data_3X08
#
_model_server_result.job_id            70OPsIHSAh4mPR0s5ncqRQ 
_model_server_result.datetime_utc      '2025-06-30 05:04:24' 
_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          3x08 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"D","auth_seq_id":502}' 
#
_entry.id    3X08 
#
_exptl.entry_id    3X08 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              363.221 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            "GUANOSINE-5'-MONOPHOSPHATE" 
_entity.pdbx_number_of_molecules    3 
_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            3X08 
_cell.length_a            107.381 
_cell.length_b            182.344 
_cell.length_c            107.506 
_cell.Z_PDB               16 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 3X08 
_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 
_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 
#
_chem_comp.formula           'C10 H14 N5 O8 P' 
_chem_comp.formula_weight    363.221 
_chem_comp.id                5GP 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              "GUANOSINE-5'-MONOPHOSPHATE" 
_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
P O1P 5GP doub 1 n n 
P O2P 5GP sing 2 n n 
P O3P 5GP sing 3 n n 
P O5' 5GP sing 4 n n 
O2P HOP2 5GP sing 5 n n 
O3P HOP3 5GP sing 6 n n 
O5' C5' 5GP sing 7 n n 
C5' C4' 5GP sing 8 n n 
C5' "H5'1" 5GP sing 9 n n 
C5' "H5'2" 5GP sing 10 n n 
C4' O4' 5GP sing 11 n n 
C4' C3' 5GP sing 12 n n 
C4' H4' 5GP sing 13 n n 
O4' C1' 5GP sing 14 n n 
C3' O3' 5GP sing 15 n n 
C3' C2' 5GP sing 16 n n 
C3' H3' 5GP sing 17 n n 
O3' HO3' 5GP sing 18 n n 
C2' O2' 5GP sing 19 n n 
C2' C1' 5GP sing 20 n n 
C2' H2' 5GP sing 21 n n 
O2' HO2' 5GP sing 22 n n 
C1' N9 5GP sing 23 n n 
C1' H1' 5GP sing 24 n n 
N9 C8 5GP sing 25 n y 
N9 C4 5GP sing 26 n y 
C8 N7 5GP doub 27 n y 
C8 H8 5GP sing 28 n n 
N7 C5 5GP sing 29 n y 
C5 C6 5GP sing 30 n n 
C5 C4 5GP doub 31 n y 
C6 O6 5GP doub 32 n n 
C6 N1 5GP sing 33 n n 
N1 C2 5GP sing 34 n n 
N1 HN1 5GP sing 35 n n 
C2 N2 5GP sing 36 n n 
C2 N3 5GP doub 37 n n 
N2 HN21 5GP sing 38 n n 
N2 HN22 5GP sing 39 n n 
N3 C4 5GP sing 40 n n 
#
_atom_sites.entry_id                     3X08 
_atom_sites.fract_transf_matrix[1][1]    0.009313 
_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]    0.005484 
_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]    0.009302 
_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 5GP A 1 501 501 5GP 5GP . 
D 2 5GP A 1 502 502 5GP 5GP . 
E 2 5GP A 1 503 503 5GP 5GP . 
F 3 HOH A 1 601 601 HOH HOH . 
F 3 HOH A 2 602 602 HOH HOH . 
F 3 HOH A 3 603 603 HOH HOH . 
F 3 HOH A 4 604 604 HOH HOH . 
F 3 HOH A 5 605 605 HOH HOH . 
F 3 HOH A 6 606 606 HOH HOH . 
F 3 HOH A 7 607 607 HOH HOH . 
G 3 HOH B 1 501 501 HOH HOH . 
G 3 HOH B 2 502 502 HOH HOH . 
G 3 HOH B 3 503 503 HOH HOH . 
G 3 HOH B 4 504 504 HOH HOH . 
G 3 HOH B 5 505 505 HOH HOH . 
G 3 HOH B 6 506 506 HOH HOH . 
G 3 HOH B 7 507 507 HOH HOH . 
G 3 HOH B 8 508 508 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 P 5GP . . . D 2 23.781 66.809 22.212 1 71.92 ? P 5GP 502 A 1 
HETATM 2 O O1P 5GP . . . D 2 22.458 67.36 21.748 1 84.52 ? O1P 5GP 502 A 1 
HETATM 3 O O2P 5GP . . . D 2 24.356 65.6 21.515 1 63.46 ? O2P 5GP 502 A 1 
HETATM 4 O O3P 5GP . . . D 2 23.711 66.529 23.694 1 108.72 ? O3P 5GP 502 A 1 
HETATM 5 O O5' 5GP . . . D 2 24.859 67.971 22.257 1 72.29 ? O5' 5GP 502 A 1 
HETATM 6 C C5' 5GP . . . D 2 24.555 69.296 21.84 1 71.41 ? C5' 5GP 502 A 1 
HETATM 7 C C4' 5GP . . . D 2 25.768 69.945 21.232 1 75.44 ? C4' 5GP 502 A 1 
HETATM 8 O O4' 5GP . . . D 2 26.856 69.891 22.202 1 68.61 ? O4' 5GP 502 A 1 
HETATM 9 C C3' 5GP . . . D 2 26.29 69.249 19.974 1 72.77 ? C3' 5GP 502 A 1 
HETATM 10 O O3' 5GP . . . D 2 26.943 70.185 19.119 1 74.66 ? O3' 5GP 502 A 1 
HETATM 11 C C2' 5GP . . . D 2 27.307 68.279 20.536 1 63.71 ? C2' 5GP 502 A 1 
HETATM 12 O O2' 5GP . . . D 2 28.286 67.87 19.624 1 61.34 ? O2' 5GP 502 A 1 
HETATM 13 C C1' 5GP . . . D 2 27.91 69.09 21.685 1 70.05 ? C1' 5GP 502 A 1 
HETATM 14 N N9 5GP . . . D 2 28.449 68.24 22.755 1 73.07 ? N9 5GP 502 A 1 
HETATM 15 C C8 5GP . . . D 2 27.742 67.373 23.485 1 76.87 ? C8 5GP 502 A 1 
HETATM 16 N N7 5GP . . . D 2 28.571 66.701 24.304 1 87.44 ? N7 5GP 502 A 1 
HETATM 17 C C5 5GP . . . D 2 29.823 67.125 24.065 1 93.09 ? C5 5GP 502 A 1 
HETATM 18 C C6 5GP . . . D 2 31.056 66.795 24.611 1 97.18 ? C6 5GP 502 A 1 
HETATM 19 O O6 5GP . . . D 2 31.145 65.936 25.517 1 92.1 ? O6 5GP 502 A 1 
HETATM 20 N N1 5GP . . . D 2 32.155 67.404 24.162 1 97.7 ? N1 5GP 502 A 1 
HETATM 21 C C2 5GP . . . D 2 32.072 68.323 23.2 1 88.81 ? C2 5GP 502 A 1 
HETATM 22 N N2 5GP . . . D 2 33.206 68.915 22.781 1 83.87 ? N2 5GP 502 A 1 
HETATM 23 N N3 5GP . . . D 2 30.889 68.673 22.652 1 91.9 ? N3 5GP 502 A 1 
HETATM 24 C C4 5GP . . . D 2 29.745 68.086 23.075 1 86.76 ? C4 5GP 502 A 1 
HETATM 25 H "H5'1" 5GP . . . D 2 23.746 69.272 21.107 1 85.54 ? "H5'1" 5GP 502 A 1 
HETATM 26 H "H5'2" 5GP . . . D 2 24.217 69.882 22.697 1 85.54 ? "H5'2" 5GP 502 A 1 
HETATM 27 H H4' 5GP . . . D 2 25.531 70.991 20.989 1 90.37 ? H4' 5GP 502 A 1 
HETATM 28 H H3' 5GP . . . D 2 25.481 68.712 19.46 1 87.17 ? H3' 5GP 502 A 1 
HETATM 29 H HO3' 5GP . . . D 2 27.335 69.717 18.369 1 89.43 ? HO3' 5GP 502 A 1 
HETATM 30 H H2' 5GP . . . D 2 26.782 67.406 20.948 1 76.3 ? H2' 5GP 502 A 1 
HETATM 31 H HO2' 5GP . . . D 2 28.938 67.318 20.077 1 73.46 ? HO2' 5GP 502 A 1 
HETATM 32 H H1' 5GP . . . D 2 28.704 69.734 21.284 1 83.91 ? H1' 5GP 502 A 1 
HETATM 33 H H8 5GP . . . D 2 26.667 67.244 23.438 1 92.09 ? H8 5GP 502 A 1 
HETATM 34 H HN1 5GP . . . D 2 33.081 67.162 24.568 1 117.09 ? HN1 5GP 502 A 1 
HETATM 35 H HN21 5GP . . . D 2 33.171 69.611 22.05 1 100.49 ? HN21 5GP 502 A 1 
HETATM 36 H HN22 5GP . . . D 2 34.092 68.654 23.189 1 100.49 ? HN22 5GP 502 A 1 
#
_model_server_stats.io_time_ms              15 
_model_server_stats.parse_time_ms           8 
_model_server_stats.create_model_time_ms    5 
_model_server_stats.query_time_ms           341 
_model_server_stats.encode_time_ms          4 
_model_server_stats.element_count           36 
#