data_6YO1 # _model_server_result.job_id ZO-jeA3tpPco5roo95x8NQ _model_server_result.datetime_utc '2024-11-09 02:46:49' _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 6yo1 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":201}' # _entry.id 6YO1 # _exptl.entry_id 6YO1 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 343.141 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "URIDINE-2',3'-VANADATE" _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 90.825 _cell.angle_gamma 90 _cell.entry_id 6YO1 _cell.length_a 100.51 _cell.length_b 32.66 _cell.length_c 72.4 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6YO1 _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall 'C 2y' _symmetry.space_group_name_H-M 'C 1 2 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 ? monomeric 1 author_defined_assembly 1 ? monomeric 1 author_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,E 1 1 B,D,F 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 ? 2 C N N ? 2 D 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 disulf ? disulf1 A SG CYS 26 A CYS 26 1_555 A SG CYS 84 A CYS 84 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.026 ? disulf ? disulf2 A SG CYS 40 A CYS 40 1_555 A SG CYS 95 A CYS 95 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf3 A SG CYS 58 A CYS 58 1_555 A SG CYS 110 A CYS 110 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.024 ? disulf ? disulf4 A SG CYS 65 A CYS 65 1_555 A SG CYS 72 A CYS 72 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf5 B SG CYS 26 B CYS 26 1_555 B SG CYS 84 B CYS 84 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.053 ? disulf ? disulf6 B SG CYS 40 B CYS 40 1_555 B SG CYS 95 B CYS 95 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? disulf ? disulf7 B SG CYS 58 B CYS 58 1_555 B SG CYS 110 B CYS 110 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf8 B SG CYS 65 B CYS 65 1_555 B SG CYS 72 B CYS 72 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.022 ? # _chem_comp.formula 'C9 H12 N2 O9 V' _chem_comp.formula_weight 343.141 _chem_comp.id UVC _chem_comp.mon_nstd_flag . _chem_comp.name "URIDINE-2',3'-VANADATE" _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 UVC sing 330 n n N1 C6 UVC sing 331 n n N1 C1' UVC sing 332 n n C2 N3 UVC sing 333 n n C2 O2 UVC doub 334 n n N3 C4 UVC sing 335 n n N3 HN3 UVC sing 336 n n C4 C5 UVC sing 337 n n C4 O4 UVC doub 338 n n C5 C6 UVC doub 339 n n C5 H5 UVC sing 340 n n C6 H6 UVC sing 341 n n C1' C2' UVC sing 342 n n C1' O4' UVC sing 343 n n C1' H1' UVC sing 344 n n C2' O2' UVC sing 345 n n C2' C3' UVC sing 346 n n C2' H2' UVC sing 347 n n O2' V UVC sing 348 n n C3' C4' UVC sing 349 n n C3' O3' UVC sing 350 n n C3' H3' UVC sing 351 n n C4' O4' UVC sing 352 n n C4' C5' UVC sing 353 n n C4' H4' UVC sing 354 n n O3' V UVC sing 355 n n C5' O5' UVC sing 356 n n C5' "H5'1" UVC sing 357 n n C5' "H5'2" UVC sing 358 n n O5' HO5' UVC sing 359 n n V O1V UVC sing 360 n n V O2V UVC doub 361 n n V O3V UVC sing 362 n n O1V HOV1 UVC sing 363 n n O3V HOV3 UVC sing 364 n n # _atom_sites.entry_id 6YO1 _atom_sites.fract_transf_matrix[1][1] 0.009949 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.000143 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.030618 _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] 0.013814 _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 UVC A 1 201 201 UVC UVC . D 2 UVC B 1 201 201 UVC UVC . E 3 HOH A 1 301 67 HOH HOH . E 3 HOH A 2 302 29 HOH HOH . E 3 HOH A 3 303 41 HOH HOH . E 3 HOH A 4 304 36 HOH HOH . E 3 HOH A 5 305 27 HOH HOH . E 3 HOH A 6 306 71 HOH HOH . E 3 HOH A 7 307 1 HOH HOH . E 3 HOH A 8 308 78 HOH HOH . E 3 HOH A 9 309 11 HOH HOH . E 3 HOH A 10 310 40 HOH HOH . E 3 HOH A 11 311 69 HOH HOH . E 3 HOH A 12 312 25 HOH HOH . E 3 HOH A 13 313 50 HOH HOH . E 3 HOH A 14 314 37 HOH HOH . E 3 HOH A 15 315 38 HOH HOH . E 3 HOH A 16 316 5 HOH HOH . E 3 HOH A 17 317 22 HOH HOH . E 3 HOH A 18 318 42 HOH HOH . E 3 HOH A 19 319 10 HOH HOH . E 3 HOH A 20 320 8 HOH HOH . E 3 HOH A 21 321 56 HOH HOH . E 3 HOH A 22 322 86 HOH HOH . E 3 HOH A 23 323 58 HOH HOH . E 3 HOH A 24 324 14 HOH HOH . E 3 HOH A 25 325 39 HOH HOH . E 3 HOH A 26 326 74 HOH HOH . E 3 HOH A 27 327 24 HOH HOH . E 3 HOH A 28 328 68 HOH HOH . E 3 HOH A 29 329 34 HOH HOH . E 3 HOH A 30 330 73 HOH HOH . E 3 HOH A 31 331 35 HOH HOH . E 3 HOH A 32 332 76 HOH HOH . E 3 HOH A 33 333 57 HOH HOH . E 3 HOH A 34 334 72 HOH HOH . E 3 HOH A 35 335 16 HOH HOH . E 3 HOH A 36 336 48 HOH HOH . E 3 HOH A 37 337 28 HOH HOH . E 3 HOH A 38 338 66 HOH HOH . E 3 HOH A 39 339 15 HOH HOH . E 3 HOH A 40 340 70 HOH HOH . E 3 HOH A 41 341 59 HOH HOH . F 3 HOH B 1 301 55 HOH HOH . F 3 HOH B 2 302 79 HOH HOH . F 3 HOH B 3 303 12 HOH HOH . F 3 HOH B 4 304 9 HOH HOH . F 3 HOH B 5 305 60 HOH HOH . F 3 HOH B 6 306 51 HOH HOH . F 3 HOH B 7 307 47 HOH HOH . F 3 HOH B 8 308 18 HOH HOH . F 3 HOH B 9 309 20 HOH HOH . F 3 HOH B 10 310 13 HOH HOH . F 3 HOH B 11 311 53 HOH HOH . F 3 HOH B 12 312 61 HOH HOH . F 3 HOH B 13 313 23 HOH HOH . F 3 HOH B 14 314 4 HOH HOH . F 3 HOH B 15 315 81 HOH HOH . F 3 HOH B 16 316 65 HOH HOH . F 3 HOH B 17 317 32 HOH HOH . F 3 HOH B 18 318 82 HOH HOH . F 3 HOH B 19 319 84 HOH HOH . F 3 HOH B 20 320 63 HOH HOH . F 3 HOH B 21 321 80 HOH HOH . F 3 HOH B 22 322 6 HOH HOH . F 3 HOH B 23 323 54 HOH HOH . F 3 HOH B 24 324 33 HOH HOH . F 3 HOH B 25 325 83 HOH HOH . F 3 HOH B 26 326 21 HOH HOH . F 3 HOH B 27 327 3 HOH HOH . F 3 HOH B 28 328 64 HOH HOH . F 3 HOH B 29 329 17 HOH HOH . F 3 HOH B 30 330 52 HOH HOH . F 3 HOH B 31 331 7 HOH HOH . F 3 HOH B 32 332 75 HOH HOH . F 3 HOH B 33 333 45 HOH HOH . F 3 HOH B 34 334 19 HOH HOH . F 3 HOH B 35 335 44 HOH HOH . F 3 HOH B 36 336 2 HOH HOH . F 3 HOH B 37 337 26 HOH HOH . F 3 HOH B 38 338 62 HOH HOH . F 3 HOH B 39 339 85 HOH HOH . F 3 HOH B 40 340 43 HOH HOH . F 3 HOH B 41 341 49 HOH HOH . F 3 HOH B 42 342 46 HOH HOH . F 3 HOH B 43 343 77 HOH HOH . F 3 HOH B 44 344 31 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 UVC . . . C 2 36.649 19.472 11.873 1 53.51 ? N1 UVC 201 A 1 HETATM 2 C C2 UVC . . . C 2 35.416 19.284 11.207 1 40.78 ? C2 UVC 201 A 1 HETATM 3 N N3 UVC . . . C 2 34.711 18.149 11.346 1 45.14 ? N3 UVC 201 A 1 HETATM 4 C C4 UVC . . . C 2 35.173 17.163 12.135 1 55.17 ? C4 UVC 201 A 1 HETATM 5 C C5 UVC . . . C 2 36.386 17.317 12.804 1 55.99 ? C5 UVC 201 A 1 HETATM 6 C C6 UVC . . . C 2 37.12 18.494 12.657 1 54.67 ? C6 UVC 201 A 1 HETATM 7 O O2 UVC . . . C 2 34.963 20.183 10.481 1 37.77 ? O2 UVC 201 A 1 HETATM 8 O O4 UVC . . . C 2 34.515 16.108 12.274 1 51.65 ? O4 UVC 201 A 1 HETATM 9 C C1' UVC . . . C 2 37.429 20.721 11.703 1 54.52 ? C1' UVC 201 A 1 HETATM 10 C C2' UVC . . . C 2 36.964 21.799 12.685 1 57.49 ? C2' UVC 201 A 1 HETATM 11 O O2' UVC . . . C 2 36.821 23.043 12.015 1 56.14 ? O2' UVC 201 A 1 HETATM 12 C C3' UVC . . . C 2 38.123 21.934 13.627 1 55.63 ? C3' UVC 201 A 1 HETATM 13 C C4' UVC . . . C 2 39.328 21.313 12.976 1 54.67 ? C4' UVC 201 A 1 HETATM 14 O O3' UVC . . . C 2 38.202 23.041 14.463 1 61.59 ? O3' UVC 201 A 1 HETATM 15 O O4' UVC . . . C 2 38.788 20.429 11.956 1 50.17 ? O4' UVC 201 A 1 HETATM 16 C C5' UVC . . . C 2 40.236 20.526 13.883 1 50.65 ? C5' UVC 201 A 1 HETATM 17 O O5' UVC . . . C 2 39.549 19.446 14.491 1 65.24 ? O5' UVC 201 A 1 HETATM 18 V V UVC . . . C 2 37.115 24.558 13.463 0.75 58.98 ? V UVC 201 A 1 HETATM 19 O O1V UVC . . . C 2 37.484 25.958 15.006 0.75 47.47 ? O1V UVC 201 A 1 HETATM 20 O O2V UVC . . . C 2 35.201 24.749 13.58 0.75 31.28 ? O2V UVC 201 A 1 HETATM 21 O O3V UVC . . . C 2 38.218 25.768 12.141 0.75 48.05 ? O3V UVC 201 A 1 # _model_server_stats.io_time_ms 74 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 304 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 21 #