data_7MYS
#
_model_server_result.job_id            GjZ4Z6mzKVaTYCNkO8qvXw 
_model_server_result.datetime_utc      '2025-03-12 19:57:54' 
_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          7mys 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"D","auth_seq_id":301}' 
#
_entry.id    7MYS 
#
_exptl.entry_id    7MYS 
_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            7MYS 
_cell.length_a            65.96 
_cell.length_b            65.96 
_cell.length_c            132.59 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 7MYS 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        76 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 41' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    dimeric 
_pdbx_struct_assembly.oligomeric_count      2 
_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 
_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 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                     7MYS 
_atom_sites.fract_transf_matrix[1][1]    0.015161 
_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]    0.015161 
_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]    0.007542 
_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 2 SAH B 1 301 301 SAH SAH . 
E 3 HOH A 1 401 33 HOH HOH . 
E 3 HOH A 2 402 5 HOH HOH . 
E 3 HOH A 3 403 27 HOH HOH . 
E 3 HOH A 4 404 7 HOH HOH . 
E 3 HOH A 5 405 20 HOH HOH . 
E 3 HOH A 6 406 1 HOH HOH . 
E 3 HOH A 7 407 52 HOH HOH . 
E 3 HOH A 8 408 29 HOH HOH . 
E 3 HOH A 9 409 23 HOH HOH . 
E 3 HOH A 10 410 43 HOH HOH . 
E 3 HOH A 11 411 26 HOH HOH . 
E 3 HOH A 12 412 51 HOH HOH . 
E 3 HOH A 13 413 54 HOH HOH . 
E 3 HOH A 14 414 38 HOH HOH . 
E 3 HOH A 15 415 11 HOH HOH . 
E 3 HOH A 16 416 55 HOH HOH . 
E 3 HOH A 17 417 37 HOH HOH . 
E 3 HOH A 18 418 12 HOH HOH . 
E 3 HOH A 19 419 53 HOH HOH . 
E 3 HOH A 20 420 48 HOH HOH . 
E 3 HOH A 21 421 60 HOH HOH . 
E 3 HOH A 22 422 42 HOH HOH . 
E 3 HOH A 23 423 36 HOH HOH . 
E 3 HOH A 24 424 17 HOH HOH . 
E 3 HOH A 25 425 24 HOH HOH . 
E 3 HOH A 26 426 65 HOH HOH . 
E 3 HOH A 27 427 22 HOH HOH . 
E 3 HOH A 28 428 62 HOH HOH . 
E 3 HOH A 29 429 57 HOH HOH . 
F 3 HOH B 1 401 31 HOH HOH . 
F 3 HOH B 2 402 32 HOH HOH . 
F 3 HOH B 3 403 28 HOH HOH . 
F 3 HOH B 4 404 47 HOH HOH . 
F 3 HOH B 5 405 58 HOH HOH . 
F 3 HOH B 6 406 2 HOH HOH . 
F 3 HOH B 7 407 19 HOH HOH . 
F 3 HOH B 8 408 46 HOH HOH . 
F 3 HOH B 9 409 16 HOH HOH . 
F 3 HOH B 10 410 44 HOH HOH . 
F 3 HOH B 11 411 9 HOH HOH . 
F 3 HOH B 12 412 56 HOH HOH . 
F 3 HOH B 13 413 30 HOH HOH . 
F 3 HOH B 14 414 35 HOH HOH . 
F 3 HOH B 15 415 10 HOH HOH . 
F 3 HOH B 16 416 6 HOH HOH . 
F 3 HOH B 17 417 15 HOH HOH . 
F 3 HOH B 18 418 8 HOH HOH . 
F 3 HOH B 19 419 13 HOH HOH . 
F 3 HOH B 20 420 40 HOH HOH . 
F 3 HOH B 21 421 25 HOH HOH . 
F 3 HOH B 22 422 4 HOH HOH . 
F 3 HOH B 23 423 18 HOH HOH . 
F 3 HOH B 24 424 39 HOH HOH . 
F 3 HOH B 25 425 21 HOH HOH . 
F 3 HOH B 26 426 59 HOH HOH . 
F 3 HOH B 27 427 14 HOH HOH . 
F 3 HOH B 28 428 49 HOH HOH . 
F 3 HOH B 29 429 50 HOH HOH . 
F 3 HOH B 30 430 64 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 . . . D 2 35.822 23.5 5.262 1 78.75 ? N SAH 301 B 1 
HETATM 2 C CA SAH . . . D 2 35.568 22.75 4.018 1 70.31 ? CA SAH 301 B 1 
HETATM 3 C CB SAH . . . D 2 35.296 21.248 4.212 1 67.85 ? CB SAH 301 B 1 
HETATM 4 C CG SAH . . . D 2 36.54 20.4 4.415 1 66.78 ? CG SAH 301 B 1 
HETATM 5 S SD SAH . . . D 2 35.882 18.719 4.616 1 62.38 ? SD SAH 301 B 1 
HETATM 6 C C SAH . . . D 2 34.343 23.431 3.438 1 74.35 ? C SAH 301 B 1 
HETATM 7 O O SAH . . . D 2 34.178 23.646 2.251 1 74.18 ? O SAH 301 B 1 
HETATM 8 O OXT SAH . . . D 2 33.481 23.748 4.385 1 75.6 ? OXT SAH 301 B 1 
HETATM 9 C C5' SAH . . . D 2 37.274 17.651 4.157 1 64.77 ? C5' SAH 301 B 1 
HETATM 10 C C4' SAH . . . D 2 37.284 17.195 2.71 1 63.24 ? C4' SAH 301 B 1 
HETATM 11 O O4' SAH . . . D 2 36.056 16.508 2.375 1 61.53 ? O4' SAH 301 B 1 
HETATM 12 C C3' SAH . . . D 2 37.471 18.31 1.67 1 61.45 ? C3' SAH 301 B 1 
HETATM 13 O O3' SAH . . . D 2 38.387 17.92 0.657 1 65.67 ? O3' SAH 301 B 1 
HETATM 14 C C2' SAH . . . D 2 36.082 18.435 1.044 1 64.26 ? C2' SAH 301 B 1 
HETATM 15 O O2' SAH . . . D 2 36.129 18.822 -0.332 1 66.08 ? O2' SAH 301 B 1 
HETATM 16 C C1' SAH . . . D 2 35.578 16.999 1.139 1 60.01 ? C1' SAH 301 B 1 
HETATM 17 N N9 SAH . . . D 2 34.126 16.95 1.178 1 60.45 ? N9 SAH 301 B 1 
HETATM 18 C C8 SAH . . . D 2 33.339 17.248 2.257 1 57.2 ? C8 SAH 301 B 1 
HETATM 19 N N7 SAH . . . D 2 32.057 17.289 1.991 1 57.99 ? N7 SAH 301 B 1 
HETATM 20 C C5 SAH . . . D 2 31.999 16.995 0.637 1 59.39 ? C5 SAH 301 B 1 
HETATM 21 C C6 SAH . . . D 2 30.922 16.918 -0.267 1 55.37 ? C6 SAH 301 B 1 
HETATM 22 N N6 SAH . . . D 2 29.663 17.209 0.063 1 53.52 ? N6 SAH 301 B 1 
HETATM 23 N N1 SAH . . . D 2 31.204 16.61 -1.554 1 56.83 ? N1 SAH 301 B 1 
HETATM 24 C C2 SAH . . . D 2 32.48 16.415 -1.902 1 57.34 ? C2 SAH 301 B 1 
HETATM 25 N N3 SAH . . . D 2 33.577 16.478 -1.139 1 56.55 ? N3 SAH 301 B 1 
HETATM 26 C C4 SAH . . . D 2 33.263 16.772 0.124 1 57.22 ? C4 SAH 301 B 1 
#
_model_server_stats.io_time_ms              54 
_model_server_stats.parse_time_ms           13 
_model_server_stats.create_model_time_ms    3 
_model_server_stats.query_time_ms           268 
_model_server_stats.encode_time_ms          3 
_model_server_stats.element_count           26 
#