data_8Y4K # _model_server_result.job_id exW5vzdXsfIuaTU85qGr4g _model_server_result.datetime_utc '2025-03-13 21:44:27' _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 8y4k # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":303}' # _entry.id 8Y4K # _exptl.entry_id 8Y4K _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 306.099 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '2-[[(3~{R})-6-(azetidin-3-yloxy)-1,1-bis(oxidanyl)-3~{H}-2,1-benzoxaborol-1-ium-3-yl]methyl]prop-2-enoic acid' _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 100.8 _cell.angle_gamma 90 _cell.entry_id 8Y4K _cell.length_a 52.314 _cell.length_b 62.953 _cell.length_c 68.354 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8Y4K _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 PISA monomeric 1 author_and_software_defined_assembly 1 PISA monomeric 1 author_and_software_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,D,E,F,J 1 1 B,G,H,I 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 ? 3 E N N ? 3 I 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 metalc ? metalc1 A NE2 HIS 83 A HIS 114 1_555 C ZN ZN . A ZN 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.23 ? metalc ? metalc2 A ND1 HIS 85 A HIS 116 1_555 C ZN ZN . A ZN 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.998 ? metalc ? metalc3 A OD2 ASP 87 A ASP 118 1_555 D ZN ZN . A ZN 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.106 ? metalc ? metalc4 A NE2 HIS 148 A HIS 179 1_555 C ZN ZN . A ZN 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.175 ? metalc ? metalc5 A SG CYS 167 A CYS 198 1_555 D ZN ZN . A ZN 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.416 ? metalc ? metalc6 A NE2 HIS 209 A HIS 240 1_555 D ZN ZN . A ZN 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? metalc ? metalc7 C ZN ZN . A ZN 301 1_555 E O01 A1LXG . A A1LXG 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.005 ? metalc ? metalc8 D ZN ZN . A ZN 302 1_555 E O04 A1LXG . A A1LXG 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.563 ? metalc ? metalc9 D ZN ZN . A ZN 302 1_555 E O03 A1LXG . A A1LXG 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.966 ? metalc ? metalc10 B NE2 HIS 83 B HIS 114 1_555 G ZN ZN . B ZN 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.067 ? metalc ? metalc11 B ND1 HIS 85 B HIS 116 1_555 G ZN ZN . B ZN 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.977 ? metalc ? metalc12 B OD2 ASP 87 B ASP 118 1_555 H ZN ZN . B ZN 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.004 ? metalc ? metalc13 B NE2 HIS 148 B HIS 179 1_555 G ZN ZN . B ZN 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.22 ? metalc ? metalc14 B SG CYS 167 B CYS 198 1_555 H ZN ZN . B ZN 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.418 ? metalc ? metalc15 B NE2 HIS 209 B HIS 240 1_555 H ZN ZN . B ZN 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.958 ? metalc ? metalc16 G ZN ZN . B ZN 301 1_555 I O03 A1LXG . B A1LXG 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.101 ? metalc ? metalc17 H ZN ZN . B ZN 302 1_555 I O03 A1LXG . B A1LXG 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.616 ? metalc ? metalc18 H ZN ZN . B ZN 302 1_555 I O04 A1LXG . B A1LXG 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.45 ? # _chem_comp.formula 'C14 H17 B N O6 -1' _chem_comp.formula_weight 306.099 _chem_comp.id A1LXG _chem_comp.mon_nstd_flag . _chem_comp.name '2-[[(3~{R})-6-(azetidin-3-yloxy)-1,1-bis(oxidanyl)-3~{H}-2,1-benzoxaborol-1-ium-3-yl]methyl]prop-2-enoic acid' _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 C20 N19 A1LXG sing 1 n n C20 C17 A1LXG sing 2 n n N19 C18 A1LXG sing 3 n n C17 C18 A1LXG sing 4 n n C17 O16 A1LXG sing 5 n n O10 C08 A1LXG doub 6 n n C06 C07 A1LXG sing 7 n n C06 C05 A1LXG sing 8 n n C11 C07 A1LXG doub 9 n n C14 C13 A1LXG doub 10 n y C14 C15 A1LXG sing 11 n y C07 C08 A1LXG sing 12 n n C13 C12 A1LXG sing 13 n y C08 O09 A1LXG sing 14 n n O16 C15 A1LXG sing 15 n n C15 C21 A1LXG doub 16 n y C12 C05 A1LXG sing 17 n n C12 C22 A1LXG doub 18 n y C05 O04 A1LXG sing 19 n n C21 C22 A1LXG sing 20 n y C22 B02 A1LXG sing 21 n n O04 B02 A1LXG sing 22 n n O01 B02 A1LXG sing 23 n n B02 O03 A1LXG sing 24 n n C11 H1 A1LXG sing 25 n n C11 H2 A1LXG sing 26 n n C13 H3 A1LXG sing 27 n n C14 H4 A1LXG sing 28 n n C17 H5 A1LXG sing 29 n n C18 H6 A1LXG sing 30 n n C18 H7 A1LXG sing 31 n n C20 H8 A1LXG sing 32 n n C20 H9 A1LXG sing 33 n n O01 H10 A1LXG sing 34 n n O03 H11 A1LXG sing 35 n n C05 H12 A1LXG sing 36 n n C06 H13 A1LXG sing 37 n n C06 H14 A1LXG sing 38 n n O09 H15 A1LXG sing 39 n n N19 H16 A1LXG sing 40 n n C21 H18 A1LXG sing 41 n n # _atom_sites.entry_id 8Y4K _atom_sites.fract_transf_matrix[1][1] 0.019115 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.003645 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.015885 _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] 0.014893 _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 ZN A 1 301 1 ZN ZN . D 2 ZN A 1 302 2 ZN ZN . E 3 A1LXG A 1 303 2 A1LXG 17R . F 4 PEG A 1 304 1 PEG PEG . G 2 ZN B 1 301 3 ZN ZN . H 2 ZN B 1 302 4 ZN ZN . I 3 A1LXG B 1 303 1 A1LXG 17R . J 5 HOH A 1 401 1 HOH HOH . J 5 HOH A 2 402 2 HOH HOH . J 5 HOH A 3 403 3 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 C C11 A1LXG . . . E 3 20.153 -15.632 2.212 1 54.8 ? C11 A1LXG 303 A 1 HETATM 2 C C12 A1LXG . . . E 3 22.332 -11.909 3.19 1 40.17 ? C12 A1LXG 303 A 1 HETATM 3 C C13 A1LXG . . . E 3 21.62 -11.026 2.35 1 51.48 ? C13 A1LXG 303 A 1 HETATM 4 C C14 A1LXG . . . E 3 22 -9.71 2.219 1 52.77 ? C14 A1LXG 303 A 1 HETATM 5 C C15 A1LXG . . . E 3 23.097 -9.255 2.885 1 43.98 ? C15 A1LXG 303 A 1 HETATM 6 C C17 A1LXG . . . E 3 23.149 -7.227 1.576 1 56.03 ? C17 A1LXG 303 A 1 HETATM 7 C C18 A1LXG . . . E 3 22.867 -5.799 1.918 1 59.81 ? C18 A1LXG 303 A 1 HETATM 8 C C20 A1LXG . . . E 3 24.293 -6.824 0.698 1 54.23 ? C20 A1LXG 303 A 1 HETATM 9 O O01 A1LXG . . . E 3 25.65 -12.577 4.488 1 45.82 ? O01 A1LXG 303 A 1 HETATM 10 B B02 A1LXG . . . E 3 23.986 -12.688 4.629 1 44.26 ? B02 A1LXG 303 A 1 HETATM 11 O O03 A1LXG . . . E 3 23.658 -12.725 6.252 1 41.69 ? O03 A1LXG 303 A 1 HETATM 12 O O04 A1LXG . . . E 3 23.371 -13.837 4.081 1 51.35 ? O04 A1LXG 303 A 1 HETATM 13 C C05 A1LXG . . . E 3 22.145 -13.376 3.463 1 34.41 ? C05 A1LXG 303 A 1 HETATM 14 C C06 A1LXG . . . E 3 22.005 -14.017 2.124 1 58.2 ? C06 A1LXG 303 A 1 HETATM 15 C C07 A1LXG . . . E 3 21.474 -15.436 2.241 1 63.69 ? C07 A1LXG 303 A 1 HETATM 16 C C08 A1LXG . . . E 3 22.498 -16.576 2.374 1 67.03 ? C08 A1LXG 303 A 1 HETATM 17 O O09 A1LXG . . . E 3 23.714 -16.365 2.737 1 63.97 -1 O09 A1LXG 303 A 1 HETATM 18 O O10 A1LXG . . . E 3 22.09 -17.737 2.094 1 64.56 ? O10 A1LXG 303 A 1 HETATM 19 O O16 A1LXG . . . E 3 23.498 -7.917 2.767 1 44.33 ? O16 A1LXG 303 A 1 HETATM 20 N N19 A1LXG . . . E 3 23.976 -5.39 0.998 1 75.74 ? N19 A1LXG 303 A 1 HETATM 21 C C21 A1LXG . . . E 3 23.807 -10.138 3.694 1 39.93 ? C21 A1LXG 303 A 1 HETATM 22 C C22 A1LXG . . . E 3 23.404 -11.479 3.846 1 36.97 ? C22 A1LXG 303 A 1 # _model_server_stats.io_time_ms 11 _model_server_stats.parse_time_ms 32 _model_server_stats.create_model_time_ms 10 _model_server_stats.query_time_ms 549 _model_server_stats.encode_time_ms 15 _model_server_stats.element_count 22 #