data_1LDQ # _model_server_result.job_id pjqyAl9N2UzdWhrrbaS1hQ _model_server_result.datetime_utc '2024-10-24 04:23:00' _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 1ldq # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":2}' # _entry.id 1LDQ # _exptl.entry_id 1LDQ _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 258.337 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description HOMOBIOTIN _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 1LDQ _cell.length_a 71.758 _cell.length_b 79.836 _cell.length_c 42.906 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1LDQ _symmetry.cell_setting ? _symmetry.Int_Tables_number 18 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 21 21 2' # _pdbx_struct_assembly.method_details PISA,PQS _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 _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 _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 2_565 -x,-y+1,z -1 0 0 0 -1 0 0 0 1 0 79.836 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 disulf ? disulf1 A SG CYS 4 A CYS 4 1_555 A SG CYS 83 A CYS 83 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.026 ? disulf ? disulf2 B SG CYS 4 B CYS 204 1_555 B SG CYS 83 B CYS 283 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.023 ? covale ? covale1 A ND2 ASN 17 A ASN 17 1_555 C C1 NAG . A NAG 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.449 ? covale ? covale2 B ND2 ASN 17 B ASN 217 1_555 E C1 NAG . B NAG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.446 ? # _chem_comp.formula 'C11 H18 N2 O3 S' _chem_comp.formula_weight 258.337 _chem_comp.id SHM _chem_comp.mon_nstd_flag . _chem_comp.name HOMOBIOTIN _chem_comp.type non-polymer _chem_comp.pdbx_synonyms '6-(2-OXO-HEXAHYDRO-THIENO[3,4-D]IMIDAZOL-4-YL)-HEXANOIC 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 C1 C2 SHM sing 320 n n C1 N5 SHM sing 321 n n C1 C8 SHM sing 322 n n C1 H11 SHM sing 323 n n C2 N3 SHM sing 324 n n C2 C6 SHM sing 325 n n C2 H12 SHM sing 326 n n N3 C4 SHM sing 327 n n N3 HN3 SHM sing 328 n n C4 N5 SHM sing 329 n n C4 O17 SHM doub 330 n n N5 HN5 SHM sing 331 n n C6 S7 SHM sing 332 n n C6 C9 SHM sing 333 n n C6 H6 SHM sing 334 n n S7 C8 SHM sing 335 n n C8 H81 SHM sing 336 n n C8 H82 SHM sing 337 n n C9 C10 SHM sing 338 n n C9 H11A SHM sing 339 n n C9 H21 SHM sing 340 n n C10 C11 SHM sing 341 n n C10 H12A SHM sing 342 n n C10 H22 SHM sing 343 n n C11 C12 SHM sing 344 n n C11 H13 SHM sing 345 n n C11 H23 SHM sing 346 n n C12 C13 SHM sing 347 n n C12 H14 SHM sing 348 n n C12 H24 SHM sing 349 n n C13 C14 SHM sing 350 n n C13 H15 SHM sing 351 n n C13 H25 SHM sing 352 n n C14 O15 SHM doub 353 n n C14 O16 SHM sing 354 n n O16 H16 SHM sing 355 n n # _atom_sites.entry_id 1LDQ _atom_sites.fract_transf_matrix[1][1] 0.013936 _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] 0.012526 _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] 0.023307 _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 NAG A 1 401 401 NAG NAG . D 3 SHM A 1 402 1 SHM SHM . E 2 NAG B 1 402 402 NAG NAG . F 3 SHM B 1 2 2 SHM SHM . G 4 HOH A 1 500 500 HOH WAT . G 4 HOH A 2 501 501 HOH WAT . G 4 HOH A 3 502 502 HOH WAT . G 4 HOH A 4 504 504 HOH WAT . G 4 HOH A 5 507 507 HOH WAT . G 4 HOH A 6 510 510 HOH WAT . H 4 HOH B 1 503 503 HOH WAT . H 4 HOH B 2 505 505 HOH WAT . H 4 HOH B 3 506 506 HOH WAT . H 4 HOH B 4 508 508 HOH WAT . H 4 HOH B 5 509 509 HOH WAT . H 4 HOH B 6 511 511 HOH WAT . # 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 SHM . . . F 3 10.824 38.416 5.898 1 66.46 ? C1 SHM 2 B 1 HETATM 2 C C2 SHM . . . F 3 11.144 38.382 4.38 1 67.11 ? C2 SHM 2 B 1 HETATM 3 N N3 SHM . . . F 3 12.559 37.947 4.371 1 68.52 ? N3 SHM 2 B 1 HETATM 4 C C4 SHM . . . F 3 13.014 37.752 5.648 1 69.08 ? C4 SHM 2 B 1 HETATM 5 N N5 SHM . . . F 3 12.051 38.011 6.565 1 67.85 ? N5 SHM 2 B 1 HETATM 6 C C6 SHM . . . F 3 10.875 39.848 3.775 1 66.36 ? C6 SHM 2 B 1 HETATM 7 S S7 SHM . . . F 3 11.191 40.903 5.239 1 66.03 ? S7 SHM 2 B 1 HETATM 8 C C8 SHM . . . F 3 10.35 39.8 6.415 1 65.11 ? C8 SHM 2 B 1 HETATM 9 C C9 SHM . . . F 3 11.678 40.194 2.431 1 63.98 ? C9 SHM 2 B 1 HETATM 10 C C10 SHM . . . F 3 11.483 41.594 1.758 1 61.79 ? C10 SHM 2 B 1 HETATM 11 C C11 SHM . . . F 3 10.022 41.871 1.348 1 62.18 ? C11 SHM 2 B 1 HETATM 12 C C12 SHM . . . F 3 9.866 41.988 -0.177 1 62.51 ? C12 SHM 2 B 1 HETATM 13 C C13 SHM . . . F 3 8.361 42.265 -0.536 1 62.62 ? C13 SHM 2 B 1 HETATM 14 C C14 SHM . . . F 3 7.602 40.998 -1.027 1 62.15 ? C14 SHM 2 B 1 HETATM 15 O O15 SHM . . . F 3 6.321 40.747 -0.596 1 60.39 ? O15 SHM 2 B 1 HETATM 16 O O16 SHM . . . F 3 8.11 40.185 -1.816 1 63.34 ? O16 SHM 2 B 1 HETATM 17 O O17 SHM . . . F 3 14.168 37.383 5.936 1 69.98 ? O17 SHM 2 B 1 # _model_server_stats.io_time_ms 23 _model_server_stats.parse_time_ms 5 _model_server_stats.create_model_time_ms 18 _model_server_stats.query_time_ms 231 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 17 #