data_8DAM # _model_server_result.job_id mNyd-MtgyqN8gwSu6JaMlg _model_server_result.datetime_utc '2024-11-24 01:35:04' _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 8dam # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":201}' # _entry.id 8DAM # _exptl.entry_id 8DAM _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 118.174 _entity.id 5 _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 8DAM _cell.length_a 80.358 _cell.length_b 81.072 _cell.length_c 93.332 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8DAM _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 trimeric _pdbx_struct_assembly.oligomeric_count 3 _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,J,K _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 5 _struct_asym.id E _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 B SG CYS 23 B CYS 23 1_555 B SG CYS 97 B CYS 97 1_555 ? ? ? ? B ? ? ? ? ? ? ? 2.053 ? disulf ? disulf2 C SG CYS 23 C CYS 23 1_555 C SG CYS 97 C CYS 97 1_555 ? ? ? ? B ? ? ? ? ? ? ? 2.054 ? covale ? covale1 B C ALA 34 B ALA 34 1_555 B N MSE 35 B MSE 35 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.324 ? covale ? covale2 B C MSE 35 B MSE 35 1_555 B N GLY 36 B GLY 36 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale3 B C GLN 83 B GLN 83 1_555 B N MSE 84 B MSE 84 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? covale ? covale4 B C MSE 84 B MSE 84 1_555 B N ASN 85 B ASN 85 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? # _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 8DAM _atom_sites.fract_transf_matrix[1][1] 0.012444 _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] 0.012335 _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] 0.010714 _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 SO4 A 1 501 2 SO4 SO4 . E 5 MPD B 1 201 202 MPD MPD . F 4 SO4 B 1 202 1 SO4 SO4 . G 4 SO4 C 1 201 3 SO4 SO4 . H 4 SO4 C 1 202 4 SO4 SO4 . I 6 HOH A 1 601 194 HOH HOH . I 6 HOH A 2 602 88 HOH HOH . I 6 HOH A 3 603 167 HOH HOH . I 6 HOH A 4 604 201 HOH HOH . I 6 HOH A 5 605 198 HOH HOH . I 6 HOH A 6 606 100 HOH HOH . I 6 HOH A 7 607 47 HOH HOH . I 6 HOH A 8 608 81 HOH HOH . I 6 HOH A 9 609 5 HOH HOH . I 6 HOH A 10 610 141 HOH HOH . I 6 HOH A 11 611 110 HOH HOH . I 6 HOH A 12 612 101 HOH HOH . I 6 HOH A 13 613 76 HOH HOH . I 6 HOH A 14 614 18 HOH HOH . I 6 HOH A 15 615 3 HOH HOH . I 6 HOH A 16 616 33 HOH HOH . I 6 HOH A 17 617 171 HOH HOH . I 6 HOH A 18 618 103 HOH HOH . I 6 HOH A 19 619 34 HOH HOH . I 6 HOH A 20 620 119 HOH HOH . I 6 HOH A 21 621 22 HOH HOH . I 6 HOH A 22 622 138 HOH HOH . I 6 HOH A 23 623 40 HOH HOH . I 6 HOH A 24 624 45 HOH HOH . I 6 HOH A 25 625 20 HOH HOH . I 6 HOH A 26 626 26 HOH HOH . I 6 HOH A 27 627 133 HOH HOH . I 6 HOH A 28 628 92 HOH HOH . I 6 HOH A 29 629 32 HOH HOH . I 6 HOH A 30 630 2 HOH HOH . I 6 HOH A 31 631 197 HOH HOH . I 6 HOH A 32 632 130 HOH HOH . I 6 HOH A 33 633 8 HOH HOH . I 6 HOH A 34 634 99 HOH HOH . I 6 HOH A 35 635 30 HOH HOH . I 6 HOH A 36 636 21 HOH HOH . I 6 HOH A 37 637 54 HOH HOH . I 6 HOH A 38 638 64 HOH HOH . I 6 HOH A 39 639 89 HOH HOH . I 6 HOH A 40 640 13 HOH HOH . I 6 HOH A 41 641 86 HOH HOH . I 6 HOH A 42 642 62 HOH HOH . I 6 HOH A 43 643 14 HOH HOH . I 6 HOH A 44 644 44 HOH HOH . I 6 HOH A 45 645 128 HOH HOH . I 6 HOH A 46 646 59 HOH HOH . I 6 HOH A 47 647 28 HOH HOH . I 6 HOH A 48 648 9 HOH HOH . I 6 HOH A 49 649 17 HOH HOH . I 6 HOH A 50 650 78 HOH HOH . I 6 HOH A 51 651 126 HOH HOH . I 6 HOH A 52 652 74 HOH HOH . I 6 HOH A 53 653 82 HOH HOH . I 6 HOH A 54 654 4 HOH HOH . I 6 HOH A 55 655 174 HOH HOH . I 6 HOH A 56 656 135 HOH HOH . I 6 HOH A 57 657 104 HOH HOH . I 6 HOH A 58 658 124 HOH HOH . I 6 HOH A 59 659 139 HOH HOH . I 6 HOH A 60 660 170 HOH HOH . I 6 HOH A 61 661 159 HOH HOH . I 6 HOH A 62 662 57 HOH HOH . I 6 HOH A 63 663 56 HOH HOH . I 6 HOH A 64 664 168 HOH HOH . I 6 HOH A 65 665 175 HOH HOH . I 6 HOH A 66 666 163 HOH HOH . I 6 HOH A 67 667 73 HOH HOH . I 6 HOH A 68 668 121 HOH HOH . I 6 HOH A 69 669 120 HOH HOH . I 6 HOH A 70 670 97 HOH HOH . I 6 HOH A 71 671 77 HOH HOH . I 6 HOH A 72 672 16 HOH HOH . I 6 HOH A 73 673 66 HOH HOH . I 6 HOH A 74 674 98 HOH HOH . I 6 HOH A 75 675 65 HOH HOH . I 6 HOH A 76 676 15 HOH HOH . I 6 HOH A 77 677 79 HOH HOH . I 6 HOH A 78 678 184 HOH HOH . I 6 HOH A 79 679 39 HOH HOH . I 6 HOH A 80 680 52 HOH HOH . I 6 HOH A 81 681 95 HOH HOH . I 6 HOH A 82 682 105 HOH HOH . I 6 HOH A 83 683 122 HOH HOH . I 6 HOH A 84 684 183 HOH HOH . I 6 HOH A 85 685 165 HOH HOH . I 6 HOH A 86 686 182 HOH HOH . I 6 HOH A 87 687 192 HOH HOH . I 6 HOH A 88 688 151 HOH HOH . I 6 HOH A 89 689 176 HOH HOH . I 6 HOH A 90 690 153 HOH HOH . I 6 HOH A 91 691 109 HOH HOH . I 6 HOH A 92 692 108 HOH HOH . I 6 HOH A 93 693 113 HOH HOH . I 6 HOH A 94 694 148 HOH HOH . I 6 HOH A 95 695 132 HOH HOH . I 6 HOH A 96 696 80 HOH HOH . I 6 HOH A 97 697 158 HOH HOH . I 6 HOH A 98 698 187 HOH HOH . I 6 HOH A 99 699 102 HOH HOH . I 6 HOH A 100 700 91 HOH HOH . I 6 HOH A 101 701 53 HOH HOH . I 6 HOH A 102 702 93 HOH HOH . J 6 HOH B 1 301 181 HOH HOH . J 6 HOH B 2 302 188 HOH HOH . J 6 HOH B 3 303 111 HOH HOH . J 6 HOH B 4 304 25 HOH HOH . J 6 HOH B 5 305 125 HOH HOH . J 6 HOH B 6 306 68 HOH HOH . J 6 HOH B 7 307 177 HOH HOH . J 6 HOH B 8 308 23 HOH HOH . J 6 HOH B 9 309 63 HOH HOH . J 6 HOH B 10 310 51 HOH HOH . J 6 HOH B 11 311 72 HOH HOH . J 6 HOH B 12 312 180 HOH HOH . J 6 HOH B 13 313 162 HOH HOH . J 6 HOH B 14 314 29 HOH HOH . J 6 HOH B 15 315 50 HOH HOH . J 6 HOH B 16 316 6 HOH HOH . J 6 HOH B 17 317 69 HOH HOH . J 6 HOH B 18 318 11 HOH HOH . J 6 HOH B 19 319 117 HOH HOH . J 6 HOH B 20 320 61 HOH HOH . J 6 HOH B 21 321 35 HOH HOH . J 6 HOH B 22 322 116 HOH HOH . J 6 HOH B 23 323 84 HOH HOH . J 6 HOH B 24 324 7 HOH HOH . J 6 HOH B 25 325 27 HOH HOH . J 6 HOH B 26 326 36 HOH HOH . J 6 HOH B 27 327 85 HOH HOH . J 6 HOH B 28 328 202 HOH HOH . J 6 HOH B 29 329 134 HOH HOH . J 6 HOH B 30 330 127 HOH HOH . J 6 HOH B 31 331 156 HOH HOH . J 6 HOH B 32 332 115 HOH HOH . J 6 HOH B 33 333 58 HOH HOH . J 6 HOH B 34 334 118 HOH HOH . J 6 HOH B 35 335 147 HOH HOH . J 6 HOH B 36 336 55 HOH HOH . J 6 HOH B 37 337 70 HOH HOH . J 6 HOH B 38 338 37 HOH HOH . J 6 HOH B 39 339 157 HOH HOH . J 6 HOH B 40 340 42 HOH HOH . J 6 HOH B 41 341 196 HOH HOH . J 6 HOH B 42 342 155 HOH HOH . J 6 HOH B 43 343 154 HOH HOH . J 6 HOH B 44 344 90 HOH HOH . J 6 HOH B 45 345 49 HOH HOH . J 6 HOH B 46 346 129 HOH HOH . J 6 HOH B 47 347 140 HOH HOH . J 6 HOH B 48 348 94 HOH HOH . J 6 HOH B 49 349 60 HOH HOH . J 6 HOH B 50 350 195 HOH HOH . J 6 HOH B 51 351 114 HOH HOH . J 6 HOH B 52 352 112 HOH HOH . J 6 HOH B 53 353 164 HOH HOH . J 6 HOH B 54 354 144 HOH HOH . J 6 HOH B 55 355 189 HOH HOH . J 6 HOH B 56 356 169 HOH HOH . J 6 HOH B 57 357 193 HOH HOH . J 6 HOH B 58 358 190 HOH HOH . J 6 HOH B 59 359 191 HOH HOH . J 6 HOH B 60 360 186 HOH HOH . K 6 HOH C 1 301 142 HOH HOH . K 6 HOH C 2 302 179 HOH HOH . K 6 HOH C 3 303 67 HOH HOH . K 6 HOH C 4 304 178 HOH HOH . K 6 HOH C 5 305 43 HOH HOH . K 6 HOH C 6 306 10 HOH HOH . K 6 HOH C 7 307 75 HOH HOH . K 6 HOH C 8 308 106 HOH HOH . K 6 HOH C 9 309 161 HOH HOH . K 6 HOH C 10 310 1 HOH HOH . K 6 HOH C 11 311 137 HOH HOH . K 6 HOH C 12 312 199 HOH HOH . K 6 HOH C 13 313 185 HOH HOH . K 6 HOH C 14 314 19 HOH HOH . K 6 HOH C 15 315 12 HOH HOH . K 6 HOH C 16 316 200 HOH HOH . K 6 HOH C 17 317 46 HOH HOH . K 6 HOH C 18 318 41 HOH HOH . K 6 HOH C 19 319 71 HOH HOH . K 6 HOH C 20 320 131 HOH HOH . K 6 HOH C 21 321 96 HOH HOH . K 6 HOH C 22 322 152 HOH HOH . K 6 HOH C 23 323 150 HOH HOH . K 6 HOH C 24 324 24 HOH HOH . K 6 HOH C 25 325 107 HOH HOH . K 6 HOH C 26 326 173 HOH HOH . K 6 HOH C 27 327 87 HOH HOH . K 6 HOH C 28 328 83 HOH HOH . K 6 HOH C 29 329 31 HOH HOH . K 6 HOH C 30 330 48 HOH HOH . K 6 HOH C 31 331 123 HOH HOH . K 6 HOH C 32 332 146 HOH HOH . K 6 HOH C 33 333 172 HOH HOH . K 6 HOH C 34 334 143 HOH HOH . K 6 HOH C 35 335 136 HOH HOH . K 6 HOH C 36 336 145 HOH HOH . K 6 HOH C 37 337 160 HOH HOH . K 6 HOH C 38 338 166 HOH HOH . K 6 HOH C 39 339 38 HOH HOH . K 6 HOH C 40 340 149 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 . . . E 5 34.848 5.538 10.553 1 59.75 ? C1 MPD 201 B 1 HETATM 2 C C2 MPD . . . E 5 34.876 6.435 9.321 1 60.86 ? C2 MPD 201 B 1 HETATM 3 O O2 MPD . . . E 5 36.208 6.401 8.749 1 57.33 ? O2 MPD 201 B 1 HETATM 4 C CM MPD . . . E 5 34.552 7.864 9.741 1 74.34 ? CM MPD 201 B 1 HETATM 5 C C3 MPD . . . E 5 33.868 5.943 8.286 1 63.62 ? C3 MPD 201 B 1 HETATM 6 C C4 MPD . . . E 5 33.812 6.826 7.044 1 63.16 ? C4 MPD 201 B 1 HETATM 7 O O4 MPD . . . E 5 34.134 6.043 5.915 1 60.19 ? O4 MPD 201 B 1 HETATM 8 C C5 MPD . . . E 5 32.43 7.44 6.852 1 72.84 ? C5 MPD 201 B 1 # _model_server_stats.io_time_ms 16 _model_server_stats.parse_time_ms 24 _model_server_stats.create_model_time_ms 12 _model_server_stats.query_time_ms 276 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 8 #