data_9AZP
#
_model_server_result.job_id            fxKfru_VaqeNxcaqENMJaA 
_model_server_result.datetime_utc      '2024-12-02 02:53:29' 
_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          9azp 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"S","auth_seq_id":401}' 
#
_entry.id    9AZP 
#
_exptl.entry_id    9AZP 
_exptl.method      'ELECTRON MICROSCOPY' 
#
_entity.details                     ? 
_entity.formula_weight              427.201 
_entity.id                          4 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            "ADENOSINE-5'-DIPHOSPHATE" 
_entity.pdbx_number_of_molecules    6 
_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            9AZP 
_cell.length_a            1 
_cell.length_b            1 
_cell.length_c            1 
_cell.Z_PDB               ? 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 9AZP 
_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    decameric 
_pdbx_struct_assembly.oligomeric_count      10 
_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 
_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
? 4 K N N 
? 4 M N N 
? 4 O N N 
? 4 Q N N 
? 4 S N N 
? 4 U 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 C GLU 68 A GLU 72 1_555 A N HIC 69 A HIC 73 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.337 ? 
covale ? covale2 A C HIC 69 A HIC 73 1_555 A N GLY 70 A GLY 74 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? 
covale ? covale3 B C GLU 68 B GLU 72 1_555 B N HIC 69 B HIC 73 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.336 ? 
covale ? covale4 B C HIC 69 B HIC 73 1_555 B N GLY 70 B GLY 74 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? 
covale ? covale5 C C GLU 68 C GLU 72 1_555 C N HIC 69 C HIC 73 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.335 ? 
covale ? covale6 C C HIC 69 C HIC 73 1_555 C N GLY 70 C GLY 74 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? 
covale ? covale7 D C GLU 68 D GLU 72 1_555 D N HIC 69 D HIC 73 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.336 ? 
covale ? covale8 D C HIC 69 D HIC 73 1_555 D N GLY 70 D GLY 74 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? 
covale ? covale9 E C GLU 68 E GLU 72 1_555 E N HIC 69 E HIC 73 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.336 ? 
covale ? covale10 E C HIC 69 E HIC 73 1_555 E N GLY 70 E GLY 74 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? 
covale ? covale11 F C GLU 68 F GLU 72 1_555 F N HIC 69 F HIC 73 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.337 ? 
covale ? covale12 F C HIC 69 F HIC 73 1_555 F N GLY 70 F GLY 74 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? 
covale ? covale13 I C GLU 68 I GLU 72 1_555 I N HIC 69 I HIC 73 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.336 ? 
covale ? covale14 I C HIC 69 I HIC 73 1_555 I N GLY 70 I GLY 74 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? 
metalc ? metalc1 K O1B ADP . A ADP 401 1_555 L MG MG . A MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.077 ? 
metalc ? metalc2 K O3B ADP . A ADP 401 1_555 L MG MG . A MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.581 ? 
metalc ? metalc3 K O1A ADP . A ADP 401 1_555 L MG MG . A MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.127 ? 
metalc ? metalc4 K O3A ADP . A ADP 401 1_555 L MG MG . A MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.457 ? 
metalc ? metalc5 M O1B ADP . B ADP 401 1_555 N MG MG . B MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.448 ? 
metalc ? metalc6 M O3B ADP . B ADP 401 1_555 N MG MG . B MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.199 ? 
metalc ? metalc7 M O1A ADP . B ADP 401 1_555 N MG MG . B MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.143 ? 
metalc ? metalc8 M O3A ADP . B ADP 401 1_555 N MG MG . B MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.371 ? 
metalc ? metalc9 O O1B ADP . C ADP 401 1_555 P MG MG . C MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.244 ? 
metalc ? metalc10 O O3B ADP . C ADP 401 1_555 P MG MG . C MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.11 ? 
metalc ? metalc11 O O3A ADP . C ADP 401 1_555 P MG MG . C MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.925 ? 
metalc ? metalc12 Q O1B ADP . D ADP 401 1_555 R MG MG . D MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.113 ? 
metalc ? metalc13 Q O3B ADP . D ADP 401 1_555 R MG MG . D MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.478 ? 
metalc ? metalc14 Q O1A ADP . D ADP 401 1_555 R MG MG . D MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.092 ? 
metalc ? metalc15 Q O3A ADP . D ADP 401 1_555 R MG MG . D MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.39 ? 
metalc ? metalc16 S O1B ADP . E ADP 401 1_555 T MG MG . E MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.098 ? 
metalc ? metalc17 S O3B ADP . E ADP 401 1_555 T MG MG . E MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.112 ? 
metalc ? metalc18 U O1B ADP . F ADP 401 1_555 V MG MG . F MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.077 ? 
metalc ? metalc19 U O1A ADP . F ADP 401 1_555 V MG MG . F MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.486 ? 
metalc ? metalc20 U O3A ADP . F ADP 401 1_555 V MG MG . F MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.123 ? 
metalc ? metalc21 I OD1 ASP 7 I ASP 11 1_555 X MG MG . I MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.39 ? 
metalc ? metalc22 I OD2 ASP 7 I ASP 11 1_555 X MG MG . I MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.1 ? 
metalc ? metalc23 W O2B ATP . I ATP 1001 1_555 X MG MG . I MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.148 ? 
#
_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                     9AZP 
_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
K 4 ADP A 1 401 401 ADP ADP . 
L 5 MG A 1 402 402 MG MG . 
M 4 ADP B 1 401 401 ADP ADP . 
N 5 MG B 1 402 402 MG MG . 
O 4 ADP C 1 401 401 ADP ADP . 
P 5 MG C 1 402 402 MG MG . 
Q 4 ADP D 1 401 401 ADP ADP . 
R 5 MG D 1 402 402 MG MG . 
S 4 ADP E 1 401 401 ADP ADP . 
T 5 MG E 1 402 402 MG MG . 
U 4 ADP F 1 401 401 ADP ADP . 
V 5 MG F 1 402 402 MG MG . 
W 6 ATP I 1 1001 1001 ATP ATP . 
X 5 MG I 1 1002 1002 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 . . . S 4 167.683 143.7 120.8 1 113.97 ? PB ADP 401 E 1 
HETATM 2 O O1B ADP . . . S 4 168.942 142.878 120.728 1 113.97 ? O1B ADP 401 E 1 
HETATM 3 O O2B ADP . . . S 4 167.573 144.632 121.982 1 113.97 ? O2B ADP 401 E 1 
HETATM 4 O O3B ADP . . . S 4 167.304 144.337 119.487 1 113.97 ? O3B ADP 401 E 1 
HETATM 5 P PA ADP . . . S 4 166.697 141.5 122.226 1 113.97 ? PA ADP 401 E 1 
HETATM 6 O O1A ADP . . . S 4 166.862 140.15 121.579 1 113.97 ? O1A ADP 401 E 1 
HETATM 7 O O2A ADP . . . S 4 167.696 141.992 123.24 1 113.97 ? O2A ADP 401 E 1 
HETATM 8 O O3A ADP . . . S 4 166.537 142.608 121.075 1 113.97 ? O3A ADP 401 E 1 
HETATM 9 O O5' ADP . . . S 4 165.255 141.558 122.928 1 113.97 ? O5' ADP 401 E 1 
HETATM 10 C C5' ADP . . . S 4 165.152 141.261 124.314 1 113.97 ? C5' ADP 401 E 1 
HETATM 11 C C4' ADP . . . S 4 163.732 141.532 124.784 1 113.97 ? C4' ADP 401 E 1 
HETATM 12 O O4' ADP . . . S 4 162.859 140.532 124.265 1 113.97 ? O4' ADP 401 E 1 
HETATM 13 C C3' ADP . . . S 4 163.621 141.464 126.295 1 113.97 ? C3' ADP 401 E 1 
HETATM 14 O O3' ADP . . . S 4 163.542 142.777 126.846 1 113.97 ? O3' ADP 401 E 1 
HETATM 15 C C2' ADP . . . S 4 162.342 140.709 126.574 1 113.97 ? C2' ADP 401 E 1 
HETATM 16 O O2' ADP . . . S 4 161.328 141.637 126.953 1 113.97 ? O2' ADP 401 E 1 
HETATM 17 C C1' ADP . . . S 4 161.953 140.064 125.262 1 113.97 ? C1' ADP 401 E 1 
HETATM 18 N N9 ADP . . . S 4 162.122 138.603 125.399 1 113.97 ? N9 ADP 401 E 1 
HETATM 19 C C8 ADP . . . S 4 163.3 137.968 125.514 1 113.97 ? C8 ADP 401 E 1 
HETATM 20 N N7 ADP . . . S 4 163.126 136.629 125.625 1 113.97 ? N7 ADP 401 E 1 
HETATM 21 C C5 ADP . . . S 4 161.805 136.398 125.584 1 113.97 ? C5 ADP 401 E 1 
HETATM 22 C C6 ADP . . . S 4 160.936 135.207 125.65 1 113.97 ? C6 ADP 401 E 1 
HETATM 23 N N6 ADP . . . S 4 161.464 133.968 125.786 1 113.97 ? N6 ADP 401 E 1 
HETATM 24 N N1 ADP . . . S 4 159.602 135.397 125.57 1 113.97 ? N1 ADP 401 E 1 
HETATM 25 C C2 ADP . . . S 4 159.066 136.623 125.436 1 113.97 ? C2 ADP 401 E 1 
HETATM 26 N N3 ADP . . . S 4 159.797 137.748 125.369 1 113.97 ? N3 ADP 401 E 1 
HETATM 27 C C4 ADP . . . S 4 161.146 137.701 125.438 1 113.97 ? C4 ADP 401 E 1 
#
_model_server_stats.io_time_ms              63 
_model_server_stats.parse_time_ms           54 
_model_server_stats.create_model_time_ms    104 
_model_server_stats.query_time_ms           1093 
_model_server_stats.encode_time_ms          6 
_model_server_stats.element_count           27 
#