data_7VUK
#
_model_server_result.job_id            szDQIAK5Z32KyzDPvuMxVA 
_model_server_result.datetime_utc      '2024-10-19 20:15:58' 
_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          7vuk 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"S","auth_seq_id":517}' 
#
_entry.id    7VUK 
#
_exptl.entry_id    7VUK 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              427.201 
_entity.id                          6 
_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         90 
_cell.entry_id            7VUK 
_cell.length_a            133.654 
_cell.length_b            133.654 
_cell.length_c            197.461 
_cell.Z_PDB               16 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 7VUK 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        92 
_symmetry.space_group_name_Hall    'P 4abw 2nw' 
_symmetry.space_group_name_H-M     'P 41 21 2' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    dimeric 
_pdbx_struct_assembly.oligomeric_count      2 
_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
A,C,D,E,F,G,H,I,J,K,L,M,N,O,P,Q,R,S,EA 1 1 
B,T,U,V,W,X,Y,Z,AA,BA,CA,DA,FA 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' 5_455 -x-1/2,y+1/2,-z+1/4 -1 0 0 0 1 0 0 0 -1 -66.827 66.827 49.36525 
#
loop_
_struct_asym.details
_struct_asym.entity_id
_struct_asym.id
_struct_asym.pdbx_modified
_struct_asym.pdbx_blank_PDB_chainid_flag
? 6 S N N 
? 6 DA 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
metalc ? metalc1 A OG1 THR 322 A THR 322 1_555 C MG MG . A MG 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.888 ? 
metalc ? metalc2 C MG MG . A MG 501 1_555 S O2B ADP . A ADP 517 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.462 ? 
metalc ? metalc3 B OE1 GLU 9 B GLU 9 1_555 X NA NA . B NA 505 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.122 ? 
metalc ? metalc4 B OG1 THR 322 B THR 322 1_555 T MG MG . B MG 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.29 ? 
metalc ? metalc5 T MG MG . B MG 501 1_555 DA O2B ADP . B ADP 511 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.1 ? 
metalc ? metalc6 X NA NA . B NA 505 1_555 FA O HOH . B HOH 609 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.514 ? 
#
_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                     7VUK 
_atom_sites.fract_transf_matrix[1][1]    0.007482 
_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]    0.007482 
_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]    0.005064 
_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
C 2 MG A 1 501 2 MG MG . 
D 2 MG A 1 502 4 MG MG . 
E 2 MG A 1 503 5 MG MG . 
F 3 NA A 1 504 3 NA NA . 
G 3 NA A 1 505 4 NA NA . 
H 3 NA A 1 506 5 NA NA . 
I 3 NA A 1 507 6 NA NA . 
J 3 NA A 1 508 7 NA NA . 
K 4 CL A 1 509 2 CL CL . 
L 4 CL A 1 510 3 CL CL . 
M 5 PEG A 1 511 2 PEG PEG . 
N 5 PEG A 1 512 3 PEG PEG . 
O 5 PEG A 1 513 5 PEG PEG . 
P 5 PEG A 1 514 8 PEG PEG . 
Q 5 PEG A 1 515 9 PEG PEG . 
R 5 PEG A 1 516 10 PEG PEG . 
S 6 ADP A 1 517 2 ADP ADP . 
T 2 MG B 1 501 1 MG MG . 
U 2 MG B 1 502 3 MG MG . 
V 3 NA B 1 503 1 NA NA . 
W 3 NA B 1 504 2 NA NA . 
X 3 NA B 1 505 8 NA NA . 
Y 4 CL B 1 506 1 CL CL . 
Z 5 PEG B 1 507 1 PEG PEG . 
AA 5 PEG B 1 508 4 PEG PEG . 
BA 5 PEG B 1 509 6 PEG PEG . 
CA 5 PEG B 1 510 7 PEG PEG . 
DA 6 ADP B 1 511 1 ADP ADP . 
EA 7 HOH A 1 601 43 HOH HOH . 
EA 7 HOH A 2 602 10 HOH HOH . 
EA 7 HOH A 3 603 15 HOH HOH . 
EA 7 HOH A 4 604 44 HOH HOH . 
EA 7 HOH A 5 605 61 HOH HOH . 
EA 7 HOH A 6 606 62 HOH HOH . 
EA 7 HOH A 7 607 52 HOH HOH . 
EA 7 HOH A 8 608 2 HOH HOH . 
EA 7 HOH A 9 609 69 HOH HOH . 
EA 7 HOH A 10 610 14 HOH HOH . 
EA 7 HOH A 11 611 71 HOH HOH . 
EA 7 HOH A 12 612 72 HOH HOH . 
EA 7 HOH A 13 613 59 HOH HOH . 
EA 7 HOH A 14 614 31 HOH HOH . 
EA 7 HOH A 15 615 54 HOH HOH . 
EA 7 HOH A 16 616 33 HOH HOH . 
EA 7 HOH A 17 617 11 HOH HOH . 
EA 7 HOH A 18 618 65 HOH HOH . 
EA 7 HOH A 19 619 12 HOH HOH . 
EA 7 HOH A 20 620 21 HOH HOH . 
EA 7 HOH A 21 621 37 HOH HOH . 
EA 7 HOH A 22 622 38 HOH HOH . 
EA 7 HOH A 23 623 41 HOH HOH . 
EA 7 HOH A 24 624 27 HOH HOH . 
EA 7 HOH A 25 625 68 HOH HOH . 
EA 7 HOH A 26 626 30 HOH HOH . 
FA 7 HOH B 1 601 74 HOH HOH . 
FA 7 HOH B 2 602 25 HOH HOH . 
FA 7 HOH B 3 603 32 HOH HOH . 
FA 7 HOH B 4 604 34 HOH HOH . 
FA 7 HOH B 5 605 17 HOH HOH . 
FA 7 HOH B 6 606 3 HOH HOH . 
FA 7 HOH B 7 607 23 HOH HOH . 
FA 7 HOH B 8 608 47 HOH HOH . 
FA 7 HOH B 9 609 55 HOH HOH . 
FA 7 HOH B 10 610 35 HOH HOH . 
FA 7 HOH B 11 611 26 HOH HOH . 
FA 7 HOH B 12 612 63 HOH HOH . 
FA 7 HOH B 13 613 46 HOH HOH . 
FA 7 HOH B 14 614 39 HOH HOH . 
FA 7 HOH B 15 615 24 HOH HOH . 
FA 7 HOH B 16 616 29 HOH HOH . 
FA 7 HOH B 17 617 56 HOH HOH . 
FA 7 HOH B 18 618 40 HOH HOH . 
FA 7 HOH B 19 619 13 HOH HOH . 
FA 7 HOH B 20 620 1 HOH HOH . 
FA 7 HOH B 21 621 5 HOH HOH . 
FA 7 HOH B 22 622 48 HOH HOH . 
FA 7 HOH B 23 623 53 HOH HOH . 
FA 7 HOH B 24 624 51 HOH HOH . 
FA 7 HOH B 25 625 70 HOH HOH . 
FA 7 HOH B 26 626 36 HOH HOH . 
FA 7 HOH B 27 627 64 HOH HOH . 
FA 7 HOH B 28 628 75 HOH HOH . 
FA 7 HOH B 29 629 66 HOH HOH . 
FA 7 HOH B 30 630 67 HOH HOH . 
FA 7 HOH B 31 631 19 HOH HOH . 
FA 7 HOH B 32 632 22 HOH HOH . 
FA 7 HOH B 33 633 73 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 . . . S 6 -17.548 65.873 10.442 1 57.94 ? PB ADP 517 A 1 
HETATM 2 O O1B ADP . . . S 6 -17.087 65.211 9.173 1 61.21 ? O1B ADP 517 A 1 
HETATM 3 O O2B ADP . . . S 6 -17.248 65.095 11.702 1 59.89 ? O2B ADP 517 A 1 
HETATM 4 O O3B ADP . . . S 6 -17.205 67.336 10.508 1 54.48 ? O3B ADP 517 A 1 
HETATM 5 P PA ADP . . . S 6 -19.877 66.067 8.886 1 63.38 ? PA ADP 517 A 1 
HETATM 6 O O1A ADP . . . S 6 -19.747 64.834 8.025 1 46.88 ? O1A ADP 517 A 1 
HETATM 7 O O2A ADP . . . S 6 -19.406 67.399 8.36 1 65.12 ? O2A ADP 517 A 1 
HETATM 8 O O3A ADP . . . S 6 -19.153 65.819 10.307 1 65.3 ? O3A ADP 517 A 1 
HETATM 9 O O5' ADP . . . S 6 -21.422 66.236 9.3 1 61.63 ? O5' ADP 517 A 1 
HETATM 10 C C5' ADP . . . S 6 -22.46 65.925 8.379 1 53.48 ? C5' ADP 517 A 1 
HETATM 11 C C4' ADP . . . S 6 -23.393 67.122 8.277 1 51.43 ? C4' ADP 517 A 1 
HETATM 12 O O4' ADP . . . S 6 -22.705 68.189 7.621 1 45.28 ? O4' ADP 517 A 1 
HETATM 13 C C3' ADP . . . S 6 -24.623 66.782 7.454 1 66.81 ? C3' ADP 517 A 1 
HETATM 14 O O3' ADP . . . S 6 -25.797 66.826 8.272 1 67.55 ? O3' ADP 517 A 1 
HETATM 15 C C2' ADP . . . S 6 -24.69 67.824 6.354 1 63.1 ? C2' ADP 517 A 1 
HETATM 16 O O2' ADP . . . S 6 -25.856 68.635 6.527 1 64.44 ? O2' ADP 517 A 1 
HETATM 17 C C1' ADP . . . S 6 -23.437 68.675 6.49 1 58.15 ? C1' ADP 517 A 1 
HETATM 18 N N9 ADP . . . S 6 -22.593 68.555 5.267 1 65.2 ? N9 ADP 517 A 1 
HETATM 19 C C8 ADP . . . S 6 -21.479 67.803 5.161 1 66.8 ? C8 ADP 517 A 1 
HETATM 20 N N7 ADP . . . S 6 -20.926 67.903 3.924 1 61.64 ? N7 ADP 517 A 1 
HETATM 21 C C5 ADP . . . S 6 -21.695 68.741 3.207 1 62.39 ? C5 ADP 517 A 1 
HETATM 22 C C6 ADP . . . S 6 -21.678 69.281 1.827 1 60.65 ? C6 ADP 517 A 1 
HETATM 23 N N6 ADP . . . S 6 -20.702 68.932 0.955 1 58.98 ? N6 ADP 517 A 1 
HETATM 24 N N1 ADP . . . S 6 -22.666 70.131 1.468 1 58.04 ? N1 ADP 517 A 1 
HETATM 25 C C2 ADP . . . S 6 -23.635 70.485 2.329 1 54.17 ? C2 ADP 517 A 1 
HETATM 26 N N3 ADP . . . S 6 -23.717 70.024 3.592 1 61.85 ? N3 ADP 517 A 1 
HETATM 27 C C4 ADP . . . S 6 -22.792 69.168 4.092 1 64.39 ? C4 ADP 517 A 1 
#
_model_server_stats.io_time_ms              22 
_model_server_stats.parse_time_ms           18 
_model_server_stats.create_model_time_ms    25 
_model_server_stats.query_time_ms           280 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           27 
#