data_6N55 # _model_server_result.job_id R7bvw3SnJyC3lOWR-R_sfQ _model_server_result.datetime_utc '2024-11-20 15:36:16' _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 6n55 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"QA","auth_seq_id":307}' # _entry.id 6N55 # _exptl.entry_id 6N55 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 269.214 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "2'-azido-2'-deoxyuridine" _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 95.39 _cell.angle_gamma 90 _cell.entry_id 6N55 _cell.length_a 92.747 _cell.length_b 85.764 _cell.length_c 153.367 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6N55 _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1 21 1' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id PISA tetrameric 4 author_and_software_defined_assembly 1 PISA tetrameric 4 author_and_software_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,C,F,H,I,J,K,L,M,R,S,T,U,V,KA,LA,MA,NA,OA,PA,QA,TA,UA,WA,ZA,BB 1 1 B,E,G,N,O,P,Q,EA,FA,GA,HA,IA,JA,RA,SA,VA,YA,AB 2 1 D,W,X,Y,Z,AA,BA,CA,DA,XA 2 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' 1_455 x-1,y,z 1 0 0 0 1 0 0 0 1 -92.747 0 0 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 4 DA N N ? 4 JA N N ? 4 QA N N # _chem_comp.formula 'C9 H11 N5 O5' _chem_comp.formula_weight 269.214 _chem_comp.id UZ0 _chem_comp.mon_nstd_flag . _chem_comp.name "2'-azido-2'-deoxyuridine" _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 O4 C4 UZ0 doub 347 n n N3 C4 UZ0 sing 348 n n N3 C2 UZ0 sing 349 n n C4 C5 UZ0 sing 350 n n O2 C2 UZ0 doub 351 n n C2 N1 UZ0 sing 352 n n C5 C6 UZ0 doub 353 n n N1 C6 UZ0 sing 354 n n N1 C1' UZ0 sing 355 n n C1' O4' UZ0 sing 356 n n C1' C2' UZ0 sing 357 n n O4' C4' UZ0 sing 358 n n C4' C5' UZ0 sing 359 n n C4' C3' UZ0 sing 360 n n C2' N3' UZ0 sing 361 n n C2' C3' UZ0 sing 362 n n N3' N4' UZ0 doub 363 n n C5' O5' UZ0 sing 364 n n C3' O3' UZ0 sing 365 n n N4' N5' UZ0 doub 366 n n N3 H1 UZ0 sing 367 n n C5 H2 UZ0 sing 368 n n C6 H3 UZ0 sing 369 n n C1' H4 UZ0 sing 370 n n C2' H5 UZ0 sing 371 n n C3' H6 UZ0 sing 372 n n O3' H7 UZ0 sing 373 n n C4' H8 UZ0 sing 374 n n C5' H9 UZ0 sing 375 n n C5' H10 UZ0 sing 376 n n O5' H12 UZ0 sing 377 n n # _atom_sites.entry_id 6N55 _atom_sites.fract_transf_matrix[1][1] 0.010782 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.001018 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.01166 _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] 0.006549 _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 I 2 PO4 A 1 301 1 PO4 PO4 . J 3 GOL A 1 302 5 GOL GOL . K 3 GOL A 1 303 7 GOL GOL . L 3 GOL A 1 304 12 GOL GOL . M 3 GOL A 1 305 26 GOL GOL . N 2 PO4 B 1 301 2 PO4 PO4 . O 3 GOL B 1 302 17 GOL GOL . P 3 GOL B 1 303 20 GOL GOL . Q 3 GOL B 1 304 23 GOL GOL . R 2 PO4 C 1 301 3 PO4 PO4 . S 3 GOL C 1 302 13 GOL GOL . T 3 GOL C 1 303 19 GOL GOL . U 3 GOL C 1 304 21 GOL GOL . V 3 GOL C 1 305 24 GOL GOL . W 2 PO4 D 1 301 4 PO4 PO4 . X 3 GOL D 1 302 4 GOL GOL . Y 3 GOL D 1 303 8 GOL GOL . Z 3 GOL D 1 304 14 GOL GOL . AA 3 GOL D 1 305 15 GOL GOL . BA 3 GOL D 1 306 25 GOL GOL . CA 3 GOL D 1 307 27 GOL GOL . DA 4 UZ0 D 1 308 3 UZ0 UZR . EA 2 PO4 E 1 301 9 PO4 PO4 . FA 3 GOL E 1 302 9 GOL GOL . GA 3 GOL E 1 303 10 GOL GOL . HA 3 GOL E 1 304 11 GOL GOL . IA 3 GOL E 1 305 16 GOL GOL . JA 4 UZ0 E 1 306 1 UZ0 UZR . KA 2 PO4 F 1 301 6 PO4 PO4 . LA 3 GOL F 1 302 1 GOL GOL . MA 3 GOL F 1 303 18 GOL GOL . NA 3 GOL F 1 304 22 GOL GOL . OA 3 GOL F 1 305 28 GOL GOL . PA 3 GOL F 1 306 29 GOL GOL . QA 4 UZ0 F 1 307 2 UZ0 UZR . RA 2 PO4 G 1 301 7 PO4 PO4 . SA 3 GOL G 1 302 30 GOL GOL . TA 2 PO4 H 1 301 8 PO4 PO4 . UA 5 HOH A 1 401 105 HOH HOH . UA 5 HOH A 2 402 122 HOH HOH . UA 5 HOH A 3 403 56 HOH HOH . UA 5 HOH A 4 404 30 HOH HOH . UA 5 HOH A 5 405 137 HOH HOH . UA 5 HOH A 6 406 77 HOH HOH . UA 5 HOH A 7 407 6 HOH HOH . UA 5 HOH A 8 408 138 HOH HOH . UA 5 HOH A 9 409 111 HOH HOH . UA 5 HOH A 10 410 119 HOH HOH . UA 5 HOH A 11 411 98 HOH HOH . UA 5 HOH A 12 412 1 HOH HOH . UA 5 HOH A 13 413 62 HOH HOH . UA 5 HOH A 14 414 2 HOH HOH . UA 5 HOH A 15 415 8 HOH HOH . UA 5 HOH A 16 416 121 HOH HOH . UA 5 HOH A 17 417 16 HOH HOH . UA 5 HOH A 18 418 13 HOH HOH . UA 5 HOH A 19 419 212 HOH HOH . UA 5 HOH A 20 420 123 HOH HOH . UA 5 HOH A 21 421 206 HOH HOH . UA 5 HOH A 22 422 124 HOH HOH . UA 5 HOH A 23 423 118 HOH HOH . UA 5 HOH A 24 424 106 HOH HOH . UA 5 HOH A 25 425 107 HOH HOH . UA 5 HOH A 26 426 225 HOH HOH . UA 5 HOH A 27 427 136 HOH HOH . UA 5 HOH A 28 428 192 HOH HOH . UA 5 HOH A 29 429 125 HOH HOH . UA 5 HOH A 30 430 115 HOH HOH . VA 5 HOH B 1 401 221 HOH HOH . VA 5 HOH B 2 402 116 HOH HOH . VA 5 HOH B 3 403 101 HOH HOH . VA 5 HOH B 4 404 19 HOH HOH . VA 5 HOH B 5 405 104 HOH HOH . VA 5 HOH B 6 406 140 HOH HOH . VA 5 HOH B 7 407 223 HOH HOH . VA 5 HOH B 8 408 148 HOH HOH . VA 5 HOH B 9 409 126 HOH HOH . VA 5 HOH B 10 410 186 HOH HOH . VA 5 HOH B 11 411 127 HOH HOH . VA 5 HOH B 12 412 143 HOH HOH . VA 5 HOH B 13 413 144 HOH HOH . VA 5 HOH B 14 414 44 HOH HOH . VA 5 HOH B 15 415 18 HOH HOH . VA 5 HOH B 16 416 142 HOH HOH . VA 5 HOH B 17 417 141 HOH HOH . VA 5 HOH B 18 418 139 HOH HOH . VA 5 HOH B 19 419 94 HOH HOH . VA 5 HOH B 20 420 222 HOH HOH . VA 5 HOH B 21 421 96 HOH HOH . VA 5 HOH B 22 422 80 HOH HOH . VA 5 HOH B 23 423 216 HOH HOH . VA 5 HOH B 24 424 235 HOH HOH . VA 5 HOH B 25 425 89 HOH HOH . WA 5 HOH C 1 401 195 HOH HOH . WA 5 HOH C 2 402 234 HOH HOH . WA 5 HOH C 3 403 158 HOH HOH . WA 5 HOH C 4 404 155 HOH HOH . WA 5 HOH C 5 405 33 HOH HOH . WA 5 HOH C 6 406 199 HOH HOH . WA 5 HOH C 7 407 226 HOH HOH . WA 5 HOH C 8 408 194 HOH HOH . WA 5 HOH C 9 409 92 HOH HOH . WA 5 HOH C 10 410 129 HOH HOH . WA 5 HOH C 11 411 209 HOH HOH . WA 5 HOH C 12 412 97 HOH HOH . WA 5 HOH C 13 413 61 HOH HOH . WA 5 HOH C 14 414 20 HOH HOH . WA 5 HOH C 15 415 112 HOH HOH . WA 5 HOH C 16 416 161 HOH HOH . WA 5 HOH C 17 417 153 HOH HOH . WA 5 HOH C 18 418 128 HOH HOH . WA 5 HOH C 19 419 154 HOH HOH . WA 5 HOH C 20 420 213 HOH HOH . WA 5 HOH C 21 421 48 HOH HOH . XA 5 HOH D 1 401 227 HOH HOH . XA 5 HOH D 2 402 229 HOH HOH . XA 5 HOH D 3 403 25 HOH HOH . XA 5 HOH D 4 404 86 HOH HOH . XA 5 HOH D 5 405 102 HOH HOH . XA 5 HOH D 6 406 90 HOH HOH . XA 5 HOH D 7 407 75 HOH HOH . XA 5 HOH D 8 408 230 HOH HOH . XA 5 HOH D 9 409 103 HOH HOH . XA 5 HOH D 10 410 81 HOH HOH . XA 5 HOH D 11 411 40 HOH HOH . XA 5 HOH D 12 412 28 HOH HOH . XA 5 HOH D 13 413 23 HOH HOH . XA 5 HOH D 14 414 231 HOH HOH . XA 5 HOH D 15 415 173 HOH HOH . XA 5 HOH D 16 416 198 HOH HOH . XA 5 HOH D 17 417 232 HOH HOH . XA 5 HOH D 18 418 217 HOH HOH . XA 5 HOH D 19 419 68 HOH HOH . XA 5 HOH D 20 420 22 HOH HOH . XA 5 HOH D 21 421 196 HOH HOH . XA 5 HOH D 22 422 27 HOH HOH . XA 5 HOH D 23 423 24 HOH HOH . XA 5 HOH D 24 424 82 HOH HOH . XA 5 HOH D 25 425 228 HOH HOH . YA 5 HOH E 1 401 166 HOH HOH . YA 5 HOH E 2 402 163 HOH HOH . YA 5 HOH E 3 403 51 HOH HOH . YA 5 HOH E 4 404 100 HOH HOH . YA 5 HOH E 5 405 165 HOH HOH . YA 5 HOH E 6 406 177 HOH HOH . YA 5 HOH E 7 407 108 HOH HOH . YA 5 HOH E 8 408 37 HOH HOH . YA 5 HOH E 9 409 49 HOH HOH . YA 5 HOH E 10 410 147 HOH HOH . YA 5 HOH E 11 411 132 HOH HOH . YA 5 HOH E 12 412 193 HOH HOH . YA 5 HOH E 13 413 66 HOH HOH . YA 5 HOH E 14 414 215 HOH HOH . YA 5 HOH E 15 415 214 HOH HOH . YA 5 HOH E 16 416 55 HOH HOH . YA 5 HOH E 17 417 164 HOH HOH . ZA 5 HOH F 1 401 238 HOH HOH . ZA 5 HOH F 2 402 174 HOH HOH . ZA 5 HOH F 3 403 170 HOH HOH . ZA 5 HOH F 4 404 29 HOH HOH . ZA 5 HOH F 5 405 160 HOH HOH . ZA 5 HOH F 6 406 5 HOH HOH . ZA 5 HOH F 7 407 64 HOH HOH . ZA 5 HOH F 8 408 93 HOH HOH . ZA 5 HOH F 9 409 172 HOH HOH . ZA 5 HOH F 10 410 34 HOH HOH . ZA 5 HOH F 11 411 91 HOH HOH . ZA 5 HOH F 12 412 237 HOH HOH . ZA 5 HOH F 13 413 69 HOH HOH . ZA 5 HOH F 14 414 109 HOH HOH . ZA 5 HOH F 15 415 110 HOH HOH . ZA 5 HOH F 16 416 218 HOH HOH . ZA 5 HOH F 17 417 10 HOH HOH . ZA 5 HOH F 18 418 201 HOH HOH . ZA 5 HOH F 19 419 11 HOH HOH . ZA 5 HOH F 20 420 9 HOH HOH . ZA 5 HOH F 21 421 200 HOH HOH . ZA 5 HOH F 22 422 171 HOH HOH . ZA 5 HOH F 23 423 85 HOH HOH . ZA 5 HOH F 24 424 176 HOH HOH . ZA 5 HOH F 25 425 168 HOH HOH . ZA 5 HOH F 26 426 63 HOH HOH . ZA 5 HOH F 27 427 70 HOH HOH . ZA 5 HOH F 28 428 219 HOH HOH . AB 5 HOH G 1 401 152 HOH HOH . AB 5 HOH G 2 402 178 HOH HOH . AB 5 HOH G 3 403 210 HOH HOH . AB 5 HOH G 4 404 42 HOH HOH . AB 5 HOH G 5 405 181 HOH HOH . AB 5 HOH G 6 406 38 HOH HOH . AB 5 HOH G 7 407 197 HOH HOH . AB 5 HOH G 8 408 183 HOH HOH . AB 5 HOH G 9 409 83 HOH HOH . AB 5 HOH G 10 410 74 HOH HOH . AB 5 HOH G 11 411 133 HOH HOH . AB 5 HOH G 12 412 224 HOH HOH . AB 5 HOH G 13 413 39 HOH HOH . AB 5 HOH G 14 414 211 HOH HOH . AB 5 HOH G 15 415 113 HOH HOH . AB 5 HOH G 16 416 41 HOH HOH . AB 5 HOH G 17 417 151 HOH HOH . AB 5 HOH G 18 418 180 HOH HOH . AB 5 HOH G 19 419 184 HOH HOH . AB 5 HOH G 20 420 150 HOH HOH . AB 5 HOH G 21 421 236 HOH HOH . AB 5 HOH G 22 422 45 HOH HOH . AB 5 HOH G 23 423 149 HOH HOH . AB 5 HOH G 24 424 179 HOH HOH . BB 5 HOH H 1 401 95 HOH HOH . BB 5 HOH H 2 402 191 HOH HOH . BB 5 HOH H 3 403 188 HOH HOH . BB 5 HOH H 4 404 114 HOH HOH . BB 5 HOH H 5 405 135 HOH HOH . BB 5 HOH H 6 406 189 HOH HOH . BB 5 HOH H 7 407 117 HOH HOH . BB 5 HOH H 8 408 175 HOH HOH . BB 5 HOH H 9 409 233 HOH HOH . BB 5 HOH H 10 410 220 HOH HOH . BB 5 HOH H 11 411 31 HOH HOH . BB 5 HOH H 12 412 159 HOH HOH . BB 5 HOH H 13 413 134 HOH HOH . BB 5 HOH H 14 414 187 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 UZ0 . . . QA 4 107.481 -51.086 41.301 1 112.65 ? N1 UZ0 307 F 1 HETATM 2 C C2 UZ0 . . . QA 4 106.508 -51.968 41.013 1 102.84 ? C2 UZ0 307 F 1 HETATM 3 O O2 UZ0 . . . QA 4 105.905 -52.454 41.947 1 102.46 ? O2 UZ0 307 F 1 HETATM 4 N N3 UZ0 . . . QA 4 106.202 -52.311 39.736 1 96.04 ? N3 UZ0 307 F 1 HETATM 5 C C4 UZ0 . . . QA 4 106.892 -51.757 38.706 1 117.57 ? C4 UZ0 307 F 1 HETATM 6 O O4 UZ0 . . . QA 4 106.646 -52.051 37.544 1 112.08 ? O4 UZ0 307 F 1 HETATM 7 C C5 UZ0 . . . QA 4 107.925 -50.818 38.974 1 125.55 ? C5 UZ0 307 F 1 HETATM 8 C C6 UZ0 . . . QA 4 108.189 -50.503 40.27 1 121.13 ? C6 UZ0 307 F 1 HETATM 9 C C1' UZ0 . . . QA 4 107.751 -50.737 42.714 1 108.35 ? C1' UZ0 307 F 1 HETATM 10 C C2' UZ0 . . . QA 4 108.746 -51.69 43.427 1 111.1 ? C2' UZ0 307 F 1 HETATM 11 C C3' UZ0 . . . QA 4 110.158 -51.086 43.34 1 119.78 ? C3' UZ0 307 F 1 HETATM 12 N N3' UZ0 . . . QA 4 108.441 -52.667 44.479 1 101.08 ? N3' UZ0 307 F 1 HETATM 13 O O3' UZ0 . . . QA 4 110.928 -51.383 44.51 1 115.1 ? O3' UZ0 307 F 1 HETATM 14 C C4' UZ0 . . . QA 4 109.798 -49.592 43.318 1 133.84 ? C4' UZ0 307 F 1 HETATM 15 N N4' UZ0 . . . QA 4 107.417 -53.114 44.669 1 97.08 ? N4' UZ0 307 F 1 HETATM 16 O O4' UZ0 . . . QA 4 108.454 -49.457 42.77 1 119.25 ? O4' UZ0 307 F 1 HETATM 17 C C5' UZ0 . . . QA 4 110.87 -48.83 42.516 1 103.95 ? C5' UZ0 307 F 1 HETATM 18 N N5' UZ0 . . . QA 4 106.412 -53.586 44.917 1 98.16 ? N5' UZ0 307 F 1 HETATM 19 O O5' UZ0 . . . QA 4 111.096 -47.543 43.116 1 82.61 ? O5' UZ0 307 F 1 # _model_server_stats.io_time_ms 9 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 21 _model_server_stats.query_time_ms 242 _model_server_stats.encode_time_ms 11 _model_server_stats.element_count 19 #