data_3GPH # _model_server_result.job_id -Q32U_LbGA8p4djnecLQpw _model_server_result.datetime_utc '2024-10-17 18:37:45' _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 3gph # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":501}' # _entry.id 3GPH # _exptl.entry_id 3GPH _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 238.326 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '10-(1H-imidazol-1-yl)decanoic acid' _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 90 _cell.angle_gamma 90 _cell.entry_id 3GPH _cell.length_a 70.709 _cell.length_b 70.709 _cell.length_c 222.823 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3GPH _symmetry.cell_setting ? _symmetry.Int_Tables_number 78 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 43' # 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 monomeric 1 author_and_software_defined_assembly 1 PISA monomeric 1 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,D,G 1 1 B,E,F,H 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 ? 3 D N N ? 3 F 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 metalc ? metalc1 A SG CYS 416 A CYS 437 1_555 C FE HEM . A HEM 500 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.174 ? metalc ? metalc2 C FE HEM . A HEM 500 1_555 D N15 OID . A OID 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.441 ? metalc ? metalc3 B SG CYS 416 B CYS 437 1_555 E FE HEM . B HEM 500 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.261 ? metalc ? metalc4 E FE HEM . B HEM 500 1_555 F N15 OID . B OID 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.335 ? # _chem_comp.formula 'C13 H22 N2 O2' _chem_comp.formula_weight 238.326 _chem_comp.id OID _chem_comp.mon_nstd_flag . _chem_comp.name '10-(1H-imidazol-1-yl)decanoic acid' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms '10-imidazolyl-decanoic acid' # 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 O17 C2 OID doub 319 n n C3 C2 OID sing 320 n n C2 O1 OID sing 321 n n O1 HO1 OID sing 322 n n C3 C4 OID sing 323 n n C3 H3 OID sing 324 n n C3 H3A OID sing 325 n n C5 C4 OID sing 326 n n C4 H4 OID sing 327 n n C4 H4A OID sing 328 n n C6 C5 OID sing 329 n n C5 H5 OID sing 330 n n C5 H5A OID sing 331 n n C7 C6 OID sing 332 n n C6 H6 OID sing 333 n n C6 H6A OID sing 334 n n C8 C7 OID sing 335 n n C7 H7 OID sing 336 n n C7 H7A OID sing 337 n n C9 C8 OID sing 338 n n C8 H8 OID sing 339 n n C8 H8A OID sing 340 n n C10 C9 OID sing 341 n n C9 H9 OID sing 342 n n C9 H9A OID sing 343 n n C11 C10 OID sing 344 n n C10 H10 OID sing 345 n n C10 H10A OID sing 346 n n N12 C11 OID sing 347 n n C11 H11 OID sing 348 n n C11 H11A OID sing 349 n n C16 N12 OID sing 350 n y N12 C13 OID sing 351 n y N15 C16 OID doub 352 n y C16 H16 OID sing 353 n n N15 C14 OID sing 354 n y C14 C13 OID doub 355 n y C14 H14 OID sing 356 n n C13 H13 OID sing 357 n n # _atom_sites.entry_id 3GPH _atom_sites.fract_transf_matrix[1][1] 0.014142 _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] 0.014142 _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] 0.004488 _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 2 HEM A 1 500 500 HEM HEM . D 3 OID A 1 501 501 OID OID . E 2 HEM B 1 500 500 HEM HEM . F 3 OID B 1 501 501 OID OID . G 4 HOH A 1 3 3 HOH HOH . G 4 HOH A 2 7 7 HOH HOH . G 4 HOH A 3 8 8 HOH HOH . G 4 HOH A 4 9 9 HOH HOH . G 4 HOH A 5 14 14 HOH HOH . G 4 HOH A 6 15 15 HOH HOH . G 4 HOH A 7 16 16 HOH HOH . G 4 HOH A 8 17 17 HOH HOH . G 4 HOH A 9 18 18 HOH HOH . G 4 HOH A 10 20 20 HOH HOH . G 4 HOH A 11 21 21 HOH HOH . G 4 HOH A 12 498 23 HOH HOH . G 4 HOH A 13 499 25 HOH HOH . G 4 HOH A 14 502 31 HOH HOH . G 4 HOH A 15 503 34 HOH HOH . H 4 HOH B 1 2 2 HOH HOH . H 4 HOH B 2 5 5 HOH HOH . H 4 HOH B 3 19 19 HOH HOH . H 4 HOH B 4 498 22 HOH HOH . H 4 HOH B 5 499 24 HOH HOH . H 4 HOH B 6 502 27 HOH HOH . H 4 HOH B 7 503 28 HOH HOH . H 4 HOH B 8 504 29 HOH HOH . H 4 HOH B 9 505 32 HOH HOH . H 4 HOH B 10 506 33 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 O17 OID . . . D 3 11.991 -5.939 -18.799 1 38.79 ? O17 OID 501 A 1 HETATM 2 C C2 OID . . . D 3 10.76 -5.94 -19.056 1 37.85 ? C2 OID 501 A 1 HETATM 3 O O1 OID . . . D 3 10.163 -6.931 -19.54 1 38.83 ? O1 OID 501 A 1 HETATM 4 C C3 OID . . . D 3 9.969 -4.687 -18.781 1 36.24 ? C3 OID 501 A 1 HETATM 5 C C4 OID . . . D 3 8.456 -4.897 -18.802 1 33.78 ? C4 OID 501 A 1 HETATM 6 C C5 OID . . . D 3 7.896 -5.547 -17.538 1 31.45 ? C5 OID 501 A 1 HETATM 7 C C6 OID . . . D 3 6.556 -4.901 -17.211 1 31.01 ? C6 OID 501 A 1 HETATM 8 C C7 OID . . . D 3 5.959 -5.397 -15.894 1 29.36 ? C7 OID 501 A 1 HETATM 9 C C8 OID . . . D 3 5.194 -4.316 -15.119 1 27.68 ? C8 OID 501 A 1 HETATM 10 C C9 OID . . . D 3 4.291 -4.995 -14.101 1 26.51 ? C9 OID 501 A 1 HETATM 11 C C10 OID . . . D 3 3.88 -4.209 -12.856 1 26.31 ? C10 OID 501 A 1 HETATM 12 C C11 OID . . . D 3 3.734 -5.215 -11.693 1 25.29 ? C11 OID 501 A 1 HETATM 13 N N12 OID . . . D 3 4.816 -5.024 -10.722 1 24.52 ? N12 OID 501 A 1 HETATM 14 C C16 OID . . . D 3 4.744 -4.345 -9.568 1 24 ? C16 OID 501 A 1 HETATM 15 N N15 OID . . . D 3 5.965 -4.348 -8.982 1 19.86 ? N15 OID 501 A 1 HETATM 16 C C14 OID . . . D 3 6.787 -5.048 -9.756 1 21.67 ? C14 OID 501 A 1 HETATM 17 C C13 OID . . . D 3 6.071 -5.462 -10.851 1 23.43 ? C13 OID 501 A 1 # _model_server_stats.io_time_ms 11 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 29 _model_server_stats.query_time_ms 262 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 17 #