0.012716 0.007342 0.000000 0.000000 0.014684 0.000000 0.000000 0.000000 0.012928 0.00000 0.00000 0.00000 Oh, A. Maurer, T. Garrenton, L.S. Pitts, K. Anderson, D.J. Skelton, N.J. Fauber, B.P. Pan, B. Malek, S. Stokoe, D. Ludlam, M. Bowman, K.K. Wu, J. Giannetti, A.M. Starovasnik, M.A. Mellman, I. Jackson, P.K. Ruldolph, J. Fang, G. Wang, W. http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 9 90.00 90.00 120.00 78.638 78.638 77.353 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 C3 H7 N O2 S 121.158 y CYSTEINE L-peptide linking C2 H6 O2 62.068 1,2-ETHANEDIOL ETHYLENE GLYCOL non-polymer C11 H18 N5 O13 P3 521.208 PHOSPHOMETHYLPHOSPHONIC ACID GUANYLATE ESTER non-polymer 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 Mg 2 24.305 MAGNESIUM ION non-polymer 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 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 R C N 76 N C N 77 N O N 78 N C N 79 N S N 80 N O N 81 N H 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 C N 89 N O N 90 N C N 91 N O N 92 N H N 93 N H N 94 N H N 95 N H N 96 N H N 97 N H N 98 N P N 99 N O N 100 N O N 101 N O N 102 N C N 103 R P N 104 N O N 105 N O N 106 N O N 107 S P N 108 N O N 109 N O N 110 N O N 111 N C N 112 R C N 113 N O N 114 S C N 115 N O N 116 R C N 117 N O N 118 R C Y 119 N N Y 120 N C Y 121 N N Y 122 N C Y 123 N C N 124 N O Y 125 N N Y 126 N C N 127 N N Y 128 N N Y 129 N C N 130 N H N 131 N H N 132 N H N 133 N H 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 H N 145 N H N 146 N H N 147 N H N 148 N N N 149 S C N 150 N C N 151 N O N 152 N C N 153 N C N 154 N C N 155 N O N 156 N N N 157 N O 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 N N 169 S C N 170 N C N 171 N O N 172 N C N 173 N C N 174 N C N 175 N O N 176 N O 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 N N 188 N C N 189 N C N 190 N O N 191 N O N 192 N H N 193 N H N 194 N H N 195 N H N 196 N H N 197 N N N 198 S C N 199 N C N 200 N O N 201 N C Y 202 N C Y 203 N N Y 204 N C Y 205 N C Y 206 N N N 207 N O 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 H N 217 N H N 218 N O N 219 N H N 220 N H N 221 N N N 222 S C N 223 N C N 224 N O N 225 S C N 226 N C N 227 N C N 228 N C N 229 N O 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 H N 237 N H N 238 N H N 239 N H N 240 N H N 241 N H N 242 N H N 243 N N N 244 S C N 245 N C N 246 N O N 247 N C N 248 N C N 249 N C N 250 N C N 251 N O 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 H N 259 N H N 260 N H N 261 N H N 262 N H N 263 N H N 264 N H N 265 N N N 266 S C N 267 N C N 268 N O N 269 N C N 270 N C N 271 N C N 272 N C N 273 N N N 274 N O 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 H N 282 N H N 283 N H N 284 N H N 285 N H N 286 N H N 287 N H N 288 N H N 289 N H N 290 N N N 291 S C N 292 N C N 293 N O N 294 N C N 295 N C N 296 N S N 297 N C N 298 N O N 299 N H N 300 N H N 301 N H N 302 N H N 303 N H N 304 N H N 305 N H N 306 N H N 307 N H N 308 N H N 309 N H N 310 N MG N 311 N N N 312 S C N 313 N C N 314 N O N 315 N C Y 316 N C Y 317 N C Y 318 N C Y 319 N C Y 320 N C Y 321 N C N 322 N O 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 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 N 339 N C N 340 N C N 341 N O 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 O N 357 N O N 358 N H 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 N N 366 S C N 367 N C N 368 N O N 369 R C N 370 N O N 371 N C N 372 N O N 373 N H 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 N N 383 S C N 384 N C N 385 N O N 386 N C Y 387 N C Y 388 N C Y 389 N C Y 390 N C Y 391 N C Y 392 N C N 393 N O N 394 N O 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 404 N H N 405 N H N 406 N N N 407 S C N 408 N C N 409 N O N 410 N C N 411 N C N 412 N C N 413 N O N 414 N H N 415 N H N 416 N H N 417 N H N 418 N H N 419 N H N 420 N H N 421 N H N 422 N H N 423 N H N 424 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 sing N 90 N sing N 91 N sing N 92 N doub N 93 N sing N 94 N sing N 95 N sing N 96 N sing N 97 N sing N 98 N sing N 99 N sing N 100 N sing N 101 N doub N 102 N sing N 103 N sing N 104 N sing N 105 N sing N 106 N doub 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 sing 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 sing N 123 N sing N 124 N sing N 125 N sing N 126 N sing N 127 N sing Y 128 N sing Y 129 N sing Y 130 N doub N 131 N sing Y 132 N sing Y 133 N sing Y 134 N doub N 135 N doub Y 136 N sing Y 137 N sing N 138 N sing N 139 N sing Y 140 N doub N 141 N sing N 142 N sing Y 143 N sing 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 doub 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 doub 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 doub 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 doub N 197 N sing N 198 N sing N 199 N sing N 200 N sing Y 201 N sing Y 202 N doub Y 203 N doub N 204 N sing Y 205 N sing N 206 N sing Y 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 doub 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 doub 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 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 doub 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 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 sing 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 doub 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 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 doub N 305 N sing N 306 N sing N 307 N sing N 308 N sing Y 309 N doub Y 310 N sing Y 311 N sing N 312 N sing Y 313 N doub N 314 N sing Y 315 N doub N 316 N sing Y 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 sing N 326 N sing N 327 N doub N 328 N sing N 329 N sing N 330 N sing N 331 N sing N 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 sing N 344 N doub 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 N 355 N sing N 356 N sing N 357 N doub N 358 N sing N 359 N sing N 360 N sing N 361 N sing N 362 N sing N 363 N sing N 364 N sing N 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 doub N 374 N sing N 375 N sing N 376 N sing N 377 N sing Y 378 N doub Y 379 N sing Y 380 N sing N 381 N sing Y 382 N doub N 383 N sing Y 384 N doub N 385 N sing Y 386 N sing N 387 N sing N 388 N sing N 389 N sing N 390 N sing N 391 N sing N 392 N sing N 393 N sing N 394 N sing N 395 N sing N 396 N sing N 397 N doub N 398 N sing N 399 N sing N 400 N sing N 401 N sing N 402 N sing N 403 N sing N 404 N sing N 405 N sing N 406 N sing N 407 N sing N 408 N sing US Proc.Natl.Acad.Sci.USA PNASA6 0040 0027-8424 109 5299 5304 10.1073/pnas.1116510109 22431598 Small-molecule ligands bind to a distinct pocket in Ras and inhibit SOS-mediated nucleotide exchange activity. 2012 10.2210/pdb4dsn/pdb pdb_00004dsn 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 93 1 CCD 2010-05-12 ADSC QUANTUM 315 side scattering I-beam bent single crystal; asymmetric cut 4.9650 deg SINGLE WAVELENGTH M x-ray 1 0.97946 1.0 BL7-1 SSRL 0.97946 SYNCHROTRON SSRL BEAMLINE BL7-1 21530.574 GTPase KRas, isoform 2B 3.6.-.- G12D 1 man polymer 521.208 PHOSPHOMETHYLPHOSPHONIC ACID GUANYLATE ESTER 1 syn non-polymer 24.305 MAGNESIUM ION 2 syn non-polymer 62.068 1,2-ETHANEDIOL 2 syn non-polymer 18.015 water 66 nat water KRas 4B, K-Ras 2, Ki-Ras, c-K-ras, c-Ki-ras, GTPase KRas, N-terminally processed no no GSTEYKLVVVGADGVGKSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFL CVFAINNTKSFEDIHHYREQIKRVKDSEDVPMVLVGNKCDLPSRTVDTKQAQDLARSYGIPFIETSAKTRQGVDDAFYTL VREIRKHKEKMSKDGKKKKKKSKTKCVIM GSTEYKLVVVGADGVGKSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFL CVFAINNTKSFEDIHHYREQIKRVKDSEDVPMVLVGNKCDLPSRTVDTKQAQDLARSYGIPFIETSAKTRQGVDDAFYTL VREIRKHKEKMSKDGKKKKKKSKTKCVIM 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 n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n human sample KRAS, KRAS2, RASK2 9606 Homo sapiens 562 Escherichia coli 1 2.14 42.46 VAPOR DIFFUSION, SITTING DROP 8.5 0.2 uL + 0.2 uL drops containing 40 mg/mL KRas, 0.1 M TrisCl, 25% polyethylene glycol 4000, 0.2 M NaOAc, 2% benzamidine-HCl, pH 8.5, VAPOR DIFFUSION, SITTING DROP, temperature 277K 277 chem_comp_atom chem_comp_bond database_2 pdbx_struct_conn_angle struct_conn struct_ref_seq_dif struct_site repository Initial release Database references Data collection Database references Derived calculations 1 0 2012-04-25 1 1 2012-06-06 1 2 2024-02-28 _database_2.pdbx_DOI _database_2.pdbx_database_accession _pdbx_struct_conn_angle.ptnr1_auth_comp_id _pdbx_struct_conn_angle.ptnr1_auth_seq_id _pdbx_struct_conn_angle.ptnr1_label_asym_id _pdbx_struct_conn_angle.ptnr1_label_atom_id _pdbx_struct_conn_angle.ptnr1_label_comp_id _pdbx_struct_conn_angle.ptnr1_label_seq_id _pdbx_struct_conn_angle.ptnr2_auth_seq_id _pdbx_struct_conn_angle.ptnr2_label_asym_id _pdbx_struct_conn_angle.ptnr3_auth_comp_id _pdbx_struct_conn_angle.ptnr3_auth_seq_id _pdbx_struct_conn_angle.ptnr3_label_asym_id _pdbx_struct_conn_angle.ptnr3_label_atom_id _pdbx_struct_conn_angle.ptnr3_label_comp_id _pdbx_struct_conn_angle.ptnr3_label_seq_id _pdbx_struct_conn_angle.value _struct_conn.pdbx_dist_value _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_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.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_atom_id _struct_conn.ptnr2_label_comp_id _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 2012-02-19 REL REL GCP PHOSPHOMETHYLPHOSPHONIC ACID GUANYLATE ESTER MG MAGNESIUM ION EDO 1,2-ETHANEDIOL HOH water THE SEQUENCE MATCHES UNIPROT ENTRY P01116, ISOFORM 2B WITH IDENTIFIER P01116-2. GCP 1 2 GCP GCP 201 A MG 2 3 MG MG 202 A MG 3 3 MG MG 203 A EDO 5 4 EDO EDO 204 A EDO 6 4 EDO EDO 205 A HOH 1 5 HOH HOH 301 A HOH 2 5 HOH HOH 302 A HOH 3 5 HOH HOH 303 A HOH 4 5 HOH HOH 304 A HOH 5 5 HOH HOH 305 A HOH 6 5 HOH HOH 306 A HOH 7 5 HOH HOH 307 A HOH 8 5 HOH HOH 308 A HOH 9 5 HOH HOH 309 A HOH 10 5 HOH HOH 310 A HOH 11 5 HOH HOH 311 A HOH 12 5 HOH HOH 312 A HOH 13 5 HOH HOH 313 A HOH 14 5 HOH HOH 314 A HOH 15 5 HOH HOH 315 A HOH 16 5 HOH HOH 316 A HOH 17 5 HOH HOH 317 A HOH 18 5 HOH HOH 318 A HOH 19 5 HOH HOH 319 A HOH 20 5 HOH HOH 320 A HOH 21 5 HOH HOH 321 A HOH 22 5 HOH HOH 322 A HOH 23 5 HOH HOH 323 A HOH 24 5 HOH HOH 324 A HOH 25 5 HOH HOH 325 A HOH 26 5 HOH HOH 326 A HOH 27 5 HOH HOH 327 A HOH 28 5 HOH HOH 328 A HOH 29 5 HOH HOH 329 A HOH 30 5 HOH HOH 330 A HOH 31 5 HOH HOH 331 A HOH 32 5 HOH HOH 332 A HOH 33 5 HOH HOH 333 A HOH 34 5 HOH HOH 334 A HOH 35 5 HOH HOH 335 A HOH 36 5 HOH HOH 336 A HOH 37 5 HOH HOH 337 A HOH 38 5 HOH HOH 338 A HOH 39 5 HOH HOH 339 A HOH 40 5 HOH HOH 340 A HOH 41 5 HOH HOH 341 A HOH 42 5 HOH HOH 342 A HOH 43 5 HOH HOH 343 A HOH 44 5 HOH HOH 344 A HOH 45 5 HOH HOH 345 A HOH 46 5 HOH HOH 346 A HOH 47 5 HOH HOH 347 A HOH 48 5 HOH HOH 348 A HOH 49 5 HOH HOH 349 A HOH 50 5 HOH HOH 350 A HOH 52 5 HOH HOH 351 A HOH 53 5 HOH HOH 352 A HOH 54 5 HOH HOH 353 A HOH 55 5 HOH HOH 354 A HOH 56 5 HOH HOH 355 A HOH 57 5 HOH HOH 356 A HOH 58 5 HOH HOH 357 A HOH 59 5 HOH HOH 358 A HOH 60 5 HOH HOH 359 A HOH 61 5 HOH HOH 360 A HOH 62 5 HOH HOH 361 A HOH 63 5 HOH HOH 362 A HOH 64 5 HOH HOH 363 A HOH 65 5 HOH HOH 364 A HOH 66 5 HOH HOH 365 A HOH 67 5 HOH HOH 366 A n 1 0 A SER 1 n 2 SER 1 A THR 2 n 3 THR 2 A GLU 3 n 4 GLU 3 A TYR 4 n 5 TYR 4 A LYS 5 n 6 LYS 5 A LEU 6 n 7 LEU 6 A VAL 7 n 8 VAL 7 A VAL 8 n 9 VAL 8 A VAL 9 n 10 VAL 9 A GLY 10 n 11 GLY 10 A ALA 11 n 12 ALA 11 A ASP 12 n 13 ASP 12 A GLY 13 n 14 GLY 13 A VAL 14 n 15 VAL 14 A GLY 15 n 16 GLY 15 A LYS 16 n 17 LYS 16 A SER 17 n 18 SER 17 A ALA 18 n 19 ALA 18 A LEU 19 n 20 LEU 19 A THR 20 n 21 THR 20 A ILE 21 n 22 ILE 21 A GLN 22 n 23 GLN 22 A LEU 23 n 24 LEU 23 A ILE 24 n 25 ILE 24 A GLN 25 n 26 GLN 25 A ASN 26 n 27 ASN 26 A HIS 27 n 28 HIS 27 A PHE 28 n 29 PHE 28 A VAL 29 n 30 VAL 29 A ASP 30 n 31 ASP 30 A GLU 31 n 32 GLU 31 A TYR 32 n 33 TYR 32 A ASP 33 n 34 ASP 33 A PRO 34 n 35 PRO 34 A THR 35 n 36 THR 35 A ILE 36 n 37 ILE 36 A GLU 37 n 38 GLU 37 A ASP 38 n 39 ASP 38 A SER 39 n 40 SER 39 A TYR 40 n 41 TYR 40 A ARG 41 n 42 ARG 41 A LYS 42 n 43 LYS 42 A GLN 43 n 44 GLN 43 A VAL 44 n 45 VAL 44 A VAL 45 n 46 VAL 45 A ILE 46 n 47 ILE 46 A ASP 47 n 48 ASP 47 A GLY 48 n 49 GLY 48 A GLU 49 n 50 GLU 49 A THR 50 n 51 THR 50 A CYS 51 n 52 CYS 51 A LEU 52 n 53 LEU 52 A LEU 53 n 54 LEU 53 A ASP 54 n 55 ASP 54 A ILE 55 n 56 ILE 55 A LEU 56 n 57 LEU 56 A ASP 57 n 58 ASP 57 A THR 58 n 59 THR 58 A ALA 59 n 60 ALA 59 A GLY 60 n 61 GLY 60 A GLN 61 n 62 GLN 61 A GLU 62 n 63 GLU 62 A GLU 63 n 64 GLU 63 A TYR 64 n 65 TYR 64 A SER 65 n 66 SER 65 A ALA 66 n 67 ALA 66 A MET 67 n 68 MET 67 A ARG 68 n 69 ARG 68 A ASP 69 n 70 ASP 69 A GLN 70 n 71 GLN 70 A TYR 71 n 72 TYR 71 A MET 72 n 73 MET 72 A ARG 73 n 74 ARG 73 A THR 74 n 75 THR 74 A GLY 75 n 76 GLY 75 A GLU 76 n 77 GLU 76 A GLY 77 n 78 GLY 77 A PHE 78 n 79 PHE 78 A LEU 79 n 80 LEU 79 A CYS 80 n 81 CYS 80 A VAL 81 n 82 VAL 81 A PHE 82 n 83 PHE 82 A ALA 83 n 84 ALA 83 A ILE 84 n 85 ILE 84 A ASN 85 n 86 ASN 85 A ASN 86 n 87 ASN 86 A THR 87 n 88 THR 87 A LYS 88 n 89 LYS 88 A SER 89 n 90 SER 89 A PHE 90 n 91 PHE 90 A GLU 91 n 92 GLU 91 A ASP 92 n 93 ASP 92 A ILE 93 n 94 ILE 93 A HIS 94 n 95 HIS 94 A HIS 95 n 96 HIS 95 A TYR 96 n 97 TYR 96 A ARG 97 n 98 ARG 97 A GLU 98 n 99 GLU 98 A GLN 99 n 100 GLN 99 A ILE 100 n 101 ILE 100 A LYS 101 n 102 LYS 101 A ARG 102 n 103 ARG 102 A VAL 103 n 104 VAL 103 A LYS 104 n 105 LYS 104 A ASP 105 n 106 ASP 105 A SER 106 n 107 SER 106 A GLU 107 n 108 GLU 107 A ASP 108 n 109 ASP 108 A VAL 109 n 110 VAL 109 A PRO 110 n 111 PRO 110 A MET 111 n 112 MET 111 A VAL 112 n 113 VAL 112 A LEU 113 n 114 LEU 113 A VAL 114 n 115 VAL 114 A GLY 115 n 116 GLY 115 A ASN 116 n 117 ASN 116 A LYS 117 n 118 LYS 117 A CYS 118 n 119 CYS 118 A ASP 119 n 120 ASP 119 A LEU 120 n 121 LEU 120 A PRO 121 n 122 PRO 121 A SER 122 n 123 SER 122 A ARG 123 n 124 ARG 123 A THR 124 n 125 THR 124 A VAL 125 n 126 VAL 125 A ASP 126 n 127 ASP 126 A THR 127 n 128 THR 127 A LYS 128 n 129 LYS 128 A GLN 129 n 130 GLN 129 A ALA 130 n 131 ALA 130 A GLN 131 n 132 GLN 131 A ASP 132 n 133 ASP 132 A LEU 133 n 134 LEU 133 A ALA 134 n 135 ALA 134 A ARG 135 n 136 ARG 135 A SER 136 n 137 SER 136 A TYR 137 n 138 TYR 137 A GLY 138 n 139 GLY 138 A ILE 139 n 140 ILE 139 A PRO 140 n 141 PRO 140 A PHE 141 n 142 PHE 141 A ILE 142 n 143 ILE 142 A GLU 143 n 144 GLU 143 A THR 144 n 145 THR 144 A SER 145 n 146 SER 145 A ALA 146 n 147 ALA 146 A LYS 147 n 148 LYS 147 A THR 148 n 149 THR 148 A ARG 149 n 150 ARG 149 A GLN 150 n 151 GLN 150 A GLY 151 n 152 GLY 151 A VAL 152 n 153 VAL 152 A ASP 153 n 154 ASP 153 A ASP 154 n 155 ASP 154 A ALA 155 n 156 ALA 155 A PHE 156 n 157 PHE 156 A TYR 157 n 158 TYR 157 A THR 158 n 159 THR 158 A LEU 159 n 160 LEU 159 A VAL 160 n 161 VAL 160 A ARG 161 n 162 ARG 161 A GLU 162 n 163 GLU 162 A ILE 163 n 164 ILE 163 A ARG 164 n 165 ARG 164 A LYS 165 n 166 LYS 165 A HIS 166 n 167 HIS 166 A LYS 167 n 168 LYS 167 A GLU 168 n 169 GLU 168 A LYS 169 n 170 LYS 169 A MET 170 n 171 MET 170 A SER 171 n 172 SER 171 A LYS 172 n 173 LYS 172 A ASP 173 n 174 ASP 173 A GLY 174 n 175 GLY 174 A LYS 175 n 176 LYS 175 A LYS 176 n 177 LYS 176 A LYS 177 n 178 LYS 177 A LYS 178 n 179 LYS 178 A LYS 179 n 180 LYS 179 A LYS 180 n 181 LYS 180 A n 182 181 A n 183 182 A n 184 183 A n 185 184 A n 186 185 A n 187 186 A n 188 187 A n 189 188 A 2.5794 0.2483 0.0055 1.8784 -0.0290 2.0001 -0.1306 -0.2071 0.3668 0.0147 0.0672 -0.0031 0.0525 0.1673 -0.0000 0.2045 0.0155 -0.0254 0.2633 -0.0192 0.2512 refined 18.5209 9.5979 -2.0436 X-RAY DIFFRACTION X-RAY DIFFRACTION 1 ALL author_and_software_defined_assembly PISA 1 monomeric A GLY 10 A O GLY 11 1_555 A MG 203 D MG MG 1_555 A ALA 59 A O ALA 60 1_555 109.5 A GLY 10 A O GLY 11 1_555 A MG 203 D MG MG 1_555 A GLY 60 A O GLY 61 1_555 93.4 A ALA 59 A O ALA 60 1_555 A MG 203 D MG MG 1_555 A GLY 60 A O GLY 61 1_555 87.4 A GLY 10 A O GLY 11 1_555 A MG 203 D MG MG 1_555 A TYR 96 A OH TYR 97 1_555 75.4 A ALA 59 A O ALA 60 1_555 A MG 203 D MG MG 1_555 A TYR 96 A OH TYR 97 1_555 174.2 A GLY 60 A O GLY 61 1_555 A MG 203 D MG MG 1_555 A TYR 96 A OH TYR 97 1_555 95.7 A GLY 10 A O GLY 11 1_555 A MG 203 D MG MG 1_555 A HOH 305 G O HOH 1_555 85.8 A ALA 59 A O ALA 60 1_555 A MG 203 D MG MG 1_555 A HOH 305 G O HOH 1_555 82.9 A GLY 60 A O GLY 61 1_555 A MG 203 D MG MG 1_555 A HOH 305 G O HOH 1_555 169.4 A TYR 96 A OH TYR 97 1_555 A MG 203 D MG MG 1_555 A HOH 305 G O HOH 1_555 94.4 A GLY 10 A O GLY 11 1_555 A MG 203 D MG MG 1_555 A HOH 365 G O HOH 1_555 152.7 A ALA 59 A O ALA 60 1_555 A MG 203 D MG MG 1_555 A HOH 365 G O HOH 1_555 97.8 A GLY 60 A O GLY 61 1_555 A MG 203 D MG MG 1_555 A HOH 365 G O HOH 1_555 90.3 A TYR 96 A OH TYR 97 1_555 A MG 203 D MG MG 1_555 A HOH 365 G O HOH 1_555 77.3 A HOH 305 G O HOH 1_555 A MG 203 D MG MG 1_555 A HOH 365 G O HOH 1_555 95.3 A SER 17 A OG SER 18 1_555 A MG 202 C MG MG 1_555 A THR 35 A OG1 THR 36 1_555 78.2 A SER 17 A OG SER 18 1_555 A MG 202 C MG MG 1_555 A GCP 201 B O1G GCP 1_555 166.6 A THR 35 A OG1 THR 36 1_555 A MG 202 C MG MG 1_555 A GCP 201 B O1G GCP 1_555 89.8 A SER 17 A OG SER 18 1_555 A MG 202 C MG MG 1_555 A GCP 201 B O2B GCP 1_555 94.2 A THR 35 A OG1 THR 36 1_555 A MG 202 C MG MG 1_555 A GCP 201 B O2B GCP 1_555 172.2 A GCP 201 B O1G GCP 1_555 A MG 202 C MG MG 1_555 A GCP 201 B O2B GCP 1_555 98.0 A SER 17 A OG SER 18 1_555 A MG 202 C MG MG 1_555 A HOH 301 G O HOH 1_555 84.0 A THR 35 A OG1 THR 36 1_555 A MG 202 C MG MG 1_555 A HOH 301 G O HOH 1_555 84.5 A GCP 201 B O1G GCP 1_555 A MG 202 C MG MG 1_555 A HOH 301 G O HOH 1_555 88.9 A GCP 201 B O2B GCP 1_555 A MG 202 C MG MG 1_555 A HOH 301 G O HOH 1_555 96.2 A SER 17 A OG SER 18 1_555 A MG 202 C MG MG 1_555 A HOH 302 G O HOH 1_555 93.8 A THR 35 A OG1 THR 36 1_555 A MG 202 C MG MG 1_555 A HOH 302 G O HOH 1_555 94.4 A GCP 201 B O1G GCP 1_555 A MG 202 C MG MG 1_555 A HOH 302 G O HOH 1_555 93.0 A GCP 201 B O2B GCP 1_555 A MG 202 C MG MG 1_555 A HOH 302 G O HOH 1_555 84.7 A HOH 301 G O HOH 1_555 A MG 202 C MG MG 1_555 A HOH 302 G O HOH 1_555 177.7 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 VAL 44 A N VAL 45 A O CYS 51 A O CYS 52 A O LEU 56 A O LEU 57 A N VAL 8 A N VAL 9 A N VAL 9 A N VAL 10 A O VAL 81 A O VAL 82 A N PHE 82 A N PHE 83 A O ASN 116 A O ASN 117 A N LEU 113 A N LEU 114 A O ILE 142 A O ILE 143 1 A CG LYS 175 A CG LYS 176 1 Y 1 A CD LYS 175 A CD LYS 176 1 Y 1 A CE LYS 175 A CE LYS 176 1 Y 1 A NZ LYS 175 A NZ LYS 176 1 Y 1 A CG LYS 176 A CG LYS 177 1 Y 1 A CD LYS 176 A CD LYS 177 1 Y 1 A CE LYS 176 A CE LYS 177 1 Y 1 A NZ LYS 176 A NZ LYS 177 1 Y 1 A CG LYS 177 A CG LYS 178 1 Y 1 A CD LYS 177 A CD LYS 178 1 Y 1 A CE LYS 177 A CE LYS 178 1 Y 1 A NZ LYS 177 A NZ LYS 178 1 Y 1 A CG LYS 178 A CG LYS 179 1 Y 1 A CD LYS 178 A CD LYS 179 1 Y 1 A CE LYS 178 A CE LYS 179 1 Y 1 A NZ LYS 178 A NZ LYS 179 1 Y 1 A CG LYS 179 A CG LYS 180 1 Y 1 A CD LYS 179 A CD LYS 180 1 Y 1 A CE LYS 179 A CE LYS 180 1 Y 1 A NZ LYS 179 A NZ LYS 180 1 Y 1 A CG LYS 180 A CG LYS 181 1 Y 1 A CD LYS 180 A CD LYS 181 1 Y 1 A CE LYS 180 A CE LYS 181 1 Y 1 A NZ LYS 180 A NZ LYS 181 1 Y 1 A GLY 0 A GLY 1 1 Y 1 A SER 181 A SER 182 1 Y 1 A LYS 182 A LYS 183 1 Y 1 A THR 183 A THR 184 1 Y 1 A LYS 184 A LYS 185 1 Y 1 A CYS 185 A CYS 186 1 Y 1 A VAL 186 A VAL 187 1 Y 1 A ILE 187 A ILE 188 1 Y 1 A MET 188 A MET 189 1 Y 1 A SER 122 -77.36 32.98 1 A ARG 149 81.81 -2.11 1 A ASP 173 55.68 -170.50 1 A LYS 176 62.44 -15.40 1 A LYS 177 69.68 143.24 1 A LYS 178 179.25 -178.64 1 A LYS 179 168.82 85.34 -6.6449 -0.0000 0.0000 -6.6449 -0.0000 13.2898 0.2059 0.1646 0.1667 2.03 25.558 568 11999 11431 4.97 98.71 0.17 5% 1 1.98 MOLECULAR REPLACEMENT 23.43 0.90 1.11 ML FLAT BULK SOLVENT MODEL 40.963 0.330 2.03 25.558 66 1525 42 0 1417 0.005 1503 1.021 2037 15.161 567 0.059 227 0.003 262 0.2730 0.2049 2.2315 122 2624 95.00 0.2527 0.1816 2.5542 139 2774 100.00 0.2403 0.1800 3.2170 147 2723 100.00 0.1711 0.1460 25.5595 160 2742 100.00 31.8 2.03 50 4DSN 11523 1 1 0.065 1 26.8 5.5 99.8 2.03 2.12 3.0 1123 0.461 1 5.0 data collection Blu-Ice phasing PHASER refinement PHENIX (phenix.refine: 1.6.4_486) data reduction HKL-2000 data scaling SCALEPACK Small-molecule ligands bind to a distinct pocket in Ras and inhibit SOS-mediated nucleotide exchange activity 1 N N 2 N N 3 N N 3 N N 4 N N 4 N N 5 N N A GLY 15 A GLY 16 HELX_P A ASN 26 A ASN 27 1 1 12 A TYR 64 A TYR 65 HELX_P A GLY 75 A GLY 76 1 2 12 A ASN 86 A ASN 87 HELX_P A ASP 105 A ASP 106 1 3 20 A ASP 126 A ASP 127 HELX_P A GLY 138 A GLY 139 1 4 13 A GLY 151 A GLY 152 HELX_P A ASP 173 A ASP 174 1 5 23 metalc 2.532 A GLY 10 A O GLY 11 1_555 A MG 203 D MG MG 1_555 metalc 2.319 A SER 17 A OG SER 18 1_555 A MG 202 C MG MG 1_555 metalc 2.235 A THR 35 A OG1 THR 36 1_555 A MG 202 C MG MG 1_555 metalc 2.506 A ALA 59 A O ALA 60 1_555 A MG 203 D MG MG 1_555 metalc 2.539 A GLY 60 A O GLY 61 1_555 A MG 203 D MG MG 1_555 metalc 2.389 A TYR 96 A OH TYR 97 1_555 A MG 203 D MG MG 1_555 metalc 2.134 A GCP 201 B O1G GCP 1_555 A MG 202 C MG MG 1_555 metalc 2.150 A GCP 201 B O2B GCP 1_555 A MG 202 C MG MG 1_555 metalc 2.276 A MG 202 C MG MG 1_555 A HOH 301 G O HOH 1_555 metalc 2.341 A MG 202 C MG MG 1_555 A HOH 302 G O HOH 1_555 metalc 2.502 A MG 203 D MG MG 1_555 A HOH 305 G O HOH 1_555 metalc 2.610 A MG 203 D MG MG 1_555 A HOH 365 G O HOH 1_555 HYDROLASE Small G-protein, signaling, HYDROLASE A LYS 177 A LYS 178 1 A LYS 178 A LYS 179 -5.94 RASK_HUMAN UNP 1 2 P01116 TEYKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCV FAINNTKSFEDIHHYREQIKRVKDSEDVPMVLVGNKCDLPSRTVDTKQAQDLARSYGIPFIETSAKTRQGVDDAFYTLVR EIRKHKEKMSKDGKKKKKKSKTKCVIM 2 188 4DSN 2 188 P01116 A 1 3 189 1 expression tag GLY 0 4DSN A P01116 UNP 1 1 expression tag SER 1 4DSN A P01116 UNP 2 1 GLY engineered mutation ASP 12 4DSN A P01116 UNP 12 13 6 anti-parallel parallel parallel parallel parallel A GLU 37 A GLU 38 A ILE 46 A ILE 47 A GLU 49 A GLU 50 A THR 58 A THR 59 A GLU 3 A GLU 4 A VAL 9 A VAL 10 A GLY 77 A GLY 78 A ALA 83 A ALA 84 A MET 111 A MET 112 A ASN 116 A ASN 117 A PHE 141 A PHE 142 A GLU 143 A GLU 144 BINDING SITE FOR RESIDUE GCP A 201 A GCP 201 Software 30 BINDING SITE FOR RESIDUE MG A 202 A MG 202 Software 5 BINDING SITE FOR RESIDUE MG A 203 A MG 203 Software 6 BINDING SITE FOR RESIDUE EDO A 204 A EDO 204 Software 4 BINDING SITE FOR RESIDUE EDO A 205 A EDO 205 Software 5 A ASP 12 A ASP 13 30 1_555 A GLY 13 A GLY 14 30 1_555 A VAL 14 A VAL 15 30 1_555 A GLY 15 A GLY 16 30 1_555 A LYS 16 A LYS 17 30 1_555 A SER 17 A SER 18 30 1_555 A ALA 18 A ALA 19 30 1_555 A PHE 28 A PHE 29 30 1_555 A VAL 29 A VAL 30 30 1_555 A ASP 30 A ASP 31 30 1_555 A GLU 31 A GLU 32 30 1_555 A TYR 32 A TYR 33 30 1_555 A PRO 34 A PRO 35 30 1_555 A THR 35 A THR 36 30 1_555 A GLY 60 A GLY 61 30 1_555 A ASN 116 A ASN 117 30 1_555 A LYS 117 A LYS 118 30 1_555 A ASP 119 A ASP 120 30 1_555 A LEU 120 A LEU 121 30 1_555 A SER 145 A SER 146 30 1_555 A ALA 146 A ALA 147 30 1_555 A LYS 147 A LYS 148 30 1_555 A MG 202 C MG 30 1_555 A HOH 301 G HOH 30 1_555 A HOH 302 G HOH 30 1_555 A HOH 303 G HOH 30 1_555 A HOH 309 G HOH 30 1_555 A HOH 319 G HOH 30 1_555 A HOH 333 G HOH 30 1_555 A HOH 336 G HOH 30 1_555 A SER 17 A SER 18 5 1_555 A THR 35 A THR 36 5 1_555 A GCP 201 B GCP 5 1_555 A HOH 301 G HOH 5 1_555 A HOH 302 G HOH 5 1_555 A GLY 10 A GLY 11 6 1_555 A ALA 59 A ALA 60 6 1_555 A GLY 60 A GLY 61 6 1_555 A TYR 96 A TYR 97 6 1_555 A HOH 305 G HOH 6 1_555 A HOH 365 G HOH 6 1_555 A LYS 101 A LYS 102 4 1_555 A ASP 105 A ASP 106 4 1_555 A SER 106 A SER 107 4 1_555 A GLU 107 A GLU 108 4 1_555 A THR 35 A THR 36 5 1_555 A ILE 36 A ILE 37 5 1_555 A GLU 37 A GLU 38 5 1_555 A ASP 38 A ASP 39 5 1_555 A THR 148 A THR 149 5 6_555 146 H 3