data_6DSR
#
_model_server_result.job_id            U26H77ObFNN3NvP6-t1PdA 
_model_server_result.datetime_utc      '2024-12-02 08:19:47' 
_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          6dsr 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"D","auth_seq_id":401}' 
#
_entry.id    6DSR 
#
_exptl.entry_id    6DSR 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              324.181 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            "URIDINE-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          90 
_cell.angle_gamma         120 
_cell.entry_id            6DSR 
_cell.length_a            201.879 
_cell.length_b            201.879 
_cell.length_c            44.191 
_cell.Z_PDB               18 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 6DSR 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        146 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'H 3' 
#
_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           'C9 H13 N2 O9 P' 
_chem_comp.formula_weight    324.181 
_chem_comp.id                U5P 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              "URIDINE-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
N1 C2 U5P sing 330 n n 
N1 C6 U5P sing 331 n n 
N1 C1' U5P sing 332 n n 
C2 N3 U5P sing 333 n n 
C2 O2 U5P doub 334 n n 
N3 C4 U5P sing 335 n n 
N3 HN3 U5P sing 336 n n 
C4 C5 U5P sing 337 n n 
C4 O4 U5P doub 338 n n 
C5 C6 U5P doub 339 n n 
C5 H5 U5P sing 340 n n 
C6 H6 U5P sing 341 n n 
C1' C2' U5P sing 342 n n 
C1' O4' U5P sing 343 n n 
C1' H1' U5P sing 344 n n 
C2' O2' U5P sing 345 n n 
C2' C3' U5P sing 346 n n 
C2' H2' U5P sing 347 n n 
O2' HO2' U5P sing 348 n n 
C3' C4' U5P sing 349 n n 
C3' O3' U5P sing 350 n n 
C3' H3' U5P sing 351 n n 
C4' O4' U5P sing 352 n n 
C4' C5' U5P sing 353 n n 
C4' H4' U5P sing 354 n n 
O3' HO3' U5P sing 355 n n 
C5' O5' U5P sing 356 n n 
C5' "H5'1" U5P sing 357 n n 
C5' "H5'2" U5P sing 358 n n 
O5' P U5P sing 359 n n 
P O1P U5P doub 360 n n 
P O2P U5P sing 361 n n 
P O3P U5P sing 362 n n 
O2P HOP2 U5P sing 363 n n 
O3P HOP3 U5P sing 364 n n 
#
_atom_sites.entry_id                     6DSR 
_atom_sites.fract_transf_matrix[1][1]    0.004953 
_atom_sites.fract_transf_matrix[1][2]    0.00286 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.00572 
_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]    0.022629 
_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 U5P A 1 401 1 U5P U5P . 
D 2 U5P B 1 401 2 U5P U5P . 
E 3 HOH A 1 501 30 HOH HOH . 
E 3 HOH A 2 502 5 HOH HOH . 
E 3 HOH A 3 503 16 HOH HOH . 
E 3 HOH A 4 504 54 HOH HOH . 
E 3 HOH A 5 505 40 HOH HOH . 
E 3 HOH A 6 506 47 HOH HOH . 
E 3 HOH A 7 507 32 HOH HOH . 
E 3 HOH A 8 508 31 HOH HOH . 
E 3 HOH A 9 509 26 HOH HOH . 
E 3 HOH A 10 510 2 HOH HOH . 
E 3 HOH A 11 511 15 HOH HOH . 
E 3 HOH A 12 512 44 HOH HOH . 
E 3 HOH A 13 513 46 HOH HOH . 
E 3 HOH A 14 514 45 HOH HOH . 
E 3 HOH A 15 515 35 HOH HOH . 
E 3 HOH A 16 516 20 HOH HOH . 
E 3 HOH A 17 517 9 HOH HOH . 
E 3 HOH A 18 518 19 HOH HOH . 
E 3 HOH A 19 519 17 HOH HOH . 
E 3 HOH A 20 520 23 HOH HOH . 
E 3 HOH A 21 521 21 HOH HOH . 
E 3 HOH A 22 522 33 HOH HOH . 
E 3 HOH A 23 523 29 HOH HOH . 
E 3 HOH A 24 524 18 HOH HOH . 
E 3 HOH A 25 525 12 HOH HOH . 
E 3 HOH A 26 526 25 HOH HOH . 
E 3 HOH A 27 527 52 HOH HOH . 
E 3 HOH A 28 528 49 HOH HOH . 
F 3 HOH B 1 501 3 HOH HOH . 
F 3 HOH B 2 502 37 HOH HOH . 
F 3 HOH B 3 503 50 HOH HOH . 
F 3 HOH B 4 504 6 HOH HOH . 
F 3 HOH B 5 505 28 HOH HOH . 
F 3 HOH B 6 506 42 HOH HOH . 
F 3 HOH B 7 507 7 HOH HOH . 
F 3 HOH B 8 508 38 HOH HOH . 
F 3 HOH B 9 509 22 HOH HOH . 
F 3 HOH B 10 510 1 HOH HOH . 
F 3 HOH B 11 511 13 HOH HOH . 
F 3 HOH B 12 512 4 HOH HOH . 
F 3 HOH B 13 513 41 HOH HOH . 
F 3 HOH B 14 514 8 HOH HOH . 
F 3 HOH B 15 515 27 HOH HOH . 
F 3 HOH B 16 516 43 HOH HOH . 
F 3 HOH B 17 517 14 HOH HOH . 
F 3 HOH B 18 518 48 HOH HOH . 
F 3 HOH B 19 519 11 HOH HOH . 
F 3 HOH B 20 520 10 HOH HOH . 
F 3 HOH B 21 521 34 HOH HOH . 
F 3 HOH B 22 522 36 HOH HOH . 
F 3 HOH B 23 523 51 HOH HOH . 
F 3 HOH B 24 524 39 HOH HOH . 
F 3 HOH B 25 525 24 HOH HOH . 
F 3 HOH B 26 526 53 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 N N1 U5P . . . D 2 38.421 22.476 6.594 1 46.16 ? N1 U5P 401 B 1 
HETATM 2 C C2 U5P . . . D 2 39.072 23.048 5.35 1 56.86 ? C2 U5P 401 B 1 
HETATM 3 N N3 U5P . . . D 2 39.919 24.299 5.457 1 52.76 ? N3 U5P 401 B 1 
HETATM 4 C C4 U5P . . . D 2 40.094 24.931 6.76 1 49.46 ? C4 U5P 401 B 1 
HETATM 5 C C5 U5P . . . D 2 39.454 24.361 7.98 1 49.27 ? C5 U5P 401 B 1 
HETATM 6 C C6 U5P . . . D 2 38.613 23.119 7.876 1 50.23 ? C6 U5P 401 B 1 
HETATM 7 O O2 U5P . . . D 2 38.937 22.527 4.236 1 58.04 ? O2 U5P 401 B 1 
HETATM 8 O O4 U5P . . . D 2 40.758 25.908 6.843 1 52.31 ? O4 U5P 401 B 1 
HETATM 9 C C1' U5P . . . D 2 37.596 21.262 6.543 1 50.39 ? C1' U5P 401 B 1 
HETATM 10 C C2' U5P . . . D 2 36.405 21.348 5.583 1 49.47 ? C2' U5P 401 B 1 
HETATM 11 O O2' U5P . . . D 2 35.28 21.945 6.187 1 45.45 ? O2' U5P 401 B 1 
HETATM 12 C C3' U5P . . . D 2 36.22 19.887 5.205 1 46.2 ? C3' U5P 401 B 1 
HETATM 13 C C4' U5P . . . D 2 37.659 19.401 5.11 1 47.95 ? C4' U5P 401 B 1 
HETATM 14 O O3' U5P . . . D 2 35.555 19.202 6.266 1 41.68 ? O3' U5P 401 B 1 
HETATM 15 O O4' U5P . . . D 2 38.406 20.193 6.073 1 47.04 ? O4' U5P 401 B 1 
HETATM 16 C C5' U5P . . . D 2 38.288 19.566 3.75 1 49.77 ? C5' U5P 401 B 1 
HETATM 17 O O5' U5P . . . D 2 38.757 18.326 3.238 1 58.87 ? O5' U5P 401 B 1 
HETATM 18 P P U5P . . . D 2 38.678 18.004 1.682 1 53.21 ? P U5P 401 B 1 
HETATM 19 O O1P U5P . . . D 2 38.841 19.31 1.001 1 61.81 ? O1P U5P 401 B 1 
HETATM 20 O O2P U5P . . . D 2 37.407 17.228 1.471 1 52.44 ? O2P U5P 401 B 1 
HETATM 21 O O3P U5P . . . D 2 39.872 17.119 1.328 1 56.47 ? O3P U5P 401 B 1 
#
_model_server_stats.io_time_ms              7 
_model_server_stats.parse_time_ms           18 
_model_server_stats.create_model_time_ms    5 
_model_server_stats.query_time_ms           238 
_model_server_stats.encode_time_ms          3 
_model_server_stats.element_count           21 
#