data_4DYD
#
_model_server_result.job_id            e-j-KXZouPIBfI5yRd6N8A 
_model_server_result.datetime_utc      '2025-02-05 14:15:33' 
_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          4dyd 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"K","auth_seq_id":310}' 
#
_entry.id    4DYD 
#
_exptl.entry_id    4DYD 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              92.094 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            GLYCEROL 
_entity.pdbx_number_of_molecules    10 
_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            4DYD 
_cell.length_a            100.48 
_cell.length_b            100.48 
_cell.length_c            131.91 
_cell.Z_PDB               12 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 4DYD 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        180 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 62 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,I,J,K,L,M,N,O,P 
_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' 10_665 -y+1,-x+1,-z+2/3 0.5 -0.866025 0 -0.866025 -0.5 0 0 0 -1 50.24 87.018233 87.94 
#
loop_
_struct_asym.details
_struct_asym.entity_id
_struct_asym.id
_struct_asym.pdbx_modified
_struct_asym.pdbx_blank_PDB_chainid_flag
? 3 C N N 
? 3 D N N 
? 3 E N N 
? 3 F N N 
? 3 G N N 
? 3 H N N 
? 3 I N N 
? 3 J N N 
? 3 K N N 
? 3 L 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 116 n n 
C1 C2 GOL sing 117 n n 
C1 H11 GOL sing 118 n n 
C1 H12 GOL sing 119 n n 
O1 HO1 GOL sing 120 n n 
C2 O2 GOL sing 121 n n 
C2 C3 GOL sing 122 n n 
C2 H2 GOL sing 123 n n 
O2 HO2 GOL sing 124 n n 
C3 O3 GOL sing 125 n n 
C3 H31 GOL sing 126 n n 
C3 H32 GOL sing 127 n n 
O3 HO3 GOL sing 128 n n 
#
_atom_sites.entry_id                     4DYD 
_atom_sites.fract_transf_matrix[1][1]    0.009952 
_atom_sites.fract_transf_matrix[1][2]    0.005746 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.011492 
_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]    0.007581 
_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 NAD A 1 301 350 NAD NAD . 
C 3 GOL A 1 302 401 GOL GOL . 
D 3 GOL A 1 303 402 GOL GOL . 
E 3 GOL A 1 304 403 GOL GOL . 
F 3 GOL A 1 305 404 GOL GOL . 
G 3 GOL A 1 306 405 GOL GOL . 
H 3 GOL A 1 307 406 GOL GOL . 
I 3 GOL A 1 308 407 GOL GOL . 
J 3 GOL A 1 309 408 GOL GOL . 
K 3 GOL A 1 310 409 GOL GOL . 
L 3 GOL A 1 311 410 GOL GOL . 
M 4 SO4 A 1 312 501 SO4 SO4 . 
N 5 PO4 A 1 313 521 PO4 PO4 . 
O 5 PO4 A 1 314 522 PO4 PO4 . 
P 6 HOH A 1 401 1 HOH HOH . 
P 6 HOH A 2 402 2 HOH HOH . 
P 6 HOH A 3 403 3 HOH HOH . 
P 6 HOH A 4 404 4 HOH HOH . 
P 6 HOH A 5 405 5 HOH HOH . 
P 6 HOH A 6 406 6 HOH HOH . 
P 6 HOH A 7 407 7 HOH HOH . 
P 6 HOH A 8 408 8 HOH HOH . 
P 6 HOH A 9 409 9 HOH HOH . 
P 6 HOH A 10 410 10 HOH HOH . 
P 6 HOH A 11 411 11 HOH HOH . 
P 6 HOH A 12 412 12 HOH HOH . 
P 6 HOH A 13 413 13 HOH HOH . 
P 6 HOH A 14 414 14 HOH HOH . 
P 6 HOH A 15 415 15 HOH HOH . 
P 6 HOH A 16 416 16 HOH HOH . 
P 6 HOH A 17 417 17 HOH HOH . 
P 6 HOH A 18 418 18 HOH HOH . 
P 6 HOH A 19 419 19 HOH HOH . 
P 6 HOH A 20 420 20 HOH HOH . 
P 6 HOH A 21 421 21 HOH HOH . 
P 6 HOH A 22 422 22 HOH HOH . 
P 6 HOH A 23 423 23 HOH HOH . 
P 6 HOH A 24 424 24 HOH HOH . 
P 6 HOH A 25 425 25 HOH HOH . 
P 6 HOH A 26 426 26 HOH HOH . 
P 6 HOH A 27 427 27 HOH HOH . 
P 6 HOH A 28 428 28 HOH HOH . 
P 6 HOH A 29 429 29 HOH HOH . 
P 6 HOH A 30 430 30 HOH HOH . 
P 6 HOH A 31 431 31 HOH HOH . 
P 6 HOH A 32 432 32 HOH HOH . 
P 6 HOH A 33 433 33 HOH HOH . 
P 6 HOH A 34 434 34 HOH HOH . 
P 6 HOH A 35 435 35 HOH HOH . 
P 6 HOH A 36 436 36 HOH HOH . 
P 6 HOH A 37 437 37 HOH HOH . 
P 6 HOH A 38 438 38 HOH HOH . 
P 6 HOH A 39 439 39 HOH HOH . 
P 6 HOH A 40 440 40 HOH HOH . 
P 6 HOH A 41 441 41 HOH HOH . 
P 6 HOH A 42 442 42 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 . . . K 3 29.63 3.881 77.118 1 65.08 ? C1 GOL 310 A 1 
HETATM 2 O O1 GOL . . . K 3 29.781 4.885 78.124 1 101.15 ? O1 GOL 310 A 1 
HETATM 3 C C2 GOL . . . K 3 28.184 3.382 77.102 1 134.53 ? C2 GOL 310 A 1 
HETATM 4 O O2 GOL . . . K 3 27.303 4.474 76.825 1 65.63 ? O2 GOL 310 A 1 
HETATM 5 C C3 GOL . . . K 3 28.026 2.308 76.025 1 96.22 ? C3 GOL 310 A 1 
HETATM 6 O O3 GOL . . . K 3 26.677 1.837 76.008 1 110.7 ? O3 GOL 310 A 1 
#
_model_server_stats.io_time_ms              6 
_model_server_stats.parse_time_ms           7 
_model_server_stats.create_model_time_ms    3 
_model_server_stats.query_time_ms           330 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           6 
#