data_5KBW # _model_server_result.job_id Dt3DkCw5cxj-cXuDOc2R8A _model_server_result.datetime_utc '2024-11-29 08:10:38' _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 5kbw # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":201}' # _entry.id 5KBW # _exptl.entry_id 5KBW _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 2 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 95.81 _cell.angle_gamma 90 _cell.entry_id 5KBW _cell.length_a 40.142 _cell.length_b 94.365 _cell.length_c 50.986 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5KBW _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1 21 1' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id ? monomeric 1 author_defined_assembly 1 ? monomeric 1 author_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,C,E 1 1 B,D,F 2 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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 2 C N N ? 2 D N 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 covale ? covale1 A ND2 ASN 124 A ASN 123 1_555 C O4 RBF . A RBF 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.308 ? covale ? covale2 A OD1 ASN 150 A ASN 149 1_555 C N3 RBF . A RBF 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.31 ? # _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 264 n n N1 C10 RBF doub 265 n n C2 O2 RBF doub 266 n n C2 N3 RBF sing 267 n n N3 C4 RBF sing 268 n n N3 HN3 RBF sing 269 n n C4 O4 RBF doub 270 n n C4 C4A RBF sing 271 n n C4A N5 RBF doub 272 n n C4A C10 RBF sing 273 n n N5 C5A RBF sing 274 n n C5A C6 RBF doub 275 n y C5A C9A RBF sing 276 n y C6 C7 RBF sing 277 n y C6 HC6 RBF sing 278 n n C7 C7M RBF sing 279 n n C7 C8 RBF doub 280 n y C7M HC71 RBF sing 281 n n C7M HC72 RBF sing 282 n n C7M HC73 RBF sing 283 n n C8 C8M RBF sing 284 n n C8 C9 RBF sing 285 n y C8M HC81 RBF sing 286 n n C8M HC82 RBF sing 287 n n C8M HC83 RBF sing 288 n n C9 C9A RBF doub 289 n y C9 HC9 RBF sing 290 n n C9A N10 RBF sing 291 n n N10 C10 RBF sing 292 n n N10 C1' RBF sing 293 n n C1' C2' RBF sing 294 n n C1' HC11 RBF sing 295 n n C1' HC12 RBF sing 296 n n C2' O2' RBF sing 297 n n C2' C3' RBF sing 298 n n C2' HC2' RBF sing 299 n n O2' HO2' RBF sing 300 n n C3' O3' RBF sing 301 n n C3' C4' RBF sing 302 n n C3' HC3' RBF sing 303 n n O3' HO3' RBF sing 304 n n C4' O4' RBF sing 305 n n C4' C5' RBF sing 306 n n C4' HC4' RBF sing 307 n n O4' HO4' RBF sing 308 n n C5' O5' RBF sing 309 n n C5' HC51 RBF sing 310 n n C5' HC52 RBF sing 311 n n O5' HO5' RBF sing 312 n n # _atom_sites.entry_id 5KBW _atom_sites.fract_transf_matrix[1][1] 0.024912 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.002534 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.010597 _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] 0.019714 _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 RBF A 1 201 192 RBF RBF . D 2 RBF B 1 201 193 RBF RBF . E 3 HOH A 1 301 2 HOH HOH . F 3 HOH B 1 301 1 HOH HOH . F 3 HOH B 2 302 4 HOH HOH . F 3 HOH B 3 303 5 HOH HOH . F 3 HOH B 4 304 3 HOH HOH . F 3 HOH B 5 305 6 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 . . . C 2 -5.525 -15.272 68.021 1 54.74 ? N1 RBF 201 A 1 HETATM 2 C C2 RBF . . . C 2 -4.627 -14.401 68.571 1 81.68 ? C2 RBF 201 A 1 HETATM 3 O O2 RBF . . . C 2 -4.37 -13.406 68 1 94.61 ? O2 RBF 201 A 1 HETATM 4 N N3 RBF . . . C 2 -4.012 -14.677 69.795 1 84.84 ? N3 RBF 201 A 1 HETATM 5 C C4 RBF . . . C 2 -4.309 -15.797 70.464 1 59.86 ? C4 RBF 201 A 1 HETATM 6 O O4 RBF . . . C 2 -3.844 -16.114 71.525 1 82.32 ? O4 RBF 201 A 1 HETATM 7 C C4A RBF . . . C 2 -5.24 -16.679 69.873 1 52.74 ? C4A RBF 201 A 1 HETATM 8 N N5 RBF . . . C 2 -5.519 -17.818 70.553 1 49.84 ? N5 RBF 201 A 1 HETATM 9 C C5A RBF . . . C 2 -6.377 -18.705 70.082 1 41.39 ? C5A RBF 201 A 1 HETATM 10 C C6 RBF . . . C 2 -6.605 -19.864 70.868 1 39.02 ? C6 RBF 201 A 1 HETATM 11 C C7 RBF . . . C 2 -7.486 -20.847 70.456 1 39.2 ? C7 RBF 201 A 1 HETATM 12 C C7M RBF . . . C 2 -7.609 -21.987 71.392 1 40.98 ? C7M RBF 201 A 1 HETATM 13 C C8 RBF . . . C 2 -8.146 -20.689 69.252 1 49.3 ? C8 RBF 201 A 1 HETATM 14 C C8M RBF . . . C 2 -9.14 -21.755 68.725 1 41.68 ? C8M RBF 201 A 1 HETATM 15 C C9 RBF . . . C 2 -7.911 -19.532 68.485 1 38.86 ? C9 RBF 201 A 1 HETATM 16 C C9A RBF . . . C 2 -7.007 -18.504 68.888 1 62.14 ? C9A RBF 201 A 1 HETATM 17 N N10 RBF . . . C 2 -6.739 -17.373 68.168 1 69.96 ? N10 RBF 201 A 1 HETATM 18 C C10 RBF . . . C 2 -5.829 -16.429 68.69 1 68.58 ? C10 RBF 201 A 1 HETATM 19 C C1' RBF . . . C 2 -7.269 -16.866 66.866 1 67.07 ? C1' RBF 201 A 1 HETATM 20 C C2' RBF . . . C 2 -7.565 -17.931 65.753 1 67.23 ? C2' RBF 201 A 1 HETATM 21 O O2' RBF . . . C 2 -6.723 -17.722 64.681 1 65.82 ? O2' RBF 201 A 1 HETATM 22 C C3' RBF . . . C 2 -9.03 -17.871 65.255 1 84.27 ? C3' RBF 201 A 1 HETATM 23 O O3' RBF . . . C 2 -9.968 -17.936 66.313 1 112.82 ? O3' RBF 201 A 1 HETATM 24 C C4' RBF . . . C 2 -9.3 -19.001 64.278 1 85.81 ? C4' RBF 201 A 1 HETATM 25 O O4' RBF . . . C 2 -10.628 -18.894 63.761 1 82.35 ? O4' RBF 201 A 1 HETATM 26 C C5' RBF . . . C 2 -9.142 -20.379 64.98 1 92.22 ? C5' RBF 201 A 1 HETATM 27 O O5' RBF . . . C 2 -9.388 -21.441 64.025 1 108.13 ? O5' RBF 201 A 1 # _model_server_stats.io_time_ms 14 _model_server_stats.parse_time_ms 24 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 284 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 27 #