data_6WZA
#
_model_server_result.job_id            -ZnZ1lGyWbg0PMACfXjsyQ 
_model_server_result.datetime_utc      '2024-11-16 13:33:24' 
_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          6wza 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"I","auth_seq_id":206}' 
#
_entry.id    6WZA 
#
_exptl.entry_id    6WZA 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              118.174 
_entity.id                          6 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            (4S)-2-METHYL-2,4-PENTANEDIOL 
_entity.pdbx_number_of_molecules    3 
_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            6WZA 
_cell.length_a            82.115 
_cell.length_b            82.115 
_cell.length_c            137.517 
_cell.Z_PDB               18 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 6WZA 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        152 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 31 2 1' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    trimeric 
_pdbx_struct_assembly.oligomeric_count      3 
_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,G,H,I,J,K,L,M,N,O,P,Q,R,S,T,U,V,W,X 
_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
? 6 I N N 
? 6 J N N 
? 6 O 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
covale ? covale1 A SG CYS 98 A CYS 98 1_555 D CAB HEC . A HEC 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.763 ? 
covale ? covale2 A SG CYS 101 A CYS 101 1_555 D CAC HEC . A HEC 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.77 ? 
covale ? covale3 B SG CYS 98 B CYS 98 1_555 K CAB HEC . B HEC 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.779 ? 
covale ? covale4 B SG CYS 101 B CYS 101 1_555 K CAC HEC . B HEC 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.771 ? 
covale ? covale5 C SG CYS 98 C CYS 98 1_555 P CAB HEC . C HEC 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.778 ? 
covale ? covale6 C SG CYS 101 C CYS 101 1_555 P CAC HEC . C HEC 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.757 ? 
metalc ? metalc1 A SD MET 7 A MET 7 1_555 D FE HEC . A HEC 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.493 ? 
metalc ? metalc2 A O GLN 41 A GLN 41 1_555 F NA NA . A NA 203 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.557 ? 
metalc ? metalc3 A O ALA 43 A ALA 43 1_555 F NA NA . A NA 203 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.488 ? 
metalc ? metalc4 A NE2 HIS 73 A HIS 73 1_555 E NI NI . A NI 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.265 ? 
metalc ? metalc5 A NE2 HIS 77 A HIS 77 1_555 E NI NI . A NI 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.147 ? 
metalc ? metalc6 A NE2 HIS 102 A HIS 102 1_555 D FE HEC . A HEC 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.321 ? 
metalc ? metalc7 E NI NI . A NI 202 1_555 B NE2 HIS 73 B HIS 73 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.243 ? 
metalc ? metalc8 E NI NI . A NI 202 1_555 B NE2 HIS 77 B HIS 77 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.241 ? 
metalc ? metalc9 E NI NI . A NI 202 1_555 C NE2 HIS 73 C HIS 73 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.364 ? 
metalc ? metalc10 E NI NI . A NI 202 1_555 C NE2 HIS 77 C HIS 77 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.241 ? 
metalc ? metalc11 B SD MET 7 B MET 7 1_555 K FE HEC . B HEC 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.517 ? 
metalc ? metalc12 B NE2 HIS 102 B HIS 102 1_555 K FE HEC . B HEC 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.279 ? 
metalc ? metalc13 C OD1 ASP 2 C ASP 2 1_555 R NA NA . C NA 203 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.127 ? 
metalc ? metalc14 C OE2 GLU 4 C GLU 4 1_555 Q NA NA . C NA 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.382 ? 
metalc ? metalc15 C SD MET 7 C MET 7 1_555 P FE HEC . C HEC 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.382 ? 
metalc ? metalc16 C OE1 GLU 8 C GLU 8 1_555 Q NA NA . C NA 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.107 ? 
metalc ? metalc17 C NE2 HIS 102 C HIS 102 1_555 P FE HEC . C HEC 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.21 ? 
metalc ? metalc18 P O2A HEC . C HEC 201 1_555 Q NA NA . C NA 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.212 ? 
metalc ? metalc19 Q NA NA . C NA 202 1_555 X O HOH . C HOH 321 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.808 ? 
metalc ? metalc20 Q NA NA . C NA 202 1_555 X O HOH . C HOH 325 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.129 ? 
metalc ? metalc21 Q NA NA . C NA 202 1_555 X O HOH . C HOH 330 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.426 ? 
#
_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 321 n n 
C1 H11 MPD sing 322 n n 
C1 H12 MPD sing 323 n n 
C1 H13 MPD sing 324 n n 
C2 O2 MPD sing 325 n n 
C2 CM MPD sing 326 n n 
C2 C3 MPD sing 327 n n 
O2 HO2 MPD sing 328 n n 
CM HM1 MPD sing 329 n n 
CM HM2 MPD sing 330 n n 
CM HM3 MPD sing 331 n n 
C3 C4 MPD sing 332 n n 
C3 H31 MPD sing 333 n n 
C3 H32 MPD sing 334 n n 
C4 O4 MPD sing 335 n n 
C4 C5 MPD sing 336 n n 
C4 H4 MPD sing 337 n n 
O4 HO4 MPD sing 338 n n 
C5 H51 MPD sing 339 n n 
C5 H52 MPD sing 340 n n 
C5 H53 MPD sing 341 n n 
#
_atom_sites.entry_id                     6WZA 
_atom_sites.fract_transf_matrix[1][1]    0.012178 
_atom_sites.fract_transf_matrix[1][2]    0.007031 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.014062 
_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]    0.007272 
_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 2 HEC A 1 201 150 HEC HEM . 
E 3 NI A 1 202 1 NI NI . 
F 4 NA A 1 203 4 NA NA . 
G 5 CL A 1 204 21 CL CL . 
H 5 CL A 1 205 22 CL CL . 
I 6 MPD A 1 206 3 MPD MPD . 
J 6 MPD A 1 207 4 MPD MPD . 
K 2 HEC B 1 201 150 HEC HEM . 
L 4 NA B 1 202 14 NA NA . 
M 5 CL B 1 203 12 CL CL . 
N 5 CL B 1 204 16 CL CL . 
O 6 MPD B 1 205 1 MPD MPD . 
P 2 HEC C 1 201 150 HEC HEM . 
Q 4 NA C 1 202 2 NA NA . 
R 4 NA C 1 203 10 NA NA . 
S 4 NA C 1 204 13 NA NA . 
T 5 CL C 1 205 23 CL CL . 
U 5 CL C 1 206 25 CL CL . 
V 7 HOH A 1 301 11 HOH HOH . 
V 7 HOH A 2 302 66 HOH HOH . 
V 7 HOH A 3 303 60 HOH HOH . 
V 7 HOH A 4 304 53 HOH HOH . 
V 7 HOH A 5 305 6 HOH HOH . 
V 7 HOH A 6 306 61 HOH HOH . 
V 7 HOH A 7 307 18 HOH HOH . 
V 7 HOH A 8 308 35 HOH HOH . 
V 7 HOH A 9 309 110 HOH HOH . 
V 7 HOH A 10 310 65 HOH HOH . 
V 7 HOH A 11 311 33 HOH HOH . 
V 7 HOH A 12 312 120 HOH HOH . 
V 7 HOH A 13 313 30 HOH HOH . 
V 7 HOH A 14 314 38 HOH HOH . 
V 7 HOH A 15 315 1 HOH HOH . 
V 7 HOH A 16 316 34 HOH HOH . 
V 7 HOH A 17 317 64 HOH HOH . 
V 7 HOH A 18 318 54 HOH HOH . 
V 7 HOH A 19 319 63 HOH HOH . 
V 7 HOH A 20 320 106 HOH HOH . 
V 7 HOH A 21 321 80 HOH HOH . 
V 7 HOH A 22 322 121 HOH HOH . 
V 7 HOH A 23 323 99 HOH HOH . 
V 7 HOH A 24 324 83 HOH HOH . 
V 7 HOH A 25 325 48 HOH HOH . 
V 7 HOH A 26 326 94 HOH HOH . 
V 7 HOH A 27 327 95 HOH HOH . 
V 7 HOH A 28 328 93 HOH HOH . 
V 7 HOH A 29 329 117 HOH HOH . 
V 7 HOH A 30 330 73 HOH HOH . 
V 7 HOH A 31 331 86 HOH HOH . 
V 7 HOH A 32 332 105 HOH HOH . 
V 7 HOH A 33 333 32 HOH HOH . 
W 7 HOH B 1 301 43 HOH HOH . 
W 7 HOH B 2 302 131 HOH HOH . 
W 7 HOH B 3 303 78 HOH HOH . 
W 7 HOH B 4 304 41 HOH HOH . 
W 7 HOH B 5 305 42 HOH HOH . 
W 7 HOH B 6 306 107 HOH HOH . 
W 7 HOH B 7 307 58 HOH HOH . 
W 7 HOH B 8 308 109 HOH HOH . 
W 7 HOH B 9 309 49 HOH HOH . 
W 7 HOH B 10 310 12 HOH HOH . 
W 7 HOH B 11 311 9 HOH HOH . 
W 7 HOH B 12 312 3 HOH HOH . 
W 7 HOH B 13 313 132 HOH HOH . 
W 7 HOH B 14 314 59 HOH HOH . 
W 7 HOH B 15 315 92 HOH HOH . 
W 7 HOH B 16 316 46 HOH HOH . 
W 7 HOH B 17 317 16 HOH HOH . 
W 7 HOH B 18 318 74 HOH HOH . 
W 7 HOH B 19 319 13 HOH HOH . 
W 7 HOH B 20 320 128 HOH HOH . 
W 7 HOH B 21 321 77 HOH HOH . 
W 7 HOH B 22 322 115 HOH HOH . 
W 7 HOH B 23 323 76 HOH HOH . 
W 7 HOH B 24 324 118 HOH HOH . 
W 7 HOH B 25 325 102 HOH HOH . 
W 7 HOH B 26 326 124 HOH HOH . 
W 7 HOH B 27 327 126 HOH HOH . 
W 7 HOH B 28 328 111 HOH HOH . 
X 7 HOH C 1 301 14 HOH HOH . 
X 7 HOH C 2 302 31 HOH HOH . 
X 7 HOH C 3 303 125 HOH HOH . 
X 7 HOH C 4 304 55 HOH HOH . 
X 7 HOH C 5 305 8 HOH HOH . 
X 7 HOH C 6 306 5 HOH HOH . 
X 7 HOH C 7 307 51 HOH HOH . 
X 7 HOH C 8 308 2 HOH HOH . 
X 7 HOH C 9 309 113 HOH HOH . 
X 7 HOH C 10 310 133 HOH HOH . 
X 7 HOH C 11 311 4 HOH HOH . 
X 7 HOH C 12 312 57 HOH HOH . 
X 7 HOH C 13 313 130 HOH HOH . 
X 7 HOH C 14 314 15 HOH HOH . 
X 7 HOH C 15 315 23 HOH HOH . 
X 7 HOH C 16 316 17 HOH HOH . 
X 7 HOH C 17 317 122 HOH HOH . 
X 7 HOH C 18 318 129 HOH HOH . 
X 7 HOH C 19 319 89 HOH HOH . 
X 7 HOH C 20 320 81 HOH HOH . 
X 7 HOH C 21 321 22 HOH HOH . 
X 7 HOH C 22 322 45 HOH HOH . 
X 7 HOH C 23 323 85 HOH HOH . 
X 7 HOH C 24 324 91 HOH HOH . 
X 7 HOH C 25 325 98 HOH HOH . 
X 7 HOH C 26 326 20 HOH HOH . 
X 7 HOH C 27 327 47 HOH HOH . 
X 7 HOH C 28 328 100 HOH HOH . 
X 7 HOH C 29 329 79 HOH HOH . 
X 7 HOH C 30 330 44 HOH HOH . 
X 7 HOH C 31 331 114 HOH HOH . 
X 7 HOH C 32 332 101 HOH HOH . 
X 7 HOH C 33 333 56 HOH HOH . 
X 7 HOH C 34 334 71 HOH HOH . 
X 7 HOH C 35 335 127 HOH HOH . 
X 7 HOH C 36 336 26 HOH HOH . 
X 7 HOH C 37 337 123 HOH HOH . 
X 7 HOH C 38 338 24 HOH HOH . 
X 7 HOH C 39 339 108 HOH HOH . 
X 7 HOH C 40 340 90 HOH HOH . 
X 7 HOH C 41 341 103 HOH HOH . 
X 7 HOH C 42 342 87 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 . . . I 6 -22.18 33.626 -2.521 1 36.35 ? C1 MPD 206 A 1 
HETATM 2 C C2 MPD . . . I 6 -23.146 33.618 -3.694 1 31.64 ? C2 MPD 206 A 1 
HETATM 3 O O2 MPD . . . I 6 -23.753 32.321 -3.814 1 39.12 ? O2 MPD 206 A 1 
HETATM 4 C CM MPD . . . I 6 -22.354 33.85 -4.964 1 34.28 ? CM MPD 206 A 1 
HETATM 5 C C3 MPD . . . I 6 -24.232 34.68 -3.531 1 43.03 ? C3 MPD 206 A 1 
HETATM 6 C C4 MPD . . . I 6 -25.221 34.26 -2.448 1 39.85 ? C4 MPD 206 A 1 
HETATM 7 O O4 MPD . . . I 6 -25.427 35.28 -1.508 1 38.31 ? O4 MPD 206 A 1 
HETATM 8 C C5 MPD . . . I 6 -26.557 33.891 -3.106 1 37.42 ? C5 MPD 206 A 1 
HETATM 9 H H11 MPD . . . I 6 -21.805 34.638 -2.366 1 43.66 ? H11 MPD 206 A 1 
HETATM 10 H H12 MPD . . . I 6 -21.345 32.958 -2.733 1 43.66 ? H12 MPD 206 A 1 
HETATM 11 H H13 MPD . . . I 6 -22.696 33.289 -1.622 1 43.66 ? H13 MPD 206 A 1 
HETATM 12 H HO2 MPD . . . I 6 -24.521 32.374 -4.42 1 46.98 ? HO2 MPD 206 A 1 
HETATM 13 H HM1 MPD . . . I 6 -21.404 34.325 -4.719 1 41.17 ? HM1 MPD 206 A 1 
HETATM 14 H HM2 MPD . . . I 6 -22.922 34.496 -5.633 1 41.17 ? HM2 MPD 206 A 1 
HETATM 15 H HM3 MPD . . . I 6 -22.167 32.894 -5.455 1 41.17 ? HM3 MPD 206 A 1 
HETATM 16 H H31 MPD . . . I 6 -24.758 34.815 -4.476 1 51.67 ? H31 MPD 206 A 1 
HETATM 17 H H32 MPD . . . I 6 -23.776 35.633 -3.261 1 51.67 ? H32 MPD 206 A 1 
HETATM 18 H H4 MPD . . . I 6 -24.806 33.404 -1.916 1 47.86 ? H4 MPD 206 A 1 
HETATM 19 H HO4 MPD . . . I 6 -26.008 35.968 -1.895 1 46.01 ? HO4 MPD 206 A 1 
HETATM 20 H H51 MPD . . . I 6 -26.829 32.873 -2.829 1 44.94 ? H51 MPD 206 A 1 
HETATM 21 H H52 MPD . . . I 6 -26.46 33.959 -4.189 1 44.94 ? H52 MPD 206 A 1 
HETATM 22 H H53 MPD . . . I 6 -27.332 34.579 -2.767 1 44.94 ? H53 MPD 206 A 1 
#
_model_server_stats.io_time_ms              9 
_model_server_stats.parse_time_ms           14 
_model_server_stats.create_model_time_ms    6 
_model_server_stats.query_time_ms           326 
_model_server_stats.encode_time_ms          4 
_model_server_stats.element_count           22 
#