data_4P7A
#
_model_server_result.job_id            kZsIHEfbUjL7RasGZWOnhg 
_model_server_result.datetime_utc      '2024-12-21 14:15:53' 
_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          4p7a 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"C","auth_seq_id":402}' 
#
_entry.id    4P7A 
#
_exptl.entry_id    4P7A 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              427.201 
_entity.id                          3 
_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                     ? 
#
_cell.angle_alpha         90 
_cell.angle_beta          90 
_cell.angle_gamma         120 
_cell.entry_id            4P7A 
_cell.length_a            94.568 
_cell.length_b            94.568 
_cell.length_c            85.825 
_cell.Z_PDB               6 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 4P7A 
_symmetry.cell_setting             . 
_symmetry.Int_Tables_number        172 
_symmetry.space_group_name_Hall    . 
_symmetry.space_group_name_H-M     'P 64' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    dimeric 
_pdbx_struct_assembly.oligomeric_count      2 
_pdbx_struct_assembly.details               software_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 
_pdbx_struct_assembly_gen.assembly_id        1 
_pdbx_struct_assembly_gen.oper_expression    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' 4_545 -x,-y-1,z -1 0 0 0 -1 0 0 0 1 47.284 -81.89829 0 
#
_struct_asym.details                        ? 
_struct_asym.entity_id                      3 
_struct_asym.id                             C 
_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
metalc ? metalc1 A OD1 ASN 39 A ASN 38 1_555 B MG MG . A MG 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.104 ? 
metalc ? metalc2 B MG MG . A MG 401 1_555 C O1B ADP . A ADP 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.123 ? 
metalc ? metalc3 B MG MG . A MG 401 1_555 C O1A ADP . A ADP 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.981 ? 
metalc ? metalc4 B MG MG . A MG 401 1_555 M O HOH . A HOH 510 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.052 ? 
metalc ? metalc5 B MG MG . A MG 401 1_555 M O HOH . A HOH 511 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.906 ? 
metalc ? metalc6 B MG MG . A MG 401 1_555 M O HOH . A HOH 512 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.024 ? 
#
_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                     4P7A 
_atom_sites.fract_transf_matrix[1][1]    0.010574 
_atom_sites.fract_transf_matrix[1][2]    0.006105 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.01221 
_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]    0.011652 
_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
B 2 MG A 1 401 1 MG MG . 
C 3 ADP A 1 402 500 ADP ADP . 
D 4 UNX A 1 403 1 UNX UNX . 
E 4 UNX A 1 404 2 UNX UNX . 
F 4 UNX A 1 405 5 UNX UNX . 
G 4 UNX A 1 406 7 UNX UNX . 
H 4 UNX A 1 407 8 UNX UNX . 
I 4 UNX A 1 408 9 UNX UNX . 
J 4 UNX A 1 409 10 UNX UNX . 
K 4 UNX A 1 410 11 UNX UNX . 
L 4 UNX A 1 411 12 UNX UNX . 
M 5 HOH A 1 501 386 HOH HOH . 
M 5 HOH A 2 502 385 HOH HOH . 
M 5 HOH A 3 503 361 HOH HOH . 
M 5 HOH A 4 504 383 HOH HOH . 
M 5 HOH A 5 505 371 HOH HOH . 
M 5 HOH A 6 506 384 HOH HOH . 
M 5 HOH A 7 507 380 HOH HOH . 
M 5 HOH A 8 508 370 HOH HOH . 
M 5 HOH A 9 509 5 HOH HOH . 
M 5 HOH A 10 510 1 HOH HOH . 
M 5 HOH A 11 511 2 HOH HOH . 
M 5 HOH A 12 512 3 HOH HOH . 
M 5 HOH A 13 513 4 HOH HOH . 
M 5 HOH A 14 514 6 HOH HOH . 
M 5 HOH A 15 515 7 HOH HOH . 
M 5 HOH A 16 516 8 HOH HOH . 
M 5 HOH A 17 517 348 HOH HOH . 
M 5 HOH A 18 518 349 HOH HOH . 
M 5 HOH A 19 519 350 HOH HOH . 
M 5 HOH A 20 520 352 HOH HOH . 
M 5 HOH A 21 521 355 HOH HOH . 
M 5 HOH A 22 522 357 HOH HOH . 
M 5 HOH A 23 523 358 HOH HOH . 
M 5 HOH A 24 524 359 HOH HOH . 
M 5 HOH A 25 525 362 HOH HOH . 
M 5 HOH A 26 526 363 HOH HOH . 
M 5 HOH A 27 527 364 HOH HOH . 
M 5 HOH A 28 528 365 HOH HOH . 
M 5 HOH A 29 529 366 HOH HOH . 
M 5 HOH A 30 530 367 HOH HOH . 
M 5 HOH A 31 531 369 HOH HOH . 
M 5 HOH A 32 532 376 HOH HOH . 
M 5 HOH A 33 533 377 HOH HOH . 
M 5 HOH A 34 534 379 HOH HOH . 
M 5 HOH A 35 535 382 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 . . . C 3 16.954 -27.049 10.819 1 42.13 ? PB ADP 402 A 1 
HETATM 2 O O1B ADP . . . C 3 17.123 -25.841 9.926 1 38.89 ? O1B ADP 402 A 1 
HETATM 3 O O2B ADP . . . C 3 16.048 -26.827 12.025 1 42.46 ? O2B ADP 402 A 1 
HETATM 4 O O3B ADP . . . C 3 16.657 -28.31 10.034 1 39.54 ? O3B ADP 402 A 1 
HETATM 5 P PA ADP . . . C 3 19.696 -26.456 11.514 1 38.91 ? PA ADP 402 A 1 
HETATM 6 O O1A ADP . . . C 3 19.842 -25.912 10.122 1 35.29 ? O1A ADP 402 A 1 
HETATM 7 O O2A ADP . . . C 3 20.791 -27.145 12.264 1 35.58 ? O2A ADP 402 A 1 
HETATM 8 O O3A ADP . . . C 3 18.373 -27.423 11.496 1 37.1 ? O3A ADP 402 A 1 
HETATM 9 O O5' ADP . . . C 3 19.237 -25.288 12.509 1 38.36 ? O5' ADP 402 A 1 
HETATM 10 C C5' ADP . . . C 3 18.9 -25.607 13.842 1 40.29 ? C5' ADP 402 A 1 
HETATM 11 C C4' ADP . . . C 3 17.933 -24.585 14.442 1 40.36 ? C4' ADP 402 A 1 
HETATM 12 O O4' ADP . . . C 3 18.69 -23.447 14.841 1 39.08 ? O4' ADP 402 A 1 
HETATM 13 C C3' ADP . . . C 3 16.798 -24.078 13.563 1 39.99 ? C3' ADP 402 A 1 
HETATM 14 O O3' ADP . . . C 3 15.583 -24.861 13.65 1 42.67 ? O3' ADP 402 A 1 
HETATM 15 C C2' ADP . . . C 3 16.569 -22.697 14.097 1 40.42 ? C2' ADP 402 A 1 
HETATM 16 O O2' ADP . . . C 3 15.631 -22.678 15.213 1 39.68 ? O2' ADP 402 A 1 
HETATM 17 C C1' ADP . . . C 3 17.921 -22.28 14.597 1 33.39 ? C1' ADP 402 A 1 
HETATM 18 N N9 ADP . . . C 3 18.602 -21.398 13.621 1 40.09 ? N9 ADP 402 A 1 
HETATM 19 C C8 ADP . . . C 3 19.681 -21.684 12.871 1 39.44 ? C8 ADP 402 A 1 
HETATM 20 N N7 ADP . . . C 3 20.025 -20.627 12.123 1 36.85 ? N7 ADP 402 A 1 
HETATM 21 C C5 ADP . . . C 3 19.157 -19.631 12.413 1 39.37 ? C5 ADP 402 A 1 
HETATM 22 C C6 ADP . . . C 3 18.982 -18.232 12 1 37.73 ? C6 ADP 402 A 1 
HETATM 23 N N6 ADP . . . C 3 19.806 -17.666 11.078 1 38.13 ? N6 ADP 402 A 1 
HETATM 24 N N1 ADP . . . C 3 17.998 -17.528 12.554 1 41.88 ? N1 ADP 402 A 1 
HETATM 25 C C2 ADP . . . C 3 17.175 -18.061 13.479 1 45.51 ? C2 ADP 402 A 1 
HETATM 26 N N3 ADP . . . C 3 17.288 -19.327 13.908 1 38.05 ? N3 ADP 402 A 1 
HETATM 27 C C4 ADP . . . C 3 18.255 -20.129 13.409 1 41.01 ? C4 ADP 402 A 1 
#
_model_server_stats.io_time_ms              17 
_model_server_stats.parse_time_ms           17 
_model_server_stats.create_model_time_ms    22 
_model_server_stats.query_time_ms           505 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           27 
#