data_5W7R # _model_server_result.job_id FCXLCZbXhHz930eqSfZLMQ _model_server_result.datetime_utc '2024-10-18 16:28:02' _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 5w7r # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":502}' # _entry.id 5W7R # _exptl.entry_id 5W7R _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 384.411 _entity.id 3 _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 5W7R _cell.length_a 162.878 _cell.length_b 162.878 _cell.length_c 90.04 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5W7R _symmetry.cell_setting ? _symmetry.Int_Tables_number 97 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'I 4 2 2' # _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 _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2 # 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' 8_666 -y+1,-x+1,-z+1 0 -1 0 -1 0 0 0 0 -1 162.878 162.878 90.04 # _struct_asym.details ? _struct_asym.entity_id 3 _struct_asym.id C _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 339 n n N HN1 SAH sing 340 n n N HN2 SAH sing 341 n n CA CB SAH sing 342 n n CA C SAH sing 343 n n CA HA SAH sing 344 n n CB CG SAH sing 345 n n CB HB1 SAH sing 346 n n CB HB2 SAH sing 347 n n CG SD SAH sing 348 n n CG HG1 SAH sing 349 n n CG HG2 SAH sing 350 n n SD C5' SAH sing 351 n n C O SAH doub 352 n n C OXT SAH sing 353 n n OXT HXT SAH sing 354 n n C5' C4' SAH sing 355 n n C5' "H5'1" SAH sing 356 n n C5' "H5'2" SAH sing 357 n n C4' O4' SAH sing 358 n n C4' C3' SAH sing 359 n n C4' H4' SAH sing 360 n n O4' C1' SAH sing 361 n n C3' O3' SAH sing 362 n n C3' C2' SAH sing 363 n n C3' H3' SAH sing 364 n n O3' HO3' SAH sing 365 n n C2' O2' SAH sing 366 n n C2' C1' SAH sing 367 n n C2' H2' SAH sing 368 n n O2' HO2' SAH sing 369 n n C1' N9 SAH sing 370 n n C1' H1' SAH sing 371 n n N9 C8 SAH sing 372 n y N9 C4 SAH sing 373 n y C8 N7 SAH doub 374 n y C8 H8 SAH sing 375 n n N7 C5 SAH sing 376 n y C5 C6 SAH sing 377 n y C5 C4 SAH doub 378 n y C6 N6 SAH sing 379 n n C6 N1 SAH doub 380 n y N6 HN61 SAH sing 381 n n N6 HN62 SAH sing 382 n n N1 C2 SAH sing 383 n y C2 N3 SAH doub 384 n y C2 H2 SAH sing 385 n n N3 C4 SAH sing 386 n y # _atom_sites.entry_id 5W7R _atom_sites.fract_transf_matrix[1][1] 0.00614 _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] 0.00614 _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] 0.011106 _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 9Z7 A 1 501 1 9Z7 OXA . C 3 SAH A 1 502 1 SAH SAH . D 4 HOH A 1 601 10 HOH HOH . D 4 HOH A 2 602 9 HOH HOH . D 4 HOH A 3 603 2 HOH HOH . D 4 HOH A 4 604 3 HOH HOH . D 4 HOH A 5 605 7 HOH HOH . D 4 HOH A 6 606 5 HOH HOH . D 4 HOH A 7 607 1 HOH HOH . D 4 HOH A 8 608 4 HOH HOH . D 4 HOH A 9 609 8 HOH HOH . D 4 HOH A 10 610 6 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 3 15.632 131.727 19.542 1 64.43 ? N SAH 502 A 1 HETATM 2 C CA SAH . . . C 3 16.516 132.591 20.322 1 59.87 ? CA SAH 502 A 1 HETATM 3 C CB SAH . . . C 3 15.826 133.072 21.585 1 62.92 ? CB SAH 502 A 1 HETATM 4 C CG SAH . . . C 3 16.092 134.532 21.905 1 64.25 ? CG SAH 502 A 1 HETATM 5 S SD SAH . . . C 3 15.599 134.929 23.602 1 63.88 ? SD SAH 502 A 1 HETATM 6 C C SAH . . . C 3 17.808 131.907 20.75 1 63.96 ? C SAH 502 A 1 HETATM 7 O O SAH . . . C 3 18.885 132.505 20.774 1 60.24 ? O SAH 502 A 1 HETATM 8 O OXT SAH . . . C 3 17.781 130.733 21.132 1 64.33 ? OXT SAH 502 A 1 HETATM 9 C C5' SAH . . . C 3 13.788 134.866 23.409 1 65.59 ? C5' SAH 502 A 1 HETATM 10 C C4' SAH . . . C 3 13.198 135.759 22.328 1 63.58 ? C4' SAH 502 A 1 HETATM 11 O O4' SAH . . . C 3 11.779 135.681 22.373 1 70.79 ? O4' SAH 502 A 1 HETATM 12 C C3' SAH . . . C 3 13.565 137.223 22.522 1 68.13 ? C3' SAH 502 A 1 HETATM 13 O O3' SAH . . . C 3 14.406 137.586 21.452 1 66 ? O3' SAH 502 A 1 HETATM 14 C C2' SAH . . . C 3 12.215 137.963 22.559 1 67.43 ? C2' SAH 502 A 1 HETATM 15 O O2' SAH . . . C 3 12.085 139.181 21.852 1 65.27 ? O2' SAH 502 A 1 HETATM 16 C C1' SAH . . . C 3 11.258 136.945 21.983 1 70.99 ? C1' SAH 502 A 1 HETATM 17 N N9 SAH . . . C 3 9.902 137.263 22.462 1 75.31 ? N9 SAH 502 A 1 HETATM 18 C C8 SAH . . . C 3 9.559 137.749 23.696 1 73.42 ? C8 SAH 502 A 1 HETATM 19 N N7 SAH . . . C 3 8.215 137.93 23.722 1 73.31 ? N7 SAH 502 A 1 HETATM 20 C C5 SAH . . . C 3 7.696 137.582 22.521 1 77.43 ? C5 SAH 502 A 1 HETATM 21 C C6 SAH . . . C 3 6.39 137.583 22.009 1 80.25 ? C6 SAH 502 A 1 HETATM 22 N N6 SAH . . . C 3 5.347 137.964 22.751 1 76.06 ? N6 SAH 502 A 1 HETATM 23 N N1 SAH . . . C 3 6.177 137.155 20.713 1 78.5 ? N1 SAH 502 A 1 HETATM 24 C C2 SAH . . . C 3 7.253 136.749 19.942 1 77.96 ? C2 SAH 502 A 1 HETATM 25 N N3 SAH . . . C 3 8.536 136.754 20.45 1 69.91 ? N3 SAH 502 A 1 HETATM 26 C C4 SAH . . . C 3 8.754 137.167 21.718 1 72.81 ? C4 SAH 502 A 1 # _model_server_stats.io_time_ms 8 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 20 _model_server_stats.query_time_ms 340 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 26 #