data_4CI3 # _model_server_result.job_id ue8YQjEaJuK7KB3kmdtNOQ _model_server_result.datetime_utc '2024-11-04 22:16:34' _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 4ci3 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":1429}' # _entry.id 4CI3 # _exptl.entry_id 4CI3 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 273.244 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description S-Pomalidomide _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 4CI3 _cell.length_a 171.07 _cell.length_b 171.07 _cell.length_c 137.93 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4CI3 _symmetry.cell_setting ? _symmetry.Int_Tables_number 154 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 32 2 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _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 _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 # 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 B SG CYS 349 B CYS 325 1_555 C ZN ZN . B ZN 1428 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.292 ? metalc ? metalc2 B SG CYS 352 B CYS 328 1_555 C ZN ZN . B ZN 1428 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.131 ? metalc ? metalc3 B SG CYS 417 B CYS 393 1_555 C ZN ZN . B ZN 1428 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.388 ? metalc ? metalc4 B SG CYS 420 B CYS 396 1_555 C ZN ZN . B ZN 1428 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.142 ? # _chem_comp.formula 'C13 H11 N3 O4' _chem_comp.formula_weight 273.244 _chem_comp.id Y70 _chem_comp.mon_nstd_flag . _chem_comp.name S-Pomalidomide _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 C1 C2 Y70 sing 374 n y C1 C6 Y70 doub 375 n y C2 C3 Y70 doub 376 n y C3 C4 Y70 sing 377 n y C4 C5 Y70 doub 378 n y C4 C7 Y70 sing 379 n n C5 C6 Y70 sing 380 n y C5 C9 Y70 sing 381 n n C6 N10 Y70 sing 382 n n C7 N8 Y70 sing 383 n n C7 O13 Y70 doub 384 n n N8 C9 Y70 sing 385 n n N8 C12 Y70 sing 386 n n C9 O11 Y70 doub 387 n n C12 C14 Y70 sing 388 n n C12 C15 Y70 sing 389 n n C14 C18 Y70 sing 390 n n C15 N16 Y70 sing 391 n n C15 O19 Y70 doub 392 n n N16 C17 Y70 sing 393 n n C17 C18 Y70 sing 394 n n C17 O20 Y70 doub 395 n n C1 H1 Y70 sing 396 n n C2 H2 Y70 sing 397 n n C3 H3 Y70 sing 398 n n N10 H101 Y70 sing 399 n n N10 H102 Y70 sing 400 n n C12 H12 Y70 sing 401 n n C14 H141 Y70 sing 402 n n C14 H142 Y70 sing 403 n n C18 H181 Y70 sing 404 n n C18 H182 Y70 sing 405 n n N16 H16 Y70 sing 406 n n # _atom_sites.entry_id 4CI3 _atom_sites.fract_transf_matrix[1][1] 0.005846 _atom_sites.fract_transf_matrix[1][2] 0.003375 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.00675 _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] 0.00725 _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 ZN B 1 1428 1428 ZN ZN . D 4 Y70 B 1 1429 1429 Y70 Y70 . # 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 Y70 . . . D 4 -1.697 0.575 -11.315 1 87.06 ? C1 Y70 1429 B 1 HETATM 2 C C2 Y70 . . . D 4 -1.928 -0.638 -10.644 1 86.1 ? C2 Y70 1429 B 1 HETATM 3 C C3 Y70 . . . D 4 -3.149 -0.897 -10.015 1 88.35 ? C3 Y70 1429 B 1 HETATM 4 C C4 Y70 . . . D 4 -4.102 0.117 -10.068 1 91.02 ? C4 Y70 1429 B 1 HETATM 5 C C5 Y70 . . . D 4 -3.853 1.331 -10.711 1 90.44 ? C5 Y70 1429 B 1 HETATM 6 C C6 Y70 . . . D 4 -2.662 1.598 -11.366 1 89.87 ? C6 Y70 1429 B 1 HETATM 7 C C7 Y70 . . . D 4 -5.496 0.211 -9.501 1 93.8 ? C7 Y70 1429 B 1 HETATM 8 N N8 Y70 . . . D 4 -6.001 1.463 -9.828 1 95.07 ? N8 Y70 1429 B 1 HETATM 9 C C9 Y70 . . . D 4 -5.084 2.169 -10.557 1 91.55 ? C9 Y70 1429 B 1 HETATM 10 N N10 Y70 . . . D 4 -2.485 2.787 -12.012 1 92.84 ? N10 Y70 1429 B 1 HETATM 11 O O11 Y70 . . . D 4 -5.171 3.289 -11.051 1 88.79 ? O11 Y70 1429 B 1 HETATM 12 C C12 Y70 . . . D 4 -7.336 1.965 -9.514 1 95.62 ? C12 Y70 1429 B 1 HETATM 13 O O13 Y70 . . . D 4 -5.993 -0.744 -8.881 1 91.12 ? O13 Y70 1429 B 1 HETATM 14 C C14 Y70 . . . D 4 -7.245 3.059 -8.42 1 95.79 ? C14 Y70 1429 B 1 HETATM 15 C C15 Y70 . . . D 4 -8.016 2.508 -10.758 1 96.63 ? C15 Y70 1429 B 1 HETATM 16 N N16 Y70 . . . D 4 -8.913 3.523 -10.632 1 99.37 ? N16 Y70 1429 B 1 HETATM 17 C C17 Y70 . . . D 4 -9.277 4.117 -9.465 1 100.26 ? C17 Y70 1429 B 1 HETATM 18 C C18 Y70 . . . D 4 -8.658 3.639 -8.167 1 98.77 ? C18 Y70 1429 B 1 HETATM 19 O O19 Y70 . . . D 4 -7.766 1.995 -11.845 1 94.92 ? O19 Y70 1429 B 1 HETATM 20 O O20 Y70 . . . D 4 -10.12 5 -9.428 1 100.87 ? O20 Y70 1429 B 1 # _model_server_stats.io_time_ms 108 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 8 _model_server_stats.query_time_ms 236 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 20 #