data_11BG
#
_model_server_result.job_id            w_egbFjXYwISf0uTy6wlMA 
_model_server_result.datetime_utc      '2025-03-03 00:12:38' 
_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          11bg 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"J","auth_seq_id":132}' 
#
_entry.id    11BG 
#
_exptl.entry_id    11BG 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              589.407 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            "URIDYLYL-2'-5'-PHOSPHO-GUANOSINE" 
_entity.pdbx_number_of_molecules    4 
_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            11BG 
_cell.length_a            36.4 
_cell.length_b            66.7 
_cell.length_c            107.7 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 11BG 
_symmetry.cell_setting             orthorhombic 
_symmetry.Int_Tables_number        18 
_symmetry.space_group_name_Hall    . 
_symmetry.space_group_name_H-M     'P 2 21 21' 
#
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 dimeric 2 author_and_software_defined_assembly 1 
PISA tetrameric 4 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,G,H,I,J,K,L,M,N,O,P 1 1 
A,B,C,D,E,F,G,H,I,J,K,L,M,N,O,P 2 1,2 
#
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' 2_566 x,-y+1,-z+1 1 0 0 0 -1 0 0 0 -1 0 66.7 107.7 
#
loop_
_struct_asym.details
_struct_asym.entity_id
_struct_asym.id
_struct_asym.pdbx_modified
_struct_asym.pdbx_blank_PDB_chainid_flag
? 3 H N N 
? 3 I N N 
? 3 J N N 
? 3 N 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 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? 
disulf ? disulf2 A SG CYS 31 A CYS 31 1_555 B SG CYS 32 B CYS 32 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? 
disulf ? disulf3 A SG CYS 32 A CYS 32 1_555 B SG CYS 31 B CYS 31 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.024 ? 
disulf ? disulf4 A SG CYS 40 A CYS 40 1_555 A SG CYS 95 A CYS 95 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.02 ? 
disulf ? disulf5 A SG CYS 58 A CYS 58 1_555 A SG CYS 110 A CYS 110 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.997 ? 
disulf ? disulf6 A SG CYS 65 A CYS 65 1_555 A SG CYS 72 A CYS 72 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.019 ? 
disulf ? disulf7 B SG CYS 26 B CYS 26 1_555 B SG CYS 84 B CYS 84 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? 
disulf ? disulf8 B SG CYS 40 B CYS 40 1_555 B SG CYS 95 B CYS 95 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.003 ? 
disulf ? disulf9 B SG CYS 58 B CYS 58 1_555 B SG CYS 110 B CYS 110 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.012 ? 
disulf ? disulf10 B SG CYS 65 B CYS 65 1_555 B SG CYS 72 B CYS 72 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.019 ? 
#
_chem_comp.formula           'C19 H24 N7 O13 P' 
_chem_comp.formula_weight    589.407 
_chem_comp.id                U2G 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              "URIDYLYL-2'-5'-PHOSPHO-GUANOSINE" 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     "PHOSPHORIC ACID-2'-[2'-DEOXY-URIDINE]ESTER-5'-GUANOSINE ESTER" 
#
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
N1G C2G U2G sing 334 n n 
N1G C6G U2G sing 335 n n 
N1G H1G U2G sing 336 n n 
C2G N2G U2G sing 337 n n 
C2G N3G U2G doub 338 n n 
N2G H2G1 U2G sing 339 n n 
N2G H2G2 U2G sing 340 n n 
N3G C4G U2G sing 341 n n 
C4G C5G U2G doub 342 n y 
C4G N9G U2G sing 343 n y 
C5G C6G U2G sing 344 n n 
C5G N7G U2G sing 345 n y 
C6G O6G U2G doub 346 n n 
N7G C8G U2G doub 347 n y 
C8G N9G U2G sing 348 n y 
C8G H8G U2G sing 349 n n 
N9G C1B U2G sing 350 n n 
C1B C2B U2G sing 351 n n 
C1B O4B U2G sing 352 n n 
C1B H1G' U2G sing 353 n n 
C2B O2B U2G sing 354 n n 
C2B C3B U2G sing 355 n n 
C2B H2G' U2G sing 356 n n 
O2B HOG2 U2G sing 357 n n 
C3B O3B U2G sing 358 n n 
C3B C4B U2G sing 359 n n 
C3B H3G' U2G sing 360 n n 
O3B HOG3 U2G sing 361 n n 
C4B O4B U2G sing 362 n n 
C4B C5B U2G sing 363 n n 
C4B H4G' U2G sing 364 n n 
C5B O5B U2G sing 365 n n 
C5B H5G1 U2G sing 366 n n 
C5B H5G2 U2G sing 367 n n 
O5B P U2G sing 368 n n 
P O1P U2G doub 369 n n 
P O2P U2G sing 370 n n 
P O2D U2G sing 371 n n 
O2P HOP2 U2G sing 372 n n 
O5D C5D U2G sing 373 n n 
O5D HOU5 U2G sing 374 n n 
C5D C4D U2G sing 375 n n 
C5D H5U1 U2G sing 376 n n 
C5D H5U2 U2G sing 377 n n 
C4D O4D U2G sing 378 n n 
C4D C3D U2G sing 379 n n 
C4D H4U' U2G sing 380 n n 
O4D C1D U2G sing 381 n n 
C3D O3D U2G sing 382 n n 
C3D C2D U2G sing 383 n n 
C3D H3U' U2G sing 384 n n 
O3D HOU3 U2G sing 385 n n 
C2D O2D U2G sing 386 n n 
C2D C1D U2G sing 387 n n 
C2D H2U' U2G sing 388 n n 
C1D N1U U2G sing 389 n n 
C1D H1U' U2G sing 390 n n 
N1U C2U U2G sing 391 n n 
N1U C6U U2G sing 392 n n 
C2U O2U U2G doub 393 n n 
C2U N3U U2G sing 394 n n 
N3U C4U U2G sing 395 n n 
N3U H3U U2G sing 396 n n 
C4U O4U U2G doub 397 n n 
C4U C5U U2G sing 398 n n 
C5U C6U U2G doub 399 n n 
C5U H5U U2G sing 400 n n 
C6U H6U U2G sing 401 n n 
#
_atom_sites.entry_id                     11BG 
_atom_sites.fract_transf_matrix[1][1]    0.027472 
_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]    0.014992 
_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]    0.009285 
_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 SO4 A 1 125 125 SO4 SO4 . 
D 2 SO4 A 1 126 126 SO4 SO4 . 
E 2 SO4 A 1 128 128 SO4 SO4 . 
F 2 SO4 A 1 134 134 SO4 SO4 . 
G 2 SO4 A 1 135 135 SO4 SO4 . 
H 3 U2G A 1 130 130 U2G U2G . 
I 3 U2G A 1 131 131 U2G U2G . 
J 3 U2G A 1 132 132 U2G U2G . 
K 2 SO4 B 1 127 127 SO4 SO4 . 
L 2 SO4 B 1 129 129 SO4 SO4 . 
M 2 SO4 B 1 136 136 SO4 SO4 . 
N 3 U2G B 1 133 133 U2G U2G . 
O 4 HOH A 1 201 201 HOH HOH . 
O 4 HOH A 2 203 203 HOH HOH . 
O 4 HOH A 3 204 204 HOH HOH . 
O 4 HOH A 4 205 205 HOH HOH . 
O 4 HOH A 5 206 206 HOH HOH . 
O 4 HOH A 6 208 208 HOH HOH . 
O 4 HOH A 7 209 209 HOH HOH . 
O 4 HOH A 8 210 210 HOH HOH . 
O 4 HOH A 9 211 211 HOH HOH . 
O 4 HOH A 10 212 212 HOH HOH . 
O 4 HOH A 11 213 213 HOH HOH . 
O 4 HOH A 12 214 214 HOH HOH . 
O 4 HOH A 13 215 215 HOH HOH . 
O 4 HOH A 14 216 216 HOH HOH . 
O 4 HOH A 15 217 217 HOH HOH . 
O 4 HOH A 16 218 218 HOH HOH . 
O 4 HOH A 17 219 219 HOH HOH . 
O 4 HOH A 18 220 220 HOH HOH . 
O 4 HOH A 19 221 221 HOH HOH . 
O 4 HOH A 20 222 222 HOH HOH . 
O 4 HOH A 21 223 223 HOH HOH . 
O 4 HOH A 22 224 224 HOH HOH . 
O 4 HOH A 23 225 225 HOH HOH . 
O 4 HOH A 24 226 226 HOH HOH . 
O 4 HOH A 25 227 227 HOH HOH . 
O 4 HOH A 26 228 228 HOH HOH . 
O 4 HOH A 27 229 229 HOH HOH . 
O 4 HOH A 28 230 230 HOH HOH . 
O 4 HOH A 29 231 231 HOH HOH . 
O 4 HOH A 30 232 232 HOH HOH . 
O 4 HOH A 31 234 234 HOH HOH . 
O 4 HOH A 32 237 237 HOH HOH . 
O 4 HOH A 33 249 249 HOH HOH . 
O 4 HOH A 34 257 257 HOH HOH . 
O 4 HOH A 35 258 258 HOH HOH . 
O 4 HOH A 36 266 266 HOH HOH . 
O 4 HOH A 37 267 267 HOH HOH . 
O 4 HOH A 38 268 268 HOH HOH . 
O 4 HOH A 39 269 269 HOH HOH . 
O 4 HOH A 40 273 273 HOH HOH . 
O 4 HOH A 41 274 274 HOH HOH . 
O 4 HOH A 42 279 279 HOH HOH . 
O 4 HOH A 43 280 280 HOH HOH . 
O 4 HOH A 44 282 282 HOH HOH . 
O 4 HOH A 45 283 283 HOH HOH . 
O 4 HOH A 46 284 284 HOH HOH . 
O 4 HOH A 47 286 286 HOH HOH . 
O 4 HOH A 48 287 287 HOH HOH . 
O 4 HOH A 49 289 289 HOH HOH . 
O 4 HOH A 50 290 290 HOH HOH . 
O 4 HOH A 51 291 291 HOH HOH . 
O 4 HOH A 52 292 292 HOH HOH . 
O 4 HOH A 53 293 293 HOH HOH . 
O 4 HOH A 54 294 294 HOH HOH . 
O 4 HOH A 55 295 295 HOH HOH . 
O 4 HOH A 56 296 296 HOH HOH . 
O 4 HOH A 57 297 297 HOH HOH . 
O 4 HOH A 58 300 300 HOH HOH . 
O 4 HOH A 59 301 301 HOH HOH . 
O 4 HOH A 60 303 303 HOH HOH . 
O 4 HOH A 61 305 305 HOH HOH . 
O 4 HOH A 62 306 306 HOH HOH . 
O 4 HOH A 63 307 307 HOH HOH . 
O 4 HOH A 64 313 313 HOH HOH . 
O 4 HOH A 65 314 314 HOH HOH . 
O 4 HOH A 66 315 315 HOH HOH . 
O 4 HOH A 67 316 316 HOH HOH . 
O 4 HOH A 68 317 317 HOH HOH . 
O 4 HOH A 69 318 318 HOH HOH . 
O 4 HOH A 70 319 319 HOH HOH . 
O 4 HOH A 71 321 321 HOH HOH . 
O 4 HOH A 72 322 322 HOH HOH . 
P 4 HOH B 1 202 202 HOH HOH . 
P 4 HOH B 2 207 207 HOH HOH . 
P 4 HOH B 3 233 233 HOH HOH . 
P 4 HOH B 4 235 235 HOH HOH . 
P 4 HOH B 5 236 236 HOH HOH . 
P 4 HOH B 6 238 238 HOH HOH . 
P 4 HOH B 7 239 239 HOH HOH . 
P 4 HOH B 8 240 240 HOH HOH . 
P 4 HOH B 9 241 241 HOH HOH . 
P 4 HOH B 10 242 242 HOH HOH . 
P 4 HOH B 11 243 243 HOH HOH . 
P 4 HOH B 12 244 244 HOH HOH . 
P 4 HOH B 13 245 245 HOH HOH . 
P 4 HOH B 14 246 246 HOH HOH . 
P 4 HOH B 15 247 247 HOH HOH . 
P 4 HOH B 16 248 248 HOH HOH . 
P 4 HOH B 17 250 250 HOH HOH . 
P 4 HOH B 18 251 251 HOH HOH . 
P 4 HOH B 19 252 252 HOH HOH . 
P 4 HOH B 20 253 253 HOH HOH . 
P 4 HOH B 21 254 254 HOH HOH . 
P 4 HOH B 22 255 255 HOH HOH . 
P 4 HOH B 23 256 256 HOH HOH . 
P 4 HOH B 24 259 259 HOH HOH . 
P 4 HOH B 25 260 260 HOH HOH . 
P 4 HOH B 26 261 261 HOH HOH . 
P 4 HOH B 27 262 262 HOH HOH . 
P 4 HOH B 28 263 263 HOH HOH . 
P 4 HOH B 29 264 264 HOH HOH . 
P 4 HOH B 30 265 265 HOH HOH . 
P 4 HOH B 31 270 270 HOH HOH . 
P 4 HOH B 32 271 271 HOH HOH . 
P 4 HOH B 33 272 272 HOH HOH . 
P 4 HOH B 34 275 275 HOH HOH . 
P 4 HOH B 35 276 276 HOH HOH . 
P 4 HOH B 36 277 277 HOH HOH . 
P 4 HOH B 37 278 278 HOH HOH . 
P 4 HOH B 38 281 281 HOH HOH . 
P 4 HOH B 39 285 285 HOH HOH . 
P 4 HOH B 40 288 288 HOH HOH . 
P 4 HOH B 41 298 298 HOH HOH . 
P 4 HOH B 42 299 299 HOH HOH . 
P 4 HOH B 43 302 302 HOH HOH . 
P 4 HOH B 44 304 304 HOH HOH . 
P 4 HOH B 45 308 308 HOH HOH . 
P 4 HOH B 46 309 309 HOH HOH . 
P 4 HOH B 47 310 310 HOH HOH . 
P 4 HOH B 48 311 311 HOH HOH . 
P 4 HOH B 49 312 312 HOH HOH . 
P 4 HOH B 50 320 320 HOH HOH . 
P 4 HOH B 51 323 323 HOH HOH . 
P 4 HOH B 52 324 324 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 N1G U2G . . . J 3 5.301 49.704 77.618 0.5 32.32 ? N1G U2G 132 A 1 
HETATM 2 C C2G U2G . . . J 3 6.239 50.61 77.186 0.5 32.2 ? C2G U2G 132 A 1 
HETATM 3 N N2G U2G . . . J 3 7.514 50.244 77.298 0.5 31.08 ? N2G U2G 132 A 1 
HETATM 4 N N3G U2G . . . J 3 5.939 51.792 76.677 0.5 32.99 ? N3G U2G 132 A 1 
HETATM 5 C C4G U2G . . . J 3 4.607 52 76.636 0.5 33.81 ? C4G U2G 132 A 1 
HETATM 6 C C5G U2G . . . J 3 3.592 51.163 77.045 0.5 33.44 ? C5G U2G 132 A 1 
HETATM 7 C C6G U2G . . . J 3 3.922 49.897 77.582 0.5 32.86 ? C6G U2G 132 A 1 
HETATM 8 O O6G U2G . . . J 3 3.153 49.006 77.983 0.5 32.65 ? O6G U2G 132 A 1 
HETATM 9 N N7G U2G . . . J 3 2.355 51.755 76.848 0.5 34.03 ? N7G U2G 132 A 1 
HETATM 10 C C8G U2G . . . J 3 2.635 52.916 76.325 0.5 34.96 ? C8G U2G 132 A 1 
HETATM 11 N N9G U2G . . . J 3 3.981 53.128 76.173 0.5 35.5 ? N9G U2G 132 A 1 
HETATM 12 C C1B U2G . . . J 3 4.629 54.316 75.624 0.5 38.22 ? C1B U2G 132 A 1 
HETATM 13 C C2B U2G . . . J 3 3.701 55.171 74.751 0.5 39.61 ? C2B U2G 132 A 1 
HETATM 14 O O2B U2G . . . J 3 4.346 55.594 73.565 0.5 39.9 ? O2B U2G 132 A 1 
HETATM 15 C C3B U2G . . . J 3 3.32 56.302 75.706 0.5 40.76 ? C3B U2G 132 A 1 
HETATM 16 O O3B U2G . . . J 3 3.012 57.511 74.996 0.5 42.34 ? O3B U2G 132 A 1 
HETATM 17 C C4B U2G . . . J 3 4.558 56.452 76.59 0.5 40.35 ? C4B U2G 132 A 1 
HETATM 18 O O4B U2G . . . J 3 5.091 55.111 76.706 0.5 38.95 ? O4B U2G 132 A 1 
HETATM 19 C C5B U2G . . . J 3 4.283 57.015 77.973 0.5 40.69 ? C5B U2G 132 A 1 
HETATM 20 O O5B U2G . . . J 3 5.423 56.825 78.849 0.5 40.5 ? O5B U2G 132 A 1 
#
_model_server_stats.io_time_ms              7 
_model_server_stats.parse_time_ms           8 
_model_server_stats.create_model_time_ms    4 
_model_server_stats.query_time_ms           362 
_model_server_stats.encode_time_ms          4 
_model_server_stats.element_count           20 
#