data_9BP6
#
_model_server_result.job_id            DVtV4Avq2CpQdWk1e80ujQ 
_model_server_result.datetime_utc      '2024-12-22 11:50:58' 
_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          9bp6 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"K","auth_seq_id":501}' 
#
_entry.id    9BP6 
#
_exptl.entry_id    9BP6 
_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    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            9BP6 
_cell.length_a            1 
_cell.length_b            1 
_cell.length_c            1 
_cell.Z_PDB               ? 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 9BP6 
_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    tetrameric 
_pdbx_struct_assembly.oligomeric_count      4 
_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 
_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 G N N 
? 5 K 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 A OD1 ASP 98 A ASP 98 1_555 F MG MG . A MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.397 ? 
metalc ? metalc2 A OD2 ASP 98 A ASP 98 1_555 F MG MG . A MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.689 ? 
metalc ? metalc3 E O1G GTP . A GTP 501 1_555 F MG MG . A MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.971 ? 
metalc ? metalc4 E O3B GTP . A GTP 501 1_555 F MG MG . A MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.627 ? 
metalc ? metalc5 E O2B GTP . A GTP 501 1_555 F MG MG . A MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.993 ? 
metalc ? metalc6 G O3G G2P . B G2P 501 1_555 H MG MG . B MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.979 ? 
metalc ? metalc7 G O2B G2P . B G2P 501 1_555 H MG MG . B MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.125 ? 
metalc ? metalc8 C OE2 GLU 71 I GLU 71 1_555 J MG MG . I MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.165 ? 
metalc ? metalc9 I O1G GTP . I GTP 501 1_555 J MG MG . I MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.963 ? 
metalc ? metalc10 I O2B GTP . I GTP 501 1_555 J MG MG . I MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? 
metalc ? metalc11 D OE2 GLU 69 Q GLU 69 1_555 L MG MG . Q MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.979 ? 
metalc ? metalc12 K O3G G2P . Q G2P 501 1_555 L MG MG . Q MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.963 ? 
metalc ? metalc13 K O2B G2P . Q G2P 501 1_555 L MG MG . Q MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.964 ? 
#
_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 83 n n 
PG O2G G2P doub 84 n n 
PG O3G G2P sing 85 n n 
PG O3B G2P sing 86 n n 
O3B PB G2P sing 87 n n 
PB O1B G2P sing 88 n n 
PB O2B G2P doub 89 n n 
PB C3A G2P sing 90 n n 
C3A PA G2P sing 91 n n 
C3A H3A1 G2P sing 92 n n 
C3A H3A2 G2P sing 93 n n 
PA O1A G2P sing 94 n n 
PA O2A G2P doub 95 n n 
PA O5' G2P sing 96 n n 
O5' C5' G2P sing 97 n n 
C5' C4' G2P sing 98 n n 
C5' "H5'1" G2P sing 99 n n 
C5' "H5'2" G2P sing 100 n n 
C4' O4' G2P sing 101 n n 
C4' C3' G2P sing 102 n n 
C4' H4' G2P sing 103 n n 
O4' C1' G2P sing 104 n n 
C3' O3' G2P sing 105 n n 
C3' C2' G2P sing 106 n n 
C3' H3' G2P sing 107 n n 
O3' HA G2P sing 108 n n 
C2' O2' G2P sing 109 n n 
C2' C1' G2P sing 110 n n 
C2' H2' G2P sing 111 n n 
O2' HB G2P sing 112 n n 
C1' N9 G2P sing 113 n n 
C1' H1' G2P sing 114 n n 
N9 C8 G2P sing 115 n y 
N9 C4 G2P sing 116 n y 
C8 N7 G2P doub 117 n y 
C8 H8 G2P sing 118 n n 
N7 C5 G2P sing 119 n y 
C5 C6 G2P sing 120 n y 
C5 C4 G2P doub 121 n y 
C6 O6 G2P doub 122 n n 
C6 N1 G2P sing 123 n y 
N1 C2 G2P sing 124 n y 
N1 H1 G2P sing 125 n n 
C2 N2 G2P sing 126 n n 
C2 N3 G2P doub 127 n y 
N2 H2N1 G2P sing 128 n n 
N2 H2N2 G2P sing 129 n n 
N3 C4 G2P sing 130 n y 
HO1 O1G G2P sing 131 n n 
HO2 O3G G2P sing 132 n n 
HO3 O1A G2P sing 133 n n 
HO4 O1B G2P sing 134 n n 
#
_atom_sites.entry_id                     9BP6 
_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
E 3 GTP A 1 501 501 GTP GTP . 
F 4 MG A 1 502 502 MG MG . 
G 5 G2P B 1 501 501 G2P G2P . 
H 4 MG B 1 502 502 MG MG . 
I 3 GTP I 1 501 501 GTP GTP . 
J 4 MG I 1 502 502 MG MG . 
K 5 G2P Q 1 501 501 G2P G2P . 
L 4 MG Q 1 502 502 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 G2P . . . K 5 399.872 370.338 338.931 1 122.25 ? PG G2P 501 Q 1 
HETATM 2 O O1G G2P . . . K 5 401.33 370.084 339.275 1 123.47 ? O1G G2P 501 Q 1 
HETATM 3 O O2G G2P . . . K 5 399.339 371.665 339.472 1 120.4 ? O2G G2P 501 Q 1 
HETATM 4 O O3G G2P . . . K 5 398.931 369.164 339.14 1 115.23 ? O3G G2P 501 Q 1 
HETATM 5 O O3B G2P . . . K 5 399.929 370.607 337.241 1 111.51 ? O3B G2P 501 Q 1 
HETATM 6 P PB G2P . . . K 5 398.723 370.383 336.201 1 117.9 ? PB G2P 501 Q 1 
HETATM 7 O O1B G2P . . . K 5 399.182 370.464 334.768 1 121.31 ? O1B G2P 501 Q 1 
HETATM 8 O O2B G2P . . . K 5 397.853 369.21 336.604 1 116.64 ? O2B G2P 501 Q 1 
HETATM 9 C C3A G2P . . . K 5 397.71 371.877 336.577 1 110.68 ? C3A G2P 501 Q 1 
HETATM 10 P PA G2P . . . K 5 395.974 371.933 336.062 1 114.41 ? PA G2P 501 Q 1 
HETATM 11 O O1A G2P . . . K 5 395.655 370.916 334.998 1 117.74 ? O1A G2P 501 Q 1 
HETATM 12 O O2A G2P . . . K 5 395.105 371.958 337.297 1 117.33 ? O2A G2P 501 Q 1 
HETATM 13 O O5' G2P . . . K 5 395.962 373.444 335.391 1 110.79 ? O5' G2P 501 Q 1 
HETATM 14 C C5' G2P . . . K 5 395.47 374.507 336.149 1 112.75 ? C5' G2P 501 Q 1 
HETATM 15 C C4' G2P . . . K 5 394.615 375.367 335.24 1 116.01 ? C4' G2P 501 Q 1 
HETATM 16 O O4' G2P . . . K 5 393.817 374.57 334.364 1 114.14 ? O4' G2P 501 Q 1 
HETATM 17 C C3' G2P . . . K 5 393.653 376.262 336.018 1 117.08 ? C3' G2P 501 Q 1 
HETATM 18 O O3' G2P . . . K 5 393.482 377.514 335.406 1 117.91 ? O3' G2P 501 Q 1 
HETATM 19 C C2' G2P . . . K 5 392.341 375.491 335.889 1 114.12 ? C2' G2P 501 Q 1 
HETATM 20 O O2' G2P . . . K 5 391.173 376.243 335.974 1 119.2 ? O2' G2P 501 Q 1 
HETATM 21 C C1' G2P . . . K 5 392.474 374.885 334.488 1 110.83 ? C1' G2P 501 Q 1 
HETATM 22 N N9 G2P . . . K 5 391.665 373.699 334.325 1 107.87 ? N9 G2P 501 Q 1 
HETATM 23 C C8 G2P . . . K 5 391.594 372.615 335.162 1 111.01 ? C8 G2P 501 Q 1 
HETATM 24 N N7 G2P . . . K 5 390.77 371.712 334.732 1 112.73 ? N7 G2P 501 Q 1 
HETATM 25 C C5 G2P . . . K 5 390.273 372.214 333.562 1 113.45 ? C5 G2P 501 Q 1 
HETATM 26 C C6 G2P . . . K 5 389.334 371.672 332.648 1 110.99 ? C6 G2P 501 Q 1 
HETATM 27 O O6 G2P . . . K 5 388.738 370.609 332.695 1 113.54 ? O6 G2P 501 Q 1 
HETATM 28 N N1 G2P . . . K 5 389.116 372.544 331.575 1 103.81 ? N1 G2P 501 Q 1 
HETATM 29 C C2 G2P . . . K 5 389.71 373.759 331.401 1 106.62 ? C2 G2P 501 Q 1 
HETATM 30 N N2 G2P . . . K 5 389.363 374.446 330.293 1 111.95 ? N2 G2P 501 Q 1 
HETATM 31 N N3 G2P . . . K 5 390.576 374.256 332.242 1 105.83 ? N3 G2P 501 Q 1 
HETATM 32 C C4 G2P . . . K 5 390.82 373.455 333.294 1 108.57 ? C4 G2P 501 Q 1 
#
_model_server_stats.io_time_ms              13 
_model_server_stats.parse_time_ms           20 
_model_server_stats.create_model_time_ms    60 
_model_server_stats.query_time_ms           332 
_model_server_stats.encode_time_ms          8 
_model_server_stats.element_count           32 
#