data_6D00
#
_model_server_result.job_id            PfSphLt3qUXGtyySoZqAlQ 
_model_server_result.datetime_utc      '2024-11-15 10:03:43' 
_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          6d00 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"G","auth_seq_id":901}' 
#
_entry.id    6D00 
#
_exptl.entry_id    6D00 
_exptl.method      'ELECTRON MICROSCOPY' 
#
_entity.details                     ? 
_entity.formula_weight              427.201 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            "ADENOSINE-5'-DIPHOSPHATE" 
_entity.pdbx_number_of_molecules    12 
_entity.pdbx_parent_entity_id       . 
_entity.pdbx_mutation               ? 
_entity.pdbx_fragment               ? 
_entity.pdbx_ec                     ? 
#
_pdbx_struct_assembly.method_details        ? 
_pdbx_struct_assembly.oligomeric_details    hexameric 
_pdbx_struct_assembly.oligomeric_count      6 
_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 
_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
? 2 G N N 
? 2 H N N 
? 2 I N N 
? 2 J N N 
? 2 K N N 
? 2 L N N 
? 2 M N N 
? 2 N N N 
? 2 O N N 
? 2 P N N 
? 2 Q N N 
? 2 R N N 
#
_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                     6D00 
_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
G 2 ADP 1 1 901 1 ADP ADP . 
H 2 ADP 1 1 902 2 ADP ADP . 
I 2 ADP 2 1 901 1 ADP ADP . 
J 2 ADP 2 1 902 2 ADP ADP . 
K 2 ADP 3 1 901 1 ADP ADP . 
L 2 ADP 3 1 902 2 ADP ADP . 
M 2 ADP 4 1 901 1 ADP ADP . 
N 2 ADP 4 1 902 2 ADP ADP . 
O 2 ADP 5 1 901 1 ADP ADP . 
P 2 ADP 5 1 902 2 ADP ADP . 
Q 2 ADP 6 1 901 1 ADP ADP . 
R 2 ADP 6 1 902 2 ADP ADP . 
#
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 . . . G 2 109.77 98.829 154.649 1 0.64 ? PB ADP 901 1 1 
HETATM 2 O O1B ADP . . . G 2 108.752 98.762 153.536 1 1.09 ? O1B ADP 901 1 1 
HETATM 3 O O2B ADP . . . G 2 110.225 97.483 155.16 1 1.2 ? O2B ADP 901 1 1 
HETATM 4 O O3B ADP . . . G 2 110.892 99.81 154.404 1 0.94 ? O3B ADP 901 1 1 
HETATM 5 P PA ADP . . . G 2 107.871 98.648 156.743 1 1.06 ? PA ADP 901 1 1 
HETATM 6 O O1A ADP . . . G 2 108.558 97.51 157.459 1 1.24 ? O1A ADP 901 1 1 
HETATM 7 O O2A ADP . . . G 2 107.079 99.65 157.549 1 1.59 ? O2A ADP 901 1 1 
HETATM 8 O O3A ADP . . . G 2 108.962 99.472 155.886 1 1.14 ? O3A ADP 901 1 1 
HETATM 9 O O5' ADP . . . G 2 106.876 98.018 155.643 1 1.05 ? O5' ADP 901 1 1 
HETATM 10 C C5' ADP . . . G 2 107.02 96.665 155.214 1 1.1 ? C5' ADP 901 1 1 
HETATM 11 C C4' ADP . . . G 2 106.041 96.383 154.081 1 1.04 ? C4' ADP 901 1 1 
HETATM 12 O O4' ADP . . . G 2 106.158 95.026 153.646 1 1.19 ? O4' ADP 901 1 1 
HETATM 13 C C3' ADP . . . G 2 104.597 96.587 154.514 1 1.19 ? C3' ADP 901 1 1 
HETATM 14 O O3' ADP . . . G 2 104.073 97.782 153.93 1 1.73 ? O3' ADP 901 1 1 
HETATM 15 C C2' ADP . . . G 2 103.838 95.379 154.001 1 0.88 ? C2' ADP 901 1 1 
HETATM 16 O O2' ADP . . . G 2 102.83 95.789 153.073 1 1.25 ? O2' ADP 901 1 1 
HETATM 17 C C1' ADP . . . G 2 104.871 94.508 153.302 1 0.97 ? C1' ADP 901 1 1 
HETATM 18 N N9 ADP . . . G 2 104.737 93.1 153.754 1 1.01 ? N9 ADP 901 1 1 
HETATM 19 C C8 ADP . . . G 2 105.189 92.601 154.919 1 1.2 ? C8 ADP 901 1 1 
HETATM 20 N N7 ADP . . . G 2 104.905 91.278 155.029 1 1.41 ? N7 ADP 901 1 1 
HETATM 21 C C5 ADP . . . G 2 104.253 90.911 153.91 1 1.38 ? C5 ADP 901 1 1 
HETATM 22 C C6 ADP . . . G 2 103.667 89.658 153.377 1 1.69 ? C6 ADP 901 1 1 
HETATM 23 N N6 ADP . . . G 2 103.722 88.503 154.083 1 1.98 ? N6 ADP 901 1 1 
HETATM 24 N N1 ADP . . . G 2 103.074 89.708 152.163 1 1.89 ? N1 ADP 901 1 1 
HETATM 25 C C2 ADP . . . G 2 103.012 90.849 151.452 1 1.81 ? C2 ADP 901 1 1 
HETATM 26 N N3 ADP . . . G 2 103.523 92.02 151.874 1 1.44 ? N3 ADP 901 1 1 
HETATM 27 C C4 ADP . . . G 2 104.144 92.116 153.074 1 1.2 ? C4 ADP 901 1 1 
#
_model_server_stats.io_time_ms              19 
_model_server_stats.parse_time_ms           9 
_model_server_stats.create_model_time_ms    34 
_model_server_stats.query_time_ms           283 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           27 
#