data_6J46 # _model_server_result.job_id PQx-Prq1h6fz0N8GxOtnKA _model_server_result.datetime_utc '2024-12-03 20:23:06' _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 6j46 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":401}' # _entry.id 6J46 # _exptl.entry_id 6J46 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 384.411 _entity.id 2 _entity.src_method man _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 112.45 _cell.angle_gamma 90 _cell.entry_id 6J46 _cell.length_a 159.817 _cell.length_b 62.333 _cell.length_c 112.735 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6J46 _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 1 2 1' # _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 # _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 6J46 _atom_sites.fract_transf_matrix[1][1] 0.006257 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.002585 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.016043 _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] 0.009598 _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 1 401 1 SAH SAH . D 2 SAH B 1 401 1 SAH SAH . E 3 HOH A 1 501 9 HOH HOH . E 3 HOH A 2 502 14 HOH HOH . E 3 HOH A 3 503 15 HOH HOH . E 3 HOH A 4 504 10 HOH HOH . E 3 HOH A 5 505 5 HOH HOH . E 3 HOH A 6 506 17 HOH HOH . E 3 HOH A 7 507 13 HOH HOH . E 3 HOH A 8 508 16 HOH HOH . E 3 HOH A 9 509 2 HOH HOH . E 3 HOH A 10 510 6 HOH HOH . F 3 HOH B 1 501 11 HOH HOH . F 3 HOH B 2 502 8 HOH HOH . F 3 HOH B 3 503 3 HOH HOH . F 3 HOH B 4 504 4 HOH HOH . F 3 HOH B 5 505 12 HOH HOH . F 3 HOH B 6 506 7 HOH HOH . F 3 HOH B 7 507 19 HOH HOH . F 3 HOH B 8 508 18 HOH HOH . F 3 HOH B 9 509 1 HOH HOH . F 3 HOH B 10 510 20 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 24.791 -15.921 117.51 1 61.19 ? N SAH 401 B 1 HETATM 2 C CA SAH . . . D 2 24.93 -14.475 117.372 1 64.75 ? CA SAH 401 B 1 HETATM 3 C CB SAH . . . D 2 23.817 -13.914 116.49 1 63.58 ? CB SAH 401 B 1 HETATM 4 C CG SAH . . . D 2 22.455 -14.581 116.664 1 68.97 ? CG SAH 401 B 1 HETATM 5 S SD SAH . . . D 2 21.134 -13.703 115.785 1 75.94 ? SD SAH 401 B 1 HETATM 6 C C SAH . . . D 2 24.929 -13.787 118.734 1 69.67 ? C SAH 401 B 1 HETATM 7 O O SAH . . . D 2 24.189 -14.17 119.64 1 74.17 ? O SAH 401 B 1 HETATM 8 O OXT SAH . . . D 2 25.67 -12.83 118.964 1 72.76 ? OXT SAH 401 B 1 HETATM 9 C C5' SAH . . . D 2 20.907 -15.093 114.645 1 64.51 ? C5' SAH 401 B 1 HETATM 10 C C4' SAH . . . D 2 21.767 -14.96 113.391 1 62.61 ? C4' SAH 401 B 1 HETATM 11 O O4' SAH . . . D 2 21.631 -16.098 112.558 1 60.66 ? O4' SAH 401 B 1 HETATM 12 C C3' SAH . . . D 2 21.385 -13.75 112.551 1 63.87 ? C3' SAH 401 B 1 HETATM 13 O O3' SAH . . . D 2 22.468 -12.854 112.504 1 67.39 ? O3' SAH 401 B 1 HETATM 14 C C2' SAH . . . D 2 21.125 -14.287 111.159 1 61.32 ? C2' SAH 401 B 1 HETATM 15 O O2' SAH . . . D 2 21.785 -13.511 110.189 1 59.33 ? O2' SAH 401 B 1 HETATM 16 C C1' SAH . . . D 2 21.706 -15.688 111.207 1 62.29 ? C1' SAH 401 B 1 HETATM 17 N N9 SAH . . . D 2 20.987 -16.606 110.306 1 61.1 ? N9 SAH 401 B 1 HETATM 18 C C8 SAH . . . D 2 19.633 -16.718 110.137 1 55.22 ? C8 SAH 401 B 1 HETATM 19 N N7 SAH . . . D 2 19.399 -17.679 109.212 1 55.59 ? N7 SAH 401 B 1 HETATM 20 C C5 SAH . . . D 2 20.583 -18.175 108.788 1 63.21 ? C5 SAH 401 B 1 HETATM 21 C C6 SAH . . . D 2 20.917 -19.159 107.865 1 62.3 ? C6 SAH 401 B 1 HETATM 22 N N6 SAH . . . D 2 19.967 -19.812 107.203 1 63.22 ? N6 SAH 401 B 1 HETATM 23 N N1 SAH . . . D 2 22.245 -19.458 107.639 1 59.15 ? N1 SAH 401 B 1 HETATM 24 C C2 SAH . . . D 2 23.231 -18.781 108.325 1 56.88 ? C2 SAH 401 B 1 HETATM 25 N N3 SAH . . . D 2 22.892 -17.805 109.24 1 61.61 ? N3 SAH 401 B 1 HETATM 26 C C4 SAH . . . D 2 21.59 -17.505 109.467 1 63 ? C4 SAH 401 B 1 # _model_server_stats.io_time_ms 47 _model_server_stats.parse_time_ms 17 _model_server_stats.create_model_time_ms 38 _model_server_stats.query_time_ms 356 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 26 #