data_5KF9 # _model_server_result.job_id kIwOqklN0jEzFODF1LyENw _model_server_result.datetime_utc '2024-10-12 08:27:30' _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 5kf9 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":401}' # _entry.id 5KF9 # _exptl.entry_id 5KF9 _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 120.9 _cell.angle_gamma 90 _cell.entry_id 5KF9 _cell.length_a 118.314 _cell.length_b 44.607 _cell.length_c 74.197 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5KF9 _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'C 1 2 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _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,H,I _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' 2_555 -x,y,-z -1 0 0 0 1 0 0 0 -1 0 0 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 459 n n C1 O1 NAG sing 460 n n C1 O5 NAG sing 461 n n C1 H1 NAG sing 462 n n C2 C3 NAG sing 463 n n C2 N2 NAG sing 464 n n C2 H2 NAG sing 465 n n C3 C4 NAG sing 466 n n C3 O3 NAG sing 467 n n C3 H3 NAG sing 468 n n C4 C5 NAG sing 469 n n C4 O4 NAG sing 470 n n C4 H4 NAG sing 471 n n C5 C6 NAG sing 472 n n C5 O5 NAG sing 473 n n C5 H5 NAG sing 474 n n C6 O6 NAG sing 475 n n C6 H61 NAG sing 476 n n C6 H62 NAG sing 477 n n C7 C8 NAG sing 478 n n C7 N2 NAG sing 479 n n C7 O7 NAG doub 480 n n C8 H81 NAG sing 481 n n C8 H82 NAG sing 482 n n C8 H83 NAG sing 483 n n N2 HN2 NAG sing 484 n n O1 HO1 NAG sing 485 n n O3 HO3 NAG sing 486 n n O4 HO4 NAG sing 487 n n O6 HO6 NAG sing 488 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 5KF9 _atom_sites.fract_transf_matrix[1][1] 0.008452 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.005058 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.022418 _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] 0.015707 _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 1 NAG JH8 . C 3 ACO A 1 402 2 ACO ACO . D 4 COA A 1 403 1 COA JH1 . E 5 EDO A 1 404 1 EDO EDO . F 5 EDO A 1 405 3 EDO EDO . G 5 EDO A 1 406 1 EDO EDO . H 6 EP1 A 1 407 1 EP1 EP1 . I 7 HOH A 1 501 176 HOH HOH . I 7 HOH A 2 502 83 HOH HOH . I 7 HOH A 3 503 45 HOH HOH . I 7 HOH A 4 504 23 HOH HOH . I 7 HOH A 5 505 26 HOH HOH . I 7 HOH A 6 506 18 HOH HOH . I 7 HOH A 7 507 48 HOH HOH . I 7 HOH A 8 508 9 HOH HOH . I 7 HOH A 9 509 27 HOH HOH . I 7 HOH A 10 510 10 HOH HOH . I 7 HOH A 11 511 132 HOH HOH . I 7 HOH A 12 512 44 HOH HOH . I 7 HOH A 13 513 67 HOH HOH . I 7 HOH A 14 514 96 HOH HOH . I 7 HOH A 15 515 72 HOH HOH . I 7 HOH A 16 516 55 HOH HOH . I 7 HOH A 17 517 113 HOH HOH . I 7 HOH A 18 518 193 HOH HOH . I 7 HOH A 19 519 58 HOH HOH . I 7 HOH A 20 520 165 HOH HOH . I 7 HOH A 21 521 91 HOH HOH . I 7 HOH A 22 522 22 HOH HOH . I 7 HOH A 23 523 32 HOH HOH . I 7 HOH A 24 524 106 HOH HOH . I 7 HOH A 25 525 97 HOH HOH . I 7 HOH A 26 526 30 HOH HOH . I 7 HOH A 27 527 50 HOH HOH . I 7 HOH A 28 528 68 HOH HOH . I 7 HOH A 29 529 3 HOH HOH . I 7 HOH A 30 530 83 HOH HOH . I 7 HOH A 31 531 31 HOH HOH . I 7 HOH A 32 532 53 HOH HOH . I 7 HOH A 33 533 40 HOH HOH . I 7 HOH A 34 534 2 HOH HOH . I 7 HOH A 35 535 154 HOH HOH . I 7 HOH A 36 536 85 HOH HOH . I 7 HOH A 37 537 124 HOH HOH . I 7 HOH A 38 538 56 HOH HOH . I 7 HOH A 39 539 46 HOH HOH . I 7 HOH A 40 540 4 HOH HOH . I 7 HOH A 41 541 79 HOH HOH . I 7 HOH A 42 542 12 HOH HOH . I 7 HOH A 43 543 1 HOH HOH . I 7 HOH A 44 544 53 HOH HOH . I 7 HOH A 45 545 110 HOH HOH . I 7 HOH A 46 546 22 HOH HOH . I 7 HOH A 47 547 28 HOH HOH . I 7 HOH A 48 548 74 HOH HOH . I 7 HOH A 49 549 20 HOH HOH . I 7 HOH A 50 550 24 HOH HOH . I 7 HOH A 51 551 109 HOH HOH . I 7 HOH A 52 552 9 HOH HOH . I 7 HOH A 53 553 90 HOH HOH . I 7 HOH A 54 554 159 HOH HOH . I 7 HOH A 55 555 151 HOH HOH . I 7 HOH A 56 556 7 HOH HOH . I 7 HOH A 57 557 65 HOH HOH . I 7 HOH A 58 558 204 HOH HOH . I 7 HOH A 59 559 61 HOH HOH . I 7 HOH A 60 560 52 HOH HOH . I 7 HOH A 61 561 57 HOH HOH . I 7 HOH A 62 562 23 HOH HOH . I 7 HOH A 63 563 139 HOH HOH . I 7 HOH A 64 564 12 HOH HOH . I 7 HOH A 65 565 179 HOH HOH . I 7 HOH A 66 566 38 HOH HOH . I 7 HOH A 67 567 122 HOH HOH . I 7 HOH A 68 568 190 HOH HOH . I 7 HOH A 69 569 13 HOH HOH . I 7 HOH A 70 570 52 HOH HOH . I 7 HOH A 71 571 90 HOH HOH . I 7 HOH A 72 572 112 HOH HOH . I 7 HOH A 73 573 160 HOH HOH . I 7 HOH A 74 574 125 HOH HOH . I 7 HOH A 75 575 28 HOH HOH . I 7 HOH A 76 576 108 HOH HOH . I 7 HOH A 77 577 167 HOH HOH . I 7 HOH A 78 578 37 HOH HOH . I 7 HOH A 79 579 129 HOH HOH . I 7 HOH A 80 580 59 HOH HOH . I 7 HOH A 81 581 95 HOH HOH . I 7 HOH A 82 582 27 HOH HOH . I 7 HOH A 83 583 81 HOH HOH . I 7 HOH A 84 584 36 HOH HOH . I 7 HOH A 85 585 114 HOH HOH . I 7 HOH A 86 586 119 HOH HOH . I 7 HOH A 87 587 210 HOH HOH . I 7 HOH A 88 588 84 HOH HOH . I 7 HOH A 89 589 127 HOH HOH . I 7 HOH A 90 590 72 HOH HOH . I 7 HOH A 91 591 171 HOH HOH . I 7 HOH A 92 592 37 HOH HOH . I 7 HOH A 93 593 134 HOH HOH . I 7 HOH A 94 594 19 HOH HOH . I 7 HOH A 95 595 8 HOH HOH . I 7 HOH A 96 596 152 HOH HOH . I 7 HOH A 97 597 43 HOH HOH . I 7 HOH A 98 598 6 HOH HOH . I 7 HOH A 99 599 149 HOH HOH . I 7 HOH A 100 600 17 HOH HOH . I 7 HOH A 101 601 89 HOH HOH . I 7 HOH A 102 602 34 HOH HOH . I 7 HOH A 103 603 78 HOH HOH . I 7 HOH A 104 604 14 HOH HOH . I 7 HOH A 105 605 126 HOH HOH . I 7 HOH A 106 606 66 HOH HOH . I 7 HOH A 107 607 38 HOH HOH . I 7 HOH A 108 608 63 HOH HOH . I 7 HOH A 109 609 75 HOH HOH . I 7 HOH A 110 610 91 HOH HOH . I 7 HOH A 111 611 199 HOH HOH . I 7 HOH A 112 612 49 HOH HOH . I 7 HOH A 113 613 94 HOH HOH . I 7 HOH A 114 614 5 HOH HOH . I 7 HOH A 115 615 21 HOH HOH . I 7 HOH A 116 616 11 HOH HOH . I 7 HOH A 117 617 63 HOH HOH . I 7 HOH A 118 618 1 HOH HOH . I 7 HOH A 119 619 29 HOH HOH . I 7 HOH A 120 620 30 HOH HOH . I 7 HOH A 121 621 84 HOH HOH . I 7 HOH A 122 622 191 HOH HOH . I 7 HOH A 123 623 46 HOH HOH . I 7 HOH A 124 624 4 HOH HOH . I 7 HOH A 125 625 86 HOH HOH . I 7 HOH A 126 626 35 HOH HOH . I 7 HOH A 127 627 85 HOH HOH . I 7 HOH A 128 628 75 HOH HOH . I 7 HOH A 129 629 45 HOH HOH . I 7 HOH A 130 630 117 HOH HOH . I 7 HOH A 131 631 11 HOH HOH . I 7 HOH A 132 632 161 HOH HOH . I 7 HOH A 133 633 155 HOH HOH . I 7 HOH A 134 634 16 HOH HOH . I 7 HOH A 135 635 92 HOH HOH . I 7 HOH A 136 636 87 HOH HOH . I 7 HOH A 137 637 185 HOH HOH . I 7 HOH A 138 638 42 HOH HOH . I 7 HOH A 139 639 107 HOH HOH . I 7 HOH A 140 640 31 HOH HOH . I 7 HOH A 141 641 64 HOH HOH . I 7 HOH A 142 642 70 HOH HOH . I 7 HOH A 143 643 19 HOH HOH . I 7 HOH A 144 644 67 HOH HOH . I 7 HOH A 145 645 62 HOH HOH . I 7 HOH A 146 646 33 HOH HOH . I 7 HOH A 147 647 7 HOH HOH . I 7 HOH A 148 648 120 HOH HOH . I 7 HOH A 149 649 88 HOH HOH . I 7 HOH A 150 650 82 HOH HOH . I 7 HOH A 151 651 183 HOH HOH . I 7 HOH A 152 652 98 HOH HOH . I 7 HOH A 153 653 50 HOH HOH . I 7 HOH A 154 654 130 HOH HOH . I 7 HOH A 155 655 39 HOH HOH . I 7 HOH A 156 656 88 HOH HOH . I 7 HOH A 157 657 13 HOH HOH . I 7 HOH A 158 658 6 HOH HOH . I 7 HOH A 159 659 33 HOH HOH . I 7 HOH A 160 660 77 HOH HOH . I 7 HOH A 161 661 43 HOH HOH . I 7 HOH A 162 662 137 HOH HOH . I 7 HOH A 163 663 123 HOH HOH . I 7 HOH A 164 664 92 HOH HOH . I 7 HOH A 165 665 41 HOH HOH . I 7 HOH A 166 666 60 HOH HOH . I 7 HOH A 167 667 18 HOH HOH . I 7 HOH A 168 668 5 HOH HOH . I 7 HOH A 169 669 73 HOH HOH . I 7 HOH A 170 670 21 HOH HOH . I 7 HOH A 171 671 209 HOH HOH . I 7 HOH A 172 672 66 HOH HOH . I 7 HOH A 173 673 2 HOH HOH . I 7 HOH A 174 674 51 HOH HOH . I 7 HOH A 175 675 15 HOH HOH . I 7 HOH A 176 676 54 HOH HOH . I 7 HOH A 177 677 104 HOH HOH . I 7 HOH A 178 678 116 HOH HOH . I 7 HOH A 179 679 169 HOH HOH . I 7 HOH A 180 680 147 HOH HOH . I 7 HOH A 181 681 172 HOH HOH . I 7 HOH A 182 682 36 HOH HOH . I 7 HOH A 183 683 80 HOH HOH . I 7 HOH A 184 684 42 HOH HOH . I 7 HOH A 185 685 195 HOH HOH . I 7 HOH A 186 686 47 HOH HOH . I 7 HOH A 187 687 153 HOH HOH . I 7 HOH A 188 688 200 HOH HOH . I 7 HOH A 189 689 140 HOH HOH . I 7 HOH A 190 690 69 HOH HOH . I 7 HOH A 191 691 74 HOH HOH . I 7 HOH A 192 692 79 HOH HOH . I 7 HOH A 193 693 39 HOH HOH . I 7 HOH A 194 694 32 HOH HOH . I 7 HOH A 195 695 34 HOH HOH . I 7 HOH A 196 696 80 HOH HOH . I 7 HOH A 197 697 121 HOH HOH . I 7 HOH A 198 698 136 HOH HOH . I 7 HOH A 199 699 44 HOH HOH . I 7 HOH A 200 700 207 HOH HOH . I 7 HOH A 201 701 81 HOH HOH . I 7 HOH A 202 702 189 HOH HOH . I 7 HOH A 203 703 24 HOH HOH . I 7 HOH A 204 704 102 HOH HOH . I 7 HOH A 205 705 60 HOH HOH . I 7 HOH A 206 706 163 HOH HOH . I 7 HOH A 207 707 51 HOH HOH . I 7 HOH A 208 708 17 HOH HOH . I 7 HOH A 209 709 16 HOH HOH . I 7 HOH A 210 710 56 HOH HOH . I 7 HOH A 211 711 87 HOH HOH . I 7 HOH A 212 712 208 HOH HOH . I 7 HOH A 213 713 76 HOH HOH . I 7 HOH A 214 714 103 HOH HOH . I 7 HOH A 215 715 26 HOH HOH . I 7 HOH A 216 716 59 HOH HOH . I 7 HOH A 217 717 64 HOH HOH . I 7 HOH A 218 718 47 HOH HOH . I 7 HOH A 219 719 62 HOH HOH . I 7 HOH A 220 720 77 HOH HOH . I 7 HOH A 221 721 70 HOH HOH . I 7 HOH A 222 722 174 HOH HOH . I 7 HOH A 223 723 144 HOH HOH . I 7 HOH A 224 724 182 HOH HOH . I 7 HOH A 225 725 14 HOH HOH . I 7 HOH A 226 726 203 HOH HOH . I 7 HOH A 227 727 197 HOH HOH . I 7 HOH A 228 728 206 HOH HOH . I 7 HOH A 229 729 10 HOH HOH . I 7 HOH A 230 730 8 HOH HOH . I 7 HOH A 231 731 35 HOH HOH . I 7 HOH A 232 732 68 HOH HOH . I 7 HOH A 233 733 175 HOH HOH . I 7 HOH A 234 734 69 HOH HOH . I 7 HOH A 235 735 76 HOH HOH . I 7 HOH A 236 736 55 HOH HOH . I 7 HOH A 237 737 180 HOH HOH . I 7 HOH A 238 738 78 HOH HOH . I 7 HOH A 239 739 187 HOH HOH . I 7 HOH A 240 740 73 HOH HOH . I 7 HOH A 241 741 105 HOH HOH . I 7 HOH A 242 742 29 HOH HOH . I 7 HOH A 243 743 86 HOH HOH . I 7 HOH A 244 744 71 HOH HOH . I 7 HOH A 245 745 48 HOH HOH . I 7 HOH A 246 746 157 HOH HOH . I 7 HOH A 247 747 196 HOH HOH . I 7 HOH A 248 748 141 HOH HOH . I 7 HOH A 249 749 100 HOH HOH . I 7 HOH A 250 750 188 HOH HOH . I 7 HOH A 251 751 58 HOH HOH . I 7 HOH A 252 752 118 HOH HOH . I 7 HOH A 253 753 54 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 12.033 13.31 13.606 1 14.88 ? C1 NAG 401 A 1 HETATM 2 C C2 NAG . . . B 2 12.673 12.029 13.12 1 14.23 ? C2 NAG 401 A 1 HETATM 3 C C3 NAG . . . B 2 11.753 10.874 13.467 1 15.33 ? C3 NAG 401 A 1 HETATM 4 C C4 NAG . . . B 2 11.299 10.853 14.937 1 16.16 ? C4 NAG 401 A 1 HETATM 5 C C5 NAG . . . B 2 10.753 12.233 15.261 1 16.12 ? C5 NAG 401 A 1 HETATM 6 C C6 NAG . . . B 2 10.277 12.429 16.684 1 16.91 ? C6 NAG 401 A 1 HETATM 7 C C7 NAG . . . B 2 14.264 11.922 11.269 1 22.71 ? C7 NAG 401 A 1 HETATM 8 C C8 NAG . . . B 2 14.442 11.505 9.836 1 22.01 ? C8 NAG 401 A 1 HETATM 9 N N2 NAG . . . B 2 12.993 11.998 11.717 1 16.89 ? N2 NAG 401 A 1 HETATM 10 O O1 NAG . . . B 2 12.911 14.401 13.39 1 19.99 ? O1 NAG 401 A 1 HETATM 11 O O3 NAG . . . B 2 12.452 9.656 13.165 1 16.05 ? O3 NAG 401 A 1 HETATM 12 O O4 NAG . . . B 2 10.312 9.827 15.112 1 16.94 ? O4 NAG 401 A 1 HETATM 13 O O5 NAG . . . B 2 11.773 13.173 14.994 1 14.93 ? O5 NAG 401 A 1 HETATM 14 O O6 NAG . . . B 2 11.404 12.248 17.575 1 18.46 ? O6 NAG 401 A 1 HETATM 15 O O7 NAG . . . B 2 15.286 12.125 11.927 1 19.56 ? O7 NAG 401 A 1 # _model_server_stats.io_time_ms 7 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 315 _model_server_stats.encode_time_ms 14 _model_server_stats.element_count 15 #