data_4BY0 # _model_server_result.job_id BP4pX1vH9L_QFrVNTnOH-g _model_server_result.datetime_utc '2024-10-19 11:37:40' _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 4by0 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":1450}' # _entry.id 4BY0 # _exptl.entry_id 4BY0 _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 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 4BY0 _cell.length_a 124.167 _cell.length_b 124.167 _cell.length_c 119.839 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4BY0 _symmetry.cell_setting ? _symmetry.Int_Tables_number 154 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 32 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 PISA monomeric 1 author_and_software_defined_assembly 1 PISA monomeric 1 author_and_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,C,D,G 1 1 B,E,F,H 2 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 ? 2 C N N ? 2 E 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 metalc ? metalc1 A SG CYS 402 A CYS 422 1_555 C FE HEM . A HEM 1450 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? metalc ? metalc2 C FE HEM . A HEM 1450 1_555 D N1 5PS . A 5PS 1460 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.989 ? metalc ? metalc3 B SG CYS 402 B CYS 422 1_555 E FE HEM . B HEM 1450 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.113 ? metalc ? metalc4 E FE HEM . B HEM 1450 1_555 F N1 5PS . B 5PS 1460 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.882 ? # _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 192 n n CHA C4D HEM doub 193 n n CHA HHA HEM sing 194 n n CHB C4A HEM sing 195 n n CHB C1B HEM doub 196 n n CHB HHB HEM sing 197 n n CHC C4B HEM sing 198 n n CHC C1C HEM doub 199 n n CHC HHC HEM sing 200 n n CHD C4C HEM doub 201 n n CHD C1D HEM sing 202 n n CHD HHD HEM sing 203 n n C1A C2A HEM doub 204 n y C1A NA HEM sing 205 n y C2A C3A HEM sing 206 n y C2A CAA HEM sing 207 n n C3A C4A HEM doub 208 n y C3A CMA HEM sing 209 n n C4A NA HEM sing 210 n y CMA HMA HEM sing 211 n n CMA HMAA HEM sing 212 n n CMA HMAB HEM sing 213 n n CAA CBA HEM sing 214 n n CAA HAA HEM sing 215 n n CAA HAAA HEM sing 216 n n CBA CGA HEM sing 217 n n CBA HBA HEM sing 218 n n CBA HBAA HEM sing 219 n n CGA O1A HEM doub 220 n n CGA O2A HEM sing 221 n n C1B C2B HEM sing 222 n n C1B NB HEM sing 223 n n C2B C3B HEM doub 224 n n C2B CMB HEM sing 225 n n C3B C4B HEM sing 226 n n C3B CAB HEM sing 227 n n C4B NB HEM doub 228 n n CMB HMB HEM sing 229 n n CMB HMBA HEM sing 230 n n CMB HMBB HEM sing 231 n n CAB CBB HEM doub 232 n n CAB HAB HEM sing 233 n n CBB HBB HEM sing 234 n n CBB HBBA HEM sing 235 n n C1C C2C HEM sing 236 n y C1C NC HEM sing 237 n y C2C C3C HEM doub 238 n y C2C CMC HEM sing 239 n n C3C C4C HEM sing 240 n y C3C CAC HEM sing 241 n n C4C NC HEM sing 242 n y CMC HMC HEM sing 243 n n CMC HMCA HEM sing 244 n n CMC HMCB HEM sing 245 n n CAC CBC HEM doub 246 n n CAC HAC HEM sing 247 n n CBC HBC HEM sing 248 n n CBC HBCA HEM sing 249 n n C1D C2D HEM sing 250 n n C1D ND HEM doub 251 n n C2D C3D HEM doub 252 n n C2D CMD HEM sing 253 n n C3D C4D HEM sing 254 n n C3D CAD HEM sing 255 n n C4D ND HEM sing 256 n n CMD HMD HEM sing 257 n n CMD HMDA HEM sing 258 n n CMD HMDB HEM sing 259 n n CAD CBD HEM sing 260 n n CAD HAD HEM sing 261 n n CAD HADA HEM sing 262 n n CBD CGD HEM sing 263 n n CBD HBD HEM sing 264 n n CBD HBDA HEM sing 265 n n CGD O1D HEM doub 266 n n CGD O2D HEM sing 267 n n O2A H2A HEM sing 268 n n O2D H2D HEM sing 269 n n FE NA HEM sing 270 n n FE NB HEM sing 271 n n FE NC HEM sing 272 n n FE ND HEM sing 273 n n # _atom_sites.entry_id 4BY0 _atom_sites.fract_transf_matrix[1][1] 0.008054 _atom_sites.fract_transf_matrix[1][2] 0.00465 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.0093 _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] 0.008345 _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 C 2 HEM A 1 1450 1450 HEM HEM . D 3 5PS A 1 1460 1460 5PS 5PS . E 2 HEM B 1 1450 1450 HEM HEM . F 3 5PS B 1 1460 1460 5PS 5PS . G 4 HOH A 1 2001 2001 HOH HOH . G 4 HOH A 2 2002 2002 HOH HOH . G 4 HOH A 3 2003 2003 HOH HOH . G 4 HOH A 4 2004 2004 HOH HOH . G 4 HOH A 5 2005 2005 HOH HOH . G 4 HOH A 6 2006 2006 HOH HOH . G 4 HOH A 7 2007 2007 HOH HOH . G 4 HOH A 8 2008 2008 HOH HOH . H 4 HOH B 1 2001 2001 HOH HOH . H 4 HOH B 2 2002 2002 HOH HOH . H 4 HOH B 3 2003 2003 HOH HOH . H 4 HOH B 4 2004 2004 HOH HOH . H 4 HOH B 5 2005 2005 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 . . . E 2 -20.043 28.901 20.872 1 76.93 ? CHA HEM 1450 B 1 HETATM 2 C CHB HEM . . . E 2 -21.929 24.99 22.951 1 70.01 ? CHB HEM 1450 B 1 HETATM 3 C CHC HEM . . . E 2 -25.312 27.772 24.953 1 67.9 ? CHC HEM 1450 B 1 HETATM 4 C CHD HEM . . . E 2 -23.725 31.482 22.498 1 68.12 ? CHD HEM 1450 B 1 HETATM 5 C C1A HEM . . . E 2 -20.262 27.628 21.301 1 70.64 ? C1A HEM 1450 B 1 HETATM 6 C C2A HEM . . . E 2 -19.54 26.514 20.844 1 70.67 ? C2A HEM 1450 B 1 HETATM 7 C C3A HEM . . . E 2 -20.071 25.419 21.427 1 68.55 ? C3A HEM 1450 B 1 HETATM 8 C C4A HEM . . . E 2 -21.128 25.85 22.234 1 69.62 ? C4A HEM 1450 B 1 HETATM 9 C CMA HEM . . . E 2 -19.617 23.993 21.273 1 67.87 ? CMA HEM 1450 B 1 HETATM 10 C CAA HEM . . . E 2 -18.367 26.558 19.898 1 72.67 ? CAA HEM 1450 B 1 HETATM 11 C CBA HEM . . . E 2 -18.89 26.836 18.476 1 74 ? CBA HEM 1450 B 1 HETATM 12 C CGA HEM . . . E 2 -17.752 26.914 17.499 1 75.69 ? CGA HEM 1450 B 1 HETATM 13 O O1A HEM . . . E 2 -16.586 26.763 17.919 1 75.93 ? O1A HEM 1450 B 1 HETATM 14 O O2A HEM . . . E 2 -17.95 27.115 16.271 1 77.86 ? O2A HEM 1450 B 1 HETATM 15 C C1B HEM . . . E 2 -23.024 25.409 23.696 1 72.51 ? C1B HEM 1450 B 1 HETATM 16 C C2B HEM . . . E 2 -23.802 24.554 24.536 1 73.12 ? C2B HEM 1450 B 1 HETATM 17 C C3B HEM . . . E 2 -24.776 25.347 25.119 1 70.96 ? C3B HEM 1450 B 1 HETATM 18 C C4B HEM . . . E 2 -24.526 26.7 24.589 1 71.61 ? C4B HEM 1450 B 1 HETATM 19 C CMB HEM . . . E 2 -23.576 23.07 24.728 1 70.35 ? CMB HEM 1450 B 1 HETATM 20 C CAB HEM . . . E 2 -25.856 25.077 26.106 1 66.96 ? CAB HEM 1450 B 1 HETATM 21 C CBB HEM . . . E 2 -26.017 23.924 26.741 1 68.35 ? CBB HEM 1450 B 1 HETATM 22 C C1C HEM . . . E 2 -25.177 29.035 24.458 1 62.77 ? C1C HEM 1450 B 1 HETATM 23 C C2C HEM . . . E 2 -26.014 30.097 24.799 1 64.57 ? C2C HEM 1450 B 1 HETATM 24 C C3C HEM . . . E 2 -25.559 31.18 24.07 1 65.22 ? C3C HEM 1450 B 1 HETATM 25 C C4C HEM . . . E 2 -24.464 30.713 23.308 1 64.39 ? C4C HEM 1450 B 1 HETATM 26 C CMC HEM . . . E 2 -27.177 30.05 25.773 1 61.93 ? CMC HEM 1450 B 1 HETATM 27 C CAC HEM . . . E 2 -26.048 32.574 24.067 1 66.1 ? CAC HEM 1450 B 1 HETATM 28 C CBC HEM . . . E 2 -27.021 33.028 24.852 1 68.74 ? CBC HEM 1450 B 1 HETATM 29 C C1D HEM . . . E 2 -22.58 31.023 21.889 1 73.38 ? C1D HEM 1450 B 1 HETATM 30 C C2D HEM . . . E 2 -21.776 31.956 21.117 1 76.83 ? C2D HEM 1450 B 1 HETATM 31 C C3D HEM . . . E 2 -20.721 31.289 20.641 1 78.69 ? C3D HEM 1450 B 1 HETATM 32 C C4D HEM . . . E 2 -20.918 29.915 21.159 1 77.39 ? C4D HEM 1450 B 1 HETATM 33 C CMD HEM . . . E 2 -22.066 33.412 20.876 1 80.13 ? CMD HEM 1450 B 1 HETATM 34 C CAD HEM . . . E 2 -19.679 31.93 19.72 1 77.67 ? CAD HEM 1450 B 1 HETATM 35 C CBD HEM . . . E 2 -18.177 31.769 20.008 1 80.45 ? CBD HEM 1450 B 1 HETATM 36 C CGD HEM . . . E 2 -17.363 32.097 18.767 1 80.52 ? CGD HEM 1450 B 1 HETATM 37 O O1D HEM . . . E 2 -16.331 32.801 18.845 1 80.32 ? O1D HEM 1450 B 1 HETATM 38 O O2D HEM . . . E 2 -17.67 31.671 17.624 1 78.75 ? O2D HEM 1450 B 1 HETATM 39 N NA HEM . . . E 2 -21.276 27.191 22.074 1 67.14 ? NA HEM 1450 B 1 HETATM 40 N NB HEM . . . E 2 -23.497 26.64 23.759 1 72.55 ? NB HEM 1450 B 1 HETATM 41 N NC HEM . . . E 2 -24.279 29.412 23.541 1 61.52 ? NC HEM 1450 B 1 HETATM 42 N ND HEM . . . E 2 -22.04 29.805 21.893 1 75.2 ? ND HEM 1450 B 1 HETATM 43 FE FE HEM . . . E 2 -22.728 28.288 22.776 1 69.53 ? FE HEM 1450 B 1 # _model_server_stats.io_time_ms 7 _model_server_stats.parse_time_ms 6 _model_server_stats.create_model_time_ms 6 _model_server_stats.query_time_ms 283 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 43 #