data_2ZI3 # _model_server_result.job_id n6b5P6Evxz0Fe5nf4Q8UjQ _model_server_result.datetime_utc '2024-11-04 22:16:48' _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 2zi3 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":301}' # _entry.id 2ZI3 # _exptl.entry_id 2ZI3 _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 2 _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 2ZI3 _cell.length_a 52.44 _cell.length_b 133.29 _cell.length_c 156.73 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2ZI3 _symmetry.cell_setting ? _symmetry.Int_Tables_number 20 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 2 2 21' # _pdbx_struct_assembly.method_details PISA _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,E,F,G,H _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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 2 C N N ? 2 E N 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 34 n n PB O2B ADP sing 35 n n PB O3B ADP sing 36 n n PB O3A ADP sing 37 n n O2B HOB2 ADP sing 38 n n O3B HOB3 ADP sing 39 n n PA O1A ADP doub 40 n n PA O2A ADP sing 41 n n PA O3A ADP sing 42 n n PA O5' ADP sing 43 n n O2A HOA2 ADP sing 44 n n O5' C5' ADP sing 45 n n C5' C4' ADP sing 46 n n C5' "H5'1" ADP sing 47 n n C5' "H5'2" ADP sing 48 n n C4' O4' ADP sing 49 n n C4' C3' ADP sing 50 n n C4' H4' ADP sing 51 n n O4' C1' ADP sing 52 n n C3' O3' ADP sing 53 n n C3' C2' ADP sing 54 n n C3' H3' ADP sing 55 n n O3' HO3' ADP sing 56 n n C2' O2' ADP sing 57 n n C2' C1' ADP sing 58 n n C2' H2' ADP sing 59 n n O2' HO2' ADP sing 60 n n C1' N9 ADP sing 61 n n C1' H1' ADP sing 62 n n N9 C8 ADP sing 63 n y N9 C4 ADP sing 64 n y C8 N7 ADP doub 65 n y C8 H8 ADP sing 66 n n N7 C5 ADP sing 67 n y C5 C6 ADP sing 68 n y C5 C4 ADP doub 69 n y C6 N6 ADP sing 70 n n C6 N1 ADP doub 71 n y N6 HN61 ADP sing 72 n n N6 HN62 ADP sing 73 n n N1 C2 ADP sing 74 n y C2 N3 ADP doub 75 n y C2 H2 ADP sing 76 n n N3 C4 ADP sing 77 n y # _atom_sites.entry_id 2ZI3 _atom_sites.fract_transf_matrix[1][1] 0.019069 _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] 0.007502 _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] 0.00638 _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 ADP A 1 301 301 ADP ADP . D 3 3D1 A 1 302 302 3D1 DAD . E 2 ADP B 1 301 301 ADP ADP . F 3 3D1 B 1 302 302 3D1 DAD . G 4 HOH A 1 303 2 HOH HOH . G 4 HOH A 2 304 3 HOH HOH . G 4 HOH A 3 305 4 HOH HOH . G 4 HOH A 4 306 7 HOH HOH . G 4 HOH A 5 307 8 HOH HOH . G 4 HOH A 6 308 14 HOH HOH . G 4 HOH A 7 309 17 HOH HOH . G 4 HOH A 8 310 19 HOH HOH . G 4 HOH A 9 311 20 HOH HOH . G 4 HOH A 10 312 21 HOH HOH . G 4 HOH A 11 313 22 HOH HOH . G 4 HOH A 12 314 26 HOH HOH . G 4 HOH A 13 315 30 HOH HOH . G 4 HOH A 14 316 32 HOH HOH . G 4 HOH A 15 317 34 HOH HOH . G 4 HOH A 16 318 35 HOH HOH . G 4 HOH A 17 319 40 HOH HOH . G 4 HOH A 18 320 41 HOH HOH . G 4 HOH A 19 321 42 HOH HOH . G 4 HOH A 20 322 43 HOH HOH . G 4 HOH A 21 323 44 HOH HOH . G 4 HOH A 22 324 70 HOH HOH . G 4 HOH A 23 325 73 HOH HOH . G 4 HOH A 24 326 75 HOH HOH . G 4 HOH A 25 327 77 HOH HOH . G 4 HOH A 26 328 86 HOH HOH . G 4 HOH A 27 329 87 HOH HOH . G 4 HOH A 28 330 88 HOH HOH . G 4 HOH A 29 331 90 HOH HOH . G 4 HOH A 30 332 93 HOH HOH . G 4 HOH A 31 333 96 HOH HOH . G 4 HOH A 32 334 97 HOH HOH . G 4 HOH A 33 335 98 HOH HOH . G 4 HOH A 34 336 100 HOH HOH . G 4 HOH A 35 337 102 HOH HOH . G 4 HOH A 36 338 104 HOH HOH . G 4 HOH A 37 339 105 HOH HOH . G 4 HOH A 38 340 106 HOH HOH . G 4 HOH A 39 341 109 HOH HOH . G 4 HOH A 40 342 110 HOH HOH . G 4 HOH A 41 343 111 HOH HOH . G 4 HOH A 42 344 113 HOH HOH . G 4 HOH A 43 345 114 HOH HOH . G 4 HOH A 44 346 117 HOH HOH . G 4 HOH A 45 347 120 HOH HOH . G 4 HOH A 46 348 122 HOH HOH . G 4 HOH A 47 349 123 HOH HOH . G 4 HOH A 48 350 125 HOH HOH . G 4 HOH A 49 351 127 HOH HOH . G 4 HOH A 50 352 128 HOH HOH . G 4 HOH A 51 353 129 HOH HOH . G 4 HOH A 52 354 130 HOH HOH . G 4 HOH A 53 355 131 HOH HOH . G 4 HOH A 54 356 136 HOH HOH . G 4 HOH A 55 357 137 HOH HOH . G 4 HOH A 56 358 141 HOH HOH . G 4 HOH A 57 359 143 HOH HOH . G 4 HOH A 58 360 144 HOH HOH . G 4 HOH A 59 361 115 HOH HOH . G 4 HOH A 60 362 138 HOH HOH . H 4 HOH B 1 303 1 HOH HOH . H 4 HOH B 2 304 5 HOH HOH . H 4 HOH B 3 305 6 HOH HOH . H 4 HOH B 4 306 9 HOH HOH . H 4 HOH B 5 307 10 HOH HOH . H 4 HOH B 6 308 11 HOH HOH . H 4 HOH B 7 309 12 HOH HOH . H 4 HOH B 8 310 13 HOH HOH . H 4 HOH B 9 311 15 HOH HOH . H 4 HOH B 10 312 16 HOH HOH . H 4 HOH B 11 313 18 HOH HOH . H 4 HOH B 12 314 24 HOH HOH . H 4 HOH B 13 315 27 HOH HOH . H 4 HOH B 14 316 28 HOH HOH . H 4 HOH B 15 317 29 HOH HOH . H 4 HOH B 16 318 31 HOH HOH . H 4 HOH B 17 319 36 HOH HOH . H 4 HOH B 18 320 37 HOH HOH . H 4 HOH B 19 321 39 HOH HOH . H 4 HOH B 20 322 45 HOH HOH . H 4 HOH B 21 323 71 HOH HOH . H 4 HOH B 22 324 74 HOH HOH . H 4 HOH B 23 325 78 HOH HOH . H 4 HOH B 24 326 79 HOH HOH . H 4 HOH B 25 327 80 HOH HOH . H 4 HOH B 26 328 81 HOH HOH . H 4 HOH B 27 329 82 HOH HOH . H 4 HOH B 28 330 89 HOH HOH . H 4 HOH B 29 331 91 HOH HOH . H 4 HOH B 30 332 92 HOH HOH . H 4 HOH B 31 333 94 HOH HOH . H 4 HOH B 32 334 95 HOH HOH . H 4 HOH B 33 335 101 HOH HOH . H 4 HOH B 34 336 107 HOH HOH . H 4 HOH B 35 337 108 HOH HOH . H 4 HOH B 36 339 119 HOH HOH . H 4 HOH B 37 340 132 HOH HOH . H 4 HOH B 38 341 133 HOH HOH . H 4 HOH B 39 342 134 HOH HOH . H 4 HOH B 40 343 135 HOH HOH . H 4 HOH B 41 345 139 HOH HOH . H 4 HOH B 42 346 140 HOH HOH . H 4 HOH B 43 347 142 HOH HOH . H 4 HOH B 44 350 124 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 2 30.04 101.294 94.806 1 28.56 ? PB ADP 301 B 1 HETATM 2 O O1B ADP . . . E 2 29.2 100.696 95.903 1 30.97 ? O1B ADP 301 B 1 HETATM 3 O O2B ADP . . . E 2 29.483 100.997 93.434 1 31.1 ? O2B ADP 301 B 1 HETATM 4 O O3B ADP . . . E 2 31.511 101.038 94.952 1 24.54 ? O3B ADP 301 B 1 HETATM 5 P PA ADP . . . E 2 29.155 103.736 96.133 1 26.17 ? PA ADP 301 B 1 HETATM 6 O O1A ADP . . . E 2 27.645 103.706 96.02 1 26.19 ? O1A ADP 301 B 1 HETATM 7 O O2A ADP . . . E 2 29.847 103.393 97.424 1 26.09 ? O2A ADP 301 B 1 HETATM 8 O O3A ADP . . . E 2 29.813 102.886 94.901 1 28.43 ? O3A ADP 301 B 1 HETATM 9 O O5' ADP . . . E 2 29.598 105.221 95.675 1 25.72 ? O5' ADP 301 B 1 HETATM 10 C C5' ADP . . . E 2 30.944 105.683 95.747 1 24.64 ? C5' ADP 301 B 1 HETATM 11 C C4' ADP . . . E 2 30.976 107.077 96.402 1 25.88 ? C4' ADP 301 B 1 HETATM 12 O O4' ADP . . . E 2 30.493 108.094 95.514 1 22.87 ? O4' ADP 301 B 1 HETATM 13 C C3' ADP . . . E 2 30.117 107.203 97.658 1 26.78 ? C3' ADP 301 B 1 HETATM 14 O O3' ADP . . . E 2 30.651 108.254 98.435 1 23.79 ? O3' ADP 301 B 1 HETATM 15 C C2' ADP . . . E 2 28.819 107.801 97.183 1 29.19 ? C2' ADP 301 B 1 HETATM 16 O O2' ADP . . . E 2 28.244 108.616 98.2 1 30.76 ? O2' ADP 301 B 1 HETATM 17 C C1' ADP . . . E 2 29.281 108.667 96.013 1 30.2 ? C1' ADP 301 B 1 HETATM 18 N N9 ADP . . . E 2 28.346 108.721 94.87 1 31.8 ? N9 ADP 301 B 1 HETATM 19 C C8 ADP . . . E 2 27.764 107.682 94.243 1 32.71 ? C8 ADP 301 B 1 HETATM 20 N N7 ADP . . . E 2 26.975 108.134 93.23 1 33.42 ? N7 ADP 301 B 1 HETATM 21 C C5 ADP . . . E 2 27.114 109.462 93.191 1 33.01 ? C5 ADP 301 B 1 HETATM 22 C C6 ADP . . . E 2 26.556 110.529 92.331 1 32.89 ? C6 ADP 301 B 1 HETATM 23 N N6 ADP . . . E 2 25.778 110.231 91.384 1 33.42 ? N6 ADP 301 B 1 HETATM 24 N N1 ADP . . . E 2 26.885 111.78 92.589 1 31.97 ? N1 ADP 301 B 1 HETATM 25 C C2 ADP . . . E 2 27.785 112.173 93.673 1 32.39 ? C2 ADP 301 B 1 HETATM 26 N N3 ADP . . . E 2 28.282 111.057 94.464 1 32.82 ? N3 ADP 301 B 1 HETATM 27 C C4 ADP . . . E 2 27.944 109.784 94.205 1 31.25 ? C4 ADP 301 B 1 # _model_server_stats.io_time_ms 111 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 283 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 27 #