data_3HZX
#
_model_server_result.job_id            E6AN-CFpsoixLYM2kakhnA 
_model_server_result.datetime_utc      '2024-10-11 10:18:05' 
_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          3hzx 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"C","auth_seq_id":151}' 
#
_entry.id    3HZX 
#
_exptl.entry_id    3HZX 
_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          94.61 
_cell.angle_gamma         90 
_cell.entry_id            3HZX 
_cell.length_a            31.051 
_cell.length_b            60.439 
_cell.length_c            37.459 
_cell.Z_PDB               2 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 3HZX 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        4 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 1 21 1' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    monomeric 
_pdbx_struct_assembly.oligomeric_count      1 
_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 
_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 OD2 ASP 21 A ASP 21 1_555 B CA CA . A CA 150 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.802 ? 
metalc ? metalc2 A OD1 ASP 40 A ASP 40 1_555 B CA CA . A CA 150 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.763 ? 
metalc ? metalc3 A O THR 41 A THR 41 1_555 B CA CA . A CA 150 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.999 ? 
metalc ? metalc4 A OE2 GLU 43 A GLU 43 1_555 B CA CA . A CA 150 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.068 ? 
metalc ? metalc5 B CA CA . A CA 150 1_555 D O HOH . A HOH 168 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.926 ? 
metalc ? metalc6 B CA CA . A CA 150 1_555 D O HOH . A HOH 203 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.785 ? 
metalc ? metalc7 B CA CA . A CA 150 1_555 D O HOH . A HOH 220 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.032 ? 
#
_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                     3HZX 
_atom_sites.fract_transf_matrix[1][1]    0.032205 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.002596 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.016546 
_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]    0.026782 
_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 1 CA CA . 
C 3 THP A 1 151 142 THP PTP . 
D 4 HOH A 1 44 44 HOH HOH . 
D 4 HOH A 2 45 45 HOH HOH . 
D 4 HOH A 3 46 46 HOH HOH . 
D 4 HOH A 4 47 47 HOH HOH . 
D 4 HOH A 5 48 48 HOH HOH . 
D 4 HOH A 6 49 49 HOH HOH . 
D 4 HOH A 7 152 1 HOH HOH . 
D 4 HOH A 8 153 2 HOH HOH . 
D 4 HOH A 9 154 3 HOH HOH . 
D 4 HOH A 10 155 4 HOH HOH . 
D 4 HOH A 11 156 5 HOH HOH . 
D 4 HOH A 12 157 6 HOH HOH . 
D 4 HOH A 13 158 7 HOH HOH . 
D 4 HOH A 14 159 8 HOH HOH . 
D 4 HOH A 15 160 9 HOH HOH . 
D 4 HOH A 16 161 10 HOH HOH . 
D 4 HOH A 17 162 11 HOH HOH . 
D 4 HOH A 18 163 12 HOH HOH . 
D 4 HOH A 19 164 13 HOH HOH . 
D 4 HOH A 20 165 14 HOH HOH . 
D 4 HOH A 21 166 15 HOH HOH . 
D 4 HOH A 22 167 16 HOH HOH . 
D 4 HOH A 23 168 17 HOH HOH . 
D 4 HOH A 24 169 18 HOH HOH . 
D 4 HOH A 25 170 19 HOH HOH . 
D 4 HOH A 26 171 20 HOH HOH . 
D 4 HOH A 27 172 21 HOH HOH . 
D 4 HOH A 28 173 22 HOH HOH . 
D 4 HOH A 29 174 23 HOH HOH . 
D 4 HOH A 30 175 24 HOH HOH . 
D 4 HOH A 31 176 25 HOH HOH . 
D 4 HOH A 32 177 26 HOH HOH . 
D 4 HOH A 33 178 27 HOH HOH . 
D 4 HOH A 34 179 28 HOH HOH . 
D 4 HOH A 35 180 29 HOH HOH . 
D 4 HOH A 36 181 30 HOH HOH . 
D 4 HOH A 37 182 31 HOH HOH . 
D 4 HOH A 38 183 32 HOH HOH . 
D 4 HOH A 39 184 33 HOH HOH . 
D 4 HOH A 40 185 34 HOH HOH . 
D 4 HOH A 41 186 35 HOH HOH . 
D 4 HOH A 42 187 36 HOH HOH . 
D 4 HOH A 43 188 37 HOH HOH . 
D 4 HOH A 44 189 38 HOH HOH . 
D 4 HOH A 45 190 39 HOH HOH . 
D 4 HOH A 46 191 40 HOH HOH . 
D 4 HOH A 47 192 41 HOH HOH . 
D 4 HOH A 48 193 42 HOH HOH . 
D 4 HOH A 49 194 43 HOH HOH . 
D 4 HOH A 50 195 50 HOH HOH . 
D 4 HOH A 51 196 51 HOH HOH . 
D 4 HOH A 52 197 52 HOH HOH . 
D 4 HOH A 53 198 53 HOH HOH . 
D 4 HOH A 54 199 54 HOH HOH . 
D 4 HOH A 55 200 55 HOH HOH . 
D 4 HOH A 56 201 56 HOH HOH . 
D 4 HOH A 57 202 57 HOH HOH . 
D 4 HOH A 58 203 58 HOH HOH . 
D 4 HOH A 59 204 59 HOH HOH . 
D 4 HOH A 60 205 60 HOH HOH . 
D 4 HOH A 61 206 61 HOH HOH . 
D 4 HOH A 62 207 62 HOH HOH . 
D 4 HOH A 63 208 63 HOH HOH . 
D 4 HOH A 64 209 64 HOH HOH . 
D 4 HOH A 65 210 65 HOH HOH . 
D 4 HOH A 66 211 66 HOH HOH . 
D 4 HOH A 67 212 67 HOH HOH . 
D 4 HOH A 68 213 68 HOH HOH . 
D 4 HOH A 69 214 69 HOH HOH . 
D 4 HOH A 70 215 70 HOH HOH . 
D 4 HOH A 71 216 71 HOH HOH . 
D 4 HOH A 72 217 72 HOH HOH . 
D 4 HOH A 73 218 73 HOH HOH . 
D 4 HOH A 74 219 74 HOH HOH . 
D 4 HOH A 75 220 75 HOH HOH . 
D 4 HOH A 76 221 76 HOH HOH . 
D 4 HOH A 77 222 77 HOH HOH . 
D 4 HOH A 78 223 78 HOH HOH . 
D 4 HOH A 79 224 79 HOH HOH . 
D 4 HOH A 80 225 80 HOH HOH . 
D 4 HOH A 81 226 81 HOH HOH . 
D 4 HOH A 82 227 82 HOH HOH . 
D 4 HOH A 83 228 83 HOH HOH . 
D 4 HOH A 84 229 84 HOH HOH . 
D 4 HOH A 85 230 85 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 17.861 11.223 4.834 1 19.92 ? P2 THP 151 A 1 
HETATM 2 O O4P THP . . . C 3 16.557 11.957 5.171 1 19.66 ? O4P THP 151 A 1 
HETATM 3 O O5P THP . . . C 3 17.907 9.755 5.148 1 21.1 ? O5P THP 151 A 1 
HETATM 4 O O6P THP . . . C 3 19.09 11.968 5.235 1 23.09 ? O6P THP 151 A 1 
HETATM 5 P P1 THP . . . C 3 21.211 14.753 0.937 1 25.23 ? P1 THP 151 A 1 
HETATM 6 O O1P THP . . . C 3 22.136 15.354 -0.07 1 26.96 ? O1P THP 151 A 1 
HETATM 7 O O2P THP . . . C 3 21.79 13.619 1.76 1 23.83 ? O2P THP 151 A 1 
HETATM 8 O O3P THP . . . C 3 20.479 15.753 1.811 1 23.08 ? O3P THP 151 A 1 
HETATM 9 O O5' THP . . . C 3 17.909 11.215 3.232 1 18.4 ? O5' THP 151 A 1 
HETATM 10 C C5' THP . . . C 3 17.798 12.455 2.542 1 16.47 ? C5' THP 151 A 1 
HETATM 11 C C4' THP . . . C 3 18.82 12.514 1.424 1 16.56 ? C4' THP 151 A 1 
HETATM 12 O O4' THP . . . C 3 18.488 11.428 0.572 1 15.23 ? O4' THP 151 A 1 
HETATM 13 C C3' THP . . . C 3 18.75 13.775 0.551 1 17.81 ? C3' THP 151 A 1 
HETATM 14 O O3' THP . . . C 3 20.059 14.079 0.004 1 21.17 ? O3' THP 151 A 1 
HETATM 15 C C2' THP . . . C 3 17.836 13.358 -0.584 1 13.69 ? C2' THP 151 A 1 
HETATM 16 C C1' THP . . . C 3 18.068 11.857 -0.691 1 14.83 ? C1' THP 151 A 1 
HETATM 17 N N1 THP . . . C 3 16.907 11.011 -1.032 1 15.62 ? N1 THP 151 A 1 
HETATM 18 C C2 THP . . . C 3 16.551 10.919 -2.391 1 20.1 ? C2 THP 151 A 1 
HETATM 19 O O2 THP . . . C 3 17.43 11.208 -3.227 1 20.98 ? O2 THP 151 A 1 
HETATM 20 N N3 THP . . . C 3 15.384 10.39 -2.787 1 16.63 ? N3 THP 151 A 1 
HETATM 21 C C4 THP . . . C 3 14.402 10.105 -1.919 1 17.36 ? C4 THP 151 A 1 
HETATM 22 O O4 THP . . . C 3 13.321 9.663 -2.351 1 18.43 ? O4 THP 151 A 1 
HETATM 23 C C5 THP . . . C 3 14.668 10.286 -0.467 1 15.75 ? C5 THP 151 A 1 
HETATM 24 C C5M THP . . . C 3 13.675 9.966 0.616 1 16.55 ? C5M THP 151 A 1 
HETATM 25 C C6 THP . . . C 3 15.905 10.792 -0.089 1 12.3 ? C6 THP 151 A 1 
#
_model_server_stats.io_time_ms              63 
_model_server_stats.parse_time_ms           8 
_model_server_stats.create_model_time_ms    6 
_model_server_stats.query_time_ms           324 
_model_server_stats.encode_time_ms          7 
_model_server_stats.element_count           25 
#