data_5N9B # _model_server_result.job_id 3Cges_HhsllUGyy4NIKW6Q _model_server_result.datetime_utc '2025-06-30 12:47:12' _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 5n9b # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":401}' # _entry.id 5N9B # _exptl.entry_id 5N9B _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 4 _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 5N9B _cell.length_a 40.593 _cell.length_b 71.685 _cell.length_c 105.385 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5N9B _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # _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,E,F _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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 2 B N N ? 2 C N N ? 2 D N N ? 2 E N 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 11 A CYS 43 1_555 A SG CYS 18 A CYS 50 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.059 ? disulf ? disulf2 A SG CYS 25 A CYS 57 1_555 A SG CYS 94 A CYS 126 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.048 ? disulf ? disulf3 A SG CYS 153 A CYS 185 1_555 A SG CYS 164 A CYS 196 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.06 ? disulf ? disulf4 A SG CYS 213 A CYS 245 1_555 A SG CYS 244 A CYS 276 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? disulf ? disulf5 A SG CYS 245 A CYS 277 1_555 A SG CYS 271 A CYS 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf6 A SG CYS 258 A CYS 290 1_555 A SG CYS 262 A CYS 294 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? covale ? covale1 A ND2 ASN 174 A ASN 206 1_555 C C1 NAG . A NAG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.434 ? covale ? covale2 A ND2 ASN 193 A ASN 225 1_555 E C1 NAG . A NAG 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.432 ? covale ? covale3 A ND2 ASN 210 A ASN 242 1_555 D C1 NAG . A NAG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.429 ? covale ? covale4 A ND2 ASN 233 A ASN 265 1_555 B C1 NAG . A NAG 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.428 ? # _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 237 n n C1 O1 NAG sing 238 n n C1 O5 NAG sing 239 n n C1 H1 NAG sing 240 n n C2 C3 NAG sing 241 n n C2 N2 NAG sing 242 n n C2 H2 NAG sing 243 n n C3 C4 NAG sing 244 n n C3 O3 NAG sing 245 n n C3 H3 NAG sing 246 n n C4 C5 NAG sing 247 n n C4 O4 NAG sing 248 n n C4 H4 NAG sing 249 n n C5 C6 NAG sing 250 n n C5 O5 NAG sing 251 n n C5 H5 NAG sing 252 n n C6 O6 NAG sing 253 n n C6 H61 NAG sing 254 n n C6 H62 NAG sing 255 n n C7 C8 NAG sing 256 n n C7 N2 NAG sing 257 n n C7 O7 NAG doub 258 n n C8 H81 NAG sing 259 n n C8 H82 NAG sing 260 n n C8 H83 NAG sing 261 n n N2 HN2 NAG sing 262 n n O1 HO1 NAG sing 263 n n O3 HO3 NAG sing 264 n n O4 HO4 NAG sing 265 n n O6 HO6 NAG sing 266 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 5N9B _atom_sites.fract_transf_matrix[1][1] 0.024635 _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] 0.01395 _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] 0.009489 _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 A 1 401 310 NAG NAG . C 2 NAG A 1 402 311 NAG NAG . D 2 NAG A 1 403 312 NAG NAG . E 2 NAG A 1 404 313 NAG NAG . F 3 HOH A 1 501 91 HOH HOH . F 3 HOH A 2 502 10 HOH HOH . F 3 HOH A 3 503 16 HOH HOH . F 3 HOH A 4 504 31 HOH HOH . F 3 HOH A 5 505 23 HOH HOH . F 3 HOH A 6 506 8 HOH HOH . F 3 HOH A 7 507 70 HOH HOH . F 3 HOH A 8 508 85 HOH HOH . F 3 HOH A 9 509 51 HOH HOH . F 3 HOH A 10 510 19 HOH HOH . F 3 HOH A 11 511 149 HOH HOH . F 3 HOH A 12 512 28 HOH HOH . F 3 HOH A 13 513 2 HOH HOH . F 3 HOH A 14 514 143 HOH HOH . F 3 HOH A 15 515 151 HOH HOH . F 3 HOH A 16 516 102 HOH HOH . F 3 HOH A 17 517 65 HOH HOH . F 3 HOH A 18 518 3 HOH HOH . F 3 HOH A 19 519 67 HOH HOH . F 3 HOH A 20 520 24 HOH HOH . F 3 HOH A 21 521 89 HOH HOH . F 3 HOH A 22 522 73 HOH HOH . F 3 HOH A 23 523 160 HOH HOH . F 3 HOH A 24 524 6 HOH HOH . F 3 HOH A 25 525 140 HOH HOH . F 3 HOH A 26 526 38 HOH HOH . F 3 HOH A 27 527 170 HOH HOH . F 3 HOH A 28 528 87 HOH HOH . F 3 HOH A 29 529 159 HOH HOH . F 3 HOH A 30 530 36 HOH HOH . F 3 HOH A 31 531 88 HOH HOH . F 3 HOH A 32 532 26 HOH HOH . F 3 HOH A 33 533 63 HOH HOH . F 3 HOH A 34 534 111 HOH HOH . F 3 HOH A 35 535 18 HOH HOH . F 3 HOH A 36 536 77 HOH HOH . F 3 HOH A 37 537 132 HOH HOH . F 3 HOH A 38 538 7 HOH HOH . F 3 HOH A 39 539 80 HOH HOH . F 3 HOH A 40 540 4 HOH HOH . F 3 HOH A 41 541 40 HOH HOH . F 3 HOH A 42 542 75 HOH HOH . F 3 HOH A 43 543 123 HOH HOH . F 3 HOH A 44 544 55 HOH HOH . F 3 HOH A 45 545 144 HOH HOH . F 3 HOH A 46 546 11 HOH HOH . F 3 HOH A 47 547 45 HOH HOH . F 3 HOH A 48 548 83 HOH HOH . F 3 HOH A 49 549 120 HOH HOH . F 3 HOH A 50 550 178 HOH HOH . F 3 HOH A 51 551 141 HOH HOH . F 3 HOH A 52 552 169 HOH HOH . F 3 HOH A 53 553 64 HOH HOH . F 3 HOH A 54 554 146 HOH HOH . F 3 HOH A 55 555 84 HOH HOH . F 3 HOH A 56 556 1 HOH HOH . F 3 HOH A 57 557 14 HOH HOH . F 3 HOH A 58 558 105 HOH HOH . F 3 HOH A 59 559 181 HOH HOH . F 3 HOH A 60 560 158 HOH HOH . F 3 HOH A 61 561 29 HOH HOH . F 3 HOH A 62 562 104 HOH HOH . F 3 HOH A 63 563 157 HOH HOH . F 3 HOH A 64 564 148 HOH HOH . F 3 HOH A 65 565 50 HOH HOH . F 3 HOH A 66 566 49 HOH HOH . F 3 HOH A 67 567 44 HOH HOH . F 3 HOH A 68 568 41 HOH HOH . F 3 HOH A 69 569 5 HOH HOH . F 3 HOH A 70 570 53 HOH HOH . F 3 HOH A 71 571 112 HOH HOH . F 3 HOH A 72 572 42 HOH HOH . F 3 HOH A 73 573 118 HOH HOH . F 3 HOH A 74 574 71 HOH HOH . F 3 HOH A 75 575 117 HOH HOH . F 3 HOH A 76 576 76 HOH HOH . F 3 HOH A 77 577 35 HOH HOH . F 3 HOH A 78 578 30 HOH HOH . F 3 HOH A 79 579 43 HOH HOH . F 3 HOH A 80 580 135 HOH HOH . F 3 HOH A 81 581 58 HOH HOH . F 3 HOH A 82 582 99 HOH HOH . F 3 HOH A 83 583 15 HOH HOH . F 3 HOH A 84 584 95 HOH HOH . F 3 HOH A 85 585 119 HOH HOH . F 3 HOH A 86 586 72 HOH HOH . F 3 HOH A 87 587 37 HOH HOH . F 3 HOH A 88 588 124 HOH HOH . F 3 HOH A 89 589 100 HOH HOH . F 3 HOH A 90 590 129 HOH HOH . F 3 HOH A 91 591 114 HOH HOH . F 3 HOH A 92 592 163 HOH HOH . F 3 HOH A 93 593 122 HOH HOH . F 3 HOH A 94 594 52 HOH HOH . F 3 HOH A 95 595 69 HOH HOH . F 3 HOH A 96 596 127 HOH HOH . F 3 HOH A 97 597 59 HOH HOH . F 3 HOH A 98 598 22 HOH HOH . F 3 HOH A 99 599 175 HOH HOH . F 3 HOH A 100 600 27 HOH HOH . F 3 HOH A 101 601 125 HOH HOH . F 3 HOH A 102 602 9 HOH HOH . F 3 HOH A 103 603 133 HOH HOH . F 3 HOH A 104 604 161 HOH HOH . F 3 HOH A 105 605 176 HOH HOH . F 3 HOH A 106 606 97 HOH HOH . F 3 HOH A 107 607 62 HOH HOH . F 3 HOH A 108 608 139 HOH HOH . F 3 HOH A 109 609 98 HOH HOH . F 3 HOH A 110 610 182 HOH HOH . F 3 HOH A 111 611 47 HOH HOH . F 3 HOH A 112 612 150 HOH HOH . F 3 HOH A 113 613 187 HOH HOH . F 3 HOH A 114 614 25 HOH HOH . F 3 HOH A 115 615 110 HOH HOH . F 3 HOH A 116 616 33 HOH HOH . F 3 HOH A 117 617 109 HOH HOH . F 3 HOH A 118 618 12 HOH HOH . F 3 HOH A 119 619 86 HOH HOH . F 3 HOH A 120 620 145 HOH HOH . F 3 HOH A 121 621 60 HOH HOH . F 3 HOH A 122 622 183 HOH HOH . F 3 HOH A 123 623 57 HOH HOH . F 3 HOH A 124 624 174 HOH HOH . F 3 HOH A 125 625 92 HOH HOH . F 3 HOH A 126 626 46 HOH HOH . F 3 HOH A 127 627 39 HOH HOH . F 3 HOH A 128 628 82 HOH HOH . F 3 HOH A 129 629 66 HOH HOH . F 3 HOH A 130 630 156 HOH HOH . F 3 HOH A 131 631 131 HOH HOH . F 3 HOH A 132 632 184 HOH HOH . F 3 HOH A 133 633 32 HOH HOH . F 3 HOH A 134 634 13 HOH HOH . F 3 HOH A 135 635 94 HOH HOH . F 3 HOH A 136 636 101 HOH HOH . F 3 HOH A 137 637 121 HOH HOH . F 3 HOH A 138 638 155 HOH HOH . F 3 HOH A 139 639 34 HOH HOH . F 3 HOH A 140 640 180 HOH HOH . F 3 HOH A 141 641 115 HOH HOH . F 3 HOH A 142 642 188 HOH HOH . F 3 HOH A 143 643 116 HOH HOH . F 3 HOH A 144 644 61 HOH HOH . F 3 HOH A 145 645 154 HOH HOH . F 3 HOH A 146 646 134 HOH HOH . F 3 HOH A 147 647 54 HOH HOH . F 3 HOH A 148 648 126 HOH HOH . F 3 HOH A 149 649 56 HOH HOH . F 3 HOH A 150 650 113 HOH HOH . F 3 HOH A 151 651 17 HOH HOH . F 3 HOH A 152 652 130 HOH HOH . F 3 HOH A 153 653 152 HOH HOH . F 3 HOH A 154 654 108 HOH HOH . F 3 HOH A 155 655 147 HOH HOH . F 3 HOH A 156 656 138 HOH HOH . F 3 HOH A 157 657 107 HOH HOH . F 3 HOH A 158 658 128 HOH HOH . F 3 HOH A 159 659 103 HOH HOH . F 3 HOH A 160 660 164 HOH HOH . F 3 HOH A 161 661 106 HOH HOH . F 3 HOH A 162 662 153 HOH HOH . F 3 HOH A 163 663 142 HOH HOH . F 3 HOH A 164 664 90 HOH HOH . F 3 HOH A 165 665 167 HOH HOH . F 3 HOH A 166 666 48 HOH HOH . F 3 HOH A 167 667 173 HOH HOH . F 3 HOH A 168 668 168 HOH HOH . F 3 HOH A 169 669 20 HOH HOH . F 3 HOH A 170 670 137 HOH HOH . F 3 HOH A 171 671 21 HOH HOH . F 3 HOH A 172 672 179 HOH HOH . F 3 HOH A 173 673 171 HOH HOH . F 3 HOH A 174 674 186 HOH HOH . F 3 HOH A 175 675 74 HOH HOH . F 3 HOH A 176 676 93 HOH HOH . F 3 HOH A 177 677 136 HOH HOH . F 3 HOH A 178 678 78 HOH HOH . F 3 HOH A 179 679 177 HOH HOH . F 3 HOH A 180 680 81 HOH HOH . F 3 HOH A 181 681 162 HOH HOH . F 3 HOH A 182 682 68 HOH HOH . F 3 HOH A 183 683 165 HOH HOH . F 3 HOH A 184 684 189 HOH HOH . F 3 HOH A 185 685 166 HOH HOH . F 3 HOH A 186 686 79 HOH HOH . F 3 HOH A 187 687 185 HOH HOH . F 3 HOH A 188 688 172 HOH HOH . F 3 HOH A 189 689 96 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 -10.779 -34.771 46.088 1 48.74 ? C1 NAG 401 A 1 HETATM 2 C C2 NAG . . . B 2 -9.94 -35.221 47.281 1 48.18 ? C2 NAG 401 A 1 HETATM 3 C C3 NAG . . . B 2 -10.64 -34.642 48.513 1 51.51 ? C3 NAG 401 A 1 HETATM 4 C C4 NAG . . . B 2 -10.717 -33.116 48.434 1 55.62 ? C4 NAG 401 A 1 HETATM 5 C C5 NAG . . . B 2 -11.421 -32.663 47.157 1 56.43 ? C5 NAG 401 A 1 HETATM 6 C C6 NAG . . . B 2 -11.246 -31.182 46.896 1 58.05 ? C6 NAG 401 A 1 HETATM 7 C C7 NAG . . . B 2 -8.94 -37.48 47.123 1 48.97 ? C7 NAG 401 A 1 HETATM 8 C C8 NAG . . . B 2 -9.255 -38.937 46.974 1 48.72 ? C8 NAG 401 A 1 HETATM 9 N N2 NAG . . . B 2 -9.998 -36.674 47.302 1 48.19 ? N2 NAG 401 A 1 HETATM 10 O O3 NAG . . . B 2 -9.912 -35.039 49.669 1 48.45 ? O3 NAG 401 A 1 HETATM 11 O O4 NAG . . . B 2 -11.472 -32.584 49.512 1 59.6 ? O4 NAG 401 A 1 HETATM 12 O O5 NAG . . . B 2 -10.852 -33.339 46.027 1 52.55 ? O5 NAG 401 A 1 HETATM 13 O O6 NAG . . . B 2 -11.945 -30.745 45.743 1 58.71 ? O6 NAG 401 A 1 HETATM 14 O O7 NAG . . . B 2 -7.785 -37.056 47.076 1 51.9 ? O7 NAG 401 A 1 # _model_server_stats.io_time_ms 15 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 248 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 14 #