data_6FD6 # _model_server_result.job_id xlgOXZB0PEDghwel67ACWg _model_server_result.datetime_utc '2024-11-07 22:09:03' _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 6fd6 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":200}' # _entry.id 6FD6 # _exptl.entry_id 6FD6 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 347.221 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'ADENOSINE MONOPHOSPHATE' _entity.pdbx_number_of_molecules 2 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 76.93 _cell.angle_beta 61.5 _cell.angle_gamma 69.41 _cell.entry_id 6FD6 _cell.length_a 47.17 _cell.length_b 47.79 _cell.length_c 47.92 _cell.Z_PDB 2 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6FD6 _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1' # _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,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 # 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 # 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 E O3' AMP . B AMP 201 1_555 F MG MG . B MG 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.247 ? metalc ? metalc2 E O2' AMP . B AMP 201 1_555 F MG MG . B MG 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.754 ? metalc ? metalc3 F MG MG . B MG 202 1_555 G O21 PPV . B PPV 203 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.782 ? metalc ? metalc4 F MG MG . B MG 202 1_555 G O22 PPV . B PPV 203 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.163 ? metalc ? metalc5 F MG MG . B MG 202 1_555 I O HOH . B HOH 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.175 ? metalc ? metalc6 F MG MG . B MG 202 1_555 I O HOH . B HOH 333 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.529 ? # _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 6FD6 _atom_sites.fract_transf_matrix[1][1] 0.0212 _atom_sites.fract_transf_matrix[1][2] -0.007964 _atom_sites.fract_transf_matrix[1][3] -0.010974 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.022353 _atom_sites.fract_transf_matrix[2][3] -0.001589 _atom_sites.fract_transf_matrix[3][1] 0 _atom_sites.fract_transf_matrix[3][2] 0 _atom_sites.fract_transf_matrix[3][3] 0.023806 _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 AMP A 1 200 200 AMP AMP . D 3 PPV A 1 201 201 PPV PPV . E 2 AMP B 1 201 201 AMP AMP . F 4 MG B 1 202 202 MG MG . G 3 PPV B 1 203 203 PPV PPV . H 5 HOH A 1 301 301 HOH HOH . H 5 HOH A 2 302 302 HOH HOH . H 5 HOH A 3 303 303 HOH HOH . H 5 HOH A 4 304 304 HOH HOH . H 5 HOH A 5 305 305 HOH HOH . H 5 HOH A 6 306 306 HOH HOH . H 5 HOH A 7 307 307 HOH HOH . H 5 HOH A 8 308 308 HOH HOH . H 5 HOH A 9 309 309 HOH HOH . H 5 HOH A 10 310 310 HOH HOH . H 5 HOH A 11 311 311 HOH HOH . H 5 HOH A 12 312 312 HOH HOH . H 5 HOH A 13 313 313 HOH HOH . H 5 HOH A 14 314 314 HOH HOH . H 5 HOH A 15 315 315 HOH HOH . H 5 HOH A 16 316 316 HOH HOH . H 5 HOH A 17 317 317 HOH HOH . H 5 HOH A 18 318 318 HOH HOH . H 5 HOH A 19 319 319 HOH HOH . H 5 HOH A 20 320 320 HOH HOH . H 5 HOH A 21 321 321 HOH HOH . H 5 HOH A 22 322 322 HOH HOH . H 5 HOH A 23 323 323 HOH HOH . H 5 HOH A 24 324 324 HOH HOH . H 5 HOH A 25 325 325 HOH HOH . H 5 HOH A 26 326 326 HOH HOH . H 5 HOH A 27 327 327 HOH HOH . H 5 HOH A 28 328 328 HOH HOH . H 5 HOH A 29 329 329 HOH HOH . H 5 HOH A 30 330 330 HOH HOH . H 5 HOH A 31 331 331 HOH HOH . H 5 HOH A 32 332 332 HOH HOH . H 5 HOH A 33 333 333 HOH HOH . H 5 HOH A 34 334 334 HOH HOH . H 5 HOH A 35 335 335 HOH HOH . H 5 HOH A 36 336 336 HOH HOH . H 5 HOH A 37 337 337 HOH HOH . H 5 HOH A 38 338 338 HOH HOH . H 5 HOH A 39 339 339 HOH HOH . H 5 HOH A 40 340 340 HOH HOH . H 5 HOH A 41 341 341 HOH HOH . H 5 HOH A 42 342 342 HOH HOH . H 5 HOH A 43 343 343 HOH HOH . H 5 HOH A 44 344 344 HOH HOH . H 5 HOH A 45 345 345 HOH HOH . H 5 HOH A 46 346 346 HOH HOH . H 5 HOH A 47 347 347 HOH HOH . H 5 HOH A 48 348 348 HOH HOH . H 5 HOH A 49 349 349 HOH HOH . H 5 HOH A 50 350 350 HOH HOH . H 5 HOH A 51 351 351 HOH HOH . H 5 HOH A 52 352 352 HOH HOH . H 5 HOH A 53 353 353 HOH HOH . H 5 HOH A 54 354 354 HOH HOH . H 5 HOH A 55 355 355 HOH HOH . H 5 HOH A 56 356 356 HOH HOH . H 5 HOH A 57 357 357 HOH HOH . H 5 HOH A 58 358 358 HOH HOH . H 5 HOH A 59 359 359 HOH HOH . H 5 HOH A 60 360 360 HOH HOH . H 5 HOH A 61 361 361 HOH HOH . H 5 HOH A 62 362 362 HOH HOH . H 5 HOH A 63 363 363 HOH HOH . H 5 HOH A 64 364 364 HOH HOH . H 5 HOH A 65 365 365 HOH HOH . H 5 HOH A 66 366 366 HOH HOH . H 5 HOH A 67 367 367 HOH HOH . H 5 HOH A 68 368 368 HOH HOH . H 5 HOH A 69 369 369 HOH HOH . H 5 HOH A 70 370 370 HOH HOH . H 5 HOH A 71 371 371 HOH HOH . H 5 HOH A 72 372 372 HOH HOH . H 5 HOH A 73 373 373 HOH HOH . H 5 HOH A 74 374 374 HOH HOH . H 5 HOH A 75 375 375 HOH HOH . H 5 HOH A 76 376 376 HOH HOH . H 5 HOH A 77 377 377 HOH HOH . H 5 HOH A 78 378 378 HOH HOH . H 5 HOH A 79 379 379 HOH HOH . H 5 HOH A 80 380 380 HOH HOH . H 5 HOH A 81 381 381 HOH HOH . I 5 HOH B 1 301 301 HOH HOH . I 5 HOH B 2 302 302 HOH HOH . I 5 HOH B 3 303 303 HOH HOH . I 5 HOH B 4 304 304 HOH HOH . I 5 HOH B 5 305 305 HOH HOH . I 5 HOH B 6 306 306 HOH HOH . I 5 HOH B 7 307 307 HOH HOH . I 5 HOH B 8 308 308 HOH HOH . I 5 HOH B 9 309 309 HOH HOH . I 5 HOH B 10 310 310 HOH HOH . I 5 HOH B 11 311 311 HOH HOH . I 5 HOH B 12 312 312 HOH HOH . I 5 HOH B 13 313 313 HOH HOH . I 5 HOH B 14 314 314 HOH HOH . I 5 HOH B 15 315 315 HOH HOH . I 5 HOH B 16 316 316 HOH HOH . I 5 HOH B 17 317 317 HOH HOH . I 5 HOH B 18 318 318 HOH HOH . I 5 HOH B 19 319 319 HOH HOH . I 5 HOH B 20 320 320 HOH HOH . I 5 HOH B 21 321 321 HOH HOH . I 5 HOH B 22 322 322 HOH HOH . I 5 HOH B 23 323 323 HOH HOH . I 5 HOH B 24 324 324 HOH HOH . I 5 HOH B 25 325 325 HOH HOH . I 5 HOH B 26 326 326 HOH HOH . I 5 HOH B 27 327 327 HOH HOH . I 5 HOH B 28 328 328 HOH HOH . I 5 HOH B 29 329 329 HOH HOH . I 5 HOH B 30 330 330 HOH HOH . I 5 HOH B 31 331 331 HOH HOH . I 5 HOH B 32 332 332 HOH HOH . I 5 HOH B 33 333 333 HOH HOH . I 5 HOH B 34 334 334 HOH HOH . I 5 HOH B 35 335 335 HOH HOH . I 5 HOH B 36 336 336 HOH HOH . I 5 HOH B 37 337 337 HOH HOH . I 5 HOH B 38 338 338 HOH HOH . I 5 HOH B 39 339 339 HOH HOH . I 5 HOH B 40 340 340 HOH HOH . I 5 HOH B 41 341 341 HOH HOH . I 5 HOH B 42 342 342 HOH HOH . I 5 HOH B 43 343 343 HOH HOH . I 5 HOH B 44 344 344 HOH HOH . I 5 HOH B 45 345 345 HOH HOH . I 5 HOH B 46 346 346 HOH HOH . I 5 HOH B 47 347 347 HOH HOH . I 5 HOH B 48 348 348 HOH HOH . I 5 HOH B 49 349 349 HOH HOH . I 5 HOH B 50 350 350 HOH HOH . I 5 HOH B 51 351 351 HOH HOH . I 5 HOH B 52 352 352 HOH HOH . I 5 HOH B 53 353 353 HOH HOH . I 5 HOH B 54 354 354 HOH HOH . I 5 HOH B 55 355 355 HOH HOH . I 5 HOH B 56 356 356 HOH HOH . I 5 HOH B 57 357 357 HOH HOH . I 5 HOH B 58 358 358 HOH HOH . I 5 HOH B 59 359 359 HOH HOH . I 5 HOH B 60 360 360 HOH HOH . I 5 HOH B 61 361 361 HOH HOH . I 5 HOH B 62 362 362 HOH HOH . I 5 HOH B 63 363 363 HOH HOH . I 5 HOH B 64 364 364 HOH HOH . I 5 HOH B 65 365 365 HOH HOH . I 5 HOH B 66 366 366 HOH HOH . I 5 HOH B 67 367 367 HOH HOH . I 5 HOH B 68 368 368 HOH HOH . I 5 HOH B 69 369 369 HOH HOH . I 5 HOH B 70 370 370 HOH HOH . I 5 HOH B 71 371 371 HOH HOH . I 5 HOH B 72 372 372 HOH HOH . I 5 HOH B 73 373 373 HOH HOH . I 5 HOH B 74 374 374 HOH HOH . I 5 HOH B 75 375 375 HOH HOH . I 5 HOH B 76 376 376 HOH HOH . I 5 HOH B 77 377 377 HOH HOH . I 5 HOH B 78 378 378 HOH HOH . I 5 HOH B 79 379 379 HOH HOH . I 5 HOH B 80 380 380 HOH HOH . I 5 HOH B 81 381 381 HOH HOH . I 5 HOH B 82 382 382 HOH HOH . I 5 HOH B 83 383 383 HOH HOH . I 5 HOH B 84 384 384 HOH HOH . I 5 HOH B 85 385 385 HOH HOH . I 5 HOH B 86 386 386 HOH HOH . I 5 HOH B 87 387 387 HOH HOH . I 5 HOH B 88 388 388 HOH HOH . I 5 HOH B 89 389 389 HOH HOH . I 5 HOH B 90 390 390 HOH HOH . I 5 HOH B 91 391 391 HOH HOH . I 5 HOH B 92 392 392 HOH HOH . I 5 HOH B 93 393 393 HOH HOH . I 5 HOH B 94 394 394 HOH HOH . I 5 HOH B 95 395 395 HOH HOH . I 5 HOH B 96 396 396 HOH HOH . I 5 HOH B 97 397 397 HOH HOH . I 5 HOH B 98 398 398 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 . . . C 2 -16.593 11.26 8.166 1 11.65 ? P AMP 200 A 1 HETATM 2 O O1P AMP . . . C 2 -15.649 12.258 7.541 1 11.59 ? O1P AMP 200 A 1 HETATM 3 O O2P AMP . . . C 2 -16.204 10.831 9.547 1 10.49 ? O2P AMP 200 A 1 HETATM 4 O O3P AMP . . . C 2 -18.064 11.596 8.032 1 12.17 ? O3P AMP 200 A 1 HETATM 5 O O5' AMP . . . C 2 -16.393 10.04 7.159 1 12.08 ? O5' AMP 200 A 1 HETATM 6 C C5' AMP . . . C 2 -16.615 8.752 7.681 1 20.43 ? C5' AMP 200 A 1 HETATM 7 C C4' AMP . . . C 2 -17.223 7.876 6.603 1 23.63 ? C4' AMP 200 A 1 HETATM 8 O O4' AMP . . . C 2 -16.473 7.886 5.379 1 25.57 ? O4' AMP 200 A 1 HETATM 9 C C3' AMP . . . C 2 -17.142 6.511 7.198 1 29.81 ? C3' AMP 200 A 1 HETATM 10 O O3' AMP . . . C 2 -18.366 5.84 6.895 1 30.27 ? O3' AMP 200 A 1 HETATM 11 C C2' AMP . . . C 2 -15.875 5.94 6.583 1 26.25 ? C2' AMP 200 A 1 HETATM 12 O O2' AMP . . . C 2 -16.126 4.588 6.218 1 32.31 ? O2' AMP 200 A 1 HETATM 13 C C1' AMP . . . C 2 -15.534 6.799 5.347 1 23.67 ? C1' AMP 200 A 1 HETATM 14 N N9 AMP . . . C 2 -14.102 7.27 5.326 1 18.63 ? N9 AMP 200 A 1 HETATM 15 C C8 AMP . . . C 2 -13.673 8.537 5.535 1 17.66 ? C8 AMP 200 A 1 HETATM 16 N N7 AMP . . . C 2 -12.308 8.635 5.46 1 18.6 ? N7 AMP 200 A 1 HETATM 17 C C5 AMP . . . C 2 -11.829 7.388 5.185 1 16.09 ? C5 AMP 200 A 1 HETATM 18 C C6 AMP . . . C 2 -10.495 6.764 4.966 1 16.16 ? C6 AMP 200 A 1 HETATM 19 N N6 AMP . . . C 2 -9.355 7.493 5.03 1 15.69 ? N6 AMP 200 A 1 HETATM 20 N N1 AMP . . . C 2 -10.443 5.426 4.719 1 13.67 ? N1 AMP 200 A 1 HETATM 21 C C2 AMP . . . C 2 -11.564 4.685 4.65 1 12.78 ? C2 AMP 200 A 1 HETATM 22 N N3 AMP . . . C 2 -12.805 5.179 4.826 1 14 ? N3 AMP 200 A 1 HETATM 23 C C4 AMP . . . C 2 -13.016 6.501 5.102 1 18.12 ? C4 AMP 200 A 1 # _model_server_stats.io_time_ms 13 _model_server_stats.parse_time_ms 15 _model_server_stats.create_model_time_ms 25 _model_server_stats.query_time_ms 312 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 23 #