data_3R6F
#
_model_server_result.job_id            mFKpZHm-Sd8wjniz2_XhCQ 
_model_server_result.datetime_utc      '2024-12-22 01:09:07' 
_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          3r6f 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"D","auth_seq_id":134}' 
#
_entry.id    3R6F 
#
_exptl.entry_id    3R6F 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              118.174 
_entity.id                          4 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            (4S)-2-METHYL-2,4-PENTANEDIOL 
_entity.pdbx_number_of_molecules    1 
_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            3R6F 
_cell.length_a            44.57 
_cell.length_b            44.57 
_cell.length_c            233.31 
_cell.Z_PDB               12 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 3R6F 
_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 
_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+1/6 0.5 -0.866025 0 -0.866025 -0.5 0 0 0 -1 22.285 38.598752 38.885 
#
_struct_asym.details                        ? 
_struct_asym.entity_id                      4 
_struct_asym.id                             D 
_struct_asym.pdbx_modified                  N 
_struct_asym.pdbx_blank_PDB_chainid_flag    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
metalc ? metalc1 A SG CYS 8 A CYS 4 1_555 B ZN ZN . A ZN 132 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.308 ? 
metalc ? metalc2 A SG CYS 11 A CYS 7 1_555 B ZN ZN . A ZN 132 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.318 ? 
metalc ? metalc3 A ND1 HIS 48 A HIS 44 1_555 B ZN ZN . A ZN 132 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.112 ? 
metalc ? metalc4 A ND1 HIS 93 A HIS 89 1_555 B ZN ZN . A ZN 132 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.082 ? 
#
_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 237 n n 
C1 H11 MPD sing 238 n n 
C1 H12 MPD sing 239 n n 
C1 H13 MPD sing 240 n n 
C2 O2 MPD sing 241 n n 
C2 CM MPD sing 242 n n 
C2 C3 MPD sing 243 n n 
O2 HO2 MPD sing 244 n n 
CM HM1 MPD sing 245 n n 
CM HM2 MPD sing 246 n n 
CM HM3 MPD sing 247 n n 
C3 C4 MPD sing 248 n n 
C3 H31 MPD sing 249 n n 
C3 H32 MPD sing 250 n n 
C4 O4 MPD sing 251 n n 
C4 C5 MPD sing 252 n n 
C4 H4 MPD sing 253 n n 
O4 HO4 MPD sing 254 n n 
C5 H51 MPD sing 255 n n 
C5 H52 MPD sing 256 n n 
C5 H53 MPD sing 257 n n 
#
_atom_sites.entry_id                     3R6F 
_atom_sites.fract_transf_matrix[1][1]    0.022437 
_atom_sites.fract_transf_matrix[1][2]    0.012954 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.025908 
_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]    0.004286 
_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 ZN A 1 132 1 ZN ZN . 
C 3 SO4 A 1 133 2 SO4 SO4 . 
D 4 MPD A 1 134 3 MPD MPD . 
E 5 HOH A 1 135 1 HOH HOH . 
E 5 HOH A 2 136 2 HOH HOH . 
E 5 HOH A 3 137 3 HOH HOH . 
E 5 HOH A 4 138 4 HOH HOH . 
E 5 HOH A 5 139 5 HOH HOH . 
E 5 HOH A 6 140 6 HOH HOH . 
E 5 HOH A 7 141 7 HOH HOH . 
E 5 HOH A 8 142 8 HOH HOH . 
E 5 HOH A 9 143 9 HOH HOH . 
E 5 HOH A 10 144 10 HOH HOH . 
E 5 HOH A 11 145 11 HOH HOH . 
E 5 HOH A 12 146 12 HOH HOH . 
E 5 HOH A 13 147 13 HOH HOH . 
E 5 HOH A 14 148 14 HOH HOH . 
E 5 HOH A 15 149 15 HOH HOH . 
E 5 HOH A 16 150 16 HOH HOH . 
E 5 HOH A 17 151 17 HOH HOH . 
E 5 HOH A 18 152 18 HOH HOH . 
E 5 HOH A 19 153 19 HOH HOH . 
E 5 HOH A 20 154 20 HOH HOH . 
E 5 HOH A 21 155 21 HOH HOH . 
E 5 HOH A 22 156 22 HOH HOH . 
E 5 HOH A 23 157 23 HOH HOH . 
E 5 HOH A 24 158 24 HOH HOH . 
E 5 HOH A 25 159 25 HOH HOH . 
E 5 HOH A 26 160 26 HOH HOH . 
E 5 HOH A 27 161 27 HOH HOH . 
E 5 HOH A 28 162 28 HOH HOH . 
E 5 HOH A 29 163 29 HOH HOH . 
E 5 HOH A 30 164 30 HOH HOH . 
E 5 HOH A 31 165 31 HOH HOH . 
E 5 HOH A 32 166 32 HOH HOH . 
E 5 HOH A 33 167 33 HOH HOH . 
E 5 HOH A 34 168 34 HOH HOH . 
E 5 HOH A 35 169 35 HOH HOH . 
E 5 HOH A 36 170 36 HOH HOH . 
E 5 HOH A 37 171 37 HOH HOH . 
E 5 HOH A 38 172 38 HOH HOH . 
E 5 HOH A 39 173 39 HOH HOH . 
E 5 HOH A 40 174 40 HOH HOH . 
E 5 HOH A 41 175 41 HOH HOH . 
E 5 HOH A 42 176 42 HOH HOH . 
E 5 HOH A 43 177 43 HOH HOH . 
E 5 HOH A 44 178 44 HOH HOH . 
E 5 HOH A 45 179 45 HOH HOH . 
E 5 HOH A 46 180 46 HOH HOH . 
E 5 HOH A 47 181 47 HOH HOH . 
E 5 HOH A 48 182 48 HOH HOH . 
E 5 HOH A 49 183 49 HOH HOH . 
E 5 HOH A 50 184 50 HOH HOH . 
E 5 HOH A 51 185 51 HOH HOH . 
E 5 HOH A 52 186 52 HOH HOH . 
E 5 HOH A 53 187 53 HOH HOH . 
E 5 HOH A 54 188 54 HOH HOH . 
E 5 HOH A 55 189 55 HOH HOH . 
E 5 HOH A 56 190 56 HOH HOH . 
E 5 HOH A 57 191 57 HOH HOH . 
E 5 HOH A 58 192 58 HOH HOH . 
E 5 HOH A 59 193 59 HOH HOH . 
E 5 HOH A 60 194 60 HOH HOH . 
E 5 HOH A 61 195 61 HOH HOH . 
E 5 HOH A 62 196 62 HOH HOH . 
E 5 HOH A 63 197 63 HOH HOH . 
E 5 HOH A 64 198 64 HOH HOH . 
E 5 HOH A 65 199 65 HOH HOH . 
E 5 HOH A 66 200 66 HOH HOH . 
E 5 HOH A 67 201 67 HOH HOH . 
E 5 HOH A 68 202 68 HOH HOH . 
E 5 HOH A 69 203 69 HOH HOH . 
E 5 HOH A 70 204 70 HOH HOH . 
E 5 HOH A 71 205 71 HOH HOH . 
E 5 HOH A 72 206 72 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 . . . D 4 18.715 18.052 35.109 1 26.22 ? C1 MPD 134 A 1 
HETATM 2 C C2 MPD . . . D 4 17.851 17.125 35.969 1 27.44 ? C2 MPD 134 A 1 
HETATM 3 O O2 MPD . . . D 4 16.619 16.863 35.25 1 26.53 ? O2 MPD 134 A 1 
HETATM 4 C CM MPD . . . D 4 17.465 17.789 37.295 1 28.29 ? CM MPD 134 A 1 
HETATM 5 C C3 MPD . . . D 4 18.653 15.847 36.199 1 27.99 ? C3 MPD 134 A 1 
HETATM 6 C C4 MPD . . . D 4 17.834 14.645 36.669 1 28.44 ? C4 MPD 134 A 1 
HETATM 7 O O4 MPD . . . D 4 16.923 14.244 35.663 1 24.54 ? O4 MPD 134 A 1 
HETATM 8 C C5 MPD . . . D 4 18.729 13.466 37.037 1 26.36 ? C5 MPD 134 A 1 
#
_model_server_stats.io_time_ms              57 
_model_server_stats.parse_time_ms           9 
_model_server_stats.create_model_time_ms    12 
_model_server_stats.query_time_ms           369 
_model_server_stats.encode_time_ms          4 
_model_server_stats.element_count           8 
#