data_5XDO
#
_model_server_result.job_id            veCK2eXAmqgV1-sPr2HYxw 
_model_server_result.datetime_utc      '2024-10-19 16:47:51' 
_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          5xdo 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"J","auth_seq_id":302}' 
#
_entry.id    5XDO 
#
_exptl.entry_id    5XDO 
_exptl.method      'X-RAY DIFFRACTION' 
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_entity.details                     ? 
_entity.formula_weight              114.229 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            N-OCTANE 
_entity.pdbx_number_of_molecules    4 
_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            5XDO 
_cell.length_a            121.62 
_cell.length_b            146.33 
_cell.length_c            77.53 
_cell.Z_PDB               16 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 5XDO 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        21 
_symmetry.space_group_name_Hall    . 
_symmetry.space_group_name_H-M     'C 2 2 2' 
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_pdbx_struct_assembly.method_details        ? 
_pdbx_struct_assembly.oligomeric_details    dimeric 
_pdbx_struct_assembly.oligomeric_count      2 
_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,M 
_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
? 3 D N N 
? 3 E N N 
? 3 J N N 
? 3 K N N 
#
_chem_comp.formula           'C8 H18' 
_chem_comp.formula_weight    114.229 
_chem_comp.id                OCT 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              N-OCTANE 
_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
C1 C2 OCT sing 272 n n 
C1 H11 OCT sing 273 n n 
C1 H12 OCT sing 274 n n 
C1 H13 OCT sing 275 n n 
C2 C3 OCT sing 276 n n 
C2 H21 OCT sing 277 n n 
C2 H22 OCT sing 278 n n 
C3 C4 OCT sing 279 n n 
C3 H31 OCT sing 280 n n 
C3 H32 OCT sing 281 n n 
C4 C5 OCT sing 282 n n 
C4 H41 OCT sing 283 n n 
C4 H42 OCT sing 284 n n 
C5 C6 OCT sing 285 n n 
C5 H51 OCT sing 286 n n 
C5 H52 OCT sing 287 n n 
C6 C7 OCT sing 288 n n 
C6 H61 OCT sing 289 n n 
C6 H62 OCT sing 290 n n 
C7 C8 OCT sing 291 n n 
C7 H71 OCT sing 292 n n 
C7 H72 OCT sing 293 n n 
C8 H81 OCT sing 294 n n 
C8 H82 OCT sing 295 n n 
C8 H83 OCT sing 296 n n 
#
_atom_sites.entry_id                     5XDO 
_atom_sites.fract_transf_matrix[1][1]    0.008222 
_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]    0.006834 
_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]    0.012898 
_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 SPD A 1 301 2 SPD SPD . 
D 3 OCT A 1 302 2 OCT OCT . 
E 3 OCT A 1 303 4 OCT OCT . 
F 4 LNK A 1 304 1 LNK LNK . 
G 4 LNK A 1 305 2 LNK LNK . 
H 5 HEX A 1 306 1 HEX HEX . 
I 2 SPD B 1 301 1 SPD SPD . 
J 3 OCT B 1 302 1 OCT OCT . 
K 3 OCT B 1 303 3 OCT OCT . 
L 6 HOH A 1 401 6 HOH HOH . 
L 6 HOH A 2 402 2 HOH HOH . 
L 6 HOH A 3 403 13 HOH HOH . 
L 6 HOH A 4 404 12 HOH HOH . 
L 6 HOH A 5 405 1 HOH HOH . 
L 6 HOH A 6 406 5 HOH HOH . 
L 6 HOH A 7 407 10 HOH HOH . 
L 6 HOH A 8 408 3 HOH HOH . 
L 6 HOH A 9 409 4 HOH HOH . 
L 6 HOH A 10 410 17 HOH HOH . 
L 6 HOH A 11 411 11 HOH HOH . 
M 6 HOH B 1 401 14 HOH HOH . 
M 6 HOH B 2 402 8 HOH HOH . 
M 6 HOH B 3 403 9 HOH HOH . 
M 6 HOH B 4 404 7 HOH HOH . 
M 6 HOH B 5 405 15 HOH HOH . 
M 6 HOH B 6 406 16 HOH HOH . 
M 6 HOH B 7 407 18 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 C C1 OCT . . . J 3 -50.727 -25.385 13.548 1 60.18 ? C1 OCT 302 B 1 
HETATM 2 C C2 OCT . . . J 3 -50.203 -25.83 12.2 1 59.94 ? C2 OCT 302 B 1 
HETATM 3 C C3 OCT . . . J 3 -51.213 -25.497 11.123 1 52.53 ? C3 OCT 302 B 1 
HETATM 4 C C4 OCT . . . J 3 -50.573 -25.696 9.766 1 46.65 ? C4 OCT 302 B 1 
HETATM 5 C C5 OCT . . . J 3 -51.58 -25.419 8.672 1 36.61 ? C5 OCT 302 B 1 
HETATM 6 C C6 OCT . . . J 3 -50.884 -25.522 7.332 1 43.56 ? C6 OCT 302 B 1 
HETATM 7 C C7 OCT . . . J 3 -51.905 -25.461 6.217 1 50.38 ? C7 OCT 302 B 1 
HETATM 8 C C8 OCT . . . J 3 -51.198 -25.576 4.883 1 35.21 ? C8 OCT 302 B 1 
#
_model_server_stats.io_time_ms              16 
_model_server_stats.parse_time_ms           12 
_model_server_stats.create_model_time_ms    6 
_model_server_stats.query_time_ms           338 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           8 
#