data_3X04
#
_model_server_result.job_id            mPO6XXUqfeXCNqgkkKl2jg 
_model_server_result.datetime_utc      '2024-11-25 09:36:32' 
_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          3x04 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"F","auth_seq_id":501}' 
#
_entry.id    3X04 
#
_exptl.entry_id    3X04 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              522.196 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            'PHOSPHOAMINOPHOSPHONIC 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            3X04 
_cell.length_a            109.804 
_cell.length_b            185.222 
_cell.length_c            106.449 
_cell.Z_PDB               16 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 3X04 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        20 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'C 2 2 21' 
#
_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    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
? 2 C N N 
? 2 D N N 
? 2 E N N 
? 2 F N N 
#
_chem_comp.formula           'C10 H17 N6 O13 P3' 
_chem_comp.formula_weight    522.196 
_chem_comp.id                GNP 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              'PHOSPHOAMINOPHOSPHONIC 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 GNP doub 129 n n 
PG O2G GNP sing 130 n n 
PG O3G GNP sing 131 n n 
PG N3B GNP sing 132 n n 
O2G HOG2 GNP sing 133 n n 
O3G HOG3 GNP sing 134 n n 
N3B PB GNP sing 135 n n 
N3B HNB3 GNP sing 136 n n 
PB O1B GNP doub 137 n n 
PB O2B GNP sing 138 n n 
PB O3A GNP sing 139 n n 
O2B HOB2 GNP sing 140 n n 
O3A PA GNP sing 141 n n 
PA O1A GNP doub 142 n n 
PA O2A GNP sing 143 n n 
PA O5' GNP sing 144 n n 
O2A HOA2 GNP sing 145 n n 
O5' C5' GNP sing 146 n n 
C5' C4' GNP sing 147 n n 
C5' "H5'2" GNP sing 148 n n 
C5' "H5'1" GNP sing 149 n n 
C4' O4' GNP sing 150 n n 
C4' C3' GNP sing 151 n n 
C4' H4' GNP sing 152 n n 
O4' C1' GNP sing 153 n n 
C3' O3' GNP sing 154 n n 
C3' C2' GNP sing 155 n n 
C3' H3' GNP sing 156 n n 
O3' HO3' GNP sing 157 n n 
C2' O2' GNP sing 158 n n 
C2' C1' GNP sing 159 n n 
C2' H2' GNP sing 160 n n 
O2' HO2' GNP sing 161 n n 
C1' N9 GNP sing 162 n n 
C1' H1' GNP sing 163 n n 
N9 C8 GNP sing 164 n y 
N9 C4 GNP sing 165 n y 
C8 N7 GNP doub 166 n y 
C8 H8 GNP sing 167 n n 
N7 C5 GNP sing 168 n y 
C5 C6 GNP sing 169 n y 
C5 C4 GNP doub 170 n y 
C6 O6 GNP doub 171 n n 
C6 N1 GNP sing 172 n y 
N1 C2 GNP sing 173 n y 
N1 HN1 GNP sing 174 n n 
C2 N2 GNP sing 175 n n 
C2 N3 GNP doub 176 n y 
N2 HN21 GNP sing 177 n n 
N2 HN22 GNP sing 178 n n 
N3 C4 GNP sing 179 n y 
#
_atom_sites.entry_id                     3X04 
_atom_sites.fract_transf_matrix[1][1]    0.009107 
_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]    0.005399 
_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]    0.009394 
_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 2 GNP A 1 501 501 GNP GNP . 
D 2 GNP A 1 502 502 GNP GNP . 
E 2 GNP A 1 503 503 GNP GNP . 
F 2 GNP B 1 501 501 GNP GNP . 
G 3 HOH A 1 601 601 HOH HOH . 
G 3 HOH A 2 602 602 HOH HOH . 
G 3 HOH A 3 603 603 HOH HOH . 
G 3 HOH A 4 604 604 HOH HOH . 
G 3 HOH A 5 605 605 HOH HOH . 
G 3 HOH A 6 606 606 HOH HOH . 
G 3 HOH A 7 607 607 HOH HOH . 
G 3 HOH A 8 608 608 HOH HOH . 
G 3 HOH A 9 609 609 HOH HOH . 
H 3 HOH B 1 601 601 HOH HOH . 
H 3 HOH B 2 602 602 HOH HOH . 
H 3 HOH B 3 603 603 HOH HOH . 
H 3 HOH B 4 604 604 HOH HOH . 
H 3 HOH B 5 605 605 HOH HOH . 
H 3 HOH B 6 606 606 HOH HOH . 
H 3 HOH B 7 607 607 HOH HOH . 
H 3 HOH B 8 608 608 HOH HOH . 
#
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 GNP . . . F 2 33.371 1.394 -30.42 1 193.64 ? PG GNP 501 B 1 
HETATM 2 O O1G GNP . . . F 2 33.607 0.701 -29.134 1 192.83 ? O1G GNP 501 B 1 
HETATM 3 O O2G GNP . . . F 2 32.981 0.313 -31.548 1 191.21 ? O2G GNP 501 B 1 
HETATM 4 O O3G GNP . . . F 2 34.708 2.174 -30.863 1 194.9 ? O3G GNP 501 B 1 
HETATM 5 N N3B GNP . . . F 2 32.061 2.54 -30.234 1 333.29 ? N3B GNP 501 B 1 
HETATM 6 P PB GNP . . . F 2 32.411 4.24 -30.012 1 197.65 ? PB GNP 501 B 1 
HETATM 7 O O1B GNP . . . F 2 33.727 4.555 -30.612 1 198.18 ? O1B GNP 501 B 1 
HETATM 8 O O2B GNP . . . F 2 31.27 5.121 -30.727 1 196.19 ? O2B GNP 501 B 1 
HETATM 9 O O3A GNP . . . F 2 32.444 4.58 -28.438 1 195.4 ? O3A GNP 501 B 1 
HETATM 10 P PA GNP . . . F 2 31.527 3.754 -27.404 1 193.35 ? PA GNP 501 B 1 
HETATM 11 O O1A GNP . . . F 2 30.995 4.718 -26.371 1 191.57 ? O1A GNP 501 B 1 
HETATM 12 O O2A GNP . . . F 2 30.571 2.898 -28.2 1 193.32 ? O2A GNP 501 B 1 
HETATM 13 O O5' GNP . . . F 2 32.593 2.784 -26.686 1 125.9 ? O5' GNP 501 B 1 
HETATM 14 C C5' GNP . . . F 2 33.877 3.274 -26.308 1 123.38 ? C5' GNP 501 B 1 
HETATM 15 C C4' GNP . . . F 2 34.697 2.14 -25.706 1 123.17 ? C4' GNP 501 B 1 
HETATM 16 O O4' GNP . . . F 2 35.121 2.497 -24.387 1 123.09 ? O4' GNP 501 B 1 
HETATM 17 C C3' GNP . . . F 2 33.877 0.863 -25.601 1 121.48 ? C3' GNP 501 B 1 
HETATM 18 O O3' GNP . . . F 2 34.5 -0.182 -26.353 1 121.82 ? O3' GNP 501 B 1 
HETATM 19 C C2' GNP . . . F 2 33.846 0.498 -24.131 1 118.77 ? C2' GNP 501 B 1 
HETATM 20 O O2' GNP . . . F 2 34.451 -0.783 -23.931 1 116.31 ? O2' GNP 501 B 1 
HETATM 21 C C1' GNP . . . F 2 34.646 1.57 -23.408 1 120.08 ? C1' GNP 501 B 1 
HETATM 22 N N9 GNP . . . F 2 33.775 2.273 -22.434 1 113.73 ? N9 GNP 501 B 1 
HETATM 23 C C8 GNP . . . F 2 32.666 2.975 -22.733 1 106.9 ? C8 GNP 501 B 1 
HETATM 24 N N7 GNP . . . F 2 32.097 3.495 -21.615 1 104.92 ? N7 GNP 501 B 1 
HETATM 25 C C5 GNP . . . F 2 32.854 3.121 -20.567 1 105.01 ? C5 GNP 501 B 1 
HETATM 26 C C6 GNP . . . F 2 32.823 3.326 -19.1 1 95.22 ? C6 GNP 501 B 1 
HETATM 27 O O6 GNP . . . F 2 31.916 3.998 -18.562 1 94.74 ? O6 GNP 501 B 1 
HETATM 28 N N1 GNP . . . F 2 33.795 2.769 -18.367 1 92.04 ? N1 GNP 501 B 1 
HETATM 29 C C2 GNP . . . F 2 34.785 2.04 -18.918 1 94.69 ? C2 GNP 501 B 1 
HETATM 30 N N2 GNP . . . F 2 35.73 1.511 -18.104 1 89.64 ? N2 GNP 501 B 1 
HETATM 31 N N3 GNP . . . F 2 34.876 1.812 -20.254 1 102.32 ? N3 GNP 501 B 1 
HETATM 32 C C4 GNP . . . F 2 33.958 2.317 -21.111 1 109 ? C4 GNP 501 B 1 
#
_model_server_stats.io_time_ms              105 
_model_server_stats.parse_time_ms           156 
_model_server_stats.create_model_time_ms    60 
_model_server_stats.query_time_ms           272 
_model_server_stats.encode_time_ms          4 
_model_server_stats.element_count           32 
#