data_2R7N # _model_server_result.job_id LKSiaaJqRvV2H4eabnr-7w _model_server_result.datetime_utc '2024-12-25 05:59:58' _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 2r7n # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":400}' # _entry.id 2R7N # _exptl.entry_id 2R7N _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 120 _cell.entry_id 2R7N _cell.length_a 108.001 _cell.length_b 108.001 _cell.length_c 254.275 _cell.Z_PDB 18 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2R7N _symmetry.cell_setting ? _symmetry.Int_Tables_number 155 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'H 3 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 _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2,3,4,5,6 # 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' 2_555 -y,x-y,z -0.5 -0.866025 0 0.866025 -0.5 0 0 0 1 0 0 0 3 'crystal symmetry operation' 3_555 -x+y,-x,z -0.5 0.866025 0 -0.866025 -0.5 0 0 0 1 0 0 0 4 'crystal symmetry operation' 4_555 y,x,-z -0.5 0.866025 0 0.866025 0.5 0 0 0 -1 0 0 0 5 'crystal symmetry operation' 5_555 x-y,-y,-z 1 0 0 0 -1 0 0 0 -1 0 0 0 6 'crystal symmetry operation' 6_555 -x,-x+y,-z -0.5 -0.866025 0 -0.866025 0.5 0 0 0 -1 0 0 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 # _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 2R7N _atom_sites.fract_transf_matrix[1][1] 0.009259 _atom_sites.fract_transf_matrix[1][2] 0.005346 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.010692 _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] 0.003933 _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 SO4 A 1 500 500 SO4 SO4 . C 3 CL A 1 602 602 CL CL . D 4 ADP A 1 400 400 ADP ADP . E 5 FAI A 1 401 401 FAI FAI . F 6 HOH A 1 603 1 HOH HOH . F 6 HOH A 2 604 2 HOH HOH . F 6 HOH A 3 605 3 HOH HOH . F 6 HOH A 4 606 4 HOH HOH . F 6 HOH A 5 607 5 HOH HOH . F 6 HOH A 6 608 6 HOH HOH . F 6 HOH A 7 609 7 HOH HOH . F 6 HOH A 8 610 8 HOH HOH . F 6 HOH A 9 611 9 HOH HOH . F 6 HOH A 10 612 10 HOH HOH . F 6 HOH A 11 613 11 HOH HOH . F 6 HOH A 12 614 12 HOH HOH . F 6 HOH A 13 615 13 HOH HOH . F 6 HOH A 14 616 14 HOH HOH . F 6 HOH A 15 617 15 HOH HOH . F 6 HOH A 16 618 16 HOH HOH . F 6 HOH A 17 619 17 HOH HOH . F 6 HOH A 18 620 18 HOH HOH . F 6 HOH A 19 621 19 HOH HOH . F 6 HOH A 20 622 20 HOH HOH . F 6 HOH A 21 623 21 HOH HOH . F 6 HOH A 22 624 22 HOH HOH . F 6 HOH A 23 625 23 HOH HOH . F 6 HOH A 24 626 24 HOH HOH . F 6 HOH A 25 627 25 HOH HOH . F 6 HOH A 26 628 26 HOH HOH . F 6 HOH A 27 629 27 HOH HOH . F 6 HOH A 28 630 28 HOH HOH . F 6 HOH A 29 631 29 HOH HOH . F 6 HOH A 30 632 30 HOH HOH . F 6 HOH A 31 633 31 HOH HOH . F 6 HOH A 32 634 32 HOH HOH . F 6 HOH A 33 635 33 HOH HOH . F 6 HOH A 34 636 34 HOH HOH . F 6 HOH A 35 637 35 HOH HOH . F 6 HOH A 36 638 36 HOH HOH . F 6 HOH A 37 639 37 HOH HOH . F 6 HOH A 38 640 38 HOH HOH . F 6 HOH A 39 641 39 HOH HOH . F 6 HOH A 40 642 40 HOH HOH . F 6 HOH A 41 643 41 HOH HOH . F 6 HOH A 42 644 42 HOH HOH . F 6 HOH A 43 645 43 HOH HOH . F 6 HOH A 44 646 44 HOH HOH . F 6 HOH A 45 647 45 HOH HOH . F 6 HOH A 46 648 46 HOH HOH . F 6 HOH A 47 649 47 HOH HOH . F 6 HOH A 48 650 48 HOH HOH . F 6 HOH A 49 651 49 HOH HOH . F 6 HOH A 50 652 50 HOH HOH . F 6 HOH A 51 653 51 HOH HOH . F 6 HOH A 52 654 52 HOH HOH . F 6 HOH A 53 655 53 HOH HOH . F 6 HOH A 54 656 54 HOH HOH . F 6 HOH A 55 657 55 HOH HOH . F 6 HOH A 56 658 56 HOH HOH . F 6 HOH A 57 659 57 HOH HOH . F 6 HOH A 58 660 58 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 15.754 9.547 32.371 1 90.21 ? PB ADP 400 A 1 HETATM 2 O O1B ADP . . . D 4 16.415 10.801 31.835 1 85.79 ? O1B ADP 400 A 1 HETATM 3 O O2B ADP . . . D 4 16.642 8.717 33.279 1 73.54 ? O2B ADP 400 A 1 HETATM 4 O O3B ADP . . . D 4 15.02 8.743 31.311 1 86.61 ? O3B ADP 400 A 1 HETATM 5 P PA ADP . . . D 4 14.815 10.417 34.88 1 54.56 ? PA ADP 400 A 1 HETATM 6 O O1A ADP . . . D 4 14.627 11.902 35.085 1 53.98 ? O1A ADP 400 A 1 HETATM 7 O O2A ADP . . . D 4 16.061 9.685 35.298 1 55 ? O2A ADP 400 A 1 HETATM 8 O O3A ADP . . . D 4 14.564 10.108 33.319 1 73.59 ? O3A ADP 400 A 1 HETATM 9 O O5' ADP . . . D 4 13.623 9.67 35.642 1 42.04 ? O5' ADP 400 A 1 HETATM 10 C C5' ADP . . . D 4 13.646 8.256 35.705 1 40.09 ? C5' ADP 400 A 1 HETATM 11 C C4' ADP . . . D 4 12.202 7.829 35.885 1 48.02 ? C4' ADP 400 A 1 HETATM 12 O O4' ADP . . . D 4 11.759 8.205 37.194 1 46.3 ? O4' ADP 400 A 1 HETATM 13 C C3' ADP . . . D 4 11.286 8.545 34.9 1 45.66 ? C3' ADP 400 A 1 HETATM 14 O O3' ADP . . . D 4 11.083 7.778 33.712 1 50.5 ? O3' ADP 400 A 1 HETATM 15 C C2' ADP . . . D 4 10.003 8.75 35.681 1 46.36 ? C2' ADP 400 A 1 HETATM 16 O O2' ADP . . . D 4 9.123 7.64 35.507 1 43.2 ? O2' ADP 400 A 1 HETATM 17 C C1' ADP . . . D 4 10.473 8.813 37.132 1 38.12 ? C1' ADP 400 A 1 HETATM 18 N N9 ADP . . . D 4 10.58 10.241 37.446 1 34.35 ? N9 ADP 400 A 1 HETATM 19 C C8 ADP . . . D 4 11.575 11.07 37.081 1 36.42 ? C8 ADP 400 A 1 HETATM 20 N N7 ADP . . . D 4 11.327 12.337 37.513 1 37.23 ? N7 ADP 400 A 1 HETATM 21 C C5 ADP . . . D 4 10.144 12.32 38.164 1 35.33 ? C5 ADP 400 A 1 HETATM 22 C C6 ADP . . . D 4 9.302 13.304 38.877 1 34.75 ? C6 ADP 400 A 1 HETATM 23 N N6 ADP . . . D 4 9.661 14.608 38.979 1 36.76 ? N6 ADP 400 A 1 HETATM 24 N N1 ADP . . . D 4 8.142 12.867 39.401 1 40.71 ? N1 ADP 400 A 1 HETATM 25 C C2 ADP . . . D 4 7.756 11.578 39.305 1 42.33 ? C2 ADP 400 A 1 HETATM 26 N N3 ADP . . . D 4 8.472 10.626 38.684 1 40.05 ? N3 ADP 400 A 1 HETATM 27 C C4 ADP . . . D 4 9.652 10.937 38.101 1 37.95 ? C4 ADP 400 A 1 # _model_server_stats.io_time_ms 7 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 516 _model_server_stats.encode_time_ms 10 _model_server_stats.element_count 27 #