data_1BYZ
#
_model_server_result.job_id            6VwYozBZDa0uejLYDxsEog 
_model_server_result.datetime_utc      '2024-10-19 15:26:29' 
_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          1byz 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"G","auth_seq_id":511}' 
#
_entry.id    1BYZ 
#
_exptl.entry_id    1BYZ 
_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         102.4 
_cell.angle_beta          95.33 
_cell.angle_gamma         119.62 
_cell.entry_id            1BYZ 
_cell.length_a            20.846 
_cell.length_b            20.909 
_cell.length_c            27.057 
_cell.Z_PDB               4 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 1BYZ 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        1 
_symmetry.space_group_name_Hall    . 
_symmetry.space_group_name_H-M     'P 1' 
#
_pdbx_struct_assembly.method_details        ? 
_pdbx_struct_assembly.oligomeric_details    tetrameric 
_pdbx_struct_assembly.oligomeric_count      4 
_pdbx_struct_assembly.details               author_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 
_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
? 3 F N N 
? 3 G N N 
? 3 K 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 ACE 1 A ACE 100 1_555 A N GLU 2 A GLU 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.348 ? 
covale ? covale2 B C ACE 1 B ACE 200 1_555 B N GLU 2 B GLU 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.332 ? 
covale ? covale3 C C ACE 1 C ACE 300 1_555 C N GLU 2 C GLU 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.345 ? 
covale ? covale4 D C ACE 1 D ACE 400 1_555 D N GLU 2 D GLU 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.36 ? 
#
_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 91 n n 
C1 H11 MPD sing 92 n n 
C1 H12 MPD sing 93 n n 
C1 H13 MPD sing 94 n n 
C2 O2 MPD sing 95 n n 
C2 CM MPD sing 96 n n 
C2 C3 MPD sing 97 n n 
O2 HO2 MPD sing 98 n n 
CM HM1 MPD sing 99 n n 
CM HM2 MPD sing 100 n n 
CM HM3 MPD sing 101 n n 
C3 C4 MPD sing 102 n n 
C3 H31 MPD sing 103 n n 
C3 H32 MPD sing 104 n n 
C4 O4 MPD sing 105 n n 
C4 C5 MPD sing 106 n n 
C4 H4 MPD sing 107 n n 
O4 HO4 MPD sing 108 n n 
C5 H51 MPD sing 109 n n 
C5 H52 MPD sing 110 n n 
C5 H53 MPD sing 111 n n 
#
_atom_sites.entry_id                     1BYZ 
_atom_sites.fract_transf_matrix[1][1]    0.047971 
_atom_sites.fract_transf_matrix[1][2]    0.027273 
_atom_sites.fract_transf_matrix[1][3]    0.013306 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.055015 
_atom_sites.fract_transf_matrix[2][3]    0.017373 
_atom_sites.fract_transf_matrix[3][1]    0 
_atom_sites.fract_transf_matrix[3][2]    0 
_atom_sites.fract_transf_matrix[3][3]    0.038926 
_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 ETA A 1 502 502 ETA ETA . 
F 3 MPD A 1 513 513 MPD MPD . 
G 3 MPD B 1 511 511 MPD MPD . 
H 4 CL C 1 520 520 CL CL . 
I 2 ETA C 1 501 501 ETA ETA . 
J 5 MRD D 1 510 510 MRD MPD . 
K 3 MPD D 1 512 512 MPD MPD . 
L 6 HOH A 1 602 602 HOH HOH . 
L 6 HOH A 2 603 603 HOH HOH . 
L 6 HOH A 3 604 604 HOH HOH . 
L 6 HOH A 4 605 605 HOH HOH . 
L 6 HOH A 5 619 619 HOH HOH . 
L 6 HOH A 6 623 623 HOH HOH . 
M 6 HOH B 1 606 606 HOH HOH . 
M 6 HOH B 2 614 614 HOH HOH . 
M 6 HOH B 3 629 629 HOH HOH . 
M 6 HOH B 4 630 630 HOH HOH . 
M 6 HOH B 5 632 632 HOH HOH . 
M 6 HOH B 6 633 633 HOH HOH . 
M 6 HOH B 7 634 634 HOH HOH . 
N 6 HOH C 1 610 610 HOH HOH . 
N 6 HOH C 2 613 613 HOH HOH . 
N 6 HOH C 3 616 616 HOH HOH . 
N 6 HOH C 4 618 618 HOH HOH . 
N 6 HOH C 5 631 631 HOH HOH . 
O 6 HOH D 1 601 601 HOH HOH . 
O 6 HOH D 2 607 607 HOH HOH . 
O 6 HOH D 3 608 608 HOH HOH . 
O 6 HOH D 4 609 609 HOH HOH . 
O 6 HOH D 5 611 611 HOH HOH . 
O 6 HOH D 6 612 612 HOH HOH . 
O 6 HOH D 7 615 615 HOH HOH . 
O 6 HOH D 8 617 617 HOH HOH . 
O 6 HOH D 9 621 621 HOH HOH . 
O 6 HOH D 10 624 624 HOH HOH . 
O 6 HOH D 11 627 627 HOH HOH . 
O 6 HOH D 12 628 628 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 . . . G 3 0.51 -8.215 11.124 1 13.1 ? C1 MPD 511 B 1 
HETATM 2 C C2 MPD . . . G 3 0.197 -8.489 12.605 1 10.65 ? C2 MPD 511 B 1 
HETATM 3 O O2 MPD . . . G 3 0.392 -7.287 13.37 1 13.19 ? O2 MPD 511 B 1 
HETATM 4 C CM MPD . . . G 3 -1.225 -8.905 12.771 1 13.64 ? CM MPD 511 B 1 
HETATM 5 C C3 MPD . . . G 3 1.249 -9.479 13.101 1 11.41 ? C3 MPD 511 B 1 
HETATM 6 C C4 MPD . . . G 3 1.162 -9.824 14.605 1 16.37 ? C4 MPD 511 B 1 
HETATM 7 O O4 MPD . . . G 3 0.248 -10.951 14.672 1 31.96 ? O4 MPD 511 B 1 
HETATM 8 C C5 MPD . . . G 3 2.529 -10.539 14.965 1 14.81 ? C5 MPD 511 B 1 
HETATM 9 H H11 MPD . . . G 3 1.441 -7.922 11.035 1 19.65 ? H11 MPD 511 B 1 
HETATM 10 H H12 MPD . . . G 3 -0.086 -7.513 10.789 1 19.65 ? H12 MPD 511 B 1 
HETATM 11 H H13 MPD . . . G 3 0.374 -9.034 10.604 1 19.65 ? H13 MPD 511 B 1 
HETATM 12 H HO2 MPD . . . G 3 -0.127 -6.689 13.09 1 19.79 ? HO2 MPD 511 B 1 
HETATM 13 H HM1 MPD . . . G 3 -1.409 -9.069 13.719 1 20.46 ? HM1 MPD 511 B 1 
HETATM 14 H HM2 MPD . . . G 3 -1.387 -9.725 12.26 1 20.46 ? HM2 MPD 511 B 1 
HETATM 15 H HM3 MPD . . . G 3 -1.814 -8.194 12.442 1 20.46 ? HM3 MPD 511 B 1 
HETATM 16 H H31 MPD . . . G 3 2.146 -9.105 12.915 1 13.69 ? H31 MPD 511 B 1 
HETATM 17 H H32 MPD . . . G 3 1.162 -10.317 12.58 1 13.69 ? H32 MPD 511 B 1 
HETATM 18 H H4 MPD . . . G 3 0.922 -9.055 15.197 1 19.65 ? H4 MPD 511 B 1 
HETATM 19 H HO4 MPD . . . G 3 0.297 -11.306 15.432 1 47.94 ? HO4 MPD 511 B 1 
HETATM 20 H H51 MPD . . . G 3 2.533 -10.778 15.915 1 22.21 ? H51 MPD 511 B 1 
HETATM 21 H H52 MPD . . . G 3 3.275 -9.931 14.778 1 22.21 ? H52 MPD 511 B 1 
HETATM 22 H H53 MPD . . . G 3 2.626 -11.35 14.424 1 22.21 ? H53 MPD 511 B 1 
#
_model_server_stats.io_time_ms              8 
_model_server_stats.parse_time_ms           6 
_model_server_stats.create_model_time_ms    2 
_model_server_stats.query_time_ms           348 
_model_server_stats.encode_time_ms          1 
_model_server_stats.element_count           22 
#