data_3X08
#
_model_server_result.job_id            zEvla7X7xt0OKbIyahq4PQ 
_model_server_result.datetime_utc      '2025-06-30 04:40:17' 
_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":"C","auth_seq_id":501}' 
#
_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 . . . C 2 46.927 48.127 -23.429 1 69.76 ? P 5GP 501 A 1 
HETATM 2 O O1P 5GP . . . C 2 47.205 47.027 -22.436 1 75.33 ? O1P 5GP 501 A 1 
HETATM 3 O O2P 5GP . . . C 2 45.532 48.689 -23.496 1 65.18 ? O2P 5GP 501 A 1 
HETATM 4 O O3P 5GP . . . C 2 47.368 47.657 -24.803 1 89.18 ? O3P 5GP 501 A 1 
HETATM 5 O O5' 5GP . . . C 2 47.971 49.312 -23.221 1 51.85 ? O5' 5GP 501 A 1 
HETATM 6 C C5' 5GP . . . C 2 47.691 50.404 -22.345 1 73.16 ? C5' 5GP 501 A 1 
HETATM 7 C C4' 5GP . . . C 2 48.87 51.342 -22.229 1 64.64 ? C4' 5GP 501 A 1 
HETATM 8 O O4' 5GP . . . C 2 49.967 50.649 -21.569 1 72.86 ? O4' 5GP 501 A 1 
HETATM 9 C C3' 5GP . . . C 2 49.437 51.821 -23.554 1 65.47 ? C3' 5GP 501 A 1 
HETATM 10 O O3' 5GP . . . C 2 50.065 53.089 -23.376 1 71.14 ? O3' 5GP 501 A 1 
HETATM 11 C C2' 5GP . . . C 2 50.483 50.761 -23.841 1 75.84 ? C2' 5GP 501 A 1 
HETATM 12 O O2' 5GP . . . C 2 51.463 51.127 -24.781 1 73.75 ? O2' 5GP 501 A 1 
HETATM 13 C C1' 5GP . . . C 2 51.072 50.546 -22.452 1 75.9 ? C1' 5GP 501 A 1 
HETATM 14 N N9 5GP . . . C 2 51.691 49.23 -22.27 1 74.1 ? N9 5GP 501 A 1 
HETATM 15 C C8 5GP . . . C 2 51.031 48.064 -22.335 1 57.54 ? C8 5GP 501 A 1 
HETATM 16 N N7 5GP . . . C 2 51.909 47.057 -22.119 1 61.19 ? N7 5GP 501 A 1 
HETATM 17 C C5 5GP . . . C 2 53.127 47.603 -21.921 1 60.03 ? C5 5GP 501 A 1 
HETATM 18 C C6 5GP . . . C 2 54.383 47.064 -21.66 1 64.74 ? C6 5GP 501 A 1 
HETATM 19 O O6 5GP . . . C 2 54.554 45.827 -21.57 1 63.82 ? O6 5GP 501 A 1 
HETATM 20 N N1 5GP . . . C 2 55.432 47.871 -21.508 1 61.17 ? N1 5GP 501 A 1 
HETATM 21 C C2 5GP . . . C 2 55.276 49.201 -21.595 1 63.66 ? C2 5GP 501 A 1 
HETATM 22 N N2 5GP . . . C 2 56.365 49.999 -21.422 1 72 ? N2 5GP 501 A 1 
HETATM 23 N N3 5GP . . . C 2 54.054 49.747 -21.851 1 60.67 ? N3 5GP 501 A 1 
HETATM 24 C C4 5GP . . . C 2 52.975 48.967 -22.015 1 50.82 ? C4 5GP 501 A 1 
HETATM 25 H "H5'1" 5GP . . . C 2 46.825 50.955 -22.719 1 87.64 ? "H5'1" 5GP 501 A 1 
HETATM 26 H "H5'2" 5GP . . . C 2 47.437 50.018 -21.355 1 87.64 ? "H5'2" 5GP 501 A 1 
HETATM 27 H H4' 5GP . . . C 2 48.57 52.217 -21.636 1 77.42 ? H4' 5GP 501 A 1 
HETATM 28 H H3' 5GP . . . C 2 48.664 51.838 -24.334 1 78.41 ? H3' 5GP 501 A 1 
HETATM 29 H HO3' 5GP . . . C 2 50.493 53.355 -24.201 1 85.21 ? HO3' 5GP 501 A 1 
HETATM 30 H H2' 5GP . . . C 2 49.978 49.838 -24.16 1 90.85 ? H2' 5GP 501 A 1 
HETATM 31 H HO2' 5GP . . . C 2 52.128 50.427 -24.843 1 88.35 ? HO2' 5GP 501 A 1 
HETATM 32 H H1' 5GP . . . C 2 51.8 51.342 -22.244 1 90.93 ? H1' 5GP 501 A 1 
HETATM 33 H H8 5GP . . . C 2 49.973 47.948 -22.53 1 68.9 ? H8 5GP 501 A 1 
HETATM 34 H HN1 5GP . . . C 2 56.37 47.47 -21.306 1 73.25 ? HN1 5GP 501 A 1 
HETATM 35 H HN21 5GP . . . C 2 56.273 51.003 -21.494 1 86.25 ? HN21 5GP 501 A 1 
HETATM 36 H HN22 5GP . . . C 2 57.269 49.587 -21.239 1 86.25 ? HN22 5GP 501 A 1 
#
_model_server_stats.io_time_ms              0 
_model_server_stats.parse_time_ms           13 
_model_server_stats.create_model_time_ms    7 
_model_server_stats.query_time_ms           595 
_model_server_stats.encode_time_ms          5 
_model_server_stats.element_count           36 
#