data_8A8M
#
_model_server_result.job_id            i89cdC7ypCYXNoD6B9O1Nw 
_model_server_result.datetime_utc      '2024-10-11 01:25:47' 
_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          8a8m 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"F","auth_seq_id":401}' 
#
_entry.id    8A8M 
#
_exptl.entry_id    8A8M 
_exptl.method      'ELECTRON MICROSCOPY' 
#
_entity.details                     ? 
_entity.formula_weight              425.228 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            'PHOSPHOMETHYLPHOSPHONIC ACID ADENOSYL ESTER' 
_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            8A8M 
_cell.length_a            1 
_cell.length_b            1 
_cell.length_c            1 
_cell.Z_PDB               ? 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 8A8M 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        1 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 1' 
#
_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,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    ? 
_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
? 3 C N N 
? 3 F N N 
#
loop_
_struct_conn.conn_type_id
_struct_conn.details
_struct_conn.id
_struct_conn.ptnr1_label_asym_id
_struct_conn.ptnr1_label_atom_id
_struct_conn.ptnr1_label_comp_id
_struct_conn.ptnr1_label_seq_id
_struct_conn.ptnr1_auth_asym_id
_struct_conn.ptnr1_auth_comp_id
_struct_conn.ptnr1_auth_seq_id
_struct_conn.ptnr1_symmetry
_struct_conn.ptnr2_label_asym_id
_struct_conn.ptnr2_label_atom_id
_struct_conn.ptnr2_label_comp_id
_struct_conn.ptnr2_label_seq_id
_struct_conn.ptnr2_auth_asym_id
_struct_conn.ptnr2_auth_comp_id
_struct_conn.ptnr2_auth_seq_id
_struct_conn.ptnr2_symmetry
_struct_conn.pdbx_ptnr1_PDB_ins_code
_struct_conn.pdbx_ptnr1_label_alt_id
_struct_conn.pdbx_ptnr1_standard_comp_id
_struct_conn.pdbx_ptnr2_PDB_ins_code
_struct_conn.pdbx_ptnr2_label_alt_id
_struct_conn.pdbx_ptnr3_PDB_ins_code
_struct_conn.pdbx_ptnr3_label_alt_id
_struct_conn.pdbx_ptnr3_label_asym_id
_struct_conn.pdbx_ptnr3_label_atom_id
_struct_conn.pdbx_ptnr3_label_comp_id
_struct_conn.pdbx_ptnr3_label_seq_id
_struct_conn.pdbx_PDB_id
_struct_conn.pdbx_dist_value
_struct_conn.pdbx_value_order
metalc ? metalc1 A OD2 ASP 189 A ASP 168 1_555 E MG MG . A MG 902 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.782 ? 
metalc ? metalc2 C O1B AP2 . A AP2 900 1_555 E MG MG . A MG 902 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.647 ? 
metalc ? metalc3 C O3B AP2 . A AP2 900 1_555 E MG MG . A MG 902 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.75 ? 
metalc ? metalc4 B OD1 ASP 201 B ASP 197 1_555 G MG MG . B MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.907 ? 
metalc ? metalc5 F O2A AP2 . B AP2 401 1_555 H MG MG . B MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.687 ? 
#
_chem_comp.formula           'C11 H17 N5 O9 P2' 
_chem_comp.formula_weight    425.228 
_chem_comp.id                AP2 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              'PHOSPHOMETHYLPHOSPHONIC ACID ADENOSYL ESTER' 
_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
PB O1B AP2 doub 13 n n 
PB O2B AP2 sing 14 n n 
PB O3B AP2 sing 15 n n 
PB C3A AP2 sing 16 n n 
O2B HOB2 AP2 sing 17 n n 
O3B HOB3 AP2 sing 18 n n 
C3A PA AP2 sing 19 n n 
C3A H3A1 AP2 sing 20 n n 
C3A H3A2 AP2 sing 21 n n 
PA O1A AP2 doub 22 n n 
PA O2A AP2 sing 23 n n 
PA O5' AP2 sing 24 n n 
O2A HOA2 AP2 sing 25 n n 
O5' C5' AP2 sing 26 n n 
C5' C4' AP2 sing 27 n n 
C5' "H5'1" AP2 sing 28 n n 
C5' "H5'2" AP2 sing 29 n n 
C4' O4' AP2 sing 30 n n 
C4' C3' AP2 sing 31 n n 
C4' H4' AP2 sing 32 n n 
O4' C1' AP2 sing 33 n n 
C3' O3' AP2 sing 34 n n 
C3' C2' AP2 sing 35 n n 
C3' H3' AP2 sing 36 n n 
O3' HO3' AP2 sing 37 n n 
C2' O2' AP2 sing 38 n n 
C2' C1' AP2 sing 39 n n 
C2' H2' AP2 sing 40 n n 
O2' HO2' AP2 sing 41 n n 
C1' N9 AP2 sing 42 n n 
C1' H1' AP2 sing 43 n n 
N9 C8 AP2 sing 44 n y 
N9 C4 AP2 sing 45 n y 
C8 N7 AP2 doub 46 n y 
C8 H8 AP2 sing 47 n n 
N7 C5 AP2 sing 48 n y 
C5 C6 AP2 sing 49 n y 
C5 C4 AP2 doub 50 n y 
C6 N6 AP2 sing 51 n n 
C6 N1 AP2 doub 52 n y 
N6 HN61 AP2 sing 53 n n 
N6 HN62 AP2 sing 54 n n 
N1 C2 AP2 sing 55 n y 
C2 N3 AP2 doub 56 n y 
C2 H2 AP2 sing 57 n n 
N3 C4 AP2 sing 58 n y 
#
_atom_sites.entry_id                     8A8M 
_atom_sites.fract_transf_matrix[1][1]    1 
_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]    1 
_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]    1 
_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 3 AP2 A 1 900 900 AP2 AP2 . 
D 4 MG A 1 901 901 MG MG . 
E 4 MG A 1 902 902 MG MG . 
F 3 AP2 B 1 401 903 AP2 AP2 . 
G 4 MG B 1 402 904 MG MG . 
H 4 MG B 1 403 905 MG MG . 
#
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 PB AP2 . . . F 3 129.537 132.481 135.569 1 0 ? PB AP2 401 B 1 
HETATM 2 O O1B AP2 . . . F 3 128.55 131.556 134.847 1 0 ? O1B AP2 401 B 1 
HETATM 3 O O2B AP2 . . . F 3 130.855 131.768 135.915 1 0 ? O2B AP2 401 B 1 
HETATM 4 O O3B AP2 . . . F 3 129.746 133.835 134.886 1 0 ? O3B AP2 401 B 1 
HETATM 5 C C3A AP2 . . . F 3 128.775 132.823 137.243 1 0 ? C3A AP2 401 B 1 
HETATM 6 P PA AP2 . . . F 3 127.774 134.315 137.435 1 0 ? PA AP2 401 B 1 
HETATM 7 O O1A AP2 . . . F 3 128.226 135.441 136.547 1 0 ? O1A AP2 401 B 1 
HETATM 8 O O2A AP2 . . . F 3 126.296 134.004 137.534 1 0 ? O2A AP2 401 B 1 
HETATM 9 O O5' AP2 . . . F 3 128.256 134.83 138.966 1 0 ? O5' AP2 401 B 1 
HETATM 10 C C5' AP2 . . . F 3 129.446 134.415 139.566 1 0 ? C5' AP2 401 B 1 
HETATM 11 C C4' AP2 . . . F 3 130.303 135.603 139.953 1 0 ? C4' AP2 401 B 1 
HETATM 12 O O4' AP2 . . . F 3 129.496 136.659 140.472 1 0 ? O4' AP2 401 B 1 
HETATM 13 C C3' AP2 . . . F 3 131.291 135.268 141.064 1 0 ? C3' AP2 401 B 1 
HETATM 14 O O3' AP2 . . . F 3 132.583 135.186 140.514 1 0 ? O3' AP2 401 B 1 
HETATM 15 C C2' AP2 . . . F 3 131.192 136.461 142.027 1 0 ? C2' AP2 401 B 1 
HETATM 16 O O2' AP2 . . . F 3 132.415 137.06 142.331 1 0 ? O2' AP2 401 B 1 
HETATM 17 C C1' AP2 . . . F 3 130.312 137.451 141.267 1 0 ? C1' AP2 401 B 1 
HETATM 18 N N9 AP2 . . . F 3 129.491 138.329 142.068 1 0 ? N9 AP2 401 B 1 
HETATM 19 C C8 AP2 . . . F 3 128.127 138.464 142.015 1 0 ? C8 AP2 401 B 1 
HETATM 20 N N7 AP2 . . . F 3 127.673 139.348 142.855 1 0 ? N7 AP2 401 B 1 
HETATM 21 C C5 AP2 . . . F 3 128.789 139.823 143.492 1 0 ? C5 AP2 401 B 1 
HETATM 22 C C6 AP2 . . . F 3 128.976 140.783 144.497 1 0 ? C6 AP2 401 B 1 
HETATM 23 N N6 AP2 . . . F 3 127.962 141.463 145.042 1 0 ? N6 AP2 401 B 1 
HETATM 24 N N1 AP2 . . . F 3 130.222 141.025 144.913 1 0 ? N1 AP2 401 B 1 
HETATM 25 C C2 AP2 . . . F 3 131.229 140.353 144.362 1 0 ? C2 AP2 401 B 1 
HETATM 26 N N3 AP2 . . . F 3 131.181 139.434 143.417 1 0 ? N3 AP2 401 B 1 
HETATM 27 C C4 AP2 . . . F 3 129.933 139.204 143.014 1 0 ? C4 AP2 401 B 1 
#
_model_server_stats.io_time_ms              8 
_model_server_stats.parse_time_ms           8 
_model_server_stats.create_model_time_ms    6 
_model_server_stats.query_time_ms           302 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           27 
#