data_8J0S
#
_model_server_result.job_id            bDyXp7mH3RfQlnRRtugeuA 
_model_server_result.datetime_utc      '2025-02-16 12:57:01' 
_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          8j0s 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"AA","auth_seq_id":600}' 
#
_entry.id    8J0S 
#
_exptl.entry_id    8J0S 
_exptl.method      'ELECTRON MICROSCOPY' 
#
_entity.details                     ? 
_entity.formula_weight              427.201 
_entity.id                          11 
_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                     ? 
#
_pdbx_struct_assembly.method_details        ? 
_pdbx_struct_assembly.oligomeric_details    eicosameric 
_pdbx_struct_assembly.oligomeric_count      20 
_pdbx_struct_assembly.details               author_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,DA,EA,FA,GA,HA,IA,JA,KA 
_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    ? 
_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
? 11 AA N N 
? 11 CA 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 B OG1 THR 179 A THR 179 1_555 V MG MG . A MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? 
metalc ? metalc2 U O1G ATP . A ATP 600 1_555 V MG MG . A MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.302 ? 
metalc ? metalc3 U O1B ATP . A ATP 600 1_555 V MG MG . A MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.964 ? 
metalc ? metalc4 C OG1 THR 179 B THR 179 1_555 X MG MG . B MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? 
metalc ? metalc5 W O3G ATP . B ATP 600 1_555 X MG MG . B MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.956 ? 
metalc ? metalc6 W O2B ATP . B ATP 600 1_555 X MG MG . B MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.265 ? 
metalc ? metalc7 D OG1 THR 179 C THR 179 1_555 Z MG MG . C MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.998 ? 
metalc ? metalc8 Y O1G ATP . C ATP 600 1_555 Z MG MG . C MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.279 ? 
metalc ? metalc9 Y O2B ATP . C ATP 600 1_555 Z MG MG . C MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.888 ? 
metalc ? metalc10 E OG1 THR 178 D THR 178 1_555 BA MG MG . D MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.021 ? 
metalc ? metalc11 AA O1B ADP . D ADP 600 1_555 BA MG MG . D MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.81 ? 
metalc ? metalc12 G OG1 THR 178 F THR 178 1_555 DA MG MG . F MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.004 ? 
metalc ? metalc13 CA O1B ADP . F ADP 600 1_555 DA MG MG . F MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.745 ? 
metalc ? metalc14 CA O1A ADP . F ADP 600 1_555 DA MG MG . F MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.847 ? 
#
_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                     8J0S 
_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
U 9 ATP A 1 600 600 ATP ATP . 
V 10 MG A 1 601 601 MG MG . 
W 9 ATP B 1 600 600 ATP ATP . 
X 10 MG B 1 601 601 MG MG . 
Y 9 ATP C 1 600 600 ATP ATP . 
Z 10 MG C 1 601 601 MG MG . 
AA 11 ADP D 1 600 600 ADP ADP . 
BA 10 MG D 1 601 601 MG MG . 
CA 11 ADP F 1 600 600 ADP ADP . 
DA 10 MG F 1 601 601 MG MG . 
EA 12 BQ1 1 1 600 600 BQ1 BQ1 . 
FA 12 BQ1 4 1 600 600 BQ1 BQ1 . 
GA 12 BQ1 5 1 600 600 BQ1 BQ1 . 
HA 12 BQ1 6 1 600 600 BQ1 BQ1 . 
IA 12 BQ1 7 1 600 600 BQ1 BQ1 . 
JA 12 BQ1 8 1 600 600 BQ1 BQ1 . 
KA 12 BQ1 9 1 600 600 BQ1 BQ1 . 
#
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 . . . AA 11 163.157 200.02 156.856 1 7.96 ? PB ADP 600 D 1 
HETATM 2 O O1B ADP . . . AA 11 162.604 201.078 155.936 1 7.96 ? O1B ADP 600 D 1 
HETATM 3 O O2B ADP . . . AA 11 163.648 198.788 156.147 1 7.96 ? O2B ADP 600 D 1 
HETATM 4 O O3B ADP . . . AA 11 164.081 200.515 157.928 1 7.96 ? O3B ADP 600 D 1 
HETATM 5 P PA ADP . . . AA 11 161.023 200.363 158.694 1 7.96 ? PA ADP 600 D 1 
HETATM 6 O O1A ADP . . . AA 11 160.051 201.241 157.962 1 7.96 ? O1A ADP 600 D 1 
HETATM 7 O O2A ADP . . . AA 11 161.945 200.969 159.715 1 7.96 ? O2A ADP 600 D 1 
HETATM 8 O O3A ADP . . . AA 11 161.882 199.48 157.664 1 7.96 ? O3A ADP 600 D 1 
HETATM 9 O O5' ADP . . . AA 11 160.192 199.215 159.434 1 7.96 ? O5' ADP 600 D 1 
HETATM 10 C C5' ADP . . . AA 11 160.599 198.817 160.732 1 7.96 ? C5' ADP 600 D 1 
HETATM 11 C C4' ADP . . . AA 11 159.471 198.095 161.44 1 7.96 ? C4' ADP 600 D 1 
HETATM 12 O O4' ADP . . . AA 11 159.738 198.174 162.836 1 7.96 ? O4' ADP 600 D 1 
HETATM 13 C C3' ADP . . . AA 11 158.137 198.768 161.195 1 7.96 ? C3' ADP 600 D 1 
HETATM 14 O O3' ADP . . . AA 11 157.308 197.947 160.376 1 7.96 ? O3' ADP 600 D 1 
HETATM 15 C C2' ADP . . . AA 11 157.514 198.927 162.558 1 7.96 ? C2' ADP 600 D 1 
HETATM 16 O O2' ADP . . . AA 11 156.538 197.906 162.759 1 7.96 ? O2' ADP 600 D 1 
HETATM 17 C C1' ADP . . . AA 11 158.643 198.74 163.546 1 7.96 ? C1' ADP 600 D 1 
HETATM 18 N N9 ADP . . . AA 11 159.048 200.078 164.032 1 7.96 ? N9 ADP 600 D 1 
HETATM 19 C C8 ADP . . . AA 11 159.955 200.874 163.446 1 7.96 ? C8 ADP 600 D 1 
HETATM 20 N N7 ADP . . . AA 11 160.1 202.033 164.126 1 7.96 ? N7 ADP 600 D 1 
HETATM 21 C C5 ADP . . . AA 11 159.265 201.987 165.176 1 7.96 ? C5 ADP 600 D 1 
HETATM 22 C C6 ADP . . . AA 11 158.92 202.881 166.298 1 7.96 ? C6 ADP 600 D 1 
HETATM 23 N N6 ADP . . . AA 11 159.512 204.088 166.434 1 7.96 ? N6 ADP 600 D 1 
HETATM 24 N N1 ADP . . . AA 11 157.996 202.452 167.178 1 7.96 ? N1 ADP 600 D 1 
HETATM 25 C C2 ADP . . . AA 11 157.401 201.255 167.055 1 7.96 ? C2 ADP 600 D 1 
HETATM 26 N N3 ADP . . . AA 11 157.666 200.394 166.064 1 7.96 ? N3 ADP 600 D 1 
HETATM 27 C C4 ADP . . . AA 11 158.573 200.697 165.109 1 7.96 ? C4 ADP 600 D 1 
#
_model_server_stats.io_time_ms              19 
_model_server_stats.parse_time_ms           9 
_model_server_stats.create_model_time_ms    369 
_model_server_stats.query_time_ms           346 
_model_server_stats.encode_time_ms          6 
_model_server_stats.element_count           27 
#