data_7BL7 # _model_server_result.job_id VdCDQepxs47x62XLuemTQA _model_server_result.datetime_utc '2024-11-21 18:58:30' _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 7bl7 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"N","auth_seq_id":301}' # _entry.id 7BL7 # _exptl.entry_id 7BL7 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 484.141 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "URIDINE 5'-TRIPHOSPHATE" _entity.pdbx_number_of_molecules 8 _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 7BL7 _cell.length_a 151.23 _cell.length_b 165.75 _cell.length_c 125.02 _cell.Z_PDB 48 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7BL7 _symmetry.cell_setting ? _symmetry.Int_Tables_number 18 _symmetry.space_group_name_Hall 'P 2 2ab' _symmetry.space_group_name_H-M 'P 21 21 2' # 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 hexameric 6 author_and_software_defined_assembly 1 PISA hexameric 6 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,B,C,D,E,F,M,N,O,P,Q,R,S,T,CA,DA,EA,FA,GA,HA 1 1 G,H,I,J,K,L,U,V,W,X,Y,Z,AA,BA,IA,JA,KA,LA,MA 2 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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 3 N N N ? 3 O N N ? 3 Q N N ? 3 S N N ? 3 U N N ? 3 W N N ? 3 Z N N ? 3 AA N N # _chem_comp.formula 'C9 H15 N2 O15 P3' _chem_comp.formula_weight 484.141 _chem_comp.id UTP _chem_comp.mon_nstd_flag . _chem_comp.name "URIDINE 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 PA O1A UTP doub 370 n n PA O2A UTP sing 371 n n PA O3A UTP sing 372 n n PA O5' UTP sing 373 n n O2A H2A UTP sing 374 n n O3A PB UTP sing 375 n n O5' C5' UTP sing 376 n n PB O1B UTP sing 377 n n PB O2B UTP doub 378 n n PB O3B UTP sing 379 n n O1B H1B UTP sing 380 n n O3B PG UTP sing 381 n n PG O1G UTP sing 382 n n PG O2G UTP doub 383 n n PG O3G UTP sing 384 n n O1G H1G UTP sing 385 n n O3G H3G UTP sing 386 n n C5' C4' UTP sing 387 n n C5' "H5'1" UTP sing 388 n n C5' "H5'2" UTP sing 389 n n C4' O4' UTP sing 390 n n C4' C3' UTP sing 391 n n C4' H4' UTP sing 392 n n O4' C1' UTP sing 393 n n C1' C2' UTP sing 394 n n C1' N1 UTP sing 395 n n C1' H1' UTP sing 396 n n C2' O2' UTP sing 397 n n C2' C3' UTP sing 398 n n C2' H2' UTP sing 399 n n O2' HA UTP sing 400 n n C3' O3' UTP sing 401 n n C3' H3' UTP sing 402 n n O3' HB UTP sing 403 n n N1 C6 UTP sing 404 n y N1 C2 UTP sing 405 n y C6 C5 UTP doub 406 n y C6 H6 UTP sing 407 n n C2 O2 UTP doub 408 n n C2 N3 UTP sing 409 n y N3 C4 UTP sing 410 n y N3 H3 UTP sing 411 n n C4 O4 UTP doub 412 n n C4 C5 UTP sing 413 n y C5 H5 UTP sing 414 n n # _atom_sites.entry_id 7BL7 _atom_sites.fract_transf_matrix[1][1] 0.006612 _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] 0.006033 _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] 0.007999 _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 M 2 UDP B 1 301 5 UDP UDP . N 3 UTP A 1 301 4 UTP UTP . O 3 UTP F 1 301 1 UTP UTP . P 2 UDP E 1 301 6 UDP UDP . Q 3 UTP D 1 301 2 UTP UTP . R 2 UDP D 1 302 2 UDP UDP . S 3 UTP C 1 301 3 UTP UTP . T 2 UDP C 1 302 1 UDP UDP . U 3 UTP I 1 301 2 UTP UTP . V 2 UDP I 1 302 4 UDP UDP . W 3 UTP J 1 301 3 UTP UTP . X 2 UDP J 1 302 3 UDP UDP . Y 2 UDP K 1 301 8 UDP UDP . Z 3 UTP L 1 301 4 UTP UTP . AA 3 UTP G 1 301 1 UTP UTP . BA 2 UDP H 1 301 7 UDP UDP . CA 4 HOH B 1 401 19 HOH HOH . CA 4 HOH B 2 402 1 HOH HOH . CA 4 HOH B 3 403 32 HOH HOH . CA 4 HOH B 4 404 18 HOH HOH . CA 4 HOH B 5 405 24 HOH HOH . CA 4 HOH B 6 406 9 HOH HOH . CA 4 HOH B 7 407 10 HOH HOH . DA 4 HOH A 1 401 22 HOH HOH . EA 4 HOH F 1 401 31 HOH HOH . FA 4 HOH E 1 401 8 HOH HOH . FA 4 HOH E 2 402 21 HOH HOH . FA 4 HOH E 3 403 20 HOH HOH . FA 4 HOH E 4 404 2 HOH HOH . FA 4 HOH E 5 405 36 HOH HOH . FA 4 HOH E 6 406 34 HOH HOH . GA 4 HOH D 1 401 7 HOH HOH . GA 4 HOH D 2 402 41 HOH HOH . GA 4 HOH D 3 403 35 HOH HOH . GA 4 HOH D 4 404 40 HOH HOH . GA 4 HOH D 5 405 30 HOH HOH . GA 4 HOH D 6 406 42 HOH HOH . HA 4 HOH C 1 401 43 HOH HOH . HA 4 HOH C 2 402 6 HOH HOH . HA 4 HOH C 3 403 39 HOH HOH . HA 4 HOH C 4 404 38 HOH HOH . IA 4 HOH I 1 401 33 HOH HOH . IA 4 HOH I 2 402 4 HOH HOH . IA 4 HOH I 3 403 11 HOH HOH . JA 4 HOH J 1 401 16 HOH HOH . JA 4 HOH J 2 402 15 HOH HOH . JA 4 HOH J 3 403 17 HOH HOH . KA 4 HOH L 1 401 37 HOH HOH . LA 4 HOH G 1 401 29 HOH HOH . LA 4 HOH G 2 402 28 HOH HOH . LA 4 HOH G 3 403 27 HOH HOH . LA 4 HOH G 4 404 5 HOH HOH . MA 4 HOH H 1 401 3 HOH HOH . MA 4 HOH H 2 402 23 HOH HOH . MA 4 HOH H 3 403 14 HOH HOH . MA 4 HOH H 4 404 13 HOH HOH . MA 4 HOH H 5 405 12 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 PA UTP . . . N 3 41.483 -5.133 70.951 1 77.48 ? PA UTP 301 A 1 HETATM 2 O O1A UTP . . . N 3 42.455 -4.305 70.225 1 69.68 ? O1A UTP 301 A 1 HETATM 3 O O2A UTP . . . N 3 40.6 -4.096 71.48 1 79.42 ? O2A UTP 301 A 1 HETATM 4 O O3A UTP . . . N 3 42.157 -5.965 72.216 1 85.82 ? O3A UTP 301 A 1 HETATM 5 O O5' UTP . . . N 3 40.673 -6.148 69.922 1 76.1 ? O5' UTP 301 A 1 HETATM 6 P PB UTP . . . N 3 43.521 -6.906 72.207 1 88.39 ? PB UTP 301 A 1 HETATM 7 O O1B UTP . . . N 3 43.226 -8.335 72.298 1 69.45 ? O1B UTP 301 A 1 HETATM 8 O O2B UTP . . . N 3 44.231 -6.808 70.929 1 89.01 ? O2B UTP 301 A 1 HETATM 9 O O3B UTP . . . N 3 44.548 -6.476 73.418 1 99.38 ? O3B UTP 301 A 1 HETATM 10 P PG UTP . . . N 3 44.123 -5.775 74.846 1 99.51 ? PG UTP 301 A 1 HETATM 11 O O1G UTP . . . N 3 45.303 -5.546 75.688 1 101.9 ? O1G UTP 301 A 1 HETATM 12 O O2G UTP . . . N 3 43.536 -4.437 74.659 1 93.39 ? O2G UTP 301 A 1 HETATM 13 O O3G UTP . . . N 3 43.17 -6.589 75.677 1 102.47 ? O3G UTP 301 A 1 HETATM 14 C C5' UTP . . . N 3 40.701 -7.545 70.099 1 64.38 ? C5' UTP 301 A 1 HETATM 15 C C4' UTP . . . N 3 40.618 -8.287 68.794 1 58.52 ? C4' UTP 301 A 1 HETATM 16 O O4' UTP . . . N 3 40.1 -7.441 67.723 1 58.33 ? O4' UTP 301 A 1 HETATM 17 C C1' UTP . . . N 3 41.018 -7.46 66.588 1 55.91 ? C1' UTP 301 A 1 HETATM 18 C C2' UTP . . . N 3 42.328 -7.834 67.203 1 52.23 ? C2' UTP 301 A 1 HETATM 19 O O2' UTP . . . N 3 43.094 -8.623 66.304 1 48.84 ? O2' UTP 301 A 1 HETATM 20 C C3' UTP . . . N 3 41.989 -8.685 68.366 1 56.7 ? C3' UTP 301 A 1 HETATM 21 O O3' UTP . . . N 3 41.969 -10.063 67.994 1 57.96 ? O3' UTP 301 A 1 HETATM 22 N N1 UTP . . . N 3 41.003 -6.198 65.897 1 51.77 ? N1 UTP 301 A 1 HETATM 23 C C6 UTP . . . N 3 41.684 -4.99 66.427 1 51.77 ? C6 UTP 301 A 1 HETATM 24 C C2 UTP . . . N 3 40.28 -6.084 64.645 1 52.04 ? C2 UTP 301 A 1 HETATM 25 O O2 UTP . . . N 3 39.719 -7.016 64.199 1 57 ? O2 UTP 301 A 1 HETATM 26 N N3 UTP . . . N 3 40.226 -4.872 63.926 1 55.88 ? N3 UTP 301 A 1 HETATM 27 C C4 UTP . . . N 3 40.872 -3.72 64.421 1 57.05 ? C4 UTP 301 A 1 HETATM 28 O O4 UTP . . . N 3 40.816 -2.706 63.795 1 47.67 ? O4 UTP 301 A 1 HETATM 29 C C5 UTP . . . N 3 41.635 -3.818 65.745 1 58.44 ? C5 UTP 301 A 1 # _model_server_stats.io_time_ms 61 _model_server_stats.parse_time_ms 25 _model_server_stats.create_model_time_ms 19 _model_server_stats.query_time_ms 274 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 29 #