data_2VTK # _model_server_result.job_id XybtY849nvABExApCV7pXA _model_server_result.datetime_utc '2024-11-23 11:53:27' _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 2vtk # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":400}' # _entry.id 2VTK # _exptl.entry_id 2VTK _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 2VTK _cell.length_a 84.1 _cell.length_b 84.1 _cell.length_c 155.36 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2VTK _symmetry.cell_setting ? _symmetry.Int_Tables_number 80 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'I 41' # _pdbx_struct_assembly.method_details PISA,PQS _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 _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' 6_655 -x+1,-y,z -1 0 0 0 -1 0 0 0 1 84.1 0 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 # _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 2VTK _atom_sites.fract_transf_matrix[1][1] 0.011891 _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] 0.011891 _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] 0.006437 _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 1 400 400 ADP ADP . C 3 THM A 1 500 500 THM THM . D 4 HOH A 1 601 601 HOH HOH . D 4 HOH A 2 602 602 HOH HOH . D 4 HOH A 3 603 603 HOH HOH . D 4 HOH A 4 604 604 HOH HOH . D 4 HOH A 5 605 605 HOH HOH . D 4 HOH A 6 606 606 HOH HOH . D 4 HOH A 7 607 607 HOH HOH . D 4 HOH A 8 608 608 HOH HOH . D 4 HOH A 9 609 609 HOH HOH . D 4 HOH A 10 610 610 HOH HOH . D 4 HOH A 11 611 611 HOH HOH . D 4 HOH A 12 612 612 HOH HOH . D 4 HOH A 13 613 613 HOH HOH . D 4 HOH A 14 614 614 HOH HOH . D 4 HOH A 15 615 615 HOH HOH . D 4 HOH A 16 616 616 HOH HOH . D 4 HOH A 17 617 617 HOH HOH . D 4 HOH A 18 618 618 HOH HOH . D 4 HOH A 19 619 619 HOH HOH . D 4 HOH A 20 620 620 HOH HOH . D 4 HOH A 21 621 621 HOH HOH . D 4 HOH A 22 622 622 HOH HOH . D 4 HOH A 23 623 623 HOH HOH . D 4 HOH A 24 624 624 HOH HOH . D 4 HOH A 25 625 625 HOH HOH . D 4 HOH A 26 626 626 HOH HOH . D 4 HOH A 27 627 627 HOH HOH . D 4 HOH A 28 628 628 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 39.101 24.807 35.234 1 36.63 ? PB ADP 400 A 1 HETATM 2 O O1B ADP . . . B 2 37.823 24.872 35.993 1 28.01 ? O1B ADP 400 A 1 HETATM 3 O O2B ADP . . . B 2 40.222 24.528 36.133 1 28.18 ? O2B ADP 400 A 1 HETATM 4 O O3B ADP . . . B 2 39.017 23.752 34.192 1 31.45 ? O3B ADP 400 A 1 HETATM 5 P PA ADP . . . B 2 39.859 27.438 34.713 1 42.77 ? PA ADP 400 A 1 HETATM 6 O O1A ADP . . . B 2 39.98 27.797 36.147 1 43.43 ? O1A ADP 400 A 1 HETATM 7 O O2A ADP . . . B 2 41.085 27.747 33.951 1 41.42 ? O2A ADP 400 A 1 HETATM 8 O O3A ADP . . . B 2 39.32 26.067 34.476 1 40.02 ? O3A ADP 400 A 1 HETATM 9 O O5' ADP . . . B 2 38.753 28.452 34.117 1 42.23 ? O5' ADP 400 A 1 HETATM 10 C C5' ADP . . . B 2 38.226 28.33 32.793 1 42.83 ? C5' ADP 400 A 1 HETATM 11 C C4' ADP . . . B 2 38.281 29.669 32.029 1 44.61 ? C4' ADP 400 A 1 HETATM 12 O O4' ADP . . . B 2 37.332 30.639 32.58 1 46.46 ? O4' ADP 400 A 1 HETATM 13 C C3' ADP . . . B 2 39.641 30.329 32.104 1 43.56 ? C3' ADP 400 A 1 HETATM 14 O O3' ADP . . . B 2 39.883 30.946 30.837 1 46.44 ? O3' ADP 400 A 1 HETATM 15 C C2' ADP . . . B 2 39.523 31.399 33.129 1 45.85 ? C2' ADP 400 A 1 HETATM 16 O O2' ADP . . . B 2 40.31 32.528 32.756 1 46.81 ? O2' ADP 400 A 1 HETATM 17 C C1' ADP . . . B 2 38.046 31.77 33.188 1 48.24 ? C1' ADP 400 A 1 HETATM 18 N N9 ADP . . . B 2 37.595 32.029 34.574 1 52.23 ? N9 ADP 400 A 1 HETATM 19 C C8 ADP . . . B 2 38.046 31.455 35.755 1 55.45 ? C8 ADP 400 A 1 HETATM 20 N N7 ADP . . . B 2 37.413 31.906 36.81 1 59.82 ? N7 ADP 400 A 1 HETATM 21 C C5 ADP . . . B 2 36.477 32.82 36.375 1 60.6 ? C5 ADP 400 A 1 HETATM 22 C C6 ADP . . . B 2 35.507 33.609 37.024 1 61.93 ? C6 ADP 400 A 1 HETATM 23 N N6 ADP . . . B 2 35.351 33.612 38.349 1 63.09 ? N6 ADP 400 A 1 HETATM 24 N N1 ADP . . . B 2 34.772 34.438 36.262 1 63.09 ? N1 ADP 400 A 1 HETATM 25 C C2 ADP . . . B 2 34.959 34.443 34.943 1 63.07 ? C2 ADP 400 A 1 HETATM 26 N N3 ADP . . . B 2 35.827 33.746 34.202 1 63.48 ? N3 ADP 400 A 1 HETATM 27 C C4 ADP . . . B 2 36.586 32.913 34.963 1 58.29 ? C4 ADP 400 A 1 # _model_server_stats.io_time_ms 50 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 269 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 27 #