data_8FDK # _model_server_result.job_id Zejr3DzWxrW5iLDAdzeWQA _model_server_result.datetime_utc '2024-11-16 20:41:47' _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 8fdk # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"H","auth_seq_id":203}' # _entry.id 8FDK # _exptl.entry_id 8FDK _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 107.11 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description NITROSOBENZENE _entity.pdbx_number_of_molecules 5 _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 8FDK _cell.length_a 53.263 _cell.length_b 53.263 _cell.length_c 194.711 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8FDK _symmetry.cell_setting ? _symmetry.Int_Tables_number 76 _symmetry.space_group_name_Hall 'P 4w' _symmetry.space_group_name_H-M 'P 41' # _pdbx_struct_assembly.method_details PISA _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,I,J,K,L,M,N,O,P,Q,R _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 ? 4 G N N ? 4 H N N ? 4 J N N ? 4 M N N ? 4 N 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 covale ? covale1 B C HIS 92 B HIS 92 1_555 B N CSD 93 B CSD 93 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale2 B C CSD 93 B CSD 93 1_555 B N ASP 94 B ASP 94 1_555 ? ? ? ? A ? ? ? ? ? ? ? 1.332 ? covale ? covale3 B C CSD 93 B CSD 93 1_555 B N ASP 94 B ASP 94 1_555 ? ? ? ? B ? ? ? ? ? ? ? 1.331 ? covale ? covale4 D C HIS 92 D HIS 92 1_555 D N CSD 93 D CSD 93 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale5 D C CSD 93 D CSD 93 1_555 D N ASP 94 D ASP 94 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.334 ? metalc ? metalc1 A NE2 HIS 87 A HIS 87 1_555 E FE HEM . A HEM 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.239 ? metalc ? metalc2 E FE HEM . A HEM 201 1_555 O O HOH . A HOH 327 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.329 ? metalc ? metalc3 B NE2 HIS 63 B HIS 63 1_555 F FE HEM . B HEM 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.715 ? metalc ? metalc4 B NE2 HIS 92 B HIS 92 1_555 F FE HEM . B HEM 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.427 ? metalc ? metalc5 C NE2 HIS 87 C HIS 87 1_555 I FE HEM . C HEM 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.263 ? metalc ? metalc6 I FE HEM . C HEM 201 1_555 Q O HOH . C HOH 323 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.308 ? metalc ? metalc7 D NE2 HIS 63 D HIS 63 1_555 L FE HEM . D HEM 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.445 ? metalc ? metalc8 D NE2 HIS 92 D HIS 92 1_555 L FE HEM . D HEM 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.41 ? # _chem_comp.formula 'C6 H5 N O' _chem_comp.formula_weight 107.11 _chem_comp.id NBE _chem_comp.mon_nstd_flag . _chem_comp.name NITROSOBENZENE _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 N NBE sing 326 n n C1 C2 NBE doub 327 n y C1 C6 NBE sing 328 n y N O NBE doub 329 n n C2 C3 NBE sing 330 n y C2 H2 NBE sing 331 n n C3 C4 NBE doub 332 n y C3 H3 NBE sing 333 n n C4 C5 NBE sing 334 n y C4 H4 NBE sing 335 n n C5 C6 NBE doub 336 n y C5 H5 NBE sing 337 n n C6 H6 NBE sing 338 n n # _atom_sites.entry_id 8FDK _atom_sites.fract_transf_matrix[1][1] 0.018775 _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] 0.018775 _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] 0.005136 _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 E 3 HEM A 1 201 201 HEM HEM . F 3 HEM B 1 201 201 HEM HEM . G 4 NBE B 1 202 301 NBE NBE . H 4 NBE B 1 203 401 NBE NBE . I 3 HEM C 1 201 201 HEM HEM . J 4 NBE C 1 202 301 NBE NBE . K 5 GOL C 1 203 401 GOL GOL . L 3 HEM D 1 201 201 HEM HEM . M 4 NBE D 1 202 301 NBE NBE . N 4 NBE D 1 203 401 NBE NBE . O 6 HOH A 1 301 57 HOH HOH . O 6 HOH A 2 302 99 HOH HOH . O 6 HOH A 3 303 55 HOH HOH . O 6 HOH A 4 304 183 HOH HOH . O 6 HOH A 5 305 63 HOH HOH . O 6 HOH A 6 306 33 HOH HOH . O 6 HOH A 7 307 102 HOH HOH . O 6 HOH A 8 308 29 HOH HOH . O 6 HOH A 9 309 172 HOH HOH . O 6 HOH A 10 310 20 HOH HOH . O 6 HOH A 11 311 148 HOH HOH . O 6 HOH A 12 312 85 HOH HOH . O 6 HOH A 13 313 186 HOH HOH . O 6 HOH A 14 314 96 HOH HOH . O 6 HOH A 15 315 39 HOH HOH . O 6 HOH A 16 316 11 HOH HOH . O 6 HOH A 17 317 16 HOH HOH . O 6 HOH A 18 318 8 HOH HOH . O 6 HOH A 19 319 5 HOH HOH . O 6 HOH A 20 320 142 HOH HOH . O 6 HOH A 21 321 15 HOH HOH . O 6 HOH A 22 322 97 HOH HOH . O 6 HOH A 23 323 36 HOH HOH . O 6 HOH A 24 324 91 HOH HOH . O 6 HOH A 25 325 110 HOH HOH . O 6 HOH A 26 326 50 HOH HOH . O 6 HOH A 27 327 1 HOH HOH . O 6 HOH A 28 328 100 HOH HOH . O 6 HOH A 29 329 80 HOH HOH . O 6 HOH A 30 330 144 HOH HOH . O 6 HOH A 31 331 191 HOH HOH . O 6 HOH A 32 332 86 HOH HOH . O 6 HOH A 33 333 135 HOH HOH . O 6 HOH A 34 334 21 HOH HOH . O 6 HOH A 35 335 105 HOH HOH . O 6 HOH A 36 336 37 HOH HOH . O 6 HOH A 37 337 160 HOH HOH . O 6 HOH A 38 338 141 HOH HOH . O 6 HOH A 39 339 122 HOH HOH . O 6 HOH A 40 340 61 HOH HOH . O 6 HOH A 41 341 49 HOH HOH . O 6 HOH A 42 342 46 HOH HOH . O 6 HOH A 43 343 27 HOH HOH . O 6 HOH A 44 344 187 HOH HOH . O 6 HOH A 45 345 62 HOH HOH . O 6 HOH A 46 346 146 HOH HOH . O 6 HOH A 47 347 81 HOH HOH . O 6 HOH A 48 348 123 HOH HOH . O 6 HOH A 49 349 106 HOH HOH . O 6 HOH A 50 350 35 HOH HOH . O 6 HOH A 51 351 111 HOH HOH . O 6 HOH A 52 352 120 HOH HOH . O 6 HOH A 53 353 137 HOH HOH . O 6 HOH A 54 354 40 HOH HOH . O 6 HOH A 55 355 157 HOH HOH . O 6 HOH A 56 356 155 HOH HOH . O 6 HOH A 57 357 124 HOH HOH . O 6 HOH A 58 358 174 HOH HOH . O 6 HOH A 59 359 182 HOH HOH . O 6 HOH A 60 360 178 HOH HOH . O 6 HOH A 61 361 154 HOH HOH . O 6 HOH A 62 362 156 HOH HOH . P 6 HOH B 1 301 167 HOH HOH . P 6 HOH B 2 302 98 HOH HOH . P 6 HOH B 3 303 6 HOH HOH . P 6 HOH B 4 304 3 HOH HOH . P 6 HOH B 5 305 23 HOH HOH . P 6 HOH B 6 306 128 HOH HOH . P 6 HOH B 7 307 60 HOH HOH . P 6 HOH B 8 308 192 HOH HOH . P 6 HOH B 9 309 119 HOH HOH . P 6 HOH B 10 310 34 HOH HOH . P 6 HOH B 11 311 76 HOH HOH . P 6 HOH B 12 312 177 HOH HOH . P 6 HOH B 13 313 68 HOH HOH . P 6 HOH B 14 314 64 HOH HOH . P 6 HOH B 15 315 51 HOH HOH . P 6 HOH B 16 316 26 HOH HOH . P 6 HOH B 17 317 12 HOH HOH . P 6 HOH B 18 318 130 HOH HOH . P 6 HOH B 19 319 78 HOH HOH . P 6 HOH B 20 320 184 HOH HOH . P 6 HOH B 21 321 113 HOH HOH . P 6 HOH B 22 322 114 HOH HOH . P 6 HOH B 23 323 56 HOH HOH . P 6 HOH B 24 324 139 HOH HOH . P 6 HOH B 25 325 47 HOH HOH . P 6 HOH B 26 326 173 HOH HOH . P 6 HOH B 27 327 109 HOH HOH . P 6 HOH B 28 328 153 HOH HOH . P 6 HOH B 29 329 171 HOH HOH . P 6 HOH B 30 330 126 HOH HOH . P 6 HOH B 31 331 168 HOH HOH . P 6 HOH B 32 332 92 HOH HOH . P 6 HOH B 33 333 69 HOH HOH . P 6 HOH B 34 334 180 HOH HOH . Q 6 HOH C 1 301 58 HOH HOH . Q 6 HOH C 2 302 77 HOH HOH . Q 6 HOH C 3 303 13 HOH HOH . Q 6 HOH C 4 304 108 HOH HOH . Q 6 HOH C 5 305 166 HOH HOH . Q 6 HOH C 6 306 162 HOH HOH . Q 6 HOH C 7 307 65 HOH HOH . Q 6 HOH C 8 308 42 HOH HOH . Q 6 HOH C 9 309 143 HOH HOH . Q 6 HOH C 10 310 138 HOH HOH . Q 6 HOH C 11 311 165 HOH HOH . Q 6 HOH C 12 312 9 HOH HOH . Q 6 HOH C 13 313 54 HOH HOH . Q 6 HOH C 14 314 17 HOH HOH . Q 6 HOH C 15 315 83 HOH HOH . Q 6 HOH C 16 316 158 HOH HOH . Q 6 HOH C 17 317 10 HOH HOH . Q 6 HOH C 18 318 89 HOH HOH . Q 6 HOH C 19 319 107 HOH HOH . Q 6 HOH C 20 320 73 HOH HOH . Q 6 HOH C 21 321 31 HOH HOH . Q 6 HOH C 22 322 161 HOH HOH . Q 6 HOH C 23 323 2 HOH HOH . Q 6 HOH C 24 324 38 HOH HOH . Q 6 HOH C 25 325 136 HOH HOH . Q 6 HOH C 26 326 103 HOH HOH . Q 6 HOH C 27 327 94 HOH HOH . Q 6 HOH C 28 328 93 HOH HOH . Q 6 HOH C 29 329 52 HOH HOH . Q 6 HOH C 30 330 147 HOH HOH . Q 6 HOH C 31 331 59 HOH HOH . Q 6 HOH C 32 332 44 HOH HOH . Q 6 HOH C 33 333 149 HOH HOH . Q 6 HOH C 34 334 48 HOH HOH . Q 6 HOH C 35 335 32 HOH HOH . Q 6 HOH C 36 336 25 HOH HOH . Q 6 HOH C 37 337 87 HOH HOH . Q 6 HOH C 38 338 169 HOH HOH . Q 6 HOH C 39 339 70 HOH HOH . Q 6 HOH C 40 340 43 HOH HOH . Q 6 HOH C 41 341 24 HOH HOH . Q 6 HOH C 42 342 101 HOH HOH . Q 6 HOH C 43 343 66 HOH HOH . Q 6 HOH C 44 344 53 HOH HOH . Q 6 HOH C 45 345 79 HOH HOH . Q 6 HOH C 46 346 41 HOH HOH . Q 6 HOH C 47 347 150 HOH HOH . Q 6 HOH C 48 348 121 HOH HOH . Q 6 HOH C 49 349 72 HOH HOH . Q 6 HOH C 50 350 163 HOH HOH . Q 6 HOH C 51 351 84 HOH HOH . Q 6 HOH C 52 352 90 HOH HOH . Q 6 HOH C 53 353 132 HOH HOH . Q 6 HOH C 54 354 116 HOH HOH . Q 6 HOH C 55 355 104 HOH HOH . Q 6 HOH C 56 356 164 HOH HOH . Q 6 HOH C 57 357 75 HOH HOH . Q 6 HOH C 58 358 131 HOH HOH . Q 6 HOH C 59 359 170 HOH HOH . Q 6 HOH C 60 360 125 HOH HOH . Q 6 HOH C 61 361 175 HOH HOH . Q 6 HOH C 62 362 185 HOH HOH . Q 6 HOH C 63 363 134 HOH HOH . Q 6 HOH C 64 364 179 HOH HOH . R 6 HOH D 1 301 127 HOH HOH . R 6 HOH D 2 302 181 HOH HOH . R 6 HOH D 3 303 28 HOH HOH . R 6 HOH D 4 304 14 HOH HOH . R 6 HOH D 5 305 188 HOH HOH . R 6 HOH D 6 306 190 HOH HOH . R 6 HOH D 7 307 22 HOH HOH . R 6 HOH D 8 308 30 HOH HOH . R 6 HOH D 9 309 4 HOH HOH . R 6 HOH D 10 310 67 HOH HOH . R 6 HOH D 11 311 18 HOH HOH . R 6 HOH D 12 312 82 HOH HOH . R 6 HOH D 13 313 95 HOH HOH . R 6 HOH D 14 314 112 HOH HOH . R 6 HOH D 15 315 129 HOH HOH . R 6 HOH D 16 316 159 HOH HOH . R 6 HOH D 17 317 193 HOH HOH . R 6 HOH D 18 318 74 HOH HOH . R 6 HOH D 19 319 19 HOH HOH . R 6 HOH D 20 320 71 HOH HOH . R 6 HOH D 21 321 88 HOH HOH . R 6 HOH D 22 322 45 HOH HOH . R 6 HOH D 23 323 133 HOH HOH . R 6 HOH D 24 324 145 HOH HOH . R 6 HOH D 25 325 7 HOH HOH . R 6 HOH D 26 326 189 HOH HOH . R 6 HOH D 27 327 140 HOH HOH . R 6 HOH D 28 328 118 HOH HOH . R 6 HOH D 29 329 151 HOH HOH . R 6 HOH D 30 330 115 HOH HOH . R 6 HOH D 31 331 152 HOH HOH . R 6 HOH D 32 332 176 HOH HOH . R 6 HOH D 33 333 117 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 NBE . . . H 4 13.068 -6.556 0.966 1 52.12 ? C1 NBE 203 B 1 HETATM 2 N N NBE . . . H 4 12.351 -6.399 2.222 1 57.37 ? N NBE 203 B 1 HETATM 3 O O NBE . . . H 4 12.704 -6.986 3.183 1 59.68 ? O NBE 203 B 1 HETATM 4 C C2 NBE . . . H 4 13.837 -5.515 0.466 1 44.51 ? C2 NBE 203 B 1 HETATM 5 C C3 NBE . . . H 4 14.529 -5.662 -0.73 1 39.73 ? C3 NBE 203 B 1 HETATM 6 C C4 NBE . . . H 4 14.445 -6.857 -1.424 1 40.17 ? C4 NBE 203 B 1 HETATM 7 C C5 NBE . . . H 4 13.676 -7.899 -0.923 1 52.22 ? C5 NBE 203 B 1 HETATM 8 C C6 NBE . . . H 4 12.989 -7.755 0.273 1 49.66 ? C6 NBE 203 B 1 # _model_server_stats.io_time_ms 25 _model_server_stats.parse_time_ms 17 _model_server_stats.create_model_time_ms 35 _model_server_stats.query_time_ms 273 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 8 #