data_3L85
#
_model_server_result.job_id            UOt41pOZpZLQS_K3SjflIA 
_model_server_result.datetime_utc      '2024-10-16 10:38:07' 
_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          3l85 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"C","auth_seq_id":1}' 
#
_entry.id    3L85 
#
_exptl.entry_id    3L85 
_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            "8-OXO-2'-DEOXY-GUANOSINE-5'-MONOPHOSPHATE" 
_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          121.53 
_cell.angle_gamma         90 
_cell.entry_id            3L85 
_cell.length_a            112.655 
_cell.length_b            40.008 
_cell.length_c            98.47 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 3L85 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        5 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'C 1 2 1' 
#
_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 
_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 
#
_chem_comp.formula           'C10 H14 N5 O8 P' 
_chem_comp.formula_weight    363.221 
_chem_comp.id                8OG 
_chem_comp.mon_nstd_flag     n 
_chem_comp.name              "8-OXO-2'-DEOXY-GUANOSINE-5'-MONOPHOSPHATE" 
_chem_comp.type              'dna linking' 
_chem_comp.pdbx_synonyms     "8-OXO-7,8-DIHYDRO-2'-DEOXY-GUANOSINE-5'-MONOPHOSPHATE" 
#
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
OP3 P 8OG sing 1 n n 
OP3 HOP3 8OG sing 2 n n 
P OP1 8OG doub 3 n n 
P OP2 8OG sing 4 n n 
P O5' 8OG sing 5 n n 
OP2 HOP2 8OG sing 6 n n 
O5' C5' 8OG sing 7 n n 
C5' C4' 8OG sing 8 n n 
C5' H5' 8OG sing 9 n n 
C5' "H5''" 8OG sing 10 n n 
C4' O4' 8OG sing 11 n n 
C4' C3' 8OG sing 12 n n 
C4' H4' 8OG sing 13 n n 
O4' C1' 8OG sing 14 n n 
C3' O3' 8OG sing 15 n n 
C3' C2' 8OG sing 16 n n 
C3' H3' 8OG sing 17 n n 
O3' HO3' 8OG sing 18 n n 
C2' C1' 8OG sing 19 n n 
C2' H2' 8OG sing 20 n n 
C2' "H2''" 8OG sing 21 n n 
C1' N9 8OG sing 22 n n 
C1' H1' 8OG sing 23 n n 
N9 C8 8OG sing 24 n n 
N9 C4 8OG sing 25 n n 
C8 N7 8OG sing 26 n n 
C8 O8 8OG doub 27 n n 
N7 C5 8OG sing 28 n n 
N7 H7 8OG sing 29 n n 
C5 C6 8OG sing 30 n n 
C5 C4 8OG doub 31 n n 
C6 O6 8OG doub 32 n n 
C6 N1 8OG sing 33 n n 
N1 C2 8OG sing 34 n n 
N1 H1 8OG sing 35 n n 
C2 N2 8OG sing 36 n n 
C2 N3 8OG doub 37 n n 
N2 H21 8OG sing 38 n n 
N2 H22 8OG sing 39 n n 
N3 C4 8OG sing 40 n n 
#
_atom_sites.entry_id                     3L85 
_atom_sites.fract_transf_matrix[1][1]    0.008877 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.005446 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.024995 
_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]    0.011914 
_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 8OG A 1 1 1 8OG 8OG . 
D 2 8OG A 1 2 2 8OG 8OG . 
E 3 HOH A 1 300 300 HOH HOH . 
E 3 HOH A 2 301 301 HOH HOH . 
E 3 HOH A 3 302 302 HOH HOH . 
E 3 HOH A 4 303 303 HOH HOH . 
E 3 HOH A 5 304 304 HOH HOH . 
E 3 HOH A 6 305 305 HOH HOH . 
E 3 HOH A 7 306 306 HOH HOH . 
E 3 HOH A 8 307 307 HOH HOH . 
E 3 HOH A 9 308 308 HOH HOH . 
E 3 HOH A 10 309 309 HOH HOH . 
E 3 HOH A 11 310 310 HOH HOH . 
E 3 HOH A 12 311 311 HOH HOH . 
E 3 HOH A 13 312 312 HOH HOH . 
E 3 HOH A 14 313 313 HOH HOH . 
E 3 HOH A 15 314 314 HOH HOH . 
E 3 HOH A 16 315 315 HOH HOH . 
E 3 HOH A 17 316 316 HOH HOH . 
E 3 HOH A 18 317 317 HOH HOH . 
E 3 HOH A 19 318 318 HOH HOH . 
E 3 HOH A 20 319 319 HOH HOH . 
E 3 HOH A 21 320 320 HOH HOH . 
E 3 HOH A 22 321 321 HOH HOH . 
E 3 HOH A 23 322 322 HOH HOH . 
E 3 HOH A 24 323 323 HOH HOH . 
E 3 HOH A 25 324 324 HOH HOH . 
E 3 HOH A 26 325 325 HOH HOH . 
E 3 HOH A 27 326 326 HOH HOH . 
E 3 HOH A 28 327 327 HOH HOH . 
E 3 HOH A 29 328 328 HOH HOH . 
E 3 HOH A 30 329 329 HOH HOH . 
E 3 HOH A 31 330 330 HOH HOH . 
E 3 HOH A 32 331 331 HOH HOH . 
E 3 HOH A 33 332 332 HOH HOH . 
E 3 HOH A 34 333 333 HOH HOH . 
E 3 HOH A 35 334 334 HOH HOH . 
E 3 HOH A 36 335 335 HOH HOH . 
E 3 HOH A 37 336 336 HOH HOH . 
E 3 HOH A 38 337 337 HOH HOH . 
E 3 HOH A 39 338 338 HOH HOH . 
E 3 HOH A 40 339 339 HOH HOH . 
E 3 HOH A 41 340 340 HOH HOH . 
E 3 HOH A 42 341 341 HOH HOH . 
F 3 HOH B 1 342 342 HOH HOH . 
F 3 HOH B 2 343 343 HOH HOH . 
F 3 HOH B 3 344 344 HOH HOH . 
F 3 HOH B 4 345 345 HOH HOH . 
F 3 HOH B 5 346 346 HOH HOH . 
F 3 HOH B 6 347 347 HOH HOH . 
F 3 HOH B 7 348 348 HOH HOH . 
F 3 HOH B 8 349 349 HOH HOH . 
F 3 HOH B 9 350 350 HOH HOH . 
F 3 HOH B 10 351 351 HOH HOH . 
F 3 HOH B 11 352 352 HOH HOH . 
F 3 HOH B 12 353 353 HOH HOH . 
F 3 HOH B 13 354 354 HOH HOH . 
F 3 HOH B 14 355 355 HOH HOH . 
F 3 HOH B 15 356 356 HOH HOH . 
F 3 HOH B 16 357 357 HOH HOH . 
F 3 HOH B 17 358 358 HOH HOH . 
F 3 HOH B 18 359 359 HOH HOH . 
F 3 HOH B 19 360 360 HOH HOH . 
F 3 HOH B 20 361 361 HOH HOH . 
F 3 HOH B 21 362 362 HOH HOH . 
F 3 HOH B 22 363 363 HOH HOH . 
F 3 HOH B 23 364 364 HOH HOH . 
F 3 HOH B 24 365 365 HOH HOH . 
F 3 HOH B 25 366 366 HOH HOH . 
F 3 HOH B 26 367 367 HOH HOH . 
F 3 HOH B 27 368 368 HOH HOH . 
F 3 HOH B 28 369 369 HOH HOH . 
F 3 HOH B 29 370 370 HOH HOH . 
F 3 HOH B 30 371 371 HOH HOH . 
F 3 HOH B 31 372 372 HOH HOH . 
F 3 HOH B 32 373 373 HOH HOH . 
F 3 HOH B 33 374 374 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 O OP3 8OG . . . C 2 -24.608 17.971 71.836 1 61.6 ? OP3 8OG 1 A 1 
HETATM 2 P P 8OG . . . C 2 -23.924 19.206 71.014 1 73.13 ? P 8OG 1 A 1 
HETATM 3 O OP1 8OG . . . C 2 -24.959 20.249 70.808 1 64.29 ? OP1 8OG 1 A 1 
HETATM 4 O OP2 8OG . . . C 2 -23.208 18.68 69.815 1 53.55 ? OP2 8OG 1 A 1 
HETATM 5 O O5' 8OG . . . C 2 -22.887 19.688 72.126 1 64.62 ? O5' 8OG 1 A 1 
HETATM 6 C C5' 8OG . . . C 2 -23.35 20.328 73.334 1 64.2 ? C5' 8OG 1 A 1 
HETATM 7 C C4' 8OG . . . C 2 -22.938 19.473 74.517 1 63.71 ? C4' 8OG 1 A 1 
HETATM 8 O O4' 8OG . . . C 2 -21.678 19.928 75.065 1 65.74 ? O4' 8OG 1 A 1 
HETATM 9 C C3' 8OG . . . C 2 -23.893 19.519 75.696 1 61.88 ? C3' 8OG 1 A 1 
HETATM 10 O O3' 8OG . . . C 2 -24.941 18.586 75.464 1 64.8 ? O3' 8OG 1 A 1 
HETATM 11 C C2' 8OG . . . C 2 -22.986 19.011 76.805 1 59.98 ? C2' 8OG 1 A 1 
HETATM 12 C C1' 8OG . . . C 2 -21.669 19.692 76.472 1 64.31 ? C1' 8OG 1 A 1 
HETATM 13 N N9 8OG . . . C 2 -21.425 20.966 77.185 1 61.91 ? N9 8OG 1 A 1 
HETATM 14 C C8 8OG . . . C 2 -22.321 21.837 77.774 1 60.58 ? C8 8OG 1 A 1 
HETATM 15 N N7 8OG . . . C 2 -21.724 22.864 78.319 1 59.1 ? N7 8OG 1 A 1 
HETATM 16 C C5 8OG . . . C 2 -20.372 22.665 78.084 1 56 ? C5 8OG 1 A 1 
HETATM 17 C C6 8OG . . . C 2 -19.256 23.454 78.446 1 55.54 ? C6 8OG 1 A 1 
HETATM 18 O O6 8OG . . . C 2 -19.25 24.525 79.07 1 55.26 ? O6 8OG 1 A 1 
HETATM 19 N N1 8OG . . . C 2 -18.058 22.886 78.01 1 55.44 ? N1 8OG 1 A 1 
HETATM 20 C C2 8OG . . . C 2 -17.958 21.703 77.313 1 57.49 ? C2 8OG 1 A 1 
HETATM 21 N N2 8OG . . . C 2 -16.72 21.31 76.974 1 55.34 ? N2 8OG 1 A 1 
HETATM 22 N N3 8OG . . . C 2 -19 20.956 76.97 1 60.88 ? N3 8OG 1 A 1 
HETATM 23 C C4 8OG . . . C 2 -20.171 21.499 77.387 1 59.41 ? C4 8OG 1 A 1 
HETATM 24 O O8 8OG . . . C 2 -23.545 21.716 77.811 1 59.46 ? O8 8OG 1 A 1 
#
_model_server_stats.io_time_ms              7 
_model_server_stats.parse_time_ms           6 
_model_server_stats.create_model_time_ms    6 
_model_server_stats.query_time_ms           267 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           24 
#