data_6UII # _model_server_result.job_id 3hrCfOxhYbIn7yQUKGo_vg _model_server_result.datetime_utc '2025-02-17 23:51:27' _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 6uii # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":701}' # _entry.id 6UII # _exptl.entry_id 6UII _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 176.323 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 5-[(3-aminopropyl)amino]pentane-1-thiol _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 120 _cell.entry_id 6UII _cell.length_a 80.78 _cell.length_b 80.78 _cell.length_c 244.29 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6UII _symmetry.cell_setting ? _symmetry.Int_Tables_number 152 _symmetry.space_group_name_Hall 'P 31 2"' _symmetry.space_group_name_H-M 'P 31 2 1' # _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,D,E,F,G,H,I _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 ASP 172 A ASP 172 1_555 D K K . A K 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.81 ? metalc ? metalc2 A OD2 ASP 172 A ASP 172 1_555 D K K . A K 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.857 ? metalc ? metalc3 A OD1 ASP 174 A ASP 174 1_555 C ZN ZN . A ZN 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.633 ? metalc ? metalc4 A OD2 ASP 174 A ASP 174 1_555 C ZN ZN . A ZN 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.972 ? metalc ? metalc5 A O ASP 174 A ASP 174 1_555 D K K . A K 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.533 ? metalc ? metalc6 A ND1 HIS 176 A HIS 176 1_555 C ZN ZN . A ZN 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.21 ? metalc ? metalc7 A O HIS 176 A HIS 176 1_555 D K K . A K 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.69 ? metalc ? metalc8 A O PHE 185 A PHE 185 1_555 E K K . A K 704 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.609 ? metalc ? metalc9 A O ASP 188 A ASP 188 1_555 E K K . A K 704 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.972 ? metalc ? metalc10 A O VAL 191 A VAL 191 1_555 E K K . A K 704 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.706 ? metalc ? metalc11 A OG SER 195 A SER 195 1_555 D K K . A K 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.997 ? metalc ? metalc12 A O TRP 196 A TRP 196 1_555 D K K . A K 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.573 ? metalc ? metalc13 A O PHE 224 A PHE 224 1_555 E K K . A K 704 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.954 ? metalc ? metalc14 A OD2 ASP 267 A ASP 267 1_555 C ZN ZN . A ZN 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.998 ? metalc ? metalc15 B S11 SS9 . A SS9 701 1_555 C ZN ZN . A ZN 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.298 ? metalc ? metalc16 E K K . A K 704 1_555 I O HOH . A HOH 804 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.144 ? metalc ? metalc17 E K K . A K 704 1_555 I O HOH . A HOH 819 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.912 ? # _chem_comp.formula 'C8 H20 N2 S' _chem_comp.formula_weight 176.323 _chem_comp.id SS9 _chem_comp.mon_nstd_flag . _chem_comp.name 5-[(3-aminopropyl)amino]pentane-1-thiol _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 S11 C10 SS9 sing 294 n n C9 C10 SS9 sing 295 n n C9 C8 SS9 sing 296 n n C2 N1 SS9 sing 297 n n C2 C3 SS9 sing 298 n n C7 C8 SS9 sing 299 n n C7 C6 SS9 sing 300 n n C4 C3 SS9 sing 301 n n C4 N5 SS9 sing 302 n n C6 N5 SS9 sing 303 n n C2 H1 SS9 sing 304 n n C2 H2 SS9 sing 305 n n C3 H3 SS9 sing 306 n n C3 H4 SS9 sing 307 n n C4 H5 SS9 sing 308 n n C4 H6 SS9 sing 309 n n C6 H7 SS9 sing 310 n n C6 H8 SS9 sing 311 n n C7 H9 SS9 sing 312 n n C7 H10 SS9 sing 313 n n C8 H11 SS9 sing 314 n n C8 H12 SS9 sing 315 n n C9 H13 SS9 sing 316 n n C9 H14 SS9 sing 317 n n C10 H15 SS9 sing 318 n n C10 H16 SS9 sing 319 n n N1 H17 SS9 sing 320 n n N1 H18 SS9 sing 321 n n N5 H20 SS9 sing 322 n n S11 H22 SS9 sing 323 n n # _atom_sites.entry_id 6UII _atom_sites.fract_transf_matrix[1][1] 0.012379 _atom_sites.fract_transf_matrix[1][2] 0.007147 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.014294 _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] 0.004093 _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 SS9 A 1 701 701 SS9 INH . C 3 ZN A 1 702 1 ZN ZN . D 4 K A 1 703 1 K K . E 4 K A 1 704 2 K K . F 5 PO4 A 1 705 1 PO4 PO4 . G 5 PO4 A 1 706 2 PO4 PO4 . H 5 PO4 A 1 707 3 PO4 PO4 . I 6 HOH A 1 801 26 HOH HOH . I 6 HOH A 2 802 20 HOH HOH . I 6 HOH A 3 803 3 HOH HOH . I 6 HOH A 4 804 25 HOH HOH . I 6 HOH A 5 805 9 HOH HOH . I 6 HOH A 6 806 27 HOH HOH . I 6 HOH A 7 807 28 HOH HOH . I 6 HOH A 8 808 15 HOH HOH . I 6 HOH A 9 809 10 HOH HOH . I 6 HOH A 10 810 4 HOH HOH . I 6 HOH A 11 811 24 HOH HOH . I 6 HOH A 12 812 22 HOH HOH . I 6 HOH A 13 813 19 HOH HOH . I 6 HOH A 14 814 21 HOH HOH . I 6 HOH A 15 815 8 HOH HOH . I 6 HOH A 16 816 16 HOH HOH . I 6 HOH A 17 817 18 HOH HOH . I 6 HOH A 18 818 2 HOH HOH . I 6 HOH A 19 819 5 HOH HOH . I 6 HOH A 20 820 14 HOH HOH . I 6 HOH A 21 821 7 HOH HOH . I 6 HOH A 22 822 23 HOH HOH . I 6 HOH A 23 823 13 HOH HOH . I 6 HOH A 24 824 11 HOH HOH . I 6 HOH A 25 825 17 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 C2 SS9 . . . B 2 -28.948 -41.063 33.118 1 60.45 ? C2 SS9 701 A 1 HETATM 2 C C3 SS9 . . . B 2 -28.098 -39.832 33.421 1 59.51 ? C3 SS9 701 A 1 HETATM 3 C C4 SS9 . . . B 2 -27.373 -40.007 34.74 1 51.24 ? C4 SS9 701 A 1 HETATM 4 C C6 SS9 . . . B 2 -24.996 -40.133 35.161 1 55.45 ? C6 SS9 701 A 1 HETATM 5 C C7 SS9 . . . B 2 -23.688 -39.421 34.919 1 47.29 ? C7 SS9 701 A 1 HETATM 6 C C8 SS9 . . . B 2 -22.894 -40.226 33.956 1 49.89 ? C8 SS9 701 A 1 HETATM 7 C C9 SS9 . . . B 2 -21.612 -39.552 33.687 1 55.79 ? C9 SS9 701 A 1 HETATM 8 C C10 SS9 . . . B 2 -20.499 -40.489 33.938 1 55.64 ? C10 SS9 701 A 1 HETATM 9 N N1 SS9 . . . B 2 -29.661 -41.038 31.844 1 60.55 ? N1 SS9 701 A 1 HETATM 10 N N5 SS9 . . . B 2 -26.102 -39.291 34.682 1 57.61 ? N5 SS9 701 A 1 HETATM 11 S S11 SS9 . . . B 2 -19.05 -39.598 33.411 1 55.53 ? S11 SS9 701 A 1 # _model_server_stats.io_time_ms 71 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 8 _model_server_stats.query_time_ms 303 _model_server_stats.encode_time_ms 7 _model_server_stats.element_count 11 #