data_8SIJ # _model_server_result.job_id wmq6jlBE_HZ63iMtStBw9w _model_server_result.datetime_utc '2025-01-13 11:37:43' _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 8sij # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":501}' # _entry.id 8SIJ # _exptl.entry_id 8SIJ _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 1 _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 8SIJ _cell.length_a 98.589 _cell.length_b 98.589 _cell.length_c 278.515 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8SIJ _symmetry.cell_setting ? _symmetry.Int_Tables_number 92 _symmetry.space_group_name_Hall 'P 4abw 2nw' _symmetry.space_group_name_H-M 'P 41 21 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 7_555 y,x,-z 0 1 0 1 0 0 0 0 -1 0 0 0 # _struct_asym.details ? _struct_asym.entity_id 2 _struct_asym.id C _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _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' # 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 N1 C2 PLP doub 302 n y N1 C6 PLP sing 303 n y C2 C2A PLP sing 304 n n C2 C3 PLP sing 305 n y C2A H2A1 PLP sing 306 n n C2A H2A2 PLP sing 307 n n C2A H2A3 PLP sing 308 n n C3 O3 PLP sing 309 n n C3 C4 PLP doub 310 n y O3 HO3 PLP sing 311 n n C4 C4A PLP sing 312 n n C4 C5 PLP sing 313 n y C4A O4A PLP doub 314 n n C4A H4A PLP sing 315 n n C5 C6 PLP doub 316 n y C5 C5A PLP sing 317 n n C6 H6 PLP sing 318 n n C5A O4P PLP sing 319 n n C5A H5A1 PLP sing 320 n n C5A H5A2 PLP sing 321 n n O4P P PLP sing 322 n n P O1P PLP doub 323 n n P O2P PLP sing 324 n n P O3P PLP sing 325 n n O2P HOP2 PLP sing 326 n n O3P HOP3 PLP sing 327 n n # _atom_sites.entry_id 8SIJ _atom_sites.fract_transf_matrix[1][1] 0.010143 _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] 0.010143 _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] 0.00359 _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 PLP A 1 501 501 PLP PLP . D 3 CL A 1 502 1 CL CL . E 4 K9E B 1 501 501 K9E LIG . F 3 CL B 1 502 2 CL CL . G 5 HOH A 1 601 4 HOH HOH . G 5 HOH A 2 602 1 HOH HOH . G 5 HOH A 3 603 14 HOH HOH . G 5 HOH A 4 604 29 HOH HOH . G 5 HOH A 5 605 48 HOH HOH . G 5 HOH A 6 606 42 HOH HOH . G 5 HOH A 7 607 5 HOH HOH . G 5 HOH A 8 608 11 HOH HOH . G 5 HOH A 9 609 3 HOH HOH . G 5 HOH A 10 610 36 HOH HOH . G 5 HOH A 11 611 99 HOH HOH . G 5 HOH A 12 612 54 HOH HOH . G 5 HOH A 13 613 97 HOH HOH . G 5 HOH A 14 614 104 HOH HOH . G 5 HOH A 15 615 98 HOH HOH . G 5 HOH A 16 616 17 HOH HOH . G 5 HOH A 17 617 66 HOH HOH . G 5 HOH A 18 618 70 HOH HOH . G 5 HOH A 19 619 31 HOH HOH . G 5 HOH A 20 620 72 HOH HOH . G 5 HOH A 21 621 74 HOH HOH . G 5 HOH A 22 622 16 HOH HOH . G 5 HOH A 23 623 71 HOH HOH . G 5 HOH A 24 624 73 HOH HOH . G 5 HOH A 25 625 75 HOH HOH . G 5 HOH A 26 626 108 HOH HOH . G 5 HOH A 27 627 85 HOH HOH . G 5 HOH A 28 628 22 HOH HOH . G 5 HOH A 29 629 84 HOH HOH . H 5 HOH B 1 601 12 HOH HOH . H 5 HOH B 2 602 6 HOH HOH . H 5 HOH B 3 603 76 HOH HOH . H 5 HOH B 4 604 2 HOH HOH . H 5 HOH B 5 605 78 HOH HOH . H 5 HOH B 6 606 32 HOH HOH . H 5 HOH B 7 607 10 HOH HOH . H 5 HOH B 8 608 106 HOH HOH . H 5 HOH B 9 609 39 HOH HOH . H 5 HOH B 10 610 7 HOH HOH . H 5 HOH B 11 611 20 HOH HOH . H 5 HOH B 12 612 15 HOH HOH . H 5 HOH B 13 613 8 HOH HOH . H 5 HOH B 14 614 13 HOH HOH . H 5 HOH B 15 615 23 HOH HOH . H 5 HOH B 16 616 96 HOH HOH . H 5 HOH B 17 617 59 HOH HOH . H 5 HOH B 18 618 77 HOH HOH . H 5 HOH B 19 619 69 HOH HOH . H 5 HOH B 20 620 82 HOH HOH . H 5 HOH B 21 621 86 HOH HOH . H 5 HOH B 22 622 89 HOH HOH . H 5 HOH B 23 623 80 HOH HOH . H 5 HOH B 24 624 81 HOH HOH . H 5 HOH B 25 625 88 HOH HOH . H 5 HOH B 26 626 79 HOH HOH . H 5 HOH B 27 627 94 HOH HOH . H 5 HOH B 28 628 102 HOH HOH . H 5 HOH B 29 629 100 HOH HOH . H 5 HOH B 30 630 33 HOH HOH . H 5 HOH B 31 631 91 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 N N1 PLP . . . C 2 35.175 29.405 26.765 1 71.71 ? N1 PLP 501 A 1 HETATM 2 C C2 PLP . . . C 2 34.931 30.37 27.646 1 72.02 ? C2 PLP 501 A 1 HETATM 3 C C2A PLP . . . C 2 33.513 30.766 27.896 1 71.72 ? C2A PLP 501 A 1 HETATM 4 C C3 PLP . . . C 2 35.983 30.997 28.324 1 72.65 ? C3 PLP 501 A 1 HETATM 5 O O3 PLP . . . C 2 35.687 31.975 29.214 1 72.94 ? O3 PLP 501 A 1 HETATM 6 C C4 PLP . . . C 2 37.311 30.601 28.071 1 73.01 ? C4 PLP 501 A 1 HETATM 7 C C4A PLP . . . C 2 38.398 31.274 28.784 1 73.77 ? C4A PLP 501 A 1 HETATM 8 O O4A PLP . . . C 2 39.12 32.132 28.33 1 73.7 ? O4A PLP 501 A 1 HETATM 9 C C5 PLP . . . C 2 37.534 29.578 27.134 1 72.68 ? C5 PLP 501 A 1 HETATM 10 C C6 PLP . . . C 2 36.445 29.026 26.517 1 72.02 ? C6 PLP 501 A 1 HETATM 11 C C5A PLP . . . C 2 38.911 29.092 26.771 1 73.08 ? C5A PLP 501 A 1 HETATM 12 O O4P PLP . . . C 2 39.389 29.786 25.577 1 72.54 ? O4P PLP 501 A 1 HETATM 13 P P PLP . . . C 2 39.63 29.043 24.171 1 72.01 ? P PLP 501 A 1 HETATM 14 O O1P PLP . . . C 2 40.304 30.061 23.286 1 71.66 ? O1P PLP 501 A 1 HETATM 15 O O2P PLP . . . C 2 40.518 27.864 24.464 1 72.74 ? O2P PLP 501 A 1 HETATM 16 O O3P PLP . . . C 2 38.265 28.645 23.672 1 71.25 ? O3P PLP 501 A 1 HETATM 17 H H2A1 PLP . . . C 2 33.293 30.621 28.83 1 20.69 ? H2A1 PLP 501 A 1 HETATM 18 H H2A2 PLP . . . C 2 32.926 30.23 27.339 1 20.69 ? H2A2 PLP 501 A 1 HETATM 19 H H2A3 PLP . . . C 2 33.394 31.705 27.676 1 20.69 ? H2A3 PLP 501 A 1 HETATM 20 H HO3 PLP . . . C 2 35.608 31.614 29.989 1 20.69 ? HO3 PLP 501 A 1 HETATM 21 H H4A PLP . . . C 2 38.547 31.008 29.682 1 20.69 ? H4A PLP 501 A 1 HETATM 22 H H6 PLP . . . C 2 36.581 28.348 25.89 1 20.69 ? H6 PLP 501 A 1 HETATM 23 H H5A1 PLP . . . C 2 38.888 28.13 26.59 1 20.69 ? H5A1 PLP 501 A 1 HETATM 24 H H5A2 PLP . . . C 2 39.54 29.243 27.508 1 20.69 ? H5A2 PLP 501 A 1 # _model_server_stats.io_time_ms 73 _model_server_stats.parse_time_ms 25 _model_server_stats.create_model_time_ms 8 _model_server_stats.query_time_ms 273 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 24 #