data_5EBK # _model_server_result.job_id RbaKmkEMn5srJH2cR9n05w _model_server_result.datetime_utc '2024-12-15 03:41:31' _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 5ebk # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":503}' # _entry.id 5EBK # _exptl.entry_id 5EBK _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 309.814 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 6-sec-Butoxy-2-[(3-chlorophenyl)sulfanyl]-4-pyrimidinamine _entity.pdbx_number_of_molecules 7 _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 5EBK _cell.length_a 102.5 _cell.length_b 102.5 _cell.length_c 192 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5EBK _symmetry.cell_setting ? _symmetry.Int_Tables_number 76 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 41' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H,I,J,K,L _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 # 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 E N N ? 3 F N N ? 3 H N N ? 3 J N N ? 3 K N N ? 3 L 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 72 A CYS 52 1_555 A SG CYS 77 A CYS 57 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf2 A SG CYS 109 A CYS 89 1_555 A SG CYS 233 A CYS 213 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.041 ? disulf ? disulf3 B SG CYS 72 B CYS 52 1_555 B SG CYS 77 B CYS 57 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? disulf ? disulf4 B SG CYS 109 B CYS 89 1_555 B SG CYS 233 B CYS 213 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? # _chem_comp.formula 'C14 H16 Cl N3 O S' _chem_comp.formula_weight 309.814 _chem_comp.id RDS _chem_comp.mon_nstd_flag . _chem_comp.name 6-sec-Butoxy-2-[(3-chlorophenyl)sulfanyl]-4-pyrimidinamine _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 N C RDS sing 366 n n CL C13 RDS sing 367 n n C C1 RDS doub 368 n y C N2 RDS sing 369 n y C1 C2 RDS sing 370 n y N2 C7 RDS doub 371 n y C13 C12 RDS doub 372 n y C13 C11 RDS sing 373 n y C12 C8 RDS sing 374 n y C4 C3 RDS sing 375 n n C2 O RDS sing 376 n n C2 N1 RDS doub 377 n y C3 O RDS sing 378 n n C3 C5 RDS sing 379 n n C7 N1 RDS sing 380 n y C7 S RDS sing 381 n n C11 C10 RDS doub 382 n y C8 S RDS sing 383 n n C8 C9 RDS doub 384 n y C6 C5 RDS sing 385 n n C10 C9 RDS sing 386 n y C12 H1 RDS sing 387 n n C9 H2 RDS sing 388 n n C10 H3 RDS sing 389 n n C11 H4 RDS sing 390 n n C1 H5 RDS sing 391 n n N H6 RDS sing 392 n n N H7 RDS sing 393 n n C3 H8 RDS sing 394 n n C4 H9 RDS sing 395 n n C4 H10 RDS sing 396 n n C4 H11 RDS sing 397 n n C5 H12 RDS sing 398 n n C5 H13 RDS sing 399 n n C6 H14 RDS sing 400 n n C6 H15 RDS sing 401 n n C6 H16 RDS sing 402 n n # _atom_sites.entry_id 5EBK _atom_sites.fract_transf_matrix[1][1] 0.009756 _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] 0.009756 _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] 0.005208 _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 FAD A 1 501 1486 FAD FAD . D 3 RDS A 1 502 2001 RDS RDS . E 3 RDS A 1 503 2002 RDS RDS . F 3 RDS A 1 504 2003 RDS RDS . G 4 SO4 A 1 505 3 SO4 SO4 . H 3 RDS B 1 501 2004 RDS RDS . I 2 FAD B 1 502 1486 FAD FAD . J 3 RDS B 1 503 2001 RDS RDS . K 3 RDS B 1 504 2002 RDS RDS . L 3 RDS B 1 505 2003 RDS RDS . # 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 CL CL RDS . . . E 3 -4.282 21.55 -13.572 0.8 132.66 ? CL RDS 503 A 1 HETATM 2 C C13 RDS . . . E 3 -3.848 19.896 -14.105 0.8 131.36 ? C13 RDS 503 A 1 HETATM 3 C C12 RDS . . . E 3 -3.632 18.897 -13.164 0.8 132.13 ? C12 RDS 503 A 1 HETATM 4 C C8 RDS . . . E 3 -3.295 17.615 -13.58 0.8 134.91 ? C8 RDS 503 A 1 HETATM 5 C C9 RDS . . . E 3 -3.174 17.333 -14.938 0.8 137 ? C9 RDS 503 A 1 HETATM 6 C C10 RDS . . . E 3 -3.39 18.333 -15.877 0.8 133.19 ? C10 RDS 503 A 1 HETATM 7 C C11 RDS . . . E 3 -3.73 19.613 -15.46 0.8 130.69 ? C11 RDS 503 A 1 HETATM 8 S S RDS . . . E 3 -3.033 16.398 -12.433 0.8 134.89 ? S RDS 503 A 1 HETATM 9 C C7 RDS . . . E 3 -3.819 15.04 -13.08 0.8 129.68 ? C7 RDS 503 A 1 HETATM 10 N N1 RDS . . . E 3 -5.044 14.679 -12.617 0.8 121.1 ? N1 RDS 503 A 1 HETATM 11 C C2 RDS . . . E 3 -5.685 13.6 -13.127 0.8 119.2 ? C2 RDS 503 A 1 HETATM 12 C C1 RDS . . . E 3 -5.069 12.854 -14.124 0.8 122.83 ? C1 RDS 503 A 1 HETATM 13 C C RDS . . . E 3 -3.822 13.244 -14.588 0.8 126.72 ? C RDS 503 A 1 HETATM 14 N N RDS . . . E 3 -3.213 12.541 -15.565 0.8 129.1 ? N RDS 503 A 1 HETATM 15 N N2 RDS . . . E 3 -3.215 14.325 -14.059 0.8 129.5 ? N2 RDS 503 A 1 HETATM 16 O O RDS . . . E 3 -6.925 13.245 -12.627 0.8 117.44 ? O RDS 503 A 1 HETATM 17 C C3 RDS . . . E 3 -7.926 12.57 -13.413 0.8 116.17 ? C3 RDS 503 A 1 HETATM 18 C C4 RDS . . . E 3 -7.75 11.059 -13.278 0.8 116.49 ? C4 RDS 503 A 1 HETATM 19 C C5 RDS . . . E 3 -7.871 13.014 -14.879 0.8 110.68 ? C5 RDS 503 A 1 HETATM 20 C C6 RDS . . . E 3 -9.192 12.769 -15.577 0.8 104.39 ? C6 RDS 503 A 1 # _model_server_stats.io_time_ms 18 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 22 _model_server_stats.query_time_ms 214 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 20 #