data_1ATR
#
_model_server_result.job_id            6KlX_clsYl88nwYS8gC84A 
_model_server_result.datetime_utc      '2024-11-25 02:00:09' 
_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          1atr 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"D","auth_seq_id":486}' 
#
_entry.id    1ATR 
#
_exptl.entry_id    1ATR 
_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    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            1ATR 
_cell.length_a            145.3 
_cell.length_b            65 
_cell.length_c            46.9 
_cell.Z_PDB               4 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 1ATR 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        19 
_symmetry.space_group_name_Hall    . 
_symmetry.space_group_name_H-M     'P 21 21 21' 
#
_pdbx_struct_assembly.method_details        ? 
_pdbx_struct_assembly.oligomeric_details    monomeric 
_pdbx_struct_assembly.oligomeric_count      1 
_pdbx_struct_assembly.details               author_defined_assembly 
_pdbx_struct_assembly.id                    1 
#
_pdbx_struct_assembly_gen.asym_id_list       A,B,C,D,E 
_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                      4 
_struct_asym.id                             D 
_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 D O2B ADP . A ADP 486 1_555 B MG MG . A MG 487 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.268 ? 
metalc ? metalc2 D O1A ADP . A ADP 486 1_555 B MG MG . A MG 487 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.263 ? 
metalc ? metalc3 B MG MG . A MG 487 1_555 E O HOH . A HOH 609 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.076 ? 
metalc ? metalc4 B MG MG . A MG 487 1_555 E O HOH . A HOH 610 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? 
metalc ? metalc5 B MG MG . A MG 487 1_555 E O HOH . A HOH 611 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.37 ? 
metalc ? metalc6 B MG MG . A MG 487 1_555 E O HOH . A HOH 612 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? 
#
_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                     1ATR 
_atom_sites.fract_transf_matrix[1][1]    0.006882 
_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]    0.015385 
_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]    0.021322 
_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 1 487 487 MG MG . 
C 3 PO4 A 1 488 488 PO4 PO4 . 
D 4 ADP A 1 486 486 ADP ADP . 
E 5 HOH A 1 501 501 HOH HOH . 
E 5 HOH A 2 502 502 HOH HOH . 
E 5 HOH A 3 503 503 HOH HOH . 
E 5 HOH A 4 504 504 HOH HOH . 
E 5 HOH A 5 505 505 HOH HOH . 
E 5 HOH A 6 506 506 HOH HOH . 
E 5 HOH A 7 507 507 HOH HOH . 
E 5 HOH A 8 508 508 HOH HOH . 
E 5 HOH A 9 509 509 HOH HOH . 
E 5 HOH A 10 510 510 HOH HOH . 
E 5 HOH A 11 511 511 HOH HOH . 
E 5 HOH A 12 512 512 HOH HOH . 
E 5 HOH A 13 513 513 HOH HOH . 
E 5 HOH A 14 514 514 HOH HOH . 
E 5 HOH A 15 515 515 HOH HOH . 
E 5 HOH A 16 516 516 HOH HOH . 
E 5 HOH A 17 517 517 HOH HOH . 
E 5 HOH A 18 518 518 HOH HOH . 
E 5 HOH A 19 519 519 HOH HOH . 
E 5 HOH A 20 520 520 HOH HOH . 
E 5 HOH A 21 521 521 HOH HOH . 
E 5 HOH A 22 522 522 HOH HOH . 
E 5 HOH A 23 523 523 HOH HOH . 
E 5 HOH A 24 524 524 HOH HOH . 
E 5 HOH A 25 525 525 HOH HOH . 
E 5 HOH A 26 526 526 HOH HOH . 
E 5 HOH A 27 527 527 HOH HOH . 
E 5 HOH A 28 528 528 HOH HOH . 
E 5 HOH A 29 529 529 HOH HOH . 
E 5 HOH A 30 530 530 HOH HOH . 
E 5 HOH A 31 531 531 HOH HOH . 
E 5 HOH A 32 532 532 HOH HOH . 
E 5 HOH A 33 533 533 HOH HOH . 
E 5 HOH A 34 534 534 HOH HOH . 
E 5 HOH A 35 535 535 HOH HOH . 
E 5 HOH A 36 536 536 HOH HOH . 
E 5 HOH A 37 537 537 HOH HOH . 
E 5 HOH A 38 538 538 HOH HOH . 
E 5 HOH A 39 539 539 HOH HOH . 
E 5 HOH A 40 540 540 HOH HOH . 
E 5 HOH A 41 541 541 HOH HOH . 
E 5 HOH A 42 542 542 HOH HOH . 
E 5 HOH A 43 543 543 HOH HOH . 
E 5 HOH A 44 544 544 HOH HOH . 
E 5 HOH A 45 545 545 HOH HOH . 
E 5 HOH A 46 546 546 HOH HOH . 
E 5 HOH A 47 547 547 HOH HOH . 
E 5 HOH A 48 548 548 HOH HOH . 
E 5 HOH A 49 549 549 HOH HOH . 
E 5 HOH A 50 550 550 HOH HOH . 
E 5 HOH A 51 551 551 HOH HOH . 
E 5 HOH A 52 552 552 HOH HOH . 
E 5 HOH A 53 553 553 HOH HOH . 
E 5 HOH A 54 554 554 HOH HOH . 
E 5 HOH A 55 555 555 HOH HOH . 
E 5 HOH A 56 556 556 HOH HOH . 
E 5 HOH A 57 557 557 HOH HOH . 
E 5 HOH A 58 558 558 HOH HOH . 
E 5 HOH A 59 559 559 HOH HOH . 
E 5 HOH A 60 560 560 HOH HOH . 
E 5 HOH A 61 561 561 HOH HOH . 
E 5 HOH A 62 562 562 HOH HOH . 
E 5 HOH A 63 563 563 HOH HOH . 
E 5 HOH A 64 564 564 HOH HOH . 
E 5 HOH A 65 565 565 HOH HOH . 
E 5 HOH A 66 566 566 HOH HOH . 
E 5 HOH A 67 567 567 HOH HOH . 
E 5 HOH A 68 568 568 HOH HOH . 
E 5 HOH A 69 569 569 HOH HOH . 
E 5 HOH A 70 570 570 HOH HOH . 
E 5 HOH A 71 571 571 HOH HOH . 
E 5 HOH A 72 572 572 HOH HOH . 
E 5 HOH A 73 573 573 HOH HOH . 
E 5 HOH A 74 574 574 HOH HOH . 
E 5 HOH A 75 575 575 HOH HOH . 
E 5 HOH A 76 576 576 HOH HOH . 
E 5 HOH A 77 577 577 HOH HOH . 
E 5 HOH A 78 578 578 HOH HOH . 
E 5 HOH A 79 579 579 HOH HOH . 
E 5 HOH A 80 580 580 HOH HOH . 
E 5 HOH A 81 581 581 HOH HOH . 
E 5 HOH A 82 582 582 HOH HOH . 
E 5 HOH A 83 583 583 HOH HOH . 
E 5 HOH A 84 584 584 HOH HOH . 
E 5 HOH A 85 585 585 HOH HOH . 
E 5 HOH A 86 586 586 HOH HOH . 
E 5 HOH A 87 587 587 HOH HOH . 
E 5 HOH A 88 588 588 HOH HOH . 
E 5 HOH A 89 589 589 HOH HOH . 
E 5 HOH A 90 590 590 HOH HOH . 
E 5 HOH A 91 591 591 HOH HOH . 
E 5 HOH A 92 592 592 HOH HOH . 
E 5 HOH A 93 593 593 HOH HOH . 
E 5 HOH A 94 594 594 HOH HOH . 
E 5 HOH A 95 595 595 HOH HOH . 
E 5 HOH A 96 596 596 HOH HOH . 
E 5 HOH A 97 597 597 HOH HOH . 
E 5 HOH A 98 598 598 HOH HOH . 
E 5 HOH A 99 599 599 HOH HOH . 
E 5 HOH A 100 600 600 HOH HOH . 
E 5 HOH A 101 601 601 HOH HOH . 
E 5 HOH A 102 602 602 HOH HOH . 
E 5 HOH A 103 603 603 HOH HOH . 
E 5 HOH A 104 604 604 HOH HOH . 
E 5 HOH A 105 605 605 HOH HOH . 
E 5 HOH A 106 606 606 HOH HOH . 
E 5 HOH A 107 607 607 HOH HOH . 
E 5 HOH A 108 608 608 HOH HOH . 
E 5 HOH A 109 609 609 HOH HOH . 
E 5 HOH A 110 610 610 HOH HOH . 
E 5 HOH A 111 611 611 HOH HOH . 
E 5 HOH A 112 612 612 HOH HOH . 
E 5 HOH A 113 613 613 HOH HOH . 
E 5 HOH A 114 614 614 HOH HOH . 
E 5 HOH A 115 617 617 HOH HOH . 
E 5 HOH A 116 618 618 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 . . . D 4 17.664 29.516 16.465 1 15.9 ? PB ADP 486 A 1 
HETATM 2 O O1B ADP . . . D 4 17.304 29.912 17.852 1 16.64 ? O1B ADP 486 A 1 
HETATM 3 O O2B ADP . . . D 4 18.736 28.52 16.405 1 17.27 ? O2B ADP 486 A 1 
HETATM 4 O O3B ADP . . . D 4 16.494 29.123 15.661 1 18.68 ? O3B ADP 486 A 1 
HETATM 5 P PA ADP . . . D 4 19.522 31.46 15.138 1 11.82 ? PA ADP 486 A 1 
HETATM 6 O O1A ADP . . . D 4 20.516 30.358 15.203 1 11.41 ? O1A ADP 486 A 1 
HETATM 7 O O2A ADP . . . D 4 19.3 32.162 13.845 1 10.45 ? O2A ADP 486 A 1 
HETATM 8 O O3A ADP . . . D 4 18.151 30.909 15.828 1 14.37 ? O3A ADP 486 A 1 
HETATM 9 O O5' ADP . . . D 4 19.763 32.53 16.229 1 7.49 ? O5' ADP 486 A 1 
HETATM 10 C C5' ADP . . . D 4 18.998 33.694 16.238 1 8.27 ? C5' ADP 486 A 1 
HETATM 11 C C4' ADP . . . D 4 19.364 34.552 17.421 1 8.52 ? C4' ADP 486 A 1 
HETATM 12 O O4' ADP . . . D 4 20.581 35.119 16.973 1 9.45 ? O4' ADP 486 A 1 
HETATM 13 C C3' ADP . . . D 4 18.478 35.797 17.797 1 7.49 ? C3' ADP 486 A 1 
HETATM 14 O O3' ADP . . . D 4 18.637 35.942 19.199 1 7.07 ? O3' ADP 486 A 1 
HETATM 15 C C2' ADP . . . D 4 19.14 36.921 17.033 1 8.21 ? C2' ADP 486 A 1 
HETATM 16 O O2' ADP . . . D 4 18.906 38.185 17.683 1 9.49 ? O2' ADP 486 A 1 
HETATM 17 C C1' ADP . . . D 4 20.593 36.498 17.224 1 8.39 ? C1' ADP 486 A 1 
HETATM 18 N N9 ADP . . . D 4 21.493 37.188 16.28 1 9.51 ? N9 ADP 486 A 1 
HETATM 19 C C8 ADP . . . D 4 21.536 37.31 14.91 1 10.58 ? C8 ADP 486 A 1 
HETATM 20 N N7 ADP . . . D 4 22.427 38.173 14.475 1 11.17 ? N7 ADP 486 A 1 
HETATM 21 C C5 ADP . . . D 4 23.007 38.632 15.666 1 10.39 ? C5 ADP 486 A 1 
HETATM 22 C C6 ADP . . . D 4 24.014 39.552 15.895 1 10.54 ? C6 ADP 486 A 1 
HETATM 23 N N6 ADP . . . D 4 24.53 40.199 14.854 1 11.3 ? N6 ADP 486 A 1 
HETATM 24 N N1 ADP . . . D 4 24.381 39.786 17.173 1 9.97 ? N1 ADP 486 A 1 
HETATM 25 C C2 ADP . . . D 4 23.764 39.125 18.131 1 11 ? C2 ADP 486 A 1 
HETATM 26 N N3 ADP . . . D 4 22.792 38.229 18.042 1 11.81 ? N3 ADP 486 A 1 
HETATM 27 C C4 ADP . . . D 4 22.454 38.033 16.739 1 10.04 ? C4 ADP 486 A 1 
#
_model_server_stats.io_time_ms              6 
_model_server_stats.parse_time_ms           7 
_model_server_stats.create_model_time_ms    3 
_model_server_stats.query_time_ms           258 
_model_server_stats.encode_time_ms          6 
_model_server_stats.element_count           27 
#