data_3E4E # _model_server_result.job_id jFCp9JF1nidjXtwROHf8aA _model_server_result.datetime_utc '2024-10-17 18:33:04' _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 3e4e # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":500}' # _entry.id 3E4E # _exptl.entry_id 3E4E _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 90 _cell.entry_id 3E4E _cell.length_a 71.193 _cell.length_b 71.193 _cell.length_c 225.888 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3E4E _symmetry.cell_setting ? _symmetry.Int_Tables_number 78 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 43' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id ? monomeric 1 author_defined_assembly 1 ? monomeric 1 author_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 416 A CYS 437 1_555 C FE HEM . A HEM 500 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.674 ? metalc ? metalc2 C FE HEM . A HEM 500 1_555 D N2 4PZ . A 4PZ 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.575 ? metalc ? metalc3 B SG CYS 416 B CYS 437 1_555 E FE HEM . B HEM 500 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.998 ? metalc ? metalc4 E FE HEM . B HEM 500 1_555 F N2 4PZ . B 4PZ 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.715 ? # _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 141 n n CHA C4D HEM doub 142 n n CHA HHA HEM sing 143 n n CHB C4A HEM sing 144 n n CHB C1B HEM doub 145 n n CHB HHB HEM sing 146 n n CHC C4B HEM sing 147 n n CHC C1C HEM doub 148 n n CHC HHC HEM sing 149 n n CHD C4C HEM doub 150 n n CHD C1D HEM sing 151 n n CHD HHD HEM sing 152 n n C1A C2A HEM doub 153 n y C1A NA HEM sing 154 n y C2A C3A HEM sing 155 n y C2A CAA HEM sing 156 n n C3A C4A HEM doub 157 n y C3A CMA HEM sing 158 n n C4A NA HEM sing 159 n y CMA HMA HEM sing 160 n n CMA HMAA HEM sing 161 n n CMA HMAB HEM sing 162 n n CAA CBA HEM sing 163 n n CAA HAA HEM sing 164 n n CAA HAAA HEM sing 165 n n CBA CGA HEM sing 166 n n CBA HBA HEM sing 167 n n CBA HBAA HEM sing 168 n n CGA O1A HEM doub 169 n n CGA O2A HEM sing 170 n n C1B C2B HEM sing 171 n n C1B NB HEM sing 172 n n C2B C3B HEM doub 173 n n C2B CMB HEM sing 174 n n C3B C4B HEM sing 175 n n C3B CAB HEM sing 176 n n C4B NB HEM doub 177 n n CMB HMB HEM sing 178 n n CMB HMBA HEM sing 179 n n CMB HMBB HEM sing 180 n n CAB CBB HEM doub 181 n n CAB HAB HEM sing 182 n n CBB HBB HEM sing 183 n n CBB HBBA HEM sing 184 n n C1C C2C HEM sing 185 n y C1C NC HEM sing 186 n y C2C C3C HEM doub 187 n y C2C CMC HEM sing 188 n n C3C C4C HEM sing 189 n y C3C CAC HEM sing 190 n n C4C NC HEM sing 191 n y CMC HMC HEM sing 192 n n CMC HMCA HEM sing 193 n n CMC HMCB HEM sing 194 n n CAC CBC HEM doub 195 n n CAC HAC HEM sing 196 n n CBC HBC HEM sing 197 n n CBC HBCA HEM sing 198 n n C1D C2D HEM sing 199 n n C1D ND HEM doub 200 n n C2D C3D HEM doub 201 n n C2D CMD HEM sing 202 n n C3D C4D HEM sing 203 n n C3D CAD HEM sing 204 n n C4D ND HEM sing 205 n n CMD HMD HEM sing 206 n n CMD HMDA HEM sing 207 n n CMD HMDB HEM sing 208 n n CAD CBD HEM sing 209 n n CAD HAD HEM sing 210 n n CAD HADA HEM sing 211 n n CBD CGD HEM sing 212 n n CBD HBD HEM sing 213 n n CBD HBDA HEM sing 214 n n CGD O1D HEM doub 215 n n CGD O2D HEM sing 216 n n O2A H2A HEM sing 217 n n O2D H2D HEM sing 218 n n FE NA HEM sing 219 n n FE NB HEM sing 220 n n FE NC HEM sing 221 n n FE ND HEM sing 222 n n # _atom_sites.entry_id 3E4E _atom_sites.fract_transf_matrix[1][1] 0.014046 _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] 0.014046 _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] 0.004427 _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 1 500 500 HEM HEM . D 3 4PZ A 1 501 501 4PZ 4PZ . E 2 HEM B 1 500 500 HEM HEM . F 3 4PZ B 1 501 501 4PZ 4PZ . G 4 HOH A 1 502 502 HOH HOH . G 4 HOH A 2 503 503 HOH HOH . G 4 HOH A 3 504 504 HOH HOH . G 4 HOH A 4 505 505 HOH HOH . G 4 HOH A 5 506 506 HOH HOH . G 4 HOH A 6 507 507 HOH HOH . G 4 HOH A 7 508 508 HOH HOH . G 4 HOH A 8 509 509 HOH HOH . G 4 HOH A 9 510 510 HOH HOH . G 4 HOH A 10 511 511 HOH HOH . G 4 HOH A 11 512 512 HOH HOH . G 4 HOH A 12 513 513 HOH HOH . G 4 HOH A 13 514 514 HOH HOH . G 4 HOH A 14 515 515 HOH HOH . G 4 HOH A 15 516 516 HOH HOH . G 4 HOH A 16 517 517 HOH HOH . G 4 HOH A 17 518 518 HOH HOH . G 4 HOH A 18 519 519 HOH HOH . G 4 HOH A 19 520 520 HOH HOH . G 4 HOH A 20 521 521 HOH HOH . G 4 HOH A 21 522 522 HOH HOH . G 4 HOH A 22 523 523 HOH HOH . G 4 HOH A 23 524 524 HOH HOH . G 4 HOH A 24 525 525 HOH HOH . G 4 HOH A 25 526 526 HOH HOH . G 4 HOH A 26 527 527 HOH HOH . G 4 HOH A 27 528 528 HOH HOH . G 4 HOH A 28 529 529 HOH HOH . G 4 HOH A 29 530 530 HOH HOH . G 4 HOH A 30 531 531 HOH HOH . G 4 HOH A 31 532 532 HOH HOH . G 4 HOH A 32 533 533 HOH HOH . G 4 HOH A 33 534 534 HOH HOH . H 4 HOH B 1 502 502 HOH HOH . H 4 HOH B 2 503 503 HOH HOH . H 4 HOH B 3 504 504 HOH HOH . H 4 HOH B 4 505 505 HOH HOH . H 4 HOH B 5 506 506 HOH HOH . H 4 HOH B 6 507 507 HOH HOH . H 4 HOH B 7 508 508 HOH HOH . H 4 HOH B 8 509 509 HOH HOH . H 4 HOH B 9 510 510 HOH HOH . H 4 HOH B 10 511 511 HOH HOH . H 4 HOH B 11 512 512 HOH HOH . H 4 HOH B 12 513 513 HOH HOH . H 4 HOH B 13 514 514 HOH HOH . H 4 HOH B 14 515 515 HOH HOH . H 4 HOH B 15 516 516 HOH HOH . H 4 HOH B 16 517 517 HOH HOH . H 4 HOH B 17 518 518 HOH HOH . H 4 HOH B 18 519 519 HOH HOH . H 4 HOH B 19 520 520 HOH HOH . H 4 HOH B 20 521 521 HOH HOH . H 4 HOH B 21 522 522 HOH HOH . H 4 HOH B 22 523 523 HOH HOH . H 4 HOH B 23 524 524 HOH HOH . H 4 HOH B 24 525 525 HOH HOH . H 4 HOH B 25 526 526 HOH HOH . H 4 HOH B 26 527 527 HOH HOH . H 4 HOH B 27 528 528 HOH HOH . H 4 HOH B 28 529 529 HOH HOH . H 4 HOH B 29 530 530 HOH HOH . H 4 HOH B 30 531 531 HOH HOH . H 4 HOH B 31 532 532 HOH HOH . H 4 HOH B 32 533 533 HOH HOH . H 4 HOH B 33 534 534 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 5.999 -5.933 39.618 1 33.1 ? CHA HEM 500 B 1 HETATM 2 C CHB HEM . . . E 2 2.315 -3.039 38.658 1 33.76 ? CHB HEM 500 B 1 HETATM 3 C CHC HEM . . . E 2 5.258 0.608 37.634 1 32.27 ? CHC HEM 500 B 1 HETATM 4 C CHD HEM . . . E 2 9.008 -2.437 38.293 1 30.43 ? CHD HEM 500 B 1 HETATM 5 C C1A HEM . . . E 2 4.785 -5.391 39.403 1 32.28 ? C1A HEM 500 B 1 HETATM 6 C C2A HEM . . . E 2 3.607 -6.223 39.597 1 33.88 ? C2A HEM 500 B 1 HETATM 7 C C3A HEM . . . E 2 2.582 -5.41 39.353 1 34.64 ? C3A HEM 500 B 1 HETATM 8 C C4A HEM . . . E 2 3.13 -4.088 39.013 1 32.87 ? C4A HEM 500 B 1 HETATM 9 C CMA HEM . . . E 2 1.072 -5.802 39.391 1 34.92 ? CMA HEM 500 B 1 HETATM 10 C CAA HEM . . . E 2 3.6 -7.737 39.997 1 32.24 ? CAA HEM 500 B 1 HETATM 11 C CBA HEM . . . E 2 3.561 -7.934 41.501 1 35.09 ? CBA HEM 500 B 1 HETATM 12 C CGA HEM . . . E 2 3.661 -9.375 41.982 1 37.09 ? CGA HEM 500 B 1 HETATM 13 O O1A HEM . . . E 2 3.171 -9.655 43.096 1 35.06 ? O1A HEM 500 B 1 HETATM 14 O O2A HEM . . . E 2 4.217 -10.287 41.292 1 43.55 ? O2A HEM 500 B 1 HETATM 15 C C1B HEM . . . E 2 2.802 -1.826 38.274 1 32.67 ? C1B HEM 500 B 1 HETATM 16 C C2B HEM . . . E 2 1.971 -0.691 37.951 1 33.04 ? C2B HEM 500 B 1 HETATM 17 C C3B HEM . . . E 2 2.776 0.331 37.652 1 32.92 ? C3B HEM 500 B 1 HETATM 18 C C4B HEM . . . E 2 4.128 -0.151 37.8 1 31.54 ? C4B HEM 500 B 1 HETATM 19 C CMB HEM . . . E 2 0.428 -0.749 37.943 1 32.68 ? CMB HEM 500 B 1 HETATM 20 C CAB HEM . . . E 2 2.384 1.759 37.203 1 32.79 ? CAB HEM 500 B 1 HETATM 21 C CBB HEM . . . E 2 1.122 2.149 37.295 1 33.15 ? CBB HEM 500 B 1 HETATM 22 C C1C HEM . . . E 2 6.506 0.037 37.819 1 31.49 ? C1C HEM 500 B 1 HETATM 23 C C2C HEM . . . E 2 7.68 0.844 37.823 1 30 ? C2C HEM 500 B 1 HETATM 24 C C3C HEM . . . E 2 8.708 0.028 37.993 1 32.1 ? C3C HEM 500 B 1 HETATM 25 C C4C HEM . . . E 2 8.202 -1.336 38.121 1 31.44 ? C4C HEM 500 B 1 HETATM 26 C CMC HEM . . . E 2 7.632 2.385 37.631 1 33.45 ? CMC HEM 500 B 1 HETATM 27 C CAC HEM . . . E 2 10.199 0.44 38.052 1 33.74 ? CAC HEM 500 B 1 HETATM 28 C CBC HEM . . . E 2 10.497 1.745 38.06 1 36.58 ? CBC HEM 500 B 1 HETATM 29 C C1D HEM . . . E 2 8.509 -3.649 38.683 1 29.94 ? C1D HEM 500 B 1 HETATM 30 C C2D HEM . . . E 2 9.352 -4.829 38.86 1 31.4 ? C2D HEM 500 B 1 HETATM 31 C C3D HEM . . . E 2 8.4 -5.896 39.244 1 34.04 ? C3D HEM 500 B 1 HETATM 32 C C4D HEM . . . E 2 7.113 -5.244 39.291 1 31.69 ? C4D HEM 500 B 1 HETATM 33 C CMD HEM . . . E 2 10.872 -4.992 38.635 1 32.29 ? CMD HEM 500 B 1 HETATM 34 C CAD HEM . . . E 2 8.727 -7.359 39.591 1 39.05 ? CAD HEM 500 B 1 HETATM 35 C CBD HEM . . . E 2 8.907 -7.369 41.109 1 38.86 ? CBD HEM 500 B 1 HETATM 36 C CGD HEM . . . E 2 9.505 -8.692 41.55 1 42.45 ? CGD HEM 500 B 1 HETATM 37 O O1D HEM . . . E 2 10.291 -8.682 42.544 1 43.15 ? O1D HEM 500 B 1 HETATM 38 O O2D HEM . . . E 2 9.204 -9.76 40.951 1 42.9 ? O2D HEM 500 B 1 HETATM 39 N NA HEM . . . E 2 4.525 -4.05 39.065 1 28.11 ? NA HEM 500 B 1 HETATM 40 N NB HEM . . . E 2 4.157 -1.518 38.203 1 29.38 ? NB HEM 500 B 1 HETATM 41 N NC HEM . . . E 2 6.787 -1.333 38.029 1 28.63 ? NC HEM 500 B 1 HETATM 42 N ND HEM . . . E 2 7.154 -3.9 38.939 1 27.6 ? ND HEM 500 B 1 HETATM 43 FE FE HEM . . . E 2 5.6 -2.633 38.588 1 13.68 ? FE HEM 500 B 1 # _model_server_stats.io_time_ms 9 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 9 _model_server_stats.query_time_ms 275 _model_server_stats.encode_time_ms 10 _model_server_stats.element_count 43 #