data_9MGN # _model_server_result.job_id -gyr7uPzBBb7CeMJHgI2Rw _model_server_result.datetime_utc '2025-07-08 00:23:30' _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 9mgn # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":702}' # _entry.id 9MGN # _exptl.entry_id 9MGN _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 9MGN _cell.length_a 101.65 _cell.length_b 137.84 _cell.length_c 179.09 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 9MGN _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 octameric _pdbx_struct_assembly.oligomeric_count 8 _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 _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2,3,4 # 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' 2_545 -x,-y-1,z -1 0 0 0 -1 0 0 0 1 0 -137.84 0 3 'crystal symmetry operation' 3_555 -x,y,-z -1 0 0 0 1 0 0 0 -1 0 0 0 4 'crystal symmetry operation' 4_545 x,-y-1,-z 1 0 0 0 -1 0 0 0 -1 0 -137.84 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 # _struct_conn.conn_type_id disulf _struct_conn.details ? _struct_conn.id disulf1 _struct_conn.ptnr1_label_asym_id B _struct_conn.ptnr1_label_atom_id SG _struct_conn.ptnr1_label_comp_id CYS _struct_conn.ptnr1_label_seq_id 216 _struct_conn.ptnr1_auth_asym_id B _struct_conn.ptnr1_auth_comp_id CYS _struct_conn.ptnr1_auth_seq_id 208 _struct_conn.ptnr1_symmetry 1_555 _struct_conn.ptnr2_label_asym_id B _struct_conn.ptnr2_label_atom_id SG _struct_conn.ptnr2_label_comp_id CYS _struct_conn.ptnr2_label_seq_id 255 _struct_conn.ptnr2_auth_asym_id B _struct_conn.ptnr2_auth_comp_id CYS _struct_conn.ptnr2_auth_seq_id 247 _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 2.035 _struct_conn.pdbx_value_order ? # _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 330 n n CS HCS1 MTA sing 331 n n CS HCS2 MTA sing 332 n n CS HCS3 MTA sing 333 n n S5' C5' MTA sing 334 n n C5' C4' MTA sing 335 n n C5' "H5'1" MTA sing 336 n n C5' "H5'2" MTA sing 337 n n C4' O4' MTA sing 338 n n C4' C3' MTA sing 339 n n C4' H4' MTA sing 340 n n O4' C1' MTA sing 341 n n C2' O2' MTA sing 342 n n C2' C3' MTA sing 343 n n C2' C1' MTA sing 344 n n C2' H2' MTA sing 345 n n O2' HO2' MTA sing 346 n n C3' O3' MTA sing 347 n n C3' H3' MTA sing 348 n n O3' H3T MTA sing 349 n n C1' N9 MTA sing 350 n n C1' H1' MTA sing 351 n n N9 C8 MTA sing 352 n y N9 C4 MTA sing 353 n y C8 N7 MTA doub 354 n y C8 H8 MTA sing 355 n n N7 C5 MTA sing 356 n y C5 C6 MTA sing 357 n y C5 C4 MTA doub 358 n y C6 N6 MTA sing 359 n n C6 N1 MTA doub 360 n y N6 H61 MTA sing 361 n n N6 H62 MTA sing 362 n n N1 C2 MTA sing 363 n y C2 N3 MTA doub 364 n y C2 H2 MTA sing 365 n n N3 C4 MTA sing 366 n y # _atom_sites.entry_id 9MGN _atom_sites.fract_transf_matrix[1][1] 0.009838 _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] 0.007255 _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] 0.005584 _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 A1BLK A 1 701 1 A1BLK LIG . D 4 MTA A 1 702 1 MTA MTA . E 5 GOL A 1 703 1 GOL GOL . F 6 EDO A 1 704 1 EDO EDO . G 6 EDO A 1 705 2 EDO EDO . H 7 HOH A 1 801 3 HOH HOH . H 7 HOH A 2 802 6 HOH HOH . H 7 HOH A 3 803 5 HOH HOH . H 7 HOH A 4 804 2 HOH HOH . H 7 HOH A 5 805 1 HOH HOH . I 7 HOH B 1 401 4 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 21.798 -39.399 -6.578 1 78.36 ? CS MTA 702 A 1 HETATM 2 S S5' MTA . . . D 4 20.261 -40.218 -6.363 1 78.35 ? S5' MTA 702 A 1 HETATM 3 C C5' MTA . . . D 4 19.263 -38.787 -6.12 1 77.04 ? C5' MTA 702 A 1 HETATM 4 C C4' MTA . . . D 4 19.6 -38.063 -4.822 1 76.52 ? C4' MTA 702 A 1 HETATM 5 O O4' MTA . . . D 4 18.611 -37.051 -4.662 1 76.28 ? O4' MTA 702 A 1 HETATM 6 C C2' MTA . . . D 4 18.115 -38.726 -3.074 1 75.82 ? C2' MTA 702 A 1 HETATM 7 O O2' MTA . . . D 4 17.973 -38.914 -1.662 1 75.54 ? O2' MTA 702 A 1 HETATM 8 C C3' MTA . . . D 4 19.533 -38.921 -3.564 1 76.33 ? C3' MTA 702 A 1 HETATM 9 O O3' MTA . . . D 4 20.476 -38.423 -2.606 1 76.12 ? O3' MTA 702 A 1 HETATM 10 C C1' MTA . . . D 4 17.833 -37.291 -3.493 1 75.08 ? C1' MTA 702 A 1 HETATM 11 N N9 MTA . . . D 4 16.407 -37.054 -3.786 1 74.55 ? N9 MTA 702 A 1 HETATM 12 C C8 MTA . . . D 4 15.584 -37.847 -4.499 1 75 ? C8 MTA 702 A 1 HETATM 13 N N7 MTA . . . D 4 14.344 -37.304 -4.558 1 74.86 ? N7 MTA 702 A 1 HETATM 14 C C5 MTA . . . D 4 14.369 -36.147 -3.875 1 74.24 ? C5 MTA 702 A 1 HETATM 15 C C6 MTA . . . D 4 13.407 -35.075 -3.538 1 73.62 ? C6 MTA 702 A 1 HETATM 16 N N6 MTA . . . D 4 12.124 -35.126 -3.958 1 73.94 ? N6 MTA 702 A 1 HETATM 17 N N1 MTA . . . D 4 13.853 -34.031 -2.8 1 73.98 ? N1 MTA 702 A 1 HETATM 18 C C2 MTA . . . D 4 15.126 -33.943 -2.368 1 74.71 ? C2 MTA 702 A 1 HETATM 19 N N3 MTA . . . D 4 16.051 -34.886 -2.638 1 74.34 ? N3 MTA 702 A 1 HETATM 20 C C4 MTA . . . D 4 15.738 -35.984 -3.37 1 74.42 ? C4 MTA 702 A 1 # _model_server_stats.io_time_ms 11 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 6 _model_server_stats.query_time_ms 299 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 20 #