data_6F0B # _model_server_result.job_id YS77Noicj9JRqxTSjTl17w _model_server_result.datetime_utc '2025-02-05 13:00:25' _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 6f0b # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":402}' # _entry.id 6F0B # _exptl.entry_id 6F0B _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 406.434 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description (3~{S},6~{S})-1,4-dimethyl-3-[(4-nitro-1~{H}-indol-3-yl)methyl]-6-(phenylmethyl)piperazine-2,5-dione _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 135.16 _cell.angle_gamma 90 _cell.entry_id 6F0B _cell.length_a 116.78 _cell.length_b 84.24 _cell.length_c 86.27 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6F0B _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 1 2 1' # _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 _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 3 _struct_asym.id C _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 disulf ? disulf1 A SG CYS 27 A CYS 27 1_555 A SG CYS 27 A CYS 27 2_556 ? ? ? ? ? ? ? ? ? ? ? ? 2.025 ? metalc ? metalc1 A SG CYS 344 A CYS 344 1_555 B FE HEM . A HEM 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.518 ? # _chem_comp.formula 'C22 H22 N4 O4' _chem_comp.formula_weight 406.434 _chem_comp.id C8H _chem_comp.mon_nstd_flag . _chem_comp.name (3~{S},6~{S})-1,4-dimethyl-3-[(4-nitro-1~{H}-indol-3-yl)methyl]-6-(phenylmethyl)piperazine-2,5-dione _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 C8 C9 C8H doub 70 n y C8 C7 C8H sing 71 n y O3 N4 C8H doub 72 n n C9 C4 C8H sing 73 n y C7 C6 C8H doub 74 n y O4 N4 C8H sing 75 n n N4 C15 C8H sing 76 n n C4 C3 C8H sing 77 n n C4 C5 C8H doub 78 n y C6 C5 C8H sing 79 n y C3 C2 C8H sing 80 n n O1 C1 C8H doub 81 n n C16 C15 C8H doub 82 n y C16 C17 C8H sing 83 n y C15 C14 C8H sing 84 n y C21 N1 C8H sing 85 n n C1 C2 C8H sing 86 n n C1 N1 C8H sing 87 n n C2 N2 C8H sing 88 n n N1 C11 C8H sing 89 n n C17 C18 C8H doub 90 n y C12 C13 C8H sing 91 n n C12 C11 C8H sing 92 n n C14 C13 C8H sing 93 n y C14 C19 C8H doub 94 n y C13 C20 C8H doub 95 n y N2 C22 C8H sing 96 n n N2 C10 C8H sing 97 n n C11 C10 C8H sing 98 n n C18 C19 C8H sing 99 n y C10 O2 C8H doub 100 n n C19 N3 C8H sing 101 n y C20 N3 C8H sing 102 n y C2 H1 C8H sing 103 n n C3 H2 C8H sing 104 n n C3 H3 C8H sing 105 n n C5 H4 C8H sing 106 n n C6 H5 C8H sing 107 n n C7 H6 C8H sing 108 n n C12 H7 C8H sing 109 n n C12 H8 C8H sing 110 n n C22 H9 C8H sing 111 n n C22 H10 C8H sing 112 n n C22 H11 C8H sing 113 n n C8 H12 C8H sing 114 n n C9 H13 C8H sing 115 n n C21 H14 C8H sing 116 n n C21 H15 C8H sing 117 n n C21 H16 C8H sing 118 n n C11 H17 C8H sing 119 n n C20 H18 C8H sing 120 n n N3 H19 C8H sing 121 n n C18 H20 C8H sing 122 n n C17 H21 C8H sing 123 n n C16 H22 C8H sing 124 n n # _atom_sites.entry_id 6F0B _atom_sites.fract_transf_matrix[1][1] 0.008563 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.008611 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.011871 _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] 0.016439 _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 B 2 HEM A 1 401 401 HEM HEM . C 3 C8H A 1 402 402 C8H TD1 . D 4 HOH A 1 501 9 HOH HOH . D 4 HOH A 2 502 13 HOH HOH . D 4 HOH A 3 503 3 HOH HOH . D 4 HOH A 4 504 2 HOH HOH . D 4 HOH A 5 505 6 HOH HOH . D 4 HOH A 6 506 14 HOH HOH . D 4 HOH A 7 507 4 HOH HOH . D 4 HOH A 8 508 1 HOH HOH . D 4 HOH A 9 509 5 HOH HOH . D 4 HOH A 10 510 10 HOH HOH . D 4 HOH A 11 511 8 HOH HOH . D 4 HOH A 12 512 12 HOH HOH . D 4 HOH A 13 513 11 HOH HOH . D 4 HOH A 14 514 7 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 C1 C8H . . . C 3 -38.276 1.583 5.267 1 53.79 ? C1 C8H 402 A 1 HETATM 2 C C2 C8H . . . C 3 -37.266 0.487 5.588 1 50.88 ? C2 C8H 402 A 1 HETATM 3 C C3 C8H . . . C 3 -36.906 -0.247 4.287 1 48.53 ? C3 C8H 402 A 1 HETATM 4 C C4 C8H . . . C 3 -38.151 -0.973 3.799 1 61.18 ? C4 C8H 402 A 1 HETATM 5 C C5 C8H . . . C 3 -38.509 -2.244 4.319 1 65.42 ? C5 C8H 402 A 1 HETATM 6 C C6 C8H . . . C 3 -39.653 -2.914 3.843 1 57.54 ? C6 C8H 402 A 1 HETATM 7 C C7 C8H . . . C 3 -40.456 -2.294 2.862 1 65.38 ? C7 C8H 402 A 1 HETATM 8 C C12 C8H . . . C 3 -41.007 -0.522 5.935 1 43.87 ? C12 C8H 402 A 1 HETATM 9 C C13 C8H . . . C 3 -42.34 -0.506 6.603 1 29.97 ? C13 C8H 402 A 1 HETATM 10 C C14 C8H . . . C 3 -43.617 -0.157 6.113 1 27.05 ? C14 C8H 402 A 1 HETATM 11 O O2 C8H . . . C 3 -39.113 -1.14 8.182 1 42.45 ? O2 C8H 402 A 1 HETATM 12 C C10 C8H . . . C 3 -38.87 -0.497 7.172 1 50.79 ? C10 C8H 402 A 1 HETATM 13 N N2 C8H . . . C 3 -37.658 -0.482 6.611 1 49.32 ? N2 C8H 402 A 1 HETATM 14 C C22 C8H . . . C 3 -36.553 -1.342 7.04 1 51.16 ? C22 C8H 402 A 1 HETATM 15 C C8 C8H . . . C 3 -40.111 -1.025 2.356 1 61.92 ? C8 C8H 402 A 1 HETATM 16 C C9 C8H . . . C 3 -38.96 -0.372 2.835 1 59.31 ? C9 C8H 402 A 1 HETATM 17 O O1 C8H . . . C 3 -37.931 2.627 4.643 1 58.13 ? O1 C8H 402 A 1 HETATM 18 N N1 C8H . . . C 3 -39.523 1.401 5.644 1 55.04 ? N1 C8H 402 A 1 HETATM 19 C C21 C8H . . . C 3 -40.537 2.29 5.124 1 54.32 ? C21 C8H 402 A 1 HETATM 20 C C11 C8H . . . C 3 -39.966 0.368 6.617 1 55.66 ? C11 C8H 402 A 1 HETATM 21 C C15 C8H . . . C 3 -44.135 0.421 4.955 1 33.27 ? C15 C8H 402 A 1 HETATM 22 N N4 C8H . . . C 3 -43.403 0.73 3.79 1 48.61 ? N4 C8H 402 A 1 HETATM 23 O O3 C8H . . . C 3 -44.043 0.785 2.726 1 50.64 ? O3 C8H 402 A 1 HETATM 24 O O4 C8H . . . C 3 -42.18 0.973 3.755 1 43.42 ? O4 C8H 402 A 1 HETATM 25 C C20 C8H . . . C 3 -42.485 -0.966 7.912 1 32.29 ? C20 C8H 402 A 1 HETATM 26 N N3 C8H . . . C 3 -43.871 -0.905 8.267 1 31.8 ? N3 C8H 402 A 1 HETATM 27 C C19 C8H . . . C 3 -44.53 -0.409 7.174 1 27.9 ? C19 C8H 402 A 1 HETATM 28 C C18 C8H . . . C 3 -45.879 -0.095 7.067 1 34.66 ? C18 C8H 402 A 1 HETATM 29 C C17 C8H . . . C 3 -46.397 0.451 5.884 1 35.2 ? C17 C8H 402 A 1 HETATM 30 C C16 C8H . . . C 3 -45.505 0.689 4.825 1 32.82 ? C16 C8H 402 A 1 # _model_server_stats.io_time_ms 13 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 267 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 30 #