data_7ODD # _model_server_result.job_id 5uKpRSUjo0lQICgpiYj-bw _model_server_result.datetime_utc '2024-10-15 11:20:23' _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 7odd # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":604}' # _entry.id 7ODD # _exptl.entry_id 7ODD _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 179.171 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description N-[1,3-dihydroxy-2-(hydroxymethyl)propan-2-yl]glycine _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 99.694 _cell.angle_gamma 90 _cell.entry_id 7ODD _cell.length_a 66.057 _cell.length_b 49.073 _cell.length_c 87.271 _cell.Z_PDB 2 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7ODD _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall 'P 2yb' _symmetry.space_group_name_H-M 'P 1 21 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,I _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 3 _struct_asym.id E _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 metalc ? metalc1 A OD1 ASP 10 A ASP 10 1_555 G K K . A K 606 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.592 ? metalc ? metalc2 A O LEU 11 A LEU 11 1_555 G K K . A K 606 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.16 ? metalc ? metalc3 A O THR 145 A THR 145 1_555 G K K . A K 606 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.998 ? metalc ? metalc4 A OG1 THR 145 A THR 145 1_555 G K K . A K 606 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.573 ? metalc ? metalc5 A OE1 GLU 175 A GLU 175 1_555 G K K . A K 606 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.706 ? metalc ? metalc6 A OD2 ASP 199 A ASP 199 1_555 H K K . A K 607 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.131 ? metalc ? metalc7 A O THR 204 A THR 204 1_555 H K K . A K 607 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.446 ? metalc ? metalc8 A OG1 THR 204 A THR 204 1_555 H K K . A K 607 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.166 ? metalc ? metalc9 A OD2 ASP 206 A ASP 206 1_555 H K K . A K 607 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.854 ? # _chem_comp.formula 'C6 H13 N O5' _chem_comp.formula_weight 179.171 _chem_comp.id VLS _chem_comp.mon_nstd_flag . _chem_comp.name N-[1,3-dihydroxy-2-(hydroxymethyl)propan-2-yl]glycine _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # 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 O12 C10 VLS doub 422 n n O11 C10 VLS sing 423 n n O05 C04 VLS sing 424 n n C10 C09 VLS sing 425 n n C09 N08 VLS sing 426 n n C04 C03 VLS sing 427 n n N08 C03 VLS sing 428 n n C03 C02 VLS sing 429 n n C03 C06 VLS sing 430 n n C02 O01 VLS sing 431 n n C06 O07 VLS sing 432 n n C02 H1 VLS sing 433 n n C02 H2 VLS sing 434 n n C04 H3 VLS sing 435 n n C04 H4 VLS sing 436 n n C06 H5 VLS sing 437 n n C06 H6 VLS sing 438 n n C09 H7 VLS sing 439 n n C09 H8 VLS sing 440 n n N08 H9 VLS sing 441 n n O01 H11 VLS sing 442 n n O05 H12 VLS sing 443 n n O07 H13 VLS sing 444 n n O11 H14 VLS sing 445 n n # _atom_sites.entry_id 7ODD _atom_sites.fract_transf_matrix[1][1] 0.015138 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.002586 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.020378 _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] 0.011625 _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 GOL A 1 601 601 GOL GOL . C 2 GOL A 1 602 701 GOL GOL . D 2 GOL A 1 603 801 GOL GOL . E 3 VLS A 1 604 802 VLS TRC . F 4 EPE A 1 605 1 EPE EPE . G 5 K A 1 606 1 K K . H 5 K A 1 607 2 K K . I 6 HOH A 1 701 148 HOH HOH . I 6 HOH A 2 702 151 HOH HOH . I 6 HOH A 3 703 127 HOH HOH . I 6 HOH A 4 704 129 HOH HOH . I 6 HOH A 5 705 53 HOH HOH . I 6 HOH A 6 706 4 HOH HOH . I 6 HOH A 7 707 54 HOH HOH . I 6 HOH A 8 708 131 HOH HOH . I 6 HOH A 9 709 10 HOH HOH . I 6 HOH A 10 710 18 HOH HOH . I 6 HOH A 11 711 15 HOH HOH . I 6 HOH A 12 712 19 HOH HOH . I 6 HOH A 13 713 9 HOH HOH . I 6 HOH A 14 714 109 HOH HOH . I 6 HOH A 15 715 144 HOH HOH . I 6 HOH A 16 716 46 HOH HOH . I 6 HOH A 17 717 122 HOH HOH . I 6 HOH A 18 718 22 HOH HOH . I 6 HOH A 19 719 147 HOH HOH . I 6 HOH A 20 720 134 HOH HOH . I 6 HOH A 21 721 65 HOH HOH . I 6 HOH A 22 722 133 HOH HOH . I 6 HOH A 23 723 142 HOH HOH . I 6 HOH A 24 724 103 HOH HOH . I 6 HOH A 25 725 11 HOH HOH . I 6 HOH A 26 726 35 HOH HOH . I 6 HOH A 27 727 95 HOH HOH . I 6 HOH A 28 728 149 HOH HOH . I 6 HOH A 29 729 59 HOH HOH . I 6 HOH A 30 730 6 HOH HOH . I 6 HOH A 31 731 132 HOH HOH . I 6 HOH A 32 732 88 HOH HOH . I 6 HOH A 33 733 3 HOH HOH . I 6 HOH A 34 734 104 HOH HOH . I 6 HOH A 35 735 13 HOH HOH . I 6 HOH A 36 736 116 HOH HOH . I 6 HOH A 37 737 16 HOH HOH . I 6 HOH A 38 738 58 HOH HOH . I 6 HOH A 39 739 117 HOH HOH . I 6 HOH A 40 740 8 HOH HOH . I 6 HOH A 41 741 57 HOH HOH . I 6 HOH A 42 742 21 HOH HOH . I 6 HOH A 43 743 2 HOH HOH . I 6 HOH A 44 744 28 HOH HOH . I 6 HOH A 45 745 105 HOH HOH . I 6 HOH A 46 746 68 HOH HOH . I 6 HOH A 47 747 106 HOH HOH . I 6 HOH A 48 748 26 HOH HOH . I 6 HOH A 49 749 89 HOH HOH . I 6 HOH A 50 750 36 HOH HOH . I 6 HOH A 51 751 124 HOH HOH . I 6 HOH A 52 752 135 HOH HOH . I 6 HOH A 53 753 130 HOH HOH . I 6 HOH A 54 754 27 HOH HOH . I 6 HOH A 55 755 43 HOH HOH . I 6 HOH A 56 756 25 HOH HOH . I 6 HOH A 57 757 79 HOH HOH . I 6 HOH A 58 758 1 HOH HOH . I 6 HOH A 59 759 100 HOH HOH . I 6 HOH A 60 760 14 HOH HOH . I 6 HOH A 61 761 71 HOH HOH . I 6 HOH A 62 762 66 HOH HOH . I 6 HOH A 63 763 40 HOH HOH . I 6 HOH A 64 764 20 HOH HOH . I 6 HOH A 65 765 110 HOH HOH . I 6 HOH A 66 766 45 HOH HOH . I 6 HOH A 67 767 29 HOH HOH . I 6 HOH A 68 768 41 HOH HOH . I 6 HOH A 69 769 12 HOH HOH . I 6 HOH A 70 770 63 HOH HOH . I 6 HOH A 71 771 85 HOH HOH . I 6 HOH A 72 772 84 HOH HOH . I 6 HOH A 73 773 32 HOH HOH . I 6 HOH A 74 774 62 HOH HOH . I 6 HOH A 75 775 7 HOH HOH . I 6 HOH A 76 776 50 HOH HOH . I 6 HOH A 77 777 47 HOH HOH . I 6 HOH A 78 778 120 HOH HOH . I 6 HOH A 79 779 44 HOH HOH . I 6 HOH A 80 780 38 HOH HOH . I 6 HOH A 81 781 78 HOH HOH . I 6 HOH A 82 782 48 HOH HOH . I 6 HOH A 83 783 52 HOH HOH . I 6 HOH A 84 784 102 HOH HOH . I 6 HOH A 85 785 72 HOH HOH . I 6 HOH A 86 786 39 HOH HOH . I 6 HOH A 87 787 87 HOH HOH . I 6 HOH A 88 788 42 HOH HOH . I 6 HOH A 89 789 51 HOH HOH . I 6 HOH A 90 790 94 HOH HOH . I 6 HOH A 91 791 5 HOH HOH . I 6 HOH A 92 792 107 HOH HOH . I 6 HOH A 93 793 37 HOH HOH . I 6 HOH A 94 794 67 HOH HOH . I 6 HOH A 95 795 33 HOH HOH . I 6 HOH A 96 796 111 HOH HOH . I 6 HOH A 97 797 56 HOH HOH . I 6 HOH A 98 798 17 HOH HOH . I 6 HOH A 99 799 101 HOH HOH . I 6 HOH A 100 800 121 HOH HOH . I 6 HOH A 101 801 138 HOH HOH . I 6 HOH A 102 802 137 HOH HOH . I 6 HOH A 103 803 64 HOH HOH . I 6 HOH A 104 804 91 HOH HOH . I 6 HOH A 105 805 60 HOH HOH . I 6 HOH A 106 806 80 HOH HOH . I 6 HOH A 107 807 31 HOH HOH . I 6 HOH A 108 808 34 HOH HOH . I 6 HOH A 109 809 74 HOH HOH . I 6 HOH A 110 810 118 HOH HOH . I 6 HOH A 111 811 75 HOH HOH . I 6 HOH A 112 812 115 HOH HOH . I 6 HOH A 113 813 61 HOH HOH . I 6 HOH A 114 814 86 HOH HOH . I 6 HOH A 115 815 98 HOH HOH . I 6 HOH A 116 816 145 HOH HOH . I 6 HOH A 117 817 83 HOH HOH . I 6 HOH A 118 818 125 HOH HOH . I 6 HOH A 119 819 70 HOH HOH . I 6 HOH A 120 820 24 HOH HOH . I 6 HOH A 121 821 23 HOH HOH . I 6 HOH A 122 822 126 HOH HOH . I 6 HOH A 123 823 139 HOH HOH . I 6 HOH A 124 824 69 HOH HOH . I 6 HOH A 125 825 99 HOH HOH . I 6 HOH A 126 826 30 HOH HOH . I 6 HOH A 127 827 49 HOH HOH . I 6 HOH A 128 828 112 HOH HOH . I 6 HOH A 129 829 90 HOH HOH . I 6 HOH A 130 830 76 HOH HOH . I 6 HOH A 131 831 119 HOH HOH . I 6 HOH A 132 832 143 HOH HOH . I 6 HOH A 133 833 146 HOH HOH . I 6 HOH A 134 834 93 HOH HOH . I 6 HOH A 135 835 97 HOH HOH . I 6 HOH A 136 836 92 HOH HOH . I 6 HOH A 137 837 123 HOH HOH . I 6 HOH A 138 838 136 HOH HOH . I 6 HOH A 139 839 108 HOH HOH . I 6 HOH A 140 840 150 HOH HOH . I 6 HOH A 141 841 81 HOH HOH . I 6 HOH A 142 842 114 HOH HOH . I 6 HOH A 143 843 113 HOH HOH . I 6 HOH A 144 844 82 HOH HOH . I 6 HOH A 145 845 141 HOH HOH . I 6 HOH A 146 846 77 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 C10 VLS . A . E 3 -13.564 -13.368 -16.904 0.5 78.36 ? C10 VLS 604 A 1 HETATM 2 C C10 VLS . B . E 3 -13.554 -13.36 -16.937 0.5 78.38 ? C10 VLS 604 A 1 HETATM 3 C C02 VLS . A . E 3 -14.822 -9.828 -16.179 0.5 78.26 ? C02 VLS 604 A 1 HETATM 4 C C02 VLS . B . E 3 -14.804 -9.797 -16.207 0.5 78.28 ? C02 VLS 604 A 1 HETATM 5 C C03 VLS . A . E 3 -13.326 -10.102 -16.385 0.5 78.21 ? C03 VLS 604 A 1 HETATM 6 C C03 VLS . B . E 3 -13.31 -10.115 -16.378 0.5 78.23 ? C03 VLS 604 A 1 HETATM 7 C C04 VLS . A . E 3 -12.57 -8.799 -16.668 0.5 70.39 ? C04 VLS 604 A 1 HETATM 8 C C04 VLS . B . E 3 -12.488 -8.832 -16.555 0.5 70.7 ? C04 VLS 604 A 1 HETATM 9 C C06 VLS . A . E 3 -12.744 -10.658 -15.078 0.5 78.21 ? C06 VLS 604 A 1 HETATM 10 C C06 VLS . B . E 3 -12.81 -10.731 -15.065 0.5 78.3 ? C06 VLS 604 A 1 HETATM 11 C C09 VLS . A . E 3 -14.113 -12.102 -17.572 0.5 77.55 ? C09 VLS 604 A 1 HETATM 12 C C09 VLS . B . E 3 -14.083 -12.091 -17.617 0.5 77.5 ? C09 VLS 604 A 1 HETATM 13 N N08 VLS . A . E 3 -13.115 -11.042 -17.506 0.5 78 ? N08 VLS 604 A 1 HETATM 14 N N08 VLS . B . E 3 -13.09 -11.028 -17.519 0.5 77.99 ? N08 VLS 604 A 1 HETATM 15 O O01 VLS . A . E 3 -15.304 -9.082 -17.261 0.5 78.01 ? O01 VLS 604 A 1 HETATM 16 O O01 VLS . B . E 3 -15.252 -9.049 -17.301 0.5 78.11 ? O01 VLS 604 A 1 HETATM 17 O O05 VLS . A . E 3 -11.37 -9.158 -17.295 0.5 57.2 ? O05 VLS 604 A 1 HETATM 18 O O05 VLS . B . E 3 -11.779 -8.66 -15.355 0.5 61.81 ? O05 VLS 604 A 1 HETATM 19 O O07 VLS . A . E 3 -13.815 -11.257 -14.41 0.5 80.25 ? O07 VLS 604 A 1 HETATM 20 O O07 VLS . B . E 3 -13.938 -11.291 -14.463 0.5 79.65 ? O07 VLS 604 A 1 HETATM 21 O O11 VLS . A . E 3 -14.348 -14.135 -16.316 0.5 77.55 ? O11 VLS 604 A 1 HETATM 22 O O11 VLS . B . E 3 -14.349 -14.1 -16.328 0.5 77.52 ? O11 VLS 604 A 1 HETATM 23 O O12 VLS . A . E 3 -12.336 -13.62 -16.932 0.5 78.87 ? O12 VLS 604 A 1 HETATM 24 O O12 VLS . B . E 3 -12.333 -13.639 -16.971 0.5 79.05 ? O12 VLS 604 A 1 # _model_server_stats.io_time_ms 31 _model_server_stats.parse_time_ms 14 _model_server_stats.create_model_time_ms 20 _model_server_stats.query_time_ms 309 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 24 #