data_8IBB
#
_model_server_result.job_id            4TiqHeYFE5jd3NdhwXyJrg 
_model_server_result.datetime_utc      '2024-12-22 08:55:10' 
_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          8ibb 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"KA","auth_seq_id":402}' 
#
_entry.id    8IBB 
#
_exptl.entry_id    8IBB 
_exptl.method      'ELECTRON MICROSCOPY' 
#
_entity.details                     ? 
_entity.formula_weight              427.201 
_entity.id                          28 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            "ADENOSINE-5'-DIPHOSPHATE" 
_entity.pdbx_number_of_molecules    1 
_entity.pdbx_parent_entity_id       . 
_entity.pdbx_mutation               ? 
_entity.pdbx_fragment               ? 
_entity.pdbx_ec                     ? 
#
_pdbx_struct_assembly.method_details        ? 
_pdbx_struct_assembly.oligomeric_details    24-meric 
_pdbx_struct_assembly.oligomeric_count      24 
_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 
_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 
#
_struct_asym.details                        ? 
_struct_asym.entity_id                      28 
_struct_asym.id                             KA 
_struct_asym.pdbx_modified                  N 
_struct_asym.pdbx_blank_PDB_chainid_flag    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 J SG CYS 20 Y CYS 20 1_555 J SG CYS 77 Y CYS 77 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.021 ? 
disulf ? disulf2 J SG CYS 97 Y CYS 97 1_555 J SG CYS 117 Y CYS 117 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.359 ? 
disulf ? disulf3 M SG CYS 33 e CYS 33 1_555 M SG CYS 66 e CYS 66 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.043 ? 
disulf ? disulf4 M SG CYS 43 e CYS 43 1_555 M SG CYS 56 e CYS 56 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.048 ? 
disulf ? disulf5 W SG CYS 59 o CYS 59 1_555 W SG CYS 90 o CYS 90 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? 
disulf ? disulf6 W SG CYS 69 o CYS 69 1_555 W SG CYS 80 o CYS 80 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.361 ? 
disulf ? disulf7 X SG CYS 77 p CYS 77 1_555 X SG CYS 84 p CYS 84 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.052 ? 
disulf ? disulf8 X SG CYS 113 p CYS 113 1_555 X SG CYS 125 p CYS 125 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? 
#
_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 133 n n 
PB O2B ADP sing 134 n n 
PB O3B ADP sing 135 n n 
PB O3A ADP sing 136 n n 
O2B HOB2 ADP sing 137 n n 
O3B HOB3 ADP sing 138 n n 
PA O1A ADP doub 139 n n 
PA O2A ADP sing 140 n n 
PA O3A ADP sing 141 n n 
PA O5' ADP sing 142 n n 
O2A HOA2 ADP sing 143 n n 
O5' C5' ADP sing 144 n n 
C5' C4' ADP sing 145 n n 
C5' "H5'1" ADP sing 146 n n 
C5' "H5'2" ADP sing 147 n n 
C4' O4' ADP sing 148 n n 
C4' C3' ADP sing 149 n n 
C4' H4' ADP sing 150 n n 
O4' C1' ADP sing 151 n n 
C3' O3' ADP sing 152 n n 
C3' C2' ADP sing 153 n n 
C3' H3' ADP sing 154 n n 
O3' HO3' ADP sing 155 n n 
C2' O2' ADP sing 156 n n 
C2' C1' ADP sing 157 n n 
C2' H2' ADP sing 158 n n 
O2' HO2' ADP sing 159 n n 
C1' N9 ADP sing 160 n n 
C1' H1' ADP sing 161 n n 
N9 C8 ADP sing 162 n y 
N9 C4 ADP sing 163 n y 
C8 N7 ADP doub 164 n y 
C8 H8 ADP sing 165 n n 
N7 C5 ADP sing 166 n y 
C5 C6 ADP sing 167 n y 
C5 C4 ADP doub 168 n y 
C6 N6 ADP sing 169 n n 
C6 N1 ADP doub 170 n y 
N6 HN61 ADP sing 171 n n 
N6 HN62 ADP sing 172 n n 
N1 C2 ADP sing 173 n y 
C2 N3 ADP doub 174 n y 
C2 H2 ADP sing 175 n n 
N3 C4 ADP sing 176 n y 
#
_atom_sites.entry_id                     8IBB 
_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
Y 25 3PE D 1 501 501 3PE 3PE . 
Z 25 3PE K 1 101 202 3PE 3PE . 
AA 25 3PE L 1 701 701 3PE 3PE . 
BA 25 3PE L 1 702 702 3PE 3PE . 
CA 25 3PE L 1 703 703 3PE 3PE . 
DA 26 CDL L 1 704 704 CDL CDL . 
EA 26 CDL L 1 705 706 CDL CDL . 
FA 27 PC1 L 1 706 709 PC1 PC1 . 
GA 25 3PE M 1 501 502 3PE 3PE . 
HA 25 3PE M 1 502 503 3PE 3PE . 
IA 25 3PE M 1 503 504 3PE 3PE . 
JA 25 3PE O 1 401 505 3PE 3PE . 
KA 28 ADP O 1 402 401 ADP ADP . 
LA 26 CDL d 1 201 507 CDL CDL . 
MA 26 CDL h 1 201 705 CDL CDL . 
NA 25 3PE i 1 201 699 3PE 3PE . 
OA 25 3PE j 1 700 700 3PE 3PE . 
PA 25 3PE m 1 201 506 3PE 3PE . 
QA 25 3PE m 1 202 201 3PE 3PE . 
RA 29 EHZ n 1 201 201 EHZ EHZ . 
#
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 . . . KA 28 232.491 260.328 218.883 1 51.98 0 PB ADP 402 O 1 
HETATM 2 O O1B ADP . . . KA 28 232.101 261.283 217.783 1 51.98 -1 O1B ADP 402 O 1 
HETATM 3 O O2B ADP . . . KA 28 232.267 260.855 220.278 1 51.98 0 O2B ADP 402 O 1 
HETATM 4 O O3B ADP . . . KA 28 233.82 259.647 218.675 1 51.98 0 O3B ADP 402 O 1 
HETATM 5 P PA ADP . . . KA 28 231.31 258.275 217.409 1 51.98 0 PA ADP 402 O 1 
HETATM 6 O O1A ADP . . . KA 28 231.313 259.223 216.237 1 51.98 0 O1A ADP 402 O 1 
HETATM 7 O O2A ADP . . . KA 28 232.326 257.162 217.48 1 51.98 -1 O2A ADP 402 O 1 
HETATM 8 O O3A ADP . . . KA 28 231.419 259.14 218.759 1 51.98 0 O3A ADP 402 O 1 
HETATM 9 O O5' ADP . . . KA 28 229.842 257.633 217.543 1 51.98 0 O5' ADP 402 O 1 
HETATM 10 C C5' ADP . . . KA 28 228.761 258.459 217.959 1 51.98 0 C5' ADP 402 O 1 
HETATM 11 C C4' ADP . . . KA 28 227.558 257.602 218.324 1 51.98 0 C4' ADP 402 O 1 
HETATM 12 O O4' ADP . . . KA 28 226.966 257 217.171 1 51.98 0 O4' ADP 402 O 1 
HETATM 13 C C3' ADP . . . KA 28 227.939 256.461 219.25 1 51.98 0 C3' ADP 402 O 1 
HETATM 14 O O3' ADP . . . KA 28 227.516 256.747 220.582 1 51.98 0 O3' ADP 402 O 1 
HETATM 15 C C2' ADP . . . KA 28 227.231 255.243 218.702 1 51.98 0 C2' ADP 402 O 1 
HETATM 16 O O2' ADP . . . KA 28 226.407 254.599 219.667 1 51.98 0 O2' ADP 402 O 1 
HETATM 17 C C1' ADP . . . KA 28 226.36 255.775 217.588 1 51.98 0 C1' ADP 402 O 1 
HETATM 18 N N9 ADP . . . KA 28 226.296 254.76 216.515 1 51.98 0 N9 ADP 402 O 1 
HETATM 19 C C8 ADP . . . KA 28 227.144 254.621 215.482 1 51.98 0 C8 ADP 402 O 1 
HETATM 20 N N7 ADP . . . KA 28 226.777 253.577 214.697 1 51.98 0 N7 ADP 402 O 1 
HETATM 21 C C5 ADP . . . KA 28 225.676 253.032 215.244 1 51.98 0 C5 ADP 402 O 1 
HETATM 22 C C6 ADP . . . KA 28 224.775 251.906 214.927 1 51.98 0 C6 ADP 402 O 1 
HETATM 23 N N6 ADP . . . KA 28 224.998 251.146 213.833 1 51.98 0 N6 ADP 402 O 1 
HETATM 24 N N1 ADP . . . KA 28 223.729 251.676 215.75 1 51.98 0 N1 ADP 402 O 1 
HETATM 25 C C2 ADP . . . KA 28 223.505 252.439 216.835 1 51.98 0 C2 ADP 402 O 1 
HETATM 26 N N3 ADP . . . KA 28 224.283 253.476 217.185 1 51.98 0 N3 ADP 402 O 1 
HETATM 27 C C4 ADP . . . KA 28 225.362 253.816 216.441 1 51.98 0 C4 ADP 402 O 1 
#
_model_server_stats.io_time_ms              19 
_model_server_stats.parse_time_ms           21 
_model_server_stats.create_model_time_ms    51 
_model_server_stats.query_time_ms           345 
_model_server_stats.encode_time_ms          7 
_model_server_stats.element_count           27 
#