data_1NV9 # _model_server_result.job_id oPTqq8b6C_iPMLJoynqN3A _model_server_result.datetime_utc '2024-11-30 02:50:12' _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 1nv9 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":300}' # _entry.id 1NV9 # _exptl.entry_id 1NV9 _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 1NV9 _cell.length_a 82.897 _cell.length_b 59.013 _cell.length_c 63.832 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1NV9 _symmetry.cell_setting ? _symmetry.Int_Tables_number 18 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 21 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 # _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 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 1NV9 _atom_sites.fract_transf_matrix[1][1] 0.012063 _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] 0.016945 _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] 0.015666 _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 1 300 300 SAH SAH . C 3 HOH A 1 301 1 HOH HOH . C 3 HOH A 2 302 3 HOH HOH . C 3 HOH A 3 303 4 HOH HOH . C 3 HOH A 4 304 5 HOH HOH . C 3 HOH A 5 305 6 HOH HOH . C 3 HOH A 6 306 7 HOH HOH . C 3 HOH A 7 307 8 HOH HOH . C 3 HOH A 8 308 9 HOH HOH . C 3 HOH A 9 309 10 HOH HOH . C 3 HOH A 10 310 11 HOH HOH . C 3 HOH A 11 311 12 HOH HOH . C 3 HOH A 12 312 13 HOH HOH . C 3 HOH A 13 313 14 HOH HOH . C 3 HOH A 14 314 15 HOH HOH . C 3 HOH A 15 315 18 HOH HOH . C 3 HOH A 16 316 19 HOH HOH . C 3 HOH A 17 317 21 HOH HOH . C 3 HOH A 18 318 22 HOH HOH . C 3 HOH A 19 319 23 HOH HOH . C 3 HOH A 20 320 24 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 24.146 5.64 19.236 1 24.18 ? N SAH 300 A 1 HETATM 2 C CA SAH . . . B 2 25.396 5.928 18.558 1 26.82 ? CA SAH 300 A 1 HETATM 3 C CB SAH . . . B 2 25.66 5.031 17.376 1 26.08 ? CB SAH 300 A 1 HETATM 4 C CG SAH . . . B 2 24.584 5.213 16.291 1 29.85 ? CG SAH 300 A 1 HETATM 5 S SD SAH . . . B 2 25 4.119 14.934 1 29.31 ? SD SAH 300 A 1 HETATM 6 C C SAH . . . B 2 25.279 7.362 18.1 1 26.85 ? C SAH 300 A 1 HETATM 7 O O SAH . . . B 2 26.3 7.862 17.643 1 25.06 ? O SAH 300 A 1 HETATM 8 O OXT SAH . . . B 2 24.108 7.772 18.262 1 27.47 ? OXT SAH 300 A 1 HETATM 9 C C5' SAH . . . B 2 24.209 2.503 15.186 1 30.95 ? C5' SAH 300 A 1 HETATM 10 C C4' SAH . . . B 2 24.744 1.534 16.271 1 29.16 ? C4' SAH 300 A 1 HETATM 11 O O4' SAH . . . B 2 23.822 0.466 16.361 1 28.58 ? O4' SAH 300 A 1 HETATM 12 C C3' SAH . . . B 2 26.052 0.847 15.878 1 31.61 ? C3' SAH 300 A 1 HETATM 13 O O3' SAH . . . B 2 27.077 0.972 16.824 1 32.76 ? O3' SAH 300 A 1 HETATM 14 C C2' SAH . . . B 2 25.73 -0.624 15.633 1 32.22 ? C2' SAH 300 A 1 HETATM 15 O O2' SAH . . . B 2 26.708 -1.468 16.182 1 33.24 ? O2' SAH 300 A 1 HETATM 16 C C1' SAH . . . B 2 24.473 -0.796 16.468 1 32.32 ? C1' SAH 300 A 1 HETATM 17 N N9 SAH . . . B 2 23.414 -1.75 16.114 1 31.94 ? N9 SAH 300 A 1 HETATM 18 C C8 SAH . . . B 2 22.814 -1.917 14.904 1 36.37 ? C8 SAH 300 A 1 HETATM 19 N N7 SAH . . . B 2 21.848 -2.85 15.031 1 36.49 ? N7 SAH 300 A 1 HETATM 20 C C5 SAH . . . B 2 21.819 -3.25 16.326 1 36.01 ? C5 SAH 300 A 1 HETATM 21 C C6 SAH . . . B 2 20.985 -4.09 17.04 1 34.44 ? C6 SAH 300 A 1 HETATM 22 N N6 SAH . . . B 2 20.01 -4.791 16.499 1 33.06 ? N6 SAH 300 A 1 HETATM 23 N N1 SAH . . . B 2 21.187 -4.227 18.352 1 36.58 ? N1 SAH 300 A 1 HETATM 24 C C2 SAH . . . B 2 22.151 -3.524 19.011 1 33.88 ? C2 SAH 300 A 1 HETATM 25 N N3 SAH . . . B 2 22.929 -2.69 18.328 1 32.74 ? N3 SAH 300 A 1 HETATM 26 C C4 SAH . . . B 2 22.775 -2.55 17.005 1 33.92 ? C4 SAH 300 A 1 # _model_server_stats.io_time_ms 18 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 309 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 26 #