data_4D1B # _model_server_result.job_id IghFkmGtSLySYiLSuPgr3g _model_server_result.datetime_utc '2025-03-06 12:47:15' _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 4d1b # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":1467}' # _entry.id 4D1B # _exptl.entry_id 4D1B _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 190.199 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description (5S)-5-benzylimidazolidine-2,4-dione _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 90 _cell.angle_gamma 90 _cell.entry_id 4D1B _cell.length_a 95.614 _cell.length_b 106.742 _cell.length_c 107.852 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4D1B _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 21 21 21' # _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 _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 O ALA 38 A ALA 38 1_555 C NA NA . A NA 1471 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.3 ? metalc ? metalc2 A O ILE 41 A ILE 41 1_555 C NA NA . A NA 1471 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.676 ? metalc ? metalc3 A O ALA 309 A ALA 309 1_555 C NA NA . A NA 1471 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.395 ? metalc ? metalc4 A OG SER 312 A SER 312 1_555 C NA NA . A NA 1471 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.453 ? metalc ? metalc5 A OG1 THR 313 A THR 313 1_555 C NA NA . A NA 1471 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.438 ? # _chem_comp.formula 'C10 H10 N2 O2' _chem_comp.formula_weight 190.199 _chem_comp.id 5FH _chem_comp.mon_nstd_flag . _chem_comp.name (5S)-5-benzylimidazolidine-2,4-dione _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 N1 C1 5FH sing 1 n n N1 C3 5FH sing 2 n n C1 O1 5FH doub 3 n n C1 N2 5FH sing 4 n n N2 C2 5FH sing 5 n n C2 O2 5FH doub 6 n n C2 C3 5FH sing 7 n n C3 C4 5FH sing 8 n n C4 C5 5FH sing 9 n n C5 C7 5FH sing 10 n y C5 C10 5FH doub 11 n y C6 C9 5FH doub 12 n y C6 C10 5FH sing 13 n y C7 C8 5FH doub 14 n y C8 C9 5FH sing 15 n y N1 H1 5FH sing 16 n n C3 H3 5FH sing 17 n n N2 H2 5FH sing 18 n n C4 H41C 5FH sing 19 n n C4 H42C 5FH sing 20 n n C7 H7 5FH sing 21 n n C10 H10 5FH sing 22 n n C6 H6 5FH sing 23 n n C9 H9 5FH sing 24 n n C8 H8 5FH sing 25 n n # _atom_sites.entry_id 4D1B _atom_sites.fract_transf_matrix[1][1] 0.010459 _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] 0.009368 _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] 0.009272 _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 5FH A 1 1467 1467 5FH 5FH . C 3 NA A 1 1471 1471 NA NA . # 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 5FH . . . B 2 4.592 11.707 -24.686 1 189.42 ? N1 5FH 1467 A 1 HETATM 2 C C1 5FH . . . B 2 5.09 13.02 -25.049 1 189.44 ? C1 5FH 1467 A 1 HETATM 3 O O1 5FH . . . B 2 6.072 13.575 -24.577 1 191 ? O1 5FH 1467 A 1 HETATM 4 N N2 5FH . . . B 2 4.215 13.561 -26.069 1 188.7 ? N2 5FH 1467 A 1 HETATM 5 C C2 5FH . . . B 2 3.196 12.601 -26.333 1 188.72 ? C2 5FH 1467 A 1 HETATM 6 O O2 5FH . . . B 2 2.286 12.724 -27.141 1 189.51 ? O2 5FH 1467 A 1 HETATM 7 C C3 5FH . . . B 2 3.43 11.435 -25.47 1 189.03 ? C3 5FH 1467 A 1 HETATM 8 C C4 5FH . . . B 2 2.236 11.218 -24.6 1 190.72 ? C4 5FH 1467 A 1 HETATM 9 C C5 5FH . . . B 2 2.419 9.993 -23.764 1 191.91 ? C5 5FH 1467 A 1 HETATM 10 C C6 5FH . . . B 2 2.399 7.539 -23.458 1 194.78 ? C6 5FH 1467 A 1 HETATM 11 C C7 5FH . . . B 2 2.82 10.126 -22.336 1 193 ? C7 5FH 1467 A 1 HETATM 12 C C8 5FH . . . B 2 2.985 9.016 -21.561 1 194.99 ? C8 5FH 1467 A 1 HETATM 13 C C9 5FH . . . B 2 2.766 7.663 -22.149 1 195.92 ? C9 5FH 1467 A 1 HETATM 14 C C10 5FH . . . B 2 2.218 8.755 -24.301 1 192.76 ? C10 5FH 1467 A 1 # _model_server_stats.io_time_ms 9 _model_server_stats.parse_time_ms 6 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 250 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 14 #