data_3NK7 # _model_server_result.job_id 5zNvyDzL0VVX8doyUQBhdA _model_server_result.datetime_utc '2025-03-05 18:23:16' _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 3nk7 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":770}' # _entry.id 3NK7 # _exptl.entry_id 3NK7 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 398.437 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description S-ADENOSYLMETHIONINE _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 117.56 _cell.angle_gamma 90 _cell.entry_id 3NK7 _cell.length_a 63.651 _cell.length_b 69.211 _cell.length_c 64.444 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3NK7 _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1 21 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 _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 D N N # _chem_comp.formula 'C15 H22 N6 O5 S' _chem_comp.formula_weight 398.437 _chem_comp.id SAM _chem_comp.mon_nstd_flag . _chem_comp.name S-ADENOSYLMETHIONINE _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 N CA SAM sing 277 n n N HN1 SAM sing 278 n n N HN2 SAM sing 279 n n CA C SAM sing 280 n n CA CB SAM sing 281 n n CA HA SAM sing 282 n n C O SAM doub 283 n n C OXT SAM sing 284 n n CB CG SAM sing 285 n n CB HB1 SAM sing 286 n n CB HB2 SAM sing 287 n n CG SD SAM sing 288 n n CG HG1 SAM sing 289 n n CG HG2 SAM sing 290 n n SD CE SAM sing 291 n n SD C5' SAM sing 292 n n CE HE1 SAM sing 293 n n CE HE2 SAM sing 294 n n CE HE3 SAM sing 295 n n C5' C4' SAM sing 296 n n C5' "H5'1" SAM sing 297 n n C5' "H5'2" SAM sing 298 n n C4' O4' SAM sing 299 n n C4' C3' SAM sing 300 n n C4' H4' SAM sing 301 n n O4' C1' SAM sing 302 n n C3' O3' SAM sing 303 n n C3' C2' SAM sing 304 n n C3' H3' SAM sing 305 n n O3' HO3' SAM sing 306 n n C2' O2' SAM sing 307 n n C2' C1' SAM sing 308 n n C2' H2' SAM sing 309 n n O2' HO2' SAM sing 310 n n C1' N9 SAM sing 311 n n C1' H1' SAM sing 312 n n N9 C8 SAM sing 313 n y N9 C4 SAM sing 314 n y C8 N7 SAM doub 315 n y C8 H8 SAM sing 316 n n N7 C5 SAM sing 317 n y C5 C6 SAM sing 318 n y C5 C4 SAM doub 319 n y C6 N6 SAM sing 320 n n C6 N1 SAM doub 321 n y N6 HN61 SAM sing 322 n n N6 HN62 SAM sing 323 n n N1 C2 SAM sing 324 n y C2 N3 SAM doub 325 n y C2 H2 SAM sing 326 n n N3 C4 SAM sing 327 n y # _atom_sites.entry_id 3NK7 _atom_sites.fract_transf_matrix[1][1] 0.015711 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.008199 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.014449 _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] 0.017503 _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 SAM A 1 770 770 SAM SAM . D 2 SAM B 1 770 770 SAM SAM . E 3 HOH A 1 275 1 HOH HOH . E 3 HOH A 2 276 3 HOH HOH . E 3 HOH A 3 277 4 HOH HOH . E 3 HOH A 4 278 9 HOH HOH . E 3 HOH A 5 279 12 HOH HOH . E 3 HOH A 6 280 13 HOH HOH . E 3 HOH A 7 281 14 HOH HOH . E 3 HOH A 8 282 16 HOH HOH . E 3 HOH A 9 283 19 HOH HOH . E 3 HOH A 10 284 21 HOH HOH . E 3 HOH A 11 285 22 HOH HOH . E 3 HOH A 12 286 23 HOH HOH . E 3 HOH A 13 287 26 HOH HOH . E 3 HOH A 14 288 27 HOH HOH . E 3 HOH A 15 289 30 HOH HOH . E 3 HOH A 16 290 37 HOH HOH . E 3 HOH A 17 291 39 HOH HOH . E 3 HOH A 18 292 43 HOH HOH . E 3 HOH A 19 293 47 HOH HOH . E 3 HOH A 20 294 50 HOH HOH . E 3 HOH A 21 295 52 HOH HOH . E 3 HOH A 22 296 53 HOH HOH . E 3 HOH A 23 297 55 HOH HOH . E 3 HOH A 24 298 56 HOH HOH . E 3 HOH A 25 299 63 HOH HOH . E 3 HOH A 26 300 67 HOH HOH . E 3 HOH A 27 301 68 HOH HOH . E 3 HOH A 28 302 70 HOH HOH . E 3 HOH A 29 303 71 HOH HOH . E 3 HOH A 30 304 74 HOH HOH . E 3 HOH A 31 305 75 HOH HOH . E 3 HOH A 32 306 77 HOH HOH . E 3 HOH A 33 307 82 HOH HOH . E 3 HOH A 34 308 91 HOH HOH . E 3 HOH A 35 309 92 HOH HOH . E 3 HOH A 36 310 94 HOH HOH . E 3 HOH A 37 311 95 HOH HOH . E 3 HOH A 38 312 96 HOH HOH . E 3 HOH A 39 313 99 HOH HOH . E 3 HOH A 40 314 100 HOH HOH . E 3 HOH A 41 315 102 HOH HOH . E 3 HOH A 42 316 112 HOH HOH . E 3 HOH A 43 317 114 HOH HOH . E 3 HOH A 44 318 115 HOH HOH . E 3 HOH A 45 319 116 HOH HOH . E 3 HOH A 46 320 118 HOH HOH . E 3 HOH A 47 321 119 HOH HOH . E 3 HOH A 48 322 131 HOH HOH . E 3 HOH A 49 323 132 HOH HOH . E 3 HOH A 50 324 137 HOH HOH . E 3 HOH A 51 325 138 HOH HOH . E 3 HOH A 52 326 139 HOH HOH . E 3 HOH A 53 327 140 HOH HOH . E 3 HOH A 54 328 141 HOH HOH . E 3 HOH A 55 329 142 HOH HOH . E 3 HOH A 56 330 145 HOH HOH . E 3 HOH A 57 331 146 HOH HOH . E 3 HOH A 58 332 153 HOH HOH . E 3 HOH A 59 333 155 HOH HOH . E 3 HOH A 60 334 156 HOH HOH . E 3 HOH A 61 335 160 HOH HOH . E 3 HOH A 62 336 161 HOH HOH . E 3 HOH A 63 337 162 HOH HOH . F 3 HOH B 1 275 2 HOH HOH . F 3 HOH B 2 276 5 HOH HOH . F 3 HOH B 3 277 6 HOH HOH . F 3 HOH B 4 278 7 HOH HOH . F 3 HOH B 5 279 10 HOH HOH . F 3 HOH B 6 280 11 HOH HOH . F 3 HOH B 7 281 15 HOH HOH . F 3 HOH B 8 282 17 HOH HOH . F 3 HOH B 9 283 18 HOH HOH . F 3 HOH B 10 284 25 HOH HOH . F 3 HOH B 11 285 29 HOH HOH . F 3 HOH B 12 286 34 HOH HOH . F 3 HOH B 13 287 35 HOH HOH . F 3 HOH B 14 288 36 HOH HOH . F 3 HOH B 15 289 38 HOH HOH . F 3 HOH B 16 290 44 HOH HOH . F 3 HOH B 17 291 45 HOH HOH . F 3 HOH B 18 292 48 HOH HOH . F 3 HOH B 19 293 49 HOH HOH . F 3 HOH B 20 294 54 HOH HOH . F 3 HOH B 21 295 57 HOH HOH . F 3 HOH B 22 296 58 HOH HOH . F 3 HOH B 23 297 59 HOH HOH . F 3 HOH B 24 298 60 HOH HOH . F 3 HOH B 25 299 61 HOH HOH . F 3 HOH B 26 300 62 HOH HOH . F 3 HOH B 27 301 65 HOH HOH . F 3 HOH B 28 302 66 HOH HOH . F 3 HOH B 29 303 69 HOH HOH . F 3 HOH B 30 304 72 HOH HOH . F 3 HOH B 31 305 73 HOH HOH . F 3 HOH B 32 306 76 HOH HOH . F 3 HOH B 33 307 78 HOH HOH . F 3 HOH B 34 308 79 HOH HOH . F 3 HOH B 35 309 80 HOH HOH . F 3 HOH B 36 310 81 HOH HOH . F 3 HOH B 37 311 83 HOH HOH . F 3 HOH B 38 312 84 HOH HOH . F 3 HOH B 39 313 86 HOH HOH . F 3 HOH B 40 314 87 HOH HOH . F 3 HOH B 41 315 88 HOH HOH . F 3 HOH B 42 316 89 HOH HOH . F 3 HOH B 43 317 90 HOH HOH . F 3 HOH B 44 318 93 HOH HOH . F 3 HOH B 45 319 97 HOH HOH . F 3 HOH B 46 320 101 HOH HOH . F 3 HOH B 47 321 103 HOH HOH . F 3 HOH B 48 322 105 HOH HOH . F 3 HOH B 49 323 106 HOH HOH . F 3 HOH B 50 324 108 HOH HOH . F 3 HOH B 51 325 110 HOH HOH . F 3 HOH B 52 326 113 HOH HOH . F 3 HOH B 53 327 117 HOH HOH . F 3 HOH B 54 328 120 HOH HOH . F 3 HOH B 55 329 121 HOH HOH . F 3 HOH B 56 330 122 HOH HOH . F 3 HOH B 57 331 124 HOH HOH . F 3 HOH B 58 332 125 HOH HOH . F 3 HOH B 59 333 126 HOH HOH . F 3 HOH B 60 334 127 HOH HOH . F 3 HOH B 61 335 128 HOH HOH . F 3 HOH B 62 336 129 HOH HOH . F 3 HOH B 63 337 130 HOH HOH . F 3 HOH B 64 338 133 HOH HOH . F 3 HOH B 65 339 134 HOH HOH . F 3 HOH B 66 340 135 HOH HOH . F 3 HOH B 67 341 136 HOH HOH . F 3 HOH B 68 342 143 HOH HOH . F 3 HOH B 69 343 144 HOH HOH . F 3 HOH B 70 344 147 HOH HOH . F 3 HOH B 71 345 151 HOH HOH . F 3 HOH B 72 346 152 HOH HOH . F 3 HOH B 73 347 154 HOH HOH . F 3 HOH B 74 348 158 HOH HOH . F 3 HOH B 75 349 159 HOH HOH . F 3 HOH B 76 350 163 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 N SAM . . . C 2 3.356 9.089 22.91 0.5 66.08 ? N SAM 770 A 1 HETATM 2 C CA SAM . . . C 2 4.379 9.895 22.254 0.5 56.06 ? CA SAM 770 A 1 HETATM 3 C C SAM . . . C 2 5.663 9.109 21.973 0.5 42.58 ? C SAM 770 A 1 HETATM 4 O O SAM . . . C 2 6.772 9.562 22.266 0.5 17.76 ? O SAM 770 A 1 HETATM 5 O OXT SAM . . . C 2 5.623 7.997 21.437 0.5 54.08 ? OXT SAM 770 A 1 HETATM 6 C CB SAM . . . C 2 4.666 11.137 23.088 0.5 60.08 ? CB SAM 770 A 1 HETATM 7 C CG SAM . . . C 2 4.024 11.116 24.466 1 65.22 ? CG SAM 770 A 1 HETATM 8 S SD SAM . . . C 2 4.885 12.164 25.67 1 131.21 ? SD SAM 770 A 1 HETATM 9 C CE SAM . . . C 2 3.584 13.333 26.139 1 101.74 ? CE SAM 770 A 1 HETATM 10 C C5' SAM . . . C 2 5.909 13.167 24.572 1 92.12 ? C5' SAM 770 A 1 HETATM 11 C C4' SAM . . . C 2 7.246 13.649 25.125 1 90.11 ? C4' SAM 770 A 1 HETATM 12 O O4' SAM . . . C 2 7.748 14.545 24.152 1 87.09 ? O4' SAM 770 A 1 HETATM 13 C C3' SAM . . . C 2 7.125 14.418 26.443 1 93.92 ? C3' SAM 770 A 1 HETATM 14 O O3' SAM . . . C 2 7.871 13.818 27.473 1 101.13 ? O3' SAM 770 A 1 HETATM 15 C C2' SAM . . . C 2 7.691 15.794 26.177 1 88.16 ? C2' SAM 770 A 1 HETATM 16 O O2' SAM . . . C 2 8.991 15.914 26.726 1 82.44 ? O2' SAM 770 A 1 HETATM 17 C C1' SAM . . . C 2 7.755 15.865 24.662 1 85.27 ? C1' SAM 770 A 1 HETATM 18 N N9 SAM . . . C 2 6.577 16.594 24.131 1 77.86 ? N9 SAM 770 A 1 HETATM 19 C C8 SAM . . . C 2 5.423 16.07 23.57 1 72.42 ? C8 SAM 770 A 1 HETATM 20 N N7 SAM . . . C 2 4.599 17.086 23.208 1 62.5 ? N7 SAM 770 A 1 HETATM 21 C C5 SAM . . . C 2 5.212 18.26 23.54 1 70.22 ? C5 SAM 770 A 1 HETATM 22 C C6 SAM . . . C 2 4.836 19.608 23.416 1 67.59 ? C6 SAM 770 A 1 HETATM 23 N N6 SAM . . . C 2 3.67 19.954 22.865 1 66.6 ? N6 SAM 770 A 1 HETATM 24 N N1 SAM . . . C 2 5.696 20.597 23.86 1 60.37 ? N1 SAM 770 A 1 HETATM 25 C C2 SAM . . . C 2 6.919 20.266 24.43 1 70.12 ? C2 SAM 770 A 1 HETATM 26 N N3 SAM . . . C 2 7.293 18.94 24.558 1 68.54 ? N3 SAM 770 A 1 HETATM 27 C C4 SAM . . . C 2 6.452 17.961 24.119 1 69.86 ? C4 SAM 770 A 1 # _model_server_stats.io_time_ms 11 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 218 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 27 #