data_6BDI # _model_server_result.job_id lb2J1VJ9CGsVFxIa6vHLJw _model_server_result.datetime_utc '2024-11-14 19:15:03' _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 6bdi # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":601}' # _entry.id 6BDI # _exptl.entry_id 6BDI _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 90 _cell.angle_gamma 90 _cell.entry_id 6BDI _cell.length_a 77.61 _cell.length_b 102.43 _cell.length_c 127.76 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6BDI _symmetry.cell_setting ? _symmetry.Int_Tables_number 23 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'I 2 2 2' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _pdbx_struct_assembly.details author_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 1,2 # 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' 3_455 -x-1,y,-z -1 0 0 0 1 0 0 0 -1 -77.61 0 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 # 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 metalc ? metalc1 A SG CYS 422 A CYS 442 1_555 B FE HEM . A HEM 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.468 ? metalc ? metalc2 B FE HEM . A HEM 601 1_555 C N36 DEJ . A DEJ 602 1_555 ? ? ? ? A ? ? ? ? ? ? ? 2.271 ? metalc ? metalc3 B FE HEM . A HEM 601 1_555 C N36 DEJ . A DEJ 602 1_555 ? ? ? ? B ? ? ? ? ? ? ? 2.303 ? # _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 207 n n CHA C4D HEM doub 208 n n CHA HHA HEM sing 209 n n CHB C4A HEM sing 210 n n CHB C1B HEM doub 211 n n CHB HHB HEM sing 212 n n CHC C4B HEM sing 213 n n CHC C1C HEM doub 214 n n CHC HHC HEM sing 215 n n CHD C4C HEM doub 216 n n CHD C1D HEM sing 217 n n CHD HHD HEM sing 218 n n C1A C2A HEM doub 219 n y C1A NA HEM sing 220 n y C2A C3A HEM sing 221 n y C2A CAA HEM sing 222 n n C3A C4A HEM doub 223 n y C3A CMA HEM sing 224 n n C4A NA HEM sing 225 n y CMA HMA HEM sing 226 n n CMA HMAA HEM sing 227 n n CMA HMAB HEM sing 228 n n CAA CBA HEM sing 229 n n CAA HAA HEM sing 230 n n CAA HAAA HEM sing 231 n n CBA CGA HEM sing 232 n n CBA HBA HEM sing 233 n n CBA HBAA HEM sing 234 n n CGA O1A HEM doub 235 n n CGA O2A HEM sing 236 n n C1B C2B HEM sing 237 n n C1B NB HEM sing 238 n n C2B C3B HEM doub 239 n n C2B CMB HEM sing 240 n n C3B C4B HEM sing 241 n n C3B CAB HEM sing 242 n n C4B NB HEM doub 243 n n CMB HMB HEM sing 244 n n CMB HMBA HEM sing 245 n n CMB HMBB HEM sing 246 n n CAB CBB HEM doub 247 n n CAB HAB HEM sing 248 n n CBB HBB HEM sing 249 n n CBB HBBA HEM sing 250 n n C1C C2C HEM sing 251 n y C1C NC HEM sing 252 n y C2C C3C HEM doub 253 n y C2C CMC HEM sing 254 n n C3C C4C HEM sing 255 n y C3C CAC HEM sing 256 n n C4C NC HEM sing 257 n y CMC HMC HEM sing 258 n n CMC HMCA HEM sing 259 n n CMC HMCB HEM sing 260 n n CAC CBC HEM doub 261 n n CAC HAC HEM sing 262 n n CBC HBC HEM sing 263 n n CBC HBCA HEM sing 264 n n C1D C2D HEM sing 265 n n C1D ND HEM doub 266 n n C2D C3D HEM doub 267 n n C2D CMD HEM sing 268 n n C3D C4D HEM sing 269 n n C3D CAD HEM sing 270 n n C4D ND HEM sing 271 n n CMD HMD HEM sing 272 n n CMD HMDA HEM sing 273 n n CMD HMDB HEM sing 274 n n CAD CBD HEM sing 275 n n CAD HAD HEM sing 276 n n CAD HADA HEM sing 277 n n CBD CGD HEM sing 278 n n CBD HBD HEM sing 279 n n CBD HBDA HEM sing 280 n n CGD O1D HEM doub 281 n n CGD O2D HEM sing 282 n n O2A H2A HEM sing 283 n n O2D H2D HEM sing 284 n n FE NA HEM sing 285 n n FE NB HEM sing 286 n n FE NC HEM sing 287 n n FE ND HEM sing 288 n n # _atom_sites.entry_id 6BDI _atom_sites.fract_transf_matrix[1][1] 0.012885 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.009763 _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] 0.007827 _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 1 601 500 HEM HEM . C 3 DEJ A 1 602 700 DEJ 71G . D 4 HOH A 1 701 1 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 -15.531 -19.923 -9.664 1 69.93 ? CHA HEM 601 A 1 HETATM 2 C CHB HEM . . . B 2 -16.385 -22.591 -13.617 1 67.88 ? CHB HEM 601 A 1 HETATM 3 C CHC HEM . . . B 2 -16.834 -26.362 -10.589 1 72.65 ? CHC HEM 601 A 1 HETATM 4 C CHD HEM . . . B 2 -15.742 -23.69 -6.686 1 73.87 ? CHD HEM 601 A 1 HETATM 5 C C1A HEM . . . B 2 -15.729 -20.317 -10.95 1 65.5 ? C1A HEM 601 A 1 HETATM 6 C C2A HEM . . . B 2 -15.656 -19.411 -12.064 1 76.75 ? C2A HEM 601 A 1 HETATM 7 C C3A HEM . . . B 2 -15.878 -20.138 -13.167 1 70.37 ? C3A HEM 601 A 1 HETATM 8 C C4A HEM . . . B 2 -16.109 -21.522 -12.797 1 79.42 ? C4A HEM 601 A 1 HETATM 9 C CMA HEM . . . B 2 -15.88 -19.549 -14.588 1 62.45 ? CMA HEM 601 A 1 HETATM 10 C CAA HEM . . . B 2 -15.316 -17.897 -11.946 1 56.14 ? CAA HEM 601 A 1 HETATM 11 C CBA HEM . . . B 2 -13.786 -17.794 -12.131 1 58.83 ? CBA HEM 601 A 1 HETATM 12 C CGA HEM . . . B 2 -13.411 -16.38 -12.522 1 77.43 ? CGA HEM 601 A 1 HETATM 13 O O1A HEM . . . B 2 -12.485 -16.184 -13.374 1 75.75 ? O1A HEM 601 A 1 HETATM 14 O O2A HEM . . . B 2 -14.076 -15.425 -12.022 1 70.87 ? O2A HEM 601 A 1 HETATM 15 C C1B HEM . . . B 2 -16.556 -23.876 -13.129 1 75.75 ? C1B HEM 601 A 1 HETATM 16 C C2B HEM . . . B 2 -16.796 -25.091 -13.91 1 77.63 ? C2B HEM 601 A 1 HETATM 17 C C3B HEM . . . B 2 -16.924 -26.111 -13.066 1 83.19 ? C3B HEM 601 A 1 HETATM 18 C C4B HEM . . . B 2 -16.761 -25.594 -11.725 1 79.38 ? C4B HEM 601 A 1 HETATM 19 C CMB HEM . . . B 2 -16.869 -25.133 -15.454 1 68.29 ? CMB HEM 601 A 1 HETATM 20 C CAB HEM . . . B 2 -17.185 -27.609 -13.349 1 81.61 ? CAB HEM 601 A 1 HETATM 21 C CBB HEM . . . B 2 -17.293 -28.203 -14.54 1 73.99 ? CBB HEM 601 A 1 HETATM 22 C C1C HEM . . . B 2 -16.504 -25.974 -9.317 1 78.22 ? C1C HEM 601 A 1 HETATM 23 C C2C HEM . . . B 2 -16.306 -26.889 -8.199 1 84.53 ? C2C HEM 601 A 1 HETATM 24 C C3C HEM . . . B 2 -16.001 -26.19 -7.126 1 73.78 ? C3C HEM 601 A 1 HETATM 25 C C4C HEM . . . B 2 -15.998 -24.78 -7.502 1 70.39 ? C4C HEM 601 A 1 HETATM 26 C CMC HEM . . . B 2 -16.404 -28.425 -8.209 1 67.78 ? CMC HEM 601 A 1 HETATM 27 C CAC HEM . . . B 2 -15.742 -26.917 -5.803 1 66.66 ? CAC HEM 601 A 1 HETATM 28 C CBC HEM . . . B 2 -15.295 -26.316 -4.711 1 84.85 ? CBC HEM 601 A 1 HETATM 29 C C1D HEM . . . B 2 -15.608 -22.405 -7.152 1 69.72 ? C1D HEM 601 A 1 HETATM 30 C C2D HEM . . . B 2 -15.341 -21.228 -6.364 1 71.07 ? C2D HEM 601 A 1 HETATM 31 C C3D HEM . . . B 2 -15.282 -20.164 -7.198 1 75.27 ? C3D HEM 601 A 1 HETATM 32 C C4D HEM . . . B 2 -15.503 -20.675 -8.539 1 72.09 ? C4D HEM 601 A 1 HETATM 33 C CMD HEM . . . B 2 -15.194 -21.233 -4.82 1 62.47 ? CMD HEM 601 A 1 HETATM 34 C CAD HEM . . . B 2 -15.015 -18.674 -6.844 1 66.24 ? CAD HEM 601 A 1 HETATM 35 C CBD HEM . . . B 2 -13.542 -18.512 -6.449 1 72.09 ? CBD HEM 601 A 1 HETATM 36 C CGD HEM . . . B 2 -13.225 -17.115 -5.955 1 89.88 ? CGD HEM 601 A 1 HETATM 37 O O1D HEM . . . B 2 -12.242 -16.911 -5.194 1 86.78 ? O1D HEM 601 A 1 HETATM 38 O O2D HEM . . . B 2 -13.982 -16.199 -6.33 1 94.81 ? O2D HEM 601 A 1 HETATM 39 N NA HEM . . . B 2 -16.02 -21.574 -11.414 1 75.76 ? NA HEM 601 A 1 HETATM 40 N NB HEM . . . B 2 -16.535 -24.231 -11.809 1 75.37 ? NB HEM 601 A 1 HETATM 41 N NC HEM . . . B 2 -16.313 -24.699 -8.837 1 67.9 ? NC HEM 601 A 1 HETATM 42 N ND HEM . . . B 2 -15.674 -22.02 -8.483 1 64.37 ? ND HEM 601 A 1 HETATM 43 FE FE HEM . . . B 2 -16.122 -23.1 -10.186 1 68.34 ? FE HEM 601 A 1 # _model_server_stats.io_time_ms 16 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 338 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 43 #