data_2ZI9 # _model_server_result.job_id 73m8aANQWBha2AqS60SuhA _model_server_result.datetime_utc '2024-11-13 05:51:30' _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 2zi9 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":301}' # _entry.id 2ZI9 # _exptl.entry_id 2ZI9 _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 2ZI9 _cell.length_a 56.39 _cell.length_b 132.71 _cell.length_c 157.47 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2ZI9 _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 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 2ZI9 _atom_sites.fract_transf_matrix[1][1] 0.017734 _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] 0.007535 _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] 0.00635 _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 CL9 A 1 401 401 CL9 CLA . E 2 ADP B 1 301 301 ADP ADP . F 3 CL9 B 1 401 401 CL9 CLA . G 4 HOH A 1 402 8 HOH HOH . G 4 HOH A 2 403 10 HOH HOH . G 4 HOH A 3 404 12 HOH HOH . G 4 HOH A 4 405 13 HOH HOH . G 4 HOH A 5 406 14 HOH HOH . G 4 HOH A 6 407 15 HOH HOH . G 4 HOH A 7 408 16 HOH HOH . G 4 HOH A 8 409 17 HOH HOH . G 4 HOH A 9 410 18 HOH HOH . G 4 HOH A 10 411 19 HOH HOH . G 4 HOH A 11 412 20 HOH HOH . G 4 HOH A 12 413 21 HOH HOH . G 4 HOH A 13 414 31 HOH HOH . G 4 HOH A 14 415 32 HOH HOH . G 4 HOH A 15 416 40 HOH HOH . G 4 HOH A 16 417 41 HOH HOH . G 4 HOH A 17 418 45 HOH HOH . G 4 HOH A 18 419 48 HOH HOH . G 4 HOH A 19 420 60 HOH HOH . G 4 HOH A 20 421 65 HOH HOH . G 4 HOH A 21 422 66 HOH HOH . G 4 HOH A 22 423 67 HOH HOH . G 4 HOH A 23 424 68 HOH HOH . G 4 HOH A 24 425 76 HOH HOH . G 4 HOH A 25 426 77 HOH HOH . G 4 HOH A 26 427 80 HOH HOH . G 4 HOH A 27 428 82 HOH HOH . G 4 HOH A 28 429 83 HOH HOH . G 4 HOH A 29 430 89 HOH HOH . G 4 HOH A 30 431 90 HOH HOH . G 4 HOH A 31 432 93 HOH HOH . G 4 HOH A 32 433 97 HOH HOH . G 4 HOH A 33 434 100 HOH HOH . G 4 HOH A 34 435 101 HOH HOH . G 4 HOH A 35 436 103 HOH HOH . G 4 HOH A 36 437 104 HOH HOH . G 4 HOH A 37 438 107 HOH HOH . G 4 HOH A 38 439 108 HOH HOH . G 4 HOH A 39 440 110 HOH HOH . G 4 HOH A 40 441 113 HOH HOH . G 4 HOH A 41 442 115 HOH HOH . G 4 HOH A 42 443 121 HOH HOH . G 4 HOH A 43 444 126 HOH HOH . G 4 HOH A 44 445 127 HOH HOH . G 4 HOH A 45 446 130 HOH HOH . G 4 HOH A 46 447 139 HOH HOH . G 4 HOH A 47 448 149 HOH HOH . G 4 HOH A 48 449 159 HOH HOH . G 4 HOH A 49 450 160 HOH HOH . G 4 HOH A 50 451 167 HOH HOH . G 4 HOH A 51 452 168 HOH HOH . G 4 HOH A 52 453 169 HOH HOH . G 4 HOH A 53 454 171 HOH HOH . G 4 HOH A 54 455 173 HOH HOH . G 4 HOH A 55 456 174 HOH HOH . G 4 HOH A 56 457 176 HOH HOH . G 4 HOH A 57 458 177 HOH HOH . G 4 HOH A 58 459 186 HOH HOH . G 4 HOH A 59 460 190 HOH HOH . G 4 HOH A 60 461 195 HOH HOH . G 4 HOH A 61 462 196 HOH HOH . G 4 HOH A 62 463 197 HOH HOH . G 4 HOH A 63 464 198 HOH HOH . G 4 HOH A 64 465 203 HOH HOH . G 4 HOH A 65 466 206 HOH HOH . G 4 HOH A 66 467 210 HOH HOH . G 4 HOH A 67 468 218 HOH HOH . G 4 HOH A 68 469 220 HOH HOH . G 4 HOH A 69 470 225 HOH HOH . G 4 HOH A 70 471 226 HOH HOH . G 4 HOH A 71 472 229 HOH HOH . G 4 HOH A 72 473 238 HOH HOH . G 4 HOH A 73 474 258 HOH HOH . G 4 HOH A 74 475 260 HOH HOH . G 4 HOH A 75 476 263 HOH HOH . G 4 HOH A 76 477 284 HOH HOH . G 4 HOH A 77 478 286 HOH HOH . G 4 HOH A 78 479 291 HOH HOH . G 4 HOH A 79 480 294 HOH HOH . G 4 HOH A 80 481 301 HOH HOH . G 4 HOH A 81 482 302 HOH HOH . G 4 HOH A 82 483 313 HOH HOH . G 4 HOH A 83 484 317 HOH HOH . G 4 HOH A 84 485 321 HOH HOH . G 4 HOH A 85 486 339 HOH HOH . G 4 HOH A 86 487 345 HOH HOH . G 4 HOH A 87 488 192 HOH HOH . G 4 HOH A 88 489 215 HOH HOH . G 4 HOH A 89 490 343 HOH HOH . H 4 HOH B 1 402 9 HOH HOH . H 4 HOH B 2 403 11 HOH HOH . H 4 HOH B 3 404 29 HOH HOH . H 4 HOH B 4 405 35 HOH HOH . H 4 HOH B 5 406 49 HOH HOH . H 4 HOH B 6 407 50 HOH HOH . H 4 HOH B 7 408 53 HOH HOH . H 4 HOH B 8 409 55 HOH HOH . H 4 HOH B 9 410 71 HOH HOH . H 4 HOH B 10 411 72 HOH HOH . H 4 HOH B 11 412 73 HOH HOH . H 4 HOH B 12 413 81 HOH HOH . H 4 HOH B 13 414 84 HOH HOH . H 4 HOH B 14 415 95 HOH HOH . H 4 HOH B 15 416 98 HOH HOH . H 4 HOH B 16 417 102 HOH HOH . H 4 HOH B 17 418 116 HOH HOH . H 4 HOH B 18 419 122 HOH HOH . H 4 HOH B 19 420 123 HOH HOH . H 4 HOH B 20 421 124 HOH HOH . H 4 HOH B 21 422 131 HOH HOH . H 4 HOH B 22 423 132 HOH HOH . H 4 HOH B 23 424 134 HOH HOH . H 4 HOH B 24 425 140 HOH HOH . H 4 HOH B 25 426 141 HOH HOH . H 4 HOH B 26 427 142 HOH HOH . H 4 HOH B 27 428 144 HOH HOH . H 4 HOH B 28 429 145 HOH HOH . H 4 HOH B 29 430 164 HOH HOH . H 4 HOH B 30 431 166 HOH HOH . H 4 HOH B 31 432 172 HOH HOH . H 4 HOH B 32 433 178 HOH HOH . H 4 HOH B 33 434 182 HOH HOH . H 4 HOH B 34 435 191 HOH HOH . H 4 HOH B 35 437 193 HOH HOH . H 4 HOH B 36 438 199 HOH HOH . H 4 HOH B 37 439 202 HOH HOH . H 4 HOH B 38 440 207 HOH HOH . H 4 HOH B 39 441 213 HOH HOH . H 4 HOH B 40 442 214 HOH HOH . H 4 HOH B 41 444 217 HOH HOH . H 4 HOH B 42 445 219 HOH HOH . H 4 HOH B 43 446 234 HOH HOH . H 4 HOH B 44 447 236 HOH HOH . H 4 HOH B 45 448 237 HOH HOH . H 4 HOH B 46 449 245 HOH HOH . H 4 HOH B 47 450 248 HOH HOH . H 4 HOH B 48 451 250 HOH HOH . H 4 HOH B 49 452 253 HOH HOH . H 4 HOH B 50 453 257 HOH HOH . H 4 HOH B 51 454 259 HOH HOH . H 4 HOH B 52 455 261 HOH HOH . H 4 HOH B 53 456 262 HOH HOH . H 4 HOH B 54 457 265 HOH HOH . H 4 HOH B 55 458 270 HOH HOH . H 4 HOH B 56 459 273 HOH HOH . H 4 HOH B 57 460 278 HOH HOH . H 4 HOH B 58 461 281 HOH HOH . H 4 HOH B 59 462 282 HOH HOH . H 4 HOH B 60 463 283 HOH HOH . H 4 HOH B 61 464 287 HOH HOH . H 4 HOH B 62 465 290 HOH HOH . H 4 HOH B 63 466 297 HOH HOH . H 4 HOH B 64 467 299 HOH HOH . H 4 HOH B 65 468 300 HOH HOH . H 4 HOH B 66 469 303 HOH HOH . H 4 HOH B 67 470 316 HOH HOH . H 4 HOH B 68 471 318 HOH HOH . H 4 HOH B 69 472 320 HOH HOH . H 4 HOH B 70 473 333 HOH HOH . H 4 HOH B 71 475 346 HOH HOH . H 4 HOH B 72 476 350 HOH HOH . H 4 HOH B 73 477 356 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 32.615 101.026 95.043 1 48.63 ? PB ADP 301 B 1 HETATM 2 O O1B ADP . . . E 2 31.676 100.428 96.064 1 49.52 ? O1B ADP 301 B 1 HETATM 3 O O2B ADP . . . E 2 32.241 100.876 93.588 1 47.58 ? O2B ADP 301 B 1 HETATM 4 O O3B ADP . . . E 2 34.063 100.737 95.281 1 48.25 ? O3B ADP 301 B 1 HETATM 5 P PA ADP . . . E 2 31.687 103.252 96.671 1 52.11 ? PA ADP 301 B 1 HETATM 6 O O1A ADP . . . E 2 30.189 103.107 96.49 1 49.73 ? O1A ADP 301 B 1 HETATM 7 O O2A ADP . . . E 2 32.299 102.76 97.953 1 54.35 ? O2A ADP 301 B 1 HETATM 8 O O3A ADP . . . E 2 32.469 102.594 95.396 1 51.45 ? O3A ADP 301 B 1 HETATM 9 O O5' ADP . . . E 2 32.152 104.797 96.511 1 52.98 ? O5' ADP 301 B 1 HETATM 10 C C5' ADP . . . E 2 33.531 105.167 96.467 1 57.33 ? C5' ADP 301 B 1 HETATM 11 C C4' ADP . . . E 2 33.805 106.588 97.003 1 61.17 ? C4' ADP 301 B 1 HETATM 12 O O4' ADP . . . E 2 33.307 107.587 96.111 1 62.95 ? O4' ADP 301 B 1 HETATM 13 C C3' ADP . . . E 2 33.197 106.934 98.35 1 62.01 ? C3' ADP 301 B 1 HETATM 14 O O3' ADP . . . E 2 34.115 107.775 99.031 1 60.11 ? O3' ADP 301 B 1 HETATM 15 C C2' ADP . . . E 2 31.935 107.713 98.024 1 63.14 ? C2' ADP 301 B 1 HETATM 16 O O2' ADP . . . E 2 31.784 108.793 98.906 1 64.55 ? O2' ADP 301 B 1 HETATM 17 C C1' ADP . . . E 2 32.201 108.303 96.657 1 65.37 ? C1' ADP 301 B 1 HETATM 18 N N9 ADP . . . E 2 31.099 108.176 95.668 1 66.57 ? N9 ADP 301 B 1 HETATM 19 C C8 ADP . . . E 2 30.349 107.092 95.381 1 66.13 ? C8 ADP 301 B 1 HETATM 20 N N7 ADP . . . E 2 29.478 107.402 94.38 1 66.8 ? N7 ADP 301 B 1 HETATM 21 C C5 ADP . . . E 2 29.69 108.68 94.017 1 66.68 ? C5 ADP 301 B 1 HETATM 22 C C6 ADP . . . E 2 29.102 109.608 93.014 1 66.91 ? C6 ADP 301 B 1 HETATM 23 N N6 ADP . . . E 2 28.165 109.231 92.256 1 67.18 ? N6 ADP 301 B 1 HETATM 24 N N1 ADP . . . E 2 29.584 110.85 92.936 1 67.02 ? N1 ADP 301 B 1 HETATM 25 C C2 ADP . . . E 2 30.661 111.372 93.776 1 66.42 ? C2 ADP 301 B 1 HETATM 26 N N3 ADP . . . E 2 31.177 110.394 94.73 1 67.41 ? N3 ADP 301 B 1 HETATM 27 C C4 ADP . . . E 2 30.693 109.123 94.818 1 66.96 ? C4 ADP 301 B 1 # _model_server_stats.io_time_ms 7 _model_server_stats.parse_time_ms 6 _model_server_stats.create_model_time_ms 11 _model_server_stats.query_time_ms 257 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 27 #