data_4KUO # _model_server_result.job_id BLg0-5IXDpD3qjRKrAjeIQ _model_server_result.datetime_utc '2024-11-13 20:54:55' _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 4kuo # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":500}' # _entry.id 4KUO # _exptl.entry_id 4KUO _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 376.364 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description RIBOFLAVIN _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 113.09 _cell.angle_gamma 90 _cell.entry_id 4KUO _cell.length_a 90.78 _cell.length_b 30.936 _cell.length_c 49.538 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4KUO _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 1 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 _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' 2_554 -x,y,-z-1 -1 0 0 0 1 0 0 0 -1 19.427643 0 -45.569509 # _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 'C17 H20 N4 O6' _chem_comp.formula_weight 376.364 _chem_comp.id RBF _chem_comp.mon_nstd_flag . _chem_comp.name RIBOFLAVIN _chem_comp.type non-polymer _chem_comp.pdbx_synonyms 'RIBOFLAVINE;VITAMIN B2' # 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 RBF sing 277 n n N1 C10 RBF doub 278 n n C2 O2 RBF doub 279 n n C2 N3 RBF sing 280 n n N3 C4 RBF sing 281 n n N3 HN3 RBF sing 282 n n C4 O4 RBF doub 283 n n C4 C4A RBF sing 284 n n C4A N5 RBF doub 285 n n C4A C10 RBF sing 286 n n N5 C5A RBF sing 287 n n C5A C6 RBF doub 288 n y C5A C9A RBF sing 289 n y C6 C7 RBF sing 290 n y C6 HC6 RBF sing 291 n n C7 C7M RBF sing 292 n n C7 C8 RBF doub 293 n y C7M HC71 RBF sing 294 n n C7M HC72 RBF sing 295 n n C7M HC73 RBF sing 296 n n C8 C8M RBF sing 297 n n C8 C9 RBF sing 298 n y C8M HC81 RBF sing 299 n n C8M HC82 RBF sing 300 n n C8M HC83 RBF sing 301 n n C9 C9A RBF doub 302 n y C9 HC9 RBF sing 303 n n C9A N10 RBF sing 304 n n N10 C10 RBF sing 305 n n N10 C1' RBF sing 306 n n C1' C2' RBF sing 307 n n C1' HC11 RBF sing 308 n n C1' HC12 RBF sing 309 n n C2' O2' RBF sing 310 n n C2' C3' RBF sing 311 n n C2' HC2' RBF sing 312 n n O2' HO2' RBF sing 313 n n C3' O3' RBF sing 314 n n C3' C4' RBF sing 315 n n C3' HC3' RBF sing 316 n n O3' HO3' RBF sing 317 n n C4' O4' RBF sing 318 n n C4' C5' RBF sing 319 n n C4' HC4' RBF sing 320 n n O4' HO4' RBF sing 321 n n C5' O5' RBF sing 322 n n C5' HC51 RBF sing 323 n n C5' HC52 RBF sing 324 n n O5' HO5' RBF sing 325 n n # _atom_sites.entry_id 4KUO _atom_sites.fract_transf_matrix[1][1] 0.011016 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.004696 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.032325 _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] 0.021944 _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 RBF A 1 500 500 RBF RBF . C 3 HOH A 1 601 1 HOH HOH . C 3 HOH A 2 602 2 HOH HOH . C 3 HOH A 3 603 3 HOH HOH . C 3 HOH A 4 604 4 HOH HOH . C 3 HOH A 5 605 5 HOH HOH . C 3 HOH A 6 606 6 HOH HOH . C 3 HOH A 7 607 7 HOH HOH . C 3 HOH A 8 608 8 HOH HOH . C 3 HOH A 9 609 9 HOH HOH . C 3 HOH A 10 610 10 HOH HOH . C 3 HOH A 11 611 11 HOH HOH . C 3 HOH A 12 612 12 HOH HOH . C 3 HOH A 13 613 13 HOH HOH . C 3 HOH A 14 614 14 HOH HOH . C 3 HOH A 15 615 15 HOH HOH . C 3 HOH A 16 616 16 HOH HOH . C 3 HOH A 17 617 17 HOH HOH . C 3 HOH A 18 618 18 HOH HOH . C 3 HOH A 19 619 19 HOH HOH . C 3 HOH A 20 620 20 HOH HOH . C 3 HOH A 21 621 21 HOH HOH . C 3 HOH A 22 622 22 HOH HOH . C 3 HOH A 23 623 23 HOH HOH . C 3 HOH A 24 624 24 HOH HOH . C 3 HOH A 25 625 25 HOH HOH . C 3 HOH A 26 626 26 HOH HOH . C 3 HOH A 27 627 27 HOH HOH . C 3 HOH A 28 628 28 HOH HOH . C 3 HOH A 29 629 29 HOH HOH . C 3 HOH A 30 630 30 HOH HOH . C 3 HOH A 31 631 31 HOH HOH . C 3 HOH A 32 632 32 HOH HOH . C 3 HOH A 33 633 33 HOH HOH . C 3 HOH A 34 634 34 HOH HOH . C 3 HOH A 35 635 35 HOH HOH . C 3 HOH A 36 636 36 HOH HOH . C 3 HOH A 37 637 37 HOH HOH . C 3 HOH A 38 638 38 HOH HOH . C 3 HOH A 39 639 39 HOH HOH . C 3 HOH A 40 640 40 HOH HOH . C 3 HOH A 41 641 41 HOH HOH . C 3 HOH A 42 642 42 HOH HOH . C 3 HOH A 43 643 43 HOH HOH . C 3 HOH A 44 644 44 HOH HOH . C 3 HOH A 45 645 45 HOH HOH . C 3 HOH A 46 646 46 HOH HOH . C 3 HOH A 47 647 47 HOH HOH . C 3 HOH A 48 648 48 HOH HOH . C 3 HOH A 49 649 49 HOH HOH . C 3 HOH A 50 650 50 HOH HOH . C 3 HOH A 51 651 51 HOH HOH . C 3 HOH A 52 652 52 HOH HOH . C 3 HOH A 53 653 53 HOH HOH . C 3 HOH A 54 654 54 HOH HOH . C 3 HOH A 55 655 55 HOH HOH . C 3 HOH A 56 656 56 HOH HOH . C 3 HOH A 57 657 57 HOH HOH . C 3 HOH A 58 658 58 HOH HOH . C 3 HOH A 59 659 59 HOH HOH . C 3 HOH A 60 660 60 HOH HOH . C 3 HOH A 61 661 61 HOH HOH . C 3 HOH A 62 662 62 HOH HOH . C 3 HOH A 63 663 63 HOH HOH . C 3 HOH A 64 664 64 HOH HOH . C 3 HOH A 65 665 65 HOH HOH . C 3 HOH A 66 666 66 HOH HOH . C 3 HOH A 67 667 67 HOH HOH . C 3 HOH A 68 668 68 HOH HOH . C 3 HOH A 69 669 69 HOH HOH . C 3 HOH A 70 670 70 HOH HOH . C 3 HOH A 71 671 71 HOH HOH . C 3 HOH A 72 672 72 HOH HOH . C 3 HOH A 73 673 73 HOH HOH . C 3 HOH A 74 674 74 HOH HOH . C 3 HOH A 75 675 75 HOH HOH . C 3 HOH A 76 676 76 HOH HOH . C 3 HOH A 77 677 77 HOH HOH . C 3 HOH A 78 678 78 HOH HOH . C 3 HOH A 79 679 79 HOH HOH . C 3 HOH A 80 680 80 HOH HOH . C 3 HOH A 81 681 81 HOH HOH . C 3 HOH A 82 682 82 HOH HOH . C 3 HOH A 83 683 83 HOH HOH . C 3 HOH A 84 684 84 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 RBF . . . B 2 11.307 -2.477 -2.381 1 4.87 ? N1 RBF 500 A 1 HETATM 2 C C2 RBF . . . B 2 12.021 -1.847 -1.415 1 7.39 ? C2 RBF 500 A 1 HETATM 3 O O2 RBF . . . B 2 12.235 -2.461 -0.351 1 6.01 ? O2 RBF 500 A 1 HETATM 4 N N3 RBF . . . B 2 12.501 -0.594 -1.557 1 1.75 ? N3 RBF 500 A 1 HETATM 5 C C4 RBF . . . B 2 12.307 0.12 -2.673 1 6.55 ? C4 RBF 500 A 1 HETATM 6 O O4 RBF . . . B 2 12.758 1.281 -2.791 1 4.13 ? O4 RBF 500 A 1 HETATM 7 C C4A RBF . . . B 2 11.536 -0.5 -3.778 1 3 ? C4A RBF 500 A 1 HETATM 8 N N5 RBF . . . B 2 11.295 0.154 -4.935 1 5.39 ? N5 RBF 500 A 1 HETATM 9 C C5A RBF . . . B 2 10.583 -0.433 -5.923 1 3.56 ? C5A RBF 500 A 1 HETATM 10 C C6 RBF . . . B 2 10.344 0.266 -7.098 1 1.06 ? C6 RBF 500 A 1 HETATM 11 C C7 RBF . . . B 2 9.625 -0.314 -8.136 1 8.96 ? C7 RBF 500 A 1 HETATM 12 C C7M RBF . . . B 2 9.379 0.46 -9.408 1 3.1 ? C7M RBF 500 A 1 HETATM 13 C C8 RBF . . . B 2 9.094 -1.693 -7.982 1 3.77 ? C8 RBF 500 A 1 HETATM 14 C C8M RBF . . . B 2 8.308 -2.326 -9.105 1 6.21 ? C8M RBF 500 A 1 HETATM 15 C C9 RBF . . . B 2 9.326 -2.398 -6.805 1 4.69 ? C9 RBF 500 A 1 HETATM 16 C C9A RBF . . . B 2 10.053 -1.815 -5.767 1 3.43 ? C9A RBF 500 A 1 HETATM 17 N N10 RBF . . . B 2 10.305 -2.52 -4.568 1 3.65 ? N10 RBF 500 A 1 HETATM 18 C C10 RBF . . . B 2 11.038 -1.875 -3.557 1 2.36 ? C10 RBF 500 A 1 HETATM 19 C C1' RBF . . . B 2 9.784 -3.872 -4.354 1 3.33 ? C1' RBF 500 A 1 HETATM 20 C C2' RBF . . . B 2 10.707 -4.997 -4.799 1 4.72 ? C2' RBF 500 A 1 HETATM 21 O O2' RBF . . . B 2 11.326 -4.692 -6.053 1 9.16 ? O2' RBF 500 A 1 HETATM 22 C C3' RBF . . . B 2 9.872 -6.265 -4.928 1 5.84 ? C3' RBF 500 A 1 HETATM 23 O O3' RBF . . . B 2 8.842 -6.056 -5.896 1 9.15 ? O3' RBF 500 A 1 HETATM 24 C C4' RBF . . . B 2 9.218 -6.604 -3.594 1 15.28 ? C4' RBF 500 A 1 HETATM 25 O O4' RBF . . . B 2 10.242 -7.006 -2.685 1 7.34 ? O4' RBF 500 A 1 HETATM 26 C C5' RBF . . . B 2 8.176 -7.714 -3.727 1 13.39 ? C5' RBF 500 A 1 HETATM 27 O O5' RBF . . . B 2 8.768 -8.873 -4.328 1 15.73 ? O5' RBF 500 A 1 # _model_server_stats.io_time_ms 69 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 319 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 27 #