data_2TSC
#
_model_server_result.job_id            ld4lTd_06mSrn-L4FP2SQQ 
_model_server_result.datetime_utc      '2024-11-28 21:04:26' 
_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          2tsc 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"C","auth_seq_id":265}' 
#
_entry.id    2TSC 
#
_exptl.entry_id    2TSC 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              308.182 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            "2'-DEOXYURIDINE 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            2TSC 
_cell.length_a            127.1 
_cell.length_b            127.1 
_cell.length_c            67.9 
_cell.Z_PDB               12 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 2TSC 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        173 
_symmetry.space_group_name_Hall    . 
_symmetry.space_group_name_H-M     'P 63' 
#
_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,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 C N N 
? 2 E N N 
#
loop_
_struct_conn.conn_type_id
_struct_conn.details
_struct_conn.id
_struct_conn.ptnr1_label_asym_id
_struct_conn.ptnr1_label_atom_id
_struct_conn.ptnr1_label_comp_id
_struct_conn.ptnr1_label_seq_id
_struct_conn.ptnr1_auth_asym_id
_struct_conn.ptnr1_auth_comp_id
_struct_conn.ptnr1_auth_seq_id
_struct_conn.ptnr1_symmetry
_struct_conn.ptnr2_label_asym_id
_struct_conn.ptnr2_label_atom_id
_struct_conn.ptnr2_label_comp_id
_struct_conn.ptnr2_label_seq_id
_struct_conn.ptnr2_auth_asym_id
_struct_conn.ptnr2_auth_comp_id
_struct_conn.ptnr2_auth_seq_id
_struct_conn.ptnr2_symmetry
_struct_conn.pdbx_ptnr1_PDB_ins_code
_struct_conn.pdbx_ptnr1_label_alt_id
_struct_conn.pdbx_ptnr1_standard_comp_id
_struct_conn.pdbx_ptnr2_PDB_ins_code
_struct_conn.pdbx_ptnr2_label_alt_id
_struct_conn.pdbx_ptnr3_PDB_ins_code
_struct_conn.pdbx_ptnr3_label_alt_id
_struct_conn.pdbx_ptnr3_label_asym_id
_struct_conn.pdbx_ptnr3_label_atom_id
_struct_conn.pdbx_ptnr3_label_comp_id
_struct_conn.pdbx_ptnr3_label_seq_id
_struct_conn.pdbx_PDB_id
_struct_conn.pdbx_dist_value
_struct_conn.pdbx_value_order
covale ? covale1 A SG CYS 146 A CYS 146 1_555 C C6 UMP . A UMP 265 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.954 ? 
covale ? covale2 B SG CYS 146 B CYS 146 1_555 E C6 UMP . B UMP 265 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.919 ? 
#
_chem_comp.formula           'C9 H13 N2 O8 P' 
_chem_comp.formula_weight    308.182 
_chem_comp.id                UMP 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              "2'-DEOXYURIDINE 5'-MONOPHOSPHATE" 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     DUMP 
#
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 UMP sing 418 n n 
N1 C6 UMP sing 419 n n 
N1 C1' UMP sing 420 n n 
C2 N3 UMP sing 421 n n 
C2 O2 UMP doub 422 n n 
N3 C4 UMP sing 423 n n 
N3 HN3 UMP sing 424 n n 
C4 C5 UMP sing 425 n n 
C4 O4 UMP doub 426 n n 
C5 C6 UMP doub 427 n n 
C5 H5 UMP sing 428 n n 
C6 H6 UMP sing 429 n n 
C1' C2' UMP sing 430 n n 
C1' O4' UMP sing 431 n n 
C1' H1' UMP sing 432 n n 
C2' C3' UMP sing 433 n n 
C2' H2' UMP sing 434 n n 
C2' "H2''" UMP sing 435 n n 
C3' C4' UMP sing 436 n n 
C3' O3' UMP sing 437 n n 
C3' H3' UMP sing 438 n n 
C4' O4' UMP sing 439 n n 
C4' C5' UMP sing 440 n n 
C4' H4' UMP sing 441 n n 
O3' HO3' UMP sing 442 n n 
C5' O5' UMP sing 443 n n 
C5' H5' UMP sing 444 n n 
C5' "H5''" UMP sing 445 n n 
O5' P UMP sing 446 n n 
P OP1 UMP doub 447 n n 
P OP2 UMP sing 448 n n 
P OP3 UMP sing 449 n n 
OP2 HOP2 UMP sing 450 n n 
OP3 HOP3 UMP sing 451 n n 
#
_atom_sites.entry_id                     2TSC 
_atom_sites.fract_transf_matrix[1][1]    0.007868 
_atom_sites.fract_transf_matrix[1][2]    0.004542 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.009085 
_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]    0.014728 
_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 UMP A 1 265 1 UMP UMP . 
D 3 CB3 A 1 266 2 CB3 CB3 . 
E 2 UMP B 1 265 1 UMP UMP . 
F 3 CB3 B 1 266 2 CB3 CB3 . 
G 4 HOH A 1 537 537 HOH HOH . 
G 4 HOH A 2 538 538 HOH HOH . 
G 4 HOH A 3 539 539 HOH HOH . 
G 4 HOH A 4 541 541 HOH HOH . 
G 4 HOH A 5 542 542 HOH HOH . 
G 4 HOH A 6 543 543 HOH HOH . 
G 4 HOH A 7 544 544 HOH HOH . 
G 4 HOH A 8 545 545 HOH HOH . 
G 4 HOH A 9 547 547 HOH HOH . 
G 4 HOH A 10 548 548 HOH HOH . 
G 4 HOH A 11 549 549 HOH HOH . 
G 4 HOH A 12 550 550 HOH HOH . 
G 4 HOH A 13 551 551 HOH HOH . 
G 4 HOH A 14 558 558 HOH HOH . 
G 4 HOH A 15 559 559 HOH HOH . 
G 4 HOH A 16 560 560 HOH HOH . 
G 4 HOH A 17 561 561 HOH HOH . 
G 4 HOH A 18 562 562 HOH HOH . 
G 4 HOH A 19 563 563 HOH HOH . 
G 4 HOH A 20 564 564 HOH HOH . 
G 4 HOH A 21 565 565 HOH HOH . 
G 4 HOH A 22 566 566 HOH HOH . 
G 4 HOH A 23 567 567 HOH HOH . 
G 4 HOH A 24 568 568 HOH HOH . 
G 4 HOH A 25 569 569 HOH HOH . 
G 4 HOH A 26 570 570 HOH HOH . 
G 4 HOH A 27 571 571 HOH HOH . 
G 4 HOH A 28 574 574 HOH HOH . 
G 4 HOH A 29 575 575 HOH HOH . 
G 4 HOH A 30 576 576 HOH HOH . 
G 4 HOH A 31 577 577 HOH HOH . 
G 4 HOH A 32 578 578 HOH HOH . 
G 4 HOH A 33 579 579 HOH HOH . 
G 4 HOH A 34 582 582 HOH HOH . 
G 4 HOH A 35 583 583 HOH HOH . 
G 4 HOH A 36 584 584 HOH HOH . 
G 4 HOH A 37 585 585 HOH HOH . 
G 4 HOH A 38 586 586 HOH HOH . 
G 4 HOH A 39 587 587 HOH HOH . 
G 4 HOH A 40 588 588 HOH HOH . 
G 4 HOH A 41 589 589 HOH HOH . 
G 4 HOH A 42 590 590 HOH HOH . 
G 4 HOH A 43 591 591 HOH HOH . 
G 4 HOH A 44 592 592 HOH HOH . 
G 4 HOH A 45 593 593 HOH HOH . 
G 4 HOH A 46 595 595 HOH HOH . 
G 4 HOH A 47 597 597 HOH HOH . 
G 4 HOH A 48 598 598 HOH HOH . 
G 4 HOH A 49 599 599 HOH HOH . 
G 4 HOH A 50 600 600 HOH HOH . 
G 4 HOH A 51 601 601 HOH HOH . 
G 4 HOH A 52 602 602 HOH HOH . 
G 4 HOH A 53 603 603 HOH HOH . 
G 4 HOH A 54 605 605 HOH HOH . 
G 4 HOH A 55 606 606 HOH HOH . 
G 4 HOH A 56 611 611 HOH HOH . 
G 4 HOH A 57 612 612 HOH HOH . 
G 4 HOH A 58 613 613 HOH HOH . 
G 4 HOH A 59 614 614 HOH HOH . 
G 4 HOH A 60 615 615 HOH HOH . 
G 4 HOH A 61 617 617 HOH HOH . 
G 4 HOH A 62 619 619 HOH HOH . 
G 4 HOH A 63 620 620 HOH HOH . 
G 4 HOH A 64 621 621 HOH HOH . 
G 4 HOH A 65 622 622 HOH HOH . 
G 4 HOH A 66 623 623 HOH HOH . 
G 4 HOH A 67 624 624 HOH HOH . 
G 4 HOH A 68 625 625 HOH HOH . 
G 4 HOH A 69 626 626 HOH HOH . 
G 4 HOH A 70 627 627 HOH HOH . 
G 4 HOH A 71 628 628 HOH HOH . 
G 4 HOH A 72 629 629 HOH HOH . 
G 4 HOH A 73 630 630 HOH HOH . 
G 4 HOH A 74 631 631 HOH HOH . 
G 4 HOH A 75 632 632 HOH HOH . 
G 4 HOH A 76 633 633 HOH HOH . 
G 4 HOH A 77 634 634 HOH HOH . 
G 4 HOH A 78 635 635 HOH HOH . 
G 4 HOH A 79 637 637 HOH HOH . 
G 4 HOH A 80 638 638 HOH HOH . 
G 4 HOH A 81 639 639 HOH HOH . 
G 4 HOH A 82 640 640 HOH HOH . 
G 4 HOH A 83 642 642 HOH HOH . 
G 4 HOH A 84 643 643 HOH HOH . 
G 4 HOH A 85 644 644 HOH HOH . 
G 4 HOH A 86 645 645 HOH HOH . 
G 4 HOH A 87 646 646 HOH HOH . 
G 4 HOH A 88 647 647 HOH HOH . 
G 4 HOH A 89 648 648 HOH HOH . 
G 4 HOH A 90 651 651 HOH HOH . 
G 4 HOH A 91 652 652 HOH HOH . 
G 4 HOH A 92 653 653 HOH HOH . 
G 4 HOH A 93 655 655 HOH HOH . 
G 4 HOH A 94 657 657 HOH HOH . 
G 4 HOH A 95 659 659 HOH HOH . 
G 4 HOH A 96 667 667 HOH HOH . 
G 4 HOH A 97 668 668 HOH HOH . 
G 4 HOH A 98 670 670 HOH HOH . 
G 4 HOH A 99 671 671 HOH HOH . 
G 4 HOH A 100 672 672 HOH HOH . 
G 4 HOH A 101 673 673 HOH HOH . 
G 4 HOH A 102 674 674 HOH HOH . 
G 4 HOH A 103 676 676 HOH HOH . 
G 4 HOH A 104 703 703 HOH HOH . 
G 4 HOH A 105 709 709 HOH HOH . 
G 4 HOH A 106 710 710 HOH HOH . 
G 4 HOH A 107 714 714 HOH HOH . 
G 4 HOH A 108 723 723 HOH HOH . 
G 4 HOH A 109 726 726 HOH HOH . 
G 4 HOH A 110 738 738 HOH HOH . 
G 4 HOH A 111 739 739 HOH HOH . 
G 4 HOH A 112 743 743 HOH HOH . 
G 4 HOH A 113 744 744 HOH HOH . 
H 4 HOH B 1 533 533 HOH HOH . 
H 4 HOH B 2 534 534 HOH HOH . 
H 4 HOH B 3 535 535 HOH HOH . 
H 4 HOH B 4 536 536 HOH HOH . 
H 4 HOH B 5 540 540 HOH HOH . 
H 4 HOH B 6 546 546 HOH HOH . 
H 4 HOH B 7 552 552 HOH HOH . 
H 4 HOH B 8 553 553 HOH HOH . 
H 4 HOH B 9 555 555 HOH HOH . 
H 4 HOH B 10 556 556 HOH HOH . 
H 4 HOH B 11 557 557 HOH HOH . 
H 4 HOH B 12 572 572 HOH HOH . 
H 4 HOH B 13 580 580 HOH HOH . 
H 4 HOH B 14 581 581 HOH HOH . 
H 4 HOH B 15 594 594 HOH HOH . 
H 4 HOH B 16 596 596 HOH HOH . 
H 4 HOH B 17 607 607 HOH HOH . 
H 4 HOH B 18 608 608 HOH HOH . 
H 4 HOH B 19 609 609 HOH HOH . 
H 4 HOH B 20 610 610 HOH HOH . 
H 4 HOH B 21 616 616 HOH HOH . 
H 4 HOH B 22 618 618 HOH HOH . 
H 4 HOH B 23 636 636 HOH HOH . 
H 4 HOH B 24 654 654 HOH HOH . 
H 4 HOH B 25 660 660 HOH HOH . 
H 4 HOH B 26 661 661 HOH HOH . 
H 4 HOH B 27 662 662 HOH HOH . 
H 4 HOH B 28 663 663 HOH HOH . 
H 4 HOH B 29 664 664 HOH HOH . 
H 4 HOH B 30 665 665 HOH HOH . 
H 4 HOH B 31 666 666 HOH HOH . 
H 4 HOH B 32 675 675 HOH HOH . 
H 4 HOH B 33 677 677 HOH HOH . 
H 4 HOH B 34 678 678 HOH HOH . 
H 4 HOH B 35 679 679 HOH HOH . 
H 4 HOH B 36 680 680 HOH HOH . 
H 4 HOH B 37 682 682 HOH HOH . 
H 4 HOH B 38 683 683 HOH HOH . 
H 4 HOH B 39 684 684 HOH HOH . 
H 4 HOH B 40 685 685 HOH HOH . 
H 4 HOH B 41 686 686 HOH HOH . 
H 4 HOH B 42 687 687 HOH HOH . 
H 4 HOH B 43 688 688 HOH HOH . 
H 4 HOH B 44 689 689 HOH HOH . 
H 4 HOH B 45 690 690 HOH HOH . 
H 4 HOH B 46 691 691 HOH HOH . 
H 4 HOH B 47 692 692 HOH HOH . 
H 4 HOH B 48 693 693 HOH HOH . 
H 4 HOH B 49 694 694 HOH HOH . 
H 4 HOH B 50 695 695 HOH HOH . 
H 4 HOH B 51 696 696 HOH HOH . 
H 4 HOH B 52 697 697 HOH HOH . 
H 4 HOH B 53 698 698 HOH HOH . 
H 4 HOH B 54 699 699 HOH HOH . 
H 4 HOH B 55 700 700 HOH HOH . 
H 4 HOH B 56 701 701 HOH HOH . 
H 4 HOH B 57 702 702 HOH HOH . 
H 4 HOH B 58 704 704 HOH HOH . 
H 4 HOH B 59 706 706 HOH HOH . 
H 4 HOH B 60 707 707 HOH HOH . 
H 4 HOH B 61 708 708 HOH HOH . 
H 4 HOH B 62 711 711 HOH HOH . 
H 4 HOH B 63 713 713 HOH HOH . 
H 4 HOH B 64 715 715 HOH HOH . 
H 4 HOH B 65 716 716 HOH HOH . 
H 4 HOH B 66 717 717 HOH HOH . 
H 4 HOH B 67 718 718 HOH HOH . 
H 4 HOH B 68 721 721 HOH HOH . 
H 4 HOH B 69 724 724 HOH HOH . 
H 4 HOH B 70 725 725 HOH HOH . 
H 4 HOH B 71 727 727 HOH HOH . 
H 4 HOH B 72 728 728 HOH HOH . 
H 4 HOH B 73 729 729 HOH HOH . 
H 4 HOH B 74 730 730 HOH HOH . 
H 4 HOH B 75 731 731 HOH HOH . 
H 4 HOH B 76 733 733 HOH HOH . 
H 4 HOH B 77 734 734 HOH HOH . 
H 4 HOH B 78 735 735 HOH HOH . 
H 4 HOH B 79 736 736 HOH HOH . 
H 4 HOH B 80 737 737 HOH HOH . 
H 4 HOH B 81 740 740 HOH HOH . 
H 4 HOH B 82 741 741 HOH HOH . 
H 4 HOH B 83 742 742 HOH HOH . 
H 4 HOH B 84 745 745 HOH HOH . 
H 4 HOH B 85 746 746 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 UMP . . . C 2 17.324 20.155 31.266 1 8.44 ? N1 UMP 265 A 1 
HETATM 2 C C2 UMP . . . C 2 18.298 20.159 32.29 1 6.79 ? C2 UMP 265 A 1 
HETATM 3 N N3 UMP . . . C 2 19.147 19.096 32.409 1 4.26 ? N3 UMP 265 A 1 
HETATM 4 C C4 UMP . . . C 2 19.221 18.047 31.527 1 5.73 ? C4 UMP 265 A 1 
HETATM 5 C C5 UMP . . . C 2 18.218 18.163 30.451 1 6.71 ? C5 UMP 265 A 1 
HETATM 6 C C6 UMP . . . C 2 17.793 19.504 30.11 1 7.83 ? C6 UMP 265 A 1 
HETATM 7 O O2 UMP . . . C 2 18.156 20.785 33.249 1 8.04 ? O2 UMP 265 A 1 
HETATM 8 O O4 UMP . . . C 2 20.229 17.383 31.415 1 6.7 ? O4 UMP 265 A 1 
HETATM 9 C C1' UMP . . . C 2 16.308 20.97 31.204 1 8.54 ? C1' UMP 265 A 1 
HETATM 10 C C2' UMP . . . C 2 16.45 22.596 31.172 1 8.98 ? C2' UMP 265 A 1 
HETATM 11 C C3' UMP . . . C 2 15.085 22.962 30.558 1 9.03 ? C3' UMP 265 A 1 
HETATM 12 C C4' UMP . . . C 2 14.821 21.816 29.554 1 7.87 ? C4' UMP 265 A 1 
HETATM 13 O O3' UMP . . . C 2 14.054 23.012 31.535 1 7.96 ? O3' UMP 265 A 1 
HETATM 14 O O4' UMP . . . C 2 15.273 20.635 30.185 1 7.55 ? O4' UMP 265 A 1 
HETATM 15 C C5' UMP . . . C 2 15.191 21.88 28.198 1 9.05 ? C5' UMP 265 A 1 
HETATM 16 O O5' UMP . . . C 2 14.63 22.808 27.466 1 9.03 ? O5' UMP 265 A 1 
HETATM 17 P P UMP . . . C 2 15.179 23.908 26.519 1 8.73 ? P UMP 265 A 1 
HETATM 18 O OP1 UMP . . . C 2 14.052 24.616 25.844 1 10.89 ? OP1 UMP 265 A 1 
HETATM 19 O OP2 UMP . . . C 2 16.021 24.946 27.386 1 9.01 ? OP2 UMP 265 A 1 
HETATM 20 O OP3 UMP . . . C 2 16.07 23.144 25.483 1 8.74 ? OP3 UMP 265 A 1 
#
_model_server_stats.io_time_ms              58 
_model_server_stats.parse_time_ms           16 
_model_server_stats.create_model_time_ms    6 
_model_server_stats.query_time_ms           281 
_model_server_stats.encode_time_ms          4 
_model_server_stats.element_count           20 
#