data_7AE9
#
_model_server_result.job_id            OIakpLJTP7qvlYBPytDtpg 
_model_server_result.datetime_utc      '2025-04-05 13:11:09' 
_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          7ae9 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"K","auth_seq_id":201}' 
#
_entry.id    7AE9 
#
_exptl.entry_id    7AE9 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              315.222 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            "2',3'-DIDEOXYADENOSINE-5'-MONOPHOSPHATE" 
_entity.pdbx_number_of_molecules    3 
_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         90 
_cell.entry_id            7AE9 
_cell.length_a            101.25 
_cell.length_b            204.543 
_cell.length_c            73.258 
_cell.Z_PDB               16 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 7AE9 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        18 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 21 21 2' 
#
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,E,F,I,J,L,M 1 1 
C,D,G,H,K,N,O 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
? 3 I N N 
? 3 J N N 
? 3 K N N 
#
loop_
_struct_conn.conn_type_id
_struct_conn.details
_struct_conn.id
_struct_conn.ptnr1_label_asym_id
_struct_conn.ptnr1_label_atom_id
_struct_conn.ptnr1_label_comp_id
_struct_conn.ptnr1_label_seq_id
_struct_conn.ptnr1_auth_asym_id
_struct_conn.ptnr1_auth_comp_id
_struct_conn.ptnr1_auth_seq_id
_struct_conn.ptnr1_symmetry
_struct_conn.ptnr2_label_asym_id
_struct_conn.ptnr2_label_atom_id
_struct_conn.ptnr2_label_comp_id
_struct_conn.ptnr2_label_seq_id
_struct_conn.ptnr2_auth_asym_id
_struct_conn.ptnr2_auth_comp_id
_struct_conn.ptnr2_auth_seq_id
_struct_conn.ptnr2_symmetry
_struct_conn.pdbx_ptnr1_PDB_ins_code
_struct_conn.pdbx_ptnr1_label_alt_id
_struct_conn.pdbx_ptnr1_standard_comp_id
_struct_conn.pdbx_ptnr2_PDB_ins_code
_struct_conn.pdbx_ptnr2_label_alt_id
_struct_conn.pdbx_ptnr3_PDB_ins_code
_struct_conn.pdbx_ptnr3_label_alt_id
_struct_conn.pdbx_ptnr3_label_asym_id
_struct_conn.pdbx_ptnr3_label_atom_id
_struct_conn.pdbx_ptnr3_label_comp_id
_struct_conn.pdbx_ptnr3_label_seq_id
_struct_conn.pdbx_PDB_id
_struct_conn.pdbx_dist_value
_struct_conn.pdbx_value_order
covale ? covale1 A OH TYR 109 A TYR 109 1_555 I P 2DA . A 2DA 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.583 ? 
covale ? covale2 B OH TYR 109 B TYR 109 1_555 J P 2DA . B 2DA 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.612 ? 
covale ? covale3 D OH TYR 109 D TYR 109 1_555 K P 2DA . D 2DA 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.673 ? 
#
_chem_comp.formula           'C10 H14 N5 O5 P' 
_chem_comp.formula_weight    315.222 
_chem_comp.id                2DA 
_chem_comp.mon_nstd_flag     n 
_chem_comp.name              "2',3'-DIDEOXYADENOSINE-5'-MONOPHOSPHATE" 
_chem_comp.type              'dna linking' 
_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
P OP1 2DA doub 1 n n 
P OP2 2DA sing 2 n n 
P OP3 2DA sing 3 n n 
P O5' 2DA sing 4 n n 
OP2 HOP2 2DA sing 5 n n 
OP3 HOP3 2DA sing 6 n n 
O5' C5' 2DA sing 7 n n 
C5' C4' 2DA sing 8 n n 
C5' H5' 2DA sing 9 n n 
C5' "H5''" 2DA sing 10 n n 
C4' O4' 2DA sing 11 n n 
C4' C3' 2DA sing 12 n n 
C4' H4' 2DA sing 13 n n 
O4' C1' 2DA sing 14 n n 
C3' C2' 2DA sing 15 n n 
C3' "H3'1" 2DA sing 16 n n 
C3' "H3'2" 2DA sing 17 n n 
C2' C1' 2DA sing 18 n n 
C2' H2' 2DA sing 19 n n 
C2' "H2''" 2DA sing 20 n n 
C1' N9 2DA sing 21 n n 
C1' H1' 2DA sing 22 n n 
N9 C8 2DA sing 23 n y 
N9 C4 2DA sing 24 n y 
C8 N7 2DA doub 25 n y 
C8 H8 2DA sing 26 n n 
N7 C5 2DA sing 27 n y 
C5 C6 2DA sing 28 n y 
C5 C4 2DA doub 29 n y 
C6 N6 2DA sing 30 n n 
C6 N1 2DA doub 31 n y 
N6 HN61 2DA sing 32 n n 
N6 HN62 2DA sing 33 n n 
N1 C2 2DA sing 34 n y 
C2 N3 2DA doub 35 n y 
C2 H2 2DA sing 36 n n 
N3 C4 2DA sing 37 n y 
#
_atom_sites.entry_id                     7AE9 
_atom_sites.fract_transf_matrix[1][1]    0.009877 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.004889 
_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]    0.01365 
_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 3 2DA A 1 201 201 2DA 2DA . 
J 3 2DA B 1 201 201 2DA 2DA . 
K 3 2DA D 1 201 201 2DA 2DA . 
L 4 HOH A 1 301 2 HOH HOH . 
M 4 HOH B 1 301 3 HOH HOH . 
N 4 HOH C 1 201 6 HOH HOH . 
N 4 HOH C 2 202 5 HOH HOH . 
O 4 HOH G 1 201 4 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 P 2DA . . . K 3 -16.283 81.491 17.169 1 111.93 ? P 2DA 201 D 1 
HETATM 2 O OP1 2DA . . . K 3 -15 81.401 17.858 1 119.74 ? OP1 2DA 201 D 1 
HETATM 3 O OP2 2DA . . . K 3 -16.484 82.939 17.089 1 108.37 ? OP2 2DA 201 D 1 
HETATM 4 O O5' 2DA . . . K 3 -16.159 80.81 15.669 1 110.34 ? O5' 2DA 201 D 1 
HETATM 5 C C5' 2DA . . . K 3 -17.032 79.793 15.27 1 104.33 ? C5' 2DA 201 D 1 
HETATM 6 C C4' 2DA . . . K 3 -18.041 80.376 14.294 1 97.06 ? C4' 2DA 201 D 1 
HETATM 7 O O4' 2DA . . . K 3 -18.894 81.239 15.012 1 91.41 ? O4' 2DA 201 D 1 
HETATM 8 C C3' 2DA . . . K 3 -17.324 81.167 13.203 1 98.16 ? C3' 2DA 201 D 1 
HETATM 9 C C2' 2DA . . . K 3 -18.088 82.471 13.169 1 95.53 ? C2' 2DA 201 D 1 
HETATM 10 C C1' 2DA . . . K 3 -19.252 82.269 14.118 1 92.21 ? C1' 2DA 201 D 1 
HETATM 11 N N9 2DA . . . K 3 -19.592 83.475 14.874 1 86.79 ? N9 2DA 201 D 1 
HETATM 12 C C8 2DA . . . K 3 -19.903 83.398 16.162 1 81.85 ? C8 2DA 201 D 1 
HETATM 13 N N7 2DA . . . K 3 -20.178 84.631 16.607 1 77.44 ? N7 2DA 201 D 1 
HETATM 14 C C5 2DA . . . K 3 -20.026 85.549 15.481 1 76 ? C5 2DA 201 D 1 
HETATM 15 C C6 2DA . . . K 3 -20.161 86.913 15.281 1 76.63 ? C6 2DA 201 D 1 
HETATM 16 N N6 2DA . . . K 3 -20.549 87.798 16.369 1 71.41 ? N6 2DA 201 D 1 
HETATM 17 N N1 2DA . . . K 3 -19.934 87.408 14.068 1 82.88 ? N1 2DA 201 D 1 
HETATM 18 C C2 2DA . . . K 3 -19.577 86.619 13.052 1 84.94 ? C2 2DA 201 D 1 
HETATM 19 N N3 2DA . . . K 3 -19.431 85.305 13.184 1 82.33 ? N3 2DA 201 D 1 
HETATM 20 C C4 2DA . . . K 3 -19.639 84.724 14.354 1 82.85 ? C4 2DA 201 D 1 
#
_model_server_stats.io_time_ms              44 
_model_server_stats.parse_time_ms           29 
_model_server_stats.create_model_time_ms    14 
_model_server_stats.query_time_ms           278 
_model_server_stats.encode_time_ms          7 
_model_server_stats.element_count           20 
#