data_6FYQ # _model_server_result.job_id idmafX8k85ceNbwO5nHbJA _model_server_result.datetime_utc '2024-12-21 18:36:35' _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 6fyq # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":501}' # _entry.id 6FYQ # _exptl.entry_id 6FYQ _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 120 _cell.entry_id 6FYQ _cell.length_a 100.886 _cell.length_b 100.886 _cell.length_c 97.411 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6FYQ _symmetry.cell_setting ? _symmetry.Int_Tables_number 154 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 32 2 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _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 _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' 5_555 x-y,-y,-z+1/3 1 0 0 0 -1 0 0 0 -1 0 0 32.470333 # _struct_asym.details ? _struct_asym.entity_id 2 _struct_asym.id B _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 269 n y N1 C6 PLP sing 270 n y C2 C2A PLP sing 271 n n C2 C3 PLP sing 272 n y C2A H2A1 PLP sing 273 n n C2A H2A2 PLP sing 274 n n C2A H2A3 PLP sing 275 n n C3 O3 PLP sing 276 n n C3 C4 PLP doub 277 n y O3 HO3 PLP sing 278 n n C4 C4A PLP sing 279 n n C4 C5 PLP sing 280 n y C4A O4A PLP doub 281 n n C4A H4A PLP sing 282 n n C5 C6 PLP doub 283 n y C5 C5A PLP sing 284 n n C6 H6 PLP sing 285 n n C5A O4P PLP sing 286 n n C5A H5A1 PLP sing 287 n n C5A H5A2 PLP sing 288 n n O4P P PLP sing 289 n n P O1P PLP doub 290 n n P O2P PLP sing 291 n n P O3P PLP sing 292 n n O2P HOP2 PLP sing 293 n n O3P HOP3 PLP sing 294 n n # _atom_sites.entry_id 6FYQ _atom_sites.fract_transf_matrix[1][1] 0.009912 _atom_sites.fract_transf_matrix[1][2] 0.005723 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.011446 _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] 0.010266 _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 B 2 PLP A 1 501 1 PLP PLP . C 3 EDO A 1 502 2 EDO EDO . D 3 EDO A 1 503 3 EDO EDO . E 3 EDO A 1 504 4 EDO EDO . F 4 CL A 1 505 1 CL CL . G 5 HOH A 1 601 35 HOH HOH . G 5 HOH A 2 602 74 HOH HOH . G 5 HOH A 3 603 39 HOH HOH . G 5 HOH A 4 604 22 HOH HOH . G 5 HOH A 5 605 38 HOH HOH . G 5 HOH A 6 606 61 HOH HOH . G 5 HOH A 7 607 68 HOH HOH . G 5 HOH A 8 608 41 HOH HOH . G 5 HOH A 9 609 67 HOH HOH . G 5 HOH A 10 610 79 HOH HOH . G 5 HOH A 11 611 71 HOH HOH . G 5 HOH A 12 612 29 HOH HOH . G 5 HOH A 13 613 73 HOH HOH . G 5 HOH A 14 614 6 HOH HOH . G 5 HOH A 15 615 17 HOH HOH . G 5 HOH A 16 616 70 HOH HOH . G 5 HOH A 17 617 10 HOH HOH . G 5 HOH A 18 618 7 HOH HOH . G 5 HOH A 19 619 43 HOH HOH . G 5 HOH A 20 620 16 HOH HOH . G 5 HOH A 21 621 62 HOH HOH . G 5 HOH A 22 622 9 HOH HOH . G 5 HOH A 23 623 49 HOH HOH . G 5 HOH A 24 624 19 HOH HOH . G 5 HOH A 25 625 5 HOH HOH . G 5 HOH A 26 626 26 HOH HOH . G 5 HOH A 27 627 8 HOH HOH . G 5 HOH A 28 628 11 HOH HOH . G 5 HOH A 29 629 34 HOH HOH . G 5 HOH A 30 630 24 HOH HOH . G 5 HOH A 31 631 4 HOH HOH . G 5 HOH A 32 632 30 HOH HOH . G 5 HOH A 33 633 37 HOH HOH . G 5 HOH A 34 634 60 HOH HOH . G 5 HOH A 35 635 72 HOH HOH . G 5 HOH A 36 636 33 HOH HOH . G 5 HOH A 37 637 57 HOH HOH . G 5 HOH A 38 638 45 HOH HOH . G 5 HOH A 39 639 23 HOH HOH . G 5 HOH A 40 640 63 HOH HOH . G 5 HOH A 41 641 14 HOH HOH . G 5 HOH A 42 642 13 HOH HOH . G 5 HOH A 43 643 25 HOH HOH . G 5 HOH A 44 644 21 HOH HOH . G 5 HOH A 45 645 27 HOH HOH . G 5 HOH A 46 646 55 HOH HOH . G 5 HOH A 47 647 54 HOH HOH . G 5 HOH A 48 648 20 HOH HOH . G 5 HOH A 49 649 78 HOH HOH . G 5 HOH A 50 650 51 HOH HOH . G 5 HOH A 51 651 64 HOH HOH . G 5 HOH A 52 652 56 HOH HOH . G 5 HOH A 53 653 52 HOH HOH . G 5 HOH A 54 654 15 HOH HOH . G 5 HOH A 55 655 65 HOH HOH . G 5 HOH A 56 656 48 HOH HOH . G 5 HOH A 57 657 77 HOH HOH . G 5 HOH A 58 658 46 HOH HOH . G 5 HOH A 59 659 40 HOH HOH . G 5 HOH A 60 660 12 HOH HOH . G 5 HOH A 61 661 80 HOH HOH . G 5 HOH A 62 662 28 HOH HOH . G 5 HOH A 63 663 66 HOH HOH . G 5 HOH A 64 664 32 HOH HOH . G 5 HOH A 65 665 44 HOH HOH . G 5 HOH A 66 666 53 HOH HOH . G 5 HOH A 67 667 18 HOH HOH . G 5 HOH A 68 668 58 HOH HOH . G 5 HOH A 69 669 42 HOH HOH . G 5 HOH A 70 670 59 HOH HOH . G 5 HOH A 71 671 76 HOH HOH . G 5 HOH A 72 672 75 HOH HOH . G 5 HOH A 73 673 50 HOH HOH . G 5 HOH A 74 674 69 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 . . . B 2 32.724 11.113 12.28 1 32.3 ? N1 PLP 501 A 1 HETATM 2 C C2 PLP . . . B 2 33.207 11.846 11.197 1 33.53 ? C2 PLP 501 A 1 HETATM 3 C C2A PLP . . . B 2 32.977 13.334 11.154 1 36.03 ? C2A PLP 501 A 1 HETATM 4 C C3 PLP . . . B 2 33.89 11.209 10.142 1 37.52 ? C3 PLP 501 A 1 HETATM 5 O O3 PLP . . . B 2 34.368 11.949 9.077 1 37.15 ? O3 PLP 501 A 1 HETATM 6 C C4 PLP . . . B 2 34.105 9.813 10.198 1 36.04 ? C4 PLP 501 A 1 HETATM 7 C C4A PLP . . . B 2 34.962 9.097 9.185 1 42.33 ? C4A PLP 501 A 1 HETATM 8 O O4A PLP . . . B 2 35.287 9.71 8.162 1 56.12 ? O4A PLP 501 A 1 HETATM 9 C C5 PLP . . . B 2 33.603 9.098 11.284 1 34.21 ? C5 PLP 501 A 1 HETATM 10 C C6 PLP . . . B 2 32.91 9.752 12.312 1 32.21 ? C6 PLP 501 A 1 HETATM 11 C C5A PLP . . . B 2 33.813 7.587 11.366 1 33.91 ? C5A PLP 501 A 1 HETATM 12 O O4P PLP . . . B 2 35.151 7.314 11.805 1 37.91 ? O4P PLP 501 A 1 HETATM 13 P P PLP . . . B 2 35.788 5.845 11.539 1 33.28 ? P PLP 501 A 1 HETATM 14 O O1P PLP . . . B 2 35.862 5.727 10.051 1 31.16 ? O1P PLP 501 A 1 HETATM 15 O O2P PLP . . . B 2 34.91 4.827 12.221 1 35.64 ? O2P PLP 501 A 1 HETATM 16 O O3P PLP . . . B 2 37.139 5.831 12.262 1 32.18 ? O3P PLP 501 A 1 HETATM 17 H H2A1 PLP . . . B 2 33.433 13.747 10.254 1 43.23 ? H2A1 PLP 501 A 1 HETATM 18 H H2A2 PLP . . . B 2 33.426 13.797 12.033 1 43.23 ? H2A2 PLP 501 A 1 HETATM 19 H H2A3 PLP . . . B 2 31.906 13.536 11.144 1 43.23 ? H2A3 PLP 501 A 1 HETATM 20 H HO3 PLP . . . B 2 34.888 11.369 8.483 1 44.57 ? HO3 PLP 501 A 1 HETATM 21 H H4A PLP . . . B 2 35.339 8.095 9.386 1 50.8 ? H4A PLP 501 A 1 HETATM 22 H H6 PLP . . . B 2 32.514 9.174 13.148 1 38.65 ? H6 PLP 501 A 1 HETATM 23 H H5A1 PLP . . . B 2 33.098 7.15 12.064 1 40.69 ? H5A1 PLP 501 A 1 HETATM 24 H H5A2 PLP . . . B 2 33.645 7.135 10.388 1 40.69 ? H5A2 PLP 501 A 1 # _model_server_stats.io_time_ms 15 _model_server_stats.parse_time_ms 18 _model_server_stats.create_model_time_ms 17 _model_server_stats.query_time_ms 328 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 24 #