data_5VG9 # _model_server_result.job_id QKxnwlwxB2H6jFqJuVbYqQ _model_server_result.datetime_utc '2025-01-09 15:15:40' _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 5vg9 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":301}' # _entry.id 5VG9 # _exptl.entry_id 5VG9 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 384.411 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description S-ADENOSYL-L-HOMOCYSTEINE _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 5VG9 _cell.length_a 51.64 _cell.length_b 123.65 _cell.length_c 236.12 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5VG9 _symmetry.cell_setting ? _symmetry.Int_Tables_number 20 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 2 2 21' # _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 _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 # _chem_comp.formula 'C14 H20 N6 O5 S' _chem_comp.formula_weight 384.411 _chem_comp.id SAH _chem_comp.mon_nstd_flag n _chem_comp.name S-ADENOSYL-L-HOMOCYSTEINE _chem_comp.type 'l-peptide linking' _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 SAH sing 275 n n N HN1 SAH sing 276 n n N HN2 SAH sing 277 n n CA CB SAH sing 278 n n CA C SAH sing 279 n n CA HA SAH sing 280 n n CB CG SAH sing 281 n n CB HB1 SAH sing 282 n n CB HB2 SAH sing 283 n n CG SD SAH sing 284 n n CG HG1 SAH sing 285 n n CG HG2 SAH sing 286 n n SD C5' SAH sing 287 n n C O SAH doub 288 n n C OXT SAH sing 289 n n OXT HXT SAH sing 290 n n C5' C4' SAH sing 291 n n C5' "H5'1" SAH sing 292 n n C5' "H5'2" SAH sing 293 n n C4' O4' SAH sing 294 n n C4' C3' SAH sing 295 n n C4' H4' SAH sing 296 n n O4' C1' SAH sing 297 n n C3' O3' SAH sing 298 n n C3' C2' SAH sing 299 n n C3' H3' SAH sing 300 n n O3' HO3' SAH sing 301 n n C2' O2' SAH sing 302 n n C2' C1' SAH sing 303 n n C2' H2' SAH sing 304 n n O2' HO2' SAH sing 305 n n C1' N9 SAH sing 306 n n C1' H1' SAH sing 307 n n N9 C8 SAH sing 308 n y N9 C4 SAH sing 309 n y C8 N7 SAH doub 310 n y C8 H8 SAH sing 311 n n N7 C5 SAH sing 312 n y C5 C6 SAH sing 313 n y C5 C4 SAH doub 314 n y C6 N6 SAH sing 315 n n C6 N1 SAH doub 316 n y N6 HN61 SAH sing 317 n n N6 HN62 SAH sing 318 n n N1 C2 SAH sing 319 n y C2 N3 SAH doub 320 n y C2 H2 SAH sing 321 n n N3 C4 SAH sing 322 n y # _atom_sites.entry_id 5VG9 _atom_sites.fract_transf_matrix[1][1] 0.019365 _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] 0.008087 _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] 0.004235 _atom_sites.fract_transf_vector[1] 0 _atom_sites.fract_transf_vector[2] 0 _atom_sites.fract_transf_vector[3] 0 # _pdbx_nonpoly_scheme.asym_id B _pdbx_nonpoly_scheme.entity_id 2 _pdbx_nonpoly_scheme.mon_id SAH _pdbx_nonpoly_scheme.pdb_strand_id A _pdbx_nonpoly_scheme.ndb_seq_num 1 _pdbx_nonpoly_scheme.pdb_seq_num 301 _pdbx_nonpoly_scheme.auth_seq_num 1 _pdbx_nonpoly_scheme.pdb_mon_id SAH _pdbx_nonpoly_scheme.auth_mon_id SAH _pdbx_nonpoly_scheme.pdb_ins_code . # 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 SAH . . . B 2 -9.452 -1.444 43.954 1 202.34 ? N SAH 301 A 1 HETATM 2 C CA SAH . . . B 2 -9.862 -0.05 43.816 1 201.4 ? CA SAH 301 A 1 HETATM 3 C CB SAH . . . B 2 -8.877 0.746 42.971 1 201.66 ? CB SAH 301 A 1 HETATM 4 C CG SAH . . . B 2 -7.494 0.127 42.898 1 201.97 ? CG SAH 301 A 1 HETATM 5 S SD SAH . . . B 2 -6.338 1.168 41.978 1 201.1 ? SD SAH 301 A 1 HETATM 6 C C SAH . . . B 2 -11.253 0.095 43.226 1 205.11 ? C SAH 301 A 1 HETATM 7 O O SAH . . . B 2 -11.87 -0.878 42.801 1 196.79 ? O SAH 301 A 1 HETATM 8 O OXT SAH . . . B 2 -11.783 1.203 43.153 1 194.56 ? OXT SAH 301 A 1 HETATM 9 C C5' SAH . . . B 2 -4.999 0.421 42.934 1 197.95 ? C5' SAH 301 A 1 HETATM 10 C C4' SAH . . . B 2 -3.901 1.405 43.299 1 200.7 ? C4' SAH 301 A 1 HETATM 11 O O4' SAH . . . B 2 -4.482 2.574 43.84 1 204.99 ? O4' SAH 301 A 1 HETATM 12 C C3' SAH . . . B 2 -2.989 0.797 44.349 1 209.87 ? C3' SAH 301 A 1 HETATM 13 O O3' SAH . . . B 2 -1.67 0.74 43.861 1 203.85 ? O3' SAH 301 A 1 HETATM 14 C C2' SAH . . . B 2 -3.079 1.712 45.552 1 204.86 ? C2' SAH 301 A 1 HETATM 15 O O2' SAH . . . B 2 -1.821 2.29 45.81 1 201.99 ? O2' SAH 301 A 1 HETATM 16 C C1' SAH . . . B 2 -4.085 2.79 45.179 1 205.42 ? C1' SAH 301 A 1 HETATM 17 N N9 SAH . . . B 2 -5.285 2.671 46.028 1 200.45 ? N9 SAH 301 A 1 HETATM 18 C C8 SAH . . . B 2 -5.87 1.499 46.435 1 202.84 ? C8 SAH 301 A 1 HETATM 19 N N7 SAH . . . B 2 -6.949 1.794 47.194 1 199.51 ? N7 SAH 301 A 1 HETATM 20 C C5 SAH . . . B 2 -7.065 3.137 47.279 1 198.42 ? C5 SAH 301 A 1 HETATM 21 C C6 SAH . . . B 2 -7.98 3.96 47.925 1 199.06 ? C6 SAH 301 A 1 HETATM 22 N N6 SAH . . . B 2 -8.98 3.433 48.627 1 197.65 ? N6 SAH 301 A 1 HETATM 23 N N1 SAH . . . B 2 -7.845 5.329 47.833 1 197.24 ? N1 SAH 301 A 1 HETATM 24 C C2 SAH . . . B 2 -6.807 5.872 47.104 1 198.45 ? C2 SAH 301 A 1 HETATM 25 N N3 SAH . . . B 2 -5.903 5.048 46.465 1 192.85 ? N3 SAH 301 A 1 HETATM 26 C C4 SAH . . . B 2 -6.026 3.702 46.549 1 198.26 ? C4 SAH 301 A 1 # _model_server_stats.io_time_ms 9 _model_server_stats.parse_time_ms 25 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 273 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 26 #