data_9E8G
#
_model_server_result.job_id            7G7d6KCoNig5WzK64D_cmw 
_model_server_result.datetime_utc      '2024-12-28 01:48:04' 
_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          9e8g 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"NA","auth_seq_id":501}' 
#
_entry.id    9E8G 
#
_exptl.entry_id    9E8G 
_exptl.method      'ELECTRON MICROSCOPY' 
#
_entity.details                     ? 
_entity.formula_weight              427.201 
_entity.id                          38 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            "ADENOSINE-5'-DIPHOSPHATE" 
_entity.pdbx_number_of_molecules    3 
_entity.pdbx_parent_entity_id       . 
_entity.pdbx_mutation               ? 
_entity.pdbx_fragment               ? 
_entity.pdbx_ec                     ? 
#
_pdbx_struct_assembly.method_details        ? 
_pdbx_struct_assembly.oligomeric_details    35-meric 
_pdbx_struct_assembly.oligomeric_count      35 
_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,LA,MA,NA,OA,PA,QA,RA,SA,TA,UA 
_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
? 38 NA N N 
? 38 PA N N 
? 38 RA 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 G SG CYS 115 G CYS 115 1_555 G SG CYS 154 G CYS 154 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? 
disulf ? disulf2 H SG CYS 137 H CYS 137 1_555 H SG CYS 213 H CYS 213 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? 
disulf ? disulf3 M SG CYS 42 M CYS 41 1_555 M SG CYS 187 M CYS 186 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? 
disulf ? disulf4 T SG CYS 633 U CYS 633 1_555 T SG CYS 659 U CYS 659 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? 
metalc ? metalc1 A OG1 THR 223 A THR 223 1_555 KA MG MG . A MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.02 ? 
metalc ? metalc2 JA O2G ATP . A ATP 501 1_555 KA MG MG . A MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.392 ? 
metalc ? metalc3 B OG1 THR 233 B THR 233 1_555 MA MG MG . B MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.848 ? 
metalc ? metalc4 LA O2G ATP . B ATP 501 1_555 MA MG MG . B MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.175 ? 
metalc ? metalc5 LA O2B ATP . B ATP 501 1_555 MA MG MG . B MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.118 ? 
metalc ? metalc6 C OG1 THR 197 C THR 197 1_555 OA MG MG . C MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.299 ? 
metalc ? metalc7 NA O2B ADP . C ADP 501 1_555 OA MG MG . C MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.079 ? 
metalc ? metalc8 D OG1 THR 213 D THR 213 1_555 QA MG MG . D MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.794 ? 
metalc ? metalc9 F OG1 THR 234 F THR 234 1_555 TA MG MG . F MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.944 ? 
metalc ? metalc10 F OD1 ASP 286 F ASP 286 1_555 TA MG MG . F MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.806 ? 
metalc ? metalc11 SA O3G ATP . F ATP 501 1_555 TA MG MG . F MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.269 ? 
metalc ? metalc12 BA NE2 HIS 113 c HIS 113 1_555 UA ZN ZN . u ZN 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.902 ? 
metalc ? metalc13 BA NE2 HIS 115 c HIS 115 1_555 UA ZN ZN . u ZN 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.297 ? 
metalc ? metalc14 BA OD1 ASP 126 c ASP 126 1_555 UA ZN ZN . u ZN 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.319 ? 
metalc ? metalc15 BA OD2 ASP 126 c ASP 126 1_555 UA ZN ZN . u ZN 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.988 ? 
metalc ? metalc16 HA ND1 HIS 289 u HIS 289 1_555 UA ZN ZN . u ZN 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.509 ? 
metalc ? metalc17 HA NE2 HIS 289 u HIS 289 1_555 UA ZN ZN . u ZN 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.297 ? 
#
_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                     9E8G 
_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
JA 36 ATP A 1 501 501 ATP ATP . 
KA 37 MG A 1 502 502 MG MG . 
LA 36 ATP B 1 501 501 ATP ATP . 
MA 37 MG B 1 502 502 MG MG . 
NA 38 ADP C 1 501 501 ADP ADP . 
OA 37 MG C 1 502 502 MG MG . 
PA 38 ADP D 1 501 501 ADP ADP . 
QA 37 MG D 1 502 502 MG MG . 
RA 38 ADP E 1 501 501 ADP ADP . 
SA 36 ATP F 1 501 501 ATP ATP . 
TA 37 MG F 1 502 502 MG MG . 
UA 39 ZN u 1 301 311 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 . . . NA 38 167.073 179.092 200.24 1 77.7 ? PB ADP 501 C 1 
HETATM 2 O O1B ADP . . . NA 38 167.429 179.622 201.608 1 81.06 ? O1B ADP 501 C 1 
HETATM 3 O O2B ADP . . . NA 38 168.015 179.52 199.142 1 72.46 ? O2B ADP 501 C 1 
HETATM 4 O O3B ADP . . . NA 38 166.709 177.629 200.218 1 77.42 ? O3B ADP 501 C 1 
HETATM 5 P PA ADP . . . NA 38 165.64 181.432 199.755 1 87.12 ? PA ADP 501 C 1 
HETATM 6 O O1A ADP . . . NA 38 165.64 182.019 201.145 1 80.55 ? O1A ADP 501 C 1 
HETATM 7 O O2A ADP . . . NA 38 166.68 181.875 198.755 1 80.89 ? O2A ADP 501 C 1 
HETATM 8 O O3A ADP . . . NA 38 165.695 179.833 199.883 1 73.56 ? O3A ADP 501 C 1 
HETATM 9 O O5' ADP . . . NA 38 164.188 181.676 199.114 1 85.7 ? O5' ADP 501 C 1 
HETATM 10 C C5' ADP . . . NA 38 163.171 180.695 199.271 1 78 ? C5' ADP 501 C 1 
HETATM 11 C C4' ADP . . . NA 38 161.812 181.375 199.298 1 69.46 ? C4' ADP 501 C 1 
HETATM 12 O O4' ADP . . . NA 38 160.901 180.576 200.049 1 65.73 ? O4' ADP 501 C 1 
HETATM 13 C C3' ADP . . . NA 38 161.913 182.724 199.976 1 69.86 ? C3' ADP 501 C 1 
HETATM 14 O O3' ADP . . . NA 38 161.521 183.757 199.068 1 72.8 ? O3' ADP 501 C 1 
HETATM 15 C C2' ADP . . . NA 38 160.954 182.677 201.142 1 71.56 ? C2' ADP 501 C 1 
HETATM 16 O O2' ADP . . . NA 38 160.016 183.754 201.05 1 80.25 ? O2' ADP 501 C 1 
HETATM 17 C C1' ADP . . . NA 38 160.235 181.345 201.046 1 67.33 ? C1' ADP 501 C 1 
HETATM 18 N N9 ADP . . . NA 38 160.325 180.648 202.348 1 67.25 ? N9 ADP 501 C 1 
HETATM 19 C C8 ADP . . . NA 38 160.898 179.45 202.555 1 73.15 ? C8 ADP 501 C 1 
HETATM 20 N N7 ADP . . . NA 38 160.808 179.084 203.858 1 72.91 ? N7 ADP 501 C 1 
HETATM 21 C C5 ADP . . . NA 38 160.16 180.066 204.506 1 64.27 ? C5 ADP 501 C 1 
HETATM 22 C C6 ADP . . . NA 38 159.729 180.314 205.898 1 68.46 ? C6 ADP 501 C 1 
HETATM 23 N N6 ADP . . . NA 38 159.985 179.419 206.884 1 71.87 ? N6 ADP 501 C 1 
HETATM 24 N N1 ADP . . . NA 38 159.077 181.465 206.156 1 73.73 ? N1 ADP 501 C 1 
HETATM 25 C C2 ADP . . . NA 38 158.818 182.361 205.187 1 72.12 ? C2 ADP 501 C 1 
HETATM 26 N N3 ADP . . . NA 38 159.18 182.197 203.903 1 65.92 ? N3 ADP 501 C 1 
HETATM 27 C C4 ADP . . . NA 38 159.84 181.089 203.507 1 62.73 ? C4 ADP 501 C 1 
#
_model_server_stats.io_time_ms              42 
_model_server_stats.parse_time_ms           15 
_model_server_stats.create_model_time_ms    174 
_model_server_stats.query_time_ms           341 
_model_server_stats.encode_time_ms          6 
_model_server_stats.element_count           27 
#