data_6ZY9
#
_model_server_result.job_id            uwQXo_jKMd2PNwHhakNMuw 
_model_server_result.datetime_utc      '2025-03-06 09:02:24' 
_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          6zy9 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"O","auth_seq_id":401}' 
#
_entry.id    6ZY9 
#
_exptl.entry_id    6ZY9 
_exptl.method      'ELECTRON MICROSCOPY' 
#
_entity.details                     ? 
_entity.formula_weight              506.196 
_entity.id                          5 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            'PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE 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            6ZY9 
_cell.length_a            1 
_cell.length_b            1 
_cell.length_c            1 
_cell.Z_PDB               ? 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 6ZY9 
_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    dodecameric 
_pdbx_struct_assembly.oligomeric_count      12 
_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,I,J,K,L,M,N,O,P 
_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
? 5 M N N 
? 5 O 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 I OG1 THR 48 F THR 48 1_555 N MG MG . F MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.259 ? 
metalc ? metalc2 M O2G ANP . F ANP 401 1_555 N MG MG . F MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.716 ? 
metalc ? metalc3 J OG1 THR 48 G THR 48 1_555 P MG MG . G MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.174 ? 
#
_chem_comp.formula           'C10 H17 N6 O12 P3' 
_chem_comp.formula_weight    506.196 
_chem_comp.id                ANP 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              'PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE 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
PG O1G ANP doub 13 n n 
PG O2G ANP sing 14 n n 
PG O3G ANP sing 15 n n 
PG N3B ANP sing 16 n n 
O2G HOG2 ANP sing 17 n n 
O3G HOG3 ANP sing 18 n n 
PB O1B ANP doub 19 n n 
PB O2B ANP sing 20 n n 
PB N3B ANP sing 21 n n 
PB O3A ANP sing 22 n n 
O2B HOB2 ANP sing 23 n n 
N3B HNB1 ANP sing 24 n n 
PA O1A ANP doub 25 n n 
PA O2A ANP sing 26 n n 
PA O3A ANP sing 27 n n 
PA O5' ANP sing 28 n n 
O2A HOA2 ANP sing 29 n n 
O5' C5' ANP sing 30 n n 
C5' C4' ANP sing 31 n n 
C5' "H5'1" ANP sing 32 n n 
C5' "H5'2" ANP sing 33 n n 
C4' O4' ANP sing 34 n n 
C4' C3' ANP sing 35 n n 
C4' H4' ANP sing 36 n n 
O4' C1' ANP sing 37 n n 
C3' O3' ANP sing 38 n n 
C3' C2' ANP sing 39 n n 
C3' H3' ANP sing 40 n n 
O3' HO3' ANP sing 41 n n 
C2' O2' ANP sing 42 n n 
C2' C1' ANP sing 43 n n 
C2' H2' ANP sing 44 n n 
O2' HO2' ANP sing 45 n n 
C1' N9 ANP sing 46 n n 
C1' H1' ANP sing 47 n n 
N9 C8 ANP sing 48 n y 
N9 C4 ANP sing 49 n y 
C8 N7 ANP doub 50 n y 
C8 H8 ANP sing 51 n n 
N7 C5 ANP sing 52 n y 
C5 C6 ANP sing 53 n y 
C5 C4 ANP doub 54 n y 
C6 N6 ANP sing 55 n n 
C6 N1 ANP doub 56 n y 
N6 HN61 ANP sing 57 n n 
N6 HN62 ANP sing 58 n n 
N1 C2 ANP sing 59 n y 
C2 N3 ANP doub 60 n y 
C2 H2 ANP sing 61 n n 
N3 C4 ANP sing 62 n y 
#
_atom_sites.entry_id                     6ZY9 
_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
M 5 ANP F 1 401 401 ANP ANP . 
N 6 MG F 1 402 1 MG MG . 
O 5 ANP G 1 401 401 ANP ANP . 
P 6 MG G 1 402 2 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 PG ANP . . . O 5 120.734 132.78 172.646 1 58.99 ? PG ANP 401 G 1 
HETATM 2 O O1G ANP . . . O 5 119.697 132.74 171.568 1 58.99 ? O1G ANP 401 G 1 
HETATM 3 O O2G ANP . . . O 5 122.166 132.837 171.988 1 58.99 ? O2G ANP 401 G 1 
HETATM 4 O O3G ANP . . . O 5 120.62 131.478 173.537 1 58.99 ? O3G ANP 401 G 1 
HETATM 5 P PB ANP . . . O 5 119.141 133.971 174.579 1 58.99 ? PB ANP 401 G 1 
HETATM 6 O O1B ANP . . . O 5 118.405 132.726 174.202 1 58.99 ? O1B ANP 401 G 1 
HETATM 7 O O2B ANP . . . O 5 119.571 133.87 176.072 1 58.99 ? O2B ANP 401 G 1 
HETATM 8 N N3B ANP . . . O 5 120.507 134.146 173.622 1 58.99 ? N3B ANP 401 G 1 
HETATM 9 P PA ANP . . . O 5 117.63 135.574 172.969 1 58.99 ? PA ANP 401 G 1 
HETATM 10 O O1A ANP . . . O 5 118.677 135.486 171.925 1 58.99 ? O1A ANP 401 G 1 
HETATM 11 O O2A ANP . . . O 5 117.005 136.966 173.098 1 58.99 ? O2A ANP 401 G 1 
HETATM 12 O O3A ANP . . . O 5 118.212 135.209 174.4 1 58.99 ? O3A ANP 401 G 1 
HETATM 13 O O5' ANP . . . O 5 116.528 134.482 172.659 1 58.99 ? O5' ANP 401 G 1 
HETATM 14 C C5' ANP . . . O 5 115.131 134.842 172.606 1 58.99 ? C5' ANP 401 G 1 
HETATM 15 C C4' ANP . . . O 5 114.389 133.889 171.7 1 58.99 ? C4' ANP 401 G 1 
HETATM 16 O O4' ANP . . . O 5 113.953 134.591 170.513 1 58.99 ? O4' ANP 401 G 1 
HETATM 17 C C3' ANP . . . O 5 115.184 132.674 171.218 1 58.99 ? C3' ANP 401 G 1 
HETATM 18 O O3' ANP . . . O 5 114.381 131.499 171.244 1 58.99 ? O3' ANP 401 G 1 
HETATM 19 C C2' ANP . . . O 5 115.583 133.061 169.792 1 58.99 ? C2' ANP 401 G 1 
HETATM 20 O O2' ANP . . . O 5 115.726 131.921 168.953 1 58.99 ? O2' ANP 401 G 1 
HETATM 21 C C1' ANP . . . O 5 114.385 133.901 169.359 1 58.99 ? C1' ANP 401 G 1 
HETATM 22 N N9 ANP . . . O 5 114.691 134.881 168.325 1 58.99 ? N9 ANP 401 G 1 
HETATM 23 C C8 ANP . . . O 5 115.482 135.996 168.447 1 58.99 ? C8 ANP 401 G 1 
HETATM 24 N N7 ANP . . . O 5 115.582 136.703 167.349 1 58.99 ? N7 ANP 401 G 1 
HETATM 25 C C5 ANP . . . O 5 114.803 136.009 166.437 1 58.99 ? C5 ANP 401 G 1 
HETATM 26 C C6 ANP . . . O 5 114.493 136.237 165.082 1 58.99 ? C6 ANP 401 G 1 
HETATM 27 N N6 ANP . . . O 5 114.953 137.279 164.382 1 58.99 ? N6 ANP 401 G 1 
HETATM 28 N N1 ANP . . . O 5 113.683 135.349 164.463 1 58.99 ? N1 ANP 401 G 1 
HETATM 29 C C2 ANP . . . O 5 113.22 134.306 165.159 1 58.99 ? C2 ANP 401 G 1 
HETATM 30 N N3 ANP . . . O 5 113.442 133.987 166.437 1 58.99 ? N3 ANP 401 G 1 
HETATM 31 C C4 ANP . . . O 5 114.248 134.885 167.023 1 58.99 ? C4 ANP 401 G 1 
#
_model_server_stats.io_time_ms              0 
_model_server_stats.parse_time_ms           8 
_model_server_stats.create_model_time_ms    15 
_model_server_stats.query_time_ms           270 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           31 
#