data_3MBL
#
_model_server_result.job_id            m-I_UoKahz6vffQMss6wiQ 
_model_server_result.datetime_utc      '2024-11-07 21:51:11' 
_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          3mbl 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"B","auth_seq_id":535}' 
#
_entry.id    3MBL 
#
_exptl.entry_id    3MBL 
_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         120 
_cell.entry_id            3MBL 
_cell.length_a            81.982 
_cell.length_b            81.982 
_cell.length_c            129.928 
_cell.Z_PDB               6 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 3MBL 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        171 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 62' 
#
loop_
_pdbx_struct_assembly.method_details
_pdbx_struct_assembly.oligomeric_details
_pdbx_struct_assembly.oligomeric_count
_pdbx_struct_assembly.details
_pdbx_struct_assembly.id
PISA dimeric 2 software_defined_assembly 1 
? monomeric 1 author_defined_assembly 2 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,B,C,D,E 1 1,2 
A,B,C,D,E 2 1 
#
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_665 -x+1,-y+1,z -1 0 0 0 -1 0 0 0 1 40.991 70.998495 0 
#
_struct_asym.details                        ? 
_struct_asym.entity_id                      2 
_struct_asym.id                             B 
_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 135 A ASN 195 1_555 C MG MG . A MG 536 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.057 ? 
metalc ? metalc2 A OD2 ASP 148 A ASP 208 1_555 C MG MG . A MG 536 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.962 ? 
metalc ? metalc3 B O1B ADP . A ADP 535 1_555 C MG MG . A MG 536 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.932 ? 
metalc ? metalc4 B O2A ADP . A ADP 535 1_555 C MG MG . A MG 536 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.055 ? 
metalc ? metalc5 C MG MG . A MG 536 1_555 E O HOH . A HOH 617 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.27 ? 
metalc ? metalc6 C MG MG . A MG 536 1_555 E O HOH . A HOH 649 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.229 ? 
#
_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                     3MBL 
_atom_sites.fract_transf_matrix[1][1]    0.012198 
_atom_sites.fract_transf_matrix[1][2]    0.007042 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.014085 
_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]    0.007697 
_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 ADP A 1 535 535 ADP ADP . 
C 3 MG A 1 536 536 MG MG . 
D 4 LSG A 1 7 7 LSG LSG . 
E 5 HOH A 1 541 541 HOH HOH . 
E 5 HOH A 2 542 542 HOH HOH . 
E 5 HOH A 3 548 548 HOH HOH . 
E 5 HOH A 4 558 558 HOH HOH . 
E 5 HOH A 5 560 560 HOH HOH . 
E 5 HOH A 6 563 563 HOH HOH . 
E 5 HOH A 7 571 571 HOH HOH . 
E 5 HOH A 8 579 579 HOH HOH . 
E 5 HOH A 9 580 580 HOH HOH . 
E 5 HOH A 10 583 583 HOH HOH . 
E 5 HOH A 11 585 585 HOH HOH . 
E 5 HOH A 12 591 591 HOH HOH . 
E 5 HOH A 13 594 594 HOH HOH . 
E 5 HOH A 14 596 596 HOH HOH . 
E 5 HOH A 15 598 598 HOH HOH . 
E 5 HOH A 16 599 599 HOH HOH . 
E 5 HOH A 17 601 601 HOH HOH . 
E 5 HOH A 18 602 602 HOH HOH . 
E 5 HOH A 19 604 604 HOH HOH . 
E 5 HOH A 20 606 606 HOH HOH . 
E 5 HOH A 21 610 610 HOH HOH . 
E 5 HOH A 22 612 612 HOH HOH . 
E 5 HOH A 23 614 614 HOH HOH . 
E 5 HOH A 24 615 615 HOH HOH . 
E 5 HOH A 25 617 617 HOH HOH . 
E 5 HOH A 26 622 622 HOH HOH . 
E 5 HOH A 27 623 623 HOH HOH . 
E 5 HOH A 28 624 624 HOH HOH . 
E 5 HOH A 29 626 626 HOH HOH . 
E 5 HOH A 30 631 631 HOH HOH . 
E 5 HOH A 31 640 640 HOH HOH . 
E 5 HOH A 32 642 642 HOH HOH . 
E 5 HOH A 33 643 643 HOH HOH . 
E 5 HOH A 34 644 644 HOH HOH . 
E 5 HOH A 35 645 645 HOH HOH . 
E 5 HOH A 36 646 646 HOH HOH . 
E 5 HOH A 37 647 647 HOH HOH . 
E 5 HOH A 38 648 648 HOH HOH . 
E 5 HOH A 39 649 649 HOH HOH . 
E 5 HOH A 40 650 650 HOH HOH . 
E 5 HOH A 41 651 651 HOH HOH . 
E 5 HOH A 42 652 652 HOH HOH . 
E 5 HOH A 43 653 653 HOH HOH . 
E 5 HOH A 44 654 654 HOH HOH . 
E 5 HOH A 45 655 655 HOH HOH . 
E 5 HOH A 46 656 656 HOH HOH . 
E 5 HOH A 47 657 657 HOH HOH . 
E 5 HOH A 48 658 658 HOH HOH . 
E 5 HOH A 49 659 659 HOH HOH . 
E 5 HOH A 50 660 660 HOH HOH . 
E 5 HOH A 51 661 661 HOH HOH . 
E 5 HOH A 52 662 662 HOH HOH . 
E 5 HOH A 53 663 663 HOH HOH . 
E 5 HOH A 54 664 664 HOH HOH . 
E 5 HOH A 55 665 665 HOH HOH . 
E 5 HOH A 56 666 666 HOH HOH . 
E 5 HOH A 57 667 667 HOH HOH . 
E 5 HOH A 58 668 668 HOH HOH . 
E 5 HOH A 59 669 669 HOH HOH . 
E 5 HOH A 60 670 670 HOH HOH . 
E 5 HOH A 61 671 671 HOH HOH . 
E 5 HOH A 62 672 672 HOH HOH . 
E 5 HOH A 63 673 673 HOH HOH . 
E 5 HOH A 64 674 674 HOH HOH . 
E 5 HOH A 65 675 675 HOH HOH . 
E 5 HOH A 66 676 676 HOH HOH . 
E 5 HOH A 67 677 677 HOH HOH . 
E 5 HOH A 68 678 678 HOH HOH . 
E 5 HOH A 69 679 679 HOH HOH . 
E 5 HOH A 70 680 680 HOH HOH . 
E 5 HOH A 71 681 681 HOH HOH . 
E 5 HOH A 72 682 682 HOH HOH . 
E 5 HOH A 73 683 683 HOH HOH . 
E 5 HOH A 74 684 684 HOH HOH . 
E 5 HOH A 75 685 685 HOH HOH . 
E 5 HOH A 76 686 686 HOH HOH . 
E 5 HOH A 77 687 687 HOH HOH . 
E 5 HOH A 78 688 688 HOH HOH . 
E 5 HOH A 79 690 690 HOH HOH . 
E 5 HOH A 80 691 691 HOH HOH . 
E 5 HOH A 81 692 692 HOH HOH . 
E 5 HOH A 82 693 693 HOH HOH . 
E 5 HOH A 83 694 694 HOH HOH . 
E 5 HOH A 84 695 695 HOH HOH . 
E 5 HOH A 85 696 696 HOH HOH . 
E 5 HOH A 86 697 697 HOH HOH . 
E 5 HOH A 87 698 698 HOH HOH . 
E 5 HOH A 88 699 699 HOH HOH . 
E 5 HOH A 89 700 700 HOH HOH . 
E 5 HOH A 90 701 701 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 . . . B 2 30.768 36.633 38.898 1 65.64 ? PB ADP 535 A 1 
HETATM 2 O O1B ADP . . . B 2 32.069 35.857 38.841 1 66.27 ? O1B ADP 535 A 1 
HETATM 3 O O2B ADP . . . B 2 30.915 38.141 38.953 1 59.78 ? O2B ADP 535 A 1 
HETATM 4 O O3B ADP . . . B 2 29.757 36.088 37.912 1 69.01 ? O3B ADP 535 A 1 
HETATM 5 P PA ADP . . . B 2 30.569 35.407 41.497 1 59.57 ? PA ADP 535 A 1 
HETATM 6 O O1A ADP . . . B 2 29.393 34.957 42.285 1 61.76 ? O1A ADP 535 A 1 
HETATM 7 O O2A ADP . . . B 2 31.492 34.265 41.049 1 60.87 ? O2A ADP 535 A 1 
HETATM 8 O O3A ADP . . . B 2 30.089 36.366 40.333 1 58.35 ? O3A ADP 535 A 1 
HETATM 9 O O5' ADP . . . B 2 31.472 36.452 42.274 1 60.38 ? O5' ADP 535 A 1 
HETATM 10 C C5' ADP . . . B 2 31.045 37.551 43.04 1 62.68 ? C5' ADP 535 A 1 
HETATM 11 C C4' ADP . . . B 2 32.266 38.467 43.189 1 70.13 ? C4' ADP 535 A 1 
HETATM 12 O O4' ADP . . . B 2 32.964 38.199 44.397 1 68.35 ? O4' ADP 535 A 1 
HETATM 13 C C3' ADP . . . B 2 33.31 38.268 42.113 1 65.62 ? C3' ADP 535 A 1 
HETATM 14 O O3' ADP . . . B 2 33.025 39.199 41.101 1 71.32 ? O3' ADP 535 A 1 
HETATM 15 C C2' ADP . . . B 2 34.589 38.701 42.776 1 62.22 ? C2' ADP 535 A 1 
HETATM 16 O O2' ADP . . . B 2 34.672 40.109 42.671 1 70.08 ? O2' ADP 535 A 1 
HETATM 17 C C1' ADP . . . B 2 34.353 38.392 44.218 1 61.4 ? C1' ADP 535 A 1 
HETATM 18 N N9 ADP . . . B 2 35.013 37.115 44.561 1 55.92 ? N9 ADP 535 A 1 
HETATM 19 C C8 ADP . . . B 2 34.63 35.905 44.199 1 52.35 ? C8 ADP 535 A 1 
HETATM 20 N N7 ADP . . . B 2 35.494 34.983 44.682 1 53.75 ? N7 ADP 535 A 1 
HETATM 21 C C5 ADP . . . B 2 36.442 35.639 45.379 1 52.86 ? C5 ADP 535 A 1 
HETATM 22 C C6 ADP . . . B 2 37.642 35.299 46.161 1 54.48 ? C6 ADP 535 A 1 
HETATM 23 N N6 ADP . . . B 2 38.017 33.998 46.278 1 48.83 ? N6 ADP 535 A 1 
HETATM 24 N N1 ADP . . . B 2 38.373 36.318 46.714 1 56.26 ? N1 ADP 535 A 1 
HETATM 25 C C2 ADP . . . B 2 38.058 37.607 46.588 1 50.21 ? C2 ADP 535 A 1 
HETATM 26 N N3 ADP . . . B 2 36.972 37.973 45.904 1 56.71 ? N3 ADP 535 A 1 
HETATM 27 C C4 ADP . . . B 2 36.141 37.048 45.294 1 55.95 ? C4 ADP 535 A 1 
#
_model_server_stats.io_time_ms              20 
_model_server_stats.parse_time_ms           25 
_model_server_stats.create_model_time_ms    23 
_model_server_stats.query_time_ms           359 
_model_server_stats.encode_time_ms          9 
_model_server_stats.element_count           27 
#