data_5N0Q # _model_server_result.job_id a_HD5xd0wvv8a0VQG92Isw _model_server_result.datetime_utc '2025-03-04 12:28:54' _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 5n0q # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":501}' # _entry.id 5N0Q # _exptl.entry_id 5N0Q _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 5N0Q _cell.length_a 72.443 _cell.length_b 102.424 _cell.length_c 115.297 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5N0Q _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _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,F _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 # 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 MVA 402 A MVA 403 1_555 A N MVA 403 A MVA 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.337 ? covale ? covale2 A C MVA 403 A MVA 404 1_555 A N SAR 404 A SAR 405 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.336 ? covale ? covale3 A C SAR 404 A SAR 405 1_555 A N MVA 405 A MVA 406 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.337 ? covale ? covale4 A C MVA 405 A MVA 406 1_555 A N IML 406 A IML 407 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.332 ? covale ? covale5 A C IML 406 A IML 407 1_555 A N SAR 407 A SAR 408 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.332 ? covale ? covale6 A C SAR 407 A SAR 408 1_555 A N VAL 408 A VAL 409 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.335 ? covale ? covale7 B C MVA 405 B MVA 406 1_555 B N IML 406 B IML 407 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.332 ? covale ? covale8 B C IML 406 B IML 407 1_555 B N SAR 407 B SAR 408 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.332 ? covale ? covale9 B C SAR 407 B SAR 408 1_555 B N VAL 408 B VAL 409 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? # _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 322 n n N HN1 SAH sing 323 n n N HN2 SAH sing 324 n n CA CB SAH sing 325 n n CA C SAH sing 326 n n CA HA SAH sing 327 n n CB CG SAH sing 328 n n CB HB1 SAH sing 329 n n CB HB2 SAH sing 330 n n CG SD SAH sing 331 n n CG HG1 SAH sing 332 n n CG HG2 SAH sing 333 n n SD C5' SAH sing 334 n n C O SAH doub 335 n n C OXT SAH sing 336 n n OXT HXT SAH sing 337 n n C5' C4' SAH sing 338 n n C5' "H5'1" SAH sing 339 n n C5' "H5'2" SAH sing 340 n n C4' O4' SAH sing 341 n n C4' C3' SAH sing 342 n n C4' H4' SAH sing 343 n n O4' C1' SAH sing 344 n n C3' O3' SAH sing 345 n n C3' C2' SAH sing 346 n n C3' H3' SAH sing 347 n n O3' HO3' SAH sing 348 n n C2' O2' SAH sing 349 n n C2' C1' SAH sing 350 n n C2' H2' SAH sing 351 n n O2' HO2' SAH sing 352 n n C1' N9 SAH sing 353 n n C1' H1' SAH sing 354 n n N9 C8 SAH sing 355 n y N9 C4 SAH sing 356 n y C8 N7 SAH doub 357 n y C8 H8 SAH sing 358 n n N7 C5 SAH sing 359 n y C5 C6 SAH sing 360 n y C5 C4 SAH doub 361 n y C6 N6 SAH sing 362 n n C6 N1 SAH doub 363 n y N6 HN61 SAH sing 364 n n N6 HN62 SAH sing 365 n n N1 C2 SAH sing 366 n y C2 N3 SAH doub 367 n y C2 H2 SAH sing 368 n n N3 C4 SAH sing 369 n y # _atom_sites.entry_id 5N0Q _atom_sites.fract_transf_matrix[1][1] 0.013804 _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] 0.009763 _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] 0.008673 _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 1 501 501 SAH SAH . D 2 SAH B 1 501 501 SAH SAH . E 3 HOH A 1 601 11 HOH HOH . E 3 HOH A 2 602 7 HOH HOH . E 3 HOH A 3 603 2 HOH HOH . E 3 HOH A 4 604 15 HOH HOH . E 3 HOH A 5 605 14 HOH HOH . E 3 HOH A 6 606 3 HOH HOH . E 3 HOH A 7 607 6 HOH HOH . F 3 HOH B 1 601 10 HOH HOH . F 3 HOH B 2 602 12 HOH HOH . F 3 HOH B 3 603 1 HOH HOH . F 3 HOH B 4 604 4 HOH HOH . F 3 HOH B 5 605 9 HOH HOH . F 3 HOH B 6 606 8 HOH HOH . F 3 HOH B 7 607 5 HOH HOH . F 3 HOH B 8 608 13 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 . . . C 2 -4.07 6.631 -20.041 1 53.15 ? N SAH 501 A 1 HETATM 2 C CA SAH . . . C 2 -4.544 6.904 -18.689 1 54.15 ? CA SAH 501 A 1 HETATM 3 C CB SAH . . . C 2 -3.68 7.976 -18.022 1 51.2 ? CB SAH 501 A 1 HETATM 4 C CG SAH . . . C 2 -2.229 7.556 -17.768 1 59.16 ? CG SAH 501 A 1 HETATM 5 S SD SAH . . . C 2 -1.102 8.939 -17.415 1 60.14 ? SD SAH 501 A 1 HETATM 6 C C SAH . . . C 2 -6.011 7.317 -18.727 1 58.09 ? C SAH 501 A 1 HETATM 7 O O SAH . . . C 2 -6.711 7.007 -19.689 1 60.44 ? O SAH 501 A 1 HETATM 8 O OXT SAH . . . C 2 -6.531 7.962 -17.814 1 53.24 ? OXT SAH 501 A 1 HETATM 9 C C5' SAH . . . C 2 -1.271 8.703 -15.625 1 49.63 ? C5' SAH 501 A 1 HETATM 10 C C4' SAH . . . C 2 -2.112 9.791 -14.961 1 51.79 ? C4' SAH 501 A 1 HETATM 11 O O4' SAH . . . C 2 -3.501 9.505 -15.034 1 58.51 ? O4' SAH 501 A 1 HETATM 12 C C3' SAH . . . C 2 -1.792 9.936 -13.481 1 53.63 ? C3' SAH 501 A 1 HETATM 13 O O3' SAH . . . C 2 -0.746 10.85 -13.264 1 53.59 ? O3' SAH 501 A 1 HETATM 14 C C2' SAH . . . C 2 -3.089 10.438 -12.891 1 58.37 ? C2' SAH 501 A 1 HETATM 15 O O2' SAH . . . C 2 -3.127 11.846 -12.954 1 61.35 ? O2' SAH 501 A 1 HETATM 16 C C1' SAH . . . C 2 -4.145 9.877 -13.824 1 57.14 ? C1' SAH 501 A 1 HETATM 17 N N9 SAH . . . C 2 -4.762 8.702 -13.178 1 62.81 ? N9 SAH 501 A 1 HETATM 18 C C8 SAH . . . C 2 -4.351 7.399 -13.301 1 54.75 ? C8 SAH 501 A 1 HETATM 19 N N7 SAH . . . C 2 -5.157 6.619 -12.547 1 49.04 ? N7 SAH 501 A 1 HETATM 20 C C5 SAH . . . C 2 -6.074 7.399 -11.934 1 55.1 ? C5 SAH 501 A 1 HETATM 21 C C6 SAH . . . C 2 -7.118 7.111 -11.061 1 58.03 ? C6 SAH 501 A 1 HETATM 22 N N6 SAH . . . C 2 -7.364 5.86 -10.682 1 59.21 ? N6 SAH 501 A 1 HETATM 23 N N1 SAH . . . C 2 -7.902 8.138 -10.584 1 62.17 ? N1 SAH 501 A 1 HETATM 24 C C2 SAH . . . C 2 -7.648 9.437 -10.975 1 61.74 ? C2 SAH 501 A 1 HETATM 25 N N3 SAH . . . C 2 -6.61 9.716 -11.842 1 60.88 ? N3 SAH 501 A 1 HETATM 26 C C4 SAH . . . C 2 -5.835 8.713 -12.319 1 63.41 ? C4 SAH 501 A 1 # _model_server_stats.io_time_ms 16 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 239 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 26 #