data_5W7K # _model_server_result.job_id 9dAphYX91-DhrM7Yua4NFw _model_server_result.datetime_utc '2024-10-18 16:22:20' _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 5w7k # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":301}' # _entry.id 5W7K # _exptl.entry_id 5W7K _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 102.83 _cell.angle_gamma 90 _cell.entry_id 5W7K _cell.length_a 121.628 _cell.length_b 36.208 _cell.length_c 126.304 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5W7K _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 1 2 1' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id PISA monomeric 1 author_and_software_defined_assembly 1 PISA monomeric 1 author_and_software_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,C,F 1 1 B,D,E,G 2 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 5W7K _atom_sites.fract_transf_matrix[1][1] 0.008222 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.001873 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.027618 _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] 0.00812 _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 CL B 1 302 1 CL CL . F 4 HOH A 1 401 3 HOH HOH . F 4 HOH A 2 402 87 HOH HOH . F 4 HOH A 3 403 74 HOH HOH . F 4 HOH A 4 404 64 HOH HOH . F 4 HOH A 5 405 109 HOH HOH . F 4 HOH A 6 406 54 HOH HOH . F 4 HOH A 7 407 8 HOH HOH . F 4 HOH A 8 408 9 HOH HOH . F 4 HOH A 9 409 100 HOH HOH . F 4 HOH A 10 410 23 HOH HOH . F 4 HOH A 11 411 81 HOH HOH . F 4 HOH A 12 412 16 HOH HOH . F 4 HOH A 13 413 42 HOH HOH . F 4 HOH A 14 414 46 HOH HOH . F 4 HOH A 15 415 57 HOH HOH . F 4 HOH A 16 416 44 HOH HOH . F 4 HOH A 17 417 47 HOH HOH . F 4 HOH A 18 418 95 HOH HOH . F 4 HOH A 19 419 45 HOH HOH . F 4 HOH A 20 420 6 HOH HOH . F 4 HOH A 21 421 90 HOH HOH . F 4 HOH A 22 422 93 HOH HOH . F 4 HOH A 23 423 19 HOH HOH . F 4 HOH A 24 424 28 HOH HOH . F 4 HOH A 25 425 27 HOH HOH . F 4 HOH A 26 426 10 HOH HOH . F 4 HOH A 27 427 34 HOH HOH . F 4 HOH A 28 428 24 HOH HOH . F 4 HOH A 29 429 98 HOH HOH . F 4 HOH A 30 430 1 HOH HOH . F 4 HOH A 31 431 50 HOH HOH . F 4 HOH A 32 432 18 HOH HOH . F 4 HOH A 33 433 15 HOH HOH . F 4 HOH A 34 434 55 HOH HOH . F 4 HOH A 35 435 60 HOH HOH . F 4 HOH A 36 436 29 HOH HOH . F 4 HOH A 37 437 26 HOH HOH . F 4 HOH A 38 438 22 HOH HOH . F 4 HOH A 39 439 49 HOH HOH . F 4 HOH A 40 440 113 HOH HOH . F 4 HOH A 41 441 115 HOH HOH . F 4 HOH A 42 442 56 HOH HOH . F 4 HOH A 43 443 17 HOH HOH . F 4 HOH A 44 444 63 HOH HOH . F 4 HOH A 45 445 35 HOH HOH . F 4 HOH A 46 446 118 HOH HOH . F 4 HOH A 47 447 12 HOH HOH . F 4 HOH A 48 448 25 HOH HOH . F 4 HOH A 49 449 89 HOH HOH . F 4 HOH A 50 450 65 HOH HOH . F 4 HOH A 51 451 62 HOH HOH . F 4 HOH A 52 452 21 HOH HOH . F 4 HOH A 53 453 2 HOH HOH . F 4 HOH A 54 454 79 HOH HOH . F 4 HOH A 55 455 58 HOH HOH . F 4 HOH A 56 456 66 HOH HOH . F 4 HOH A 57 457 94 HOH HOH . F 4 HOH A 58 458 68 HOH HOH . F 4 HOH A 59 459 5 HOH HOH . F 4 HOH A 60 460 7 HOH HOH . F 4 HOH A 61 461 84 HOH HOH . F 4 HOH A 62 462 33 HOH HOH . F 4 HOH A 63 463 116 HOH HOH . F 4 HOH A 64 464 31 HOH HOH . F 4 HOH A 65 465 91 HOH HOH . F 4 HOH A 66 466 112 HOH HOH . F 4 HOH A 67 467 48 HOH HOH . F 4 HOH A 68 468 97 HOH HOH . F 4 HOH A 69 469 99 HOH HOH . F 4 HOH A 70 470 61 HOH HOH . F 4 HOH A 71 471 96 HOH HOH . F 4 HOH A 72 472 30 HOH HOH . F 4 HOH A 73 473 32 HOH HOH . F 4 HOH A 74 474 11 HOH HOH . F 4 HOH A 75 475 20 HOH HOH . F 4 HOH A 76 476 85 HOH HOH . F 4 HOH A 77 477 4 HOH HOH . F 4 HOH A 78 478 86 HOH HOH . F 4 HOH A 79 479 43 HOH HOH . F 4 HOH A 80 480 83 HOH HOH . F 4 HOH A 81 481 82 HOH HOH . F 4 HOH A 82 482 13 HOH HOH . F 4 HOH A 83 483 67 HOH HOH . F 4 HOH A 84 484 77 HOH HOH . F 4 HOH A 85 485 117 HOH HOH . F 4 HOH A 86 486 92 HOH HOH . F 4 HOH A 87 487 114 HOH HOH . F 4 HOH A 88 488 51 HOH HOH . F 4 HOH A 89 489 75 HOH HOH . F 4 HOH A 90 490 78 HOH HOH . F 4 HOH A 91 491 73 HOH HOH . F 4 HOH A 92 492 76 HOH HOH . F 4 HOH A 93 493 59 HOH HOH . G 4 HOH B 1 401 80 HOH HOH . G 4 HOH B 2 402 108 HOH HOH . G 4 HOH B 3 403 106 HOH HOH . G 4 HOH B 4 404 37 HOH HOH . G 4 HOH B 5 405 111 HOH HOH . G 4 HOH B 6 406 14 HOH HOH . G 4 HOH B 7 407 102 HOH HOH . G 4 HOH B 8 408 38 HOH HOH . G 4 HOH B 9 409 69 HOH HOH . G 4 HOH B 10 410 40 HOH HOH . G 4 HOH B 11 411 103 HOH HOH . G 4 HOH B 12 412 104 HOH HOH . G 4 HOH B 13 413 41 HOH HOH . G 4 HOH B 14 414 107 HOH HOH . G 4 HOH B 15 415 101 HOH HOH . G 4 HOH B 16 416 71 HOH HOH . G 4 HOH B 17 417 70 HOH HOH . G 4 HOH B 18 418 105 HOH HOH . G 4 HOH B 19 419 72 HOH HOH . G 4 HOH B 20 420 36 HOH HOH . G 4 HOH B 21 421 39 HOH HOH . G 4 HOH B 22 422 110 HOH HOH . G 4 HOH B 23 423 88 HOH HOH . G 4 HOH B 24 424 52 HOH HOH . G 4 HOH B 25 425 53 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 2 -0.502 2.703 49.056 1 26.76 ? N SAH 301 A 1 HETATM 2 C CA SAH . . . C 2 0.382 3.755 49.582 1 36.13 ? CA SAH 301 A 1 HETATM 3 C CB SAH . . . C 2 1.566 3.2 50.367 1 29.55 ? CB SAH 301 A 1 HETATM 4 C CG SAH . . . C 2 2.516 2.19 49.689 1 32.64 ? CG SAH 301 A 1 HETATM 5 S SD SAH . . . C 2 3.987 1.965 50.73 1 44.08 ? SD SAH 301 A 1 HETATM 6 C C SAH . . . C 2 0.899 4.636 48.455 1 32.21 ? C SAH 301 A 1 HETATM 7 O O SAH . . . C 2 0.485 4.462 47.303 1 29.83 ? O SAH 301 A 1 HETATM 8 O OXT SAH . . . C 2 1.695 5.555 48.696 1 35.01 ? OXT SAH 301 A 1 HETATM 9 C C5' SAH . . . C 2 3.673 0.265 51.336 1 32.93 ? C5' SAH 301 A 1 HETATM 10 C C4' SAH . . . C 2 2.705 0.232 52.543 1 33.92 ? C4' SAH 301 A 1 HETATM 11 O O4' SAH . . . C 2 2.339 -1.1 52.872 1 34.21 ? O4' SAH 301 A 1 HETATM 12 C C3' SAH . . . C 2 3.246 0.84 53.829 1 39.28 ? C3' SAH 301 A 1 HETATM 13 O O3' SAH . . . C 2 2.376 1.878 54.242 1 36.16 ? O3' SAH 301 A 1 HETATM 14 C C2' SAH . . . C 2 3.191 -0.282 54.857 1 39.21 ? C2' SAH 301 A 1 HETATM 15 O O2' SAH . . . C 2 2.839 0.194 56.141 1 34.59 ? O2' SAH 301 A 1 HETATM 16 C C1' SAH . . . C 2 2.148 -1.205 54.269 1 31.92 ? C1' SAH 301 A 1 HETATM 17 N N9 SAH . . . C 2 2.266 -2.644 54.591 1 35.16 ? N9 SAH 301 A 1 HETATM 18 C C8 SAH . . . C 2 3.396 -3.415 54.586 1 36.64 ? C8 SAH 301 A 1 HETATM 19 N N7 SAH . . . C 2 3.038 -4.681 54.911 1 33.4 ? N7 SAH 301 A 1 HETATM 20 C C5 SAH . . . C 2 1.713 -4.739 55.118 1 30.67 ? C5 SAH 301 A 1 HETATM 21 C C6 SAH . . . C 2 0.833 -5.781 55.453 1 32.74 ? C6 SAH 301 A 1 HETATM 22 N N6 SAH . . . C 2 1.232 -7.034 55.659 1 34.05 ? N6 SAH 301 A 1 HETATM 23 N N1 SAH . . . C 2 -0.505 -5.49 55.583 1 31.3 ? N1 SAH 301 A 1 HETATM 24 C C2 SAH . . . C 2 -0.97 -4.212 55.371 1 29.85 ? C2 SAH 301 A 1 HETATM 25 N N3 SAH . . . C 2 -0.107 -3.188 55.035 1 32.19 ? N3 SAH 301 A 1 HETATM 26 C C4 SAH . . . C 2 1.219 -3.459 54.907 1 32.64 ? C4 SAH 301 A 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 312 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 26 #