data_8SEP
#
_model_server_result.job_id            d76UQ9A1zLzdxGlBgmUkyg 
_model_server_result.datetime_utc      '2024-11-23 02:58:41' 
_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          8sep 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"I","auth_seq_id":5101}' 
#
_entry.id    8SEP 
#
_exptl.entry_id    8SEP 
_exptl.method      'ELECTRON MICROSCOPY' 
#
_entity.details                     ? 
_entity.formula_weight              427.201 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            "ADENOSINE-5'-DIPHOSPHATE" 
_entity.pdbx_number_of_molecules    4 
_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            8SEP 
_cell.length_a            1 
_cell.length_b            1 
_cell.length_c            1 
_cell.Z_PDB               ? 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 8SEP 
_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    octameric 
_pdbx_struct_assembly.oligomeric_count      8 
_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 
_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
? 3 I N N 
? 3 K N N 
? 3 M N N 
? 3 O 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
disulf ? disulf1 A SG CYS 230 A CYS 230 1_555 A SG CYS 253 A CYS 253 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? 
disulf ? disulf2 A SG CYS 3170 A CYS 3170 1_555 A SG CYS 3240 A CYS 3240 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.026 ? 
disulf ? disulf3 A SG CYS 4876 A CYS 4876 1_555 A SG CYS 4882 A CYS 4882 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? 
disulf ? disulf4 B SG CYS 230 B CYS 230 1_555 B SG CYS 253 B CYS 253 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? 
disulf ? disulf5 B SG CYS 3170 B CYS 3170 1_555 B SG CYS 3240 B CYS 3240 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.026 ? 
disulf ? disulf6 B SG CYS 4876 B CYS 4876 1_555 B SG CYS 4882 B CYS 4882 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? 
disulf ? disulf7 C SG CYS 230 C CYS 230 1_555 C SG CYS 253 C CYS 253 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? 
disulf ? disulf8 C SG CYS 3170 C CYS 3170 1_555 C SG CYS 3240 C CYS 3240 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.026 ? 
disulf ? disulf9 C SG CYS 4876 C CYS 4876 1_555 C SG CYS 4882 C CYS 4882 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? 
disulf ? disulf10 D SG CYS 230 D CYS 230 1_555 D SG CYS 253 D CYS 253 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? 
disulf ? disulf11 D SG CYS 3170 D CYS 3170 1_555 D SG CYS 3240 D CYS 3240 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.026 ? 
disulf ? disulf12 D SG CYS 4876 D CYS 4876 1_555 D SG CYS 4882 D CYS 4882 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? 
metalc ? metalc1 A SG CYS 4958 A CYS 4958 1_555 J ZN ZN . A ZN 5102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.29 ? 
metalc ? metalc2 A SG CYS 4961 A CYS 4961 1_555 J ZN ZN . A ZN 5102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.288 ? 
metalc ? metalc3 A NE2 HIS 4978 A HIS 4978 1_555 J ZN ZN . A ZN 5102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.026 ? 
metalc ? metalc4 A ND1 HIS 4983 A HIS 4983 1_555 J ZN ZN . A ZN 5102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.007 ? 
metalc ? metalc5 B SG CYS 4958 B CYS 4958 1_555 L ZN ZN . B ZN 5102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.29 ? 
metalc ? metalc6 B SG CYS 4961 B CYS 4961 1_555 L ZN ZN . B ZN 5102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.288 ? 
metalc ? metalc7 B NE2 HIS 4978 B HIS 4978 1_555 L ZN ZN . B ZN 5102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.026 ? 
metalc ? metalc8 B ND1 HIS 4983 B HIS 4983 1_555 L ZN ZN . B ZN 5102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.007 ? 
metalc ? metalc9 C SG CYS 4958 C CYS 4958 1_555 N ZN ZN . C ZN 5102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.29 ? 
metalc ? metalc10 C SG CYS 4961 C CYS 4961 1_555 N ZN ZN . C ZN 5102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.288 ? 
metalc ? metalc11 C NE2 HIS 4978 C HIS 4978 1_555 N ZN ZN . C ZN 5102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.026 ? 
metalc ? metalc12 C ND1 HIS 4983 C HIS 4983 1_555 N ZN ZN . C ZN 5102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.007 ? 
metalc ? metalc13 D SG CYS 4958 D CYS 4958 1_555 P ZN ZN . D ZN 5102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.29 ? 
metalc ? metalc14 D SG CYS 4961 D CYS 4961 1_555 P ZN ZN . D ZN 5102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.288 ? 
metalc ? metalc15 D NE2 HIS 4978 D HIS 4978 1_555 P ZN ZN . D ZN 5102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.026 ? 
metalc ? metalc16 D ND1 HIS 4983 D HIS 4983 1_555 P ZN ZN . D ZN 5102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.007 ? 
#
_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                     8SEP 
_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
I 3 ADP A 1 5101 5101 ADP ADP . 
J 4 ZN A 1 5102 5103 ZN ZN . 
K 3 ADP B 1 5101 5101 ADP ADP . 
L 4 ZN B 1 5102 5103 ZN ZN . 
M 3 ADP C 1 5101 5101 ADP ADP . 
N 4 ZN C 1 5102 5103 ZN ZN . 
O 3 ADP D 1 5101 5101 ADP ADP . 
P 4 ZN D 1 5102 5103 ZN ZN . 
#
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 . . . I 3 235.572 265.521 221.134 1 149.4 ? PB ADP 5101 A 1 
HETATM 2 O O1B ADP . . . I 3 234.567 266.452 220.502 1 148.15 ? O1B ADP 5101 A 1 
HETATM 3 O O2B ADP . . . I 3 236.998 265.822 220.754 1 148.55 ? O2B ADP 5101 A 1 
HETATM 4 O O3B ADP . . . I 3 235.213 264.061 221.027 1 148.61 ? O3B ADP 5101 A 1 
HETATM 5 P PA ADP . . . I 3 235.813 264.815 223.888 1 150.97 ? PA ADP 5101 A 1 
HETATM 6 O O1A ADP . . . I 3 234.772 263.725 223.861 1 149.24 ? O1A ADP 5101 A 1 
HETATM 7 O O2A ADP . . . I 3 236.036 265.612 225.15 1 148.63 ? O2A ADP 5101 A 1 
HETATM 8 O O3A ADP . . . I 3 235.451 265.855 222.708 1 149.51 ? O3A ADP 5101 A 1 
HETATM 9 O O5' ADP . . . I 3 237.232 264.185 223.474 1 149.41 ? O5' ADP 5101 A 1 
HETATM 10 C C5' ADP . . . I 3 238.4 264.995 223.551 1 148.72 ? C5' ADP 5101 A 1 
HETATM 11 C C4' ADP . . . I 3 239.351 264.485 224.624 1 148.31 ? C4' ADP 5101 A 1 
HETATM 12 O O4' ADP . . . I 3 239.893 265.621 225.294 1 148.29 ? O4' ADP 5101 A 1 
HETATM 13 C C3' ADP . . . I 3 238.765 263.612 225.721 1 148.3 ? C3' ADP 5101 A 1 
HETATM 14 O O3' ADP . . . I 3 239.239 262.274 225.582 1 148.49 ? O3' ADP 5101 A 1 
HETATM 15 C C2' ADP . . . I 3 239.292 264.211 227.006 1 148.21 ? C2' ADP 5101 A 1 
HETATM 16 O O2' ADP . . . I 3 239.853 263.192 227.834 1 149.02 ? O2' ADP 5101 A 1 
HETATM 17 C C1' ADP . . . I 3 240.383 265.155 226.539 1 148.19 ? C1' ADP 5101 A 1 
HETATM 18 N N9 ADP . . . I 3 240.56 266.262 227.501 1 147.78 ? N9 ADP 5101 A 1 
HETATM 19 C C8 ADP . . . I 3 241.661 266.505 228.229 1 147.82 ? C8 ADP 5101 A 1 
HETATM 20 N N7 ADP . . . I 3 241.5 267.6 229.009 1 147.01 ? N7 ADP 5101 A 1 
HETATM 21 C C5 ADP . . . I 3 240.269 268.074 228.772 1 147.04 ? C5 ADP 5101 A 1 
HETATM 22 C C6 ADP . . . I 3 239.46 269.205 229.256 1 146.83 ? C6 ADP 5101 A 1 
HETATM 23 N N6 ADP . . . I 3 239.957 270.061 230.173 1 146.74 ? N6 ADP 5101 A 1 
HETATM 24 N N1 ADP . . . I 3 238.218 269.357 228.759 1 147.19 ? N1 ADP 5101 A 1 
HETATM 25 C C2 ADP . . . I 3 237.717 268.507 227.847 1 147.62 ? C2 ADP 5101 A 1 
HETATM 26 N N3 ADP . . . I 3 238.395 267.459 227.36 1 147.25 ? N3 ADP 5101 A 1 
HETATM 27 C C4 ADP . . . I 3 239.653 267.196 227.775 1 147.28 ? C4 ADP 5101 A 1 
#
_model_server_stats.io_time_ms              170 
_model_server_stats.parse_time_ms           29 
_model_server_stats.create_model_time_ms    503 
_model_server_stats.query_time_ms           274 
_model_server_stats.encode_time_ms          9 
_model_server_stats.element_count           27 
#