data_1E4Y
#
_model_server_result.job_id            sCgXIdxQBfhBlY-ecwizvg 
_model_server_result.datetime_utc      '2025-03-12 03:25:22' 
_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          1e4y 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"D","auth_seq_id":215}' 
#
_entry.id    1E4Y 
#
_exptl.entry_id    1E4Y 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              916.367 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            "BIS(ADENOSINE)-5'-PENTAPHOSPHATE" 
_entity.pdbx_number_of_molecules    2 
_entity.pdbx_parent_entity_id       . 
_entity.pdbx_mutation               ? 
_entity.pdbx_fragment               ? 
_entity.pdbx_ec                     ? 
#
_cell.angle_alpha         90 
_cell.angle_beta          94.3 
_cell.angle_gamma         90 
_cell.entry_id            1E4Y 
_cell.length_a            60.3 
_cell.length_b            77.8 
_cell.length_c            57.7 
_cell.Z_PDB               4 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 1E4Y 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        4 
_symmetry.space_group_name_Hall    . 
_symmetry.space_group_name_H-M     'P 1 21 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
PQS monomeric 1 author_and_software_defined_assembly 1 
PQS monomeric 1 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,C 1 1 
B,D 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 C N N 
? 2 D N N 
#
_chem_comp.formula           'C20 H29 N10 O22 P5' 
_chem_comp.formula_weight    916.367 
_chem_comp.id                AP5 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              "BIS(ADENOSINE)-5'-PENTAPHOSPHATE" 
_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
PA O1A AP5 doub 13 n n 
PA O2A AP5 sing 14 n n 
PA O3A AP5 sing 15 n n 
PA O5F AP5 sing 16 n n 
O2A HOA2 AP5 sing 17 n n 
O3A PB AP5 sing 18 n n 
PB O1B AP5 doub 19 n n 
PB O2B AP5 sing 20 n n 
PB O3B AP5 sing 21 n n 
O2B HOB2 AP5 sing 22 n n 
O3B PG AP5 sing 23 n n 
PG O1G AP5 doub 24 n n 
PG O2G AP5 sing 25 n n 
PG O3G AP5 sing 26 n n 
O2G HOG2 AP5 sing 27 n n 
O3G PD AP5 sing 28 n n 
PD O1D AP5 doub 29 n n 
PD O2D AP5 sing 30 n n 
PD O3D AP5 sing 31 n n 
O2D HOD2 AP5 sing 32 n n 
O3D PE AP5 sing 33 n n 
PE O1E AP5 doub 34 n n 
PE O2E AP5 sing 35 n n 
PE O5J AP5 sing 36 n n 
O2E HOE2 AP5 sing 37 n n 
O5F C5F AP5 sing 38 n n 
C5F C4F AP5 sing 39 n n 
C5F H51A AP5 sing 40 n n 
C5F H52A AP5 sing 41 n n 
C4F O4F AP5 sing 42 n n 
C4F C3F AP5 sing 43 n n 
C4F H4F AP5 sing 44 n n 
O4F C1F AP5 sing 45 n n 
C3F O3F AP5 sing 46 n n 
C3F C2F AP5 sing 47 n n 
C3F H3F AP5 sing 48 n n 
O3F HO3A AP5 sing 49 n n 
C2F O2F AP5 sing 50 n n 
C2F C1F AP5 sing 51 n n 
C2F H2F AP5 sing 52 n n 
O2F HO2A AP5 sing 53 n n 
C1F N9A AP5 sing 54 n n 
C1F H1F AP5 sing 55 n n 
N9A C8A AP5 sing 56 n y 
N9A C4A AP5 sing 57 n y 
C8A N7A AP5 doub 58 n y 
C8A H8A AP5 sing 59 n n 
N7A C5A AP5 sing 60 n y 
C5A C6A AP5 sing 61 n y 
C5A C4A AP5 doub 62 n y 
C6A N6A AP5 sing 63 n n 
C6A N1A AP5 doub 64 n y 
N6A H61A AP5 sing 65 n n 
N6A H62A AP5 sing 66 n n 
N1A C2A AP5 sing 67 n y 
C2A N3A AP5 doub 68 n y 
C2A H2A AP5 sing 69 n n 
N3A C4A AP5 sing 70 n y 
O5J C5J AP5 sing 71 n n 
C5J C4J AP5 sing 72 n n 
C5J H51B AP5 sing 73 n n 
C5J H52B AP5 sing 74 n n 
C4J O4J AP5 sing 75 n n 
C4J C3J AP5 sing 76 n n 
C4J H4J AP5 sing 77 n n 
O4J C1J AP5 sing 78 n n 
C3J O3J AP5 sing 79 n n 
C3J C2J AP5 sing 80 n n 
C3J H3J AP5 sing 81 n n 
O3J HO3B AP5 sing 82 n n 
C2J O2J AP5 sing 83 n n 
C2J C1J AP5 sing 84 n n 
C2J H2J AP5 sing 85 n n 
O2J HO2B AP5 sing 86 n n 
C1J N9B AP5 sing 87 n n 
C1J H1J AP5 sing 88 n n 
N9B C8B AP5 sing 89 n y 
N9B C4B AP5 sing 90 n y 
C8B N7B AP5 doub 91 n y 
C8B H8B AP5 sing 92 n n 
N7B C5B AP5 sing 93 n y 
C5B C6B AP5 sing 94 n y 
C5B C4B AP5 doub 95 n y 
C6B N6B AP5 sing 96 n n 
C6B N1B AP5 doub 97 n y 
N6B H61B AP5 sing 98 n n 
N6B H62B AP5 sing 99 n n 
N1B C2B AP5 sing 100 n y 
C2B N3B AP5 doub 101 n y 
C2B H2B AP5 sing 102 n n 
N3B C4B AP5 sing 103 n y 
#
_atom_sites.entry_id                     1E4Y 
_atom_sites.fract_transf_matrix[1][1]    0.016584 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.001247 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.012853 
_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]    0.01738 
_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
C 2 AP5 A 1 215 215 AP5 AP5 . 
D 2 AP5 B 1 215 215 AP5 AP5 . 
#
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 AP5 . . . D 2 27.981 17.799 28.349 1 8.25 ? PA AP5 215 B 1 
HETATM 2 O O1A AP5 . . . D 2 28.289 16.904 29.499 1 7.67 ? O1A AP5 215 B 1 
HETATM 3 O O2A AP5 . . . D 2 26.896 17.47 27.43 1 7.68 ? O2A AP5 215 B 1 
HETATM 4 O O3A AP5 . . . D 2 27.959 19.301 28.88 1 7.98 ? O3A AP5 215 B 1 
HETATM 5 P PB AP5 . . . D 2 26.737 20.115 29.538 1 8.01 ? PB AP5 215 B 1 
HETATM 6 O O1B AP5 . . . D 2 27.486 21.164 30.304 1 7.17 ? O1B AP5 215 B 1 
HETATM 7 O O2B AP5 . . . D 2 25.905 19.181 30.335 1 8.41 ? O2B AP5 215 B 1 
HETATM 8 O O3B AP5 . . . D 2 26.095 20.762 28.223 1 8.41 ? O3B AP5 215 B 1 
HETATM 9 P PG AP5 . . . D 2 24.806 21.702 28.163 1 7.16 ? PG AP5 215 B 1 
HETATM 10 O O1G AP5 . . . D 2 25.422 23.035 28.006 1 7.84 ? O1G AP5 215 B 1 
HETATM 11 O O2G AP5 . . . D 2 23.899 21.658 29.306 1 8.62 ? O2G AP5 215 B 1 
HETATM 12 O O3G AP5 . . . D 2 24.052 21.316 26.798 1 8.5 ? O3G AP5 215 B 1 
HETATM 13 P PD AP5 . . . D 2 22.691 20.462 26.627 1 8.29 ? PD AP5 215 B 1 
HETATM 14 O O1D AP5 . . . D 2 22.542 20.533 25.144 1 8.01 ? O1D AP5 215 B 1 
HETATM 15 O O2D AP5 . . . D 2 22.911 19.118 27.186 1 7.8 ? O2D AP5 215 B 1 
HETATM 16 O O3D AP5 . . . D 2 21.398 21.236 27.248 1 8.8 ? O3D AP5 215 B 1 
HETATM 17 P PE AP5 . . . D 2 19.942 20.719 27.741 1 9.68 ? PE AP5 215 B 1 
HETATM 18 O O1E AP5 . . . D 2 19.551 19.387 27.258 1 9.37 ? O1E AP5 215 B 1 
HETATM 19 O O2E AP5 . . . D 2 19.728 20.968 29.196 1 8.62 ? O2E AP5 215 B 1 
HETATM 20 O O5F AP5 . . . D 2 29.338 17.78 27.489 1 7.4 ? O5F AP5 215 B 1 
HETATM 21 C C5F AP5 . . . D 2 29.353 18.237 26.155 1 7.69 ? C5F AP5 215 B 1 
HETATM 22 C C4F AP5 . . . D 2 30.333 17.476 25.3 1 7.27 ? C4F AP5 215 B 1 
HETATM 23 O O4F AP5 . . . D 2 31.66 17.729 25.734 1 7.71 ? O4F AP5 215 B 1 
HETATM 24 C C3F AP5 . . . D 2 30.183 15.964 25.296 1 8.24 ? C3F AP5 215 B 1 
HETATM 25 O O3F AP5 . . . D 2 30.791 15.506 24.12 1 8.77 ? O3F AP5 215 B 1 
HETATM 26 C C2F AP5 . . . D 2 31.079 15.513 26.447 1 8.21 ? C2F AP5 215 B 1 
HETATM 27 O O2F AP5 . . . D 2 31.649 14.189 26.298 1 7.8 ? O2F AP5 215 B 1 
HETATM 28 C C1F AP5 . . . D 2 32.119 16.603 26.478 1 7.67 ? C1F AP5 215 B 1 
HETATM 29 N N9A AP5 . . . D 2 33.064 16.676 27.586 1 7.57 ? N9A AP5 215 B 1 
HETATM 30 C C8A AP5 . . . D 2 32.728 16.588 28.898 1 7.37 ? C8A AP5 215 B 1 
HETATM 31 N N7A AP5 . . . D 2 33.733 16.69 29.714 1 7.79 ? N7A AP5 215 B 1 
HETATM 32 C C5A AP5 . . . D 2 34.837 16.885 28.941 1 7.31 ? C5A AP5 215 B 1 
HETATM 33 C C6A AP5 . . . D 2 36.125 17.211 29.285 1 6.77 ? C6A AP5 215 B 1 
HETATM 34 N N6A AP5 . . . D 2 36.385 17.701 30.485 1 6.37 ? N6A AP5 215 B 1 
HETATM 35 N N1A AP5 . . . D 2 36.99 17.269 28.302 1 7.05 ? N1A AP5 215 B 1 
HETATM 36 C C2A AP5 . . . D 2 36.53 17.178 27.067 1 7.68 ? C2A AP5 215 B 1 
HETATM 37 N N3A AP5 . . . D 2 35.313 16.97 26.56 1 7.49 ? N3A AP5 215 B 1 
HETATM 38 C C4A AP5 . . . D 2 34.434 16.85 27.58 1 7.53 ? C4A AP5 215 B 1 
HETATM 39 O O5J AP5 . . . D 2 18.827 21.618 26.995 1 9.31 ? O5J AP5 215 B 1 
HETATM 40 C C5J AP5 . . . D 2 18.578 21.426 25.614 1 9.5 ? C5J AP5 215 B 1 
HETATM 41 C C4J AP5 . . . D 2 17.383 22.211 24.991 1 9.14 ? C4J AP5 215 B 1 
HETATM 42 O O4J AP5 . . . D 2 16.209 21.839 25.673 1 8.55 ? O4J AP5 215 B 1 
HETATM 43 C C3J AP5 . . . D 2 17.459 23.77 25.067 1 8.93 ? C3J AP5 215 B 1 
HETATM 44 O O3J AP5 . . . D 2 17.87 24.327 23.829 1 9.51 ? O3J AP5 215 B 1 
HETATM 45 C C2J AP5 . . . D 2 16.053 24.206 25.336 1 8.58 ? C2J AP5 215 B 1 
HETATM 46 O O2J AP5 . . . D 2 15.228 24.049 24.185 1 8.52 ? O2J AP5 215 B 1 
HETATM 47 C C1J AP5 . . . D 2 15.793 23.039 26.24 1 8.69 ? C1J AP5 215 B 1 
HETATM 48 N N9B AP5 . . . D 2 15.597 23.123 27.661 1 8.83 ? N9B AP5 215 B 1 
HETATM 49 C C8B AP5 . . . D 2 16.151 22.284 28.582 1 8.97 ? C8B AP5 215 B 1 
HETATM 50 N N7B AP5 . . . D 2 15.991 22.72 29.796 1 8.94 ? N7B AP5 215 B 1 
HETATM 51 C C5B AP5 . . . D 2 15.302 23.906 29.696 1 8.78 ? C5B AP5 215 B 1 
HETATM 52 C C6B AP5 . . . D 2 14.946 24.855 30.631 1 8.56 ? C6B AP5 215 B 1 
HETATM 53 N N6B AP5 . . . D 2 15.469 24.876 31.856 1 8.53 ? N6B AP5 215 B 1 
HETATM 54 N N1B AP5 . . . D 2 14.102 25.779 30.205 1 8.69 ? N1B AP5 215 B 1 
HETATM 55 C C2B AP5 . . . D 2 13.716 25.816 28.935 1 8.52 ? C2B AP5 215 B 1 
HETATM 56 N N3B AP5 . . . D 2 14.153 25.116 27.901 1 8.43 ? N3B AP5 215 B 1 
HETATM 57 C C4B AP5 . . . D 2 14.941 24.112 28.344 1 8.68 ? C4B AP5 215 B 1 
#
_model_server_stats.io_time_ms              6 
_model_server_stats.parse_time_ms           8 
_model_server_stats.create_model_time_ms    12 
_model_server_stats.query_time_ms           270 
_model_server_stats.encode_time_ms          3 
_model_server_stats.element_count           57 
#