data_3S7J # _model_server_result.job_id Qs1haVnTLN0e2DyQWKf-kA _model_server_result.datetime_utc '2024-12-23 06:04:48' _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 3s7j # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":1000}' # _entry.id 3S7J # _exptl.entry_id 3S7J _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 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 3S7J _cell.length_a 154.565 _cell.length_b 154.565 _cell.length_c 53.18 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3S7J _symmetry.cell_setting ? _symmetry.Int_Tables_number 79 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'I 4' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _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 _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 2 _struct_asym.id B _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 metalc ? metalc1 A SG CYS 52 A CYS 52 1_555 C ZN ZN . A ZN 434 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.262 ? metalc ? metalc2 A SG CYS 55 A CYS 55 1_555 C ZN ZN . A ZN 434 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.402 ? metalc ? metalc3 A SG CYS 65 A CYS 65 1_555 D ZN ZN . A ZN 435 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.585 ? metalc ? metalc4 A SG CYS 68 A CYS 68 1_555 D ZN ZN . A ZN 435 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.327 ? metalc ? metalc5 A SG CYS 74 A CYS 74 1_555 C ZN ZN . A ZN 434 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.631 ? metalc ? metalc6 A SG CYS 78 A CYS 78 1_555 C ZN ZN . A ZN 434 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.345 ? metalc ? metalc7 A NE2 HIS 86 A HIS 86 1_555 D ZN ZN . A ZN 435 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.296 ? metalc ? metalc8 A SG CYS 90 A CYS 90 1_555 D ZN ZN . A ZN 435 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.316 ? metalc ? metalc9 A SG CYS 209 A CYS 209 1_555 E ZN ZN . A ZN 436 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.347 ? metalc ? metalc10 A SG CYS 262 A CYS 262 1_555 E ZN ZN . A ZN 436 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.543 ? metalc ? metalc11 A SG CYS 264 A CYS 264 1_555 E ZN ZN . A ZN 436 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.41 ? metalc ? metalc12 A SG CYS 267 A CYS 267 1_555 E ZN ZN . A ZN 436 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.325 ? # _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 275 n n N HN1 SAM sing 276 n n N HN2 SAM sing 277 n n CA C SAM sing 278 n n CA CB SAM sing 279 n n CA HA SAM sing 280 n n C O SAM doub 281 n n C OXT SAM sing 282 n n CB CG SAM sing 283 n n CB HB1 SAM sing 284 n n CB HB2 SAM sing 285 n n CG SD SAM sing 286 n n CG HG1 SAM sing 287 n n CG HG2 SAM sing 288 n n SD CE SAM sing 289 n n SD C5' SAM sing 290 n n CE HE1 SAM sing 291 n n CE HE2 SAM sing 292 n n CE HE3 SAM sing 293 n n C5' C4' SAM sing 294 n n C5' "H5'1" SAM sing 295 n n C5' "H5'2" SAM sing 296 n n C4' O4' SAM sing 297 n n C4' C3' SAM sing 298 n n C4' H4' SAM sing 299 n n O4' C1' SAM sing 300 n n C3' O3' SAM sing 301 n n C3' C2' SAM sing 302 n n C3' H3' SAM sing 303 n n O3' HO3' SAM sing 304 n n C2' O2' SAM sing 305 n n C2' C1' SAM sing 306 n n C2' H2' SAM sing 307 n n O2' HO2' SAM sing 308 n n C1' N9 SAM sing 309 n n C1' H1' SAM sing 310 n n N9 C8 SAM sing 311 n y N9 C4 SAM sing 312 n y C8 N7 SAM doub 313 n y C8 H8 SAM sing 314 n n N7 C5 SAM sing 315 n y C5 C6 SAM sing 316 n y C5 C4 SAM doub 317 n y C6 N6 SAM sing 318 n n C6 N1 SAM doub 319 n y N6 HN61 SAM sing 320 n n N6 HN62 SAM sing 321 n n N1 C2 SAM sing 322 n y C2 N3 SAM doub 323 n y C2 H2 SAM sing 324 n n N3 C4 SAM sing 325 n y # _atom_sites.entry_id 3S7J _atom_sites.fract_transf_matrix[1][1] 0.00647 _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] 0.00647 _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] 0.018804 _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 B 2 SAM A 1 1000 1000 SAM SAM . C 3 ZN A 1 434 1 ZN ZN . D 3 ZN A 1 435 2 ZN ZN . E 3 ZN A 1 436 3 ZN ZN . # 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 . . . B 2 59.671 16.833 37.754 1 47.95 ? N SAM 1000 A 1 HETATM 2 C CA SAM . . . B 2 59.056 15.769 38.534 1 50.1 ? CA SAM 1000 A 1 HETATM 3 C C SAM . . . B 2 59.415 14.412 38.037 1 58.24 ? C SAM 1000 A 1 HETATM 4 O O SAM . . . B 2 59.614 13.451 38.819 1 61.77 ? O SAM 1000 A 1 HETATM 5 O OXT SAM . . . B 2 59.516 14.246 36.864 1 62.67 ? OXT SAM 1000 A 1 HETATM 6 C CB SAM . . . B 2 57.574 15.882 39.035 1 51.56 ? CB SAM 1000 A 1 HETATM 7 C CG SAM . . . B 2 57.332 16.712 40.358 1 53.33 ? CG SAM 1000 A 1 HETATM 8 S SD SAM . . . B 2 58.144 15.883 41.794 1 55.52 ? SD SAM 1000 A 1 HETATM 9 C CE SAM . . . B 2 57.015 15.944 43.172 1 55.61 ? CE SAM 1000 A 1 HETATM 10 C C5' SAM . . . B 2 59.296 17.113 42.51 1 58.8 ? C5' SAM 1000 A 1 HETATM 11 C C4' SAM . . . B 2 60.599 17.411 41.709 1 62 ? C4' SAM 1000 A 1 HETATM 12 O O4' SAM . . . B 2 60.357 17.987 40.404 1 64.44 ? O4' SAM 1000 A 1 HETATM 13 C C3' SAM . . . B 2 61.338 18.553 42.399 1 62.7 ? C3' SAM 1000 A 1 HETATM 14 O O3' SAM . . . B 2 62.094 18.031 43.479 1 64.48 ? O3' SAM 1000 A 1 HETATM 15 C C2' SAM . . . B 2 62.232 19.104 41.288 1 62.39 ? C2' SAM 1000 A 1 HETATM 16 O O2' SAM . . . B 2 63.188 18.141 40.921 1 60.35 ? O2' SAM 1000 A 1 HETATM 17 C C1' SAM . . . B 2 61.212 19.14 40.163 1 64.66 ? C1' SAM 1000 A 1 HETATM 18 N N9 SAM . . . B 2 60.451 20.378 40.128 1 63.56 ? N9 SAM 1000 A 1 HETATM 19 C C8 SAM . . . B 2 59.167 20.651 40.562 1 59.22 ? C8 SAM 1000 A 1 HETATM 20 N N7 SAM . . . B 2 58.859 21.902 40.319 1 58.47 ? N7 SAM 1000 A 1 HETATM 21 C C5 SAM . . . B 2 59.928 22.522 39.728 1 63.51 ? C5 SAM 1000 A 1 HETATM 22 C C6 SAM . . . B 2 60.246 23.854 39.228 1 67.91 ? C6 SAM 1000 A 1 HETATM 23 N N6 SAM . . . B 2 59.337 24.861 39.283 1 73.65 ? N6 SAM 1000 A 1 HETATM 24 N N1 SAM . . . B 2 61.438 24.15 38.704 1 67.49 ? N1 SAM 1000 A 1 HETATM 25 C C2 SAM . . . B 2 62.364 23.155 38.637 1 69.43 ? C2 SAM 1000 A 1 HETATM 26 N N3 SAM . . . B 2 62.178 21.867 39.053 1 66.83 ? N3 SAM 1000 A 1 HETATM 27 C C4 SAM . . . B 2 60.974 21.528 39.606 1 65.18 ? C4 SAM 1000 A 1 # _model_server_stats.io_time_ms 14 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 8 _model_server_stats.query_time_ms 269 _model_server_stats.encode_time_ms 11 _model_server_stats.element_count 27 #