data_8IXB
#
_model_server_result.job_id            MBRi9VsAsRMiUreLNcr9dQ 
_model_server_result.datetime_utc      '2025-03-13 19:34:01' 
_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":"T","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 . . . T 5 389.343 233.189 275.46 1 128.6 ? PG G2P 502 U 1 
HETATM 2 O O1G G2P . . . T 5 390.69 234.055 275.296 1 128.6 ? O1G G2P 502 U 1 
HETATM 3 O O2G G2P . . . T 5 388.155 234.128 275.705 1 128.6 ? O2G G2P 502 U 1 
HETATM 4 O O3G G2P . . . T 5 389.112 232.404 274.219 1 128.6 ? O3G G2P 502 U 1 
HETATM 5 O O3B G2P . . . T 5 389.49 232.208 276.684 1 128.6 ? O3B G2P 502 U 1 
HETATM 6 P PB G2P . . . T 5 388.719 232.471 278.227 1 128.6 ? PB G2P 502 U 1 
HETATM 7 O O1B G2P . . . T 5 389.568 231.873 279.315 1 128.6 ? O1B G2P 502 U 1 
HETATM 8 O O2B G2P . . . T 5 388.561 233.93 278.463 1 128.6 ? O2B G2P 502 U 1 
HETATM 9 C C3A G2P . . . T 5 387.008 231.647 278.219 1 128.6 ? C3A G2P 502 U 1 
HETATM 10 P PA G2P . . . T 5 386.079 232.141 279.725 1 128.6 ? PA G2P 502 U 1 
HETATM 11 O O1A G2P . . . T 5 386.939 232.965 280.565 1 128.6 ? O1A G2P 502 U 1 
HETATM 12 O O2A G2P . . . T 5 384.849 232.942 279.324 1 128.6 ? O2A G2P 502 U 1 
HETATM 13 O O5' G2P . . . T 5 385.608 230.799 280.577 1 128.6 ? O5' G2P 502 U 1 
HETATM 14 C C5' G2P . . . T 5 385.005 229.662 279.875 1 128.6 ? C5' G2P 502 U 1 
HETATM 15 C C4' G2P . . . T 5 383.597 229.391 280.436 1 128.6 ? C4' G2P 502 U 1 
HETATM 16 O O4' G2P . . . T 5 383.391 230.101 281.806 1 128.6 ? O4' G2P 502 U 1 
HETATM 17 C C3' G2P . . . T 5 382.706 229.908 279.696 1 128.6 ? C3' G2P 502 U 1 
HETATM 18 O O3' G2P . . . T 5 382.371 229.004 278.601 1 128.6 ? O3' G2P 502 U 1 
HETATM 19 C C2' G2P . . . T 5 381.4 230.113 280.715 1 128.6 ? C2' G2P 502 U 1 
HETATM 20 O O2' G2P . . . T 5 380.728 228.829 280.922 1 128.6 ? O2' G2P 502 U 1 
HETATM 21 C C1' G2P . . . T 5 381.883 230.527 281.813 1 128.6 ? C1' G2P 502 U 1 
HETATM 22 N N9 G2P . . . T 5 381.778 232.021 281.936 1 128.6 ? N9 G2P 502 U 1 
HETATM 23 C C8 G2P . . . T 5 382.12 233.003 281.092 1 128.6 ? C8 G2P 502 U 1 
HETATM 24 N N7 G2P . . . T 5 381.827 234.175 281.679 1 128.6 ? N7 G2P 502 U 1 
HETATM 25 C C5 G2P . . . T 5 381.303 233.914 282.895 1 128.6 ? C5 G2P 502 U 1 
HETATM 26 C C6 G2P . . . T 5 380.844 234.722 283.893 1 128.6 ? C6 G2P 502 U 1 
HETATM 27 O O6 G2P . . . T 5 380.865 235.937 283.753 1 128.6 ? O6 G2P 502 U 1 
HETATM 28 N N1 G2P . . . T 5 380.361 234.184 285.025 1 128.6 ? N1 G2P 502 U 1 
HETATM 29 C C2 G2P . . . T 5 380.333 232.831 285.187 1 128.6 ? C2 G2P 502 U 1 
HETATM 30 N N2 G2P . . . T 5 379.799 232.156 286.45 1 128.6 ? N2 G2P 502 U 1 
HETATM 31 N N3 G2P . . . T 5 380.783 232.043 284.214 1 128.6 ? N3 G2P 502 U 1 
HETATM 32 C C4 G2P . . . T 5 381.272 232.587 283.055 1 128.6 ? C4 G2P 502 U 1 
#
_model_server_stats.io_time_ms              17 
_model_server_stats.parse_time_ms           9 
_model_server_stats.create_model_time_ms    61 
_model_server_stats.query_time_ms           293 
_model_server_stats.encode_time_ms          5 
_model_server_stats.element_count           32 
#