data_8IXB
#
_model_server_result.job_id            ecdio3rdAUgRVj_i0PhDJw 
_model_server_result.datetime_utc      '2025-03-13 19:08:34' 
_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          8ixb 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"Q","auth_seq_id":502}' 
#
_entry.id    8IXB 
#
_exptl.entry_id    8IXB 
_exptl.method      'ELECTRON MICROSCOPY' 
#
_entity.details                     ? 
_entity.formula_weight              521.208 
_entity.id                          5 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            'PHOSPHOMETHYLPHOSPHONIC ACID GUANYLATE ESTER' 
_entity.pdbx_number_of_molecules    4 
_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            8IXB 
_cell.length_a            1 
_cell.length_b            1 
_cell.length_c            1 
_cell.Z_PDB               ? 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 8IXB 
_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    dodecameric 
_pdbx_struct_assembly.oligomeric_count      12 
_pdbx_struct_assembly.details               author_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,Q,R,S,T,U,V,W,X 
_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 N N N 
? 5 Q N N 
? 5 T N N 
? 5 W N N 
#
_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 132 n n 
PG O2G G2P doub 133 n n 
PG O3G G2P sing 134 n n 
PG O3B G2P sing 135 n n 
O3B PB G2P sing 136 n n 
PB O1B G2P sing 137 n n 
PB O2B G2P doub 138 n n 
PB C3A G2P sing 139 n n 
C3A PA G2P sing 140 n n 
C3A H3A1 G2P sing 141 n n 
C3A H3A2 G2P sing 142 n n 
PA O1A G2P sing 143 n n 
PA O2A G2P doub 144 n n 
PA O5' G2P sing 145 n n 
O5' C5' G2P sing 146 n n 
C5' C4' G2P sing 147 n n 
C5' "H5'1" G2P sing 148 n n 
C5' "H5'2" G2P sing 149 n n 
C4' O4' G2P sing 150 n n 
C4' C3' G2P sing 151 n n 
C4' H4' G2P sing 152 n n 
O4' C1' G2P sing 153 n n 
C3' O3' G2P sing 154 n n 
C3' C2' G2P sing 155 n n 
C3' H3' G2P sing 156 n n 
O3' HA G2P sing 157 n n 
C2' O2' G2P sing 158 n n 
C2' C1' G2P sing 159 n n 
C2' H2' G2P sing 160 n n 
O2' HB G2P sing 161 n n 
C1' N9 G2P sing 162 n n 
C1' H1' G2P sing 163 n n 
N9 C8 G2P sing 164 n y 
N9 C4 G2P sing 165 n y 
C8 N7 G2P doub 166 n y 
C8 H8 G2P sing 167 n n 
N7 C5 G2P sing 168 n y 
C5 C6 G2P sing 169 n y 
C5 C4 G2P doub 170 n y 
C6 O6 G2P doub 171 n n 
C6 N1 G2P sing 172 n y 
N1 C2 G2P sing 173 n y 
N1 H1 G2P sing 174 n n 
C2 N2 G2P sing 175 n n 
C2 N3 G2P doub 176 n y 
N2 H2N1 G2P sing 177 n n 
N2 H2N2 G2P sing 178 n n 
N3 C4 G2P sing 179 n y 
HO1 O1G G2P sing 180 n n 
HO2 O3G G2P sing 181 n n 
HO3 O1A G2P sing 182 n n 
HO4 O1B G2P sing 183 n n 
#
_atom_sites.entry_id                     8IXB 
_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 4 GTP W 1 501 13 GTP GTP . 
N 5 G2P W 1 502 501 G2P G2P . 
O 6 ATP l 1 401 1 ATP ATP . 
P 4 GTP Q 1 501 13 GTP GTP . 
Q 5 G2P Q 1 502 501 G2P G2P . 
R 6 ATP g 1 401 1 ATP ATP . 
S 4 GTP U 1 501 13 GTP GTP . 
T 5 G2P U 1 502 501 G2P G2P . 
U 6 ATP k 1 401 1 ATP ATP . 
V 4 GTP V 1 501 13 GTP GTP . 
W 5 G2P V 1 502 501 G2P G2P . 
X 6 ATP m 1 401 1 ATP ATP . 
#
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 . . . Q 5 339.072 221.074 243.386 1 128.6 ? PG G2P 502 Q 1 
HETATM 2 O O1G G2P . . . Q 5 340.662 221.271 243.222 1 128.6 ? O1G G2P 502 Q 1 
HETATM 3 O O2G G2P . . . Q 5 338.409 222.435 243.631 1 128.6 ? O2G G2P 502 Q 1 
HETATM 4 O O3G G2P . . . Q 5 338.524 220.466 242.146 1 128.6 ? O3G G2P 502 Q 1 
HETATM 5 O O3B G2P . . . Q 5 338.78 220.127 244.611 1 128.6 ? O3B G2P 502 Q 1 
HETATM 6 P PB G2P . . . Q 5 338.199 220.698 246.153 1 128.6 ? PB G2P 502 Q 1 
HETATM 7 O O1B G2P . . . Q 5 338.705 219.792 247.242 1 128.6 ? O1B G2P 502 Q 1 
HETATM 8 O O2B G2P . . . Q 5 338.688 222.082 246.389 1 128.6 ? O2B G2P 502 Q 1 
HETATM 9 C C3A G2P . . . Q 5 336.3 220.697 246.145 1 128.6 ? C3A G2P 502 Q 1 
HETATM 10 P PA G2P . . . Q 5 335.676 221.545 247.651 1 128.6 ? PA G2P 502 Q 1 
HETATM 11 O O1A G2P . . . Q 5 336.808 221.916 248.491 1 128.6 ? O1A G2P 502 Q 1 
HETATM 12 O O2A G2P . . . Q 5 334.915 222.8 247.249 1 128.6 ? O2A G2P 502 Q 1 
HETATM 13 O O5' G2P . . . Q 5 334.67 220.54 248.503 1 128.6 ? O5' G2P 502 Q 1 
HETATM 14 C C5' G2P . . . Q 5 333.634 219.777 247.801 1 128.6 ? C5' G2P 502 Q 1 
HETATM 15 C C4' G2P . . . Q 5 332.248 220.143 248.362 1 128.6 ? C4' G2P 502 Q 1 
HETATM 16 O O4' G2P . . . Q 5 332.37 220.872 249.732 1 128.6 ? O4' G2P 502 Q 1 
HETATM 17 C C3' G2P . . . Q 5 331.669 220.995 247.622 1 128.6 ? C3' G2P 502 Q 1 
HETATM 18 O O3' G2P . . . Q 5 330.975 220.325 246.527 1 128.6 ? O3' G2P 502 Q 1 
HETATM 19 C C2' G2P . . . Q 5 330.58 221.746 248.641 1 128.6 ? C2' G2P 502 Q 1 
HETATM 20 O O2' G2P . . . Q 5 329.418 220.88 248.848 1 128.6 ? O2' G2P 502 Q 1 
HETATM 21 C C1' G2P . . . Q 5 331.195 221.91 249.739 1 128.6 ? C1' G2P 502 Q 1 
HETATM 22 N N9 G2P . . . Q 5 331.748 223.302 249.861 1 128.6 ? N9 G2P 502 Q 1 
HETATM 23 C C8 G2P . . . Q 5 332.482 224.038 249.017 1 128.6 ? C8 G2P 502 Q 1 
HETATM 24 N N7 G2P . . . Q 5 332.725 225.222 249.604 1 128.6 ? N7 G2P 502 Q 1 
HETATM 25 C C5 G2P . . . Q 5 332.14 225.214 250.819 1 128.6 ? C5 G2P 502 Q 1 
HETATM 26 C C6 G2P . . . Q 5 332.076 226.141 251.817 1 128.6 ? C6 G2P 502 Q 1 
HETATM 27 O O6 G2P . . . Q 5 332.622 227.227 251.677 1 128.6 ? O6 G2P 502 Q 1 
HETATM 28 N N1 G2P . . . Q 5 331.408 225.866 252.949 1 128.6 ? N1 G2P 502 Q 1 
HETATM 29 C C2 G2P . . . Q 5 330.796 224.659 253.112 1 128.6 ? C2 G2P 502 Q 1 
HETATM 30 N N2 G2P . . . Q 5 330.022 224.282 254.375 1 128.6 ? N2 G2P 502 Q 1 
HETATM 31 N N3 G2P . . . Q 5 330.86 223.753 252.139 1 128.6 ? N3 G2P 502 Q 1 
HETATM 32 C C4 G2P . . . Q 5 331.537 224.031 250.98 1 128.6 ? C4 G2P 502 Q 1 
#
_model_server_stats.io_time_ms              21 
_model_server_stats.parse_time_ms           8 
_model_server_stats.create_model_time_ms    56 
_model_server_stats.query_time_ms           271 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           32 
#