data_3T60
#
_model_server_result.job_id            FMX4anrBcXfubqMVJBFAMA 
_model_server_result.datetime_utc      '2024-12-21 15:39:41' 
_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          3t60 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"D","auth_seq_id":182}' 
#
_entry.id    3T60 
#
_exptl.entry_id    3T60 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              469.532 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            "2',5'-dideoxy-5'-(tritylamino)uridine" 
_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            3T60 
_cell.length_a            76.972 
_cell.length_b            76.972 
_cell.length_c            106.924 
_cell.Z_PDB               12 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 3T60 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        76 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 41' 
#
_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,I,J,K,L 
_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 F N N 
? 2 H N N 
#
_chem_comp.formula           'C28 H27 N3 O4' 
_chem_comp.formula_weight    469.532 
_chem_comp.id                DUA 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              "2',5'-dideoxy-5'-(tritylamino)uridine" 
_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
C2 N1 DUA sing 83 n n 
C6 N1 DUA sing 84 n n 
N1 C1' DUA sing 85 n n 
C3' O1 DUA sing 86 n n 
O1 HO1 DUA sing 87 n n 
N3 C2 DUA sing 88 n n 
C2 O2 DUA doub 89 n n 
C17 N2 DUA sing 90 n n 
N2 C5' DUA sing 91 n n 
N2 HN2 DUA sing 92 n n 
C4 N3 DUA sing 93 n n 
O4 C4 DUA doub 94 n n 
C4 C5 DUA sing 95 n n 
C5 C6 DUA doub 96 n n 
C5 H5 DUA sing 97 n n 
C6 H6 DUA sing 98 n n 
O4' C1' DUA sing 99 n n 
C1' C2' DUA sing 100 n n 
C1' H1' DUA sing 101 n n 
C30 C17 DUA sing 102 n n 
C18 C17 DUA sing 103 n n 
C24 C17 DUA sing 104 n n 
C23 C18 DUA doub 105 n y 
C18 C19 DUA sing 106 n y 
C20 C19 DUA doub 107 n y 
C19 H19 DUA sing 108 n n 
C3' C2' DUA sing 109 n n 
C2' H2' DUA sing 110 n n 
C2' "H2'A" DUA sing 111 n n 
C21 C20 DUA sing 112 n y 
C20 H20 DUA sing 113 n n 
C22 C21 DUA doub 114 n y 
C21 H21 DUA sing 115 n n 
C22 C23 DUA sing 116 n y 
C22 H22 DUA sing 117 n n 
C23 H23 DUA sing 118 n n 
C25 C24 DUA doub 119 n y 
C24 C29 DUA sing 120 n y 
C26 C25 DUA sing 121 n y 
C25 H25 DUA sing 122 n n 
C26 C27 DUA doub 123 n y 
C26 H26 DUA sing 124 n n 
C27 C28 DUA sing 125 n y 
C27 H27 DUA sing 126 n n 
C28 C29 DUA doub 127 n y 
C28 H28 DUA sing 128 n n 
C29 H29 DUA sing 129 n n 
C4' C3' DUA sing 130 n n 
C3' H3' DUA sing 131 n n 
C35 C30 DUA doub 132 n y 
C30 C31 DUA sing 133 n y 
C32 C31 DUA doub 134 n y 
C31 H31 DUA sing 135 n n 
C33 C32 DUA sing 136 n y 
C32 H32 DUA sing 137 n n 
C34 C33 DUA doub 138 n y 
C33 H33 DUA sing 139 n n 
C34 C35 DUA sing 140 n y 
C34 H34 DUA sing 141 n n 
C35 H35 DUA sing 142 n n 
C5' C4' DUA sing 143 n n 
C4' O4' DUA sing 144 n n 
C4' H4' DUA sing 145 n n 
C5' H5' DUA sing 146 n n 
C5' "H5'A" DUA sing 147 n n 
N3 HN3 DUA sing 148 n n 
#
_atom_sites.entry_id                     3T60 
_atom_sites.fract_transf_matrix[1][1]    0.012992 
_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]    0.012992 
_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]    0.009352 
_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 DUA A 1 182 1 DUA DUA . 
E 3 GOL A 1 183 2 GOL GOL . 
F 2 DUA B 1 182 1 DUA DUA . 
G 3 GOL B 1 183 2 GOL GOL . 
H 2 DUA C 1 182 1 DUA DUA . 
I 3 GOL C 1 183 2 GOL GOL . 
J 4 HOH A 1 184 2 HOH HOH . 
J 4 HOH A 2 185 4 HOH HOH . 
J 4 HOH A 3 186 6 HOH HOH . 
J 4 HOH A 4 187 10 HOH HOH . 
J 4 HOH A 5 188 11 HOH HOH . 
J 4 HOH A 6 189 14 HOH HOH . 
J 4 HOH A 7 190 15 HOH HOH . 
J 4 HOH A 8 191 16 HOH HOH . 
J 4 HOH A 9 192 17 HOH HOH . 
J 4 HOH A 10 193 18 HOH HOH . 
J 4 HOH A 11 194 19 HOH HOH . 
J 4 HOH A 12 195 20 HOH HOH . 
J 4 HOH A 13 196 21 HOH HOH . 
J 4 HOH A 14 197 22 HOH HOH . 
J 4 HOH A 15 198 24 HOH HOH . 
J 4 HOH A 16 199 38 HOH HOH . 
J 4 HOH A 17 200 50 HOH HOH . 
J 4 HOH A 18 201 51 HOH HOH . 
J 4 HOH A 19 202 52 HOH HOH . 
J 4 HOH A 20 203 53 HOH HOH . 
J 4 HOH A 21 204 56 HOH HOH . 
J 4 HOH A 22 205 67 HOH HOH . 
J 4 HOH A 23 206 68 HOH HOH . 
J 4 HOH A 24 207 69 HOH HOH . 
J 4 HOH A 25 208 70 HOH HOH . 
J 4 HOH A 26 209 71 HOH HOH . 
J 4 HOH A 27 210 72 HOH HOH . 
J 4 HOH A 28 211 73 HOH HOH . 
J 4 HOH A 29 212 74 HOH HOH . 
J 4 HOH A 30 213 76 HOH HOH . 
J 4 HOH A 31 214 77 HOH HOH . 
J 4 HOH A 32 215 78 HOH HOH . 
J 4 HOH A 33 216 79 HOH HOH . 
J 4 HOH A 34 217 80 HOH HOH . 
J 4 HOH A 35 218 81 HOH HOH . 
J 4 HOH A 36 219 82 HOH HOH . 
J 4 HOH A 37 220 83 HOH HOH . 
J 4 HOH A 38 221 84 HOH HOH . 
K 4 HOH B 1 184 7 HOH HOH . 
K 4 HOH B 2 185 9 HOH HOH . 
K 4 HOH B 3 186 23 HOH HOH . 
K 4 HOH B 4 187 25 HOH HOH . 
K 4 HOH B 5 188 26 HOH HOH . 
K 4 HOH B 6 189 27 HOH HOH . 
K 4 HOH B 7 190 28 HOH HOH . 
K 4 HOH B 8 191 39 HOH HOH . 
K 4 HOH B 9 192 40 HOH HOH . 
K 4 HOH B 10 193 41 HOH HOH . 
K 4 HOH B 11 194 43 HOH HOH . 
K 4 HOH B 12 195 59 HOH HOH . 
K 4 HOH B 13 196 60 HOH HOH . 
K 4 HOH B 14 197 61 HOH HOH . 
K 4 HOH B 15 198 62 HOH HOH . 
K 4 HOH B 16 199 63 HOH HOH . 
K 4 HOH B 17 200 85 HOH HOH . 
K 4 HOH B 18 201 86 HOH HOH . 
K 4 HOH B 19 202 87 HOH HOH . 
K 4 HOH B 20 203 88 HOH HOH . 
K 4 HOH B 21 204 89 HOH HOH . 
K 4 HOH B 22 205 94 HOH HOH . 
K 4 HOH B 23 206 95 HOH HOH . 
L 4 HOH C 1 184 1 HOH HOH . 
L 4 HOH C 2 185 3 HOH HOH . 
L 4 HOH C 3 186 5 HOH HOH . 
L 4 HOH C 4 187 8 HOH HOH . 
L 4 HOH C 5 188 12 HOH HOH . 
L 4 HOH C 6 189 13 HOH HOH . 
L 4 HOH C 7 190 29 HOH HOH . 
L 4 HOH C 8 191 30 HOH HOH . 
L 4 HOH C 9 192 31 HOH HOH . 
L 4 HOH C 10 193 32 HOH HOH . 
L 4 HOH C 11 194 33 HOH HOH . 
L 4 HOH C 12 195 34 HOH HOH . 
L 4 HOH C 13 196 35 HOH HOH . 
L 4 HOH C 14 197 36 HOH HOH . 
L 4 HOH C 15 198 37 HOH HOH . 
L 4 HOH C 16 199 42 HOH HOH . 
L 4 HOH C 17 200 44 HOH HOH . 
L 4 HOH C 18 201 45 HOH HOH . 
L 4 HOH C 19 202 46 HOH HOH . 
L 4 HOH C 20 203 47 HOH HOH . 
L 4 HOH C 21 204 48 HOH HOH . 
L 4 HOH C 22 205 49 HOH HOH . 
L 4 HOH C 23 206 54 HOH HOH . 
L 4 HOH C 24 207 55 HOH HOH . 
L 4 HOH C 25 208 57 HOH HOH . 
L 4 HOH C 26 209 58 HOH HOH . 
L 4 HOH C 27 210 64 HOH HOH . 
L 4 HOH C 28 211 65 HOH HOH . 
L 4 HOH C 29 212 66 HOH HOH . 
L 4 HOH C 30 213 75 HOH HOH . 
L 4 HOH C 31 214 90 HOH HOH . 
L 4 HOH C 32 215 91 HOH HOH . 
L 4 HOH C 33 216 92 HOH HOH . 
L 4 HOH C 34 217 93 HOH HOH . 
L 4 HOH C 35 218 96 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 DUA . . . D 2 -5.652 25.722 -1.016 1 36.35 ? N1 DUA 182 A 1 
HETATM 2 O O1 DUA . . . D 2 -9.041 28.375 0.565 1 41.42 ? O1 DUA 182 A 1 
HETATM 3 C C2 DUA . . . D 2 -5.156 24.572 -1.628 1 34.53 ? C2 DUA 182 A 1 
HETATM 4 N N2 DUA . . . D 2 -9.246 26.977 -3.914 1 43.97 ? N2 DUA 182 A 1 
HETATM 5 O O2 DUA . . . D 2 -5.861 23.575 -1.63 1 35.55 ? O2 DUA 182 A 1 
HETATM 6 N N3 DUA . . . D 2 -3.933 24.557 -2.175 1 35.81 ? N3 DUA 182 A 1 
HETATM 7 C C4 DUA . . . D 2 -3.182 25.663 -2.141 1 35.4 ? C4 DUA 182 A 1 
HETATM 8 O O4 DUA . . . D 2 -2.068 25.652 -2.666 1 36.46 ? O4 DUA 182 A 1 
HETATM 9 C C5 DUA . . . D 2 -3.651 26.856 -1.558 1 36.91 ? C5 DUA 182 A 1 
HETATM 10 C C6 DUA . . . D 2 -4.926 26.874 -0.996 1 33.11 ? C6 DUA 182 A 1 
HETATM 11 C C1' DUA . . . D 2 -6.996 25.797 -0.518 1 37.43 ? C1' DUA 182 A 1 
HETATM 12 C C17 DUA . . . D 2 -8.714 27.421 -5.176 1 43.99 ? C17 DUA 182 A 1 
HETATM 13 C C18 DUA . . . D 2 -9.534 26.438 -6.087 1 42.49 ? C18 DUA 182 A 1 
HETATM 14 C C19 DUA . . . D 2 -10.833 26.001 -5.715 1 42.56 ? C19 DUA 182 A 1 
HETATM 15 C C2' DUA . . . D 2 -7.403 26.502 0.723 1 34.54 ? C2' DUA 182 A 1 
HETATM 16 C C20 DUA . . . D 2 -11.609 25.137 -6.542 1 43.11 ? C20 DUA 182 A 1 
HETATM 17 C C21 DUA . . . D 2 -11.141 24.646 -7.76 1 44.14 ? C21 DUA 182 A 1 
HETATM 18 C C22 DUA . . . D 2 -9.859 25.072 -8.151 1 41.09 ? C22 DUA 182 A 1 
HETATM 19 C C23 DUA . . . D 2 -9.112 25.946 -7.337 1 39.42 ? C23 DUA 182 A 1 
HETATM 20 C C24 DUA . . . D 2 -7.26 27.237 -5.373 1 43.4 ? C24 DUA 182 A 1 
HETATM 21 C C25 DUA . . . D 2 -6.292 28.218 -5.675 1 40.79 ? C25 DUA 182 A 1 
HETATM 22 C C26 DUA . . . D 2 -4.929 27.92 -5.698 1 37.71 ? C26 DUA 182 A 1 
HETATM 23 C C27 DUA . . . D 2 -4.507 26.634 -5.43 1 37.93 ? C27 DUA 182 A 1 
HETATM 24 C C28 DUA . . . D 2 -5.438 25.65 -5.113 1 36.81 ? C28 DUA 182 A 1 
HETATM 25 C C29 DUA . . . D 2 -6.798 25.94 -5.06 1 37.45 ? C29 DUA 182 A 1 
HETATM 26 C C3' DUA . . . D 2 -8.115 27.572 -0.151 1 37.41 ? C3' DUA 182 A 1 
HETATM 27 C C30 DUA . . . D 2 -9.199 28.766 -5.71 1 45.64 ? C30 DUA 182 A 1 
HETATM 28 C C31 DUA . . . D 2 -9.386 29.814 -4.8 1 46.66 ? C31 DUA 182 A 1 
HETATM 29 C C32 DUA . . . D 2 -9.845 31.078 -5.194 1 48.23 ? C32 DUA 182 A 1 
HETATM 30 C C33 DUA . . . D 2 -10.115 31.364 -6.539 1 46.39 ? C33 DUA 182 A 1 
HETATM 31 C C34 DUA . . . D 2 -9.917 30.379 -7.498 1 49.16 ? C34 DUA 182 A 1 
HETATM 32 C C35 DUA . . . D 2 -9.434 29.121 -7.062 1 50.31 ? C35 DUA 182 A 1 
HETATM 33 C C4' DUA . . . D 2 -8.812 26.891 -1.345 1 38.15 ? C4' DUA 182 A 1 
HETATM 34 O O4' DUA . . . D 2 -8.078 25.684 -1.446 1 40.67 ? O4' DUA 182 A 1 
HETATM 35 C C5' DUA . . . D 2 -8.767 27.668 -2.681 1 40.82 ? C5' DUA 182 A 1 
#
_model_server_stats.io_time_ms              8 
_model_server_stats.parse_time_ms           14 
_model_server_stats.create_model_time_ms    25 
_model_server_stats.query_time_ms           293 
_model_server_stats.encode_time_ms          8 
_model_server_stats.element_count           35 
#