data_1CY7
#
_model_server_result.job_id            fCuZXCCLlQR5tyTuJwv2nA 
_model_server_result.datetime_utc      '2024-12-27 01:28:50' 
_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          1cy7 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"D","auth_seq_id":601}' 
#
_entry.id    1CY7 
#
_exptl.entry_id    1CY7 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              322.208 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            "THYMIDINE-5'-PHOSPHATE" 
_entity.pdbx_number_of_molecules    3 
_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            1CY7 
_cell.length_a            63.83 
_cell.length_b            79.37 
_cell.length_c            141.7 
_cell.Z_PDB               4 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 1CY7 
_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        ? 
_pdbx_struct_assembly.oligomeric_details    monomeric 
_pdbx_struct_assembly.oligomeric_count      1 
_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 
_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 C N N 
? 3 D N N 
? 3 E N N 
#
_chem_comp.formula           'C10 H15 N2 O8 P' 
_chem_comp.formula_weight    322.208 
_chem_comp.id                TMP 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              "THYMIDINE-5'-PHOSPHATE" 
_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
P O1P TMP doub 310 n n 
P O2P TMP sing 311 n n 
P O3P TMP sing 312 n n 
P O5' TMP sing 313 n n 
O2P HOP2 TMP sing 314 n n 
O3P HOP3 TMP sing 315 n n 
O5' C5' TMP sing 316 n n 
C5' C4' TMP sing 317 n n 
C5' "H5'1" TMP sing 318 n n 
C5' "H5'2" TMP sing 319 n n 
C4' O4' TMP sing 320 n n 
C4' C3' TMP sing 321 n n 
C4' H4' TMP sing 322 n n 
O4' C1' TMP sing 323 n n 
C3' O3' TMP sing 324 n n 
C3' C2' TMP sing 325 n n 
C3' H3' TMP sing 326 n n 
O3' HO3' TMP sing 327 n n 
C2' C1' TMP sing 328 n n 
C2' "H2'1" TMP sing 329 n n 
C2' "H2'2" TMP sing 330 n n 
C1' N1 TMP sing 331 n n 
C1' H1' TMP sing 332 n n 
N1 C2 TMP sing 333 n n 
N1 C6 TMP sing 334 n n 
C2 O2 TMP doub 335 n n 
C2 N3 TMP sing 336 n n 
N3 C4 TMP sing 337 n n 
N3 HN3 TMP sing 338 n n 
C4 O4 TMP doub 339 n n 
C4 C5 TMP sing 340 n n 
C5 C5M TMP sing 341 n n 
C5 C6 TMP doub 342 n n 
C5M H51 TMP sing 343 n n 
C5M H52 TMP sing 344 n n 
C5M H53 TMP sing 345 n n 
C6 H6 TMP sing 346 n n 
#
_atom_sites.entry_id                     1CY7 
_atom_sites.fract_transf_matrix[1][1]    0.015667 
_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]    0.012599 
_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]    0.007057 
_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
B 2 PO4 A 1 700 700 PO4 PO4 . 
C 3 TMP A 1 600 600 TMP TMP . 
D 3 TMP A 1 601 601 TMP TMP . 
E 3 TMP A 1 602 602 TMP TMP . 
F 4 HOH A 1 701 1 HOH HOH . 
F 4 HOH A 2 702 2 HOH HOH . 
F 4 HOH A 3 703 3 HOH HOH . 
F 4 HOH A 4 704 4 HOH HOH . 
F 4 HOH A 5 705 5 HOH HOH . 
F 4 HOH A 6 706 6 HOH HOH . 
F 4 HOH A 7 707 7 HOH HOH . 
F 4 HOH A 8 708 8 HOH HOH . 
F 4 HOH A 9 709 9 HOH HOH . 
F 4 HOH A 10 710 10 HOH HOH . 
F 4 HOH A 11 711 11 HOH HOH . 
F 4 HOH A 12 712 12 HOH HOH . 
F 4 HOH A 13 713 13 HOH HOH . 
F 4 HOH A 14 714 14 HOH HOH . 
F 4 HOH A 15 715 15 HOH HOH . 
F 4 HOH A 16 716 16 HOH HOH . 
F 4 HOH A 17 717 17 HOH HOH . 
F 4 HOH A 18 718 18 HOH HOH . 
F 4 HOH A 19 719 19 HOH HOH . 
F 4 HOH A 20 720 20 HOH HOH . 
F 4 HOH A 21 721 21 HOH HOH . 
F 4 HOH A 22 722 22 HOH HOH . 
F 4 HOH A 23 723 23 HOH HOH . 
F 4 HOH A 24 724 24 HOH HOH . 
F 4 HOH A 25 725 25 HOH HOH . 
F 4 HOH A 26 726 26 HOH HOH . 
F 4 HOH A 27 727 27 HOH HOH . 
F 4 HOH A 28 728 28 HOH HOH . 
F 4 HOH A 29 729 29 HOH HOH . 
F 4 HOH A 30 730 30 HOH HOH . 
F 4 HOH A 31 731 31 HOH HOH . 
F 4 HOH A 32 732 32 HOH HOH . 
F 4 HOH A 33 733 33 HOH HOH . 
F 4 HOH A 34 734 34 HOH HOH . 
F 4 HOH A 35 735 35 HOH HOH . 
F 4 HOH A 36 736 36 HOH HOH . 
F 4 HOH A 37 737 37 HOH HOH . 
F 4 HOH A 38 738 38 HOH HOH . 
F 4 HOH A 39 739 39 HOH HOH . 
F 4 HOH A 40 740 40 HOH HOH . 
F 4 HOH A 41 741 41 HOH HOH . 
F 4 HOH A 42 742 42 HOH HOH . 
F 4 HOH A 43 743 43 HOH HOH . 
F 4 HOH A 44 744 44 HOH HOH . 
F 4 HOH A 45 745 45 HOH HOH . 
F 4 HOH A 46 746 46 HOH HOH . 
F 4 HOH A 47 747 47 HOH HOH . 
F 4 HOH A 48 748 48 HOH HOH . 
F 4 HOH A 49 749 49 HOH HOH . 
F 4 HOH A 50 750 50 HOH HOH . 
F 4 HOH A 51 751 51 HOH HOH . 
F 4 HOH A 52 752 52 HOH HOH . 
F 4 HOH A 53 753 53 HOH HOH . 
F 4 HOH A 54 754 54 HOH HOH . 
F 4 HOH A 55 755 55 HOH HOH . 
F 4 HOH A 56 756 56 HOH HOH . 
F 4 HOH A 57 757 57 HOH HOH . 
F 4 HOH A 58 758 58 HOH HOH . 
F 4 HOH A 59 759 59 HOH HOH . 
F 4 HOH A 60 760 60 HOH HOH . 
F 4 HOH A 61 761 61 HOH HOH . 
F 4 HOH A 62 762 62 HOH HOH . 
F 4 HOH A 63 763 63 HOH HOH . 
F 4 HOH A 64 764 64 HOH HOH . 
F 4 HOH A 65 765 65 HOH HOH . 
F 4 HOH A 66 766 66 HOH HOH . 
F 4 HOH A 67 767 67 HOH HOH . 
F 4 HOH A 68 768 68 HOH HOH . 
F 4 HOH A 69 769 69 HOH HOH . 
F 4 HOH A 70 770 70 HOH HOH . 
F 4 HOH A 71 771 71 HOH HOH . 
F 4 HOH A 72 772 72 HOH HOH . 
F 4 HOH A 73 773 73 HOH HOH . 
F 4 HOH A 74 774 74 HOH HOH . 
F 4 HOH A 75 775 75 HOH HOH . 
F 4 HOH A 76 776 76 HOH HOH . 
F 4 HOH A 77 777 77 HOH HOH . 
F 4 HOH A 78 778 78 HOH HOH . 
F 4 HOH A 79 779 79 HOH HOH . 
F 4 HOH A 80 780 80 HOH HOH . 
F 4 HOH A 81 781 81 HOH HOH . 
F 4 HOH A 82 782 82 HOH HOH . 
F 4 HOH A 83 783 83 HOH HOH . 
F 4 HOH A 84 784 84 HOH HOH . 
F 4 HOH A 85 785 85 HOH HOH . 
F 4 HOH A 86 786 86 HOH HOH . 
F 4 HOH A 87 787 87 HOH HOH . 
F 4 HOH A 88 788 88 HOH HOH . 
F 4 HOH A 89 789 89 HOH HOH . 
F 4 HOH A 90 790 90 HOH HOH . 
F 4 HOH A 91 791 91 HOH HOH . 
F 4 HOH A 92 792 92 HOH HOH . 
F 4 HOH A 93 793 93 HOH HOH . 
F 4 HOH A 94 794 94 HOH HOH . 
F 4 HOH A 95 795 95 HOH HOH . 
F 4 HOH A 96 796 96 HOH HOH . 
F 4 HOH A 97 797 97 HOH HOH . 
F 4 HOH A 98 798 98 HOH HOH . 
F 4 HOH A 99 799 99 HOH HOH . 
F 4 HOH A 100 800 100 HOH HOH . 
F 4 HOH A 101 801 101 HOH HOH . 
F 4 HOH A 102 802 102 HOH HOH . 
F 4 HOH A 103 803 103 HOH HOH . 
F 4 HOH A 104 804 104 HOH HOH . 
F 4 HOH A 105 805 105 HOH HOH . 
F 4 HOH A 106 806 106 HOH HOH . 
F 4 HOH A 107 807 107 HOH HOH . 
F 4 HOH A 108 808 108 HOH HOH . 
F 4 HOH A 109 809 109 HOH HOH . 
F 4 HOH A 110 810 110 HOH HOH . 
F 4 HOH A 111 811 111 HOH HOH . 
F 4 HOH A 112 812 112 HOH HOH . 
F 4 HOH A 113 813 113 HOH HOH . 
F 4 HOH A 114 814 114 HOH HOH . 
F 4 HOH A 115 815 115 HOH HOH . 
F 4 HOH A 116 816 116 HOH HOH . 
F 4 HOH A 117 817 117 HOH HOH . 
F 4 HOH A 118 818 118 HOH HOH . 
F 4 HOH A 119 819 119 HOH HOH . 
F 4 HOH A 120 820 120 HOH HOH . 
F 4 HOH A 121 821 121 HOH HOH . 
F 4 HOH A 122 822 122 HOH HOH . 
F 4 HOH A 123 823 123 HOH HOH . 
F 4 HOH A 124 824 124 HOH HOH . 
F 4 HOH A 125 825 125 HOH HOH . 
F 4 HOH A 126 826 126 HOH HOH . 
F 4 HOH A 127 827 127 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 P P TMP . . . D 3 34.704 45.798 21.68 0.5 51.43 ? P TMP 601 A 1 
HETATM 2 O O1P TMP . . . D 3 35.163 46.673 22.828 0.5 51.71 ? O1P TMP 601 A 1 
HETATM 3 O O2P TMP . . . D 3 34.798 46.512 20.406 0.5 51.43 ? O2P TMP 601 A 1 
HETATM 4 O O3P TMP . . . D 3 33.343 45.307 21.921 0.5 51.98 ? O3P TMP 601 A 1 
HETATM 5 O O5' TMP . . . D 3 35.697 44.597 21.675 0.5 51.89 ? O5' TMP 601 A 1 
HETATM 6 C C5' TMP . . . D 3 35.69 43.45 20.729 0.5 52.15 ? C5' TMP 601 A 1 
HETATM 7 C C4' TMP . . . D 3 34.921 42.314 21.414 0.5 52.18 ? C4' TMP 601 A 1 
HETATM 8 O O4' TMP . . . D 3 34.573 41.341 20.385 0.5 51.48 ? O4' TMP 601 A 1 
HETATM 9 C C3' TMP . . . D 3 35.715 41.516 22.477 0.5 52.34 ? C3' TMP 601 A 1 
HETATM 10 O O3' TMP . . . D 3 35.406 42.065 23.751 0.5 52.44 ? O3' TMP 601 A 1 
HETATM 11 C C2' TMP . . . D 3 35.15 40.087 22.381 0.5 51.75 ? C2' TMP 601 A 1 
HETATM 12 C C1' TMP . . . D 3 34.363 40.085 21.059 0.5 50.68 ? C1' TMP 601 A 1 
HETATM 13 N N1 TMP . . . D 3 33.699 38.97 20.332 0.5 49.18 ? N1 TMP 601 A 1 
HETATM 14 C C2 TMP . . . D 3 33.256 39.079 18.988 0.5 49.18 ? C2 TMP 601 A 1 
HETATM 15 O O2 TMP . . . D 3 33.37 40.096 18.293 0.5 49.84 ? O2 TMP 601 A 1 
HETATM 16 N N3 TMP . . . D 3 32.661 37.906 18.491 0.5 48.78 ? N3 TMP 601 A 1 
HETATM 17 C C4 TMP . . . D 3 32.486 36.7 19.196 0.5 48.25 ? C4 TMP 601 A 1 
HETATM 18 O O4 TMP . . . D 3 31.952 35.734 18.659 0.5 47.7 ? O4 TMP 601 A 1 
HETATM 19 C C5 TMP . . . D 3 32.972 36.675 20.576 0.5 48.21 ? C5 TMP 601 A 1 
HETATM 20 C C5M TMP . . . D 3 32.841 35.465 21.405 0.5 48.1 ? C5M TMP 601 A 1 
HETATM 21 C C6 TMP . . . D 3 33.567 37.842 21.081 0.5 48.64 ? C6 TMP 601 A 1 
#
_model_server_stats.io_time_ms              8 
_model_server_stats.parse_time_ms           7 
_model_server_stats.create_model_time_ms    5 
_model_server_stats.query_time_ms           307 
_model_server_stats.encode_time_ms          4 
_model_server_stats.element_count           21 
#