data_6TOL
#
_model_server_result.job_id            shJgxU8MPe7p21yox7r1RQ 
_model_server_result.datetime_utc      '2025-01-10 08:37:03' 
_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          6tol 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"B","auth_seq_id":201}' 
#
_entry.id    6TOL 
#
_exptl.entry_id    6TOL 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              474.984 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            5-[[5-chloranyl-2-[(2~{S},6~{R})-2,6-dimethylmorpholin-4-yl]pyrimidin-4-yl]amino]-1-methyl-3-(3-methyl-3-oxidanyl-butyl)benzimidazol-2-one 
_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            6TOL 
_cell.length_a            67.143 
_cell.length_b            67.143 
_cell.length_c            167.452 
_cell.Z_PDB               12 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 6TOL 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        178 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 61 2 2' 
#
_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,E,F,G,H,I,J,K,L 
_pdbx_struct_assembly_gen.assembly_id        1 
_pdbx_struct_assembly_gen.oper_expression    1,2 
#
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' 12_565 x,x-y+1,-z+1/6 0.5 0.866025 0 0.866025 -0.5 0 0 0 -1 -33.5715 58.147544 27.908667 
#
_struct_asym.details                        ? 
_struct_asym.entity_id                      2 
_struct_asym.id                             B 
_struct_asym.pdbx_modified                  N 
_struct_asym.pdbx_blank_PDB_chainid_flag    N 
#
_chem_comp.formula           'C23 H31 Cl N6 O3' 
_chem_comp.formula_weight    474.984 
_chem_comp.id                NQW 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              5-[[5-chloranyl-2-[(2~{S},6~{R})-2,6-dimethylmorpholin-4-yl]pyrimidin-4-yl]amino]-1-methyl-3-(3-methyl-3-oxidanyl-butyl)benzimidazol-2-one 
_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
C5 C4 NQW sing 255 n n 
C3 C4 NQW sing 256 n n 
C3 N NQW sing 257 n n 
C4 O NQW sing 258 n n 
N5 C22 NQW doub 259 n y 
N5 C6 NQW sing 260 n y 
O C1 NQW sing 261 n n 
C22 C21 NQW sing 262 n y 
N C6 NQW sing 263 n n 
N C2 NQW sing 264 n n 
C6 N1 NQW doub 265 n y 
C2 C1 NQW sing 266 n n 
C1 C NQW sing 267 n n 
C21 CL NQW sing 268 n n 
C21 C7 NQW doub 269 n y 
N1 C7 NQW sing 270 n y 
C7 N2 NQW sing 271 n n 
N2 C8 NQW sing 272 n n 
C8 C13 NQW doub 273 n y 
C8 C9 NQW sing 274 n y 
C13 C12 NQW sing 275 n y 
C20 C18 NQW sing 276 n n 
C9 C10 NQW doub 277 n y 
C12 C11 NQW doub 278 n y 
C19 C18 NQW sing 279 n n 
C17 C18 NQW sing 280 n n 
C17 C16 NQW sing 281 n n 
C18 O2 NQW sing 282 n n 
C10 C11 NQW sing 283 n y 
C10 N4 NQW sing 284 n n 
C11 N3 NQW sing 285 n n 
N4 C16 NQW sing 286 n n 
N4 C15 NQW sing 287 n n 
N3 C14 NQW sing 288 n n 
N3 C15 NQW sing 289 n n 
C15 O1 NQW doub 290 n n 
C22 H1 NQW sing 291 n n 
C2 H2 NQW sing 292 n n 
C2 H3 NQW sing 293 n n 
C3 H4 NQW sing 294 n n 
C3 H5 NQW sing 295 n n 
C4 H6 NQW sing 296 n n 
C5 H7 NQW sing 297 n n 
C5 H8 NQW sing 298 n n 
C5 H9 NQW sing 299 n n 
C1 H10 NQW sing 300 n n 
C H11 NQW sing 301 n n 
C H12 NQW sing 302 n n 
C H13 NQW sing 303 n n 
N2 H14 NQW sing 304 n n 
C13 H15 NQW sing 305 n n 
C12 H16 NQW sing 306 n n 
C14 H17 NQW sing 307 n n 
C14 H18 NQW sing 308 n n 
C14 H19 NQW sing 309 n n 
C9 H20 NQW sing 310 n n 
C16 H21 NQW sing 311 n n 
C16 H22 NQW sing 312 n n 
C17 H23 NQW sing 313 n n 
C17 H24 NQW sing 314 n n 
O2 H25 NQW sing 315 n n 
C20 H26 NQW sing 316 n n 
C20 H27 NQW sing 317 n n 
C20 H28 NQW sing 318 n n 
C19 H29 NQW sing 319 n n 
C19 H30 NQW sing 320 n n 
C19 H31 NQW sing 321 n n 
#
_atom_sites.entry_id                     6TOL 
_atom_sites.fract_transf_matrix[1][1]    0.014894 
_atom_sites.fract_transf_matrix[1][2]    0.008599 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.017198 
_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]    0.005972 
_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 NQW A 1 201 200 NQW 259 . 
C 3 EDO A 1 202 1 EDO EDO . 
D 3 EDO A 1 203 2 EDO EDO . 
E 3 EDO A 1 204 3 EDO EDO . 
F 3 EDO A 1 205 4 EDO EDO . 
G 3 EDO A 1 206 5 EDO EDO . 
H 3 EDO A 1 207 6 EDO EDO . 
I 3 EDO A 1 208 7 EDO EDO . 
J 3 EDO A 1 209 8 EDO EDO . 
K 4 DMS A 1 210 1 DMS DMS . 
L 5 HOH A 1 301 143 HOH HOH . 
L 5 HOH A 2 302 139 HOH HOH . 
L 5 HOH A 3 303 44 HOH HOH . 
L 5 HOH A 4 304 61 HOH HOH . 
L 5 HOH A 5 305 78 HOH HOH . 
L 5 HOH A 6 306 7 HOH HOH . 
L 5 HOH A 7 307 148 HOH HOH . 
L 5 HOH A 8 308 17 HOH HOH . 
L 5 HOH A 9 309 150 HOH HOH . 
L 5 HOH A 10 310 25 HOH HOH . 
L 5 HOH A 11 311 10 HOH HOH . 
L 5 HOH A 12 312 43 HOH HOH . 
L 5 HOH A 13 313 153 HOH HOH . 
L 5 HOH A 14 314 151 HOH HOH . 
L 5 HOH A 15 315 34 HOH HOH . 
L 5 HOH A 16 316 62 HOH HOH . 
L 5 HOH A 17 317 37 HOH HOH . 
L 5 HOH A 18 318 33 HOH HOH . 
L 5 HOH A 19 319 156 HOH HOH . 
L 5 HOH A 20 320 142 HOH HOH . 
L 5 HOH A 21 321 147 HOH HOH . 
L 5 HOH A 22 322 73 HOH HOH . 
L 5 HOH A 23 323 163 HOH HOH . 
L 5 HOH A 24 324 63 HOH HOH . 
L 5 HOH A 25 325 38 HOH HOH . 
L 5 HOH A 26 326 140 HOH HOH . 
L 5 HOH A 27 327 171 HOH HOH . 
L 5 HOH A 28 328 15 HOH HOH . 
L 5 HOH A 29 329 167 HOH HOH . 
L 5 HOH A 30 330 14 HOH HOH . 
L 5 HOH A 31 331 69 HOH HOH . 
L 5 HOH A 32 332 116 HOH HOH . 
L 5 HOH A 33 333 45 HOH HOH . 
L 5 HOH A 34 334 128 HOH HOH . 
L 5 HOH A 35 335 80 HOH HOH . 
L 5 HOH A 36 336 178 HOH HOH . 
L 5 HOH A 37 337 137 HOH HOH . 
L 5 HOH A 38 338 127 HOH HOH . 
L 5 HOH A 39 339 20 HOH HOH . 
L 5 HOH A 40 340 184 HOH HOH . 
L 5 HOH A 41 341 1 HOH HOH . 
L 5 HOH A 42 342 27 HOH HOH . 
L 5 HOH A 43 343 54 HOH HOH . 
L 5 HOH A 44 344 113 HOH HOH . 
L 5 HOH A 45 345 19 HOH HOH . 
L 5 HOH A 46 346 186 HOH HOH . 
L 5 HOH A 47 347 21 HOH HOH . 
L 5 HOH A 48 348 52 HOH HOH . 
L 5 HOH A 49 349 12 HOH HOH . 
L 5 HOH A 50 350 145 HOH HOH . 
L 5 HOH A 51 351 11 HOH HOH . 
L 5 HOH A 52 352 49 HOH HOH . 
L 5 HOH A 53 353 57 HOH HOH . 
L 5 HOH A 54 354 32 HOH HOH . 
L 5 HOH A 55 355 81 HOH HOH . 
L 5 HOH A 56 356 9 HOH HOH . 
L 5 HOH A 57 357 157 HOH HOH . 
L 5 HOH A 58 358 77 HOH HOH . 
L 5 HOH A 59 359 18 HOH HOH . 
L 5 HOH A 60 360 6 HOH HOH . 
L 5 HOH A 61 361 165 HOH HOH . 
L 5 HOH A 62 362 120 HOH HOH . 
L 5 HOH A 63 363 35 HOH HOH . 
L 5 HOH A 64 364 84 HOH HOH . 
L 5 HOH A 65 365 71 HOH HOH . 
L 5 HOH A 66 366 91 HOH HOH . 
L 5 HOH A 67 367 115 HOH HOH . 
L 5 HOH A 68 368 64 HOH HOH . 
L 5 HOH A 69 369 4 HOH HOH . 
L 5 HOH A 70 370 188 HOH HOH . 
L 5 HOH A 71 371 114 HOH HOH . 
L 5 HOH A 72 372 39 HOH HOH . 
L 5 HOH A 73 373 47 HOH HOH . 
L 5 HOH A 74 374 158 HOH HOH . 
L 5 HOH A 75 375 22 HOH HOH . 
L 5 HOH A 76 376 173 HOH HOH . 
L 5 HOH A 77 377 26 HOH HOH . 
L 5 HOH A 78 378 169 HOH HOH . 
L 5 HOH A 79 379 29 HOH HOH . 
L 5 HOH A 80 380 41 HOH HOH . 
L 5 HOH A 81 381 138 HOH HOH . 
L 5 HOH A 82 382 75 HOH HOH . 
L 5 HOH A 83 383 70 HOH HOH . 
L 5 HOH A 84 384 24 HOH HOH . 
L 5 HOH A 85 385 3 HOH HOH . 
L 5 HOH A 86 386 40 HOH HOH . 
L 5 HOH A 87 387 48 HOH HOH . 
L 5 HOH A 88 388 97 HOH HOH . 
L 5 HOH A 89 389 51 HOH HOH . 
L 5 HOH A 90 390 162 HOH HOH . 
L 5 HOH A 91 391 83 HOH HOH . 
L 5 HOH A 92 392 16 HOH HOH . 
L 5 HOH A 93 393 111 HOH HOH . 
L 5 HOH A 94 394 65 HOH HOH . 
L 5 HOH A 95 395 59 HOH HOH . 
L 5 HOH A 96 396 23 HOH HOH . 
L 5 HOH A 97 397 141 HOH HOH . 
L 5 HOH A 98 398 99 HOH HOH . 
L 5 HOH A 99 399 126 HOH HOH . 
L 5 HOH A 100 400 66 HOH HOH . 
L 5 HOH A 101 401 42 HOH HOH . 
L 5 HOH A 102 402 86 HOH HOH . 
L 5 HOH A 103 403 134 HOH HOH . 
L 5 HOH A 104 404 13 HOH HOH . 
L 5 HOH A 105 405 181 HOH HOH . 
L 5 HOH A 106 406 53 HOH HOH . 
L 5 HOH A 107 407 5 HOH HOH . 
L 5 HOH A 108 408 72 HOH HOH . 
L 5 HOH A 109 409 68 HOH HOH . 
L 5 HOH A 110 410 28 HOH HOH . 
L 5 HOH A 111 411 31 HOH HOH . 
L 5 HOH A 112 412 166 HOH HOH . 
L 5 HOH A 113 413 50 HOH HOH . 
L 5 HOH A 114 414 146 HOH HOH . 
L 5 HOH A 115 415 135 HOH HOH . 
L 5 HOH A 116 416 100 HOH HOH . 
L 5 HOH A 117 417 88 HOH HOH . 
L 5 HOH A 118 418 112 HOH HOH . 
L 5 HOH A 119 419 174 HOH HOH . 
L 5 HOH A 120 420 130 HOH HOH . 
L 5 HOH A 121 421 164 HOH HOH . 
L 5 HOH A 122 422 55 HOH HOH . 
L 5 HOH A 123 423 85 HOH HOH . 
L 5 HOH A 124 424 172 HOH HOH . 
L 5 HOH A 125 425 106 HOH HOH . 
L 5 HOH A 126 426 79 HOH HOH . 
L 5 HOH A 127 427 161 HOH HOH . 
L 5 HOH A 128 428 98 HOH HOH . 
L 5 HOH A 129 429 105 HOH HOH . 
L 5 HOH A 130 430 103 HOH HOH . 
L 5 HOH A 131 431 96 HOH HOH . 
L 5 HOH A 132 432 176 HOH HOH . 
L 5 HOH A 133 433 154 HOH HOH . 
L 5 HOH A 134 434 170 HOH HOH . 
L 5 HOH A 135 435 104 HOH HOH . 
L 5 HOH A 136 436 160 HOH HOH . 
L 5 HOH A 137 437 124 HOH HOH . 
L 5 HOH A 138 438 89 HOH HOH . 
L 5 HOH A 139 439 107 HOH HOH . 
L 5 HOH A 140 440 175 HOH HOH . 
L 5 HOH A 141 441 117 HOH HOH . 
L 5 HOH A 142 442 123 HOH HOH . 
L 5 HOH A 143 443 95 HOH HOH . 
L 5 HOH A 144 444 109 HOH HOH . 
L 5 HOH A 145 445 56 HOH HOH . 
L 5 HOH A 146 446 121 HOH HOH . 
L 5 HOH A 147 447 179 HOH HOH . 
L 5 HOH A 148 448 132 HOH HOH . 
L 5 HOH A 149 449 90 HOH HOH . 
L 5 HOH A 150 450 168 HOH HOH . 
L 5 HOH A 151 451 108 HOH HOH . 
L 5 HOH A 152 452 82 HOH HOH . 
L 5 HOH A 153 453 93 HOH HOH . 
L 5 HOH A 154 454 187 HOH HOH . 
L 5 HOH A 155 455 177 HOH HOH . 
L 5 HOH A 156 456 155 HOH HOH . 
L 5 HOH A 157 457 185 HOH HOH . 
L 5 HOH A 158 458 180 HOH HOH . 
L 5 HOH A 159 459 152 HOH HOH . 
L 5 HOH A 160 460 119 HOH HOH . 
L 5 HOH A 161 461 125 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 CL CL NQW . . . B 2 -28.865 11.015 13.874 0.95 29.73 ? CL NQW 201 A 1 
HETATM 2 C C21 NQW . . . B 2 -27.425 10.261 13.276 0.95 29.11 ? C21 NQW 201 A 1 
HETATM 3 C C22 NQW . . . B 2 -27.285 9.923 11.942 0.95 30.72 ? C22 NQW 201 A 1 
HETATM 4 N N5 NQW . . . B 2 -26.265 9.191 11.493 0.95 31.73 ? N5 NQW 201 A 1 
HETATM 5 C C6 NQW . . . B 2 -25.386 8.79 12.42 0.95 32.11 ? C6 NQW 201 A 1 
HETATM 6 N N NQW . . . B 2 -24.384 8.006 12.017 0.95 38.51 ? N NQW 201 A 1 
HETATM 7 C C2 NQW . . . B 2 -23.358 7.43 12.883 0.95 39.94 ? C2 NQW 201 A 1 
HETATM 8 C C3 NQW . . . B 2 -24.309 7.476 10.657 0.95 41.18 ? C3 NQW 201 A 1 
HETATM 9 C C4 NQW . . . B 2 -24.618 5.996 10.712 0.95 45.75 ? C4 NQW 201 A 1 
HETATM 10 C C5 NQW . . . B 2 -24.272 5.302 9.423 0.95 47.49 ? C5 NQW 201 A 1 
HETATM 11 O O NQW . . . B 2 -23.822 5.396 11.751 0.95 47.58 ? O NQW 201 A 1 
HETATM 12 C C1 NQW . . . B 2 -23.935 6.04 13.035 0.95 44.78 ? C1 NQW 201 A 1 
HETATM 13 C C NQW . . . B 2 -23.153 5.209 14.018 0.95 46.76 ? C NQW 201 A 1 
HETATM 14 C C7 NQW . . . B 2 -26.443 9.794 14.161 0.95 28.94 ? C7 NQW 201 A 1 
HETATM 15 N N1 NQW . . . B 2 -25.434 9.053 13.725 0.95 29.12 ? N1 NQW 201 A 1 
HETATM 16 N N2 NQW . . . B 2 -26.384 10.193 15.447 0.95 26.51 ? N2 NQW 201 A 1 
HETATM 17 C C8 NQW . . . B 2 -25.642 9.667 16.509 0.95 28.11 ? C8 NQW 201 A 1 
HETATM 18 C C13 NQW . . . B 2 -25.174 8.357 16.602 0.95 26.92 ? C13 NQW 201 A 1 
HETATM 19 C C12 NQW . . . B 2 -24.191 8.015 17.516 0.95 28.67 ? C12 NQW 201 A 1 
HETATM 20 C C11 NQW . . . B 2 -23.658 9.011 18.319 0.95 29.57 ? C11 NQW 201 A 1 
HETATM 21 N N3 NQW . . . B 2 -22.654 8.997 19.275 0.95 29.17 ? N3 NQW 201 A 1 
HETATM 22 C C14 NQW . . . B 2 -21.927 7.825 19.742 0.95 31.12 ? C14 NQW 201 A 1 
HETATM 23 C C15 NQW . . . B 2 -22.44 10.27 19.748 0.95 29.48 ? C15 NQW 201 A 1 
HETATM 24 O O1 NQW . . . B 2 -21.647 10.608 20.598 0.95 28.15 ? O1 NQW 201 A 1 
HETATM 25 N N4 NQW . . . B 2 -23.321 11.083 19.066 0.95 28.44 ? N4 NQW 201 A 1 
HETATM 26 C C10 NQW . . . B 2 -24.101 10.318 18.209 0.95 28.33 ? C10 NQW 201 A 1 
HETATM 27 C C9 NQW . . . B 2 -25.116 10.654 17.334 0.95 27.37 ? C9 NQW 201 A 1 
HETATM 28 C C16 NQW . . . B 2 -23.26 12.54 19.097 0.95 27.4 ? C16 NQW 201 A 1 
HETATM 29 C C17 NQW . . . B 2 -22.241 13.069 18.094 0.95 27.8 ? C17 NQW 201 A 1 
HETATM 30 C C18 NQW . . . B 2 -21.979 14.567 18.143 0.95 28.11 ? C18 NQW 201 A 1 
HETATM 31 O O2 NQW . . . B 2 -21.708 14.923 19.508 0.95 26.83 ? O2 NQW 201 A 1 
HETATM 32 C C20 NQW . . . B 2 -20.765 14.929 17.308 0.95 27.73 ? C20 NQW 201 A 1 
HETATM 33 C C19 NQW . . . B 2 -23.197 15.35 17.683 0.95 26.71 ? C19 NQW 201 A 1 
#
_model_server_stats.io_time_ms              13 
_model_server_stats.parse_time_ms           15 
_model_server_stats.create_model_time_ms    3 
_model_server_stats.query_time_ms           471 
_model_server_stats.encode_time_ms          6 
_model_server_stats.element_count           33 
#