data_8TFX
#
_model_server_result.job_id            RZOTEq8s9MpuhzsuCooT9Q 
_model_server_result.datetime_utc      '2024-11-28 23:06:30' 
_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          8tfx 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"B","auth_seq_id":201}' 
#
_entry.id    8TFX 
#
_exptl.entry_id    8TFX 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              427.201 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            "ADENOSINE-2'-5'-DIPHOSPHATE" 
_entity.pdbx_number_of_molecules    1 
_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            8TFX 
_cell.length_a            38.554 
_cell.length_b            44.626 
_cell.length_c            124.397 
_cell.Z_PDB               4 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 8TFX 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        19 
_symmetry.space_group_name_Hall    'P 2ac 2ab' 
_symmetry.space_group_name_H-M     'P 21 21 21' 
#
_pdbx_struct_assembly.method_details        ? 
_pdbx_struct_assembly.oligomeric_details    monomeric 
_pdbx_struct_assembly.oligomeric_count      1 
_pdbx_struct_assembly.details               author_and_software_defined_assembly 
_pdbx_struct_assembly.id                    1 
#
_pdbx_struct_assembly_gen.asym_id_list       A,B,C,D,E,F,G,H,I,J,K,L,M,N,O,P,Q,R 
_pdbx_struct_assembly_gen.assembly_id        1 
_pdbx_struct_assembly_gen.oper_expression    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 
#
_struct_asym.details                        ? 
_struct_asym.entity_id                      2 
_struct_asym.id                             B 
_struct_asym.pdbx_modified                  N 
_struct_asym.pdbx_blank_PDB_chainid_flag    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
metalc ? metalc1 A OG SER 6 A SER 6 1_555 Q K K . A K 216 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.922 ? 
metalc ? metalc2 A O LEU 13 A LEU 13 1_555 L K K . A K 211 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.84 ? 
metalc ? metalc3 A O GLY 28 A GLY 28 1_555 L K K . A K 211 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.644 ? 
metalc ? metalc4 A OE1 GLU 34 A GLU 34 1_555 P K K . A K 215 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.128 ? 
metalc ? metalc5 A OD2 ASP 58 A ASP 58 1_555 Q K K . A K 216 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.519 ? 
metalc ? metalc6 A OH TYR 78 A TYR 78 1_555 L K K . A K 211 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.467 ? 
metalc ? metalc7 A OE2 GLU 86 A GLU 86 1_555 M K K . A K 212 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.688 ? 
metalc ? metalc8 A O ASP 87 A ASP 87 1_555 M K K . A K 212 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.032 ? 
metalc ? metalc9 A O ILE 155 A ILE 155 1_555 M K K . A K 212 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.361 ? 
metalc ? metalc10 N K K . A K 213 1_555 R O HOH . A HOH 339 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.819 ? 
metalc ? metalc11 O K K . A K 214 1_555 R O HOH . A HOH 336 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.281 ? 
metalc ? metalc12 O K K . A K 214 1_555 R O HOH . A HOH 402 4_556 ? ? ? ? ? ? ? ? ? ? ? ? 2.512 ? 
metalc ? metalc13 P K K . A K 215 1_555 R O HOH . A HOH 352 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.402 ? 
metalc ? metalc14 P K K . A K 215 1_555 R O HOH . A HOH 390 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.245 ? 
metalc ? metalc15 Q K K . A K 216 1_555 R O HOH . A HOH 348 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.864 ? 
metalc ? metalc16 Q K K . A K 216 1_555 R O HOH . A HOH 361 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.654 ? 
#
_chem_comp.formula           'C10 H15 N5 O10 P2' 
_chem_comp.formula_weight    427.201 
_chem_comp.id                A2P 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              "ADENOSINE-2'-5'-DIPHOSPHATE" 
_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
P1 O1P A2P doub 1 n n 
P1 O2P A2P sing 2 n n 
P1 O3P A2P sing 3 n n 
P1 O2' A2P sing 4 n n 
O2P HOP2 A2P sing 5 n n 
O3P HOP3 A2P sing 6 n n 
P2 O4P A2P doub 7 n n 
P2 O5P A2P sing 8 n n 
P2 O6P A2P sing 9 n n 
P2 O5' A2P sing 10 n n 
O5P HOP5 A2P sing 11 n n 
O6P HOP6 A2P sing 12 n n 
O5' C5' A2P sing 13 n n 
C5' C4' A2P sing 14 n n 
C5' "H5'1" A2P sing 15 n n 
C5' "H5'2" A2P sing 16 n n 
C4' O4' A2P sing 17 n n 
C4' C3' A2P sing 18 n n 
C4' H4' A2P sing 19 n n 
O4' C1' A2P sing 20 n n 
C3' O3' A2P sing 21 n n 
C3' C2' A2P sing 22 n n 
C3' H3' A2P sing 23 n n 
O3' HO3' A2P sing 24 n n 
C2' O2' A2P sing 25 n n 
C2' C1' A2P sing 26 n n 
C2' H2' A2P sing 27 n n 
C1' N9 A2P sing 28 n n 
C1' H1' A2P sing 29 n n 
N9 C8 A2P sing 30 n y 
N9 C4 A2P sing 31 n y 
C8 N7 A2P doub 32 n y 
C8 H8 A2P sing 33 n n 
N7 C5 A2P sing 34 n y 
C5 C6 A2P sing 35 n y 
C5 C4 A2P doub 36 n y 
C6 N6 A2P sing 37 n n 
C6 N1 A2P doub 38 n y 
N6 HN61 A2P sing 39 n n 
N6 HN62 A2P sing 40 n n 
N1 C2 A2P sing 41 n y 
C2 N3 A2P doub 42 n y 
C2 H2 A2P sing 43 n n 
N3 C4 A2P sing 44 n y 
#
_atom_sites.entry_id                     8TFX 
_atom_sites.fract_transf_matrix[1][1]    0.025938 
_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]    0.022408 
_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]    0.008039 
_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
B 2 A2P A 1 201 201 A2P A2P . 
C 3 EDO A 1 202 202 EDO EDO . 
D 3 EDO A 1 203 203 EDO EDO . 
E 3 EDO A 1 204 204 EDO EDO . 
F 3 EDO A 1 205 205 EDO EDO . 
G 3 EDO A 1 206 206 EDO EDO . 
H 4 GOL A 1 207 207 GOL GOL . 
I 3 EDO A 1 208 208 EDO EDO . 
J 5 CL A 1 209 2 CL CL . 
K 5 CL A 1 210 3 CL CL . 
L 6 K A 1 211 1 K K . 
M 6 K A 1 212 2 K K . 
N 6 K A 1 213 3 K K . 
O 6 K A 1 214 4 K K . 
P 6 K A 1 215 5 K K . 
Q 6 K A 1 216 6 K K . 
R 7 HOH A 1 301 91 HOH HOH . 
R 7 HOH A 2 302 141 HOH HOH . 
R 7 HOH A 3 303 100 HOH HOH . 
R 7 HOH A 4 304 58 HOH HOH . 
R 7 HOH A 5 305 104 HOH HOH . 
R 7 HOH A 6 306 86 HOH HOH . 
R 7 HOH A 7 307 137 HOH HOH . 
R 7 HOH A 8 308 12 HOH HOH . 
R 7 HOH A 9 309 34 HOH HOH . 
R 7 HOH A 10 310 63 HOH HOH . 
R 7 HOH A 11 311 7 HOH HOH . 
R 7 HOH A 12 312 56 HOH HOH . 
R 7 HOH A 13 313 122 HOH HOH . 
R 7 HOH A 14 314 88 HOH HOH . 
R 7 HOH A 15 315 70 HOH HOH . 
R 7 HOH A 16 316 111 HOH HOH . 
R 7 HOH A 17 317 87 HOH HOH . 
R 7 HOH A 18 318 49 HOH HOH . 
R 7 HOH A 19 319 64 HOH HOH . 
R 7 HOH A 20 320 6 HOH HOH . 
R 7 HOH A 21 321 23 HOH HOH . 
R 7 HOH A 22 322 67 HOH HOH . 
R 7 HOH A 23 323 124 HOH HOH . 
R 7 HOH A 24 324 42 HOH HOH . 
R 7 HOH A 25 325 107 HOH HOH . 
R 7 HOH A 26 326 60 HOH HOH . 
R 7 HOH A 27 327 99 HOH HOH . 
R 7 HOH A 28 328 80 HOH HOH . 
R 7 HOH A 29 329 20 HOH HOH . 
R 7 HOH A 30 330 90 HOH HOH . 
R 7 HOH A 31 331 44 HOH HOH . 
R 7 HOH A 32 332 74 HOH HOH . 
R 7 HOH A 33 333 26 HOH HOH . 
R 7 HOH A 34 334 35 HOH HOH . 
R 7 HOH A 35 335 48 HOH HOH . 
R 7 HOH A 36 336 11 HOH HOH . 
R 7 HOH A 37 337 66 HOH HOH . 
R 7 HOH A 38 338 9 HOH HOH . 
R 7 HOH A 39 339 72 HOH HOH . 
R 7 HOH A 40 340 13 HOH HOH . 
R 7 HOH A 41 341 84 HOH HOH . 
R 7 HOH A 42 342 57 HOH HOH . 
R 7 HOH A 43 343 119 HOH HOH . 
R 7 HOH A 44 344 76 HOH HOH . 
R 7 HOH A 45 345 19 HOH HOH . 
R 7 HOH A 46 346 113 HOH HOH . 
R 7 HOH A 47 347 46 HOH HOH . 
R 7 HOH A 48 348 3 HOH HOH . 
R 7 HOH A 49 349 16 HOH HOH . 
R 7 HOH A 50 350 52 HOH HOH . 
R 7 HOH A 51 351 106 HOH HOH . 
R 7 HOH A 52 352 85 HOH HOH . 
R 7 HOH A 53 353 89 HOH HOH . 
R 7 HOH A 54 354 45 HOH HOH . 
R 7 HOH A 55 355 101 HOH HOH . 
R 7 HOH A 56 356 47 HOH HOH . 
R 7 HOH A 57 357 50 HOH HOH . 
R 7 HOH A 58 358 118 HOH HOH . 
R 7 HOH A 59 359 37 HOH HOH . 
R 7 HOH A 60 360 18 HOH HOH . 
R 7 HOH A 61 361 1 HOH HOH . 
R 7 HOH A 62 362 21 HOH HOH . 
R 7 HOH A 63 363 8 HOH HOH . 
R 7 HOH A 64 364 109 HOH HOH . 
R 7 HOH A 65 365 71 HOH HOH . 
R 7 HOH A 66 366 29 HOH HOH . 
R 7 HOH A 67 367 36 HOH HOH . 
R 7 HOH A 68 368 75 HOH HOH . 
R 7 HOH A 69 369 5 HOH HOH . 
R 7 HOH A 70 370 139 HOH HOH . 
R 7 HOH A 71 371 54 HOH HOH . 
R 7 HOH A 72 372 135 HOH HOH . 
R 7 HOH A 73 373 102 HOH HOH . 
R 7 HOH A 74 374 14 HOH HOH . 
R 7 HOH A 75 375 15 HOH HOH . 
R 7 HOH A 76 376 146 HOH HOH . 
R 7 HOH A 77 377 55 HOH HOH . 
R 7 HOH A 78 378 59 HOH HOH . 
R 7 HOH A 79 379 28 HOH HOH . 
R 7 HOH A 80 380 120 HOH HOH . 
R 7 HOH A 81 381 105 HOH HOH . 
R 7 HOH A 82 382 65 HOH HOH . 
R 7 HOH A 83 383 22 HOH HOH . 
R 7 HOH A 84 384 96 HOH HOH . 
R 7 HOH A 85 385 103 HOH HOH . 
R 7 HOH A 86 386 125 HOH HOH . 
R 7 HOH A 87 387 117 HOH HOH . 
R 7 HOH A 88 388 136 HOH HOH . 
R 7 HOH A 89 389 62 HOH HOH . 
R 7 HOH A 90 390 128 HOH HOH . 
R 7 HOH A 91 391 149 HOH HOH . 
R 7 HOH A 92 392 114 HOH HOH . 
R 7 HOH A 93 393 112 HOH HOH . 
R 7 HOH A 94 394 121 HOH HOH . 
R 7 HOH A 95 395 133 HOH HOH . 
R 7 HOH A 96 396 126 HOH HOH . 
R 7 HOH A 97 397 27 HOH HOH . 
R 7 HOH A 98 398 140 HOH HOH . 
R 7 HOH A 99 399 97 HOH HOH . 
R 7 HOH A 100 400 134 HOH HOH . 
R 7 HOH A 101 401 95 HOH HOH . 
R 7 HOH A 102 402 127 HOH HOH . 
R 7 HOH A 103 403 17 HOH HOH . 
R 7 HOH A 104 404 132 HOH HOH . 
R 7 HOH A 105 405 131 HOH HOH . 
R 7 HOH A 106 406 123 HOH HOH . 
R 7 HOH A 107 407 61 HOH HOH . 
R 7 HOH A 108 408 138 HOH HOH . 
R 7 HOH A 109 409 130 HOH HOH . 
R 7 HOH A 110 410 116 HOH HOH . 
R 7 HOH A 111 411 98 HOH HOH . 
R 7 HOH A 112 412 115 HOH HOH . 
R 7 HOH A 113 413 108 HOH HOH . 
R 7 HOH A 114 414 129 HOH HOH . 
R 7 HOH A 115 415 30 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 P1 A2P . . . B 2 -0.002 7.187 43.517 0.93 23.76 ? P1 A2P 201 A 1 
HETATM 2 O O1P A2P . . . B 2 -1.223 6.477 43.96 0.86 24.17 ? O1P A2P 201 A 1 
HETATM 3 O O2P A2P . . . B 2 0.328 6.757 42.124 1 32.27 ? O2P A2P 201 A 1 
HETATM 4 O O3P A2P . . . B 2 1.232 7.033 44.389 0.92 21.2 ? O3P A2P 201 A 1 
HETATM 5 P P2 A2P . . . B 2 -5.543 8.014 41.355 0.81 37.99 ? P2 A2P 201 A 1 
HETATM 6 O O4P A2P . . . B 2 -6.801 8.494 42.01 1 46.59 ? O4P A2P 201 A 1 
HETATM 7 O O5P A2P . . . B 2 -5.595 8.153 39.834 0.83 43.18 ? O5P A2P 201 A 1 
HETATM 8 O O6P A2P . . . B 2 -5.24 6.608 41.773 1 34.43 ? O6P A2P 201 A 1 
HETATM 9 O O5' A2P . . . B 2 -4.385 9.035 41.901 0.82 27.85 ? O5' A2P 201 A 1 
HETATM 10 C C5' A2P . . . B 2 -4.286 10.385 41.582 1 29.53 ? C5' A2P 201 A 1 
HETATM 11 C C4' A2P . . . B 2 -3.092 10.857 42.179 1 30.51 ? C4' A2P 201 A 1 
HETATM 12 O O4' A2P . . . B 2 -3.336 10.946 43.663 0.72 22.17 ? O4' A2P 201 A 1 
HETATM 13 C C3' A2P . . . B 2 -1.799 9.91 42.03 1 27.75 ? C3' A2P 201 A 1 
HETATM 14 O O3' A2P . . . B 2 -0.682 10.899 41.957 1 26.38 ? O3' A2P 201 A 1 
HETATM 15 C C2' A2P . . . B 2 -1.731 9.153 43.072 1 26.69 ? C2' A2P 201 A 1 
HETATM 16 O O2' A2P . . . B 2 -0.376 8.755 43.427 1 22.55 ? O2' A2P 201 A 1 
HETATM 17 C C1' A2P . . . B 2 -2.281 10.114 44.277 1 23.85 ? C1' A2P 201 A 1 
HETATM 18 N N9 A2P . . . B 2 -2.699 9.425 45.482 0.74 22.53 ? N9 A2P 201 A 1 
HETATM 19 C C8 A2P . . . B 2 -3.764 8.608 45.37 1 22.92 ? C8 A2P 201 A 1 
HETATM 20 N N7 A2P . . . B 2 -3.976 8.059 46.614 1 21.92 ? N7 A2P 201 A 1 
HETATM 21 C C5 A2P . . . B 2 -3 8.574 47.436 0.93 19.84 ? C5 A2P 201 A 1 
HETATM 22 C C6 A2P . . . B 2 -2.658 8.45 48.768 0.74 19.95 ? C6 A2P 201 A 1 
HETATM 23 N N6 A2P . . . B 2 -3.402 7.578 49.641 1 24.44 ? N6 A2P 201 A 1 
HETATM 24 N N1 A2P . . . B 2 -1.643 9.132 49.272 0.86 18.55 ? N1 A2P 201 A 1 
HETATM 25 C C2 A2P . . . B 2 -0.888 9.965 48.51 0.91 21.89 ? C2 A2P 201 A 1 
HETATM 26 N N3 A2P . . . B 2 -1.211 10.075 47.197 0.99 20.77 ? N3 A2P 201 A 1 
HETATM 27 C C4 A2P . . . B 2 -2.247 9.412 46.702 0.8 21.79 ? C4 A2P 201 A 1 
#
_model_server_stats.io_time_ms              62 
_model_server_stats.parse_time_ms           14 
_model_server_stats.create_model_time_ms    3 
_model_server_stats.query_time_ms           306 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           27 
#