data_4XBO # _model_server_result.job_id moj45fo2V9vb1kF9FSZJlg _model_server_result.datetime_utc '2024-12-26 20:10:43' _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 4xbo # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":301}' # _entry.id 4XBO # _exptl.entry_id 4XBO _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 4XBO _cell.length_a 113.863 _cell.length_b 136.571 _cell.length_c 99.612 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4XBO _symmetry.cell_setting ? _symmetry.Int_Tables_number 20 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 2 2 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 # _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 4XBO _atom_sites.fract_transf_matrix[1][1] 0.008782 _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] 0.007322 _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] 0.010039 _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 1 301 1 SAH SAH . D 2 SAH B 1 301 1 SAH SAH . E 3 HOH A 1 401 47 HOH HOH . E 3 HOH A 2 402 63 HOH HOH . E 3 HOH A 3 403 50 HOH HOH . E 3 HOH A 4 404 81 HOH HOH . E 3 HOH A 5 405 80 HOH HOH . E 3 HOH A 6 406 87 HOH HOH . E 3 HOH A 7 407 88 HOH HOH . E 3 HOH A 8 408 40 HOH HOH . E 3 HOH A 9 409 93 HOH HOH . E 3 HOH A 10 410 1 HOH HOH . E 3 HOH A 11 411 4 HOH HOH . E 3 HOH A 12 412 5 HOH HOH . E 3 HOH A 13 413 6 HOH HOH . E 3 HOH A 14 414 7 HOH HOH . E 3 HOH A 15 415 11 HOH HOH . E 3 HOH A 16 416 12 HOH HOH . E 3 HOH A 17 417 15 HOH HOH . E 3 HOH A 18 418 17 HOH HOH . E 3 HOH A 19 419 22 HOH HOH . E 3 HOH A 20 420 23 HOH HOH . E 3 HOH A 21 421 24 HOH HOH . E 3 HOH A 22 422 26 HOH HOH . E 3 HOH A 23 423 35 HOH HOH . E 3 HOH A 24 424 36 HOH HOH . E 3 HOH A 25 425 38 HOH HOH . E 3 HOH A 26 426 43 HOH HOH . E 3 HOH A 27 427 44 HOH HOH . E 3 HOH A 28 428 52 HOH HOH . E 3 HOH A 29 429 59 HOH HOH . E 3 HOH A 30 430 60 HOH HOH . E 3 HOH A 31 431 62 HOH HOH . E 3 HOH A 32 432 64 HOH HOH . E 3 HOH A 33 433 67 HOH HOH . E 3 HOH A 34 434 69 HOH HOH . E 3 HOH A 35 435 72 HOH HOH . E 3 HOH A 36 436 74 HOH HOH . E 3 HOH A 37 437 75 HOH HOH . E 3 HOH A 38 438 76 HOH HOH . E 3 HOH A 39 439 77 HOH HOH . E 3 HOH A 40 440 82 HOH HOH . E 3 HOH A 41 441 84 HOH HOH . E 3 HOH A 42 442 86 HOH HOH . E 3 HOH A 43 443 90 HOH HOH . E 3 HOH A 44 444 95 HOH HOH . E 3 HOH A 45 445 98 HOH HOH . F 3 HOH B 1 401 56 HOH HOH . F 3 HOH B 2 402 83 HOH HOH . F 3 HOH B 3 403 20 HOH HOH . F 3 HOH B 4 404 32 HOH HOH . F 3 HOH B 5 405 48 HOH HOH . F 3 HOH B 6 406 78 HOH HOH . F 3 HOH B 7 407 53 HOH HOH . F 3 HOH B 8 408 71 HOH HOH . F 3 HOH B 9 409 91 HOH HOH . F 3 HOH B 10 410 58 HOH HOH . F 3 HOH B 11 411 79 HOH HOH . F 3 HOH B 12 412 2 HOH HOH . F 3 HOH B 13 413 3 HOH HOH . F 3 HOH B 14 414 8 HOH HOH . F 3 HOH B 15 415 9 HOH HOH . F 3 HOH B 16 416 10 HOH HOH . F 3 HOH B 17 417 13 HOH HOH . F 3 HOH B 18 418 14 HOH HOH . F 3 HOH B 19 419 16 HOH HOH . F 3 HOH B 20 420 18 HOH HOH . F 3 HOH B 21 421 19 HOH HOH . F 3 HOH B 22 422 21 HOH HOH . F 3 HOH B 23 423 25 HOH HOH . F 3 HOH B 24 424 27 HOH HOH . F 3 HOH B 25 425 28 HOH HOH . F 3 HOH B 26 426 29 HOH HOH . F 3 HOH B 27 427 30 HOH HOH . F 3 HOH B 28 428 31 HOH HOH . F 3 HOH B 29 429 33 HOH HOH . F 3 HOH B 30 430 34 HOH HOH . F 3 HOH B 31 431 37 HOH HOH . F 3 HOH B 32 432 39 HOH HOH . F 3 HOH B 33 433 41 HOH HOH . F 3 HOH B 34 434 42 HOH HOH . F 3 HOH B 35 435 45 HOH HOH . F 3 HOH B 36 436 46 HOH HOH . F 3 HOH B 37 437 49 HOH HOH . F 3 HOH B 38 438 51 HOH HOH . F 3 HOH B 39 439 54 HOH HOH . F 3 HOH B 40 440 55 HOH HOH . F 3 HOH B 41 441 57 HOH HOH . F 3 HOH B 42 442 61 HOH HOH . F 3 HOH B 43 443 65 HOH HOH . F 3 HOH B 44 444 66 HOH HOH . F 3 HOH B 45 445 68 HOH HOH . F 3 HOH B 46 446 70 HOH HOH . F 3 HOH B 47 447 73 HOH HOH . F 3 HOH B 48 448 85 HOH HOH . F 3 HOH B 49 449 89 HOH HOH . F 3 HOH B 50 450 92 HOH HOH . F 3 HOH B 51 451 94 HOH HOH . F 3 HOH B 52 452 96 HOH HOH . F 3 HOH B 53 453 97 HOH HOH . F 3 HOH B 54 454 99 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 -13.327 -18.921 -22.338 1 52.42 ? N SAH 301 B 1 HETATM 2 C CA SAH . . . D 2 -12.7 -17.599 -22.274 1 48.71 ? CA SAH 301 B 1 HETATM 3 C CB SAH . . . D 2 -13.819 -16.539 -22.476 1 41.4 ? CB SAH 301 B 1 HETATM 4 C CG SAH . . . D 2 -14.445 -15.789 -21.301 1 42.11 ? CG SAH 301 B 1 HETATM 5 S SD SAH . . . D 2 -15.394 -16.77 -20.119 1 45.26 ? SD SAH 301 B 1 HETATM 6 C C SAH . . . D 2 -11.769 -17.526 -21.025 1 44.84 ? C SAH 301 B 1 HETATM 7 O O SAH . . . D 2 -10.654 -17.039 -21.048 1 51.12 ? O SAH 301 B 1 HETATM 8 O OXT SAH . . . D 2 -12.033 -18.025 -19.945 1 42.96 ? OXT SAH 301 B 1 HETATM 9 C C5' SAH . . . D 2 -15.594 -15.48 -18.871 1 38.31 ? C5' SAH 301 B 1 HETATM 10 C C4' SAH . . . D 2 -14.748 -15.713 -17.621 1 39.52 ? C4' SAH 301 B 1 HETATM 11 O O4' SAH . . . D 2 -15.175 -16.845 -16.869 1 39.9 ? O4' SAH 301 B 1 HETATM 12 C C3' SAH . . . D 2 -13.283 -15.985 -17.947 1 35.87 ? C3' SAH 301 B 1 HETATM 13 O O3' SAH . . . D 2 -12.542 -14.813 -18.061 1 36.6 ? O3' SAH 301 B 1 HETATM 14 C C2' SAH . . . D 2 -12.803 -16.84 -16.799 1 36.62 ? C2' SAH 301 B 1 HETATM 15 O O2' SAH . . . D 2 -12.441 -16.024 -15.724 1 36.5 ? O2' SAH 301 B 1 HETATM 16 C C1' SAH . . . D 2 -14.053 -17.572 -16.398 1 36.12 ? C1' SAH 301 B 1 HETATM 17 N N9 SAH . . . D 2 -14.029 -18.89 -17.037 1 37.75 ? N9 SAH 301 B 1 HETATM 18 C C8 SAH . . . D 2 -14.846 -19.311 -18.032 1 36.78 ? C8 SAH 301 B 1 HETATM 19 N N7 SAH . . . D 2 -14.505 -20.579 -18.351 1 37.31 ? N7 SAH 301 B 1 HETATM 20 C C5 SAH . . . D 2 -13.47 -21 -17.587 1 35.14 ? C5 SAH 301 B 1 HETATM 21 C C6 SAH . . . D 2 -12.756 -22.2 -17.503 1 31.79 ? C6 SAH 301 B 1 HETATM 22 N N6 SAH . . . D 2 -13.029 -23.238 -18.284 1 29.93 ? N6 SAH 301 B 1 HETATM 23 N N1 SAH . . . D 2 -11.747 -22.291 -16.578 1 33.91 ? N1 SAH 301 B 1 HETATM 24 C C2 SAH . . . D 2 -11.444 -21.233 -15.753 1 36.18 ? C2 SAH 301 B 1 HETATM 25 N N3 SAH . . . D 2 -12.141 -20.046 -15.839 1 37.09 ? N3 SAH 301 B 1 HETATM 26 C C4 SAH . . . D 2 -13.156 -19.926 -16.745 1 37.34 ? C4 SAH 301 B 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 17 _model_server_stats.create_model_time_ms 11 _model_server_stats.query_time_ms 1172 _model_server_stats.encode_time_ms 14 _model_server_stats.element_count 26 #