data_5N7P # _model_server_result.job_id uqSNrt1NR8ploSHw3oh0fg _model_server_result.datetime_utc '2024-11-06 12:44:51' _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 5n7p # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":402}' # _entry.id 5N7P # _exptl.entry_id 5N7P _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 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 5N7P _cell.length_a 58.5 _cell.length_b 72.741 _cell.length_c 108.731 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5N7P _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 PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _pdbx_struct_assembly.details 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 # _struct_asym.details ? _struct_asym.entity_id 4 _struct_asym.id D _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 covale ? covale1 A C GLY 12 A GLY 9 1_555 A N SEP 13 A SEP 10 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.334 ? covale ? covale2 A C SEP 13 A SEP 10 1_555 A N GLU 14 A GLU 11 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.335 ? covale ? covale3 A C TRP 199 A TRP 196 1_555 A N TPO 200 A TPO 197 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale4 A C TPO 200 A TPO 197 1_555 A N LEU 201 A LEU 198 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.324 ? covale ? covale5 A C VAL 340 A VAL 337 1_555 A N SEP 341 A SEP 338 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale6 A C SEP 341 A SEP 338 1_555 A N ILE 342 A ILE 339 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.333 ? # _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 262 n n C1 H11 MPD sing 263 n n C1 H12 MPD sing 264 n n C1 H13 MPD sing 265 n n C2 O2 MPD sing 266 n n C2 CM MPD sing 267 n n C2 C3 MPD sing 268 n n O2 HO2 MPD sing 269 n n CM HM1 MPD sing 270 n n CM HM2 MPD sing 271 n n CM HM3 MPD sing 272 n n C3 C4 MPD sing 273 n n C3 H31 MPD sing 274 n n C3 H32 MPD sing 275 n n C4 O4 MPD sing 276 n n C4 C5 MPD sing 277 n n C4 H4 MPD sing 278 n n O4 HO4 MPD sing 279 n n C5 H51 MPD sing 280 n n C5 H52 MPD sing 281 n n C5 H53 MPD sing 282 n n # _atom_sites.entry_id 5N7P _atom_sites.fract_transf_matrix[1][1] 0.017094 _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] 0.013747 _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] 0.009197 _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 3 E9Q A 1 401 1 E9Q 114 . D 4 MPD A 1 402 1 MPD MPD . E 5 HOH A 1 501 132 HOH HOH . E 5 HOH A 2 502 160 HOH HOH . E 5 HOH A 3 503 110 HOH HOH . E 5 HOH A 4 504 164 HOH HOH . E 5 HOH A 5 505 60 HOH HOH . E 5 HOH A 6 506 208 HOH HOH . E 5 HOH A 7 507 152 HOH HOH . E 5 HOH A 8 508 139 HOH HOH . E 5 HOH A 9 509 202 HOH HOH . E 5 HOH A 10 510 218 HOH HOH . E 5 HOH A 11 511 159 HOH HOH . E 5 HOH A 12 512 137 HOH HOH . E 5 HOH A 13 513 112 HOH HOH . E 5 HOH A 14 514 184 HOH HOH . E 5 HOH A 15 515 193 HOH HOH . E 5 HOH A 16 516 37 HOH HOH . E 5 HOH A 17 517 101 HOH HOH . E 5 HOH A 18 518 6 HOH HOH . E 5 HOH A 19 519 130 HOH HOH . E 5 HOH A 20 520 74 HOH HOH . E 5 HOH A 21 521 133 HOH HOH . E 5 HOH A 22 522 105 HOH HOH . E 5 HOH A 23 523 76 HOH HOH . E 5 HOH A 24 524 148 HOH HOH . E 5 HOH A 25 525 61 HOH HOH . E 5 HOH A 26 526 150 HOH HOH . E 5 HOH A 27 527 142 HOH HOH . E 5 HOH A 28 528 121 HOH HOH . E 5 HOH A 29 529 157 HOH HOH . E 5 HOH A 30 530 173 HOH HOH . E 5 HOH A 31 531 106 HOH HOH . E 5 HOH A 32 532 113 HOH HOH . E 5 HOH A 33 533 217 HOH HOH . E 5 HOH A 34 534 120 HOH HOH . E 5 HOH A 35 535 124 HOH HOH . E 5 HOH A 36 536 52 HOH HOH . E 5 HOH A 37 537 42 HOH HOH . E 5 HOH A 38 538 111 HOH HOH . E 5 HOH A 39 539 22 HOH HOH . E 5 HOH A 40 540 158 HOH HOH . E 5 HOH A 41 541 145 HOH HOH . E 5 HOH A 42 542 5 HOH HOH . E 5 HOH A 43 543 204 HOH HOH . E 5 HOH A 44 544 99 HOH HOH . E 5 HOH A 45 545 28 HOH HOH . E 5 HOH A 46 546 100 HOH HOH . E 5 HOH A 47 547 109 HOH HOH . E 5 HOH A 48 548 35 HOH HOH . E 5 HOH A 49 549 98 HOH HOH . E 5 HOH A 50 550 95 HOH HOH . E 5 HOH A 51 551 86 HOH HOH . E 5 HOH A 52 552 206 HOH HOH . E 5 HOH A 53 553 84 HOH HOH . E 5 HOH A 54 554 166 HOH HOH . E 5 HOH A 55 555 125 HOH HOH . E 5 HOH A 56 556 51 HOH HOH . E 5 HOH A 57 557 151 HOH HOH . E 5 HOH A 58 558 153 HOH HOH . E 5 HOH A 59 559 108 HOH HOH . E 5 HOH A 60 560 17 HOH HOH . E 5 HOH A 61 561 18 HOH HOH . E 5 HOH A 62 562 66 HOH HOH . E 5 HOH A 63 563 11 HOH HOH . E 5 HOH A 64 564 93 HOH HOH . E 5 HOH A 65 565 12 HOH HOH . E 5 HOH A 66 566 103 HOH HOH . E 5 HOH A 67 567 13 HOH HOH . E 5 HOH A 68 568 9 HOH HOH . E 5 HOH A 69 569 53 HOH HOH . E 5 HOH A 70 570 197 HOH HOH . E 5 HOH A 71 571 23 HOH HOH . E 5 HOH A 72 572 177 HOH HOH . E 5 HOH A 73 573 73 HOH HOH . E 5 HOH A 74 574 34 HOH HOH . E 5 HOH A 75 575 30 HOH HOH . E 5 HOH A 76 576 25 HOH HOH . E 5 HOH A 77 577 78 HOH HOH . E 5 HOH A 78 578 114 HOH HOH . E 5 HOH A 79 579 122 HOH HOH . E 5 HOH A 80 580 90 HOH HOH . E 5 HOH A 81 581 126 HOH HOH . E 5 HOH A 82 582 19 HOH HOH . E 5 HOH A 83 583 49 HOH HOH . E 5 HOH A 84 584 140 HOH HOH . E 5 HOH A 85 585 216 HOH HOH . E 5 HOH A 86 586 10 HOH HOH . E 5 HOH A 87 587 162 HOH HOH . E 5 HOH A 88 588 94 HOH HOH . E 5 HOH A 89 589 63 HOH HOH . E 5 HOH A 90 590 2 HOH HOH . E 5 HOH A 91 591 156 HOH HOH . E 5 HOH A 92 592 55 HOH HOH . E 5 HOH A 93 593 3 HOH HOH . E 5 HOH A 94 594 59 HOH HOH . E 5 HOH A 95 595 20 HOH HOH . E 5 HOH A 96 596 62 HOH HOH . E 5 HOH A 97 597 141 HOH HOH . E 5 HOH A 98 598 26 HOH HOH . E 5 HOH A 99 599 36 HOH HOH . E 5 HOH A 100 600 33 HOH HOH . E 5 HOH A 101 601 210 HOH HOH . E 5 HOH A 102 602 87 HOH HOH . E 5 HOH A 103 603 169 HOH HOH . E 5 HOH A 104 604 68 HOH HOH . E 5 HOH A 105 605 46 HOH HOH . E 5 HOH A 106 606 70 HOH HOH . E 5 HOH A 107 607 39 HOH HOH . E 5 HOH A 108 608 83 HOH HOH . E 5 HOH A 109 609 50 HOH HOH . E 5 HOH A 110 610 7 HOH HOH . E 5 HOH A 111 611 131 HOH HOH . E 5 HOH A 112 612 16 HOH HOH . E 5 HOH A 113 613 82 HOH HOH . E 5 HOH A 114 614 15 HOH HOH . E 5 HOH A 115 615 104 HOH HOH . E 5 HOH A 116 616 115 HOH HOH . E 5 HOH A 117 617 14 HOH HOH . E 5 HOH A 118 618 21 HOH HOH . E 5 HOH A 119 619 163 HOH HOH . E 5 HOH A 120 620 79 HOH HOH . E 5 HOH A 121 621 24 HOH HOH . E 5 HOH A 122 622 129 HOH HOH . E 5 HOH A 123 623 205 HOH HOH . E 5 HOH A 124 624 80 HOH HOH . E 5 HOH A 125 625 102 HOH HOH . E 5 HOH A 126 626 88 HOH HOH . E 5 HOH A 127 627 91 HOH HOH . E 5 HOH A 128 628 31 HOH HOH . E 5 HOH A 129 629 43 HOH HOH . E 5 HOH A 130 630 194 HOH HOH . E 5 HOH A 131 631 172 HOH HOH . E 5 HOH A 132 632 27 HOH HOH . E 5 HOH A 133 633 199 HOH HOH . E 5 HOH A 134 634 77 HOH HOH . E 5 HOH A 135 635 154 HOH HOH . E 5 HOH A 136 636 183 HOH HOH . E 5 HOH A 137 637 196 HOH HOH . E 5 HOH A 138 638 41 HOH HOH . E 5 HOH A 139 639 29 HOH HOH . E 5 HOH A 140 640 192 HOH HOH . E 5 HOH A 141 641 118 HOH HOH . E 5 HOH A 142 642 85 HOH HOH . E 5 HOH A 143 643 176 HOH HOH . E 5 HOH A 144 644 48 HOH HOH . E 5 HOH A 145 645 175 HOH HOH . E 5 HOH A 146 646 38 HOH HOH . E 5 HOH A 147 647 117 HOH HOH . E 5 HOH A 148 648 107 HOH HOH . E 5 HOH A 149 649 40 HOH HOH . E 5 HOH A 150 650 97 HOH HOH . E 5 HOH A 151 651 180 HOH HOH . E 5 HOH A 152 652 209 HOH HOH . E 5 HOH A 153 653 174 HOH HOH . E 5 HOH A 154 654 170 HOH HOH . E 5 HOH A 155 655 178 HOH HOH . E 5 HOH A 156 656 191 HOH HOH . E 5 HOH A 157 657 179 HOH HOH . E 5 HOH A 158 658 127 HOH HOH . E 5 HOH A 159 659 143 HOH HOH . E 5 HOH A 160 660 123 HOH HOH . E 5 HOH A 161 661 207 HOH HOH . E 5 HOH A 162 662 64 HOH HOH . E 5 HOH A 163 663 213 HOH HOH . E 5 HOH A 164 664 92 HOH HOH . E 5 HOH A 165 665 181 HOH HOH . E 5 HOH A 166 666 201 HOH HOH . E 5 HOH A 167 667 187 HOH HOH . E 5 HOH A 168 668 138 HOH HOH . E 5 HOH A 169 669 188 HOH HOH . E 5 HOH A 170 670 136 HOH HOH . E 5 HOH A 171 671 75 HOH HOH . E 5 HOH A 172 672 119 HOH HOH . E 5 HOH A 173 673 182 HOH HOH . E 5 HOH A 174 674 161 HOH HOH . E 5 HOH A 175 675 212 HOH HOH . E 5 HOH A 176 676 195 HOH HOH . E 5 HOH A 177 677 54 HOH HOH . E 5 HOH A 178 678 211 HOH HOH . E 5 HOH A 179 679 128 HOH HOH . E 5 HOH A 180 680 200 HOH HOH . E 5 HOH A 181 681 149 HOH HOH . E 5 HOH A 182 682 69 HOH HOH . E 5 HOH A 183 683 198 HOH HOH . E 5 HOH A 184 684 116 HOH HOH . E 5 HOH A 185 685 165 HOH HOH . E 5 HOH A 186 686 72 HOH HOH . E 5 HOH A 187 687 214 HOH HOH . E 5 HOH A 188 688 167 HOH HOH . F 5 HOH B 1 101 186 HOH HOH . F 5 HOH B 2 102 44 HOH HOH . F 5 HOH B 3 103 8 HOH HOH . F 5 HOH B 4 104 4 HOH HOH . F 5 HOH B 5 105 185 HOH HOH . F 5 HOH B 6 106 219 HOH HOH . F 5 HOH B 7 107 96 HOH HOH . F 5 HOH B 8 108 189 HOH HOH . F 5 HOH B 9 109 190 HOH HOH . F 5 HOH B 10 110 58 HOH HOH . F 5 HOH B 11 111 47 HOH HOH . F 5 HOH B 12 112 71 HOH HOH . F 5 HOH B 13 113 146 HOH HOH . F 5 HOH B 14 114 45 HOH HOH . F 5 HOH B 15 115 56 HOH HOH . F 5 HOH B 16 116 215 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 4 126.621 15.998 3.287 1 63.58 ? C1 MPD 402 A 1 HETATM 2 C C2 MPD . . . D 4 127.151 14.566 3.286 1 62.37 ? C2 MPD 402 A 1 HETATM 3 O O2 MPD . . . D 4 126.267 13.779 2.453 1 62.49 ? O2 MPD 402 A 1 HETATM 4 C CM MPD . . . D 4 128.551 14.491 2.668 1 62.11 ? CM MPD 402 A 1 HETATM 5 C C3 MPD . . . D 4 127.16 13.967 4.696 1 61.52 ? C3 MPD 402 A 1 HETATM 6 C C4 MPD . . . D 4 125.754 13.736 5.261 1 61.61 ? C4 MPD 402 A 1 HETATM 7 O O4 MPD . . . D 4 125.228 12.52 4.795 1 61.38 ? O4 MPD 402 A 1 HETATM 8 C C5 MPD . . . D 4 125.726 13.708 6.789 1 61.01 ? C5 MPD 402 A 1 HETATM 9 H H11 MPD . . . D 4 126.359 16.287 4.305 1 76.29 ? H11 MPD 402 A 1 HETATM 10 H H12 MPD . . . D 4 127.388 16.67 2.904 1 76.29 ? H12 MPD 402 A 1 HETATM 11 H H13 MPD . . . D 4 125.736 16.058 2.654 1 76.29 ? H13 MPD 402 A 1 HETATM 12 H HO2 MPD . . . D 4 125.882 13.05 2.983 1 74.99 ? HO2 MPD 402 A 1 HETATM 13 H HM1 MPD . . . D 4 129.236 14.025 3.376 1 74.54 ? HM1 MPD 402 A 1 HETATM 14 H HM2 MPD . . . D 4 128.513 13.897 1.755 1 74.54 ? HM2 MPD 402 A 1 HETATM 15 H HM3 MPD . . . D 4 128.899 15.496 2.433 1 74.54 ? HM3 MPD 402 A 1 HETATM 16 H H31 MPD . . . D 4 127.705 14.635 5.362 1 73.82 ? H31 MPD 402 A 1 HETATM 17 H H32 MPD . . . D 4 127.695 13.018 4.674 1 73.82 ? H32 MPD 402 A 1 HETATM 18 H H4 MPD . . . D 4 125.116 14.554 4.927 1 73.93 ? H4 MPD 402 A 1 HETATM 19 H HO4 MPD . . . D 4 124.332 12.672 4.427 1 73.65 ? HO4 MPD 402 A 1 HETATM 20 H H51 MPD . . . D 4 125.308 12.76 7.127 1 73.21 ? H51 MPD 402 A 1 HETATM 21 H H52 MPD . . . D 4 126.74 13.816 7.173 1 73.21 ? H52 MPD 402 A 1 HETATM 22 H H53 MPD . . . D 4 125.109 14.528 7.156 1 73.21 ? H53 MPD 402 A 1 # _model_server_stats.io_time_ms 14 _model_server_stats.parse_time_ms 13 _model_server_stats.create_model_time_ms 26 _model_server_stats.query_time_ms 292 _model_server_stats.encode_time_ms 9 _model_server_stats.element_count 22 #