data_6W61 # _model_server_result.job_id YXPwC9OxTTtWfS_yCbefGQ _model_server_result.datetime_utc '2024-11-16 07:47:15' _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 6w61 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":7104}' # _entry.id 6W61 # _exptl.entry_id 6W61 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 398.437 _entity.id 5 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description S-ADENOSYLMETHIONINE _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 120 _cell.entry_id 6W61 _cell.length_a 168.564 _cell.length_b 168.564 _cell.length_c 51.962 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6W61 _symmetry.cell_setting ? _symmetry.Int_Tables_number 152 _symmetry.space_group_name_Hall 'P 31 2"' _symmetry.space_group_name_H-M 'P 31 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,I,J,K _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 5 _struct_asym.id F _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag 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 THR 137 A THR 6934 1_555 A N KCX 138 A KCX 6935 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? covale ? covale2 A C KCX 138 A KCX 6935 1_555 A N ASN 139 A ASN 6936 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.326 ? metalc ? metalc1 B SG CYS 75 B CYS 4327 1_555 I ZN ZN . B ZN 4403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.315 ? metalc ? metalc2 B SG CYS 78 B CYS 4330 1_555 I ZN ZN . B ZN 4403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.354 ? metalc ? metalc3 B NE2 HIS 84 B HIS 4336 1_555 I ZN ZN . B ZN 4403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.11 ? metalc ? metalc4 B SG CYS 91 B CYS 4343 1_555 I ZN ZN . B ZN 4403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.36 ? metalc ? metalc5 B SG CYS 118 B CYS 4370 1_555 H ZN ZN . B ZN 4402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.404 ? metalc ? metalc6 B SG CYS 121 B CYS 4373 1_555 H ZN ZN . B ZN 4402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.383 ? metalc ? metalc7 B SG CYS 129 B CYS 4381 1_555 H ZN ZN . B ZN 4402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.363 ? metalc ? metalc8 B SG CYS 131 B CYS 4383 1_555 H ZN ZN . B ZN 4402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.39 ? # _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 312 n n N HN1 SAM sing 313 n n N HN2 SAM sing 314 n n CA C SAM sing 315 n n CA CB SAM sing 316 n n CA HA SAM sing 317 n n C O SAM doub 318 n n C OXT SAM sing 319 n n CB CG SAM sing 320 n n CB HB1 SAM sing 321 n n CB HB2 SAM sing 322 n n CG SD SAM sing 323 n n CG HG1 SAM sing 324 n n CG HG2 SAM sing 325 n n SD CE SAM sing 326 n n SD C5' SAM sing 327 n n CE HE1 SAM sing 328 n n CE HE2 SAM sing 329 n n CE HE3 SAM sing 330 n n C5' C4' SAM sing 331 n n C5' "H5'1" SAM sing 332 n n C5' "H5'2" SAM sing 333 n n C4' O4' SAM sing 334 n n C4' C3' SAM sing 335 n n C4' H4' SAM sing 336 n n O4' C1' SAM sing 337 n n C3' O3' SAM sing 338 n n C3' C2' SAM sing 339 n n C3' H3' SAM sing 340 n n O3' HO3' SAM sing 341 n n C2' O2' SAM sing 342 n n C2' C1' SAM sing 343 n n C2' H2' SAM sing 344 n n O2' HO2' SAM sing 345 n n C1' N9 SAM sing 346 n n C1' H1' SAM sing 347 n n N9 C8 SAM sing 348 n y N9 C4 SAM sing 349 n y C8 N7 SAM doub 350 n y C8 H8 SAM sing 351 n n N7 C5 SAM sing 352 n y C5 C6 SAM sing 353 n y C5 C4 SAM doub 354 n y C6 N6 SAM sing 355 n n C6 N1 SAM doub 356 n y N6 HN61 SAM sing 357 n n N6 HN62 SAM sing 358 n n N1 C2 SAM sing 359 n y C2 N3 SAM doub 360 n y C2 H2 SAM sing 361 n n N3 C4 SAM sing 362 n y # _atom_sites.entry_id 6W61 _atom_sites.fract_transf_matrix[1][1] 0.005932 _atom_sites.fract_transf_matrix[1][2] 0.003425 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.00685 _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] 0.019245 _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 CL A 1 7101 7152 CL CL . D 4 EDO A 1 7102 7153 EDO EDO . E 4 EDO A 1 7103 7154 EDO EDO . F 5 SAM A 1 7104 7151 SAM SAM . G 4 EDO B 1 4401 4503 EDO EDO . H 6 ZN B 1 4402 4501 ZN ZN . I 6 ZN B 1 4403 4502 ZN ZN . J 7 HOH A 1 7201 117 HOH HOH . J 7 HOH A 2 7202 53 HOH HOH . J 7 HOH A 3 7203 83 HOH HOH . J 7 HOH A 4 7204 3 HOH HOH . J 7 HOH A 5 7205 13 HOH HOH . J 7 HOH A 6 7206 2 HOH HOH . J 7 HOH A 7 7207 63 HOH HOH . J 7 HOH A 8 7208 113 HOH HOH . J 7 HOH A 9 7209 1 HOH HOH . J 7 HOH A 10 7210 52 HOH HOH . J 7 HOH A 11 7211 56 HOH HOH . J 7 HOH A 12 7212 139 HOH HOH . J 7 HOH A 13 7213 115 HOH HOH . J 7 HOH A 14 7214 48 HOH HOH . J 7 HOH A 15 7215 68 HOH HOH . J 7 HOH A 16 7216 46 HOH HOH . J 7 HOH A 17 7217 19 HOH HOH . J 7 HOH A 18 7218 55 HOH HOH . J 7 HOH A 19 7219 111 HOH HOH . J 7 HOH A 20 7220 61 HOH HOH . J 7 HOH A 21 7221 35 HOH HOH . J 7 HOH A 22 7222 15 HOH HOH . J 7 HOH A 23 7223 6 HOH HOH . J 7 HOH A 24 7224 17 HOH HOH . J 7 HOH A 25 7225 42 HOH HOH . J 7 HOH A 26 7226 59 HOH HOH . J 7 HOH A 27 7227 101 HOH HOH . J 7 HOH A 28 7228 60 HOH HOH . J 7 HOH A 29 7229 65 HOH HOH . J 7 HOH A 30 7230 116 HOH HOH . J 7 HOH A 31 7231 25 HOH HOH . J 7 HOH A 32 7232 32 HOH HOH . J 7 HOH A 33 7233 8 HOH HOH . J 7 HOH A 34 7234 4 HOH HOH . J 7 HOH A 35 7235 41 HOH HOH . J 7 HOH A 36 7236 18 HOH HOH . J 7 HOH A 37 7237 31 HOH HOH . J 7 HOH A 38 7238 69 HOH HOH . J 7 HOH A 39 7239 88 HOH HOH . J 7 HOH A 40 7240 79 HOH HOH . J 7 HOH A 41 7241 103 HOH HOH . J 7 HOH A 42 7242 54 HOH HOH . J 7 HOH A 43 7243 141 HOH HOH . J 7 HOH A 44 7244 57 HOH HOH . J 7 HOH A 45 7245 37 HOH HOH . J 7 HOH A 46 7246 7 HOH HOH . J 7 HOH A 47 7247 107 HOH HOH . J 7 HOH A 48 7248 38 HOH HOH . J 7 HOH A 49 7249 124 HOH HOH . J 7 HOH A 50 7250 147 HOH HOH . J 7 HOH A 51 7251 33 HOH HOH . J 7 HOH A 52 7252 22 HOH HOH . J 7 HOH A 53 7253 9 HOH HOH . J 7 HOH A 54 7254 89 HOH HOH . J 7 HOH A 55 7255 40 HOH HOH . J 7 HOH A 56 7256 64 HOH HOH . J 7 HOH A 57 7257 14 HOH HOH . J 7 HOH A 58 7258 66 HOH HOH . J 7 HOH A 59 7259 26 HOH HOH . J 7 HOH A 60 7260 133 HOH HOH . J 7 HOH A 61 7261 140 HOH HOH . J 7 HOH A 62 7262 47 HOH HOH . J 7 HOH A 63 7263 125 HOH HOH . J 7 HOH A 64 7264 80 HOH HOH . J 7 HOH A 65 7265 34 HOH HOH . J 7 HOH A 66 7266 120 HOH HOH . J 7 HOH A 67 7267 102 HOH HOH . J 7 HOH A 68 7268 10 HOH HOH . J 7 HOH A 69 7269 87 HOH HOH . J 7 HOH A 70 7270 108 HOH HOH . J 7 HOH A 71 7271 109 HOH HOH . J 7 HOH A 72 7272 135 HOH HOH . J 7 HOH A 73 7273 148 HOH HOH . J 7 HOH A 74 7274 20 HOH HOH . J 7 HOH A 75 7275 122 HOH HOH . J 7 HOH A 76 7276 73 HOH HOH . J 7 HOH A 77 7277 96 HOH HOH . J 7 HOH A 78 7278 44 HOH HOH . J 7 HOH A 79 7279 21 HOH HOH . J 7 HOH A 80 7280 119 HOH HOH . J 7 HOH A 81 7281 78 HOH HOH . J 7 HOH A 82 7282 45 HOH HOH . J 7 HOH A 83 7283 50 HOH HOH . J 7 HOH A 84 7284 71 HOH HOH . J 7 HOH A 85 7285 85 HOH HOH . J 7 HOH A 86 7286 145 HOH HOH . J 7 HOH A 87 7287 29 HOH HOH . J 7 HOH A 88 7288 11 HOH HOH . J 7 HOH A 89 7289 12 HOH HOH . J 7 HOH A 90 7290 105 HOH HOH . J 7 HOH A 91 7291 110 HOH HOH . J 7 HOH A 92 7292 114 HOH HOH . J 7 HOH A 93 7293 118 HOH HOH . J 7 HOH A 94 7294 93 HOH HOH . J 7 HOH A 95 7295 36 HOH HOH . J 7 HOH A 96 7296 67 HOH HOH . J 7 HOH A 97 7297 81 HOH HOH . J 7 HOH A 98 7298 138 HOH HOH . J 7 HOH A 99 7299 126 HOH HOH . J 7 HOH A 100 7300 43 HOH HOH . J 7 HOH A 101 7301 95 HOH HOH . J 7 HOH A 102 7302 75 HOH HOH . J 7 HOH A 103 7303 151 HOH HOH . J 7 HOH A 104 7304 144 HOH HOH . J 7 HOH A 105 7305 86 HOH HOH . J 7 HOH A 106 7306 51 HOH HOH . J 7 HOH A 107 7307 76 HOH HOH . J 7 HOH A 108 7308 132 HOH HOH . J 7 HOH A 109 7309 150 HOH HOH . J 7 HOH A 110 7310 128 HOH HOH . J 7 HOH A 111 7311 94 HOH HOH . J 7 HOH A 112 7312 112 HOH HOH . J 7 HOH A 113 7313 100 HOH HOH . J 7 HOH A 114 7314 23 HOH HOH . J 7 HOH A 115 7315 123 HOH HOH . J 7 HOH A 116 7316 82 HOH HOH . J 7 HOH A 117 7317 74 HOH HOH . J 7 HOH A 118 7318 70 HOH HOH . K 7 HOH B 1 4501 92 HOH HOH . K 7 HOH B 2 4502 39 HOH HOH . K 7 HOH B 3 4503 62 HOH HOH . K 7 HOH B 4 4504 49 HOH HOH . K 7 HOH B 5 4505 16 HOH HOH . K 7 HOH B 6 4506 91 HOH HOH . K 7 HOH B 7 4507 27 HOH HOH . K 7 HOH B 8 4508 98 HOH HOH . K 7 HOH B 9 4509 28 HOH HOH . K 7 HOH B 10 4510 24 HOH HOH . K 7 HOH B 11 4511 134 HOH HOH . K 7 HOH B 12 4512 72 HOH HOH . K 7 HOH B 13 4513 5 HOH HOH . K 7 HOH B 14 4514 97 HOH HOH . K 7 HOH B 15 4515 106 HOH HOH . K 7 HOH B 16 4516 84 HOH HOH . K 7 HOH B 17 4517 30 HOH HOH . K 7 HOH B 18 4518 121 HOH HOH . K 7 HOH B 19 4519 99 HOH HOH . K 7 HOH B 20 4520 146 HOH HOH . K 7 HOH B 21 4521 152 HOH HOH . K 7 HOH B 22 4522 58 HOH HOH . K 7 HOH B 23 4523 143 HOH HOH . K 7 HOH B 24 4524 142 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 . . . F 5 -59.591 65.229 1.423 1 70.45 ? N SAM 7104 A 1 HETATM 2 C CA SAM . . . F 5 -59.898 66.611 1.07 1 84.1 ? CA SAM 7104 A 1 HETATM 3 C C SAM . . . F 5 -61.264 67.047 1.592 1 89.96 ? C SAM 7104 A 1 HETATM 4 O O SAM . . . F 5 -61.757 66.523 2.591 1 89.3 ? O SAM 7104 A 1 HETATM 5 O OXT SAM . . . F 5 -61.898 67.946 1.038 1 88.36 ? OXT SAM 7104 A 1 HETATM 6 C CB SAM . . . F 5 -59.822 66.794 -0.442 1 79.54 ? CB SAM 7104 A 1 HETATM 7 C CG SAM . . . F 5 -59.036 65.707 -1.167 1 88.56 ? CG SAM 7104 A 1 HETATM 8 S SD SAM . . . F 5 -58.656 66.165 -2.877 1 93.78 ? SD SAM 7104 A 1 HETATM 9 C CE SAM . . . F 5 -59.819 65.08 -3.735 1 100.41 ? CE SAM 7104 A 1 HETATM 10 C C5' SAM . . . F 5 -57.121 65.255 -3.192 1 94.19 ? C5' SAM 7104 A 1 HETATM 11 C C4' SAM . . . F 5 -55.9 65.917 -2.571 1 90.25 ? C4' SAM 7104 A 1 HETATM 12 O O4' SAM . . . F 5 -54.761 65.085 -2.697 1 84.45 ? O4' SAM 7104 A 1 HETATM 13 C C3' SAM . . . F 5 -55.576 67.233 -3.259 1 89.05 ? C3' SAM 7104 A 1 HETATM 14 O O3' SAM . . . F 5 -55.788 68.294 -2.359 1 80.67 ? O3' SAM 7104 A 1 HETATM 15 C C2' SAM . . . F 5 -54.107 67.145 -3.614 1 86.87 ? C2' SAM 7104 A 1 HETATM 16 O O2' SAM . . . F 5 -53.423 68.281 -3.144 1 82.29 ? O2' SAM 7104 A 1 HETATM 17 C C1' SAM . . . F 5 -53.624 65.904 -2.882 1 84.52 ? C1' SAM 7104 A 1 HETATM 18 N N9 SAM . . . F 5 -52.533 65.222 -3.606 1 77.9 ? N9 SAM 7104 A 1 HETATM 19 C C8 SAM . . . F 5 -52.532 64.8 -4.911 1 72.16 ? C8 SAM 7104 A 1 HETATM 20 N N7 SAM . . . F 5 -51.332 64.23 -5.173 1 74.11 ? N7 SAM 7104 A 1 HETATM 21 C C5 SAM . . . F 5 -50.569 64.287 -4.058 1 70.9 ? C5 SAM 7104 A 1 HETATM 22 C C6 SAM . . . F 5 -49.277 63.856 -3.783 1 67.43 ? C6 SAM 7104 A 1 HETATM 23 N N6 SAM . . . F 5 -48.559 63.259 -4.73 1 61.92 ? N6 SAM 7104 A 1 HETATM 24 N N1 SAM . . . F 5 -48.746 64.053 -2.524 1 61.65 ? N1 SAM 7104 A 1 HETATM 25 C C2 SAM . . . F 5 -49.501 64.675 -1.549 1 62.21 ? C2 SAM 7104 A 1 HETATM 26 N N3 SAM . . . F 5 -50.784 65.1 -1.831 1 64.67 ? N3 SAM 7104 A 1 HETATM 27 C C4 SAM . . . F 5 -51.311 64.909 -3.066 1 72.39 ? C4 SAM 7104 A 1 # _model_server_stats.io_time_ms 27 _model_server_stats.parse_time_ms 15 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 272 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 27 #