data_1PYY # _model_server_result.job_id eaD7yV2mVwj46jS4aCyT-Q _model_server_result.datetime_utc '2024-11-18 14:26:46' _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 1pyy # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":753}' # _entry.id 1PYY # _exptl.entry_id 1PYY _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 118.174 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description (4S)-2-METHYL-2,4-PENTANEDIOL _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 118.89 _cell.angle_gamma 90 _cell.entry_id 1PYY _cell.length_a 128.224 _cell.length_b 64.746 _cell.length_c 146.974 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1PYY _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 ? _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 _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 4 _struct_asym.id D _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _pdbx_entity_branch.entity_id 2 _pdbx_entity_branch.type oligosaccharide # _pdbx_entity_branch_link.link_id 1 _pdbx_entity_branch_link.details ? _pdbx_entity_branch_link.entity_id 2 _pdbx_entity_branch_link.entity_branch_list_num_1 1 _pdbx_entity_branch_link.entity_branch_list_num_2 2 _pdbx_entity_branch_link.comp_id_1 GLC _pdbx_entity_branch_link.comp_id_2 TRV _pdbx_entity_branch_link.atom_id_1 C1 _pdbx_entity_branch_link.leaving_atom_id_1 O1 _pdbx_entity_branch_link.atom_stereo_config_1 . _pdbx_entity_branch_link.atom_id_2 O2 _pdbx_entity_branch_link.leaving_atom_id_2 HO2 _pdbx_entity_branch_link.atom_stereo_config_2 . _pdbx_entity_branch_link.value_order sing # loop_ _pdbx_branch_scheme.entity_id _pdbx_branch_scheme.hetero _pdbx_branch_scheme.asym_id _pdbx_branch_scheme.mon_id _pdbx_branch_scheme.num _pdbx_branch_scheme.pdb_asym_id _pdbx_branch_scheme.pdb_seq_num _pdbx_branch_scheme.pdb_mon_id _pdbx_branch_scheme.auth_asym_id _pdbx_branch_scheme.auth_seq_num _pdbx_branch_scheme.auth_mon_id 2 n B GLC 1 B 1 GLC C 1 OSU 2 n B TRV 2 B 2 TRV C 1 OSU # _struct_conn.conn_type_id covale _struct_conn.details ? _struct_conn.id covale1 _struct_conn.ptnr1_label_asym_id B _struct_conn.ptnr1_label_atom_id C1 _struct_conn.ptnr1_label_comp_id GLC _struct_conn.ptnr1_label_seq_id . _struct_conn.ptnr1_auth_asym_id B _struct_conn.ptnr1_auth_comp_id GLC _struct_conn.ptnr1_auth_seq_id 1 _struct_conn.ptnr1_symmetry 1_555 _struct_conn.ptnr2_label_asym_id B _struct_conn.ptnr2_label_atom_id O2 _struct_conn.ptnr2_label_comp_id TRV _struct_conn.ptnr2_label_seq_id . _struct_conn.ptnr2_auth_asym_id B _struct_conn.ptnr2_auth_comp_id TRV _struct_conn.ptnr2_auth_seq_id 2 _struct_conn.ptnr2_symmetry 1_555 _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 1.459 _struct_conn.pdbx_value_order sing # _chem_comp.formula 'C6 H14 O2' _chem_comp.formula_weight 118.174 _chem_comp.id MPD _chem_comp.mon_nstd_flag . _chem_comp.name (4S)-2-METHYL-2,4-PENTANEDIOL _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 C1 C2 MPD sing 248 n n C1 H11 MPD sing 249 n n C1 H12 MPD sing 250 n n C1 H13 MPD sing 251 n n C2 O2 MPD sing 252 n n C2 CM MPD sing 253 n n C2 C3 MPD sing 254 n n O2 HO2 MPD sing 255 n n CM HM1 MPD sing 256 n n CM HM2 MPD sing 257 n n CM HM3 MPD sing 258 n n C3 C4 MPD sing 259 n n C3 H31 MPD sing 260 n n C3 H32 MPD sing 261 n n C4 O4 MPD sing 262 n n C4 C5 MPD sing 263 n n C4 H4 MPD sing 264 n n O4 HO4 MPD sing 265 n n C5 H51 MPD sing 266 n n C5 H52 MPD sing 267 n n C5 H53 MPD sing 268 n n # _atom_sites.entry_id 1PYY _atom_sites.fract_transf_matrix[1][1] 0.007799 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.004303 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.015445 _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] 0.007771 _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 C 3 SO4 A 1 751 1 SO4 SO4 . D 4 MPD A 1 753 2 MPD MPD . E 5 HOH A 1 754 1 HOH HOH . E 5 HOH A 2 755 2 HOH HOH . E 5 HOH A 3 756 3 HOH HOH . E 5 HOH A 4 757 4 HOH HOH . E 5 HOH A 5 758 5 HOH HOH . E 5 HOH A 6 759 6 HOH HOH . E 5 HOH A 7 760 7 HOH HOH . E 5 HOH A 8 761 8 HOH HOH . E 5 HOH A 9 762 9 HOH HOH . E 5 HOH A 10 763 10 HOH HOH . E 5 HOH A 11 764 11 HOH HOH . E 5 HOH A 12 765 12 HOH HOH . E 5 HOH A 13 766 13 HOH HOH . E 5 HOH A 14 767 14 HOH HOH . E 5 HOH A 15 768 15 HOH HOH . E 5 HOH A 16 769 16 HOH HOH . E 5 HOH A 17 770 17 HOH HOH . E 5 HOH A 18 771 18 HOH HOH . E 5 HOH A 19 772 19 HOH HOH . E 5 HOH A 20 773 20 HOH HOH . E 5 HOH A 21 774 21 HOH HOH . E 5 HOH A 22 775 22 HOH HOH . E 5 HOH A 23 776 23 HOH HOH . E 5 HOH A 24 777 24 HOH HOH . E 5 HOH A 25 778 25 HOH HOH . E 5 HOH A 26 779 26 HOH HOH . E 5 HOH A 27 780 27 HOH HOH . E 5 HOH A 28 781 28 HOH HOH . E 5 HOH A 29 782 29 HOH HOH . E 5 HOH A 30 783 30 HOH HOH . E 5 HOH A 31 784 31 HOH HOH . E 5 HOH A 32 785 32 HOH HOH . E 5 HOH A 33 786 33 HOH HOH . E 5 HOH A 34 787 34 HOH HOH . E 5 HOH A 35 788 35 HOH HOH . E 5 HOH A 36 789 36 HOH HOH . E 5 HOH A 37 790 37 HOH HOH . E 5 HOH A 38 791 38 HOH HOH . E 5 HOH A 39 792 39 HOH HOH . E 5 HOH A 40 793 40 HOH HOH . E 5 HOH A 41 794 41 HOH HOH . E 5 HOH A 42 795 42 HOH HOH . E 5 HOH A 43 796 43 HOH HOH . E 5 HOH A 44 797 44 HOH HOH . E 5 HOH A 45 798 45 HOH HOH . E 5 HOH A 46 799 46 HOH HOH . E 5 HOH A 47 800 47 HOH HOH . E 5 HOH A 48 801 48 HOH HOH . E 5 HOH A 49 802 49 HOH HOH . E 5 HOH A 50 803 50 HOH HOH . E 5 HOH A 51 804 51 HOH HOH . E 5 HOH A 52 805 52 HOH HOH . E 5 HOH A 53 806 53 HOH HOH . E 5 HOH A 54 807 54 HOH HOH . E 5 HOH A 55 808 55 HOH HOH . E 5 HOH A 56 809 56 HOH HOH . E 5 HOH A 57 810 57 HOH HOH . E 5 HOH A 58 811 58 HOH HOH . E 5 HOH A 59 812 59 HOH HOH . E 5 HOH A 60 813 60 HOH HOH . E 5 HOH A 61 814 61 HOH HOH . E 5 HOH A 62 815 62 HOH HOH . E 5 HOH A 63 816 63 HOH HOH . E 5 HOH A 64 817 64 HOH HOH . E 5 HOH A 65 818 65 HOH HOH . E 5 HOH A 66 819 66 HOH HOH . E 5 HOH A 67 820 67 HOH HOH . E 5 HOH A 68 821 68 HOH HOH . E 5 HOH A 69 822 69 HOH HOH . E 5 HOH A 70 823 70 HOH HOH . E 5 HOH A 71 824 71 HOH HOH . E 5 HOH A 72 825 72 HOH HOH . E 5 HOH A 73 826 73 HOH HOH . E 5 HOH A 74 827 74 HOH HOH . E 5 HOH A 75 828 75 HOH HOH . E 5 HOH A 76 829 76 HOH HOH . E 5 HOH A 77 830 77 HOH HOH . E 5 HOH A 78 831 78 HOH HOH . E 5 HOH A 79 832 79 HOH HOH . E 5 HOH A 80 833 80 HOH HOH . E 5 HOH A 81 834 81 HOH HOH . E 5 HOH A 82 835 82 HOH HOH . E 5 HOH A 83 836 83 HOH HOH . E 5 HOH A 84 837 84 HOH HOH . E 5 HOH A 85 838 85 HOH HOH . E 5 HOH A 86 839 86 HOH HOH . E 5 HOH A 87 840 87 HOH HOH . E 5 HOH A 88 841 88 HOH HOH . E 5 HOH A 89 842 89 HOH HOH . E 5 HOH A 90 843 90 HOH HOH . E 5 HOH A 91 844 91 HOH HOH . E 5 HOH A 92 845 92 HOH HOH . E 5 HOH A 93 846 93 HOH HOH . E 5 HOH A 94 847 94 HOH HOH . E 5 HOH A 95 848 95 HOH HOH . E 5 HOH A 96 849 96 HOH HOH . E 5 HOH A 97 850 97 HOH HOH . E 5 HOH A 98 851 98 HOH HOH . E 5 HOH A 99 852 99 HOH HOH . E 5 HOH A 100 853 100 HOH HOH . E 5 HOH A 101 854 101 HOH HOH . E 5 HOH A 102 855 102 HOH HOH . E 5 HOH A 103 856 103 HOH HOH . E 5 HOH A 104 857 104 HOH HOH . E 5 HOH A 105 858 105 HOH HOH . E 5 HOH A 106 859 106 HOH HOH . E 5 HOH A 107 860 107 HOH HOH . E 5 HOH A 108 861 108 HOH HOH . E 5 HOH A 109 862 109 HOH HOH . E 5 HOH A 110 863 110 HOH HOH . E 5 HOH A 111 864 111 HOH HOH . E 5 HOH A 112 865 112 HOH HOH . E 5 HOH A 113 866 113 HOH HOH . E 5 HOH A 114 867 114 HOH HOH . E 5 HOH A 115 868 115 HOH HOH . E 5 HOH A 116 869 116 HOH HOH . E 5 HOH A 117 870 117 HOH HOH . E 5 HOH A 118 871 118 HOH HOH . E 5 HOH A 119 872 119 HOH HOH . E 5 HOH A 120 873 120 HOH HOH . E 5 HOH A 121 874 121 HOH HOH . E 5 HOH A 122 875 122 HOH HOH . E 5 HOH A 123 876 123 HOH HOH . E 5 HOH A 124 877 124 HOH HOH . E 5 HOH A 125 878 125 HOH HOH . E 5 HOH A 126 879 126 HOH HOH . E 5 HOH A 127 880 127 HOH HOH . E 5 HOH A 128 881 128 HOH HOH . E 5 HOH A 129 882 129 HOH HOH . E 5 HOH A 130 883 130 HOH HOH . E 5 HOH A 131 884 131 HOH HOH . E 5 HOH A 132 885 132 HOH HOH . E 5 HOH A 133 886 133 HOH HOH . E 5 HOH A 134 887 134 HOH HOH . E 5 HOH A 135 888 135 HOH HOH . E 5 HOH A 136 889 136 HOH HOH . E 5 HOH A 137 890 137 HOH HOH . E 5 HOH A 138 891 138 HOH HOH . E 5 HOH A 139 892 139 HOH HOH . E 5 HOH A 140 893 140 HOH HOH . E 5 HOH A 141 894 141 HOH HOH . E 5 HOH A 142 895 142 HOH HOH . E 5 HOH A 143 896 143 HOH HOH . E 5 HOH A 144 897 144 HOH HOH . E 5 HOH A 145 898 145 HOH HOH . E 5 HOH A 146 899 146 HOH HOH . E 5 HOH A 147 900 147 HOH HOH . E 5 HOH A 148 901 148 HOH HOH . E 5 HOH A 149 902 149 HOH HOH . E 5 HOH A 150 903 150 HOH HOH . E 5 HOH A 151 904 151 HOH HOH . E 5 HOH A 152 905 152 HOH HOH . E 5 HOH A 153 906 153 HOH HOH . E 5 HOH A 154 907 154 HOH HOH . E 5 HOH A 155 908 155 HOH HOH . E 5 HOH A 156 909 156 HOH HOH . E 5 HOH A 157 910 157 HOH HOH . E 5 HOH A 158 911 158 HOH HOH . E 5 HOH A 159 912 159 HOH HOH . E 5 HOH A 160 913 160 HOH HOH . E 5 HOH A 161 914 161 HOH HOH . E 5 HOH A 162 915 162 HOH HOH . E 5 HOH A 163 916 163 HOH HOH . E 5 HOH A 164 917 164 HOH HOH . E 5 HOH A 165 918 165 HOH HOH . E 5 HOH A 166 919 166 HOH HOH . E 5 HOH A 167 920 167 HOH HOH . E 5 HOH A 168 921 168 HOH HOH . E 5 HOH A 169 922 169 HOH HOH . E 5 HOH A 170 923 170 HOH HOH . E 5 HOH A 171 924 171 HOH HOH . E 5 HOH A 172 925 172 HOH HOH . E 5 HOH A 173 926 173 HOH HOH . E 5 HOH A 174 927 174 HOH HOH . E 5 HOH A 175 928 175 HOH HOH . E 5 HOH A 176 929 176 HOH HOH . E 5 HOH A 177 930 177 HOH HOH . E 5 HOH A 178 931 178 HOH HOH . E 5 HOH A 179 932 179 HOH HOH . E 5 HOH A 180 933 180 HOH HOH . E 5 HOH A 181 934 181 HOH HOH . E 5 HOH A 182 935 182 HOH HOH . E 5 HOH A 183 936 183 HOH HOH . E 5 HOH A 184 937 184 HOH HOH . E 5 HOH A 185 938 185 HOH HOH . E 5 HOH A 186 939 186 HOH HOH . E 5 HOH A 187 940 187 HOH HOH . E 5 HOH A 188 941 188 HOH HOH . E 5 HOH A 189 942 189 HOH HOH . E 5 HOH A 190 943 190 HOH HOH . E 5 HOH A 191 944 191 HOH HOH . E 5 HOH A 192 945 192 HOH HOH . E 5 HOH A 193 946 193 HOH HOH . E 5 HOH A 194 947 194 HOH HOH . E 5 HOH A 195 948 195 HOH HOH . E 5 HOH A 196 949 196 HOH HOH . E 5 HOH A 197 950 197 HOH HOH . E 5 HOH A 198 951 198 HOH HOH . E 5 HOH A 199 952 199 HOH HOH . E 5 HOH A 200 953 200 HOH HOH . E 5 HOH A 201 954 201 HOH HOH . E 5 HOH A 202 955 202 HOH HOH . E 5 HOH A 203 956 203 HOH HOH . E 5 HOH A 204 957 204 HOH HOH . E 5 HOH A 205 958 205 HOH HOH . E 5 HOH A 206 959 206 HOH HOH . E 5 HOH A 207 960 207 HOH HOH . E 5 HOH A 208 961 208 HOH HOH . E 5 HOH A 209 962 209 HOH HOH . E 5 HOH A 210 963 210 HOH HOH . E 5 HOH A 211 964 211 HOH HOH . E 5 HOH A 212 965 212 HOH HOH . E 5 HOH A 213 966 213 HOH HOH . E 5 HOH A 214 967 214 HOH HOH . E 5 HOH A 215 968 215 HOH HOH . E 5 HOH A 216 969 216 HOH HOH . E 5 HOH A 217 970 217 HOH HOH . E 5 HOH A 218 971 218 HOH HOH . E 5 HOH A 219 972 219 HOH HOH . E 5 HOH A 220 973 220 HOH HOH . E 5 HOH A 221 974 221 HOH HOH . E 5 HOH A 222 975 222 HOH HOH . E 5 HOH A 223 976 223 HOH HOH . E 5 HOH A 224 977 224 HOH HOH . E 5 HOH A 225 978 225 HOH HOH . E 5 HOH A 226 979 226 HOH HOH . E 5 HOH A 227 980 227 HOH HOH . E 5 HOH A 228 981 228 HOH HOH . E 5 HOH A 229 982 229 HOH HOH . E 5 HOH A 230 983 230 HOH HOH . E 5 HOH A 231 984 231 HOH HOH . E 5 HOH A 232 985 232 HOH HOH . E 5 HOH A 233 986 233 HOH HOH . E 5 HOH A 234 987 234 HOH HOH . E 5 HOH A 235 988 235 HOH HOH . E 5 HOH A 236 989 236 HOH HOH . E 5 HOH A 237 990 237 HOH HOH . E 5 HOH A 238 991 238 HOH HOH . E 5 HOH A 239 992 239 HOH HOH . E 5 HOH A 240 993 240 HOH HOH . E 5 HOH A 241 994 241 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 MPD . . . D 4 -40.829 4.884 62.596 1 87.44 ? C1 MPD 753 A 1 HETATM 2 C C2 MPD . . . D 4 -41.08 3.826 63.648 1 87.04 ? C2 MPD 753 A 1 HETATM 3 O O2 MPD . . . D 4 -42.179 4.312 64.443 1 89.85 ? O2 MPD 753 A 1 HETATM 4 C CM MPD . . . D 4 -41.439 2.523 63.025 1 84.93 ? CM MPD 753 A 1 HETATM 5 C C3 MPD . . . D 4 -39.882 3.589 64.599 1 83.67 ? C3 MPD 753 A 1 HETATM 6 C C4 MPD . . . D 4 -39.427 4.76 65.48 1 80.81 ? C4 MPD 753 A 1 HETATM 7 O O4 MPD . . . D 4 -40.453 5.197 66.339 1 76.41 ? O4 MPD 753 A 1 HETATM 8 C C5 MPD . . . D 4 -38.248 4.36 66.347 1 80.17 ? C5 MPD 753 A 1 # _model_server_stats.io_time_ms 13 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 21 _model_server_stats.query_time_ms 333 _model_server_stats.encode_time_ms 11 _model_server_stats.element_count 8 #