data_8VQQ # _model_server_result.job_id qAQRCT9kueJJHD9gSHzfjg _model_server_result.datetime_utc '2024-10-17 19:22:41' _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 8vqq # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":301}' # _entry.id 8VQQ # _exptl.entry_id 8VQQ _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 221.208 _entity.id 5 _entity.src_method syn _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 90 _cell.entry_id 8VQQ _cell.length_a 159.758 _cell.length_b 159.758 _cell.length_c 159.758 _cell.Z_PDB 24 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8VQQ _symmetry.cell_setting ? _symmetry.Int_Tables_number 199 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'I 21 3' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details hexameric _pdbx_struct_assembly.oligomeric_count 6 _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 _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2,3 # 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' 5_555 z,x,y 0 0 1 1 0 0 0 1 0 0 0 0 3 'crystal symmetry operation' 9_555 y,z,x 0 1 0 0 0 1 1 0 0 0 0 0 # _struct_asym.details ? _struct_asym.entity_id 5 _struct_asym.id E _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _pdbx_entity_branch.entity_id 3 _pdbx_entity_branch.type oligosaccharide # loop_ _pdbx_entity_branch_link.link_id _pdbx_entity_branch_link.details _pdbx_entity_branch_link.entity_id _pdbx_entity_branch_link.entity_branch_list_num_1 _pdbx_entity_branch_link.entity_branch_list_num_2 _pdbx_entity_branch_link.comp_id_1 _pdbx_entity_branch_link.comp_id_2 _pdbx_entity_branch_link.atom_id_1 _pdbx_entity_branch_link.leaving_atom_id_1 _pdbx_entity_branch_link.atom_stereo_config_1 _pdbx_entity_branch_link.atom_id_2 _pdbx_entity_branch_link.leaving_atom_id_2 _pdbx_entity_branch_link.atom_stereo_config_2 _pdbx_entity_branch_link.value_order 1 ? 3 2 1 NAG NAG C1 O1 . O4 HO4 . sing 2 ? 3 3 2 BMA NAG C1 O1 . O4 HO4 . sing # loop_ _pdbx_branch_scheme.entity_id _pdbx_branch_scheme.hetero _pdbx_branch_scheme.asym_id _pdbx_branch_scheme.mon_id _pdbx_branch_scheme.num _pdbx_branch_scheme.pdb_asym_id _pdbx_branch_scheme.pdb_seq_num _pdbx_branch_scheme.pdb_mon_id _pdbx_branch_scheme.auth_asym_id _pdbx_branch_scheme.auth_seq_num _pdbx_branch_scheme.auth_mon_id 3 n C NAG 1 C 1 NAG C 1 NAG 3 n C NAG 2 C 2 NAG C 2 NAG 3 n C BMA 3 C 3 BMA C 3 BMA # 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 4 A CYS 14 1_555 B SG CYS 137 B CYS 137 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.041 ? disulf ? disulf2 A SG CYS 42 A CYS 52 1_555 A SG CYS 274 A CYS 277 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.048 ? disulf ? disulf3 A SG CYS 55 A CYS 64 1_555 A SG CYS 67 A CYS 76 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf4 A SG CYS 90 A CYS 97 1_555 A SG CYS 135 A CYS 139 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? disulf ? disulf5 A SG CYS 278 A CYS 281 1_555 A SG CYS 302 A CYS 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf6 B SG CYS 144 B CYS 144 1_555 B SG CYS 148 B CYS 148 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.045 ? covale ? covale1 A ND2 ASN 23 A ASN 33 1_555 C C1 NAG . C NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.466 ? covale ? covale2 B ND2 ASN 154 B ASN 154 1_555 E C1 NAG . B NAG 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? covale ? covale3 C O4 NAG . C NAG 1 1_555 C C1 NAG . C NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? covale ? covale4 C O4 NAG . C NAG 2 1_555 C C1 BMA . C BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? # _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 325 n n C1 O1 NAG sing 326 n n C1 O5 NAG sing 327 n n C1 H1 NAG sing 328 n n C2 C3 NAG sing 329 n n C2 N2 NAG sing 330 n n C2 H2 NAG sing 331 n n C3 C4 NAG sing 332 n n C3 O3 NAG sing 333 n n C3 H3 NAG sing 334 n n C4 C5 NAG sing 335 n n C4 O4 NAG sing 336 n n C4 H4 NAG sing 337 n n C5 C6 NAG sing 338 n n C5 O5 NAG sing 339 n n C5 H5 NAG sing 340 n n C6 O6 NAG sing 341 n n C6 H61 NAG sing 342 n n C6 H62 NAG sing 343 n n C7 C8 NAG sing 344 n n C7 N2 NAG sing 345 n n C7 O7 NAG doub 346 n n C8 H81 NAG sing 347 n n C8 H82 NAG sing 348 n n C8 H83 NAG sing 349 n n N2 HN2 NAG sing 350 n n O1 HO1 NAG sing 351 n n O3 HO3 NAG sing 352 n n O4 HO4 NAG sing 353 n n O6 HO6 NAG sing 354 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 8VQQ _atom_sites.fract_transf_matrix[1][1] 0.006259 _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] 0.006259 _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] 0.006259 _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 D 4 A1ADC A 1 401 201 A1ADC E73 . E 5 NAG B 1 301 202 NAG NAG . F 6 HOH A 1 501 88 HOH HOH . F 6 HOH A 2 502 128 HOH HOH . F 6 HOH A 3 503 6 HOH HOH . F 6 HOH A 4 504 46 HOH HOH . F 6 HOH A 5 505 37 HOH HOH . F 6 HOH A 6 506 44 HOH HOH . F 6 HOH A 7 507 39 HOH HOH . F 6 HOH A 8 508 50 HOH HOH . F 6 HOH A 9 509 103 HOH HOH . F 6 HOH A 10 510 69 HOH HOH . F 6 HOH A 11 511 15 HOH HOH . F 6 HOH A 12 512 136 HOH HOH . F 6 HOH A 13 513 56 HOH HOH . F 6 HOH A 14 514 48 HOH HOH . F 6 HOH A 15 515 52 HOH HOH . F 6 HOH A 16 516 100 HOH HOH . F 6 HOH A 17 517 33 HOH HOH . F 6 HOH A 18 518 84 HOH HOH . F 6 HOH A 19 519 114 HOH HOH . F 6 HOH A 20 520 34 HOH HOH . F 6 HOH A 21 521 43 HOH HOH . F 6 HOH A 22 522 47 HOH HOH . F 6 HOH A 23 523 49 HOH HOH . F 6 HOH A 24 524 3 HOH HOH . F 6 HOH A 25 525 8 HOH HOH . F 6 HOH A 26 526 108 HOH HOH . F 6 HOH A 27 527 120 HOH HOH . F 6 HOH A 28 528 72 HOH HOH . F 6 HOH A 29 529 73 HOH HOH . F 6 HOH A 30 530 105 HOH HOH . F 6 HOH A 31 531 81 HOH HOH . F 6 HOH A 32 532 89 HOH HOH . F 6 HOH A 33 533 87 HOH HOH . F 6 HOH A 34 534 153 HOH HOH . F 6 HOH A 35 535 27 HOH HOH . F 6 HOH A 36 536 66 HOH HOH . F 6 HOH A 37 537 91 HOH HOH . F 6 HOH A 38 538 22 HOH HOH . F 6 HOH A 39 539 18 HOH HOH . F 6 HOH A 40 540 1 HOH HOH . F 6 HOH A 41 541 59 HOH HOH . F 6 HOH A 42 542 19 HOH HOH . F 6 HOH A 43 543 41 HOH HOH . F 6 HOH A 44 544 152 HOH HOH . F 6 HOH A 45 545 115 HOH HOH . F 6 HOH A 46 546 96 HOH HOH . F 6 HOH A 47 547 93 HOH HOH . F 6 HOH A 48 548 4 HOH HOH . F 6 HOH A 49 549 28 HOH HOH . F 6 HOH A 50 550 79 HOH HOH . F 6 HOH A 51 551 71 HOH HOH . F 6 HOH A 52 552 32 HOH HOH . F 6 HOH A 53 553 14 HOH HOH . F 6 HOH A 54 554 17 HOH HOH . F 6 HOH A 55 555 95 HOH HOH . F 6 HOH A 56 556 80 HOH HOH . F 6 HOH A 57 557 110 HOH HOH . F 6 HOH A 58 558 117 HOH HOH . F 6 HOH A 59 559 23 HOH HOH . F 6 HOH A 60 560 53 HOH HOH . F 6 HOH A 61 561 12 HOH HOH . F 6 HOH A 62 562 150 HOH HOH . F 6 HOH A 63 563 97 HOH HOH . F 6 HOH A 64 564 45 HOH HOH . F 6 HOH A 65 565 57 HOH HOH . F 6 HOH A 66 566 94 HOH HOH . F 6 HOH A 67 567 123 HOH HOH . F 6 HOH A 68 568 83 HOH HOH . F 6 HOH A 69 569 109 HOH HOH . F 6 HOH A 70 570 62 HOH HOH . F 6 HOH A 71 571 129 HOH HOH . F 6 HOH A 72 572 7 HOH HOH . F 6 HOH A 73 573 38 HOH HOH . F 6 HOH A 74 574 157 HOH HOH . F 6 HOH A 75 575 86 HOH HOH . F 6 HOH A 76 576 124 HOH HOH . F 6 HOH A 77 577 68 HOH HOH . F 6 HOH A 78 578 158 HOH HOH . F 6 HOH A 79 579 126 HOH HOH . F 6 HOH A 80 580 112 HOH HOH . F 6 HOH A 81 581 99 HOH HOH . F 6 HOH A 82 582 63 HOH HOH . F 6 HOH A 83 583 116 HOH HOH . F 6 HOH A 84 584 156 HOH HOH . F 6 HOH A 85 585 122 HOH HOH . F 6 HOH A 86 586 148 HOH HOH . F 6 HOH A 87 587 135 HOH HOH . F 6 HOH A 88 588 35 HOH HOH . F 6 HOH A 89 589 5 HOH HOH . F 6 HOH A 90 590 25 HOH HOH . F 6 HOH A 91 591 132 HOH HOH . F 6 HOH A 92 592 104 HOH HOH . F 6 HOH A 93 593 106 HOH HOH . F 6 HOH A 94 594 102 HOH HOH . F 6 HOH A 95 595 107 HOH HOH . F 6 HOH A 96 596 92 HOH HOH . F 6 HOH A 97 597 154 HOH HOH . F 6 HOH A 98 598 13 HOH HOH . F 6 HOH A 99 599 149 HOH HOH . F 6 HOH A 100 600 29 HOH HOH . F 6 HOH A 101 601 2 HOH HOH . F 6 HOH A 102 602 51 HOH HOH . F 6 HOH A 103 603 40 HOH HOH . F 6 HOH A 104 604 10 HOH HOH . F 6 HOH A 105 605 101 HOH HOH . F 6 HOH A 106 606 118 HOH HOH . F 6 HOH A 107 607 121 HOH HOH . F 6 HOH A 108 608 145 HOH HOH . F 6 HOH A 109 609 21 HOH HOH . F 6 HOH A 110 610 130 HOH HOH . F 6 HOH A 111 611 119 HOH HOH . F 6 HOH A 112 612 155 HOH HOH . G 6 HOH B 1 401 141 HOH HOH . G 6 HOH B 2 402 113 HOH HOH . G 6 HOH B 3 403 9 HOH HOH . G 6 HOH B 4 404 16 HOH HOH . G 6 HOH B 5 405 76 HOH HOH . G 6 HOH B 6 406 36 HOH HOH . G 6 HOH B 7 407 127 HOH HOH . G 6 HOH B 8 408 82 HOH HOH . G 6 HOH B 9 409 64 HOH HOH . G 6 HOH B 10 410 75 HOH HOH . G 6 HOH B 11 411 77 HOH HOH . G 6 HOH B 12 412 42 HOH HOH . G 6 HOH B 13 413 144 HOH HOH . G 6 HOH B 14 414 143 HOH HOH . G 6 HOH B 15 415 20 HOH HOH . G 6 HOH B 16 416 24 HOH HOH . G 6 HOH B 17 417 65 HOH HOH . G 6 HOH B 18 418 30 HOH HOH . G 6 HOH B 19 419 131 HOH HOH . G 6 HOH B 20 420 98 HOH HOH . G 6 HOH B 21 421 58 HOH HOH . G 6 HOH B 22 422 146 HOH HOH . G 6 HOH B 23 423 111 HOH HOH . G 6 HOH B 24 424 54 HOH HOH . G 6 HOH B 25 425 125 HOH HOH . G 6 HOH B 26 426 61 HOH HOH . G 6 HOH B 27 427 85 HOH HOH . G 6 HOH B 28 428 147 HOH HOH . G 6 HOH B 29 429 134 HOH HOH . G 6 HOH B 30 430 74 HOH HOH . G 6 HOH B 31 431 60 HOH HOH . G 6 HOH B 32 432 90 HOH HOH . G 6 HOH B 33 433 26 HOH HOH . G 6 HOH B 34 434 31 HOH HOH . G 6 HOH B 35 435 139 HOH HOH . G 6 HOH B 36 436 137 HOH HOH . G 6 HOH B 37 437 142 HOH HOH . G 6 HOH B 38 438 70 HOH HOH . G 6 HOH B 39 439 133 HOH HOH . G 6 HOH B 40 440 67 HOH HOH . G 6 HOH B 41 441 140 HOH HOH . G 6 HOH B 42 442 138 HOH HOH . G 6 HOH B 43 443 11 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 . . . E 5 -38.871 -71.297 -43.471 1 76.67 ? C1 NAG 301 B 1 HETATM 2 C C2 NAG . . . E 5 -37.525 -72.02 -43.55 1 78.66 ? C2 NAG 301 B 1 HETATM 3 C C3 NAG . . . E 5 -37.651 -73.288 -44.39 1 80.52 ? C3 NAG 301 B 1 HETATM 4 C C4 NAG . . . E 5 -38.783 -74.163 -43.868 1 81.88 ? C4 NAG 301 B 1 HETATM 5 C C5 NAG . . . E 5 -40.075 -73.354 -43.784 1 75.13 ? C5 NAG 301 B 1 HETATM 6 C C6 NAG . . . E 5 -41.222 -74.126 -43.175 1 72.62 ? C6 NAG 301 B 1 HETATM 7 C C7 NAG . . . E 5 -35.626 -70.48 -43.331 1 80.4 ? C7 NAG 301 B 1 HETATM 8 C C8 NAG . . . E 5 -34.643 -69.614 -44.06 1 75.96 ? C8 NAG 301 B 1 HETATM 9 N N2 NAG . . . E 5 -36.5 -71.145 -44.095 1 81.07 ? N2 NAG 301 B 1 HETATM 10 O O3 NAG . . . E 5 -36.421 -74.004 -44.345 1 82.12 ? O3 NAG 301 B 1 HETATM 11 O O4 NAG . . . E 5 -38.978 -75.276 -44.735 1 80.54 ? O4 NAG 301 B 1 HETATM 12 O O5 NAG . . . E 5 -39.872 -72.193 -42.963 1 77.99 ? O5 NAG 301 B 1 HETATM 13 O O6 NAG . . . E 5 -42.398 -74.005 -43.963 1 71.71 ? O6 NAG 301 B 1 HETATM 14 O O7 NAG . . . E 5 -35.628 -70.575 -42.107 1 79.74 ? O7 NAG 301 B 1 # _model_server_stats.io_time_ms 50 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 268 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 14 #