data_4L28 # _model_server_result.job_id 5vqngYNQcz2LUgYzKnVZNw _model_server_result.datetime_utc '2024-11-29 16:28:09' _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":"I","auth_seq_id":601}' # _entry.id 4L28 # _exptl.entry_id 4L28 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 247.142 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "PYRIDOXAL-5'-PHOSPHATE" _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 ? 2 E N N ? 2 G N N ? 2 I N N ? 2 K 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 'C8 H10 N O6 P' _chem_comp.formula_weight 247.142 _chem_comp.id PLP _chem_comp.mon_nstd_flag . _chem_comp.name "PYRIDOXAL-5'-PHOSPHATE" _chem_comp.type non-polymer _chem_comp.pdbx_synonyms 'VITAMIN B6 Phosphate' # _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 N N1 PLP . . . I 2 130.153 129.349 180.829 1 75.48 ? N1 PLP 601 C 1 HETATM 2 C C2 PLP . . . I 2 130.363 128.094 180.465 1 68.99 ? C2 PLP 601 C 1 HETATM 3 C C2A PLP . . . I 2 129.389 127.156 180.685 1 60.94 ? C2A PLP 601 C 1 HETATM 4 C C3 PLP . . . I 2 131.565 127.778 179.879 1 72.25 ? C3 PLP 601 C 1 HETATM 5 O O3 PLP . . . I 2 131.792 126.498 179.503 1 72.91 ? O3 PLP 601 C 1 HETATM 6 C C4 PLP . . . I 2 132.551 128.719 179.657 1 72.75 ? C4 PLP 601 C 1 HETATM 7 C C4A PLP . . . I 2 133.725 128.332 179.079 1 75.46 ? C4A PLP 601 C 1 HETATM 8 C C5 PLP . . . I 2 132.337 130.04 180.014 1 67.62 ? C5 PLP 601 C 1 HETATM 9 C C6 PLP . . . I 2 131.125 130.324 180.619 1 78.35 ? C6 PLP 601 C 1 HETATM 10 C C5A PLP . . . I 2 133.303 131.066 179.854 1 62.09 ? C5A PLP 601 C 1 HETATM 11 O O4P PLP . . . I 2 133.768 131.413 178.534 1 75.27 ? O4P PLP 601 C 1 HETATM 12 P P PLP . . . I 2 135.232 132.088 178.28 1 73.63 ? P PLP 601 C 1 HETATM 13 O O1P PLP . . . I 2 135.104 132.297 176.866 1 68.09 ? O1P PLP 601 C 1 HETATM 14 O O2P PLP . . . I 2 135.146 133.25 179.13 1 63.16 1 O2P PLP 601 C 1 HETATM 15 O O3P PLP . . . I 2 136.018 130.97 178.729 1 74.87 ? O3P PLP 601 C 1 # _model_server_stats.io_time_ms 14 _model_server_stats.parse_time_ms 14 _model_server_stats.create_model_time_ms 18 _model_server_stats.query_time_ms 296 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 15 #