data_3ROD
#
_model_server_result.job_id            ifasWtVTD9Sx2TOjNj-fZQ 
_model_server_result.datetime_utc      '2024-11-17 02:36:13' 
_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          3rod 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"I","auth_seq_id":301}' 
#
_entry.id    3ROD 
#
_exptl.entry_id    3ROD 
_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    4 
_entity.pdbx_parent_entity_id       . 
_entity.pdbx_mutation               ? 
_entity.pdbx_fragment               ? 
_entity.pdbx_ec                     ? 
#
_cell.angle_alpha         106.57 
_cell.angle_beta          103.98 
_cell.angle_gamma         104.14 
_cell.entry_id            3ROD 
_cell.length_a            60.663 
_cell.length_b            61.793 
_cell.length_c            74.342 
_cell.Z_PDB               4 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 3ROD 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        1 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 1' 
#
loop_
_pdbx_struct_assembly.method_details
_pdbx_struct_assembly.oligomeric_details
_pdbx_struct_assembly.oligomeric_count
_pdbx_struct_assembly.details
_pdbx_struct_assembly.id
PISA monomeric 1 author_and_software_defined_assembly 1 
PISA monomeric 1 author_and_software_defined_assembly 2 
PISA monomeric 1 author_and_software_defined_assembly 3 
PISA monomeric 1 author_and_software_defined_assembly 4 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,E,F,M 1 1 
B,G,H,N 2 1 
C,I,J,O 3 1 
D,K,L,P 4 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 E N N 
? 2 G N N 
? 2 I N N 
? 2 K 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 292 n n 
N HN1 SAH sing 293 n n 
N HN2 SAH sing 294 n n 
CA CB SAH sing 295 n n 
CA C SAH sing 296 n n 
CA HA SAH sing 297 n n 
CB CG SAH sing 298 n n 
CB HB1 SAH sing 299 n n 
CB HB2 SAH sing 300 n n 
CG SD SAH sing 301 n n 
CG HG1 SAH sing 302 n n 
CG HG2 SAH sing 303 n n 
SD C5' SAH sing 304 n n 
C O SAH doub 305 n n 
C OXT SAH sing 306 n n 
OXT HXT SAH sing 307 n n 
C5' C4' SAH sing 308 n n 
C5' "H5'1" SAH sing 309 n n 
C5' "H5'2" SAH sing 310 n n 
C4' O4' SAH sing 311 n n 
C4' C3' SAH sing 312 n n 
C4' H4' SAH sing 313 n n 
O4' C1' SAH sing 314 n n 
C3' O3' SAH sing 315 n n 
C3' C2' SAH sing 316 n n 
C3' H3' SAH sing 317 n n 
O3' HO3' SAH sing 318 n n 
C2' O2' SAH sing 319 n n 
C2' C1' SAH sing 320 n n 
C2' H2' SAH sing 321 n n 
O2' HO2' SAH sing 322 n n 
C1' N9 SAH sing 323 n n 
C1' H1' SAH sing 324 n n 
N9 C8 SAH sing 325 n y 
N9 C4 SAH sing 326 n y 
C8 N7 SAH doub 327 n y 
C8 H8 SAH sing 328 n n 
N7 C5 SAH sing 329 n y 
C5 C6 SAH sing 330 n y 
C5 C4 SAH doub 331 n y 
C6 N6 SAH sing 332 n n 
C6 N1 SAH doub 333 n y 
N6 HN61 SAH sing 334 n n 
N6 HN62 SAH sing 335 n n 
N1 C2 SAH sing 336 n y 
C2 N3 SAH doub 337 n y 
C2 H2 SAH sing 338 n n 
N3 C4 SAH sing 339 n y 
#
_atom_sites.entry_id                     3ROD 
_atom_sites.fract_transf_matrix[1][1]    0.016485 
_atom_sites.fract_transf_matrix[1][2]    0.004153 
_atom_sites.fract_transf_matrix[1][3]    0.006042 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.016689 
_atom_sites.fract_transf_matrix[2][3]    0.006559 
_atom_sites.fract_transf_matrix[3][1]    0 
_atom_sites.fract_transf_matrix[3][2]    0 
_atom_sites.fract_transf_matrix[3][3]    0.014894 
_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
E 2 SAH A 1 301 301 SAH SAH . 
F 3 NCA A 1 302 302 NCA NCA . 
G 2 SAH B 1 301 301 SAH SAH . 
H 3 NCA B 1 302 302 NCA NCA . 
I 2 SAH C 1 301 301 SAH SAH . 
J 3 NCA C 1 302 302 NCA NCA . 
K 2 SAH D 1 301 301 SAH SAH . 
L 3 NCA D 1 302 302 NCA NCA . 
M 4 HOH A 1 402 402 HOH HOH . 
M 4 HOH A 2 403 403 HOH HOH . 
M 4 HOH A 3 407 407 HOH HOH . 
M 4 HOH A 4 420 420 HOH HOH . 
M 4 HOH A 5 424 424 HOH HOH . 
M 4 HOH A 6 427 427 HOH HOH . 
M 4 HOH A 7 428 428 HOH HOH . 
M 4 HOH A 8 429 429 HOH HOH . 
M 4 HOH A 9 430 430 HOH HOH . 
M 4 HOH A 10 431 431 HOH HOH . 
M 4 HOH A 11 432 432 HOH HOH . 
M 4 HOH A 12 434 434 HOH HOH . 
M 4 HOH A 13 435 435 HOH HOH . 
M 4 HOH A 14 438 438 HOH HOH . 
M 4 HOH A 15 439 439 HOH HOH . 
M 4 HOH A 16 441 441 HOH HOH . 
M 4 HOH A 17 442 442 HOH HOH . 
M 4 HOH A 18 443 443 HOH HOH . 
N 4 HOH B 1 400 400 HOH HOH . 
N 4 HOH B 2 405 405 HOH HOH . 
N 4 HOH B 3 408 408 HOH HOH . 
N 4 HOH B 4 410 410 HOH HOH . 
N 4 HOH B 5 411 411 HOH HOH . 
N 4 HOH B 6 415 415 HOH HOH . 
N 4 HOH B 7 417 417 HOH HOH . 
N 4 HOH B 8 425 425 HOH HOH . 
N 4 HOH B 9 436 436 HOH HOH . 
N 4 HOH B 10 437 437 HOH HOH . 
N 4 HOH B 11 440 440 HOH HOH . 
N 4 HOH B 12 448 448 HOH HOH . 
N 4 HOH B 13 449 449 HOH HOH . 
O 4 HOH C 1 401 401 HOH HOH . 
O 4 HOH C 2 404 404 HOH HOH . 
O 4 HOH C 3 406 406 HOH HOH . 
O 4 HOH C 4 409 409 HOH HOH . 
O 4 HOH C 5 412 412 HOH HOH . 
O 4 HOH C 6 413 413 HOH HOH . 
O 4 HOH C 7 416 416 HOH HOH . 
O 4 HOH C 8 418 418 HOH HOH . 
O 4 HOH C 9 419 419 HOH HOH . 
O 4 HOH C 10 421 421 HOH HOH . 
O 4 HOH C 11 423 423 HOH HOH . 
O 4 HOH C 12 426 426 HOH HOH . 
O 4 HOH C 13 433 433 HOH HOH . 
O 4 HOH C 14 444 444 HOH HOH . 
O 4 HOH C 15 445 445 HOH HOH . 
O 4 HOH C 16 446 446 HOH HOH . 
P 4 HOH D 1 414 414 HOH HOH . 
P 4 HOH D 2 422 422 HOH HOH . 
P 4 HOH D 3 447 447 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 . . . I 2 9.301 -27.432 -31.142 1 38.97 ? N SAH 301 C 1 
HETATM 2 C CA SAH . . . I 2 9.098 -26.383 -30.149 1 39.5 ? CA SAH 301 C 1 
HETATM 3 C CB SAH . . . I 2 9.35 -25.031 -30.828 1 40.06 ? CB SAH 301 C 1 
HETATM 4 C CG SAH . . . I 2 8.929 -25.096 -32.296 1 40.87 ? CG SAH 301 C 1 
HETATM 5 S SD SAH . . . I 2 8.739 -23.472 -33.142 1 42.39 ? SD SAH 301 C 1 
HETATM 6 C C SAH . . . I 2 7.644 -26.442 -29.646 1 39.13 ? C SAH 301 C 1 
HETATM 7 O O SAH . . . I 2 6.964 -27.482 -29.575 1 37.08 ? O SAH 301 C 1 
HETATM 8 O OXT SAH . . . I 2 7.123 -25.383 -29.286 1 39.5 ? OXT SAH 301 C 1 
HETATM 9 C C5' SAH . . . I 2 9.972 -23.605 -34.512 1 42.24 ? C5' SAH 301 C 1 
HETATM 10 C C4' SAH . . . I 2 11.478 -23.804 -34.149 1 41.92 ? C4' SAH 301 C 1 
HETATM 11 O O4' SAH . . . I 2 12.147 -24.212 -35.365 1 42.14 ? O4' SAH 301 C 1 
HETATM 12 C C3' SAH . . . I 2 12.237 -22.53 -33.746 1 41.94 ? C3' SAH 301 C 1 
HETATM 13 O O3' SAH . . . I 2 12.701 -22.713 -32.401 1 42.21 ? O3' SAH 301 C 1 
HETATM 14 C C2' SAH . . . I 2 13.456 -22.452 -34.696 1 42.1 ? C2' SAH 301 C 1 
HETATM 15 O O2' SAH . . . I 2 14.658 -22.06 -33.958 1 41.42 ? O2' SAH 301 C 1 
HETATM 16 C C1' SAH . . . I 2 13.551 -23.891 -35.183 1 42.43 ? C1' SAH 301 C 1 
HETATM 17 N N9 SAH . . . I 2 14.089 -24.088 -36.542 1 43.04 ? N9 SAH 301 C 1 
HETATM 18 C C8 SAH . . . I 2 13.71 -23.332 -37.571 1 44.78 ? C8 SAH 301 C 1 
HETATM 19 N N7 SAH . . . I 2 14.323 -23.727 -38.705 1 45.11 ? N7 SAH 301 C 1 
HETATM 20 C C5 SAH . . . I 2 15.088 -24.769 -38.411 1 43.95 ? C5 SAH 301 C 1 
HETATM 21 C C6 SAH . . . I 2 15.929 -25.556 -39.191 1 43.22 ? C6 SAH 301 C 1 
HETATM 22 N N6 SAH . . . I 2 16.024 -25.283 -40.497 1 43.3 ? N6 SAH 301 C 1 
HETATM 23 N N1 SAH . . . I 2 16.617 -26.566 -38.607 1 42.14 ? N1 SAH 301 C 1 
HETATM 24 C C2 SAH . . . I 2 16.466 -26.804 -37.318 1 41.55 ? C2 SAH 301 C 1 
HETATM 25 N N3 SAH . . . I 2 15.656 -26.061 -36.54 1 42.83 ? N3 SAH 301 C 1 
HETATM 26 C C4 SAH . . . I 2 14.94 -25.021 -37.038 1 43.56 ? C4 SAH 301 C 1 
#
_model_server_stats.io_time_ms              9 
_model_server_stats.parse_time_ms           11 
_model_server_stats.create_model_time_ms    40 
_model_server_stats.query_time_ms           342 
_model_server_stats.encode_time_ms          5 
_model_server_stats.element_count           26 
#