data_6FK8 # _model_server_result.job_id DobCXGZfa4wZIBU9d_Zgdw _model_server_result.datetime_utc '2024-11-23 05:35:03' _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 6fk8 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":407}' # _entry.id 6FK8 # _exptl.entry_id 6FK8 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 386.872 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "(2~{R},3~{S})-3-azanyl-2-(4-chlorophenyl)-1-spiro[1,3-benzodioxole-2,4'-piperidine]-1'-yl-butan-1-one" _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 6FK8 _cell.length_a 242.183 _cell.length_b 242.183 _cell.length_c 110.967 _cell.Z_PDB 18 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6FK8 _symmetry.cell_setting ? _symmetry.Int_Tables_number 155 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'H 3 2' # _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 _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 # _pdbx_entity_branch.entity_id 2 _pdbx_entity_branch.type oligosaccharide # loop_ _pdbx_entity_branch_link.link_id _pdbx_entity_branch_link.details _pdbx_entity_branch_link.entity_id _pdbx_entity_branch_link.entity_branch_list_num_1 _pdbx_entity_branch_link.entity_branch_list_num_2 _pdbx_entity_branch_link.comp_id_1 _pdbx_entity_branch_link.comp_id_2 _pdbx_entity_branch_link.atom_id_1 _pdbx_entity_branch_link.leaving_atom_id_1 _pdbx_entity_branch_link.atom_stereo_config_1 _pdbx_entity_branch_link.atom_id_2 _pdbx_entity_branch_link.leaving_atom_id_2 _pdbx_entity_branch_link.atom_stereo_config_2 _pdbx_entity_branch_link.value_order 1 ? 2 2 1 NAG NAG C1 O1 . O4 HO4 . sing 2 ? 2 3 2 BMA NAG C1 O1 . O4 HO4 . sing 3 ? 2 4 3 MAN BMA C1 O1 . O3 HO3 . sing 4 ? 2 5 3 MAN BMA C1 O1 . O6 HO6 . sing # loop_ _pdbx_branch_scheme.entity_id _pdbx_branch_scheme.hetero _pdbx_branch_scheme.asym_id _pdbx_branch_scheme.mon_id _pdbx_branch_scheme.num _pdbx_branch_scheme.pdb_asym_id _pdbx_branch_scheme.pdb_seq_num _pdbx_branch_scheme.pdb_mon_id _pdbx_branch_scheme.auth_asym_id _pdbx_branch_scheme.auth_seq_num _pdbx_branch_scheme.auth_mon_id 2 n B NAG 1 B 1 NAG A 400 NAG 2 n B NAG 2 B 2 NAG A 401 NAG 2 n B BMA 3 B 3 BMA A 402 BMA 2 n B MAN 4 B 4 MAN A 403 MAN 2 n B MAN 5 B 5 MAN A 404 MAN # 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 3 A CYS 2 1_555 A SG CYS 283 A CYS 282 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.02 ? disulf ? disulf2 A SG CYS 111 A CYS 110 1_555 A SG CYS 188 A CYS 187 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.052 ? covale ? covale1 A C ACE 1 A ACE 0 1_555 A N MET 2 A MET 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.35 ? covale ? covale2 A ND2 ASN 16 A ASN 15 1_555 B C1 NAG . B NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.447 ? covale ? covale3 A SG CYS 323 A CYS 322 1_555 C C1 PLM . A PLM 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.719 ? covale ? covale4 B O4 NAG . B NAG 1 1_555 B C1 NAG . B NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale5 B O4 NAG . B NAG 2 1_555 B C1 BMA . B BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.418 ? covale ? covale6 B O3 BMA . B BMA 3 1_555 B C1 MAN . B MAN 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.433 ? covale ? covale7 B O6 BMA . B BMA 3 1_555 B C1 MAN . B MAN 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.453 ? # _chem_comp.formula 'C21 H23 Cl N2 O3' _chem_comp.formula_weight 386.872 _chem_comp.id DNZ _chem_comp.mon_nstd_flag . _chem_comp.name "(2~{R},3~{S})-3-azanyl-2-(4-chlorophenyl)-1-spiro[1,3-benzodioxole-2,4'-piperidine]-1'-yl-butan-1-one" _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 C27 C26 DNZ doub 161 n y C27 C21 DNZ sing 162 n y C6 N5 DNZ sing 163 n n C6 C1 DNZ sing 164 n n O20 C21 DNZ sing 165 n n O20 C2 DNZ sing 166 n n C26 C25 DNZ sing 167 n y C12 C10 DNZ sing 168 n n C21 C22 DNZ doub 169 n y N5 C4 DNZ sing 170 n n N5 C7 DNZ sing 171 n n N11 C10 DNZ sing 172 n n C1 C2 DNZ sing 173 n n C9 C10 DNZ sing 174 n n C9 C7 DNZ sing 175 n n C9 C13 DNZ sing 176 n n C4 C3 DNZ sing 177 n n C2 C3 DNZ sing 178 n n C2 O23 DNZ sing 179 n n C14 C13 DNZ doub 180 n y C14 C15 DNZ sing 181 n y C7 O8 DNZ doub 182 n n C25 C24 DNZ doub 183 n y C22 O23 DNZ sing 184 n n C22 C24 DNZ sing 185 n y C13 C19 DNZ sing 186 n y C15 C16 DNZ doub 187 n y C19 C18 DNZ doub 188 n y C16 C18 DNZ sing 189 n y C16 CL DNZ sing 190 n n C10 H1 DNZ sing 191 n n C15 H2 DNZ sing 192 n n C18 H3 DNZ sing 193 n n C19 H4 DNZ sing 194 n n C24 H5 DNZ sing 195 n n C25 H6 DNZ sing 196 n n C26 H7 DNZ sing 197 n n C27 H8 DNZ sing 198 n n C1 H9 DNZ sing 199 n n C1 H10 DNZ sing 200 n n C3 H11 DNZ sing 201 n n C3 H12 DNZ sing 202 n n C4 H13 DNZ sing 203 n n C4 H14 DNZ sing 204 n n C6 H15 DNZ sing 205 n n C6 H16 DNZ sing 206 n n C9 H17 DNZ sing 207 n n N11 H18 DNZ sing 208 n n N11 H19 DNZ sing 209 n n C12 H21 DNZ sing 210 n n C12 H22 DNZ sing 211 n n C12 H23 DNZ sing 212 n n C14 H24 DNZ sing 213 n n # _atom_sites.entry_id 6FK8 _atom_sites.fract_transf_matrix[1][1] 0.004129 _atom_sites.fract_transf_matrix[1][2] 0.002384 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.004768 _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] 0.009012 _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 C 3 PLM A 1 401 1322 PLM P1L . D 4 DNZ A 1 407 1 DNZ L0R . E 5 BOG A 1 408 1 BOG BOG . F 5 BOG A 1 409 2 BOG BOG . # 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 C10 DNZ . . . D 4 31.655 388.327 35.445 1 135.32 ? C10 DNZ 407 A 1 HETATM 2 C C13 DNZ . . . D 4 33.056 390.288 36.189 1 144.44 ? C13 DNZ 407 A 1 HETATM 3 C C15 DNZ . . . D 4 33.187 392.694 36.475 1 130.63 ? C15 DNZ 407 A 1 HETATM 4 C C16 DNZ . . . D 4 33.027 392.5 37.837 1 125.8 ? C16 DNZ 407 A 1 HETATM 5 C C18 DNZ . . . D 4 32.918 391.247 38.403 1 130.22 ? C18 DNZ 407 A 1 HETATM 6 C C19 DNZ . . . D 4 32.955 390.135 37.571 1 138.13 ? C19 DNZ 407 A 1 HETATM 7 C C21 DNZ . . . D 4 39.987 389.199 34.738 1 157.63 ? C21 DNZ 407 A 1 HETATM 8 C C22 DNZ . . . D 4 40.079 389.761 36.017 1 160.07 ? C22 DNZ 407 A 1 HETATM 9 C C24 DNZ . . . D 4 41.268 390.159 36.526 1 163.09 ? C24 DNZ 407 A 1 HETATM 10 C C25 DNZ . . . D 4 42.347 389.942 35.671 1 163.27 ? C25 DNZ 407 A 1 HETATM 11 C C26 DNZ . . . D 4 42.328 389.181 34.563 1 162.16 ? C26 DNZ 407 A 1 HETATM 12 C C27 DNZ . . . D 4 41.09 388.854 34.002 1 158.89 ? C27 DNZ 407 A 1 HETATM 13 C C1 DNZ . . . D 4 36.829 390.298 35.136 1 155.49 ? C1 DNZ 407 A 1 HETATM 14 C C2 DNZ . . . D 4 37.942 389.354 35.593 1 160.11 ? C2 DNZ 407 A 1 HETATM 15 C C3 DNZ . . . D 4 37.423 388.073 36.26 1 165.89 ? C3 DNZ 407 A 1 HETATM 16 C C4 DNZ . . . D 4 36.47 387.35 35.305 1 166.33 ? C4 DNZ 407 A 1 HETATM 17 N N5 DNZ . . . D 4 35.381 388.26 34.947 1 164.13 ? N5 DNZ 407 A 1 HETATM 18 C C6 DNZ . . . D 4 35.826 389.51 34.281 1 158.14 ? C6 DNZ 407 A 1 HETATM 19 C C7 DNZ . . . D 4 34.199 388.15 35.659 1 156 ? C7 DNZ 407 A 1 HETATM 20 O O8 DNZ . . . D 4 34.13 387.303 36.556 1 153.66 ? O8 DNZ 407 A 1 HETATM 21 C C9 DNZ . . . D 4 33.049 389.076 35.287 1 145.34 ? C9 DNZ 407 A 1 HETATM 22 N N11 DNZ . . . D 4 30.532 389.173 35.066 1 130.86 ? N11 DNZ 407 A 1 HETATM 23 C C12 DNZ . . . D 4 31.598 387.041 34.596 1 134.47 ? C12 DNZ 407 A 1 HETATM 24 C C14 DNZ . . . D 4 33.142 391.581 35.641 1 141.8 ? C14 DNZ 407 A 1 HETATM 25 CL CL DNZ . . . D 4 33.024 393.86 38.877 1 116.71 ? CL DNZ 407 A 1 HETATM 26 O O20 DNZ . . . D 4 38.692 388.893 34.478 1 158.04 ? O20 DNZ 407 A 1 HETATM 27 O O23 DNZ . . . D 4 38.824 389.966 36.522 1 158.27 ? O23 DNZ 407 A 1 # _model_server_stats.io_time_ms 22 _model_server_stats.parse_time_ms 13 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 321 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 27 #