data_7W0J
#
_model_server_result.job_id            0YRC8lmUJTFB9ztw3rli6g 
_model_server_result.datetime_utc      '2024-12-27 18:48:37' 
_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":"J","auth_seq_id":402}' 
#
_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 . . . J 2 -28.249 -39.19 61.734 0.75 88.5 ? PA 875 402 E 1 
HETATM 2 O O1A 875 . . . J 2 -27.12 -38.38 61.218 0.75 94.32 -1 O1A 875 402 E 1 
HETATM 3 O O2A 875 . . . J 2 -28.536 -39 63.171 0.75 88.92 ? O2A 875 402 E 1 
HETATM 4 O O5B 875 . . . J 2 -29.539 -38.728 60.929 0.75 76.39 ? O5B 875 402 E 1 
HETATM 5 C C5B 875 . . . J 2 -29.55 -37.275 60.91 0.75 72.75 ? C5B 875 402 E 1 
HETATM 6 C C4B 875 . . . J 2 -29.692 -36.817 59.484 0.75 77.1 ? C4B 875 402 E 1 
HETATM 7 O O4B 875 . . . J 2 -28.698 -35.804 59.2 0.75 74.64 ? O4B 875 402 E 1 
HETATM 8 C C3B 875 . . . J 2 -29.481 -37.907 58.432 0.75 73.43 ? C3B 875 402 E 1 
HETATM 9 O O3B 875 . . . J 2 -30.65 -37.811 57.65 0.75 65.4 ? O3B 875 402 E 1 
HETATM 10 C C2B 875 . . . J 2 -28.429 -37.353 57.473 0.75 75.82 ? C2B 875 402 E 1 
HETATM 11 O O2B 875 . . . J 2 -28.877 -37.624 56.161 0.75 64.94 ? O2B 875 402 E 1 
HETATM 12 C C1B 875 . . . J 2 -28.329 -35.874 57.842 0.75 77.62 ? C1B 875 402 E 1 
HETATM 13 N N9A 875 . . . J 2 -26.932 -35.462 57.809 0.75 79.55 ? N9A 875 402 E 1 
HETATM 14 C C8A 875 . . . J 2 -25.993 -35.829 58.74 0.75 86.23 ? C8A 875 402 E 1 
HETATM 15 N N7A 875 . . . J 2 -24.807 -35.329 58.495 0.75 92.22 ? N7A 875 402 E 1 
HETATM 16 C C5A 875 . . . J 2 -24.98 -34.583 57.337 0.75 83.37 ? C5A 875 402 E 1 
HETATM 17 C C6A 875 . . . J 2 -24.093 -33.805 56.569 0.75 81.95 ? C6A 875 402 E 1 
HETATM 18 N N6A 875 . . . J 2 -22.78 -33.546 56.737 0.75 81.85 ? N6A 875 402 E 1 
HETATM 19 N N1A 875 . . . J 2 -24.657 -33.23 55.511 0.75 75.45 ? N1A 875 402 E 1 
HETATM 20 C C2A 875 . . . J 2 -25.948 -33.326 55.106 0.75 70.25 ? C2A 875 402 E 1 
HETATM 21 N N3A 875 . . . J 2 -26.843 -34.053 55.796 0.75 71.35 ? N3A 875 402 E 1 
HETATM 22 C C4A 875 . . . J 2 -26.302 -34.654 56.895 0.75 73.6 ? C4A 875 402 E 1 
HETATM 23 N N10 875 . . . J 2 -28.687 -49.223 60.964 0.75 69.14 ? N10 875 402 E 1 
HETATM 24 C C1' 875 . . . J 2 -27.217 -48.998 60.97 0.75 81.47 ? C1' 875 402 E 1 
HETATM 25 C C2' 875 . . . J 2 -26.791 -47.763 60.184 0.75 77.75 ? C2' 875 402 E 1 
HETATM 26 O O2' 875 . . . J 2 -25.36 -47.842 59.987 0.75 69.61 ? O2' 875 402 E 1 
HETATM 27 C C3' 875 . . . J 2 -27.228 -46.472 60.901 0.75 74.33 ? C3' 875 402 E 1 
HETATM 28 O O3' 875 . . . J 2 -28.588 -46.616 61.313 0.75 73.06 ? O3' 875 402 E 1 
HETATM 29 C C4' 875 . . . J 2 -27.121 -45.172 60.092 0.75 73.65 ? C4' 875 402 E 1 
HETATM 30 O O4' 875 . . . J 2 -25.758 -44.745 60.036 0.75 76.77 ? O4' 875 402 E 1 
HETATM 31 C C5' 875 . . . J 2 -27.997 -44.045 60.607 0.75 80.17 ? C5' 875 402 E 1 
HETATM 32 O O5' 875 . . . J 2 -27.328 -43.221 61.616 0.75 92.35 ? O5' 875 402 E 1 
HETATM 33 P P 875 . . . J 2 -28.103 -42.023 62.376 0.75 103.1 ? P 875 402 E 1 
HETATM 34 O O1P 875 . . . J 2 -29.536 -42.366 62.604 0.75 77.5 -1 O1P 875 402 E 1 
HETATM 35 O O2P 875 . . . J 2 -27.289 -41.715 63.589 0.75 87.6 ? O2P 875 402 E 1 
HETATM 36 O O3P 875 . . . J 2 -28.008 -40.748 61.397 0.75 93.69 ? O3P 875 402 E 1 
#
_model_server_stats.io_time_ms              18 
_model_server_stats.parse_time_ms           12 
_model_server_stats.create_model_time_ms    49 
_model_server_stats.query_time_ms           276 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           36 
#