data_5KD1 # _model_server_result.job_id nTdueKIpauLzSXw_SqMdlw _model_server_result.datetime_utc '2024-11-29 14:13:50' _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 5kd1 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"G","auth_seq_id":206}' # _entry.id 5KD1 # _exptl.entry_id 5KD1 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 149.19 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '[(2R)-2-nitrosopropyl]benzene' _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 5KD1 _cell.length_a 90.5 _cell.length_b 90.5 _cell.length_c 45.36 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5KD1 _symmetry.cell_setting ? _symmetry.Int_Tables_number 168 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 6' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id ? monomeric 1 author_defined_assembly 1 PISA trimeric 3 software_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,C,D,E,F,G,H,I,J,K,L,M 1 1 A,B,C,D,E,F,G,H,I,J,K,L,M 2 1,2,3 # 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_755 -y+2,x-y,z -0.5 -0.866025 0 0.866025 -0.5 0 0 0 1 181 0 0 3 'crystal symmetry operation' 3_775 -x+y+2,-x+2,z -0.5 0.866025 0 -0.866025 -0.5 0 0 0 1 90.5 156.750598 0 # _struct_asym.details ? _struct_asym.entity_id 4 _struct_asym.id G _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 A NE2 HIS 93 A HIS 93 1_555 B FE HEM . A HEM 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.142 ? metalc ? metalc2 B FE HEM . A HEM 201 1_555 G N7 3QM . A 3QM 206 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.909 ? metalc ? metalc3 B FE HEM . A HEM 201 1_555 G O1 3QM . A 3QM 206 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.577 ? # _chem_comp.formula 'C9 H11 N O' _chem_comp.formula_weight 149.19 _chem_comp.id 3QM _chem_comp.mon_nstd_flag . _chem_comp.name '[(2R)-2-nitrosopropyl]benzene' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms 2-nitroso-1-phenylpropane # 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 C46 C45 3QM doub 1 n y C46 C47 3QM sing 2 n y C45 C44 3QM sing 3 n y C47 C48 3QM doub 4 n y C44 C43 3QM sing 5 n n C44 C49 3QM doub 6 n y C43 C41 3QM sing 7 n n C48 C49 3QM sing 8 n y C41 C42 3QM sing 9 n n C41 N7 3QM sing 10 n n N7 O1 3QM doub 11 n n C45 H1 3QM sing 12 n n C46 H2 3QM sing 13 n n C47 H3 3QM sing 14 n n C48 H4 3QM sing 15 n n C49 H5 3QM sing 16 n n C43 H6 3QM sing 17 n n C43 H7 3QM sing 18 n n C41 H8 3QM sing 19 n n C42 H9 3QM sing 20 n n C42 H10 3QM sing 21 n n C42 H11 3QM sing 22 n n # _atom_sites.entry_id 5KD1 _atom_sites.fract_transf_matrix[1][1] 0.01105 _atom_sites.fract_transf_matrix[1][2] 0.00638 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.012759 _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] 0.022046 _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 1 201 201 HEM HEM . C 3 SO4 A 1 202 202 SO4 SO4 . D 3 SO4 A 1 203 203 SO4 SO4 . E 3 SO4 A 1 204 204 SO4 SO4 . F 3 SO4 A 1 205 205 SO4 SO4 . G 4 3QM A 1 206 206 3QM 3QM . H 5 GOL A 1 207 207 GOL GOL . I 5 GOL A 1 208 208 GOL GOL . J 5 GOL A 1 209 209 GOL GOL . K 5 GOL A 1 210 210 GOL GOL . L 5 GOL A 1 211 211 GOL GOL . M 6 HOH A 1 301 301 HOH HOH . M 6 HOH A 2 302 302 HOH HOH . M 6 HOH A 3 303 303 HOH HOH . M 6 HOH A 4 304 304 HOH HOH . M 6 HOH A 5 305 305 HOH HOH . M 6 HOH A 6 306 306 HOH HOH . M 6 HOH A 7 307 307 HOH HOH . M 6 HOH A 8 308 308 HOH HOH . M 6 HOH A 9 309 309 HOH HOH . M 6 HOH A 10 310 310 HOH HOH . M 6 HOH A 11 311 311 HOH HOH . M 6 HOH A 12 312 312 HOH HOH . M 6 HOH A 13 313 313 HOH HOH . M 6 HOH A 14 314 314 HOH HOH . M 6 HOH A 15 315 315 HOH HOH . M 6 HOH A 16 316 316 HOH HOH . M 6 HOH A 17 317 317 HOH HOH . M 6 HOH A 18 318 318 HOH HOH . M 6 HOH A 19 319 319 HOH HOH . M 6 HOH A 20 320 320 HOH HOH . M 6 HOH A 21 321 321 HOH HOH . M 6 HOH A 22 322 322 HOH HOH . M 6 HOH A 23 323 323 HOH HOH . M 6 HOH A 24 324 324 HOH HOH . M 6 HOH A 25 325 325 HOH HOH . M 6 HOH A 26 326 326 HOH HOH . M 6 HOH A 27 327 327 HOH HOH . M 6 HOH A 28 328 328 HOH HOH . M 6 HOH A 29 329 329 HOH HOH . M 6 HOH A 30 330 330 HOH HOH . M 6 HOH A 31 331 331 HOH HOH . M 6 HOH A 32 332 332 HOH HOH . M 6 HOH A 33 333 333 HOH HOH . M 6 HOH A 34 334 334 HOH HOH . M 6 HOH A 35 335 335 HOH HOH . M 6 HOH A 36 336 336 HOH HOH . M 6 HOH A 37 337 337 HOH HOH . M 6 HOH A 38 338 338 HOH HOH . M 6 HOH A 39 339 339 HOH HOH . M 6 HOH A 40 340 340 HOH HOH . M 6 HOH A 41 341 341 HOH HOH . M 6 HOH A 42 342 342 HOH HOH . M 6 HOH A 43 343 343 HOH HOH . M 6 HOH A 44 344 344 HOH HOH . M 6 HOH A 45 345 345 HOH HOH . M 6 HOH A 46 346 346 HOH HOH . M 6 HOH A 47 347 347 HOH HOH . M 6 HOH A 48 348 348 HOH HOH . M 6 HOH A 49 349 349 HOH HOH . M 6 HOH A 50 350 350 HOH HOH . M 6 HOH A 51 351 351 HOH HOH . M 6 HOH A 52 352 352 HOH HOH . M 6 HOH A 53 353 353 HOH HOH . M 6 HOH A 54 354 354 HOH HOH . M 6 HOH A 55 355 355 HOH HOH . M 6 HOH A 56 356 356 HOH HOH . M 6 HOH A 57 357 357 HOH HOH . M 6 HOH A 58 358 358 HOH HOH . M 6 HOH A 59 359 359 HOH HOH . M 6 HOH A 60 360 360 HOH HOH . M 6 HOH A 61 361 361 HOH HOH . M 6 HOH A 62 362 362 HOH HOH . M 6 HOH A 63 363 363 HOH HOH . M 6 HOH A 64 364 364 HOH HOH . M 6 HOH A 65 365 365 HOH HOH . M 6 HOH A 66 366 366 HOH HOH . M 6 HOH A 67 367 367 HOH HOH . M 6 HOH A 68 368 368 HOH HOH . M 6 HOH A 69 369 369 HOH HOH . M 6 HOH A 70 370 370 HOH HOH . M 6 HOH A 71 371 371 HOH HOH . M 6 HOH A 72 372 372 HOH HOH . M 6 HOH A 73 373 373 HOH HOH . M 6 HOH A 74 374 374 HOH HOH . M 6 HOH A 75 375 375 HOH HOH . M 6 HOH A 76 376 376 HOH HOH . M 6 HOH A 77 377 377 HOH HOH . M 6 HOH A 78 378 378 HOH HOH . M 6 HOH A 79 379 379 HOH HOH . M 6 HOH A 80 380 380 HOH HOH . M 6 HOH A 81 381 381 HOH HOH . M 6 HOH A 82 382 382 HOH HOH . M 6 HOH A 83 383 383 HOH HOH . M 6 HOH A 84 384 384 HOH HOH . M 6 HOH A 85 385 385 HOH HOH . M 6 HOH A 86 386 386 HOH HOH . M 6 HOH A 87 387 388 HOH HOH . M 6 HOH A 88 388 387 HOH HOH . M 6 HOH A 89 389 389 HOH HOH . M 6 HOH A 90 390 390 HOH HOH . M 6 HOH A 91 391 391 HOH HOH . M 6 HOH A 92 392 392 HOH HOH . M 6 HOH A 93 393 393 HOH HOH . M 6 HOH A 94 394 394 HOH HOH . M 6 HOH A 95 395 395 HOH HOH . M 6 HOH A 96 396 396 HOH HOH . M 6 HOH A 97 397 397 HOH HOH . M 6 HOH A 98 398 398 HOH HOH . M 6 HOH A 99 399 399 HOH HOH . M 6 HOH A 100 400 400 HOH HOH . M 6 HOH A 101 401 401 HOH HOH . M 6 HOH A 102 402 402 HOH HOH . M 6 HOH A 103 403 403 HOH HOH . M 6 HOH A 104 404 404 HOH HOH . M 6 HOH A 105 405 405 HOH HOH . M 6 HOH A 106 406 406 HOH HOH . M 6 HOH A 107 407 407 HOH HOH . M 6 HOH A 108 408 408 HOH HOH . M 6 HOH A 109 409 409 HOH HOH . M 6 HOH A 110 410 410 HOH HOH . M 6 HOH A 111 411 411 HOH HOH . M 6 HOH A 112 412 412 HOH HOH . M 6 HOH A 113 413 413 HOH HOH . M 6 HOH A 114 414 414 HOH HOH . M 6 HOH A 115 415 415 HOH HOH . M 6 HOH A 116 416 416 HOH HOH . M 6 HOH A 117 417 417 HOH HOH . M 6 HOH A 118 418 418 HOH HOH . M 6 HOH A 119 419 419 HOH HOH . M 6 HOH A 120 420 420 HOH HOH . M 6 HOH A 121 421 421 HOH HOH . M 6 HOH A 122 422 422 HOH HOH . M 6 HOH A 123 423 423 HOH HOH . M 6 HOH A 124 424 424 HOH HOH . M 6 HOH A 125 425 425 HOH HOH . M 6 HOH A 126 426 426 HOH HOH . M 6 HOH A 127 427 427 HOH HOH . M 6 HOH A 128 428 428 HOH HOH . M 6 HOH A 129 429 429 HOH HOH . M 6 HOH A 130 430 430 HOH HOH . M 6 HOH A 131 431 431 HOH HOH . M 6 HOH A 132 432 432 HOH HOH . M 6 HOH A 133 433 433 HOH HOH . M 6 HOH A 134 434 434 HOH HOH . M 6 HOH A 135 435 435 HOH HOH . M 6 HOH A 136 436 436 HOH HOH . M 6 HOH A 137 437 437 HOH HOH . M 6 HOH A 138 438 438 HOH HOH . M 6 HOH A 139 439 439 HOH HOH . M 6 HOH A 140 440 440 HOH HOH . M 6 HOH A 141 441 441 HOH HOH . M 6 HOH A 142 442 442 HOH HOH . M 6 HOH A 143 443 443 HOH HOH . M 6 HOH A 144 444 444 HOH HOH . M 6 HOH A 145 445 445 HOH HOH . M 6 HOH A 146 446 446 HOH HOH . M 6 HOH A 147 447 447 HOH HOH . M 6 HOH A 148 448 448 HOH HOH . M 6 HOH A 149 449 449 HOH HOH . M 6 HOH A 150 450 450 HOH HOH . M 6 HOH A 151 451 451 HOH HOH . M 6 HOH A 152 452 452 HOH HOH . M 6 HOH A 153 453 453 HOH HOH . M 6 HOH A 154 454 454 HOH HOH . M 6 HOH A 155 455 455 HOH HOH . M 6 HOH A 156 456 456 HOH HOH . M 6 HOH A 157 457 457 HOH HOH . M 6 HOH A 158 458 458 HOH HOH . M 6 HOH A 159 459 459 HOH HOH . M 6 HOH A 160 460 460 HOH HOH . M 6 HOH A 161 461 461 HOH HOH . M 6 HOH A 162 462 462 HOH HOH . M 6 HOH A 163 463 463 HOH HOH . M 6 HOH A 164 464 464 HOH HOH . M 6 HOH A 165 465 465 HOH HOH . M 6 HOH A 166 466 466 HOH HOH . M 6 HOH A 167 467 467 HOH HOH . M 6 HOH A 168 468 468 HOH HOH . M 6 HOH A 169 469 469 HOH HOH . M 6 HOH A 170 470 470 HOH HOH . M 6 HOH A 171 471 471 HOH HOH . M 6 HOH A 172 472 472 HOH HOH . M 6 HOH A 173 473 473 HOH HOH . M 6 HOH A 174 474 474 HOH HOH . M 6 HOH A 175 475 475 HOH HOH . M 6 HOH A 176 476 476 HOH HOH . M 6 HOH A 177 477 477 HOH HOH . M 6 HOH A 178 478 478 HOH HOH . M 6 HOH A 179 479 479 HOH HOH . M 6 HOH A 180 480 480 HOH HOH . M 6 HOH A 181 481 481 HOH HOH . M 6 HOH A 182 482 482 HOH HOH . M 6 HOH A 183 483 483 HOH HOH . M 6 HOH A 184 484 484 HOH HOH . M 6 HOH A 185 485 485 HOH HOH . M 6 HOH A 186 486 486 HOH HOH . M 6 HOH A 187 487 487 HOH HOH . M 6 HOH A 188 488 488 HOH HOH . M 6 HOH A 189 489 489 HOH HOH . M 6 HOH A 190 490 490 HOH HOH . M 6 HOH A 191 491 491 HOH HOH . M 6 HOH A 192 492 492 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 C45 3QM . . . G 4 75.813 35.584 -14.263 1 18.44 ? C45 3QM 206 A 1 HETATM 2 C C46 3QM . . . G 4 74.575 36.17 -14.59 1 21.74 ? C46 3QM 206 A 1 HETATM 3 C C47 3QM . . . G 4 73.795 36.845 -13.636 1 19.59 ? C47 3QM 206 A 1 HETATM 4 C C48 3QM . . . G 4 74.281 36.878 -12.346 1 20.11 ? C48 3QM 206 A 1 HETATM 5 C C49 3QM . . . G 4 75.49 36.292 -12.01 1 17.04 ? C49 3QM 206 A 1 HETATM 6 C C44 3QM . . . G 4 76.31 35.628 -12.929 1 17.11 ? C44 3QM 206 A 1 HETATM 7 C C43 3QM . . . G 4 77.603 35.146 -12.675 1 16.79 ? C43 3QM 206 A 1 HETATM 8 C C41 3QM . . . G 4 77.813 33.779 -11.938 1 16.88 ? C41 3QM 206 A 1 HETATM 9 C C42 3QM . . . G 4 79.301 33.424 -11.861 1 15.58 ? C42 3QM 206 A 1 HETATM 10 N N7 3QM . . . G 4 77.371 33.799 -10.556 1 16.47 ? N7 3QM 206 A 1 HETATM 11 O O1 3QM . . . G 4 77.452 34.811 -9.816 1 16.38 ? O1 3QM 206 A 1 # _model_server_stats.io_time_ms 9 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 13 _model_server_stats.query_time_ms 281 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 11 #