data_8RDL # _model_server_result.job_id 8sToarNnJdXIXg70Tu11UQ _model_server_result.datetime_utc '2024-10-23 01:39:45' _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 8rdl # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":900}' # _entry.id 8RDL # _exptl.entry_id 8RDL _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 8RDL _cell.length_a 72.5 _cell.length_b 72.5 _cell.length_c 104.96 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8RDL _symmetry.cell_setting ? _symmetry.Int_Tables_number 96 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 43 21 2' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C _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 # _struct_conn.conn_type_id disulf _struct_conn.details ? _struct_conn.id disulf1 _struct_conn.ptnr1_label_asym_id A _struct_conn.ptnr1_label_atom_id SG _struct_conn.ptnr1_label_comp_id CYS _struct_conn.ptnr1_label_seq_id 154 _struct_conn.ptnr1_auth_asym_id A _struct_conn.ptnr1_auth_comp_id CYS _struct_conn.ptnr1_auth_seq_id 156 _struct_conn.ptnr1_symmetry 1_555 _struct_conn.ptnr2_label_asym_id A _struct_conn.ptnr2_label_atom_id SG _struct_conn.ptnr2_label_comp_id CYS _struct_conn.ptnr2_label_seq_id 234 _struct_conn.ptnr2_auth_asym_id A _struct_conn.ptnr2_auth_comp_id CYS _struct_conn.ptnr2_auth_seq_id 236 _struct_conn.ptnr2_symmetry 1_555 _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 2.032 _struct_conn.pdbx_value_order ? # _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 8RDL _atom_sites.fract_transf_matrix[1][1] 0.013793 _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] 0.013793 _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] 0.009527 _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 SAH A 1 900 900 SAH SAH . C 3 HOH A 1 1001 21 HOH HOH . C 3 HOH A 2 1002 10 HOH HOH . C 3 HOH A 3 1003 13 HOH HOH . C 3 HOH A 4 1004 24 HOH HOH . C 3 HOH A 5 1005 20 HOH HOH . C 3 HOH A 6 1006 22 HOH HOH . C 3 HOH A 7 1007 18 HOH HOH . C 3 HOH A 8 1008 1 HOH HOH . C 3 HOH A 9 1009 5 HOH HOH . C 3 HOH A 10 1010 14 HOH HOH . C 3 HOH A 11 1011 25 HOH HOH . C 3 HOH A 12 1012 17 HOH HOH . C 3 HOH A 13 1013 3 HOH HOH . C 3 HOH A 14 1014 15 HOH HOH . C 3 HOH A 15 1015 6 HOH HOH . C 3 HOH A 16 1016 2 HOH HOH . C 3 HOH A 17 1017 9 HOH HOH . C 3 HOH A 18 1018 23 HOH HOH . C 3 HOH A 19 1019 8 HOH HOH . C 3 HOH A 20 1020 19 HOH HOH . C 3 HOH A 21 1021 7 HOH HOH . C 3 HOH A 22 1022 4 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 . . . B 2 14.115 -3.125 -14.49 1 63.57 ? N SAH 900 A 1 HETATM 2 C CA SAH . . . B 2 13.677 -3.064 -15.928 1 66.36 ? CA SAH 900 A 1 HETATM 3 C CB SAH . . . B 2 13.293 -4.453 -16.449 1 65.36 ? CB SAH 900 A 1 HETATM 4 C CG SAH . . . B 2 13.952 -4.815 -17.763 1 60.09 ? CG SAH 900 A 1 HETATM 5 S SD SAH . . . B 2 13.306 -6.357 -18.453 1 58.28 ? SD SAH 900 A 1 HETATM 6 C C SAH . . . B 2 12.472 -2.124 -16.066 1 70.67 ? C SAH 900 A 1 HETATM 7 O O SAH . . . B 2 11.718 -1.909 -15.118 1 82.29 ? O SAH 900 A 1 HETATM 8 O OXT SAH . . . B 2 12.215 -1.561 -17.134 1 71.88 ? OXT SAH 900 A 1 HETATM 9 C C5' SAH . . . B 2 13.857 -7.613 -17.276 1 53.7 ? C5' SAH 900 A 1 HETATM 10 C C4' SAH . . . B 2 15.357 -7.751 -17.215 1 49.16 ? C4' SAH 900 A 1 HETATM 11 O O4' SAH . . . B 2 15.695 -8.686 -16.171 1 47.4 ? O4' SAH 900 A 1 HETATM 12 C C3' SAH . . . B 2 16.024 -8.288 -18.488 1 47.67 ? C3' SAH 900 A 1 HETATM 13 O O3' SAH . . . B 2 16.948 -7.327 -18.986 1 45.31 ? O3' SAH 900 A 1 HETATM 14 C C2' SAH . . . B 2 16.721 -9.579 -18.033 1 45.45 ? C2' SAH 900 A 1 HETATM 15 O O2' SAH . . . B 2 17.972 -9.776 -18.653 1 44.69 ? O2' SAH 900 A 1 HETATM 16 C C1' SAH . . . B 2 16.89 -9.318 -16.541 1 46.31 ? C1' SAH 900 A 1 HETATM 17 N N9 SAH . . . B 2 17.047 -10.5 -15.705 1 46.68 ? N9 SAH 900 A 1 HETATM 18 C C8 SAH . . . B 2 16.312 -11.658 -15.764 1 47.49 ? C8 SAH 900 A 1 HETATM 19 N N7 SAH . . . B 2 16.671 -12.543 -14.869 1 44.16 ? N7 SAH 900 A 1 HETATM 20 C C5 SAH . . . B 2 17.701 -11.932 -14.169 1 45.34 ? C5 SAH 900 A 1 HETATM 21 C C6 SAH . . . B 2 18.501 -12.36 -13.089 1 45.66 ? C6 SAH 900 A 1 HETATM 22 N N6 SAH . . . B 2 18.379 -13.547 -12.504 1 48.11 ? N6 SAH 900 A 1 HETATM 23 N N1 SAH . . . B 2 19.441 -11.502 -12.626 1 45.92 ? N1 SAH 900 A 1 HETATM 24 C C2 SAH . . . B 2 19.563 -10.308 -13.225 1 47 ? C2 SAH 900 A 1 HETATM 25 N N3 SAH . . . B 2 18.867 -9.798 -14.237 1 45.31 ? N3 SAH 900 A 1 HETATM 26 C C4 SAH . . . B 2 17.94 -10.668 -14.673 1 45.69 ? C4 SAH 900 A 1 # _model_server_stats.io_time_ms 12 _model_server_stats.parse_time_ms 32 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 339 _model_server_stats.encode_time_ms 14 _model_server_stats.element_count 26 #