data_1DDS # _model_server_result.job_id SHAIsUpypGpdejFlx8bpXg _model_server_result.datetime_utc '2024-11-23 20:39:30' _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 1dds # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":201}' # _entry.id 1DDS # _exptl.entry_id 1DDS _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 454.439 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description METHOTREXATE _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 90 _cell.angle_gamma 120 _cell.entry_id 1DDS _cell.length_a 93.181 _cell.length_b 93.185 _cell.length_c 73.886 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1DDS _symmetry.cell_setting ? _symmetry.Int_Tables_number 169 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 61' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _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 _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 ? 3 D N N ? 3 G 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 metalc ? metalc1 A OD1 ASN 18 A ASN 18 2_665 F CA CA . B CA 204 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.321 ? metalc ? metalc2 A ND2 ASN 18 A ASN 18 2_665 F CA CA . B CA 204 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.295 ? metalc ? metalc3 B O ALA 143 B ALA 143 2_665 F CA CA . B CA 204 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.354 ? # _chem_comp.formula 'C20 H22 N8 O5' _chem_comp.formula_weight 454.439 _chem_comp.id MTX _chem_comp.mon_nstd_flag . _chem_comp.name METHOTREXATE _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 MTX doub 237 n y N1 C8A MTX sing 238 n y C2 NA2 MTX sing 239 n n C2 N3 MTX sing 240 n y NA2 HN21 MTX sing 241 n n NA2 HN22 MTX sing 242 n n N3 C4 MTX doub 243 n y C4 NA4 MTX sing 244 n n C4 C4A MTX sing 245 n y NA4 HN41 MTX sing 246 n n NA4 HN42 MTX sing 247 n n C4A N5 MTX sing 248 n y C4A C8A MTX doub 249 n y N5 C6 MTX doub 250 n y C6 C7 MTX sing 251 n y C6 C9 MTX sing 252 n n C7 N8 MTX doub 253 n y C7 H7 MTX sing 254 n n N8 C8A MTX sing 255 n y C9 N10 MTX sing 256 n n C9 H91 MTX sing 257 n n C9 H92 MTX sing 258 n n N10 CM MTX sing 259 n n N10 C14 MTX sing 260 n n CM HM1 MTX sing 261 n n CM HM2 MTX sing 262 n n CM HM3 MTX sing 263 n n C11 C12 MTX doub 264 n y C11 C16 MTX sing 265 n y C11 C MTX sing 266 n n C12 C13 MTX sing 267 n y C12 H12 MTX sing 268 n n C13 C14 MTX doub 269 n y C13 H13 MTX sing 270 n n C14 C15 MTX sing 271 n y C15 C16 MTX doub 272 n y C15 H15 MTX sing 273 n n C16 H16 MTX sing 274 n n C O MTX doub 275 n n C N MTX sing 276 n n N CA MTX sing 277 n n N HN MTX sing 278 n n CA CT MTX sing 279 n n CA CB MTX sing 280 n n CA HA MTX sing 281 n n CT O1 MTX doub 282 n n CT O2 MTX sing 283 n n O2 HO2 MTX sing 284 n n CB CG MTX sing 285 n n CB HB1 MTX sing 286 n n CB HB2 MTX sing 287 n n CG CD MTX sing 288 n n CG HG1 MTX sing 289 n n CG HG2 MTX sing 290 n n CD OE1 MTX doub 291 n n CD OE2 MTX sing 292 n n OE2 HOE2 MTX sing 293 n n # _atom_sites.entry_id 1DDS _atom_sites.fract_transf_matrix[1][1] 0.010732 _atom_sites.fract_transf_matrix[1][2] 0.006196 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.012391 _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] 0.013534 _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 CL A 1 202 202 CL CL . D 3 MTX A 1 201 201 MTX MTX . E 2 CL B 1 203 203 CL CL . F 4 CA B 1 204 204 CA CA . G 3 MTX B 1 201 201 MTX MTX . H 5 HOH A 1 701 701 HOH HOH . H 5 HOH A 2 702 702 HOH HOH . H 5 HOH A 3 703 703 HOH HOH . H 5 HOH A 4 704 704 HOH HOH . H 5 HOH A 5 705 705 HOH HOH . H 5 HOH A 6 706 706 HOH HOH . H 5 HOH A 7 707 707 HOH HOH . H 5 HOH A 8 708 708 HOH HOH . H 5 HOH A 9 709 709 HOH HOH . H 5 HOH A 10 711 711 HOH HOH . H 5 HOH A 11 712 712 HOH HOH . H 5 HOH A 12 713 713 HOH HOH . H 5 HOH A 13 714 714 HOH HOH . H 5 HOH A 14 715 715 HOH HOH . H 5 HOH A 15 716 716 HOH HOH . H 5 HOH A 16 717 717 HOH HOH . H 5 HOH A 17 718 718 HOH HOH . H 5 HOH A 18 719 719 HOH HOH . H 5 HOH A 19 720 720 HOH HOH . H 5 HOH A 20 721 721 HOH HOH . H 5 HOH A 21 722 722 HOH HOH . H 5 HOH A 22 723 723 HOH HOH . H 5 HOH A 23 724 724 HOH HOH . H 5 HOH A 24 725 725 HOH HOH . H 5 HOH A 25 726 726 HOH HOH . H 5 HOH A 26 727 727 HOH HOH . H 5 HOH A 27 728 728 HOH HOH . H 5 HOH A 28 729 729 HOH HOH . H 5 HOH A 29 730 730 HOH HOH . H 5 HOH A 30 731 731 HOH HOH . H 5 HOH A 31 732 732 HOH HOH . H 5 HOH A 32 764 764 HOH HOH . H 5 HOH A 33 765 765 HOH HOH . H 5 HOH A 34 766 766 HOH HOH . H 5 HOH A 35 769 769 HOH HOH . H 5 HOH A 36 770 770 HOH HOH . H 5 HOH A 37 771 771 HOH HOH . H 5 HOH A 38 772 772 HOH HOH . H 5 HOH A 39 773 773 HOH HOH . H 5 HOH A 40 774 774 HOH HOH . H 5 HOH A 41 775 775 HOH HOH . H 5 HOH A 42 776 776 HOH HOH . H 5 HOH A 43 777 777 HOH HOH . H 5 HOH A 44 778 778 HOH HOH . H 5 HOH A 45 779 779 HOH HOH . H 5 HOH A 46 780 780 HOH HOH . H 5 HOH A 47 781 781 HOH HOH . H 5 HOH A 48 782 782 HOH HOH . H 5 HOH A 49 783 783 HOH HOH . H 5 HOH A 50 784 784 HOH HOH . H 5 HOH A 51 785 785 HOH HOH . H 5 HOH A 52 786 786 HOH HOH . H 5 HOH A 53 807 807 HOH HOH . H 5 HOH A 54 808 808 HOH HOH . H 5 HOH A 55 809 809 HOH HOH . H 5 HOH A 56 810 810 HOH HOH . H 5 HOH A 57 811 811 HOH HOH . H 5 HOH A 58 812 812 HOH HOH . H 5 HOH A 59 813 813 HOH HOH . H 5 HOH A 60 814 814 HOH HOH . H 5 HOH A 61 815 815 HOH HOH . H 5 HOH A 62 816 816 HOH HOH . H 5 HOH A 63 817 817 HOH HOH . H 5 HOH A 64 820 820 HOH HOH . H 5 HOH A 65 821 821 HOH HOH . I 5 HOH B 1 710 710 HOH HOH . I 5 HOH B 2 733 733 HOH HOH . I 5 HOH B 3 734 734 HOH HOH . I 5 HOH B 4 735 735 HOH HOH . I 5 HOH B 5 736 736 HOH HOH . I 5 HOH B 6 737 737 HOH HOH . I 5 HOH B 7 738 738 HOH HOH . I 5 HOH B 8 739 739 HOH HOH . I 5 HOH B 9 740 740 HOH HOH . I 5 HOH B 10 741 741 HOH HOH . I 5 HOH B 11 742 742 HOH HOH . I 5 HOH B 12 743 743 HOH HOH . I 5 HOH B 13 744 744 HOH HOH . I 5 HOH B 14 745 745 HOH HOH . I 5 HOH B 15 746 746 HOH HOH . I 5 HOH B 16 747 747 HOH HOH . I 5 HOH B 17 748 748 HOH HOH . I 5 HOH B 18 749 749 HOH HOH . I 5 HOH B 19 750 750 HOH HOH . I 5 HOH B 20 751 751 HOH HOH . I 5 HOH B 21 752 752 HOH HOH . I 5 HOH B 22 753 753 HOH HOH . I 5 HOH B 23 754 754 HOH HOH . I 5 HOH B 24 755 755 HOH HOH . I 5 HOH B 25 756 756 HOH HOH . I 5 HOH B 26 757 757 HOH HOH . I 5 HOH B 27 758 758 HOH HOH . I 5 HOH B 28 759 759 HOH HOH . I 5 HOH B 29 760 760 HOH HOH . I 5 HOH B 30 761 761 HOH HOH . I 5 HOH B 31 762 762 HOH HOH . I 5 HOH B 32 763 763 HOH HOH . I 5 HOH B 33 767 767 HOH HOH . I 5 HOH B 34 768 768 HOH HOH . I 5 HOH B 35 787 787 HOH HOH . I 5 HOH B 36 788 788 HOH HOH . I 5 HOH B 37 789 789 HOH HOH . I 5 HOH B 38 790 790 HOH HOH . I 5 HOH B 39 791 791 HOH HOH . I 5 HOH B 40 792 792 HOH HOH . I 5 HOH B 41 793 793 HOH HOH . I 5 HOH B 42 794 794 HOH HOH . I 5 HOH B 43 795 795 HOH HOH . I 5 HOH B 44 796 796 HOH HOH . I 5 HOH B 45 797 797 HOH HOH . I 5 HOH B 46 798 798 HOH HOH . I 5 HOH B 47 799 799 HOH HOH . I 5 HOH B 48 800 800 HOH HOH . I 5 HOH B 49 801 801 HOH HOH . I 5 HOH B 50 802 802 HOH HOH . I 5 HOH B 51 803 803 HOH HOH . I 5 HOH B 52 804 804 HOH HOH . I 5 HOH B 53 805 805 HOH HOH . I 5 HOH B 54 806 806 HOH HOH . I 5 HOH B 55 818 818 HOH HOH . I 5 HOH B 56 819 819 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 MTX . . . D 3 22.665 58.821 24.168 1 2 ? N1 MTX 201 A 1 HETATM 2 C C2 MTX . . . D 3 23.267 58.32 23.09 1 2 ? C2 MTX 201 A 1 HETATM 3 N NA2 MTX . . . D 3 24.655 58.253 23.159 1 2.1 ? NA2 MTX 201 A 1 HETATM 4 N N3 MTX . . . D 3 22.479 57.899 22.045 1 2 ? N3 MTX 201 A 1 HETATM 5 C C4 MTX . . . D 3 21.115 57.886 21.902 1 2 ? C4 MTX 201 A 1 HETATM 6 N NA4 MTX . . . D 3 20.474 57.313 20.822 1 2 ? NA4 MTX 201 A 1 HETATM 7 C C4A MTX . . . D 3 20.502 58.437 23.064 1 3.4 ? C4A MTX 201 A 1 HETATM 8 N N5 MTX . . . D 3 19.136 58.515 23.099 1 4.7 ? N5 MTX 201 A 1 HETATM 9 C C6 MTX . . . D 3 18.66 59.023 24.246 1 2 ? C6 MTX 201 A 1 HETATM 10 C C7 MTX . . . D 3 19.49 59.432 25.289 1 2 ? C7 MTX 201 A 1 HETATM 11 N N8 MTX . . . D 3 20.878 59.385 25.305 1 2 ? N8 MTX 201 A 1 HETATM 12 C C8A MTX . . . D 3 21.326 58.864 24.139 1 5.3 ? C8A MTX 201 A 1 HETATM 13 C C9 MTX . . . D 3 17.218 59.429 24.209 1 2 ? C9 MTX 201 A 1 HETATM 14 N N10 MTX . . . D 3 16.91 60.501 25.289 1 2.3 ? N10 MTX 201 A 1 HETATM 15 C CM MTX . . . D 3 15.934 59.683 26.118 1 6.2 ? CM MTX 201 A 1 HETATM 16 C C11 MTX . . . D 3 17.977 64.583 25.58 1 9.8 ? C11 MTX 201 A 1 HETATM 17 C C12 MTX . . . D 3 17.223 63.897 26.544 1 6.9 ? C12 MTX 201 A 1 HETATM 18 C C13 MTX . . . D 3 16.946 62.552 26.416 1 6.1 ? C13 MTX 201 A 1 HETATM 19 C C14 MTX . . . D 3 17.402 61.827 25.315 1 4.4 ? C14 MTX 201 A 1 HETATM 20 C C15 MTX . . . D 3 18.166 62.489 24.361 1 2.5 ? C15 MTX 201 A 1 HETATM 21 C C16 MTX . . . D 3 18.45 63.847 24.49 1 11.4 ? C16 MTX 201 A 1 HETATM 22 C C MTX . . . D 3 18.094 66.036 25.813 1 13.4 ? C MTX 201 A 1 HETATM 23 O O MTX . . . D 3 17.137 66.309 26.532 1 14.7 ? O MTX 201 A 1 HETATM 24 N N MTX . . . D 3 18.903 66.988 25.352 1 14.5 ? N MTX 201 A 1 HETATM 25 C CA MTX . . . D 3 20.175 66.732 24.727 1 12.9 ? CA MTX 201 A 1 HETATM 26 C CT MTX . . . D 3 20.084 67.203 23.287 1 13.2 ? CT MTX 201 A 1 HETATM 27 O O1 MTX . . . D 3 20.137 66.313 22.436 1 13 ? O1 MTX 201 A 1 HETATM 28 O O2 MTX . . . D 3 19.918 68.415 23.016 1 10.1 ? O2 MTX 201 A 1 HETATM 29 C CB MTX . . . D 3 21.275 67.499 25.471 1 17.5 ? CB MTX 201 A 1 HETATM 30 C CG MTX . . . D 3 21.199 67.405 26.979 1 15.9 ? CG MTX 201 A 1 HETATM 31 C CD MTX . . . D 3 20.544 68.616 27.622 1 19.2 ? CD MTX 201 A 1 HETATM 32 O OE1 MTX . . . D 3 20.782 68.833 28.824 1 25.1 ? OE1 MTX 201 A 1 HETATM 33 O OE2 MTX . . . D 3 19.794 69.357 26.949 1 23.3 ? OE2 MTX 201 A 1 # _model_server_stats.io_time_ms 9 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 300 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 33 #