data_6KBH # _model_server_result.job_id 3On7ymQ9XFkqao-bCVHDNQ _model_server_result.datetime_utc '2024-10-19 21:39:06' _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 6kbh # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":801}' # _entry.id 6KBH # _exptl.entry_id 6KBH _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 98.12 _cell.angle_gamma 90 _cell.entry_id 6KBH _cell.length_a 131.762 _cell.length_b 55.484 _cell.length_c 135.96 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6KBH _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 monomeric _pdbx_struct_assembly.oligomeric_count 1 _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 _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 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 # _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 # 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 A SG CYS 393 A CYS 393 1_555 C FE HEM . A HEM 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.308 ? metalc ? metalc2 A SG CYS 735 A CYS 735 1_555 D FE1 FES . A FES 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.305 ? metalc ? metalc3 A SG CYS 740 A CYS 740 1_555 D FE1 FES . A FES 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.296 ? metalc ? metalc4 A SG CYS 743 A CYS 743 1_555 D FE2 FES . A FES 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.297 ? metalc ? metalc5 A SG CYS 773 A CYS 773 1_555 D FE2 FES . A FES 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.303 ? # _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 87 n n N1 C10 FMN doub 88 n n C2 O2 FMN doub 89 n n C2 N3 FMN sing 90 n n N3 C4 FMN sing 91 n n N3 HN3 FMN sing 92 n n C4 O4 FMN doub 93 n n C4 C4A FMN sing 94 n n C4A N5 FMN doub 95 n n C4A C10 FMN sing 96 n n N5 C5A FMN sing 97 n n C5A C6 FMN doub 98 n y C5A C9A FMN sing 99 n y C6 C7 FMN sing 100 n y C6 H6 FMN sing 101 n n C7 C7M FMN sing 102 n n C7 C8 FMN doub 103 n y C7M HM71 FMN sing 104 n n C7M HM72 FMN sing 105 n n C7M HM73 FMN sing 106 n n C8 C8M FMN sing 107 n n C8 C9 FMN sing 108 n y C8M HM81 FMN sing 109 n n C8M HM82 FMN sing 110 n n C8M HM83 FMN sing 111 n n C9 C9A FMN doub 112 n y C9 H9 FMN sing 113 n n C9A N10 FMN sing 114 n n N10 C10 FMN sing 115 n n N10 C1' FMN sing 116 n n C1' C2' FMN sing 117 n n C1' "H1'1" FMN sing 118 n n C1' "H1'2" FMN sing 119 n n C2' O2' FMN sing 120 n n C2' C3' FMN sing 121 n n C2' H2' FMN sing 122 n n O2' HO2' FMN sing 123 n n C3' O3' FMN sing 124 n n C3' C4' FMN sing 125 n n C3' H3' FMN sing 126 n n O3' HO3' FMN sing 127 n n C4' O4' FMN sing 128 n n C4' C5' FMN sing 129 n n C4' H4' FMN sing 130 n n O4' HO4' FMN sing 131 n n C5' O5' FMN sing 132 n n C5' "H5'1" FMN sing 133 n n C5' "H5'2" FMN sing 134 n n O5' P FMN sing 135 n n P O1P FMN doub 136 n n P O2P FMN sing 137 n n P O3P FMN sing 138 n n O2P HOP2 FMN sing 139 n n O3P HOP3 FMN sing 140 n n # _atom_sites.entry_id 6KBH _atom_sites.fract_transf_matrix[1][1] 0.007589 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.001083 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.018023 _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] 0.00743 _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 1 801 790 FMN FMN . C 3 HEM A 1 802 791 HEM HEM . D 4 FES A 1 803 792 FES FES . E 5 HOH A 1 901 802 HOH HOH . E 5 HOH A 2 902 804 HOH HOH . E 5 HOH A 3 903 805 HOH HOH . E 5 HOH A 4 904 801 HOH HOH . E 5 HOH A 5 905 803 HOH HOH . E 5 HOH A 6 906 793 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 -28.239 -13.56 54.487 1 106.63 ? N1 FMN 801 A 1 HETATM 2 C C2 FMN . . . B 2 -28.497 -13.026 53.284 1 107.64 ? C2 FMN 801 A 1 HETATM 3 O O2 FMN . . . B 2 -29.173 -13.703 52.443 1 111.58 ? O2 FMN 801 A 1 HETATM 4 N N3 FMN . . . B 2 -28.067 -11.807 52.933 1 107.3 ? N3 FMN 801 A 1 HETATM 5 C C4 FMN . . . B 2 -27.351 -11.087 53.82 1 104.56 ? C4 FMN 801 A 1 HETATM 6 O O4 FMN . . . B 2 -26.905 -9.85 53.491 1 112.62 ? O4 FMN 801 A 1 HETATM 7 C C4A FMN . . . B 2 -27.07 -11.615 55.079 1 103.67 ? C4A FMN 801 A 1 HETATM 8 N N5 FMN . . . B 2 -26.355 -10.887 55.952 1 98.03 ? N5 FMN 801 A 1 HETATM 9 C C5A FMN . . . B 2 -26.088 -11.408 57.155 1 96.99 ? C5A FMN 801 A 1 HETATM 10 C C6 FMN . . . B 2 -25.351 -10.633 58.032 1 91.54 ? C6 FMN 801 A 1 HETATM 11 C C7 FMN . . . B 2 -25.049 -11.117 59.283 1 95.05 ? C7 FMN 801 A 1 HETATM 12 C C7M FMN . . . B 2 -24.214 -10.149 60.157 1 95.25 ? C7M FMN 801 A 1 HETATM 13 C C8 FMN . . . B 2 -25.484 -12.386 59.685 1 91.05 ? C8 FMN 801 A 1 HETATM 14 C C8M FMN . . . B 2 -25.17 -12.963 61.051 1 76.38 ? C8M FMN 801 A 1 HETATM 15 C C9 FMN . . . B 2 -26.238 -13.157 58.807 1 91.87 ? C9 FMN 801 A 1 HETATM 16 C C9A FMN . . . B 2 -26.536 -12.68 57.527 1 94.17 ? C9A FMN 801 A 1 HETATM 17 N N10 FMN . . . B 2 -27.261 -13.407 56.648 1 95.39 ? N10 FMN 801 A 1 HETATM 18 C C10 FMN . . . B 2 -27.528 -12.884 55.419 1 104.29 ? C10 FMN 801 A 1 HETATM 19 C C1' FMN . . . B 2 -27.743 -14.787 56.97 1 93.64 ? C1' FMN 801 A 1 HETATM 20 C C2' FMN . . . B 2 -26.705 -15.839 56.671 1 101.02 ? C2' FMN 801 A 1 HETATM 21 O O2' FMN . . . B 2 -26.447 -16 55.337 1 95.4 ? O2' FMN 801 A 1 HETATM 22 C C3' FMN . . . B 2 -27.105 -17.174 57.245 1 99.96 ? C3' FMN 801 A 1 HETATM 23 O O3' FMN . . . B 2 -28.361 -17.625 56.811 1 104.56 ? O3' FMN 801 A 1 HETATM 24 C C4' FMN . . . B 2 -27.048 -17.154 58.788 1 103.12 ? C4' FMN 801 A 1 HETATM 25 O O4' FMN . . . B 2 -25.96 -16.593 59.419 1 102.38 ? O4' FMN 801 A 1 HETATM 26 C C5' FMN . . . B 2 -27.051 -18.597 59.376 1 101.05 ? C5' FMN 801 A 1 HETATM 27 O O5' FMN . . . B 2 -26.239 -19.592 58.704 1 103.68 ? O5' FMN 801 A 1 HETATM 28 P P FMN . . . B 2 -26.506 -21.107 59.018 1 96.66 ? P FMN 801 A 1 HETATM 29 O O1P FMN . . . B 2 -26.028 -21.961 57.872 1 98.48 ? O1P FMN 801 A 1 HETATM 30 O O2P FMN . . . B 2 -25.773 -21.537 60.249 1 99.14 ? O2P FMN 801 A 1 HETATM 31 O O3P FMN . . . B 2 -27.979 -21.273 59.225 1 112.24 ? O3P FMN 801 A 1 # _model_server_stats.io_time_ms 24 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 7 _model_server_stats.query_time_ms 303 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 31 #