data_2CVI
#
_model_server_result.job_id            EwvXpmwAFH78ylkHBkBlOQ 
_model_server_result.datetime_utc      '2025-09-04 16:51:06' 
_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          2cvi 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"E","auth_seq_id":1100}' 
#
_entry.id    2CVI 
#
_exptl.entry_id    2CVI 
_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    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            2CVI 
_cell.length_a            61.972 
_cell.length_b            61.972 
_cell.length_c            75.797 
_cell.Z_PDB               12 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 2CVI 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        154 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 32 2 1' 
#
_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 
_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 
#
_struct_asym.details                        ? 
_struct_asym.entity_id                      3 
_struct_asym.id                             E 
_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 O LEU 23 A LEU 23 1_555 C K K . A K 1091 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.61 ? 
metalc ? metalc2 A O MET 25 A MET 25 1_555 C K K . A K 1091 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.716 ? 
metalc ? metalc3 A O VAL 28 A VAL 28 1_555 C K K . A K 1091 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.482 ? 
metalc ? metalc4 C K K . A K 1091 1_555 F O HOH . A HOH 1133 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.262 ? 
metalc ? metalc5 B O LEU 23 B LEU 23 1_555 D K K . B K 1092 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.631 ? 
metalc ? metalc6 B O MET 25 B MET 25 1_555 D K K . B K 1092 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.637 ? 
metalc ? metalc7 B O VAL 28 B VAL 28 1_555 D K K . B K 1092 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.558 ? 
metalc ? metalc8 D K K . B K 1092 1_555 G O HOH . B HOH 1110 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.991 ? 
metalc ? metalc9 D K K . B K 1092 1_555 G O HOH . B HOH 1115 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.931 ? 
metalc ? metalc10 D K K . B K 1092 1_555 G O HOH . B HOH 1180 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.604 ? 
#
_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 208 n n 
C1 H11 MPD sing 209 n n 
C1 H12 MPD sing 210 n n 
C1 H13 MPD sing 211 n n 
C2 O2 MPD sing 212 n n 
C2 CM MPD sing 213 n n 
C2 C3 MPD sing 214 n n 
O2 HO2 MPD sing 215 n n 
CM HM1 MPD sing 216 n n 
CM HM2 MPD sing 217 n n 
CM HM3 MPD sing 218 n n 
C3 C4 MPD sing 219 n n 
C3 H31 MPD sing 220 n n 
C3 H32 MPD sing 221 n n 
C4 O4 MPD sing 222 n n 
C4 C5 MPD sing 223 n n 
C4 H4 MPD sing 224 n n 
O4 HO4 MPD sing 225 n n 
C5 H51 MPD sing 226 n n 
C5 H52 MPD sing 227 n n 
C5 H53 MPD sing 228 n n 
#
_atom_sites.entry_id                     2CVI 
_atom_sites.fract_transf_matrix[1][1]    0.016136 
_atom_sites.fract_transf_matrix[1][2]    0.009316 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.018633 
_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]    0.013193 
_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
C 2 K A 1 1091 91 K K1 . 
D 2 K B 1 1092 92 K K1 . 
E 3 MPD B 1 1100 100 MPD MPD . 
F 4 HOH A 1 1092 1 HOH WAT . 
F 4 HOH A 2 1093 2 HOH WAT . 
F 4 HOH A 3 1094 4 HOH WAT . 
F 4 HOH A 4 1095 5 HOH WAT . 
F 4 HOH A 5 1096 10 HOH WAT . 
F 4 HOH A 6 1097 11 HOH WAT . 
F 4 HOH A 7 1098 12 HOH WAT . 
F 4 HOH A 8 1099 13 HOH WAT . 
F 4 HOH A 9 1100 14 HOH WAT . 
F 4 HOH A 10 1101 15 HOH WAT . 
F 4 HOH A 11 1102 16 HOH WAT . 
F 4 HOH A 12 1103 18 HOH WAT . 
F 4 HOH A 13 1104 19 HOH WAT . 
F 4 HOH A 14 1105 20 HOH WAT . 
F 4 HOH A 15 1106 21 HOH WAT . 
F 4 HOH A 16 1107 22 HOH WAT . 
F 4 HOH A 17 1108 23 HOH WAT . 
F 4 HOH A 18 1109 27 HOH WAT . 
F 4 HOH A 19 1110 32 HOH WAT . 
F 4 HOH A 20 1111 35 HOH WAT . 
F 4 HOH A 21 1112 36 HOH WAT . 
F 4 HOH A 22 1113 39 HOH WAT . 
F 4 HOH A 23 1114 42 HOH WAT . 
F 4 HOH A 24 1115 44 HOH WAT . 
F 4 HOH A 25 1116 51 HOH WAT . 
F 4 HOH A 26 1117 53 HOH WAT . 
F 4 HOH A 27 1118 54 HOH WAT . 
F 4 HOH A 28 1119 55 HOH WAT . 
F 4 HOH A 29 1120 56 HOH WAT . 
F 4 HOH A 30 1121 58 HOH WAT . 
F 4 HOH A 31 1122 60 HOH WAT . 
F 4 HOH A 32 1123 62 HOH WAT . 
F 4 HOH A 33 1124 64 HOH WAT . 
F 4 HOH A 34 1125 66 HOH WAT . 
F 4 HOH A 35 1126 70 HOH WAT . 
F 4 HOH A 36 1127 71 HOH WAT . 
F 4 HOH A 37 1128 73 HOH WAT . 
F 4 HOH A 38 1129 76 HOH WAT . 
F 4 HOH A 39 1130 79 HOH WAT . 
F 4 HOH A 40 1131 80 HOH WAT . 
F 4 HOH A 41 1132 81 HOH WAT . 
F 4 HOH A 42 1133 85 HOH WAT . 
F 4 HOH A 43 1134 91 HOH WAT . 
F 4 HOH A 44 1135 93 HOH WAT . 
F 4 HOH A 45 1136 95 HOH WAT . 
F 4 HOH A 46 1137 97 HOH WAT . 
F 4 HOH A 47 1138 98 HOH WAT . 
F 4 HOH A 48 1139 100 HOH WAT . 
F 4 HOH A 49 1140 102 HOH WAT . 
F 4 HOH A 50 1141 103 HOH WAT . 
F 4 HOH A 51 1142 104 HOH WAT . 
F 4 HOH A 52 1143 105 HOH WAT . 
F 4 HOH A 53 1144 107 HOH WAT . 
F 4 HOH A 54 1145 110 HOH WAT . 
F 4 HOH A 55 1146 113 HOH WAT . 
F 4 HOH A 56 1147 116 HOH WAT . 
F 4 HOH A 57 1148 117 HOH WAT . 
F 4 HOH A 58 1149 119 HOH WAT . 
F 4 HOH A 59 1150 120 HOH WAT . 
F 4 HOH A 60 1151 125 HOH WAT . 
F 4 HOH A 61 1152 126 HOH WAT . 
F 4 HOH A 62 1153 128 HOH WAT . 
F 4 HOH A 63 1154 129 HOH WAT . 
F 4 HOH A 64 1155 130 HOH WAT . 
F 4 HOH A 65 1156 134 HOH WAT . 
F 4 HOH A 66 1157 136 HOH WAT . 
F 4 HOH A 67 1158 137 HOH WAT . 
F 4 HOH A 68 1159 139 HOH WAT . 
F 4 HOH A 69 1160 141 HOH WAT . 
F 4 HOH A 70 1161 142 HOH WAT . 
F 4 HOH A 71 1162 143 HOH WAT . 
F 4 HOH A 72 1163 144 HOH WAT . 
F 4 HOH A 73 1164 149 HOH WAT . 
F 4 HOH A 74 1165 151 HOH WAT . 
F 4 HOH A 75 1166 154 HOH WAT . 
F 4 HOH A 76 1167 155 HOH WAT . 
F 4 HOH A 77 1168 158 HOH WAT . 
F 4 HOH A 78 1169 159 HOH WAT . 
F 4 HOH A 79 1170 163 HOH WAT . 
F 4 HOH A 80 1171 164 HOH WAT . 
F 4 HOH A 81 1172 165 HOH WAT . 
G 4 HOH B 1 1101 3 HOH WAT . 
G 4 HOH B 2 1102 6 HOH WAT . 
G 4 HOH B 3 1103 7 HOH WAT . 
G 4 HOH B 4 1104 8 HOH WAT . 
G 4 HOH B 5 1105 9 HOH WAT . 
G 4 HOH B 6 1106 17 HOH WAT . 
G 4 HOH B 7 1107 24 HOH WAT . 
G 4 HOH B 8 1108 25 HOH WAT . 
G 4 HOH B 9 1109 26 HOH WAT . 
G 4 HOH B 10 1110 28 HOH WAT . 
G 4 HOH B 11 1111 29 HOH WAT . 
G 4 HOH B 12 1112 30 HOH WAT . 
G 4 HOH B 13 1113 31 HOH WAT . 
G 4 HOH B 14 1114 33 HOH WAT . 
G 4 HOH B 15 1115 34 HOH WAT . 
G 4 HOH B 16 1116 37 HOH WAT . 
G 4 HOH B 17 1117 38 HOH WAT . 
G 4 HOH B 18 1118 40 HOH WAT . 
G 4 HOH B 19 1119 41 HOH WAT . 
G 4 HOH B 20 1120 43 HOH WAT . 
G 4 HOH B 21 1121 45 HOH WAT . 
G 4 HOH B 22 1122 46 HOH WAT . 
G 4 HOH B 23 1123 47 HOH WAT . 
G 4 HOH B 24 1124 48 HOH WAT . 
G 4 HOH B 25 1125 49 HOH WAT . 
G 4 HOH B 26 1126 50 HOH WAT . 
G 4 HOH B 27 1127 52 HOH WAT . 
G 4 HOH B 28 1128 57 HOH WAT . 
G 4 HOH B 29 1129 59 HOH WAT . 
G 4 HOH B 30 1130 61 HOH WAT . 
G 4 HOH B 31 1131 63 HOH WAT . 
G 4 HOH B 32 1132 65 HOH WAT . 
G 4 HOH B 33 1133 67 HOH WAT . 
G 4 HOH B 34 1134 68 HOH WAT . 
G 4 HOH B 35 1135 69 HOH WAT . 
G 4 HOH B 36 1136 72 HOH WAT . 
G 4 HOH B 37 1137 74 HOH WAT . 
G 4 HOH B 38 1138 75 HOH WAT . 
G 4 HOH B 39 1139 77 HOH WAT . 
G 4 HOH B 40 1140 78 HOH WAT . 
G 4 HOH B 41 1141 82 HOH WAT . 
G 4 HOH B 42 1142 83 HOH WAT . 
G 4 HOH B 43 1143 84 HOH WAT . 
G 4 HOH B 44 1144 86 HOH WAT . 
G 4 HOH B 45 1145 87 HOH WAT . 
G 4 HOH B 46 1146 88 HOH WAT . 
G 4 HOH B 47 1147 89 HOH WAT . 
G 4 HOH B 48 1148 90 HOH WAT . 
G 4 HOH B 49 1149 92 HOH WAT . 
G 4 HOH B 50 1150 94 HOH WAT . 
G 4 HOH B 51 1151 96 HOH WAT . 
G 4 HOH B 52 1152 99 HOH WAT . 
G 4 HOH B 53 1153 101 HOH WAT . 
G 4 HOH B 54 1154 106 HOH WAT . 
G 4 HOH B 55 1155 108 HOH WAT . 
G 4 HOH B 56 1156 109 HOH WAT . 
G 4 HOH B 57 1157 111 HOH WAT . 
G 4 HOH B 58 1158 112 HOH WAT . 
G 4 HOH B 59 1159 114 HOH WAT . 
G 4 HOH B 60 1160 115 HOH WAT . 
G 4 HOH B 61 1161 118 HOH WAT . 
G 4 HOH B 62 1162 121 HOH WAT . 
G 4 HOH B 63 1163 122 HOH WAT . 
G 4 HOH B 64 1164 123 HOH WAT . 
G 4 HOH B 65 1165 124 HOH WAT . 
G 4 HOH B 66 1166 127 HOH WAT . 
G 4 HOH B 67 1167 131 HOH WAT . 
G 4 HOH B 68 1168 132 HOH WAT . 
G 4 HOH B 69 1169 133 HOH WAT . 
G 4 HOH B 70 1170 135 HOH WAT . 
G 4 HOH B 71 1171 138 HOH WAT . 
G 4 HOH B 72 1172 140 HOH WAT . 
G 4 HOH B 73 1173 145 HOH WAT . 
G 4 HOH B 74 1174 146 HOH WAT . 
G 4 HOH B 75 1175 147 HOH WAT . 
G 4 HOH B 76 1176 148 HOH WAT . 
G 4 HOH B 77 1177 150 HOH WAT . 
G 4 HOH B 78 1178 152 HOH WAT . 
G 4 HOH B 79 1179 153 HOH WAT . 
G 4 HOH B 80 1180 156 HOH WAT . 
G 4 HOH B 81 1181 157 HOH WAT . 
G 4 HOH B 82 1182 160 HOH WAT . 
G 4 HOH B 83 1183 161 HOH WAT . 
G 4 HOH B 84 1184 162 HOH WAT . 
G 4 HOH B 85 1185 166 HOH WAT . 
#
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 . . . E 3 -40.632 -5.979 -3.924 1 20.51 ? C1 MPD 1100 B 1 
HETATM 2 C C2 MPD . . . E 3 -40.352 -7.169 -4.817 1 19.8 ? C2 MPD 1100 B 1 
HETATM 3 O O2 MPD . . . E 3 -40.161 -6.613 -6.172 1 19.24 ? O2 MPD 1100 B 1 
HETATM 4 C CM MPD . . . E 3 -39.111 -7.878 -4.381 1 20.52 ? CM MPD 1100 B 1 
HETATM 5 C C3 MPD . . . E 3 -41.481 -8.259 -4.703 1 21.11 ? C3 MPD 1100 B 1 
HETATM 6 C C4 MPD . . . E 3 -41.471 -9.441 -5.435 1 21.07 ? C4 MPD 1100 B 1 
HETATM 7 O O4 MPD . . . E 3 -42.684 -10.078 -5.146 1 26.31 ? O4 MPD 1100 B 1 
HETATM 8 C C5 MPD . . . E 3 -41.417 -9.116 -6.914 1 18.77 ? C5 MPD 1100 B 1 
#
_model_server_stats.io_time_ms              44 
_model_server_stats.parse_time_ms           8 
_model_server_stats.create_model_time_ms    2 
_model_server_stats.query_time_ms           391 
_model_server_stats.encode_time_ms          6 
_model_server_stats.element_count           8 
#