data_9R4M # _model_server_result.job_id 991qDeMzN5RUfkLVo9WNMg _model_server_result.datetime_utc '2025-07-25 14:59:44' _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 9r4m # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":503}' # _entry.id 9R4M # _exptl.entry_id 9R4M _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 180.156 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description alpha-D-mannopyranose _entity.pdbx_number_of_molecules 3 _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 9R4M _cell.length_a 106.524 _cell.length_b 106.524 _cell.length_c 127.109 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 9R4M _symmetry.cell_setting ? _symmetry.Int_Tables_number 152 _symmetry.space_group_name_Hall 'P 31 2"' _symmetry.space_group_name_H-M 'P 31 2 1' # _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 _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 # 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 204 A CYS 204 1_555 A SG CYS 279 A CYS 279 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.165 ? disulf ? disulf2 A SG CYS 339 A CYS 339 1_555 A SG CYS 345 A CYS 345 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.145 ? # _chem_comp.formula 'C6 H12 O6' _chem_comp.formula_weight 180.156 _chem_comp.id MAN _chem_comp.mon_nstd_flag . _chem_comp.name alpha-D-mannopyranose _chem_comp.type 'd-saccharide, alpha linking' _chem_comp.pdbx_synonyms alpha-D-mannose;D-mannose;mannose # 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 MAN sing 235 n n C1 O1 MAN sing 236 n n C1 O5 MAN sing 237 n n C1 H1 MAN sing 238 n n C2 C3 MAN sing 239 n n C2 O2 MAN sing 240 n n C2 H2 MAN sing 241 n n C3 C4 MAN sing 242 n n C3 O3 MAN sing 243 n n C3 H3 MAN sing 244 n n C4 C5 MAN sing 245 n n C4 O4 MAN sing 246 n n C4 H4 MAN sing 247 n n C5 C6 MAN sing 248 n n C5 O5 MAN sing 249 n n C5 H5 MAN sing 250 n n C6 O6 MAN sing 251 n n C6 H61 MAN sing 252 n n C6 H62 MAN sing 253 n n O1 HO1 MAN sing 254 n n O2 HO2 MAN sing 255 n n O3 HO3 MAN sing 256 n n O4 HO4 MAN sing 257 n n O6 HO6 MAN sing 258 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 MAN DManpa 'CONDENSED IUPAC CARBOHYDRATE SYMBOL' GMML 1 MAN a-D-mannopyranose 'COMMON NAME' GMML 1 MAN a-D-Manp 'IUPAC CARBOHYDRATE SYMBOL' PDB-CARE 1 MAN Man 'SNFG CARBOHYDRATE SYMBOL' GMML 1 # _atom_sites.entry_id 9R4M _atom_sites.fract_transf_matrix[1][1] 0.009388 _atom_sites.fract_transf_matrix[1][2] 0.00542 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.01084 _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] 0.007867 _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 MAN A 1 501 550 MAN MAN . C 2 MAN A 1 502 650 MAN MAN . D 2 MAN A 1 503 750 MAN MAN . E 3 GOL A 1 504 1 GOL GOL . F 3 GOL A 1 505 2 GOL GOL . G 4 FMT A 1 506 1 FMT FMT . H 5 HOH A 1 601 94 HOH HOH . H 5 HOH A 2 602 155 HOH HOH . H 5 HOH A 3 603 93 HOH HOH . H 5 HOH A 4 604 17 HOH HOH . H 5 HOH A 5 605 19 HOH HOH . H 5 HOH A 6 606 40 HOH HOH . H 5 HOH A 7 607 89 HOH HOH . H 5 HOH A 8 608 73 HOH HOH . H 5 HOH A 9 609 112 HOH HOH . H 5 HOH A 10 610 102 HOH HOH . H 5 HOH A 11 611 140 HOH HOH . H 5 HOH A 12 612 61 HOH HOH . H 5 HOH A 13 613 106 HOH HOH . H 5 HOH A 14 614 74 HOH HOH . H 5 HOH A 15 615 59 HOH HOH . H 5 HOH A 16 616 95 HOH HOH . H 5 HOH A 17 617 10 HOH HOH . H 5 HOH A 18 618 14 HOH HOH . H 5 HOH A 19 619 7 HOH HOH . H 5 HOH A 20 620 96 HOH HOH . H 5 HOH A 21 621 117 HOH HOH . H 5 HOH A 22 622 99 HOH HOH . H 5 HOH A 23 623 45 HOH HOH . H 5 HOH A 24 624 86 HOH HOH . H 5 HOH A 25 625 65 HOH HOH . H 5 HOH A 26 626 77 HOH HOH . H 5 HOH A 27 627 38 HOH HOH . H 5 HOH A 28 628 36 HOH HOH . H 5 HOH A 29 629 6 HOH HOH . H 5 HOH A 30 630 120 HOH HOH . H 5 HOH A 31 631 116 HOH HOH . H 5 HOH A 32 632 16 HOH HOH . H 5 HOH A 33 633 12 HOH HOH . H 5 HOH A 34 634 154 HOH HOH . H 5 HOH A 35 635 67 HOH HOH . H 5 HOH A 36 636 18 HOH HOH . H 5 HOH A 37 637 88 HOH HOH . H 5 HOH A 38 638 85 HOH HOH . H 5 HOH A 39 639 15 HOH HOH . H 5 HOH A 40 640 32 HOH HOH . H 5 HOH A 41 641 159 HOH HOH . H 5 HOH A 42 642 47 HOH HOH . H 5 HOH A 43 643 1 HOH HOH . H 5 HOH A 44 644 44 HOH HOH . H 5 HOH A 45 645 179 HOH HOH . H 5 HOH A 46 646 121 HOH HOH . H 5 HOH A 47 647 49 HOH HOH . H 5 HOH A 48 648 114 HOH HOH . H 5 HOH A 49 649 25 HOH HOH . H 5 HOH A 50 650 181 HOH HOH . H 5 HOH A 51 651 111 HOH HOH . H 5 HOH A 52 652 125 HOH HOH . H 5 HOH A 53 653 46 HOH HOH . H 5 HOH A 54 654 98 HOH HOH . H 5 HOH A 55 655 48 HOH HOH . H 5 HOH A 56 656 100 HOH HOH . H 5 HOH A 57 657 33 HOH HOH . H 5 HOH A 58 658 149 HOH HOH . H 5 HOH A 59 659 4 HOH HOH . H 5 HOH A 60 660 39 HOH HOH . H 5 HOH A 61 661 170 HOH HOH . H 5 HOH A 62 662 35 HOH HOH . H 5 HOH A 63 663 66 HOH HOH . H 5 HOH A 64 664 3 HOH HOH . H 5 HOH A 65 665 105 HOH HOH . H 5 HOH A 66 666 23 HOH HOH . H 5 HOH A 67 667 92 HOH HOH . H 5 HOH A 68 668 2 HOH HOH . H 5 HOH A 69 669 37 HOH HOH . H 5 HOH A 70 670 50 HOH HOH . H 5 HOH A 71 671 5 HOH HOH . H 5 HOH A 72 672 97 HOH HOH . H 5 HOH A 73 673 158 HOH HOH . H 5 HOH A 74 674 57 HOH HOH . H 5 HOH A 75 675 28 HOH HOH . H 5 HOH A 76 676 42 HOH HOH . H 5 HOH A 77 677 24 HOH HOH . H 5 HOH A 78 678 27 HOH HOH . H 5 HOH A 79 679 81 HOH HOH . H 5 HOH A 80 680 110 HOH HOH . H 5 HOH A 81 681 22 HOH HOH . H 5 HOH A 82 682 13 HOH HOH . H 5 HOH A 83 683 34 HOH HOH . H 5 HOH A 84 684 9 HOH HOH . H 5 HOH A 85 685 143 HOH HOH . H 5 HOH A 86 686 56 HOH HOH . H 5 HOH A 87 687 70 HOH HOH . H 5 HOH A 88 688 21 HOH HOH . H 5 HOH A 89 689 11 HOH HOH . H 5 HOH A 90 690 123 HOH HOH . H 5 HOH A 91 691 127 HOH HOH . H 5 HOH A 92 692 177 HOH HOH . H 5 HOH A 93 693 60 HOH HOH . H 5 HOH A 94 694 175 HOH HOH . H 5 HOH A 95 695 76 HOH HOH . H 5 HOH A 96 696 104 HOH HOH . H 5 HOH A 97 697 41 HOH HOH . H 5 HOH A 98 698 84 HOH HOH . H 5 HOH A 99 699 64 HOH HOH . H 5 HOH A 100 700 103 HOH HOH . H 5 HOH A 101 701 91 HOH HOH . H 5 HOH A 102 702 164 HOH HOH . H 5 HOH A 103 703 157 HOH HOH . H 5 HOH A 104 704 53 HOH HOH . H 5 HOH A 105 705 83 HOH HOH . H 5 HOH A 106 706 137 HOH HOH . H 5 HOH A 107 707 71 HOH HOH . H 5 HOH A 108 708 113 HOH HOH . H 5 HOH A 109 709 20 HOH HOH . H 5 HOH A 110 710 43 HOH HOH . H 5 HOH A 111 711 75 HOH HOH . H 5 HOH A 112 712 31 HOH HOH . H 5 HOH A 113 713 124 HOH HOH . H 5 HOH A 114 714 119 HOH HOH . H 5 HOH A 115 715 8 HOH HOH . H 5 HOH A 116 716 107 HOH HOH . H 5 HOH A 117 717 171 HOH HOH . H 5 HOH A 118 718 72 HOH HOH . H 5 HOH A 119 719 136 HOH HOH . H 5 HOH A 120 720 134 HOH HOH . H 5 HOH A 121 721 172 HOH HOH . H 5 HOH A 122 722 178 HOH HOH . H 5 HOH A 123 723 79 HOH HOH . H 5 HOH A 124 724 151 HOH HOH . H 5 HOH A 125 725 152 HOH HOH . H 5 HOH A 126 726 126 HOH HOH . H 5 HOH A 127 727 68 HOH HOH . H 5 HOH A 128 728 30 HOH HOH . H 5 HOH A 129 729 26 HOH HOH . H 5 HOH A 130 730 147 HOH HOH . H 5 HOH A 131 731 133 HOH HOH . H 5 HOH A 132 732 82 HOH HOH . H 5 HOH A 133 733 168 HOH HOH . H 5 HOH A 134 734 101 HOH HOH . H 5 HOH A 135 735 132 HOH HOH . H 5 HOH A 136 736 160 HOH HOH . H 5 HOH A 137 737 139 HOH HOH . H 5 HOH A 138 738 166 HOH HOH . H 5 HOH A 139 739 169 HOH HOH . H 5 HOH A 140 740 69 HOH HOH . H 5 HOH A 141 741 129 HOH HOH . H 5 HOH A 142 742 109 HOH HOH . H 5 HOH A 143 743 176 HOH HOH . H 5 HOH A 144 744 153 HOH HOH . H 5 HOH A 145 745 108 HOH HOH . H 5 HOH A 146 746 122 HOH HOH . H 5 HOH A 147 747 141 HOH HOH . H 5 HOH A 148 748 163 HOH HOH . H 5 HOH A 149 749 142 HOH HOH . H 5 HOH A 150 750 63 HOH HOH . H 5 HOH A 151 751 165 HOH HOH . H 5 HOH A 152 752 180 HOH HOH . H 5 HOH A 153 753 167 HOH HOH . H 5 HOH A 154 754 174 HOH HOH . H 5 HOH A 155 755 131 HOH HOH . H 5 HOH A 156 756 55 HOH HOH . H 5 HOH A 157 757 115 HOH HOH . H 5 HOH A 158 758 78 HOH HOH . H 5 HOH A 159 759 135 HOH HOH . H 5 HOH A 160 760 29 HOH HOH . H 5 HOH A 161 761 146 HOH HOH . H 5 HOH A 162 762 51 HOH HOH . H 5 HOH A 163 763 161 HOH HOH . H 5 HOH A 164 764 148 HOH HOH . H 5 HOH A 165 765 80 HOH HOH . H 5 HOH A 166 766 87 HOH HOH . H 5 HOH A 167 767 90 HOH HOH . H 5 HOH A 168 768 118 HOH HOH . H 5 HOH A 169 769 58 HOH HOH . H 5 HOH A 170 770 173 HOH HOH . H 5 HOH A 171 771 144 HOH HOH . H 5 HOH A 172 772 150 HOH HOH . H 5 HOH A 173 773 62 HOH HOH . H 5 HOH A 174 774 52 HOH HOH . H 5 HOH A 175 775 145 HOH HOH . H 5 HOH A 176 776 162 HOH HOH . H 5 HOH A 177 777 128 HOH HOH . H 5 HOH A 178 778 54 HOH HOH . H 5 HOH A 179 779 130 HOH HOH . H 5 HOH A 180 780 156 HOH HOH . H 5 HOH A 181 781 138 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 MAN . . . D 2 -4.11 56.902 30.655 0.77 89.94 ? C1 MAN 503 A 1 HETATM 2 C C2 MAN . . . D 2 -4.644 57.123 29.231 0.77 67.96 ? C2 MAN 503 A 1 HETATM 3 C C3 MAN . . . D 2 -6.188 57.579 29.228 0.77 65.67 ? C3 MAN 503 A 1 HETATM 4 C C4 MAN . . . D 2 -6.597 58.542 30.386 0.77 83.35 ? C4 MAN 503 A 1 HETATM 5 C C5 MAN . . . D 2 -5.299 59.086 31.113 0.77 70.22 ? C5 MAN 503 A 1 HETATM 6 C C6 MAN . . . D 2 -5.501 60.027 32.37 0.77 66.09 ? C6 MAN 503 A 1 HETATM 7 O O1 MAN . . . D 2 -2.658 56.524 30.6 0.77 77.78 ? O1 MAN 503 A 1 HETATM 8 O O2 MAN . . . D 2 -4.521 55.947 28.381 0.77 86.85 ? O2 MAN 503 A 1 HETATM 9 O O3 MAN . . . D 2 -7.11 56.459 29.111 0.77 101.74 ? O3 MAN 503 A 1 HETATM 10 O O4 MAN . . . D 2 -7.447 59.622 29.848 0.77 74.46 ? O4 MAN 503 A 1 HETATM 11 O O5 MAN . . . D 2 -4.426 57.991 31.551 0.77 78.14 ? O5 MAN 503 A 1 HETATM 12 O O6 MAN . . . D 2 -5.508 61.399 31.994 0.77 56.34 ? O6 MAN 503 A 1 # _model_server_stats.io_time_ms 16 _model_server_stats.parse_time_ms 14 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 324 _model_server_stats.encode_time_ms 51 _model_server_stats.element_count 12 #