data_3KM1
#
_model_server_result.job_id            vIgZeXpiSZvI8U3728CfLg 
_model_server_result.datetime_utc      '2024-10-19 15:48:08' 
_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          3km1 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"F","auth_seq_id":156}' 
#
_entry.id    3KM1 
#
_exptl.entry_id    3KM1 
_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    2 
_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         90 
_cell.entry_id            3KM1 
_cell.length_a            65.574 
_cell.length_b            104.832 
_cell.length_c            35.818 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 3KM1 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        18 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 21 21 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 
_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 D N N 
? 3 F 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
disulf ? disulf1 A SG CYS 57 A CYS 57 1_555 A SG CYS 146 A CYS 146 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.058 ? 
disulf ? disulf2 B SG CYS 57 B CYS 57 1_555 B SG CYS 146 B CYS 146 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.058 ? 
metalc ? metalc1 A ND1 HIS 46 A HIS 46 1_555 C ZN ZN . A ZN 155 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.203 ? 
metalc ? metalc2 A NE2 HIS 48 A HIS 48 1_555 C ZN ZN . A ZN 155 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.155 ? 
metalc ? metalc3 A NE2 HIS 120 A HIS 120 1_555 C ZN ZN . A ZN 155 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.177 ? 
metalc ? metalc4 C ZN ZN . A ZN 155 1_555 D O2 GOL . A GOL 156 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.597 ? 
metalc ? metalc5 B ND1 HIS 46 B HIS 46 1_555 E ZN ZN . B ZN 155 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.234 ? 
metalc ? metalc6 B NE2 HIS 48 B HIS 48 1_555 E ZN ZN . B ZN 155 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.168 ? 
metalc ? metalc7 B NE2 HIS 120 B HIS 120 1_555 E ZN ZN . B ZN 155 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.172 ? 
metalc ? metalc8 E ZN ZN . B ZN 155 1_555 F O2 GOL . B GOL 156 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.506 ? 
#
_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 129 n n 
C1 C2 GOL sing 130 n n 
C1 H11 GOL sing 131 n n 
C1 H12 GOL sing 132 n n 
O1 HO1 GOL sing 133 n n 
C2 O2 GOL sing 134 n n 
C2 C3 GOL sing 135 n n 
C2 H2 GOL sing 136 n n 
O2 HO2 GOL sing 137 n n 
C3 O3 GOL sing 138 n n 
C3 H31 GOL sing 139 n n 
C3 H32 GOL sing 140 n n 
O3 HO3 GOL sing 141 n n 
#
_atom_sites.entry_id                     3KM1 
_atom_sites.fract_transf_matrix[1][1]    0.01525 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.009539 
_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]    0.027919 
_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 ZN A 1 155 1 ZN ZN . 
D 3 GOL A 1 156 1 GOL GOL . 
E 2 ZN B 1 155 2 ZN ZN . 
F 3 GOL B 1 156 2 GOL GOL . 
G 4 HOH A 1 157 1 HOH HOH . 
G 4 HOH A 2 158 3 HOH HOH . 
G 4 HOH A 3 159 159 HOH HOH . 
G 4 HOH A 4 160 5 HOH HOH . 
G 4 HOH A 5 161 161 HOH HOH . 
G 4 HOH A 6 162 10 HOH HOH . 
G 4 HOH A 7 163 163 HOH HOH . 
G 4 HOH A 8 164 164 HOH HOH . 
G 4 HOH A 9 165 165 HOH HOH . 
G 4 HOH A 10 166 11 HOH HOH . 
G 4 HOH A 11 167 167 HOH HOH . 
G 4 HOH A 12 168 168 HOH HOH . 
G 4 HOH A 13 169 169 HOH HOH . 
G 4 HOH A 14 170 12 HOH HOH . 
G 4 HOH A 15 171 14 HOH HOH . 
G 4 HOH A 16 172 15 HOH HOH . 
G 4 HOH A 17 173 18 HOH HOH . 
G 4 HOH A 18 174 19 HOH HOH . 
G 4 HOH A 19 175 20 HOH HOH . 
G 4 HOH A 20 176 23 HOH HOH . 
G 4 HOH A 21 177 24 HOH HOH . 
G 4 HOH A 22 178 27 HOH HOH . 
G 4 HOH A 23 179 29 HOH HOH . 
G 4 HOH A 24 180 31 HOH HOH . 
G 4 HOH A 25 181 32 HOH HOH . 
G 4 HOH A 26 182 34 HOH HOH . 
G 4 HOH A 27 183 39 HOH HOH . 
G 4 HOH A 28 184 41 HOH HOH . 
G 4 HOH A 29 185 43 HOH HOH . 
G 4 HOH A 30 186 45 HOH HOH . 
G 4 HOH A 31 187 46 HOH HOH . 
G 4 HOH A 32 188 47 HOH HOH . 
G 4 HOH A 33 189 51 HOH HOH . 
G 4 HOH A 34 190 52 HOH HOH . 
G 4 HOH A 35 191 54 HOH HOH . 
G 4 HOH A 36 192 57 HOH HOH . 
G 4 HOH A 37 193 58 HOH HOH . 
G 4 HOH A 38 194 59 HOH HOH . 
G 4 HOH A 39 195 61 HOH HOH . 
G 4 HOH A 40 196 63 HOH HOH . 
G 4 HOH A 41 197 64 HOH HOH . 
G 4 HOH A 42 198 66 HOH HOH . 
G 4 HOH A 43 199 68 HOH HOH . 
G 4 HOH A 44 200 69 HOH HOH . 
G 4 HOH A 45 201 70 HOH HOH . 
G 4 HOH A 46 202 71 HOH HOH . 
G 4 HOH A 47 203 72 HOH HOH . 
G 4 HOH A 48 204 76 HOH HOH . 
G 4 HOH A 49 205 77 HOH HOH . 
G 4 HOH A 50 206 78 HOH HOH . 
G 4 HOH A 51 207 80 HOH HOH . 
G 4 HOH A 52 208 81 HOH HOH . 
G 4 HOH A 53 209 83 HOH HOH . 
G 4 HOH A 54 210 87 HOH HOH . 
G 4 HOH A 55 211 88 HOH HOH . 
G 4 HOH A 56 212 89 HOH HOH . 
G 4 HOH A 57 213 90 HOH HOH . 
G 4 HOH A 58 214 91 HOH HOH . 
G 4 HOH A 59 215 92 HOH HOH . 
G 4 HOH A 60 216 95 HOH HOH . 
G 4 HOH A 61 217 96 HOH HOH . 
G 4 HOH A 62 218 98 HOH HOH . 
G 4 HOH A 63 219 100 HOH HOH . 
G 4 HOH A 64 220 101 HOH HOH . 
G 4 HOH A 65 221 103 HOH HOH . 
G 4 HOH A 66 222 105 HOH HOH . 
G 4 HOH A 67 223 106 HOH HOH . 
G 4 HOH A 68 224 107 HOH HOH . 
G 4 HOH A 69 225 111 HOH HOH . 
G 4 HOH A 70 226 112 HOH HOH . 
G 4 HOH A 71 227 113 HOH HOH . 
G 4 HOH A 72 228 115 HOH HOH . 
G 4 HOH A 73 229 116 HOH HOH . 
G 4 HOH A 74 230 117 HOH HOH . 
G 4 HOH A 75 231 119 HOH HOH . 
G 4 HOH A 76 232 121 HOH HOH . 
G 4 HOH A 77 233 123 HOH HOH . 
G 4 HOH A 78 234 125 HOH HOH . 
G 4 HOH A 79 235 131 HOH HOH . 
G 4 HOH A 80 236 132 HOH HOH . 
G 4 HOH A 81 237 134 HOH HOH . 
G 4 HOH A 82 238 135 HOH HOH . 
G 4 HOH A 83 239 136 HOH HOH . 
G 4 HOH A 84 240 139 HOH HOH . 
G 4 HOH A 85 241 140 HOH HOH . 
G 4 HOH A 86 242 141 HOH HOH . 
G 4 HOH A 87 243 143 HOH HOH . 
G 4 HOH A 88 244 144 HOH HOH . 
G 4 HOH A 89 245 145 HOH HOH . 
G 4 HOH A 90 246 147 HOH HOH . 
G 4 HOH A 91 247 149 HOH HOH . 
G 4 HOH A 92 248 151 HOH HOH . 
G 4 HOH A 93 249 154 HOH HOH . 
G 4 HOH A 94 250 155 HOH HOH . 
H 4 HOH B 1 157 157 HOH HOH . 
H 4 HOH B 2 158 158 HOH HOH . 
H 4 HOH B 3 159 2 HOH HOH . 
H 4 HOH B 4 160 160 HOH HOH . 
H 4 HOH B 5 161 4 HOH HOH . 
H 4 HOH B 6 162 162 HOH HOH . 
H 4 HOH B 7 163 6 HOH HOH . 
H 4 HOH B 8 164 7 HOH HOH . 
H 4 HOH B 9 165 8 HOH HOH . 
H 4 HOH B 10 166 166 HOH HOH . 
H 4 HOH B 11 167 9 HOH HOH . 
H 4 HOH B 12 168 13 HOH HOH . 
H 4 HOH B 13 169 16 HOH HOH . 
H 4 HOH B 14 170 17 HOH HOH . 
H 4 HOH B 15 171 21 HOH HOH . 
H 4 HOH B 16 172 22 HOH HOH . 
H 4 HOH B 17 173 25 HOH HOH . 
H 4 HOH B 18 174 26 HOH HOH . 
H 4 HOH B 19 175 28 HOH HOH . 
H 4 HOH B 20 176 30 HOH HOH . 
H 4 HOH B 21 177 33 HOH HOH . 
H 4 HOH B 22 178 35 HOH HOH . 
H 4 HOH B 23 179 36 HOH HOH . 
H 4 HOH B 24 180 37 HOH HOH . 
H 4 HOH B 25 181 38 HOH HOH . 
H 4 HOH B 26 182 40 HOH HOH . 
H 4 HOH B 27 183 42 HOH HOH . 
H 4 HOH B 28 184 44 HOH HOH . 
H 4 HOH B 29 185 48 HOH HOH . 
H 4 HOH B 30 186 49 HOH HOH . 
H 4 HOH B 31 187 50 HOH HOH . 
H 4 HOH B 32 188 53 HOH HOH . 
H 4 HOH B 33 189 55 HOH HOH . 
H 4 HOH B 34 190 56 HOH HOH . 
H 4 HOH B 35 191 60 HOH HOH . 
H 4 HOH B 36 192 62 HOH HOH . 
H 4 HOH B 37 193 65 HOH HOH . 
H 4 HOH B 38 194 67 HOH HOH . 
H 4 HOH B 39 195 73 HOH HOH . 
H 4 HOH B 40 196 74 HOH HOH . 
H 4 HOH B 41 197 75 HOH HOH . 
H 4 HOH B 42 198 79 HOH HOH . 
H 4 HOH B 43 199 82 HOH HOH . 
H 4 HOH B 44 200 84 HOH HOH . 
H 4 HOH B 45 201 85 HOH HOH . 
H 4 HOH B 46 202 86 HOH HOH . 
H 4 HOH B 47 203 93 HOH HOH . 
H 4 HOH B 48 204 94 HOH HOH . 
H 4 HOH B 49 205 97 HOH HOH . 
H 4 HOH B 50 206 99 HOH HOH . 
H 4 HOH B 51 207 102 HOH HOH . 
H 4 HOH B 52 208 104 HOH HOH . 
H 4 HOH B 53 209 108 HOH HOH . 
H 4 HOH B 54 210 109 HOH HOH . 
H 4 HOH B 55 211 110 HOH HOH . 
H 4 HOH B 56 212 114 HOH HOH . 
H 4 HOH B 57 213 118 HOH HOH . 
H 4 HOH B 58 214 120 HOH HOH . 
H 4 HOH B 59 215 122 HOH HOH . 
H 4 HOH B 60 216 124 HOH HOH . 
H 4 HOH B 61 217 126 HOH HOH . 
H 4 HOH B 62 218 127 HOH HOH . 
H 4 HOH B 63 219 128 HOH HOH . 
H 4 HOH B 64 220 129 HOH HOH . 
H 4 HOH B 65 221 130 HOH HOH . 
H 4 HOH B 66 222 133 HOH HOH . 
H 4 HOH B 67 223 137 HOH HOH . 
H 4 HOH B 68 224 138 HOH HOH . 
H 4 HOH B 69 225 142 HOH HOH . 
H 4 HOH B 70 226 146 HOH HOH . 
H 4 HOH B 71 227 148 HOH HOH . 
H 4 HOH B 72 228 150 HOH HOH . 
H 4 HOH B 73 229 152 HOH HOH . 
H 4 HOH B 74 230 153 HOH HOH . 
H 4 HOH B 75 231 156 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 . . . F 3 32.784 -10.226 8.663 1 50.24 ? C1 GOL 156 B 1 
HETATM 2 O O1 GOL . . . F 3 32.469 -9.953 7.316 1 49.53 ? O1 GOL 156 B 1 
HETATM 3 C C2 GOL . . . F 3 31.832 -9.427 9.542 1 51.06 ? C2 GOL 156 B 1 
HETATM 4 O O2 GOL . . . F 3 30.52 -9.559 9.012 1 35.28 ? O2 GOL 156 B 1 
HETATM 5 C C3 GOL . . . F 3 32.296 -7.966 9.539 1 45.87 ? C3 GOL 156 B 1 
HETATM 6 O O3 GOL . . . F 3 32.17 -7.404 10.833 1 42.82 ? O3 GOL 156 B 1 
#
_model_server_stats.io_time_ms              6 
_model_server_stats.parse_time_ms           9 
_model_server_stats.create_model_time_ms    27 
_model_server_stats.query_time_ms           308 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           6 
#