data_4L28 # _model_server_result.job_id T6LS8KRbe74qOZDK3eIedw _model_server_result.datetime_utc '2024-11-29 16:51:29' _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":"F","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 . . . F 3 89.038 118.719 159.235 1 72.18 ? CHA HEM 602 A 1 HETATM 2 C CHB HEM . . . F 3 88.48 119.914 154.639 1 72.28 ? CHB HEM 602 A 1 HETATM 3 C CHC HEM . . . F 3 93.224 119.622 153.978 1 72.08 ? CHC HEM 602 A 1 HETATM 4 C CHD HEM . . . F 3 93.778 118.398 158.563 1 72 ? CHD HEM 602 A 1 HETATM 5 C C1A HEM . . . F 3 88.503 119.124 158.063 1 72.25 ? C1A HEM 602 A 1 HETATM 6 C C2A HEM . . . F 3 87.119 119.468 157.898 1 72.36 ? C2A HEM 602 A 1 HETATM 7 C C3A HEM . . . F 3 86.958 119.812 156.626 1 72.29 ? C3A HEM 602 A 1 HETATM 8 C C4A HEM . . . F 3 88.23 119.67 155.963 1 72.26 ? C4A HEM 602 A 1 HETATM 9 C CMA HEM . . . F 3 85.658 120.266 155.94 1 72.28 ? CMA HEM 602 A 1 HETATM 10 C CAA HEM . . . F 3 86.093 119.46 159.058 1 72.53 ? CAA HEM 602 A 1 HETATM 11 C CBA HEM . . . F 3 84.902 118.534 158.879 1 72.71 ? CBA HEM 602 A 1 HETATM 12 C CGA HEM . . . F 3 83.833 118.94 159.85 1 72.82 ? CGA HEM 602 A 1 HETATM 13 O O1A HEM . . . F 3 84.173 119.259 161.005 1 72.95 ? O1A HEM 602 A 1 HETATM 14 O O2A HEM . . . F 3 82.644 118.945 159.466 1 72.82 ? O2A HEM 602 A 1 HETATM 15 C C1B HEM . . . F 3 89.722 119.947 154.058 1 72.28 ? C1B HEM 602 A 1 HETATM 16 C C2B HEM . . . F 3 90.004 120.309 152.684 1 72.29 ? C2B HEM 602 A 1 HETATM 17 C C3B HEM . . . F 3 91.318 120.227 152.509 1 72.23 ? C3B HEM 602 A 1 HETATM 18 C C4B HEM . . . F 3 91.893 119.812 153.764 1 72.19 ? C4B HEM 602 A 1 HETATM 19 C CMB HEM . . . F 3 88.938 120.721 151.652 1 72.32 ? CMB HEM 602 A 1 HETATM 20 C CAB HEM . . . F 3 92.172 120.492 151.25 1 72.25 ? CAB HEM 602 A 1 HETATM 21 C CBB HEM . . . F 3 91.697 120.842 150.058 1 72.31 ? CBB HEM 602 A 1 HETATM 22 C C1C HEM . . . F 3 93.767 119.259 155.172 1 72.01 ? C1C HEM 602 A 1 HETATM 23 C C2C HEM . . . F 3 95.165 119.017 155.385 1 71.92 ? C2C HEM 602 A 1 HETATM 24 C C3C HEM . . . F 3 95.319 118.694 156.661 1 71.91 ? C3C HEM 602 A 1 HETATM 25 C C4C HEM . . . F 3 94.013 118.704 157.26 1 71.97 ? C4C HEM 602 A 1 HETATM 26 C CMC HEM . . . F 3 96.234 119.16 154.287 1 71.88 ? CMC HEM 602 A 1 HETATM 27 C CAC HEM . . . F 3 96.596 118.324 157.449 1 71.85 ? CAC HEM 602 A 1 HETATM 28 C CBC HEM . . . F 3 97.756 117.967 156.896 1 71.83 ? CBC HEM 602 A 1 HETATM 29 C C1D HEM . . . F 3 92.552 118.285 159.144 1 72.04 ? C1D HEM 602 A 1 HETATM 30 C C2D HEM . . . F 3 92.304 117.736 160.454 1 72.05 ? C2D HEM 602 A 1 HETATM 31 C C3D HEM . . . F 3 90.812 117.836 160.655 1 72.08 ? C3D HEM 602 A 1 HETATM 32 C C4D HEM . . . F 3 90.342 118.44 159.449 1 72.12 ? C4D HEM 602 A 1 HETATM 33 C CMD HEM . . . F 3 93.314 117.161 161.456 1 72.03 ? CMD HEM 602 A 1 HETATM 34 C CAD HEM . . . F 3 89.988 117.409 161.878 1 72.09 ? CAD HEM 602 A 1 HETATM 35 C CBD HEM . . . F 3 89.146 116.189 161.561 1 72.12 ? CBD HEM 602 A 1 HETATM 36 C CGD HEM . . . F 3 87.967 116.15 162.484 1 72.2 ? CGD HEM 602 A 1 HETATM 37 O O1D HEM . . . F 3 87.599 117.221 163.006 1 72.18 ? O1D HEM 602 A 1 HETATM 38 O O2D HEM . . . F 3 87.392 115.058 162.688 1 72.22 ? O2D HEM 602 A 1 HETATM 39 N NA HEM . . . F 3 89.171 119.262 156.874 1 72.26 ? NA HEM 602 A 1 HETATM 40 N NB HEM . . . F 3 90.9 119.636 154.699 1 72.25 ? NB HEM 602 A 1 HETATM 41 N NC HEM . . . F 3 93.068 119.07 156.337 1 72.07 ? NC HEM 602 A 1 HETATM 42 N ND HEM . . . F 3 91.369 118.674 158.556 1 72.14 ? ND HEM 602 A 1 HETATM 43 FE FE HEM . . . F 3 91.133 119.16 156.606 1 72.15 ? FE HEM 602 A 1 # _model_server_stats.io_time_ms 13 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 17 _model_server_stats.query_time_ms 294 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 43 #