data_5M06
#
_model_server_result.job_id            qzS1pFSCT0vrmf1EwmTkmg 
_model_server_result.datetime_utc      '2024-12-22 07:58:01' 
_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          5m06 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"C","auth_seq_id":301}' 
#
_entry.id    5M06 
#
_exptl.entry_id    5M06 
_exptl.method      'X-RAY DIFFRACTION' 
#
_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    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         90 
_cell.entry_id            5M06 
_cell.length_a            60.004 
_cell.length_b            69.541 
_cell.length_c            257.417 
_cell.Z_PDB               16 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 5M06 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        20 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'C 2 2 21' 
#
_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 
#
_pdbx_struct_assembly_gen.asym_id_list       A,B,C,D,E,F 
_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    x,y,z 
_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                      2 
_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
disulf ? disulf1 A SG CYS 40 A CYS 20 1_555 B SG CYS 40 B CYS 20 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.025 ? 
metalc ? metalc1 B OD1 ASN 162 B ASN 142 1_555 D CA CA . B CA 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.27 ? 
metalc ? metalc2 B OD2 ASP 179 B ASP 159 1_555 D CA CA . B CA 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.43 ? 
metalc ? metalc3 D CA CA . B CA 302 1_555 F O HOH . B HOH 417 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.423 ? 
#
_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                     5M06 
_atom_sites.fract_transf_matrix[1][1]    0.016666 
_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]    0.01438 
_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]    0.003885 
_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 ADP B 1 301 1 ADP ADP . 
D 3 CA B 1 302 2 CA CA . 
E 4 HOH A 1 301 51 HOH HOH . 
E 4 HOH A 2 302 30 HOH HOH . 
E 4 HOH A 3 303 22 HOH HOH . 
E 4 HOH A 4 304 105 HOH HOH . 
E 4 HOH A 5 305 15 HOH HOH . 
E 4 HOH A 6 306 79 HOH HOH . 
E 4 HOH A 7 307 107 HOH HOH . 
E 4 HOH A 8 308 17 HOH HOH . 
E 4 HOH A 9 309 97 HOH HOH . 
E 4 HOH A 10 310 126 HOH HOH . 
E 4 HOH A 11 311 101 HOH HOH . 
E 4 HOH A 12 312 60 HOH HOH . 
E 4 HOH A 13 313 33 HOH HOH . 
E 4 HOH A 14 314 59 HOH HOH . 
E 4 HOH A 15 315 13 HOH HOH . 
E 4 HOH A 16 316 26 HOH HOH . 
E 4 HOH A 17 317 89 HOH HOH . 
E 4 HOH A 18 318 39 HOH HOH . 
E 4 HOH A 19 319 7 HOH HOH . 
E 4 HOH A 20 320 76 HOH HOH . 
E 4 HOH A 21 321 11 HOH HOH . 
E 4 HOH A 22 322 122 HOH HOH . 
E 4 HOH A 23 323 102 HOH HOH . 
E 4 HOH A 24 324 25 HOH HOH . 
E 4 HOH A 25 325 65 HOH HOH . 
E 4 HOH A 26 326 46 HOH HOH . 
E 4 HOH A 27 327 92 HOH HOH . 
E 4 HOH A 28 328 91 HOH HOH . 
E 4 HOH A 29 329 16 HOH HOH . 
E 4 HOH A 30 330 52 HOH HOH . 
E 4 HOH A 31 331 36 HOH HOH . 
E 4 HOH A 32 332 114 HOH HOH . 
E 4 HOH A 33 333 8 HOH HOH . 
E 4 HOH A 34 334 119 HOH HOH . 
E 4 HOH A 35 335 12 HOH HOH . 
E 4 HOH A 36 336 28 HOH HOH . 
E 4 HOH A 37 337 85 HOH HOH . 
E 4 HOH A 38 338 63 HOH HOH . 
E 4 HOH A 39 339 49 HOH HOH . 
E 4 HOH A 40 340 71 HOH HOH . 
E 4 HOH A 41 341 93 HOH HOH . 
E 4 HOH A 42 342 111 HOH HOH . 
E 4 HOH A 43 343 74 HOH HOH . 
E 4 HOH A 44 344 128 HOH HOH . 
E 4 HOH A 45 345 32 HOH HOH . 
E 4 HOH A 46 346 95 HOH HOH . 
E 4 HOH A 47 347 21 HOH HOH . 
E 4 HOH A 48 348 78 HOH HOH . 
E 4 HOH A 49 349 106 HOH HOH . 
E 4 HOH A 50 350 124 HOH HOH . 
E 4 HOH A 51 351 80 HOH HOH . 
E 4 HOH A 52 352 75 HOH HOH . 
E 4 HOH A 53 353 113 HOH HOH . 
E 4 HOH A 54 354 104 HOH HOH . 
F 4 HOH B 1 401 90 HOH HOH . 
F 4 HOH B 2 402 14 HOH HOH . 
F 4 HOH B 3 403 57 HOH HOH . 
F 4 HOH B 4 404 118 HOH HOH . 
F 4 HOH B 5 405 4 HOH HOH . 
F 4 HOH B 6 406 110 HOH HOH . 
F 4 HOH B 7 407 19 HOH HOH . 
F 4 HOH B 8 408 23 HOH HOH . 
F 4 HOH B 9 409 6 HOH HOH . 
F 4 HOH B 10 410 54 HOH HOH . 
F 4 HOH B 11 411 127 HOH HOH . 
F 4 HOH B 12 412 10 HOH HOH . 
F 4 HOH B 13 413 56 HOH HOH . 
F 4 HOH B 14 414 9 HOH HOH . 
F 4 HOH B 15 415 62 HOH HOH . 
F 4 HOH B 16 416 69 HOH HOH . 
F 4 HOH B 17 417 121 HOH HOH . 
F 4 HOH B 18 418 43 HOH HOH . 
F 4 HOH B 19 419 2 HOH HOH . 
F 4 HOH B 20 420 58 HOH HOH . 
F 4 HOH B 21 421 1 HOH HOH . 
F 4 HOH B 22 422 35 HOH HOH . 
F 4 HOH B 23 423 42 HOH HOH . 
F 4 HOH B 24 424 81 HOH HOH . 
F 4 HOH B 25 425 44 HOH HOH . 
F 4 HOH B 26 426 47 HOH HOH . 
F 4 HOH B 27 427 55 HOH HOH . 
F 4 HOH B 28 428 67 HOH HOH . 
F 4 HOH B 29 429 37 HOH HOH . 
F 4 HOH B 30 430 45 HOH HOH . 
F 4 HOH B 31 431 109 HOH HOH . 
F 4 HOH B 32 432 48 HOH HOH . 
F 4 HOH B 33 433 29 HOH HOH . 
F 4 HOH B 34 434 112 HOH HOH . 
F 4 HOH B 35 435 94 HOH HOH . 
F 4 HOH B 36 436 3 HOH HOH . 
F 4 HOH B 37 437 27 HOH HOH . 
F 4 HOH B 38 438 86 HOH HOH . 
F 4 HOH B 39 439 53 HOH HOH . 
F 4 HOH B 40 440 18 HOH HOH . 
F 4 HOH B 41 441 66 HOH HOH . 
F 4 HOH B 42 442 70 HOH HOH . 
F 4 HOH B 43 443 64 HOH HOH . 
F 4 HOH B 44 444 99 HOH HOH . 
F 4 HOH B 45 445 24 HOH HOH . 
F 4 HOH B 46 446 34 HOH HOH . 
F 4 HOH B 47 447 116 HOH HOH . 
F 4 HOH B 48 448 40 HOH HOH . 
F 4 HOH B 49 449 115 HOH HOH . 
F 4 HOH B 50 450 82 HOH HOH . 
F 4 HOH B 51 451 31 HOH HOH . 
F 4 HOH B 52 452 41 HOH HOH . 
F 4 HOH B 53 453 38 HOH HOH . 
F 4 HOH B 54 454 72 HOH HOH . 
F 4 HOH B 55 455 108 HOH HOH . 
F 4 HOH B 56 456 83 HOH HOH . 
F 4 HOH B 57 457 88 HOH HOH . 
F 4 HOH B 58 458 96 HOH HOH . 
F 4 HOH B 59 459 61 HOH HOH . 
F 4 HOH B 60 460 87 HOH HOH . 
F 4 HOH B 61 461 68 HOH HOH . 
F 4 HOH B 62 462 100 HOH HOH . 
F 4 HOH B 63 463 125 HOH HOH . 
F 4 HOH B 64 464 5 HOH HOH . 
F 4 HOH B 65 465 120 HOH HOH . 
F 4 HOH B 66 466 20 HOH HOH . 
F 4 HOH B 67 467 103 HOH HOH . 
F 4 HOH B 68 468 123 HOH HOH . 
F 4 HOH B 69 469 50 HOH HOH . 
F 4 HOH B 70 470 77 HOH HOH . 
F 4 HOH B 71 471 117 HOH HOH . 
F 4 HOH B 72 472 73 HOH HOH . 
F 4 HOH B 73 473 98 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 2 -27.609 8.447 -38.76 1 88.89 ? PB ADP 301 B 1 
HETATM 2 O O1B ADP . . . C 2 -27.156 8.136 -40.178 1 90.05 ? O1B ADP 301 B 1 
HETATM 3 O O2B ADP . . . C 2 -27.216 9.866 -38.284 1 87.57 ? O2B ADP 301 B 1 
HETATM 4 O O3B ADP . . . C 2 -27.144 7.397 -37.714 1 88.25 ? O3B ADP 301 B 1 
HETATM 5 P PA ADP . . . C 2 -30.287 7.69 -39.583 1 83.56 ? PA ADP 301 B 1 
HETATM 6 O O1A ADP . . . C 2 -29.524 6.845 -40.63 1 85.7 ? O1A ADP 301 B 1 
HETATM 7 O O2A ADP . . . C 2 -31.143 8.68 -40.276 1 83.12 ? O2A ADP 301 B 1 
HETATM 8 O O3A ADP . . . C 2 -29.2 8.44 -38.697 1 86.98 ? O3A ADP 301 B 1 
HETATM 9 O O5' ADP . . . C 2 -31.079 6.724 -38.554 1 80.84 ? O5' ADP 301 B 1 
HETATM 10 C C5' ADP . . . C 2 -30.501 5.685 -37.735 1 75.04 ? C5' ADP 301 B 1 
HETATM 11 C C4' ADP . . . C 2 -30.97 4.343 -38.24 1 71.28 ? C4' ADP 301 B 1 
HETATM 12 O O4' ADP . . . C 2 -32.403 4.363 -38.416 1 68.91 ? O4' ADP 301 B 1 
HETATM 13 C C3' ADP . . . C 2 -30.411 3.908 -39.592 1 71.03 ? C3' ADP 301 B 1 
HETATM 14 O O3' ADP . . . C 2 -29.108 3.341 -39.503 1 72.36 ? O3' ADP 301 B 1 
HETATM 15 C C2' ADP . . . C 2 -31.484 2.939 -40.093 1 70.08 ? C2' ADP 301 B 1 
HETATM 16 O O2' ADP . . . C 2 -31.334 1.601 -39.626 1 68.35 ? O2' ADP 301 B 1 
HETATM 17 C C1' ADP . . . C 2 -32.764 3.583 -39.545 1 70.39 ? C1' ADP 301 B 1 
HETATM 18 N N9 ADP . . . C 2 -33.473 4.415 -40.521 1 71.04 ? N9 ADP 301 B 1 
HETATM 19 C C8 ADP . . . C 2 -33.368 5.767 -40.72 1 70.93 ? C8 ADP 301 B 1 
HETATM 20 N N7 ADP . . . C 2 -34.086 6.218 -41.722 1 71.61 ? N7 ADP 301 B 1 
HETATM 21 C C5 ADP . . . C 2 -34.705 5.081 -42.22 1 70.75 ? C5 ADP 301 B 1 
HETATM 22 C C6 ADP . . . C 2 -35.55 4.867 -43.331 1 70.41 ? C6 ADP 301 B 1 
HETATM 23 N N6 ADP . . . C 2 -36.022 5.844 -44.108 1 70.18 ? N6 ADP 301 B 1 
HETATM 24 N N1 ADP . . . C 2 -35.915 3.594 -43.607 1 69.77 ? N1 ADP 301 B 1 
HETATM 25 C C2 ADP . . . C 2 -35.474 2.612 -42.814 1 69.79 ? C2 ADP 301 B 1 
HETATM 26 N N3 ADP . . . C 2 -34.696 2.693 -41.731 1 70.22 ? N3 ADP 301 B 1 
HETATM 27 C C4 ADP . . . C 2 -34.337 3.962 -41.488 1 70.86 ? C4 ADP 301 B 1 
#
_model_server_stats.io_time_ms              16 
_model_server_stats.parse_time_ms           19 
_model_server_stats.create_model_time_ms    8 
_model_server_stats.query_time_ms           336 
_model_server_stats.encode_time_ms          8 
_model_server_stats.element_count           27 
#