data_6FKC # _model_server_result.job_id PqC8jswgm0srFUCrJyRO0Q _model_server_result.datetime_utc '2024-11-23 01:09:03' _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 6fkc # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":407}' # _entry.id 6FKC # _exptl.entry_id 6FKC _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 457.947 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "3-[1'-[(2~{S})-2-(4-chlorophenyl)-3-methyl-butanoyl]spiro[1,3-benzodioxole-2,4'-piperidine]-5-yl]propanoic acid" _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 6FKC _cell.length_a 243.214 _cell.length_b 243.214 _cell.length_c 111.858 _cell.Z_PDB 18 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6FKC _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,G,H,I,J _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 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? disulf ? disulf2 A SG CYS 111 A CYS 110 1_555 A SG CYS 188 A CYS 187 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.058 ? covale ? covale1 A C ACE 1 A ACE 0 1_555 A N MET 2 A MET 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.341 ? covale ? covale2 A ND2 ASN 16 A ASN 15 1_555 B C1 NAG . B NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.43 ? covale ? covale3 A SG CYS 323 A CYS 322 1_555 C C1 PLM . A PLM 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.727 ? covale ? covale4 B O4 NAG . B NAG 1 1_555 B C1 NAG . B NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.438 ? covale ? covale5 B O4 NAG . B NAG 2 1_555 B C1 BMA . B BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.432 ? covale ? covale6 B O3 BMA . B BMA 3 1_555 B C1 MAN . B MAN 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.445 ? covale ? covale7 B O6 BMA . B BMA 3 1_555 B C1 MAN . B MAN 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? # _chem_comp.formula 'C25 H28 Cl N O5' _chem_comp.formula_weight 457.947 _chem_comp.id DLB _chem_comp.mon_nstd_flag . _chem_comp.name "3-[1'-[(2~{S})-2-(4-chlorophenyl)-3-methyl-butanoyl]spiro[1,3-benzodioxole-2,4'-piperidine]-5-yl]propanoic acid" _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 C28 C25 DLB sing 161 n n C28 C29 DLB sing 162 n n C18 C17 DLB sing 163 n n C24 C25 DLB doub 164 n y C24 C22 DLB sing 165 n y C2 C1 DLB sing 166 n n C2 C3 DLB sing 167 n n O23 C22 DLB sing 168 n n O23 C3 DLB sing 169 n n C25 C26 DLB sing 170 n y C22 C21 DLB doub 171 n y C1 N6 DLB sing 172 n n O32 C30 DLB doub 173 n n C9 C17 DLB sing 174 n n C9 C7 DLB sing 175 n n C9 C10 DLB sing 176 n n C29 C30 DLB sing 177 n n C19 C17 DLB sing 178 n n C3 O20 DLB sing 179 n n C3 C4 DLB sing 180 n n N6 C7 DLB sing 181 n n N6 C5 DLB sing 182 n n C30 O31 DLB sing 183 n n C15 C10 DLB doub 184 n y C15 C14 DLB sing 185 n y C7 O8 DLB doub 186 n n C5 C4 DLB sing 187 n n C26 C27 DLB doub 188 n y C21 O20 DLB sing 189 n n C21 C27 DLB sing 190 n y C10 C11 DLB sing 191 n y C14 C13 DLB doub 192 n y C11 C12 DLB doub 193 n y C13 C12 DLB sing 194 n y C13 CL DLB sing 195 n n C11 H1 DLB sing 196 n n C15 H2 DLB sing 197 n n C17 H3 DLB sing 198 n n C18 H4 DLB sing 199 n n C18 H5 DLB sing 200 n n C18 H6 DLB sing 201 n n C19 H7 DLB sing 202 n n C19 H8 DLB sing 203 n n C19 H9 DLB sing 204 n n C24 H10 DLB sing 205 n n C26 H11 DLB sing 206 n n C27 H12 DLB sing 207 n n C28 H13 DLB sing 208 n n C28 H14 DLB sing 209 n n C1 H15 DLB sing 210 n n C1 H16 DLB sing 211 n n C2 H17 DLB sing 212 n n C2 H18 DLB sing 213 n n C4 H19 DLB sing 214 n n C4 H20 DLB sing 215 n n C5 H21 DLB sing 216 n n C5 H22 DLB sing 217 n n C9 H23 DLB sing 218 n n C12 H24 DLB sing 219 n n C14 H25 DLB sing 220 n n C29 H26 DLB sing 221 n n C29 H27 DLB sing 222 n n O31 H28 DLB sing 223 n n # _atom_sites.entry_id 6FKC _atom_sites.fract_transf_matrix[1][1] 0.004112 _atom_sites.fract_transf_matrix[1][2] 0.002374 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.004748 _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] 0.00894 _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 DLB A 1 407 1 DLB L0R . E 5 BOG A 1 408 1 BOG BOG . F 5 BOG A 1 409 2 BOG BOG . G 5 BOG A 1 410 3 BOG BOG . H 5 BOG A 1 411 4 BOG BOG . I 5 BOG A 1 412 5 BOG BOG . J 6 HOH A 1 501 5 HOH HOH . J 6 HOH A 2 502 6 HOH HOH . J 6 HOH A 3 503 1 HOH HOH . J 6 HOH A 4 504 13 HOH HOH . J 6 HOH A 5 505 19 HOH HOH . J 6 HOH A 6 506 3 HOH HOH . J 6 HOH A 7 507 15 HOH HOH . J 6 HOH A 8 508 14 HOH HOH . J 6 HOH A 9 509 18 HOH HOH . J 6 HOH A 10 510 2 HOH HOH . J 6 HOH A 11 511 10 HOH HOH . J 6 HOH A 12 512 7 HOH HOH . J 6 HOH A 13 513 4 HOH HOH . J 6 HOH A 14 514 26 HOH HOH . J 6 HOH A 15 515 17 HOH HOH . J 6 HOH A 16 516 9 HOH HOH . J 6 HOH A 17 517 20 HOH HOH . J 6 HOH A 18 518 22 HOH HOH . J 6 HOH A 19 519 16 HOH HOH . J 6 HOH A 20 520 11 HOH HOH . J 6 HOH A 21 521 12 HOH HOH . J 6 HOH A 22 522 24 HOH HOH . J 6 HOH A 23 523 8 HOH HOH . J 6 HOH A 24 524 28 HOH HOH . J 6 HOH A 25 525 23 HOH HOH . J 6 HOH A 26 526 21 HOH HOH . J 6 HOH A 27 527 27 HOH HOH . J 6 HOH A 28 528 25 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 C10 DLB . . . D 4 -355.801 -167.316 148.475 1 74.94 ? C10 DLB 407 A 1 HETATM 2 C C11 DLB . . . D 4 -355.703 -167.224 149.865 1 69.55 ? C11 DLB 407 A 1 HETATM 3 C C13 DLB . . . D 4 -357.752 -168.425 150.049 1 80.74 ? C13 DLB 407 A 1 HETATM 4 C C15 DLB . . . D 4 -356.897 -167.956 147.885 1 71.62 ? C15 DLB 407 A 1 HETATM 5 C C17 DLB . . . D 4 -353.374 -167.482 147.776 1 76.09 ? C17 DLB 407 A 1 HETATM 6 C C18 DLB . . . D 4 -352.331 -167.11 146.699 1 72.01 ? C18 DLB 407 A 1 HETATM 7 C C19 DLB . . . D 4 -353.617 -169.009 147.765 1 74.37 ? C19 DLB 407 A 1 HETATM 8 C C21 DLB . . . D 4 -359.453 -160.979 148.249 1 101.01 ? C21 DLB 407 A 1 HETATM 9 C C22 DLB . . . D 4 -358.685 -160.366 147.247 1 100.76 ? C22 DLB 407 A 1 HETATM 10 C C24 DLB . . . D 4 -358.99 -159.151 146.709 1 107.79 ? C24 DLB 407 A 1 HETATM 11 C C25 DLB . . . D 4 -360.135 -158.54 147.223 1 115.67 ? C25 DLB 407 A 1 HETATM 12 C C26 DLB . . . D 4 -360.889 -159.14 148.206 1 116.66 ? C26 DLB 407 A 1 HETATM 13 C C27 DLB . . . D 4 -360.569 -160.391 148.754 1 110.64 ? C27 DLB 407 A 1 HETATM 14 C C28 DLB . . . D 4 -360.533 -157.203 146.684 1 123.6 ? C28 DLB 407 A 1 HETATM 15 C C1 DLB . . . D 4 -357.018 -164.668 147.396 1 71.86 ? C1 DLB 407 A 1 HETATM 16 C C2 DLB . . . D 4 -357.846 -163.517 146.847 1 81.73 ? C2 DLB 407 A 1 HETATM 17 C C3 DLB . . . D 4 -357.748 -162.309 147.768 1 87.96 ? C3 DLB 407 A 1 HETATM 18 C C4 DLB . . . D 4 -356.556 -162.302 148.729 1 80.9 ? C4 DLB 407 A 1 HETATM 19 C C5 DLB . . . D 4 -355.353 -162.917 148.066 1 77.11 ? C5 DLB 407 A 1 HETATM 20 N N6 DLB . . . D 4 -355.615 -164.323 147.773 1 77.81 ? N6 DLB 407 A 1 HETATM 21 C C7 DLB . . . D 4 -354.55 -165.21 147.897 1 78.71 ? C7 DLB 407 A 1 HETATM 22 O O8 DLB . . . D 4 -353.46 -164.745 148.23 1 86.69 ? O8 DLB 407 A 1 HETATM 23 C C9 DLB . . . D 4 -354.727 -166.708 147.6 1 78.87 ? C9 DLB 407 A 1 HETATM 24 C C12 DLB . . . D 4 -356.681 -167.789 150.668 1 69.59 ? C12 DLB 407 A 1 HETATM 25 C C14 DLB . . . D 4 -357.882 -168.52 148.679 1 77.43 ? C14 DLB 407 A 1 HETATM 26 CL CL DLB . . . D 4 -358.98 -169.131 151.029 1 83.37 ? CL DLB 407 A 1 HETATM 27 O O20 DLB . . . D 4 -358.902 -162.183 148.576 1 91.95 ? O20 DLB 407 A 1 HETATM 28 O O23 DLB . . . D 4 -357.642 -161.17 146.936 1 96.31 ? O23 DLB 407 A 1 HETATM 29 C C29 DLB . . . D 4 -360.193 -156.149 147.753 1 127.25 ? C29 DLB 407 A 1 HETATM 30 C C30 DLB . . . D 4 -358.71 -155.902 147.835 1 129.93 ? C30 DLB 407 A 1 HETATM 31 O O31 DLB . . . D 4 -358.042 -156.884 148.495 1 133.26 ? O31 DLB 407 A 1 HETATM 32 O O32 DLB . . . D 4 -358.084 -154.947 147.399 1 129.48 ? O32 DLB 407 A 1 # _model_server_stats.io_time_ms 12 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 290 _model_server_stats.encode_time_ms 21 _model_server_stats.element_count 32 #