data_8Y9F
#
_model_server_result.job_id            y8-TpeGUvHhj7ATaiulUyg 
_model_server_result.datetime_utc      '2024-12-01 01:27:04' 
_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          8y9f 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"H","auth_seq_id":601}' 
#
_entry.id    8Y9F 
#
_exptl.entry_id    8Y9F 
_exptl.method      'ELECTRON MICROSCOPY' 
#
_entity.details                     ? 
_entity.formula_weight              521.208 
_entity.id                          6 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            'PHOSPHOMETHYLPHOSPHONIC ACID GUANYLATE 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            8Y9F 
_cell.length_a            1 
_cell.length_b            1 
_cell.length_c            1 
_cell.Z_PDB               ? 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 8Y9F 
_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        ? 
_pdbx_struct_assembly.oligomeric_details    hexameric 
_pdbx_struct_assembly.oligomeric_count      6 
_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 
_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
? 6 H N N 
? 6 J 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
covale ? covale1 A C ASP 39 B ASP 39 1_555 A N ALY 40 B ALY 40 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.327 ? 
covale ? covale2 A C ALY 40 B ALY 40 1_555 A N SER 41 B SER 41 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? 
#
_chem_comp.formula           'C11 H18 N5 O13 P3' 
_chem_comp.formula_weight    521.208 
_chem_comp.id                G2P 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              'PHOSPHOMETHYLPHOSPHONIC ACID GUANYLATE 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 G2P sing 111 n n 
PG O2G G2P doub 112 n n 
PG O3G G2P sing 113 n n 
PG O3B G2P sing 114 n n 
O3B PB G2P sing 115 n n 
PB O1B G2P sing 116 n n 
PB O2B G2P doub 117 n n 
PB C3A G2P sing 118 n n 
C3A PA G2P sing 119 n n 
C3A H3A1 G2P sing 120 n n 
C3A H3A2 G2P sing 121 n n 
PA O1A G2P sing 122 n n 
PA O2A G2P doub 123 n n 
PA O5' G2P sing 124 n n 
O5' C5' G2P sing 125 n n 
C5' C4' G2P sing 126 n n 
C5' "H5'1" G2P sing 127 n n 
C5' "H5'2" G2P sing 128 n n 
C4' O4' G2P sing 129 n n 
C4' C3' G2P sing 130 n n 
C4' H4' G2P sing 131 n n 
O4' C1' G2P sing 132 n n 
C3' O3' G2P sing 133 n n 
C3' C2' G2P sing 134 n n 
C3' H3' G2P sing 135 n n 
O3' HA G2P sing 136 n n 
C2' O2' G2P sing 137 n n 
C2' C1' G2P sing 138 n n 
C2' H2' G2P sing 139 n n 
O2' HB G2P sing 140 n n 
C1' N9 G2P sing 141 n n 
C1' H1' G2P sing 142 n n 
N9 C8 G2P sing 143 n y 
N9 C4 G2P sing 144 n y 
C8 N7 G2P doub 145 n y 
C8 H8 G2P sing 146 n n 
N7 C5 G2P sing 147 n y 
C5 C6 G2P sing 148 n y 
C5 C4 G2P doub 149 n y 
C6 O6 G2P doub 150 n n 
C6 N1 G2P sing 151 n y 
N1 C2 G2P sing 152 n y 
N1 H1 G2P sing 153 n n 
C2 N2 G2P sing 154 n n 
C2 N3 G2P doub 155 n y 
N2 H2N1 G2P sing 156 n n 
N2 H2N2 G2P sing 157 n n 
N3 C4 G2P sing 158 n y 
HO1 O1G G2P sing 159 n n 
HO2 O3G G2P sing 160 n n 
HO3 O1A G2P sing 161 n n 
HO4 O1B G2P sing 162 n n 
#
_atom_sites.entry_id                     8Y9F 
_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
G 5 GTP B 1 501 603 GTP GTP . 
H 6 G2P D 1 601 601 G2P G2P . 
I 5 GTP E 1 501 604 GTP GTP . 
J 6 G2P F 1 601 601 G2P G2P . 
#
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 G2P . . . H 6 174.545 282.829 240.323 1 70.64 ? PG G2P 601 D 1 
HETATM 2 O O1G G2P . . . H 6 173.889 281.564 240.79 1 70.64 ? O1G G2P 601 D 1 
HETATM 3 O O2G G2P . . . H 6 173.628 283.72 239.543 1 70.64 ? O2G G2P 601 D 1 
HETATM 4 O O3G G2P . . . H 6 175.831 282.551 239.611 1 70.64 ? O3G G2P 601 D 1 
HETATM 5 O O3B G2P . . . H 6 174.909 283.68 241.619 1 70.64 ? O3B G2P 601 D 1 
HETATM 6 P PB G2P . . . H 6 176.033 283.34 242.664 1 70.64 ? PB G2P 601 D 1 
HETATM 7 O O1B G2P . . . H 6 175.842 284.105 243.934 1 70.64 ? O1B G2P 601 D 1 
HETATM 8 O O2B G2P . . . H 6 176.127 281.855 242.775 1 70.64 ? O2B G2P 601 D 1 
HETATM 9 C C3A G2P . . . H 6 177.569 283.902 241.931 1 70.64 ? C3A G2P 601 D 1 
HETATM 10 P PA G2P . . . H 6 178.889 283.037 242.769 1 70.64 ? PA G2P 601 D 1 
HETATM 11 O O1A G2P . . . H 6 179.129 281.76 242.026 1 70.64 ? O1A G2P 601 D 1 
HETATM 12 O O2A G2P . . . H 6 178.439 282.89 244.185 1 70.64 ? O2A G2P 601 D 1 
HETATM 13 O O5' G2P . . . H 6 180.173 283.954 242.696 1 70.64 ? O5' G2P 601 D 1 
HETATM 14 C C5' G2P . . . H 6 180.311 285.145 243.491 1 70.64 ? C5' G2P 601 D 1 
HETATM 15 C C4' G2P . . . H 6 181.73 285.229 243.986 1 70.64 ? C4' G2P 601 D 1 
HETATM 16 O O4' G2P . . . H 6 181.996 284.071 244.815 1 70.64 ? O4' G2P 601 D 1 
HETATM 17 C C3' G2P . . . H 6 182.816 285.227 242.904 1 70.64 ? C3' G2P 601 D 1 
HETATM 18 O O3' G2P . . . H 6 183.836 286.151 243.249 1 70.64 ? O3' G2P 601 D 1 
HETATM 19 C C2' G2P . . . H 6 183.403 283.818 242.999 1 70.64 ? C2' G2P 601 D 1 
HETATM 20 O O2' G2P . . . H 6 184.764 283.784 242.644 1 70.64 ? O2' G2P 601 D 1 
HETATM 21 C C1' G2P . . . H 6 183.246 283.529 244.48 1 70.64 ? C1' G2P 601 D 1 
HETATM 22 N N9 G2P . . . H 6 183.203 282.109 244.787 1 70.64 ? N9 G2P 601 D 1 
HETATM 23 C C8 G2P . . . H 6 182.567 281.139 244.061 1 70.64 ? C8 G2P 601 D 1 
HETATM 24 N N7 G2P . . . H 6 182.687 279.944 244.58 1 70.64 ? N7 G2P 601 D 1 
HETATM 25 C C5 G2P . . . H 6 183.468 280.141 245.707 1 70.64 ? C5 G2P 601 D 1 
HETATM 26 C C6 G2P . . . H 6 183.937 279.213 246.662 1 70.64 ? C6 G2P 601 D 1 
HETATM 27 O O6 G2P . . . H 6 183.749 277.995 246.711 1 70.64 ? O6 G2P 601 D 1 
HETATM 28 N N1 G2P . . . H 6 184.707 279.828 247.637 1 70.64 ? N1 G2P 601 D 1 
HETATM 29 C C2 G2P . . . H 6 184.98 281.165 247.701 1 70.64 ? C2 G2P 601 D 1 
HETATM 30 N N2 G2P . . . H 6 185.736 281.561 248.731 1 70.64 ? N2 G2P 601 D 1 
HETATM 31 N N3 G2P . . . H 6 184.537 282.049 246.812 1 70.64 ? N3 G2P 601 D 1 
HETATM 32 C C4 G2P . . . H 6 183.793 281.468 245.845 1 70.64 ? C4 G2P 601 D 1 
#
_model_server_stats.io_time_ms              11 
_model_server_stats.parse_time_ms           9 
_model_server_stats.create_model_time_ms    32 
_model_server_stats.query_time_ms           300 
_model_server_stats.encode_time_ms          4 
_model_server_stats.element_count           32 
#