data_5CF9 # _model_server_result.job_id DlFLNLViwtp45DeCbpzQhA _model_server_result.datetime_utc '2024-10-21 05:07:25' _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 5cf9 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":301}' # _entry.id 5CF9 # _exptl.entry_id 5CF9 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 221.208 _entity.id 2 _entity.src_method man _entity.type non-polymer _entity.pdbx_description 2-acetamido-2-deoxy-beta-D-glucopyranose _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 5CF9 _cell.length_a 130.51 _cell.length_b 130.51 _cell.length_c 37.98 _cell.Z_PDB 9 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5CF9 _symmetry.cell_setting ? _symmetry.Int_Tables_number 146 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'H 3' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _pdbx_struct_assembly.details 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 2 _struct_asym.id B _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _chem_comp.formula 'C8 H15 N O6' _chem_comp.formula_weight 221.208 _chem_comp.id NAG _chem_comp.mon_nstd_flag . _chem_comp.name 2-acetamido-2-deoxy-beta-D-glucopyranose _chem_comp.type 'd-saccharide, beta linking' _chem_comp.pdbx_synonyms N-acetyl-beta-D-glucosamine;2-acetamido-2-deoxy-beta-D-glucose;2-acetamido-2-deoxy-D-glucose;2-acetamido-2-deoxy-glucose;N-ACETYL-D-GLUCOSAMINE # 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 C1 C2 NAG sing 224 n n C1 O1 NAG sing 225 n n C1 O5 NAG sing 226 n n C1 H1 NAG sing 227 n n C2 C3 NAG sing 228 n n C2 N2 NAG sing 229 n n C2 H2 NAG sing 230 n n C3 C4 NAG sing 231 n n C3 O3 NAG sing 232 n n C3 H3 NAG sing 233 n n C4 C5 NAG sing 234 n n C4 O4 NAG sing 235 n n C4 H4 NAG sing 236 n n C5 C6 NAG sing 237 n n C5 O5 NAG sing 238 n n C5 H5 NAG sing 239 n n C6 O6 NAG sing 240 n n C6 H61 NAG sing 241 n n C6 H62 NAG sing 242 n n C7 C8 NAG sing 243 n n C7 N2 NAG sing 244 n n C7 O7 NAG doub 245 n n C8 H81 NAG sing 246 n n C8 H82 NAG sing 247 n n C8 H83 NAG sing 248 n n N2 HN2 NAG sing 249 n n O1 HO1 NAG sing 250 n n O3 HO3 NAG sing 251 n n O4 HO4 NAG sing 252 n n O6 HO6 NAG sing 253 n n # loop_ _pdbx_chem_comp_identifier.comp_id _pdbx_chem_comp_identifier.identifier _pdbx_chem_comp_identifier.type _pdbx_chem_comp_identifier.program _pdbx_chem_comp_identifier.program_version NAG DGlcpNAcb 'CONDENSED IUPAC CARBOHYDRATE SYMBOL' GMML 1 NAG N-acetyl-b-D-glucopyranosamine 'COMMON NAME' GMML 1 NAG b-D-GlcpNAc 'IUPAC CARBOHYDRATE SYMBOL' PDB-CARE 1 NAG GlcNAc 'SNFG CARBOHYDRATE SYMBOL' GMML 1 # _atom_sites.entry_id 5CF9 _atom_sites.fract_transf_matrix[1][1] 0.007662 _atom_sites.fract_transf_matrix[1][2] 0.004424 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.008848 _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] 0.02633 _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 NAG B 1 301 301 NAG NAG . C 3 NCA B 1 302 1 NCA NCA . D 4 HOH B 1 401 163 HOH HOH . D 4 HOH B 2 402 104 HOH HOH . D 4 HOH B 3 403 113 HOH HOH . D 4 HOH B 4 404 72 HOH HOH . D 4 HOH B 5 405 99 HOH HOH . D 4 HOH B 6 406 152 HOH HOH . D 4 HOH B 7 407 120 HOH HOH . D 4 HOH B 8 408 21 HOH HOH . D 4 HOH B 9 409 106 HOH HOH . D 4 HOH B 10 410 128 HOH HOH . D 4 HOH B 11 411 50 HOH HOH . D 4 HOH B 12 412 162 HOH HOH . D 4 HOH B 13 413 58 HOH HOH . D 4 HOH B 14 414 25 HOH HOH . D 4 HOH B 15 415 14 HOH HOH . D 4 HOH B 16 416 127 HOH HOH . D 4 HOH B 17 417 49 HOH HOH . D 4 HOH B 18 418 178 HOH HOH . D 4 HOH B 19 419 94 HOH HOH . D 4 HOH B 20 420 70 HOH HOH . D 4 HOH B 21 421 60 HOH HOH . D 4 HOH B 22 422 2 HOH HOH . D 4 HOH B 23 423 196 HOH HOH . D 4 HOH B 24 424 143 HOH HOH . D 4 HOH B 25 425 122 HOH HOH . D 4 HOH B 26 426 5 HOH HOH . D 4 HOH B 27 427 17 HOH HOH . D 4 HOH B 28 428 68 HOH HOH . D 4 HOH B 29 429 173 HOH HOH . D 4 HOH B 30 430 170 HOH HOH . D 4 HOH B 31 431 11 HOH HOH . D 4 HOH B 32 432 9 HOH HOH . D 4 HOH B 33 433 160 HOH HOH . D 4 HOH B 34 434 93 HOH HOH . D 4 HOH B 35 435 54 HOH HOH . D 4 HOH B 36 436 23 HOH HOH . D 4 HOH B 37 437 7 HOH HOH . D 4 HOH B 38 438 20 HOH HOH . D 4 HOH B 39 439 18 HOH HOH . D 4 HOH B 40 440 165 HOH HOH . D 4 HOH B 41 441 1 HOH HOH . D 4 HOH B 42 442 79 HOH HOH . D 4 HOH B 43 443 130 HOH HOH . D 4 HOH B 44 444 37 HOH HOH . D 4 HOH B 45 445 63 HOH HOH . D 4 HOH B 46 446 96 HOH HOH . D 4 HOH B 47 447 3 HOH HOH . D 4 HOH B 48 448 80 HOH HOH . D 4 HOH B 49 449 135 HOH HOH . D 4 HOH B 50 450 64 HOH HOH . D 4 HOH B 51 451 15 HOH HOH . D 4 HOH B 52 452 137 HOH HOH . D 4 HOH B 53 453 40 HOH HOH . D 4 HOH B 54 454 76 HOH HOH . D 4 HOH B 55 455 65 HOH HOH . D 4 HOH B 56 456 12 HOH HOH . D 4 HOH B 57 457 191 HOH HOH . D 4 HOH B 58 458 159 HOH HOH . D 4 HOH B 59 459 195 HOH HOH . D 4 HOH B 60 460 38 HOH HOH . D 4 HOH B 61 461 150 HOH HOH . D 4 HOH B 62 462 13 HOH HOH . D 4 HOH B 63 463 180 HOH HOH . D 4 HOH B 64 464 111 HOH HOH . D 4 HOH B 65 465 189 HOH HOH . D 4 HOH B 66 466 83 HOH HOH . D 4 HOH B 67 467 109 HOH HOH . D 4 HOH B 68 468 161 HOH HOH . D 4 HOH B 69 469 28 HOH HOH . D 4 HOH B 70 470 41 HOH HOH . D 4 HOH B 71 471 112 HOH HOH . D 4 HOH B 72 472 52 HOH HOH . D 4 HOH B 73 473 36 HOH HOH . D 4 HOH B 74 474 84 HOH HOH . D 4 HOH B 75 475 77 HOH HOH . D 4 HOH B 76 476 138 HOH HOH . D 4 HOH B 77 477 29 HOH HOH . D 4 HOH B 78 478 149 HOH HOH . D 4 HOH B 79 479 33 HOH HOH . D 4 HOH B 80 480 47 HOH HOH . D 4 HOH B 81 481 157 HOH HOH . D 4 HOH B 82 482 73 HOH HOH . D 4 HOH B 83 483 176 HOH HOH . D 4 HOH B 84 484 51 HOH HOH . D 4 HOH B 85 485 90 HOH HOH . D 4 HOH B 86 486 166 HOH HOH . D 4 HOH B 87 487 193 HOH HOH . D 4 HOH B 88 488 46 HOH HOH . D 4 HOH B 89 489 87 HOH HOH . D 4 HOH B 90 490 102 HOH HOH . D 4 HOH B 91 491 133 HOH HOH . D 4 HOH B 92 492 107 HOH HOH . D 4 HOH B 93 493 154 HOH HOH . D 4 HOH B 94 494 44 HOH HOH . D 4 HOH B 95 495 172 HOH HOH . D 4 HOH B 96 496 145 HOH HOH . D 4 HOH B 97 497 185 HOH HOH . D 4 HOH B 98 498 174 HOH HOH . D 4 HOH B 99 499 91 HOH HOH . D 4 HOH B 100 500 59 HOH HOH . D 4 HOH B 101 501 39 HOH HOH . D 4 HOH B 102 502 45 HOH HOH . D 4 HOH B 103 503 66 HOH HOH . D 4 HOH B 104 504 182 HOH HOH . D 4 HOH B 105 505 95 HOH HOH . D 4 HOH B 106 506 10 HOH HOH . D 4 HOH B 107 507 78 HOH HOH . D 4 HOH B 108 508 34 HOH HOH . D 4 HOH B 109 509 108 HOH HOH . D 4 HOH B 110 510 179 HOH HOH . D 4 HOH B 111 511 4 HOH HOH . D 4 HOH B 112 512 61 HOH HOH . D 4 HOH B 113 513 32 HOH HOH . D 4 HOH B 114 514 35 HOH HOH . D 4 HOH B 115 515 110 HOH HOH . D 4 HOH B 116 516 82 HOH HOH . D 4 HOH B 117 517 147 HOH HOH . D 4 HOH B 118 518 55 HOH HOH . D 4 HOH B 119 519 153 HOH HOH . D 4 HOH B 120 520 53 HOH HOH . D 4 HOH B 121 521 6 HOH HOH . D 4 HOH B 122 522 56 HOH HOH . D 4 HOH B 123 523 62 HOH HOH . D 4 HOH B 124 524 155 HOH HOH . D 4 HOH B 125 525 124 HOH HOH . D 4 HOH B 126 526 98 HOH HOH . D 4 HOH B 127 527 67 HOH HOH . D 4 HOH B 128 528 85 HOH HOH . D 4 HOH B 129 529 132 HOH HOH . D 4 HOH B 130 530 119 HOH HOH . D 4 HOH B 131 531 156 HOH HOH . D 4 HOH B 132 532 89 HOH HOH . D 4 HOH B 133 533 22 HOH HOH . D 4 HOH B 134 534 19 HOH HOH . D 4 HOH B 135 535 31 HOH HOH . D 4 HOH B 136 536 75 HOH HOH . D 4 HOH B 137 537 188 HOH HOH . D 4 HOH B 138 538 71 HOH HOH . D 4 HOH B 139 539 136 HOH HOH . D 4 HOH B 140 540 141 HOH HOH . D 4 HOH B 141 541 8 HOH HOH . D 4 HOH B 142 542 123 HOH HOH . D 4 HOH B 143 543 30 HOH HOH . D 4 HOH B 144 544 184 HOH HOH . D 4 HOH B 145 545 203 HOH HOH . D 4 HOH B 146 546 103 HOH HOH . D 4 HOH B 147 547 199 HOH HOH . D 4 HOH B 148 548 202 HOH HOH . D 4 HOH B 149 549 192 HOH HOH . D 4 HOH B 150 550 42 HOH HOH . D 4 HOH B 151 551 194 HOH HOH . D 4 HOH B 152 552 151 HOH HOH . D 4 HOH B 153 553 200 HOH HOH . D 4 HOH B 154 554 171 HOH HOH . D 4 HOH B 155 555 16 HOH HOH . D 4 HOH B 156 556 24 HOH HOH . D 4 HOH B 157 557 81 HOH HOH . D 4 HOH B 158 558 140 HOH HOH . D 4 HOH B 159 559 115 HOH HOH . D 4 HOH B 160 560 144 HOH HOH . D 4 HOH B 161 561 134 HOH HOH . D 4 HOH B 162 562 187 HOH HOH . D 4 HOH B 163 563 43 HOH HOH . D 4 HOH B 164 564 97 HOH HOH . D 4 HOH B 165 565 92 HOH HOH . D 4 HOH B 166 566 57 HOH HOH . D 4 HOH B 167 567 201 HOH HOH . D 4 HOH B 168 568 190 HOH HOH . D 4 HOH B 169 569 88 HOH HOH . D 4 HOH B 170 570 118 HOH HOH . D 4 HOH B 171 571 177 HOH HOH . D 4 HOH B 172 572 158 HOH HOH . D 4 HOH B 173 573 126 HOH HOH . D 4 HOH B 174 574 164 HOH HOH . D 4 HOH B 175 575 168 HOH HOH . D 4 HOH B 176 576 48 HOH HOH . D 4 HOH B 177 577 116 HOH HOH . D 4 HOH B 178 578 86 HOH HOH . D 4 HOH B 179 579 121 HOH HOH . D 4 HOH B 180 580 131 HOH HOH . D 4 HOH B 181 581 101 HOH HOH . D 4 HOH B 182 582 117 HOH HOH . D 4 HOH B 183 583 183 HOH HOH . D 4 HOH B 184 584 142 HOH HOH . D 4 HOH B 185 585 198 HOH HOH . D 4 HOH B 186 586 26 HOH HOH . D 4 HOH B 187 587 27 HOH HOH . D 4 HOH B 188 588 125 HOH HOH . D 4 HOH B 189 589 69 HOH HOH . D 4 HOH B 190 590 169 HOH HOH . D 4 HOH B 191 591 129 HOH HOH . D 4 HOH B 192 592 100 HOH HOH . D 4 HOH B 193 593 105 HOH HOH . D 4 HOH B 194 594 139 HOH HOH . D 4 HOH B 195 595 197 HOH HOH . D 4 HOH B 196 596 175 HOH HOH . D 4 HOH B 197 597 74 HOH HOH . D 4 HOH B 198 598 167 HOH HOH . D 4 HOH B 199 599 146 HOH HOH . D 4 HOH B 200 600 186 HOH HOH . D 4 HOH B 201 601 114 HOH HOH . D 4 HOH B 202 602 148 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 NAG . . . B 2 -41.679 12.637 -0.364 1 49.12 ? C1 NAG 301 B 1 HETATM 2 C C2 NAG . . . B 2 -41.961 12.189 -1.795 1 55.01 ? C2 NAG 301 B 1 HETATM 3 C C3 NAG . . . B 2 -42.734 10.871 -1.8 1 55.76 ? C3 NAG 301 B 1 HETATM 4 C C4 NAG . . . B 2 -42.028 9.837 -0.933 1 57.68 ? C4 NAG 301 B 1 HETATM 5 C C5 NAG . . . B 2 -41.769 10.422 0.452 1 56.39 ? C5 NAG 301 B 1 HETATM 6 C C6 NAG . . . B 2 -40.996 9.502 1.372 1 57.08 ? C6 NAG 301 B 1 HETATM 7 C C7 NAG . . . B 2 -42.112 14.2 -3.2 1 60.78 ? C7 NAG 301 B 1 HETATM 8 C C8 NAG . . . B 2 -43.03 15.18 -3.867 1 61.55 ? C8 NAG 301 B 1 HETATM 9 N N2 NAG . . . B 2 -42.703 13.219 -2.511 1 57.32 ? N2 NAG 301 B 1 HETATM 10 O O3 NAG . . . B 2 -42.857 10.391 -3.134 1 55.68 ? O3 NAG 301 B 1 HETATM 11 O O4 NAG . . . B 2 -42.839 8.672 -0.82 1 59.8 ? O4 NAG 301 B 1 HETATM 12 O O5 NAG . . . B 2 -41 11.624 0.319 1 54.35 ? O5 NAG 301 B 1 HETATM 13 O O6 NAG . . . B 2 -39.642 9.356 0.965 1 56.73 ? O6 NAG 301 B 1 HETATM 14 O O7 NAG . . . B 2 -40.891 14.291 -3.287 1 61.65 ? O7 NAG 301 B 1 HETATM 15 H H1 NAG . . . B 2 -42.525 12.82 0.089 1 58.95 ? H1 NAG 301 B 1 HETATM 16 H H2 NAG . . . B 2 -41.108 12.044 -2.248 1 66.01 ? H2 NAG 301 B 1 HETATM 17 H H3 NAG . . . B 2 -43.627 11.029 -1.439 1 66.91 ? H3 NAG 301 B 1 HETATM 18 H H4 NAG . . . B 2 -41.177 9.598 -1.346 1 69.22 ? H4 NAG 301 B 1 HETATM 19 H H5 NAG . . . B 2 -42.625 10.638 0.868 1 67.67 ? H5 NAG 301 B 1 HETATM 20 H H61 NAG . . . B 2 -41.018 9.867 2.277 1 68.5 ? H61 NAG 301 B 1 HETATM 21 H H62 NAG . . . B 2 -41.423 8.624 1.374 1 68.5 ? H62 NAG 301 B 1 HETATM 22 H H81 NAG . . . B 2 -43.612 15.589 -3.198 1 73.86 ? H81 NAG 301 B 1 HETATM 23 H H82 NAG . . . B 2 -43.575 14.716 -4.531 1 73.86 ? H82 NAG 301 B 1 HETATM 24 H H83 NAG . . . B 2 -42.502 15.874 -4.306 1 73.86 ? H83 NAG 301 B 1 HETATM 25 H HN2 NAG . . . B 2 -43.614 13.2 -2.477 1 68.79 ? HN2 NAG 301 B 1 HETATM 26 H HO3 NAG . . . B 2 -43.137 9.548 -3.12 1 66.82 ? HO3 NAG 301 B 1 HETATM 27 H HO4 NAG . . . B 2 -42.327 7.971 -0.633 1 71.76 ? HO4 NAG 301 B 1 HETATM 28 H HO6 NAG . . . B 2 -39.253 10.153 0.938 1 68.07 ? HO6 NAG 301 B 1 # _model_server_stats.io_time_ms 12 _model_server_stats.parse_time_ms 15 _model_server_stats.create_model_time_ms 6 _model_server_stats.query_time_ms 289 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 28 #