data_3VF0 # _model_server_result.job_id -4cL87SYNrC77RYJ48jbLg _model_server_result.datetime_utc '2025-07-02 07:26:40' _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 3vf0 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":2002}' # _entry.id 3VF0 # _exptl.entry_id 3VF0 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 92.094 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description GLYCEROL _entity.pdbx_number_of_molecules 13 _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 3VF0 _cell.length_a 164.905 _cell.length_b 164.905 _cell.length_c 102.594 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3VF0 _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 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression B,F,G,H,I,J,K,L,M,N,O,P,R 1 1 A,C,D,E,Q 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' 4_664 -x+1,-y+1,z-1/2 -1 0 0 0 -1 0 0 0 1 82.4525 142.811919 -51.297 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 4 D N N ? 4 E N N ? 4 F N N ? 4 G N N ? 4 H N N ? 4 I N N ? 4 J N N ? 4 K N N ? 4 L N N ? 4 M N N ? 4 N N N ? 4 O N N ? 4 P N N # _struct_conn.conn_type_id disulf _struct_conn.details ? _struct_conn.id disulf1 _struct_conn.ptnr1_label_asym_id B _struct_conn.ptnr1_label_atom_id SG _struct_conn.ptnr1_label_comp_id CYS _struct_conn.ptnr1_label_seq_id 203 _struct_conn.ptnr1_auth_asym_id B _struct_conn.ptnr1_auth_comp_id CYS _struct_conn.ptnr1_auth_seq_id 239 _struct_conn.ptnr1_symmetry 1_555 _struct_conn.ptnr2_label_asym_id B _struct_conn.ptnr2_label_atom_id SG _struct_conn.ptnr2_label_comp_id CYS _struct_conn.ptnr2_label_seq_id 215 _struct_conn.ptnr2_auth_asym_id B _struct_conn.ptnr2_auth_comp_id CYS _struct_conn.ptnr2_auth_seq_id 251 _struct_conn.ptnr2_symmetry 1_555 _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 2.051 _struct_conn.pdbx_value_order ? # _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 162 n n C1 C2 GOL sing 163 n n C1 H11 GOL sing 164 n n C1 H12 GOL sing 165 n n O1 HO1 GOL sing 166 n n C2 O2 GOL sing 167 n n C2 C3 GOL sing 168 n n C2 H2 GOL sing 169 n n O2 HO2 GOL sing 170 n n C3 O3 GOL sing 171 n n C3 H31 GOL sing 172 n n C3 H32 GOL sing 173 n n O3 HO3 GOL sing 174 n n # _atom_sites.entry_id 3VF0 _atom_sites.fract_transf_matrix[1][1] 0.006064 _atom_sites.fract_transf_matrix[1][2] 0.003501 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.007002 _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] 0.009747 _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 3 EPE A 1 2001 2001 EPE EPE . D 4 GOL A 1 2002 3001 GOL GOL . E 4 GOL A 1 2003 3002 GOL GOL . F 4 GOL B 1 3001 3001 GOL GOL . G 4 GOL B 1 3002 3002 GOL GOL . H 4 GOL B 1 3003 3003 GOL GOL . I 4 GOL B 1 3004 3004 GOL GOL . J 4 GOL B 1 3005 3005 GOL GOL . K 4 GOL B 1 3006 3006 GOL GOL . L 4 GOL B 1 3007 3007 GOL GOL . M 4 GOL B 1 3008 3008 GOL GOL . N 4 GOL B 1 3009 3009 GOL GOL . O 4 GOL B 1 3010 3010 GOL GOL . P 4 GOL B 1 3011 3011 GOL GOL . Q 5 HOH A 1 2101 7 HOH HOH . Q 5 HOH A 2 2102 8 HOH HOH . Q 5 HOH A 3 2103 9 HOH HOH . Q 5 HOH A 4 2104 12 HOH HOH . Q 5 HOH A 5 2105 13 HOH HOH . Q 5 HOH A 6 2106 14 HOH HOH . Q 5 HOH A 7 2107 17 HOH HOH . Q 5 HOH A 8 2108 19 HOH HOH . Q 5 HOH A 9 2109 20 HOH HOH . Q 5 HOH A 10 2110 21 HOH HOH . Q 5 HOH A 11 2111 26 HOH HOH . Q 5 HOH A 12 2112 28 HOH HOH . Q 5 HOH A 13 2113 34 HOH HOH . Q 5 HOH A 14 2114 35 HOH HOH . Q 5 HOH A 15 2115 41 HOH HOH . Q 5 HOH A 16 2116 42 HOH HOH . Q 5 HOH A 17 2117 43 HOH HOH . Q 5 HOH A 18 2118 44 HOH HOH . Q 5 HOH A 19 2119 47 HOH HOH . Q 5 HOH A 20 2120 48 HOH HOH . Q 5 HOH A 21 2121 51 HOH HOH . Q 5 HOH A 22 2122 52 HOH HOH . Q 5 HOH A 23 2123 55 HOH HOH . Q 5 HOH A 24 2124 58 HOH HOH . Q 5 HOH A 25 2125 61 HOH HOH . Q 5 HOH A 26 2126 64 HOH HOH . Q 5 HOH A 27 2127 78 HOH HOH . Q 5 HOH A 28 2128 84 HOH HOH . Q 5 HOH A 29 2129 87 HOH HOH . Q 5 HOH A 30 2130 88 HOH HOH . Q 5 HOH A 31 2131 89 HOH HOH . Q 5 HOH A 32 2132 91 HOH HOH . Q 5 HOH A 33 2133 95 HOH HOH . Q 5 HOH A 34 2134 96 HOH HOH . Q 5 HOH A 35 2135 97 HOH HOH . Q 5 HOH A 36 2136 98 HOH HOH . Q 5 HOH A 37 2137 102 HOH HOH . Q 5 HOH A 38 2138 103 HOH HOH . Q 5 HOH A 39 2139 106 HOH HOH . Q 5 HOH A 40 2140 108 HOH HOH . Q 5 HOH A 41 2141 109 HOH HOH . Q 5 HOH A 42 2142 111 HOH HOH . Q 5 HOH A 43 2143 112 HOH HOH . Q 5 HOH A 44 2144 113 HOH HOH . Q 5 HOH A 45 2145 114 HOH HOH . Q 5 HOH A 46 2146 115 HOH HOH . Q 5 HOH A 47 2147 117 HOH HOH . Q 5 HOH A 48 2148 119 HOH HOH . Q 5 HOH A 49 2149 120 HOH HOH . Q 5 HOH A 50 2150 121 HOH HOH . Q 5 HOH A 51 2151 124 HOH HOH . Q 5 HOH A 52 2152 131 HOH HOH . Q 5 HOH A 53 2153 133 HOH HOH . Q 5 HOH A 54 2154 139 HOH HOH . Q 5 HOH A 55 2155 144 HOH HOH . Q 5 HOH A 56 2156 145 HOH HOH . Q 5 HOH A 57 2157 149 HOH HOH . Q 5 HOH A 58 2158 153 HOH HOH . Q 5 HOH A 59 2159 155 HOH HOH . Q 5 HOH A 60 2160 157 HOH HOH . Q 5 HOH A 61 2161 159 HOH HOH . Q 5 HOH A 62 2162 161 HOH HOH . Q 5 HOH A 63 2163 164 HOH HOH . Q 5 HOH A 64 2164 165 HOH HOH . Q 5 HOH A 65 2165 170 HOH HOH . Q 5 HOH A 66 2166 171 HOH HOH . Q 5 HOH A 67 2167 173 HOH HOH . Q 5 HOH A 68 2168 174 HOH HOH . Q 5 HOH A 69 2169 175 HOH HOH . Q 5 HOH A 70 2170 182 HOH HOH . Q 5 HOH A 71 2171 183 HOH HOH . Q 5 HOH A 72 2172 185 HOH HOH . Q 5 HOH A 73 2173 186 HOH HOH . Q 5 HOH A 74 2174 188 HOH HOH . Q 5 HOH A 75 2175 191 HOH HOH . Q 5 HOH A 76 2176 192 HOH HOH . Q 5 HOH A 77 2177 205 HOH HOH . Q 5 HOH A 78 2178 206 HOH HOH . Q 5 HOH A 79 2179 210 HOH HOH . Q 5 HOH A 80 2180 215 HOH HOH . Q 5 HOH A 81 2181 219 HOH HOH . Q 5 HOH A 82 2182 220 HOH HOH . Q 5 HOH A 83 2183 222 HOH HOH . Q 5 HOH A 84 2184 223 HOH HOH . Q 5 HOH A 85 2185 227 HOH HOH . Q 5 HOH A 86 2186 232 HOH HOH . Q 5 HOH A 87 2187 235 HOH HOH . Q 5 HOH A 88 2188 236 HOH HOH . Q 5 HOH A 89 2189 237 HOH HOH . Q 5 HOH A 90 2190 239 HOH HOH . Q 5 HOH A 91 2191 245 HOH HOH . Q 5 HOH A 92 2192 249 HOH HOH . Q 5 HOH A 93 2193 252 HOH HOH . Q 5 HOH A 94 2194 253 HOH HOH . Q 5 HOH A 95 2195 254 HOH HOH . R 5 HOH B 1 3101 1 HOH HOH . R 5 HOH B 2 3102 2 HOH HOH . R 5 HOH B 3 3103 3 HOH HOH . R 5 HOH B 4 3104 4 HOH HOH . R 5 HOH B 5 3105 5 HOH HOH . R 5 HOH B 6 3106 6 HOH HOH . R 5 HOH B 7 3107 10 HOH HOH . R 5 HOH B 8 3108 11 HOH HOH . R 5 HOH B 9 3109 15 HOH HOH . R 5 HOH B 10 3110 16 HOH HOH . R 5 HOH B 11 3111 18 HOH HOH . R 5 HOH B 12 3112 22 HOH HOH . R 5 HOH B 13 3113 23 HOH HOH . R 5 HOH B 14 3114 24 HOH HOH . R 5 HOH B 15 3115 25 HOH HOH . R 5 HOH B 16 3116 27 HOH HOH . R 5 HOH B 17 3117 29 HOH HOH . R 5 HOH B 18 3118 30 HOH HOH . R 5 HOH B 19 3119 31 HOH HOH . R 5 HOH B 20 3120 32 HOH HOH . R 5 HOH B 21 3121 33 HOH HOH . R 5 HOH B 22 3122 36 HOH HOH . R 5 HOH B 23 3123 37 HOH HOH . R 5 HOH B 24 3124 38 HOH HOH . R 5 HOH B 25 3125 39 HOH HOH . R 5 HOH B 26 3126 40 HOH HOH . R 5 HOH B 27 3127 45 HOH HOH . R 5 HOH B 28 3128 46 HOH HOH . R 5 HOH B 29 3129 49 HOH HOH . R 5 HOH B 30 3130 50 HOH HOH . R 5 HOH B 31 3131 53 HOH HOH . R 5 HOH B 32 3132 54 HOH HOH . R 5 HOH B 33 3133 56 HOH HOH . R 5 HOH B 34 3134 57 HOH HOH . R 5 HOH B 35 3135 59 HOH HOH . R 5 HOH B 36 3136 60 HOH HOH . R 5 HOH B 37 3137 62 HOH HOH . R 5 HOH B 38 3138 63 HOH HOH . R 5 HOH B 39 3139 65 HOH HOH . R 5 HOH B 40 3140 66 HOH HOH . R 5 HOH B 41 3141 67 HOH HOH . R 5 HOH B 42 3142 68 HOH HOH . R 5 HOH B 43 3143 69 HOH HOH . R 5 HOH B 44 3144 70 HOH HOH . R 5 HOH B 45 3145 71 HOH HOH . R 5 HOH B 46 3146 72 HOH HOH . R 5 HOH B 47 3147 73 HOH HOH . R 5 HOH B 48 3148 74 HOH HOH . R 5 HOH B 49 3149 75 HOH HOH . R 5 HOH B 50 3150 76 HOH HOH . R 5 HOH B 51 3151 77 HOH HOH . R 5 HOH B 52 3152 79 HOH HOH . R 5 HOH B 53 3153 80 HOH HOH . R 5 HOH B 54 3154 81 HOH HOH . R 5 HOH B 55 3155 82 HOH HOH . R 5 HOH B 56 3156 83 HOH HOH . R 5 HOH B 57 3157 85 HOH HOH . R 5 HOH B 58 3158 86 HOH HOH . R 5 HOH B 59 3159 90 HOH HOH . R 5 HOH B 60 3160 92 HOH HOH . R 5 HOH B 61 3161 93 HOH HOH . R 5 HOH B 62 3162 94 HOH HOH . R 5 HOH B 63 3163 99 HOH HOH . R 5 HOH B 64 3164 100 HOH HOH . R 5 HOH B 65 3165 101 HOH HOH . R 5 HOH B 66 3166 104 HOH HOH . R 5 HOH B 67 3167 105 HOH HOH . R 5 HOH B 68 3168 107 HOH HOH . R 5 HOH B 69 3169 110 HOH HOH . R 5 HOH B 70 3170 116 HOH HOH . R 5 HOH B 71 3171 118 HOH HOH . R 5 HOH B 72 3172 122 HOH HOH . R 5 HOH B 73 3173 123 HOH HOH . R 5 HOH B 74 3174 125 HOH HOH . R 5 HOH B 75 3175 126 HOH HOH . R 5 HOH B 76 3176 127 HOH HOH . R 5 HOH B 77 3177 128 HOH HOH . R 5 HOH B 78 3178 129 HOH HOH . R 5 HOH B 79 3179 130 HOH HOH . R 5 HOH B 80 3180 132 HOH HOH . R 5 HOH B 81 3181 134 HOH HOH . R 5 HOH B 82 3182 135 HOH HOH . R 5 HOH B 83 3183 136 HOH HOH . R 5 HOH B 84 3184 137 HOH HOH . R 5 HOH B 85 3185 138 HOH HOH . R 5 HOH B 86 3186 140 HOH HOH . R 5 HOH B 87 3187 141 HOH HOH . R 5 HOH B 88 3188 142 HOH HOH . R 5 HOH B 89 3189 143 HOH HOH . R 5 HOH B 90 3190 146 HOH HOH . R 5 HOH B 91 3191 147 HOH HOH . R 5 HOH B 92 3192 148 HOH HOH . R 5 HOH B 93 3193 150 HOH HOH . R 5 HOH B 94 3194 151 HOH HOH . R 5 HOH B 95 3195 152 HOH HOH . R 5 HOH B 96 3196 154 HOH HOH . R 5 HOH B 97 3197 156 HOH HOH . R 5 HOH B 98 3198 158 HOH HOH . R 5 HOH B 99 3199 160 HOH HOH . R 5 HOH B 100 3200 162 HOH HOH . R 5 HOH B 101 3201 163 HOH HOH . R 5 HOH B 102 3202 166 HOH HOH . R 5 HOH B 103 3203 167 HOH HOH . R 5 HOH B 104 3204 168 HOH HOH . R 5 HOH B 105 3205 169 HOH HOH . R 5 HOH B 106 3206 172 HOH HOH . R 5 HOH B 107 3207 176 HOH HOH . R 5 HOH B 108 3208 177 HOH HOH . R 5 HOH B 109 3209 178 HOH HOH . R 5 HOH B 110 3210 179 HOH HOH . R 5 HOH B 111 3211 180 HOH HOH . R 5 HOH B 112 3212 181 HOH HOH . R 5 HOH B 113 3213 184 HOH HOH . R 5 HOH B 114 3214 187 HOH HOH . R 5 HOH B 115 3215 189 HOH HOH . R 5 HOH B 116 3216 190 HOH HOH . R 5 HOH B 117 3217 193 HOH HOH . R 5 HOH B 118 3218 194 HOH HOH . R 5 HOH B 119 3219 195 HOH HOH . R 5 HOH B 120 3220 196 HOH HOH . R 5 HOH B 121 3221 197 HOH HOH . R 5 HOH B 122 3222 198 HOH HOH . R 5 HOH B 123 3223 199 HOH HOH . R 5 HOH B 124 3224 200 HOH HOH . R 5 HOH B 125 3225 201 HOH HOH . R 5 HOH B 126 3226 202 HOH HOH . R 5 HOH B 127 3227 203 HOH HOH . R 5 HOH B 128 3228 204 HOH HOH . R 5 HOH B 129 3229 207 HOH HOH . R 5 HOH B 130 3230 208 HOH HOH . R 5 HOH B 131 3231 209 HOH HOH . R 5 HOH B 132 3232 211 HOH HOH . R 5 HOH B 133 3233 212 HOH HOH . R 5 HOH B 134 3234 213 HOH HOH . R 5 HOH B 135 3235 214 HOH HOH . R 5 HOH B 136 3236 216 HOH HOH . R 5 HOH B 137 3237 217 HOH HOH . R 5 HOH B 138 3238 218 HOH HOH . R 5 HOH B 139 3239 221 HOH HOH . R 5 HOH B 140 3240 224 HOH HOH . R 5 HOH B 141 3241 225 HOH HOH . R 5 HOH B 142 3242 226 HOH HOH . R 5 HOH B 143 3243 228 HOH HOH . R 5 HOH B 144 3244 229 HOH HOH . R 5 HOH B 145 3245 230 HOH HOH . R 5 HOH B 146 3246 231 HOH HOH . R 5 HOH B 147 3247 233 HOH HOH . R 5 HOH B 148 3248 234 HOH HOH . R 5 HOH B 149 3249 238 HOH HOH . R 5 HOH B 150 3250 240 HOH HOH . R 5 HOH B 151 3251 241 HOH HOH . R 5 HOH B 152 3252 242 HOH HOH . R 5 HOH B 153 3253 243 HOH HOH . R 5 HOH B 154 3254 244 HOH HOH . R 5 HOH B 155 3255 246 HOH HOH . R 5 HOH B 156 3256 247 HOH HOH . R 5 HOH B 157 3257 248 HOH HOH . R 5 HOH B 158 3258 250 HOH HOH . R 5 HOH B 159 3259 251 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 . . . D 4 42.182 64.752 -2.642 1 78.66 ? C1 GOL 2002 A 1 HETATM 2 O O1 GOL . . . D 4 41.034 63.988 -2.281 1 76.49 ? O1 GOL 2002 A 1 HETATM 3 C C2 GOL . . . D 4 43.429 63.895 -2.683 1 79.01 ? C2 GOL 2002 A 1 HETATM 4 O O2 GOL . . . D 4 44.598 64.727 -2.611 1 78.85 ? O2 GOL 2002 A 1 HETATM 5 C C3 GOL . . . D 4 43.464 63.096 -3.965 1 79.41 ? C3 GOL 2002 A 1 HETATM 6 O O3 GOL . . . D 4 44.611 62.27 -4.009 1 79.81 ? O3 GOL 2002 A 1 # _model_server_stats.io_time_ms 84 _model_server_stats.parse_time_ms 13 _model_server_stats.create_model_time_ms 17 _model_server_stats.query_time_ms 254 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 6 #