data_5KS7
#
_model_server_result.job_id            62_nunm53NLUnC4JsdHRPw 
_model_server_result.datetime_utc      '2024-12-21 16:57:25' 
_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          5ks7 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"C","auth_seq_id":500}' 
#
_entry.id    5KS7 
#
_exptl.entry_id    5KS7 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              658.412 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            "(2R,3R,3aS,5R,7aR,9R,10R,10aS,12R,14aR)-2,9-bis(6-amino-9H-purin-9-yl)octahydro-2H,7H-difuro[3,2-d:3',2'-j][1,3,7,9,2,8 ]tetraoxadiphosphacyclododecine-3,5,10,12-tetrol 5,12-dioxide" 
_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          94.94 
_cell.angle_gamma         90 
_cell.entry_id            5KS7 
_cell.length_a            52.342 
_cell.length_b            43.861 
_cell.length_c            68.841 
_cell.Z_PDB               4 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 5KS7 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        4 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 1 21 1' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    dimeric 
_pdbx_struct_assembly.oligomeric_count      2 
_pdbx_struct_assembly.details               author_and_software_defined_assembly 
_pdbx_struct_assembly.id                    1 
#
_pdbx_struct_assembly_gen.asym_id_list       A,B,C 
_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                             C 
_struct_asym.pdbx_modified                  N 
_struct_asym.pdbx_blank_PDB_chainid_flag    N 
#
_chem_comp.formula           'C20 H24 N10 O12 P2' 
_chem_comp.formula_weight    658.412 
_chem_comp.id                2BA 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              "(2R,3R,3aS,5R,7aR,9R,10R,10aS,12R,14aR)-2,9-bis(6-amino-9H-purin-9-yl)octahydro-2H,7H-difuro[3,2-d:3',2'-j][1,3,7,9,2,8 ]tetraoxadiphosphacyclododecine-3,5,10,12-tetrol 5,12-dioxide" 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     "bis-(3',5')-cyclic-dimeric-Adenosine-monophosphate" 
#
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
P O1P 2BA doub 1 n n 
P O2P 2BA sing 2 n n 
P O5' 2BA sing 3 n n 
P "O3'1" 2BA sing 4 n n 
O5' C5' 2BA sing 5 n n 
C5' C4' 2BA sing 6 n n 
C4' O4' 2BA sing 7 n n 
C4' C3' 2BA sing 8 n n 
O4' C1' 2BA sing 9 n n 
C3' O3' 2BA sing 10 n n 
C3' C2' 2BA sing 11 n n 
O3' P1 2BA sing 12 n n 
C2' O2' 2BA sing 13 n n 
C2' C1' 2BA sing 14 n n 
C1' N9 2BA sing 15 n n 
N9 C8 2BA sing 16 n y 
N9 C4 2BA sing 17 n y 
C8 N7 2BA doub 18 n y 
N7 C5 2BA sing 19 n y 
C5 C6 2BA doub 20 n y 
C5 C4 2BA sing 21 n y 
C6 N6 2BA sing 22 n n 
C6 N1 2BA sing 23 n y 
N1 C2 2BA doub 24 n y 
C2 N3 2BA sing 25 n y 
N3 C4 2BA doub 26 n y 
P1 O1P1 2BA doub 27 n n 
P1 O2P1 2BA sing 28 n n 
P1 "O5'1" 2BA sing 29 n n 
"O5'1" "C5'1" 2BA sing 30 n n 
"C5'1" "C4'1" 2BA sing 31 n n 
"C4'1" "O4'1" 2BA sing 32 n n 
"C4'1" "C3'1" 2BA sing 33 n n 
"O4'1" "C1'1" 2BA sing 34 n n 
"C3'1" "O3'1" 2BA sing 35 n n 
"C3'1" "C2'1" 2BA sing 36 n n 
"C2'1" "O2'1" 2BA sing 37 n n 
"C2'1" "C1'1" 2BA sing 38 n n 
"C1'1" N91 2BA sing 39 n n 
N91 C81 2BA sing 40 n y 
N91 C41 2BA sing 41 n y 
C81 N71 2BA doub 42 n y 
N71 C51 2BA sing 43 n y 
C51 C61 2BA doub 44 n y 
C51 C41 2BA sing 45 n y 
C61 N61 2BA sing 46 n n 
C61 N11 2BA sing 47 n y 
N11 C21 2BA doub 48 n y 
C21 N31 2BA sing 49 n y 
N31 C41 2BA doub 50 n y 
C5' H5' 2BA sing 51 n n 
C5' "H5'A" 2BA sing 52 n n 
C4' H4' 2BA sing 53 n n 
C3' H3' 2BA sing 54 n n 
C2' H2' 2BA sing 55 n n 
O2' HO2' 2BA sing 56 n n 
C1' H1' 2BA sing 57 n n 
C8 H8 2BA sing 58 n n 
N6 HN6 2BA sing 59 n n 
N6 HN6A 2BA sing 60 n n 
C2 H2 2BA sing 61 n n 
"C5'1" HC5' 2BA sing 62 n n 
"C5'1" HC5A 2BA sing 63 n n 
"C4'1" HC4' 2BA sing 64 n n 
"C3'1" HC3' 2BA sing 65 n n 
"C2'1" HC2' 2BA sing 66 n n 
"O2'1" HO2A 2BA sing 67 n n 
"C1'1" HC1' 2BA sing 68 n n 
C81 HC8 2BA sing 69 n n 
N61 H1N6 2BA sing 70 n n 
N61 H1NA 2BA sing 71 n n 
C21 HC2 2BA sing 72 n n 
O2P H2P 2BA sing 73 n n 
O2P1 H2OP 2BA sing 74 n n 
#
_atom_sites.entry_id                     5KS7 
_atom_sites.fract_transf_matrix[1][1]    0.019105 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.00165 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.022799 
_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]    0.01458 
_atom_sites.fract_transf_vector[1]       0 
_atom_sites.fract_transf_vector[2]       0 
_atom_sites.fract_transf_vector[3]       0 
#
_pdbx_nonpoly_scheme.asym_id          C 
_pdbx_nonpoly_scheme.entity_id        2 
_pdbx_nonpoly_scheme.mon_id           2BA 
_pdbx_nonpoly_scheme.pdb_strand_id    B 
_pdbx_nonpoly_scheme.ndb_seq_num      1 
_pdbx_nonpoly_scheme.pdb_seq_num      500 
_pdbx_nonpoly_scheme.auth_seq_num     500 
_pdbx_nonpoly_scheme.pdb_mon_id       2BA 
_pdbx_nonpoly_scheme.auth_mon_id      2BA 
_pdbx_nonpoly_scheme.pdb_ins_code     . 
#
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 P 2BA . . . C 2 -22.457 4.626 -21.225 1 20.4 ? P 2BA 500 B 1 
HETATM 2 O O1P 2BA . . . C 2 -22.932 6.026 -21.629 1 18.86 ? O1P 2BA 500 B 1 
HETATM 3 O O2P 2BA . . . C 2 -22.052 3.594 -22.263 1 21.56 ? O2P 2BA 500 B 1 
HETATM 4 O O5' 2BA . . . C 2 -21.24 4.696 -20.142 1 19.36 ? O5' 2BA 500 B 1 
HETATM 5 C C5' 2BA . . . C 2 -20.537 3.504 -19.782 1 17.91 ? C5' 2BA 500 B 1 
HETATM 6 C C4' 2BA . . . C 2 -20.225 3.357 -18.293 1 17.47 ? C4' 2BA 500 B 1 
HETATM 7 O O4' 2BA . . . C 2 -18.823 3.328 -18.184 1 17.09 ? O4' 2BA 500 B 1 
HETATM 8 C C3' 2BA . . . C 2 -20.622 4.434 -17.262 1 17.52 ? C3' 2BA 500 B 1 
HETATM 9 O O3' 2BA . . . C 2 -21.517 3.828 -16.347 1 17.79 ? O3' 2BA 500 B 1 
HETATM 10 C C2' 2BA . . . C 2 -19.354 4.838 -16.499 1 16.84 ? C2' 2BA 500 B 1 
HETATM 11 O O2' 2BA . . . C 2 -19.56 4.956 -15.085 1 16.12 ? O2' 2BA 500 B 1 
HETATM 12 C C1' 2BA . . . C 2 -18.514 3.625 -16.815 1 16.8 ? C1' 2BA 500 B 1 
HETATM 13 N N9 2BA . . . C 2 -17.033 3.655 -16.7 1 16.27 ? N9 2BA 500 B 1 
HETATM 14 C C8 2BA . . . C 2 -16.143 4.445 -17.349 1 15.64 ? C8 2BA 500 B 1 
HETATM 15 N N7 2BA . . . C 2 -14.875 4.117 -17.019 1 14.89 ? N7 2BA 500 B 1 
HETATM 16 C C5 2BA . . . C 2 -14.947 3.085 -16.162 1 15.49 ? C5 2BA 500 B 1 
HETATM 17 C C6 2BA . . . C 2 -13.981 2.246 -15.418 1 15.35 ? C6 2BA 500 B 1 
HETATM 18 N N6 2BA . . . C 2 -12.647 2.45 -15.537 1 15.22 ? N6 2BA 500 B 1 
HETATM 19 N N1 2BA . . . C 2 -14.478 1.278 -14.62 1 15.69 ? N1 2BA 500 B 1 
HETATM 20 C C2 2BA . . . C 2 -15.808 1.05 -14.49 1 16.14 ? C2 2BA 500 B 1 
HETATM 21 N N3 2BA . . . C 2 -16.756 1.77 -15.134 1 16.12 ? N3 2BA 500 B 1 
HETATM 22 C C4 2BA . . . C 2 -16.373 2.776 -15.965 1 16.05 ? C4 2BA 500 B 1 
HETATM 23 P P1 2BA . . . C 2 -22.506 4.711 -15.458 1 19.14 ? P1 2BA 500 B 1 
HETATM 24 O O1P1 2BA . . . C 2 -21.73 5.964 -15.013 1 17.98 ? O1P1 2BA 500 B 1 
HETATM 25 O O2P1 2BA . . . C 2 -23.128 3.808 -14.409 1 18.19 ? O2P1 2BA 500 B 1 
HETATM 26 O "O5'1" 2BA . . . C 2 -23.66 4.971 -16.578 1 18.4 ? "O5'1" 2BA 500 B 1 
HETATM 27 C "C5'1" 2BA . . . C 2 -24.582 3.9 -16.871 1 18.1 ? "C5'1" 2BA 500 B 1 
HETATM 28 C "C4'1" 2BA . . . C 2 -24.654 3.486 -18.346 1 17.89 ? "C4'1" 2BA 500 B 1 
HETATM 29 O "O4'1" 2BA . . . C 2 -25.995 3.086 -18.684 1 18.01 ? "O4'1" 2BA 500 B 1 
HETATM 30 C "C3'1" 2BA . . . C 2 -24.367 4.551 -19.393 1 18.22 ? "C3'1" 2BA 500 B 1 
HETATM 31 O "O3'1" 2BA . . . C 2 -23.599 3.88 -20.378 1 18.61 ? "O3'1" 2BA 500 B 1 
HETATM 32 C "C2'1" 2BA . . . C 2 -25.713 4.965 -19.987 1 17.61 ? "C2'1" 2BA 500 B 1 
HETATM 33 O "O2'1" 2BA . . . C 2 -25.64 5.385 -21.343 1 17.66 ? "O2'1" 2BA 500 B 1 
HETATM 34 C "C1'1" 2BA . . . C 2 -26.462 3.668 -19.94 1 17.27 ? "C1'1" 2BA 500 B 1 
HETATM 35 N N91 2BA . . . C 2 -27.944 3.747 -19.986 1 16.2 ? N91 2BA 500 B 1 
HETATM 36 C C81 2BA . . . C 2 -28.718 4.589 -19.276 1 16.59 ? C81 2BA 500 B 1 
HETATM 37 N N71 2BA . . . C 2 -30.044 4.336 -19.483 1 16.24 ? N71 2BA 500 B 1 
HETATM 38 C C51 2BA . . . C 2 -30.125 3.311 -20.342 1 15.62 ? C51 2BA 500 B 1 
HETATM 39 C C61 2BA . . . C 2 -31.241 2.57 -20.983 1 15.39 ? C61 2BA 500 B 1 
HETATM 40 N N61 2BA . . . C 2 -32.551 2.899 -20.735 1 15.03 ? N61 2BA 500 B 1 
HETATM 41 N N11 2BA . . . C 2 -30.883 1.56 -21.812 1 15.04 ? N11 2BA 500 B 1 
HETATM 42 C C21 2BA . . . C 2 -29.583 1.253 -22.064 1 14.86 ? C21 2BA 500 B 1 
HETATM 43 N N31 2BA . . . C 2 -28.541 1.902 -21.516 1 14.79 ? N31 2BA 500 B 1 
HETATM 44 C C41 2BA . . . C 2 -28.742 2.916 -20.659 1 15.46 ? C41 2BA 500 B 1 
#
_model_server_stats.io_time_ms              57 
_model_server_stats.parse_time_ms           9 
_model_server_stats.create_model_time_ms    2 
_model_server_stats.query_time_ms           301 
_model_server_stats.encode_time_ms          4 
_model_server_stats.element_count           44 
#