data_6GBV # _model_server_result.job_id rySjCJfTvYWA9VCHk7lwDA _model_server_result.datetime_utc '2024-12-26 15:57:02' _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 6gbv # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":500}' # _entry.id 6GBV # _exptl.entry_id 6GBV _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 456.344 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'FLAVIN MONONUCLEOTIDE' _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 112.88 _cell.angle_gamma 90 _cell.entry_id 6GBV _cell.length_a 90.076 _cell.length_b 31.086 _cell.length_c 49.411 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6GBV _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,D _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 19.211114 0 -45.523401 # _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 H21 N4 O9 P' _chem_comp.formula_weight 456.344 _chem_comp.id FMN _chem_comp.mon_nstd_flag . _chem_comp.name 'FLAVIN MONONUCLEOTIDE' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms 'RIBOFLAVIN MONOPHOSPHATE' # 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 FMN sing 83 n n N1 C10 FMN doub 84 n n C2 O2 FMN doub 85 n n C2 N3 FMN sing 86 n n N3 C4 FMN sing 87 n n N3 HN3 FMN sing 88 n n C4 O4 FMN doub 89 n n C4 C4A FMN sing 90 n n C4A N5 FMN doub 91 n n C4A C10 FMN sing 92 n n N5 C5A FMN sing 93 n n C5A C6 FMN doub 94 n y C5A C9A FMN sing 95 n y C6 C7 FMN sing 96 n y C6 H6 FMN sing 97 n n C7 C7M FMN sing 98 n n C7 C8 FMN doub 99 n y C7M HM71 FMN sing 100 n n C7M HM72 FMN sing 101 n n C7M HM73 FMN sing 102 n n C8 C8M FMN sing 103 n n C8 C9 FMN sing 104 n y C8M HM81 FMN sing 105 n n C8M HM82 FMN sing 106 n n C8M HM83 FMN sing 107 n n C9 C9A FMN doub 108 n y C9 H9 FMN sing 109 n n C9A N10 FMN sing 110 n n N10 C10 FMN sing 111 n n N10 C1' FMN sing 112 n n C1' C2' FMN sing 113 n n C1' "H1'1" FMN sing 114 n n C1' "H1'2" FMN sing 115 n n C2' O2' FMN sing 116 n n C2' C3' FMN sing 117 n n C2' H2' FMN sing 118 n n O2' HO2' FMN sing 119 n n C3' O3' FMN sing 120 n n C3' C4' FMN sing 121 n n C3' H3' FMN sing 122 n n O3' HO3' FMN sing 123 n n C4' O4' FMN sing 124 n n C4' C5' FMN sing 125 n n C4' H4' FMN sing 126 n n O4' HO4' FMN sing 127 n n C5' O5' FMN sing 128 n n C5' "H5'1" FMN sing 129 n n C5' "H5'2" FMN sing 130 n n O5' P FMN sing 131 n n P O1P FMN doub 132 n n P O2P FMN sing 133 n n P O3P FMN sing 134 n n O2P HOP2 FMN sing 135 n n O3P HOP3 FMN sing 136 n n # _atom_sites.entry_id 6GBV _atom_sites.fract_transf_matrix[1][1] 0.011102 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.004685 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.032169 _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] 0.021967 _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 FMN A 1 500 500 FMN FMN . C 3 PO4 A 1 501 501 PO4 PO4 . D 4 HOH A 1 601 68 HOH HOH . D 4 HOH A 2 602 38 HOH HOH . D 4 HOH A 3 603 5 HOH HOH . D 4 HOH A 4 604 42 HOH HOH . D 4 HOH A 5 605 9 HOH HOH . D 4 HOH A 6 606 17 HOH HOH . D 4 HOH A 7 607 61 HOH HOH . D 4 HOH A 8 608 20 HOH HOH . D 4 HOH A 9 609 49 HOH HOH . D 4 HOH A 10 610 7 HOH HOH . D 4 HOH A 11 611 19 HOH HOH . D 4 HOH A 12 612 24 HOH HOH . D 4 HOH A 13 613 1 HOH HOH . D 4 HOH A 14 614 44 HOH HOH . D 4 HOH A 15 615 21 HOH HOH . D 4 HOH A 16 616 52 HOH HOH . D 4 HOH A 17 617 14 HOH HOH . D 4 HOH A 18 618 63 HOH HOH . D 4 HOH A 19 619 39 HOH HOH . D 4 HOH A 20 620 29 HOH HOH . D 4 HOH A 21 621 37 HOH HOH . D 4 HOH A 22 622 34 HOH HOH . D 4 HOH A 23 623 12 HOH HOH . D 4 HOH A 24 624 13 HOH HOH . D 4 HOH A 25 625 71 HOH HOH . D 4 HOH A 26 626 36 HOH HOH . D 4 HOH A 27 627 3 HOH HOH . D 4 HOH A 28 628 73 HOH HOH . D 4 HOH A 29 629 65 HOH HOH . D 4 HOH A 30 630 57 HOH HOH . D 4 HOH A 31 631 23 HOH HOH . D 4 HOH A 32 632 35 HOH HOH . D 4 HOH A 33 633 76 HOH HOH . D 4 HOH A 34 634 67 HOH HOH . D 4 HOH A 35 635 33 HOH HOH . D 4 HOH A 36 636 60 HOH HOH . D 4 HOH A 37 637 32 HOH HOH . D 4 HOH A 38 638 26 HOH HOH . D 4 HOH A 39 639 10 HOH HOH . D 4 HOH A 40 640 16 HOH HOH . D 4 HOH A 41 641 74 HOH HOH . D 4 HOH A 42 642 41 HOH HOH . D 4 HOH A 43 643 30 HOH HOH . D 4 HOH A 44 644 75 HOH HOH . D 4 HOH A 45 645 48 HOH HOH . D 4 HOH A 46 646 45 HOH HOH . D 4 HOH A 47 647 15 HOH HOH . D 4 HOH A 48 648 27 HOH HOH . D 4 HOH A 49 649 11 HOH HOH . D 4 HOH A 50 650 58 HOH HOH . D 4 HOH A 51 651 50 HOH HOH . D 4 HOH A 52 652 47 HOH HOH . D 4 HOH A 53 653 62 HOH HOH . D 4 HOH A 54 654 53 HOH HOH . D 4 HOH A 55 655 2 HOH HOH . D 4 HOH A 56 656 40 HOH HOH . D 4 HOH A 57 657 6 HOH HOH . D 4 HOH A 58 658 18 HOH HOH . D 4 HOH A 59 659 28 HOH HOH . D 4 HOH A 60 660 66 HOH HOH . D 4 HOH A 61 661 22 HOH HOH . D 4 HOH A 62 662 77 HOH HOH . D 4 HOH A 63 663 59 HOH HOH . D 4 HOH A 64 664 56 HOH HOH . D 4 HOH A 65 665 64 HOH HOH . D 4 HOH A 66 666 4 HOH HOH . D 4 HOH A 67 667 8 HOH HOH . D 4 HOH A 68 668 31 HOH HOH . D 4 HOH A 69 669 54 HOH HOH . D 4 HOH A 70 670 70 HOH HOH . D 4 HOH A 71 671 55 HOH HOH . D 4 HOH A 72 672 69 HOH HOH . D 4 HOH A 73 673 51 HOH HOH . D 4 HOH A 74 674 46 HOH HOH . D 4 HOH A 75 675 72 HOH HOH . D 4 HOH A 76 676 25 HOH HOH . D 4 HOH A 77 677 78 HOH HOH . D 4 HOH A 78 678 43 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 FMN . . . B 2 11.119 -3.427 -2.35 1 23.25 ? N1 FMN 500 A 1 HETATM 2 C C2 FMN . . . B 2 11.745 -2.833 -1.285 1 24.66 ? C2 FMN 500 A 1 HETATM 3 O O2 FMN . . . B 2 11.884 -3.464 -0.241 1 23.75 ? O2 FMN 500 A 1 HETATM 4 N N3 FMN . . . B 2 12.209 -1.537 -1.399 1 25.99 ? N3 FMN 500 A 1 HETATM 5 C C4 FMN . . . B 2 12.037 -0.832 -2.575 1 27.67 ? C4 FMN 500 A 1 HETATM 6 O O4 FMN . . . B 2 12.452 0.326 -2.68 1 31.02 ? O4 FMN 500 A 1 HETATM 7 C C4A FMN . . . B 2 11.406 -1.433 -3.654 1 23.97 ? C4A FMN 500 A 1 HETATM 8 N N5 FMN . . . B 2 11.246 -0.736 -4.838 1 22.05 ? N5 FMN 500 A 1 HETATM 9 C C5A FMN . . . B 2 10.589 -1.347 -5.887 1 19.49 ? C5A FMN 500 A 1 HETATM 10 C C6 FMN . . . B 2 10.392 -0.668 -7.082 1 20.57 ? C6 FMN 500 A 1 HETATM 11 C C7 FMN . . . B 2 9.751 -1.29 -8.147 1 21.83 ? C7 FMN 500 A 1 HETATM 12 C C7M FMN . . . B 2 9.535 -0.562 -9.437 1 24.47 ? C7M FMN 500 A 1 HETATM 13 C C8 FMN . . . B 2 9.282 -2.592 -8.005 1 20.52 ? C8 FMN 500 A 1 HETATM 14 C C8M FMN . . . B 2 8.575 -3.279 -9.13 1 23.64 ? C8M FMN 500 A 1 HETATM 15 C C9 FMN . . . B 2 9.462 -3.265 -6.811 1 21.72 ? C9 FMN 500 A 1 HETATM 16 C C9A FMN . . . B 2 10.124 -2.651 -5.756 1 22.4 ? C9A FMN 500 A 1 HETATM 17 N N10 FMN . . . B 2 10.308 -3.349 -4.587 1 23.63 ? N10 FMN 500 A 1 HETATM 18 C C10 FMN . . . B 2 10.937 -2.736 -3.528 1 24.16 ? C10 FMN 500 A 1 HETATM 19 C C1' FMN . . . B 2 9.768 -4.75 -4.457 1 27.1 ? C1' FMN 500 A 1 HETATM 20 C C2' FMN . . . B 2 10.721 -5.889 -4.797 1 34.25 ? C2' FMN 500 A 1 HETATM 21 O O2' FMN . . . B 2 11.272 -5.716 -6.08 1 35.71 ? O2' FMN 500 A 1 HETATM 22 C C3' FMN . . . B 2 9.918 -7.18 -4.8 1 41.67 ? C3' FMN 500 A 1 HETATM 23 O O3' FMN . . . B 2 8.86 -7.05 -5.728 1 39.33 ? O3' FMN 500 A 1 HETATM 24 C C4' FMN . . . B 2 9.366 -7.475 -3.409 1 48.95 ? C4' FMN 500 A 1 HETATM 25 O O4' FMN . . . B 2 10.409 -7.926 -2.576 1 48.85 ? O4' FMN 500 A 1 HETATM 26 C C5' FMN . . . B 2 8.298 -8.556 -3.454 1 56.44 ? C5' FMN 500 A 1 HETATM 27 O O5' FMN . . . B 2 8.676 -9.533 -4.396 1 62.8 ? O5' FMN 500 A 1 HETATM 28 P P FMN . . . B 2 9.431 -10.875 -3.922 1 74.55 ? P FMN 500 A 1 HETATM 29 O O1P FMN . . . B 2 10.597 -10.486 -3.04 1 78.73 ? O1P FMN 500 A 1 HETATM 30 O O2P FMN . . . B 2 8.466 -11.731 -3.131 1 75.11 ? O2P FMN 500 A 1 HETATM 31 O O3P FMN . . . B 2 9.933 -11.639 -5.126 1 72.36 ? O3P FMN 500 A 1 # _model_server_stats.io_time_ms 53 _model_server_stats.parse_time_ms 16 _model_server_stats.create_model_time_ms 12 _model_server_stats.query_time_ms 315 _model_server_stats.encode_time_ms 9 _model_server_stats.element_count 31 #