data_1RAH # _model_server_result.job_id TPDJxflbr7Ltba0Mp_i9GQ _model_server_result.datetime_utc '2024-12-03 23:42:43' _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 1rah # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":999}' # _entry.id 1RAH # _exptl.entry_id 1RAH _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 483.156 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "CYTIDINE-5'-TRIPHOSPHATE" _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 1RAH _cell.length_a 122.13 _cell.length_b 122.13 _cell.length_c 142.51 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1RAH _symmetry.cell_setting ? _symmetry.Int_Tables_number 150 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 3 2 1' # _pdbx_struct_assembly.method_details PISA,PQS _pdbx_struct_assembly.oligomeric_details dodecameric _pdbx_struct_assembly.oligomeric_count 12 _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 1,2,3 # 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' 2_655 -y+1,x-y,z -0.5 -0.866025 0 0.866025 -0.5 0 0 0 1 122.13 0 0 3 'crystal symmetry operation' 3_665 -x+y+1,-x+1,z -0.5 0.866025 0 -0.866025 -0.5 0 0 0 1 61.065 105.767683 0 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 4 F N N ? 4 H 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 B SG CYS 109 B CYS 109 1_555 E ZN ZN . B ZN 154 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.331 ? metalc ? metalc2 B SG CYS 114 B CYS 114 1_555 E ZN ZN . B ZN 154 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.318 ? metalc ? metalc3 B SG CYS 138 B CYS 138 1_555 E ZN ZN . B ZN 154 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.327 ? metalc ? metalc4 B SG CYS 141 B CYS 141 1_555 E ZN ZN . B ZN 154 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.304 ? metalc ? metalc5 D SG CYS 109 D CYS 109 1_555 G ZN ZN . D ZN 154 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.297 ? metalc ? metalc6 D SG CYS 114 D CYS 114 1_555 G ZN ZN . D ZN 154 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.323 ? metalc ? metalc7 D SG CYS 138 D CYS 138 1_555 G ZN ZN . D ZN 154 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.338 ? metalc ? metalc8 D SG CYS 141 D CYS 141 1_555 G ZN ZN . D ZN 154 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.285 ? # _chem_comp.formula 'C9 H16 N3 O14 P3' _chem_comp.formula_weight 483.156 _chem_comp.id CTP _chem_comp.mon_nstd_flag . _chem_comp.name "CYTIDINE-5'-TRIPHOSPHATE" _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 N1 C2 CTP sing 70 n n N1 C6 CTP sing 71 n n N1 C1' CTP sing 72 n n C2 N3 CTP sing 73 n n C2 O2 CTP doub 74 n n N3 C4 CTP doub 75 n n C4 C5 CTP sing 76 n n C4 N4 CTP sing 77 n n C5 C6 CTP doub 78 n n C5 H5 CTP sing 79 n n C6 H6 CTP sing 80 n n N4 HN41 CTP sing 81 n n N4 HN42 CTP sing 82 n n C1' C2' CTP sing 83 n n C1' O4' CTP sing 84 n n C1' H1' CTP sing 85 n n C2' O2' CTP sing 86 n n C2' C3' CTP sing 87 n n C2' H2' CTP sing 88 n n O2' HO2' CTP sing 89 n n C3' C4' CTP sing 90 n n C3' O3' CTP sing 91 n n C3' H3' CTP sing 92 n n C4' O4' CTP sing 93 n n C4' C5' CTP sing 94 n n C4' H4' CTP sing 95 n n O3' HO3' CTP sing 96 n n C5' O5' CTP sing 97 n n C5' "H5'1" CTP sing 98 n n C5' "H5'2" CTP sing 99 n n O5' PA CTP sing 100 n n PA O1A CTP doub 101 n n PA O2A CTP sing 102 n n PA O3A CTP sing 103 n n O2A HOA2 CTP sing 104 n n O3A PB CTP sing 105 n n PB O1B CTP doub 106 n n PB O2B CTP sing 107 n n PB O3B CTP sing 108 n n O2B HOB2 CTP sing 109 n n O3B PG CTP sing 110 n n PG O1G CTP doub 111 n n PG O2G CTP sing 112 n n PG O3G CTP sing 113 n n O2G HOG2 CTP sing 114 n n O3G HOG3 CTP sing 115 n n # _atom_sites.entry_id 1RAH _atom_sites.fract_transf_matrix[1][1] 0.008188 _atom_sites.fract_transf_matrix[1][2] 0.004727 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.009455 _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] 0.007017 _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 E 3 ZN B 1 154 109 ZN ZN . F 4 CTP B 1 999 999 CTP CTP . G 3 ZN D 1 154 109 ZN ZN . H 4 CTP D 1 999 999 CTP CTP . I 5 HOH A 1 311 345 HOH HOH . I 5 HOH A 2 312 358 HOH HOH . I 5 HOH A 3 313 360 HOH HOH . I 5 HOH A 4 314 361 HOH HOH . I 5 HOH A 5 315 363 HOH HOH . I 5 HOH A 6 316 373 HOH HOH . I 5 HOH A 7 317 381 HOH HOH . I 5 HOH A 8 318 388 HOH HOH . I 5 HOH A 9 319 403 HOH HOH . I 5 HOH A 10 320 405 HOH HOH . I 5 HOH A 11 321 408 HOH HOH . I 5 HOH A 12 322 422 HOH HOH . I 5 HOH A 13 323 426 HOH HOH . I 5 HOH A 14 324 428 HOH HOH . I 5 HOH A 15 325 438 HOH HOH . I 5 HOH A 16 326 439 HOH HOH . I 5 HOH A 17 327 440 HOH HOH . I 5 HOH A 18 328 450 HOH HOH . I 5 HOH A 19 329 454 HOH HOH . I 5 HOH A 20 330 475 HOH HOH . I 5 HOH A 21 331 479 HOH HOH . I 5 HOH A 22 332 486 HOH HOH . I 5 HOH A 23 333 540 HOH HOH . I 5 HOH A 24 334 541 HOH HOH . I 5 HOH A 25 335 555 HOH HOH . I 5 HOH A 26 336 577 HOH HOH . I 5 HOH A 27 337 578 HOH HOH . I 5 HOH A 28 338 586 HOH HOH . I 5 HOH A 29 339 159 HOH HOH . I 5 HOH A 30 340 212 HOH HOH . I 5 HOH A 31 341 216 HOH HOH . J 5 HOH B 1 1000 156 HOH HOH . J 5 HOH B 2 1001 168 HOH HOH . J 5 HOH B 3 1002 192 HOH HOH . J 5 HOH B 4 1003 230 HOH HOH . J 5 HOH B 5 1004 240 HOH HOH . J 5 HOH B 6 1005 249 HOH HOH . J 5 HOH B 7 1006 277 HOH HOH . J 5 HOH B 8 1007 279 HOH HOH . J 5 HOH B 9 1008 292 HOH HOH . K 5 HOH C 1 311 465 HOH HOH . K 5 HOH C 2 312 312 HOH HOH . K 5 HOH C 3 313 311 HOH HOH . K 5 HOH C 4 314 317 HOH HOH . K 5 HOH C 5 315 322 HOH HOH . K 5 HOH C 6 316 323 HOH HOH . K 5 HOH C 7 317 333 HOH HOH . K 5 HOH C 8 318 334 HOH HOH . K 5 HOH C 9 319 339 HOH HOH . K 5 HOH C 10 320 343 HOH HOH . K 5 HOH C 11 321 350 HOH HOH . K 5 HOH C 12 322 357 HOH HOH . K 5 HOH C 13 323 367 HOH HOH . K 5 HOH C 14 324 369 HOH HOH . K 5 HOH C 15 325 372 HOH HOH . K 5 HOH C 16 326 378 HOH HOH . K 5 HOH C 17 327 383 HOH HOH . K 5 HOH C 18 328 389 HOH HOH . K 5 HOH C 19 329 404 HOH HOH . K 5 HOH C 20 330 430 HOH HOH . K 5 HOH C 21 331 433 HOH HOH . K 5 HOH C 22 332 435 HOH HOH . K 5 HOH C 23 333 439 HOH HOH . K 5 HOH C 24 334 440 HOH HOH . K 5 HOH C 25 335 443 HOH HOH . K 5 HOH C 26 336 448 HOH HOH . K 5 HOH C 27 337 477 HOH HOH . K 5 HOH C 28 338 492 HOH HOH . K 5 HOH C 29 339 514 HOH HOH . K 5 HOH C 30 340 519 HOH HOH . K 5 HOH C 31 341 524 HOH HOH . K 5 HOH C 32 342 530 HOH HOH . K 5 HOH C 33 343 537 HOH HOH . K 5 HOH C 34 344 545 HOH HOH . K 5 HOH C 35 345 560 HOH HOH . K 5 HOH C 36 346 561 HOH HOH . K 5 HOH C 37 347 566 HOH HOH . K 5 HOH C 38 348 572 HOH HOH . K 5 HOH C 39 349 573 HOH HOH . K 5 HOH C 40 350 581 HOH HOH . K 5 HOH C 41 351 592 HOH HOH . K 5 HOH C 42 352 603 HOH HOH . K 5 HOH C 43 353 607 HOH HOH . K 5 HOH C 44 354 173 HOH HOH . L 5 HOH D 1 1000 158 HOH HOH . L 5 HOH D 2 1001 164 HOH HOH . L 5 HOH D 3 1002 176 HOH HOH . L 5 HOH D 4 1003 190 HOH HOH . L 5 HOH D 5 1004 192 HOH HOH . L 5 HOH D 6 1005 213 HOH HOH . L 5 HOH D 7 1006 265 HOH HOH . L 5 HOH D 8 1007 304 HOH HOH . L 5 HOH D 9 1008 319 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 CTP . . . F 4 14.708 84.767 25.776 1 53.79 ? N1 CTP 999 B 1 HETATM 2 C C2 CTP . . . F 4 15.906 85.388 25.798 1 54.35 ? C2 CTP 999 B 1 HETATM 3 N N3 CTP . . . F 4 16.21 86.404 25.011 1 56.28 ? N3 CTP 999 B 1 HETATM 4 C C4 CTP . . . F 4 15.327 86.871 24.164 1 57.4 ? C4 CTP 999 B 1 HETATM 5 C C5 CTP . . . F 4 14.067 86.326 24.129 1 55.08 ? C5 CTP 999 B 1 HETATM 6 C C6 CTP . . . F 4 13.81 85.261 24.954 1 53.76 ? C6 CTP 999 B 1 HETATM 7 O O2 CTP . . . F 4 16.763 85.109 26.636 1 54.91 ? O2 CTP 999 B 1 HETATM 8 N N4 CTP . . . F 4 15.714 87.788 23.291 1 56.85 ? N4 CTP 999 B 1 HETATM 9 C C1' CTP . . . F 4 14.531 83.468 26.396 1 52.28 ? C1' CTP 999 B 1 HETATM 10 C C2' CTP . . . F 4 13.684 83.653 27.599 1 54.62 ? C2' CTP 999 B 1 HETATM 11 O O2' CTP . . . F 4 14.572 84.019 28.64 1 56.97 ? O2' CTP 999 B 1 HETATM 12 C C3' CTP . . . F 4 13.069 82.293 27.788 1 53.4 ? C3' CTP 999 B 1 HETATM 13 C C4' CTP . . . F 4 13.344 81.58 26.477 1 53.58 ? C4' CTP 999 B 1 HETATM 14 O O4' CTP . . . F 4 13.834 82.551 25.578 1 56.7 ? O4' CTP 999 B 1 HETATM 15 O O3' CTP . . . F 4 13.732 81.548 28.79 1 55.07 ? O3' CTP 999 B 1 HETATM 16 C C5' CTP . . . F 4 12.035 80.931 26.037 1 54.17 ? C5' CTP 999 B 1 HETATM 17 O O5' CTP . . . F 4 11.482 81.431 24.822 1 56.64 ? O5' CTP 999 B 1 HETATM 18 P PA CTP . . . F 4 9.923 81.974 24.774 1 53.52 ? PA CTP 999 B 1 HETATM 19 O O1A CTP . . . F 4 10.049 83.488 24.386 1 52.47 ? O1A CTP 999 B 1 HETATM 20 O O2A CTP . . . F 4 9.131 81.165 23.665 1 56.41 ? O2A CTP 999 B 1 HETATM 21 O O3A CTP . . . F 4 9.143 81.872 26.228 1 65.46 ? O3A CTP 999 B 1 HETATM 22 P PB CTP . . . F 4 8.275 80.476 26.389 1 61.54 ? PB CTP 999 B 1 HETATM 23 O O1B CTP . . . F 4 6.952 80.523 25.521 1 65.06 ? O1B CTP 999 B 1 HETATM 24 O O2B CTP . . . F 4 7.971 80.306 27.922 1 60.97 ? O2B CTP 999 B 1 HETATM 25 O O3B CTP . . . F 4 9.206 79.238 25.803 1 68.92 ? O3B CTP 999 B 1 HETATM 26 P PG CTP . . . F 4 8.843 77.746 26.406 1 72.97 ? PG CTP 999 B 1 HETATM 27 O O1G CTP . . . F 4 9.5 77.65 27.837 1 72.62 ? O1G CTP 999 B 1 HETATM 28 O O2G CTP . . . F 4 9.465 76.661 25.424 1 73.72 ? O2G CTP 999 B 1 HETATM 29 O O3G CTP . . . F 4 7.277 77.576 26.49 1 75.88 ? O3G CTP 999 B 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 64 _model_server_stats.query_time_ms 312 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 29 #