data_4R8M # _model_server_result.job_id y5qCdMQXugRmzETiJCm1YA _model_server_result.datetime_utc '2024-12-02 17:21:13' _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 4r8m # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"H","auth_seq_id":600}' # _entry.id 4R8M # _exptl.entry_id 4R8M _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 214.411 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description tridecanethial _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 91.77 _cell.angle_gamma 90 _cell.entry_id 4R8M _cell.length_a 36.936 _cell.length_b 116.799 _cell.length_c 70.905 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4R8M _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 dimeric 2 author_and_software_defined_assembly 1 PISA dimeric 2 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,E,G,I 1 1 B,D,F,H,J 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 ? 4 G N N ? 4 H 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 covale ? covale1 C NZ LYS 3 C LYS 3 1_555 G C1 3LX . C 3LX 600 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.339 ? covale ? covale2 D NZ LYS 3 D LYS 3 1_555 H C1 3LX . D 3LX 600 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.352 ? metalc ? metalc1 A SG CYS 158 A CYS 195 1_555 E ZN ZN . A ZN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.36 ? metalc ? metalc2 A SG CYS 163 A CYS 200 1_555 E ZN ZN . A ZN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.25 ? metalc ? metalc3 A SG CYS 184 A CYS 221 1_555 E ZN ZN . A ZN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.188 ? metalc ? metalc4 A SG CYS 187 A CYS 224 1_555 E ZN ZN . A ZN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.5 ? metalc ? metalc5 B SG CYS 158 B CYS 195 1_555 F ZN ZN . B ZN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.324 ? metalc ? metalc6 B SG CYS 163 B CYS 200 1_555 F ZN ZN . B ZN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.29 ? metalc ? metalc7 B SG CYS 184 B CYS 221 1_555 F ZN ZN . B ZN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.326 ? metalc ? metalc8 B SG CYS 187 B CYS 224 1_555 F ZN ZN . B ZN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.376 ? # _chem_comp.formula 'C13 H26 S' _chem_comp.formula_weight 214.411 _chem_comp.id 3LX _chem_comp.mon_nstd_flag . _chem_comp.name tridecanethial _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 C13 C12 3LX sing 1 n n C12 C11 3LX sing 2 n n C11 C10 3LX sing 3 n n C10 C9 3LX sing 4 n n C9 C8 3LX sing 5 n n C8 C7 3LX sing 6 n n C6 C7 3LX sing 7 n n C6 C5 3LX sing 8 n n C2 C3 3LX sing 9 n n C2 C1 3LX sing 10 n n C4 C5 3LX sing 11 n n C4 C3 3LX sing 12 n n C1 S1 3LX doub 13 n n C1 H1 3LX sing 14 n n C2 H2 3LX sing 15 n n C2 H3 3LX sing 16 n n C3 H4 3LX sing 17 n n C3 H5 3LX sing 18 n n C4 H6 3LX sing 19 n n C4 H7 3LX sing 20 n n C5 H8 3LX sing 21 n n C5 H9 3LX sing 22 n n C6 H10 3LX sing 23 n n C6 H11 3LX sing 24 n n C7 H12 3LX sing 25 n n C7 H13 3LX sing 26 n n C8 H14 3LX sing 27 n n C8 H15 3LX sing 28 n n C9 H16 3LX sing 29 n n C9 H17 3LX sing 30 n n C10 H18 3LX sing 31 n n C10 H19 3LX sing 32 n n C11 H20 3LX sing 33 n n C11 H21 3LX sing 34 n n C12 H22 3LX sing 35 n n C12 H23 3LX sing 36 n n C13 H24 3LX sing 37 n n C13 H25 3LX sing 38 n n C13 H26 3LX sing 39 n n # _atom_sites.entry_id 4R8M _atom_sites.fract_transf_matrix[1][1] 0.027074 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.000837 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.008562 _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] 0.01411 _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 E 3 ZN A 1 401 1 ZN ZN . F 3 ZN B 1 401 1 ZN ZN . G 4 3LX C 1 600 600 3LX TMY . H 4 3LX D 1 600 600 3LX TMY . I 5 HOH A 1 500 500 HOH HOH . I 5 HOH A 2 501 501 HOH HOH . I 5 HOH A 3 502 502 HOH HOH . I 5 HOH A 4 503 503 HOH HOH . I 5 HOH A 5 504 504 HOH HOH . I 5 HOH A 6 505 505 HOH HOH . I 5 HOH A 7 506 506 HOH HOH . I 5 HOH A 8 507 507 HOH HOH . I 5 HOH A 9 508 508 HOH HOH . I 5 HOH A 10 509 509 HOH HOH . I 5 HOH A 11 510 510 HOH HOH . I 5 HOH A 12 511 511 HOH HOH . J 5 HOH B 1 500 500 HOH HOH . J 5 HOH B 2 501 501 HOH HOH . J 5 HOH B 3 502 502 HOH HOH . J 5 HOH B 4 503 503 HOH HOH . J 5 HOH B 5 504 504 HOH HOH . J 5 HOH B 6 505 505 HOH HOH . J 5 HOH B 7 506 506 HOH HOH . J 5 HOH B 8 507 507 HOH HOH . J 5 HOH B 9 508 508 HOH HOH . J 5 HOH B 10 509 509 HOH HOH . J 5 HOH B 11 510 510 HOH HOH . J 5 HOH B 12 511 511 HOH HOH . J 5 HOH B 13 512 512 HOH HOH . J 5 HOH B 14 513 513 HOH HOH . J 5 HOH B 15 514 514 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 C1 3LX . . . H 4 41.222 31.322 68.146 1 45.78 ? C1 3LX 600 D 1 HETATM 2 S S1 3LX . . . H 4 41.605 32.697 67.478 1 42.73 ? S1 3LX 600 D 1 HETATM 3 C C2 3LX . . . H 4 42.291 30.615 68.951 1 48.07 ? C2 3LX 600 D 1 HETATM 4 C C3 3LX . . . H 4 43.426 30.219 68.002 1 51.65 ? C3 3LX 600 D 1 HETATM 5 C C4 3LX . . . H 4 44.151 28.951 68.45 1 54.38 ? C4 3LX 600 D 1 HETATM 6 C C5 3LX . . . H 4 45.658 29.153 68.577 1 56.46 ? C5 3LX 600 D 1 HETATM 7 C C6 3LX . . . H 4 46.388 27.828 68.837 1 57.87 ? C6 3LX 600 D 1 HETATM 8 C C7 3LX . . . H 4 47.538 27.937 69.841 1 58.64 ? C7 3LX 600 D 1 HETATM 9 C C8 3LX . . . H 4 48.819 27.227 69.406 1 61.71 ? C8 3LX 600 D 1 HETATM 10 C C9 3LX . . . H 4 49.647 26.745 70.603 1 61.56 ? C9 3LX 600 D 1 HETATM 11 C C10 3LX . . . H 4 50.364 27.876 71.34 1 62.18 ? C10 3LX 600 D 1 HETATM 12 C C11 3LX . . . H 4 50.78 27.47 72.76 1 62.62 ? C11 3LX 600 D 1 HETATM 13 C C12 3LX . . . H 4 51.039 28.682 73.658 1 62.1 ? C12 3LX 600 D 1 HETATM 14 C C13 3LX . . . H 4 50.674 28.437 75.111 1 61.52 ? C13 3LX 600 D 1 # _model_server_stats.io_time_ms 8 _model_server_stats.parse_time_ms 15 _model_server_stats.create_model_time_ms 8 _model_server_stats.query_time_ms 264 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 14 #