data_3LNF # _model_server_result.job_id '_jDu2_AnLcETuXK6USgOCA' _model_server_result.datetime_utc '2024-10-18 14:27:00' _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 3lnf # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":302}' # _entry.id 3LNF # _exptl.entry_id 3LNF _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 40.078 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'CALCIUM ION' _entity.pdbx_number_of_molecules 6 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 70.58 _cell.angle_beta 88.13 _cell.angle_gamma 75.5 _cell.entry_id 3LNF _cell.length_a 45.107 _cell.length_b 47.383 _cell.length_c 69.897 _cell.Z_PDB 2 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3LNF _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 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 monomeric 1 author_and_software_defined_assembly 1 PISA monomeric 1 author_and_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,C,D,E,I 1 1 B,F,G,H,J 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 ? 2 C N N ? 2 D N N ? 2 E N N ? 2 F N N ? 2 G N N ? 2 H 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 metalc ? metalc1 A OE2 GLU 11 A GLU 11 1_555 C CA CA . A CA 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.713 ? metalc ? metalc2 A OE1 GLU 11 A GLU 11 1_555 D CA CA . A CA 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.554 ? metalc ? metalc3 A OD2 ASP 67 A ASP 67 1_555 C CA CA . A CA 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.614 ? metalc ? metalc4 A OE1 GLU 69 A GLU 69 1_555 C CA CA . A CA 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.561 ? metalc ? metalc5 A OE2 GLU 69 A GLU 69 1_555 D CA CA . A CA 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.565 ? metalc ? metalc6 A OE1 GLU 69 A GLU 69 1_555 D CA CA . A CA 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.598 ? metalc ? metalc7 A OD1 ASP 100 A ASP 100 1_555 D CA CA . A CA 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.562 ? metalc ? metalc8 A O GLN 101 A GLN 101 1_555 D CA CA . A CA 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.385 ? metalc ? metalc9 A OD1 ASN 102 A ASN 102 1_555 E CA CA . A CA 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.394 ? metalc ? metalc10 A OD2 ASP 103 A ASP 103 1_555 C CA CA . A CA 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.432 ? metalc ? metalc11 A OD1 ASP 103 A ASP 103 1_555 D CA CA . A CA 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.409 ? metalc ? metalc12 A O ASN 104 A ASN 104 1_555 E CA CA . A CA 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.273 ? metalc ? metalc13 A OD1 ASP 134 A ASP 134 1_555 E CA CA . A CA 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.529 ? metalc ? metalc14 A OD2 ASP 134 A ASP 134 1_555 E CA CA . A CA 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.611 ? metalc ? metalc15 A OD1 ASP 136 A ASP 136 1_555 D CA CA . A CA 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.668 ? metalc ? metalc16 A OD2 ASP 136 A ASP 136 1_555 E CA CA . A CA 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.529 ? metalc ? metalc17 A O ASN 143 A ASN 143 1_555 E CA CA . A CA 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.397 ? metalc ? metalc18 A OD2 ASP 195 A ASP 195 1_555 E CA CA . A CA 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.564 ? metalc ? metalc19 B OE1 GLU 11 B GLU 11 1_555 F CA CA . B CA 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.559 ? metalc ? metalc20 B OE2 GLU 11 B GLU 11 1_555 G CA CA . B CA 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.38 ? metalc ? metalc21 B OD2 ASP 67 B ASP 67 1_555 G CA CA . B CA 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.578 ? metalc ? metalc22 B OE2 GLU 69 B GLU 69 1_555 F CA CA . B CA 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.375 ? metalc ? metalc23 B OE1 GLU 69 B GLU 69 1_555 F CA CA . B CA 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.806 ? metalc ? metalc24 B OE1 GLU 69 B GLU 69 1_555 G CA CA . B CA 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.42 ? metalc ? metalc25 B OD1 ASP 100 B ASP 100 1_555 F CA CA . B CA 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.346 ? metalc ? metalc26 B O GLN 101 B GLN 101 1_555 F CA CA . B CA 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.378 ? metalc ? metalc27 B OD1 ASN 102 B ASN 102 1_555 H CA CA . B CA 306 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.387 ? metalc ? metalc28 B OD1 ASP 103 B ASP 103 1_555 F CA CA . B CA 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.413 ? metalc ? metalc29 B OD2 ASP 103 B ASP 103 1_555 G CA CA . B CA 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.414 ? metalc ? metalc30 B O ASN 104 B ASN 104 1_555 H CA CA . B CA 306 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.361 ? metalc ? metalc31 B OD1 ASP 134 B ASP 134 1_555 H CA CA . B CA 306 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.477 ? metalc ? metalc32 B OD2 ASP 134 B ASP 134 1_555 H CA CA . B CA 306 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.605 ? metalc ? metalc33 B OD1 ASP 136 B ASP 136 1_555 F CA CA . B CA 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.86 ? metalc ? metalc34 B OD2 ASP 136 B ASP 136 1_555 H CA CA . B CA 306 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.534 ? metalc ? metalc35 B O ASN 143 B ASN 143 1_555 H CA CA . B CA 306 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.333 ? metalc ? metalc36 B OD2 ASP 195 B ASP 195 1_555 H CA CA . B CA 306 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.512 ? metalc ? metalc37 J O HOH . B HOH 229 1_555 G CA CA . B CA 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.635 ? # _chem_comp.formula 'Ca 2' _chem_comp.formula_weight 40.078 _chem_comp.id CA _chem_comp.mon_nstd_flag . _chem_comp.name 'CALCIUM ION' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # _atom_sites.entry_id 3LNF _atom_sites.fract_transf_matrix[1][1] 0.02217 _atom_sites.fract_transf_matrix[1][2] -0.005731 _atom_sites.fract_transf_matrix[1][3] 0.001269 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.021798 _atom_sites.fract_transf_matrix[2][3] -0.007755 _atom_sites.fract_transf_matrix[3][1] 0 _atom_sites.fract_transf_matrix[3][2] 0 _atom_sites.fract_transf_matrix[3][3] 0.015193 _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 CA A 1 301 301 CA CA . D 2 CA A 1 302 302 CA CA . E 2 CA A 1 303 303 CA CA . F 2 CA B 1 304 304 CA CA . G 2 CA B 1 305 305 CA CA . H 2 CA B 1 306 306 CA CA . I 3 HOH A 1 214 1 HOH HOH . I 3 HOH A 2 215 3 HOH HOH . I 3 HOH A 3 216 4 HOH HOH . I 3 HOH A 4 217 9 HOH HOH . I 3 HOH A 5 218 10 HOH HOH . I 3 HOH A 6 219 13 HOH HOH . I 3 HOH A 7 220 14 HOH HOH . I 3 HOH A 8 221 17 HOH HOH . I 3 HOH A 9 222 18 HOH HOH . I 3 HOH A 10 223 19 HOH HOH . I 3 HOH A 11 224 20 HOH HOH . I 3 HOH A 12 225 21 HOH HOH . I 3 HOH A 13 226 22 HOH HOH . I 3 HOH A 14 227 23 HOH HOH . I 3 HOH A 15 228 24 HOH HOH . I 3 HOH A 16 229 27 HOH HOH . I 3 HOH A 17 230 29 HOH HOH . I 3 HOH A 18 231 30 HOH HOH . I 3 HOH A 19 232 33 HOH HOH . I 3 HOH A 20 233 34 HOH HOH . I 3 HOH A 21 234 35 HOH HOH . I 3 HOH A 22 235 36 HOH HOH . I 3 HOH A 23 236 38 HOH HOH . I 3 HOH A 24 237 45 HOH HOH . I 3 HOH A 25 238 46 HOH HOH . I 3 HOH A 26 239 48 HOH HOH . I 3 HOH A 27 240 49 HOH HOH . I 3 HOH A 28 241 50 HOH HOH . I 3 HOH A 29 242 52 HOH HOH . I 3 HOH A 30 243 57 HOH HOH . I 3 HOH A 31 244 58 HOH HOH . I 3 HOH A 32 245 59 HOH HOH . I 3 HOH A 33 246 60 HOH HOH . I 3 HOH A 34 247 64 HOH HOH . I 3 HOH A 35 248 66 HOH HOH . I 3 HOH A 36 249 68 HOH HOH . I 3 HOH A 37 250 69 HOH HOH . I 3 HOH A 38 251 70 HOH HOH . I 3 HOH A 39 252 72 HOH HOH . I 3 HOH A 40 253 74 HOH HOH . I 3 HOH A 41 254 75 HOH HOH . I 3 HOH A 42 255 82 HOH HOH . I 3 HOH A 43 256 86 HOH HOH . I 3 HOH A 44 257 87 HOH HOH . I 3 HOH A 45 258 90 HOH HOH . I 3 HOH A 46 259 91 HOH HOH . I 3 HOH A 47 260 92 HOH HOH . I 3 HOH A 48 261 93 HOH HOH . I 3 HOH A 49 262 94 HOH HOH . I 3 HOH A 50 263 95 HOH HOH . I 3 HOH A 51 264 96 HOH HOH . I 3 HOH A 52 265 97 HOH HOH . I 3 HOH A 53 266 98 HOH HOH . I 3 HOH A 54 267 99 HOH HOH . I 3 HOH A 55 268 108 HOH HOH . I 3 HOH A 56 269 109 HOH HOH . I 3 HOH A 57 270 110 HOH HOH . I 3 HOH A 58 271 111 HOH HOH . I 3 HOH A 59 272 113 HOH HOH . I 3 HOH A 60 273 114 HOH HOH . I 3 HOH A 61 274 116 HOH HOH . I 3 HOH A 62 275 118 HOH HOH . I 3 HOH A 63 276 120 HOH HOH . I 3 HOH A 64 277 121 HOH HOH . I 3 HOH A 65 278 122 HOH HOH . I 3 HOH A 66 279 123 HOH HOH . I 3 HOH A 67 280 124 HOH HOH . I 3 HOH A 68 281 125 HOH HOH . I 3 HOH A 69 282 126 HOH HOH . I 3 HOH A 70 283 127 HOH HOH . I 3 HOH A 71 284 129 HOH HOH . I 3 HOH A 72 285 130 HOH HOH . I 3 HOH A 73 286 132 HOH HOH . I 3 HOH A 74 287 133 HOH HOH . I 3 HOH A 75 288 134 HOH HOH . I 3 HOH A 76 289 135 HOH HOH . I 3 HOH A 77 290 136 HOH HOH . I 3 HOH A 78 291 137 HOH HOH . I 3 HOH A 79 292 140 HOH HOH . I 3 HOH A 80 293 141 HOH HOH . I 3 HOH A 81 294 143 HOH HOH . I 3 HOH A 82 295 145 HOH HOH . I 3 HOH A 83 296 148 HOH HOH . I 3 HOH A 84 297 153 HOH HOH . I 3 HOH A 85 298 154 HOH HOH . I 3 HOH A 86 299 162 HOH HOH . I 3 HOH A 87 300 163 HOH HOH . I 3 HOH A 88 304 164 HOH HOH . I 3 HOH A 89 305 105 HOH HOH . J 3 HOH B 1 214 2 HOH HOH . J 3 HOH B 2 215 5 HOH HOH . J 3 HOH B 3 216 6 HOH HOH . J 3 HOH B 4 217 7 HOH HOH . J 3 HOH B 5 218 8 HOH HOH . J 3 HOH B 6 219 11 HOH HOH . J 3 HOH B 7 220 12 HOH HOH . J 3 HOH B 8 221 15 HOH HOH . J 3 HOH B 9 222 16 HOH HOH . J 3 HOH B 10 223 25 HOH HOH . J 3 HOH B 11 224 26 HOH HOH . J 3 HOH B 12 225 28 HOH HOH . J 3 HOH B 13 226 31 HOH HOH . J 3 HOH B 14 227 32 HOH HOH . J 3 HOH B 15 228 37 HOH HOH . J 3 HOH B 16 229 39 HOH HOH . J 3 HOH B 17 230 40 HOH HOH . J 3 HOH B 18 231 41 HOH HOH . J 3 HOH B 19 232 42 HOH HOH . J 3 HOH B 20 233 43 HOH HOH . J 3 HOH B 21 234 44 HOH HOH . J 3 HOH B 22 235 47 HOH HOH . J 3 HOH B 23 236 51 HOH HOH . J 3 HOH B 24 237 53 HOH HOH . J 3 HOH B 25 238 54 HOH HOH . J 3 HOH B 26 239 55 HOH HOH . J 3 HOH B 27 240 56 HOH HOH . J 3 HOH B 28 241 61 HOH HOH . J 3 HOH B 29 242 62 HOH HOH . J 3 HOH B 30 243 63 HOH HOH . J 3 HOH B 31 244 65 HOH HOH . J 3 HOH B 32 245 67 HOH HOH . J 3 HOH B 33 246 71 HOH HOH . J 3 HOH B 34 247 73 HOH HOH . J 3 HOH B 35 248 76 HOH HOH . J 3 HOH B 36 249 77 HOH HOH . J 3 HOH B 37 250 78 HOH HOH . J 3 HOH B 38 251 79 HOH HOH . J 3 HOH B 39 252 80 HOH HOH . J 3 HOH B 40 253 81 HOH HOH . J 3 HOH B 41 254 83 HOH HOH . J 3 HOH B 42 255 84 HOH HOH . J 3 HOH B 43 256 85 HOH HOH . J 3 HOH B 44 257 88 HOH HOH . J 3 HOH B 45 258 89 HOH HOH . J 3 HOH B 46 259 100 HOH HOH . J 3 HOH B 47 260 101 HOH HOH . J 3 HOH B 48 261 103 HOH HOH . J 3 HOH B 49 262 104 HOH HOH . J 3 HOH B 50 264 106 HOH HOH . J 3 HOH B 51 265 107 HOH HOH . J 3 HOH B 52 266 112 HOH HOH . J 3 HOH B 53 267 115 HOH HOH . J 3 HOH B 54 268 117 HOH HOH . J 3 HOH B 55 269 119 HOH HOH . J 3 HOH B 56 270 128 HOH HOH . J 3 HOH B 57 271 131 HOH HOH . J 3 HOH B 58 272 138 HOH HOH . J 3 HOH B 59 273 139 HOH HOH . J 3 HOH B 60 274 142 HOH HOH . J 3 HOH B 61 275 144 HOH HOH . J 3 HOH B 62 276 146 HOH HOH . J 3 HOH B 63 277 147 HOH HOH . J 3 HOH B 64 278 149 HOH HOH . J 3 HOH B 65 279 151 HOH HOH . J 3 HOH B 66 280 156 HOH HOH . J 3 HOH B 67 281 157 HOH HOH . J 3 HOH B 68 282 158 HOH HOH . J 3 HOH B 69 283 159 HOH HOH . J 3 HOH B 70 284 160 HOH HOH . J 3 HOH B 71 285 166 HOH HOH . J 3 HOH B 72 286 167 HOH HOH . J 3 HOH B 73 287 168 HOH HOH . J 3 HOH B 74 288 169 HOH HOH . J 3 HOH B 75 289 170 HOH HOH . J 3 HOH B 76 290 171 HOH HOH . J 3 HOH B 77 291 172 HOH HOH . J 3 HOH B 78 292 173 HOH HOH . J 3 HOH B 79 293 175 HOH HOH . J 3 HOH B 80 294 176 HOH HOH . # _atom_site.group_PDB HETATM _atom_site.id 1 _atom_site.type_symbol CA _atom_site.label_atom_id CA _atom_site.label_comp_id CA _atom_site.label_seq_id . _atom_site.label_alt_id . _atom_site.pdbx_PDB_ins_code . _atom_site.label_asym_id D _atom_site.label_entity_id 2 _atom_site.Cartn_x 10.169 _atom_site.Cartn_y 17.749 _atom_site.Cartn_z 12.065 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 32.79 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id CA _atom_site.auth_comp_id CA _atom_site.auth_seq_id 302 _atom_site.auth_asym_id A _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 7 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 291 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 1 #