data_2F3R
#
_model_server_result.job_id            ZH0GD_2x72qR9wVZoprzWQ 
_model_server_result.datetime_utc      '2025-07-12 02:28:40' 
_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          2f3r 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"C","auth_seq_id":601}' 
#
_entry.id    2F3R 
#
_exptl.entry_id    2F3R 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              932.366 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            "P1-(5'-ADENOSYL)-P5-(5'-GUANOSYL) PENTAPHOSPHATE" 
_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         120 
_cell.entry_id            2F3R 
_cell.length_a            67.527 
_cell.length_b            67.527 
_cell.length_c            149.703 
_cell.Z_PDB               12 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 2F3R 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        173 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 63' 
#
_pdbx_struct_assembly.method_details        PISA 
_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 
_pdbx_struct_assembly_gen.assembly_id        1 
_pdbx_struct_assembly_gen.oper_expression    1,2,3 
#
loop_
_pdbx_struct_oper_list.id
_pdbx_struct_oper_list.type
_pdbx_struct_oper_list.name
_pdbx_struct_oper_list.symmetry_operation
_pdbx_struct_oper_list.matrix[1][1]
_pdbx_struct_oper_list.matrix[1][2]
_pdbx_struct_oper_list.matrix[1][3]
_pdbx_struct_oper_list.matrix[2][1]
_pdbx_struct_oper_list.matrix[2][2]
_pdbx_struct_oper_list.matrix[2][3]
_pdbx_struct_oper_list.matrix[3][1]
_pdbx_struct_oper_list.matrix[3][2]
_pdbx_struct_oper_list.matrix[3][3]
_pdbx_struct_oper_list.vector[1]
_pdbx_struct_oper_list.vector[2]
_pdbx_struct_oper_list.vector[3]
1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 
2 'crystal symmetry operation' 2_555 -y,x-y,z -0.5 -0.866025 0 0.866025 -0.5 0 0 0 1 0 0 0 
3 'crystal symmetry operation' 3_555 -x+y,-x,z -0.5 0.866025 0 -0.866025 -0.5 0 0 0 1 0 0 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 
#
_chem_comp.formula           'C20 H29 N10 O23 P5' 
_chem_comp.formula_weight    932.366 
_chem_comp.id                G5P 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              "P1-(5'-ADENOSYL)-P5-(5'-GUANOSYL) PENTAPHOSPHATE" 
_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
PE O1E G5P sing 70 n n 
PE O2E G5P doub 71 n n 
PE O3D G5P sing 72 n n 
PE O5F G5P sing 73 n n 
O1E H1E G5P sing 74 n n 
PD O1D G5P sing 75 n n 
PD O2D G5P doub 76 n n 
PD O3D G5P sing 77 n n 
PD O3G G5P sing 78 n n 
O1D H1D G5P sing 79 n n 
PG O1G G5P sing 80 n n 
PG O2G G5P doub 81 n n 
PG O3G G5P sing 82 n n 
PG O3B G5P sing 83 n n 
O1G H1G G5P sing 84 n n 
PB O1B G5P sing 85 n n 
PB O2B G5P doub 86 n n 
PB O3B G5P sing 87 n n 
PB O3A G5P sing 88 n n 
O1B H1B G5P sing 89 n n 
O3A PA G5P sing 90 n n 
PA O1A G5P sing 91 n n 
PA O2A G5P doub 92 n n 
PA O5' G5P sing 93 n n 
O1A H1A G5P sing 94 n n 
O5' C5' G5P sing 95 n n 
C5' C4' G5P sing 96 n n 
C5' "H5'1" G5P sing 97 n n 
C5' "H5'2" G5P sing 98 n n 
C4' O4' G5P sing 99 n n 
C4' C3' G5P sing 100 n n 
C4' H4' G5P sing 101 n n 
O4' C1' G5P sing 102 n n 
C3' O3' G5P sing 103 n n 
C3' C2' G5P sing 104 n n 
C3' H7 G5P sing 105 n n 
O3' H9 G5P sing 106 n n 
C2' O2' G5P sing 107 n n 
C2' C1' G5P sing 108 n n 
C2' H10 G5P sing 109 n n 
O2' H11 G5P sing 110 n n 
C1' N9 G5P sing 111 n n 
C1' H1' G5P sing 112 n n 
N9 C8 G5P sing 113 n y 
N9 C4 G5P sing 114 n y 
C8 N7 G5P doub 115 n y 
C8 H8 G5P sing 116 n n 
N7 C5 G5P sing 117 n y 
C5 C6 G5P sing 118 n y 
C5 C4 G5P doub 119 n y 
C6 O6 G5P doub 120 n n 
C6 N1 G5P sing 121 n y 
N1 C2 G5P sing 122 n y 
N1 HN1 G5P sing 123 n n 
C2 N2 G5P sing 124 n n 
C2 N3 G5P doub 125 n y 
N2 HN21 G5P sing 126 n n 
N2 HN22 G5P sing 127 n n 
N3 C4 G5P sing 128 n y 
O5F C5F G5P sing 129 n n 
C5F C4F G5P sing 130 n n 
C5F H11X G5P sing 131 n n 
C5F H12 G5P sing 132 n n 
C4F O4F G5P sing 133 n n 
C4F C3F G5P sing 134 n n 
C4F H1 G5P sing 135 n n 
O4F C1F G5P sing 136 n n 
C1F C2F G5P sing 137 n n 
C1F N9A G5P sing 138 n n 
C1F H2 G5P sing 139 n n 
C2F O2F G5P sing 140 n n 
C2F C3F G5P sing 141 n n 
C2F H2' G5P sing 142 n n 
O2F H3 G5P sing 143 n n 
C3F O3F G5P sing 144 n n 
C3F H3' G5P sing 145 n n 
O3F H4 G5P sing 146 n n 
N9A C4A G5P sing 147 n y 
N9A C8A G5P sing 148 n y 
C4A N3A G5P sing 149 n y 
C4A C5A G5P doub 150 n y 
N3A C2A G5P doub 151 n y 
C2A N1A G5P sing 152 n y 
C2A H6 G5P sing 153 n n 
N1A C6A G5P doub 154 n y 
C6A N6A G5P sing 155 n n 
C6A C5A G5P sing 156 n y 
N6A HN61 G5P sing 157 n n 
N6A HN62 G5P sing 158 n n 
C5A N7A G5P sing 159 n y 
N7A C8A G5P doub 160 n y 
C8A H5 G5P sing 161 n n 
#
_atom_sites.entry_id                     2F3R 
_atom_sites.fract_transf_matrix[1][1]    0.014809 
_atom_sites.fract_transf_matrix[1][2]    0.00855 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.0171 
_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]    0.00668 
_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 G5P A 1 601 601 G5P G5P . 
D 2 G5P B 1 602 602 G5P G5P . 
E 3 HOH A 1 602 2 HOH HOH . 
E 3 HOH A 2 603 3 HOH HOH . 
E 3 HOH A 3 604 6 HOH HOH . 
E 3 HOH A 4 605 7 HOH HOH . 
E 3 HOH A 5 606 11 HOH HOH . 
E 3 HOH A 6 607 17 HOH HOH . 
E 3 HOH A 7 608 18 HOH HOH . 
E 3 HOH A 8 609 21 HOH HOH . 
E 3 HOH A 9 610 22 HOH HOH . 
E 3 HOH A 10 611 25 HOH HOH . 
E 3 HOH A 11 612 26 HOH HOH . 
F 3 HOH B 1 603 1 HOH HOH . 
F 3 HOH B 2 604 4 HOH HOH . 
F 3 HOH B 3 605 5 HOH HOH . 
F 3 HOH B 4 606 8 HOH HOH . 
F 3 HOH B 5 607 9 HOH HOH . 
F 3 HOH B 6 608 10 HOH HOH . 
F 3 HOH B 7 609 12 HOH HOH . 
F 3 HOH B 8 610 13 HOH HOH . 
F 3 HOH B 9 611 14 HOH HOH . 
F 3 HOH B 10 612 15 HOH HOH . 
F 3 HOH B 11 613 16 HOH HOH . 
F 3 HOH B 12 614 19 HOH HOH . 
F 3 HOH B 13 615 20 HOH HOH . 
F 3 HOH B 14 616 23 HOH HOH . 
F 3 HOH B 15 617 24 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 PE G5P . . . C 2 14.202 -7.684 -1.223 1 81.78 ? PE G5P 601 A 1 
HETATM 2 O O1E G5P . . . C 2 13.869 -7.22 0.157 1 80.83 ? O1E G5P 601 A 1 
HETATM 3 O O2E G5P . . . C 2 13.5 -7.101 -2.376 1 83.2 ? O2E G5P 601 A 1 
HETATM 4 P PD G5P . . . C 2 17.21 -7.652 -0.942 1 82.04 ? PD G5P 601 A 1 
HETATM 5 O O1D G5P . . . C 2 17.62 -6.576 0.039 1 80.81 ? O1D G5P 601 A 1 
HETATM 6 O O2D G5P . . . C 2 16.954 -8.955 -0.203 1 82.22 ? O2D G5P 601 A 1 
HETATM 7 O O3D G5P . . . C 2 15.766 -7.329 -1.552 1 82.14 ? O3D G5P 601 A 1 
HETATM 8 P PG G5P . . . C 2 18.565 -7.425 -3.422 1 82.57 ? PG G5P 601 A 1 
HETATM 9 O O1G G5P . . . C 2 18.316 -8.523 -4.413 1 82.06 ? O1G G5P 601 A 1 
HETATM 10 O O2G G5P . . . C 2 19.952 -6.895 -3.82 1 80.25 ? O2G G5P 601 A 1 
HETATM 11 O O3G G5P . . . C 2 18.4 -7.869 -2.002 1 81.18 ? O3G G5P 601 A 1 
HETATM 12 P PB G5P . . . C 2 17.743 -4.854 -4.45 1 74.37 ? PB G5P 601 A 1 
HETATM 13 O O1B G5P . . . C 2 18.383 -3.778 -3.627 1 74.71 ? O1B G5P 601 A 1 
HETATM 14 O O2B G5P . . . C 2 16.511 -4.399 -5.22 1 75.05 ? O2B G5P 601 A 1 
HETATM 15 O O3B G5P . . . C 2 17.565 -6.181 -3.724 1 78.48 ? O3B G5P 601 A 1 
HETATM 16 O O3A G5P . . . C 2 18.865 -5.194 -5.637 1 70.89 ? O3A G5P 601 A 1 
HETATM 17 P PA G5P . . . C 2 19.483 -4.303 -6.79 1 65.72 ? PA G5P 601 A 1 
HETATM 18 O O1A G5P . . . C 2 18.865 -2.946 -6.831 1 63.05 ? O1A G5P 601 A 1 
HETATM 19 O O2A G5P . . . C 2 19.597 -5.069 -8.095 1 67.43 ? O2A G5P 601 A 1 
HETATM 20 O O5' G5P . . . C 2 20.996 -4.165 -6.282 1 60.74 ? O5' G5P 601 A 1 
HETATM 21 C C5' G5P . . . C 2 21.214 -3.488 -5.079 1 54.05 ? C5' G5P 601 A 1 
HETATM 22 C C4' G5P . . . C 2 22.629 -3.64 -4.625 1 49.82 ? C4' G5P 601 A 1 
HETATM 23 O O4' G5P . . . C 2 23.347 -2.558 -5.314 1 45.04 ? O4' G5P 601 A 1 
HETATM 24 C C3' G5P . . . C 2 22.702 -3.392 -3.112 1 48.82 ? C3' G5P 601 A 1 
HETATM 25 O O3' G5P . . . C 2 23.863 -4.165 -2.614 1 48.67 ? O3' G5P 601 A 1 
HETATM 26 C C2' G5P . . . C 2 22.935 -1.915 -3.041 1 46.12 ? C2' G5P 601 A 1 
HETATM 27 O O2' G5P . . . C 2 23.454 -1.551 -1.813 1 51.38 ? O2' G5P 601 A 1 
HETATM 28 C C1' G5P . . . C 2 23.796 -1.651 -4.334 1 44.82 ? C1' G5P 601 A 1 
HETATM 29 N N9 G5P . . . C 2 23.549 -0.197 -4.876 1 40.21 ? N9 G5P 601 A 1 
HETATM 30 C C8 G5P . . . C 2 22.357 0.266 -5.366 1 39.29 ? C8 G5P 601 A 1 
HETATM 31 N N7 G5P . . . C 2 22.471 1.555 -5.749 1 38.92 ? N7 G5P 601 A 1 
HETATM 32 C C5 G5P . . . C 2 23.791 1.9 -5.481 1 36.08 ? C5 G5P 601 A 1 
HETATM 33 C C6 G5P . . . C 2 24.464 3.134 -5.687 1 35.9 ? C6 G5P 601 A 1 
HETATM 34 O O6 G5P . . . C 2 23.949 4.161 -6.161 1 31.31 ? O6 G5P 601 A 1 
HETATM 35 N N1 G5P . . . C 2 25.823 3.105 -5.291 1 35.46 ? N1 G5P 601 A 1 
HETATM 36 C C2 G5P . . . C 2 26.431 1.959 -4.75 1 38.22 ? C2 G5P 601 A 1 
HETATM 37 N N2 G5P . . . C 2 27.739 2.029 -4.402 1 39.42 ? N2 G5P 601 A 1 
HETATM 38 N N3 G5P . . . C 2 25.77 0.785 -4.558 1 37.47 ? N3 G5P 601 A 1 
HETATM 39 C C4 G5P . . . C 2 24.473 0.832 -4.944 1 36.97 ? C4 G5P 601 A 1 
HETATM 40 O O5F G5P . . . C 2 14.294 -9.214 -1.334 1 82.52 ? O5F G5P 601 A 1 
HETATM 41 C C5F G5P . . . C 2 13.275 -10.158 -0.923 1 83.44 ? C5F G5P 601 A 1 
HETATM 42 C C4F G5P . . . C 2 13.929 -11.447 -0.554 1 84.39 ? C4F G5P 601 A 1 
HETATM 43 O O4F G5P . . . C 2 12.973 -12.492 -0.421 1 84.58 ? O4F G5P 601 A 1 
HETATM 44 C C1F G5P . . . C 2 13.366 -13.658 -1.192 1 84.67 ? C1F G5P 601 A 1 
HETATM 45 C C2F G5P . . . C 2 14.215 -13.091 -2.324 1 84.82 ? C2F G5P 601 A 1 
HETATM 46 O O2F G5P . . . C 2 14.953 -14.187 -2.877 1 84.41 ? O2F G5P 601 A 1 
HETATM 47 C C3F G5P . . . C 2 15.043 -11.993 -1.582 1 84.55 ? C3F G5P 601 A 1 
HETATM 48 O O3F G5P . . . C 2 16.108 -12.519 -0.725 1 83.55 ? O3F G5P 601 A 1 
HETATM 49 N N9A G5P . . . C 2 12.216 -14.454 -1.725 1 84.74 ? N9A G5P 601 A 1 
HETATM 50 C C4A G5P . . . C 2 11.863 -15.733 -1.269 1 84.76 ? C4A G5P 601 A 1 
HETATM 51 N N3A G5P . . . C 2 12.505 -16.47 -0.261 1 84.22 ? N3A G5P 601 A 1 
HETATM 52 C C2A G5P . . . C 2 11.941 -17.689 -0.033 1 83.48 ? C2A G5P 601 A 1 
HETATM 53 N N1A G5P . . . C 2 10.848 -18.197 -0.701 1 83.88 ? N1A G5P 601 A 1 
HETATM 54 C C6A G5P . . . C 2 10.223 -17.469 -1.693 1 84.51 ? C6A G5P 601 A 1 
HETATM 55 N N6A G5P . . . C 2 9.184 -18.074 -2.26 1 84.59 ? N6A G5P 601 A 1 
HETATM 56 C C5A G5P . . . C 2 10.754 -16.139 -2.012 1 84.47 ? C5A G5P 601 A 1 
HETATM 57 N N7A G5P . . . C 2 10.422 -15.14 -2.909 1 84.39 ? N7A G5P 601 A 1 
HETATM 58 C C8A G5P . . . C 2 11.299 -14.169 -2.711 1 84.45 ? C8A G5P 601 A 1 
#
_model_server_stats.io_time_ms              55 
_model_server_stats.parse_time_ms           7 
_model_server_stats.create_model_time_ms    23 
_model_server_stats.query_time_ms           322 
_model_server_stats.encode_time_ms          5 
_model_server_stats.element_count           58 
#