data_1BE3 # _model_server_result.job_id gHslEeeHxh9xiWjzlAPJyQ _model_server_result.datetime_utc '2024-11-23 06:01:43' _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 1be3 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"L","auth_seq_id":380}' # _entry.id 1BE3 # _exptl.entry_id 1BE3 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 616.487 _entity.id 12 _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 120 _cell.entry_id 1BE3 _cell.length_a 211.2 _cell.length_b 211.2 _cell.length_c 339.28 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1BE3 _symmetry.cell_setting ? _symmetry.Int_Tables_number 179 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 65 2 2' # 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 undecameric 11 author_and_software_defined_assembly 1 PISA 22-meric 22 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,B,C,D,E,F,G,H,I,J,K,L,M,N,O 1 1 A,B,C,D,E,F,G,H,I,J,K,L,M,N,O 2 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 -1 105.6 182.904565 56.546667 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 12 L N N ? 12 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 disulf ? disulf1 E SG CYS 144 E CYS 144 1_555 E SG CYS 160 E CYS 160 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.01 ? disulf ? disulf2 H SG CYS 24 H CYS 24 1_555 H SG CYS 68 H CYS 68 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.045 ? disulf ? disulf3 H SG CYS 40 H CYS 40 1_555 H SG CYS 54 H CYS 54 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? covale ? covale1 D SG CYS 37 D CYS 37 1_555 N CAB HEC . D HEC 242 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.844 ? covale ? covale2 D SG CYS 40 D CYS 40 1_555 N CAC HEC . D HEC 242 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.859 ? metalc ? metalc1 C NE2 HIS 83 C HIS 83 1_555 L FE HEM . C HEM 380 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.084 ? metalc ? metalc2 C NE2 HIS 97 C HIS 97 1_555 M FE HEM . C HEM 381 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.076 ? metalc ? metalc3 C NE2 HIS 182 C HIS 182 1_555 L FE HEM . C HEM 380 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.061 ? metalc ? metalc4 C NE2 HIS 196 C HIS 196 1_555 M FE HEM . C HEM 381 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.054 ? metalc ? metalc5 D NE2 HIS 41 D HIS 41 1_555 N FE HEC . D HEC 242 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? metalc ? metalc6 D SD MET 160 D MET 160 1_555 N FE HEC . D HEC 242 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.371 ? metalc ? metalc7 E SG CYS 139 E CYS 139 1_555 O FE1 FES . E FES 197 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.21 ? metalc ? metalc8 E ND1 HIS 141 E HIS 141 1_555 O FE2 FES . E FES 197 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.186 ? metalc ? metalc9 E SG CYS 158 E CYS 158 1_555 O FE1 FES . E FES 197 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.25 ? metalc ? metalc10 E ND1 HIS 161 E HIS 161 1_555 O FE2 FES . E FES 197 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.17 ? # _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 217 n n CHA C4D HEM doub 218 n n CHA HHA HEM sing 219 n n CHB C4A HEM sing 220 n n CHB C1B HEM doub 221 n n CHB HHB HEM sing 222 n n CHC C4B HEM sing 223 n n CHC C1C HEM doub 224 n n CHC HHC HEM sing 225 n n CHD C4C HEM doub 226 n n CHD C1D HEM sing 227 n n CHD HHD HEM sing 228 n n C1A C2A HEM doub 229 n y C1A NA HEM sing 230 n y C2A C3A HEM sing 231 n y C2A CAA HEM sing 232 n n C3A C4A HEM doub 233 n y C3A CMA HEM sing 234 n n C4A NA HEM sing 235 n y CMA HMA HEM sing 236 n n CMA HMAA HEM sing 237 n n CMA HMAB HEM sing 238 n n CAA CBA HEM sing 239 n n CAA HAA HEM sing 240 n n CAA HAAA HEM sing 241 n n CBA CGA HEM sing 242 n n CBA HBA HEM sing 243 n n CBA HBAA HEM sing 244 n n CGA O1A HEM doub 245 n n CGA O2A HEM sing 246 n n C1B C2B HEM sing 247 n n C1B NB HEM sing 248 n n C2B C3B HEM doub 249 n n C2B CMB HEM sing 250 n n C3B C4B HEM sing 251 n n C3B CAB HEM sing 252 n n C4B NB HEM doub 253 n n CMB HMB HEM sing 254 n n CMB HMBA HEM sing 255 n n CMB HMBB HEM sing 256 n n CAB CBB HEM doub 257 n n CAB HAB HEM sing 258 n n CBB HBB HEM sing 259 n n CBB HBBA HEM sing 260 n n C1C C2C HEM sing 261 n y C1C NC HEM sing 262 n y C2C C3C HEM doub 263 n y C2C CMC HEM sing 264 n n C3C C4C HEM sing 265 n y C3C CAC HEM sing 266 n n C4C NC HEM sing 267 n y CMC HMC HEM sing 268 n n CMC HMCA HEM sing 269 n n CMC HMCB HEM sing 270 n n CAC CBC HEM doub 271 n n CAC HAC HEM sing 272 n n CBC HBC HEM sing 273 n n CBC HBCA HEM sing 274 n n C1D C2D HEM sing 275 n n C1D ND HEM doub 276 n n C2D C3D HEM doub 277 n n C2D CMD HEM sing 278 n n C3D C4D HEM sing 279 n n C3D CAD HEM sing 280 n n C4D ND HEM sing 281 n n CMD HMD HEM sing 282 n n CMD HMDA HEM sing 283 n n CMD HMDB HEM sing 284 n n CAD CBD HEM sing 285 n n CAD HAD HEM sing 286 n n CAD HADA HEM sing 287 n n CBD CGD HEM sing 288 n n CBD HBD HEM sing 289 n n CBD HBDA HEM sing 290 n n CGD O1D HEM doub 291 n n CGD O2D HEM sing 292 n n O2A H2A HEM sing 293 n n O2D H2D HEM sing 294 n n FE NA HEM sing 295 n n FE NB HEM sing 296 n n FE NC HEM sing 297 n n FE ND HEM sing 298 n n # _atom_sites.entry_id 1BE3 _atom_sites.fract_transf_matrix[1][1] 0.004735 _atom_sites.fract_transf_matrix[1][2] 0.002734 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.005467 _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] 0.002947 _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 L 12 HEM C 1 380 1 HEM HEM . M 12 HEM C 1 381 2 HEM HEM . N 13 HEC D 1 242 3 HEC HEC . O 14 FES E 1 197 4 FES FES . # 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 . . . L 12 56.415 101.635 32.851 1 14.39 ? CHA HEM 380 C 1 HETATM 2 C CHB HEM . . . L 12 53.402 104.777 34.947 1 11.54 ? CHB HEM 380 C 1 HETATM 3 C CHC HEM . . . L 12 49.898 103.309 31.983 1 9.06 ? CHC HEM 380 C 1 HETATM 4 C CHD HEM . . . L 12 52.881 100.097 29.974 1 7.44 ? CHD HEM 380 C 1 HETATM 5 C C1A HEM . . . L 12 55.937 102.611 33.707 1 12.51 ? C1A HEM 380 C 1 HETATM 6 C C2A HEM . . . L 12 56.631 103.311 34.766 1 11 ? C2A HEM 380 C 1 HETATM 7 C C3A HEM . . . L 12 55.784 104.172 35.34 1 4.13 ? C3A HEM 380 C 1 HETATM 8 C C4A HEM . . . L 12 54.514 104.032 34.646 1 9.65 ? C4A HEM 380 C 1 HETATM 9 C CMA HEM . . . L 12 55.945 105.181 36.509 1 3.27 ? CMA HEM 380 C 1 HETATM 10 C CAA HEM . . . L 12 58.107 103.02 35.089 1 13.37 ? CAA HEM 380 C 1 HETATM 11 C CBA HEM . . . L 12 59.114 103.319 33.977 1 18.62 ? CBA HEM 380 C 1 HETATM 12 C CGA HEM . . . L 12 60.482 103.701 34.501 1 18.54 ? CGA HEM 380 C 1 HETATM 13 O O1A HEM . . . L 12 60.514 104.584 35.394 1 21.85 ? O1A HEM 380 C 1 HETATM 14 O O2A HEM . . . L 12 61.421 103.062 33.985 1 20.37 ? O2A HEM 380 C 1 HETATM 15 C C1B HEM . . . L 12 52.175 104.578 34.346 1 10.6 ? C1B HEM 380 C 1 HETATM 16 C C2B HEM . . . L 12 50.925 105.113 34.848 1 6.84 ? C2B HEM 380 C 1 HETATM 17 C C3B HEM . . . L 12 49.971 104.696 34.028 1 7.08 ? C3B HEM 380 C 1 HETATM 18 C C4B HEM . . . L 12 50.594 103.917 32.991 1 5.87 ? C4B HEM 380 C 1 HETATM 19 C CMB HEM . . . L 12 50.787 105.985 36.107 1 4.13 ? CMB HEM 380 C 1 HETATM 20 C CAB HEM . . . L 12 48.452 104.977 34.129 1 12.11 ? CAB HEM 380 C 1 HETATM 21 C CBB HEM . . . L 12 47.698 104.926 33.03 1 14.26 ? CBB HEM 380 C 1 HETATM 22 C C1C HEM . . . L 12 50.421 102.314 31.19 1 11.42 ? C1C HEM 380 C 1 HETATM 23 C C2C HEM . . . L 12 49.692 101.664 30.105 1 11.05 ? C2C HEM 380 C 1 HETATM 24 C C3C HEM . . . L 12 50.521 100.789 29.551 1 12.57 ? C3C HEM 380 C 1 HETATM 25 C C4C HEM . . . L 12 51.784 100.863 30.268 1 9.17 ? C4C HEM 380 C 1 HETATM 26 C CMC HEM . . . L 12 48.245 101.948 29.681 1 7.31 ? CMC HEM 380 C 1 HETATM 27 C CAC HEM . . . L 12 50.264 99.832 28.371 1 15.92 ? CAC HEM 380 C 1 HETATM 28 C CBC HEM . . . L 12 49.025 99.511 28.006 1 19.37 ? CBC HEM 380 C 1 HETATM 29 C C1D HEM . . . L 12 54.106 100.194 30.576 1 7.16 ? C1D HEM 380 C 1 HETATM 30 C C2D HEM . . . L 12 55.243 99.345 30.322 1 4.21 ? C2D HEM 380 C 1 HETATM 31 C C3D HEM . . . L 12 56.248 99.769 31.098 1 8.42 ? C3D HEM 380 C 1 HETATM 32 C C4D HEM . . . L 12 55.746 100.876 31.889 1 13.34 ? C4D HEM 380 C 1 HETATM 33 C CMD HEM . . . L 12 55.264 98.205 29.299 1 7.13 ? CMD HEM 380 C 1 HETATM 34 C CAD HEM . . . L 12 57.673 99.184 31.194 1 6.26 ? CAD HEM 380 C 1 HETATM 35 C CBD HEM . . . L 12 58.876 99.773 30.465 1 4.49 ? CBD HEM 380 C 1 HETATM 36 C CGD HEM . . . L 12 59.321 101.077 31.098 1 2.99 ? CGD HEM 380 C 1 HETATM 37 O O1D HEM . . . L 12 59.081 102.134 30.445 1 10.57 ? O1D HEM 380 C 1 HETATM 38 O O2D HEM . . . L 12 59.869 101.005 32.232 1 3.93 ? O2D HEM 380 C 1 HETATM 39 N NA HEM . . . L 12 54.629 103.069 33.655 1 10.02 ? NA HEM 380 C 1 HETATM 40 N NB HEM . . . L 12 51.955 103.842 33.191 1 11.4 ? NB HEM 380 C 1 HETATM 41 N NC HEM . . . L 12 51.704 101.803 31.271 1 9.38 ? NC HEM 380 C 1 HETATM 42 N ND HEM . . . L 12 54.425 101.123 31.55 1 9.2 ? ND HEM 380 C 1 HETATM 43 FE FE HEM . . . L 12 53.27 102.527 32.331 1 8.39 ? FE HEM 380 C 1 # _model_server_stats.io_time_ms 14 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 35 _model_server_stats.query_time_ms 262 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 43 #