data_4XCX # _model_server_result.job_id 3ZpB_LhrccSRLSkI7uDe0Q _model_server_result.datetime_utc '2024-10-28 11:34:56' _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 4xcx # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":400}' # _entry.id 4XCX # _exptl.entry_id 4XCX _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 120 _cell.entry_id 4XCX _cell.length_a 166.025 _cell.length_b 166.025 _cell.length_c 74.478 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4XCX _symmetry.cell_setting ? _symmetry.Int_Tables_number 182 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 63 2 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _pdbx_struct_assembly.details author_and_software_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 4XCX _atom_sites.fract_transf_matrix[1][1] 0.006023 _atom_sites.fract_transf_matrix[1][2] 0.003477 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.006955 _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] 0.013427 _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 1 400 400 SAH SAH . C 3 HOH A 1 501 1 HOH HOH . C 3 HOH A 2 502 12 HOH HOH . C 3 HOH A 3 503 2 HOH HOH . C 3 HOH A 4 504 5 HOH HOH . C 3 HOH A 5 505 8 HOH HOH . C 3 HOH A 6 506 9 HOH HOH . C 3 HOH A 7 507 11 HOH HOH . C 3 HOH A 8 508 14 HOH HOH . C 3 HOH A 9 509 16 HOH HOH . C 3 HOH A 10 510 17 HOH HOH . C 3 HOH A 11 511 18 HOH HOH . C 3 HOH A 12 512 19 HOH HOH . C 3 HOH A 13 513 21 HOH HOH . C 3 HOH A 14 514 22 HOH HOH . C 3 HOH A 15 515 23 HOH HOH . C 3 HOH A 16 516 24 HOH HOH . C 3 HOH A 17 517 25 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 33.106 104.224 9.963 1 87.34 ? N SAH 400 A 1 HETATM 2 C CA SAH . . . B 2 32.999 105.672 10.131 1 89.2 ? CA SAH 400 A 1 HETATM 3 C CB SAH . . . B 2 34.293 106.406 10.521 1 91.02 ? CB SAH 400 A 1 HETATM 4 C CG SAH . . . B 2 34.312 106.769 11.997 1 89 ? CG SAH 400 A 1 HETATM 5 S SD SAH . . . B 2 35.644 108.002 12.167 1 88.88 ? SD SAH 400 A 1 HETATM 6 C C SAH . . . B 2 32.463 106.388 8.886 1 93.22 ? C SAH 400 A 1 HETATM 7 O O SAH . . . B 2 32.884 105.981 7.709 1 91.04 ? O SAH 400 A 1 HETATM 8 O OXT SAH . . . B 2 31.665 107.323 9.06 1 103.6 ? OXT SAH 400 A 1 HETATM 9 C C5' SAH . . . B 2 36.879 107.172 13.202 1 88.51 ? C5' SAH 400 A 1 HETATM 10 C C4' SAH . . . B 2 36.204 106.42 14.331 1 84.13 ? C4' SAH 400 A 1 HETATM 11 O O4' SAH . . . B 2 37.081 105.431 14.911 1 83.03 ? O4' SAH 400 A 1 HETATM 12 C C3' SAH . . . B 2 35.711 107.297 15.484 1 80.97 ? C3' SAH 400 A 1 HETATM 13 O O3' SAH . . . B 2 34.371 106.933 15.801 1 81.25 ? O3' SAH 400 A 1 HETATM 14 C C2' SAH . . . B 2 36.712 106.996 16.602 1 79.08 ? C2' SAH 400 A 1 HETATM 15 O O2' SAH . . . B 2 36.172 107.058 17.914 1 77.53 ? O2' SAH 400 A 1 HETATM 16 C C1' SAH . . . B 2 37.024 105.541 16.317 1 81.69 ? C1' SAH 400 A 1 HETATM 17 N N9 SAH . . . B 2 38.278 105.054 16.883 1 83.59 ? N9 SAH 400 A 1 HETATM 18 C C8 SAH . . . B 2 39.486 105.698 16.947 1 85.51 ? C8 SAH 400 A 1 HETATM 19 N N7 SAH . . . B 2 40.446 104.981 17.478 1 88.52 ? N7 SAH 400 A 1 HETATM 20 C C5 SAH . . . B 2 39.825 103.78 17.792 1 85.09 ? C5 SAH 400 A 1 HETATM 21 C C6 SAH . . . B 2 40.293 102.596 18.397 1 84.49 ? C6 SAH 400 A 1 HETATM 22 N N6 SAH . . . B 2 41.537 102.433 18.855 1 83.24 ? N6 SAH 400 A 1 HETATM 23 N N1 SAH . . . B 2 39.411 101.582 18.555 1 85.74 ? N1 SAH 400 A 1 HETATM 24 C C2 SAH . . . B 2 38.144 101.756 18.159 1 83 ? C2 SAH 400 A 1 HETATM 25 N N3 SAH . . . B 2 37.587 102.83 17.594 1 81.35 ? N3 SAH 400 A 1 HETATM 26 C C4 SAH . . . B 2 38.488 103.812 17.431 1 83.03 ? C4 SAH 400 A 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 261 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 26 #