data_4E0M
#
_model_server_result.job_id            nnGchoB2CaCYBcR8cTOLiA 
_model_server_result.datetime_utc      '2024-11-24 19:39:21' 
_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          4e0m 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"K","auth_seq_id":104}' 
#
_entry.id    4E0M 
#
_exptl.entry_id    4E0M 
_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    2 
_entity.pdbx_parent_entity_id       . 
_entity.pdbx_mutation               ? 
_entity.pdbx_fragment               ? 
_entity.pdbx_ec                     ? 
#
_cell.angle_alpha         90 
_cell.angle_beta          122.19 
_cell.angle_gamma         90 
_cell.entry_id            4E0M 
_cell.length_a            58.32 
_cell.length_b            25.34 
_cell.length_c            50.78 
_cell.Z_PDB               16 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 4E0M 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        5 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'C 1 2 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
PISA dimeric 2 software_defined_assembly 1 
PISA dimeric 2 software_defined_assembly 2 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,B,E,F,G,N,O 1 1 
C,D,H,I,J,K,L,M,P,Q 2 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 H 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 ORN 1 A ORN 0 1_555 A N SER 2 A SER 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.303 ? 
covale ? covale2 A NE ORN 1 A ORN 0 1_555 A C LYS 14 A LYS 13 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.362 ? 
covale ? covale3 A C LYS 8 A LYS 7 1_555 A NE ORN 9 A ORN 8 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.381 ? 
covale ? covale4 A C ORN 9 A ORN 8 1_555 A N GLU 10 A GLU 9 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.378 ? 
covale ? covale5 A C PHE 11 A PHE 10 1_555 A N HAO 12 A HAO 11 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.348 ? 
covale ? covale6 A C HAO 12 A HAO 11 1_555 A N 4BF 13 A 4BF 12 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.345 ? 
covale ? covale7 A C 4BF 13 A 4BF 12 1_555 A N LYS 14 A LYS 13 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.349 ? 
covale ? covale8 B C ORN 1 B ORN 0 1_555 B N SER 2 B SER 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.347 ? 
covale ? covale9 B NE ORN 1 B ORN 0 1_555 B C LYS 14 B LYS 13 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.384 ? 
covale ? covale10 B C LYS 8 B LYS 7 1_555 B NE ORN 9 B ORN 8 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.373 ? 
covale ? covale11 B C ORN 9 B ORN 8 1_555 B N GLU 10 B GLU 9 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.401 ? 
covale ? covale12 B C PHE 11 B PHE 10 1_555 B N HAO 12 B HAO 11 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.4 ? 
covale ? covale13 B C HAO 12 B HAO 11 1_555 B N 4BF 13 B 4BF 12 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.332 ? 
covale ? covale14 B C 4BF 13 B 4BF 12 1_555 B N LYS 14 B LYS 13 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? 
covale ? covale15 C C ORN 1 C ORN 0 1_555 C N SER 2 C SER 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.366 ? 
covale ? covale16 C NE ORN 1 C ORN 0 1_555 C C LYS 14 C LYS 13 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.339 ? 
covale ? covale17 C C LYS 8 C LYS 7 1_555 C NE ORN 9 C ORN 8 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.371 ? 
covale ? covale18 C C ORN 9 C ORN 8 1_555 C N GLU 10 C GLU 9 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.372 ? 
covale ? covale19 C C PHE 11 C PHE 10 1_555 C N HAO 12 C HAO 11 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.383 ? 
covale ? covale20 C C HAO 12 C HAO 11 1_555 C N 4BF 13 C 4BF 12 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.353 ? 
covale ? covale21 C C 4BF 13 C 4BF 12 1_555 C N LYS 14 C LYS 13 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.375 ? 
covale ? covale22 D C ORN 1 D ORN 0 1_555 D N SER 2 D SER 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.379 ? 
covale ? covale23 D NE ORN 1 D ORN 0 1_555 D C LYS 14 D LYS 13 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.363 ? 
covale ? covale24 D C LYS 8 D LYS 7 1_555 D NE ORN 9 D ORN 8 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.437 ? 
covale ? covale25 D C ORN 9 D ORN 8 1_555 D N GLU 10 D GLU 9 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.384 ? 
covale ? covale26 D C PHE 11 D PHE 10 1_555 D N HAO 12 D HAO 11 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.397 ? 
covale ? covale27 D C HAO 12 D HAO 11 1_555 D N 4BF 13 D 4BF 12 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.346 ? 
covale ? covale28 D C 4BF 13 D 4BF 12 1_555 D N LYS 14 D LYS 13 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.396 ? 
#
_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 137 n n 
C1 H11 MPD sing 138 n n 
C1 H12 MPD sing 139 n n 
C1 H13 MPD sing 140 n n 
C2 O2 MPD sing 141 n n 
C2 CM MPD sing 142 n n 
C2 C3 MPD sing 143 n n 
O2 HO2 MPD sing 144 n n 
CM HM1 MPD sing 145 n n 
CM HM2 MPD sing 146 n n 
CM HM3 MPD sing 147 n n 
C3 C4 MPD sing 148 n n 
C3 H31 MPD sing 149 n n 
C3 H32 MPD sing 150 n n 
C4 O4 MPD sing 151 n n 
C4 C5 MPD sing 152 n n 
C4 H4 MPD sing 153 n n 
O4 HO4 MPD sing 154 n n 
C5 H51 MPD sing 155 n n 
C5 H52 MPD sing 156 n n 
C5 H53 MPD sing 157 n n 
#
_atom_sites.entry_id                     4E0M 
_atom_sites.fract_transf_matrix[1][1]    0.017147 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.010794 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.039463 
_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]    0.02327 
_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 PO4 B 1 101 1 PO4 PO4 . 
F 2 PO4 B 1 102 6 PO4 PO4 . 
G 2 PO4 B 1 103 7 PO4 PO4 . 
H 3 MPD C 1 101 1 MPD MPD . 
I 2 PO4 C 1 102 3 PO4 PO4 . 
J 2 PO4 C 1 103 4 PO4 PO4 . 
K 3 MPD C 1 104 1 MPD MPD . 
L 2 PO4 D 1 101 2 PO4 PO4 . 
M 2 PO4 D 1 102 5 PO4 PO4 . 
N 4 HOH A 1 101 11 HOH HOH . 
N 4 HOH A 2 102 12 HOH HOH . 
N 4 HOH A 3 103 13 HOH HOH . 
N 4 HOH A 4 104 15 HOH HOH . 
N 4 HOH A 5 105 19 HOH HOH . 
N 4 HOH A 6 106 24 HOH HOH . 
N 4 HOH A 7 107 32 HOH HOH . 
O 4 HOH B 1 201 1 HOH HOH . 
O 4 HOH B 2 202 5 HOH HOH . 
O 4 HOH B 3 203 6 HOH HOH . 
O 4 HOH B 4 204 9 HOH HOH . 
O 4 HOH B 5 205 10 HOH HOH . 
O 4 HOH B 6 206 21 HOH HOH . 
O 4 HOH B 7 207 22 HOH HOH . 
O 4 HOH B 8 208 28 HOH HOH . 
O 4 HOH B 9 209 31 HOH HOH . 
O 4 HOH B 10 210 33 HOH HOH . 
O 4 HOH B 11 211 34 HOH HOH . 
P 4 HOH C 1 201 2 HOH HOH . 
P 4 HOH C 2 202 4 HOH HOH . 
P 4 HOH C 3 203 8 HOH HOH . 
P 4 HOH C 4 204 23 HOH HOH . 
P 4 HOH C 5 205 27 HOH HOH . 
P 4 HOH C 6 206 30 HOH HOH . 
Q 4 HOH D 1 201 7 HOH HOH . 
Q 4 HOH D 2 202 16 HOH HOH . 
Q 4 HOH D 3 203 26 HOH HOH . 
Q 4 HOH D 4 204 29 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 . . . K 3 2.541 -9.272 -21.535 1 32.78 ? C1 MPD 104 C 1 
HETATM 2 C C2 MPD . . . K 3 1.045 -9.555 -21.397 1 33.58 ? C2 MPD 104 C 1 
HETATM 3 O O2 MPD . . . K 3 0.324 -8.698 -22.303 1 34.41 ? O2 MPD 104 C 1 
HETATM 4 C CM MPD . . . K 3 0.732 -10.989 -21.811 1 34.54 ? CM MPD 104 C 1 
HETATM 5 C C3 MPD . . . K 3 0.553 -9.387 -19.934 1 33.21 ? C3 MPD 104 C 1 
HETATM 6 C C4 MPD . . . K 3 0.405 -7.957 -19.351 1 33.53 ? C4 MPD 104 C 1 
HETATM 7 O O4 MPD . . . K 3 -0.323 -7.08 -20.221 1 35.82 ? O4 MPD 104 C 1 
HETATM 8 C C5 MPD . . . K 3 -0.286 -8.041 -18.01 1 28.29 ? C5 MPD 104 C 1 
#
_model_server_stats.io_time_ms              17 
_model_server_stats.parse_time_ms           6 
_model_server_stats.create_model_time_ms    8 
_model_server_stats.query_time_ms           296 
_model_server_stats.encode_time_ms          1 
_model_server_stats.element_count           8 
#