data_2YPA # _model_server_result.job_id hkvo7axLu22zfGw6uopF2w _model_server_result.datetime_utc '2025-03-28 07:22:52' _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 2ypa # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"J","auth_seq_id":1159}' # _entry.id 2YPA # _exptl.entry_id 2YPA _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 65.409 _entity.id 7 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'ZINC ION' _entity.pdbx_number_of_molecules 4 _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 2YPA _cell.length_a 102.966 _cell.length_b 141.044 _cell.length_c 148.793 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2YPA _symmetry.cell_setting ? _symmetry.Int_Tables_number 22 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'F 2 2 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 _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 ? 7 G N N ? 7 H N N ? 7 I N N ? 7 J 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 C SG CYS 19 C CYS 30 1_555 J ZN ZN . C ZN 1159 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.409 ? metalc ? metalc2 C SG CYS 22 C CYS 33 1_555 J ZN ZN . C ZN 1159 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.1 ? metalc ? metalc3 C SG CYS 43 C CYS 54 1_555 J ZN ZN . C ZN 1159 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.406 ? metalc ? metalc4 C SG CYS 46 C CYS 57 1_555 I ZN ZN . C ZN 1158 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.382 ? metalc ? metalc5 C SG CYS 49 C CYS 60 1_555 I ZN ZN . C ZN 1158 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.106 ? metalc ? metalc6 C SG CYS 69 C CYS 80 1_555 I ZN ZN . C ZN 1158 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.384 ? metalc ? metalc7 C OD2 ASP 72 C ASP 83 1_555 I ZN ZN . C ZN 1158 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.673 ? metalc ? metalc8 C SG CYS 83 C CYS 94 1_555 H ZN ZN . C ZN 1157 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.458 ? metalc ? metalc9 C SG CYS 86 C CYS 97 1_555 H ZN ZN . C ZN 1157 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.932 ? metalc ? metalc10 C ND1 HIS 105 C HIS 116 1_555 H ZN ZN . C ZN 1157 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.52 ? metalc ? metalc11 C SG CYS 108 C CYS 119 1_555 H ZN ZN . C ZN 1157 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.408 ? metalc ? metalc12 C SG CYS 111 C CYS 122 1_555 G ZN ZN . C ZN 1156 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.371 ? metalc ? metalc13 C SG CYS 114 C CYS 125 1_555 G ZN ZN . C ZN 1156 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.091 ? metalc ? metalc14 C SG CYS 133 C CYS 144 1_555 G ZN ZN . C ZN 1156 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.398 ? metalc ? metalc15 C OD2 ASP 136 C ASP 147 1_555 G ZN ZN . C ZN 1156 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.131 ? hydrog WATSON-CRICK hydrog1 E N1 DA 1 E DA 4 1_555 F N3 DT 11 F DT 32 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog2 E N6 DA 1 E DA 4 1_555 F O4 DT 11 F DT 32 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog3 E N3 DC 2 E DC 5 1_555 F N1 DG 10 F DG 31 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog4 E N4 DC 2 E DC 5 1_555 F O6 DG 10 F DG 31 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog5 E O2 DC 2 E DC 5 1_555 F N2 DG 10 F DG 31 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog6 E N3 DC 3 E DC 6 1_555 F N1 DG 9 F DG 30 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog7 E N4 DC 3 E DC 6 1_555 F O6 DG 9 F DG 30 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog8 E O2 DC 3 E DC 6 1_555 F N2 DG 9 F DG 30 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog9 E N1 DA 4 E DA 7 1_555 F N3 DT 8 F DT 29 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog10 E N6 DA 4 E DA 7 1_555 F O4 DT 8 F DT 29 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog11 E N3 DT 5 E DT 8 1_555 F N1 DA 7 F DA 28 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog12 E O4 DT 5 E DT 8 1_555 F N6 DA 7 F DA 28 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog13 E N3 DC 6 E DC 9 1_555 F N1 DG 6 F DG 27 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog14 E N4 DC 6 E DC 9 1_555 F O6 DG 6 F DG 27 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog15 E O2 DC 6 E DC 9 1_555 F N2 DG 6 F DG 27 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog16 E N3 DT 7 E DT 10 1_555 F N1 DA 5 F DA 26 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog17 E O4 DT 7 E DT 10 1_555 F N6 DA 5 F DA 26 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog18 E N1 DG 8 E DG 11 1_555 F N3 DC 4 F DC 25 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog19 E N2 DG 8 E DG 11 1_555 F O2 DC 4 F DC 25 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog20 E O6 DG 8 E DG 11 1_555 F N4 DC 4 F DC 25 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog21 E N3 DT 9 E DT 12 1_555 F N1 DA 3 F DA 24 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog22 E O4 DT 9 E DT 12 1_555 F N6 DA 3 F DA 24 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog23 E N3 DT 10 E DT 13 1_555 F N1 DA 2 F DA 23 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog24 E O4 DT 10 E DT 13 1_555 F N6 DA 2 F DA 23 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog25 E N3 DC 11 E DC 14 1_555 F N1 DG 1 F DG 22 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog26 E N4 DC 11 E DC 14 1_555 F O6 DG 1 F DG 22 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog27 E O2 DC 11 E DC 14 1_555 F N2 DG 1 F DG 22 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? # _chem_comp.formula 'Zn 2' _chem_comp.formula_weight 65.409 _chem_comp.id ZN _chem_comp.mon_nstd_flag . _chem_comp.name 'ZINC ION' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # _atom_sites.entry_id 2YPA _atom_sites.fract_transf_matrix[1][1] 0.009712 _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] 0.00709 _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] 0.006721 _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 7 ZN C 1 1156 1156 ZN ZN . H 7 ZN C 1 1157 1157 ZN ZN . I 7 ZN C 1 1158 1158 ZN ZN . J 7 ZN C 1 1159 1159 ZN ZN . # _atom_site.group_PDB HETATM _atom_site.id 1 _atom_site.type_symbol ZN _atom_site.label_atom_id ZN _atom_site.label_comp_id ZN _atom_site.label_seq_id . _atom_site.label_alt_id . _atom_site.pdbx_PDB_ins_code . _atom_site.label_asym_id J _atom_site.label_entity_id 7 _atom_site.Cartn_x 60.28 _atom_site.Cartn_y 39.769 _atom_site.Cartn_z 12.155 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 107.95 _atom_site.pdbx_formal_charge 2 _atom_site.auth_atom_id ZN _atom_site.auth_comp_id ZN _atom_site.auth_seq_id 1159 _atom_site.auth_asym_id C _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 15 _model_server_stats.parse_time_ms 14 _model_server_stats.create_model_time_ms 7 _model_server_stats.query_time_ms 328 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 1 #