data_7W0J
#
_model_server_result.job_id            4Quqq2bzbF5FPSISKcOBzw 
_model_server_result.datetime_utc      '2024-12-27 17:52:45' 
_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          7w0j 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"K","auth_seq_id":401}' 
#
_entry.id    7W0J 
#
_exptl.entry_id    7W0J 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              560.347 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            '[[(2R,3S,4R,5R)-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methoxy-oxidanyl-phosphoryl] [(2R,3S,4S)-5-azanyl-2,3,4-tris(oxidanyl)pentyl] hydrogen phosphate' 
_entity.pdbx_number_of_molecules    3 
_entity.pdbx_parent_entity_id       . 
_entity.pdbx_mutation               ? 
_entity.pdbx_fragment               ? 
_entity.pdbx_ec                     ? 
#
_cell.angle_alpha         90.19 
_cell.angle_beta          91.93 
_cell.angle_gamma         112.09 
_cell.entry_id            7W0J 
_cell.length_a            85.124 
_cell.length_b            88.908 
_cell.length_c            97.178 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 7W0J 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        1 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 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
PISA tetrameric 4 author_and_software_defined_assembly 1 
PISA tetrameric 4 author_and_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 1 1 
E,F,G,H,I,J,K 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 I N N 
? 2 J N N 
? 2 K N N 
#
_chem_comp.formula           'C15 H26 N6 O13 P2' 
_chem_comp.formula_weight    560.347 
_chem_comp.id                875 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              '[[(2R,3S,4R,5R)-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methoxy-oxidanyl-phosphoryl] [(2R,3S,4S)-5-azanyl-2,3,4-tris(oxidanyl)pentyl] hydrogen phosphate' 
_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
N10 C1' 875 sing 1 n n 
C1' C2' 875 sing 2 n n 
O3' C3' 875 sing 3 n n 
O1P P 875 doub 4 n n 
C3' C2' 875 sing 5 n n 
C3' C4' 875 sing 6 n n 
C2' O2' 875 sing 7 n n 
O5' P 875 sing 8 n n 
O5' C5' 875 sing 9 n n 
P O2P 875 sing 10 n n 
P O3P 875 sing 11 n n 
C4' C5' 875 sing 12 n n 
C4' O4' 875 sing 13 n n 
O5B C5B 875 sing 14 n n 
O5B PA 875 sing 15 n n 
O3P PA 875 sing 16 n n 
O3B C3B 875 sing 17 n n 
C5B C4B 875 sing 18 n n 
C3B C4B 875 sing 19 n n 
C3B C2B 875 sing 20 n n 
O2A PA 875 doub 21 n n 
C4B O4B 875 sing 22 n n 
PA O1A 875 sing 23 n n 
C2B O2B 875 sing 24 n n 
C2B C1B 875 sing 25 n n 
O4B C1B 875 sing 26 n n 
C1B N9A 875 sing 27 n n 
N9A C8A 875 sing 28 n y 
N9A C4A 875 sing 29 n y 
C8A N7A 875 doub 30 n y 
C4A N3A 875 doub 31 n y 
C4A C5A 875 sing 32 n y 
N3A C2A 875 sing 33 n y 
N7A C5A 875 sing 34 n y 
C5A C6A 875 doub 35 n y 
C2A N1A 875 doub 36 n y 
C6A N1A 875 sing 37 n y 
C6A N6A 875 sing 38 n n 
O1A H1 875 sing 39 n n 
C5B H2 875 sing 40 n n 
C5B H3 875 sing 41 n n 
C4B H4 875 sing 42 n n 
C3B H5 875 sing 43 n n 
O3B H6 875 sing 44 n n 
C2B H7 875 sing 45 n n 
O2B H8 875 sing 46 n n 
C1B H9 875 sing 47 n n 
C8A H10 875 sing 48 n n 
N6A H11 875 sing 49 n n 
N6A H12 875 sing 50 n n 
C2A H13 875 sing 51 n n 
N10 H14 875 sing 52 n n 
N10 H15 875 sing 53 n n 
C1' H17 875 sing 54 n n 
C1' H18 875 sing 55 n n 
C2' H19 875 sing 56 n n 
O2' H20 875 sing 57 n n 
C3' H21 875 sing 58 n n 
O3' H22 875 sing 59 n n 
C4' H23 875 sing 60 n n 
O4' H24 875 sing 61 n n 
C5' H25 875 sing 62 n n 
C5' H26 875 sing 63 n n 
O2P H27 875 sing 64 n n 
#
_atom_sites.entry_id                     7W0J 
_atom_sites.fract_transf_matrix[1][1]    0.011748 
_atom_sites.fract_transf_matrix[1][2]    0.004767 
_atom_sites.fract_transf_matrix[1][3]    0.000477 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.012138 
_atom_sites.fract_transf_matrix[2][3]    0.000209 
_atom_sites.fract_transf_matrix[3][1]    0 
_atom_sites.fract_transf_matrix[3][2]    0 
_atom_sites.fract_transf_matrix[3][3]    0.010298 
_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
I 2 875 E 1 401 401 875 FDA . 
J 2 875 E 1 402 401 875 FDA . 
K 2 875 H 1 401 401 875 FDA . 
#
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 PA 875 . . . K 2 -24.235 -16.673 40.872 0.74 98.91 ? PA 875 401 H 1 
HETATM 2 O O1A 875 . . . K 2 -24.518 -16.983 42.303 0.74 85.09 -1 O1A 875 401 H 1 
HETATM 3 O O2A 875 . . . K 2 -23.032 -15.835 40.682 0.74 90.35 ? O2A 875 401 H 1 
HETATM 4 O O5B 875 . . . K 2 -24.086 -18.041 40.058 0.74 78.68 ? O5B 875 401 H 1 
HETATM 5 C C5B 875 . . . K 2 -23.129 -18.967 40.602 0.74 79.3 ? C5B 875 401 H 1 
HETATM 6 C C4B 875 . . . K 2 -23.795 -20.301 40.82 0.74 73.68 ? C4B 875 401 H 1 
HETATM 7 O O4B 875 . . . K 2 -23.545 -20.679 42.195 0.74 76.38 ? O4B 875 401 H 1 
HETATM 8 C C3B 875 . . . K 2 -25.317 -20.375 40.644 0.74 70.88 ? C3B 875 401 H 1 
HETATM 9 O O3B 875 . . . K 2 -25.675 -21.731 40.446 0.74 67.13 ? O3B 875 401 H 1 
HETATM 10 C C2B 875 . . . K 2 -25.836 -20.186 42.066 0.74 74.33 ? C2B 875 401 H 1 
HETATM 11 O O2B 875 . . . K 2 -27.093 -20.808 42.234 0.74 67.79 ? O2B 875 401 H 1 
HETATM 12 C C1B 875 . . . K 2 -24.76 -20.909 42.867 0.74 78.02 ? C1B 875 401 H 1 
HETATM 13 N N9A 875 . . . K 2 -24.639 -20.239 44.134 0.74 77.95 ? N9A 875 401 H 1 
HETATM 14 C C8A 875 . . . K 2 -24.039 -19.031 44.371 0.74 83 ? C8A 875 401 H 1 
HETATM 15 N N7A 875 . . . K 2 -24.103 -18.679 45.634 0.74 95.14 ? N7A 875 401 H 1 
HETATM 16 C C5A 875 . . . K 2 -24.79 -19.717 46.25 0.74 91.75 ? C5A 875 401 H 1 
HETATM 17 C C6A 875 . . . K 2 -25.183 -19.94 47.58 0.74 79.19 ? C6A 875 401 H 1 
HETATM 18 N N6A 875 . . . K 2 -24.936 -19.1 48.58 0.74 89.12 ? N6A 875 401 H 1 
HETATM 19 N N1A 875 . . . K 2 -25.858 -21.082 47.836 0.74 75.73 ? N1A 875 401 H 1 
HETATM 20 C C2A 875 . . . K 2 -26.111 -21.93 46.833 0.74 73.36 ? C2A 875 401 H 1 
HETATM 21 N N3A 875 . . . K 2 -25.789 -21.826 45.549 0.74 79.67 ? N3A 875 401 H 1 
HETATM 22 C C4A 875 . . . K 2 -25.125 -20.683 45.328 0.74 83.7 ? C4A 875 401 H 1 
HETATM 23 N N10 875 . . . K 2 -31.276 -9.714 36.318 0.74 70.37 ? N10 875 401 H 1 
HETATM 24 C C1' 875 . . . K 2 -30.748 -11.078 36.406 0.74 70.7 ? C1' 875 401 H 1 
HETATM 25 C C2' 875 . . . K 2 -30.266 -11.448 37.805 0.74 72.4 ? C2' 875 401 H 1 
HETATM 26 O O2' 875 . . . K 2 -30.014 -10.269 38.562 0.74 74.26 ? O2' 875 401 H 1 
HETATM 27 C C3' 875 . . . K 2 -28.949 -12.23 37.76 0.74 75.15 ? C3' 875 401 H 1 
HETATM 28 O O3' 875 . . . K 2 -28.777 -12.766 36.456 0.74 74.17 ? O3' 875 401 H 1 
HETATM 29 C C4' 875 . . . K 2 -28.907 -13.37 38.782 0.74 73.71 ? C4' 875 401 H 1 
HETATM 30 O O4' 875 . . . K 2 -29.676 -12.99 39.924 0.74 70.66 ? O4' 875 401 H 1 
HETATM 31 C C5' 875 . . . K 2 -27.508 -13.699 39.253 0.74 79.88 ? C5' 875 401 H 1 
HETATM 32 O O5' 875 . . . K 2 -26.835 -14.673 38.406 0.74 85.21 ? O5' 875 401 H 1 
HETATM 33 P P 875 . . . K 2 -25.312 -15.076 38.727 0.74 108.33 ? P 875 401 H 1 
HETATM 34 O O1P 875 . . . K 2 -24.789 -15.886 37.583 0.74 80.79 -1 O1P 875 401 H 1 
HETATM 35 O O2P 875 . . . K 2 -24.574 -13.829 39.082 0.74 88.33 ? O2P 875 401 H 1 
HETATM 36 O O3P 875 . . . K 2 -25.431 -15.965 40.066 0.74 94.71 ? O3P 875 401 H 1 
#
_model_server_stats.io_time_ms              63 
_model_server_stats.parse_time_ms           15 
_model_server_stats.create_model_time_ms    69 
_model_server_stats.query_time_ms           321 
_model_server_stats.encode_time_ms          4 
_model_server_stats.element_count           36 
#