data_8PCM
#
_model_server_result.job_id            -m86WxD74SLycChYU8eByQ 
_model_server_result.datetime_utc      '2024-11-13 10:58:48' 
_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          8pcm 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"B","auth_seq_id":301}' 
#
_entry.id    8PCM 
#
_exptl.entry_id    8PCM 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              117.896 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            '[(4~{S})-2-oxidanyl-1,3,2-dioxaborolan-4-yl]methanol' 
_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            8PCM 
_cell.length_a            41.84 
_cell.length_b            41.84 
_cell.length_c            233.28 
_cell.Z_PDB               6 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 8PCM 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        154 
_symmetry.space_group_name_Hall    'P 32 2"' 
_symmetry.space_group_name_H-M     'P 32 2 1' 
#
_pdbx_struct_assembly.method_details        ? 
_pdbx_struct_assembly.oligomeric_details    monomeric 
_pdbx_struct_assembly.oligomeric_count      1 
_pdbx_struct_assembly.details               author_defined_assembly 
_pdbx_struct_assembly.id                    1 
#
_pdbx_struct_assembly_gen.asym_id_list       A,B,C,D,E 
_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                      2 
_struct_asym.id                             B 
_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
covale ? covale1 A OG SER 45 A SER 70 1_555 B B YCH . A YCH 301 1_555 ? ? ? ? A ? ? ? ? ? ? ? 1.435 ? 
covale ? covale2 A OG SER 45 A SER 70 1_555 C B BO4 . A BO4 302 1_555 ? ? ? ? B ? ? ? ? ? ? ? 1.43 ? 
#
_chem_comp.formula           'C3 H7 B O4' 
_chem_comp.formula_weight    117.896 
_chem_comp.id                YCH 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              '[(4~{S})-2-oxidanyl-1,3,2-dioxaborolan-4-yl]methanol' 
_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
C O1 YCH sing 388 n n 
C C1 YCH sing 389 n n 
O1 B YCH sing 390 n n 
C2 C1 YCH sing 391 n n 
C2 O3 YCH sing 392 n n 
O2 B YCH sing 393 n n 
C1 O YCH sing 394 n n 
B O YCH sing 395 n n 
C1 H11 YCH sing 396 n n 
C2 H22 YCH sing 397 n n 
C2 H23 YCH sing 398 n n 
O2 H21 YCH sing 399 n n 
O3 H31 YCH sing 400 n n 
C HC3 YCH sing 401 n n 
C HC2 YCH sing 402 n n 
#
_atom_sites.entry_id                     8PCM 
_atom_sites.fract_transf_matrix[1][1]    0.023901 
_atom_sites.fract_transf_matrix[1][2]    0.013799 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.027598 
_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]    0.004287 
_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 YCH A 1 301 301 YCH GBE . 
C 3 BO4 A 1 302 302 BO4 BAB . 
D 4 SO4 A 1 303 1 SO4 SO4 . 
E 5 HOH A 1 401 175 HOH HOH . 
E 5 HOH A 2 402 337 HOH HOH . 
E 5 HOH A 3 403 44 HOH HOH . 
E 5 HOH A 4 404 153 HOH HOH . 
E 5 HOH A 5 405 328 HOH HOH . 
E 5 HOH A 6 406 214 HOH HOH . 
E 5 HOH A 7 407 10 HOH HOH . 
E 5 HOH A 8 408 181 HOH HOH . 
E 5 HOH A 9 409 356 HOH HOH . 
E 5 HOH A 10 410 118 HOH HOH . 
E 5 HOH A 11 411 48 HOH HOH . 
E 5 HOH A 12 412 92 HOH HOH . 
E 5 HOH A 13 413 232 HOH HOH . 
E 5 HOH A 14 414 198 HOH HOH . 
E 5 HOH A 15 415 2 HOH HOH . 
E 5 HOH A 16 416 32 HOH HOH . 
E 5 HOH A 17 417 50 HOH HOH . 
E 5 HOH A 18 418 110 HOH HOH . 
E 5 HOH A 19 419 6 HOH HOH . 
E 5 HOH A 20 420 9 HOH HOH . 
E 5 HOH A 21 421 21 HOH HOH . 
E 5 HOH A 22 422 309 HOH HOH . 
E 5 HOH A 23 423 7 HOH HOH . 
E 5 HOH A 24 424 357 HOH HOH . 
E 5 HOH A 25 425 179 HOH HOH . 
E 5 HOH A 26 426 80 HOH HOH . 
E 5 HOH A 27 427 176 HOH HOH . 
E 5 HOH A 28 428 251 HOH HOH . 
E 5 HOH A 29 429 53 HOH HOH . 
E 5 HOH A 30 430 57 HOH HOH . 
E 5 HOH A 31 431 178 HOH HOH . 
E 5 HOH A 32 432 69 HOH HOH . 
E 5 HOH A 33 433 5 HOH HOH . 
E 5 HOH A 34 434 65 HOH HOH . 
E 5 HOH A 35 435 18 HOH HOH . 
E 5 HOH A 36 436 30 HOH HOH . 
E 5 HOH A 37 437 148 HOH HOH . 
E 5 HOH A 38 438 1 HOH HOH . 
E 5 HOH A 39 439 45 HOH HOH . 
E 5 HOH A 40 440 220 HOH HOH . 
E 5 HOH A 41 441 70 HOH HOH . 
E 5 HOH A 42 442 22 HOH HOH . 
E 5 HOH A 43 443 36 HOH HOH . 
E 5 HOH A 44 444 159 HOH HOH . 
E 5 HOH A 45 445 71 HOH HOH . 
E 5 HOH A 46 446 206 HOH HOH . 
E 5 HOH A 47 447 207 HOH HOH . 
E 5 HOH A 48 448 241 HOH HOH . 
E 5 HOH A 49 449 38 HOH HOH . 
E 5 HOH A 50 450 4 HOH HOH . 
E 5 HOH A 51 451 46 HOH HOH . 
E 5 HOH A 52 452 16 HOH HOH . 
E 5 HOH A 53 453 67 HOH HOH . 
E 5 HOH A 54 454 13 HOH HOH . 
E 5 HOH A 55 455 25 HOH HOH . 
E 5 HOH A 56 456 252 HOH HOH . 
E 5 HOH A 57 457 8 HOH HOH . 
E 5 HOH A 58 458 358 HOH HOH . 
E 5 HOH A 59 459 28 HOH HOH . 
E 5 HOH A 60 460 35 HOH HOH . 
E 5 HOH A 61 461 26 HOH HOH . 
E 5 HOH A 62 462 338 HOH HOH . 
E 5 HOH A 63 463 3 HOH HOH . 
E 5 HOH A 64 464 310 HOH HOH . 
E 5 HOH A 65 465 63 HOH HOH . 
E 5 HOH A 66 466 348 HOH HOH . 
E 5 HOH A 67 467 344 HOH HOH . 
E 5 HOH A 68 468 182 HOH HOH . 
E 5 HOH A 69 469 51 HOH HOH . 
E 5 HOH A 70 470 95 HOH HOH . 
E 5 HOH A 71 471 191 HOH HOH . 
E 5 HOH A 72 472 173 HOH HOH . 
E 5 HOH A 73 473 15 HOH HOH . 
E 5 HOH A 74 474 260 HOH HOH . 
E 5 HOH A 75 475 79 HOH HOH . 
E 5 HOH A 76 476 12 HOH HOH . 
E 5 HOH A 77 477 174 HOH HOH . 
E 5 HOH A 78 478 122 HOH HOH . 
E 5 HOH A 79 479 72 HOH HOH . 
E 5 HOH A 80 480 82 HOH HOH . 
E 5 HOH A 81 481 27 HOH HOH . 
E 5 HOH A 82 482 60 HOH HOH . 
E 5 HOH A 83 483 33 HOH HOH . 
E 5 HOH A 84 484 147 HOH HOH . 
E 5 HOH A 85 485 94 HOH HOH . 
E 5 HOH A 86 486 29 HOH HOH . 
E 5 HOH A 87 487 261 HOH HOH . 
E 5 HOH A 88 488 289 HOH HOH . 
E 5 HOH A 89 489 99 HOH HOH . 
E 5 HOH A 90 490 183 HOH HOH . 
E 5 HOH A 91 491 76 HOH HOH . 
E 5 HOH A 92 492 11 HOH HOH . 
E 5 HOH A 93 493 47 HOH HOH . 
E 5 HOH A 94 494 84 HOH HOH . 
E 5 HOH A 95 495 164 HOH HOH . 
E 5 HOH A 96 496 55 HOH HOH . 
E 5 HOH A 97 497 83 HOH HOH . 
E 5 HOH A 98 498 24 HOH HOH . 
E 5 HOH A 99 499 180 HOH HOH . 
E 5 HOH A 100 500 213 HOH HOH . 
E 5 HOH A 101 501 58 HOH HOH . 
E 5 HOH A 102 502 34 HOH HOH . 
E 5 HOH A 103 503 93 HOH HOH . 
E 5 HOH A 104 504 216 HOH HOH . 
E 5 HOH A 105 505 283 HOH HOH . 
E 5 HOH A 106 506 56 HOH HOH . 
E 5 HOH A 107 507 87 HOH HOH . 
E 5 HOH A 108 508 85 HOH HOH . 
E 5 HOH A 109 509 253 HOH HOH . 
E 5 HOH A 110 510 54 HOH HOH . 
E 5 HOH A 111 511 186 HOH HOH . 
E 5 HOH A 112 512 185 HOH HOH . 
E 5 HOH A 113 513 280 HOH HOH . 
E 5 HOH A 114 514 342 HOH HOH . 
E 5 HOH A 115 515 247 HOH HOH . 
E 5 HOH A 116 516 41 HOH HOH . 
E 5 HOH A 117 517 209 HOH HOH . 
E 5 HOH A 118 518 42 HOH HOH . 
E 5 HOH A 119 519 37 HOH HOH . 
E 5 HOH A 120 520 259 HOH HOH . 
E 5 HOH A 121 521 39 HOH HOH . 
E 5 HOH A 122 522 14 HOH HOH . 
E 5 HOH A 123 523 154 HOH HOH . 
E 5 HOH A 124 524 23 HOH HOH . 
E 5 HOH A 125 525 165 HOH HOH . 
E 5 HOH A 126 526 274 HOH HOH . 
E 5 HOH A 127 527 61 HOH HOH . 
E 5 HOH A 128 528 149 HOH HOH . 
E 5 HOH A 129 529 347 HOH HOH . 
E 5 HOH A 130 530 201 HOH HOH . 
E 5 HOH A 131 531 242 HOH HOH . 
E 5 HOH A 132 532 81 HOH HOH . 
E 5 HOH A 133 533 156 HOH HOH . 
E 5 HOH A 134 534 31 HOH HOH . 
E 5 HOH A 135 535 123 HOH HOH . 
E 5 HOH A 136 536 17 HOH HOH . 
E 5 HOH A 137 537 203 HOH HOH . 
E 5 HOH A 138 538 64 HOH HOH . 
E 5 HOH A 139 539 187 HOH HOH . 
E 5 HOH A 140 540 276 HOH HOH . 
E 5 HOH A 141 541 233 HOH HOH . 
E 5 HOH A 142 542 117 HOH HOH . 
E 5 HOH A 143 543 40 HOH HOH . 
E 5 HOH A 144 544 226 HOH HOH . 
E 5 HOH A 145 545 194 HOH HOH . 
E 5 HOH A 146 546 196 HOH HOH . 
E 5 HOH A 147 547 199 HOH HOH . 
E 5 HOH A 148 548 177 HOH HOH . 
E 5 HOH A 149 549 151 HOH HOH . 
E 5 HOH A 150 550 113 HOH HOH . 
E 5 HOH A 151 551 74 HOH HOH . 
E 5 HOH A 152 552 255 HOH HOH . 
E 5 HOH A 153 553 133 HOH HOH . 
E 5 HOH A 154 554 20 HOH HOH . 
E 5 HOH A 155 555 19 HOH HOH . 
E 5 HOH A 156 556 264 HOH HOH . 
E 5 HOH A 157 557 184 HOH HOH . 
E 5 HOH A 158 558 287 HOH HOH . 
E 5 HOH A 159 559 330 HOH HOH . 
E 5 HOH A 160 560 155 HOH HOH . 
E 5 HOH A 161 561 234 HOH HOH . 
E 5 HOH A 162 562 265 HOH HOH . 
E 5 HOH A 163 563 350 HOH HOH . 
E 5 HOH A 164 564 279 HOH HOH . 
E 5 HOH A 165 565 341 HOH HOH . 
E 5 HOH A 166 566 190 HOH HOH . 
E 5 HOH A 167 567 288 HOH HOH . 
E 5 HOH A 168 568 315 HOH HOH . 
E 5 HOH A 169 569 225 HOH HOH . 
E 5 HOH A 170 570 335 HOH HOH . 
E 5 HOH A 171 571 114 HOH HOH . 
E 5 HOH A 172 572 275 HOH HOH . 
E 5 HOH A 173 573 311 HOH HOH . 
E 5 HOH A 174 574 317 HOH HOH . 
E 5 HOH A 175 575 105 HOH HOH . 
E 5 HOH A 176 576 200 HOH HOH . 
E 5 HOH A 177 577 109 HOH HOH . 
E 5 HOH A 178 578 326 HOH HOH . 
E 5 HOH A 179 579 218 HOH HOH . 
E 5 HOH A 180 580 360 HOH HOH . 
E 5 HOH A 181 581 193 HOH HOH . 
E 5 HOH A 182 582 204 HOH HOH . 
E 5 HOH A 183 583 211 HOH HOH . 
E 5 HOH A 184 584 221 HOH HOH . 
E 5 HOH A 185 585 205 HOH HOH . 
E 5 HOH A 186 586 334 HOH HOH . 
E 5 HOH A 187 587 49 HOH HOH . 
E 5 HOH A 188 588 286 HOH HOH . 
E 5 HOH A 189 589 73 HOH HOH . 
E 5 HOH A 190 590 239 HOH HOH . 
E 5 HOH A 191 591 215 HOH HOH . 
E 5 HOH A 192 592 254 HOH HOH . 
E 5 HOH A 193 593 78 HOH HOH . 
E 5 HOH A 194 594 301 HOH HOH . 
E 5 HOH A 195 595 160 HOH HOH . 
E 5 HOH A 196 596 104 HOH HOH . 
E 5 HOH A 197 597 322 HOH HOH . 
E 5 HOH A 198 598 236 HOH HOH . 
E 5 HOH A 199 599 195 HOH HOH . 
E 5 HOH A 200 600 66 HOH HOH . 
E 5 HOH A 201 601 127 HOH HOH . 
E 5 HOH A 202 602 152 HOH HOH . 
E 5 HOH A 203 603 291 HOH HOH . 
E 5 HOH A 204 604 240 HOH HOH . 
E 5 HOH A 205 605 298 HOH HOH . 
E 5 HOH A 206 606 189 HOH HOH . 
E 5 HOH A 207 607 212 HOH HOH . 
E 5 HOH A 208 608 188 HOH HOH . 
E 5 HOH A 209 609 299 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 YCH . A . B 2 1.436 5.172 -19.67 0.3 44.03 ? C1 YCH 301 A 1 
HETATM 2 O O1 YCH . A . B 2 0.193 3.481 -20.616 0.3 41.24 ? O1 YCH 301 A 1 
HETATM 3 C C2 YCH . A . B 2 2.853 5.758 -20.121 0.3 44.16 ? C2 YCH 301 A 1 
HETATM 4 O O2 YCH . A . B 2 1.716 1.975 -19.681 0.3 36.65 ? O2 YCH 301 A 1 
HETATM 5 O O3 YCH . A . B 2 3.63 6.024 -18.986 0.3 48.12 ? O3 YCH 301 A 1 
HETATM 6 C C YCH . A . B 2 0.693 4.777 -20.831 0.3 43.59 ? C YCH 301 A 1 
HETATM 7 O O YCH . A . B 2 1.63 4.09 -18.856 0.3 38.37 ? O YCH 301 A 1 
HETATM 8 B B YCH . A . B 2 0.883 2.981 -19.365 0.3 40.17 ? B YCH 301 A 1 
HETATM 9 H H11 YCH . A . B 2 0.877 5.927 -19.13 0.3 52.9 ? H11 YCH 301 A 1 
HETATM 10 H H22 YCH . A . B 2 2.704 6.673 -20.68 0.3 53.05 ? H22 YCH 301 A 1 
HETATM 11 H H23 YCH . A . B 2 3.362 5.033 -20.745 0.3 53.05 ? H23 YCH 301 A 1 
HETATM 12 H H21 YCH . A . B 2 1.239 1.322 -20.161 0.3 44.04 ? H21 YCH 301 A 1 
HETATM 13 H H31 YCH . A . B 2 4.542 6.03 -19.223 0.3 57.8 ? H31 YCH 301 A 1 
HETATM 14 H HC3 YCH . A . B 2 -0.131 5.463 -20.985 0.3 52.37 ? HC3 YCH 301 A 1 
HETATM 15 H HC2 YCH . A . B 2 1.346 4.775 -21.695 0.3 52.37 ? HC2 YCH 301 A 1 
#
_model_server_stats.io_time_ms              15 
_model_server_stats.parse_time_ms           11 
_model_server_stats.create_model_time_ms    4 
_model_server_stats.query_time_ms           291 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           15 
#