data_7V1D # _model_server_result.job_id 7wEUd2uPpk51eZ4dehLTZQ _model_server_result.datetime_utc '2024-11-24 02:32:48' _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 7v1d # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":301}' # _entry.id 7V1D # _exptl.entry_id 7V1D _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 91.13 _cell.angle_gamma 90 _cell.entry_id 7V1D _cell.length_a 35.182 _cell.length_b 90.752 _cell.length_c 44.495 _cell.Z_PDB 2 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7V1D _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1 21 1' # _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,D,E,F,G _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 399 n n N HN1 SAH sing 400 n n N HN2 SAH sing 401 n n CA CB SAH sing 402 n n CA C SAH sing 403 n n CA HA SAH sing 404 n n CB CG SAH sing 405 n n CB HB1 SAH sing 406 n n CB HB2 SAH sing 407 n n CG SD SAH sing 408 n n CG HG1 SAH sing 409 n n CG HG2 SAH sing 410 n n SD C5' SAH sing 411 n n C O SAH doub 412 n n C OXT SAH sing 413 n n OXT HXT SAH sing 414 n n C5' C4' SAH sing 415 n n C5' "H5'1" SAH sing 416 n n C5' "H5'2" SAH sing 417 n n C4' O4' SAH sing 418 n n C4' C3' SAH sing 419 n n C4' H4' SAH sing 420 n n O4' C1' SAH sing 421 n n C3' O3' SAH sing 422 n n C3' C2' SAH sing 423 n n C3' H3' SAH sing 424 n n O3' HO3' SAH sing 425 n n C2' O2' SAH sing 426 n n C2' C1' SAH sing 427 n n C2' H2' SAH sing 428 n n O2' HO2' SAH sing 429 n n C1' N9 SAH sing 430 n n C1' H1' SAH sing 431 n n N9 C8 SAH sing 432 n y N9 C4 SAH sing 433 n y C8 N7 SAH doub 434 n y C8 H8 SAH sing 435 n n N7 C5 SAH sing 436 n y C5 C6 SAH sing 437 n y C5 C4 SAH doub 438 n y C6 N6 SAH sing 439 n n C6 N1 SAH doub 440 n y N6 HN61 SAH sing 441 n n N6 HN62 SAH sing 442 n n N1 C2 SAH sing 443 n y C2 N3 SAH doub 444 n y C2 H2 SAH sing 445 n n N3 C4 SAH sing 446 n y # _atom_sites.entry_id 7V1D _atom_sites.fract_transf_matrix[1][1] 0.028424 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.000559 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.011019 _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] 0.022479 _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 1 301 301 SAH SAH . C 3 G3A A 1 302 302 G3A G3A . D 4 GOL A 1 303 303 GOL GOL . E 5 IPA A 1 304 304 IPA IPA . F 6 PEG A 1 305 401 PEG PEG . G 7 HOH A 1 401 98 HOH HOH . G 7 HOH A 2 402 27 HOH HOH . G 7 HOH A 3 403 216 HOH HOH . G 7 HOH A 4 404 210 HOH HOH . G 7 HOH A 5 405 145 HOH HOH . G 7 HOH A 6 406 184 HOH HOH . G 7 HOH A 7 407 143 HOH HOH . G 7 HOH A 8 408 169 HOH HOH . G 7 HOH A 9 409 45 HOH HOH . G 7 HOH A 10 410 135 HOH HOH . G 7 HOH A 11 411 168 HOH HOH . G 7 HOH A 12 412 14 HOH HOH . G 7 HOH A 13 413 38 HOH HOH . G 7 HOH A 14 414 225 HOH HOH . G 7 HOH A 15 415 103 HOH HOH . G 7 HOH A 16 416 113 HOH HOH . G 7 HOH A 17 417 222 HOH HOH . G 7 HOH A 18 418 147 HOH HOH . G 7 HOH A 19 419 46 HOH HOH . G 7 HOH A 20 420 200 HOH HOH . G 7 HOH A 21 421 4 HOH HOH . G 7 HOH A 22 422 208 HOH HOH . G 7 HOH A 23 423 118 HOH HOH . G 7 HOH A 24 424 105 HOH HOH . G 7 HOH A 25 425 96 HOH HOH . G 7 HOH A 26 426 196 HOH HOH . G 7 HOH A 27 427 156 HOH HOH . G 7 HOH A 28 428 131 HOH HOH . G 7 HOH A 29 429 158 HOH HOH . G 7 HOH A 30 430 173 HOH HOH . G 7 HOH A 31 431 13 HOH HOH . G 7 HOH A 32 432 48 HOH HOH . G 7 HOH A 33 433 224 HOH HOH . G 7 HOH A 34 434 12 HOH HOH . G 7 HOH A 35 435 188 HOH HOH . G 7 HOH A 36 436 5 HOH HOH . G 7 HOH A 37 437 116 HOH HOH . G 7 HOH A 38 438 61 HOH HOH . G 7 HOH A 39 439 53 HOH HOH . G 7 HOH A 40 440 164 HOH HOH . G 7 HOH A 41 441 189 HOH HOH . G 7 HOH A 42 442 78 HOH HOH . G 7 HOH A 43 443 161 HOH HOH . G 7 HOH A 44 444 120 HOH HOH . G 7 HOH A 45 445 8 HOH HOH . G 7 HOH A 46 446 36 HOH HOH . G 7 HOH A 47 447 226 HOH HOH . G 7 HOH A 48 448 163 HOH HOH . G 7 HOH A 49 449 52 HOH HOH . G 7 HOH A 50 450 122 HOH HOH . G 7 HOH A 51 451 33 HOH HOH . G 7 HOH A 52 452 7 HOH HOH . G 7 HOH A 53 453 15 HOH HOH . G 7 HOH A 54 454 37 HOH HOH . G 7 HOH A 55 455 215 HOH HOH . G 7 HOH A 56 456 60 HOH HOH . G 7 HOH A 57 457 28 HOH HOH . G 7 HOH A 58 458 124 HOH HOH . G 7 HOH A 59 459 111 HOH HOH . G 7 HOH A 60 460 11 HOH HOH . G 7 HOH A 61 461 167 HOH HOH . G 7 HOH A 62 462 109 HOH HOH . G 7 HOH A 63 463 112 HOH HOH . G 7 HOH A 64 464 106 HOH HOH . G 7 HOH A 65 465 85 HOH HOH . G 7 HOH A 66 466 39 HOH HOH . G 7 HOH A 67 467 117 HOH HOH . G 7 HOH A 68 468 35 HOH HOH . G 7 HOH A 69 469 3 HOH HOH . G 7 HOH A 70 470 51 HOH HOH . G 7 HOH A 71 471 217 HOH HOH . G 7 HOH A 72 472 86 HOH HOH . G 7 HOH A 73 473 65 HOH HOH . G 7 HOH A 74 474 183 HOH HOH . G 7 HOH A 75 475 157 HOH HOH . G 7 HOH A 76 476 24 HOH HOH . G 7 HOH A 77 477 107 HOH HOH . G 7 HOH A 78 478 136 HOH HOH . G 7 HOH A 79 479 70 HOH HOH . G 7 HOH A 80 480 236 HOH HOH . G 7 HOH A 81 481 126 HOH HOH . G 7 HOH A 82 482 16 HOH HOH . G 7 HOH A 83 483 56 HOH HOH . G 7 HOH A 84 484 50 HOH HOH . G 7 HOH A 85 485 132 HOH HOH . G 7 HOH A 86 486 209 HOH HOH . G 7 HOH A 87 487 91 HOH HOH . G 7 HOH A 88 488 138 HOH HOH . G 7 HOH A 89 489 162 HOH HOH . G 7 HOH A 90 490 29 HOH HOH . G 7 HOH A 91 491 139 HOH HOH . G 7 HOH A 92 492 68 HOH HOH . G 7 HOH A 93 493 59 HOH HOH . G 7 HOH A 94 494 66 HOH HOH . G 7 HOH A 95 495 235 HOH HOH . G 7 HOH A 96 496 93 HOH HOH . G 7 HOH A 97 497 108 HOH HOH . G 7 HOH A 98 498 102 HOH HOH . G 7 HOH A 99 499 128 HOH HOH . G 7 HOH A 100 500 99 HOH HOH . G 7 HOH A 101 501 187 HOH HOH . G 7 HOH A 102 502 223 HOH HOH . G 7 HOH A 103 503 191 HOH HOH . G 7 HOH A 104 504 18 HOH HOH . G 7 HOH A 105 505 95 HOH HOH . G 7 HOH A 106 506 92 HOH HOH . G 7 HOH A 107 507 100 HOH HOH . G 7 HOH A 108 508 97 HOH HOH . G 7 HOH A 109 509 75 HOH HOH . G 7 HOH A 110 510 67 HOH HOH . G 7 HOH A 111 511 174 HOH HOH . G 7 HOH A 112 512 140 HOH HOH . G 7 HOH A 113 513 44 HOH HOH . G 7 HOH A 114 514 127 HOH HOH . G 7 HOH A 115 515 227 HOH HOH . G 7 HOH A 116 516 49 HOH HOH . G 7 HOH A 117 517 89 HOH HOH . G 7 HOH A 118 518 22 HOH HOH . G 7 HOH A 119 519 110 HOH HOH . G 7 HOH A 120 520 80 HOH HOH . G 7 HOH A 121 521 197 HOH HOH . G 7 HOH A 122 522 231 HOH HOH . G 7 HOH A 123 523 34 HOH HOH . G 7 HOH A 124 524 193 HOH HOH . G 7 HOH A 125 525 137 HOH HOH . G 7 HOH A 126 526 94 HOH HOH . G 7 HOH A 127 527 115 HOH HOH . G 7 HOH A 128 528 114 HOH HOH . G 7 HOH A 129 529 134 HOH HOH . G 7 HOH A 130 530 25 HOH HOH . G 7 HOH A 131 531 141 HOH HOH . G 7 HOH A 132 532 87 HOH HOH . G 7 HOH A 133 533 32 HOH HOH . G 7 HOH A 134 534 83 HOH HOH . G 7 HOH A 135 535 228 HOH HOH . G 7 HOH A 136 536 82 HOH HOH . G 7 HOH A 137 537 179 HOH HOH . G 7 HOH A 138 538 64 HOH HOH . G 7 HOH A 139 539 166 HOH HOH . G 7 HOH A 140 540 47 HOH HOH . G 7 HOH A 141 541 90 HOH HOH . G 7 HOH A 142 542 230 HOH HOH . G 7 HOH A 143 543 123 HOH HOH . G 7 HOH A 144 544 203 HOH HOH . G 7 HOH A 145 545 41 HOH HOH . G 7 HOH A 146 546 6 HOH HOH . G 7 HOH A 147 547 42 HOH HOH . G 7 HOH A 148 548 148 HOH HOH . G 7 HOH A 149 549 129 HOH HOH . G 7 HOH A 150 550 54 HOH HOH . G 7 HOH A 151 551 73 HOH HOH . G 7 HOH A 152 552 30 HOH HOH . G 7 HOH A 153 553 201 HOH HOH . G 7 HOH A 154 554 192 HOH HOH . G 7 HOH A 155 555 204 HOH HOH . G 7 HOH A 156 556 194 HOH HOH . G 7 HOH A 157 557 214 HOH HOH . G 7 HOH A 158 558 170 HOH HOH . G 7 HOH A 159 559 218 HOH HOH . G 7 HOH A 160 560 234 HOH HOH . G 7 HOH A 161 561 212 HOH HOH . G 7 HOH A 162 562 205 HOH HOH . G 7 HOH A 163 563 180 HOH HOH . G 7 HOH A 164 564 84 HOH HOH . G 7 HOH A 165 565 125 HOH HOH . G 7 HOH A 166 566 232 HOH HOH . G 7 HOH A 167 567 175 HOH HOH . G 7 HOH A 168 568 219 HOH HOH . G 7 HOH A 169 569 213 HOH HOH . G 7 HOH A 170 570 160 HOH HOH . G 7 HOH A 171 571 142 HOH HOH . G 7 HOH A 172 572 220 HOH HOH . G 7 HOH A 173 573 88 HOH HOH . G 7 HOH A 174 574 182 HOH HOH . G 7 HOH A 175 575 130 HOH HOH . G 7 HOH A 176 576 211 HOH HOH . G 7 HOH A 177 577 229 HOH HOH . G 7 HOH A 178 578 195 HOH HOH . G 7 HOH A 179 579 206 HOH HOH . G 7 HOH A 180 580 165 HOH HOH . G 7 HOH A 181 581 144 HOH HOH . G 7 HOH A 182 582 207 HOH HOH . G 7 HOH A 183 583 146 HOH HOH . G 7 HOH A 184 584 198 HOH HOH . G 7 HOH A 185 585 181 HOH HOH . G 7 HOH A 186 586 62 HOH HOH . G 7 HOH A 187 587 133 HOH HOH . G 7 HOH A 188 588 233 HOH HOH . G 7 HOH A 189 589 221 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 2.706 22.439 18.194 1 19.07 ? N SAH 301 A 1 HETATM 2 C CA SAH . . . B 2 2.103 23.198 19.26 1 22.8 ? CA SAH 301 A 1 HETATM 3 C CB SAH . . . B 2 0.917 22.427 19.867 1 35.84 ? CB SAH 301 A 1 HETATM 4 C CG SAH . . . B 2 -0.376 22.939 19.267 1 35.13 ? CG SAH 301 A 1 HETATM 5 S SD SAH . . . B 2 -1.756 21.834 19.671 1 59.51 ? SD SAH 301 A 1 HETATM 6 C C SAH . . . B 2 3.124 23.49 20.373 1 21.86 ? C SAH 301 A 1 HETATM 7 O O SAH . . . B 2 2.807 24.32 21.29 1 12.78 ? O SAH 301 A 1 HETATM 8 O OXT SAH . . . B 2 4.268 22.914 20.341 1 22.6 -1 OXT SAH 301 A 1 HETATM 9 C C5' SAH . . . B 2 -2.894 22.116 18.246 1 26.16 ? C5' SAH 301 A 1 HETATM 10 C C4' SAH . . . B 2 -3.552 23.497 18.251 1 22.42 ? C4' SAH 301 A 1 HETATM 11 O O4' SAH . . . B 2 -4.364 23.676 17.073 1 20.89 ? O4' SAH 301 A 1 HETATM 12 C C3' SAH . . . B 2 -4.507 23.762 19.443 1 26.3 ? C3' SAH 301 A 1 HETATM 13 O O3' SAH . . . B 2 -4.075 24.925 20.172 1 24.5 ? O3' SAH 301 A 1 HETATM 14 C C2' SAH . . . B 2 -5.898 24.051 18.824 1 26.29 ? C2' SAH 301 A 1 HETATM 15 O O2' SAH . . . B 2 -6.537 25.128 19.533 1 25.68 ? O2' SAH 301 A 1 HETATM 16 C C1' SAH . . . B 2 -5.484 24.49 17.412 1 14.47 ? C1' SAH 301 A 1 HETATM 17 N N9 SAH . . . B 2 -6.531 24.179 16.423 1 22.51 ? N9 SAH 301 A 1 HETATM 18 C C8 SAH . . . B 2 -7.379 23.119 16.418 1 26.53 ? C8 SAH 301 A 1 HETATM 19 N N7 SAH . . . B 2 -8.163 23.208 15.325 1 24.89 ? N7 SAH 301 A 1 HETATM 20 C C5 SAH . . . B 2 -7.809 24.315 14.648 1 18.86 ? C5 SAH 301 A 1 HETATM 21 C C6 SAH . . . B 2 -8.274 24.882 13.462 1 24.62 ? C6 SAH 301 A 1 HETATM 22 N N6 SAH . . . B 2 -9.271 24.336 12.748 1 23.32 ? N6 SAH 301 A 1 HETATM 23 N N1 SAH . . . B 2 -7.709 26.017 12.997 1 19.76 ? N1 SAH 301 A 1 HETATM 24 C C2 SAH . . . B 2 -6.72 26.514 13.745 1 19.47 ? C2 SAH 301 A 1 HETATM 25 N N3 SAH . . . B 2 -6.231 26.046 14.885 1 17.53 ? N3 SAH 301 A 1 HETATM 26 C C4 SAH . . . B 2 -6.794 24.906 15.34 1 22.26 ? C4 SAH 301 A 1 # _model_server_stats.io_time_ms 63 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 13 _model_server_stats.query_time_ms 246 _model_server_stats.encode_time_ms 13 _model_server_stats.element_count 26 #