data_6CDZ # _model_server_result.job_id rOyfuBoSIWUXu2t_llmZLg _model_server_result.datetime_utc '2024-11-23 19:31:01' _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 6cdz # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":701}' # _entry.id 6CDZ # _exptl.entry_id 6CDZ _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 477.469 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '10-PROPARGYL-5,8-DIDEAZAFOLIC ACID' _entity.pdbx_number_of_molecules 2 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 103.5 _cell.angle_gamma 90 _cell.entry_id 6CDZ _cell.length_a 67.658 _cell.length_b 80.451 _cell.length_c 94.08 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6CDZ _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 PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _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 C N N ? 2 E 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 covale ? covale1 A C CXM 1 A CXM 1 1_555 A N LYS 2 A LYS 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale2 B C CXM 1 B CXM 1 1_555 B N LYS 2 B LYS 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? # _chem_comp.formula 'C24 H23 N5 O6' _chem_comp.formula_weight 477.469 _chem_comp.id CB3 _chem_comp.mon_nstd_flag . _chem_comp.name '10-PROPARGYL-5,8-DIDEAZAFOLIC 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 N1 C2 CB3 sing 70 n y N1 C8A CB3 sing 71 n y N1 HN1 CB3 sing 72 n n C2 NA2 CB3 sing 73 n n C2 N3 CB3 doub 74 n y NA2 HN21 CB3 sing 75 n n NA2 HN22 CB3 sing 76 n n N3 C4 CB3 sing 77 n y C4 O4 CB3 doub 78 n n C4 C4A CB3 sing 79 n y C4A C5 CB3 doub 80 n y C4A C8A CB3 sing 81 n y C5 C6 CB3 sing 82 n y C5 H5 CB3 sing 83 n n C6 C7 CB3 doub 84 n y C6 C9 CB3 sing 85 n n C7 C8 CB3 sing 86 n y C7 H7 CB3 sing 87 n n C8 C8A CB3 doub 88 n y C8 H8 CB3 sing 89 n n C9 N10 CB3 sing 90 n n C9 H91 CB3 sing 91 n n C9 H92 CB3 sing 92 n n N10 C14 CB3 sing 93 n n N10 CP1 CB3 sing 94 n n C11 C12 CB3 doub 95 n y C11 C16 CB3 sing 96 n y C11 C CB3 sing 97 n n C12 C13 CB3 sing 98 n y C12 H12 CB3 sing 99 n n C13 C14 CB3 doub 100 n y C13 H13 CB3 sing 101 n n C14 C15 CB3 sing 102 n y C15 C16 CB3 doub 103 n y C15 H15 CB3 sing 104 n n C16 H16 CB3 sing 105 n n C O CB3 doub 106 n n C N CB3 sing 107 n n N CA CB3 sing 108 n n N HN CB3 sing 109 n n CA CB CB3 sing 110 n n CA CT CB3 sing 111 n n CA HA CB3 sing 112 n n CB CG CB3 sing 113 n n CB HB1 CB3 sing 114 n n CB HB2 CB3 sing 115 n n CG CD CB3 sing 116 n n CG HG1 CB3 sing 117 n n CG HG2 CB3 sing 118 n n CD OE1 CB3 doub 119 n n CD OE2 CB3 sing 120 n n OE2 HOE2 CB3 sing 121 n n CT O1 CB3 doub 122 n n CT O2 CB3 sing 123 n n O2 HO2 CB3 sing 124 n n CP1 CP2 CB3 sing 125 n n CP1 HP11 CB3 sing 126 n n CP1 HP12 CB3 sing 127 n n CP2 CP3 CB3 trip 128 n n CP3 HP3 CB3 sing 129 n n # _atom_sites.entry_id 6CDZ _atom_sites.fract_transf_matrix[1][1] 0.01478 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.003548 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.01243 _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] 0.010931 _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 2 CB3 A 1 701 701 CB3 CB3 . D 3 UMP A 1 702 703 UMP UMP . E 2 CB3 B 1 301 702 CB3 CB3 . F 4 UMC B 1 302 704 UMC UMC . G 5 HOH A 1 801 27 HOH HOH . G 5 HOH A 2 802 118 HOH HOH . G 5 HOH A 3 803 61 HOH HOH . G 5 HOH A 4 804 98 HOH HOH . G 5 HOH A 5 805 122 HOH HOH . G 5 HOH A 6 806 67 HOH HOH . G 5 HOH A 7 807 9 HOH HOH . G 5 HOH A 8 808 54 HOH HOH . G 5 HOH A 9 809 1 HOH HOH . G 5 HOH A 10 810 109 HOH HOH . G 5 HOH A 11 811 32 HOH HOH . G 5 HOH A 12 812 34 HOH HOH . G 5 HOH A 13 813 26 HOH HOH . G 5 HOH A 14 814 13 HOH HOH . G 5 HOH A 15 815 5 HOH HOH . G 5 HOH A 16 816 56 HOH HOH . G 5 HOH A 17 817 65 HOH HOH . G 5 HOH A 18 818 152 HOH HOH . G 5 HOH A 19 819 60 HOH HOH . G 5 HOH A 20 820 53 HOH HOH . G 5 HOH A 21 821 161 HOH HOH . G 5 HOH A 22 822 165 HOH HOH . G 5 HOH A 23 823 11 HOH HOH . G 5 HOH A 24 824 23 HOH HOH . G 5 HOH A 25 825 78 HOH HOH . G 5 HOH A 26 826 16 HOH HOH . G 5 HOH A 27 827 157 HOH HOH . G 5 HOH A 28 828 162 HOH HOH . G 5 HOH A 29 829 138 HOH HOH . G 5 HOH A 30 830 89 HOH HOH . G 5 HOH A 31 831 92 HOH HOH . G 5 HOH A 32 832 21 HOH HOH . G 5 HOH A 33 833 31 HOH HOH . G 5 HOH A 34 834 42 HOH HOH . G 5 HOH A 35 835 63 HOH HOH . G 5 HOH A 36 836 15 HOH HOH . G 5 HOH A 37 837 77 HOH HOH . G 5 HOH A 38 838 4 HOH HOH . G 5 HOH A 39 839 124 HOH HOH . G 5 HOH A 40 840 90 HOH HOH . G 5 HOH A 41 841 46 HOH HOH . G 5 HOH A 42 842 108 HOH HOH . G 5 HOH A 43 843 28 HOH HOH . G 5 HOH A 44 844 69 HOH HOH . G 5 HOH A 45 845 166 HOH HOH . G 5 HOH A 46 846 70 HOH HOH . G 5 HOH A 47 847 75 HOH HOH . G 5 HOH A 48 848 86 HOH HOH . G 5 HOH A 49 849 12 HOH HOH . G 5 HOH A 50 850 128 HOH HOH . G 5 HOH A 51 851 19 HOH HOH . G 5 HOH A 52 852 3 HOH HOH . G 5 HOH A 53 853 119 HOH HOH . G 5 HOH A 54 854 139 HOH HOH . G 5 HOH A 55 855 37 HOH HOH . G 5 HOH A 56 856 68 HOH HOH . G 5 HOH A 57 857 130 HOH HOH . G 5 HOH A 58 858 48 HOH HOH . G 5 HOH A 59 859 58 HOH HOH . G 5 HOH A 60 860 147 HOH HOH . G 5 HOH A 61 861 49 HOH HOH . G 5 HOH A 62 862 163 HOH HOH . G 5 HOH A 63 863 47 HOH HOH . G 5 HOH A 64 864 8 HOH HOH . G 5 HOH A 65 865 20 HOH HOH . G 5 HOH A 66 866 112 HOH HOH . G 5 HOH A 67 867 59 HOH HOH . G 5 HOH A 68 868 135 HOH HOH . G 5 HOH A 69 869 137 HOH HOH . G 5 HOH A 70 870 66 HOH HOH . G 5 HOH A 71 871 125 HOH HOH . G 5 HOH A 72 872 38 HOH HOH . G 5 HOH A 73 873 111 HOH HOH . G 5 HOH A 74 874 156 HOH HOH . G 5 HOH A 75 875 116 HOH HOH . G 5 HOH A 76 876 133 HOH HOH . G 5 HOH A 77 877 84 HOH HOH . G 5 HOH A 78 878 64 HOH HOH . G 5 HOH A 79 879 144 HOH HOH . G 5 HOH A 80 880 91 HOH HOH . G 5 HOH A 81 881 97 HOH HOH . G 5 HOH A 82 882 41 HOH HOH . G 5 HOH A 83 883 94 HOH HOH . G 5 HOH A 84 884 146 HOH HOH . G 5 HOH A 85 885 115 HOH HOH . G 5 HOH A 86 886 95 HOH HOH . G 5 HOH A 87 887 110 HOH HOH . G 5 HOH A 88 888 151 HOH HOH . G 5 HOH A 89 889 149 HOH HOH . G 5 HOH A 90 890 141 HOH HOH . H 5 HOH B 1 401 160 HOH HOH . H 5 HOH B 2 402 154 HOH HOH . H 5 HOH B 3 403 72 HOH HOH . H 5 HOH B 4 404 35 HOH HOH . H 5 HOH B 5 405 164 HOH HOH . H 5 HOH B 6 406 52 HOH HOH . H 5 HOH B 7 407 131 HOH HOH . H 5 HOH B 8 408 57 HOH HOH . H 5 HOH B 9 409 55 HOH HOH . H 5 HOH B 10 410 18 HOH HOH . H 5 HOH B 11 411 74 HOH HOH . H 5 HOH B 12 412 167 HOH HOH . H 5 HOH B 13 413 40 HOH HOH . H 5 HOH B 14 414 83 HOH HOH . H 5 HOH B 15 415 105 HOH HOH . H 5 HOH B 16 416 96 HOH HOH . H 5 HOH B 17 417 2 HOH HOH . H 5 HOH B 18 418 6 HOH HOH . H 5 HOH B 19 419 140 HOH HOH . H 5 HOH B 20 420 117 HOH HOH . H 5 HOH B 21 421 159 HOH HOH . H 5 HOH B 22 422 62 HOH HOH . H 5 HOH B 23 423 80 HOH HOH . H 5 HOH B 24 424 148 HOH HOH . H 5 HOH B 25 425 158 HOH HOH . H 5 HOH B 26 426 85 HOH HOH . H 5 HOH B 27 427 25 HOH HOH . H 5 HOH B 28 428 22 HOH HOH . H 5 HOH B 29 429 106 HOH HOH . H 5 HOH B 30 430 10 HOH HOH . H 5 HOH B 31 431 44 HOH HOH . H 5 HOH B 32 432 82 HOH HOH . H 5 HOH B 33 433 79 HOH HOH . H 5 HOH B 34 434 145 HOH HOH . H 5 HOH B 35 435 30 HOH HOH . H 5 HOH B 36 436 33 HOH HOH . H 5 HOH B 37 437 14 HOH HOH . H 5 HOH B 38 438 99 HOH HOH . H 5 HOH B 39 439 81 HOH HOH . H 5 HOH B 40 440 143 HOH HOH . H 5 HOH B 41 441 39 HOH HOH . H 5 HOH B 42 442 45 HOH HOH . H 5 HOH B 43 443 29 HOH HOH . H 5 HOH B 44 444 155 HOH HOH . H 5 HOH B 45 445 129 HOH HOH . H 5 HOH B 46 446 17 HOH HOH . H 5 HOH B 47 447 36 HOH HOH . H 5 HOH B 48 448 7 HOH HOH . H 5 HOH B 49 449 121 HOH HOH . H 5 HOH B 50 450 51 HOH HOH . H 5 HOH B 51 451 127 HOH HOH . H 5 HOH B 52 452 43 HOH HOH . H 5 HOH B 53 453 71 HOH HOH . H 5 HOH B 54 454 113 HOH HOH . H 5 HOH B 55 455 87 HOH HOH . H 5 HOH B 56 456 50 HOH HOH . H 5 HOH B 57 457 120 HOH HOH . H 5 HOH B 58 458 107 HOH HOH . H 5 HOH B 59 459 102 HOH HOH . H 5 HOH B 60 460 93 HOH HOH . H 5 HOH B 61 461 142 HOH HOH . H 5 HOH B 62 462 88 HOH HOH . H 5 HOH B 63 463 103 HOH HOH . H 5 HOH B 64 464 24 HOH HOH . H 5 HOH B 65 465 114 HOH HOH . H 5 HOH B 66 466 104 HOH HOH . H 5 HOH B 67 467 136 HOH HOH . H 5 HOH B 68 468 132 HOH HOH . H 5 HOH B 69 469 126 HOH HOH . H 5 HOH B 70 470 150 HOH HOH . H 5 HOH B 71 471 153 HOH HOH . H 5 HOH B 72 472 123 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 N N1 CB3 . . . C 2 -1.586 9.453 35.308 1 32.61 ? N1 CB3 701 A 1 HETATM 2 C C2 CB3 . . . C 2 -0.633 9.926 36.189 1 35.01 ? C2 CB3 701 A 1 HETATM 3 N NA2 CB3 . . . C 2 -0.362 11.226 36.243 1 36.05 ? NA2 CB3 701 A 1 HETATM 4 N N3 CB3 . . . C 2 0.041 9.049 37.016 1 35.7 ? N3 CB3 701 A 1 HETATM 5 C C4 CB3 . . . C 2 -0.227 7.692 36.973 1 35.18 ? C4 CB3 701 A 1 HETATM 6 O O4 CB3 . . . C 2 0.606 6.895 37.405 1 33.98 ? O4 CB3 701 A 1 HETATM 7 C C4A CB3 . . . C 2 -1.186 7.215 36.093 1 34.99 ? C4A CB3 701 A 1 HETATM 8 C C5 CB3 . . . C 2 -1.453 5.849 36.048 1 33.36 ? C5 CB3 701 A 1 HETATM 9 C C6 CB3 . . . C 2 -2.416 5.369 35.168 1 33.36 ? C6 CB3 701 A 1 HETATM 10 C C7 CB3 . . . C 2 -3.091 6.257 34.335 1 36.94 ? C7 CB3 701 A 1 HETATM 11 C C8 CB3 . . . C 2 -2.821 7.619 34.376 1 37.73 ? C8 CB3 701 A 1 HETATM 12 C C8A CB3 . . . C 2 -1.864 8.1 35.259 1 36.9 ? C8A CB3 701 A 1 HETATM 13 C C9 CB3 . . . C 2 -2.759 3.897 35.071 1 36.49 ? C9 CB3 701 A 1 HETATM 14 N N10 CB3 . . . C 2 -2.517 3.062 36.24 1 35.1 ? N10 CB3 701 A 1 HETATM 15 C C11 CB3 . . . C 2 -3.852 3.811 40.176 1 41.7 ? C11 CB3 701 A 1 HETATM 16 C C12 CB3 . . . C 2 -3.134 2.665 39.866 1 37.74 ? C12 CB3 701 A 1 HETATM 17 C C13 CB3 . . . C 2 -2.704 2.438 38.566 1 36.74 ? C13 CB3 701 A 1 HETATM 18 C C14 CB3 . . . C 2 -2.993 3.347 37.554 1 34.91 ? C14 CB3 701 A 1 HETATM 19 C C15 CB3 . . . C 2 -3.73 4.488 37.862 1 37.2 ? C15 CB3 701 A 1 HETATM 20 C C16 CB3 . . . C 2 -4.155 4.721 39.169 1 41.71 ? C16 CB3 701 A 1 HETATM 21 C C CB3 . . . C 2 -4.319 4.032 41.587 1 48.46 ? C CB3 701 A 1 HETATM 22 O O CB3 . . . C 2 -5.613 4.067 41.8 1 58.65 ? O CB3 701 A 1 HETATM 23 N N CB3 . . . C 2 -3.45 4.211 42.583 1 45.91 ? N CB3 701 A 1 HETATM 24 C CA CB3 . . . C 2 -3.924 4.41 43.945 1 50.06 ? CA CB3 701 A 1 HETATM 25 C CB CB3 . . . C 2 -4.921 3.311 44.319 1 45.58 ? CB CB3 701 A 1 HETATM 26 C CG CB3 . . . C 2 -4.648 2.694 45.687 1 49.66 ? CG CB3 701 A 1 HETATM 27 C CD CB3 . . . C 2 -5.334 1.347 45.794 1 49.88 ? CD CB3 701 A 1 HETATM 28 O OE1 CB3 . . . C 2 -4.698 0.29 45.584 1 44.05 ? OE1 CB3 701 A 1 HETATM 29 O OE2 CB3 . . . C 2 -6.546 1.266 46.098 1 46.94 ? OE2 CB3 701 A 1 HETATM 30 C CT CB3 . . . C 2 -2.804 4.441 44.944 1 47.4 ? CT CB3 701 A 1 HETATM 31 O O1 CB3 . . . C 2 -1.853 3.631 44.872 1 41.94 ? O1 CB3 701 A 1 HETATM 32 O O2 CB3 . . . C 2 -2.82 5.279 45.873 1 48.73 ? O2 CB3 701 A 1 HETATM 33 C CP1 CB3 . . . C 2 -1.775 1.829 36.044 1 30.51 ? CP1 CB3 701 A 1 HETATM 34 C CP2 CB3 . . . C 2 -0.298 2.035 36.272 1 29.68 ? CP2 CB3 701 A 1 HETATM 35 C CP3 CB3 . . . C 2 0.875 2.198 36.453 1 26.9 ? CP3 CB3 701 A 1 # _model_server_stats.io_time_ms 15 _model_server_stats.parse_time_ms 23 _model_server_stats.create_model_time_ms 9 _model_server_stats.query_time_ms 315 _model_server_stats.encode_time_ms 10 _model_server_stats.element_count 35 #