data_5DFX # _model_server_result.job_id xQWyZh7stb9a5NDZI1CQSQ _model_server_result.datetime_utc '2024-11-07 10:47:27' _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 5dfx # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":701}' # _entry.id 5DFX # _exptl.entry_id 5DFX _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 588.694 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description PHYCOCYANOBILIN _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 5DFX _cell.length_a 63.12 _cell.length_b 63.12 _cell.length_c 118.83 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5DFX _symmetry.cell_setting ? _symmetry.Int_Tables_number 92 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 41 21 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _pdbx_struct_assembly.details software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 7_556 y,x,-z+1 0 1 0 1 0 0 0 0 -1 0 0 118.83 # _struct_asym.details ? _struct_asym.entity_id 2 _struct_asym.id B _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _struct_conn.conn_type_id covale _struct_conn.details ? _struct_conn.id covale1 _struct_conn.ptnr1_label_asym_id A _struct_conn.ptnr1_label_atom_id SG _struct_conn.ptnr1_label_comp_id CYS _struct_conn.ptnr1_label_seq_id 138 _struct_conn.ptnr1_auth_asym_id A _struct_conn.ptnr1_auth_comp_id CYS _struct_conn.ptnr1_auth_seq_id 528 _struct_conn.ptnr1_symmetry 1_555 _struct_conn.ptnr2_label_asym_id B _struct_conn.ptnr2_label_atom_id CAC _struct_conn.ptnr2_label_comp_id CYC _struct_conn.ptnr2_label_seq_id . _struct_conn.ptnr2_auth_asym_id A _struct_conn.ptnr2_auth_comp_id CYC _struct_conn.ptnr2_auth_seq_id 701 _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 1.631 _struct_conn.pdbx_value_order ? # _chem_comp.formula 'C33 H40 N4 O6' _chem_comp.formula_weight 588.694 _chem_comp.id CYC _chem_comp.mon_nstd_flag . _chem_comp.name PHYCOCYANOBILIN _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # _atom_sites.entry_id 5DFX _atom_sites.fract_transf_matrix[1][1] 0.015843 _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] 0.015843 _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] 0.008415 _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 CYC A 1 701 1 CYC CYC . C 3 HOH A 1 801 57 HOH HOH . C 3 HOH A 2 802 34 HOH HOH . C 3 HOH A 3 803 170 HOH HOH . C 3 HOH A 4 804 234 HOH HOH . C 3 HOH A 5 805 131 HOH HOH . C 3 HOH A 6 806 85 HOH HOH . C 3 HOH A 7 807 133 HOH HOH . C 3 HOH A 8 808 61 HOH HOH . C 3 HOH A 9 809 153 HOH HOH . C 3 HOH A 10 810 177 HOH HOH . C 3 HOH A 11 811 262 HOH HOH . C 3 HOH A 12 812 53 HOH HOH . C 3 HOH A 13 813 164 HOH HOH . C 3 HOH A 14 814 33 HOH HOH . C 3 HOH A 15 815 152 HOH HOH . C 3 HOH A 16 816 59 HOH HOH . C 3 HOH A 17 817 2 HOH HOH . C 3 HOH A 18 818 204 HOH HOH . C 3 HOH A 19 819 45 HOH HOH . C 3 HOH A 20 820 120 HOH HOH . C 3 HOH A 21 821 109 HOH HOH . C 3 HOH A 22 822 224 HOH HOH . C 3 HOH A 23 823 16 HOH HOH . C 3 HOH A 24 824 78 HOH HOH . C 3 HOH A 25 825 96 HOH HOH . C 3 HOH A 26 826 121 HOH HOH . C 3 HOH A 27 827 19 HOH HOH . C 3 HOH A 28 828 4 HOH HOH . C 3 HOH A 29 829 37 HOH HOH . C 3 HOH A 30 830 137 HOH HOH . C 3 HOH A 31 831 76 HOH HOH . C 3 HOH A 32 832 64 HOH HOH . C 3 HOH A 33 833 124 HOH HOH . C 3 HOH A 34 834 54 HOH HOH . C 3 HOH A 35 835 25 HOH HOH . C 3 HOH A 36 836 5 HOH HOH . C 3 HOH A 37 837 112 HOH HOH . C 3 HOH A 38 838 24 HOH HOH . C 3 HOH A 39 839 181 HOH HOH . C 3 HOH A 40 840 191 HOH HOH . C 3 HOH A 41 841 196 HOH HOH . C 3 HOH A 42 842 187 HOH HOH . C 3 HOH A 43 843 231 HOH HOH . C 3 HOH A 44 844 42 HOH HOH . C 3 HOH A 45 845 100 HOH HOH . C 3 HOH A 46 846 11 HOH HOH . C 3 HOH A 47 847 6 HOH HOH . C 3 HOH A 48 848 108 HOH HOH . C 3 HOH A 49 849 86 HOH HOH . C 3 HOH A 50 850 206 HOH HOH . C 3 HOH A 51 851 154 HOH HOH . C 3 HOH A 52 852 119 HOH HOH . C 3 HOH A 53 853 3 HOH HOH . C 3 HOH A 54 854 128 HOH HOH . C 3 HOH A 55 855 43 HOH HOH . C 3 HOH A 56 856 46 HOH HOH . C 3 HOH A 57 857 66 HOH HOH . C 3 HOH A 58 858 186 HOH HOH . C 3 HOH A 59 859 252 HOH HOH . C 3 HOH A 60 860 56 HOH HOH . C 3 HOH A 61 861 51 HOH HOH . C 3 HOH A 62 862 117 HOH HOH . C 3 HOH A 63 863 159 HOH HOH . C 3 HOH A 64 864 1 HOH HOH . C 3 HOH A 65 865 36 HOH HOH . C 3 HOH A 66 866 79 HOH HOH . C 3 HOH A 67 867 118 HOH HOH . C 3 HOH A 68 868 69 HOH HOH . C 3 HOH A 69 869 28 HOH HOH . C 3 HOH A 70 870 67 HOH HOH . C 3 HOH A 71 871 22 HOH HOH . C 3 HOH A 72 872 74 HOH HOH . C 3 HOH A 73 873 98 HOH HOH . C 3 HOH A 74 874 23 HOH HOH . C 3 HOH A 75 875 90 HOH HOH . C 3 HOH A 76 876 143 HOH HOH . C 3 HOH A 77 877 144 HOH HOH . C 3 HOH A 78 878 70 HOH HOH . C 3 HOH A 79 879 227 HOH HOH . C 3 HOH A 80 880 87 HOH HOH . C 3 HOH A 81 881 27 HOH HOH . C 3 HOH A 82 882 83 HOH HOH . C 3 HOH A 83 883 94 HOH HOH . C 3 HOH A 84 884 49 HOH HOH . C 3 HOH A 85 885 32 HOH HOH . C 3 HOH A 86 886 44 HOH HOH . C 3 HOH A 87 887 102 HOH HOH . C 3 HOH A 88 888 75 HOH HOH . C 3 HOH A 89 889 188 HOH HOH . C 3 HOH A 90 890 251 HOH HOH . C 3 HOH A 91 891 47 HOH HOH . C 3 HOH A 92 892 136 HOH HOH . C 3 HOH A 93 893 63 HOH HOH . C 3 HOH A 94 894 214 HOH HOH . C 3 HOH A 95 895 35 HOH HOH . C 3 HOH A 96 896 31 HOH HOH . C 3 HOH A 97 897 237 HOH HOH . C 3 HOH A 98 898 55 HOH HOH . C 3 HOH A 99 899 26 HOH HOH . C 3 HOH A 100 900 97 HOH HOH . C 3 HOH A 101 901 68 HOH HOH . C 3 HOH A 102 902 15 HOH HOH . C 3 HOH A 103 903 17 HOH HOH . C 3 HOH A 104 904 73 HOH HOH . C 3 HOH A 105 905 208 HOH HOH . C 3 HOH A 106 906 241 HOH HOH . C 3 HOH A 107 907 110 HOH HOH . C 3 HOH A 108 908 249 HOH HOH . C 3 HOH A 109 909 40 HOH HOH . C 3 HOH A 110 910 71 HOH HOH . C 3 HOH A 111 911 161 HOH HOH . C 3 HOH A 112 912 107 HOH HOH . C 3 HOH A 113 913 60 HOH HOH . C 3 HOH A 114 914 180 HOH HOH . C 3 HOH A 115 915 123 HOH HOH . C 3 HOH A 116 916 21 HOH HOH . C 3 HOH A 117 917 261 HOH HOH . C 3 HOH A 118 918 215 HOH HOH . C 3 HOH A 119 919 230 HOH HOH . C 3 HOH A 120 920 198 HOH HOH . C 3 HOH A 121 921 183 HOH HOH . C 3 HOH A 122 922 41 HOH HOH . C 3 HOH A 123 923 58 HOH HOH . C 3 HOH A 124 924 13 HOH HOH . C 3 HOH A 125 925 130 HOH HOH . C 3 HOH A 126 926 103 HOH HOH . C 3 HOH A 127 927 138 HOH HOH . C 3 HOH A 128 928 207 HOH HOH . C 3 HOH A 129 929 104 HOH HOH . C 3 HOH A 130 930 89 HOH HOH . C 3 HOH A 131 931 114 HOH HOH . C 3 HOH A 132 932 184 HOH HOH . C 3 HOH A 133 933 205 HOH HOH . C 3 HOH A 134 934 140 HOH HOH . C 3 HOH A 135 935 163 HOH HOH . C 3 HOH A 136 936 141 HOH HOH . C 3 HOH A 137 937 115 HOH HOH . C 3 HOH A 138 938 151 HOH HOH . C 3 HOH A 139 939 240 HOH HOH . C 3 HOH A 140 940 135 HOH HOH . C 3 HOH A 141 941 132 HOH HOH . C 3 HOH A 142 942 84 HOH HOH . C 3 HOH A 143 943 20 HOH HOH . C 3 HOH A 144 944 30 HOH HOH . C 3 HOH A 145 945 216 HOH HOH . C 3 HOH A 146 946 189 HOH HOH . C 3 HOH A 147 947 95 HOH HOH . C 3 HOH A 148 948 91 HOH HOH . C 3 HOH A 149 949 246 HOH HOH . C 3 HOH A 150 950 80 HOH HOH . C 3 HOH A 151 951 190 HOH HOH . C 3 HOH A 152 952 222 HOH HOH . C 3 HOH A 153 953 160 HOH HOH . C 3 HOH A 154 954 148 HOH HOH . C 3 HOH A 155 955 126 HOH HOH . C 3 HOH A 156 956 93 HOH HOH . C 3 HOH A 157 957 218 HOH HOH . C 3 HOH A 158 958 248 HOH HOH . C 3 HOH A 159 959 158 HOH HOH . C 3 HOH A 160 960 165 HOH HOH . C 3 HOH A 161 961 199 HOH HOH . C 3 HOH A 162 962 134 HOH HOH . C 3 HOH A 163 963 236 HOH HOH . C 3 HOH A 164 964 145 HOH HOH . C 3 HOH A 165 965 171 HOH HOH . C 3 HOH A 166 966 197 HOH HOH . C 3 HOH A 167 967 185 HOH HOH . C 3 HOH A 168 968 201 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 CHA CYC . . . B 2 13.117 34.659 42.551 1 27.26 ? CHA CYC 701 A 1 HETATM 2 N NA CYC . . . B 2 12.613 32.4 41.581 1 26.85 ? NA CYC 701 A 1 HETATM 3 C C1A CYC . . . B 2 12.556 33.304 42.635 1 27.09 ? C1A CYC 701 A 1 HETATM 4 C C2A CYC . . . B 2 11.801 33 43.855 1 31.78 ? C2A CYC 701 A 1 HETATM 5 C C3A CYC . . . B 2 11.385 31.648 43.548 1 29.66 ? C3A CYC 701 A 1 HETATM 6 C C4A CYC . . . B 2 11.803 31.446 42.118 1 27.34 ? C4A CYC 701 A 1 HETATM 7 C CMA CYC . . . B 2 10.594 30.83 44.556 1 30.05 ? CMA CYC 701 A 1 HETATM 8 C CAA CYC . . . B 2 11.628 33.738 45.168 1 32.6 ? CAA CYC 701 A 1 HETATM 9 C CBA CYC . . . B 2 12.987 33.344 45.927 1 35.93 ? CBA CYC 701 A 1 HETATM 10 C CGA CYC . . . B 2 13.442 33.976 47.282 1 35.35 ? CGA CYC 701 A 1 HETATM 11 O O1A CYC . . . B 2 12.719 34.934 47.642 1 31.46 ? O1A CYC 701 A 1 HETATM 12 O O2A CYC . . . B 2 14.525 33.593 47.954 1 33.12 ? O2A CYC 701 A 1 HETATM 13 C CHB CYC . . . B 2 11.597 30.11 41.626 1 26.98 ? CHB CYC 701 A 1 HETATM 14 N NB CYC . . . B 2 9.28 29.499 42.235 1 23.68 ? NB CYC 701 A 1 HETATM 15 C C1B CYC . . . B 2 10.46 29.209 41.698 1 26.72 ? C1B CYC 701 A 1 HETATM 16 C C2B CYC . . . B 2 10.647 27.797 41.219 1 24.53 ? C2B CYC 701 A 1 HETATM 17 C C3B CYC . . . B 2 9.353 27.21 41.515 1 23.09 ? C3B CYC 701 A 1 HETATM 18 C C4B CYC . . . B 2 8.611 28.33 42.15 1 26.24 ? C4B CYC 701 A 1 HETATM 19 C CMB CYC . . . B 2 11.784 27.094 40.589 1 24.8 ? CMB CYC 701 A 1 HETATM 20 C CAB CYC . . . B 2 8.893 25.825 41.286 1 23.05 ? CAB CYC 701 A 1 HETATM 21 C CBB CYC . . . B 2 8.817 25.183 42.646 1 23.12 ? CBB CYC 701 A 1 HETATM 22 O OB CYC . . . B 2 7.396 28.18 42.514 1 22.31 ? OB CYC 701 A 1 HETATM 23 N NC CYC . . . B 2 14.136 33.465 37.394 1 32.63 ? NC CYC 701 A 1 HETATM 24 C C1C CYC . . . B 2 13.849 32.897 36.206 1 35.91 ? C1C CYC 701 A 1 HETATM 25 C C2C CYC . . . B 2 14.615 33.574 35.071 1 31.68 ? C2C CYC 701 A 1 HETATM 26 C C3C CYC . . . B 2 15.626 34.373 35.889 1 35.67 ? C3C CYC 701 A 1 HETATM 27 C C4C CYC . . . B 2 15.004 34.428 37.285 1 34.12 ? C4C CYC 701 A 1 HETATM 28 C CMC CYC . . . B 2 15.047 32.708 33.87 1 31.8 ? CMC CYC 701 A 1 HETATM 29 C CAC CYC . . . B 2 16.063 35.728 35.286 1 39.77 ? CAC CYC 701 A 1 HETATM 30 C CBC CYC . . . B 2 17.173 35.528 34.245 1 40.72 ? CBC CYC 701 A 1 HETATM 31 O OC CYC . . . B 2 13.042 31.98 36.041 1 36.02 ? OC CYC 701 A 1 HETATM 32 C CHD CYC . . . B 2 15.361 35.328 38.22 1 30.36 ? CHD CYC 701 A 1 HETATM 33 N ND CYC . . . B 2 14.17 34.573 40.3 1 31.01 ? ND CYC 701 A 1 HETATM 34 C C1D CYC . . . B 2 14.833 35.525 39.53 1 29.06 ? C1D CYC 701 A 1 HETATM 35 C C2D CYC . . . B 2 15.022 36.797 40.178 1 33.31 ? C2D CYC 701 A 1 HETATM 36 C C3D CYC . . . B 2 14.341 36.587 41.456 1 31.59 ? C3D CYC 701 A 1 HETATM 37 C C4D CYC . . . B 2 13.855 35.178 41.418 1 27.36 ? C4D CYC 701 A 1 HETATM 38 C CMD CYC . . . B 2 15.752 38.034 39.658 1 40.33 ? CMD CYC 701 A 1 HETATM 39 C CAD CYC . . . B 2 14.147 37.51 42.626 1 33.42 ? CAD CYC 701 A 1 HETATM 40 C CBD CYC . . . B 2 12.818 38.224 42.607 1 35.81 ? CBD CYC 701 A 1 HETATM 41 C CGD CYC . . . B 2 12.7 39.011 41.315 1 41.22 ? CGD CYC 701 A 1 HETATM 42 O O1D CYC . . . B 2 11.965 38.587 40.352 1 35.22 ? O1D CYC 701 A 1 HETATM 43 O O2D CYC . . . B 2 13.371 40.07 41.25 1 38.47 ? O2D CYC 701 A 1 # _model_server_stats.io_time_ms 12 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 301 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 43 #