data_5T3O
#
_model_server_result.job_id            Tsf10AGp7HJCt41BzZN05Q 
_model_server_result.datetime_utc      '2024-12-21 13:24:21' 
_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          5t3o 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"G","auth_seq_id":401}' 
#
_entry.id    5T3O 
#
_exptl.entry_id    5T3O 
_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    3 
_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            5T3O 
_cell.length_a            115.97 
_cell.length_b            115.97 
_cell.length_c            207.99 
_cell.Z_PDB               24 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 5T3O 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        92 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 41 21 2' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    hexameric 
_pdbx_struct_assembly.oligomeric_count      6 
_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,G,H,I,J,K,L,M,N,O 
_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' 7_555 y,x,-z 0 1 0 1 0 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
? 2 D N N 
? 2 G N N 
? 2 J 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                     5T3O 
_atom_sites.fract_transf_matrix[1][1]    0.008623 
_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]    0.008623 
_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]    0.004808 
_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
D 2 ADP A 1 401 3 ADP ADP . 
E 3 SO4 A 1 402 3 SO4 SO4 . 
F 3 SO4 A 1 403 6 SO4 SO4 . 
G 2 ADP B 1 401 1 ADP ADP . 
H 3 SO4 B 1 402 2 SO4 SO4 . 
I 3 SO4 B 1 403 4 SO4 SO4 . 
J 2 ADP C 1 401 2 ADP ADP . 
K 3 SO4 C 1 402 1 SO4 SO4 . 
L 3 SO4 C 1 403 5 SO4 SO4 . 
M 4 HOH A 1 501 173 HOH HOH . 
M 4 HOH A 2 502 43 HOH HOH . 
M 4 HOH A 3 503 172 HOH HOH . 
M 4 HOH A 4 504 2 HOH HOH . 
M 4 HOH A 5 505 103 HOH HOH . 
M 4 HOH A 6 506 41 HOH HOH . 
M 4 HOH A 7 507 64 HOH HOH . 
M 4 HOH A 8 508 143 HOH HOH . 
M 4 HOH A 9 509 40 HOH HOH . 
M 4 HOH A 10 510 1 HOH HOH . 
M 4 HOH A 11 511 174 HOH HOH . 
M 4 HOH A 12 512 178 HOH HOH . 
M 4 HOH A 13 513 176 HOH HOH . 
M 4 HOH A 14 514 59 HOH HOH . 
M 4 HOH A 15 515 27 HOH HOH . 
M 4 HOH A 16 516 123 HOH HOH . 
M 4 HOH A 17 517 131 HOH HOH . 
M 4 HOH A 18 518 145 HOH HOH . 
M 4 HOH A 19 519 69 HOH HOH . 
M 4 HOH A 20 520 121 HOH HOH . 
M 4 HOH A 21 521 96 HOH HOH . 
M 4 HOH A 22 522 198 HOH HOH . 
M 4 HOH A 23 523 138 HOH HOH . 
M 4 HOH A 24 524 70 HOH HOH . 
M 4 HOH A 25 525 106 HOH HOH . 
M 4 HOH A 26 526 125 HOH HOH . 
M 4 HOH A 27 527 55 HOH HOH . 
M 4 HOH A 28 528 111 HOH HOH . 
M 4 HOH A 29 529 171 HOH HOH . 
N 4 HOH B 1 501 75 HOH HOH . 
N 4 HOH B 2 502 116 HOH HOH . 
N 4 HOH B 3 503 113 HOH HOH . 
N 4 HOH B 4 504 100 HOH HOH . 
N 4 HOH B 5 505 65 HOH HOH . 
N 4 HOH B 6 506 15 HOH HOH . 
N 4 HOH B 7 507 183 HOH HOH . 
N 4 HOH B 8 508 9 HOH HOH . 
N 4 HOH B 9 509 56 HOH HOH . 
N 4 HOH B 10 510 47 HOH HOH . 
N 4 HOH B 11 511 32 HOH HOH . 
N 4 HOH B 12 512 5 HOH HOH . 
N 4 HOH B 13 513 21 HOH HOH . 
N 4 HOH B 14 514 22 HOH HOH . 
N 4 HOH B 15 515 166 HOH HOH . 
N 4 HOH B 16 516 68 HOH HOH . 
N 4 HOH B 17 517 13 HOH HOH . 
N 4 HOH B 18 518 50 HOH HOH . 
N 4 HOH B 19 519 130 HOH HOH . 
N 4 HOH B 20 520 146 HOH HOH . 
N 4 HOH B 21 521 196 HOH HOH . 
N 4 HOH B 22 522 66 HOH HOH . 
N 4 HOH B 23 523 163 HOH HOH . 
N 4 HOH B 24 524 7 HOH HOH . 
N 4 HOH B 25 525 158 HOH HOH . 
N 4 HOH B 26 526 165 HOH HOH . 
N 4 HOH B 27 527 89 HOH HOH . 
N 4 HOH B 28 528 14 HOH HOH . 
N 4 HOH B 29 529 120 HOH HOH . 
N 4 HOH B 30 530 30 HOH HOH . 
N 4 HOH B 31 531 23 HOH HOH . 
N 4 HOH B 32 532 72 HOH HOH . 
N 4 HOH B 33 533 179 HOH HOH . 
N 4 HOH B 34 534 94 HOH HOH . 
N 4 HOH B 35 535 57 HOH HOH . 
N 4 HOH B 36 536 197 HOH HOH . 
N 4 HOH B 37 537 184 HOH HOH . 
N 4 HOH B 38 538 49 HOH HOH . 
N 4 HOH B 39 539 144 HOH HOH . 
N 4 HOH B 40 540 81 HOH HOH . 
N 4 HOH B 41 541 118 HOH HOH . 
N 4 HOH B 42 542 26 HOH HOH . 
N 4 HOH B 43 543 42 HOH HOH . 
N 4 HOH B 44 544 175 HOH HOH . 
N 4 HOH B 45 545 153 HOH HOH . 
N 4 HOH B 46 546 20 HOH HOH . 
N 4 HOH B 47 547 126 HOH HOH . 
N 4 HOH B 48 548 60 HOH HOH . 
N 4 HOH B 49 549 129 HOH HOH . 
N 4 HOH B 50 550 45 HOH HOH . 
N 4 HOH B 51 551 148 HOH HOH . 
N 4 HOH B 52 552 195 HOH HOH . 
N 4 HOH B 53 553 29 HOH HOH . 
N 4 HOH B 54 554 97 HOH HOH . 
N 4 HOH B 55 555 149 HOH HOH . 
N 4 HOH B 56 556 37 HOH HOH . 
N 4 HOH B 57 557 160 HOH HOH . 
N 4 HOH B 58 558 51 HOH HOH . 
N 4 HOH B 59 559 162 HOH HOH . 
N 4 HOH B 60 560 159 HOH HOH . 
N 4 HOH B 61 561 151 HOH HOH . 
N 4 HOH B 62 562 167 HOH HOH . 
N 4 HOH B 63 563 46 HOH HOH . 
N 4 HOH B 64 564 99 HOH HOH . 
N 4 HOH B 65 565 182 HOH HOH . 
N 4 HOH B 66 566 10 HOH HOH . 
N 4 HOH B 67 567 19 HOH HOH . 
N 4 HOH B 68 568 33 HOH HOH . 
N 4 HOH B 69 569 132 HOH HOH . 
N 4 HOH B 70 570 128 HOH HOH . 
N 4 HOH B 71 571 18 HOH HOH . 
N 4 HOH B 72 572 133 HOH HOH . 
N 4 HOH B 73 573 193 HOH HOH . 
N 4 HOH B 74 574 154 HOH HOH . 
N 4 HOH B 75 575 152 HOH HOH . 
N 4 HOH B 76 576 86 HOH HOH . 
N 4 HOH B 77 577 63 HOH HOH . 
N 4 HOH B 78 578 52 HOH HOH . 
N 4 HOH B 79 579 137 HOH HOH . 
N 4 HOH B 80 580 76 HOH HOH . 
N 4 HOH B 81 581 25 HOH HOH . 
N 4 HOH B 82 582 84 HOH HOH . 
N 4 HOH B 83 583 105 HOH HOH . 
N 4 HOH B 84 584 194 HOH HOH . 
N 4 HOH B 85 585 157 HOH HOH . 
N 4 HOH B 86 586 185 HOH HOH . 
N 4 HOH B 87 587 16 HOH HOH . 
N 4 HOH B 88 588 92 HOH HOH . 
N 4 HOH B 89 589 90 HOH HOH . 
N 4 HOH B 90 590 142 HOH HOH . 
N 4 HOH B 91 591 91 HOH HOH . 
N 4 HOH B 92 592 164 HOH HOH . 
N 4 HOH B 93 593 139 HOH HOH . 
N 4 HOH B 94 594 77 HOH HOH . 
N 4 HOH B 95 595 79 HOH HOH . 
N 4 HOH B 96 596 3 HOH HOH . 
N 4 HOH B 97 597 38 HOH HOH . 
N 4 HOH B 98 598 117 HOH HOH . 
N 4 HOH B 99 599 74 HOH HOH . 
N 4 HOH B 100 600 17 HOH HOH . 
N 4 HOH B 101 601 181 HOH HOH . 
N 4 HOH B 102 602 87 HOH HOH . 
O 4 HOH C 1 501 48 HOH HOH . 
O 4 HOH C 2 502 39 HOH HOH . 
O 4 HOH C 3 503 192 HOH HOH . 
O 4 HOH C 4 504 53 HOH HOH . 
O 4 HOH C 5 505 114 HOH HOH . 
O 4 HOH C 6 506 80 HOH HOH . 
O 4 HOH C 7 507 71 HOH HOH . 
O 4 HOH C 8 508 189 HOH HOH . 
O 4 HOH C 9 509 95 HOH HOH . 
O 4 HOH C 10 510 134 HOH HOH . 
O 4 HOH C 11 511 34 HOH HOH . 
O 4 HOH C 12 512 190 HOH HOH . 
O 4 HOH C 13 513 161 HOH HOH . 
O 4 HOH C 14 514 156 HOH HOH . 
O 4 HOH C 15 515 24 HOH HOH . 
O 4 HOH C 16 516 187 HOH HOH . 
O 4 HOH C 17 517 58 HOH HOH . 
O 4 HOH C 18 518 31 HOH HOH . 
O 4 HOH C 19 519 104 HOH HOH . 
O 4 HOH C 20 520 98 HOH HOH . 
O 4 HOH C 21 521 112 HOH HOH . 
O 4 HOH C 22 522 12 HOH HOH . 
O 4 HOH C 23 523 168 HOH HOH . 
O 4 HOH C 24 524 169 HOH HOH . 
O 4 HOH C 25 525 6 HOH HOH . 
O 4 HOH C 26 526 188 HOH HOH . 
O 4 HOH C 27 527 102 HOH HOH . 
O 4 HOH C 28 528 186 HOH HOH . 
O 4 HOH C 29 529 62 HOH HOH . 
O 4 HOH C 30 530 109 HOH HOH . 
O 4 HOH C 31 531 155 HOH HOH . 
O 4 HOH C 32 532 135 HOH HOH . 
O 4 HOH C 33 533 191 HOH HOH . 
O 4 HOH C 34 534 124 HOH HOH . 
O 4 HOH C 35 535 141 HOH HOH . 
O 4 HOH C 36 536 4 HOH HOH . 
O 4 HOH C 37 537 61 HOH HOH . 
O 4 HOH C 38 538 93 HOH HOH . 
O 4 HOH C 39 539 28 HOH HOH . 
O 4 HOH C 40 540 82 HOH HOH . 
O 4 HOH C 41 541 147 HOH HOH . 
O 4 HOH C 42 542 83 HOH HOH . 
O 4 HOH C 43 543 44 HOH HOH . 
O 4 HOH C 44 544 85 HOH HOH . 
O 4 HOH C 45 545 35 HOH HOH . 
O 4 HOH C 46 546 107 HOH HOH . 
O 4 HOH C 47 547 88 HOH HOH . 
O 4 HOH C 48 548 122 HOH HOH . 
O 4 HOH C 49 549 67 HOH HOH . 
O 4 HOH C 50 550 101 HOH HOH . 
O 4 HOH C 51 551 140 HOH HOH . 
O 4 HOH C 52 552 119 HOH HOH . 
O 4 HOH C 53 553 73 HOH HOH . 
O 4 HOH C 54 554 36 HOH HOH . 
O 4 HOH C 55 555 136 HOH HOH . 
O 4 HOH C 56 556 78 HOH HOH . 
O 4 HOH C 57 557 115 HOH HOH . 
O 4 HOH C 58 558 150 HOH HOH . 
O 4 HOH C 59 559 110 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 2 -48.833 -14.601 2.498 1 75.82 ? PB ADP 401 B 1 
HETATM 2 O O1B ADP . . . G 2 -49.92 -14.915 1.493 1 73.47 ? O1B ADP 401 B 1 
HETATM 3 O O2B ADP . . . G 2 -49.275 -13.645 3.581 1 72.82 ? O2B ADP 401 B 1 
HETATM 4 O O3B ADP . . . G 2 -47.514 -14.215 1.878 1 68.25 ? O3B ADP 401 B 1 
HETATM 5 P PA ADP . . . G 2 -48.908 -16.293 4.757 1 69.42 ? PA ADP 401 B 1 
HETATM 6 O O1A ADP . . . G 2 -50.418 -16.408 4.76 1 68.25 ? O1A ADP 401 B 1 
HETATM 7 O O2A ADP . . . G 2 -48.23 -15.266 5.638 1 65.53 ? O2A ADP 401 B 1 
HETATM 8 O O3A ADP . . . G 2 -48.501 -16.016 3.219 1 66.76 ? O3A ADP 401 B 1 
HETATM 9 O O5' ADP . . . G 2 -48.303 -17.75 5.103 1 55.58 ? O5' ADP 401 B 1 
HETATM 10 C C5' ADP . . . G 2 -47.083 -17.937 5.821 1 46.04 ? C5' ADP 401 B 1 
HETATM 11 C C4' ADP . . . G 2 -47.139 -19.276 6.541 1 40.85 ? C4' ADP 401 B 1 
HETATM 12 O O4' ADP . . . G 2 -47.028 -20.365 5.611 1 35.64 ? O4' ADP 401 B 1 
HETATM 13 C C3' ADP . . . G 2 -46.003 -19.469 7.535 1 38.15 ? C3' ADP 401 B 1 
HETATM 14 O O3' ADP . . . G 2 -46.239 -18.873 8.812 1 39.1 ? O3' ADP 401 B 1 
HETATM 15 C C2' ADP . . . G 2 -45.901 -20.972 7.608 1 35.72 ? C2' ADP 401 B 1 
HETATM 16 O O2' ADP . . . G 2 -46.871 -21.479 8.523 1 38.62 ? O2' ADP 401 B 1 
HETATM 17 C C1' ADP . . . G 2 -46.269 -21.432 6.202 1 33.77 ? C1' ADP 401 B 1 
HETATM 18 N N9 ADP . . . G 2 -45.103 -21.697 5.325 1 30.48 ? N9 ADP 401 B 1 
HETATM 19 C C8 ADP . . . G 2 -43.866 -21.142 5.4 1 29.02 ? C8 ADP 401 B 1 
HETATM 20 N N7 ADP . . . G 2 -43.065 -21.627 4.424 1 27.36 ? N7 ADP 401 B 1 
HETATM 21 C C5 ADP . . . G 2 -43.798 -22.487 3.696 1 26.45 ? C5 ADP 401 B 1 
HETATM 22 C C6 ADP . . . G 2 -43.558 -23.346 2.513 1 24.81 ? C6 ADP 401 B 1 
HETATM 23 N N6 ADP . . . G 2 -42.352 -23.315 1.955 1 24.69 ? N6 ADP 401 B 1 
HETATM 24 N N1 ADP . . . G 2 -44.562 -24.122 2.026 1 24.29 ? N1 ADP 401 B 1 
HETATM 25 C C2 ADP . . . G 2 -45.781 -24.117 2.627 1 25.6 ? C2 ADP 401 B 1 
HETATM 26 N N3 ADP . . . G 2 -46.065 -23.357 3.718 1 24.77 ? N3 ADP 401 B 1 
HETATM 27 C C4 ADP . . . G 2 -45.14 -22.531 4.28 1 26.94 ? C4 ADP 401 B 1 
#
_model_server_stats.io_time_ms              40 
_model_server_stats.parse_time_ms           34 
_model_server_stats.create_model_time_ms    53 
_model_server_stats.query_time_ms           1275 
_model_server_stats.encode_time_ms          11 
_model_server_stats.element_count           27 
#