data_4K9T # _model_server_result.job_id 6bz8g_qSgvLix50Z72jX-Q _model_server_result.datetime_utc '2024-11-28 07:04:38' _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 4k9t # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":601}' # _entry.id 4K9T # _exptl.entry_id 4K9T _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 4K9T _cell.length_a 77.5 _cell.length_b 100.81 _cell.length_c 130.13 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4K9T _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 monomeric _pdbx_struct_assembly.oligomeric_count 1 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E _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 # 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 ? ? ? ? ? ? ? ? ? ? ? ? 2.122 ? metalc ? metalc2 B FE HEM . A HEM 601 1_555 C N28 1RD . A 1RD 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.165 ? # _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 201 n n CHA C4D HEM doub 202 n n CHA HHA HEM sing 203 n n CHB C4A HEM sing 204 n n CHB C1B HEM doub 205 n n CHB HHB HEM sing 206 n n CHC C4B HEM sing 207 n n CHC C1C HEM doub 208 n n CHC HHC HEM sing 209 n n CHD C4C HEM doub 210 n n CHD C1D HEM sing 211 n n CHD HHD HEM sing 212 n n C1A C2A HEM doub 213 n y C1A NA HEM sing 214 n y C2A C3A HEM sing 215 n y C2A CAA HEM sing 216 n n C3A C4A HEM doub 217 n y C3A CMA HEM sing 218 n n C4A NA HEM sing 219 n y CMA HMA HEM sing 220 n n CMA HMAA HEM sing 221 n n CMA HMAB HEM sing 222 n n CAA CBA HEM sing 223 n n CAA HAA HEM sing 224 n n CAA HAAA HEM sing 225 n n CBA CGA HEM sing 226 n n CBA HBA HEM sing 227 n n CBA HBAA HEM sing 228 n n CGA O1A HEM doub 229 n n CGA O2A HEM sing 230 n n C1B C2B HEM sing 231 n n C1B NB HEM sing 232 n n C2B C3B HEM doub 233 n n C2B CMB HEM sing 234 n n C3B C4B HEM sing 235 n n C3B CAB HEM sing 236 n n C4B NB HEM doub 237 n n CMB HMB HEM sing 238 n n CMB HMBA HEM sing 239 n n CMB HMBB HEM sing 240 n n CAB CBB HEM doub 241 n n CAB HAB HEM sing 242 n n CBB HBB HEM sing 243 n n CBB HBBA HEM sing 244 n n C1C C2C HEM sing 245 n y C1C NC HEM sing 246 n y C2C C3C HEM doub 247 n y C2C CMC HEM sing 248 n n C3C C4C HEM sing 249 n y C3C CAC HEM sing 250 n n C4C NC HEM sing 251 n y CMC HMC HEM sing 252 n n CMC HMCA HEM sing 253 n n CMC HMCB HEM sing 254 n n CAC CBC HEM doub 255 n n CAC HAC HEM sing 256 n n CBC HBC HEM sing 257 n n CBC HBCA HEM sing 258 n n C1D C2D HEM sing 259 n n C1D ND HEM doub 260 n n C2D C3D HEM doub 261 n n C2D CMD HEM sing 262 n n C3D C4D HEM sing 263 n n C3D CAD HEM sing 264 n n C4D ND HEM sing 265 n n CMD HMD HEM sing 266 n n CMD HMDA HEM sing 267 n n CMD HMDB HEM sing 268 n n CAD CBD HEM sing 269 n n CAD HAD HEM sing 270 n n CAD HADA HEM sing 271 n n CBD CGD HEM sing 272 n n CBD HBD HEM sing 273 n n CBD HBDA HEM sing 274 n n CGD O1D HEM doub 275 n n CGD O2D HEM sing 276 n n O2A H2A HEM sing 277 n n O2D H2D HEM sing 278 n n FE NA HEM sing 279 n n FE NB HEM sing 280 n n FE NC HEM sing 281 n n FE ND HEM sing 282 n n # _atom_sites.entry_id 4K9T _atom_sites.fract_transf_matrix[1][1] 0.012903 _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] 0.00992 _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] 0.007685 _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 1RD A 1 602 600 1RD 4AW . D 3 1RD A 1 603 700 1RD 4AW . E 4 HOH A 1 701 1 HOH HOH . E 4 HOH A 2 702 2 HOH HOH . E 4 HOH A 3 703 3 HOH HOH . E 4 HOH A 4 704 4 HOH HOH . E 4 HOH A 5 705 5 HOH HOH . E 4 HOH A 6 706 6 HOH HOH . E 4 HOH A 7 707 7 HOH HOH . E 4 HOH A 8 708 8 HOH HOH . E 4 HOH A 9 709 9 HOH HOH . E 4 HOH A 10 710 10 HOH HOH . E 4 HOH A 11 711 11 HOH HOH . E 4 HOH A 12 712 12 HOH HOH . E 4 HOH A 13 713 13 HOH HOH . E 4 HOH A 14 714 14 HOH HOH . E 4 HOH A 15 715 15 HOH HOH . E 4 HOH A 16 716 16 HOH HOH . E 4 HOH A 17 717 17 HOH HOH . E 4 HOH A 18 718 18 HOH HOH . E 4 HOH A 19 719 19 HOH HOH . E 4 HOH A 20 720 20 HOH HOH . E 4 HOH A 21 721 21 HOH HOH . E 4 HOH A 22 722 22 HOH HOH . E 4 HOH A 23 723 23 HOH HOH . E 4 HOH A 24 724 24 HOH HOH . E 4 HOH A 25 725 25 HOH HOH . E 4 HOH A 26 726 26 HOH HOH . E 4 HOH A 27 727 27 HOH HOH . E 4 HOH A 28 728 28 HOH HOH . E 4 HOH A 29 729 29 HOH HOH . E 4 HOH A 30 730 30 HOH HOH . E 4 HOH A 31 731 31 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 15.226 19.619 -10.194 1 48.82 ? CHA HEM 601 A 1 HETATM 2 C CHB HEM . . . B 2 15.901 22.493 -14.281 1 50.42 ? CHB HEM 601 A 1 HETATM 3 C CHC HEM . . . B 2 16.299 26.435 -11.419 1 53.29 ? CHC HEM 601 A 1 HETATM 4 C CHD HEM . . . B 2 15.391 23.58 -7.402 1 49.09 ? CHD HEM 601 A 1 HETATM 5 C C1A HEM . . . B 2 15.38 20.121 -11.564 1 49.58 ? C1A HEM 601 A 1 HETATM 6 C C2A HEM . . . B 2 15.23 19.2 -12.736 1 46.57 ? C2A HEM 601 A 1 HETATM 7 C C3A HEM . . . B 2 15.423 20.042 -13.921 1 49.88 ? C3A HEM 601 A 1 HETATM 8 C C4A HEM . . . B 2 15.668 21.4 -13.359 1 50.37 ? C4A HEM 601 A 1 HETATM 9 C CMA HEM . . . B 2 15.352 19.636 -15.385 1 48.56 ? CMA HEM 601 A 1 HETATM 10 C CAA HEM . . . B 2 14.915 17.722 -12.742 1 47.86 ? CAA HEM 601 A 1 HETATM 11 C CBA HEM . . . B 2 13.426 17.419 -12.582 1 45.99 ? CBA HEM 601 A 1 HETATM 12 C CGA HEM . . . B 2 13.117 16.032 -13.09 1 44.52 ? CGA HEM 601 A 1 HETATM 13 O O1A HEM . . . B 2 12.054 15.815 -13.704 1 43.52 ? O1A HEM 601 A 1 HETATM 14 O O2A HEM . . . B 2 13.935 15.121 -12.882 1 48.54 ? O2A HEM 601 A 1 HETATM 15 C C1B HEM . . . B 2 16.084 23.862 -13.827 1 53.59 ? C1B HEM 601 A 1 HETATM 16 C C2B HEM . . . B 2 16.466 24.898 -14.819 1 55.98 ? C2B HEM 601 A 1 HETATM 17 C C3B HEM . . . B 2 16.585 26.067 -13.939 1 56.02 ? C3B HEM 601 A 1 HETATM 18 C C4B HEM . . . B 2 16.257 25.553 -12.596 1 52.07 ? C4B HEM 601 A 1 HETATM 19 C CMB HEM . . . B 2 16.67 24.734 -16.308 1 53.21 ? CMB HEM 601 A 1 HETATM 20 C CAB HEM . . . B 2 16.971 27.462 -14.311 1 59.97 ? CAB HEM 601 A 1 HETATM 21 C CBB HEM . . . B 2 16.297 28.123 -15.234 1 58.05 ? CBB HEM 601 A 1 HETATM 22 C C1C HEM . . . B 2 15.983 25.972 -10.068 1 49.16 ? C1C HEM 601 A 1 HETATM 23 C C2C HEM . . . B 2 15.74 26.933 -8.959 1 50.52 ? C2C HEM 601 A 1 HETATM 24 C C3C HEM . . . B 2 15.486 26.051 -7.804 1 50.88 ? C3C HEM 601 A 1 HETATM 25 C C4C HEM . . . B 2 15.584 24.679 -8.309 1 49.23 ? C4C HEM 601 A 1 HETATM 26 C CMC HEM . . . B 2 15.731 28.436 -9.015 1 50.2 ? CMC HEM 601 A 1 HETATM 27 C CAC HEM . . . B 2 15.119 26.397 -6.397 1 53.64 ? CAC HEM 601 A 1 HETATM 28 C CBC HEM . . . B 2 15.598 27.449 -5.759 1 53.95 ? CBC HEM 601 A 1 HETATM 29 C C1D HEM . . . B 2 15.28 22.213 -7.855 1 49.14 ? C1D HEM 601 A 1 HETATM 30 C C2D HEM . . . B 2 15.183 21.172 -6.818 1 49.86 ? C2D HEM 601 A 1 HETATM 31 C C3D HEM . . . B 2 15.128 19.967 -7.629 1 49.26 ? C3D HEM 601 A 1 HETATM 32 C C4D HEM . . . B 2 15.192 20.5 -9.028 1 49.8 ? C4D HEM 601 A 1 HETATM 33 C CMD HEM . . . B 2 15.16 21.35 -5.325 1 51.8 ? CMD HEM 601 A 1 HETATM 34 C CAD HEM . . . B 2 14.984 18.561 -7.138 1 49.09 ? CAD HEM 601 A 1 HETATM 35 C CBD HEM . . . B 2 13.465 18.393 -7.117 1 48.12 ? CBD HEM 601 A 1 HETATM 36 C CGD HEM . . . B 2 13.027 17.228 -6.233 1 51.5 ? CGD HEM 601 A 1 HETATM 37 O O1D HEM . . . B 2 13.725 16.193 -6.223 1 52.04 ? O1D HEM 601 A 1 HETATM 38 O O2D HEM . . . B 2 11.986 17.315 -5.535 1 49.49 ? O2D HEM 601 A 1 HETATM 39 N NA HEM . . . B 2 15.777 21.498 -11.896 1 49.58 ? NA HEM 601 A 1 HETATM 40 N NB HEM . . . B 2 16.005 24.222 -12.527 1 49.37 ? NB HEM 601 A 1 HETATM 41 N NC HEM . . . B 2 16.023 24.558 -9.693 1 48.71 ? NC HEM 601 A 1 HETATM 42 N ND HEM . . . B 2 15.32 21.837 -9.153 1 48.13 ? ND HEM 601 A 1 HETATM 43 FE FE HEM . . . B 2 15.369 23.117 -10.836 1 50.49 ? FE HEM 601 A 1 # _model_server_stats.io_time_ms 56 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 8 _model_server_stats.query_time_ms 408 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 43 #