data_8KDZ
#
_model_server_result.job_id            WNgjabxRg5eX04iCO_C87Q 
_model_server_result.datetime_utc      '2025-02-23 19:13:28' 
_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          8kdz 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"C","auth_seq_id":301}' 
#
_entry.id    8KDZ 
#
_exptl.entry_id    8KDZ 
_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            8KDZ 
_cell.length_a            51.648 
_cell.length_b            60.722 
_cell.length_c            184.36 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 8KDZ 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        18 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 2 21 21' 
#
_pdbx_struct_assembly.method_details        ? 
_pdbx_struct_assembly.oligomeric_details    dimeric 
_pdbx_struct_assembly.oligomeric_count      2 
_pdbx_struct_assembly.details               author_defined_assembly 
_pdbx_struct_assembly.id                    1 
#
_pdbx_struct_assembly_gen.asym_id_list       A,B,C,D,E,F,G,H 
_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 F 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     . 
_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 315 n n 
N HN1 SAH sing 316 n n 
N HN2 SAH sing 317 n n 
CA CB SAH sing 318 n n 
CA C SAH sing 319 n n 
CA HA SAH sing 320 n n 
CB CG SAH sing 321 n n 
CB HB1 SAH sing 322 n n 
CB HB2 SAH sing 323 n n 
CG SD SAH sing 324 n n 
CG HG1 SAH sing 325 n n 
CG HG2 SAH sing 326 n n 
SD C5' SAH sing 327 n n 
C O SAH doub 328 n n 
C OXT SAH sing 329 n n 
OXT HXT SAH sing 330 n n 
C5' C4' SAH sing 331 n n 
C5' "H5'1" SAH sing 332 n n 
C5' "H5'2" SAH sing 333 n n 
C4' O4' SAH sing 334 n n 
C4' C3' SAH sing 335 n n 
C4' H4' SAH sing 336 n n 
O4' C1' SAH sing 337 n n 
C3' O3' SAH sing 338 n n 
C3' C2' SAH sing 339 n n 
C3' H3' SAH sing 340 n n 
O3' HO3' SAH sing 341 n n 
C2' O2' SAH sing 342 n n 
C2' C1' SAH sing 343 n n 
C2' H2' SAH sing 344 n n 
O2' HO2' SAH sing 345 n n 
C1' N9 SAH sing 346 n n 
C1' H1' SAH sing 347 n n 
N9 C8 SAH sing 348 n y 
N9 C4 SAH sing 349 n y 
C8 N7 SAH doub 350 n y 
C8 H8 SAH sing 351 n n 
N7 C5 SAH sing 352 n y 
C5 C6 SAH sing 353 n y 
C5 C4 SAH doub 354 n y 
C6 N6 SAH sing 355 n n 
C6 N1 SAH doub 356 n y 
N6 HN61 SAH sing 357 n n 
N6 HN62 SAH sing 358 n n 
N1 C2 SAH sing 359 n y 
C2 N3 SAH doub 360 n y 
C2 H2 SAH sing 361 n n 
N3 C4 SAH sing 362 n y 
#
_atom_sites.entry_id                     8KDZ 
_atom_sites.fract_transf_matrix[1][1]    0.019362 
_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]    0.016468 
_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]    0.005424 
_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 1 301 301 SAH SAH . 
D 3 QAP A 1 302 302 QAP LIG . 
E 3 QAP A 1 303 303 QAP LIG . 
F 2 SAH B 1 301 301 SAH SAH . 
G 4 HOH A 1 401 42 HOH HOH . 
G 4 HOH A 2 402 33 HOH HOH . 
G 4 HOH A 3 403 73 HOH HOH . 
G 4 HOH A 4 404 137 HOH HOH . 
G 4 HOH A 5 405 94 HOH HOH . 
G 4 HOH A 6 406 106 HOH HOH . 
G 4 HOH A 7 407 47 HOH HOH . 
G 4 HOH A 8 408 59 HOH HOH . 
G 4 HOH A 9 409 16 HOH HOH . 
G 4 HOH A 10 410 34 HOH HOH . 
G 4 HOH A 11 411 19 HOH HOH . 
G 4 HOH A 12 412 15 HOH HOH . 
G 4 HOH A 13 413 110 HOH HOH . 
G 4 HOH A 14 414 51 HOH HOH . 
G 4 HOH A 15 415 22 HOH HOH . 
G 4 HOH A 16 416 45 HOH HOH . 
G 4 HOH A 17 417 102 HOH HOH . 
G 4 HOH A 18 418 72 HOH HOH . 
G 4 HOH A 19 419 11 HOH HOH . 
G 4 HOH A 20 420 124 HOH HOH . 
G 4 HOH A 21 421 7 HOH HOH . 
G 4 HOH A 22 422 69 HOH HOH . 
G 4 HOH A 23 423 63 HOH HOH . 
G 4 HOH A 24 424 111 HOH HOH . 
G 4 HOH A 25 425 105 HOH HOH . 
G 4 HOH A 26 426 12 HOH HOH . 
G 4 HOH A 27 427 119 HOH HOH . 
G 4 HOH A 28 428 24 HOH HOH . 
G 4 HOH A 29 429 127 HOH HOH . 
G 4 HOH A 30 430 115 HOH HOH . 
G 4 HOH A 31 431 36 HOH HOH . 
G 4 HOH A 32 432 46 HOH HOH . 
G 4 HOH A 33 433 136 HOH HOH . 
G 4 HOH A 34 434 13 HOH HOH . 
G 4 HOH A 35 435 113 HOH HOH . 
G 4 HOH A 36 436 85 HOH HOH . 
G 4 HOH A 37 437 56 HOH HOH . 
G 4 HOH A 38 438 50 HOH HOH . 
G 4 HOH A 39 439 25 HOH HOH . 
G 4 HOH A 40 440 21 HOH HOH . 
G 4 HOH A 41 441 17 HOH HOH . 
G 4 HOH A 42 442 75 HOH HOH . 
G 4 HOH A 43 443 20 HOH HOH . 
G 4 HOH A 44 444 14 HOH HOH . 
G 4 HOH A 45 445 88 HOH HOH . 
G 4 HOH A 46 446 31 HOH HOH . 
G 4 HOH A 47 447 8 HOH HOH . 
G 4 HOH A 48 448 10 HOH HOH . 
G 4 HOH A 49 449 92 HOH HOH . 
G 4 HOH A 50 450 91 HOH HOH . 
G 4 HOH A 51 451 132 HOH HOH . 
G 4 HOH A 52 452 112 HOH HOH . 
G 4 HOH A 53 453 29 HOH HOH . 
G 4 HOH A 54 454 128 HOH HOH . 
G 4 HOH A 55 455 52 HOH HOH . 
G 4 HOH A 56 456 4 HOH HOH . 
G 4 HOH A 57 457 5 HOH HOH . 
G 4 HOH A 58 458 130 HOH HOH . 
G 4 HOH A 59 459 139 HOH HOH . 
G 4 HOH A 60 460 68 HOH HOH . 
G 4 HOH A 61 461 140 HOH HOH . 
G 4 HOH A 62 462 70 HOH HOH . 
G 4 HOH A 63 463 40 HOH HOH . 
G 4 HOH A 64 464 114 HOH HOH . 
G 4 HOH A 65 465 103 HOH HOH . 
G 4 HOH A 66 466 133 HOH HOH . 
G 4 HOH A 67 467 79 HOH HOH . 
G 4 HOH A 68 468 81 HOH HOH . 
H 4 HOH B 1 401 131 HOH HOH . 
H 4 HOH B 2 402 66 HOH HOH . 
H 4 HOH B 3 403 104 HOH HOH . 
H 4 HOH B 4 404 30 HOH HOH . 
H 4 HOH B 5 405 37 HOH HOH . 
H 4 HOH B 6 406 38 HOH HOH . 
H 4 HOH B 7 407 74 HOH HOH . 
H 4 HOH B 8 408 117 HOH HOH . 
H 4 HOH B 9 409 84 HOH HOH . 
H 4 HOH B 10 410 39 HOH HOH . 
H 4 HOH B 11 411 96 HOH HOH . 
H 4 HOH B 12 412 76 HOH HOH . 
H 4 HOH B 13 413 107 HOH HOH . 
H 4 HOH B 14 414 35 HOH HOH . 
H 4 HOH B 15 415 49 HOH HOH . 
H 4 HOH B 16 416 108 HOH HOH . 
H 4 HOH B 17 417 116 HOH HOH . 
H 4 HOH B 18 418 58 HOH HOH . 
H 4 HOH B 19 419 86 HOH HOH . 
H 4 HOH B 20 420 64 HOH HOH . 
H 4 HOH B 21 421 98 HOH HOH . 
H 4 HOH B 22 422 27 HOH HOH . 
H 4 HOH B 23 423 77 HOH HOH . 
H 4 HOH B 24 424 89 HOH HOH . 
H 4 HOH B 25 425 54 HOH HOH . 
H 4 HOH B 26 426 26 HOH HOH . 
H 4 HOH B 27 427 55 HOH HOH . 
H 4 HOH B 28 428 134 HOH HOH . 
H 4 HOH B 29 429 71 HOH HOH . 
H 4 HOH B 30 430 65 HOH HOH . 
H 4 HOH B 31 431 123 HOH HOH . 
H 4 HOH B 32 432 126 HOH HOH . 
H 4 HOH B 33 433 28 HOH HOH . 
H 4 HOH B 34 434 48 HOH HOH . 
H 4 HOH B 35 435 138 HOH HOH . 
H 4 HOH B 36 436 129 HOH HOH . 
H 4 HOH B 37 437 90 HOH HOH . 
H 4 HOH B 38 438 67 HOH HOH . 
H 4 HOH B 39 439 121 HOH HOH . 
H 4 HOH B 40 440 60 HOH HOH . 
H 4 HOH B 41 441 125 HOH HOH . 
H 4 HOH B 42 442 41 HOH HOH . 
H 4 HOH B 43 443 135 HOH HOH . 
H 4 HOH B 44 444 23 HOH HOH . 
H 4 HOH B 45 445 61 HOH HOH . 
H 4 HOH B 46 446 122 HOH HOH . 
H 4 HOH B 47 447 32 HOH HOH . 
H 4 HOH B 48 448 87 HOH HOH . 
H 4 HOH B 49 449 120 HOH HOH . 
H 4 HOH B 50 450 78 HOH HOH . 
H 4 HOH B 51 451 118 HOH HOH . 
H 4 HOH B 52 452 99 HOH HOH . 
H 4 HOH B 53 453 53 HOH HOH . 
H 4 HOH B 54 454 18 HOH HOH . 
H 4 HOH B 55 455 80 HOH HOH . 
H 4 HOH B 56 456 82 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 7.12 22.5 43.053 1 21.62 0 N SAH 301 A 1 
HETATM 2 C CA SAH . . . C 2 7.529 23.485 44.09 1 21.21 0 CA SAH 301 A 1 
HETATM 3 C CB SAH . . . C 2 6.322 24.27 44.606 1 22.55 0 CB SAH 301 A 1 
HETATM 4 C CG SAH . . . C 2 6.332 25.68 44.069 1 26.57 0 CG SAH 301 A 1 
HETATM 5 S SD SAH . . . C 2 4.829 26.645 44.328 1 30.91 0 SD SAH 301 A 1 
HETATM 6 C C SAH . . . C 2 8.28 22.8 45.243 1 20.24 0 C SAH 301 A 1 
HETATM 7 O O SAH . . . C 2 8.53 23.421 46.28 1 18.78 0 O SAH 301 A 1 
HETATM 8 O OXT SAH . . . C 2 8.669 21.627 45.179 1 19.38 0 OXT SAH 301 A 1 
HETATM 9 C C5' SAH . . . C 2 4.679 27.534 42.756 1 29.77 0 C5' SAH 301 A 1 
HETATM 10 C C4' SAH . . . C 2 5.682 28.651 42.605 1 27.34 0 C4' SAH 301 A 1 
HETATM 11 O O4' SAH . . . C 2 5.469 29.36 41.365 1 26.22 0 O4' SAH 301 A 1 
HETATM 12 C C3' SAH . . . C 2 5.661 29.724 43.695 1 27.04 0 C3' SAH 301 A 1 
HETATM 13 O O3' SAH . . . C 2 6.891 29.675 44.411 1 31.51 0 O3' SAH 301 A 1 
HETATM 14 C C2' SAH . . . C 2 5.469 31.032 42.914 1 24.25 0 C2' SAH 301 A 1 
HETATM 15 O O2' SAH . . . C 2 6.193 32.132 43.404 1 22.73 0 O2' SAH 301 A 1 
HETATM 16 C C1' SAH . . . C 2 6.002 30.647 41.544 1 24.3 0 C1' SAH 301 A 1 
HETATM 17 N N9 SAH . . . C 2 5.541 31.497 40.453 1 22.47 0 N9 SAH 301 A 1 
HETATM 18 C C8 SAH . . . C 2 4.282 32.016 40.332 1 22.35 0 C8 SAH 301 A 1 
HETATM 19 N N7 SAH . . . C 2 4.116 32.726 39.251 1 22.33 0 N7 SAH 301 A 1 
HETATM 20 C C5 SAH . . . C 2 5.332 32.647 38.591 1 21.61 0 C5 SAH 301 A 1 
HETATM 21 C C6 SAH . . . C 2 5.777 33.177 37.359 1 20.76 0 C6 SAH 301 A 1 
HETATM 22 N N6 SAH . . . C 2 5.015 33.915 36.555 1 19.6 0 N6 SAH 301 A 1 
HETATM 23 N N1 SAH . . . C 2 7.039 32.87 36.962 1 20.68 0 N1 SAH 301 A 1 
HETATM 24 C C2 SAH . . . C 2 7.798 32.13 37.783 1 21.03 0 C2 SAH 301 A 1 
HETATM 25 N N3 SAH . . . C 2 7.493 31.604 38.971 1 22.73 0 N3 SAH 301 A 1 
HETATM 26 C C4 SAH . . . C 2 6.224 31.889 39.324 1 22.16 0 C4 SAH 301 A 1 
#
_model_server_stats.io_time_ms              11 
_model_server_stats.parse_time_ms           11 
_model_server_stats.create_model_time_ms    6 
_model_server_stats.query_time_ms           299 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           26 
#