data_1ZYU
#
_model_server_result.job_id            75eQL7kjraxMKjy6SixVsQ 
_model_server_result.datetime_utc      '2024-10-20 19:18:43' 
_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          1zyu 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"B","auth_seq_id":180}' 
#
_entry.id    1ZYU 
#
_exptl.entry_id    1ZYU 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              505.208 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            'PHOSPHOMETHYLPHOSPHONIC ACID ADENYLATE ESTER' 
_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         120 
_cell.entry_id            1ZYU 
_cell.length_a            59.954 
_cell.length_b            59.954 
_cell.length_c            102.666 
_cell.Z_PDB               6 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 1ZYU 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        152 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 31 2 1' 
#
_pdbx_struct_assembly.method_details        ? 
_pdbx_struct_assembly.oligomeric_details    monomeric 
_pdbx_struct_assembly.oligomeric_count      1 
_pdbx_struct_assembly.details               author_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           'C11 H18 N5 O12 P3' 
_chem_comp.formula_weight    505.208 
_chem_comp.id                ACP 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              'PHOSPHOMETHYLPHOSPHONIC ACID ADENYLATE ESTER' 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     "ADENOSINE-5'-[BETA, GAMMA-METHYLENE]TRIPHOSPHATE" 
#
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
PG O1G ACP doub 1 n n 
PG O2G ACP sing 2 n n 
PG O3G ACP sing 3 n n 
PG C3B ACP sing 4 n n 
O2G HOG2 ACP sing 5 n n 
O3G HOG3 ACP sing 6 n n 
PB O1B ACP doub 7 n n 
PB O2B ACP sing 8 n n 
PB C3B ACP sing 9 n n 
PB O3A ACP sing 10 n n 
O2B HOB2 ACP sing 11 n n 
C3B H3B1 ACP sing 12 n n 
C3B H3B2 ACP sing 13 n n 
PA O1A ACP doub 14 n n 
PA O2A ACP sing 15 n n 
PA O3A ACP sing 16 n n 
PA O5' ACP sing 17 n n 
O2A HOA2 ACP sing 18 n n 
O5' C5' ACP sing 19 n n 
C5' C4' ACP sing 20 n n 
C5' "H5'1" ACP sing 21 n n 
C5' "H5'2" ACP sing 22 n n 
C4' O4' ACP sing 23 n n 
C4' C3' ACP sing 24 n n 
C4' H4' ACP sing 25 n n 
O4' C1' ACP sing 26 n n 
C3' O3' ACP sing 27 n n 
C3' C2' ACP sing 28 n n 
C3' H3' ACP sing 29 n n 
O3' HO3' ACP sing 30 n n 
C2' O2' ACP sing 31 n n 
C2' C1' ACP sing 32 n n 
C2' H2' ACP sing 33 n n 
O2' HO2' ACP sing 34 n n 
C1' N9 ACP sing 35 n n 
C1' H1' ACP sing 36 n n 
N9 C8 ACP sing 37 n y 
N9 C4 ACP sing 38 n y 
C8 N7 ACP doub 39 n y 
C8 H8 ACP sing 40 n n 
N7 C5 ACP sing 41 n y 
C5 C6 ACP sing 42 n y 
C5 C4 ACP doub 43 n y 
C6 N6 ACP sing 44 n n 
C6 N1 ACP doub 45 n y 
N6 HN61 ACP sing 46 n n 
N6 HN62 ACP sing 47 n n 
N1 C2 ACP sing 48 n y 
C2 N3 ACP doub 49 n y 
C2 H2 ACP sing 50 n n 
N3 C4 ACP sing 51 n y 
#
_atom_sites.entry_id                     1ZYU 
_atom_sites.fract_transf_matrix[1][1]    0.016679 
_atom_sites.fract_transf_matrix[1][2]    0.00963 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.01926 
_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]    0.00974 
_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 ACP A 1 180 180 ACP ACP . 
C 3 SKM A 1 401 401 SKM SKM . 
D 4 HOH A 1 402 1 HOH HOH . 
D 4 HOH A 2 403 2 HOH HOH . 
D 4 HOH A 3 404 3 HOH HOH . 
D 4 HOH A 4 405 4 HOH HOH . 
D 4 HOH A 5 406 5 HOH HOH . 
D 4 HOH A 6 407 6 HOH HOH . 
D 4 HOH A 7 408 7 HOH HOH . 
D 4 HOH A 8 409 8 HOH HOH . 
D 4 HOH A 9 410 9 HOH HOH . 
D 4 HOH A 10 411 10 HOH HOH . 
D 4 HOH A 11 412 11 HOH HOH . 
D 4 HOH A 12 413 12 HOH HOH . 
D 4 HOH A 13 414 13 HOH HOH . 
D 4 HOH A 14 415 14 HOH HOH . 
D 4 HOH A 15 416 15 HOH HOH . 
D 4 HOH A 16 417 16 HOH HOH . 
D 4 HOH A 17 418 17 HOH HOH . 
D 4 HOH A 18 419 18 HOH HOH . 
D 4 HOH A 19 420 19 HOH HOH . 
D 4 HOH A 20 421 20 HOH HOH . 
D 4 HOH A 21 422 21 HOH HOH . 
D 4 HOH A 22 423 22 HOH HOH . 
D 4 HOH A 23 424 23 HOH HOH . 
D 4 HOH A 24 425 24 HOH HOH . 
D 4 HOH A 25 426 25 HOH HOH . 
D 4 HOH A 26 427 26 HOH HOH . 
D 4 HOH A 27 428 27 HOH HOH . 
D 4 HOH A 28 429 28 HOH HOH . 
D 4 HOH A 29 430 29 HOH HOH . 
D 4 HOH A 30 431 30 HOH HOH . 
D 4 HOH A 31 432 31 HOH HOH . 
D 4 HOH A 32 433 32 HOH HOH . 
D 4 HOH A 33 434 33 HOH HOH . 
D 4 HOH A 34 435 34 HOH HOH . 
D 4 HOH A 35 436 35 HOH HOH . 
D 4 HOH A 36 437 36 HOH HOH . 
D 4 HOH A 37 438 37 HOH HOH . 
D 4 HOH A 38 439 38 HOH HOH . 
D 4 HOH A 39 440 39 HOH HOH . 
D 4 HOH A 40 441 40 HOH HOH . 
D 4 HOH A 41 442 41 HOH HOH . 
D 4 HOH A 42 443 42 HOH HOH . 
D 4 HOH A 43 444 43 HOH HOH . 
D 4 HOH A 44 445 44 HOH HOH . 
D 4 HOH A 45 446 45 HOH HOH . 
D 4 HOH A 46 447 46 HOH HOH . 
D 4 HOH A 47 448 47 HOH HOH . 
D 4 HOH A 48 449 48 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 P PG ACP . . . B 2 3.057 32.598 52.897 0.75 97.14 ? PG ACP 180 A 1 
HETATM 2 O O1G ACP . . . B 2 2.185 32.858 51.722 0.75 89.06 ? O1G ACP 180 A 1 
HETATM 3 O O2G ACP . . . B 2 2.458 32.915 54.2 0.75 93.46 ? O2G ACP 180 A 1 
HETATM 4 O O3G ACP . . . B 2 4.332 33.38 52.733 0.75 95.01 ? O3G ACP 180 A 1 
HETATM 5 P PB ACP . . . B 2 4.07 30.001 51.918 0.75 80.04 ? PB ACP 180 A 1 
HETATM 6 O O1B ACP . . . B 2 3.157 29.371 50.964 0.75 77.06 ? O1B ACP 180 A 1 
HETATM 7 O O2B ACP . . . B 2 5.207 30.8 51.338 0.75 83.9 ? O2B ACP 180 A 1 
HETATM 8 C C3B ACP . . . B 2 3.25 30.969 52.947 0.75 87.74 ? C3B ACP 180 A 1 
HETATM 9 P PA ACP . . . B 2 6.32 28.186 52.667 0.75 66.99 ? PA ACP 180 A 1 
HETATM 10 O O1A ACP . . . B 2 7.033 28.964 53.652 0.75 69.45 ? O1A ACP 180 A 1 
HETATM 11 O O2A ACP . . . B 2 6.84 28.081 51.402 0.75 60.94 ? O2A ACP 180 A 1 
HETATM 12 O O3A ACP . . . B 2 4.698 28.791 52.71 0.75 70.89 ? O3A ACP 180 A 1 
HETATM 13 O O5' ACP . . . B 2 6.357 26.636 53.327 0.75 65.6 ? O5' ACP 180 A 1 
HETATM 14 C C5' ACP . . . B 2 5.878 26.394 54.665 0.75 62.43 ? C5' ACP 180 A 1 
HETATM 15 C C4' ACP . . . B 2 6.526 25.114 55.153 0.75 62.48 ? C4' ACP 180 A 1 
HETATM 16 O O4' ACP . . . B 2 6.199 24.11 53.997 0.75 69.42 ? O4' ACP 180 A 1 
HETATM 17 C C3' ACP . . . B 2 8.076 25.016 55.246 0.75 61.94 ? C3' ACP 180 A 1 
HETATM 18 O O3' ACP . . . B 2 8.237 24.378 56.469 0.75 65.2 ? O3' ACP 180 A 1 
HETATM 19 C C2' ACP . . . B 2 8.53 24.207 54.023 0.75 61.51 ? C2' ACP 180 A 1 
HETATM 20 O O2' ACP . . . B 2 9.701 23.452 54.436 0.75 62.35 ? O2' ACP 180 A 1 
HETATM 21 C C1' ACP . . . B 2 7.354 23.343 53.666 0.75 62.95 ? C1' ACP 180 A 1 
HETATM 22 N N9 ACP . . . B 2 7.283 22.977 52.208 0.75 60.21 ? N9 ACP 180 A 1 
HETATM 23 C C8 ACP . . . B 2 7.263 23.885 51.158 0.75 58.16 ? C8 ACP 180 A 1 
HETATM 24 N N7 ACP . . . B 2 7.235 23.353 49.988 0.75 59.57 ? N7 ACP 180 A 1 
HETATM 25 C C5 ACP . . . B 2 7.178 22.002 50.25 0.75 60.6 ? C5 ACP 180 A 1 
HETATM 26 C C6 ACP . . . B 2 7.143 20.841 49.372 0.75 60 ? C6 ACP 180 A 1 
HETATM 27 N N6 ACP . . . B 2 7.159 20.964 48.06 0.75 64.56 ? N6 ACP 180 A 1 
HETATM 28 N N1 ACP . . . B 2 7.258 19.527 49.917 0.75 55.89 ? N1 ACP 180 A 1 
HETATM 29 C C2 ACP . . . B 2 7.434 19.368 51.28 0.75 49.66 ? C2 ACP 180 A 1 
HETATM 30 N N3 ACP . . . B 2 7.33 20.402 52.221 0.75 57.96 ? N3 ACP 180 A 1 
HETATM 31 C C4 ACP . . . B 2 7.34 21.711 51.597 0.75 59.68 ? C4 ACP 180 A 1 
#
_model_server_stats.io_time_ms              74 
_model_server_stats.parse_time_ms           8 
_model_server_stats.create_model_time_ms    2 
_model_server_stats.query_time_ms           238 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           31 
#