data_1YR3 # _model_server_result.job_id gC41Afdr5PqXGfKLD2GZ4A _model_server_result.datetime_utc '2024-10-20 01:25:08' _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 1yr3 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"N","auth_seq_id":403}' # _entry.id 1YR3 # _exptl.entry_id 1YR3 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 152.111 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description XANTHINE _entity.pdbx_number_of_molecules 6 _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 90 _cell.entry_id 1YR3 _cell.length_a 150.442 _cell.length_b 155.232 _cell.length_c 93.452 _cell.Z_PDB 24 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1YR3 _symmetry.cell_setting ? _symmetry.Int_Tables_number 18 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details hexameric _pdbx_struct_assembly.oligomeric_count 6 _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,H,I,J,K,L,M,N,O,P,Q,R _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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 3 H N N ? 3 J N N ? 3 L N N ? 3 N N N ? 3 P N N ? 3 R N N # _chem_comp.formula 'C5 H4 N4 O2' _chem_comp.formula_weight 152.111 _chem_comp.id XAN _chem_comp.mon_nstd_flag . _chem_comp.name XANTHINE _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # 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 N9 C4 XAN sing 350 n y N9 C8 XAN sing 351 n y N9 HN9 XAN sing 352 n n C4 N3 XAN sing 353 n y C4 C5 XAN doub 354 n y N3 C2 XAN sing 355 n y N3 HN3 XAN sing 356 n n C2 O2 XAN doub 357 n n C2 N1 XAN sing 358 n y N1 C6 XAN sing 359 n y N1 HN1 XAN sing 360 n n C6 O6 XAN doub 361 n n C6 C5 XAN sing 362 n y C5 N7 XAN sing 363 n y N7 C8 XAN doub 364 n y C8 H8 XAN sing 365 n n # _atom_sites.entry_id 1YR3 _atom_sites.fract_transf_matrix[1][1] 0.006647 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.006442 _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] 0.010701 _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 G 2 SO4 A 1 500 500 SO4 SO4 . H 3 XAN A 1 400 400 XAN XAN . I 2 SO4 B 1 501 500 SO4 SO4 . J 3 XAN B 1 401 400 XAN XAN . K 2 SO4 C 1 502 500 SO4 SO4 . L 3 XAN C 1 402 400 XAN XAN . M 2 SO4 D 1 503 500 SO4 SO4 . N 3 XAN D 1 403 400 XAN XAN . O 2 SO4 E 1 504 500 SO4 SO4 . P 3 XAN E 1 404 400 XAN XAN . Q 2 SO4 F 1 505 500 SO4 SO4 . R 3 XAN F 1 405 400 XAN XAN . # 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 N9 XAN . . . N 3 41.349 -5.564 48.901 1 54.93 ? N9 XAN 403 D 1 HETATM 2 C C4 XAN . . . N 3 41.054 -6.206 47.715 1 54.47 ? C4 XAN 403 D 1 HETATM 3 N N3 XAN . . . N 3 41.62 -5.919 46.506 1 54.24 ? N3 XAN 403 D 1 HETATM 4 C C2 XAN . . . N 3 41.154 -6.71 45.472 1 53.4 ? C2 XAN 403 D 1 HETATM 5 O O2 XAN . . . N 3 41.588 -6.558 44.332 1 54.68 ? O2 XAN 403 D 1 HETATM 6 N N1 XAN . . . N 3 40.18 -7.7 45.719 1 52.22 ? N1 XAN 403 D 1 HETATM 7 C C6 XAN . . . N 3 39.588 -8.007 46.95 1 52.76 ? C6 XAN 403 D 1 HETATM 8 O O6 XAN . . . N 3 38.751 -8.898 47.022 1 52.94 ? O6 XAN 403 D 1 HETATM 9 C C5 XAN . . . N 3 40.096 -7.169 48.006 1 53.63 ? C5 XAN 403 D 1 HETATM 10 N N7 XAN . . . N 3 39.794 -7.132 49.354 1 54.09 ? N7 XAN 403 D 1 HETATM 11 C C8 XAN . . . N 3 40.557 -6.175 49.832 1 54.29 ? C8 XAN 403 D 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 13 _model_server_stats.query_time_ms 263 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 11 #