data_3BUS # _model_server_result.job_id n16piBF8LU-Z8wio4dv4uQ _model_server_result.datetime_utc '2024-11-07 19:25:25' _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 3bus # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":275}' # _entry.id 3BUS # _exptl.entry_id 3BUS _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 2 _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 3BUS _cell.length_a 119.153 _cell.length_b 119.153 _cell.length_c 84.412 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3BUS _symmetry.cell_setting ? _symmetry.Int_Tables_number 92 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 41 21 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 PISA monomeric 1 author_and_software_defined_assembly 1 PISA monomeric 1 author_and_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,C,E 1 1 B,D,F 2 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 # 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 GLU 52 A GLU 52 1_555 A N MSE 53 A MSE 53 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? covale ? covale2 A C MSE 53 A MSE 53 1_555 A N ILE 54 A ILE 54 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.334 ? covale ? covale3 A C ALA 120 A ALA 120 1_555 A N MSE 121 A MSE 121 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale4 A C MSE 121 A MSE 121 1_555 A N ASP 122 A ASP 122 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.338 ? covale ? covale5 A C HIS 141 A HIS 141 1_555 A N MSE 142 A MSE 142 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale6 A C MSE 142 A MSE 142 1_555 A N PRO 143 A PRO 143 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.34 ? covale ? covale7 A C GLU 151 A GLU 151 1_555 A N MSE 152 A MSE 152 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? covale ? covale8 A C MSE 152 A MSE 152 1_555 A N ALA 153 A ALA 153 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.333 ? covale ? covale9 A C PHE 241 A PHE 241 1_555 A N MSE 242 A MSE 242 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? covale ? covale10 A C MSE 242 A MSE 242 1_555 A N GLY 243 A GLY 243 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.335 ? covale ? covale11 A C ARG 249 A ARG 249 1_555 A N MSE 250 A MSE 250 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale12 A C MSE 250 A MSE 250 1_555 A N ILE 251 A ILE 251 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? covale ? covale13 B C GLU 52 B GLU 52 1_555 B N MSE 53 B MSE 53 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.327 ? covale ? covale14 B C MSE 53 B MSE 53 1_555 B N ILE 54 B ILE 54 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.341 ? covale ? covale15 B C ALA 120 B ALA 120 1_555 B N MSE 121 B MSE 121 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? covale ? covale16 B C MSE 121 B MSE 121 1_555 B N ASP 122 B ASP 122 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.34 ? covale ? covale17 B C HIS 141 B HIS 141 1_555 B N MSE 142 B MSE 142 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale18 B C MSE 142 B MSE 142 1_555 B N PRO 143 B PRO 143 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.344 ? covale ? covale19 B C GLU 151 B GLU 151 1_555 B N MSE 152 B MSE 152 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? covale ? covale20 B C MSE 152 B MSE 152 1_555 B N ALA 153 B ALA 153 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.332 ? covale ? covale21 B C PHE 241 B PHE 241 1_555 B N MSE 242 B MSE 242 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.337 ? covale ? covale22 B C MSE 242 B MSE 242 1_555 B N GLY 243 B GLY 243 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.332 ? covale ? covale23 B C ARG 249 B ARG 249 1_555 B N MSE 250 B MSE 250 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.332 ? covale ? covale24 B C MSE 250 B MSE 250 1_555 B N ILE 251 B ILE 251 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? # _chem_comp.formula 'C14 H20 N6 O5 S' _chem_comp.formula_weight 384.411 _chem_comp.id SAH _chem_comp.mon_nstd_flag . _chem_comp.name S-ADENOSYL-L-HOMOCYSTEINE _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 SAH sing 277 n n N HN1 SAH sing 278 n n N HN2 SAH sing 279 n n CA CB SAH sing 280 n n CA C SAH sing 281 n n CA HA SAH sing 282 n n CB CG SAH sing 283 n n CB HB1 SAH sing 284 n n CB HB2 SAH sing 285 n n CG SD SAH sing 286 n n CG HG1 SAH sing 287 n n CG HG2 SAH sing 288 n n SD C5' SAH sing 289 n n C O SAH doub 290 n n C OXT SAH sing 291 n n OXT HXT SAH sing 292 n n C5' C4' SAH sing 293 n n C5' "H5'1" SAH sing 294 n n C5' "H5'2" SAH sing 295 n n C4' O4' SAH sing 296 n n C4' C3' SAH sing 297 n n C4' H4' SAH sing 298 n n O4' C1' SAH sing 299 n n C3' O3' SAH sing 300 n n C3' C2' SAH sing 301 n n C3' H3' SAH sing 302 n n O3' HO3' SAH sing 303 n n C2' O2' SAH sing 304 n n C2' C1' SAH sing 305 n n C2' H2' SAH sing 306 n n O2' HO2' SAH sing 307 n n C1' N9 SAH sing 308 n n C1' H1' SAH sing 309 n n N9 C8 SAH sing 310 n y N9 C4 SAH sing 311 n y C8 N7 SAH doub 312 n y C8 H8 SAH sing 313 n n N7 C5 SAH sing 314 n y C5 C6 SAH sing 315 n y C5 C4 SAH doub 316 n y C6 N6 SAH sing 317 n n C6 N1 SAH doub 318 n y N6 HN61 SAH sing 319 n n N6 HN62 SAH sing 320 n n N1 C2 SAH sing 321 n y C2 N3 SAH doub 322 n y C2 H2 SAH sing 323 n n N3 C4 SAH sing 324 n y # _atom_sites.entry_id 3BUS _atom_sites.fract_transf_matrix[1][1] 0.008393 _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] 0.008393 _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] 0.011847 _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 SAH A 1 274 274 SAH SAH . D 2 SAH B 1 275 275 SAH SAH . E 3 HOH A 1 276 276 HOH HOH . E 3 HOH A 2 277 277 HOH HOH . E 3 HOH A 3 278 278 HOH HOH . F 3 HOH B 1 276 274 HOH HOH . F 3 HOH B 2 277 275 HOH HOH . F 3 HOH B 3 278 276 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 SAH . . . D 2 28.01 63.263 0.579 1 86.29 ? N SAH 275 B 1 HETATM 2 C CA SAH . . . D 2 28.01 62.49 -0.695 1 86.58 ? CA SAH 275 B 1 HETATM 3 C CB SAH . . . D 2 29.101 61.421 -0.652 1 86.28 ? CB SAH 275 B 1 HETATM 4 C CG SAH . . . D 2 30.488 61.865 -1.103 1 85.03 ? CG SAH 275 B 1 HETATM 5 S SD SAH . . . D 2 31.127 60.909 -2.509 1 83.65 ? SD SAH 275 B 1 HETATM 6 C C SAH . . . D 2 26.639 61.851 -0.983 1 87.12 ? C SAH 275 B 1 HETATM 7 O O SAH . . . D 2 25.911 61.439 -0.065 1 87.27 ? O SAH 275 B 1 HETATM 8 O OXT SAH . . . D 2 26.221 61.715 -2.146 1 87.48 ? OXT SAH 275 B 1 HETATM 9 C C5' SAH . . . D 2 32.839 60.829 -1.915 1 79.39 ? C5' SAH 275 B 1 HETATM 10 C C4' SAH . . . D 2 33.494 62.143 -1.489 1 76.28 ? C4' SAH 275 B 1 HETATM 11 O O4' SAH . . . D 2 34.684 61.87 -0.771 1 75.44 ? O4' SAH 275 B 1 HETATM 12 C C3' SAH . . . D 2 33.89 63.05 -2.632 1 74.83 ? C3' SAH 275 B 1 HETATM 13 O O3' SAH . . . D 2 33.523 64.349 -2.231 1 74.13 ? O3' SAH 275 B 1 HETATM 14 C C2' SAH . . . D 2 35.4 62.937 -2.707 1 74.46 ? C2' SAH 275 B 1 HETATM 15 O O2' SAH . . . D 2 36.016 64.111 -3.188 1 74.25 ? O2' SAH 275 B 1 HETATM 16 C C1' SAH . . . D 2 35.777 62.619 -1.264 1 74.66 ? C1' SAH 275 B 1 HETATM 17 N N9 SAH . . . D 2 37.042 61.855 -1.092 1 74.57 ? N9 SAH 275 B 1 HETATM 18 C C8 SAH . . . D 2 37.48 60.795 -1.848 1 74.33 ? C8 SAH 275 B 1 HETATM 19 N N7 SAH . . . D 2 38.67 60.369 -1.375 1 74.07 ? N7 SAH 275 B 1 HETATM 20 C C5 SAH . . . D 2 39.012 61.136 -0.317 1 74.68 ? C5 SAH 275 B 1 HETATM 21 C C6 SAH . . . D 2 40.124 61.126 0.532 1 74.68 ? C6 SAH 275 B 1 HETATM 22 N N6 SAH . . . D 2 41.103 60.236 0.359 1 74.14 ? N6 SAH 275 B 1 HETATM 23 N N1 SAH . . . D 2 40.193 62.059 1.559 1 75.03 ? N1 SAH 275 B 1 HETATM 24 C C2 SAH . . . D 2 39.177 62.989 1.744 1 74.15 ? C2 SAH 275 B 1 HETATM 25 N N3 SAH . . . D 2 38.084 62.982 0.896 1 73.69 ? N3 SAH 275 B 1 HETATM 26 C C4 SAH . . . D 2 37.997 62.077 -0.121 1 74.31 ? C4 SAH 275 B 1 # _model_server_stats.io_time_ms 8 _model_server_stats.parse_time_ms 24 _model_server_stats.create_model_time_ms 6 _model_server_stats.query_time_ms 392 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 26 #