data_1P8V # _model_server_result.job_id fChJB-VnPXkwK1pRacxygg _model_server_result.datetime_utc '2024-12-27 01:29:57' _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 1p8v # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":500}' # _entry.id 1P8V # _exptl.entry_id 1P8V _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 166.155 _entity.id 6 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'DIISOPROPYL PHOSPHONATE' _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 1P8V _cell.length_a 47.095 _cell.length_b 111.77 _cell.length_c 176.251 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1P8V _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 hexameric _pdbx_struct_assembly.oligomeric_count 6 _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 1,2 # 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' 3_655 -x+1,y+1/2,-z+1/2 -1 0 0 0 1 0 0 0 -1 47.095 55.885 88.1255 # _struct_asym.details ? _struct_asym.entity_id 6 _struct_asym.id F _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 4 A CYS 4 1_555 A SG CYS 17 A CYS 17 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf2 A SG CYS 209 A CYS 209 1_555 A SG CYS 248 A CYS 248 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? disulf ? disulf3 A SG CYS 211 A CYS 211 1_555 A SG CYS 264 A CYS 264 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? disulf ? disulf4 B SG CYS 4 B CYS 4 1_555 C SG CYS 119 C CYS 119 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.012 ? disulf ? disulf5 C SG CYS 28 C CYS 28 1_555 C SG CYS 44 C CYS 44 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf6 C SG CYS 173 C CYS 173 1_555 C SG CYS 187 C CYS 187 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? disulf ? disulf7 C SG CYS 201 C CYS 201 1_555 C SG CYS 231 C CYS 231 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? covale ? covale1 A C LEU 275 A LEU 275 1_555 A N TYS 276 A TYS 276 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale2 A C TYS 276 A TYS 276 1_555 A N ASP 277 A ASP 277 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale3 A C TYR 278 A TYR 278 1_555 A N TYS 279 A TYS 279 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.327 ? covale ? covale4 C ND2 ASN 53 C ASN 53 1_555 E C1 NAG . C NAG 300 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.711 ? covale ? covale5 C OG SER 205 C SER 205 1_555 F P DFP . C DFP 500 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.488 ? # _chem_comp.formula 'C6 H15 O3 P' _chem_comp.formula_weight 166.155 _chem_comp.id DFP _chem_comp.mon_nstd_flag . _chem_comp.name 'DIISOPROPYL PHOSPHONATE' _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 C1 C2 DFP sing 83 n n C1 C3 DFP sing 84 n n C1 O1P DFP sing 85 n n C1 H1 DFP sing 86 n n C2 H21 DFP sing 87 n n C2 H22 DFP sing 88 n n C2 H23 DFP sing 89 n n C3 H31 DFP sing 90 n n C3 H32 DFP sing 91 n n C3 H33 DFP sing 92 n n C1' C2' DFP sing 93 n n C1' C3' DFP sing 94 n n C1' O2P DFP sing 95 n n C1' H1' DFP sing 96 n n C2' "H2'1" DFP sing 97 n n C2' "H2'2" DFP sing 98 n n C2' "H2'3" DFP sing 99 n n C3' "H3'1" DFP sing 100 n n C3' "H3'2" DFP sing 101 n n C3' "H3'3" DFP sing 102 n n P O1P DFP sing 103 n n P O2P DFP sing 104 n n P O3P DFP doub 105 n n HP1 P DFP sing 106 n n # _atom_sites.entry_id 1P8V _atom_sites.fract_transf_matrix[1][1] 0.021234 _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] 0.008947 _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] 0.005674 _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 D 4 MES A 1 400 400 MES MES . E 5 NAG C 1 300 300 NAG NAG . F 6 DFP C 1 500 500 DFP DFP . G 7 HOH A 1 401 1 HOH HOH . G 7 HOH A 2 402 2 HOH HOH . G 7 HOH A 3 403 3 HOH HOH . G 7 HOH A 4 404 6 HOH HOH . G 7 HOH A 5 405 7 HOH HOH . G 7 HOH A 6 406 9 HOH HOH . G 7 HOH A 7 407 10 HOH HOH . G 7 HOH A 8 408 11 HOH HOH . G 7 HOH A 9 409 12 HOH HOH . G 7 HOH A 10 410 15 HOH HOH . G 7 HOH A 11 411 16 HOH HOH . G 7 HOH A 12 412 17 HOH HOH . G 7 HOH A 13 413 19 HOH HOH . G 7 HOH A 14 414 20 HOH HOH . G 7 HOH A 15 415 21 HOH HOH . G 7 HOH A 16 416 23 HOH HOH . G 7 HOH A 17 417 24 HOH HOH . G 7 HOH A 18 418 25 HOH HOH . G 7 HOH A 19 419 27 HOH HOH . G 7 HOH A 20 420 28 HOH HOH . G 7 HOH A 21 421 29 HOH HOH . G 7 HOH A 22 422 32 HOH HOH . G 7 HOH A 23 423 33 HOH HOH . G 7 HOH A 24 424 35 HOH HOH . G 7 HOH A 25 425 36 HOH HOH . G 7 HOH A 26 426 37 HOH HOH . G 7 HOH A 27 427 38 HOH HOH . G 7 HOH A 28 428 40 HOH HOH . G 7 HOH A 29 429 42 HOH HOH . G 7 HOH A 30 430 45 HOH HOH . G 7 HOH A 31 431 46 HOH HOH . G 7 HOH A 32 432 47 HOH HOH . G 7 HOH A 33 433 48 HOH HOH . G 7 HOH A 34 434 49 HOH HOH . G 7 HOH A 35 435 50 HOH HOH . G 7 HOH A 36 436 51 HOH HOH . G 7 HOH A 37 437 52 HOH HOH . G 7 HOH A 38 438 54 HOH HOH . G 7 HOH A 39 439 56 HOH HOH . G 7 HOH A 40 440 59 HOH HOH . G 7 HOH A 41 441 62 HOH HOH . G 7 HOH A 42 442 64 HOH HOH . G 7 HOH A 43 443 65 HOH HOH . G 7 HOH A 44 444 66 HOH HOH . G 7 HOH A 45 445 67 HOH HOH . G 7 HOH A 46 446 68 HOH HOH . G 7 HOH A 47 447 69 HOH HOH . G 7 HOH A 48 448 70 HOH HOH . G 7 HOH A 49 449 71 HOH HOH . G 7 HOH A 50 450 72 HOH HOH . G 7 HOH A 51 451 74 HOH HOH . G 7 HOH A 52 452 75 HOH HOH . G 7 HOH A 53 453 77 HOH HOH . G 7 HOH A 54 454 80 HOH HOH . G 7 HOH A 55 455 81 HOH HOH . G 7 HOH A 56 456 82 HOH HOH . G 7 HOH A 57 457 83 HOH HOH . G 7 HOH A 58 458 84 HOH HOH . G 7 HOH A 59 459 85 HOH HOH . G 7 HOH A 60 460 87 HOH HOH . G 7 HOH A 61 461 88 HOH HOH . G 7 HOH A 62 462 89 HOH HOH . G 7 HOH A 63 463 92 HOH HOH . G 7 HOH A 64 464 94 HOH HOH . G 7 HOH A 65 465 96 HOH HOH . G 7 HOH A 66 466 98 HOH HOH . G 7 HOH A 67 467 100 HOH HOH . G 7 HOH A 68 468 101 HOH HOH . G 7 HOH A 69 469 106 HOH HOH . G 7 HOH A 70 470 107 HOH HOH . G 7 HOH A 71 471 109 HOH HOH . G 7 HOH A 72 472 111 HOH HOH . G 7 HOH A 73 473 112 HOH HOH . G 7 HOH A 74 474 114 HOH HOH . G 7 HOH A 75 475 116 HOH HOH . G 7 HOH A 76 476 117 HOH HOH . G 7 HOH A 77 477 118 HOH HOH . G 7 HOH A 78 478 120 HOH HOH . G 7 HOH A 79 479 121 HOH HOH . G 7 HOH A 80 480 123 HOH HOH . G 7 HOH A 81 481 124 HOH HOH . G 7 HOH A 82 482 125 HOH HOH . G 7 HOH A 83 483 126 HOH HOH . G 7 HOH A 84 484 127 HOH HOH . G 7 HOH A 85 485 128 HOH HOH . G 7 HOH A 86 486 129 HOH HOH . G 7 HOH A 87 487 130 HOH HOH . G 7 HOH A 88 488 131 HOH HOH . G 7 HOH A 89 489 132 HOH HOH . G 7 HOH A 90 490 133 HOH HOH . G 7 HOH A 91 491 134 HOH HOH . G 7 HOH A 92 492 135 HOH HOH . G 7 HOH A 93 493 136 HOH HOH . G 7 HOH A 94 494 137 HOH HOH . G 7 HOH A 95 495 143 HOH HOH . G 7 HOH A 96 496 144 HOH HOH . G 7 HOH A 97 497 145 HOH HOH . G 7 HOH A 98 498 146 HOH HOH . G 7 HOH A 99 499 148 HOH HOH . G 7 HOH A 100 500 149 HOH HOH . G 7 HOH A 101 501 150 HOH HOH . G 7 HOH A 102 502 152 HOH HOH . G 7 HOH A 103 503 153 HOH HOH . G 7 HOH A 104 504 155 HOH HOH . G 7 HOH A 105 505 156 HOH HOH . G 7 HOH A 106 506 157 HOH HOH . G 7 HOH A 107 507 158 HOH HOH . G 7 HOH A 108 508 159 HOH HOH . G 7 HOH A 109 509 161 HOH HOH . G 7 HOH A 110 510 162 HOH HOH . G 7 HOH A 111 511 163 HOH HOH . G 7 HOH A 112 512 164 HOH HOH . G 7 HOH A 113 513 165 HOH HOH . G 7 HOH A 114 514 168 HOH HOH . G 7 HOH A 115 515 171 HOH HOH . G 7 HOH A 116 516 173 HOH HOH . G 7 HOH A 117 517 174 HOH HOH . G 7 HOH A 118 518 176 HOH HOH . G 7 HOH A 119 519 179 HOH HOH . G 7 HOH A 120 520 180 HOH HOH . G 7 HOH A 121 521 181 HOH HOH . G 7 HOH A 122 522 182 HOH HOH . G 7 HOH A 123 523 183 HOH HOH . G 7 HOH A 124 524 186 HOH HOH . G 7 HOH A 125 525 187 HOH HOH . G 7 HOH A 126 526 188 HOH HOH . G 7 HOH A 127 527 189 HOH HOH . G 7 HOH A 128 528 190 HOH HOH . G 7 HOH A 129 529 191 HOH HOH . G 7 HOH A 130 530 193 HOH HOH . G 7 HOH A 131 531 194 HOH HOH . G 7 HOH A 132 532 195 HOH HOH . G 7 HOH A 133 533 196 HOH HOH . G 7 HOH A 134 534 197 HOH HOH . G 7 HOH A 135 535 217 HOH HOH . H 7 HOH B 1 31 31 HOH HOH . H 7 HOH B 2 78 78 HOH HOH . H 7 HOH B 3 175 175 HOH HOH . I 7 HOH C 1 501 4 HOH HOH . I 7 HOH C 2 502 5 HOH HOH . I 7 HOH C 3 503 8 HOH HOH . I 7 HOH C 4 504 13 HOH HOH . I 7 HOH C 5 505 14 HOH HOH . I 7 HOH C 6 506 18 HOH HOH . I 7 HOH C 7 507 22 HOH HOH . I 7 HOH C 8 508 26 HOH HOH . I 7 HOH C 9 509 30 HOH HOH . I 7 HOH C 10 510 34 HOH HOH . I 7 HOH C 11 511 39 HOH HOH . I 7 HOH C 12 512 41 HOH HOH . I 7 HOH C 13 513 43 HOH HOH . I 7 HOH C 14 514 44 HOH HOH . I 7 HOH C 15 515 53 HOH HOH . I 7 HOH C 16 516 55 HOH HOH . I 7 HOH C 17 517 57 HOH HOH . I 7 HOH C 18 518 58 HOH HOH . I 7 HOH C 19 519 60 HOH HOH . I 7 HOH C 20 520 61 HOH HOH . I 7 HOH C 21 521 63 HOH HOH . I 7 HOH C 22 522 73 HOH HOH . I 7 HOH C 23 523 76 HOH HOH . I 7 HOH C 24 524 79 HOH HOH . I 7 HOH C 25 525 86 HOH HOH . I 7 HOH C 26 526 90 HOH HOH . I 7 HOH C 27 527 91 HOH HOH . I 7 HOH C 28 528 93 HOH HOH . I 7 HOH C 29 529 95 HOH HOH . I 7 HOH C 30 530 97 HOH HOH . I 7 HOH C 31 531 99 HOH HOH . I 7 HOH C 32 532 102 HOH HOH . I 7 HOH C 33 533 103 HOH HOH . I 7 HOH C 34 534 104 HOH HOH . I 7 HOH C 35 535 105 HOH HOH . I 7 HOH C 36 536 108 HOH HOH . I 7 HOH C 37 537 110 HOH HOH . I 7 HOH C 38 538 113 HOH HOH . I 7 HOH C 39 539 115 HOH HOH . I 7 HOH C 40 540 119 HOH HOH . I 7 HOH C 41 541 122 HOH HOH . I 7 HOH C 42 542 138 HOH HOH . I 7 HOH C 43 543 139 HOH HOH . I 7 HOH C 44 544 140 HOH HOH . I 7 HOH C 45 545 141 HOH HOH . I 7 HOH C 46 546 142 HOH HOH . I 7 HOH C 47 547 147 HOH HOH . I 7 HOH C 48 548 151 HOH HOH . I 7 HOH C 49 549 154 HOH HOH . I 7 HOH C 50 550 160 HOH HOH . I 7 HOH C 51 551 166 HOH HOH . I 7 HOH C 52 552 167 HOH HOH . I 7 HOH C 53 553 169 HOH HOH . I 7 HOH C 54 554 170 HOH HOH . I 7 HOH C 55 555 172 HOH HOH . I 7 HOH C 56 556 177 HOH HOH . I 7 HOH C 57 557 178 HOH HOH . I 7 HOH C 58 558 184 HOH HOH . I 7 HOH C 59 559 185 HOH HOH . I 7 HOH C 60 560 192 HOH HOH . I 7 HOH C 61 561 198 HOH HOH . I 7 HOH C 62 562 199 HOH HOH . I 7 HOH C 63 563 200 HOH HOH . I 7 HOH C 64 564 201 HOH HOH . I 7 HOH C 65 565 202 HOH HOH . I 7 HOH C 66 566 203 HOH HOH . I 7 HOH C 67 567 204 HOH HOH . I 7 HOH C 68 568 205 HOH HOH . I 7 HOH C 69 569 206 HOH HOH . I 7 HOH C 70 570 207 HOH HOH . I 7 HOH C 71 571 208 HOH HOH . I 7 HOH C 72 572 209 HOH HOH . I 7 HOH C 73 573 210 HOH HOH . I 7 HOH C 74 574 211 HOH HOH . I 7 HOH C 75 575 212 HOH HOH . I 7 HOH C 76 576 213 HOH HOH . I 7 HOH C 77 577 214 HOH HOH . I 7 HOH C 78 578 215 HOH HOH . I 7 HOH C 79 579 216 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 C C1 DFP . . . F 6 35.316 38.571 37.717 1 72.29 ? C1 DFP 500 C 1 HETATM 2 C C2 DFP . . . F 6 36.622 39.004 37.027 1 75.62 ? C2 DFP 500 C 1 HETATM 3 C C3 DFP . . . F 6 34.005 38.784 36.863 1 71.08 ? C3 DFP 500 C 1 HETATM 4 C C1' DFP . . . F 6 36.488 39.36 42.391 1 73.05 ? C1' DFP 500 C 1 HETATM 5 C C2' DFP . . . F 6 37.379 40.535 41.987 1 72.78 ? C2' DFP 500 C 1 HETATM 6 C C3' DFP . . . F 6 37.141 38.511 43.477 1 72.58 ? C3' DFP 500 C 1 HETATM 7 P P DFP . . . F 6 34.92 38.663 40.294 1 74.37 ? P DFP 500 C 1 HETATM 8 O O1P DFP . . . F 6 35.266 39.335 38.912 1 73.3 ? O1P DFP 500 C 1 HETATM 9 O O2P DFP . . . F 6 36.258 38.592 41.205 1 73.63 ? O2P DFP 500 C 1 HETATM 10 O O3P DFP . . . F 6 34.321 37.277 40.063 1 69.45 ? O3P DFP 500 C 1 # _model_server_stats.io_time_ms 8 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 17 _model_server_stats.query_time_ms 288 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 10 #