5 HOH A 49 349 25 HOH HOH . F 5 HOH A 50 350 74 HOH HOH . F 5 HOH A 51 351 11 HOH HOH . F 5 HOH A 52 352 70 HOH HOH . F 5 HOH A 53 353 59 HOH HOH . F 5 HOH A 54 354 58 HOH HOH . F 5 HOH A 55 355 36 HOH HOH . F 5 HOH A 56 356 3 HOH HOH . F 5 HOH A 57 357 41 HOH HOH . F 5 HOH A 58 358 67 HOH HOH . F 5 HOH A 59 359 27 HOH HOH . F 5 HOH A 60 360 73 HOH HOH . F 5 HOH A 61 361 35 HOH HOH . F 5 HOH A 62 362 21 HOH HOH . F 5 HOH A 63 363 2 HOH HOH . F 5 HOH A 64 364 76 HOH HOH . F 5 HOH A 65 365 66 HOH HOH . F 5 HOH A 66 366 51 HOH HOH . F 5 HOH A 67 367 20 HOH HOH . F 5 HOH A 68 368 54 HOH HOH . F 5 HOH A 69 369 77 HOH HOH . F 5 HOH A 70 370 22 HOH HOH . F 5 HOH A 71 371 80 HOH HOH . F 5 HOH A 72 372 56 HOH HOH . F 5 HOH A 73 373 33 HOH HOH . F 5 HOH A 74 374 68 HOH HOH . F 5 HOH A 75 375 79 HOH HOH . F 5 HOH A 76 376 8 HOH HOH . F 5 HOH A 77 377 60 HOH HOH . F 5 HOH A 78 378 71 HOH HOH . F 5 HOH A 79 379 78 HOH HOH . F 5 HOH A 80 380 75 HOH HOH . F 5 HOH A 81 381 38 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 . . . B 2 10.718 -32.112 13.091 1 22.36 ? CHA HEM 201 A 1 HETATM 2 C CHB HEM . . . B 2 10.773 -29.036 16.843 1 20.9 ? CHB HEM 201 A 1 HETATM 3 C CHC HEM . . . B 2 13.019 -25.723 14.098 1 19.95 ? CHC HEM 201 A 1 HETATM 4 C CHD HEM . . . B 2 13.028 -28.785 10.364 1 22.12 ? CHD HEM 201 A 1 HETATM 5 C C1A HEM . . . B 2 10.555 -31.563 14.338 1 24.26 ? C1A HEM 201 A 1 HETATM 6 C C2A HEM . . . B 2 9.946 -32.237 15.448 1 21.37 ? C2A HEM 201 A 1 HETATM 7 C C3A HEM . . . B 2 9.949 -31.394 16.492 1 21.84 ? C3A HEM 201 A 1 HETATM 8 C C4A HEM . . . B 2 10.569 -30.151 16.066 1 20 ? C4A HEM 201 A 1 HETATM 9 C CMA HEM . . . B 2 9.406 -31.643 17.916 1 22.81 ? CMA HEM 201 A 1 HETATM 10 C CAA HEM . . . B 2 9.419 -33.683 15.371 1 23.7 ? CAA HEM 201 A 1 HETATM 11 C CBA HEM . . . B 2 10.363 -34.581 16.187 1 24.45 ? CBA HEM 201 A 1 HETATM 12 C CGA HEM . . . B 2 11.766 -34.615 15.613 1 27.11 ? CGA HEM 201 A 1 HETATM 13 O O1A HEM . . . B 2 11.932 -34.967 14.415 1 27.44 ? O1A HEM 201 A 1 HETATM 14 O O2A HEM . . . B 2 12.736 -34.299 16.346 1 26.28 ? O2A HEM 201 A 1 HETATM 15 C C1B HEM . . . B 2 11.37 -27.861 16.434 1 21.02 ? C1B HEM 201 A 1 HETATM 16 C C2B HEM . . . B 2 11.521 -26.654 17.216 1 20.67 ? C2B HEM 201 A 1 HETATM 17 C C3B HEM . . . B 2 12.155 -25.745 16.45 1 20.87 ? C3B HEM 201 A 1 HETATM 18 C C4B HEM . . . B 2 12.4 -26.345 15.157 1 22.62 ? C4B HEM 201 A 1 HETATM 19 C CMB HEM . . . B 2 11.048 -26.499 18.685 1 21.24 ? CMB HEM 201 A 1 HETATM 20 C CAB HEM . . . B 2 12.559 -24.283 16.754 1 23.47 ? CAB HEM 201 A 1 HETATM 21 C CBB HEM . . . B 2 11.876 -23.497 17.59 1 25.45 ? CBB HEM 201 A 1 HETATM 22 C C1C HEM . . . B 2 13.16 -26.233 12.826 1 19.4 ? C1C HEM 201 A 1 HETATM 23 C C2C HEM . . . B 2 13.617 -25.512 11.651 1 22.47 ? C2C HEM 201 A 1 HETATM 24 C C3C HEM . . . B 2 13.62 -26.37 10.608 1 21.04 ? C3C HEM 201 A 1 HETATM 25 C C4C HEM . . . B 2 13.152 -27.645 11.107 1 19.65 ? C4C HEM 201 A 1 HETATM 26 C CMC HEM . . . B 2 14.017 -24.021 11.695 1 24.82 ? CMC HEM 201 A 1 HETATM 27 C CAC HEM . . . B 2 13.99 -26.164 9.115 1 24.02 ? CAC HEM 201 A 1 HETATM 28 C CBC HEM . . . B 2 14.287 -24.978 8.588 1 25.51 ? CBC HEM 201 A 1 HETATM 29 C C1D HEM . . . B 2 12.393 -29.944 10.742 1 22.08 ? C1D HEM 201 A 1 HETATM 30 C C2D HEM . . . B 2 12.128 -31.047 9.854 1 23.35 ? C2D HEM 201 A 1 HETATM 31 C C3D HEM . . . B 2 11.419 -32.087 10.704 1 22.61 ? C3D HEM 201 A 1 HETATM 32 C C4D HEM . . . B 2 11.307 -31.499 12.017 1 24.09 ? C4D HEM 201 A 1 HETATM 33 C CMD HEM . . . B 2 12.515 -31.16 8.368 1 22.9 ? CMD HEM 201 A 1 HETATM 34 C CAD HEM . . . B 2 10.879 -33.454 10.266 1 24.99 ? CAD HEM 201 A 1 HETATM 35 C CBD HEM . . . B 2 9.522 -33.113 9.675 1 27.78 ? CBD HEM 201 A 1 HETATM 36 C CGD HEM . . . B 2 8.784 -34.338 9.202 1 33.16 ? CGD HEM 201 A 1 HETATM 37 O O1D HEM . . . B 2 7.788 -34.73 9.858 1 37.82 ? O1D HEM 201 A 1 HETATM 38 O O2D HEM . . . B 2 9.185 -34.907 8.165 1 38.14 ? O2D HEM 201 A 1 HETATM 39 N NA HEM . . . B 2 10.936 -30.301 14.75 1 20.29 ? NA HEM 201 A 1 HETATM 40 N NB HEM . . . B 2 11.91 -27.634 15.18 1 20.44 ? NB HEM 201 A 1 HETATM 41 N NC HEM . . . B 2 12.89 -27.526 12.452 1 21.82 ? NC HEM 201 A 1 HETATM 42 N ND HEM . . . B 2 11.896 -30.239 12.001 1 23.17 ? ND HEM 201 A 1 HETATM 43 FE FE HEM . . . B 2 12.086 -29.011 13.676 1 25.01 ? FE HEM 201 A 1 # _model_server_stats.io_time_ms 7 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 303 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 43 #