data_6YO1
#
_model_server_result.job_id            Yn1dPplvPwQiJ64jIhi3Xw 
_model_server_result.datetime_utc      '2024-11-09 02:50:50' 
_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":"D","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 . . . D 2 45.167 1.809 40.329 1 66.09 ? N1 UVC 201 B 1 
HETATM 2 C C2 UVC . . . D 2 44.608 3.086 40.614 1 54.21 ? C2 UVC 201 B 1 
HETATM 3 N N3 UVC . . . D 2 45.12 4.196 40.07 1 63.17 ? N3 UVC 201 B 1 
HETATM 4 C C4 UVC . . . D 2 46.161 4.146 39.223 1 75.58 ? C4 UVC 201 B 1 
HETATM 5 C C5 UVC . . . D 2 46.723 2.915 38.915 1 73.48 ? C5 UVC 201 B 1 
HETATM 6 C C6 UVC . . . D 2 46.201 1.758 39.483 1 71.93 ? C6 UVC 201 B 1 
HETATM 7 O O2 UVC . . . D 2 43.645 3.22 41.391 1 39.15 ? O2 UVC 201 B 1 
HETATM 8 O O4 UVC . . . D 2 46.631 5.194 38.709 1 70.91 ? O4 UVC 201 B 1 
HETATM 9 C C1' UVC . . . D 2 44.663 0.525 40.893 1 76.41 ? C1' UVC 201 B 1 
HETATM 10 C C2' UVC . . . D 2 43.56 -0.083 40.017 1 82.13 ? C2' UVC 201 B 1 
HETATM 11 O O2' UVC . . . D 2 42.475 -0.536 40.817 1 77.88 ? O2' UVC 201 B 1 
HETATM 12 C C3' UVC . . . D 2 44.213 -1.304 39.435 1 83.77 ? C3' UVC 201 B 1 
HETATM 13 C C4' UVC . . . D 2 45.446 -1.607 40.242 1 79.54 ? C4' UVC 201 B 1 
HETATM 14 O O3' UVC . . . D 2 43.433 -2.289 38.824 1 88.8 ? O3' UVC 201 B 1 
HETATM 15 O O4' UVC . . . D 2 45.751 -0.375 40.946 1 76.81 ? O4' UVC 201 B 1 
HETATM 16 C C5' UVC . . . D 2 46.664 -2.039 39.461 1 79.29 ? C5' UVC 201 B 1 
HETATM 17 O O5' UVC . . . D 2 47.069 -1.047 38.528 1 80.99 ? O5' UVC 201 B 1 
HETATM 18 V V UVC . . . D 2 41.537 -2.109 39.741 0.75 83.13 ? V UVC 201 B 1 
HETATM 19 O O1V UVC . . . D 2 40.695 -3.671 38.594 0.75 77.13 ? O1V UVC 201 B 1 
HETATM 20 O O2V UVC . . . D 2 40.217 -0.841 39.117 0.75 48.16 ? O2V UVC 201 B 1 
HETATM 21 O O3V UVC . . . D 2 41.261 -3.214 41.512 0.75 72.66 ? O3V UVC 201 B 1 
#
_model_server_stats.io_time_ms              13 
_model_server_stats.parse_time_ms           14 
_model_server_stats.create_model_time_ms    2 
_model_server_stats.query_time_ms           310 
_model_server_stats.encode_time_ms          15 
_model_server_stats.element_count           21 
#