data_7MDC # _model_server_result.job_id iIGBqFVh0B2EIwuEcvgG2Q _model_server_result.datetime_utc '2024-11-23 03:42:45' _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 7mdc # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"J","auth_seq_id":609}' # _entry.id 7MDC # _exptl.entry_id 7MDC _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 230.069 _entity.id 5 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '[(1S)-3-amino-1-(hexanoylamino)-3-oxopropyl]boronic acid' _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 7MDC _cell.length_a 96.718 _cell.length_b 96.718 _cell.length_c 183.382 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7MDC _symmetry.cell_setting ? _symmetry.Int_Tables_number 94 _symmetry.space_group_name_Hall 'P 4n 2n' _symmetry.space_group_name_H-M 'P 42 21 2' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _pdbx_struct_assembly.details author_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 J _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 307 A CYS 337 1_555 A SG CYS 333 A CYS 363 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.075 ? covale ? covale1 A OG SER 65 A SER 95 1_555 J B13 YX7 . A YX7 609 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? # _chem_comp.formula 'C9 H19 B N2 O4' _chem_comp.formula_weight 230.069 _chem_comp.id YX7 _chem_comp.mon_nstd_flag . _chem_comp.name '[(1S)-3-amino-1-(hexanoylamino)-3-oxopropyl]boronic acid' _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 O14 B13 YX7 sing 512 n n B13 O22 YX7 sing 513 n n B13 C08 YX7 sing 514 n n C09 C08 YX7 sing 515 n n C09 C10 YX7 sing 516 n n C08 N07 YX7 sing 517 n n C10 O12 YX7 doub 518 n n C10 N11 YX7 sing 519 n n N07 C06 YX7 sing 520 n n O23 C06 YX7 doub 521 n n C06 C05 YX7 sing 522 n n C05 C04 YX7 sing 523 n n C04 C03 YX7 sing 524 n n C03 C02 YX7 sing 525 n n C02 C01 YX7 sing 526 n n C01 H1 YX7 sing 527 n n C01 H2 YX7 sing 528 n n C01 H3 YX7 sing 529 n n C02 H4 YX7 sing 530 n n C02 H5 YX7 sing 531 n n C03 H6 YX7 sing 532 n n C03 H7 YX7 sing 533 n n C04 H8 YX7 sing 534 n n C04 H9 YX7 sing 535 n n C05 H10 YX7 sing 536 n n C05 H11 YX7 sing 537 n n N07 H12 YX7 sing 538 n n C08 H13 YX7 sing 539 n n C09 H14 YX7 sing 540 n n C09 H15 YX7 sing 541 n n N11 H16 YX7 sing 542 n n N11 H17 YX7 sing 543 n n O14 H18 YX7 sing 544 n n O22 H19 YX7 sing 545 n n # _atom_sites.entry_id 7MDC _atom_sites.fract_transf_matrix[1][1] 0.010339 _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] 0.010339 _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] 0.005453 _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 2PE A 1 601 711 2PE 2PE . C 3 DMS A 1 602 811 DMS DMS . D 2 2PE A 1 603 911 2PE 2PE . E 2 2PE A 1 604 1011 2PE 2PE . F 2 2PE A 1 605 1111 2PE 2PE . G 2 2PE A 1 606 1211 2PE 2PE . H 2 2PE A 1 607 1311 2PE 2PE . I 4 97N A 1 608 1411 97N 97N . J 5 YX7 A 1 609 1412 YX7 BR3 . K 6 SO4 A 1 610 6 SO4 SO4 . L 2 2PE A 1 611 1 2PE 2PE . M 7 CL A 1 612 1 CL CL . N 7 CL A 1 613 2 CL CL . O 7 CL A 1 614 3 CL CL . P 8 HOH A 1 701 136 HOH HOH . P 8 HOH A 2 702 30 HOH HOH . P 8 HOH A 3 703 252 HOH HOH . P 8 HOH A 4 704 85 HOH HOH . P 8 HOH A 5 705 106 HOH HOH . P 8 HOH A 6 706 215 HOH HOH . P 8 HOH A 7 707 145 HOH HOH . P 8 HOH A 8 708 95 HOH HOH . P 8 HOH A 9 709 42 HOH HOH . P 8 HOH A 10 710 103 HOH HOH . P 8 HOH A 11 711 190 HOH HOH . P 8 HOH A 12 712 28 HOH HOH . P 8 HOH A 13 713 114 HOH HOH . P 8 HOH A 14 714 266 HOH HOH . P 8 HOH A 15 715 144 HOH HOH . P 8 HOH A 16 716 210 HOH HOH . P 8 HOH A 17 717 204 HOH HOH . P 8 HOH A 18 718 174 HOH HOH . P 8 HOH A 19 719 65 HOH HOH . P 8 HOH A 20 720 43 HOH HOH . P 8 HOH A 21 721 104 HOH HOH . P 8 HOH A 22 722 89 HOH HOH . P 8 HOH A 23 723 138 HOH HOH . P 8 HOH A 24 724 141 HOH HOH . P 8 HOH A 25 725 9 HOH HOH . P 8 HOH A 26 726 31 HOH HOH . P 8 HOH A 27 727 98 HOH HOH . P 8 HOH A 28 728 75 HOH HOH . P 8 HOH A 29 729 140 HOH HOH . P 8 HOH A 30 730 3 HOH HOH . P 8 HOH A 31 731 57 HOH HOH . P 8 HOH A 32 732 267 HOH HOH . P 8 HOH A 33 733 122 HOH HOH . P 8 HOH A 34 734 26 HOH HOH . P 8 HOH A 35 735 233 HOH HOH . P 8 HOH A 36 736 96 HOH HOH . P 8 HOH A 37 737 268 HOH HOH . P 8 HOH A 38 738 32 HOH HOH . P 8 HOH A 39 739 20 HOH HOH . P 8 HOH A 40 740 189 HOH HOH . P 8 HOH A 41 741 97 HOH HOH . P 8 HOH A 42 742 132 HOH HOH . P 8 HOH A 43 743 143 HOH HOH . P 8 HOH A 44 744 123 HOH HOH . P 8 HOH A 45 745 196 HOH HOH . P 8 HOH A 46 746 275 HOH HOH . P 8 HOH A 47 747 147 HOH HOH . P 8 HOH A 48 748 105 HOH HOH . P 8 HOH A 49 749 4 HOH HOH . P 8 HOH A 50 750 87 HOH HOH . P 8 HOH A 51 751 213 HOH HOH . P 8 HOH A 52 752 273 HOH HOH . P 8 HOH A 53 753 235 HOH HOH . P 8 HOH A 54 754 227 HOH HOH . P 8 HOH A 55 755 102 HOH HOH . P 8 HOH A 56 756 125 HOH HOH . P 8 HOH A 57 757 186 HOH HOH . P 8 HOH A 58 758 100 HOH HOH . P 8 HOH A 59 759 19 HOH HOH . P 8 HOH A 60 760 33 HOH HOH . P 8 HOH A 61 761 239 HOH HOH . P 8 HOH A 62 762 164 HOH HOH . P 8 HOH A 63 763 35 HOH HOH . P 8 HOH A 64 764 110 HOH HOH . P 8 HOH A 65 765 194 HOH HOH . P 8 HOH A 66 766 1 HOH HOH . P 8 HOH A 67 767 7 HOH HOH . P 8 HOH A 68 768 39 HOH HOH . P 8 HOH A 69 769 10 HOH HOH . P 8 HOH A 70 770 261 HOH HOH . P 8 HOH A 71 771 61 HOH HOH . P 8 HOH A 72 772 81 HOH HOH . P 8 HOH A 73 773 274 HOH HOH . P 8 HOH A 74 774 269 HOH HOH . P 8 HOH A 75 775 8 HOH HOH . P 8 HOH A 76 776 276 HOH HOH . P 8 HOH A 77 777 134 HOH HOH . P 8 HOH A 78 778 112 HOH HOH . P 8 HOH A 79 779 38 HOH HOH . P 8 HOH A 80 780 248 HOH HOH . P 8 HOH A 81 781 197 HOH HOH . P 8 HOH A 82 782 277 HOH HOH . P 8 HOH A 83 783 71 HOH HOH . P 8 HOH A 84 784 128 HOH HOH . P 8 HOH A 85 785 212 HOH HOH . P 8 HOH A 86 786 27 HOH HOH . P 8 HOH A 87 787 229 HOH HOH . P 8 HOH A 88 788 179 HOH HOH . P 8 HOH A 89 789 131 HOH HOH . P 8 HOH A 90 790 56 HOH HOH . P 8 HOH A 91 791 142 HOH HOH . P 8 HOH A 92 792 36 HOH HOH . P 8 HOH A 93 793 54 HOH HOH . P 8 HOH A 94 794 91 HOH HOH . P 8 HOH A 95 795 15 HOH HOH . P 8 HOH A 96 796 272 HOH HOH . P 8 HOH A 97 797 124 HOH HOH . P 8 HOH A 98 798 278 HOH HOH . P 8 HOH A 99 799 130 HOH HOH . P 8 HOH A 100 800 135 HOH HOH . P 8 HOH A 101 801 50 HOH HOH . P 8 HOH A 102 802 263 HOH HOH . P 8 HOH A 103 803 129 HOH HOH . P 8 HOH A 104 804 11 HOH HOH . P 8 HOH A 105 805 180 HOH HOH . P 8 HOH A 106 806 53 HOH HOH . P 8 HOH A 107 807 199 HOH HOH . P 8 HOH A 108 808 80 HOH HOH . P 8 HOH A 109 809 279 HOH HOH . P 8 HOH A 110 810 2 HOH HOH . P 8 HOH A 111 811 12 HOH HOH . P 8 HOH A 112 812 59 HOH HOH . P 8 HOH A 113 813 155 HOH HOH . P 8 HOH A 114 814 86 HOH HOH . P 8 HOH A 115 815 77 HOH HOH . P 8 HOH A 116 816 120 HOH HOH . P 8 HOH A 117 817 83 HOH HOH . P 8 HOH A 118 818 82 HOH HOH . P 8 HOH A 119 819 79 HOH HOH . P 8 HOH A 120 820 257 HOH HOH . P 8 HOH A 121 821 84 HOH HOH . P 8 HOH A 122 822 170 HOH HOH . P 8 HOH A 123 823 108 HOH HOH . P 8 HOH A 124 824 231 HOH HOH . P 8 HOH A 125 825 228 HOH HOH . P 8 HOH A 126 826 69 HOH HOH . P 8 HOH A 127 827 60 HOH HOH . P 8 HOH A 128 828 271 HOH HOH . P 8 HOH A 129 829 72 HOH HOH . P 8 HOH A 130 830 68 HOH HOH . P 8 HOH A 131 831 67 HOH HOH . P 8 HOH A 132 832 78 HOH HOH . P 8 HOH A 133 833 107 HOH HOH . P 8 HOH A 134 834 187 HOH HOH . P 8 HOH A 135 835 211 HOH HOH . P 8 HOH A 136 836 264 HOH HOH . P 8 HOH A 137 837 127 HOH HOH . P 8 HOH A 138 838 99 HOH HOH . P 8 HOH A 139 839 234 HOH HOH . P 8 HOH A 140 840 203 HOH HOH . P 8 HOH A 141 841 200 HOH HOH . P 8 HOH A 142 842 280 HOH HOH . P 8 HOH A 143 843 137 HOH HOH . P 8 HOH A 144 844 237 HOH HOH . P 8 HOH A 145 845 34 HOH HOH . P 8 HOH A 146 846 133 HOH HOH . P 8 HOH A 147 847 260 HOH HOH . P 8 HOH A 148 848 254 HOH HOH . P 8 HOH A 149 849 258 HOH HOH . P 8 HOH A 150 850 270 HOH HOH . P 8 HOH A 151 851 214 HOH HOH . P 8 HOH A 152 852 52 HOH HOH . P 8 HOH A 153 853 262 HOH HOH . P 8 HOH A 154 854 165 HOH HOH . P 8 HOH A 155 855 23 HOH HOH . P 8 HOH A 156 856 188 HOH HOH . P 8 HOH A 157 857 94 HOH HOH . P 8 HOH A 158 858 13 HOH HOH . P 8 HOH A 159 859 24 HOH HOH . P 8 HOH A 160 860 58 HOH HOH . P 8 HOH A 161 861 230 HOH HOH . P 8 HOH A 162 862 76 HOH HOH . P 8 HOH A 163 863 253 HOH HOH . P 8 HOH A 164 864 88 HOH HOH . P 8 HOH A 165 865 201 HOH HOH . P 8 HOH A 166 866 243 HOH HOH . P 8 HOH A 167 867 48 HOH HOH . P 8 HOH A 168 868 198 HOH HOH . P 8 HOH A 169 869 18 HOH HOH . P 8 HOH A 170 870 41 HOH HOH . P 8 HOH A 171 871 47 HOH HOH . P 8 HOH A 172 872 55 HOH HOH . P 8 HOH A 173 873 217 HOH HOH . P 8 HOH A 174 874 64 HOH HOH . P 8 HOH A 175 875 22 HOH HOH . P 8 HOH A 176 876 192 HOH HOH . P 8 HOH A 177 877 244 HOH HOH . P 8 HOH A 178 878 209 HOH HOH . P 8 HOH A 179 879 242 HOH HOH . P 8 HOH A 180 880 216 HOH HOH . P 8 HOH A 181 881 90 HOH HOH . P 8 HOH A 182 882 259 HOH HOH . P 8 HOH A 183 883 236 HOH HOH . P 8 HOH A 184 884 46 HOH HOH . P 8 HOH A 185 885 177 HOH HOH . P 8 HOH A 186 886 225 HOH HOH . P 8 HOH A 187 887 44 HOH HOH . P 8 HOH A 188 888 240 HOH HOH . P 8 HOH A 189 889 185 HOH HOH . P 8 HOH A 190 890 202 HOH HOH . P 8 HOH A 191 891 250 HOH HOH . P 8 HOH A 192 892 121 HOH HOH . P 8 HOH A 193 893 70 HOH HOH . P 8 HOH A 194 894 167 HOH HOH . P 8 HOH A 195 895 37 HOH HOH . P 8 HOH A 196 896 256 HOH HOH . P 8 HOH A 197 897 14 HOH HOH . P 8 HOH A 198 898 109 HOH HOH . P 8 HOH A 199 899 168 HOH HOH . P 8 HOH A 200 900 205 HOH HOH . P 8 HOH A 201 901 115 HOH HOH . P 8 HOH A 202 902 146 HOH HOH . P 8 HOH A 203 903 17 HOH HOH . P 8 HOH A 204 904 241 HOH HOH . P 8 HOH A 205 905 113 HOH HOH . P 8 HOH A 206 906 265 HOH HOH . P 8 HOH A 207 907 184 HOH HOH . P 8 HOH A 208 908 21 HOH HOH . P 8 HOH A 209 909 74 HOH HOH . P 8 HOH A 210 910 193 HOH HOH . P 8 HOH A 211 911 224 HOH HOH . P 8 HOH A 212 912 116 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 C01 YX7 . . . J 5 1.496 33.938 62.77 1 51.06 ? C01 YX7 609 A 1 HETATM 2 C C02 YX7 . . . J 5 1.102 33.178 61.511 1 43.9 ? C02 YX7 609 A 1 HETATM 3 C C03 YX7 . . . J 5 2.016 33.463 60.321 1 47.76 ? C03 YX7 609 A 1 HETATM 4 C C04 YX7 . . . J 5 1.412 32.937 59.018 1 43.05 ? C04 YX7 609 A 1 HETATM 5 C C05 YX7 . . . J 5 2.412 32.966 57.874 1 45.28 ? C05 YX7 609 A 1 HETATM 6 C C06 YX7 . . . J 5 1.88 32.275 56.627 1 47.32 ? C06 YX7 609 A 1 HETATM 7 N N07 YX7 . . . J 5 2.708 31.306 55.933 1 46.19 ? N07 YX7 609 A 1 HETATM 8 C C08 YX7 . . . J 5 2.253 30.624 54.734 1 41.02 ? C08 YX7 609 A 1 HETATM 9 C C09 YX7 . . . J 5 2.892 29.242 54.696 1 42.77 ? C09 YX7 609 A 1 HETATM 10 C C10 YX7 . . . J 5 2.489 28.323 55.85 1 43.47 ? C10 YX7 609 A 1 HETATM 11 N N11 YX7 . . . J 5 3.435 27.921 56.873 1 30.81 ? N11 YX7 609 A 1 HETATM 12 O O12 YX7 . . . J 5 1.37 27.942 55.913 1 45.67 ? O12 YX7 609 A 1 HETATM 13 O O14 YX7 . . . J 5 4.092 31.944 53.597 1 48.9 ? O14 YX7 609 A 1 HETATM 14 O O22 YX7 . . . J 5 1.691 32.583 53.438 1 39.37 ? O22 YX7 609 A 1 HETATM 15 O O23 YX7 . . . J 5 0.802 32.532 56.219 1 54.02 ? O23 YX7 609 A 1 HETATM 16 B B13 YX7 . . . J 5 2.672 31.469 53.479 1 49.66 ? B13 YX7 609 A 1 # _model_server_stats.io_time_ms 34 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 306 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 16 #