data_4P69
#
_model_server_result.job_id            1RB3irwiDL7x5YUoCHvXZA 
_model_server_result.datetime_utc      '2024-11-04 22:47:18' 
_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          4p69 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"G","auth_seq_id":601}' 
#
_entry.id    4P69 
#
_exptl.entry_id    4P69 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              427.201 
_entity.id                          4 
_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                     ? 
#
_cell.angle_alpha         90 
_cell.angle_beta          90 
_cell.angle_gamma         120 
_cell.entry_id            4P69 
_cell.length_a            198.16 
_cell.length_b            198.16 
_cell.length_c            156.071 
_cell.Z_PDB               12 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 4P69 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        173 
_symmetry.space_group_name_Hall    . 
_symmetry.space_group_name_H-M     'P 63' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    tetrameric 
_pdbx_struct_assembly.oligomeric_count      4 
_pdbx_struct_assembly.details               author_and_software_defined_assembly 
_pdbx_struct_assembly.id                    1 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
B,C,D,G,H,J,K,L 1 1 
A,E,F,I 1 2 
#
loop_
_pdbx_struct_oper_list.id
_pdbx_struct_oper_list.type
_pdbx_struct_oper_list.name
_pdbx_struct_oper_list.symmetry_operation
_pdbx_struct_oper_list.matrix[1][1]
_pdbx_struct_oper_list.matrix[1][2]
_pdbx_struct_oper_list.matrix[1][3]
_pdbx_struct_oper_list.matrix[2][1]
_pdbx_struct_oper_list.matrix[2][2]
_pdbx_struct_oper_list.matrix[2][3]
_pdbx_struct_oper_list.matrix[3][1]
_pdbx_struct_oper_list.matrix[3][2]
_pdbx_struct_oper_list.matrix[3][3]
_pdbx_struct_oper_list.vector[1]
_pdbx_struct_oper_list.vector[2]
_pdbx_struct_oper_list.vector[3]
1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 
2 'crystal symmetry operation' 2_555 -y,x-y,z -0.5 -0.866025 0 0.866025 -0.5 0 0 0 1 0 0 0 
#
loop_
_struct_asym.details
_struct_asym.entity_id
_struct_asym.id
_struct_asym.pdbx_modified
_struct_asym.pdbx_blank_PDB_chainid_flag
? 4 F N N 
? 4 G 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                     4P69 
_atom_sites.fract_transf_matrix[1][1]    0.005046 
_atom_sites.fract_transf_matrix[1][2]    0.002914 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.005827 
_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]    0.006407 
_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
E 3 AMP A 1 601 1604 AMP AMP . 
F 4 ADP A 1 602 1 ADP ADP . 
G 4 ADP B 1 601 1761 ADP ADP . 
H 3 AMP B 1 602 1604 AMP AMP . 
I 5 HOH A 1 701 580 HOH HOH . 
I 5 HOH A 2 702 581 HOH HOH . 
I 5 HOH A 3 703 582 HOH HOH . 
J 5 HOH B 1 701 580 HOH HOH . 
J 5 HOH B 2 702 582 HOH HOH . 
J 5 HOH B 3 703 583 HOH HOH . 
J 5 HOH B 4 704 584 HOH HOH . 
K 5 HOH C 1 501 581 HOH HOH . 
K 5 HOH C 2 502 417 HOH HOH . 
K 5 HOH C 3 503 418 HOH HOH . 
K 5 HOH C 4 504 419 HOH HOH . 
K 5 HOH C 5 505 420 HOH HOH . 
K 5 HOH C 6 506 421 HOH HOH . 
K 5 HOH C 7 507 424 HOH HOH . 
L 5 HOH D 1 501 417 HOH HOH . 
L 5 HOH D 2 502 418 HOH HOH . 
L 5 HOH D 3 503 419 HOH HOH . 
L 5 HOH D 4 504 420 HOH HOH . 
L 5 HOH D 5 505 421 HOH HOH . 
L 5 HOH D 6 506 422 HOH HOH . 
L 5 HOH D 7 507 423 HOH HOH . 
#
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 4 -67.229 -10.784 -19.407 1 93.11 ? PB ADP 601 B 1 
HETATM 2 O O1B ADP . . . G 4 -67.559 -11.956 -20.375 1 67.91 ? O1B ADP 601 B 1 
HETATM 3 O O2B ADP . . . G 4 -66.585 -11.505 -18.252 1 86.41 ? O2B ADP 601 B 1 
HETATM 4 O O3B ADP . . . G 4 -68.218 -9.697 -19.001 1 72.08 ? O3B ADP 601 B 1 
HETATM 5 P PA ADP . . . G 4 -64.978 -8.772 -19.383 1 75.35 ? PA ADP 601 B 1 
HETATM 6 O O1A ADP . . . G 4 -64.093 -8.776 -20.596 1 65.63 ? O1A ADP 601 B 1 
HETATM 7 O O2A ADP . . . G 4 -64.41 -9.563 -18.252 1 77.03 ? O2A ADP 601 B 1 
HETATM 8 O O3A ADP . . . G 4 -66.293 -9.558 -19.996 1 79.89 ? O3A ADP 601 B 1 
HETATM 9 O O5' ADP . . . G 4 -65.157 -7.221 -18.824 1 63.5 ? O5' ADP 601 B 1 
HETATM 10 C C5' ADP . . . G 4 -66.224 -6.633 -18.041 1 64.07 ? C5' ADP 601 B 1 
HETATM 11 C C4' ADP . . . G 4 -66.239 -6.867 -16.5 1 69.51 ? C4' ADP 601 B 1 
HETATM 12 O O4' ADP . . . G 4 -65.409 -5.985 -15.711 1 67.31 ? O4' ADP 601 B 1 
HETATM 13 C C3' ADP . . . G 4 -67.649 -6.692 -15.891 1 70.53 ? C3' ADP 601 B 1 
HETATM 14 O O3' ADP . . . G 4 -68.275 -7.917 -15.498 1 71.66 ? O3' ADP 601 B 1 
HETATM 15 C C2' ADP . . . G 4 -67.538 -5.785 -14.671 1 69.3 ? C2' ADP 601 B 1 
HETATM 16 O O2' ADP . . . G 4 -67.838 -6.448 -13.433 1 67.99 ? O2' ADP 601 B 1 
HETATM 17 C C1' ADP . . . G 4 -66.119 -5.233 -14.708 1 65.79 ? C1' ADP 601 B 1 
HETATM 18 N N9 ADP . . . G 4 -66.244 -3.833 -15.158 1 65.15 ? N9 ADP 601 B 1 
HETATM 19 C C8 ADP . . . G 4 -65.798 -3.452 -16.351 1 72.54 ? C8 ADP 601 B 1 
HETATM 20 N N7 ADP . . . G 4 -66.051 -2.14 -16.594 1 74.14 ? N7 ADP 601 B 1 
HETATM 21 C C5 ADP . . . G 4 -66.695 -1.65 -15.554 1 68.12 ? C5 ADP 601 B 1 
HETATM 22 C C6 ADP . . . G 4 -67.219 -0.315 -15.229 1 67.19 ? C6 ADP 601 B 1 
HETATM 23 N N6 ADP . . . G 4 -67.075 0.693 -16.118 1 64.73 ? N6 ADP 601 B 1 
HETATM 24 N N1 ADP . . . G 4 -67.829 -0.169 -14.033 1 70.46 ? N1 ADP 601 B 1 
HETATM 25 C C2 ADP . . . G 4 -67.952 -1.22 -13.174 1 75.72 ? C2 ADP 601 B 1 
HETATM 26 N N3 ADP . . . G 4 -67.485 -2.473 -13.437 1 76.32 ? N3 ADP 601 B 1 
HETATM 27 C C4 ADP . . . G 4 -66.841 -2.764 -14.6 1 69.16 ? C4 ADP 601 B 1 
#
_model_server_stats.io_time_ms              70 
_model_server_stats.parse_time_ms           7 
_model_server_stats.create_model_time_ms    14 
_model_server_stats.query_time_ms           250 
_model_server_stats.encode_time_ms          1 
_model_server_stats.element_count           27 
#