data_6PYB # _model_server_result.job_id NlCyFODOvkAQwEZzyMZLlQ _model_server_result.datetime_utc '2024-12-19 19:25:57' _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 6pyb # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":301}' # _entry.id 6PYB # _exptl.entry_id 6PYB _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 344.402 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "4,4'-[(3R,4R)-oxolane-3,4-diylbis(methylene)]bis(2-methoxyphenol)" _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 6PYB _cell.length_a 51.953 _cell.length_b 51.953 _cell.length_c 148.354 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6PYB _symmetry.cell_setting ? _symmetry.Int_Tables_number 95 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 43 2 2' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _pdbx_struct_assembly.details author_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 1,2 # 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' 8_664 -y+1,-x+1,-z-1/4 0 -1 0 -1 0 0 0 0 -1 51.953 51.953 -37.0885 # _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 disulf ? disulf1 A SG CYS 164 A CYS 164 1_555 A SG CYS 188 A CYS 188 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? metalc ? metalc1 A OD1 ASP 50 A ASP 50 1_555 C CA CA . A CA 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.642 ? metalc ? metalc2 A OD2 ASP 50 A ASP 50 1_555 C CA CA . A CA 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.244 ? metalc ? metalc3 A O GLU 52 A GLU 52 1_555 C CA CA . A CA 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.282 ? metalc ? metalc4 A O ALA 160 A ALA 160 1_555 C CA CA . A CA 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.287 ? metalc ? metalc5 C CA CA . A CA 302 1_555 D O HOH . A HOH 437 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.311 ? metalc ? metalc6 C CA CA . A CA 302 1_555 D O HOH . A HOH 458 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.382 ? metalc ? metalc7 C CA CA . A CA 302 1_555 D O HOH . A HOH 478 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.485 ? # _chem_comp.formula 'C20 H24 O5' _chem_comp.formula_weight 344.402 _chem_comp.id P5G _chem_comp.mon_nstd_flag . _chem_comp.name "4,4'-[(3R,4R)-oxolane-3,4-diylbis(methylene)]bis(2-methoxyphenol)" _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 C16 O4 P5G sing 237 n n O4 C15 P5G sing 238 n n C15 C17 P5G doub 239 n y C15 C14 P5G sing 240 n y O3 C14 P5G sing 241 n n C17 C11 P5G sing 242 n y C14 C13 P5G doub 243 n y C11 C10 P5G sing 244 n n C11 C12 P5G doub 245 n y C13 C12 P5G sing 246 n y C10 C9 P5G sing 247 n n C7 O2 P5G sing 248 n n C7 C6 P5G sing 249 n n O2 C8 P5G sing 250 n n C9 C6 P5G sing 251 n n C9 C8 P5G sing 252 n n C6 C5 P5G sing 253 n n C1 O1 P5G sing 254 n n C5 C4 P5G sing 255 n n C3 C4 P5G doub 256 n y C3 C2 P5G sing 257 n y O1 C2 P5G sing 258 n n C4 C18 P5G sing 259 n y C2 C20 P5G doub 260 n y C18 C19 P5G doub 261 n y C20 O5 P5G sing 262 n n C20 C19 P5G sing 263 n y C5 H52 P5G sing 264 n n C5 H51 P5G sing 265 n n C6 H6 P5G sing 266 n n C7 H72 P5G sing 267 n n C7 H71 P5G sing 268 n n C8 H81 P5G sing 269 n n C8 H82 P5G sing 270 n n C10 H9L P5G sing 271 n n C10 H10 P5G sing 272 n n C13 H9N P5G sing 273 n n C17 H17 P5G sing 274 n n C1 H12 P5G sing 275 n n C1 H13 P5G sing 276 n n C1 H11 P5G sing 277 n n C12 H9M P5G sing 278 n n C16 H16 P5G sing 279 n n C16 H9O P5G sing 280 n n C16 H9P P5G sing 281 n n C18 H18 P5G sing 282 n n C19 H19 P5G sing 283 n n C3 H31 P5G sing 284 n n C9 H9 P5G sing 285 n n O3 H32 P5G sing 286 n n O5 H53 P5G sing 287 n n # _atom_sites.entry_id 6PYB _atom_sites.fract_transf_matrix[1][1] 0.019248 _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] 0.019248 _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] 0.006741 _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 P5G A 1 301 201 P5G LIG . C 3 CA A 1 302 1 CA CA . D 4 HOH A 1 401 172 HOH HOH . D 4 HOH A 2 402 114 HOH HOH . D 4 HOH A 3 403 99 HOH HOH . D 4 HOH A 4 404 26 HOH HOH . D 4 HOH A 5 405 27 HOH HOH . D 4 HOH A 6 406 43 HOH HOH . D 4 HOH A 7 407 38 HOH HOH . D 4 HOH A 8 408 71 HOH HOH . D 4 HOH A 9 409 79 HOH HOH . D 4 HOH A 10 410 80 HOH HOH . D 4 HOH A 11 411 131 HOH HOH . D 4 HOH A 12 412 36 HOH HOH . D 4 HOH A 13 413 24 HOH HOH . D 4 HOH A 14 414 96 HOH HOH . D 4 HOH A 15 415 92 HOH HOH . D 4 HOH A 16 416 30 HOH HOH . D 4 HOH A 17 417 50 HOH HOH . D 4 HOH A 18 418 125 HOH HOH . D 4 HOH A 19 419 46 HOH HOH . D 4 HOH A 20 420 20 HOH HOH . D 4 HOH A 21 421 8 HOH HOH . D 4 HOH A 22 422 57 HOH HOH . D 4 HOH A 23 423 16 HOH HOH . D 4 HOH A 24 424 121 HOH HOH . D 4 HOH A 25 425 44 HOH HOH . D 4 HOH A 26 426 137 HOH HOH . D 4 HOH A 27 427 106 HOH HOH . D 4 HOH A 28 428 77 HOH HOH . D 4 HOH A 29 429 154 HOH HOH . D 4 HOH A 30 430 48 HOH HOH . D 4 HOH A 31 431 13 HOH HOH . D 4 HOH A 32 432 17 HOH HOH . D 4 HOH A 33 433 39 HOH HOH . D 4 HOH A 34 434 59 HOH HOH . D 4 HOH A 35 435 35 HOH HOH . D 4 HOH A 36 436 56 HOH HOH . D 4 HOH A 37 437 2 HOH HOH . D 4 HOH A 38 438 52 HOH HOH . D 4 HOH A 39 439 69 HOH HOH . D 4 HOH A 40 440 110 HOH HOH . D 4 HOH A 41 441 134 HOH HOH . D 4 HOH A 42 442 10 HOH HOH . D 4 HOH A 43 443 33 HOH HOH . D 4 HOH A 44 444 23 HOH HOH . D 4 HOH A 45 445 65 HOH HOH . D 4 HOH A 46 446 14 HOH HOH . D 4 HOH A 47 447 22 HOH HOH . D 4 HOH A 48 448 34 HOH HOH . D 4 HOH A 49 449 169 HOH HOH . D 4 HOH A 50 450 60 HOH HOH . D 4 HOH A 51 451 29 HOH HOH . D 4 HOH A 52 452 173 HOH HOH . D 4 HOH A 53 453 161 HOH HOH . D 4 HOH A 54 454 138 HOH HOH . D 4 HOH A 55 455 175 HOH HOH . D 4 HOH A 56 456 107 HOH HOH . D 4 HOH A 57 457 86 HOH HOH . D 4 HOH A 58 458 3 HOH HOH . D 4 HOH A 59 459 28 HOH HOH . D 4 HOH A 60 460 111 HOH HOH . D 4 HOH A 61 461 9 HOH HOH . D 4 HOH A 62 462 15 HOH HOH . D 4 HOH A 63 463 174 HOH HOH . D 4 HOH A 64 464 104 HOH HOH . D 4 HOH A 65 465 67 HOH HOH . D 4 HOH A 66 466 75 HOH HOH . D 4 HOH A 67 467 98 HOH HOH . D 4 HOH A 68 468 100 HOH HOH . D 4 HOH A 69 469 158 HOH HOH . D 4 HOH A 70 470 21 HOH HOH . D 4 HOH A 71 471 53 HOH HOH . D 4 HOH A 72 472 176 HOH HOH . D 4 HOH A 73 473 70 HOH HOH . D 4 HOH A 74 474 62 HOH HOH . D 4 HOH A 75 475 42 HOH HOH . D 4 HOH A 76 476 87 HOH HOH . D 4 HOH A 77 477 112 HOH HOH . D 4 HOH A 78 478 160 HOH HOH . D 4 HOH A 79 479 109 HOH HOH . D 4 HOH A 80 480 89 HOH HOH . D 4 HOH A 81 481 72 HOH HOH . D 4 HOH A 82 482 51 HOH HOH . D 4 HOH A 83 483 118 HOH HOH . D 4 HOH A 84 484 166 HOH HOH . D 4 HOH A 85 485 63 HOH HOH . D 4 HOH A 86 486 66 HOH HOH . D 4 HOH A 87 487 47 HOH HOH . D 4 HOH A 88 488 94 HOH HOH . D 4 HOH A 89 489 45 HOH HOH . D 4 HOH A 90 490 147 HOH HOH . D 4 HOH A 91 491 31 HOH HOH . D 4 HOH A 92 492 122 HOH HOH . D 4 HOH A 93 493 78 HOH HOH . D 4 HOH A 94 494 143 HOH HOH . D 4 HOH A 95 495 168 HOH HOH . D 4 HOH A 96 496 151 HOH HOH . D 4 HOH A 97 497 120 HOH HOH . D 4 HOH A 98 498 171 HOH HOH . D 4 HOH A 99 499 84 HOH HOH . D 4 HOH A 100 500 167 HOH HOH . D 4 HOH A 101 501 101 HOH HOH . D 4 HOH A 102 502 95 HOH HOH . D 4 HOH A 103 503 170 HOH HOH . D 4 HOH A 104 504 130 HOH HOH . D 4 HOH A 105 505 155 HOH HOH . D 4 HOH A 106 506 68 HOH HOH . D 4 HOH A 107 507 108 HOH HOH . D 4 HOH A 108 508 1 HOH HOH . D 4 HOH A 109 509 83 HOH HOH . D 4 HOH A 110 510 123 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 C4 P5G . . . B 2 14.748 31.541 -2.255 0.97 33.4 ? C4 P5G 301 A 1 HETATM 2 C C5 P5G . . . B 2 15.256 30.432 -2.952 0.97 38.56 ? C5 P5G 301 A 1 HETATM 3 C C6 P5G . . . B 2 14.679 30.321 -4.38 0.97 55.01 ? C6 P5G 301 A 1 HETATM 4 C C7 P5G . . . B 2 15.306 29.114 -5.09 0.97 65.18 ? C7 P5G 301 A 1 HETATM 5 C C8 P5G . . . B 2 13.347 28.442 -3.948 0.97 44.87 ? C8 P5G 301 A 1 HETATM 6 C C10 P5G . . . B 2 12.592 29.933 -5.843 0.97 36.05 ? C10 P5G 301 A 1 HETATM 7 C C13 P5G . . . B 2 10.315 32.838 -5.916 0.97 39.77 ? C13 P5G 301 A 1 HETATM 8 C C15 P5G . . . B 2 12.414 33.462 -6.927 0.97 44.07 ? C15 P5G 301 A 1 HETATM 9 C C17 P5G . . . B 2 12.915 32.18 -6.704 0.97 45.74 ? C17 P5G 301 A 1 HETATM 10 C C20 P5G . . . B 2 13.745 33.691 -0.801 0.97 39.06 ? C20 P5G 301 A 1 HETATM 11 C C1 P5G . . . B 2 13.499 34.981 -4.142 0.97 47.65 ? C1 P5G 301 A 1 HETATM 12 C C11 P5G . . . B 2 12.108 31.226 -6.083 0.97 38.58 ? C11 P5G 301 A 1 HETATM 13 C C12 P5G . . . B 2 10.813 31.56 -5.695 0.97 35.88 ? C12 P5G 301 A 1 HETATM 14 C C14 P5G . . . B 2 11.125 33.783 -6.528 0.97 54.57 ? C14 P5G 301 A 1 HETATM 15 C C16 P5G . . . B 2 14.485 34.17 -7.77 0.97 58.96 ? C16 P5G 301 A 1 HETATM 16 C C18 P5G . . . B 2 14.591 31.446 -0.876 0.97 40.12 ? C18 P5G 301 A 1 HETATM 17 C C19 P5G . . . B 2 14.088 32.517 -0.146 0.97 33.49 ? C19 P5G 301 A 1 HETATM 18 C C2 P5G . . . B 2 13.899 33.8 -2.171 0.97 50.26 ? C2 P5G 301 A 1 HETATM 19 C C3 P5G . . . B 2 14.402 32.729 -2.9 0.97 32.59 ? C3 P5G 301 A 1 HETATM 20 C C9 P5G . . . B 2 13.212 29.895 -4.428 0.97 48.79 ? C9 P5G 301 A 1 HETATM 21 O O1 P5G . . . B 2 13.532 34.996 -2.715 0.97 51.91 ? O1 P5G 301 A 1 HETATM 22 O O2 P5G . . . B 2 14.633 27.964 -4.483 0.97 49.77 ? O2 P5G 301 A 1 HETATM 23 O O3 P5G . . . B 2 10.707 35.055 -6.777 0.97 62.13 ? O3 P5G 301 A 1 HETATM 24 O O4 P5G . . . B 2 13.112 34.478 -7.515 0.97 48.83 ? O4 P5G 301 A 1 HETATM 25 O O5 P5G . . . B 2 13.249 34.779 -0.154 0.97 57.33 ? O5 P5G 301 A 1 HETATM 26 H H52 P5G . . . B 2 16.34 30.528 -3.019 0.97 46.3 ? H52 P5G 301 A 1 HETATM 27 H H51 P5G . . . B 2 15.004 29.526 -2.401 0.97 46.3 ? H51 P5G 301 A 1 HETATM 28 H H6 P5G . . . B 2 14.827 31.287 -4.863 0.97 66.04 ? H6 P5G 301 A 1 HETATM 29 H H72 P5G . . . B 2 15.118 29.153 -6.162 0.97 78.25 ? H72 P5G 301 A 1 HETATM 30 H H71 P5G . . . B 2 16.381 29.073 -4.91 0.97 78.25 ? H71 P5G 301 A 1 HETATM 31 H H81 P5G . . . B 2 13.35 28.401 -2.858 0.97 53.87 ? H81 P5G 301 A 1 HETATM 32 H H82 P5G . . . B 2 12.526 27.837 -4.333 0.97 53.87 ? H82 P5G 301 A 1 HETATM 33 H H9L P5G . . . B 2 13.351 29.682 -6.583 0.97 43.29 ? H9L P5G 301 A 1 HETATM 34 H H10 P5G . . . B 2 11.773 29.217 -5.905 0.97 43.29 ? H10 P5G 301 A 1 HETATM 35 H H9N P5G . . . B 2 9.3 33.095 -5.611 0.97 47.76 ? H9N P5G 301 A 1 HETATM 36 H H17 P5G . . . B 2 13.929 31.924 -7.012 0.97 54.92 ? H17 P5G 301 A 1 HETATM 37 H H12 P5G . . . B 2 13.098 35.927 -4.507 0.97 57.21 ? H12 P5G 301 A 1 HETATM 38 H H13 P5G . . . B 2 12.864 34.163 -4.483 0.97 57.21 ? H13 P5G 301 A 1 HETATM 39 H H11 P5G . . . B 2 14.508 34.841 -4.528 0.97 57.21 ? H11 P5G 301 A 1 HETATM 40 H H9M P5G . . . B 2 10.184 30.811 -5.214 0.97 43.09 ? H9M P5G 301 A 1 HETATM 41 H H16 P5G . . . B 2 14.985 35.047 -8.18 0.97 70.78 ? H16 P5G 301 A 1 HETATM 42 H H9O P5G . . . B 2 14.548 33.35 -8.486 0.97 70.78 ? H9O P5G 301 A 1 HETATM 43 H H9P P5G . . . B 2 14.972 33.877 -6.84 0.97 70.78 ? H9P P5G 301 A 1 HETATM 44 H H18 P5G . . . B 2 14.864 30.523 -0.363 0.97 48.18 ? H18 P5G 301 A 1 HETATM 45 H H19 P5G . . . B 2 13.965 32.436 0.934 0.97 40.22 ? H19 P5G 301 A 1 HETATM 46 H H31 P5G . . . B 2 14.527 32.817 -3.979 0.97 39.14 ? H31 P5G 301 A 1 HETATM 47 H H9 P5G . . . B 2 12.595 30.533 -3.795 0.97 58.58 ? H9 P5G 301 A 1 HETATM 48 H H32 P5G . . . B 2 11.491 35.618 -7.038 0.97 74.59 ? H32 P5G 301 A 1 HETATM 49 H H53 P5G . . . B 2 13.225 34.6 0.83 0.97 68.83 ? H53 P5G 301 A 1 # _model_server_stats.io_time_ms 16 _model_server_stats.parse_time_ms 30 _model_server_stats.create_model_time_ms 9 _model_server_stats.query_time_ms 748 _model_server_stats.encode_time_ms 8 _model_server_stats.element_count 49 #