data_1STB
#
_model_server_result.job_id            GhYaazur7No2_JUpr4Kj1A 
_model_server_result.datetime_utc      '2024-11-25 18:41:14' 
_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          1stb 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"C","auth_seq_id":151}' 
#
_entry.id    1STB 
#
_exptl.entry_id    1STB 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              402.188 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            "THYMIDINE-3',5'-DIPHOSPHATE" 
_entity.pdbx_number_of_molecules    1 
_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            1STB 
_cell.length_a            47.16 
_cell.length_b            47.16 
_cell.length_c            63.15 
_cell.Z_PDB               4 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 1STB 
_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        ? 
_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 
_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 
#
_struct_asym.details                        ? 
_struct_asym.entity_id                      3 
_struct_asym.id                             C 
_struct_asym.pdbx_modified                  N 
_struct_asym.pdbx_blank_PDB_chainid_flag    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
metalc ? metalc1 A OD1 ASP 19 A ASP 19 1_555 B CA CA . A CA 150 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.116 ? 
metalc ? metalc2 A OD2 ASP 19 A ASP 19 1_555 B CA CA . A CA 150 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.29 ? 
metalc ? metalc3 A OD2 ASP 21 A ASP 21 1_555 B CA CA . A CA 150 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.283 ? 
metalc ? metalc4 A OD1 ASP 21 A ASP 21 1_555 B CA CA . A CA 150 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.365 ? 
metalc ? metalc5 A OD1 ASP 41 A ASP 40 1_555 B CA CA . A CA 150 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.291 ? 
metalc ? metalc6 B CA CA . A CA 150 1_555 D O HOH . A HOH 162 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.096 ? 
metalc ? metalc7 B CA CA . A CA 150 1_555 D O HOH . A HOH 163 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.088 ? 
#
_chem_comp.formula           'C10 H16 N2 O11 P2' 
_chem_comp.formula_weight    402.188 
_chem_comp.id                THP 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              "THYMIDINE-3',5'-DIPHOSPHATE" 
_chem_comp.type              'dna 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
P2 O4P THP doub 277 n n 
P2 O5P THP sing 278 n n 
P2 O6P THP sing 279 n n 
P2 O5' THP sing 280 n n 
O5P HOP5 THP sing 281 n n 
O6P HOP6 THP sing 282 n n 
P1 O1P THP doub 283 n n 
P1 O2P THP sing 284 n n 
P1 O3P THP sing 285 n n 
P1 O3' THP sing 286 n n 
O2P HOP2 THP sing 287 n n 
O3P HOP3 THP sing 288 n n 
O5' C5' THP sing 289 n n 
C5' C4' THP sing 290 n n 
C5' "H5'1" THP sing 291 n n 
C5' "H5'2" THP sing 292 n n 
C4' O4' THP sing 293 n n 
C4' C3' THP sing 294 n n 
C4' H4' THP sing 295 n n 
O4' C1' THP sing 296 n n 
C3' O3' THP sing 297 n n 
C3' C2' THP sing 298 n n 
C3' H3' THP sing 299 n n 
C2' C1' THP sing 300 n n 
C2' "H2'1" THP sing 301 n n 
C2' "H2'2" THP sing 302 n n 
C1' N1 THP sing 303 n n 
C1' H1' THP sing 304 n n 
N1 C2 THP sing 305 n n 
N1 C6 THP sing 306 n n 
C2 O2 THP doub 307 n n 
C2 N3 THP sing 308 n n 
N3 C4 THP sing 309 n n 
N3 H3 THP sing 310 n n 
C4 O4 THP doub 311 n n 
C4 C5 THP sing 312 n n 
C5 C5M THP sing 313 n n 
C5 C6 THP doub 314 n n 
C5M H51 THP sing 315 n n 
C5M H52 THP sing 316 n n 
C5M H53 THP sing 317 n n 
C6 H6 THP sing 318 n n 
#
_atom_sites.entry_id                     1STB 
_atom_sites.fract_transf_matrix[1][1]    0.021204 
_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]    0.021204 
_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]    0.015835 
_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 CA A 1 150 144 CA CA . 
C 3 THP A 1 151 143 THP PTP . 
D 4 HOH A 1 152 145 HOH HOH . 
D 4 HOH A 2 153 146 HOH HOH . 
D 4 HOH A 3 154 147 HOH HOH . 
D 4 HOH A 4 155 149 HOH HOH . 
D 4 HOH A 5 156 150 HOH HOH . 
D 4 HOH A 6 157 151 HOH HOH . 
D 4 HOH A 7 158 152 HOH HOH . 
D 4 HOH A 8 159 153 HOH HOH . 
D 4 HOH A 9 160 154 HOH HOH . 
D 4 HOH A 10 161 155 HOH HOH . 
D 4 HOH A 11 162 156 HOH HOH . 
D 4 HOH A 12 163 157 HOH HOH . 
D 4 HOH A 13 164 158 HOH HOH . 
D 4 HOH A 14 165 159 HOH HOH . 
D 4 HOH A 15 166 160 HOH HOH . 
D 4 HOH A 16 167 161 HOH HOH . 
D 4 HOH A 17 168 162 HOH HOH . 
D 4 HOH A 18 169 163 HOH HOH . 
D 4 HOH A 19 170 164 HOH HOH . 
D 4 HOH A 20 171 165 HOH HOH . 
D 4 HOH A 21 172 166 HOH HOH . 
D 4 HOH A 22 173 167 HOH HOH . 
D 4 HOH A 23 174 168 HOH HOH . 
D 4 HOH A 24 175 169 HOH HOH . 
D 4 HOH A 25 176 170 HOH HOH . 
D 4 HOH A 26 177 171 HOH HOH . 
D 4 HOH A 27 178 172 HOH HOH . 
D 4 HOH A 28 179 173 HOH HOH . 
D 4 HOH A 29 180 174 HOH HOH . 
D 4 HOH A 30 181 175 HOH HOH . 
D 4 HOH A 31 182 176 HOH HOH . 
D 4 HOH A 32 183 177 HOH HOH . 
D 4 HOH A 33 184 178 HOH HOH . 
D 4 HOH A 34 185 179 HOH HOH . 
D 4 HOH A 35 186 180 HOH HOH . 
D 4 HOH A 36 187 181 HOH HOH . 
D 4 HOH A 37 188 182 HOH HOH . 
D 4 HOH A 38 189 183 HOH HOH . 
D 4 HOH A 39 190 184 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 P2 THP . . . C 3 6.512 13.341 21.119 1 18.06 ? P2 THP 151 A 1 
HETATM 2 O O4P THP . . . C 3 5.415 13.131 20.152 1 13.52 ? O4P THP 151 A 1 
HETATM 3 O O5P THP . . . C 3 7.603 14.296 20.705 1 16.29 ? O5P THP 151 A 1 
HETATM 4 O O6P THP . . . C 3 7.255 11.941 21.326 1 16.09 ? O6P THP 151 A 1 
HETATM 5 P P1 THP . . . C 3 4.814 10.99 26.855 1 20.68 ? P1 THP 151 A 1 
HETATM 6 O O1P THP . . . C 3 3.879 10.003 26.242 1 26.1 ? O1P THP 151 A 1 
HETATM 7 O O2P THP . . . C 3 4.842 10.791 28.322 1 24.11 ? O2P THP 151 A 1 
HETATM 8 O O3P THP . . . C 3 6.271 10.742 26.243 1 19.93 ? O3P THP 151 A 1 
HETATM 9 O O5' THP . . . C 3 5.881 13.898 22.489 1 18.49 ? O5' THP 151 A 1 
HETATM 10 C C5' THP . . . C 3 4.835 13.195 23.203 1 15.48 ? C5' THP 151 A 1 
HETATM 11 C C4' THP . . . C 3 5.083 13.356 24.652 1 13.11 ? C4' THP 151 A 1 
HETATM 12 O O4' THP . . . C 3 5.307 14.733 24.967 1 15.44 ? O4' THP 151 A 1 
HETATM 13 C C3' THP . . . C 3 3.888 12.997 25.427 1 15.26 ? C3' THP 151 A 1 
HETATM 14 O O3' THP . . . C 3 4.367 12.529 26.684 1 20.17 ? O3' THP 151 A 1 
HETATM 15 C C2' THP . . . C 3 3.143 14.286 25.575 1 11.73 ? C2' THP 151 A 1 
HETATM 16 C C1' THP . . . C 3 4.24 15.285 25.721 1 15.07 ? C1' THP 151 A 1 
HETATM 17 N N1 THP . . . C 3 3.718 16.604 25.233 1 18.27 ? N1 THP 151 A 1 
HETATM 18 C C2 THP . . . C 3 3.219 17.467 26.176 1 19.11 ? C2 THP 151 A 1 
HETATM 19 O O2 THP . . . C 3 3.238 17.258 27.388 1 22.16 ? O2 THP 151 A 1 
HETATM 20 N N3 THP . . . C 3 2.687 18.648 25.732 1 18.75 ? N3 THP 151 A 1 
HETATM 21 C C4 THP . . . C 3 2.593 19.083 24.435 1 19.84 ? C4 THP 151 A 1 
HETATM 22 O O4 THP . . . C 3 2.089 20.183 24.182 1 18.07 ? O4 THP 151 A 1 
HETATM 23 C C5 THP . . . C 3 3.147 18.148 23.495 1 20.31 ? C5 THP 151 A 1 
HETATM 24 C C5M THP . . . C 3 3.094 18.541 22.016 1 20.41 ? C5M THP 151 A 1 
HETATM 25 C C6 THP . . . C 3 3.672 16.96 23.904 1 20.38 ? C6 THP 151 A 1 
#
_model_server_stats.io_time_ms              49 
_model_server_stats.parse_time_ms           6 
_model_server_stats.create_model_time_ms    3 
_model_server_stats.query_time_ms           288 
_model_server_stats.encode_time_ms          1 
_model_server_stats.element_count           25 
#