data_2ZSE # _model_server_result.job_id PXjEFJzTt6cLovp4ieVfFg _model_server_result.datetime_utc '2024-10-11 13:23:43' _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 2zse # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":500}' # _entry.id 2ZSE # _exptl.entry_id 2ZSE _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 505.208 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'PHOSPHOMETHYLPHOSPHONIC ACID ADENYLATE ESTER' _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 2ZSE _cell.length_a 102.942 _cell.length_b 102.942 _cell.length_c 91.23 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2ZSE _symmetry.cell_setting ? _symmetry.Int_Tables_number 152 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 31 2 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,J,K,L,M,N,O,P,Q,R,S _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 6_765 -x+2,-x+y+1,-z+1/3 -0.5 -0.866025 0 -0.866025 0.5 0 0 0 -1 154.413 89.150387 30.41 # _struct_asym.details ? _struct_asym.entity_id 2 _struct_asym.id B _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 OD2 ASP 124 A ASP 124 1_555 Q NA NA . A NA 950 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.054 ? metalc ? metalc2 A OD1 ASP 124 A ASP 124 1_555 Q NA NA . A NA 950 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.189 ? metalc ? metalc3 A O LEU 312 A LEU 312 1_555 R NA NA . A NA 951 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.604 ? # _chem_comp.formula 'C11 H18 N5 O12 P3' _chem_comp.formula_weight 505.208 _chem_comp.id ACP _chem_comp.mon_nstd_flag . _chem_comp.name 'PHOSPHOMETHYLPHOSPHONIC ACID ADENYLATE ESTER' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms "ADENOSINE-5'-[BETA, GAMMA-METHYLENE]TRIPHOSPHATE" # 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 PG O1G ACP doub 1 n n PG O2G ACP sing 2 n n PG O3G ACP sing 3 n n PG C3B ACP sing 4 n n O2G HOG2 ACP sing 5 n n O3G HOG3 ACP sing 6 n n PB O1B ACP doub 7 n n PB O2B ACP sing 8 n n PB C3B ACP sing 9 n n PB O3A ACP sing 10 n n O2B HOB2 ACP sing 11 n n C3B H3B1 ACP sing 12 n n C3B H3B2 ACP sing 13 n n PA O1A ACP doub 14 n n PA O2A ACP sing 15 n n PA O3A ACP sing 16 n n PA O5' ACP sing 17 n n O2A HOA2 ACP sing 18 n n O5' C5' ACP sing 19 n n C5' C4' ACP sing 20 n n C5' "H5'1" ACP sing 21 n n C5' "H5'2" ACP sing 22 n n C4' O4' ACP sing 23 n n C4' C3' ACP sing 24 n n C4' H4' ACP sing 25 n n O4' C1' ACP sing 26 n n C3' O3' ACP sing 27 n n C3' C2' ACP sing 28 n n C3' H3' ACP sing 29 n n O3' HO3' ACP sing 30 n n C2' O2' ACP sing 31 n n C2' C1' ACP sing 32 n n C2' H2' ACP sing 33 n n O2' HO2' ACP sing 34 n n C1' N9 ACP sing 35 n n C1' H1' ACP sing 36 n n N9 C8 ACP sing 37 n y N9 C4 ACP sing 38 n y C8 N7 ACP doub 39 n y C8 H8 ACP sing 40 n n N7 C5 ACP sing 41 n y C5 C6 ACP sing 42 n y C5 C4 ACP doub 43 n y C6 N6 ACP sing 44 n n C6 N1 ACP doub 45 n y N6 HN61 ACP sing 46 n n N6 HN62 ACP sing 47 n n N1 C2 ACP sing 48 n y C2 N3 ACP doub 49 n y C2 H2 ACP sing 50 n n N3 C4 ACP sing 51 n y # _atom_sites.entry_id 2ZSE _atom_sites.fract_transf_matrix[1][1] 0.009714 _atom_sites.fract_transf_matrix[1][2] 0.005609 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.011217 _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] 0.010961 _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 ACP A 1 500 500 ACP ACP . C 3 PAU A 1 600 600 PAU PAU . D 4 GOL A 1 800 800 GOL GOL . E 4 GOL A 1 801 801 GOL GOL . F 4 GOL A 1 802 802 GOL GOL . G 4 GOL A 1 803 803 GOL GOL . H 4 GOL A 1 805 805 GOL GOL . I 4 GOL A 1 806 806 GOL GOL . J 5 EDO A 1 900 900 EDO EDO . K 5 EDO A 1 901 901 EDO EDO . L 5 EDO A 1 902 902 EDO EDO . M 5 EDO A 1 903 903 EDO EDO . N 5 EDO A 1 904 904 EDO EDO . O 5 EDO A 1 905 905 EDO EDO . P 6 FLC A 1 650 650 FLC FLC . Q 7 NA A 1 950 950 NA NA . R 7 NA A 1 951 951 NA NA . S 8 HOH A 1 320 320 HOH HOH . S 8 HOH A 2 321 321 HOH HOH . S 8 HOH A 3 322 322 HOH HOH . S 8 HOH A 4 323 323 HOH HOH . S 8 HOH A 5 324 324 HOH HOH . S 8 HOH A 6 325 325 HOH HOH . S 8 HOH A 7 326 326 HOH HOH . S 8 HOH A 8 327 327 HOH HOH . S 8 HOH A 9 328 328 HOH HOH . S 8 HOH A 10 329 329 HOH HOH . S 8 HOH A 11 330 330 HOH HOH . S 8 HOH A 12 331 331 HOH HOH . S 8 HOH A 13 332 332 HOH HOH . S 8 HOH A 14 333 333 HOH HOH . S 8 HOH A 15 334 334 HOH HOH . S 8 HOH A 16 335 335 HOH HOH . S 8 HOH A 17 336 336 HOH HOH . S 8 HOH A 18 337 337 HOH HOH . S 8 HOH A 19 338 338 HOH HOH . S 8 HOH A 20 339 339 HOH HOH . S 8 HOH A 21 340 340 HOH HOH . S 8 HOH A 22 341 341 HOH HOH . S 8 HOH A 23 342 342 HOH HOH . S 8 HOH A 24 343 343 HOH HOH . S 8 HOH A 25 344 344 HOH HOH . S 8 HOH A 26 345 345 HOH HOH . S 8 HOH A 27 346 346 HOH HOH . S 8 HOH A 28 347 347 HOH HOH . S 8 HOH A 29 348 348 HOH HOH . S 8 HOH A 30 349 349 HOH HOH . S 8 HOH A 31 350 350 HOH HOH . S 8 HOH A 32 351 351 HOH HOH . S 8 HOH A 33 352 352 HOH HOH . S 8 HOH A 34 353 353 HOH HOH . S 8 HOH A 35 354 354 HOH HOH . S 8 HOH A 36 355 355 HOH HOH . S 8 HOH A 37 356 356 HOH HOH . S 8 HOH A 38 357 357 HOH HOH . S 8 HOH A 39 358 358 HOH HOH . S 8 HOH A 40 359 359 HOH HOH . S 8 HOH A 41 360 360 HOH HOH . S 8 HOH A 42 361 361 HOH HOH . S 8 HOH A 43 362 362 HOH HOH . S 8 HOH A 44 363 363 HOH HOH . S 8 HOH A 45 364 364 HOH HOH . S 8 HOH A 46 365 365 HOH HOH . S 8 HOH A 47 366 366 HOH HOH . S 8 HOH A 48 367 367 HOH HOH . S 8 HOH A 49 368 368 HOH HOH . S 8 HOH A 50 369 369 HOH HOH . S 8 HOH A 51 370 370 HOH HOH . S 8 HOH A 52 371 371 HOH HOH . S 8 HOH A 53 372 372 HOH HOH . S 8 HOH A 54 373 373 HOH HOH . S 8 HOH A 55 374 374 HOH HOH . S 8 HOH A 56 375 375 HOH HOH . S 8 HOH A 57 376 376 HOH HOH . S 8 HOH A 58 377 377 HOH HOH . S 8 HOH A 59 378 378 HOH HOH . S 8 HOH A 60 379 379 HOH HOH . S 8 HOH A 61 380 380 HOH HOH . S 8 HOH A 62 381 381 HOH HOH . S 8 HOH A 63 382 382 HOH HOH . S 8 HOH A 64 383 383 HOH HOH . S 8 HOH A 65 384 384 HOH HOH . S 8 HOH A 66 385 385 HOH HOH . S 8 HOH A 67 386 386 HOH HOH . S 8 HOH A 68 387 387 HOH HOH . S 8 HOH A 69 388 388 HOH HOH . S 8 HOH A 70 389 389 HOH HOH . S 8 HOH A 71 390 390 HOH HOH . S 8 HOH A 72 391 391 HOH HOH . S 8 HOH A 73 392 392 HOH HOH . S 8 HOH A 74 393 393 HOH HOH . S 8 HOH A 75 394 394 HOH HOH . S 8 HOH A 76 395 395 HOH HOH . S 8 HOH A 77 396 396 HOH HOH . S 8 HOH A 78 397 397 HOH HOH . S 8 HOH A 79 398 398 HOH HOH . S 8 HOH A 80 399 399 HOH HOH . S 8 HOH A 81 400 400 HOH HOH . S 8 HOH A 82 401 401 HOH HOH . S 8 HOH A 83 402 402 HOH HOH . S 8 HOH A 84 403 403 HOH HOH . S 8 HOH A 85 404 404 HOH HOH . S 8 HOH A 86 405 405 HOH HOH . S 8 HOH A 87 406 406 HOH HOH . S 8 HOH A 88 407 407 HOH HOH . S 8 HOH A 89 408 408 HOH HOH . S 8 HOH A 90 409 409 HOH HOH . S 8 HOH A 91 410 410 HOH HOH . S 8 HOH A 92 411 411 HOH HOH . S 8 HOH A 93 412 412 HOH HOH . S 8 HOH A 94 413 413 HOH HOH . S 8 HOH A 95 414 414 HOH HOH . S 8 HOH A 96 415 415 HOH HOH . S 8 HOH A 97 416 416 HOH HOH . S 8 HOH A 98 417 417 HOH HOH . S 8 HOH A 99 418 418 HOH HOH . S 8 HOH A 100 419 419 HOH HOH . S 8 HOH A 101 420 420 HOH HOH . S 8 HOH A 102 421 421 HOH HOH . S 8 HOH A 103 422 422 HOH HOH . S 8 HOH A 104 423 423 HOH HOH . S 8 HOH A 105 424 424 HOH HOH . S 8 HOH A 106 425 425 HOH HOH . S 8 HOH A 107 426 426 HOH HOH . S 8 HOH A 108 427 427 HOH HOH . S 8 HOH A 109 428 428 HOH HOH . S 8 HOH A 110 429 429 HOH HOH . S 8 HOH A 111 430 430 HOH HOH . S 8 HOH A 112 431 431 HOH HOH . S 8 HOH A 113 432 432 HOH HOH . S 8 HOH A 114 433 433 HOH HOH . S 8 HOH A 115 434 434 HOH HOH . S 8 HOH A 116 435 435 HOH HOH . S 8 HOH A 117 436 436 HOH HOH . S 8 HOH A 118 437 437 HOH HOH . S 8 HOH A 119 438 438 HOH HOH . S 8 HOH A 120 439 439 HOH HOH . S 8 HOH A 121 440 440 HOH HOH . S 8 HOH A 122 442 442 HOH HOH . S 8 HOH A 123 443 443 HOH HOH . S 8 HOH A 124 444 444 HOH HOH . S 8 HOH A 125 445 445 HOH HOH . S 8 HOH A 126 446 446 HOH HOH . S 8 HOH A 127 447 447 HOH HOH . S 8 HOH A 128 448 448 HOH HOH . S 8 HOH A 129 449 449 HOH HOH . S 8 HOH A 130 450 450 HOH HOH . S 8 HOH A 131 451 451 HOH HOH . S 8 HOH A 132 452 452 HOH HOH . S 8 HOH A 133 453 453 HOH HOH . S 8 HOH A 134 454 454 HOH HOH . S 8 HOH A 135 455 455 HOH HOH . S 8 HOH A 136 456 456 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 PG ACP . . . B 2 63.997 32.366 -2.118 1 93.6 ? PG ACP 500 A 1 HETATM 2 O O1G ACP . . . B 2 64.267 33.52 -1.031 1 94.93 ? O1G ACP 500 A 1 HETATM 3 O O2G ACP . . . B 2 62.73 32.842 -2.988 1 96.5 ? O2G ACP 500 A 1 HETATM 4 O O3G ACP . . . B 2 63.773 31.054 -1.472 1 96.11 ? O3G ACP 500 A 1 HETATM 5 P PB ACP . . . B 2 66.281 30.795 -3.208 1 99.2 ? PB ACP 500 A 1 HETATM 6 O O1B ACP . . . B 2 66.074 30.055 -1.945 1 98.88 ? O1B ACP 500 A 1 HETATM 7 O O2B ACP . . . B 2 67.828 31.141 -3.471 1 98.73 ? O2B ACP 500 A 1 HETATM 8 C C3B ACP . . . B 2 65.415 32.38 -3.239 1 97.53 ? C3B ACP 500 A 1 HETATM 9 P PA ACP . . . B 2 66.184 28.477 -4.781 1 102.5 ? PA ACP 500 A 1 HETATM 10 O O1A ACP . . . B 2 67.537 28.158 -4.28 1 102.15 ? O1A ACP 500 A 1 HETATM 11 O O2A ACP . . . B 2 66.035 28.255 -6.367 1 102.75 ? O2A ACP 500 A 1 HETATM 12 O O3A ACP . . . B 2 65.773 30.008 -4.515 1 100.85 ? O3A ACP 500 A 1 HETATM 13 O O5' ACP . . . B 2 65.031 27.589 -4.096 1 104.82 ? O5' ACP 500 A 1 HETATM 14 C C5' ACP . . . B 2 64.414 28.031 -2.884 1 107.26 ? C5' ACP 500 A 1 HETATM 15 C C4' ACP . . . B 2 63.308 27.075 -2.434 1 109.05 ? C4' ACP 500 A 1 HETATM 16 O O4' ACP . . . B 2 62.698 27.483 -1.195 1 110.68 ? O4' ACP 500 A 1 HETATM 17 C C3' ACP . . . B 2 62.163 27.012 -3.444 1 109.98 ? C3' ACP 500 A 1 HETATM 18 O O3' ACP . . . B 2 62.501 26.108 -4.501 1 108.25 ? O3' ACP 500 A 1 HETATM 19 C C2' ACP . . . B 2 61.121 26.372 -2.531 1 111.53 ? C2' ACP 500 A 1 HETATM 20 O O2' ACP . . . B 2 61.529 25.046 -2.185 1 112.45 ? O2' ACP 500 A 1 HETATM 21 C C1' ACP . . . B 2 61.275 27.296 -1.32 1 111.91 ? C1' ACP 500 A 1 HETATM 22 N N9 ACP . . . B 2 60.668 28.609 -1.632 1 112.67 ? N9 ACP 500 A 1 HETATM 23 C C8 ACP . . . B 2 61.236 29.798 -1.437 1 112.79 ? C8 ACP 500 A 1 HETATM 24 N N7 ACP . . . B 2 60.415 30.759 -1.851 1 113.09 ? N7 ACP 500 A 1 HETATM 25 C C5 ACP . . . B 2 59.313 30.181 -2.317 1 112.78 ? C5 ACP 500 A 1 HETATM 26 C C6 ACP . . . B 2 58.133 30.657 -2.873 1 112.54 ? C6 ACP 500 A 1 HETATM 27 N N6 ACP . . . B 2 57.944 31.963 -3.041 1 111.65 ? N6 ACP 500 A 1 HETATM 28 N N1 ACP . . . B 2 57.194 29.777 -3.247 1 112.44 ? N1 ACP 500 A 1 HETATM 29 C C2 ACP . . . B 2 57.376 28.478 -3.095 1 112.58 ? C2 ACP 500 A 1 HETATM 30 N N3 ACP . . . B 2 58.488 27.991 -2.57 1 112.79 ? N3 ACP 500 A 1 HETATM 31 C C4 ACP . . . B 2 59.471 28.811 -2.175 1 112.83 ? C4 ACP 500 A 1 # _model_server_stats.io_time_ms 7 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 25 _model_server_stats.query_time_ms 343 _model_server_stats.encode_time_ms 11 _model_server_stats.element_count 31 #