data_6SYD # _model_server_result.job_id PfiNSw6ijr8p-nSqi-4odw _model_server_result.datetime_utc '2025-01-10 14:34:48' _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 6syd # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":202}' # _entry.id 6SYD # _exptl.entry_id 6SYD _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 669.961 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'bromophenol blue' _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 90 _cell.entry_id 6SYD _cell.length_a 78.498 _cell.length_b 78.498 _cell.length_c 37.341 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6SYD _symmetry.cell_setting ? _symmetry.Int_Tables_number 96 _symmetry.space_group_name_Hall 'P 4nw 2abw' _symmetry.space_group_name_H-M 'P 43 21 2' # _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 6 A CYS 6 1_555 A SG CYS 127 A CYS 127 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf2 A SG CYS 30 A CYS 30 1_555 A SG CYS 115 A CYS 115 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.026 ? disulf ? disulf3 A SG CYS 64 A CYS 64 1_555 A SG CYS 80 A CYS 80 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf4 A SG CYS 76 A CYS 76 1_555 A SG CYS 94 A CYS 94 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? metalc ? metalc1 A O SER 60 A SER 60 1_555 B NA NA . A NA 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.335 ? metalc ? metalc2 A O CYS 64 A CYS 64 1_555 B NA NA . A NA 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.343 ? metalc ? metalc3 A OG SER 72 A SER 72 1_555 B NA NA . A NA 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.554 ? metalc ? metalc4 A O ARG 73 A ARG 73 1_555 B NA NA . A NA 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.507 ? metalc ? metalc5 B NA NA . A NA 201 1_555 D O HOH . A HOH 365 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.444 ? metalc ? metalc6 B NA NA . A NA 201 1_555 D O HOH . A HOH 384 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.389 ? # _chem_comp.formula 'C19 H10 Br4 O5 S' _chem_comp.formula_weight 669.961 _chem_comp.id LYE _chem_comp.mon_nstd_flag . _chem_comp.name 'bromophenol blue' _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 BR3 C13 LYE sing 194 n n O12 C11 LYE doub 195 n n C13 C11 LYE sing 196 n n C13 C14 LYE doub 197 n n C11 C10 LYE sing 198 n n C14 C08 LYE sing 199 n n C02 C01 LYE doub 200 n y C02 C03 LYE sing 201 n y C01 C06 LYE sing 202 n y C03 C04 LYE doub 203 n y C06 C05 LYE doub 204 n y O27 S26 LYE doub 205 n n C10 BR4 LYE sing 206 n n C10 C09 LYE doub 207 n n C04 C05 LYE sing 208 n y C04 S26 LYE sing 209 n n C08 C09 LYE sing 210 n n C08 C07 LYE doub 211 n n C05 C07 LYE sing 212 n n O28 S26 LYE doub 213 n n S26 O29 LYE sing 214 n n C07 C17 LYE sing 215 n n C17 C18 LYE doub 216 n y C17 C22 LYE sing 217 n y C18 C19 LYE sing 218 n y C22 C21 LYE doub 219 n y C19 C20 LYE doub 220 n y C19 BR1 LYE sing 221 n n C21 C20 LYE sing 222 n y C21 BR2 LYE sing 223 n n C20 O24 LYE sing 224 n n C02 H021 LYE sing 225 n n C01 H011 LYE sing 226 n n C03 H031 LYE sing 227 n n C06 H061 LYE sing 228 n n C09 H091 LYE sing 229 n n C14 H141 LYE sing 230 n n C18 H181 LYE sing 231 n n C22 H221 LYE sing 232 n n O24 H241 LYE sing 233 n n O29 H3 LYE sing 234 n n # _atom_sites.entry_id 6SYD _atom_sites.fract_transf_matrix[1][1] 0.012739 _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] 0.012739 _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] 0.02678 _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 NA A 1 201 201 NA NA . C 3 LYE A 1 202 202 LYE LYE . D 4 HOH A 1 301 301 HOH HOH . D 4 HOH A 2 302 302 HOH HOH . D 4 HOH A 3 303 303 HOH HOH . D 4 HOH A 4 304 305 HOH HOH . D 4 HOH A 5 305 304 HOH HOH . D 4 HOH A 6 306 309 HOH HOH . D 4 HOH A 7 307 307 HOH HOH . D 4 HOH A 8 308 308 HOH HOH . D 4 HOH A 9 309 311 HOH HOH . D 4 HOH A 10 310 310 HOH HOH . D 4 HOH A 11 311 312 HOH HOH . D 4 HOH A 12 312 313 HOH HOH . D 4 HOH A 13 313 314 HOH HOH . D 4 HOH A 14 314 306 HOH HOH . D 4 HOH A 15 315 315 HOH HOH . D 4 HOH A 16 316 317 HOH HOH . D 4 HOH A 17 317 318 HOH HOH . D 4 HOH A 18 318 319 HOH HOH . D 4 HOH A 19 319 323 HOH HOH . D 4 HOH A 20 320 316 HOH HOH . D 4 HOH A 21 321 320 HOH HOH . D 4 HOH A 22 322 332 HOH HOH . D 4 HOH A 23 323 322 HOH HOH . D 4 HOH A 24 324 327 HOH HOH . D 4 HOH A 25 325 324 HOH HOH . D 4 HOH A 26 326 325 HOH HOH . D 4 HOH A 27 327 331 HOH HOH . D 4 HOH A 28 328 321 HOH HOH . D 4 HOH A 29 329 335 HOH HOH . D 4 HOH A 30 330 326 HOH HOH . D 4 HOH A 31 331 336 HOH HOH . D 4 HOH A 32 332 334 HOH HOH . D 4 HOH A 33 333 328 HOH HOH . D 4 HOH A 34 334 333 HOH HOH . D 4 HOH A 35 335 337 HOH HOH . D 4 HOH A 36 336 330 HOH HOH . D 4 HOH A 37 337 339 HOH HOH . D 4 HOH A 38 338 329 HOH HOH . D 4 HOH A 39 339 338 HOH HOH . D 4 HOH A 40 340 340 HOH HOH . D 4 HOH A 41 341 341 HOH HOH . D 4 HOH A 42 342 345 HOH HOH . D 4 HOH A 43 343 342 HOH HOH . D 4 HOH A 44 344 343 HOH HOH . D 4 HOH A 45 345 344 HOH HOH . D 4 HOH A 46 346 351 HOH HOH . D 4 HOH A 47 347 348 HOH HOH . D 4 HOH A 48 348 347 HOH HOH . D 4 HOH A 49 349 354 HOH HOH . D 4 HOH A 50 350 353 HOH HOH . D 4 HOH A 51 351 357 HOH HOH . D 4 HOH A 52 352 349 HOH HOH . D 4 HOH A 53 353 346 HOH HOH . D 4 HOH A 54 354 356 HOH HOH . D 4 HOH A 55 355 364 HOH HOH . D 4 HOH A 56 356 360 HOH HOH . D 4 HOH A 57 357 352 HOH HOH . D 4 HOH A 58 358 358 HOH HOH . D 4 HOH A 59 359 350 HOH HOH . D 4 HOH A 60 360 367 HOH HOH . D 4 HOH A 61 361 355 HOH HOH . D 4 HOH A 62 362 359 HOH HOH . D 4 HOH A 63 363 365 HOH HOH . D 4 HOH A 64 364 363 HOH HOH . D 4 HOH A 65 365 368 HOH HOH . D 4 HOH A 66 366 362 HOH HOH . D 4 HOH A 67 367 361 HOH HOH . D 4 HOH A 68 368 378 HOH HOH . D 4 HOH A 69 369 370 HOH HOH . D 4 HOH A 70 370 366 HOH HOH . D 4 HOH A 71 371 369 HOH HOH . D 4 HOH A 72 372 373 HOH HOH . D 4 HOH A 73 373 376 HOH HOH . D 4 HOH A 74 374 375 HOH HOH . D 4 HOH A 75 375 381 HOH HOH . D 4 HOH A 76 376 372 HOH HOH . D 4 HOH A 77 377 377 HOH HOH . D 4 HOH A 78 378 382 HOH HOH . D 4 HOH A 79 379 374 HOH HOH . D 4 HOH A 80 380 379 HOH HOH . D 4 HOH A 81 381 389 HOH HOH . D 4 HOH A 82 382 388 HOH HOH . D 4 HOH A 83 383 386 HOH HOH . D 4 HOH A 84 384 390 HOH HOH . D 4 HOH A 85 385 384 HOH HOH . D 4 HOH A 86 386 387 HOH HOH . D 4 HOH A 87 387 385 HOH HOH . D 4 HOH A 88 388 391 HOH HOH . D 4 HOH A 89 389 371 HOH HOH . D 4 HOH A 90 390 392 HOH HOH . D 4 HOH A 91 391 395 HOH HOH . D 4 HOH A 92 392 393 HOH HOH . D 4 HOH A 93 393 394 HOH HOH . D 4 HOH A 94 394 380 HOH HOH . D 4 HOH A 95 395 396 HOH HOH . D 4 HOH A 96 396 397 HOH HOH . D 4 HOH A 97 397 383 HOH HOH . D 4 HOH A 98 398 400 HOH HOH . D 4 HOH A 99 399 401 HOH HOH . D 4 HOH A 100 400 399 HOH HOH . D 4 HOH A 101 401 398 HOH HOH . D 4 HOH A 102 402 403 HOH HOH . D 4 HOH A 103 403 402 HOH HOH . D 4 HOH A 104 404 405 HOH HOH . D 4 HOH A 105 405 404 HOH HOH . D 4 HOH A 106 406 406 HOH HOH . D 4 HOH A 107 407 407 HOH HOH . D 4 HOH A 108 408 409 HOH HOH . D 4 HOH A 109 409 408 HOH HOH . D 4 HOH A 110 410 410 HOH HOH . D 4 HOH A 111 411 414 HOH HOH . D 4 HOH A 112 412 412 HOH HOH . D 4 HOH A 113 413 413 HOH HOH . D 4 HOH A 114 414 411 HOH HOH . D 4 HOH A 115 415 416 HOH HOH . D 4 HOH A 116 416 415 HOH HOH . D 4 HOH A 117 417 418 HOH HOH . D 4 HOH A 118 418 417 HOH HOH . D 4 HOH A 119 419 419 HOH HOH . D 4 HOH A 120 420 420 HOH HOH . D 4 HOH A 121 421 426 HOH HOH . D 4 HOH A 122 422 421 HOH HOH . D 4 HOH A 123 423 422 HOH HOH . D 4 HOH A 124 424 424 HOH HOH . D 4 HOH A 125 425 423 HOH HOH . D 4 HOH A 126 426 425 HOH HOH . D 4 HOH A 127 427 427 HOH HOH . D 4 HOH A 128 428 428 HOH HOH . D 4 HOH A 129 429 429 HOH HOH . D 4 HOH A 130 430 430 HOH HOH . D 4 HOH A 131 431 431 HOH HOH . D 4 HOH A 132 432 432 HOH HOH . D 4 HOH A 133 433 433 HOH HOH . D 4 HOH A 134 434 437 HOH HOH . D 4 HOH A 135 435 435 HOH HOH . D 4 HOH A 136 436 434 HOH HOH . D 4 HOH A 137 437 438 HOH HOH . D 4 HOH A 138 438 436 HOH HOH . D 4 HOH A 139 439 440 HOH HOH . D 4 HOH A 140 440 441 HOH HOH . D 4 HOH A 141 441 439 HOH HOH . D 4 HOH A 142 442 442 HOH HOH . D 4 HOH A 143 443 443 HOH HOH . D 4 HOH A 144 444 444 HOH HOH . D 4 HOH A 145 445 445 HOH HOH . D 4 HOH A 146 446 446 HOH HOH . D 4 HOH A 147 447 447 HOH HOH . D 4 HOH A 148 448 448 HOH HOH . D 4 HOH A 149 449 449 HOH HOH . D 4 HOH A 150 450 450 HOH HOH . D 4 HOH A 151 451 451 HOH HOH . D 4 HOH A 152 452 452 HOH HOH . D 4 HOH A 153 453 453 HOH HOH . D 4 HOH A 154 454 455 HOH HOH . D 4 HOH A 155 455 454 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 C02 LYE . . . C 3 -12.633 -11.201 3.382 0.6 30.17 ? C02 LYE 202 A 1 HETATM 2 C C04 LYE . . . C 3 -14.141 -12.727 4.491 0.6 26.55 ? C04 LYE 202 A 1 HETATM 3 C C07 LYE . . . C 3 -16.428 -11.877 5.289 0.6 25.09 ? C07 LYE 202 A 1 HETATM 4 C C08 LYE . . . C 3 -17.576 -11.733 4.505 0.6 25.33 ? C08 LYE 202 A 1 HETATM 5 C C01 LYE . . . C 3 -13.56 -10.179 3.515 0.6 30.57 ? C01 LYE 202 A 1 HETATM 6 C C03 LYE . . . C 3 -12.925 -12.466 3.868 0.6 28.92 ? C03 LYE 202 A 1 HETATM 7 C C05 LYE . . . C 3 -15.087 -11.691 4.622 0.6 27.37 ? C05 LYE 202 A 1 HETATM 8 C C06 LYE . . . C 3 -14.78 -10.422 4.136 0.6 29.54 ? C06 LYE 202 A 1 HETATM 9 C C09 LYE . . . C 3 -18.772 -11.226 5.032 0.6 25.3 ? C09 LYE 202 A 1 HETATM 10 C C10 LYE . . . C 3 -19.914 -11.089 4.228 0.6 24.64 ? C10 LYE 202 A 1 HETATM 11 C C11 LYE . . . C 3 -19.873 -11.447 2.879 0.6 22.93 ? C11 LYE 202 A 1 HETATM 12 C C13 LYE . . . C 3 -18.68 -11.923 2.341 0.6 22.14 ? C13 LYE 202 A 1 HETATM 13 C C14 LYE . . . C 3 -17.535 -12.051 3.142 0.6 25.38 ? C14 LYE 202 A 1 HETATM 14 C C17 LYE . . . C 3 -16.491 -11.963 6.755 0.6 23.12 ? C17 LYE 202 A 1 HETATM 15 C C18 LYE . . . C 3 -17.637 -12.423 7.417 0.6 21.38 ? C18 LYE 202 A 1 HETATM 16 C C19 LYE . . . C 3 -17.695 -12.461 8.808 0.6 19.46 ? C19 LYE 202 A 1 HETATM 17 C C20 LYE . . . C 3 -16.603 -12.059 9.563 0.6 21.39 ? C20 LYE 202 A 1 HETATM 18 C C21 LYE . . . C 3 -15.453 -11.607 8.922 0.6 21.03 ? C21 LYE 202 A 1 HETATM 19 C C22 LYE . . . C 3 -15.397 -11.557 7.522 0.6 22.47 ? C22 LYE 202 A 1 HETATM 20 O O12 LYE . . . C 3 -20.935 -11.318 2.135 0.6 22.77 ? O12 LYE 202 A 1 HETATM 21 O O24 LYE . . . C 3 -16.654 -12.107 10.855 0.6 22.24 ? O24 LYE 202 A 1 HETATM 22 O O27 LYE . . . C 3 -13.533 -15.175 4.237 0.6 22.77 ? O27 LYE 202 A 1 HETATM 23 O O28 LYE . . . C 3 -15.821 -14.651 4.865 0.6 23.47 ? O28 LYE 202 A 1 HETATM 24 O O29 LYE . . . C 3 -14.008 -14.344 6.465 0.6 24.56 ? O29 LYE 202 A 1 HETATM 25 S S26 LYE . . . C 3 -14.413 -14.383 5.075 0.6 22.43 ? S26 LYE 202 A 1 HETATM 26 BR BR3 LYE . . . C 3 -18.612 -12.395 0.535 0.6 17.74 ? BR3 LYE 202 A 1 HETATM 27 BR BR4 LYE . . . C 3 -21.512 -10.438 4.976 0.6 24.91 ? BR4 LYE 202 A 1 HETATM 28 BR BR2 LYE . . . C 3 -13.981 -11.066 9.949 0.6 18.26 ? BR2 LYE 202 A 1 HETATM 29 BR BR1 LYE . . . C 3 -19.25 -13.064 9.666 0.6 16.21 ? BR1 LYE 202 A 1 HETATM 30 H H021 LYE . . . C 3 -11.676 -11.01 2.897 0.6 36.2 ? H021 LYE 202 A 1 HETATM 31 H H011 LYE . . . C 3 -13.333 -9.184 3.132 0.6 36.69 ? H011 LYE 202 A 1 HETATM 32 H H031 LYE . . . C 3 -12.193 -13.266 3.761 0.6 34.71 ? H031 LYE 202 A 1 HETATM 33 H H061 LYE . . . C 3 -15.503 -9.613 4.244 0.6 35.45 ? H061 LYE 202 A 1 HETATM 34 H H091 LYE . . . C 3 -18.816 -10.934 6.081 0.6 30.36 ? H091 LYE 202 A 1 HETATM 35 H H141 LYE . . . C 3 -16.604 -12.403 2.698 0.6 30.46 ? H141 LYE 202 A 1 HETATM 36 H H181 LYE . . . C 3 -18.496 -12.756 6.834 0.6 25.65 ? H181 LYE 202 A 1 HETATM 37 H H221 LYE . . . C 3 -14.493 -11.198 7.029 0.6 26.96 ? H221 LYE 202 A 1 # _model_server_stats.io_time_ms 71 _model_server_stats.parse_time_ms 22 _model_server_stats.create_model_time_ms 6 _model_server_stats.query_time_ms 312 _model_server_stats.encode_time_ms 9 _model_server_stats.element_count 37 #