0.019366 0.000000 0.000000 0.000000 0.019366 0.000000 0.000000 0.000000 0.005278 0.000000 0.000000 0.000000 Kim, W.M. Sigalov, A.B. Stern, L.J. http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 8 90.000 90.000 90.000 51.638 51.638 189.449 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 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 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 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 N N 145 S C N 146 N C N 147 N O N 148 S C N 149 N C N 150 N C N 151 N C N 152 N O 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 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 N N 167 S C N 168 N C N 169 N O N 170 N C N 171 N C N 172 N C N 173 N C N 174 N O 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 H N 185 N H N 186 N H N 187 N H N 188 N N N 189 S C N 190 N C N 191 N O N 192 N C N 193 N C N 194 N C N 195 N C N 196 N N N 197 N O 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 H N 210 N H N 211 N H N 212 N H N 213 N N N 214 S C N 215 N C N 216 N O N 217 N C N 218 N C N 219 N S N 220 N C N 221 N O 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 H N 230 N H N 231 N H N 232 N H N 233 N N N 234 S C N 235 N C N 236 N O N 237 N C Y 238 N C Y 239 N C Y 240 N C Y 241 N C Y 242 N C Y 243 N C N 244 N O 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 N N 257 S C N 258 N C N 259 N O N 260 N C N 261 N C N 262 N C N 263 N O N 264 N H N 265 N H N 266 N H N 267 N H N 268 N H N 269 N H N 270 N H N 271 N H N 272 N H N 273 N N N 274 S C N 275 N C N 276 N O N 277 N C N 278 N O N 279 N O N 280 N H N 281 N H N 282 N H N 283 N H N 284 N H N 285 N H N 286 N H N 287 N N N 288 S C N 289 N C N 290 N O N 291 R C N 292 N O N 293 N C N 294 N O 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 H N 304 N N N 305 S C N 306 N C N 307 N O N 308 N C Y 309 N C Y 310 N C Y 311 N C Y 312 N N Y 313 N C Y 314 N C Y 315 N C Y 316 N C Y 317 N C N 318 N O 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 H N 328 N H N 329 N H N 330 N H N 331 N N N 332 S C N 333 N C N 334 N O N 335 N C Y 336 N C Y 337 N C Y 338 N C Y 339 N C Y 340 N C Y 341 N C N 342 N O N 343 N O 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 H N 352 N H N 353 N H N 354 N H N 355 N N N 356 S C N 357 N C N 358 N O N 359 N C N 360 N C N 361 N C N 362 N O 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 370 N H N 371 N H N 372 N H N 373 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 doub N 144 N sing N 145 N sing 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 doub 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 sing N 180 N sing N 181 N sing N 182 N sing N 183 N sing N 184 N sing N 185 N doub 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 sing N 204 N sing N 205 N sing N 206 N sing N 207 N sing N 208 N sing N 209 N doub 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 sing N 223 N sing N 224 N sing N 225 N sing N 226 N sing N 227 N sing N 228 N doub N 229 N sing N 230 N sing N 231 N sing N 232 N sing Y 233 N doub Y 234 N sing Y 235 N sing N 236 N sing Y 237 N doub N 238 N sing Y 239 N doub N 240 N sing Y 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 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 sing N 263 N sing N 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 sing N 279 N sing N 280 N sing N 281 N doub 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 sing N 296 N sing N 297 N doub N 298 N sing N 299 N sing N 300 N sing N 301 N sing Y 302 N doub Y 303 N sing Y 304 N sing N 305 N sing Y 306 N doub Y 307 N sing Y 308 N sing N 309 N sing Y 310 N sing Y 311 N doub N 312 N sing Y 313 N doub N 314 N sing Y 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 sing N 325 N doub N 326 N sing N 327 N sing N 328 N sing N 329 N sing Y 330 N doub Y 331 N sing Y 332 N sing N 333 N sing Y 334 N doub N 335 N sing Y 336 N doub N 337 N sing Y 338 N sing N 339 N sing N 340 N sing N 341 N sing N 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 doub N 350 N sing N 351 N sing N 352 N sing N 353 N sing N 354 N sing N 355 N sing N 356 N sing N 357 N sing N 358 N sing N 359 N sing N 360 N sing DK Acta Crystallogr.,Sect.D ABCRE6 0766 0907-4449 66 163 175 10.1107/S090744490904880X 20124696 Pseudo-merohedral twinning and noncrystallographic symmetry in orthorhombic crystals of SIVmac239 Nef core domain bound to different-length TCRzeta fragments. 2010 10.2210/pdb3ioz/pdb pdb_00003ioz 1 CCD 2008-10-18 ADSC QUANTUM 315r SINGLE WAVELENGTH M x-ray 1 1.290 1.0 X29A NSLS 1.290 SYNCHROTRON NSLS BEAMLINE X29A 16698.676 Protein Nef 1 man polymer 5279.782 T-cell surface glycoprotein CD3 zeta chain 1 man polymer T-cell receptor T3 zeta chain no no GSDDLVGVSVRPKVPLRTMSYKLAIDMSHFIKEKGGLEGIYYSARRHRILDIYLEKEEGIIPDWQDYTSGPGIRYPKTFG WLWKLVPVNVSDEAQEDEEHYLMHPAQTSQWDDPWGEVLAWKFDPTLAYTYEAYVRYPEEFGS GSDDLVGVSVRPKVPLRTMSYKLAIDMSHFIKEKGGLEGIYYSARRHRILDIYLEKEEGIIPDWQDYTSGPGIRYPKTFG WLWKLVPVNVSDEAQEDEEHYLMHPAQTSQWDDPWGEVLAWKFDPTLAYTYEAYVRYPEEFGS A polypeptide(L) no no GSLRVKFSRSADAPAYQQGQNQLYNELNLGRREEYDVLDKRRGRD GSLRVKFSRSADAPAYQQGQNQLYNELNLGRREEYDVLDKRRGRD B 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 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 388909 Simian immunodeficiency virus 469008 Escherichia coli BL21 (DE3) human sample 9606 Homo sapiens 469008 Escherichia coli BL21 (DE3) 1 2.87 57.19 VAPOR DIFFUSION, HANGING DROP 8.2 15% PEG 3350, 0.15M KF, 0.1M hepes, pH 8.2, VAPOR DIFFUSION, HANGING DROP, temperature 277K 277 software chem_comp_atom chem_comp_bond database_2 struct_ref_seq_dif repository Initial release Version format compliance Database references Refinement description Data collection Database references 1 0 2010-02-02 1 1 2011-07-13 1 2 2012-03-28 1 3 2017-11-01 1 4 2024-02-21 _database_2.pdbx_DOI _database_2.pdbx_database_accession _struct_ref_seq_dif.details RCSB Y RCSB 2009-08-15 REL REL 53.530 5.000 5.000 28.920 28.920 Phaser MODE: MR_AUTO n 1 93 A n 2 94 A n 3 95 A n 4 96 A n 5 97 A n 6 98 A n 7 99 A n 8 100 A n 9 101 A n 10 102 A n 11 103 A n 12 104 A n 13 105 A n 14 106 A PRO 107 n 15 PRO 107 A LEU 108 n 16 LEU 108 A ARG 109 n 17 ARG 109 A THR 110 n 18 THR 110 A MET 111 n 19 MET 111 A SER 112 n 20 SER 112 A TYR 113 n 21 TYR 113 A LYS 114 n 22 LYS 114 A LEU 115 n 23 LEU 115 A ALA 116 n 24 ALA 116 A ILE 117 n 25 ILE 117 A ASP 118 n 26 ASP 118 A MET 119 n 27 MET 119 A SER 120 n 28 SER 120 A HIS 121 n 29 HIS 121 A PHE 122 n 30 PHE 122 A ILE 123 n 31 ILE 123 A LYS 124 n 32 LYS 124 A GLU 125 n 33 GLU 125 A LYS 126 n 34 LYS 126 A GLY 127 n 35 GLY 127 A GLY 128 n 36 GLY 128 A LEU 129 n 37 LEU 129 A GLU 130 n 38 GLU 130 A GLY 131 n 39 GLY 131 A ILE 132 n 40 ILE 132 A TYR 133 n 41 TYR 133 A TYR 134 n 42 TYR 134 A SER 135 n 43 SER 135 A ALA 136 n 44 ALA 136 A ARG 137 n 45 ARG 137 A ARG 138 n 46 ARG 138 A HIS 139 n 47 HIS 139 A ARG 140 n 48 ARG 140 A ILE 141 n 49 ILE 141 A LEU 142 n 50 LEU 142 A ASP 143 n 51 ASP 143 A ILE 144 n 52 ILE 144 A TYR 145 n 53 TYR 145 A LEU 146 n 54 LEU 146 A GLU 147 n 55 GLU 147 A LYS 148 n 56 LYS 148 A GLU 149 n 57 GLU 149 A GLU 150 n 58 GLU 150 A GLY 151 n 59 GLY 151 A ILE 152 n 60 ILE 152 A ILE 153 n 61 ILE 153 A PRO 154 n 62 PRO 154 A ASP 155 n 63 ASP 155 A TRP 156 n 64 TRP 156 A GLN 157 n 65 GLN 157 A ASP 158 n 66 ASP 158 A TYR 159 n 67 TYR 159 A THR 160 n 68 THR 160 A SER 161 n 69 SER 161 A GLY 162 n 70 GLY 162 A PRO 163 n 71 PRO 163 A GLY 164 n 72 GLY 164 A ILE 165 n 73 ILE 165 A ARG 166 n 74 ARG 166 A TYR 167 n 75 TYR 167 A PRO 168 n 76 PRO 168 A LYS 169 n 77 LYS 169 A THR 170 n 78 THR 170 A PHE 171 n 79 PHE 171 A GLY 172 n 80 GLY 172 A TRP 173 n 81 TRP 173 A LEU 174 n 82 LEU 174 A TRP 175 n 83 TRP 175 A LYS 176 n 84 LYS 176 A LEU 177 n 85 LEU 177 A VAL 178 n 86 VAL 178 A PRO 179 n 87 PRO 179 A VAL 180 n 88 VAL 180 A n 89 181 A n 90 182 A n 91 183 A n 92 184 A n 93 185 A n 94 186 A n 95 187 A n 96 188 A n 97 189 A n 98 190 A n 99 191 A n 100 192 A n 101 193 A n 102 194 A n 103 195 A n 104 196 A n 105 197 A n 106 198 A n 107 199 A THR 200 n 108 THR 200 A SER 201 n 109 SER 201 A GLN 202 n 110 GLN 202 A TRP 203 n 111 TRP 203 A ASP 204 n 112 ASP 204 A ASP 205 n 113 ASP 205 A PRO 206 n 114 PRO 206 A TRP 207 n 115 TRP 207 A GLY 208 n 116 GLY 208 A GLU 209 n 117 GLU 209 A VAL 210 n 118 VAL 210 A LEU 211 n 119 LEU 211 A ALA 212 n 120 ALA 212 A TRP 213 n 121 TRP 213 A LYS 214 n 122 LYS 214 A PHE 215 n 123 PHE 215 A ASP 216 n 124 ASP 216 A PRO 217 n 125 PRO 217 A THR 218 n 126 THR 218 A LEU 219 n 127 LEU 219 A ALA 220 n 128 ALA 220 A TYR 221 n 129 TYR 221 A THR 222 n 130 THR 222 A TYR 223 n 131 TYR 223 A GLU 224 n 132 GLU 224 A ALA 225 n 133 ALA 225 A TYR 226 n 134 TYR 226 A VAL 227 n 135 VAL 227 A ARG 228 n 136 ARG 228 A TYR 229 n 137 TYR 229 A PRO 230 n 138 PRO 230 A GLU 231 n 139 GLU 231 A GLU 232 n 140 GLU 232 A PHE 233 n 141 PHE 233 A GLY 234 n 142 GLY 234 A n 143 235 A n 1 49 B n 2 50 B n 3 51 B n 4 52 B n 5 53 B n 6 54 B n 7 55 B n 8 56 B n 9 57 B n 10 58 B n 11 59 B n 12 60 B n 13 61 B n 14 62 B ALA 63 n 15 ALA 63 B TYR 64 n 16 TYR 64 B GLN 65 n 17 GLN 65 B GLN 66 n 18 GLN 66 B GLY 67 n 19 GLY 67 B GLN 68 n 20 GLN 68 B ASN 69 n 21 ASN 69 B GLN 70 n 22 GLN 70 B LEU 71 n 23 LEU 71 B TYR 72 n 24 TYR 72 B ASN 73 n 25 ASN 73 B GLU 74 n 26 GLU 74 B LEU 75 n 27 LEU 75 B ASN 76 n 28 ASN 76 B LEU 77 n 29 LEU 77 B GLY 78 n 30 GLY 78 B n 31 79 B n 32 80 B n 33 81 B n 34 82 B n 35 83 B n 36 84 B n 37 85 B n 38 86 B n 39 87 B n 40 88 B n 41 89 B n 42 90 B n 43 91 B n 44 92 B n 45 93 B software_defined_assembly PISA 2 dimeric 1040 -6 7380 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 N LYS 176 A N LYS 84 A O LYS 214 A O LYS 122 1 A GLY 93 A GLY 1 1 Y 1 A SER 94 A SER 2 1 Y 1 A ASP 95 A ASP 3 1 Y 1 A ASP 96 A ASP 4 1 Y 1 A LEU 97 A LEU 5 1 Y 1 A VAL 98 A VAL 6 1 Y 1 A GLY 99 A GLY 7 1 Y 1 A VAL 100 A VAL 8 1 Y 1 A SER 101 A SER 9 1 Y 1 A VAL 102 A VAL 10 1 Y 1 A ARG 103 A ARG 11 1 Y 1 A PRO 104 A PRO 12 1 Y 1 A LYS 105 A LYS 13 1 Y 1 A VAL 106 A VAL 14 1 Y 1 A ASN 181 A ASN 89 1 Y 1 A VAL 182 A VAL 90 1 Y 1 A SER 183 A SER 91 1 Y 1 A ASP 184 A ASP 92 1 Y 1 A GLU 185 A GLU 93 1 Y 1 A ALA 186 A ALA 94 1 Y 1 A GLN 187 A GLN 95 1 Y 1 A GLU 188 A GLU 96 1 Y 1 A ASP 189 A ASP 97 1 Y 1 A GLU 190 A GLU 98 1 Y 1 A GLU 191 A GLU 99 1 Y 1 A HIS 192 A HIS 100 1 Y 1 A TYR 193 A TYR 101 1 Y 1 A LEU 194 A LEU 102 1 Y 1 A MET 195 A MET 103 1 Y 1 A HIS 196 A HIS 104 1 Y 1 A PRO 197 A PRO 105 1 Y 1 A ALA 198 A ALA 106 1 Y 1 A GLN 199 A GLN 107 1 Y 1 A SER 235 A SER 143 1 Y 1 B GLY 49 B GLY 1 1 Y 1 B SER 50 B SER 2 1 Y 1 B LEU 51 B LEU 3 1 Y 1 B ARG 52 B ARG 4 1 Y 1 B VAL 53 B VAL 5 1 Y 1 B LYS 54 B LYS 6 1 Y 1 B PHE 55 B PHE 7 1 Y 1 B SER 56 B SER 8 1 Y 1 B ARG 57 B ARG 9 1 Y 1 B SER 58 B SER 10 1 Y 1 B ALA 59 B ALA 11 1 Y 1 B ASP 60 B ASP 12 1 Y 1 B ALA 61 B ALA 13 1 Y 1 B PRO 62 B PRO 14 1 Y 1 B ARG 79 B ARG 31 1 Y 1 B ARG 80 B ARG 32 1 Y 1 B GLU 81 B GLU 33 1 Y 1 B GLU 82 B GLU 34 1 Y 1 B TYR 83 B TYR 35 1 Y 1 B ASP 84 B ASP 36 1 Y 1 B VAL 85 B VAL 37 1 Y 1 B LEU 86 B LEU 38 1 Y 1 B ASP 87 B ASP 39 1 Y 1 B LYS 88 B LYS 40 1 Y 1 B ARG 89 B ARG 41 1 Y 1 B ARG 90 B ARG 42 1 Y 1 B GLY 91 B GLY 43 1 Y 1 B ARG 92 B ARG 44 1 Y 1 B ASP 93 B ASP 45 1 Y 1 A ARG 109 -179.31 136.69 1 A LEU 115 -63.52 -72.63 1 A ILE 117 -55.40 -72.75 1 A LEU 129 77.06 -44.48 1 A GLU 130 -46.88 107.13 1 A ASP 143 -39.74 -36.58 1 A PRO 154 -72.56 29.54 1 A PRO 163 -75.94 -143.59 1 A ASP 204 -64.55 -169.67 1 A ASP 216 -160.53 107.64 1 A THR 222 -160.25 102.13 1 A ALA 225 -54.43 -74.72 1 A GLU 232 -98.42 44.19 1 B ASN 76 72.72 39.76 251.08 206.485 162.98 28.379 0.000 -0.000 28.379 0.000 -84.592 0.329 0.301 0.302 3.699 35.854 128 2923 4.380 94.440 1.00 1.00 0.577 2.170 1 0.22 MOLECULAR REPLACEMENT 0.900 1.110 ML FLAT BULK SOLVENT MODEL 143.650 0.314 3.699 35.854 0 1051 0 0 1051 0.003 1088 0.565 1478 0.040 144 0.003 187 13.315 383 0.329 0.301 128 2795 2923 1 94.000 3.700 50.000 3IOZ 3122 0.051 1.037 1 12.800 12.600 99.400 0.393 3.70 3.83 282 1.037 1 12.70 100.00 0.279 3.83 3.99 311 1.007 1 13.10 100.00 0.169 3.99 4.17 293 1.057 1 13.40 100.00 0.158 4.17 4.39 306 1.020 1 13.30 100.00 0.101 4.39 4.66 305 1.057 1 13.10 100.00 0.090 4.66 5.02 305 1.061 1 13.20 100.00 0.072 5.02 5.53 311 1.051 1 12.70 100.00 0.056 5.53 6.32 317 0.986 1 12.50 99.70 0.039 6.32 7.96 325 0.998 1 12.00 100.00 0.030 7.96 50.00 367 1.098 1 10.80 95.10 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 Thu Nov 13 11:40:59 2008 http://www-structmed.cimr.cam.ac.uk/phaser/ PHASER program 2.1.4 refinement Paul D. Adams PDAdams@lbl.gov C++ http://www.phenix-online.org/ PHENIX package data extraction PDB help@deposit.rcsb.org June 11, 2008 C++ http://sw-tools.pdb.org/apps/PDB_EXTRACT/ PDB_EXTRACT package 3.005 data collection CBASS data reduction HKL-2000 data scaling HKL-2000 SIVmac239 Nef in complex with a TCR zeta polypeptide DP1 (L51-D93) 1 N N 2 N N A SER 112 A SER 20 HELX_P A GLU 125 A GLU 33 1 1 14 A SER 135 A SER 43 HELX_P A GLY 151 A GLY 59 1 2 17 A PRO 217 A PRO 125 HELX_P A TYR 221 A TYR 129 5 3 5 A TYR 223 A TYR 131 HELX_P A TYR 229 A TYR 137 1 4 7 B GLN 65 B GLN 17 HELX_P B GLU 74 B GLU 26 1 5 10 VIRAL PROTEIN/SIGNALING PROTEIN Protein-Protein complex, Cell membrane, Lipoprotein, Membrane, Myristate, Viral immunoevasion, Virulence, Disulfide bond, Host-virus interaction, Phosphoprotein, Receptor, Transmembrane, VIRAL PROTEIN-ANTIVIRAL PROTEIN COMPLEX, VIRAL PROTEIN-SIGNALING PROTEIN COMPLEX A GLY 162 A GLY 70 1 A PRO 163 A PRO 71 -0.02 Q5QGG3_SIVCZ UNP 1 95 Q5QGG3 DDLVGVSVRPKVPLRTMSYKLAIDMSHFIKEKGGLEGIYYSARRHRILDIYLEKEEGIIPDWQDYTSGPGIRYPKTFGWL WKLVPVNVSDEAQEDEEHYLMHPAQTSQWDDPWGEVLAWKFDPTLAYTYEAYVRYPEEFGS CD3Z_HUMAN UNP 2 51 P20963 LRVKFSRSADAPAYQQGQNQLYNELNLGRREEYDVLDKRRGRD 95 235 3IOZ 95 235 Q5QGG3 A 1 3 143 51 93 3IOZ 51 93 P20963 B 2 3 45 1 expression tag GLY 93 3IOZ A Q5QGG3 UNP 1 1 expression tag SER 94 3IOZ A Q5QGG3 UNP 2 2 expression tag GLY 49 3IOZ B P20963 UNP 1 2 expression tag SER 50 3IOZ B P20963 UNP 2 2 anti-parallel A TRP 175 A TRP 83 A VAL 178 A VAL 86 A ALA 212 A ALA 120 A PHE 215 A PHE 123 96 P 43 21 2