data_4UXH # _model_server_result.job_id Hb4Xxjv501Mz75-7zgzOog _model_server_result.datetime_utc '2024-10-26 18:20:51' _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 4uxh # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":1180}' # _entry.id 4UXH # _exptl.entry_id 4UXH _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 891.354 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "P1-(5'-ADENOSYL)P5-(5'-THYMIDYL)PENTAPHOSPHATE" _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 4UXH _cell.length_a 64.149 _cell.length_b 64.149 _cell.length_c 324.6 _cell.Z_PDB 24 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4UXH _symmetry.cell_setting ? _symmetry.Int_Tables_number 179 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 65 2 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 _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 1,2 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 10_555 -y,-x,-z+1/6 0.5 -0.866025 0 -0.866025 -0.5 0 0 0 -1 0 0 54.1 # 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 metalc ? metalc1 A SG CYS 141 A CYS 140 1_555 D ZN ZN . A ZN 1181 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.349 ? metalc ? metalc2 A SG CYS 144 A CYS 143 1_555 D ZN ZN . A ZN 1181 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.296 ? metalc ? metalc3 A SG CYS 174 A CYS 173 1_555 D ZN ZN . A ZN 1181 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.291 ? metalc ? metalc4 A SG CYS 177 A CYS 176 1_555 D ZN ZN . A ZN 1181 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.347 ? metalc ? metalc5 B SG CYS 141 B CYS 140 1_555 F ZN ZN . B ZN 1183 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.301 ? metalc ? metalc6 B SG CYS 144 B CYS 143 1_555 F ZN ZN . B ZN 1183 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.296 ? metalc ? metalc7 B SG CYS 174 B CYS 173 1_555 F ZN ZN . B ZN 1183 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.329 ? metalc ? metalc8 B SG CYS 177 B CYS 176 1_555 F ZN ZN . B ZN 1183 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.325 ? # _chem_comp.formula 'C20 H30 N7 O23 P5' _chem_comp.formula_weight 891.354 _chem_comp.id T5A _chem_comp.mon_nstd_flag . _chem_comp.name "P1-(5'-ADENOSYL)P5-(5'-THYMIDYL)PENTAPHOSPHATE" _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 N1B C6B T5A sing 290 n n N1B C2B T5A sing 291 n n N1B C1E T5A sing 292 n n C6B C5B T5A doub 293 n n C6B HB6 T5A sing 294 n n C2B O2B T5A doub 295 n n C2B N3B T5A sing 296 n n N3B C4B T5A sing 297 n n N3B HN3 T5A sing 298 n n C4B O4B T5A doub 299 n n C4B C5B T5A sing 300 n n C5B C7B T5A sing 301 n n C7B HB71 T5A sing 302 n n C7B HB72 T5A sing 303 n n C7B HB73 T5A sing 304 n n C5E C4E T5A sing 305 n n C5E O5E T5A sing 306 n n C5E HB51 T5A sing 307 n n C5E HB52 T5A sing 308 n n C4E O4E T5A sing 309 n n C4E C3E T5A sing 310 n n C4E HB4 T5A sing 311 n n O4E C1E T5A sing 312 n n C1E C2E T5A sing 313 n n C1E HB1 T5A sing 314 n n C2E C3E T5A sing 315 n n C2E HB21 T5A sing 316 n n C2E HB22 T5A sing 317 n n C3E O3E T5A sing 318 n n C3E HB3 T5A sing 319 n n O3E "HB'3" T5A sing 320 n n PA O1A T5A sing 321 n n PA O2A T5A doub 322 n n PA O5E T5A sing 323 n n PA O3A T5A sing 324 n n O1A HO1A T5A sing 325 n n O3A PB T5A sing 326 n n PB O1B T5A doub 327 n n PB O2X T5A sing 328 n n PB O3B T5A sing 329 n n O2X HO2B T5A sing 330 n n O3B PC T5A sing 331 n n PC O1C T5A doub 332 n n PC O2C T5A sing 333 n n PC O3C T5A sing 334 n n O2C HO2C T5A sing 335 n n O3C PD T5A sing 336 n n PD O1D T5A sing 337 n n PD O2D T5A doub 338 n n PD O3D T5A sing 339 n n O1D HO1D T5A sing 340 n n O3D PE T5A sing 341 n n PE O1E T5A sing 342 n n PE O2E T5A doub 343 n n PE O5F T5A sing 344 n n O1E HO1E T5A sing 345 n n O5F C5F T5A sing 346 n n C5F C4F T5A sing 347 n n C5F HA51 T5A sing 348 n n C5F HA52 T5A sing 349 n n C4F O4F T5A sing 350 n n C4F C3F T5A sing 351 n n C4F HA4 T5A sing 352 n n O4F C1F T5A sing 353 n n C1F C2F T5A sing 354 n n C1F N9A T5A sing 355 n n C1F HA1 T5A sing 356 n n C2F O2F T5A sing 357 n n C2F C3F T5A sing 358 n n C2F HC2 T5A sing 359 n n O2F HO2 T5A sing 360 n n C3F O3F T5A sing 361 n n C3F HC3 T5A sing 362 n n O3F HA3 T5A sing 363 n n N9A C4A T5A sing 364 n y N9A C8A T5A sing 365 n y C4A N3A T5A sing 366 n y C4A C5A T5A doub 367 n y N3A C2A T5A doub 368 n y C2A N1A T5A sing 369 n y C2A HA2 T5A sing 370 n n N1A C6A T5A doub 371 n y C6A N6A T5A sing 372 n n C6A C5A T5A sing 373 n y N6A HA61 T5A sing 374 n n N6A HA62 T5A sing 375 n n C5A N7A T5A sing 376 n y N7A C8A T5A doub 377 n y C8A HA8 T5A sing 378 n n # _atom_sites.entry_id 4UXH _atom_sites.fract_transf_matrix[1][1] 0.015589 _atom_sites.fract_transf_matrix[1][2] 0.009 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.018 _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] 0.003081 _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 T5A A 1 1180 1180 T5A T5A . D 3 ZN A 1 1181 1181 ZN ZN . E 2 T5A B 1 1182 1182 T5A T5A . F 3 ZN B 1 1183 1183 ZN ZN . G 4 HOH A 1 2001 2001 HOH HOH . G 4 HOH A 2 2002 2002 HOH HOH . G 4 HOH A 3 2003 2003 HOH HOH . G 4 HOH A 4 2004 2004 HOH HOH . G 4 HOH A 5 2005 2005 HOH HOH . G 4 HOH A 6 2006 2006 HOH HOH . G 4 HOH A 7 2007 2007 HOH HOH . G 4 HOH A 8 2008 2008 HOH HOH . G 4 HOH A 9 2009 2009 HOH HOH . G 4 HOH A 10 2010 2010 HOH HOH . G 4 HOH A 11 2011 2011 HOH HOH . G 4 HOH A 12 2012 2012 HOH HOH . G 4 HOH A 13 2013 2013 HOH HOH . G 4 HOH A 14 2014 2014 HOH HOH . G 4 HOH A 15 2015 2015 HOH HOH . G 4 HOH A 16 2016 2016 HOH HOH . G 4 HOH A 17 2017 2017 HOH HOH . G 4 HOH A 18 2018 2018 HOH HOH . G 4 HOH A 19 2019 2019 HOH HOH . G 4 HOH A 20 2020 2020 HOH HOH . G 4 HOH A 21 2021 2021 HOH HOH . G 4 HOH A 22 2022 2022 HOH HOH . G 4 HOH A 23 2023 2023 HOH HOH . G 4 HOH A 24 2024 2024 HOH HOH . G 4 HOH A 25 2025 2025 HOH HOH . G 4 HOH A 26 2026 2026 HOH HOH . G 4 HOH A 27 2027 2027 HOH HOH . G 4 HOH A 28 2028 2028 HOH HOH . G 4 HOH A 29 2029 2029 HOH HOH . G 4 HOH A 30 2030 2030 HOH HOH . G 4 HOH A 31 2031 2031 HOH HOH . G 4 HOH A 32 2032 2032 HOH HOH . G 4 HOH A 33 2033 2033 HOH HOH . G 4 HOH A 34 2034 2034 HOH HOH . G 4 HOH A 35 2035 2035 HOH HOH . H 4 HOH B 1 2001 2001 HOH HOH . H 4 HOH B 2 2002 2002 HOH HOH . H 4 HOH B 3 2003 2003 HOH HOH . H 4 HOH B 4 2004 2004 HOH HOH . H 4 HOH B 5 2005 2005 HOH HOH . H 4 HOH B 6 2006 2006 HOH HOH . H 4 HOH B 7 2007 2007 HOH HOH . H 4 HOH B 8 2008 2008 HOH HOH . H 4 HOH B 9 2009 2009 HOH HOH . H 4 HOH B 10 2010 2010 HOH HOH . H 4 HOH B 11 2011 2011 HOH HOH . H 4 HOH B 12 2012 2012 HOH HOH . H 4 HOH B 13 2013 2013 HOH HOH . H 4 HOH B 14 2014 2014 HOH HOH . H 4 HOH B 15 2015 2015 HOH HOH . H 4 HOH B 16 2016 2016 HOH HOH . H 4 HOH B 17 2017 2017 HOH HOH . H 4 HOH B 18 2018 2018 HOH HOH . H 4 HOH B 19 2019 2019 HOH HOH . H 4 HOH B 20 2020 2020 HOH HOH . H 4 HOH B 21 2021 2021 HOH HOH . H 4 HOH B 22 2022 2022 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 N1B T5A . . . C 2 13.626 -24.759 7.096 1 35.07 ? N1B T5A 1180 A 1 HETATM 2 C C6B T5A . . . C 2 13.355 -23.949 8.135 1 34.41 ? C6B T5A 1180 A 1 HETATM 3 C C2B T5A . . . C 2 13.001 -26.013 6.96 1 35.16 ? C2B T5A 1180 A 1 HETATM 4 O O2B T5A . . . C 2 13.28 -26.745 5.976 1 32.5 ? O2B T5A 1180 A 1 HETATM 5 N N3B T5A . . . C 2 12.108 -26.396 7.886 1 36.98 ? N3B T5A 1180 A 1 HETATM 6 C C4B T5A . . . C 2 11.777 -25.61 8.933 1 34.03 ? C4B T5A 1180 A 1 HETATM 7 O O4B T5A . . . C 2 10.937 -25.954 9.772 1 31.29 ? O4B T5A 1180 A 1 HETATM 8 C C5B T5A . . . C 2 12.434 -24.315 9.091 1 34.09 ? C5B T5A 1180 A 1 HETATM 9 C C7B T5A . . . C 2 12.113 -23.408 10.255 1 35.88 ? C7B T5A 1180 A 1 HETATM 10 C C5E T5A . . . C 2 17.126 -22.403 7.21 1 30.87 ? C5E T5A 1180 A 1 HETATM 11 C C4E T5A . . . C 2 16.675 -23.349 6.125 1 30.88 ? C4E T5A 1180 A 1 HETATM 12 O O4E T5A . . . C 2 15.954 -24.47 6.645 1 28.5 ? O4E T5A 1180 A 1 HETATM 13 C C1E T5A . . . C 2 14.628 -24.381 6.102 1 33.04 ? C1E T5A 1180 A 1 HETATM 14 C C2E T5A . . . C 2 14.416 -22.966 5.583 1 32.72 ? C2E T5A 1180 A 1 HETATM 15 C C3E T5A . . . C 2 15.806 -22.638 5.113 1 32.28 ? C3E T5A 1180 A 1 HETATM 16 O O3E T5A . . . C 2 16.038 -23.218 3.818 1 36.11 ? O3E T5A 1180 A 1 HETATM 17 P PA T5A . . . C 2 19.196 -22.089 8.811 1 31.37 ? PA T5A 1180 A 1 HETATM 18 O O1A T5A . . . C 2 19.906 -23.151 9.552 1 29.78 ? O1A T5A 1180 A 1 HETATM 19 O O2A T5A . . . C 2 18.305 -21.105 9.56 1 31.99 ? O2A T5A 1180 A 1 HETATM 20 O O5E T5A . . . C 2 18.185 -23.027 7.966 1 33.1 ? O5E T5A 1180 A 1 HETATM 21 O O3A T5A . . . C 2 19.994 -21.471 7.595 1 29.24 ? O3A T5A 1180 A 1 HETATM 22 P PB T5A . . . C 2 20.853 -20.154 7.496 1 36.11 ? PB T5A 1180 A 1 HETATM 23 O O1B T5A . . . C 2 20.532 -19.275 6.34 1 32.06 ? O1B T5A 1180 A 1 HETATM 24 O O2X T5A . . . C 2 22.23 -20.741 7.574 1 38.33 ? O2X T5A 1180 A 1 HETATM 25 O O3B T5A . . . C 2 20.628 -19.383 8.903 1 37.27 ? O3B T5A 1180 A 1 HETATM 26 P PC T5A . . . C 2 21.142 -17.895 9.249 1 32.51 ? PC T5A 1180 A 1 HETATM 27 O O1C T5A . . . C 2 20.745 -17.792 10.706 1 31.05 ? O1C T5A 1180 A 1 HETATM 28 O O2C T5A . . . C 2 22.59 -17.77 8.832 1 36.91 ? O2C T5A 1180 A 1 HETATM 29 O O3C T5A . . . C 2 20.19 -17.048 8.292 1 31.87 ? O3C T5A 1180 A 1 HETATM 30 P PD T5A . . . C 2 20.136 -15.485 8.093 1 35.61 ? PD T5A 1180 A 1 HETATM 31 O O1D T5A . . . C 2 20.197 -14.753 9.422 1 36.82 ? O1D T5A 1180 A 1 HETATM 32 O O2D T5A . . . C 2 18.932 -15.228 7.308 1 37.69 ? O2D T5A 1180 A 1 HETATM 33 O O3D T5A . . . C 2 21.498 -15.276 7.294 1 39.73 ? O3D T5A 1180 A 1 HETATM 34 P PE T5A . . . C 2 21.811 -13.868 6.576 1 45.63 ? PE T5A 1180 A 1 HETATM 35 O O1E T5A . . . C 2 23.181 -13.438 6.895 1 50.37 ? O1E T5A 1180 A 1 HETATM 36 O O2E T5A . . . C 2 20.654 -12.99 6.919 1 49.51 ? O2E T5A 1180 A 1 HETATM 37 O O5F T5A . . . C 2 21.571 -14.269 5.018 1 59.39 ? O5F T5A 1180 A 1 HETATM 38 C C5F T5A . . . C 2 22.503 -14.426 3.966 1 63.49 ? C5F T5A 1180 A 1 HETATM 39 C C4F T5A . . . C 2 22.671 -15.889 3.553 1 62.4 ? C4F T5A 1180 A 1 HETATM 40 O O4F T5A . . . C 2 24.031 -15.976 3.129 1 66.73 ? O4F T5A 1180 A 1 HETATM 41 C C1F T5A . . . C 2 24.817 -16.864 3.909 1 68.07 ? C1F T5A 1180 A 1 HETATM 42 C C2F T5A . . . C 2 23.888 -17.454 4.931 1 63.42 ? C2F T5A 1180 A 1 HETATM 43 O O2F T5A . . . C 2 23.965 -18.859 4.759 1 71.68 ? O2F T5A 1180 A 1 HETATM 44 C C3F T5A . . . C 2 22.501 -16.933 4.643 1 60.9 ? C3F T5A 1180 A 1 HETATM 45 O O3F T5A . . . C 2 21.637 -17.998 4.242 1 52.37 ? O3F T5A 1180 A 1 HETATM 46 N N9A T5A . . . C 2 25.954 -16.158 4.56 1 83.76 ? N9A T5A 1180 A 1 HETATM 47 C C4A T5A . . . C 2 27.253 -16.417 4.356 1 84.85 ? C4A T5A 1180 A 1 HETATM 48 N N3A T5A . . . C 2 27.952 -17.3 3.59 1 90.36 ? N3A T5A 1180 A 1 HETATM 49 C C2A T5A . . . C 2 29.3 -17.308 3.607 1 89.1 ? C2A T5A 1180 A 1 HETATM 50 N N1A T5A . . . C 2 30.024 -16.454 4.368 1 87.04 ? N1A T5A 1180 A 1 HETATM 51 C C6A T5A . . . C 2 29.458 -15.519 5.186 1 80.66 ? C6A T5A 1180 A 1 HETATM 52 N N6A T5A . . . C 2 30.188 -14.664 5.962 1 71.19 ? N6A T5A 1180 A 1 HETATM 53 C C5A T5A . . . C 2 27.984 -15.465 5.214 1 80.73 ? C5A T5A 1180 A 1 HETATM 54 N N7A T5A . . . C 2 27.071 -14.72 5.862 1 83.62 ? N7A T5A 1180 A 1 HETATM 55 C C8A T5A . . . C 2 25.851 -15.147 5.454 1 87.03 ? C8A T5A 1180 A 1 # _model_server_stats.io_time_ms 44 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 293 _model_server_stats.encode_time_ms 18 _model_server_stats.element_count 55 #