data_4M6T # _model_server_result.job_id GNWI0Kme3veHOZNAzry9QA _model_server_result.datetime_utc '2025-03-05 02:19:08' _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 4m6t # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":201}' # _entry.id 4M6T # _exptl.entry_id 4M6T _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 120 _cell.entry_id 4M6T _cell.length_a 115.168 _cell.length_b 115.168 _cell.length_c 157.437 _cell.Z_PDB 18 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4M6T _symmetry.cell_setting ? _symmetry.Int_Tables_number 155 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'H 3 2' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id ? monomeric 1 author_defined_assembly 1 PISA hexameric 6 software_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,C 1 1 A,B,C 2 1,2,3,4,5,6 # 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_555 -y,x-y,z -0.5 -0.866025 0 0.866025 -0.5 0 0 0 1 0 0 0 3 'crystal symmetry operation' 3_555 -x+y,-x,z -0.5 0.866025 0 -0.866025 -0.5 0 0 0 1 0 0 0 4 'crystal symmetry operation' 4_555 y,x,-z -0.5 0.866025 0 0.866025 0.5 0 0 0 -1 0 0 0 5 'crystal symmetry operation' 5_555 x-y,-y,-z 1 0 0 0 -1 0 0 0 -1 0 0 0 6 'crystal symmetry operation' 6_555 -x,-x+y,-z -0.5 -0.866025 0 -0.866025 0.5 0 0 0 -1 0 0 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 # _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 4M6T _atom_sites.fract_transf_matrix[1][1] 0.008683 _atom_sites.fract_transf_matrix[1][2] 0.005013 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.010026 _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] 0.006352 _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 1 201 6735 SAM SAM . C 3 HOH A 1 301 2 HOH HOH . C 3 HOH A 2 302 3 HOH HOH . C 3 HOH A 3 303 4 HOH HOH . C 3 HOH A 4 304 5 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 . . . B 2 -31.275 20.974 4.348 1 64.87 ? N SAM 201 A 1 HETATM 2 C CA SAM . . . B 2 -31.241 20.844 5.8 1 69.33 ? CA SAM 201 A 1 HETATM 3 C C SAM . . . B 2 -30.451 21.969 6.441 1 67.19 ? C SAM 201 A 1 HETATM 4 O O SAM . . . B 2 -31.049 22.819 7.184 1 68.58 ? O SAM 201 A 1 HETATM 5 O OXT SAM . . . B 2 -29.2 22.065 6.26 1 61.84 -1 OXT SAM 201 A 1 HETATM 6 C CB SAM . . . B 2 -30.725 19.461 6.233 1 58.22 ? CB SAM 201 A 1 HETATM 7 C CG SAM . . . B 2 -31.096 19.005 7.627 1 54.25 ? CG SAM 201 A 1 HETATM 8 S SD SAM . . . B 2 -30.716 17.343 8.134 1 49.18 1 SD SAM 201 A 1 HETATM 9 C CE SAM . . . B 2 -29.511 16.699 6.994 1 59.57 ? CE SAM 201 A 1 HETATM 10 C C5' SAM . . . B 2 -32.131 16.282 8.07 1 44.57 ? C5' SAM 201 A 1 HETATM 11 C C4' SAM . . . B 2 -32.124 15.255 6.983 1 41.1 ? C4' SAM 201 A 1 HETATM 12 O O4' SAM . . . B 2 -31.102 14.241 7.224 1 41.24 ? O4' SAM 201 A 1 HETATM 13 C C3' SAM . . . B 2 -33.397 14.502 6.821 1 44.02 ? C3' SAM 201 A 1 HETATM 14 O O3' SAM . . . B 2 -34.361 15.167 6.063 1 42.16 ? O3' SAM 201 A 1 HETATM 15 C C2' SAM . . . B 2 -32.946 13.292 6.183 1 46.71 ? C2' SAM 201 A 1 HETATM 16 O O2' SAM . . . B 2 -32.75 13.432 4.814 1 43.79 ? O2' SAM 201 A 1 HETATM 17 C C1' SAM . . . B 2 -31.636 13.007 6.88 1 40.11 ? C1' SAM 201 A 1 HETATM 18 N N9 SAM . . . B 2 -31.825 12.042 7.971 1 39.67 ? N9 SAM 201 A 1 HETATM 19 C C8 SAM . . . B 2 -32.893 11.941 8.788 1 39.72 ? C8 SAM 201 A 1 HETATM 20 N N7 SAM . . . B 2 -32.732 10.875 9.64 1 39.54 ? N7 SAM 201 A 1 HETATM 21 C C5 SAM . . . B 2 -31.507 10.269 9.336 1 39.41 ? C5 SAM 201 A 1 HETATM 22 C C6 SAM . . . B 2 -30.783 9.137 9.865 1 38.58 ? C6 SAM 201 A 1 HETATM 23 N N6 SAM . . . B 2 -31.289 8.353 10.95 1 35.93 ? N6 SAM 201 A 1 HETATM 24 N N1 SAM . . . B 2 -29.572 8.815 9.32 1 36.85 ? N1 SAM 201 A 1 HETATM 25 C C2 SAM . . . B 2 -29.054 9.545 8.305 1 35.96 ? C2 SAM 201 A 1 HETATM 26 N N3 SAM . . . B 2 -29.716 10.61 7.778 1 36.44 ? N3 SAM 201 A 1 HETATM 27 C C4 SAM . . . B 2 -30.947 10.986 8.297 1 38.99 ? C4 SAM 201 A 1 # _model_server_stats.io_time_ms 6 _model_server_stats.parse_time_ms 6 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 277 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 27 #