data_4DCG # _model_server_result.job_id gr-G62P2yYY3KStYn11_Qg _model_server_result.datetime_utc '2024-11-13 19:04:56' _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 4dcg # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":400}' # _entry.id 4DCG # _exptl.entry_id 4DCG _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 117.21 _cell.angle_gamma 90 _cell.entry_id 4DCG _cell.length_a 84.334 _cell.length_b 66.735 _cell.length_c 79.392 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4DCG _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 ? _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,D _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 316 n n N HN1 SAH sing 317 n n N HN2 SAH sing 318 n n CA CB SAH sing 319 n n CA C SAH sing 320 n n CA HA SAH sing 321 n n CB CG SAH sing 322 n n CB HB1 SAH sing 323 n n CB HB2 SAH sing 324 n n CG SD SAH sing 325 n n CG HG1 SAH sing 326 n n CG HG2 SAH sing 327 n n SD C5' SAH sing 328 n n C O SAH doub 329 n n C OXT SAH sing 330 n n OXT HXT SAH sing 331 n n C5' C4' SAH sing 332 n n C5' "H5'1" SAH sing 333 n n C5' "H5'2" SAH sing 334 n n C4' O4' SAH sing 335 n n C4' C3' SAH sing 336 n n C4' H4' SAH sing 337 n n O4' C1' SAH sing 338 n n C3' O3' SAH sing 339 n n C3' C2' SAH sing 340 n n C3' H3' SAH sing 341 n n O3' HO3' SAH sing 342 n n C2' O2' SAH sing 343 n n C2' C1' SAH sing 344 n n C2' H2' SAH sing 345 n n O2' HO2' SAH sing 346 n n C1' N9 SAH sing 347 n n C1' H1' SAH sing 348 n n N9 C8 SAH sing 349 n y N9 C4 SAH sing 350 n y C8 N7 SAH doub 351 n y C8 H8 SAH sing 352 n n N7 C5 SAH sing 353 n y C5 C6 SAH sing 354 n y C5 C4 SAH doub 355 n y C6 N6 SAH sing 356 n n C6 N1 SAH doub 357 n y N6 HN61 SAH sing 358 n n N6 HN62 SAH sing 359 n n N1 C2 SAH sing 360 n y C2 N3 SAH doub 361 n y C2 H2 SAH sing 362 n n N3 C4 SAH sing 363 n y # _atom_sites.entry_id 4DCG _atom_sites.fract_transf_matrix[1][1] 0.011858 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.006097 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.014985 _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] 0.014163 _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 MG7 A 1 401 401 MG7 MG7 . D 4 HOH A 1 402 2 HOH HOH . D 4 HOH A 2 403 3 HOH HOH . D 4 HOH A 3 404 4 HOH HOH . D 4 HOH A 4 405 5 HOH HOH . D 4 HOH A 5 406 6 HOH HOH . D 4 HOH A 6 407 7 HOH HOH . D 4 HOH A 7 408 8 HOH HOH . D 4 HOH A 8 409 9 HOH HOH . D 4 HOH A 9 410 10 HOH HOH . D 4 HOH A 10 411 11 HOH HOH . D 4 HOH A 11 412 15 HOH HOH . D 4 HOH A 12 413 16 HOH HOH . D 4 HOH A 13 414 17 HOH HOH . D 4 HOH A 14 415 18 HOH HOH . D 4 HOH A 15 416 19 HOH HOH . D 4 HOH A 16 417 20 HOH HOH . D 4 HOH A 17 418 21 HOH HOH . D 4 HOH A 18 419 22 HOH HOH . D 4 HOH A 19 420 23 HOH HOH . D 4 HOH A 20 421 24 HOH HOH . D 4 HOH A 21 422 25 HOH HOH . D 4 HOH A 22 423 26 HOH HOH . D 4 HOH A 23 424 29 HOH HOH . D 4 HOH A 24 425 30 HOH HOH . D 4 HOH A 25 426 31 HOH HOH . D 4 HOH A 26 427 32 HOH HOH . D 4 HOH A 27 428 33 HOH HOH . D 4 HOH A 28 429 35 HOH HOH . D 4 HOH A 29 430 36 HOH HOH . D 4 HOH A 30 431 37 HOH HOH . D 4 HOH A 31 432 40 HOH HOH . D 4 HOH A 32 433 41 HOH HOH . D 4 HOH A 33 434 43 HOH HOH . D 4 HOH A 34 435 44 HOH HOH . D 4 HOH A 35 436 45 HOH HOH . D 4 HOH A 36 437 46 HOH HOH . D 4 HOH A 37 438 47 HOH HOH . D 4 HOH A 38 439 48 HOH HOH . D 4 HOH A 39 440 50 HOH HOH . D 4 HOH A 40 441 51 HOH HOH . D 4 HOH A 41 442 53 HOH HOH . D 4 HOH A 42 443 54 HOH HOH . D 4 HOH A 43 444 55 HOH HOH . D 4 HOH A 44 445 56 HOH HOH . D 4 HOH A 45 446 58 HOH HOH . D 4 HOH A 46 447 59 HOH HOH . D 4 HOH A 47 448 60 HOH HOH . D 4 HOH A 48 449 62 HOH HOH . D 4 HOH A 49 450 63 HOH HOH . D 4 HOH A 50 451 66 HOH HOH . D 4 HOH A 51 452 67 HOH HOH . D 4 HOH A 52 453 68 HOH HOH . D 4 HOH A 53 454 69 HOH HOH . D 4 HOH A 54 455 70 HOH HOH . D 4 HOH A 55 456 71 HOH HOH . D 4 HOH A 56 457 72 HOH HOH . D 4 HOH A 57 458 74 HOH HOH . D 4 HOH A 58 459 75 HOH HOH . D 4 HOH A 59 460 76 HOH HOH . D 4 HOH A 60 461 77 HOH HOH . D 4 HOH A 61 462 78 HOH HOH . D 4 HOH A 62 463 79 HOH HOH . D 4 HOH A 63 464 80 HOH HOH . D 4 HOH A 64 465 81 HOH HOH . D 4 HOH A 65 466 82 HOH HOH . D 4 HOH A 66 467 83 HOH HOH . D 4 HOH A 67 468 84 HOH HOH . D 4 HOH A 68 469 86 HOH HOH . D 4 HOH A 69 470 88 HOH HOH . D 4 HOH A 70 471 89 HOH HOH . D 4 HOH A 71 472 91 HOH HOH . D 4 HOH A 72 473 92 HOH HOH . D 4 HOH A 73 474 93 HOH HOH . D 4 HOH A 74 475 95 HOH HOH . D 4 HOH A 75 476 96 HOH HOH . D 4 HOH A 76 477 97 HOH HOH . D 4 HOH A 77 478 98 HOH HOH . D 4 HOH A 78 479 99 HOH HOH . D 4 HOH A 79 480 100 HOH HOH . D 4 HOH A 80 481 101 HOH HOH . D 4 HOH A 81 482 102 HOH HOH . D 4 HOH A 82 483 103 HOH HOH . D 4 HOH A 83 484 104 HOH HOH . D 4 HOH A 84 485 105 HOH HOH . D 4 HOH A 85 486 106 HOH HOH . D 4 HOH A 86 487 107 HOH HOH . D 4 HOH A 87 488 108 HOH HOH . D 4 HOH A 88 489 109 HOH HOH . D 4 HOH A 89 490 110 HOH HOH . D 4 HOH A 90 491 111 HOH HOH . D 4 HOH A 91 492 112 HOH HOH . D 4 HOH A 92 493 113 HOH HOH . D 4 HOH A 93 494 115 HOH HOH . D 4 HOH A 94 495 116 HOH HOH . D 4 HOH A 95 496 118 HOH HOH . D 4 HOH A 96 497 119 HOH HOH . D 4 HOH A 97 498 120 HOH HOH . D 4 HOH A 98 499 121 HOH HOH . D 4 HOH A 99 500 122 HOH HOH . D 4 HOH A 100 501 203 HOH HOH . D 4 HOH A 101 502 204 HOH HOH . D 4 HOH A 102 503 205 HOH HOH . D 4 HOH A 103 504 206 HOH HOH . D 4 HOH A 104 505 207 HOH HOH . D 4 HOH A 105 506 210 HOH HOH . D 4 HOH A 106 507 211 HOH HOH . D 4 HOH A 107 508 214 HOH HOH . D 4 HOH A 108 509 216 HOH HOH . D 4 HOH A 109 510 217 HOH HOH . D 4 HOH A 110 511 218 HOH HOH . D 4 HOH A 111 512 220 HOH HOH . D 4 HOH A 112 513 224 HOH HOH . D 4 HOH A 113 514 225 HOH HOH . D 4 HOH A 114 515 226 HOH HOH . D 4 HOH A 115 516 227 HOH HOH . D 4 HOH A 116 517 228 HOH HOH . D 4 HOH A 117 518 229 HOH HOH . D 4 HOH A 118 519 230 HOH HOH . D 4 HOH A 119 520 231 HOH HOH . D 4 HOH A 120 521 232 HOH HOH . D 4 HOH A 121 522 233 HOH HOH . D 4 HOH A 122 523 234 HOH HOH . D 4 HOH A 123 524 235 HOH HOH . D 4 HOH A 124 525 236 HOH HOH . D 4 HOH A 125 526 237 HOH HOH . D 4 HOH A 126 527 238 HOH HOH . D 4 HOH A 127 528 239 HOH HOH . D 4 HOH A 128 529 240 HOH HOH . D 4 HOH A 129 530 241 HOH HOH . D 4 HOH A 130 531 242 HOH HOH . D 4 HOH A 131 532 243 HOH HOH . D 4 HOH A 132 533 244 HOH HOH . D 4 HOH A 133 534 246 HOH HOH . D 4 HOH A 134 535 247 HOH HOH . D 4 HOH A 135 536 248 HOH HOH . D 4 HOH A 136 537 249 HOH HOH . D 4 HOH A 137 538 250 HOH HOH . D 4 HOH A 138 539 252 HOH HOH . D 4 HOH A 139 540 253 HOH HOH . D 4 HOH A 140 541 303 HOH HOH . D 4 HOH A 141 542 304 HOH HOH . D 4 HOH A 142 543 305 HOH HOH . D 4 HOH A 143 544 306 HOH HOH . D 4 HOH A 144 545 307 HOH HOH . D 4 HOH A 145 546 308 HOH HOH . D 4 HOH A 146 547 309 HOH HOH . D 4 HOH A 147 548 310 HOH HOH . D 4 HOH A 148 549 311 HOH HOH . D 4 HOH A 149 550 312 HOH HOH . D 4 HOH A 150 551 313 HOH HOH . D 4 HOH A 151 552 314 HOH HOH . D 4 HOH A 152 553 315 HOH HOH . D 4 HOH A 153 554 316 HOH HOH . D 4 HOH A 154 555 317 HOH HOH . D 4 HOH A 155 556 318 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 -4.12 12.78 24.071 1 6.22 ? N SAH 400 A 1 HETATM 2 C CA SAH . . . B 2 -4.208 11.777 25.122 1 7.19 ? CA SAH 400 A 1 HETATM 3 C CB SAH . . . B 2 -2.875 11.017 25.228 1 4.6 ? CB SAH 400 A 1 HETATM 4 C CG SAH . . . B 2 -2.513 10.291 23.929 1 6.24 ? CG SAH 400 A 1 HETATM 5 S SD SAH . . . B 2 -1.22 9.077 24.077 1 10.86 ? SD SAH 400 A 1 HETATM 6 C C SAH . . . B 2 -4.61 12.396 26.472 1 8.34 ? C SAH 400 A 1 HETATM 7 O O SAH . . . B 2 -5.066 13.558 26.481 1 5.68 ? O SAH 400 A 1 HETATM 8 O OXT SAH . . . B 2 -4.471 11.713 27.508 1 7.21 ? OXT SAH 400 A 1 HETATM 9 C C5' SAH . . . B 2 -1.283 8.474 22.382 1 10.77 ? C5' SAH 400 A 1 HETATM 10 C C4' SAH . . . B 2 -2.565 7.756 22.006 1 12.2 ? C4' SAH 400 A 1 HETATM 11 O O4' SAH . . . B 2 -2.573 7.653 20.547 1 11.07 ? O4' SAH 400 A 1 HETATM 12 C C3' SAH . . . B 2 -2.715 6.385 22.588 1 14.81 ? C3' SAH 400 A 1 HETATM 13 O O3' SAH . . . B 2 -3.87 6.314 23.548 1 12.8 ? O3' SAH 400 A 1 HETATM 14 C C2' SAH . . . B 2 -2.946 5.575 21.39 1 11.64 ? C2' SAH 400 A 1 HETATM 15 O O2' SAH . . . B 2 -3.858 4.43 21.658 1 13.87 ? O2' SAH 400 A 1 HETATM 16 C C1' SAH . . . B 2 -3.461 6.525 20.403 1 12.55 ? C1' SAH 400 A 1 HETATM 17 N N9 SAH . . . B 2 -3.396 6.068 18.982 1 15.15 ? N9 SAH 400 A 1 HETATM 18 C C8 SAH . . . B 2 -2.294 5.557 18.273 1 15.02 ? C8 SAH 400 A 1 HETATM 19 N N7 SAH . . . B 2 -2.696 5.281 16.931 1 13.26 ? N7 SAH 400 A 1 HETATM 20 C C5 SAH . . . B 2 -4.049 5.641 16.894 1 13.56 ? C5 SAH 400 A 1 HETATM 21 C C6 SAH . . . B 2 -5.02 5.594 15.884 1 14.24 ? C6 SAH 400 A 1 HETATM 22 N N6 SAH . . . B 2 -4.769 5.144 14.639 1 14.53 ? N6 SAH 400 A 1 HETATM 23 N N1 SAH . . . B 2 -6.267 5.991 16.165 1 10.86 ? N1 SAH 400 A 1 HETATM 24 C C2 SAH . . . B 2 -6.534 6.409 17.374 1 13.09 ? C2 SAH 400 A 1 HETATM 25 N N3 SAH . . . B 2 -5.74 6.501 18.386 1 11.38 ? N3 SAH 400 A 1 HETATM 26 C C4 SAH . . . B 2 -4.48 6.101 18.096 1 13.05 ? C4 SAH 400 A 1 HETATM 27 H HN1 SAH . . . B 2 -4.337 12.455 23.172 1 0 ? HN1 SAH 400 A 1 HETATM 28 H HO2' SAH . . . B 2 -3.539 3.692 21.132 1 0 ? HO2' SAH 400 A 1 HETATM 29 H HN61 SAH . . . B 2 -3.836 4.826 14.414 1 0 ? HN61 SAH 400 A 1 HETATM 30 H HN62 SAH . . . B 2 -5.469 5.114 13.904 1 0 ? HN62 SAH 400 A 1 # _model_server_stats.io_time_ms 7 _model_server_stats.parse_time_ms 13 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 316 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 30 #