data_8ZII # _model_server_result.job_id ktgYRirh-rLlIriV6fri0g _model_server_result.datetime_utc '2025-06-22 03:10:07' _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 8zii # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":401}' # _entry.id 8ZII # _exptl.entry_id 8ZII _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 90 _cell.entry_id 8ZII _cell.length_a 39.422 _cell.length_b 57.53 _cell.length_c 129.465 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8ZII _symmetry.cell_setting ? _symmetry.Int_Tables_number 18 _symmetry.space_group_name_Hall 'P 2 2ab (z,x,y)' _symmetry.space_group_name_H-M 'P 2 21 21' # _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 _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 . _chem_comp.name S-ADENOSYL-L-HOMOCYSTEINE _chem_comp.type non-polymer _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 8ZII _atom_sites.fract_transf_matrix[1][1] 0.025367 _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] 0.017382 _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] 0.007724 _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 1 401 401 SAH SAH . C 3 XP6 A 1 402 402 XP6 NOR . D 4 HOH A 1 501 79 HOH HOH . D 4 HOH A 2 502 113 HOH HOH . D 4 HOH A 3 503 76 HOH HOH . D 4 HOH A 4 504 102 HOH HOH . D 4 HOH A 5 505 108 HOH HOH . D 4 HOH A 6 506 58 HOH HOH . D 4 HOH A 7 507 32 HOH HOH . D 4 HOH A 8 508 57 HOH HOH . D 4 HOH A 9 509 18 HOH HOH . D 4 HOH A 10 510 94 HOH HOH . D 4 HOH A 11 511 17 HOH HOH . D 4 HOH A 12 512 8 HOH HOH . D 4 HOH A 13 513 75 HOH HOH . D 4 HOH A 14 514 100 HOH HOH . D 4 HOH A 15 515 54 HOH HOH . D 4 HOH A 16 516 22 HOH HOH . D 4 HOH A 17 517 111 HOH HOH . D 4 HOH A 18 518 90 HOH HOH . D 4 HOH A 19 519 3 HOH HOH . D 4 HOH A 20 520 9 HOH HOH . D 4 HOH A 21 521 12 HOH HOH . D 4 HOH A 22 522 15 HOH HOH . D 4 HOH A 23 523 11 HOH HOH . D 4 HOH A 24 524 44 HOH HOH . D 4 HOH A 25 525 10 HOH HOH . D 4 HOH A 26 526 30 HOH HOH . D 4 HOH A 27 527 34 HOH HOH . D 4 HOH A 28 528 27 HOH HOH . D 4 HOH A 29 529 72 HOH HOH . D 4 HOH A 30 530 101 HOH HOH . D 4 HOH A 31 531 5 HOH HOH . D 4 HOH A 32 532 6 HOH HOH . D 4 HOH A 33 533 45 HOH HOH . D 4 HOH A 34 534 105 HOH HOH . D 4 HOH A 35 535 52 HOH HOH . D 4 HOH A 36 536 4 HOH HOH . D 4 HOH A 37 537 29 HOH HOH . D 4 HOH A 38 538 2 HOH HOH . D 4 HOH A 39 539 59 HOH HOH . D 4 HOH A 40 540 65 HOH HOH . D 4 HOH A 41 541 23 HOH HOH . D 4 HOH A 42 542 56 HOH HOH . D 4 HOH A 43 543 61 HOH HOH . D 4 HOH A 44 544 38 HOH HOH . D 4 HOH A 45 545 49 HOH HOH . D 4 HOH A 46 546 47 HOH HOH . D 4 HOH A 47 547 51 HOH HOH . D 4 HOH A 48 548 37 HOH HOH . D 4 HOH A 49 549 36 HOH HOH . D 4 HOH A 50 550 33 HOH HOH . D 4 HOH A 51 551 31 HOH HOH . D 4 HOH A 52 552 46 HOH HOH . D 4 HOH A 53 553 96 HOH HOH . D 4 HOH A 54 554 69 HOH HOH . D 4 HOH A 55 555 13 HOH HOH . D 4 HOH A 56 556 74 HOH HOH . D 4 HOH A 57 557 1 HOH HOH . D 4 HOH A 58 558 14 HOH HOH . D 4 HOH A 59 559 73 HOH HOH . D 4 HOH A 60 560 78 HOH HOH . D 4 HOH A 61 561 28 HOH HOH . D 4 HOH A 62 562 89 HOH HOH . D 4 HOH A 63 563 103 HOH HOH . D 4 HOH A 64 564 42 HOH HOH . D 4 HOH A 65 565 67 HOH HOH . D 4 HOH A 66 566 70 HOH HOH . D 4 HOH A 67 567 62 HOH HOH . D 4 HOH A 68 568 7 HOH HOH . D 4 HOH A 69 569 19 HOH HOH . D 4 HOH A 70 570 39 HOH HOH . D 4 HOH A 71 571 55 HOH HOH . D 4 HOH A 72 572 86 HOH HOH . D 4 HOH A 73 573 26 HOH HOH . D 4 HOH A 74 574 24 HOH HOH . D 4 HOH A 75 575 60 HOH HOH . D 4 HOH A 76 576 92 HOH HOH . D 4 HOH A 77 577 107 HOH HOH . D 4 HOH A 78 578 80 HOH HOH . D 4 HOH A 79 579 20 HOH HOH . D 4 HOH A 80 580 25 HOH HOH . D 4 HOH A 81 581 104 HOH HOH . D 4 HOH A 82 582 81 HOH HOH . D 4 HOH A 83 583 77 HOH HOH . D 4 HOH A 84 584 41 HOH HOH . D 4 HOH A 85 585 16 HOH HOH . D 4 HOH A 86 586 21 HOH HOH . D 4 HOH A 87 587 50 HOH HOH . D 4 HOH A 88 588 87 HOH HOH . D 4 HOH A 89 589 71 HOH HOH . D 4 HOH A 90 590 48 HOH HOH . D 4 HOH A 91 591 112 HOH HOH . D 4 HOH A 92 592 35 HOH HOH . D 4 HOH A 93 593 97 HOH HOH . D 4 HOH A 94 594 82 HOH HOH . D 4 HOH A 95 595 110 HOH HOH . D 4 HOH A 96 596 84 HOH HOH . D 4 HOH A 97 597 91 HOH HOH . D 4 HOH A 98 598 64 HOH HOH . D 4 HOH A 99 599 43 HOH HOH . D 4 HOH A 100 600 85 HOH HOH . D 4 HOH A 101 601 98 HOH HOH . D 4 HOH A 102 602 63 HOH HOH . D 4 HOH A 103 603 95 HOH HOH . D 4 HOH A 104 604 83 HOH HOH . D 4 HOH A 105 605 40 HOH HOH . D 4 HOH A 106 606 109 HOH HOH . D 4 HOH A 107 607 93 HOH HOH . D 4 HOH A 108 608 53 HOH HOH . D 4 HOH A 109 609 88 HOH HOH . D 4 HOH A 110 610 66 HOH HOH . D 4 HOH A 111 611 99 HOH HOH . D 4 HOH A 112 612 68 HOH HOH . D 4 HOH A 113 613 106 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 19.22 14.322 11.665 1 19.78 ? N SAH 401 A 1 HETATM 2 C CA SAH . . . B 2 19.529 12.923 11.409 1 18.58 ? CA SAH 401 A 1 HETATM 3 C CB SAH . . . B 2 21.036 12.705 11.267 1 21.91 ? CB SAH 401 A 1 HETATM 4 C CG SAH . . . B 2 21.906 13.171 12.441 1 19.36 ? CG SAH 401 A 1 HETATM 5 S SD SAH . . . B 2 23.628 12.581 12.287 1 20.52 ? SD SAH 401 A 1 HETATM 6 C C SAH . . . B 2 18.982 12.062 12.538 1 17.99 ? C SAH 401 A 1 HETATM 7 O O SAH . . . B 2 18.586 12.591 13.572 1 16.31 ? O SAH 401 A 1 HETATM 8 O OXT SAH . . . B 2 18.936 10.833 12.464 1 18.7 ? OXT SAH 401 A 1 HETATM 9 C C5' SAH . . . B 2 24.308 14.262 12.038 1 10.45 ? C5' SAH 401 A 1 HETATM 10 C C4' SAH . . . B 2 24.202 14.706 10.574 1 15.81 ? C4' SAH 401 A 1 HETATM 11 O O4' SAH . . . B 2 24.78 15.981 10.362 1 14.47 ? O4' SAH 401 A 1 HETATM 12 C C3' SAH . . . B 2 24.875 13.793 9.549 1 19.3 ? C3' SAH 401 A 1 HETATM 13 O O3' SAH . . . B 2 23.883 13.491 8.582 1 21.6 ? O3' SAH 401 A 1 HETATM 14 C C2' SAH . . . B 2 26.028 14.623 8.972 1 22.18 ? C2' SAH 401 A 1 HETATM 15 O O2' SAH . . . B 2 26.454 14.317 7.648 1 13.8 ? O2' SAH 401 A 1 HETATM 16 C C1' SAH . . . B 2 25.436 16.009 9.105 1 19.33 ? C1' SAH 401 A 1 HETATM 17 N N9 SAH . . . B 2 26.432 17.068 9.22 1 23.52 ? N9 SAH 401 A 1 HETATM 18 C C8 SAH . . . B 2 27.725 17.002 9.677 1 23.44 ? C8 SAH 401 A 1 HETATM 19 N N7 SAH . . . B 2 28.229 18.273 9.635 1 22.68 ? N7 SAH 401 A 1 HETATM 20 C C5 SAH . . . B 2 27.271 19.117 9.16 1 18.46 ? C5 SAH 401 A 1 HETATM 21 C C6 SAH . . . B 2 27.229 20.484 8.905 1 26.06 ? C6 SAH 401 A 1 HETATM 22 N N6 SAH . . . B 2 28.298 21.248 9.136 1 28.24 ? N6 SAH 401 A 1 HETATM 23 N N1 SAH . . . B 2 26.072 21.07 8.413 1 20.24 ? N1 SAH 401 A 1 HETATM 24 C C2 SAH . . . B 2 24.975 20.283 8.179 1 19.06 ? C2 SAH 401 A 1 HETATM 25 N N3 SAH . . . B 2 25.023 18.927 8.424 1 20.3 ? N3 SAH 401 A 1 HETATM 26 C C4 SAH . . . B 2 26.143 18.364 8.913 1 20.79 ? C4 SAH 401 A 1 # _model_server_stats.io_time_ms 63 _model_server_stats.parse_time_ms 13 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 391 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 26 #