data_8PUU
#
_model_server_result.job_id            xXlZb8JKP4EBg-cat9EiHw 
_model_server_result.datetime_utc      '2024-11-26 10:55:12' 
_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          8puu 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"D","auth_seq_id":301}' 
#
_entry.id    8PUU 
#
_exptl.entry_id    8PUU 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              411.202 
_entity.id                          4 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            "2'-DEOXYADENOSINE-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         120 
_cell.entry_id            8PUU 
_cell.length_a            103.13 
_cell.length_b            103.13 
_cell.length_c            147.109 
_cell.Z_PDB               6 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 8PUU 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        154 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 32 2 1' 
#
_pdbx_struct_assembly.method_details        ? 
_pdbx_struct_assembly.oligomeric_details    trimeric 
_pdbx_struct_assembly.oligomeric_count      3 
_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 
_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                      4 
_struct_asym.id                             D 
_struct_asym.pdbx_modified                  N 
_struct_asym.pdbx_blank_PDB_chainid_flag    N 
#
_chem_comp.formula           'C10 H15 N5 O9 P2' 
_chem_comp.formula_weight    411.202 
_chem_comp.id                DAT 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              "2'-DEOXYADENOSINE-5'-DIPHOSPHATE" 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     DADP 
#
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
PB O1B DAT doub 121 n n 
PB O2B DAT sing 122 n n 
PB O3B DAT sing 123 n n 
PB O3A DAT sing 124 n n 
O2B HOB2 DAT sing 125 n n 
O3B HOB3 DAT sing 126 n n 
PA O1A DAT doub 127 n n 
PA O2A DAT sing 128 n n 
PA O3A DAT sing 129 n n 
PA O5' DAT sing 130 n n 
O2A HOA2 DAT sing 131 n n 
O5' C5' DAT sing 132 n n 
C5' C4' DAT sing 133 n n 
C5' "H5'1" DAT sing 134 n n 
C5' "H5'2" DAT sing 135 n n 
C4' O4' DAT sing 136 n n 
C4' C3' DAT sing 137 n n 
C4' H4' DAT sing 138 n n 
O4' C1' DAT sing 139 n n 
C3' O3' DAT sing 140 n n 
C3' C2' DAT sing 141 n n 
C3' H3' DAT sing 142 n n 
O3' HO3' DAT sing 143 n n 
C2' C1' DAT sing 144 n n 
C2' "H2'1" DAT sing 145 n n 
C2' "H2'2" DAT sing 146 n n 
C1' N9 DAT sing 147 n n 
C1' H1' DAT sing 148 n n 
N9 C8 DAT sing 149 n y 
N9 C4 DAT sing 150 n y 
C8 N7 DAT doub 151 n y 
C8 H8 DAT sing 152 n n 
N7 C5 DAT sing 153 n y 
C5 C6 DAT sing 154 n y 
C5 C4 DAT doub 155 n y 
C6 N6 DAT sing 156 n n 
C6 N1 DAT doub 157 n y 
N6 HN61 DAT sing 158 n n 
N6 HN62 DAT sing 159 n n 
N1 C2 DAT sing 160 n y 
C2 N3 DAT doub 161 n y 
C2 H2 DAT sing 162 n n 
N3 C4 DAT sing 163 n y 
#
_atom_sites.entry_id                     8PUU 
_atom_sites.fract_transf_matrix[1][1]    0.009696 
_atom_sites.fract_transf_matrix[1][2]    0.005598 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.011197 
_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]    0.006798 
_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
D 4 DAT A 1 301 301 DAT DAT . 
E 5 D5M B 1 301 301 D5M LIG . 
F 6 HOH A 1 401 98 HOH HOH . 
F 6 HOH A 2 402 85 HOH HOH . 
F 6 HOH A 3 403 50 HOH HOH . 
F 6 HOH A 4 404 132 HOH HOH . 
F 6 HOH A 5 405 19 HOH HOH . 
F 6 HOH A 6 406 6 HOH HOH . 
F 6 HOH A 7 407 39 HOH HOH . 
F 6 HOH A 8 408 13 HOH HOH . 
F 6 HOH A 9 409 66 HOH HOH . 
F 6 HOH A 10 410 75 HOH HOH . 
F 6 HOH A 11 411 15 HOH HOH . 
F 6 HOH A 12 412 7 HOH HOH . 
F 6 HOH A 13 413 44 HOH HOH . 
F 6 HOH A 14 414 10 HOH HOH . 
F 6 HOH A 15 415 148 HOH HOH . 
F 6 HOH A 16 416 9 HOH HOH . 
F 6 HOH A 17 417 16 HOH HOH . 
F 6 HOH A 18 418 25 HOH HOH . 
F 6 HOH A 19 419 54 HOH HOH . 
F 6 HOH A 20 420 23 HOH HOH . 
F 6 HOH A 21 421 37 HOH HOH . 
F 6 HOH A 22 422 26 HOH HOH . 
F 6 HOH A 23 423 11 HOH HOH . 
F 6 HOH A 24 424 40 HOH HOH . 
F 6 HOH A 25 425 149 HOH HOH . 
F 6 HOH A 26 426 92 HOH HOH . 
F 6 HOH A 27 427 43 HOH HOH . 
F 6 HOH A 28 428 42 HOH HOH . 
F 6 HOH A 29 429 122 HOH HOH . 
F 6 HOH A 30 430 1 HOH HOH . 
F 6 HOH A 31 431 38 HOH HOH . 
F 6 HOH A 32 432 114 HOH HOH . 
F 6 HOH A 33 433 52 HOH HOH . 
F 6 HOH A 34 434 128 HOH HOH . 
F 6 HOH A 35 435 27 HOH HOH . 
F 6 HOH A 36 436 8 HOH HOH . 
F 6 HOH A 37 437 109 HOH HOH . 
F 6 HOH A 38 438 147 HOH HOH . 
F 6 HOH A 39 439 140 HOH HOH . 
F 6 HOH A 40 440 130 HOH HOH . 
F 6 HOH A 41 441 127 HOH HOH . 
F 6 HOH A 42 442 103 HOH HOH . 
F 6 HOH A 43 443 102 HOH HOH . 
F 6 HOH A 44 444 150 HOH HOH . 
F 6 HOH A 45 445 12 HOH HOH . 
F 6 HOH A 46 446 121 HOH HOH . 
F 6 HOH A 47 447 80 HOH HOH . 
F 6 HOH A 48 448 79 HOH HOH . 
F 6 HOH A 49 449 145 HOH HOH . 
F 6 HOH A 50 450 123 HOH HOH . 
F 6 HOH A 51 451 146 HOH HOH . 
F 6 HOH A 52 452 117 HOH HOH . 
F 6 HOH A 53 453 142 HOH HOH . 
F 6 HOH A 54 454 143 HOH HOH . 
G 6 HOH B 1 401 138 HOH HOH . 
G 6 HOH B 2 402 46 HOH HOH . 
G 6 HOH B 3 403 86 HOH HOH . 
G 6 HOH B 4 404 30 HOH HOH . 
G 6 HOH B 5 405 49 HOH HOH . 
G 6 HOH B 6 406 107 HOH HOH . 
G 6 HOH B 7 407 34 HOH HOH . 
G 6 HOH B 8 408 84 HOH HOH . 
G 6 HOH B 9 409 136 HOH HOH . 
G 6 HOH B 10 410 95 HOH HOH . 
G 6 HOH B 11 411 2 HOH HOH . 
G 6 HOH B 12 412 28 HOH HOH . 
G 6 HOH B 13 413 110 HOH HOH . 
G 6 HOH B 14 414 113 HOH HOH . 
G 6 HOH B 15 415 64 HOH HOH . 
G 6 HOH B 16 416 91 HOH HOH . 
G 6 HOH B 17 417 17 HOH HOH . 
G 6 HOH B 18 418 3 HOH HOH . 
G 6 HOH B 19 419 77 HOH HOH . 
G 6 HOH B 20 420 21 HOH HOH . 
G 6 HOH B 21 421 57 HOH HOH . 
G 6 HOH B 22 422 48 HOH HOH . 
G 6 HOH B 23 423 14 HOH HOH . 
G 6 HOH B 24 424 126 HOH HOH . 
G 6 HOH B 25 425 22 HOH HOH . 
G 6 HOH B 26 426 33 HOH HOH . 
G 6 HOH B 27 427 151 HOH HOH . 
G 6 HOH B 28 428 36 HOH HOH . 
G 6 HOH B 29 429 112 HOH HOH . 
G 6 HOH B 30 430 74 HOH HOH . 
G 6 HOH B 31 431 90 HOH HOH . 
G 6 HOH B 32 432 35 HOH HOH . 
G 6 HOH B 33 433 71 HOH HOH . 
G 6 HOH B 34 434 63 HOH HOH . 
G 6 HOH B 35 435 94 HOH HOH . 
G 6 HOH B 36 436 20 HOH HOH . 
G 6 HOH B 37 437 61 HOH HOH . 
G 6 HOH B 38 438 32 HOH HOH . 
G 6 HOH B 39 439 31 HOH HOH . 
G 6 HOH B 40 440 4 HOH HOH . 
G 6 HOH B 41 441 53 HOH HOH . 
G 6 HOH B 42 442 41 HOH HOH . 
G 6 HOH B 43 443 87 HOH HOH . 
G 6 HOH B 44 444 5 HOH HOH . 
G 6 HOH B 45 445 89 HOH HOH . 
G 6 HOH B 46 446 93 HOH HOH . 
G 6 HOH B 47 447 29 HOH HOH . 
G 6 HOH B 48 448 137 HOH HOH . 
G 6 HOH B 49 449 67 HOH HOH . 
G 6 HOH B 50 450 83 HOH HOH . 
G 6 HOH B 51 451 152 HOH HOH . 
G 6 HOH B 52 452 82 HOH HOH . 
G 6 HOH B 53 453 115 HOH HOH . 
G 6 HOH B 54 454 134 HOH HOH . 
G 6 HOH B 55 455 125 HOH HOH . 
G 6 HOH B 56 456 45 HOH HOH . 
G 6 HOH B 57 457 116 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 PB DAT . . . D 4 36.564 -16.344 -17.271 0.51 86.64 ? PB DAT 301 A 1 
HETATM 2 O O1B DAT . . . D 4 37.77 -17.098 -17.764 0.85 58.79 ? O1B DAT 301 A 1 
HETATM 3 O O2B DAT . . . D 4 36.556 -16.524 -15.777 0.9 50.36 ? O2B DAT 301 A 1 
HETATM 4 O O3B DAT . . . D 4 36.823 -14.874 -17.476 0.66 64.57 ? O3B DAT 301 A 1 
HETATM 5 P PA DAT . . . D 4 33.688 -16.114 -17.852 1 49.64 ? PA DAT 301 A 1 
HETATM 6 O O1A DAT . . . D 4 34.033 -14.701 -17.444 0.98 50.08 ? O1A DAT 301 A 1 
HETATM 7 O O2A DAT . . . D 4 32.932 -16.741 -16.694 1 47.33 ? O2A DAT 301 A 1 
HETATM 8 O O3A DAT . . . D 4 35.154 -16.864 -18.034 0.99 59.87 ? O3A DAT 301 A 1 
HETATM 9 O O5' DAT . . . D 4 32.656 -15.993 -19.169 1 63.92 ? O5' DAT 301 A 1 
HETATM 10 C C5' DAT . . . D 4 31.299 -16.386 -19.031 0.93 61.01 ? C5' DAT 301 A 1 
HETATM 11 C C4' DAT . . . D 4 30.2 -15.439 -19.631 1 59.05 ? C4' DAT 301 A 1 
HETATM 12 O O4' DAT . . . D 4 29.178 -16.11 -20.129 1 55.83 ? O4' DAT 301 A 1 
HETATM 13 C C3' DAT . . . D 4 29.539 -14.604 -18.487 1 49.9 ? C3' DAT 301 A 1 
HETATM 14 O O3' DAT . . . D 4 28.911 -13.495 -19.021 1 50.45 ? O3' DAT 301 A 1 
HETATM 15 C C2' DAT . . . D 4 28.497 -15.532 -17.927 1 47.01 ? C2' DAT 301 A 1 
HETATM 16 C C1' DAT . . . D 4 27.97 -16.084 -19.065 0.99 48.64 ? C1' DAT 301 A 1 
HETATM 17 N N9 DAT . . . D 4 27.52 -17.476 -18.897 0.93 44.72 ? N9 DAT 301 A 1 
HETATM 18 C C8 DAT . . . D 4 28.193 -18.634 -19.001 1 43.92 ? C8 DAT 301 A 1 
HETATM 19 N N7 DAT . . . D 4 27.327 -19.642 -18.77 0.94 45.83 ? N7 DAT 301 A 1 
HETATM 20 C C5 DAT . . . D 4 26.116 -19.101 -18.51 0.97 42.28 ? C5 DAT 301 A 1 
HETATM 21 C C6 DAT . . . D 4 24.9 -19.704 -18.218 1 38.31 ? C6 DAT 301 A 1 
HETATM 22 N N6 DAT . . . D 4 24.723 -21.169 -18.123 1 37.73 ? N6 DAT 301 A 1 
HETATM 23 N N1 DAT . . . D 4 23.826 -18.985 -17.999 1 41.07 ? N1 DAT 301 A 1 
HETATM 24 C C2 DAT . . . D 4 23.921 -17.614 -18.046 1 38.83 ? C2 DAT 301 A 1 
HETATM 25 N N3 DAT . . . D 4 25.108 -17.026 -18.359 1 40.71 ? N3 DAT 301 A 1 
HETATM 26 C C4 DAT . . . D 4 26.219 -17.771 -18.587 1 38.73 ? C4 DAT 301 A 1 
#
_model_server_stats.io_time_ms              23 
_model_server_stats.parse_time_ms           12 
_model_server_stats.create_model_time_ms    8 
_model_server_stats.query_time_ms           341 
_model_server_stats.encode_time_ms          5 
_model_server_stats.element_count           26 
#