data_6DSS
#
_model_server_result.job_id            qjss6GmfknEexkJWizTa6w 
_model_server_result.datetime_utc      '2024-11-30 05:40:32' 
_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          6dss 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"D","auth_seq_id":600}' 
#
_entry.id    6DSS 
#
_exptl.entry_id    6DSS 
_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            6DSS 
_cell.length_a            202.496 
_cell.length_b            202.496 
_cell.length_c            44.36 
_cell.Z_PDB               18 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 6DSS 
_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                     6DSS 
_atom_sites.fract_transf_matrix[1][1]    0.004938 
_atom_sites.fract_transf_matrix[1][2]    0.002851 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.005702 
_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]    0.022543 
_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 1 500 500 U5P U5P . 
D 2 U5P B 1 600 600 U5P U5P . 
E 3 HOH A 1 601 43 HOH HOH . 
E 3 HOH A 2 602 56 HOH HOH . 
E 3 HOH A 3 603 50 HOH HOH . 
E 3 HOH A 4 604 5 HOH HOH . 
E 3 HOH A 5 605 44 HOH HOH . 
E 3 HOH A 6 606 48 HOH HOH . 
E 3 HOH A 7 607 17 HOH HOH . 
E 3 HOH A 8 608 16 HOH HOH . 
E 3 HOH A 9 609 3 HOH HOH . 
E 3 HOH A 10 610 33 HOH HOH . 
E 3 HOH A 11 611 24 HOH HOH . 
E 3 HOH A 12 612 29 HOH HOH . 
E 3 HOH A 13 613 1 HOH HOH . 
E 3 HOH A 14 614 13 HOH HOH . 
E 3 HOH A 15 615 49 HOH HOH . 
E 3 HOH A 16 616 36 HOH HOH . 
E 3 HOH A 17 617 7 HOH HOH . 
E 3 HOH A 18 618 25 HOH HOH . 
E 3 HOH A 19 619 6 HOH HOH . 
E 3 HOH A 20 620 52 HOH HOH . 
E 3 HOH A 21 621 46 HOH HOH . 
E 3 HOH A 22 622 55 HOH HOH . 
E 3 HOH A 23 623 54 HOH HOH . 
E 3 HOH A 24 624 34 HOH HOH . 
E 3 HOH A 25 625 45 HOH HOH . 
E 3 HOH A 26 626 27 HOH HOH . 
E 3 HOH A 27 627 41 HOH HOH . 
E 3 HOH A 28 628 19 HOH HOH . 
E 3 HOH A 29 629 11 HOH HOH . 
F 3 HOH B 1 701 28 HOH HOH . 
F 3 HOH B 2 702 26 HOH HOH . 
F 3 HOH B 3 703 22 HOH HOH . 
F 3 HOH B 4 704 32 HOH HOH . 
F 3 HOH B 5 705 30 HOH HOH . 
F 3 HOH B 6 706 12 HOH HOH . 
F 3 HOH B 7 707 14 HOH HOH . 
F 3 HOH B 8 708 2 HOH HOH . 
F 3 HOH B 9 709 15 HOH HOH . 
F 3 HOH B 10 710 40 HOH HOH . 
F 3 HOH B 11 711 37 HOH HOH . 
F 3 HOH B 12 712 35 HOH HOH . 
F 3 HOH B 13 713 20 HOH HOH . 
F 3 HOH B 14 714 18 HOH HOH . 
F 3 HOH B 15 715 42 HOH HOH . 
F 3 HOH B 16 716 4 HOH HOH . 
F 3 HOH B 17 717 9 HOH HOH . 
F 3 HOH B 18 718 10 HOH HOH . 
F 3 HOH B 19 719 47 HOH HOH . 
F 3 HOH B 20 720 51 HOH HOH . 
F 3 HOH B 21 721 31 HOH HOH . 
F 3 HOH B 22 722 38 HOH HOH . 
F 3 HOH B 23 723 8 HOH HOH . 
F 3 HOH B 24 724 39 HOH HOH . 
F 3 HOH B 25 725 21 HOH HOH . 
F 3 HOH B 26 726 23 HOH HOH . 
F 3 HOH B 27 727 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 2 220.748 38.599 -26.993 1 44.35 ? N1 U5P 600 B 1 
HETATM 2 C C2 U5P . . . D 2 221.174 39.385 -28.016 1 44.35 ? C2 U5P 600 B 1 
HETATM 3 N N3 U5P . . . D 2 221.434 40.704 -27.784 1 44.35 ? N3 U5P 600 B 1 
HETATM 4 C C4 U5P . . . D 2 221.279 41.228 -26.58 1 44.35 ? C4 U5P 600 B 1 
HETATM 5 C C5 U5P . . . D 2 220.861 40.443 -25.567 1 44.35 ? C5 U5P 600 B 1 
HETATM 6 C C6 U5P . . . D 2 220.609 39.132 -25.793 1 44.35 ? C6 U5P 600 B 1 
HETATM 7 O O2 U5P . . . D 2 221.331 38.949 -29.115 1 44.35 ? O2 U5P 600 B 1 
HETATM 8 O O4 U5P . . . D 2 221.509 42.38 -26.387 1 44.35 ? O4 U5P 600 B 1 
HETATM 9 C C1' U5P . . . D 2 220.454 37.165 -27.15 1 44.35 ? C1' U5P 600 B 1 
HETATM 10 C C2' U5P . . . D 2 219.421 36.827 -28.234 1 44.35 ? C2' U5P 600 B 1 
HETATM 11 O O2' U5P . . . D 2 218.091 36.884 -27.758 1 44.35 ? O2' U5P 600 B 1 
HETATM 12 C C3' U5P . . . D 2 219.869 35.44 -28.672 1 44.35 ? C3' U5P 600 B 1 
HETATM 13 C C4' U5P . . . D 2 221.385 35.512 -28.531 1 44.35 ? C4' U5P 600 B 1 
HETATM 14 O O3' U5P . . . D 2 219.355 34.472 -27.769 1 44.35 ? O3' U5P 600 B 1 
HETATM 15 O O4' U5P . . . D 2 221.655 36.519 -27.523 1 44.35 ? O4' U5P 600 B 1 
HETATM 16 C C5' U5P . . . D 2 222.123 35.872 -29.793 1 44.35 ? C5' U5P 600 B 1 
HETATM 17 O O5' U5P . . . D 2 222.499 34.701 -30.499 1 44.35 ? O5' U5P 600 B 1 
HETATM 18 P P U5P . . . D 2 222.879 34.758 -32.04 1 44.35 ? P U5P 600 B 1 
HETATM 19 O O1P U5P . . . D 2 222.08 33.686 -32.759 1 44.35 ? O1P U5P 600 B 1 
HETATM 20 O O2P U5P . . . D 2 224.357 34.411 -32.129 1 44.35 ? O2P U5P 600 B 1 
HETATM 21 O O3P U5P . . . D 2 222.38 36.128 -32.465 1 44.35 ? O3P U5P 600 B 1 
#
_model_server_stats.io_time_ms              9 
_model_server_stats.parse_time_ms           16 
_model_server_stats.create_model_time_ms    21 
_model_server_stats.query_time_ms           249 
_model_server_stats.encode_time_ms          7 
_model_server_stats.element_count           21 
#