data_2WPD
#
_model_server_result.job_id            xBGjZINxBSxa9kME2DAcKQ 
_model_server_result.datetime_utc      '2024-12-22 06:26:24' 
_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          2wpd 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"BA","auth_seq_id":600}' 
#
_entry.id    2WPD 
#
_exptl.entry_id    2WPD 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              427.201 
_entity.id                          9 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            "ADENOSINE-5'-DIPHOSPHATE" 
_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          92.69 
_cell.angle_gamma         90 
_cell.entry_id            2WPD 
_cell.length_a            134.99 
_cell.length_b            173.944 
_cell.length_c            137.016 
_cell.Z_PDB               20 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 2WPD 
_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    nonadecameric 
_pdbx_struct_assembly.oligomeric_count      19 
_pdbx_struct_assembly.details               author_and_software_defined_assembly 
_pdbx_struct_assembly.id                    1 
#
_pdbx_struct_assembly_gen.asym_id_list       A,B,C,D,E,F,G,H,I,J,K,L,M,N,O,P,Q,R,S,T,U,V,W,X,Y,Z,AA,BA,CA 
_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 
#
loop_
_struct_asym.details
_struct_asym.entity_id
_struct_asym.id
_struct_asym.pdbx_modified
_struct_asym.pdbx_blank_PDB_chainid_flag
? 9 Z N N 
? 9 BA 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
metalc ? metalc1 A OG1 THR 178 A THR 178 1_555 U MG MG . A MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.388 ? 
metalc ? metalc2 T O2G ATP . A ATP 600 1_555 U MG MG . A MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.666 ? 
metalc ? metalc3 T O2B ATP . A ATP 600 1_555 U MG MG . A MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.426 ? 
metalc ? metalc4 B OG1 THR 178 B THR 178 1_555 W MG MG . B MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.113 ? 
metalc ? metalc5 V O1G ATP . B ATP 600 1_555 W MG MG . B MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.282 ? 
metalc ? metalc6 V O2G ATP . B ATP 600 1_555 W MG MG . B MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.39 ? 
metalc ? metalc7 V O2B ATP . B ATP 600 1_555 W MG MG . B MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.267 ? 
metalc ? metalc8 C OG1 THR 178 C THR 178 1_555 Y MG MG . C MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.247 ? 
metalc ? metalc9 X O1G ATP . C ATP 600 1_555 Y MG MG . C MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.406 ? 
metalc ? metalc10 X O2G ATP . C ATP 600 1_555 Y MG MG . C MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.587 ? 
metalc ? metalc11 X O2B ATP . C ATP 600 1_555 Y MG MG . C MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.319 ? 
metalc ? metalc12 D OG1 THR 164 D THR 164 1_555 AA MG MG . D MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.413 ? 
metalc ? metalc13 Z O2B ADP . D ADP 600 1_555 AA MG MG . D MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.484 ? 
metalc ? metalc14 F OG1 THR 164 F THR 164 1_555 CA MG MG . F MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.401 ? 
metalc ? metalc15 BA O2B ADP . F ADP 600 1_555 CA MG MG . F MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.315 ? 
#
_chem_comp.formula           'C10 H15 N5 O10 P2' 
_chem_comp.formula_weight    427.201 
_chem_comp.id                ADP 
_chem_comp.mon_nstd_flag     n 
_chem_comp.name              "ADENOSINE-5'-DIPHOSPHATE" 
_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
PB O1B ADP doub 1 n n 
PB O2B ADP sing 2 n n 
PB O3B ADP sing 3 n n 
PB O3A ADP sing 4 n n 
O2B HOB2 ADP sing 5 n n 
O3B HOB3 ADP sing 6 n n 
PA O1A ADP doub 7 n n 
PA O2A ADP sing 8 n n 
PA O3A ADP sing 9 n n 
PA O5' ADP sing 10 n n 
O2A HOA2 ADP sing 11 n n 
O5' C5' ADP sing 12 n n 
C5' C4' ADP sing 13 n n 
C5' "H5'1" ADP sing 14 n n 
C5' "H5'2" ADP sing 15 n n 
C4' O4' ADP sing 16 n n 
C4' C3' ADP sing 17 n n 
C4' H4' ADP sing 18 n n 
O4' C1' ADP sing 19 n n 
C3' O3' ADP sing 20 n n 
C3' C2' ADP sing 21 n n 
C3' H3' ADP sing 22 n n 
O3' HO3' ADP sing 23 n n 
C2' O2' ADP sing 24 n n 
C2' C1' ADP sing 25 n n 
C2' H2' ADP sing 26 n n 
O2' HO2' ADP sing 27 n n 
C1' N9 ADP sing 28 n n 
C1' H1' ADP sing 29 n n 
N9 C8 ADP sing 30 n y 
N9 C4 ADP sing 31 n y 
C8 N7 ADP doub 32 n y 
C8 H8 ADP sing 33 n n 
N7 C5 ADP sing 34 n y 
C5 C6 ADP sing 35 n y 
C5 C4 ADP doub 36 n y 
C6 N6 ADP sing 37 n n 
C6 N1 ADP doub 38 n y 
N6 HN61 ADP sing 39 n n 
N6 HN62 ADP sing 40 n n 
N1 C2 ADP sing 41 n y 
C2 N3 ADP doub 42 n y 
C2 H2 ADP sing 43 n n 
N3 C4 ADP sing 44 n y 
#
_atom_sites.entry_id                     2WPD 
_atom_sites.fract_transf_matrix[1][1]    0.007408 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.000348 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.005749 
_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]    0.007306 
_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
T 7 ATP A 1 600 600 ATP ATP . 
U 8 MG A 1 601 601 MG MG . 
V 7 ATP B 1 600 600 ATP ATP . 
W 8 MG B 1 601 601 MG MG . 
X 7 ATP C 1 600 600 ATP ATP . 
Y 8 MG C 1 601 601 MG MG . 
Z 9 ADP D 1 600 600 ADP ADP . 
AA 8 MG D 1 601 601 MG MG . 
BA 9 ADP F 1 600 600 ADP ADP . 
CA 8 MG F 1 601 601 MG MG . 
#
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 PB ADP . . . BA 9 30.857 25.606 22.849 1 114.4 ? PB ADP 600 F 1 
HETATM 2 O O1B ADP . . . BA 9 30.277 25.924 21.494 1 114.4 ? O1B ADP 600 F 1 
HETATM 3 O O2B ADP . . . BA 9 30.601 26.659 23.893 1 114.4 ? O2B ADP 600 F 1 
HETATM 4 O O3B ADP . . . BA 9 30.626 24.189 23.319 1 114.4 ? O3B ADP 600 F 1 
HETATM 5 P PA ADP . . . BA 9 33.352 26.97 22.933 1 114.4 ? PA ADP 600 F 1 
HETATM 6 O O1A ADP . . . BA 9 33.441 27.799 21.675 1 114.4 ? O1A ADP 600 F 1 
HETATM 7 O O2A ADP . . . BA 9 32.944 27.606 24.24 1 114.4 ? O2A ADP 600 F 1 
HETATM 8 O O3A ADP . . . BA 9 32.45 25.666 22.634 1 114.4 ? O3A ADP 600 F 1 
HETATM 9 O O5' ADP . . . BA 9 34.771 26.258 23.174 1 114.4 ? O5' ADP 600 F 1 
HETATM 10 C C5' ADP . . . BA 9 35.94 26.995 23.507 1 114.4 ? C5' ADP 600 F 1 
HETATM 11 C C4' ADP . . . BA 9 37.042 26.43 22.627 1 114.4 ? C4' ADP 600 F 1 
HETATM 12 O O4' ADP . . . BA 9 36.578 26.441 21.274 1 114.4 ? O4' ADP 600 F 1 
HETATM 13 C C3' ADP . . . BA 9 38.315 27.256 22.687 1 114.4 ? C3' ADP 600 F 1 
HETATM 14 O O3' ADP . . . BA 9 39.327 26.567 23.431 1 114.4 ? O3' ADP 600 F 1 
HETATM 15 C C2' ADP . . . BA 9 38.713 27.473 21.235 1 114.4 ? C2' ADP 600 F 1 
HETATM 16 O O2' ADP . . . BA 9 39.988 26.904 20.909 1 114.4 ? O2' ADP 600 F 1 
HETATM 17 C C1' ADP . . . BA 9 37.627 26.831 20.388 1 114.4 ? C1' ADP 600 F 1 
HETATM 18 N N9 ADP . . . BA 9 37.185 27.882 19.445 1 114.4 ? N9 ADP 600 F 1 
HETATM 19 C C8 ADP . . . BA 9 35.95 28.392 19.287 1 114.4 ? C8 ADP 600 F 1 
HETATM 20 N N7 ADP . . . BA 9 35.945 29.354 18.326 1 114.4 ? N7 ADP 600 F 1 
HETATM 21 C C5 ADP . . . BA 9 37.204 29.468 17.862 1 114.4 ? C5 ADP 600 F 1 
HETATM 22 C C6 ADP . . . BA 9 37.91 30.286 16.848 1 114.4 ? C6 ADP 600 F 1 
HETATM 23 N N6 ADP . . . BA 9 37.248 31.208 16.111 1 114.4 ? N6 ADP 600 F 1 
HETATM 24 N N1 ADP . . . BA 9 39.238 30.08 16.684 1 114.4 ? N1 ADP 600 F 1 
HETATM 25 C C2 ADP . . . BA 9 39.911 29.167 17.408 1 114.4 ? C2 ADP 600 F 1 
HETATM 26 N N3 ADP . . . BA 9 39.336 28.391 18.341 1 114.4 ? N3 ADP 600 F 1 
HETATM 27 C C4 ADP . . . BA 9 38.013 28.495 18.605 1 114.4 ? C4 ADP 600 F 1 
#
_model_server_stats.io_time_ms              16 
_model_server_stats.parse_time_ms           13 
_model_server_stats.create_model_time_ms    43 
_model_server_stats.query_time_ms           309 
_model_server_stats.encode_time_ms          4 
_model_server_stats.element_count           27 
#