0.020673 0.000000 0.000000 0.000000 0.020673 0.000000 0.000000 0.000000 0.015760 0.00000 0.00000 0.00000 Doctrow, B.M. Schlessman, J.L. Garcia-Moreno E., B. Heroux, A. http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 4 90.00 90.00 90.00 48.372 48.372 63.453 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 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 ISOLEUCINE L-peptide linking 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 C6 H14 O2 118.174 (4S)-2-METHYL-2,4-PENTANEDIOL non-polymer C9 H11 N O2 165.189 y PHENYLALANINE L-peptide linking O4 P -3 94.971 PHOSPHATE ION non-polymer 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 N N 75 S C N 76 N C N 77 N O N 78 N C N 79 N C N 80 N C N 81 N O N 82 N N N 83 N O N 84 N H N 85 N H N 86 N H N 87 N H N 88 N H N 89 N H N 90 N H N 91 N H N 92 N H N 93 N H N 94 N N N 95 S C N 96 N C N 97 N O N 98 N C N 99 N C N 100 N C N 101 N O N 102 N O N 103 N O N 104 N H N 105 N H N 106 N H N 107 N H N 108 N H N 109 N H N 110 N H N 111 N H N 112 N H N 113 N N N 114 N C N 115 N C N 116 N O N 117 N O N 118 N H N 119 N H N 120 N H N 121 N H N 122 N H N 123 N N N 124 S C N 125 N C N 126 N O N 127 N C Y 128 N C Y 129 N N Y 130 N C Y 131 N C Y 132 N N N 133 N O N 134 N H N 135 N H N 136 N H N 137 N H N 138 N H N 139 N H N 140 N H N 141 N H N 142 N H N 143 N H N 144 N O N 145 N H N 146 N H N 147 N N N 148 S C N 149 N C N 150 N O N 151 S C N 152 N C N 153 N C N 154 N C N 155 N O N 156 N H N 157 N H N 158 N H N 159 N H N 160 N H N 161 N H N 162 N H N 163 N H N 164 N H N 165 N H N 166 N H N 167 N H N 168 N H N 169 N N N 170 S C N 171 N C N 172 N O N 173 N C N 174 N C N 175 N C N 176 N C N 177 N O 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 H N 185 N H N 186 N H N 187 N H N 188 N H N 189 N H N 190 N H N 191 N N N 192 S C N 193 N C N 194 N O N 195 N C N 196 N C N 197 N C N 198 N C N 199 N N N 200 N O 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 H N 210 N H N 211 N H N 212 N H N 213 N H N 214 N H N 215 N H N 216 N N N 217 S C N 218 N C N 219 N O N 220 N C N 221 N C N 222 N S N 223 N C N 224 N O N 225 N H N 226 N H N 227 N H N 228 N H N 229 N H N 230 N H N 231 N H N 232 N H N 233 N H N 234 N H N 235 N H N 236 N C N 237 N C N 238 N O N 239 N C N 240 N C N 241 S C N 242 N O N 243 N C 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 H N 253 N H N 254 N H N 255 N H N 256 N H N 257 N H N 258 N N N 259 S C N 260 N C N 261 N O N 262 N C Y 263 N C Y 264 N C Y 265 N C Y 266 N C Y 267 N C Y 268 N C N 269 N O N 270 N H N 271 N H N 272 N H N 273 N H N 274 N H N 275 N H N 276 N H N 277 N H N 278 N H N 279 N H N 280 N H N 281 N P N 282 N O N 283 N O N 284 N O N 285 N O N 286 N N N 287 S C N 288 N C N 289 N O N 290 N C N 291 N C N 292 N C N 293 N O 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 H N 301 N H N 302 N H N 303 N N N 304 S C N 305 N C N 306 N O N 307 N C N 308 N O N 309 N O N 310 N H N 311 N H N 312 N H N 313 N H N 314 N H N 315 N H N 316 N H N 317 N N N 318 S C N 319 N C N 320 N O N 321 R C N 322 N O N 323 N C N 324 N O N 325 N H N 326 N H N 327 N H N 328 N H N 329 N H N 330 N H N 331 N H N 332 N H N 333 N H N 334 N N N 335 S C N 336 N C N 337 N O N 338 N C Y 339 N C Y 340 N C Y 341 N C Y 342 N N Y 343 N C Y 344 N C Y 345 N C Y 346 N C Y 347 N C N 348 N O N 349 N H N 350 N H N 351 N H N 352 N H N 353 N H N 354 N H N 355 N H N 356 N H N 357 N H N 358 N H N 359 N H N 360 N H N 361 N N N 362 S C N 363 N C N 364 N O N 365 N C Y 366 N C Y 367 N C Y 368 N C Y 369 N C Y 370 N C Y 371 N C N 372 N O N 373 N O N 374 N H N 375 N H N 376 N H N 377 N H N 378 N H N 379 N H N 380 N H N 381 N H N 382 N H N 383 N H N 384 N H N 385 N N N 386 S C N 387 N C N 388 N O N 389 N C N 390 N C N 391 N C N 392 N O N 393 N H N 394 N H N 395 N H N 396 N H N 397 N H N 398 N H N 399 N H N 400 N H N 401 N H N 402 N H N 403 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 doub N 85 N sing N 86 N sing N 87 N sing N 88 N sing N 89 N sing N 90 N sing N 91 N sing N 92 N sing N 93 N sing N 94 N sing N 95 N doub N 96 N sing N 97 N sing N 98 N sing N 99 N sing N 100 N sing N 101 N sing N 102 N sing N 103 N doub N 104 N sing N 105 N sing N 106 N sing N 107 N sing N 108 N sing N 109 N sing N 110 N sing N 111 N sing N 112 N sing N 113 N doub N 114 N sing N 115 N sing N 116 N sing N 117 N sing N 118 N sing N 119 N sing N 120 N sing N 121 N sing N 122 N doub N 123 N sing N 124 N sing N 125 N sing N 126 N sing Y 127 N sing Y 128 N doub Y 129 N doub N 130 N sing Y 131 N sing N 132 N sing Y 133 N sing N 134 N sing N 135 N sing N 136 N sing N 137 N sing N 138 N sing N 139 N sing N 140 N sing N 141 N sing N 142 N sing N 143 N sing N 144 N sing N 145 N doub N 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 sing 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 doub 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 sing 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 doub 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 sing 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 doub 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 sing N 223 N sing N 224 N sing N 225 N sing N 226 N sing N 227 N sing N 228 N sing N 229 N sing N 230 N sing N 231 N sing N 232 N sing N 233 N sing N 234 N sing N 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 sing N 246 N sing N 247 N sing N 248 N sing N 249 N sing N 250 N sing N 251 N doub N 252 N sing N 253 N sing N 254 N sing N 255 N sing Y 256 N doub Y 257 N sing Y 258 N sing N 259 N sing Y 260 N doub N 261 N sing Y 262 N doub N 263 N sing Y 264 N sing N 265 N sing N 266 N sing N 267 N sing N 268 N doub 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 sing N 276 N sing N 277 N sing N 278 N doub 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 sing N 292 N sing N 293 N sing N 294 N sing N 295 N doub N 296 N sing N 297 N sing N 298 N sing N 299 N sing N 300 N sing N 301 N sing N 302 N sing N 303 N sing N 304 N sing N 305 N sing N 306 N sing N 307 N sing N 308 N doub N 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 sing N 320 N sing N 321 N sing N 322 N sing N 323 N sing N 324 N doub N 325 N sing N 326 N sing N 327 N sing N 328 N sing Y 329 N doub Y 330 N sing Y 331 N sing N 332 N sing Y 333 N doub Y 334 N sing Y 335 N sing N 336 N sing Y 337 N sing Y 338 N doub N 339 N sing Y 340 N doub N 341 N sing Y 342 N sing N 343 N sing 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 doub N 353 N sing N 354 N sing N 355 N sing N 356 N sing Y 357 N doub Y 358 N sing Y 359 N sing N 360 N sing Y 361 N doub N 362 N sing Y 363 N doub N 364 N sing Y 365 N sing N 366 N sing N 367 N sing N 368 N sing N 369 N sing N 370 N sing N 371 N sing N 372 N sing N 373 N sing N 374 N sing N 375 N sing N 376 N doub N 377 N sing N 378 N sing N 379 N sing N 380 N sing N 381 N sing N 382 N sing N 383 N sing N 384 N sing N 385 N sing N 386 N sing N 387 N sing To be Published 0353 Crystal structure of Staphylococcal nuclease variant Delta+PHS M98G apo protein at cryogenic temperature 10.2210/pdb3sk8/pdb pdb_00003sk8 100 1 Meridianally-bent fused silica mirror with palladium and uncoated stripes vertically-focusing at 6.6:1 demagnification CCD 2010-07-29 ADSC QUANTUM 315 Si(111) SINGLE WAVELENGTH M x-ray 1 1.100 1.0 X25 NSLS 1.100 SYNCHROTRON NSLS BEAMLINE X25 16069.318 Thermonuclease 3.1.31.1 Nuclease A (UNP residues 83-231) G50F/V51N/M98G/P117G/H124L/S128A/Del44-49 1 man polymer 94.971 PHOSPHATE ION 2 syn non-polymer 118.174 (4S)-2-METHYL-2,4-PENTANEDIOL 1 syn non-polymer 18.015 water 96 nat water TNase, Micrococcal nuclease, Staphylococcal nuclease no no ATSTKKLHKEPATLIKAIDGDTVKLMYKGQPMTFRLLLVDTPEFNEKYGPEASAFTKKMVENAKKIEVEFDKGQRTDKYG RGLAYIYADGKGVNEALVRQGLAKVAYVYKGNNTHEQLLRKAEAQAKKEKLNIWSEDNADSGQ ATSTKKLHKEPATLIKAIDGDTVKLMYKGQPMTFRLLLVDTPEFNEKYGPEASAFTKKMVENAKKIEVEFDKGQRTDKYG RGLAYIYADGKGVNEALVRQGLAKVAYVYKGNNTHEQLLRKAEAQAKKEKLNIWSEDNADSGQ 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 sample nuc 1280 Staphylococcus aureus 469008 Escherichia coli BL21(DE3) plasmid pET24a+ 1 2.31 46.75 VAPOR DIFFUSION, HANGING DROP 7.0 34% MPD, 25 mM potassium phosphate, pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 277K 277 software chem_comp_atom chem_comp_bond database_2 pdbx_initial_refinement_model struct_ref_seq_dif struct_site repository Initial release Version format compliance Refinement description Data collection Database references Derived calculations Refinement description 1 0 2011-07-06 1 1 2011-07-13 1 2 2017-11-08 1 3 2023-09-13 _database_2.pdbx_DOI _database_2.pdbx_database_accession _struct_ref_seq_dif.details _struct_site.pdbx_auth_asym_id _struct_site.pdbx_auth_comp_id _struct_site.pdbx_auth_seq_id RCSB Y RCSB 2011-06-22 REL REL PO4 PHOSPHATE ION MPD (4S)-2-METHYL-2,4-PENTANEDIOL HOH water 3BDC PDB ENTRY 3BDC PDB experimental model PO4 1 2 PO4 PO4 150 A PO4 1 2 PO4 PO4 151 A MPD 1 3 MPD MPD 152 A HOH 44 4 HOH HOH 44 A HOH 47 4 HOH HOH 47 A HOH 48 4 HOH HOH 48 A HOH 49 4 HOH HOH 49 A HOH 1 4 HOH HOH 153 A HOH 4 4 HOH HOH 154 A HOH 155 4 HOH HOH 155 A HOH 6 4 HOH HOH 156 A HOH 7 4 HOH HOH 157 A HOH 8 4 HOH HOH 158 A HOH 159 4 HOH HOH 159 A HOH 9 4 HOH HOH 160 A HOH 10 4 HOH HOH 161 A HOH 11 4 HOH HOH 162 A HOH 12 4 HOH HOH 163 A HOH 13 4 HOH HOH 164 A HOH 14 4 HOH HOH 165 A HOH 15 4 HOH HOH 166 A HOH 16 4 HOH HOH 167 A HOH 18 4 HOH HOH 168 A HOH 19 4 HOH HOH 169 A HOH 21 4 HOH HOH 170 A HOH 22 4 HOH HOH 171 A HOH 24 4 HOH HOH 172 A HOH 27 4 HOH HOH 173 A HOH 29 4 HOH HOH 174 A HOH 30 4 HOH HOH 175 A HOH 31 4 HOH HOH 176 A HOH 32 4 HOH HOH 177 A HOH 33 4 HOH HOH 178 A HOH 34 4 HOH HOH 179 A HOH 36 4 HOH HOH 180 A HOH 37 4 HOH HOH 181 A HOH 38 4 HOH HOH 182 A HOH 40 4 HOH HOH 183 A HOH 42 4 HOH HOH 184 A HOH 43 4 HOH HOH 185 A HOH 50 4 HOH HOH 186 A HOH 51 4 HOH HOH 187 A HOH 52 4 HOH HOH 188 A HOH 53 4 HOH HOH 189 A HOH 54 4 HOH HOH 190 A HOH 55 4 HOH HOH 191 A HOH 56 4 HOH HOH 192 A HOH 58 4 HOH HOH 193 A HOH 59 4 HOH HOH 194 A HOH 61 4 HOH HOH 195 A HOH 62 4 HOH HOH 196 A HOH 63 4 HOH HOH 197 A HOH 64 4 HOH HOH 198 A HOH 65 4 HOH HOH 199 A HOH 66 4 HOH HOH 200 A HOH 68 4 HOH HOH 201 A HOH 69 4 HOH HOH 202 A HOH 70 4 HOH HOH 203 A HOH 71 4 HOH HOH 204 A HOH 72 4 HOH HOH 205 A HOH 76 4 HOH HOH 206 A HOH 77 4 HOH HOH 207 A HOH 78 4 HOH HOH 208 A HOH 79 4 HOH HOH 209 A HOH 82 4 HOH HOH 210 A HOH 84 4 HOH HOH 211 A HOH 86 4 HOH HOH 212 A HOH 88 4 HOH HOH 213 A HOH 90 4 HOH HOH 214 A HOH 91 4 HOH HOH 215 A HOH 92 4 HOH HOH 216 A HOH 94 4 HOH HOH 217 A HOH 95 4 HOH HOH 218 A HOH 96 4 HOH HOH 219 A HOH 98 4 HOH HOH 220 A HOH 99 4 HOH HOH 221 A HOH 103 4 HOH HOH 222 A HOH 104 4 HOH HOH 223 A HOH 105 4 HOH HOH 224 A HOH 107 4 HOH HOH 225 A HOH 108 4 HOH HOH 226 A HOH 110 4 HOH HOH 227 A HOH 111 4 HOH HOH 228 A HOH 113 4 HOH HOH 229 A HOH 117 4 HOH HOH 230 A HOH 119 4 HOH HOH 231 A HOH 120 4 HOH HOH 232 A HOH 126 4 HOH HOH 233 A HOH 127 4 HOH HOH 234 A HOH 128 4 HOH HOH 235 A HOH 129 4 HOH HOH 236 A HOH 130 4 HOH HOH 237 A HOH 133 4 HOH HOH 238 A HOH 139 4 HOH HOH 239 A HOH 144 4 HOH HOH 240 A HOH 145 4 HOH HOH 241 A HOH 146 4 HOH HOH 242 A HOH 148 4 HOH HOH 243 A HOH 150 4 HOH HOH 244 A 41.620 2.500 2.500 38.470 38.470 Phaser MODE: MR_AUTO n 1 1 A n 2 2 A n 3 3 A n 4 4 A n 5 5 A n 6 6 A LEU 7 n 7 LEU 7 A HIS 8 n 8 HIS 8 A LYS 9 n 9 LYS 9 A GLU 10 n 10 GLU 10 A PRO 11 n 11 PRO 11 A ALA 12 n 12 ALA 12 A THR 13 n 13 THR 13 A LEU 14 n 14 LEU 14 A ILE 15 n 15 ILE 15 A LYS 16 n 16 LYS 16 A ALA 17 n 17 ALA 17 A ILE 18 n 18 ILE 18 A ASP 19 n 19 ASP 19 A GLY 20 n 20 GLY 20 A ASP 21 n 21 ASP 21 A THR 22 n 22 THR 22 A VAL 23 n 23 VAL 23 A LYS 24 n 24 LYS 24 A LEU 25 n 25 LEU 25 A MET 26 n 26 MET 26 A TYR 27 n 27 TYR 27 A LYS 28 n 28 LYS 28 A GLY 29 n 29 GLY 29 A GLN 30 n 30 GLN 30 A PRO 31 n 31 PRO 31 A MET 32 n 32 MET 32 A THR 33 n 33 THR 33 A PHE 34 n 34 PHE 34 A ARG 35 n 35 ARG 35 A LEU 36 n 36 LEU 36 A LEU 37 n 37 LEU 37 A LEU 38 n 38 LEU 38 A VAL 39 n 39 VAL 39 A ASP 40 n 40 ASP 40 A THR 41 n 41 THR 41 A PRO 42 n 42 PRO 42 A GLU 43 n 43 GLU 43 A PHE 50 n 44 PHE 50 A ASN 51 n 45 ASN 51 A GLU 52 n 46 GLU 52 A LYS 53 n 47 LYS 53 A TYR 54 n 48 TYR 54 A GLY 55 n 49 GLY 55 A PRO 56 n 50 PRO 56 A GLU 57 n 51 GLU 57 A ALA 58 n 52 ALA 58 A SER 59 n 53 SER 59 A ALA 60 n 54 ALA 60 A PHE 61 n 55 PHE 61 A THR 62 n 56 THR 62 A LYS 63 n 57 LYS 63 A LYS 64 n 58 LYS 64 A MET 65 n 59 MET 65 A VAL 66 n 60 VAL 66 A GLU 67 n 61 GLU 67 A ASN 68 n 62 ASN 68 A ALA 69 n 63 ALA 69 A LYS 70 n 64 LYS 70 A LYS 71 n 65 LYS 71 A ILE 72 n 66 ILE 72 A GLU 73 n 67 GLU 73 A VAL 74 n 68 VAL 74 A GLU 75 n 69 GLU 75 A PHE 76 n 70 PHE 76 A ASP 77 n 71 ASP 77 A LYS 78 n 72 LYS 78 A GLY 79 n 73 GLY 79 A GLN 80 n 74 GLN 80 A ARG 81 n 75 ARG 81 A THR 82 n 76 THR 82 A ASP 83 n 77 ASP 83 A LYS 84 n 78 LYS 84 A TYR 85 n 79 TYR 85 A GLY 86 n 80 GLY 86 A ARG 87 n 81 ARG 87 A GLY 88 n 82 GLY 88 A LEU 89 n 83 LEU 89 A ALA 90 n 84 ALA 90 A TYR 91 n 85 TYR 91 A ILE 92 n 86 ILE 92 A TYR 93 n 87 TYR 93 A ALA 94 n 88 ALA 94 A ASP 95 n 89 ASP 95 A GLY 96 n 90 GLY 96 A LYS 97 n 91 LYS 97 A GLY 98 n 92 GLY 98 A VAL 99 n 93 VAL 99 A ASN 100 n 94 ASN 100 A GLU 101 n 95 GLU 101 A ALA 102 n 96 ALA 102 A LEU 103 n 97 LEU 103 A VAL 104 n 98 VAL 104 A ARG 105 n 99 ARG 105 A GLN 106 n 100 GLN 106 A GLY 107 n 101 GLY 107 A LEU 108 n 102 LEU 108 A ALA 109 n 103 ALA 109 A LYS 110 n 104 LYS 110 A VAL 111 n 105 VAL 111 A ALA 112 n 106 ALA 112 A TYR 113 n 107 TYR 113 A VAL 114 n 108 VAL 114 A TYR 115 n 109 TYR 115 A LYS 116 n 110 LYS 116 A GLY 117 n 111 GLY 117 A ASN 118 n 112 ASN 118 A ASN 119 n 113 ASN 119 A THR 120 n 114 THR 120 A HIS 121 n 115 HIS 121 A GLU 122 n 116 GLU 122 A GLN 123 n 117 GLN 123 A LEU 124 n 118 LEU 124 A LEU 125 n 119 LEU 125 A ARG 126 n 120 ARG 126 A LYS 127 n 121 LYS 127 A ALA 128 n 122 ALA 128 A GLU 129 n 123 GLU 129 A ALA 130 n 124 ALA 130 A GLN 131 n 125 GLN 131 A ALA 132 n 126 ALA 132 A LYS 133 n 127 LYS 133 A LYS 134 n 128 LYS 134 A GLU 135 n 129 GLU 135 A LYS 136 n 130 LYS 136 A LEU 137 n 131 LEU 137 A ASN 138 n 132 ASN 138 A ILE 139 n 133 ILE 139 A TRP 140 n 134 TRP 140 A SER 141 n 135 SER 141 A n 136 142 A n 137 143 A n 138 144 A n 139 145 A n 140 146 A n 141 147 A n 142 148 A n 143 149 A 3.4266 -0.7154 0.3995 2.0928 -0.0397 2.9940 -0.0897 0.0745 0.1296 0.0384 0.1504 0.0139 -0.3382 -0.0011 -0.0608 0.2216 -0.0151 0.0022 0.1660 -0.0014 0.1190 refined -3.1240 -11.1110 2.9080 X-RAY DIFFRACTION 1.8974 -0.1928 0.6081 2.2702 0.8266 4.3656 -0.1939 -0.1364 0.1027 0.1909 0.3555 -0.0262 -0.3079 0.2769 -0.1615 0.2099 -0.0602 0.0077 0.2048 -0.0155 0.1351 refined 1.3540 -13.8190 5.7060 X-RAY DIFFRACTION 3.7994 -0.8002 -0.4057 2.3973 1.2039 4.0019 0.0865 0.3154 0.1341 -0.3450 0.2770 -0.3995 -0.4555 0.6997 -0.3635 0.1972 -0.1508 0.0529 0.2953 -0.0560 0.1608 refined 7.2810 -14.7870 -6.7150 X-RAY DIFFRACTION 0.6870 0.4515 1.6056 2.2171 0.5336 4.2056 -0.1026 -0.1885 0.0257 -0.2116 0.0230 0.0975 -0.1432 -0.2472 0.0795 0.2454 -0.0145 0.0053 0.2605 0.0173 0.1160 refined -8.2080 -17.3160 5.1530 X-RAY DIFFRACTION 1.7075 -0.4165 0.2116 1.1553 1.8328 3.9918 -0.0596 -0.2021 0.1160 0.0623 0.1749 0.0286 0.0616 0.0556 -0.1153 0.2005 -0.0417 -0.0104 0.1852 0.0080 0.1243 refined -1.1840 -16.6880 8.4500 X-RAY DIFFRACTION 1.4074 0.2322 -0.0027 0.8788 0.3447 8.1442 -0.0122 0.2424 0.0212 -0.1295 0.3093 0.0099 0.0750 0.3059 -0.2970 0.1978 -0.0325 -0.0030 0.1359 0.0128 0.0809 refined 0.9270 -23.4370 -5.7060 X-RAY DIFFRACTION 1.6124 -0.3857 -1.5352 1.3065 1.8020 8.5049 0.0395 -0.0284 -0.1092 0.0848 0.1467 -0.1013 1.0703 0.4437 -0.1861 0.2491 0.0827 -0.0541 0.1089 -0.0083 0.0576 refined 3.5410 -30.0810 -0.3640 X-RAY DIFFRACTION A 7 A 26 X-RAY DIFFRACTION 1 A 27 A 50 X-RAY DIFFRACTION 2 A 51 A 69 X-RAY DIFFRACTION 3 A 70 A 80 X-RAY DIFFRACTION 4 A 81 A 96 X-RAY DIFFRACTION 5 A 97 A 109 X-RAY DIFFRACTION 6 A 110 A 141 X-RAY DIFFRACTION 7 author_and_software_defined_assembly PISA 1 monomeric 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 LYS 97 A O LYS 91 A N ALA 94 A N ALA 88 A O TYR 93 A O TYR 87 A N GLU 73 A N GLU 67 A O VAL 74 A O VAL 68 A N GLU 10 A N GLU 10 A N LYS 16 A N LYS 16 A O LYS 24 A O LYS 24 A N VAL 23 A N VAL 23 A O PHE 34 A O PHE 34 A N ARG 35 A N ARG 35 A O GLY 88 A O GLY 82 A N ASP 40 A N ASP 40 A O LYS 110 A O LYS 104 1 A ALA 1 A ALA 1 1 Y 1 A THR 2 A THR 2 1 Y 1 A SER 3 A SER 3 1 Y 1 A THR 4 A THR 4 1 Y 1 A LYS 5 A LYS 5 1 Y 1 A LYS 6 A LYS 6 1 Y 1 A GLU 142 A GLU 136 1 Y 1 A ASP 143 A ASP 137 1 Y 1 A ASN 144 A ASN 138 1 Y 1 A ALA 145 A ALA 139 1 Y 1 A ASP 146 A ASP 140 1 Y 1 A SER 147 A SER 141 1 Y 1 A GLY 148 A GLY 142 1 Y 1 A GLN 149 A GLN 143 1 Y 1 A C4 MPD 152 WRONG HAND 1 A ASP 19 -145.83 -157.69 1 A ASN 138 55.51 -108.30 37.750 12.6141 2.000 0.5900 0.0000 0.0000 0.5900 0.0000 -1.1900 0.9660 0.9500 HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS U VALUES : RESIDUAL ONLY 0.2100 0.1648 0.1669 0.1669 1.90 48.37 555 11629 11629 4.8000 99.7 0.2153 0.1717 1.000 0.400 0.8671 6.5220 0.0890 0.1369 0.1322 RANDOM 1 THROUGHOUT 0.0 MOLECULAR REPLACEMENT 0.137 0.1320 0.8000 0.8000 1.4000 PDB ENTRY 3BDC MAXIMUM LIKELIHOOD MASK 1.90 48.37 96 1143 18 0 1029 0.020 0.022 1105 1.704 1.995 1495 6.103 5.000 142 33.060 25.102 49 15.921 15.000 220 7.220 15.000 5 0.159 0.200 162 0.013 0.021 807 1.382 1.500 659 2.060 2.000 1061 3.606 3.000 446 5.445 4.500 427 0.2490 0.1810 1.945 52 805 857 20 99.19 34.3 1.90 50.0 3SK8 11646 11646 0 0 0.073 2.275 1 13.3 13.5 99.7 0.283 1.900 1.930 581 1.044 1 13.100 99.300 0.265 1.930 1.970 561 1.216 1 13.500 100.000 0.237 1.970 2.010 601 1.285 1 14.000 99.500 0.213 2.010 2.050 570 1.374 1 14.000 100.000 0.193 2.050 2.090 591 1.566 1 14.200 99.700 0.170 2.090 2.140 575 1.730 1 14.000 99.700 0.161 2.140 2.190 577 1.938 1 13.800 99.800 0.148 2.190 2.250 555 2.047 1 13.700 100.000 0.140 2.250 2.320 599 2.122 1 13.800 99.800 0.125 2.320 2.390 564 2.212 1 13.900 99.800 0.117 2.390 2.480 585 2.305 1 13.700 100.000 0.108 2.480 2.580 597 2.520 1 13.600 100.000 0.096 2.580 2.700 580 2.606 1 13.500 100.000 0.086 2.700 2.840 591 2.716 1 13.400 100.000 0.081 2.840 3.020 580 2.909 1 13.100 100.000 0.069 3.020 3.250 581 3.100 1 12.700 100.000 0.062 3.250 3.580 580 3.452 1 12.400 100.000 0.058 3.580 4.090 590 3.449 1 12.300 100.000 0.052 4.090 5.160 594 3.198 1 12.800 99.500 0.055 5.160 50.000 594 3.089 1 13.500 96.600 data reduction Zbyszek Otwinowski hkl@hkl-xray.com http://www.hkl-xray.com/ DENZO package data scaling Zbyszek Otwinowski hkl@hkl-xray.com http://www.hkl-xray.com/ SCALEPACK package phasing Randy J. Read cimr-phaser@lists.cam.ac.uk Wed Jun 24 14:00:05 2009 http://www-structmed.cimr.cam.ac.uk/phaser/ PHASER program 2.1.4 refinement Garib N. Murshudov garib@ysbl.york.ac.uk Fortran_77 http://www.ccp4.ac.uk/dist/html/refmac5.html REFMAC program data extraction PDB deposit@deposit.rcsb.org June 10, 2010 C++ http://sw-tools.pdb.org/apps/PDB_EXTRACT/ PDB_EXTRACT package 3.10 data collection CBASS data reduction HKL-2000 data scaling HKL-2000 Crystal structure of Staphylococcal nuclease variant Delta+PHS M98G apo protein at cryogenic temperature 1 N N 2 N N 2 N N 3 N N 4 N N A TYR 54 A TYR 48 HELX_P A ASN 68 A ASN 62 1 1 15 A VAL 99 A VAL 93 HELX_P A GLN 106 A GLN 100 1 2 8 A HIS 121 A HIS 115 HELX_P A GLU 135 A GLU 129 1 3 15 A LEU 137 A LEU 131 HELX_P A SER 141 A SER 135 5 4 5 HYDROLASE Staphylococcal nuclease, hyperstable variant, HYDROLASE NUC_STAAU UNP 1 83 P00644 ATSTKKLHKEPATLIKAIDGDTVKLMYKGQPMTFRLLLVDTPETKHPKKGVEKYGPEASAFTKKMVENAKKIEVEFDKGQ RTDKYGRGLAYIYADGKMVNEALVRQGLAKVAYVYKPNNTHEQHLRKSEAQAKKEKLNIWSEDNADSGQ 83 231 3SK8 1 149 P00644 A 1 1 143 1 THR deletion 3SK8 A P00644 UNP 126 1 LYS deletion 3SK8 A P00644 UNP 127 1 HIS deletion 3SK8 A P00644 UNP 128 1 PRO deletion 3SK8 A P00644 UNP 129 1 LYS deletion 3SK8 A P00644 UNP 130 1 LYS deletion 3SK8 A P00644 UNP 131 1 GLY engineered mutation PHE 50 3SK8 A P00644 UNP 132 44 1 VAL engineered mutation ASN 51 3SK8 A P00644 UNP 133 45 1 MET engineered mutation GLY 98 3SK8 A P00644 UNP 180 92 1 PRO engineered mutation GLY 117 3SK8 A P00644 UNP 199 111 1 HIS engineered mutation LEU 124 3SK8 A P00644 UNP 206 118 1 SER engineered mutation ALA 128 3SK8 A P00644 UNP 210 122 7 2 anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel parallel anti-parallel A LYS 97 A LYS 91 A GLY 98 A GLY 92 A GLY 88 A GLY 82 A ALA 94 A ALA 88 A ILE 72 A ILE 66 A PHE 76 A PHE 70 A GLU 10 A GLU 10 A ALA 17 A ALA 17 A THR 22 A THR 22 A TYR 27 A TYR 27 A GLN 30 A GLN 30 A LEU 36 A LEU 36 A GLY 88 A GLY 82 A ALA 94 A ALA 88 A VAL 39 A VAL 39 A ASP 40 A ASP 40 A LYS 110 A LYS 104 A VAL 111 A VAL 105 BINDING SITE FOR RESIDUE PO4 A 150 A PO4 150 Software 5 BINDING SITE FOR RESIDUE PO4 A 151 A PO4 151 Software 4 BINDING SITE FOR RESIDUE MPD A 152 A MPD 152 Software 7 A ARG 35 A ARG 35 5 1_555 A LYS 71 A LYS 65 5 3_555 A ARG 87 A ARG 81 5 1_555 A HOH 220 E HOH 5 1_555 A HOH 224 E HOH 5 1_555 A LYS 84 A LYS 78 4 1_555 A LYS 97 A LYS 91 4 2_545 A LYS 116 A LYS 110 4 1_555 A HOH 238 E HOH 4 1_555 A TYR 91 A TYR 85 7 1_555 A TYR 93 A TYR 87 7 1_555 A GLY 98 A GLY 92 7 1_555 A GLU 101 A GLU 95 7 1_555 A HIS 121 A HIS 115 7 1_555 A LEU 124 A LEU 118 7 1_555 A HOH 223 E HOH 7 1_555 76 P 41