data_1F7P
#
_model_server_result.job_id            EaD4eJBQ-L2jH6iv9lPrsg 
_model_server_result.datetime_utc      '2024-10-24 04:30:28' 
_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          1f7p 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"E","auth_seq_id":702}' 
#
_entry.id    1F7P 
#
_exptl.entry_id    1F7P 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              404.161 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            "URIDINE-5'-DIPHOSPHATE" 
_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         90 
_cell.entry_id            1F7P 
_cell.length_a            68.77 
_cell.length_b            72 
_cell.length_c            77.28 
_cell.Z_PDB               12 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 1F7P 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        19 
_symmetry.space_group_name_Hall    . 
_symmetry.space_group_name_H-M     'P 21 21 21' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    trimeric 
_pdbx_struct_assembly.oligomeric_count      3 
_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,H 
_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 D N N 
? 2 E N N 
#
_chem_comp.formula           'C9 H14 N2 O12 P2' 
_chem_comp.formula_weight    404.161 
_chem_comp.id                UDP 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              "URIDINE-5'-DIPHOSPHATE" 
_chem_comp.type              'rna linking' 
_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 UDP sing 358 n n 
N1 C6 UDP sing 359 n n 
N1 C1' UDP sing 360 n n 
C2 N3 UDP sing 361 n n 
C2 O2 UDP doub 362 n n 
N3 C4 UDP sing 363 n n 
N3 HN3 UDP sing 364 n n 
C4 C5 UDP sing 365 n n 
C4 O4 UDP doub 366 n n 
C5 C6 UDP doub 367 n n 
C5 H5 UDP sing 368 n n 
C6 H6 UDP sing 369 n n 
C1' C2' UDP sing 370 n n 
C1' O4' UDP sing 371 n n 
C1' H1' UDP sing 372 n n 
C2' O2' UDP sing 373 n n 
C2' C3' UDP sing 374 n n 
C2' H2' UDP sing 375 n n 
O2' HO2' UDP sing 376 n n 
C3' C4' UDP sing 377 n n 
C3' O3' UDP sing 378 n n 
C3' H3' UDP sing 379 n n 
C4' O4' UDP sing 380 n n 
C4' C5' UDP sing 381 n n 
C4' H4' UDP sing 382 n n 
O3' HO3' UDP sing 383 n n 
C5' O5' UDP sing 384 n n 
C5' "H5'1" UDP sing 385 n n 
C5' "H5'2" UDP sing 386 n n 
O5' PA UDP sing 387 n n 
PA O1A UDP doub 388 n n 
PA O2A UDP sing 389 n n 
PA O3A UDP sing 390 n n 
O2A HOA2 UDP sing 391 n n 
O3A PB UDP sing 392 n n 
PB O1B UDP doub 393 n n 
PB O2B UDP sing 394 n n 
PB O3B UDP sing 395 n n 
O2B HOB2 UDP sing 396 n n 
O3B HOB3 UDP sing 397 n n 
#
_atom_sites.entry_id                     1F7P 
_atom_sites.fract_transf_matrix[1][1]    0.014541 
_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]    0.013889 
_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]    0.01294 
_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
D 2 UDP A 1 701 701 UDP UDP . 
E 2 UDP C 1 702 702 UDP UDP . 
F 3 HOH A 1 601 601 HOH TIP . 
F 3 HOH A 2 602 602 HOH TIP . 
F 3 HOH A 3 604 604 HOH TIP . 
F 3 HOH A 4 606 606 HOH TIP . 
F 3 HOH A 5 607 607 HOH TIP . 
F 3 HOH A 6 610 610 HOH TIP . 
F 3 HOH A 7 615 615 HOH TIP . 
F 3 HOH A 8 617 617 HOH TIP . 
F 3 HOH A 9 618 618 HOH TIP . 
F 3 HOH A 10 620 620 HOH TIP . 
F 3 HOH A 11 622 622 HOH TIP . 
F 3 HOH A 12 627 627 HOH TIP . 
F 3 HOH A 13 628 628 HOH TIP . 
F 3 HOH A 14 637 637 HOH TIP . 
F 3 HOH A 15 641 641 HOH TIP . 
F 3 HOH A 16 648 648 HOH TIP . 
F 3 HOH A 17 651 651 HOH TIP . 
F 3 HOH A 18 654 654 HOH TIP . 
F 3 HOH A 19 664 664 HOH TIP . 
F 3 HOH A 20 665 665 HOH TIP . 
F 3 HOH A 21 666 666 HOH TIP . 
F 3 HOH A 22 669 669 HOH TIP . 
F 3 HOH A 23 675 675 HOH TIP . 
F 3 HOH A 24 680 680 HOH TIP . 
F 3 HOH A 25 681 681 HOH TIP . 
F 3 HOH A 26 684 684 HOH TIP . 
F 3 HOH A 27 687 687 HOH TIP . 
F 3 HOH A 28 695 695 HOH TIP . 
F 3 HOH A 29 696 696 HOH TIP . 
G 3 HOH B 1 605 605 HOH TIP . 
G 3 HOH B 2 616 616 HOH TIP . 
G 3 HOH B 3 624 624 HOH TIP . 
G 3 HOH B 4 626 626 HOH TIP . 
G 3 HOH B 5 634 634 HOH TIP . 
G 3 HOH B 6 635 635 HOH TIP . 
G 3 HOH B 7 636 636 HOH TIP . 
G 3 HOH B 8 638 638 HOH TIP . 
G 3 HOH B 9 640 640 HOH TIP . 
G 3 HOH B 10 645 645 HOH TIP . 
G 3 HOH B 11 646 646 HOH TIP . 
G 3 HOH B 12 649 649 HOH TIP . 
G 3 HOH B 13 653 653 HOH TIP . 
G 3 HOH B 14 656 656 HOH TIP . 
G 3 HOH B 15 659 659 HOH TIP . 
G 3 HOH B 16 660 660 HOH TIP . 
G 3 HOH B 17 663 663 HOH TIP . 
G 3 HOH B 18 667 667 HOH TIP . 
G 3 HOH B 19 668 668 HOH TIP . 
G 3 HOH B 20 670 670 HOH TIP . 
G 3 HOH B 21 671 671 HOH TIP . 
G 3 HOH B 22 672 672 HOH TIP . 
G 3 HOH B 23 673 673 HOH TIP . 
G 3 HOH B 24 674 674 HOH TIP . 
G 3 HOH B 25 677 677 HOH TIP . 
G 3 HOH B 26 679 679 HOH TIP . 
G 3 HOH B 27 683 683 HOH TIP . 
G 3 HOH B 28 686 686 HOH TIP . 
G 3 HOH B 29 690 690 HOH TIP . 
G 3 HOH B 30 691 691 HOH TIP . 
G 3 HOH B 31 693 693 HOH TIP . 
H 3 HOH C 1 603 603 HOH TIP . 
H 3 HOH C 2 608 608 HOH TIP . 
H 3 HOH C 3 609 609 HOH TIP . 
H 3 HOH C 4 611 611 HOH TIP . 
H 3 HOH C 5 612 612 HOH TIP . 
H 3 HOH C 6 613 613 HOH TIP . 
H 3 HOH C 7 614 614 HOH TIP . 
H 3 HOH C 8 619 619 HOH TIP . 
H 3 HOH C 9 621 621 HOH TIP . 
H 3 HOH C 10 623 623 HOH TIP . 
H 3 HOH C 11 625 625 HOH TIP . 
H 3 HOH C 12 629 629 HOH TIP . 
H 3 HOH C 13 630 630 HOH TIP . 
H 3 HOH C 14 631 631 HOH TIP . 
H 3 HOH C 15 632 632 HOH TIP . 
H 3 HOH C 16 633 633 HOH TIP . 
H 3 HOH C 17 639 639 HOH TIP . 
H 3 HOH C 18 642 642 HOH TIP . 
H 3 HOH C 19 643 643 HOH TIP . 
H 3 HOH C 20 644 644 HOH TIP . 
H 3 HOH C 21 647 647 HOH TIP . 
H 3 HOH C 22 650 650 HOH TIP . 
H 3 HOH C 23 652 652 HOH TIP . 
H 3 HOH C 24 655 655 HOH TIP . 
H 3 HOH C 25 657 657 HOH TIP . 
H 3 HOH C 26 658 658 HOH TIP . 
H 3 HOH C 27 661 661 HOH TIP . 
H 3 HOH C 28 662 662 HOH TIP . 
H 3 HOH C 29 676 676 HOH TIP . 
H 3 HOH C 30 678 678 HOH TIP . 
H 3 HOH C 31 682 682 HOH TIP . 
H 3 HOH C 32 685 685 HOH TIP . 
H 3 HOH C 33 688 688 HOH TIP . 
H 3 HOH C 34 689 689 HOH TIP . 
H 3 HOH C 35 692 692 HOH TIP . 
H 3 HOH C 36 694 694 HOH TIP . 
#
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 UDP . . . E 2 24.091 11.367 -4.811 1 43.09 ? N1 UDP 702 C 1 
HETATM 2 C C2 UDP . . . E 2 24.871 12.392 -4.476 1 33.44 ? C2 UDP 702 C 1 
HETATM 3 N N3 UDP . . . E 2 25.215 12.507 -3.133 1 42.16 ? N3 UDP 702 C 1 
HETATM 4 C C4 UDP . . . E 2 24.822 11.652 -2.081 1 35.28 ? C4 UDP 702 C 1 
HETATM 5 C C5 UDP . . . E 2 23.977 10.545 -2.455 1 32.12 ? C5 UDP 702 C 1 
HETATM 6 C C6 UDP . . . E 2 23.622 10.408 -3.763 1 32.07 ? C6 UDP 702 C 1 
HETATM 7 O O2 UDP . . . E 2 25.249 13.171 -5.304 1 42.06 ? O2 UDP 702 C 1 
HETATM 8 O O4 UDP . . . E 2 25.211 11.904 -0.95 1 42.72 ? O4 UDP 702 C 1 
HETATM 9 C C1' UDP . . . E 2 23.476 10.851 -6.072 1 46.92 ? C1' UDP 702 C 1 
HETATM 10 C C2' UDP . . . E 2 24.544 10.522 -7.031 1 45.94 ? C2' UDP 702 C 1 
HETATM 11 C C3' UDP . . . E 2 24.404 9.011 -7.184 1 59.94 ? C3' UDP 702 C 1 
HETATM 12 C C4' UDP . . . E 2 22.897 8.858 -7.27 1 50.32 ? C4' UDP 702 C 1 
HETATM 13 O O4' UDP . . . E 2 22.47 9.827 -6.249 1 58.41 ? O4' UDP 702 C 1 
HETATM 14 O O3' UDP . . . E 2 24.972 8.528 -8.432 1 67.14 ? O3' UDP 702 C 1 
HETATM 15 C C5' UDP . . . E 2 21.938 7.826 -6.644 1 50.57 ? C5' UDP 702 C 1 
HETATM 16 O O5' UDP . . . E 2 20.744 8.499 -5.909 1 58.55 ? O5' UDP 702 C 1 
HETATM 17 P PA UDP . . . E 2 19.923 7.285 -5.347 1 53.07 ? PA UDP 702 C 1 
HETATM 18 O O1A UDP . . . E 2 20.492 5.942 -5.654 1 54.7 ? O1A UDP 702 C 1 
HETATM 19 O O2A UDP . . . E 2 19.666 7.511 -3.887 1 58.03 ? O2A UDP 702 C 1 
HETATM 20 O O3A UDP . . . E 2 18.325 7.448 -5.713 1 58.69 ? O3A UDP 702 C 1 
HETATM 21 P PB UDP . . . E 2 16.952 7.722 -4.954 1 59.97 ? PB UDP 702 C 1 
HETATM 22 O O1B UDP . . . E 2 16.498 6.422 -4.44 1 59.78 ? O1B UDP 702 C 1 
HETATM 23 O O2B UDP . . . E 2 15.839 8.433 -5.882 1 59.88 ? O2B UDP 702 C 1 
HETATM 24 O O3B UDP . . . E 2 17.341 8.585 -3.828 1 59.84 ? O3B UDP 702 C 1 
#
_model_server_stats.io_time_ms              13 
_model_server_stats.parse_time_ms           5 
_model_server_stats.create_model_time_ms    2 
_model_server_stats.query_time_ms           251 
_model_server_stats.encode_time_ms          1 
_model_server_stats.element_count           24 
#