data_4YS8
#
_model_server_result.job_id            m5-p604GRRl2oVqS-0r9iQ 
_model_server_result.datetime_utc      '2024-11-29 14:03:47' 
_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          4ys8 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"E","auth_seq_id":301}' 
#
_entry.id    4YS8 
#
_exptl.entry_id    4YS8 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              92.094 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            GLYCEROL 
_entity.pdbx_number_of_molecules    5 
_entity.pdbx_parent_entity_id       . 
_entity.pdbx_mutation               ? 
_entity.pdbx_fragment               ? 
_entity.pdbx_ec                     ? 
#
_cell.angle_alpha         90 
_cell.angle_beta          101.89 
_cell.angle_gamma         90 
_cell.entry_id            4YS8 
_cell.length_a            45.65 
_cell.length_b            138.31 
_cell.length_c            78.59 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 4YS8 
_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 
? monomeric 1 author_defined_assembly 3 
? monomeric 1 author_defined_assembly 4 
PISA dimeric 2 software_defined_assembly 5 
PISA dimeric 2 software_defined_assembly 6 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,E,F,K 1 1 
B,G,H,L 2 1 
C,I,J,M 3 1 
D,N 4 1 
A,B,E,F,G,H,K,L 5 1 
C,D,I,J,M,N 6 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
? 2 E N N 
? 2 F N N 
? 2 G N N 
? 2 I N N 
? 2 J N N 
#
_chem_comp.formula           'C3 H8 O3' 
_chem_comp.formula_weight    92.094 
_chem_comp.id                GOL 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              GLYCEROL 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     GLYCERIN;PROPANE-1,2,3-TRIOL 
#
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 O1 GOL sing 135 n n 
C1 C2 GOL sing 136 n n 
C1 H11 GOL sing 137 n n 
C1 H12 GOL sing 138 n n 
O1 HO1 GOL sing 139 n n 
C2 O2 GOL sing 140 n n 
C2 C3 GOL sing 141 n n 
C2 H2 GOL sing 142 n n 
O2 HO2 GOL sing 143 n n 
C3 O3 GOL sing 144 n n 
C3 H31 GOL sing 145 n n 
C3 H32 GOL sing 146 n n 
O3 HO3 GOL sing 147 n n 
#
_atom_sites.entry_id                     4YS8 
_atom_sites.fract_transf_matrix[1][1]    0.021906 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.004614 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.00723 
_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]    0.013003 
_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
E 2 GOL A 1 301 3 GOL GOL . 
F 2 GOL A 1 302 5 GOL GOL . 
G 2 GOL B 1 301 7 GOL GOL . 
H 3 ACT B 1 302 2 ACT ACT . 
I 2 GOL C 1 301 1 GOL GOL . 
J 2 GOL C 1 302 2 GOL GOL . 
K 4 HOH A 1 401 174 HOH HOH . 
K 4 HOH A 2 402 53 HOH HOH . 
K 4 HOH A 3 403 82 HOH HOH . 
K 4 HOH A 4 404 54 HOH HOH . 
K 4 HOH A 5 405 44 HOH HOH . 
K 4 HOH A 6 406 21 HOH HOH . 
K 4 HOH A 7 407 154 HOH HOH . 
K 4 HOH A 8 408 4 HOH HOH . 
K 4 HOH A 9 409 68 HOH HOH . 
K 4 HOH A 10 410 74 HOH HOH . 
K 4 HOH A 11 411 182 HOH HOH . 
K 4 HOH A 12 412 30 HOH HOH . 
K 4 HOH A 13 413 45 HOH HOH . 
K 4 HOH A 14 414 137 HOH HOH . 
K 4 HOH A 15 415 14 HOH HOH . 
K 4 HOH A 16 416 197 HOH HOH . 
K 4 HOH A 17 417 67 HOH HOH . 
K 4 HOH A 18 418 210 HOH HOH . 
K 4 HOH A 19 419 26 HOH HOH . 
K 4 HOH A 20 420 9 HOH HOH . 
K 4 HOH A 21 421 155 HOH HOH . 
K 4 HOH A 22 422 38 HOH HOH . 
K 4 HOH A 23 423 65 HOH HOH . 
K 4 HOH A 24 424 116 HOH HOH . 
K 4 HOH A 25 425 63 HOH HOH . 
K 4 HOH A 26 426 43 HOH HOH . 
K 4 HOH A 27 427 206 HOH HOH . 
K 4 HOH A 28 428 150 HOH HOH . 
K 4 HOH A 29 429 179 HOH HOH . 
K 4 HOH A 30 430 76 HOH HOH . 
K 4 HOH A 31 431 171 HOH HOH . 
K 4 HOH A 32 432 22 HOH HOH . 
K 4 HOH A 33 433 24 HOH HOH . 
K 4 HOH A 34 434 134 HOH HOH . 
K 4 HOH A 35 435 62 HOH HOH . 
K 4 HOH A 36 436 132 HOH HOH . 
K 4 HOH A 37 437 66 HOH HOH . 
K 4 HOH A 38 438 51 HOH HOH . 
K 4 HOH A 39 439 128 HOH HOH . 
K 4 HOH A 40 440 158 HOH HOH . 
K 4 HOH A 41 441 147 HOH HOH . 
K 4 HOH A 42 442 8 HOH HOH . 
K 4 HOH A 43 443 115 HOH HOH . 
K 4 HOH A 44 444 55 HOH HOH . 
K 4 HOH A 45 445 56 HOH HOH . 
K 4 HOH A 46 446 111 HOH HOH . 
K 4 HOH A 47 447 175 HOH HOH . 
K 4 HOH A 48 448 207 HOH HOH . 
K 4 HOH A 49 449 7 HOH HOH . 
K 4 HOH A 50 450 77 HOH HOH . 
K 4 HOH A 51 451 107 HOH HOH . 
K 4 HOH A 52 452 1 HOH HOH . 
K 4 HOH A 53 453 215 HOH HOH . 
K 4 HOH A 54 454 27 HOH HOH . 
K 4 HOH A 55 455 113 HOH HOH . 
K 4 HOH A 56 456 124 HOH HOH . 
K 4 HOH A 57 457 148 HOH HOH . 
K 4 HOH A 58 458 209 HOH HOH . 
K 4 HOH A 59 459 208 HOH HOH . 
K 4 HOH A 60 460 195 HOH HOH . 
K 4 HOH A 61 461 196 HOH HOH . 
K 4 HOH A 62 462 216 HOH HOH . 
K 4 HOH A 63 463 127 HOH HOH . 
K 4 HOH A 64 464 194 HOH HOH . 
K 4 HOH A 65 465 162 HOH HOH . 
K 4 HOH A 66 466 198 HOH HOH . 
K 4 HOH A 67 467 214 HOH HOH . 
K 4 HOH A 68 468 180 HOH HOH . 
K 4 HOH A 69 469 49 HOH HOH . 
K 4 HOH A 70 470 60 HOH HOH . 
K 4 HOH A 71 471 178 HOH HOH . 
K 4 HOH A 72 472 169 HOH HOH . 
K 4 HOH A 73 473 61 HOH HOH . 
L 4 HOH B 1 401 159 HOH HOH . 
L 4 HOH B 2 402 78 HOH HOH . 
L 4 HOH B 3 403 151 HOH HOH . 
L 4 HOH B 4 404 161 HOH HOH . 
L 4 HOH B 5 405 58 HOH HOH . 
L 4 HOH B 6 406 203 HOH HOH . 
L 4 HOH B 7 407 79 HOH HOH . 
L 4 HOH B 8 408 112 HOH HOH . 
L 4 HOH B 9 409 13 HOH HOH . 
L 4 HOH B 10 410 42 HOH HOH . 
L 4 HOH B 11 411 3 HOH HOH . 
L 4 HOH B 12 412 12 HOH HOH . 
L 4 HOH B 13 413 34 HOH HOH . 
L 4 HOH B 14 414 50 HOH HOH . 
L 4 HOH B 15 415 15 HOH HOH . 
L 4 HOH B 16 416 37 HOH HOH . 
L 4 HOH B 17 417 204 HOH HOH . 
L 4 HOH B 18 418 121 HOH HOH . 
L 4 HOH B 19 419 64 HOH HOH . 
L 4 HOH B 20 420 18 HOH HOH . 
L 4 HOH B 21 421 19 HOH HOH . 
L 4 HOH B 22 422 201 HOH HOH . 
L 4 HOH B 23 423 118 HOH HOH . 
L 4 HOH B 24 424 57 HOH HOH . 
L 4 HOH B 25 425 166 HOH HOH . 
L 4 HOH B 26 426 73 HOH HOH . 
L 4 HOH B 27 427 135 HOH HOH . 
L 4 HOH B 28 428 71 HOH HOH . 
L 4 HOH B 29 429 167 HOH HOH . 
L 4 HOH B 30 430 33 HOH HOH . 
L 4 HOH B 31 431 5 HOH HOH . 
L 4 HOH B 32 432 36 HOH HOH . 
L 4 HOH B 33 433 11 HOH HOH . 
L 4 HOH B 34 434 41 HOH HOH . 
L 4 HOH B 35 435 72 HOH HOH . 
L 4 HOH B 36 436 10 HOH HOH . 
L 4 HOH B 37 437 172 HOH HOH . 
L 4 HOH B 38 438 52 HOH HOH . 
L 4 HOH B 39 439 6 HOH HOH . 
L 4 HOH B 40 440 47 HOH HOH . 
L 4 HOH B 41 441 81 HOH HOH . 
L 4 HOH B 42 442 69 HOH HOH . 
L 4 HOH B 43 443 25 HOH HOH . 
L 4 HOH B 44 444 35 HOH HOH . 
L 4 HOH B 45 445 125 HOH HOH . 
L 4 HOH B 46 446 83 HOH HOH . 
L 4 HOH B 47 447 136 HOH HOH . 
L 4 HOH B 48 448 211 HOH HOH . 
L 4 HOH B 49 449 16 HOH HOH . 
L 4 HOH B 50 450 80 HOH HOH . 
L 4 HOH B 51 451 202 HOH HOH . 
L 4 HOH B 52 452 217 HOH HOH . 
L 4 HOH B 53 453 184 HOH HOH . 
L 4 HOH B 54 454 48 HOH HOH . 
L 4 HOH B 55 455 23 HOH HOH . 
L 4 HOH B 56 456 205 HOH HOH . 
L 4 HOH B 57 457 165 HOH HOH . 
L 4 HOH B 58 458 157 HOH HOH . 
L 4 HOH B 59 459 126 HOH HOH . 
L 4 HOH B 60 460 70 HOH HOH . 
M 4 HOH C 1 401 91 HOH HOH . 
M 4 HOH C 2 402 100 HOH HOH . 
M 4 HOH C 3 403 94 HOH HOH . 
M 4 HOH C 4 404 156 HOH HOH . 
M 4 HOH C 5 405 144 HOH HOH . 
M 4 HOH C 6 406 95 HOH HOH . 
M 4 HOH C 7 407 97 HOH HOH . 
M 4 HOH C 8 408 87 HOH HOH . 
M 4 HOH C 9 409 122 HOH HOH . 
M 4 HOH C 10 410 114 HOH HOH . 
M 4 HOH C 11 411 120 HOH HOH . 
M 4 HOH C 12 412 131 HOH HOH . 
M 4 HOH C 13 413 98 HOH HOH . 
M 4 HOH C 14 414 85 HOH HOH . 
M 4 HOH C 15 415 164 HOH HOH . 
M 4 HOH C 16 416 96 HOH HOH . 
M 4 HOH C 17 417 212 HOH HOH . 
M 4 HOH C 18 418 152 HOH HOH . 
M 4 HOH C 19 419 105 HOH HOH . 
M 4 HOH C 20 420 200 HOH HOH . 
M 4 HOH C 21 421 99 HOH HOH . 
M 4 HOH C 22 422 86 HOH HOH . 
M 4 HOH C 23 423 88 HOH HOH . 
M 4 HOH C 24 424 92 HOH HOH . 
M 4 HOH C 25 425 140 HOH HOH . 
M 4 HOH C 26 426 104 HOH HOH . 
M 4 HOH C 27 427 90 HOH HOH . 
M 4 HOH C 28 428 129 HOH HOH . 
M 4 HOH C 29 429 89 HOH HOH . 
M 4 HOH C 30 430 191 HOH HOH . 
M 4 HOH C 31 431 153 HOH HOH . 
M 4 HOH C 32 432 106 HOH HOH . 
M 4 HOH C 33 433 93 HOH HOH . 
M 4 HOH C 34 434 192 HOH HOH . 
M 4 HOH C 35 435 160 HOH HOH . 
M 4 HOH C 36 436 133 HOH HOH . 
M 4 HOH C 37 437 189 HOH HOH . 
M 4 HOH C 38 438 173 HOH HOH . 
M 4 HOH C 39 439 170 HOH HOH . 
N 4 HOH D 1 301 2 HOH HOH . 
N 4 HOH D 2 302 218 HOH HOH . 
N 4 HOH D 3 303 59 HOH HOH . 
N 4 HOH D 4 304 17 HOH HOH . 
N 4 HOH D 5 305 213 HOH HOH . 
N 4 HOH D 6 306 28 HOH HOH . 
N 4 HOH D 7 307 138 HOH HOH . 
N 4 HOH D 8 308 168 HOH HOH . 
N 4 HOH D 9 309 39 HOH HOH . 
N 4 HOH D 10 310 185 HOH HOH . 
N 4 HOH D 11 311 119 HOH HOH . 
N 4 HOH D 12 312 102 HOH HOH . 
N 4 HOH D 13 313 145 HOH HOH . 
N 4 HOH D 14 314 141 HOH HOH . 
N 4 HOH D 15 315 199 HOH HOH . 
N 4 HOH D 16 316 187 HOH HOH . 
N 4 HOH D 17 317 186 HOH HOH . 
N 4 HOH D 18 318 46 HOH HOH . 
N 4 HOH D 19 319 29 HOH HOH . 
N 4 HOH D 20 320 31 HOH HOH . 
N 4 HOH D 21 321 123 HOH HOH . 
N 4 HOH D 22 322 20 HOH HOH . 
N 4 HOH D 23 323 40 HOH HOH . 
N 4 HOH D 24 324 146 HOH HOH . 
N 4 HOH D 25 325 109 HOH HOH . 
N 4 HOH D 26 326 103 HOH HOH . 
N 4 HOH D 27 327 110 HOH HOH . 
N 4 HOH D 28 328 101 HOH HOH . 
N 4 HOH D 29 329 181 HOH HOH . 
N 4 HOH D 30 330 75 HOH HOH . 
N 4 HOH D 31 331 163 HOH HOH . 
N 4 HOH D 32 332 188 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 GOL . . . E 2 32.278 86.611 28.88 1 57.62 ? C1 GOL 301 A 1 
HETATM 2 O O1 GOL . . . E 2 33.486 86.849 29.567 1 56.22 ? O1 GOL 301 A 1 
HETATM 3 C C2 GOL . . . E 2 31.101 87.016 29.759 1 57.31 ? C2 GOL 301 A 1 
HETATM 4 O O2 GOL . . . E 2 30.24 87.864 29.032 1 58 ? O2 GOL 301 A 1 
HETATM 5 C C3 GOL . . . E 2 30.338 85.773 30.202 1 58.84 ? C3 GOL 301 A 1 
HETATM 6 O O3 GOL . . . E 2 29.265 86.151 31.036 1 59.73 ? O3 GOL 301 A 1 
#
_model_server_stats.io_time_ms              85 
_model_server_stats.parse_time_ms           12 
_model_server_stats.create_model_time_ms    8 
_model_server_stats.query_time_ms           314 
_model_server_stats.encode_time_ms          3 
_model_server_stats.element_count           6 
#