data_3S5T
#
_model_server_result.job_id            Tm60engEjX0oqrcHsBrmXQ 
_model_server_result.datetime_utc      '2024-11-13 07:57:46' 
_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          3s5t 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"F","auth_seq_id":289}' 
#
_entry.id    3S5T 
#
_exptl.entry_id    3S5T 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              118.174 
_entity.id                          3 
_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            3S5T 
_cell.length_a            98.33 
_cell.length_b            98.33 
_cell.length_c            121.13 
_cell.Z_PDB               12 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 3S5T 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        179 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 65 2 2' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    dimeric 
_pdbx_struct_assembly.oligomeric_count      2 
_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 
_pdbx_struct_assembly_gen.assembly_id        1 
_pdbx_struct_assembly_gen.oper_expression    1,2 
#
loop_
_pdbx_struct_oper_list.id
_pdbx_struct_oper_list.type
_pdbx_struct_oper_list.name
_pdbx_struct_oper_list.symmetry_operation
_pdbx_struct_oper_list.matrix[1][1]
_pdbx_struct_oper_list.matrix[1][2]
_pdbx_struct_oper_list.matrix[1][3]
_pdbx_struct_oper_list.matrix[2][1]
_pdbx_struct_oper_list.matrix[2][2]
_pdbx_struct_oper_list.matrix[2][3]
_pdbx_struct_oper_list.matrix[3][1]
_pdbx_struct_oper_list.matrix[3][2]
_pdbx_struct_oper_list.matrix[3][3]
_pdbx_struct_oper_list.vector[1]
_pdbx_struct_oper_list.vector[2]
_pdbx_struct_oper_list.vector[3]
1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 
2 'crystal symmetry operation' 8_675 x-y+1,-y+2,-z 1 0 0 0 -1 0 0 0 -1 0 170.312556 0 
#
loop_
_struct_asym.details
_struct_asym.entity_id
_struct_asym.id
_struct_asym.pdbx_modified
_struct_asym.pdbx_blank_PDB_chainid_flag
? 3 D N N 
? 3 E N N 
? 3 F 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 C PRO 96 A PRO 115 1_555 A N MSE 97 A MSE 116 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.34 ? 
covale ? covale2 A C MSE 97 A MSE 116 1_555 A N TYR 98 A TYR 117 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.347 ? 
covale ? covale3 A C TYR 150 A TYR 169 1_555 A N MSE 151 A MSE 170 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.324 ? 
covale ? covale4 A C MSE 151 A MSE 170 1_555 A N THR 152 A THR 171 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? 
covale ? covale5 A C ASN 156 A ASN 175 1_555 A N MSE 157 A MSE 176 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.337 ? 
covale ? covale6 A C MSE 157 A MSE 176 1_555 A N ASP 158 A ASP 177 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.34 ? 
covale ? covale7 A C LEU 187 A LEU 206 1_555 A N MSE 188 A MSE 207 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.346 ? 
covale ? covale8 A C MSE 188 A MSE 207 1_555 A N ALA 189 A ALA 208 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.353 ? 
covale ? covale9 A C ASP 201 A ASP 220 1_555 A N MSE 202 A MSE 221 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.343 ? 
covale ? covale10 A C MSE 202 A MSE 221 1_555 A N GLY 203 A GLY 222 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.342 ? 
covale ? covale11 A C ALA 236 A ALA 255 1_555 A N MSE 237 A MSE 256 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.338 ? 
covale ? covale12 A C MSE 237 A MSE 256 1_555 A N GLY 238 A GLY 257 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.315 ? 
covale ? covale13 A C GLU 247 A GLU 266 1_555 A N MSE 248 A MSE 267 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.323 ? 
covale ? covale14 A C MSE 248 A MSE 267 1_555 A N MSE 249 A MSE 268 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.343 ? 
covale ? covale15 A C MSE 249 A MSE 268 1_555 A N GLU 250 A GLU 269 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.348 ? 
covale ? covale16 A C HIS 251 A HIS 270 1_555 A N MSE 252 A MSE 271 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.318 ? 
covale ? covale17 A C MSE 252 A MSE 271 1_555 A N LEU 253 A LEU 272 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.351 ? 
covale ? covale18 A C GLU 261 A GLU 280 1_555 A N MSE 262 A MSE 281 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.349 ? 
covale ? covale19 A C MSE 262 A MSE 281 1_555 A N LYS 263 A LYS 282 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.354 ? 
#
_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 218 n n 
C1 H11 MPD sing 219 n n 
C1 H12 MPD sing 220 n n 
C1 H13 MPD sing 221 n n 
C2 O2 MPD sing 222 n n 
C2 CM MPD sing 223 n n 
C2 C3 MPD sing 224 n n 
O2 HO2 MPD sing 225 n n 
CM HM1 MPD sing 226 n n 
CM HM2 MPD sing 227 n n 
CM HM3 MPD sing 228 n n 
C3 C4 MPD sing 229 n n 
C3 H31 MPD sing 230 n n 
C3 H32 MPD sing 231 n n 
C4 O4 MPD sing 232 n n 
C4 C5 MPD sing 233 n n 
C4 H4 MPD sing 234 n n 
O4 HO4 MPD sing 235 n n 
C5 H51 MPD sing 236 n n 
C5 H52 MPD sing 237 n n 
C5 H53 MPD sing 238 n n 
#
_atom_sites.entry_id                     3S5T 
_atom_sites.fract_transf_matrix[1][1]    0.01017 
_atom_sites.fract_transf_matrix[1][2]    0.005872 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.011743 
_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]    0.008256 
_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 PO4 A 1 285 285 PO4 PO4 . 
C 2 PO4 A 1 286 286 PO4 PO4 . 
D 3 MPD A 1 287 287 MPD MPD . 
E 3 MPD A 1 288 288 MPD MPD . 
F 3 MPD A 1 289 289 MPD MPD . 
G 4 CL A 1 290 290 CL CL . 
H 5 HOH A 1 291 291 HOH HOH . 
H 5 HOH A 2 292 292 HOH HOH . 
H 5 HOH A 3 293 293 HOH HOH . 
H 5 HOH A 4 294 294 HOH HOH . 
H 5 HOH A 5 295 295 HOH HOH . 
H 5 HOH A 6 296 296 HOH HOH . 
H 5 HOH A 7 297 297 HOH HOH . 
H 5 HOH A 8 298 298 HOH HOH . 
H 5 HOH A 9 299 299 HOH HOH . 
H 5 HOH A 10 300 300 HOH HOH . 
H 5 HOH A 11 301 301 HOH HOH . 
H 5 HOH A 12 302 302 HOH HOH . 
H 5 HOH A 13 303 303 HOH HOH . 
H 5 HOH A 14 304 304 HOH HOH . 
H 5 HOH A 15 305 305 HOH HOH . 
H 5 HOH A 16 306 306 HOH HOH . 
H 5 HOH A 17 307 307 HOH HOH . 
H 5 HOH A 18 308 308 HOH HOH . 
H 5 HOH A 19 309 309 HOH HOH . 
H 5 HOH A 20 310 310 HOH HOH . 
H 5 HOH A 21 311 311 HOH HOH . 
H 5 HOH A 22 312 312 HOH HOH . 
H 5 HOH A 23 313 313 HOH HOH . 
H 5 HOH A 24 314 314 HOH HOH . 
H 5 HOH A 25 315 315 HOH HOH . 
H 5 HOH A 26 316 316 HOH HOH . 
H 5 HOH A 27 317 317 HOH HOH . 
H 5 HOH A 28 318 318 HOH HOH . 
H 5 HOH A 29 319 319 HOH HOH . 
H 5 HOH A 30 320 320 HOH HOH . 
H 5 HOH A 31 321 321 HOH HOH . 
H 5 HOH A 32 322 322 HOH HOH . 
H 5 HOH A 33 323 323 HOH HOH . 
H 5 HOH A 34 324 324 HOH HOH . 
H 5 HOH A 35 325 325 HOH HOH . 
H 5 HOH A 36 326 326 HOH HOH . 
H 5 HOH A 37 327 327 HOH HOH . 
H 5 HOH A 38 328 328 HOH HOH . 
H 5 HOH A 39 329 329 HOH HOH . 
H 5 HOH A 40 330 330 HOH HOH . 
H 5 HOH A 41 331 331 HOH HOH . 
H 5 HOH A 42 332 332 HOH HOH . 
H 5 HOH A 43 333 333 HOH HOH . 
H 5 HOH A 44 334 334 HOH HOH . 
H 5 HOH A 45 335 335 HOH HOH . 
H 5 HOH A 46 336 336 HOH HOH . 
H 5 HOH A 47 337 337 HOH HOH . 
H 5 HOH A 48 338 338 HOH HOH . 
H 5 HOH A 49 339 339 HOH HOH . 
H 5 HOH A 50 340 340 HOH HOH . 
H 5 HOH A 51 341 341 HOH HOH . 
H 5 HOH A 52 342 342 HOH HOH . 
H 5 HOH A 53 343 343 HOH HOH . 
H 5 HOH A 54 344 344 HOH HOH . 
H 5 HOH A 55 345 345 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 . . . F 3 -39.975 72.725 -14.203 1 90.78 ? C1 MPD 289 A 1 
HETATM 2 C C2 MPD . . . F 3 -38.441 72.783 -14.22 1 87.49 ? C2 MPD 289 A 1 
HETATM 3 O O2 MPD . . . F 3 -38.053 73.928 -15.033 1 92.48 ? O2 MPD 289 A 1 
HETATM 4 C CM MPD . . . F 3 -37.873 71.569 -14.962 1 90.4 ? CM MPD 289 A 1 
HETATM 5 C C3 MPD . . . F 3 -37.799 73.018 -12.832 1 87.7 ? C3 MPD 289 A 1 
HETATM 6 C C4 MPD . . . F 3 -38.16 72.202 -11.569 1 87.33 ? C4 MPD 289 A 1 
HETATM 7 O O4 MPD . . . F 3 -39.373 72.553 -10.944 1 86.51 ? O4 MPD 289 A 1 
HETATM 8 C C5 MPD . . . F 3 -37.931 70.685 -11.616 1 87.7 ? C5 MPD 289 A 1 
#
_model_server_stats.io_time_ms              10 
_model_server_stats.parse_time_ms           9 
_model_server_stats.create_model_time_ms    2 
_model_server_stats.query_time_ms           259 
_model_server_stats.encode_time_ms          4 
_model_server_stats.element_count           8 
#