data_4L28 # _model_server_result.job_id m5FfbB7aYeQiNnDa81TMxA _model_server_result.datetime_utc '2024-11-29 16:35:50' _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 4l28 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"J","auth_seq_id":602}' # _entry.id 4L28 # _exptl.entry_id 4L28 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 616.487 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'PROTOPORPHYRIN IX CONTAINING FE' _entity.pdbx_number_of_molecules 4 _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 4L28 _cell.length_a 109.482 _cell.length_b 131.074 _cell.length_c 207.065 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4L28 _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # 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 dimeric 2 author_and_software_defined_assembly 1 PISA dimeric 2 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,E,F,I,J 1 1 B,D,G,H,K,L 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 ? 3 F N N ? 3 H N N ? 3 J N N ? 3 L 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 C NE2 HIS 64 C HIS 65 1_555 J FE HEM . C HEM 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.067 ? metalc ? metalc2 A NE2 HIS 64 A HIS 65 1_555 F FE HEM . A HEM 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.088 ? metalc ? metalc3 D NE2 HIS 64 D HIS 65 1_555 L FE HEM . D HEM 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.093 ? metalc ? metalc4 B NE2 HIS 64 B HIS 65 1_555 H FE HEM . B HEM 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.109 ? metalc ? metalc5 A SG CYS 51 A CYS 52 1_555 F FE HEM . A HEM 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.199 ? metalc ? metalc6 D SG CYS 51 D CYS 52 1_555 L FE HEM . D HEM 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.202 ? metalc ? metalc7 B SG CYS 51 B CYS 52 1_555 H FE HEM . B HEM 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.222 ? metalc ? metalc8 C SG CYS 51 C CYS 52 1_555 J FE HEM . C HEM 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.238 ? covale ? covale1 A NZ LYS 118 A LYS 119 1_555 E C4A PLP . A PLP 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.352 doub covale ? covale2 B NZ LYS 118 B LYS 119 1_555 G C4A PLP . B PLP 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.342 doub covale ? covale3 C NZ LYS 118 C LYS 119 1_555 I C4A PLP . C PLP 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.342 doub covale ? covale4 D NZ LYS 118 D LYS 119 1_555 K C4A PLP . D PLP 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.336 doub # _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 # _atom_sites.entry_id 4L28 _atom_sites.fract_transf_matrix[1][1] 0.009134 _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] 0.007629 _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] 0.004829 _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 E 2 PLP A 1 601 1000 PLP PLP . F 3 HEM A 1 602 2000 HEM HEM . G 2 PLP B 1 601 1000 PLP PLP . H 3 HEM B 1 602 2000 HEM HEM . I 2 PLP C 1 601 1000 PLP PLP . J 3 HEM C 1 602 2000 HEM HEM . K 2 PLP D 1 601 1000 PLP PLP . L 3 HEM D 1 602 2000 HEM HEM . # 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 . . . J 3 149.968 136.363 169.917 1 91.05 ? CHA HEM 602 C 1 HETATM 2 C CHB HEM . . . J 3 150.297 140.256 167.15 1 91.55 ? CHB HEM 602 C 1 HETATM 3 C CHC HEM . . . J 3 145.544 140.84 167.476 1 91.22 ? CHC HEM 602 C 1 HETATM 4 C CHD HEM . . . J 3 145.178 136.958 170.246 1 90.88 ? CHD HEM 602 C 1 HETATM 5 C C1A HEM . . . J 3 150.449 137.313 169.078 1 91.17 ? C1A HEM 602 C 1 HETATM 6 C C2A HEM . . . J 3 151.811 137.38 168.59 1 91.26 ? C2A HEM 602 C 1 HETATM 7 C C3A HEM . . . J 3 151.895 138.458 167.824 1 91.22 ? C3A HEM 602 C 1 HETATM 8 C C4A HEM . . . J 3 150.607 139.106 167.817 1 91.29 ? C4A HEM 602 C 1 HETATM 9 C CMA HEM . . . J 3 153.145 138.951 167.079 1 91.15 ? CMA HEM 602 C 1 HETATM 10 C CAA HEM . . . J 3 152.939 136.359 168.89 1 91.42 ? CAA HEM 602 C 1 HETATM 11 C CBA HEM . . . J 3 154.08 136.96 169.7 1 91.63 ? CBA HEM 602 C 1 HETATM 12 C CGA HEM . . . J 3 155.222 135.987 169.862 1 91.68 ? CGA HEM 602 C 1 HETATM 13 O O1A HEM . . . J 3 154.959 134.788 170.118 1 91.65 ? O1A HEM 602 C 1 HETATM 14 O O2A HEM . . . J 3 156.398 136.419 169.754 1 91.65 ? O2A HEM 602 C 1 HETATM 15 C C1B HEM . . . J 3 149.031 140.753 166.999 1 91.6 ? C1B HEM 602 C 1 HETATM 16 C C2B HEM . . . J 3 148.668 141.912 166.215 1 91.79 ? C2B HEM 602 C 1 HETATM 17 C C3B HEM . . . J 3 147.346 142.063 166.304 1 91.67 ? C3B HEM 602 C 1 HETATM 18 C C4B HEM . . . J 3 146.85 141.008 167.15 1 91.48 ? C4B HEM 602 C 1 HETATM 19 C CMB HEM . . . J 3 149.674 142.769 165.421 1 91.96 ? CMB HEM 602 C 1 HETATM 20 C CAB HEM . . . J 3 146.415 143.128 165.682 1 91.92 ? CAB HEM 602 C 1 HETATM 21 C CBB HEM . . . J 3 146.818 144.214 165.022 1 92.1 ? CBB HEM 602 C 1 HETATM 22 C C1C HEM . . . J 3 145.039 139.822 168.241 1 91.01 ? C1C HEM 602 C 1 HETATM 23 C C2C HEM . . . J 3 143.646 139.66 168.555 1 90.83 ? C2C HEM 602 C 1 HETATM 24 C C3C HEM . . . J 3 143.532 138.582 169.325 1 90.81 ? C3C HEM 602 C 1 HETATM 25 C C4C HEM . . . J 3 144.866 138.06 169.509 1 90.89 ? C4C HEM 602 C 1 HETATM 26 C CMC HEM . . . J 3 142.556 140.615 168.04 1 90.74 ? CMC HEM 602 C 1 HETATM 27 C CAC HEM . . . J 3 142.273 137.94 169.956 1 90.77 ? CAC HEM 602 C 1 HETATM 28 C CBC HEM . . . J 3 141.051 138.475 169.936 1 90.76 ? CBC HEM 602 C 1 HETATM 29 C C1D HEM . . . J 3 146.438 136.486 170.469 1 90.92 ? C1D HEM 602 C 1 HETATM 30 C C2D HEM . . . J 3 146.75 135.423 171.387 1 90.91 ? C2D HEM 602 C 1 HETATM 31 C C3D HEM . . . J 3 148.251 135.232 171.291 1 90.87 ? C3D HEM 602 C 1 HETATM 32 C C4D HEM . . . J 3 148.669 136.204 170.315 1 90.97 ? C4D HEM 602 C 1 HETATM 33 C CMD HEM . . . J 3 145.783 134.641 172.29 1 90.92 ? CMD HEM 602 C 1 HETATM 34 C CAD HEM . . . J 3 149.117 134.211 172.065 1 90.79 ? CAD HEM 602 C 1 HETATM 35 C CBD HEM . . . J 3 149.995 134.925 173.081 1 90.76 ? CBD HEM 602 C 1 HETATM 36 C CGD HEM . . . J 3 151.168 134.077 173.47 1 90.77 ? CGD HEM 602 C 1 HETATM 37 O O1D HEM . . . J 3 151.326 132.97 172.909 1 90.77 ? O1D HEM 602 C 1 HETATM 38 O O2D HEM . . . J 3 151.95 134.52 174.344 1 90.82 ? O2D HEM 602 C 1 HETATM 39 N NA HEM . . . J 3 149.729 138.373 168.58 1 91.28 ? NA HEM 602 C 1 HETATM 40 N NB HEM . . . J 3 147.896 140.218 167.566 1 91.51 ? NB HEM 602 C 1 HETATM 41 N NC HEM . . . J 3 145.775 138.829 168.826 1 91.07 ? NC HEM 602 C 1 HETATM 42 N ND HEM . . . J 3 147.593 136.943 169.856 1 91.08 ? ND HEM 602 C 1 HETATM 43 FE FE HEM . . . J 3 147.74 138.607 168.695 1 91.22 ? FE HEM 602 C 1 # _model_server_stats.io_time_ms 13 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 45 _model_server_stats.query_time_ms 599 _model_server_stats.encode_time_ms 7 _model_server_stats.element_count 43 #