data_6Z1E # _model_server_result.job_id CFudCOoTq8jADTjRZAsYJg _model_server_result.datetime_utc '2024-10-10 12:13:24' _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 6z1e # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":301}' # _entry.id 6Z1E # _exptl.entry_id 6Z1E _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 427.201 _entity.id 3 _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 6Z1E _cell.length_a 112.92 _cell.length_b 112.92 _cell.length_c 284.327 _cell.Z_PDB 36 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6Z1E _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,G,H _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2,3 # 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_445 -y-1,x-y-1,z -0.5 -0.866025 0 0.866025 -0.5 0 0 0 1 -56.46 -97.791589 0 3 'crystal symmetry operation' 3_545 -x+y,-x-1,z -0.5 0.866025 0 -0.866025 -0.5 0 0 0 1 56.46 -97.791589 0 # _struct_asym.details ? _struct_asym.entity_id 3 _struct_asym.id E _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 6Z1E _atom_sites.fract_transf_matrix[1][1] 0.008856 _atom_sites.fract_transf_matrix[1][2] 0.005113 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.010226 _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] 0.003517 _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 C 2 CL A 1 301 1 CL CL . D 2 CL A 1 302 2 CL CL . E 3 ADP B 1 301 1 ADP ADP . F 2 CL B 1 302 3 CL CL . G 4 HOH A 1 401 9 HOH HOH . G 4 HOH A 2 402 4 HOH HOH . G 4 HOH A 3 403 8 HOH HOH . G 4 HOH A 4 404 5 HOH HOH . G 4 HOH A 5 405 12 HOH HOH . G 4 HOH A 6 406 2 HOH HOH . G 4 HOH A 7 407 6 HOH HOH . G 4 HOH A 8 408 13 HOH HOH . G 4 HOH A 9 409 1 HOH HOH . H 4 HOH B 1 401 7 HOH HOH . H 4 HOH B 2 402 14 HOH HOH . H 4 HOH B 3 403 11 HOH HOH . H 4 HOH B 4 404 10 HOH HOH . H 4 HOH B 5 405 3 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 . . . E 3 -10.964 -34.591 -20.59 1 58.95 ? PB ADP 301 B 1 HETATM 2 O O1B ADP . . . E 3 -10.257 -34.331 -21.85 1 59.36 ? O1B ADP 301 B 1 HETATM 3 O O2B ADP . . . E 3 -10.337 -34.162 -19.337 1 57.29 ? O2B ADP 301 B 1 HETATM 4 O O3B ADP . . . E 3 -11.919 -35.703 -20.512 1 55.95 ? O3B ADP 301 B 1 HETATM 5 P PA ADP . . . E 3 -12.79 -32.674 -21.795 1 57.76 ? PA ADP 301 B 1 HETATM 6 O O1A ADP . . . E 3 -13.175 -33.777 -22.696 1 61.88 ? O1A ADP 301 B 1 HETATM 7 O O2A ADP . . . E 3 -12.125 -31.497 -22.381 1 52.94 ? O2A ADP 301 B 1 HETATM 8 O O3A ADP . . . E 3 -11.924 -33.301 -20.596 1 50.63 ? O3A ADP 301 B 1 HETATM 9 O O5' ADP . . . E 3 -14.144 -32.258 -21.003 1 72.69 ? O5' ADP 301 B 1 HETATM 10 C C5' ADP . . . E 3 -15.468 -32.65 -21.359 1 70.07 ? C5' ADP 301 B 1 HETATM 11 C C4' ADP . . . E 3 -16.006 -31.275 -21.793 1 68.91 ? C4' ADP 301 B 1 HETATM 12 O O4' ADP . . . E 3 -16.68 -30.609 -20.575 1 63.37 ? O4' ADP 301 B 1 HETATM 13 C C3' ADP . . . E 3 -15.618 -30.185 -22.712 1 84.7 ? C3' ADP 301 B 1 HETATM 14 O O3' ADP . . . E 3 -15.757 -30.627 -24.033 1 88.95 ? O3' ADP 301 B 1 HETATM 15 C C2' ADP . . . E 3 -17.036 -29.421 -22.234 1 72.92 ? C2' ADP 301 B 1 HETATM 16 O O2' ADP . . . E 3 -18.323 -29.993 -22.763 1 82.07 ? O2' ADP 301 B 1 HETATM 17 C C1' ADP . . . E 3 -17.058 -29.177 -20.762 1 63.84 ? C1' ADP 301 B 1 HETATM 18 N N9 ADP . . . E 3 -15.828 -28.303 -20.872 1 66.34 ? N9 ADP 301 B 1 HETATM 19 C C8 ADP . . . E 3 -14.591 -28.597 -20.44 1 69.75 ? C8 ADP 301 B 1 HETATM 20 N N7 ADP . . . E 3 -13.818 -27.512 -20.531 1 61.4 ? N7 ADP 301 B 1 HETATM 21 C C5 ADP . . . E 3 -14.58 -26.491 -20.887 1 57.93 ? C5 ADP 301 B 1 HETATM 22 C C6 ADP . . . E 3 -14.286 -25.198 -21.088 1 64.97 ? C6 ADP 301 B 1 HETATM 23 N N6 ADP . . . E 3 -13.022 -24.811 -20.908 1 57.67 ? N6 ADP 301 B 1 HETATM 24 N N1 ADP . . . E 3 -15.213 -24.312 -21.461 1 62.36 ? N1 ADP 301 B 1 HETATM 25 C C2 ADP . . . E 3 -16.523 -24.765 -21.631 1 58.78 ? C2 ADP 301 B 1 HETATM 26 N N3 ADP . . . E 3 -16.813 -26.123 -21.411 1 51.35 ? N3 ADP 301 B 1 HETATM 27 C C4 ADP . . . E 3 -15.831 -26.963 -21.041 1 57.73 ? C4 ADP 301 B 1 HETATM 28 H "H5'1" ADP . . . E 3 -16.01 -33.043 -20.495 1 84.08 ? "H5'1" ADP 301 B 1 HETATM 29 H "H5'2" ADP . . . E 3 -15.461 -33.362 -22.187 1 84.08 ? "H5'2" ADP 301 B 1 HETATM 30 H H4' ADP . . . E 3 -16.917 -31.602 -22.293 1 82.7 ? H4' ADP 301 B 1 HETATM 31 H H3' ADP . . . E 3 -14.711 -29.658 -22.413 1 101.65 ? H3' ADP 301 B 1 HETATM 32 H HO3' ADP . . . E 3 -16.709 -30.884 -24.2 1 106.75 ? HO3' ADP 301 B 1 HETATM 33 H H2' ADP . . . E 3 -17.007 -28.435 -22.696 1 87.5 ? H2' ADP 301 B 1 HETATM 34 H HO2' ADP . . . E 3 -18.413 -30.943 -22.465 1 98.48 ? HO2' ADP 301 B 1 HETATM 35 H H1' ADP . . . E 3 -18.025 -28.813 -20.413 1 76.61 ? H1' ADP 301 B 1 HETATM 36 H H8 ADP . . . E 3 -14.239 -29.596 -20.184 1 83.7 ? H8 ADP 301 B 1 HETATM 37 H HN61 ADP . . . E 3 -12.329 -25.478 -20.631 1 69.21 ? HN61 ADP 301 B 1 HETATM 38 H HN62 ADP . . . E 3 -12.767 -23.855 -21.049 1 69.21 ? HN62 ADP 301 B 1 HETATM 39 H H2 ADP . . . E 3 -17.312 -24.073 -21.928 1 70.53 ? H2 ADP 301 B 1 # _model_server_stats.io_time_ms 29 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 8 _model_server_stats.query_time_ms 266 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 39 #