data_8F5X # _model_server_result.job_id pAgfXgsGSkzKzNmgE6snEg _model_server_result.datetime_utc '2024-11-09 02:26:18' _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 8f5x # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":204}' # _entry.id 8F5X # _exptl.entry_id 8F5X _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 347.221 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'ADENOSINE MONOPHOSPHATE' _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 8F5X _cell.length_a 41.78 _cell.length_b 52.45 _cell.length_c 56.36 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8F5X _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # _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,J _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 E _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 disulf ? disulf1 A SG CYS 24 A CYS 23 1_555 A SG CYS 84 A CYS 83 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.022 ? disulf ? disulf2 A SG CYS 38 A CYS 37 1_555 A SG CYS 97 A CYS 96 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf3 A SG CYS 56 A CYS 55 1_555 A SG CYS 112 A CYS 111 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.056 ? disulf ? disulf4 A SG CYS 63 A CYS 62 1_555 A SG CYS 72 A CYS 71 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.046 ? # _chem_comp.formula 'C10 H14 N5 O7 P' _chem_comp.formula_weight 347.221 _chem_comp.id AMP _chem_comp.mon_nstd_flag . _chem_comp.name 'ADENOSINE MONOPHOSPHATE' _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 P O1P AMP doub 13 n n P O2P AMP sing 14 n n P O3P AMP sing 15 n n P O5' AMP sing 16 n n O2P HOP2 AMP sing 17 n n O3P HOP3 AMP sing 18 n n O5' C5' AMP sing 19 n n C5' C4' AMP sing 20 n n C5' "H5'1" AMP sing 21 n n C5' "H5'2" AMP sing 22 n n C4' O4' AMP sing 23 n n C4' C3' AMP sing 24 n n C4' H4' AMP sing 25 n n O4' C1' AMP sing 26 n n C3' O3' AMP sing 27 n n C3' C2' AMP sing 28 n n C3' H3' AMP sing 29 n n O3' HO3' AMP sing 30 n n C2' O2' AMP sing 31 n n C2' C1' AMP sing 32 n n C2' H2' AMP sing 33 n n O2' HO2' AMP sing 34 n n C1' N9 AMP sing 35 n n C1' H1' AMP sing 36 n n N9 C8 AMP sing 37 n y N9 C4 AMP sing 38 n y C8 N7 AMP doub 39 n y C8 H8 AMP sing 40 n n N7 C5 AMP sing 41 n y C5 C6 AMP sing 42 n y C5 C4 AMP doub 43 n y C6 N6 AMP sing 44 n n C6 N1 AMP doub 45 n y N6 HN61 AMP sing 46 n n N6 HN62 AMP sing 47 n n N1 C2 AMP sing 48 n y C2 N3 AMP doub 49 n y C2 H2 AMP sing 50 n n N3 C4 AMP sing 51 n y # _atom_sites.entry_id 8F5X _atom_sites.fract_transf_matrix[1][1] 0.023935 _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] 0.019066 _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] 0.017743 _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 SIN A 1 201 136 SIN SIN . C 2 SIN A 1 202 137 SIN SIN . D 3 EDO A 1 203 138 EDO EDO . E 4 AMP A 1 204 301 AMP AMP . F 3 EDO A 1 205 401 EDO EDO . G 2 SIN A 1 206 501 SIN SIN . H 3 EDO A 1 207 601 EDO EDO . I 3 EDO A 1 208 701 EDO EDO . J 5 HOH A 1 301 125 HOH HOH . J 5 HOH A 2 302 119 HOH HOH . J 5 HOH A 3 303 5 HOH HOH . J 5 HOH A 4 304 15 HOH HOH . J 5 HOH A 5 305 81 HOH HOH . J 5 HOH A 6 306 126 HOH HOH . J 5 HOH A 7 307 75 HOH HOH . J 5 HOH A 8 308 22 HOH HOH . J 5 HOH A 9 309 47 HOH HOH . J 5 HOH A 10 310 1 HOH HOH . J 5 HOH A 11 311 74 HOH HOH . J 5 HOH A 12 312 52 HOH HOH . J 5 HOH A 13 313 80 HOH HOH . J 5 HOH A 14 314 91 HOH HOH . J 5 HOH A 15 315 40 HOH HOH . J 5 HOH A 16 316 72 HOH HOH . J 5 HOH A 17 317 77 HOH HOH . J 5 HOH A 18 318 12 HOH HOH . J 5 HOH A 19 319 21 HOH HOH . J 5 HOH A 20 320 10 HOH HOH . J 5 HOH A 21 321 33 HOH HOH . J 5 HOH A 22 322 23 HOH HOH . J 5 HOH A 23 323 19 HOH HOH . J 5 HOH A 24 324 38 HOH HOH . J 5 HOH A 25 325 131 HOH HOH . J 5 HOH A 26 326 25 HOH HOH . J 5 HOH A 27 327 117 HOH HOH . J 5 HOH A 28 328 26 HOH HOH . J 5 HOH A 29 329 46 HOH HOH . J 5 HOH A 30 330 59 HOH HOH . J 5 HOH A 31 331 31 HOH HOH . J 5 HOH A 32 332 62 HOH HOH . J 5 HOH A 33 333 27 HOH HOH . J 5 HOH A 34 334 36 HOH HOH . J 5 HOH A 35 335 44 HOH HOH . J 5 HOH A 36 336 73 HOH HOH . J 5 HOH A 37 337 35 HOH HOH . J 5 HOH A 38 338 71 HOH HOH . J 5 HOH A 39 339 56 HOH HOH . J 5 HOH A 40 340 11 HOH HOH . J 5 HOH A 41 341 108 HOH HOH . J 5 HOH A 42 342 16 HOH HOH . J 5 HOH A 43 343 86 HOH HOH . J 5 HOH A 44 344 24 HOH HOH . J 5 HOH A 45 345 17 HOH HOH . J 5 HOH A 46 346 34 HOH HOH . J 5 HOH A 47 347 37 HOH HOH . J 5 HOH A 48 348 58 HOH HOH . J 5 HOH A 49 349 61 HOH HOH . J 5 HOH A 50 350 82 HOH HOH . J 5 HOH A 51 351 42 HOH HOH . J 5 HOH A 52 352 116 HOH HOH . J 5 HOH A 53 353 14 HOH HOH . J 5 HOH A 54 354 29 HOH HOH . J 5 HOH A 55 355 120 HOH HOH . J 5 HOH A 56 356 60 HOH HOH . J 5 HOH A 57 357 96 HOH HOH . J 5 HOH A 58 358 87 HOH HOH . J 5 HOH A 59 359 99 HOH HOH . J 5 HOH A 60 360 45 HOH HOH . J 5 HOH A 61 361 20 HOH HOH . J 5 HOH A 62 362 48 HOH HOH . J 5 HOH A 63 363 53 HOH HOH . J 5 HOH A 64 364 30 HOH HOH . J 5 HOH A 65 365 43 HOH HOH . J 5 HOH A 66 366 8 HOH HOH . J 5 HOH A 67 367 13 HOH HOH . J 5 HOH A 68 368 55 HOH HOH . J 5 HOH A 69 369 68 HOH HOH . J 5 HOH A 70 370 32 HOH HOH . J 5 HOH A 71 371 9 HOH HOH . J 5 HOH A 72 372 51 HOH HOH . J 5 HOH A 73 373 18 HOH HOH . J 5 HOH A 74 374 65 HOH HOH . J 5 HOH A 75 375 50 HOH HOH . J 5 HOH A 76 376 89 HOH HOH . J 5 HOH A 77 377 66 HOH HOH . J 5 HOH A 78 378 63 HOH HOH . J 5 HOH A 79 379 54 HOH HOH . J 5 HOH A 80 380 102 HOH HOH . J 5 HOH A 81 381 4 HOH HOH . J 5 HOH A 82 382 93 HOH HOH . J 5 HOH A 83 383 49 HOH HOH . J 5 HOH A 84 384 84 HOH HOH . J 5 HOH A 85 385 57 HOH HOH . J 5 HOH A 86 386 90 HOH HOH . J 5 HOH A 87 387 70 HOH HOH . J 5 HOH A 88 388 39 HOH HOH . J 5 HOH A 89 389 64 HOH HOH . J 5 HOH A 90 390 115 HOH HOH . J 5 HOH A 91 391 105 HOH HOH . J 5 HOH A 92 392 28 HOH HOH . J 5 HOH A 93 393 100 HOH HOH . J 5 HOH A 94 394 83 HOH HOH . J 5 HOH A 95 395 110 HOH HOH . J 5 HOH A 96 396 6 HOH HOH . J 5 HOH A 97 397 41 HOH HOH . J 5 HOH A 98 398 95 HOH HOH . J 5 HOH A 99 399 104 HOH HOH . J 5 HOH A 100 400 92 HOH HOH . J 5 HOH A 101 401 114 HOH HOH . J 5 HOH A 102 402 112 HOH HOH . J 5 HOH A 103 403 2 HOH HOH . J 5 HOH A 104 404 69 HOH HOH . J 5 HOH A 105 405 67 HOH HOH . J 5 HOH A 106 406 79 HOH HOH . J 5 HOH A 107 407 76 HOH HOH . J 5 HOH A 108 408 111 HOH HOH . J 5 HOH A 109 409 88 HOH HOH . J 5 HOH A 110 410 97 HOH HOH . J 5 HOH A 111 411 123 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 P AMP . . . E 4 10.088 10.936 24.349 0.67 72.09 ? P AMP 204 A 1 HETATM 2 O O1P AMP . . . E 4 11.004 9.72 24.456 0.67 68.37 ? O1P AMP 204 A 1 HETATM 3 O O2P AMP . . . E 4 8.894 10.823 25.291 0.67 58.31 ? O2P AMP 204 A 1 HETATM 4 O O3P AMP . . . E 4 10.749 12.259 24.483 0.67 63.36 ? O3P AMP 204 A 1 HETATM 5 O O5' AMP . . . E 4 9.541 10.891 22.829 0.67 53.94 ? O5' AMP 204 A 1 HETATM 6 C C5' AMP . . . E 4 10.447 11.162 21.754 0.67 52.7 ? C5' AMP 204 A 1 HETATM 7 C C4' AMP . . . E 4 9.754 11.202 20.421 0.67 44.42 ? C4' AMP 204 A 1 HETATM 8 O O4' AMP . . . E 4 8.57 10.394 20.314 0.67 48.93 ? O4' AMP 204 A 1 HETATM 9 C C3' AMP . . . E 4 9.366 12.574 19.892 0.67 49.72 ? C3' AMP 204 A 1 HETATM 10 O O3' AMP . . . E 4 10.524 13.053 19.216 0.67 50.47 ? O3' AMP 204 A 1 HETATM 11 C C2' AMP . . . E 4 8.127 12.315 19.018 0.67 51.89 ? C2' AMP 204 A 1 HETATM 12 O O2' AMP . . . E 4 8.415 12.432 17.643 0.67 57.3 ? O2' AMP 204 A 1 HETATM 13 C C1' AMP . . . E 4 7.754 10.862 19.279 0.67 44.9 ? C1' AMP 204 A 1 HETATM 14 N N9 AMP . . . E 4 6.405 10.594 19.722 0.67 44.74 ? N9 AMP 204 A 1 HETATM 15 C C8 AMP . . . E 4 5.262 11.266 19.421 0.67 41.76 ? C8 AMP 204 A 1 HETATM 16 N N7 AMP . . . E 4 4.212 10.785 20.024 0.67 44.62 ? N7 AMP 204 A 1 HETATM 17 C C5 AMP . . . E 4 4.692 9.752 20.789 0.67 38.09 ? C5 AMP 204 A 1 HETATM 18 C C6 AMP . . . E 4 4.063 8.86 21.666 0.67 48.24 ? C6 AMP 204 A 1 HETATM 19 N N6 AMP . . . E 4 2.765 8.897 21.924 0.67 55.54 ? N6 AMP 204 A 1 HETATM 20 N N1 AMP . . . E 4 4.841 7.94 22.286 0.67 45.61 ? N1 AMP 204 A 1 HETATM 21 C C2 AMP . . . E 4 6.15 7.938 22.026 0.67 36.69 ? C2 AMP 204 A 1 HETATM 22 N N3 AMP . . . E 4 6.847 8.72 21.217 0.67 57.14 ? N3 AMP 204 A 1 HETATM 23 C C4 AMP . . . E 4 6.05 9.622 20.62 0.67 52.79 ? C4 AMP 204 A 1 HETATM 24 H "H5'1" AMP . . . E 4 11.221 10.392 21.734 0.67 62.85 ? "H5'1" AMP 204 A 1 HETATM 25 H "H5'2" AMP . . . E 4 10.939 12.121 21.932 0.67 62.85 ? "H5'2" AMP 204 A 1 HETATM 26 H H4' AMP . . . E 4 10.481 10.803 19.703 0.67 52.91 ? H4' AMP 204 A 1 HETATM 27 H H3' AMP . . . E 4 9.1 13.232 20.731 0.67 59.28 ? H3' AMP 204 A 1 HETATM 28 H HO3' AMP . . . E 4 10.358 13.946 18.885 0.67 60.18 ? HO3' AMP 204 A 1 HETATM 29 H H2' AMP . . . E 4 7.312 12.988 19.316 0.67 61.88 ? H2' AMP 204 A 1 HETATM 30 H HO2' AMP . . . E 4 8.68 13.34 17.445 0.67 68.37 ? HO2' AMP 204 A 1 HETATM 31 H H1' AMP . . . E 4 7.936 10.323 18.352 0.67 53.49 ? H1' AMP 204 A 1 HETATM 32 H H8 AMP . . . E 4 5.292 12.087 18.745 0.67 49.72 ? H8 AMP 204 A 1 HETATM 33 H HN61 AMP . . . E 4 2.179 9.58 21.465 0.67 66.26 ? HN61 AMP 204 A 1 HETATM 34 H HN62 AMP . . . E 4 2.356 8.225 22.557 0.67 66.26 ? HN62 AMP 204 A 1 HETATM 35 H H2 AMP . . . E 4 6.76 7.202 22.486 0.67 43.64 ? H2 AMP 204 A 1 # _model_server_stats.io_time_ms 51 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 308 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 35 #