data_4P3X # _model_server_result.job_id JoH5bCS5QXDTdGcXTO_dOg _model_server_result.datetime_utc '2024-11-27 16:13:13' _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 4p3x # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":303}' # _entry.id 4P3X # _exptl.entry_id 4P3X _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 118.174 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description (4S)-2-METHYL-2,4-PENTANEDIOL _entity.pdbx_number_of_molecules 2 _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 4P3X _cell.length_a 42.92 _cell.length_b 157.21 _cell.length_c 93.94 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4P3X _symmetry.cell_setting . _symmetry.Int_Tables_number 20 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'C 2 2 21' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _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 _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 ? 4 D N N ? 4 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 A N MET 1 A MET -6 1_555 C ZN ZN . A ZN 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.22 ? metalc ? metalc2 A O MET 1 A MET -6 1_555 C ZN ZN . A ZN 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.096 ? metalc ? metalc3 A NE2 HIS 3 A HIS -4 1_555 C ZN ZN . A ZN 302 3_654 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? metalc ? metalc4 A NE2 HIS 6 A HIS -1 1_555 C ZN ZN . A ZN 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.128 ? metalc ? metalc5 A NE2 HIS 7 A HIS 0 1_555 C ZN ZN . A ZN 302 3_654 ? ? ? ? ? ? ? ? ? ? ? ? 2.121 ? metalc ? metalc6 A SG CYS 88 A CYS 81 1_555 B FE4 SF4 . A SF4 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.354 ? metalc ? metalc7 A SG CYS 175 A CYS 168 1_555 B FE1 SF4 . A SF4 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.447 ? metalc ? metalc8 A SG CYS 261 A CYS 254 1_555 B FE2 SF4 . A SF4 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.472 ? metalc ? metalc9 B FE3 SF4 . A SF4 301 1_555 F O HOH . A HOH 533 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.369 ? metalc ? metalc10 B FE3 SF4 . A SF4 301 1_555 F O HOH . A HOH 535 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.785 ? metalc ? metalc11 B FE1 SF4 . A SF4 301 1_555 F O HOH . A HOH 552 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.788 ? metalc ? metalc12 B FE3 SF4 . A SF4 301 1_555 F O HOH . A HOH 552 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.534 ? metalc ? metalc13 C ZN ZN . A ZN 302 1_555 F O HOH . A HOH 404 4_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.148 ? # _chem_comp.formula 'C6 H14 O2' _chem_comp.formula_weight 118.174 _chem_comp.id MPD _chem_comp.mon_nstd_flag . _chem_comp.name (4S)-2-METHYL-2,4-PENTANEDIOL _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 MPD sing 237 n n C1 H11 MPD sing 238 n n C1 H12 MPD sing 239 n n C1 H13 MPD sing 240 n n C2 O2 MPD sing 241 n n C2 CM MPD sing 242 n n C2 C3 MPD sing 243 n n O2 HO2 MPD sing 244 n n CM HM1 MPD sing 245 n n CM HM2 MPD sing 246 n n CM HM3 MPD sing 247 n n C3 C4 MPD sing 248 n n C3 H31 MPD sing 249 n n C3 H32 MPD sing 250 n n C4 O4 MPD sing 251 n n C4 C5 MPD sing 252 n n C4 H4 MPD sing 253 n n O4 HO4 MPD sing 254 n n C5 H51 MPD sing 255 n n C5 H52 MPD sing 256 n n C5 H53 MPD sing 257 n n # _atom_sites.entry_id 4P3X _atom_sites.fract_transf_matrix[1][1] 0.023299 _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] 0.006361 _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] 0.010645 _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 SF4 A 1 301 301 SF4 SF4 . C 3 ZN A 1 302 302 ZN ZN . D 4 MPD A 1 303 303 MPD LIG . E 4 MPD A 1 304 304 MPD LIG . F 5 HOH A 1 401 237 HOH HOH . F 5 HOH A 2 402 124 HOH HOH . F 5 HOH A 3 403 55 HOH HOH . F 5 HOH A 4 404 67 HOH HOH . F 5 HOH A 5 405 107 HOH HOH . F 5 HOH A 6 406 98 HOH HOH . F 5 HOH A 7 407 51 HOH HOH . F 5 HOH A 8 408 163 HOH HOH . F 5 HOH A 9 409 61 HOH HOH . F 5 HOH A 10 410 156 HOH HOH . F 5 HOH A 11 411 62 HOH HOH . F 5 HOH A 12 412 179 HOH HOH . F 5 HOH A 13 413 74 HOH HOH . F 5 HOH A 14 414 230 HOH HOH . F 5 HOH A 15 415 26 HOH HOH . F 5 HOH A 16 416 69 HOH HOH . F 5 HOH A 17 417 232 HOH HOH . F 5 HOH A 18 418 64 HOH HOH . F 5 HOH A 19 419 44 HOH HOH . F 5 HOH A 20 420 229 HOH HOH . F 5 HOH A 21 421 40 HOH HOH . F 5 HOH A 22 422 53 HOH HOH . F 5 HOH A 23 423 24 HOH HOH . F 5 HOH A 24 424 201 HOH HOH . F 5 HOH A 25 425 45 HOH HOH . F 5 HOH A 26 426 200 HOH HOH . F 5 HOH A 27 427 57 HOH HOH . F 5 HOH A 28 428 28 HOH HOH . F 5 HOH A 29 429 140 HOH HOH . F 5 HOH A 30 430 256 HOH HOH . F 5 HOH A 31 431 60 HOH HOH . F 5 HOH A 32 432 190 HOH HOH . F 5 HOH A 33 433 261 HOH HOH . F 5 HOH A 34 434 101 HOH HOH . F 5 HOH A 35 435 15 HOH HOH . F 5 HOH A 36 436 29 HOH HOH . F 5 HOH A 37 437 37 HOH HOH . F 5 HOH A 38 438 131 HOH HOH . F 5 HOH A 39 439 27 HOH HOH . F 5 HOH A 40 440 71 HOH HOH . F 5 HOH A 41 441 259 HOH HOH . F 5 HOH A 42 442 70 HOH HOH . F 5 HOH A 43 443 7 HOH HOH . F 5 HOH A 44 444 94 HOH HOH . F 5 HOH A 45 445 91 HOH HOH . F 5 HOH A 46 446 76 HOH HOH . F 5 HOH A 47 447 50 HOH HOH . F 5 HOH A 48 448 66 HOH HOH . F 5 HOH A 49 449 38 HOH HOH . F 5 HOH A 50 450 106 HOH HOH . F 5 HOH A 51 451 112 HOH HOH . F 5 HOH A 52 452 202 HOH HOH . F 5 HOH A 53 453 130 HOH HOH . F 5 HOH A 54 454 171 HOH HOH . F 5 HOH A 55 455 77 HOH HOH . F 5 HOH A 56 456 88 HOH HOH . F 5 HOH A 57 457 65 HOH HOH . F 5 HOH A 58 458 262 HOH HOH . F 5 HOH A 59 459 218 HOH HOH . F 5 HOH A 60 460 236 HOH HOH . F 5 HOH A 61 461 217 HOH HOH . F 5 HOH A 62 462 144 HOH HOH . F 5 HOH A 63 463 195 HOH HOH . F 5 HOH A 64 464 198 HOH HOH . F 5 HOH A 65 465 258 HOH HOH . F 5 HOH A 66 466 244 HOH HOH . F 5 HOH A 67 467 260 HOH HOH . F 5 HOH A 68 468 153 HOH HOH . F 5 HOH A 69 469 56 HOH HOH . F 5 HOH A 70 470 197 HOH HOH . F 5 HOH A 71 471 196 HOH HOH . F 5 HOH A 72 472 137 HOH HOH . F 5 HOH A 73 473 199 HOH HOH . F 5 HOH A 74 474 234 HOH HOH . F 5 HOH A 75 475 233 HOH HOH . F 5 HOH A 76 476 164 HOH HOH . F 5 HOH A 77 477 166 HOH HOH . F 5 HOH A 78 478 231 HOH HOH . F 5 HOH A 79 479 159 HOH HOH . F 5 HOH A 80 480 210 HOH HOH . F 5 HOH A 81 481 221 HOH HOH . F 5 HOH A 82 482 238 HOH HOH . F 5 HOH A 83 483 182 HOH HOH . F 5 HOH A 84 484 128 HOH HOH . F 5 HOH A 85 485 154 HOH HOH . F 5 HOH A 86 486 125 HOH HOH . F 5 HOH A 87 487 301 HOH HOH . F 5 HOH A 88 488 302 HOH HOH . F 5 HOH A 89 489 303 HOH HOH . F 5 HOH A 90 490 304 HOH HOH . F 5 HOH A 91 491 5 HOH HOH . F 5 HOH A 92 492 6 HOH HOH . F 5 HOH A 93 493 8 HOH HOH . F 5 HOH A 94 494 9 HOH HOH . F 5 HOH A 95 495 10 HOH HOH . F 5 HOH A 96 496 11 HOH HOH . F 5 HOH A 97 497 12 HOH HOH . F 5 HOH A 98 498 13 HOH HOH . F 5 HOH A 99 499 14 HOH HOH . F 5 HOH A 100 500 16 HOH HOH . F 5 HOH A 101 501 17 HOH HOH . F 5 HOH A 102 502 18 HOH HOH . F 5 HOH A 103 503 19 HOH HOH . F 5 HOH A 104 504 20 HOH HOH . F 5 HOH A 105 505 21 HOH HOH . F 5 HOH A 106 506 22 HOH HOH . F 5 HOH A 107 507 23 HOH HOH . F 5 HOH A 108 508 25 HOH HOH . F 5 HOH A 109 509 30 HOH HOH . F 5 HOH A 110 510 32 HOH HOH . F 5 HOH A 111 511 33 HOH HOH . F 5 HOH A 112 512 35 HOH HOH . F 5 HOH A 113 513 39 HOH HOH . F 5 HOH A 114 514 41 HOH HOH . F 5 HOH A 115 515 42 HOH HOH . F 5 HOH A 116 516 43 HOH HOH . F 5 HOH A 117 517 46 HOH HOH . F 5 HOH A 118 518 47 HOH HOH . F 5 HOH A 119 519 48 HOH HOH . F 5 HOH A 120 520 49 HOH HOH . F 5 HOH A 121 521 52 HOH HOH . F 5 HOH A 122 522 54 HOH HOH . F 5 HOH A 123 523 58 HOH HOH . F 5 HOH A 124 524 59 HOH HOH . F 5 HOH A 125 525 63 HOH HOH . F 5 HOH A 126 526 68 HOH HOH . F 5 HOH A 127 527 72 HOH HOH . F 5 HOH A 128 528 73 HOH HOH . F 5 HOH A 129 529 75 HOH HOH . F 5 HOH A 130 530 78 HOH HOH . F 5 HOH A 131 531 79 HOH HOH . F 5 HOH A 132 532 80 HOH HOH . F 5 HOH A 133 533 81 HOH HOH . F 5 HOH A 134 534 82 HOH HOH . F 5 HOH A 135 535 83 HOH HOH . F 5 HOH A 136 536 84 HOH HOH . F 5 HOH A 137 537 85 HOH HOH . F 5 HOH A 138 538 86 HOH HOH . F 5 HOH A 139 539 87 HOH HOH . F 5 HOH A 140 540 89 HOH HOH . F 5 HOH A 141 541 90 HOH HOH . F 5 HOH A 142 542 92 HOH HOH . F 5 HOH A 143 543 93 HOH HOH . F 5 HOH A 144 544 95 HOH HOH . F 5 HOH A 145 545 96 HOH HOH . F 5 HOH A 146 546 97 HOH HOH . F 5 HOH A 147 547 99 HOH HOH . F 5 HOH A 148 548 100 HOH HOH . F 5 HOH A 149 549 102 HOH HOH . F 5 HOH A 150 550 103 HOH HOH . F 5 HOH A 151 551 104 HOH HOH . F 5 HOH A 152 552 105 HOH HOH . F 5 HOH A 153 553 108 HOH HOH . F 5 HOH A 154 554 109 HOH HOH . F 5 HOH A 155 555 110 HOH HOH . F 5 HOH A 156 556 111 HOH HOH . F 5 HOH A 157 557 113 HOH HOH . F 5 HOH A 158 558 114 HOH HOH . F 5 HOH A 159 559 115 HOH HOH . F 5 HOH A 160 560 116 HOH HOH . F 5 HOH A 161 561 117 HOH HOH . F 5 HOH A 162 562 118 HOH HOH . F 5 HOH A 163 563 120 HOH HOH . F 5 HOH A 164 564 122 HOH HOH . F 5 HOH A 165 565 123 HOH HOH . F 5 HOH A 166 566 126 HOH HOH . F 5 HOH A 167 567 127 HOH HOH . F 5 HOH A 168 568 129 HOH HOH . F 5 HOH A 169 569 132 HOH HOH . F 5 HOH A 170 570 133 HOH HOH . F 5 HOH A 171 571 135 HOH HOH . F 5 HOH A 172 572 138 HOH HOH . F 5 HOH A 173 573 139 HOH HOH . F 5 HOH A 174 574 141 HOH HOH . F 5 HOH A 175 575 142 HOH HOH . F 5 HOH A 176 576 143 HOH HOH . F 5 HOH A 177 577 146 HOH HOH . F 5 HOH A 178 578 147 HOH HOH . F 5 HOH A 179 579 148 HOH HOH . F 5 HOH A 180 580 149 HOH HOH . F 5 HOH A 181 581 150 HOH HOH . F 5 HOH A 182 582 151 HOH HOH . F 5 HOH A 183 583 152 HOH HOH . F 5 HOH A 184 584 155 HOH HOH . F 5 HOH A 185 585 160 HOH HOH . F 5 HOH A 186 586 162 HOH HOH . F 5 HOH A 187 587 167 HOH HOH . F 5 HOH A 188 588 168 HOH HOH . F 5 HOH A 189 589 172 HOH HOH . F 5 HOH A 190 590 173 HOH HOH . F 5 HOH A 191 591 174 HOH HOH . F 5 HOH A 192 592 175 HOH HOH . F 5 HOH A 193 593 176 HOH HOH . F 5 HOH A 194 594 177 HOH HOH . F 5 HOH A 195 595 180 HOH HOH . F 5 HOH A 196 596 184 HOH HOH . F 5 HOH A 197 597 185 HOH HOH . F 5 HOH A 198 598 186 HOH HOH . F 5 HOH A 199 599 187 HOH HOH . F 5 HOH A 200 600 188 HOH HOH . F 5 HOH A 201 601 189 HOH HOH . F 5 HOH A 202 602 194 HOH HOH . F 5 HOH A 203 603 203 HOH HOH . F 5 HOH A 204 604 205 HOH HOH . F 5 HOH A 205 605 206 HOH HOH . F 5 HOH A 206 606 208 HOH HOH . F 5 HOH A 207 607 209 HOH HOH . F 5 HOH A 208 608 211 HOH HOH . F 5 HOH A 209 609 214 HOH HOH . F 5 HOH A 210 610 215 HOH HOH . F 5 HOH A 211 611 216 HOH HOH . F 5 HOH A 212 612 219 HOH HOH . F 5 HOH A 213 613 220 HOH HOH . F 5 HOH A 214 614 222 HOH HOH . F 5 HOH A 215 615 223 HOH HOH . F 5 HOH A 216 616 224 HOH HOH . F 5 HOH A 217 617 225 HOH HOH . F 5 HOH A 218 618 226 HOH HOH . F 5 HOH A 219 619 227 HOH HOH . F 5 HOH A 220 620 228 HOH HOH . F 5 HOH A 221 621 235 HOH HOH . F 5 HOH A 222 622 239 HOH HOH . F 5 HOH A 223 623 240 HOH HOH . F 5 HOH A 224 624 241 HOH HOH . F 5 HOH A 225 625 242 HOH HOH . F 5 HOH A 226 626 243 HOH HOH . F 5 HOH A 227 627 245 HOH HOH . F 5 HOH A 228 628 247 HOH HOH . F 5 HOH A 229 629 248 HOH HOH . F 5 HOH A 230 630 250 HOH HOH . F 5 HOH A 231 631 251 HOH HOH . F 5 HOH A 232 632 252 HOH HOH . F 5 HOH A 233 633 253 HOH HOH . F 5 HOH A 234 634 255 HOH HOH . F 5 HOH A 235 635 257 HOH HOH . F 5 HOH A 236 636 263 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 MPD . . . D 4 3.536 18.52 -7.276 1 23.67 ? C1 MPD 303 A 1 HETATM 2 C C2 MPD . . . D 4 3.982 19.343 -6.088 1 24.44 ? C2 MPD 303 A 1 HETATM 3 O O2 MPD . . . D 4 3.792 20.693 -6.397 1 25.35 ? O2 MPD 303 A 1 HETATM 4 C CM MPD . . . D 4 5.445 19.028 -5.835 1 24.22 ? CM MPD 303 A 1 HETATM 5 C C3 MPD . . . D 4 3.171 19.097 -4.839 1 26.67 ? C3 MPD 303 A 1 HETATM 6 C C4 MPD . . . D 4 2.629 17.698 -4.767 1 27.45 ? C4 MPD 303 A 1 HETATM 7 O O4 MPD . . . D 4 3.642 16.956 -4.156 1 26.32 ? O4 MPD 303 A 1 HETATM 8 C C5 MPD . . . D 4 1.409 17.631 -3.892 1 27.29 ? C5 MPD 303 A 1 # _model_server_stats.io_time_ms 14 _model_server_stats.parse_time_ms 25 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 273 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 8 #