data_8DJF
#
_model_server_result.job_id            CvGMWlryxhaz2uaZOo-53Q 
_model_server_result.datetime_utc      '2025-06-23 03:17:46' 
_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          8djf 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"D","auth_seq_id":403}' 
#
_entry.id    8DJF 
#
_exptl.entry_id    8DJF 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              118.131 
_entity.id                          4 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            (5S)-5-methyloxolane-2,2-diol 
_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            8DJF 
_cell.length_a            47.51 
_cell.length_b            47.51 
_cell.length_c            199.02 
_cell.Z_PDB               6 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 8DJF 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        154 
_symmetry.space_group_name_Hall    'P 32 2"' 
_symmetry.space_group_name_H-M     'P 32 2 1' 
#
_pdbx_struct_assembly.method_details        ? 
_pdbx_struct_assembly.oligomeric_details    monomeric 
_pdbx_struct_assembly.oligomeric_count      1 
_pdbx_struct_assembly.details               author_defined_assembly 
_pdbx_struct_assembly.id                    1 
#
_pdbx_struct_assembly_gen.asym_id_list       A,B,C,D,E 
_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
metalc ? metalc1 A OE2 GLU 18 A GLU 15 1_555 B CA CA . A CA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.43 ? 
metalc ? metalc2 A OD1 ASN 126 A ASN 123 1_555 B CA CA . A CA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.386 ? 
metalc ? metalc3 A OD1 ASN 175 A ASN 172 1_555 B CA CA . A CA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.325 ? 
metalc ? metalc4 A OD1 ASP 232 A ASP 229 1_555 B CA CA . A CA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.416 ? 
metalc ? metalc5 A OG SER 233 A SER 230 1_555 B CA CA . A CA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.496 ? 
metalc ? metalc6 A O LEU 234 A LEU 231 1_555 C NA NA . A NA 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.742 ? 
metalc ? metalc7 A OD1 ASN 274 A ASN 271 1_555 C NA NA . A NA 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.503 ? 
metalc ? metalc8 A O ILE 275 A ILE 272 1_555 C NA NA . A NA 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.347 ? 
metalc ? metalc9 B CA CA . A CA 401 1_555 D O03 SGU . A SGU 403 1_555 ? ? ? ? A ? ? ? ? ? ? ? 2.664 ? 
metalc ? metalc10 B CA CA . A CA 401 1_555 E O HOH . A HOH 559 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.301 ? 
metalc ? metalc11 C NA NA . A NA 402 1_555 E O HOH . A HOH 551 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.556 ? 
metalc ? metalc12 C NA NA . A NA 402 1_555 E O HOH . A HOH 598 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.291 ? 
metalc ? metalc13 C NA NA . A NA 402 1_555 E O HOH . A HOH 608 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.578 ? 
#
_chem_comp.formula           'C5 H10 O3' 
_chem_comp.formula_weight    118.131 
_chem_comp.id                SGU 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              (5S)-5-methyloxolane-2,2-diol 
_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
O03 C02 SGU sing 290 n n 
O01 C02 SGU sing 291 n n 
C02 C04 SGU sing 292 n n 
C02 O08 SGU sing 293 n n 
C04 C05 SGU sing 294 n n 
O08 C06 SGU sing 295 n n 
C05 C06 SGU sing 296 n n 
C06 C07 SGU sing 297 n n 
C04 H042 SGU sing 298 n n 
C04 H041 SGU sing 299 n n 
C05 H052 SGU sing 300 n n 
C05 H051 SGU sing 301 n n 
C06 H061 SGU sing 302 n n 
C07 H071 SGU sing 303 n n 
C07 H072 SGU sing 304 n n 
C07 H073 SGU sing 305 n n 
O01 H011 SGU sing 306 n n 
O03 H031 SGU sing 307 n n 
#
_atom_sites.entry_id                     8DJF 
_atom_sites.fract_transf_matrix[1][1]    0.021048 
_atom_sites.fract_transf_matrix[1][2]    0.012152 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.024304 
_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]    0.005025 
_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 CA A 1 401 400 CA CA . 
C 3 NA A 1 402 401 NA NA . 
D 4 SGU A 1 403 500 SGU STE . 
E 5 HOH A 1 501 202 HOH HOH . 
E 5 HOH A 2 502 123 HOH HOH . 
E 5 HOH A 3 503 61 HOH HOH . 
E 5 HOH A 4 504 119 HOH HOH . 
E 5 HOH A 5 505 205 HOH HOH . 
E 5 HOH A 6 506 224 HOH HOH . 
E 5 HOH A 7 507 209 HOH HOH . 
E 5 HOH A 8 508 206 HOH HOH . 
E 5 HOH A 9 509 37 HOH HOH . 
E 5 HOH A 10 510 213 HOH HOH . 
E 5 HOH A 11 511 52 HOH HOH . 
E 5 HOH A 12 512 112 HOH HOH . 
E 5 HOH A 13 513 72 HOH HOH . 
E 5 HOH A 14 514 187 HOH HOH . 
E 5 HOH A 15 515 39 HOH HOH . 
E 5 HOH A 16 516 27 HOH HOH . 
E 5 HOH A 17 517 194 HOH HOH . 
E 5 HOH A 18 518 62 HOH HOH . 
E 5 HOH A 19 519 230 HOH HOH . 
E 5 HOH A 20 520 34 HOH HOH . 
E 5 HOH A 21 521 45 HOH HOH . 
E 5 HOH A 22 522 87 HOH HOH . 
E 5 HOH A 23 523 42 HOH HOH . 
E 5 HOH A 24 524 22 HOH HOH . 
E 5 HOH A 25 525 51 HOH HOH . 
E 5 HOH A 26 526 211 HOH HOH . 
E 5 HOH A 27 527 196 HOH HOH . 
E 5 HOH A 28 528 231 HOH HOH . 
E 5 HOH A 29 529 210 HOH HOH . 
E 5 HOH A 30 530 24 HOH HOH . 
E 5 HOH A 31 531 33 HOH HOH . 
E 5 HOH A 32 532 147 HOH HOH . 
E 5 HOH A 33 533 35 HOH HOH . 
E 5 HOH A 34 534 10 HOH HOH . 
E 5 HOH A 35 535 84 HOH HOH . 
E 5 HOH A 36 536 243 HOH HOH . 
E 5 HOH A 37 537 96 HOH HOH . 
E 5 HOH A 38 538 15 HOH HOH . 
E 5 HOH A 39 539 21 HOH HOH . 
E 5 HOH A 40 540 13 HOH HOH . 
E 5 HOH A 41 541 245 HOH HOH . 
E 5 HOH A 42 542 228 HOH HOH . 
E 5 HOH A 43 543 31 HOH HOH . 
E 5 HOH A 44 544 18 HOH HOH . 
E 5 HOH A 45 545 241 HOH HOH . 
E 5 HOH A 46 546 216 HOH HOH . 
E 5 HOH A 47 547 201 HOH HOH . 
E 5 HOH A 48 548 219 HOH HOH . 
E 5 HOH A 49 549 215 HOH HOH . 
E 5 HOH A 50 550 23 HOH HOH . 
E 5 HOH A 51 551 17 HOH HOH . 
E 5 HOH A 52 552 7 HOH HOH . 
E 5 HOH A 53 553 207 HOH HOH . 
E 5 HOH A 54 554 40 HOH HOH . 
E 5 HOH A 55 555 58 HOH HOH . 
E 5 HOH A 56 556 54 HOH HOH . 
E 5 HOH A 57 557 3 HOH HOH . 
E 5 HOH A 58 558 25 HOH HOH . 
E 5 HOH A 59 559 4 HOH HOH . 
E 5 HOH A 60 560 197 HOH HOH . 
E 5 HOH A 61 561 79 HOH HOH . 
E 5 HOH A 62 562 48 HOH HOH . 
E 5 HOH A 63 563 63 HOH HOH . 
E 5 HOH A 64 564 12 HOH HOH . 
E 5 HOH A 65 565 203 HOH HOH . 
E 5 HOH A 66 566 19 HOH HOH . 
E 5 HOH A 67 567 227 HOH HOH . 
E 5 HOH A 68 568 6 HOH HOH . 
E 5 HOH A 69 569 60 HOH HOH . 
E 5 HOH A 70 570 50 HOH HOH . 
E 5 HOH A 71 571 183 HOH HOH . 
E 5 HOH A 72 572 200 HOH HOH . 
E 5 HOH A 73 573 2 HOH HOH . 
E 5 HOH A 74 574 168 HOH HOH . 
E 5 HOH A 75 575 188 HOH HOH . 
E 5 HOH A 76 576 20 HOH HOH . 
E 5 HOH A 77 577 217 HOH HOH . 
E 5 HOH A 78 578 8 HOH HOH . 
E 5 HOH A 79 579 38 HOH HOH . 
E 5 HOH A 80 580 55 HOH HOH . 
E 5 HOH A 81 581 137 HOH HOH . 
E 5 HOH A 82 582 237 HOH HOH . 
E 5 HOH A 83 583 5 HOH HOH . 
E 5 HOH A 84 584 11 HOH HOH . 
E 5 HOH A 85 585 214 HOH HOH . 
E 5 HOH A 86 586 46 HOH HOH . 
E 5 HOH A 87 587 242 HOH HOH . 
E 5 HOH A 88 588 59 HOH HOH . 
E 5 HOH A 89 589 189 HOH HOH . 
E 5 HOH A 90 590 30 HOH HOH . 
E 5 HOH A 91 591 185 HOH HOH . 
E 5 HOH A 92 592 182 HOH HOH . 
E 5 HOH A 93 593 181 HOH HOH . 
E 5 HOH A 94 594 16 HOH HOH . 
E 5 HOH A 95 595 193 HOH HOH . 
E 5 HOH A 96 596 212 HOH HOH . 
E 5 HOH A 97 597 36 HOH HOH . 
E 5 HOH A 98 598 14 HOH HOH . 
E 5 HOH A 99 599 184 HOH HOH . 
E 5 HOH A 100 600 249 HOH HOH . 
E 5 HOH A 101 601 208 HOH HOH . 
E 5 HOH A 102 602 247 HOH HOH . 
E 5 HOH A 103 603 32 HOH HOH . 
E 5 HOH A 104 604 82 HOH HOH . 
E 5 HOH A 105 605 226 HOH HOH . 
E 5 HOH A 106 606 234 HOH HOH . 
E 5 HOH A 107 607 220 HOH HOH . 
E 5 HOH A 108 608 9 HOH HOH . 
E 5 HOH A 109 609 218 HOH HOH . 
E 5 HOH A 110 610 251 HOH HOH . 
E 5 HOH A 111 611 250 HOH HOH . 
E 5 HOH A 112 612 248 HOH HOH . 
E 5 HOH A 113 613 29 HOH HOH . 
E 5 HOH A 114 614 28 HOH HOH . 
E 5 HOH A 115 615 199 HOH HOH . 
E 5 HOH A 116 616 41 HOH HOH . 
E 5 HOH A 117 617 110 HOH HOH . 
E 5 HOH A 118 618 180 HOH HOH . 
E 5 HOH A 119 619 246 HOH HOH . 
E 5 HOH A 120 620 204 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 C02 SGU . A . D 4 17.814 7.28 -10.008 1 34.56 ? C02 SGU 403 A 1 
HETATM 2 C C04 SGU . A . D 4 19.07 8.117 -9.884 1 43.21 ? C04 SGU 403 A 1 
HETATM 3 C C05 SGU . A . D 4 18.792 8.986 -8.646 1 51.96 ? C05 SGU 403 A 1 
HETATM 4 C C06 SGU . A . D 4 17.749 8.2 -7.835 1 54.88 ? C06 SGU 403 A 1 
HETATM 5 C C07 SGU . A . D 4 18.253 7.56 -6.558 1 50.65 ? C07 SGU 403 A 1 
HETATM 6 O O01 SGU . A . D 4 18.081 5.973 -10.469 1 38.13 ? O01 SGU 403 A 1 
HETATM 7 O O03 SGU . A . D 4 16.932 7.921 -10.827 1 27.78 ? O03 SGU 403 A 1 
HETATM 8 O O08 SGU . A . D 4 17.231 7.186 -8.734 1 56.8 ? O08 SGU 403 A 1 
HETATM 9 H H042 SGU . A . D 4 19.25 8.714 -10.777 1 51.85 ? H042 SGU 403 A 1 
HETATM 10 H H041 SGU . A . D 4 19.96 7.499 -9.766 1 51.85 ? H041 SGU 403 A 1 
HETATM 11 H H052 SGU . A . D 4 18.429 9.973 -8.926 1 62.36 ? H052 SGU 403 A 1 
HETATM 12 H H051 SGU . A . D 4 19.701 9.165 -8.074 1 62.36 ? H051 SGU 403 A 1 
HETATM 13 H H061 SGU . A . D 4 16.868 8.802 -7.619 1 65.85 ? H061 SGU 403 A 1 
HETATM 14 H H071 SGU . A . D 4 19.067 6.858 -6.74 1 60.78 ? H071 SGU 403 A 1 
HETATM 15 H H072 SGU . A . D 4 17.475 7.002 -6.04 1 60.78 ? H072 SGU 403 A 1 
HETATM 16 H H073 SGU . A . D 4 18.632 8.294 -5.849 1 60.78 ? H073 SGU 403 A 1 
HETATM 17 H H011 SGU . A . D 4 18.261 5.979 -11.446 1 45.75 ? H011 SGU 403 A 1 
HETATM 18 H H031 SGU . A . D 4 16.122 7.365 -10.972 1 33.33 ? H031 SGU 403 A 1 
#
_model_server_stats.io_time_ms              24 
_model_server_stats.parse_time_ms           36 
_model_server_stats.create_model_time_ms    4 
_model_server_stats.query_time_ms           364 
_model_server_stats.encode_time_ms          3 
_model_server_stats.element_count           18 
#