data_7B87 # _model_server_result.job_id u8M4ngOlznCzkFHxje2YOg _model_server_result.datetime_utc '2024-11-13 04:45:47' _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 7b87 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"M","auth_seq_id":512}' # _entry.id 7B87 # _exptl.entry_id 7B87 _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 7B87 _cell.length_a 59.8 _cell.length_b 73.162 _cell.length_c 78.671 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7B87 _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,G,H,I,J,K,L,M,N,O,P _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 5 _struct_asym.id M _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 24 A CYS 101 1_555 A SG CYS 106 A CYS 183 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf2 A SG CYS 53 A CYS 130 1_555 A SG CYS 59 A CYS 136 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf3 A SG CYS 229 A CYS 306 1_555 A SG CYS 241 A CYS 318 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? disulf ? disulf4 A SG CYS 309 A CYS 386 1_555 A SG CYS 372 A CYS 449 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf5 A SG CYS 336 A CYS 413 1_555 A SG CYS 355 A CYS 432 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.025 ? disulf ? disulf6 A SG CYS 363 A CYS 440 1_555 A SG CYS 368 A CYS 445 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? covale ? covale1 A ND2 ASN 19 A ASN 96 1_555 M C1 NAG . A NAG 512 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.436 ? # _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 287 n n C1 O1 NAG sing 288 n n C1 O5 NAG sing 289 n n C1 H1 NAG sing 290 n n C2 C3 NAG sing 291 n n C2 N2 NAG sing 292 n n C2 H2 NAG sing 293 n n C3 C4 NAG sing 294 n n C3 O3 NAG sing 295 n n C3 H3 NAG sing 296 n n C4 C5 NAG sing 297 n n C4 O4 NAG sing 298 n n C4 H4 NAG sing 299 n n C5 C6 NAG sing 300 n n C5 O5 NAG sing 301 n n C5 H5 NAG sing 302 n n C6 O6 NAG sing 303 n n C6 H61 NAG sing 304 n n C6 H62 NAG sing 305 n n C7 C8 NAG sing 306 n n C7 N2 NAG sing 307 n n C7 O7 NAG doub 308 n n C8 H81 NAG sing 309 n n C8 H82 NAG sing 310 n n C8 H83 NAG sing 311 n n N2 HN2 NAG sing 312 n n O1 HO1 NAG sing 313 n n O3 HO3 NAG sing 314 n n O4 HO4 NAG sing 315 n n O6 HO6 NAG sing 316 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 7B87 _atom_sites.fract_transf_matrix[1][1] 0.016722 _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] 0.013668 _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] 0.012711 _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 DMS A 1 501 501 DMS DMS . C 2 DMS A 1 502 502 DMS DMS . D 3 EDO A 1 503 552 EDO EDO . E 3 EDO A 1 504 556 EDO EDO . F 3 EDO A 1 505 558 EDO EDO . G 3 EDO A 1 506 560 EDO EDO . H 3 EDO A 1 507 561 EDO EDO . I 3 EDO A 1 508 562 EDO EDO . J 3 EDO A 1 509 563 EDO EDO . K 4 SO4 A 1 510 601 SO4 SO4 . L 4 SO4 A 1 511 602 SO4 SO4 . M 5 NAG A 1 512 1452 NAG NAG . N 6 JFV A 1 513 1501 JFV XXX . O 4 SO4 A 1 514 1 SO4 SO4 . P 7 HOH A 1 601 912 HOH HOH . P 7 HOH A 2 602 887 HOH HOH . P 7 HOH A 3 603 736 HOH HOH . P 7 HOH A 4 604 697 HOH HOH . P 7 HOH A 5 605 879 HOH HOH . P 7 HOH A 6 606 696 HOH HOH . P 7 HOH A 7 607 872 HOH HOH . P 7 HOH A 8 608 668 HOH HOH . P 7 HOH A 9 609 865 HOH HOH . P 7 HOH A 10 610 768 HOH HOH . P 7 HOH A 11 611 658 HOH HOH . P 7 HOH A 12 612 847 HOH HOH . P 7 HOH A 13 613 654 HOH HOH . P 7 HOH A 14 614 700 HOH HOH . P 7 HOH A 15 615 773 HOH HOH . P 7 HOH A 16 616 651 HOH HOH . P 7 HOH A 17 617 653 HOH HOH . P 7 HOH A 18 618 677 HOH HOH . P 7 HOH A 19 619 695 HOH HOH . P 7 HOH A 20 620 690 HOH HOH . P 7 HOH A 21 621 698 HOH HOH . P 7 HOH A 22 622 702 HOH HOH . P 7 HOH A 23 623 686 HOH HOH . P 7 HOH A 24 624 723 HOH HOH . P 7 HOH A 25 625 866 HOH HOH . P 7 HOH A 26 626 735 HOH HOH . P 7 HOH A 27 627 666 HOH HOH . P 7 HOH A 28 628 709 HOH HOH . P 7 HOH A 29 629 846 HOH HOH . P 7 HOH A 30 630 799 HOH HOH . P 7 HOH A 31 631 903 HOH HOH . P 7 HOH A 32 632 688 HOH HOH . P 7 HOH A 33 633 869 HOH HOH . P 7 HOH A 34 634 657 HOH HOH . P 7 HOH A 35 635 681 HOH HOH . P 7 HOH A 36 636 741 HOH HOH . P 7 HOH A 37 637 774 HOH HOH . P 7 HOH A 38 638 693 HOH HOH . P 7 HOH A 39 639 669 HOH HOH . P 7 HOH A 40 640 718 HOH HOH . P 7 HOH A 41 641 679 HOH HOH . P 7 HOH A 42 642 715 HOH HOH . P 7 HOH A 43 643 704 HOH HOH . P 7 HOH A 44 644 717 HOH HOH . P 7 HOH A 45 645 859 HOH HOH . P 7 HOH A 46 646 907 HOH HOH . P 7 HOH A 47 647 714 HOH HOH . P 7 HOH A 48 648 652 HOH HOH . P 7 HOH A 49 649 713 HOH HOH . P 7 HOH A 50 650 708 HOH HOH . P 7 HOH A 51 651 655 HOH HOH . P 7 HOH A 52 652 883 HOH HOH . P 7 HOH A 53 653 737 HOH HOH . P 7 HOH A 54 654 656 HOH HOH . P 7 HOH A 55 655 721 HOH HOH . P 7 HOH A 56 656 691 HOH HOH . P 7 HOH A 57 657 676 HOH HOH . P 7 HOH A 58 658 665 HOH HOH . P 7 HOH A 59 659 747 HOH HOH . P 7 HOH A 60 660 672 HOH HOH . P 7 HOH A 61 661 895 HOH HOH . P 7 HOH A 62 662 667 HOH HOH . P 7 HOH A 63 663 861 HOH HOH . P 7 HOH A 64 664 680 HOH HOH . P 7 HOH A 65 665 868 HOH HOH . P 7 HOH A 66 666 904 HOH HOH . P 7 HOH A 67 667 858 HOH HOH . P 7 HOH A 68 668 727 HOH HOH . P 7 HOH A 69 669 890 HOH HOH . P 7 HOH A 70 670 687 HOH HOH . P 7 HOH A 71 671 661 HOH HOH . P 7 HOH A 72 672 876 HOH HOH . P 7 HOH A 73 673 670 HOH HOH . P 7 HOH A 74 674 759 HOH HOH . P 7 HOH A 75 675 854 HOH HOH . P 7 HOH A 76 676 863 HOH HOH . P 7 HOH A 77 677 913 HOH HOH . P 7 HOH A 78 678 662 HOH HOH . P 7 HOH A 79 679 712 HOH HOH . P 7 HOH A 80 680 783 HOH HOH . P 7 HOH A 81 681 914 HOH HOH . P 7 HOH A 82 682 689 HOH HOH . P 7 HOH A 83 683 673 HOH HOH . P 7 HOH A 84 684 915 HOH HOH . P 7 HOH A 85 685 792 HOH HOH . P 7 HOH A 86 686 728 HOH HOH . P 7 HOH A 87 687 881 HOH HOH . P 7 HOH A 88 688 764 HOH HOH . P 7 HOH A 89 689 731 HOH HOH . P 7 HOH A 90 690 911 HOH HOH . P 7 HOH A 91 691 692 HOH HOH . P 7 HOH A 92 692 877 HOH HOH . P 7 HOH A 93 693 685 HOH HOH . P 7 HOH A 94 694 841 HOH HOH . P 7 HOH A 95 695 707 HOH HOH . P 7 HOH A 96 696 848 HOH HOH . P 7 HOH A 97 697 851 HOH HOH . P 7 HOH A 98 698 910 HOH HOH . P 7 HOH A 99 699 724 HOH HOH . P 7 HOH A 100 700 916 HOH HOH . P 7 HOH A 101 701 664 HOH HOH . P 7 HOH A 102 702 743 HOH HOH . P 7 HOH A 103 703 897 HOH HOH . P 7 HOH A 104 704 660 HOH HOH . P 7 HOH A 105 705 699 HOH HOH . P 7 HOH A 106 706 775 HOH HOH . P 7 HOH A 107 707 906 HOH HOH . P 7 HOH A 108 708 756 HOH HOH . P 7 HOH A 109 709 830 HOH HOH . P 7 HOH A 110 710 663 HOH HOH . P 7 HOH A 111 711 852 HOH HOH . P 7 HOH A 112 712 779 HOH HOH . P 7 HOH A 113 713 812 HOH HOH . P 7 HOH A 114 714 889 HOH HOH . P 7 HOH A 115 715 803 HOH HOH . P 7 HOH A 116 716 802 HOH HOH . P 7 HOH A 117 717 762 HOH HOH . P 7 HOH A 118 718 880 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 . . . M 5 -3.932 21.461 -1.167 1 40.79 ? C1 NAG 512 A 1 HETATM 2 C C2 NAG . . . M 5 -4.977 22.283 -1.928 1 51.66 ? C2 NAG 512 A 1 HETATM 3 C C3 NAG . . . M 5 -6.357 22.125 -1.287 1 48.35 ? C3 NAG 512 A 1 HETATM 4 C C4 NAG . . . M 5 -6.708 20.656 -1.092 1 49 ? C4 NAG 512 A 1 HETATM 5 C C5 NAG . . . M 5 -5.586 19.941 -0.35 1 49.03 ? C5 NAG 512 A 1 HETATM 6 C C6 NAG . . . M 5 -5.816 18.454 -0.212 1 52.93 ? C6 NAG 512 A 1 HETATM 7 C C7 NAG . . . M 5 -4.539 24.401 -3.096 1 64.71 ? C7 NAG 512 A 1 HETATM 8 C C8 NAG . . . M 5 -4.129 25.835 -2.943 1 66.65 ? C8 NAG 512 A 1 HETATM 9 N N2 NAG . . . M 5 -4.596 23.686 -1.968 1 53.66 ? N2 NAG 512 A 1 HETATM 10 O O3 NAG . . . M 5 -7.329 22.743 -2.121 1 59.28 ? O3 NAG 512 A 1 HETATM 11 O O4 NAG . . . M 5 -7.908 20.54 -0.337 1 47 ? O4 NAG 512 A 1 HETATM 12 O O5 NAG . . . M 5 -4.36 20.105 -1.074 1 45.95 ? O5 NAG 512 A 1 HETATM 13 O O6 NAG . . . M 5 -5.827 17.81 -1.478 1 48.95 ? O6 NAG 512 A 1 HETATM 14 O O7 NAG . . . M 5 -4.804 23.914 -4.19 1 64.62 ? O7 NAG 512 A 1 # _model_server_stats.io_time_ms 18 _model_server_stats.parse_time_ms 13 _model_server_stats.create_model_time_ms 11 _model_server_stats.query_time_ms 290 _model_server_stats.encode_time_ms 8 _model_server_stats.element_count 14 #