0.026525 0.000000 0.000000 0.000000 0.023142 0.000000 0.000000 0.000000 0.014689 0.00000 0.00000 0.00000 Conroy, P.J. Yagi, H. Whisstock, J.C. Norton, R.S. http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 4 90.00 90.00 90.00 37.700 43.211 68.077 C3 H7 N O2 89.093 y ALANINE L-peptide linking C6 H15 N4 O2 1 175.209 y ARGININE L-peptide linking C4 H8 N2 O3 132.118 y ASPARAGINE L-peptide linking C4 H7 N O4 133.103 y ASPARTIC ACID L-peptide linking Ca 2 40.078 CALCIUM ION non-polymer C3 H7 N O2 S 121.158 y CYSTEINE L-peptide linking C5 H10 N2 O3 146.144 y GLUTAMINE L-peptide linking C5 H9 N O4 147.129 y GLUTAMIC ACID L-peptide linking C2 H5 N O2 75.067 y GLYCINE peptide linking C6 H10 N3 O2 1 156.162 y HISTIDINE L-peptide linking H2 O 18.015 WATER non-polymer C6 H13 N O2 131.173 y LEUCINE L-peptide linking C6 H15 N2 O2 1 147.195 y LYSINE L-peptide linking C5 H11 N O2 S 149.211 y METHIONINE L-peptide linking C9 H11 N O2 165.189 y PHENYLALANINE L-peptide linking C5 H9 N O2 115.130 y PROLINE L-peptide linking C3 H7 N O3 105.093 y SERINE L-peptide linking C4 H9 N O3 119.119 y THREONINE L-peptide linking C11 H12 N2 O2 204.225 y TRYPTOPHAN L-peptide linking C9 H11 N O3 181.189 y TYROSINE L-peptide linking C5 H11 N O2 117.146 y VALINE L-peptide linking N 1 N N N 2 S C N 3 N C N 4 N O N 5 N C N 6 N O N 7 N H N 8 N H N 9 N H N 10 N H N 11 N H N 12 N H N 13 N H N 14 N N N 15 S C N 16 N C N 17 N O N 18 N C N 19 N C N 20 N C N 21 N N N 22 N C N 23 N N N 24 N N N 25 N O N 26 N H N 27 N H N 28 N H N 29 N H N 30 N H N 31 N H N 32 N H N 33 N H N 34 N H N 35 N H N 36 N H N 37 N H N 38 N H N 39 N H N 40 N H N 41 N N N 42 S C N 43 N C N 44 N O N 45 N C N 46 N C N 47 N O N 48 N N N 49 N O N 50 N H N 51 N H N 52 N H N 53 N H N 54 N H N 55 N H N 56 N H N 57 N H N 58 N N N 59 S C N 60 N C N 61 N O N 62 N C N 63 N C N 64 N O N 65 N O N 66 N O N 67 N H N 68 N H N 69 N H N 70 N H N 71 N H N 72 N H N 73 N H N 74 N CA N 75 N N N 76 R C N 77 N C N 78 N O N 79 N C N 80 N S N 81 N O N 82 N H N 83 N H N 84 N H N 85 N H N 86 N H N 87 N H N 88 N H N 89 N N N 90 S C N 91 N C N 92 N O N 93 N C N 94 N C N 95 N C N 96 N O N 97 N N N 98 N O N 99 N H N 100 N H N 101 N H N 102 N H N 103 N H N 104 N H N 105 N H N 106 N H N 107 N H N 108 N H N 109 N N N 110 S C N 111 N C N 112 N O N 113 N C N 114 N C N 115 N C N 116 N O N 117 N O N 118 N O N 119 N H N 120 N H N 121 N H N 122 N H N 123 N H N 124 N H N 125 N H N 126 N H N 127 N H N 128 N N N 129 N C N 130 N C N 131 N O N 132 N O N 133 N H N 134 N H N 135 N H N 136 N H N 137 N H N 138 N N N 139 S C N 140 N C N 141 N O N 142 N C Y 143 N C Y 144 N N Y 145 N C Y 146 N C Y 147 N N N 148 N O N 149 N H N 150 N H N 151 N H N 152 N H N 153 N H N 154 N H N 155 N H N 156 N H N 157 N H N 158 N H N 159 N O N 160 N H N 161 N H N 162 N N N 163 S C N 164 N C N 165 N O N 166 N C N 167 N C N 168 N C N 169 N C N 170 N O N 171 N H N 172 N H N 173 N H N 174 N H N 175 N H N 176 N H N 177 N H N 178 N H N 179 N H N 180 N H N 181 N H N 182 N H N 183 N H N 184 N N N 185 S C N 186 N C N 187 N O N 188 N C N 189 N C N 190 N C N 191 N C N 192 N N N 193 N O N 194 N H N 195 N H N 196 N H N 197 N H N 198 N H N 199 N H N 200 N H N 201 N H N 202 N H N 203 N H N 204 N H N 205 N H N 206 N H N 207 N H N 208 N H N 209 N N N 210 S C N 211 N C N 212 N O N 213 N C N 214 N C N 215 N S N 216 N C N 217 N O N 218 N H N 219 N H N 220 N H N 221 N H N 222 N H N 223 N H N 224 N H N 225 N H N 226 N H N 227 N H N 228 N H N 229 N N N 230 S C N 231 N C N 232 N O N 233 N C Y 234 N C Y 235 N C Y 236 N C Y 237 N C Y 238 N C Y 239 N C N 240 N O N 241 N H N 242 N H N 243 N H N 244 N H N 245 N H N 246 N H N 247 N H N 248 N H N 249 N H N 250 N H N 251 N H N 252 N N N 253 S C N 254 N C N 255 N O N 256 N C N 257 N C N 258 N C N 259 N O N 260 N H N 261 N H N 262 N H N 263 N H N 264 N H N 265 N H N 266 N H N 267 N H N 268 N H N 269 N N N 270 S C N 271 N C N 272 N O N 273 N C N 274 N O N 275 N O N 276 N H N 277 N H N 278 N H N 279 N H N 280 N H N 281 N H N 282 N H N 283 N N N 284 S C N 285 N C N 286 N O N 287 R C N 288 N O N 289 N C N 290 N O N 291 N H N 292 N H N 293 N H N 294 N H N 295 N H N 296 N H N 297 N H N 298 N H N 299 N H N 300 N N N 301 S C N 302 N C N 303 N O N 304 N C Y 305 N C Y 306 N C Y 307 N C Y 308 N N Y 309 N C Y 310 N C Y 311 N C Y 312 N C Y 313 N C N 314 N O N 315 N H N 316 N H N 317 N H N 318 N H N 319 N H N 320 N H N 321 N H N 322 N H N 323 N H N 324 N H N 325 N H N 326 N H N 327 N N N 328 S C N 329 N C N 330 N O N 331 N C Y 332 N C Y 333 N C Y 334 N C Y 335 N C Y 336 N C Y 337 N C N 338 N O N 339 N O N 340 N H N 341 N H N 342 N H N 343 N H N 344 N H N 345 N H N 346 N H N 347 N H N 348 N H N 349 N H N 350 N H N 351 N N N 352 S C N 353 N C N 354 N O N 355 N C N 356 N C N 357 N C N 358 N O N 359 N H N 360 N H N 361 N H N 362 N H N 363 N H N 364 N H N 365 N H N 366 N H N 367 N H N 368 N H N 369 N H N 1 N sing N 2 N sing N 3 N sing N 4 N sing N 5 N sing N 6 N sing N 7 N doub N 8 N sing N 9 N sing N 10 N sing N 11 N sing N 12 N sing N 13 N sing N 14 N sing N 15 N sing N 16 N sing N 17 N sing N 18 N sing N 19 N doub N 20 N sing N 21 N sing N 22 N sing N 23 N sing N 24 N sing N 25 N sing N 26 N sing N 27 N sing N 28 N sing N 29 N sing N 30 N sing N 31 N sing N 32 N sing N 33 N doub N 34 N sing N 35 N sing N 36 N sing N 37 N sing N 38 N sing N 39 N sing N 40 N sing N 41 N sing N 42 N sing N 43 N sing N 44 N sing N 45 N doub N 46 N sing N 47 N sing N 48 N sing N 49 N sing N 50 N doub N 51 N sing N 52 N sing N 53 N sing N 54 N sing N 55 N sing N 56 N sing N 57 N sing N 58 N sing N 59 N sing N 60 N sing N 61 N doub N 62 N sing N 63 N sing N 64 N sing N 65 N sing N 66 N doub N 67 N sing N 68 N sing N 69 N sing N 70 N sing N 71 N sing N 72 N sing N 73 N sing N 74 N sing N 75 N sing N 76 N doub N 77 N sing N 78 N sing N 79 N sing N 80 N sing N 81 N sing N 82 N sing N 83 N sing N 84 N sing N 85 N sing N 86 N sing N 87 N sing N 88 N sing N 89 N doub N 90 N sing N 91 N sing N 92 N sing N 93 N sing N 94 N sing N 95 N sing N 96 N sing N 97 N doub N 98 N sing N 99 N sing N 100 N sing N 101 N sing N 102 N sing N 103 N sing N 104 N sing N 105 N sing N 106 N sing N 107 N sing N 108 N doub N 109 N sing N 110 N sing N 111 N sing N 112 N sing N 113 N sing N 114 N sing N 115 N sing N 116 N doub N 117 N sing N 118 N sing N 119 N sing N 120 N sing N 121 N sing N 122 N sing N 123 N sing N 124 N sing N 125 N sing N 126 N doub N 127 N sing N 128 N sing N 129 N sing N 130 N sing N 131 N sing N 132 N sing N 133 N sing N 134 N sing N 135 N doub N 136 N sing N 137 N sing N 138 N sing N 139 N sing Y 140 N sing Y 141 N doub Y 142 N doub N 143 N sing Y 144 N sing N 145 N sing Y 146 N sing N 147 N sing N 148 N sing N 149 N sing N 150 N sing N 151 N sing N 152 N sing N 153 N sing N 154 N sing N 155 N sing N 156 N sing N 157 N sing N 158 N doub N 159 N sing N 160 N sing N 161 N sing N 162 N sing N 163 N sing N 164 N sing N 165 N sing N 166 N sing N 167 N sing N 168 N sing N 169 N sing N 170 N sing N 171 N sing N 172 N sing N 173 N sing N 174 N sing N 175 N sing N 176 N sing N 177 N sing N 178 N sing N 179 N doub N 180 N sing N 181 N sing N 182 N sing N 183 N sing N 184 N sing N 185 N sing N 186 N sing N 187 N sing N 188 N sing N 189 N sing N 190 N sing N 191 N sing N 192 N sing N 193 N sing N 194 N sing N 195 N sing N 196 N sing N 197 N sing N 198 N sing N 199 N sing N 200 N sing N 201 N sing N 202 N sing N 203 N doub N 204 N sing N 205 N sing N 206 N sing N 207 N sing N 208 N sing N 209 N sing N 210 N sing N 211 N sing N 212 N sing N 213 N sing N 214 N sing N 215 N sing N 216 N sing N 217 N sing N 218 N sing N 219 N sing N 220 N sing N 221 N sing N 222 N doub N 223 N sing N 224 N sing N 225 N sing N 226 N sing Y 227 N doub Y 228 N sing Y 229 N sing N 230 N sing Y 231 N doub N 232 N sing Y 233 N doub N 234 N sing Y 235 N sing N 236 N sing N 237 N sing N 238 N sing N 239 N sing N 240 N sing N 241 N sing N 242 N sing N 243 N sing N 244 N sing N 245 N doub N 246 N sing N 247 N sing N 248 N sing N 249 N sing N 250 N sing N 251 N sing N 252 N sing N 253 N sing N 254 N sing N 255 N sing N 256 N sing N 257 N sing N 258 N sing N 259 N sing N 260 N sing N 261 N sing N 262 N doub N 263 N sing N 264 N sing N 265 N sing N 266 N sing N 267 N sing N 268 N sing N 269 N sing N 270 N sing N 271 N sing N 272 N sing N 273 N sing N 274 N sing N 275 N doub N 276 N sing N 277 N sing N 278 N sing N 279 N sing N 280 N sing N 281 N sing N 282 N sing N 283 N sing N 284 N sing N 285 N sing N 286 N sing N 287 N sing N 288 N sing N 289 N sing N 290 N sing N 291 N doub N 292 N sing N 293 N sing N 294 N sing N 295 N sing Y 296 N doub Y 297 N sing Y 298 N sing N 299 N sing Y 300 N doub Y 301 N sing Y 302 N sing N 303 N sing Y 304 N sing Y 305 N doub N 306 N sing Y 307 N doub N 308 N sing Y 309 N sing N 310 N sing N 311 N sing N 312 N sing N 313 N sing N 314 N sing N 315 N sing N 316 N sing N 317 N sing N 318 N sing N 319 N doub N 320 N sing N 321 N sing N 322 N sing N 323 N sing Y 324 N doub Y 325 N sing Y 326 N sing N 327 N sing Y 328 N doub N 329 N sing Y 330 N doub N 331 N sing Y 332 N sing N 333 N sing N 334 N sing N 335 N sing N 336 N sing N 337 N sing N 338 N sing N 339 N sing N 340 N sing N 341 N sing N 342 N sing N 343 N doub N 344 N sing N 345 N sing N 346 N sing N 347 N sing N 348 N sing N 349 N sing N 350 N sing N 351 N sing N 352 N sing N 353 N sing N 354 N sing US J.Biol.Chem. JBCHA3 0071 1083-351X 290 25213 25226 10.1074/jbc.M115.668384 26306037 Structural Basis for Ca2+-mediated Interaction of the Perforin C2 Domain with Lipid Membranes. 2015 10.2210/pdb4y1s/pdb pdb_00004y1s 100 1 CCD 2014-12-18 ADSC QUANTUM 315r SINGLE WAVELENGTH M x-ray 1 0.953697 1.0 MX2 Australian Synchrotron 0.953697 SYNCHROTRON AUSTRALIAN SYNCHROTRON BEAMLINE MX2 16475.088 Perforin-1 C2 domain (UNP residues 410-535) W427A, Y430A, Y486A, W488A 1 man polymer 40.078 CALCIUM ION 1 syn non-polymer 18.015 water 134 nat water P1,Cytolysin,Lymphocyte pore-forming protein no no QRGLAHLVVSNFRAEHLAGDATTATDAYLKVFFGGQEFRTGVVWNNNNPRWTDKMDFENVLLSTGGPLRVQVWDADAGAD DDLLGSCDRSPHSGFHEVTCELNHGRVKFSYHAKCLPHLTGGTCLEGQAGQHHHHHHGAYPYDVPDYAS QRGLAHLVVSNFRAEHLAGDATTATDAYLKVFFGGQEFRTGVVWNNNNPRWTDKMDFENVLLSTGGPLRVQVWDADAGAD DDLLGSCDRSPHSGFHEVTCELNHGRVKFSYHAKCLPHLTGGTCLEGQAGQHHHHHHGAYPYDVPDYAS A polypeptide(L) n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n house mouse sample 1 149 Prf1, Pfp 10090 Mus musculus 562 Escherichia coli Top10F` plasmid Biological sequence pComb3X 1 1.68 26.91 VAPOR DIFFUSION, HANGING DROP 6.0 0.1M MES pH 6.0, 0.2 M NaCl and 20% (w/v) polyethylene glycol 2000 monomethyl ether 293 citation diffrn_source entity_src_gen pdbx_struct_oper_list chem_comp_atom chem_comp_bond database_2 pdbx_initial_refinement_model pdbx_struct_conn_angle struct_conn pdbx_entry_details pdbx_modification_feature repository Initial release Database references Database references Data collection Database references Derived calculations Source and taxonomy Data collection Database references Derived calculations Refinement description Structure summary 1 0 2015-09-02 1 1 2015-09-09 1 2 2015-10-28 1 3 2017-12-13 1 4 2023-09-27 1 5 2024-11-06 _citation.journal_id_CSD _diffrn_source.pdbx_synchrotron_site _entity_src_gen.gene_src_common_name _entity_src_gen.pdbx_gene_src_ncbi_taxonomy_id _entity_src_gen.pdbx_gene_src_scientific_name _pdbx_struct_oper_list.symmetry_operation _database_2.pdbx_DOI _database_2.pdbx_database_accession _pdbx_struct_conn_angle.ptnr1_auth_seq_id _pdbx_struct_conn_angle.ptnr3_auth_seq_id _pdbx_struct_conn_angle.value _struct_conn.pdbx_dist_value _struct_conn.ptnr2_auth_seq_id N RCSB Y RCSB 2015-02-09 REL REL CA CALCIUM ION HOH water Y 3NSJ PDB experimental model A CYS 496 Disulfide bridge SG A CYS 87 A CYS 509 SG A CYS 100 1_555 1_555 None A CYS 524 Disulfide bridge SG A CYS 115 A CYS 533 SG A CYS 124 1_555 1_555 None CA 1 2 CA CA 601 A HOH 120 3 HOH HOH 701 A HOH 76 3 HOH HOH 702 A HOH 85 3 HOH HOH 703 A HOH 40 3 HOH HOH 704 A HOH 1 3 HOH HOH 705 A HOH 96 3 HOH HOH 706 A HOH 106 3 HOH HOH 707 A HOH 73 3 HOH HOH 708 A HOH 20 3 HOH HOH 709 A HOH 51 3 HOH HOH 710 A HOH 65 3 HOH HOH 711 A HOH 29 3 HOH HOH 712 A HOH 105 3 HOH HOH 713 A HOH 46 3 HOH HOH 714 A HOH 57 3 HOH HOH 715 A HOH 35 3 HOH HOH 716 A HOH 71 3 HOH HOH 717 A HOH 115 3 HOH HOH 718 A HOH 124 3 HOH HOH 719 A HOH 24 3 HOH HOH 720 A HOH 7 3 HOH HOH 721 A HOH 103 3 HOH HOH 722 A HOH 12 3 HOH HOH 723 A HOH 94 3 HOH HOH 724 A HOH 89 3 HOH HOH 725 A HOH 5 3 HOH HOH 726 A HOH 2 3 HOH HOH 727 A HOH 14 3 HOH HOH 728 A HOH 9 3 HOH HOH 729 A HOH 81 3 HOH HOH 730 A HOH 108 3 HOH HOH 731 A HOH 10 3 HOH HOH 732 A HOH 109 3 HOH HOH 733 A HOH 62 3 HOH HOH 734 A HOH 92 3 HOH HOH 735 A HOH 13 3 HOH HOH 736 A HOH 45 3 HOH HOH 737 A HOH 15 3 HOH HOH 738 A HOH 33 3 HOH HOH 739 A HOH 55 3 HOH HOH 740 A HOH 53 3 HOH HOH 741 A HOH 6 3 HOH HOH 742 A HOH 39 3 HOH HOH 743 A HOH 22 3 HOH HOH 744 A HOH 66 3 HOH HOH 745 A HOH 90 3 HOH HOH 746 A HOH 42 3 HOH HOH 747 A HOH 68 3 HOH HOH 748 A HOH 16 3 HOH HOH 749 A HOH 61 3 HOH HOH 750 A HOH 44 3 HOH HOH 751 A HOH 8 3 HOH HOH 752 A HOH 43 3 HOH HOH 753 A HOH 18 3 HOH HOH 754 A HOH 131 3 HOH HOH 755 A HOH 127 3 HOH HOH 756 A HOH 122 3 HOH HOH 757 A HOH 77 3 HOH HOH 758 A HOH 27 3 HOH HOH 759 A HOH 83 3 HOH HOH 760 A HOH 128 3 HOH HOH 761 A HOH 31 3 HOH HOH 762 A HOH 11 3 HOH HOH 763 A HOH 82 3 HOH HOH 764 A HOH 54 3 HOH HOH 765 A HOH 60 3 HOH HOH 766 A HOH 64 3 HOH HOH 767 A HOH 118 3 HOH HOH 768 A HOH 28 3 HOH HOH 769 A HOH 110 3 HOH HOH 770 A HOH 63 3 HOH HOH 771 A HOH 88 3 HOH HOH 772 A HOH 130 3 HOH HOH 773 A HOH 48 3 HOH HOH 774 A HOH 111 3 HOH HOH 775 A HOH 104 3 HOH HOH 776 A HOH 123 3 HOH HOH 777 A HOH 97 3 HOH HOH 778 A HOH 78 3 HOH HOH 779 A HOH 87 3 HOH HOH 780 A HOH 114 3 HOH HOH 781 A HOH 95 3 HOH HOH 782 A HOH 67 3 HOH HOH 783 A HOH 21 3 HOH HOH 784 A HOH 70 3 HOH HOH 785 A HOH 75 3 HOH HOH 786 A HOH 86 3 HOH HOH 787 A HOH 32 3 HOH HOH 788 A HOH 74 3 HOH HOH 789 A HOH 119 3 HOH HOH 790 A HOH 112 3 HOH HOH 791 A HOH 3 3 HOH HOH 792 A HOH 4 3 HOH HOH 793 A HOH 17 3 HOH HOH 794 A HOH 19 3 HOH HOH 795 A HOH 23 3 HOH HOH 796 A HOH 25 3 HOH HOH 797 A HOH 26 3 HOH HOH 798 A HOH 30 3 HOH HOH 799 A HOH 34 3 HOH HOH 800 A HOH 36 3 HOH HOH 801 A HOH 37 3 HOH HOH 802 A HOH 38 3 HOH HOH 803 A HOH 41 3 HOH HOH 804 A HOH 47 3 HOH HOH 805 A HOH 49 3 HOH HOH 806 A HOH 50 3 HOH HOH 807 A HOH 52 3 HOH HOH 808 A HOH 56 3 HOH HOH 809 A HOH 58 3 HOH HOH 810 A HOH 59 3 HOH HOH 811 A HOH 69 3 HOH HOH 812 A HOH 72 3 HOH HOH 813 A HOH 79 3 HOH HOH 814 A HOH 80 3 HOH HOH 815 A HOH 84 3 HOH HOH 816 A HOH 91 3 HOH HOH 817 A HOH 93 3 HOH HOH 818 A HOH 98 3 HOH HOH 819 A HOH 99 3 HOH HOH 820 A HOH 100 3 HOH HOH 821 A HOH 101 3 HOH HOH 822 A HOH 102 3 HOH HOH 823 A HOH 107 3 HOH HOH 824 A HOH 113 3 HOH HOH 825 A HOH 116 3 HOH HOH 826 A HOH 117 3 HOH HOH 827 A HOH 121 3 HOH HOH 828 A HOH 125 3 HOH HOH 829 A HOH 126 3 HOH HOH 830 A HOH 129 3 HOH HOH 831 A HOH 132 3 HOH HOH 832 A HOH 133 3 HOH HOH 833 A HOH 134 3 HOH HOH 834 A GLN 410 n 1 GLN 410 A ARG 411 n 2 ARG 411 A GLY 412 n 3 GLY 412 A LEU 413 n 4 LEU 413 A ALA 414 n 5 ALA 414 A HIS 415 n 6 HIS 415 A LEU 416 n 7 LEU 416 A VAL 417 n 8 VAL 417 A VAL 418 n 9 VAL 418 A SER 419 n 10 SER 419 A ASN 420 n 11 ASN 420 A PHE 421 n 12 PHE 421 A ARG 422 n 13 ARG 422 A ALA 423 n 14 ALA 423 A GLU 424 n 15 GLU 424 A HIS 425 n 16 HIS 425 A LEU 426 n 17 LEU 426 A ALA 427 n 18 ALA 427 A n 19 428 A n 20 429 A n 21 430 A n 22 431 A THR 432 n 23 THR 432 A ALA 433 n 24 ALA 433 A THR 434 n 25 THR 434 A ASP 435 n 26 ASP 435 A ALA 436 n 27 ALA 436 A TYR 437 n 28 TYR 437 A LEU 438 n 29 LEU 438 A LYS 439 n 30 LYS 439 A VAL 440 n 31 VAL 440 A PHE 441 n 32 PHE 441 A PHE 442 n 33 PHE 442 A GLY 443 n 34 GLY 443 A GLY 444 n 35 GLY 444 A GLN 445 n 36 GLN 445 A GLU 446 n 37 GLU 446 A PHE 447 n 38 PHE 447 A ARG 448 n 39 ARG 448 A THR 449 n 40 THR 449 A GLY 450 n 41 GLY 450 A VAL 451 n 42 VAL 451 A VAL 452 n 43 VAL 452 A TRP 453 n 44 TRP 453 A ASN 454 n 45 ASN 454 A ASN 455 n 46 ASN 455 A ASN 456 n 47 ASN 456 A ASN 457 n 48 ASN 457 A PRO 458 n 49 PRO 458 A ARG 459 n 50 ARG 459 A TRP 460 n 51 TRP 460 A THR 461 n 52 THR 461 A ASP 462 n 53 ASP 462 A LYS 463 n 54 LYS 463 A MET 464 n 55 MET 464 A ASP 465 n 56 ASP 465 A PHE 466 n 57 PHE 466 A GLU 467 n 58 GLU 467 A ASN 468 n 59 ASN 468 A VAL 469 n 60 VAL 469 A LEU 470 n 61 LEU 470 A LEU 471 n 62 LEU 471 A SER 472 n 63 SER 472 A THR 473 n 64 THR 473 A GLY 474 n 65 GLY 474 A GLY 475 n 66 GLY 475 A PRO 476 n 67 PRO 476 A LEU 477 n 68 LEU 477 A ARG 478 n 69 ARG 478 A VAL 479 n 70 VAL 479 A GLN 480 n 71 GLN 480 A VAL 481 n 72 VAL 481 A TRP 482 n 73 TRP 482 A ASP 483 n 74 ASP 483 A ALA 484 n 75 ALA 484 A ASP 485 n 76 ASP 485 A ALA 486 n 77 ALA 486 A GLY 487 n 78 GLY 487 A ALA 488 n 79 ALA 488 A ASP 489 n 80 ASP 489 A ASP 490 n 81 ASP 490 A ASP 491 n 82 ASP 491 A LEU 492 n 83 LEU 492 A LEU 493 n 84 LEU 493 A GLY 494 n 85 GLY 494 A SER 495 n 86 SER 495 A CYS 496 n 87 CYS 496 A ASP 497 n 88 ASP 497 A ARG 498 n 89 ARG 498 A SER 499 n 90 SER 499 A PRO 500 n 91 PRO 500 A HIS 501 n 92 HIS 501 A SER 502 n 93 SER 502 A GLY 503 n 94 GLY 503 A PHE 504 n 95 PHE 504 A HIS 505 n 96 HIS 505 A GLU 506 n 97 GLU 506 A VAL 507 n 98 VAL 507 A THR 508 n 99 THR 508 A CYS 509 n 100 CYS 509 A GLU 510 n 101 GLU 510 A LEU 511 n 102 LEU 511 A ASN 512 n 103 ASN 512 A HIS 513 n 104 HIS 513 A GLY 514 n 105 GLY 514 A ARG 515 n 106 ARG 515 A VAL 516 n 107 VAL 516 A LYS 517 n 108 LYS 517 A PHE 518 n 109 PHE 518 A SER 519 n 110 SER 519 A TYR 520 n 111 TYR 520 A HIS 521 n 112 HIS 521 A ALA 522 n 113 ALA 522 A LYS 523 n 114 LYS 523 A CYS 524 n 115 CYS 524 A LEU 525 n 116 LEU 525 A PRO 526 n 117 PRO 526 A HIS 527 n 118 HIS 527 A LEU 528 n 119 LEU 528 A THR 529 n 120 THR 529 A GLY 530 n 121 GLY 530 A GLY 531 n 122 GLY 531 A THR 532 n 123 THR 532 A CYS 533 n 124 CYS 533 A LEU 534 n 125 LEU 534 A GLU 535 n 126 GLU 535 A n 127 536 A n 128 537 A n 129 538 A n 130 539 A n 131 540 A n 132 541 A n 133 542 A n 134 543 A n 135 544 A n 136 545 A n 137 546 A n 138 547 A n 139 548 A n 140 549 A n 141 550 A n 142 551 A n 143 552 A n 144 553 A n 145 554 A n 146 555 A n 147 556 A n 148 557 A n 149 558 A 3.5305 -0.6353 1.1527 2.1238 -0.0673 2.4176 -0.2214 0.0138 0.1535 -0.0410 0.0680 0.1694 -0.0566 -0.2098 0.0022 0.0537 -0.0281 0.0046 0.0484 0.0326 0.0768 refined -19.7332 8.7335 -16.5774 X-RAY DIFFRACTION 7.7765 0.4835 1.3974 4.2728 3.1179 5.9313 -0.0438 -0.0036 -0.4262 0.4104 -0.2569 -0.3992 0.5933 0.3694 -0.1158 0.0851 0.0040 -0.0681 0.1378 0.0258 0.1078 refined 2.7360 6.9463 -4.2715 X-RAY DIFFRACTION 3.0653 -0.5616 1.9324 1.3319 -0.4898 2.7404 -0.1481 0.0242 0.1405 0.1034 -0.0024 0.0190 -0.0700 0.0830 0.1299 0.0753 -0.0028 -0.0174 0.0483 0.0067 0.0492 refined -10.8630 14.1571 -11.6832 X-RAY DIFFRACTION 1.1227 -0.0840 -0.6176 2.8598 -0.0010 1.6837 -0.0737 0.6121 0.0777 -0.0815 0.0187 0.2071 0.0399 0.2175 0.0713 0.0567 -0.0110 0.0028 0.1450 0.0288 0.0653 refined -9.2892 10.2349 -20.5013 X-RAY DIFFRACTION 6.3387 3.9271 0.0373 2.5486 -0.0989 0.1264 0.1073 -0.4255 0.3059 0.2391 -0.4941 -0.2026 -0.5783 0.7016 0.1523 0.1517 -0.0828 -0.0571 0.2693 0.0864 0.1717 refined 6.1624 19.3519 -10.4362 X-RAY DIFFRACTION 3.4024 0.5894 1.7257 1.3381 0.1473 1.9071 -0.0073 0.1038 -0.0608 -0.0888 0.0093 0.0841 0.0719 0.0049 -0.0260 0.0769 0.0135 -0.0092 0.0671 -0.0077 0.0921 refined -16.1336 3.7440 -17.9231 X-RAY DIFFRACTION X-RAY DIFFRACTION 1 chain 'A' and (resid 410 through 424 ) X-RAY DIFFRACTION 2 chain 'A' and (resid 425 through 435 ) X-RAY DIFFRACTION 3 chain 'A' and (resid 436 through 470 ) X-RAY DIFFRACTION 4 chain 'A' and (resid 471 through 483 ) X-RAY DIFFRACTION 5 chain 'A' and (resid 484 through 490 ) X-RAY DIFFRACTION 6 chain 'A' and (resid 491 through 535 ) author_and_software_defined_assembly PISA 1 monomeric A ASP 485 A O ASP 76 1_555 A CA 601 B CA CA 1_555 A ALA 488 A O ALA 79 1_555 72.0 A ASP 485 A O ASP 76 1_555 A CA 601 B CA CA 1_555 A ASP 490 A OD1 ASP 81 1_555 94.1 A ALA 488 A O ALA 79 1_555 A CA 601 B CA CA 1_555 A ASP 490 A OD1 ASP 81 1_555 110.6 A ASP 485 A O ASP 76 1_555 A CA 601 B CA CA 1_555 A HOH 771 C O HOH 1_555 90.4 A ALA 488 A O ALA 79 1_555 A CA 601 B CA CA 1_555 A HOH 771 C O HOH 1_555 83.0 A ASP 490 A OD1 ASP 81 1_555 A CA 601 B CA CA 1_555 A HOH 771 C O HOH 1_555 166.4 A ASP 485 A O ASP 76 1_555 A CA 601 B CA CA 1_555 A HOH 774 C O HOH 1_555 166.4 A ALA 488 A O ALA 79 1_555 A CA 601 B CA CA 1_555 A HOH 774 C O HOH 1_555 95.3 A ASP 490 A OD1 ASP 81 1_555 A CA 601 B CA CA 1_555 A HOH 774 C O HOH 1_555 85.7 A HOH 771 C O HOH 1_555 A CA 601 B CA CA 1_555 A HOH 774 C O HOH 1_555 93.0 A ASP 485 A O ASP 76 1_555 A CA 601 B CA CA 1_555 A HOH 811 C O HOH 1_555 86.4 A ALA 488 A O ALA 79 1_555 A CA 601 B CA CA 1_555 A HOH 811 C O HOH 1_555 156.4 A ASP 490 A OD1 ASP 81 1_555 A CA 601 B CA CA 1_555 A HOH 811 C O HOH 1_555 79.5 A HOH 771 C O HOH 1_555 A CA 601 B CA CA 1_555 A HOH 811 C O HOH 1_555 88.0 A HOH 774 C O HOH 1_555 A CA 601 B CA CA 1_555 A HOH 811 C O HOH 1_555 106.9 1.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 1_555 x,y,z identity operation 0.0000000000 0.0000000000 0.0000000000 A O TRP 460 A O TRP 51 A N PHE 421 A N PHE 12 A N VAL 418 A N VAL 9 A O MET 464 A O MET 55 A O TRP 460 A O TRP 51 A N PHE 421 A N PHE 12 A N ARG 422 A N ARG 13 A O LYS 517 A O LYS 108 A O PHE 518 A O PHE 109 A N VAL 507 A N VAL 98 A O PHE 447 A O PHE 38 A N VAL 440 A N VAL 31 A N TYR 437 A N TYR 28 A O TRP 482 A O TRP 73 A N LEU 477 A N LEU 68 A O ARG 498 A O ARG 89 1 A GLY 428 A GLY 19 1 Y 1 A ASP 429 A ASP 20 1 Y 1 A ALA 430 A ALA 21 1 Y 1 A THR 431 A THR 22 1 Y 1 A GLY 536 A GLY 127 1 Y 1 A GLN 537 A GLN 128 1 Y 1 A ALA 538 A ALA 129 1 Y 1 A GLY 539 A GLY 130 1 Y 1 A GLN 540 A GLN 131 1 Y 1 A HIS 541 A HIS 132 1 Y 1 A HIS 542 A HIS 133 1 Y 1 A HIS 543 A HIS 134 1 Y 1 A HIS 544 A HIS 135 1 Y 1 A HIS 545 A HIS 136 1 Y 1 A HIS 546 A HIS 137 1 Y 1 A GLY 547 A GLY 138 1 Y 1 A ALA 548 A ALA 139 1 Y 1 A TYR 549 A TYR 140 1 Y 1 A PRO 550 A PRO 141 1 Y 1 A TYR 551 A TYR 142 1 Y 1 A ASP 552 A ASP 143 1 Y 1 A VAL 553 A VAL 144 1 Y 1 A PRO 554 A PRO 145 1 Y 1 A ASP 555 A ASP 146 1 Y 1 A TYR 556 A TYR 147 1 Y 1 A ALA 557 A ALA 148 1 Y 1 A SER 558 A SER 149 1 Y 1 A A O O HOH HOH 722 765 1.91 1 A A O O HOH HOH 815 816 2.00 1 A A O O HOH HOH 707 766 2.06 1 A A O O HOH HOH 757 771 2.16 1 A A O O HOH HOH 825 832 2.17 1 -3.14 0.50 120.30 117.16 A A A NE CZ NH2 ARG ARG ARG 422 422 422 N 1 A A O O HOH HOH 760 787 1.93 1_555 1_455 1 A A O O HOH HOH 777 786 2.01 1_555 3_554 1 A GLU 467 52.14 -135.32 0.1852 0.1661 0.1671 1.611 36.482 755 14925 5.06 99.87 0.14 Random Selection 1 FREE R-VALUE 1.36 MOLECULAR REPLACEMENT 18.30 0.90 1.11 3NSJ ML FLAT BULK SOLVENT MODEL 1.611 36.482 134 1089 1 0 954 0.011 1016 1.286 1381 12.311 354 0.070 145 0.007 185 0.2488 0.1866 1.7355 141 2774 99.00 0.2107 0.1595 1.9101 142 2789 100.00 0.1989 0.1488 2.1865 136 2817 100.00 0.1628 0.1684 2.7546 167 2825 100.00 0.1754 0.1701 36.4916 169 2965 100.00 1.611 36.482 4Y1S 14926 0.979 0.2159 1 30.06 7.1 99.87 0.5473 1.611 1.669 4.83 1443 0.86 1 6.8 98.90 refinement PHENIX (phenix.refine: 1.9_1692) data reduction XDS data collection Blu-Ice data scaling SCALA phasing PHASER Structural basis for Ca2+-mediated interaction of the perforin C2 domain with lipid membranes 1 N N 2 N N 3 N N disulf 2.047 A CYS 496 A SG CYS 87 1_555 A CYS 509 A SG CYS 100 1_555 disulf 2.043 A CYS 524 A SG CYS 115 1_555 A CYS 533 A SG CYS 124 1_555 metalc 2.477 A ASP 485 A O ASP 76 1_555 A CA 601 B CA CA 1_555 metalc 2.441 A ALA 488 A O ALA 79 1_555 A CA 601 B CA CA 1_555 metalc 2.461 A ASP 490 A OD1 ASP 81 1_555 A CA 601 B CA CA 1_555 metalc 2.667 A CA 601 B CA CA 1_555 A HOH 771 C O HOH 1_555 metalc 2.285 A CA 601 B CA CA 1_555 A HOH 774 C O HOH 1_555 metalc 2.289 A CA 601 B CA CA 1_555 A HOH 811 C O HOH 1_555 IMMUNE SYSTEM Perforin, C2 domain, Calcium Binding, IMMUNE SYSTEM A GLY 475 A GLY 66 1 A PRO 476 A PRO 67 1.46 PERF_MOUSE UNP 1 410 P10820 QRGLAHLVVSNFRAEHLWGDYTTATDAYLKVFFGGQEFRTGVVWNNNNPRWTDKMDFENVLLSTGGPLRVQVWDADYGWD DDLLGSCDRSPHSGFHEVTCELNHGRVKFSYHAKCLPHLTGGTCLE 410 535 4Y1S 410 535 P10820 A 1 1 126 1 TRP engineered mutation ALA 427 4Y1S A P10820 UNP 427 18 1 TYR engineered mutation ALA 430 4Y1S A P10820 UNP 430 21 1 TYR engineered mutation ALA 486 4Y1S A P10820 UNP 486 77 1 TRP engineered mutation ALA 488 4Y1S A P10820 UNP 488 79 1 expression tag GLY 536 4Y1S A P10820 UNP 127 1 expression tag GLN 537 4Y1S A P10820 UNP 128 1 expression tag ALA 538 4Y1S A P10820 UNP 129 1 expression tag GLY 539 4Y1S A P10820 UNP 130 1 expression tag GLN 540 4Y1S A P10820 UNP 131 1 expression tag HIS 541 4Y1S A P10820 UNP 132 1 expression tag HIS 542 4Y1S A P10820 UNP 133 1 expression tag HIS 543 4Y1S A P10820 UNP 134 1 expression tag HIS 544 4Y1S A P10820 UNP 135 1 expression tag HIS 545 4Y1S A P10820 UNP 136 1 expression tag HIS 546 4Y1S A P10820 UNP 137 1 expression tag GLY 547 4Y1S A P10820 UNP 138 1 expression tag ALA 548 4Y1S A P10820 UNP 139 1 expression tag TYR 549 4Y1S A P10820 UNP 140 1 expression tag PRO 550 4Y1S A P10820 UNP 141 1 expression tag TYR 551 4Y1S A P10820 UNP 142 1 expression tag ASP 552 4Y1S A P10820 UNP 143 1 expression tag VAL 553 4Y1S A P10820 UNP 144 1 expression tag PRO 554 4Y1S A P10820 UNP 145 1 expression tag ASP 555 4Y1S A P10820 UNP 146 1 expression tag TYR 556 4Y1S A P10820 UNP 147 1 expression tag ALA 557 4Y1S A P10820 UNP 148 1 expression tag SER 558 4Y1S A P10820 UNP 149 3 4 4 anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel A ARG 459 A ARG 50 A TRP 460 A TRP 51 A LEU 413 A LEU 4 A GLU 424 A GLU 15 A MET 464 A MET 55 A LEU 470 A LEU 61 A ARG 459 A ARG 50 A TRP 460 A TRP 51 A LEU 413 A LEU 4 A GLU 424 A GLU 15 A ARG 515 A ARG 106 A CYS 524 A CYS 115 A GLY 503 A GLY 94 A GLU 510 A GLU 101 A GLN 445 A GLN 36 A ARG 448 A ARG 39 A ALA 436 A ALA 27 A PHE 442 A PHE 33 A LEU 477 A LEU 68 A ASP 483 A ASP 74 A ASP 491 A ASP 82 A ARG 498 A ARG 89 binding site for residue CA A 601 A CA 601 Software 6 A ASP 485 A ASP 76 6 1_555 A ALA 488 A ALA 79 6 1_555 A ASP 490 A ASP 81 6 1_555 A HOH 771 C HOH 6 1_555 A HOH 774 C HOH 6 1_555 A HOH 811 C HOH 6 1_555 19 P 21 21 21