data_7UYF # _model_server_result.job_id qeiUWH37f_6km-Bt8xSTxQ _model_server_result.datetime_utc '2024-11-29 15:18:32' _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 7uyf # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":702}' # _entry.id 7UYF # _exptl.entry_id 7UYF _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 297.334 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "5'-DEOXY-5'-METHYLTHIOADENOSINE" _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 7UYF _cell.length_a 100.475 _cell.length_b 137.782 _cell.length_c 178.066 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7UYF _symmetry.cell_setting ? _symmetry.Int_Tables_number 23 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'I 2 2 2' # _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,I,J,K,L _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 # _chem_comp.formula 'C11 H15 N5 O3 S' _chem_comp.formula_weight 297.334 _chem_comp.id MTA _chem_comp.mon_nstd_flag . _chem_comp.name "5'-DEOXY-5'-METHYLTHIOADENOSINE" _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 CS S5' MTA sing 237 n n CS HCS1 MTA sing 238 n n CS HCS2 MTA sing 239 n n CS HCS3 MTA sing 240 n n S5' C5' MTA sing 241 n n C5' C4' MTA sing 242 n n C5' "H5'1" MTA sing 243 n n C5' "H5'2" MTA sing 244 n n C4' O4' MTA sing 245 n n C4' C3' MTA sing 246 n n C4' H4' MTA sing 247 n n O4' C1' MTA sing 248 n n C2' O2' MTA sing 249 n n C2' C3' MTA sing 250 n n C2' C1' MTA sing 251 n n C2' H2' MTA sing 252 n n O2' HO2' MTA sing 253 n n C3' O3' MTA sing 254 n n C3' H3' MTA sing 255 n n O3' H3T MTA sing 256 n n C1' N9 MTA sing 257 n n C1' H1' MTA sing 258 n n N9 C8 MTA sing 259 n y N9 C4 MTA sing 260 n y C8 N7 MTA doub 261 n y C8 H8 MTA sing 262 n n N7 C5 MTA sing 263 n y C5 C6 MTA sing 264 n y C5 C4 MTA doub 265 n y C6 N6 MTA sing 266 n n C6 N1 MTA doub 267 n y N6 H61 MTA sing 268 n n N6 H62 MTA sing 269 n n N1 C2 MTA sing 270 n y C2 N3 MTA doub 271 n y C2 H2 MTA sing 272 n n N3 C4 MTA sing 273 n y # _atom_sites.entry_id 7UYF _atom_sites.fract_transf_matrix[1][1] 0.009953 _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] 0.007258 _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] 0.005616 _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 PUI A 1 701 1 PUI INX . D 4 MTA A 1 702 1 MTA MTA . E 5 PEG A 1 703 2 PEG PEG . F 5 PEG A 1 704 3 PEG PEG . G 5 PEG A 1 705 4 PEG PEG . H 6 CL A 1 706 1 CL CL . I 6 CL A 1 707 2 CL CL . J 6 CL A 1 708 3 CL CL . K 7 HOH A 1 801 6 HOH HOH . K 7 HOH A 2 802 22 HOH HOH . K 7 HOH A 3 803 68 HOH HOH . K 7 HOH A 4 804 55 HOH HOH . K 7 HOH A 5 805 79 HOH HOH . K 7 HOH A 6 806 61 HOH HOH . K 7 HOH A 7 807 69 HOH HOH . K 7 HOH A 8 808 44 HOH HOH . K 7 HOH A 9 809 71 HOH HOH . K 7 HOH A 10 810 70 HOH HOH . K 7 HOH A 11 811 9 HOH HOH . K 7 HOH A 12 812 33 HOH HOH . K 7 HOH A 13 813 30 HOH HOH . K 7 HOH A 14 814 43 HOH HOH . K 7 HOH A 15 815 19 HOH HOH . K 7 HOH A 16 816 45 HOH HOH . K 7 HOH A 17 817 36 HOH HOH . K 7 HOH A 18 818 21 HOH HOH . K 7 HOH A 19 819 15 HOH HOH . K 7 HOH A 20 820 28 HOH HOH . K 7 HOH A 21 821 12 HOH HOH . K 7 HOH A 22 822 2 HOH HOH . K 7 HOH A 23 823 18 HOH HOH . K 7 HOH A 24 824 23 HOH HOH . K 7 HOH A 25 825 13 HOH HOH . K 7 HOH A 26 826 64 HOH HOH . K 7 HOH A 27 827 49 HOH HOH . K 7 HOH A 28 828 50 HOH HOH . K 7 HOH A 29 829 5 HOH HOH . K 7 HOH A 30 830 57 HOH HOH . K 7 HOH A 31 831 72 HOH HOH . K 7 HOH A 32 832 47 HOH HOH . K 7 HOH A 33 833 16 HOH HOH . K 7 HOH A 34 834 56 HOH HOH . K 7 HOH A 35 835 14 HOH HOH . K 7 HOH A 36 836 51 HOH HOH . K 7 HOH A 37 837 75 HOH HOH . K 7 HOH A 38 838 27 HOH HOH . K 7 HOH A 39 839 17 HOH HOH . K 7 HOH A 40 840 10 HOH HOH . K 7 HOH A 41 841 26 HOH HOH . K 7 HOH A 42 842 34 HOH HOH . K 7 HOH A 43 843 20 HOH HOH . K 7 HOH A 44 844 53 HOH HOH . K 7 HOH A 45 845 35 HOH HOH . K 7 HOH A 46 846 8 HOH HOH . K 7 HOH A 47 847 52 HOH HOH . K 7 HOH A 48 848 3 HOH HOH . K 7 HOH A 49 849 78 HOH HOH . K 7 HOH A 50 850 60 HOH HOH . K 7 HOH A 51 851 76 HOH HOH . K 7 HOH A 52 852 42 HOH HOH . K 7 HOH A 53 853 63 HOH HOH . K 7 HOH A 54 854 48 HOH HOH . K 7 HOH A 55 855 7 HOH HOH . K 7 HOH A 56 856 40 HOH HOH . K 7 HOH A 57 857 58 HOH HOH . K 7 HOH A 58 858 65 HOH HOH . K 7 HOH A 59 859 62 HOH HOH . K 7 HOH A 60 860 66 HOH HOH . L 7 HOH B 1 401 24 HOH HOH . L 7 HOH B 2 402 41 HOH HOH . L 7 HOH B 3 403 46 HOH HOH . L 7 HOH B 4 404 1 HOH HOH . L 7 HOH B 5 405 37 HOH HOH . L 7 HOH B 6 406 38 HOH HOH . L 7 HOH B 7 407 32 HOH HOH . L 7 HOH B 8 408 59 HOH HOH . L 7 HOH B 9 409 4 HOH HOH . L 7 HOH B 10 410 31 HOH HOH . L 7 HOH B 11 411 54 HOH HOH . L 7 HOH B 12 412 39 HOH HOH . L 7 HOH B 13 413 25 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 CS MTA . . . D 4 -28.67 -38.856 -6.817 1 50.93 ? CS MTA 702 A 1 HETATM 2 S S5' MTA . . . D 4 -30.171 -39.636 -6.358 1 54.32 ? S5' MTA 702 A 1 HETATM 3 C C5' MTA . . . D 4 -31.261 -38.256 -6.367 1 47.22 ? C5' MTA 702 A 1 HETATM 4 C C4' MTA . . . D 4 -31.38 -37.655 -4.979 1 44.85 ? C4' MTA 702 A 1 HETATM 5 O O4' MTA . . . D 4 -32.618 -36.947 -4.982 1 42.32 ? O4' MTA 702 A 1 HETATM 6 C C2' MTA . . . D 4 -32.981 -38.29 -3.197 1 43.88 ? C2' MTA 702 A 1 HETATM 7 O O2' MTA . . . D 4 -32.92 -38.313 -1.772 1 47.49 ? O2' MTA 702 A 1 HETATM 8 C C3' MTA . . . D 4 -31.646 -38.618 -3.819 1 45.15 ? C3' MTA 702 A 1 HETATM 9 O O3' MTA . . . D 4 -30.61 -38.407 -2.86 1 44.23 ? O3' MTA 702 A 1 HETATM 10 C C1' MTA . . . D 4 -33.225 -36.905 -3.706 1 40.6 ? C1' MTA 702 A 1 HETATM 11 N N9 MTA . . . D 4 -34.646 -36.603 -3.889 1 36.53 ? N9 MTA 702 A 1 HETATM 12 C C8 MTA . . . D 4 -35.545 -37.34 -4.556 1 37.08 ? C8 MTA 702 A 1 HETATM 13 N N7 MTA . . . D 4 -36.76 -36.752 -4.52 1 36.05 ? N7 MTA 702 A 1 HETATM 14 C C5 MTA . . . D 4 -36.632 -35.619 -3.822 1 35.31 ? C5 MTA 702 A 1 HETATM 15 C C6 MTA . . . D 4 -37.52 -34.522 -3.407 1 38.3 ? C6 MTA 702 A 1 HETATM 16 N N6 MTA . . . D 4 -38.824 -34.528 -3.748 1 40.55 ? N6 MTA 702 A 1 HETATM 17 N N1 MTA . . . D 4 -36.982 -33.51 -2.684 1 41.72 ? N1 MTA 702 A 1 HETATM 18 C C2 MTA . . . D 4 -35.677 -33.485 -2.338 1 42.02 ? C2 MTA 702 A 1 HETATM 19 N N3 MTA . . . D 4 -34.814 -34.456 -2.684 1 38.18 ? N3 MTA 702 A 1 HETATM 20 C C4 MTA . . . D 4 -35.231 -35.521 -3.412 1 36.34 ? C4 MTA 702 A 1 # _model_server_stats.io_time_ms 11 _model_server_stats.parse_time_ms 30 _model_server_stats.create_model_time_ms 7 _model_server_stats.query_time_ms 353 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 20 #