data_8B5D
#
_model_server_result.job_id            lZetTBS-Qr6rNKURXnRGtw 
_model_server_result.datetime_utc      '2024-11-26 11:06:57' 
_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          8b5d 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"C","auth_seq_id":401}' 
#
_entry.id    8B5D 
#
_exptl.entry_id    8B5D 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              118.174 
_entity.id                          2 
_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          107.81 
_cell.angle_gamma         90 
_cell.entry_id            8B5D 
_cell.length_a            42.61 
_cell.length_b            91.5 
_cell.length_c            57.91 
_cell.Z_PDB               4 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 8B5D 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        4 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 1 21 1' 
#
loop_
_pdbx_struct_assembly.method_details
_pdbx_struct_assembly.oligomeric_details
_pdbx_struct_assembly.oligomeric_count
_pdbx_struct_assembly.details
_pdbx_struct_assembly.id
? monomeric 1 author_defined_assembly 1 
? monomeric 1 author_defined_assembly 2 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,C,D,E,F,G,H,O 1 1 
B,I,J,K,L,M,N,P 2 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                      2 
_struct_asym.id                             C 
_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 G NA NA . A NA 405 1_555 O O HOH . A HOH 589 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.747 ? 
metalc ? metalc2 B O ILE 71 B ILE 97 1_555 N NA NA . B NA 406 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.732 ? 
#
_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                     8B5D 
_atom_sites.fract_transf_matrix[1][1]    0.023469 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.007539 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.010929 
_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]    0.018137 
_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 2 MPD A 1 401 401 MPD MPD . 
D 3 GOL A 1 402 502 GOL GOL . 
E 3 GOL A 1 403 503 GOL GOL . 
F 4 GLN A 1 404 504 GLN GLN . 
G 5 NA A 1 405 2 NA NA . 
H 5 NA A 1 406 3 NA NA . 
I 3 GOL B 1 401 401 GOL GOL . 
J 6 PEG B 1 402 403 PEG PEG . 
K 3 GOL B 1 403 404 GOL GOL . 
L 4 GLN B 1 404 405 GLN GLN . 
M 5 NA B 1 405 1 NA NA . 
N 5 NA B 1 406 4 NA NA . 
O 7 HOH A 1 501 261 HOH HOH . 
O 7 HOH A 2 502 183 HOH HOH . 
O 7 HOH A 3 503 30 HOH HOH . 
O 7 HOH A 4 504 97 HOH HOH . 
O 7 HOH A 5 505 23 HOH HOH . 
O 7 HOH A 6 506 10 HOH HOH . 
O 7 HOH A 7 507 34 HOH HOH . 
O 7 HOH A 8 508 66 HOH HOH . 
O 7 HOH A 9 509 58 HOH HOH . 
O 7 HOH A 10 510 56 HOH HOH . 
O 7 HOH A 11 511 186 HOH HOH . 
O 7 HOH A 12 512 116 HOH HOH . 
O 7 HOH A 13 513 291 HOH HOH . 
O 7 HOH A 14 514 96 HOH HOH . 
O 7 HOH A 15 515 62 HOH HOH . 
O 7 HOH A 16 516 111 HOH HOH . 
O 7 HOH A 17 517 64 HOH HOH . 
O 7 HOH A 18 518 102 HOH HOH . 
O 7 HOH A 19 519 103 HOH HOH . 
O 7 HOH A 20 520 188 HOH HOH . 
O 7 HOH A 21 521 105 HOH HOH . 
O 7 HOH A 22 522 109 HOH HOH . 
O 7 HOH A 23 523 72 HOH HOH . 
O 7 HOH A 24 524 175 HOH HOH . 
O 7 HOH A 25 525 47 HOH HOH . 
O 7 HOH A 26 526 37 HOH HOH . 
O 7 HOH A 27 527 101 HOH HOH . 
O 7 HOH A 28 528 147 HOH HOH . 
O 7 HOH A 29 529 7 HOH HOH . 
O 7 HOH A 30 530 16 HOH HOH . 
O 7 HOH A 31 531 70 HOH HOH . 
O 7 HOH A 32 532 120 HOH HOH . 
O 7 HOH A 33 533 25 HOH HOH . 
O 7 HOH A 34 534 17 HOH HOH . 
O 7 HOH A 35 535 94 HOH HOH . 
O 7 HOH A 36 536 2 HOH HOH . 
O 7 HOH A 37 537 90 HOH HOH . 
O 7 HOH A 38 538 195 HOH HOH . 
O 7 HOH A 39 539 1 HOH HOH . 
O 7 HOH A 40 540 104 HOH HOH . 
O 7 HOH A 41 541 163 HOH HOH . 
O 7 HOH A 42 542 3 HOH HOH . 
O 7 HOH A 43 543 254 HOH HOH . 
O 7 HOH A 44 544 41 HOH HOH . 
O 7 HOH A 45 545 317 HOH HOH . 
O 7 HOH A 46 546 148 HOH HOH . 
O 7 HOH A 47 547 21 HOH HOH . 
O 7 HOH A 48 548 18 HOH HOH . 
O 7 HOH A 49 549 242 HOH HOH . 
O 7 HOH A 50 550 4 HOH HOH . 
O 7 HOH A 51 551 270 HOH HOH . 
O 7 HOH A 52 552 149 HOH HOH . 
O 7 HOH A 53 553 127 HOH HOH . 
O 7 HOH A 54 554 15 HOH HOH . 
O 7 HOH A 55 555 106 HOH HOH . 
O 7 HOH A 56 556 43 HOH HOH . 
O 7 HOH A 57 557 82 HOH HOH . 
O 7 HOH A 58 558 32 HOH HOH . 
O 7 HOH A 59 559 69 HOH HOH . 
O 7 HOH A 60 560 307 HOH HOH . 
O 7 HOH A 61 561 129 HOH HOH . 
O 7 HOH A 62 562 115 HOH HOH . 
O 7 HOH A 63 563 160 HOH HOH . 
O 7 HOH A 64 564 31 HOH HOH . 
O 7 HOH A 65 565 107 HOH HOH . 
O 7 HOH A 66 566 50 HOH HOH . 
O 7 HOH A 67 567 122 HOH HOH . 
O 7 HOH A 68 568 52 HOH HOH . 
O 7 HOH A 69 569 299 HOH HOH . 
O 7 HOH A 70 570 20 HOH HOH . 
O 7 HOH A 71 571 153 HOH HOH . 
O 7 HOH A 72 572 241 HOH HOH . 
O 7 HOH A 73 573 138 HOH HOH . 
O 7 HOH A 74 574 143 HOH HOH . 
O 7 HOH A 75 575 124 HOH HOH . 
O 7 HOH A 76 576 136 HOH HOH . 
O 7 HOH A 77 577 164 HOH HOH . 
O 7 HOH A 78 578 174 HOH HOH . 
O 7 HOH A 79 579 267 HOH HOH . 
O 7 HOH A 80 580 146 HOH HOH . 
O 7 HOH A 81 581 230 HOH HOH . 
O 7 HOH A 82 582 302 HOH HOH . 
O 7 HOH A 83 583 244 HOH HOH . 
O 7 HOH A 84 584 36 HOH HOH . 
O 7 HOH A 85 585 139 HOH HOH . 
O 7 HOH A 86 586 288 HOH HOH . 
O 7 HOH A 87 587 304 HOH HOH . 
O 7 HOH A 88 588 53 HOH HOH . 
O 7 HOH A 89 589 256 HOH HOH . 
O 7 HOH A 90 590 98 HOH HOH . 
O 7 HOH A 91 591 135 HOH HOH . 
O 7 HOH A 92 592 318 HOH HOH . 
O 7 HOH A 93 593 279 HOH HOH . 
O 7 HOH A 94 594 309 HOH HOH . 
O 7 HOH A 95 595 238 HOH HOH . 
O 7 HOH A 96 596 271 HOH HOH . 
O 7 HOH A 97 597 179 HOH HOH . 
O 7 HOH A 98 598 273 HOH HOH . 
O 7 HOH A 99 599 220 HOH HOH . 
O 7 HOH A 100 600 251 HOH HOH . 
O 7 HOH A 101 601 219 HOH HOH . 
O 7 HOH A 102 602 228 HOH HOH . 
O 7 HOH A 103 603 35 HOH HOH . 
O 7 HOH A 104 604 172 HOH HOH . 
O 7 HOH A 105 605 260 HOH HOH . 
O 7 HOH A 106 606 258 HOH HOH . 
O 7 HOH A 107 607 133 HOH HOH . 
O 7 HOH A 108 608 51 HOH HOH . 
O 7 HOH A 109 609 237 HOH HOH . 
O 7 HOH A 110 610 233 HOH HOH . 
P 7 HOH B 1 501 28 HOH HOH . 
P 7 HOH B 2 502 79 HOH HOH . 
P 7 HOH B 3 503 33 HOH HOH . 
P 7 HOH B 4 504 207 HOH HOH . 
P 7 HOH B 5 505 61 HOH HOH . 
P 7 HOH B 6 506 13 HOH HOH . 
P 7 HOH B 7 507 187 HOH HOH . 
P 7 HOH B 8 508 48 HOH HOH . 
P 7 HOH B 9 509 140 HOH HOH . 
P 7 HOH B 10 510 131 HOH HOH . 
P 7 HOH B 11 511 253 HOH HOH . 
P 7 HOH B 12 512 89 HOH HOH . 
P 7 HOH B 13 513 54 HOH HOH . 
P 7 HOH B 14 514 114 HOH HOH . 
P 7 HOH B 15 515 57 HOH HOH . 
P 7 HOH B 16 516 173 HOH HOH . 
P 7 HOH B 17 517 14 HOH HOH . 
P 7 HOH B 18 518 75 HOH HOH . 
P 7 HOH B 19 519 132 HOH HOH . 
P 7 HOH B 20 520 19 HOH HOH . 
P 7 HOH B 21 521 22 HOH HOH . 
P 7 HOH B 22 522 8 HOH HOH . 
P 7 HOH B 23 523 27 HOH HOH . 
P 7 HOH B 24 524 9 HOH HOH . 
P 7 HOH B 25 525 81 HOH HOH . 
P 7 HOH B 26 526 222 HOH HOH . 
P 7 HOH B 27 527 71 HOH HOH . 
P 7 HOH B 28 528 38 HOH HOH . 
P 7 HOH B 29 529 46 HOH HOH . 
P 7 HOH B 30 530 42 HOH HOH . 
P 7 HOH B 31 531 40 HOH HOH . 
P 7 HOH B 32 532 170 HOH HOH . 
P 7 HOH B 33 533 29 HOH HOH . 
P 7 HOH B 34 534 26 HOH HOH . 
P 7 HOH B 35 535 5 HOH HOH . 
P 7 HOH B 36 536 166 HOH HOH . 
P 7 HOH B 37 537 159 HOH HOH . 
P 7 HOH B 38 538 295 HOH HOH . 
P 7 HOH B 39 539 119 HOH HOH . 
P 7 HOH B 40 540 154 HOH HOH . 
P 7 HOH B 41 541 134 HOH HOH . 
P 7 HOH B 42 542 266 HOH HOH . 
P 7 HOH B 43 543 202 HOH HOH . 
P 7 HOH B 44 544 11 HOH HOH . 
P 7 HOH B 45 545 67 HOH HOH . 
P 7 HOH B 46 546 39 HOH HOH . 
P 7 HOH B 47 547 189 HOH HOH . 
P 7 HOH B 48 548 24 HOH HOH . 
P 7 HOH B 49 549 190 HOH HOH . 
P 7 HOH B 50 550 6 HOH HOH . 
P 7 HOH B 51 551 12 HOH HOH . 
P 7 HOH B 52 552 78 HOH HOH . 
P 7 HOH B 53 553 84 HOH HOH . 
P 7 HOH B 54 554 125 HOH HOH . 
P 7 HOH B 55 555 77 HOH HOH . 
P 7 HOH B 56 556 169 HOH HOH . 
P 7 HOH B 57 557 55 HOH HOH . 
P 7 HOH B 58 558 319 HOH HOH . 
P 7 HOH B 59 559 99 HOH HOH . 
P 7 HOH B 60 560 85 HOH HOH . 
P 7 HOH B 61 561 158 HOH HOH . 
P 7 HOH B 62 562 181 HOH HOH . 
P 7 HOH B 63 563 223 HOH HOH . 
P 7 HOH B 64 564 113 HOH HOH . 
P 7 HOH B 65 565 49 HOH HOH . 
P 7 HOH B 66 566 93 HOH HOH . 
P 7 HOH B 67 567 86 HOH HOH . 
P 7 HOH B 68 568 204 HOH HOH . 
P 7 HOH B 69 569 221 HOH HOH . 
P 7 HOH B 70 570 74 HOH HOH . 
P 7 HOH B 71 571 168 HOH HOH . 
P 7 HOH B 72 572 45 HOH HOH . 
P 7 HOH B 73 573 232 HOH HOH . 
P 7 HOH B 74 574 63 HOH HOH . 
P 7 HOH B 75 575 95 HOH HOH . 
P 7 HOH B 76 576 196 HOH HOH . 
P 7 HOH B 77 577 152 HOH HOH . 
P 7 HOH B 78 578 290 HOH HOH . 
P 7 HOH B 79 579 167 HOH HOH . 
P 7 HOH B 80 580 200 HOH HOH . 
P 7 HOH B 81 581 226 HOH HOH . 
P 7 HOH B 82 582 214 HOH HOH . 
P 7 HOH B 83 583 292 HOH HOH . 
P 7 HOH B 84 584 110 HOH HOH . 
P 7 HOH B 85 585 44 HOH HOH . 
P 7 HOH B 86 586 285 HOH HOH . 
P 7 HOH B 87 587 73 HOH HOH . 
P 7 HOH B 88 588 212 HOH HOH . 
P 7 HOH B 89 589 184 HOH HOH . 
P 7 HOH B 90 590 155 HOH HOH . 
P 7 HOH B 91 591 88 HOH HOH . 
P 7 HOH B 92 592 287 HOH HOH . 
P 7 HOH B 93 593 201 HOH HOH . 
P 7 HOH B 94 594 225 HOH HOH . 
P 7 HOH B 95 595 243 HOH HOH . 
P 7 HOH B 96 596 248 HOH HOH . 
P 7 HOH B 97 597 180 HOH HOH . 
P 7 HOH B 98 598 117 HOH HOH . 
P 7 HOH B 99 599 65 HOH HOH . 
P 7 HOH B 100 600 203 HOH HOH . 
P 7 HOH B 101 601 306 HOH HOH . 
P 7 HOH B 102 602 144 HOH HOH . 
P 7 HOH B 103 603 255 HOH HOH . 
P 7 HOH B 104 604 91 HOH HOH . 
P 7 HOH B 105 605 235 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 . . . C 2 5.89 -19.233 9.635 1 47.84 ? C1 MPD 401 A 1 
HETATM 2 C C2 MPD . . . C 2 4.964 -18.53 10.635 1 51.76 ? C2 MPD 401 A 1 
HETATM 3 O O2 MPD . . . C 2 5.447 -18.644 11.996 1 42.62 ? O2 MPD 401 A 1 
HETATM 4 C CM MPD . . . C 2 3.578 -19.164 10.564 1 54.32 ? CM MPD 401 A 1 
HETATM 5 C C3 MPD . . . C 2 4.851 -17.044 10.339 1 48.92 ? C3 MPD 401 A 1 
HETATM 6 C C4 MPD . . . C 2 6.03 -16.184 10.794 1 48.75 ? C4 MPD 401 A 1 
HETATM 7 O O4 MPD . . . C 2 7.213 -16.938 10.991 1 56.58 ? O4 MPD 401 A 1 
HETATM 8 C C5 MPD . . . C 2 6.273 -15.044 9.801 1 41.53 ? C5 MPD 401 A 1 
#
_model_server_stats.io_time_ms              0 
_model_server_stats.parse_time_ms           14 
_model_server_stats.create_model_time_ms    6 
_model_server_stats.query_time_ms           354 
_model_server_stats.encode_time_ms          4 
_model_server_stats.element_count           8 
#