data_1L4Y # _model_server_result.job_id YihhwG53-SLoOHdrx3nG_g _model_server_result.datetime_utc '2024-11-23 20:00:02' _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 1l4y # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"H","auth_seq_id":180}' # _entry.id 1L4Y # _exptl.entry_id 1L4Y _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 1L4Y _cell.length_a 63.86 _cell.length_b 63.86 _cell.length_c 92.07 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1L4Y _symmetry.cell_setting ? _symmetry.Int_Tables_number 154 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 32 2 1' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H,I _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 # _struct_asym.details ? _struct_asym.entity_id 4 _struct_asym.id H _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # loop_ _struct_conn.conn_type_id _struct_conn.details _struct_conn.id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_atom_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_atom_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_PDB_id _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order metalc ? metalc1 A OG SER 16 A SER 16 1_555 B MG MG . A MG 190 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.146 ? metalc ? metalc2 H O2B ADP . A ADP 180 1_555 B MG MG . A MG 190 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.146 ? metalc ? metalc3 B MG MG . A MG 190 1_555 I O HOH . A HOH 289 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.054 ? metalc ? metalc4 B MG MG . A MG 190 1_555 I O HOH . A HOH 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? metalc ? metalc5 B MG MG . A MG 190 1_555 I O HOH . A HOH 326 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.254 ? metalc ? metalc6 B MG MG . A MG 190 1_555 I O HOH . A HOH 342 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.241 ? # _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 1L4Y _atom_sites.fract_transf_matrix[1][1] 0.01566 _atom_sites.fract_transf_matrix[1][2] 0.009041 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.018083 _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] 0.010861 _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 MG A 1 190 190 MG MG . C 3 CL A 1 191 191 CL CL1 . D 3 CL A 1 192 192 CL CL1 . E 3 CL A 1 193 193 CL CL1 . F 3 CL A 1 194 194 CL CL1 . G 3 CL A 1 195 195 CL CL1 . H 4 ADP A 1 180 180 ADP ADP . I 5 HOH A 1 201 201 HOH TIP . I 5 HOH A 2 202 202 HOH TIP . I 5 HOH A 3 203 203 HOH TIP . I 5 HOH A 4 204 204 HOH TIP . I 5 HOH A 5 205 205 HOH TIP . I 5 HOH A 6 206 206 HOH TIP . I 5 HOH A 7 207 207 HOH TIP . I 5 HOH A 8 208 208 HOH TIP . I 5 HOH A 9 209 209 HOH TIP . I 5 HOH A 10 210 210 HOH TIP . I 5 HOH A 11 211 211 HOH TIP . I 5 HOH A 12 212 212 HOH TIP . I 5 HOH A 13 213 213 HOH TIP . I 5 HOH A 14 214 214 HOH TIP . I 5 HOH A 15 215 215 HOH TIP . I 5 HOH A 16 216 216 HOH TIP . I 5 HOH A 17 217 217 HOH TIP . I 5 HOH A 18 218 218 HOH TIP . I 5 HOH A 19 219 219 HOH TIP . I 5 HOH A 20 220 220 HOH TIP . I 5 HOH A 21 221 221 HOH TIP . I 5 HOH A 22 222 222 HOH TIP . I 5 HOH A 23 223 223 HOH TIP . I 5 HOH A 24 224 224 HOH TIP . I 5 HOH A 25 225 225 HOH TIP . I 5 HOH A 26 226 226 HOH TIP . I 5 HOH A 27 227 227 HOH TIP . I 5 HOH A 28 228 228 HOH TIP . I 5 HOH A 29 229 229 HOH TIP . I 5 HOH A 30 230 230 HOH TIP . I 5 HOH A 31 231 231 HOH TIP . I 5 HOH A 32 232 232 HOH TIP . I 5 HOH A 33 233 233 HOH TIP . I 5 HOH A 34 234 234 HOH TIP . I 5 HOH A 35 235 235 HOH TIP . I 5 HOH A 36 236 236 HOH TIP . I 5 HOH A 37 237 237 HOH TIP . I 5 HOH A 38 238 238 HOH TIP . I 5 HOH A 39 239 239 HOH TIP . I 5 HOH A 40 240 240 HOH TIP . I 5 HOH A 41 241 241 HOH TIP . I 5 HOH A 42 242 242 HOH TIP . I 5 HOH A 43 243 243 HOH TIP . I 5 HOH A 44 244 244 HOH TIP . I 5 HOH A 45 245 245 HOH TIP . I 5 HOH A 46 246 246 HOH TIP . I 5 HOH A 47 247 247 HOH TIP . I 5 HOH A 48 248 248 HOH TIP . I 5 HOH A 49 249 249 HOH TIP . I 5 HOH A 50 250 250 HOH TIP . I 5 HOH A 51 251 251 HOH TIP . I 5 HOH A 52 252 252 HOH TIP . I 5 HOH A 53 253 253 HOH TIP . I 5 HOH A 54 254 254 HOH TIP . I 5 HOH A 55 255 255 HOH TIP . I 5 HOH A 56 256 256 HOH TIP . I 5 HOH A 57 257 257 HOH TIP . I 5 HOH A 58 258 258 HOH TIP . I 5 HOH A 59 259 259 HOH TIP . I 5 HOH A 60 260 260 HOH TIP . I 5 HOH A 61 261 261 HOH TIP . I 5 HOH A 62 262 262 HOH TIP . I 5 HOH A 63 263 263 HOH TIP . I 5 HOH A 64 264 264 HOH TIP . I 5 HOH A 65 265 265 HOH TIP . I 5 HOH A 66 266 266 HOH TIP . I 5 HOH A 67 267 267 HOH TIP . I 5 HOH A 68 268 268 HOH TIP . I 5 HOH A 69 269 269 HOH TIP . I 5 HOH A 70 270 270 HOH TIP . I 5 HOH A 71 271 271 HOH TIP . I 5 HOH A 72 272 272 HOH TIP . I 5 HOH A 73 273 273 HOH TIP . I 5 HOH A 74 274 274 HOH TIP . I 5 HOH A 75 275 275 HOH TIP . I 5 HOH A 76 276 276 HOH TIP . I 5 HOH A 77 277 277 HOH TIP . I 5 HOH A 78 278 278 HOH TIP . I 5 HOH A 79 279 279 HOH TIP . I 5 HOH A 80 280 280 HOH TIP . I 5 HOH A 81 281 281 HOH TIP . I 5 HOH A 82 282 282 HOH TIP . I 5 HOH A 83 283 283 HOH TIP . I 5 HOH A 84 284 284 HOH TIP . I 5 HOH A 85 285 285 HOH TIP . I 5 HOH A 86 286 286 HOH TIP . I 5 HOH A 87 287 287 HOH TIP . I 5 HOH A 88 288 288 HOH TIP . I 5 HOH A 89 289 289 HOH TIP . I 5 HOH A 90 290 290 HOH TIP . I 5 HOH A 91 291 291 HOH TIP . I 5 HOH A 92 292 292 HOH TIP . I 5 HOH A 93 293 293 HOH TIP . I 5 HOH A 94 294 294 HOH TIP . I 5 HOH A 95 295 295 HOH TIP . I 5 HOH A 96 296 296 HOH TIP . I 5 HOH A 97 297 297 HOH TIP . I 5 HOH A 98 298 298 HOH TIP . I 5 HOH A 99 299 299 HOH TIP . I 5 HOH A 100 300 300 HOH TIP . I 5 HOH A 101 301 301 HOH TIP . I 5 HOH A 102 302 302 HOH TIP . I 5 HOH A 103 303 303 HOH TIP . I 5 HOH A 104 304 304 HOH TIP . I 5 HOH A 105 305 305 HOH TIP . I 5 HOH A 106 306 306 HOH TIP . I 5 HOH A 107 307 307 HOH TIP . I 5 HOH A 108 308 308 HOH TIP . I 5 HOH A 109 309 309 HOH TIP . I 5 HOH A 110 310 310 HOH TIP . I 5 HOH A 111 311 311 HOH TIP . I 5 HOH A 112 312 312 HOH TIP . I 5 HOH A 113 313 313 HOH TIP . I 5 HOH A 114 314 314 HOH TIP . I 5 HOH A 115 315 315 HOH TIP . I 5 HOH A 116 316 316 HOH TIP . I 5 HOH A 117 317 317 HOH TIP . I 5 HOH A 118 318 318 HOH TIP . I 5 HOH A 119 319 319 HOH TIP . I 5 HOH A 120 320 320 HOH TIP . I 5 HOH A 121 321 321 HOH TIP . I 5 HOH A 122 322 322 HOH TIP . I 5 HOH A 123 323 323 HOH TIP . I 5 HOH A 124 324 324 HOH TIP . I 5 HOH A 125 325 325 HOH TIP . I 5 HOH A 126 326 326 HOH TIP . I 5 HOH A 127 327 327 HOH TIP . I 5 HOH A 128 328 328 HOH TIP . I 5 HOH A 129 329 329 HOH TIP . I 5 HOH A 130 330 330 HOH TIP . I 5 HOH A 131 331 331 HOH TIP . I 5 HOH A 132 332 332 HOH TIP . I 5 HOH A 133 333 333 HOH TIP . I 5 HOH A 134 334 334 HOH TIP . I 5 HOH A 135 335 335 HOH TIP . I 5 HOH A 136 336 336 HOH TIP . I 5 HOH A 137 337 337 HOH TIP . I 5 HOH A 138 339 339 HOH TIP . I 5 HOH A 139 340 340 HOH TIP . I 5 HOH A 140 341 341 HOH TIP . I 5 HOH A 141 342 342 HOH TIP . I 5 HOH A 142 343 343 HOH TIP . I 5 HOH A 143 344 344 HOH TIP . I 5 HOH A 144 345 345 HOH TIP . I 5 HOH A 145 346 346 HOH TIP . I 5 HOH A 146 347 347 HOH TIP . I 5 HOH A 147 348 348 HOH TIP . I 5 HOH A 148 349 349 HOH TIP . I 5 HOH A 149 350 350 HOH TIP . I 5 HOH A 150 351 351 HOH TIP . I 5 HOH A 151 352 352 HOH TIP . I 5 HOH A 152 353 353 HOH TIP . I 5 HOH A 153 354 354 HOH TIP . I 5 HOH A 154 355 355 HOH TIP . I 5 HOH A 155 356 356 HOH TIP . I 5 HOH A 156 357 357 HOH TIP . I 5 HOH A 157 358 358 HOH TIP . I 5 HOH A 158 359 359 HOH TIP . I 5 HOH A 159 360 360 HOH TIP . I 5 HOH A 160 361 361 HOH TIP . I 5 HOH A 161 362 362 HOH TIP . I 5 HOH A 162 363 363 HOH TIP . I 5 HOH A 163 364 364 HOH TIP . I 5 HOH A 164 365 365 HOH TIP . I 5 HOH A 165 366 366 HOH TIP . I 5 HOH A 166 367 367 HOH TIP . I 5 HOH A 167 368 368 HOH TIP . I 5 HOH A 168 369 369 HOH TIP . I 5 HOH A 169 370 370 HOH TIP . I 5 HOH A 170 371 371 HOH TIP . I 5 HOH A 171 372 372 HOH TIP . I 5 HOH A 172 373 373 HOH TIP . I 5 HOH A 173 374 374 HOH TIP . # 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 . . . H 4 42.613 8.685 13.932 1 26.55 ? PB ADP 180 A 1 HETATM 2 O O1B ADP . . . H 4 41.553 9.717 13.748 1 23.42 ? O1B ADP 180 A 1 HETATM 3 O O2B ADP . . . H 4 43.457 8.377 12.588 1 28.16 ? O2B ADP 180 A 1 HETATM 4 O O3B ADP . . . H 4 43.557 9.076 15.014 1 28.07 ? O3B ADP 180 A 1 HETATM 5 P PA ADP . . . H 4 42.086 5.881 13.681 1 25.74 ? PA ADP 180 A 1 HETATM 6 O O1A ADP . . . H 4 43.5 5.517 13.807 1 27.46 ? O1A ADP 180 A 1 HETATM 7 O O2A ADP . . . H 4 41.634 5.83 12.283 1 25.65 ? O2A ADP 180 A 1 HETATM 8 O O3A ADP . . . H 4 41.905 7.325 14.246 1 30.75 ? O3A ADP 180 A 1 HETATM 9 O O5' ADP . . . H 4 41.145 5.003 14.626 1 28.52 ? O5' ADP 180 A 1 HETATM 10 C C5' ADP . . . H 4 41.426 4.846 16.034 1 28.88 ? C5' ADP 180 A 1 HETATM 11 C C4' ADP . . . H 4 40.837 3.462 16.463 1 27.79 ? C4' ADP 180 A 1 HETATM 12 O O4' ADP . . . H 4 39.423 3.579 16.558 1 28.12 ? O4' ADP 180 A 1 HETATM 13 C C3' ADP . . . H 4 41.108 2.337 15.446 1 29.25 ? C3' ADP 180 A 1 HETATM 14 O O3' ADP . . . H 4 41.367 1.085 16.102 1 31.13 ? O3' ADP 180 A 1 HETATM 15 C C2' ADP . . . H 4 39.83 2.218 14.649 1 29.69 ? C2' ADP 180 A 1 HETATM 16 O O2' ADP . . . H 4 39.652 0.896 14.096 1 31.61 ? O2' ADP 180 A 1 HETATM 17 C C1' ADP . . . H 4 38.782 2.627 15.675 1 23.45 ? C1' ADP 180 A 1 HETATM 18 N N9 ADP . . . H 4 37.58 3.263 15.034 1 24.93 ? N9 ADP 180 A 1 HETATM 19 C C8 ADP . . . H 4 37.631 4.229 14.094 1 19.69 ? C8 ADP 180 A 1 HETATM 20 N N7 ADP . . . H 4 36.408 4.445 13.618 1 20.77 ? N7 ADP 180 A 1 HETATM 21 C C5 ADP . . . H 4 35.571 3.653 14.24 1 22.24 ? C5 ADP 180 A 1 HETATM 22 C C6 ADP . . . H 4 34.192 3.43 14.19 1 23.14 ? C6 ADP 180 A 1 HETATM 23 N N6 ADP . . . H 4 33.43 4.129 13.348 1 24.57 ? N6 ADP 180 A 1 HETATM 24 N N1 ADP . . . H 4 33.618 2.49 15.015 1 22.89 ? N1 ADP 180 A 1 HETATM 25 C C2 ADP . . . H 4 34.364 1.765 15.883 1 23.26 ? C2 ADP 180 A 1 HETATM 26 N N3 ADP . . . H 4 35.695 1.973 15.942 1 18.6 ? N3 ADP 180 A 1 HETATM 27 C C4 ADP . . . H 4 36.329 2.886 15.157 1 22.52 ? C4 ADP 180 A 1 # _model_server_stats.io_time_ms 7 _model_server_stats.parse_time_ms 15 _model_server_stats.create_model_time_ms 6 _model_server_stats.query_time_ms 238 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 27 #