data_3KDE # _model_server_result.job_id h5Vwmz4rlWK9MvwaQPeOpg _model_server_result.datetime_utc '2024-12-21 16:57:16' _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 3kde # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":78}' # _entry.id 3KDE # _exptl.entry_id 3KDE _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 65.409 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'ZINC ION' _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 92.52 _cell.angle_gamma 90 _cell.entry_id 3KDE _cell.length_a 28.692 _cell.length_b 69.325 _cell.length_c 35.126 _cell.Z_PDB 2 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3KDE _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1 21 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details trimeric _pdbx_struct_assembly.oligomeric_count 3 _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 _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 4 _struct_asym.id D _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 covale ? covale1 A O3' DG 6 A DG 6 1_555 A P BRU 7 A BRU 7 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.61 ? covale ? covale2 A O3' BRU 7 A BRU 7 1_555 A P DG 8 A DG 8 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.598 ? covale ? covale3 B O3' BRU 1 B BRU 11 1_555 B P DC 2 B DC 12 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.611 ? metalc ? metalc1 C SG CYS 4 C CYS 4 1_555 D ZN ZN . C ZN 78 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.327 ? metalc ? metalc2 C SG CYS 7 C CYS 7 1_555 D ZN ZN . C ZN 78 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.36 ? metalc ? metalc3 C SG CYS 44 C CYS 44 1_555 D ZN ZN . C ZN 78 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.362 ? metalc ? metalc4 C NE2 HIS 47 C HIS 47 1_555 D ZN ZN . C ZN 78 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.057 ? hydrog WATSON-CRICK hydrog1 A N1 DG 1 A DG 1 1_555 B N3 DC 10 B DC 20 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog2 A N2 DG 1 A DG 1 1_555 B O2 DC 10 B DC 20 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog3 A O6 DG 1 A DG 1 1_555 B N4 DC 10 B DC 20 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog4 A N3 DT 2 A DT 2 1_555 B N1 DA 9 B DA 19 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog5 A O4 DT 2 A DT 2 1_555 B N6 DA 9 B DA 19 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog6 A N3 DT 3 A DT 3 1_555 B N1 DA 8 B DA 18 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog7 A O4 DT 3 A DT 3 1_555 B N6 DA 8 B DA 18 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog8 A N1 DA 4 A DA 4 1_555 B N3 DT 7 B DT 17 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog9 A N6 DA 4 A DA 4 1_555 B O4 DT 7 B DT 17 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog10 A N1 DA 5 A DA 5 1_555 B N3 DT 6 B DT 16 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog11 A N6 DA 5 A DA 5 1_555 B O4 DT 6 B DT 16 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog12 A N1 DG 6 A DG 6 1_555 B N3 DC 5 B DC 15 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog13 A N2 DG 6 A DG 6 1_555 B O2 DC 5 B DC 15 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog14 A O6 DG 6 A DG 6 1_555 B N4 DC 5 B DC 15 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog15 A N3 BRU 7 A BRU 7 1_555 B N1 DA 4 B DA 14 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog16 A O4 BRU 7 A BRU 7 1_555 B N6 DA 4 B DA 14 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog17 A N1 DG 8 A DG 8 1_555 B N3 DC 3 B DC 13 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog18 A N2 DG 8 A DG 8 1_555 B O2 DC 3 B DC 13 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog19 A O6 DG 8 A DG 8 1_555 B N4 DC 3 B DC 13 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog20 A N1 DG 9 A DG 9 1_555 B N3 DC 2 B DC 12 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog21 A N2 DG 9 A DG 9 1_555 B O2 DC 2 B DC 12 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog22 A O6 DG 9 A DG 9 1_555 B N4 DC 2 B DC 12 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog23 A N1 DA 10 A DA 10 1_555 B N3 BRU 1 B BRU 11 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog24 A N6 DA 10 A DA 10 1_555 B O4 BRU 1 B BRU 11 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 3KDE _atom_sites.fract_transf_matrix[1][1] 0.034853 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.001534 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.014425 _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] 0.028496 _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 D 4 ZN C 1 78 78 ZN ZN . E 5 HOH A 1 21 6 HOH HOH . E 5 HOH A 2 22 7 HOH HOH . E 5 HOH A 3 23 9 HOH HOH . E 5 HOH A 4 24 14 HOH HOH . E 5 HOH A 5 25 10 HOH HOH . E 5 HOH A 6 26 16 HOH HOH . E 5 HOH A 7 27 18 HOH HOH . E 5 HOH A 8 28 20 HOH HOH . E 5 HOH A 9 29 23 HOH HOH . E 5 HOH A 10 30 24 HOH HOH . E 5 HOH A 11 31 26 HOH HOH . E 5 HOH A 12 32 27 HOH HOH . E 5 HOH A 13 33 28 HOH HOH . E 5 HOH A 14 34 29 HOH HOH . E 5 HOH A 15 35 31 HOH HOH . E 5 HOH A 16 36 32 HOH HOH . E 5 HOH A 17 37 40 HOH HOH . E 5 HOH A 18 38 42 HOH HOH . E 5 HOH A 19 39 46 HOH HOH . E 5 HOH A 20 40 50 HOH HOH . E 5 HOH A 21 41 57 HOH HOH . E 5 HOH A 22 42 61 HOH HOH . E 5 HOH A 23 43 65 HOH HOH . E 5 HOH A 24 44 82 HOH HOH . E 5 HOH A 25 45 89 HOH HOH . E 5 HOH A 26 46 95 HOH HOH . E 5 HOH A 27 47 97 HOH HOH . E 5 HOH A 28 48 101 HOH HOH . F 5 HOH B 1 21 4 HOH HOH . F 5 HOH B 2 22 5 HOH HOH . F 5 HOH B 3 23 8 HOH HOH . F 5 HOH B 4 24 17 HOH HOH . F 5 HOH B 5 25 35 HOH HOH . F 5 HOH B 6 26 37 HOH HOH . F 5 HOH B 7 27 43 HOH HOH . F 5 HOH B 8 28 44 HOH HOH . F 5 HOH B 9 29 51 HOH HOH . F 5 HOH B 10 30 54 HOH HOH . F 5 HOH B 11 31 58 HOH HOH . F 5 HOH B 12 32 63 HOH HOH . F 5 HOH B 13 33 67 HOH HOH . F 5 HOH B 14 34 71 HOH HOH . F 5 HOH B 15 35 72 HOH HOH . F 5 HOH B 16 36 74 HOH HOH . F 5 HOH B 17 37 76 HOH HOH . F 5 HOH B 18 38 86 HOH HOH . F 5 HOH B 19 39 87 HOH HOH . F 5 HOH B 20 40 88 HOH HOH . F 5 HOH B 21 41 91 HOH HOH . F 5 HOH B 22 42 94 HOH HOH . F 5 HOH B 23 43 99 HOH HOH . F 5 HOH B 24 44 102 HOH HOH . G 5 HOH C 1 79 78 HOH HOH . G 5 HOH C 2 80 79 HOH HOH . G 5 HOH C 3 81 80 HOH HOH . G 5 HOH C 4 82 81 HOH HOH . G 5 HOH C 5 83 1 HOH HOH . G 5 HOH C 6 84 83 HOH HOH . G 5 HOH C 7 85 84 HOH HOH . G 5 HOH C 8 86 85 HOH HOH . G 5 HOH C 9 87 2 HOH HOH . G 5 HOH C 10 88 3 HOH HOH . G 5 HOH C 11 89 11 HOH HOH . G 5 HOH C 12 90 12 HOH HOH . G 5 HOH C 13 91 90 HOH HOH . G 5 HOH C 14 92 13 HOH HOH . G 5 HOH C 15 93 92 HOH HOH . G 5 HOH C 16 94 93 HOH HOH . G 5 HOH C 17 95 15 HOH HOH . G 5 HOH C 18 96 19 HOH HOH . G 5 HOH C 19 97 96 HOH HOH . G 5 HOH C 20 98 21 HOH HOH . G 5 HOH C 21 99 98 HOH HOH . G 5 HOH C 22 100 22 HOH HOH . G 5 HOH C 23 101 30 HOH HOH . G 5 HOH C 24 102 33 HOH HOH . G 5 HOH C 25 103 103 HOH HOH . G 5 HOH C 26 104 104 HOH HOH . G 5 HOH C 27 105 105 HOH HOH . G 5 HOH C 28 106 106 HOH HOH . G 5 HOH C 29 107 107 HOH HOH . G 5 HOH C 30 108 34 HOH HOH . G 5 HOH C 31 109 36 HOH HOH . G 5 HOH C 32 110 38 HOH HOH . G 5 HOH C 33 111 39 HOH HOH . G 5 HOH C 34 112 41 HOH HOH . G 5 HOH C 35 113 45 HOH HOH . G 5 HOH C 36 114 47 HOH HOH . G 5 HOH C 37 115 48 HOH HOH . G 5 HOH C 38 116 49 HOH HOH . G 5 HOH C 39 117 52 HOH HOH . G 5 HOH C 40 118 53 HOH HOH . G 5 HOH C 41 119 55 HOH HOH . G 5 HOH C 42 120 56 HOH HOH . G 5 HOH C 43 121 59 HOH HOH . G 5 HOH C 44 122 60 HOH HOH . G 5 HOH C 45 123 62 HOH HOH . G 5 HOH C 46 124 64 HOH HOH . G 5 HOH C 47 125 66 HOH HOH . G 5 HOH C 48 126 68 HOH HOH . G 5 HOH C 49 127 69 HOH HOH . G 5 HOH C 50 128 70 HOH HOH . G 5 HOH C 51 129 73 HOH HOH . G 5 HOH C 52 130 75 HOH HOH . G 5 HOH C 53 131 77 HOH HOH . G 5 HOH C 54 132 100 HOH HOH . G 5 HOH C 55 133 25 HOH HOH . # _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 D _atom_site.label_entity_id 4 _atom_site.Cartn_x 19.483 _atom_site.Cartn_y 34.205 _atom_site.Cartn_z -14.206 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 25.11 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id ZN _atom_site.auth_comp_id ZN _atom_site.auth_seq_id 78 _atom_site.auth_asym_id C _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 6 _model_server_stats.parse_time_ms 17 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 252 _model_server_stats.encode_time_ms 10 _model_server_stats.element_count 1 #