data_4XPF # _model_server_result.job_id q5RSo_ysOjjK57L66q8o2Q _model_server_result.datetime_utc '2025-07-27 03:31:19' _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 4xpf # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":703}' # _entry.id 4XPF # _exptl.entry_id 4XPF _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 385.24 _entity.id 6 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'methyl (1R,2S,3S,5S)-3-(4-iodophenyl)-8-methyl-8-azabicyclo[3.2.1]octane-2-carboxylate' _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 90 _cell.entry_id 4XPF _cell.length_a 97.415 _cell.length_b 140.312 _cell.length_c 166.962 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4XPF _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 21 21 21' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details trimeric _pdbx_struct_assembly.oligomeric_count 3 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H,I,J,K,L,M,N _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 6 _struct_asym.id F _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 disulf ? disulf1 A SG CYS 129 A CYS 148 1_555 A SG CYS 138 A CYS 157 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? disulf ? disulf2 B SG CYS 45 L CYS 23 1_555 B SG CYS 111 L CYS 89 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf3 B SG CYS 157 L CYS 135 1_555 B SG CYS 217 L CYS 195 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf4 C SG CYS 41 H CYS 22 1_555 C SG CYS 115 H CYS 96 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? disulf ? disulf5 C SG CYS 165 H CYS 146 1_555 C SG CYS 220 H CYS 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? covale ? covale1 C CD1 LEU 149 H LEU 130 1_555 C C GLY 164 H GLY 145 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.102 ? covale ? covale2 C CD1 LEU 149 H LEU 130 1_555 C O GLY 164 H GLY 145 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.216 ? metalc ? metalc1 A O GLY 23 A GLY 42 1_555 J NA NA . A NA 707 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.266 ? metalc ? metalc2 A O ALA 25 A ALA 44 1_555 I NA NA . A NA 706 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.762 ? metalc ? metalc3 A O VAL 26 A VAL 45 1_555 J NA NA . A NA 707 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? metalc ? metalc4 A OD1 ASN 30 A ASN 49 1_555 I NA NA . A NA 706 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.087 ? metalc ? metalc5 A O SER 258 A SER 320 1_555 I NA NA . A NA 706 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.012 ? metalc ? metalc6 A OG SER 258 A SER 320 1_555 I NA NA . A NA 706 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.454 ? metalc ? metalc7 A O LEU 355 A LEU 417 1_555 J NA NA . A NA 707 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.347 ? metalc ? metalc8 A OD1 ASP 358 A ASP 420 1_555 J NA NA . A NA 707 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.272 ? metalc ? metalc9 A OG SER 359 A SER 421 1_555 J NA NA . A NA 707 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.074 ? # _chem_comp.formula 'C16 H20 I N O2' _chem_comp.formula_weight 385.24 _chem_comp.id 42F _chem_comp.mon_nstd_flag . _chem_comp.name 'methyl (1R,2S,3S,5S)-3-(4-iodophenyl)-8-methyl-8-azabicyclo[3.2.1]octane-2-carboxylate' _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 I C11 42F sing 1 n n C12 C11 42F doub 2 n y C12 C13 42F sing 3 n y C11 C10 42F sing 4 n y C13 C8 42F doub 5 n y C10 C9 42F doub 6 n y O1 C14 42F sing 7 n n O1 C15 42F sing 8 n n O C14 42F doub 9 n n C8 C9 42F sing 10 n y C8 C6 42F sing 11 n n C14 C5 42F sing 12 n n C7 C6 42F sing 13 n n C7 C1 42F sing 14 n n C6 C5 42F sing 15 n n C5 C4 42F sing 16 n n C1 N 42F sing 17 n n C1 C2 42F sing 18 n n N C4 42F sing 19 n n N C 42F sing 20 n n C4 C3 42F sing 21 n n C2 C3 42F sing 22 n n C15 H1 42F sing 23 n n C15 H2 42F sing 24 n n C15 H3 42F sing 25 n n C5 H4 42F sing 26 n n C4 H5 42F sing 27 n n C3 H6 42F sing 28 n n C3 H7 42F sing 29 n n C2 H8 42F sing 30 n n C2 H9 42F sing 31 n n C H11 42F sing 32 n n C H12 42F sing 33 n n C H13 42F sing 34 n n C6 H14 42F sing 35 n n C7 H15 42F sing 36 n n C7 H16 42F sing 37 n n C1 H17 42F sing 38 n n C13 H18 42F sing 39 n n C12 H19 42F sing 40 n n C10 H20 42F sing 41 n n C9 H21 42F sing 42 n n # _atom_sites.entry_id 4XPF _atom_sites.fract_transf_matrix[1][1] 0.010265 _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] 0.007127 _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] 0.005989 _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 DMU A 1 701 1 DMU DMU . E 5 P4G A 1 702 1 P4G P4G . F 6 42F A 1 703 1 42F DUM . G 7 CLR A 1 704 1 CLR CLR . H 7 CLR A 1 705 2 CLR CLR . I 8 NA A 1 706 1 NA NA . J 8 NA A 1 707 2 NA NA . K 9 CL A 1 708 3 CL CL . L 10 HOH A 1 801 5 HOH HOH . M 10 HOH L 1 301 3 HOH HOH . M 10 HOH L 2 302 6 HOH HOH . M 10 HOH L 3 303 4 HOH HOH . N 10 HOH H 1 301 1 HOH HOH . N 10 HOH H 2 302 2 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 O O 42F . . . F 6 -7.654 -1.246 25.514 1 125.74 ? O 42F 703 A 1 HETATM 2 C C14 42F . . . F 6 -8.641 -0.829 26.117 1 123.01 ? C14 42F 703 A 1 HETATM 3 O O1 42F . . . F 6 -9.412 0.207 25.69 1 125.51 ? O1 42F 703 A 1 HETATM 4 C C15 42F . . . F 6 -9.69 0.054 24.295 1 123.47 ? C15 42F 703 A 1 HETATM 5 C C5 42F . . . F 6 -9.088 -1.467 27.436 1 122.25 ? C5 42F 703 A 1 HETATM 6 C C4 42F . . . F 6 -8.128 -1.037 28.542 1 115.56 ? C4 42F 703 A 1 HETATM 7 C C3 42F . . . F 6 -8.44 -1.794 29.827 1 112.11 ? C3 42F 703 A 1 HETATM 8 C C2 42F . . . F 6 -7.578 -3.055 29.745 1 109 ? C2 42F 703 A 1 HETATM 9 N N 42F . . . F 6 -6.762 -1.472 28.223 1 110.43 ? N 42F 703 A 1 HETATM 10 C C 42F . . . F 6 -5.812 -0.884 29.18 1 102.71 ? C 42F 703 A 1 HETATM 11 C C6 42F . . . F 6 -9.097 -3.007 27.327 1 118.73 ? C6 42F 703 A 1 HETATM 12 C C7 42F . . . F 6 -7.665 -3.568 27.305 1 120.15 ? C7 42F 703 A 1 HETATM 13 C C1 42F . . . F 6 -6.84 -2.925 28.419 1 112.76 ? C1 42F 703 A 1 HETATM 14 C C8 42F . . . F 6 -9.81 -3.431 26.203 1 120.12 ? C8 42F 703 A 1 HETATM 15 C C13 42F . . . F 6 -9.243 -3.357 24.935 1 121.76 ? C13 42F 703 A 1 HETATM 16 C C12 42F . . . F 6 -9.961 -3.782 23.823 1 128.57 ? C12 42F 703 A 1 HETATM 17 C C11 42F . . . F 6 -11.249 -4.281 23.977 1 134.72 ? C11 42F 703 A 1 HETATM 18 I I 42F . . . F 6 -12.33 -4.921 22.304 1 307.85 ? I 42F 703 A 1 HETATM 19 C C10 42F . . . F 6 -11.818 -4.356 25.243 1 132.4 ? C10 42F 703 A 1 HETATM 20 C C9 42F . . . F 6 -11.099 -3.931 26.354 1 124.11 ? C9 42F 703 A 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 12 _model_server_stats.query_time_ms 325 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 20 #