data_2P8Z
#
_model_server_result.job_id            QlSr33RflkKDMts0rk9tVQ 
_model_server_result.datetime_utc      '2024-10-20 19:40:26' 
_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          2p8z 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"C","auth_seq_id":1699}' 
#
_entry.id    2P8Z 
#
_exptl.entry_id    2P8Z 
_exptl.method      'ELECTRON MICROSCOPY' 
#
_entity.details                     ? 
_entity.formula_weight              559.316 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            ADENOSINE-5-DIPHOSPHORIBOSE 
_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          90 
_cell.angle_gamma         90 
_cell.entry_id            2P8Z 
_cell.length_a            1 
_cell.length_b            1 
_cell.length_c            1 
_cell.Z_PDB               1 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 2P8Z 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        1 
_symmetry.space_group_name_Hall    . 
_symmetry.space_group_name_H-M     'P 1' 
#
_pdbx_struct_assembly.method_details        ? 
_pdbx_struct_assembly.oligomeric_details    dimeric 
_pdbx_struct_assembly.oligomeric_count      2 
_pdbx_struct_assembly.details               author_defined_assembly 
_pdbx_struct_assembly.id                    1 
#
_pdbx_struct_assembly_gen.asym_id_list       A,B,C,D,E 
_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                      3 
_struct_asym.id                             C 
_struct_asym.pdbx_modified                  N 
_struct_asym.pdbx_blank_PDB_chainid_flag    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 CA VAL 28 T VAL 28 1_555 E O2G GNP . T GNP 843 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.771 ? 
covale ? covale2 A C VAL 28 T VAL 28 1_555 E O2G GNP . T GNP 843 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? 
covale ? covale3 A N ASP 29 T ASP 29 1_555 E PG GNP . T GNP 843 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.74 ? 
covale ? covale4 A N ASP 29 T ASP 29 1_555 E O2G GNP . T GNP 843 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.132 ? 
covale ? covale5 A N GLY 31 T GLY 31 1_555 E O1B GNP . T GNP 843 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.418 ? 
covale ? covale6 A OD2 ASP 161 T ASP 161 1_555 E N1 GNP . T GNP 843 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.918 ? 
covale ? covale7 A OD1 ASP 161 T ASP 161 1_555 E N2 GNP . T GNP 843 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.67 ? 
covale ? covale8 A OG SER 213 T SER 213 1_555 E N1 GNP . T GNP 843 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.768 ? 
covale ? covale9 A C SER 213 T SER 213 1_555 E O6 GNP . T GNP 843 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.842 ? 
covale ? covale10 A OG SER 213 T SER 213 1_555 E C6 GNP . T GNP 843 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.8 ? 
covale ? covale11 A OG SER 213 T SER 213 1_555 E O6 GNP . T GNP 843 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.458 ? 
covale ? covale12 A CB LEU 215 T LEU 215 1_555 E C4 GNP . T GNP 843 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.996 ? 
covale ? covale13 A N LEU 215 T LEU 215 1_555 E N7 GNP . T GNP 843 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.921 ? 
covale ? covale14 A CD1 LEU 215 T LEU 215 1_555 E O2' GNP . T GNP 843 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.873 ? 
covale ? covale15 A OD1 ASN 581 T ASN 581 1_555 A O DDE 699 T DDE 699 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.88 ? 
covale ? covale16 A OD2 ASP 696 T ASP 696 1_555 C O3D APR . T APR 1699 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.732 ? 
covale ? covale17 A CG ASP 696 T ASP 696 1_555 C O3D APR . T APR 1699 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.295 ? 
covale ? covale18 A CB ASP 696 T ASP 696 1_555 C O3D APR . T APR 1699 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.195 ? 
covale ? covale19 A O ILE 698 T ILE 698 1_555 A N DDE 699 T DDE 699 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.005 ? 
covale ? covale20 A C ILE 698 T ILE 698 1_555 A N DDE 699 T DDE 699 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.637 ? 
covale ? covale21 A CD1 ILE 698 T ILE 698 1_555 A CAU DDE 699 T DDE 699 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.985 ? 
covale ? covale22 A CD1 ILE 698 T ILE 698 1_555 A CBW DDE 699 T DDE 699 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.599 ? 
covale ? covale23 A NE2 DDE 699 T DDE 699 1_555 C C1D APR . T APR 1699 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.356 ? 
covale ? covale24 A C DDE 699 T DDE 699 1_555 A N ARG 700 T ARG 700 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.803 ? 
#
_chem_comp.formula           'C15 H23 N5 O14 P2' 
_chem_comp.formula_weight    559.316 
_chem_comp.id                APR 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              ADENOSINE-5-DIPHOSPHORIBOSE 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     ? 
#
_atom_sites.entry_id                     2P8Z 
_atom_sites.fract_transf_matrix[1][1]    1 
_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]    1 
_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]    1 
_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 3 APR T 1 1699 1699 APR APR . 
D 4 SO1 T 1 1700 800 SO1 SO1 . 
E 5 GNP T 1 843 843 GNP GNP . 
#
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 N N1 APR . . . C 3 -62.169 3.21 2.059 1 128.4 ? N1 APR 1699 T 1 
HETATM 2 C C2 APR . . . C 3 -60.884 2.97 2.558 1 128.31 ? C2 APR 1699 T 1 
HETATM 3 N N3 APR . . . C 3 -59.94 3.842 2.799 1 128.37 ? N3 APR 1699 T 1 
HETATM 4 C C4 APR . . . C 3 -60.351 5.1 2.522 1 128.37 ? C4 APR 1699 T 1 
HETATM 5 C C5 APR . . . C 3 -61.599 5.509 2.036 1 128.39 ? C5 APR 1699 T 1 
HETATM 6 C C6 APR . . . C 3 -62.56 4.503 1.791 1 128.26 ? C6 APR 1699 T 1 
HETATM 7 N N6 APR . . . C 3 -63.779 4.727 1.305 1 127.85 ? N6 APR 1699 T 1 
HETATM 8 N N7 APR . . . C 3 -61.657 6.89 1.885 1 128.13 ? N7 APR 1699 T 1 
HETATM 9 C C8 APR . . . C 3 -60.451 7.293 2.249 1 128.04 ? C8 APR 1699 T 1 
HETATM 10 N N9 APR . . . C 3 -59.627 6.251 2.621 1 127.95 ? N9 APR 1699 T 1 
HETATM 11 C C1' APR . . . C 3 -58.225 6.235 3.057 1 49.13 ? C1' APR 1699 T 1 
HETATM 12 C C2' APR . . . C 3 -57.527 7.283 2.231 1 48.98 ? C2' APR 1699 T 1 
HETATM 13 O O2' APR . . . C 3 -56.75 6.684 1.192 1 125.61 ? O2' APR 1699 T 1 
HETATM 14 C C3' APR . . . C 3 -56.724 8.16 3.212 1 48.88 ? C3' APR 1699 T 1 
HETATM 15 O O3' APR . . . C 3 -55.292 7.929 3.182 1 125.67 ? O3' APR 1699 T 1 
HETATM 16 O O4' APR . . . C 3 -58.15 6.589 4.403 1 125.97 ? O4' APR 1699 T 1 
HETATM 17 C C4' APR . . . C 3 -57.349 7.846 4.598 1 48.88 ? C4' APR 1699 T 1 
HETATM 18 C C5' APR . . . C 3 -58.646 8.635 4.706 1 48.89 ? C5' APR 1699 T 1 
HETATM 19 O O5' APR . . . C 3 -58.71 9.707 5.25 1 124.22 ? O5' APR 1699 T 1 
HETATM 20 P PA APR . . . C 3 -60.228 10.089 5.608 1 123.75 ? PA APR 1699 T 1 
HETATM 21 O O1A APR . . . C 3 -60.248 11.424 6.328 1 124.17 ? O1A APR 1699 T 1 
HETATM 22 O O2A APR . . . C 3 -60.728 9.026 6.377 1 123.78 ? O2A APR 1699 T 1 
HETATM 23 O O3A APR . . . C 3 -61.014 10.476 4.248 1 120.27 ? O3A APR 1699 T 1 
HETATM 24 P PB APR . . . C 3 -60.658 11.944 3.552 1 117.29 ? PB APR 1699 T 1 
HETATM 25 O O1B APR . . . C 3 -61.218 13.257 3.985 1 117.82 ? O1B APR 1699 T 1 
HETATM 26 O O2B APR . . . C 3 -59.249 11.999 3.723 1 117.53 ? O2B APR 1699 T 1 
HETATM 27 O O5D APR . . . C 3 -60.852 11.6 2.061 1 113.18 ? O5D APR 1699 T 1 
HETATM 28 C C5D APR . . . C 3 -60.789 10.318 1.547 1 48.82 ? C5D APR 1699 T 1 
HETATM 29 O O4D APR . . . C 3 -59.163 10.4 -0.001 1 95.21 ? O4D APR 1699 T 1 
HETATM 30 C C1D APR . . . C 3 -58.561 9.271 -0.685 1 48.85 ? C1D APR 1699 T 1 
HETATM 31 O O2D APR . . . C 3 -59.917 7.698 -2.097 1 95.95 ? O2D APR 1699 T 1 
HETATM 32 C C2D APR . . . C 3 -59.764 8.317 -0.809 1 48.8 ? C2D APR 1699 T 1 
HETATM 33 O O3D APR . . . C 3 -61.767 9.324 -1.872 1 98.4 ? O3D APR 1699 T 1 
HETATM 34 C C3D APR . . . C 3 -61.038 9.147 -0.639 1 48.76 ? C3D APR 1699 T 1 
HETATM 35 C C4D APR . . . C 3 -60.633 10.392 0.073 1 48.77 ? C4D APR 1699 T 1 
#
_model_server_stats.io_time_ms              50 
_model_server_stats.parse_time_ms           13 
_model_server_stats.create_model_time_ms    21 
_model_server_stats.query_time_ms           280 
_model_server_stats.encode_time_ms          5 
_model_server_stats.element_count           35 
#