0.020188 0.000000 0.000000 0.000000 0.018041 0.000000 0.000000 0.000000 0.016618 0.000000 0.000000 0.000000 Constantinescu, A.-T. Rak, A. Scheidig, A.J. http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 4 90.00 90.00 90.00 49.535 55.430 60.177 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 C10 H15 N5 O11 P2 443.201 n GUANOSINE-5'-DIPHOSPHATE RNA 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 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 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 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 P N 89 N O N 90 N O N 91 N O N 92 N O N 93 N P N 94 N O N 95 N O N 96 N O N 97 N C N 98 R C N 99 N O N 100 S C N 101 N O N 102 R C N 103 N O N 104 R C Y 105 N N Y 106 N C Y 107 N N Y 108 N C N 109 N C N 110 N O N 111 N N N 112 N C N 113 N N N 114 N N Y 115 N C N 116 N H N 117 N H N 118 N H 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 H N 129 N H N 130 N H N 131 N N N 132 S C N 133 N C N 134 N O N 135 N C N 136 N C N 137 N C N 138 N O N 139 N N N 140 N O 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 H N 149 N H N 150 N H N 151 N N N 152 S C N 153 N C N 154 N O N 155 N C N 156 N C N 157 N C N 158 N O N 159 N O N 160 N O 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 H N 170 N N N 171 N C N 172 N C N 173 N O 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 N N 181 S C N 182 N C N 183 N O N 184 N C Y 185 N C Y 186 N N Y 187 N C Y 188 N C Y 189 N N N 190 N O N 191 N H N 192 N H N 193 N H 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 O N 202 N H N 203 N H N 204 N N N 205 S C N 206 N C N 207 N O N 208 S C N 209 N C N 210 N C N 211 N C N 212 N O N 213 N H N 214 N H N 215 N H N 216 N H N 217 N H 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 N N 227 S C N 228 N C N 229 N O N 230 N C N 231 N C N 232 N C N 233 N C N 234 N O 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 H N 244 N H N 245 N H N 246 N H N 247 N H N 248 N N N 249 S C N 250 N C N 251 N O N 252 N C N 253 N C N 254 N C N 255 N C N 256 N N N 257 N O 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 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 C N 279 N S N 280 N C N 281 N O 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 H N 291 N H N 292 N H N 293 N MG N 294 N N N 295 S C N 296 N C N 297 N O N 298 N C Y 299 N C Y 300 N C Y 301 N C Y 302 N C Y 303 N C Y 304 N C N 305 N O N 306 N H N 307 N H N 308 N H N 309 N H 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 N C N 322 N C 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 N 339 N O N 340 N O 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 N N 349 S C N 350 N C N 351 N O N 352 R C N 353 N O N 354 N C N 355 N O N 356 N H N 357 N H 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 N C Y 370 N C Y 371 N C Y 372 N C Y 373 N N Y 374 N C Y 375 N C Y 376 N C Y 377 N C Y 378 N C N 379 N O N 380 N H N 381 N H N 382 N H N 383 N H N 384 N H N 385 N H N 386 N H N 387 N H N 388 N H N 389 N H N 390 N H N 391 N H N 392 N N N 393 S C N 394 N C N 395 N O N 396 N C Y 397 N C Y 398 N C Y 399 N C Y 400 N C Y 401 N C Y 402 N C N 403 N O N 404 N O N 405 N H N 406 N H N 407 N H N 408 N H N 409 N H N 410 N H N 411 N H N 412 N H N 413 N H N 414 N H N 415 N H N 416 N N N 417 S C N 418 N C N 419 N O N 420 N C N 421 N C N 422 N C N 423 N O N 424 N H N 425 N H N 426 N H N 427 N H N 428 N H N 429 N H N 430 N H N 431 N H N 432 N H N 433 N H N 434 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 doub 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 doub 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 sing 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 sing N 109 N sing N 110 N sing N 111 N sing Y 112 N sing Y 113 N sing Y 114 N doub N 115 N sing Y 116 N sing N 117 N sing Y 118 N doub N 119 N doub N 120 N sing N 121 N sing N 122 N sing N 123 N sing N 124 N doub N 125 N sing N 126 N sing 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 doub 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 doub N 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 sing N 151 N sing N 152 N sing N 153 N doub 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 doub 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 doub 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 doub N 181 N sing N 182 N sing N 183 N sing N 184 N sing Y 185 N sing Y 186 N doub Y 187 N doub N 188 N sing Y 189 N sing N 190 N sing Y 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 sing N 223 N sing N 224 N doub 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 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 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 doub 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 sing N 286 N sing N 287 N sing N 288 N doub N 289 N sing N 290 N sing N 291 N sing N 292 N sing Y 293 N doub Y 294 N sing Y 295 N sing N 296 N sing Y 297 N doub N 298 N sing Y 299 N doub N 300 N sing Y 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 sing N 309 N sing N 310 N sing N 311 N doub 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 sing N 325 N sing N 326 N sing N 327 N sing N 328 N doub 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 doub 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 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 Y 362 N doub Y 363 N sing Y 364 N sing N 365 N sing Y 366 N doub Y 367 N sing Y 368 N sing N 369 N sing Y 370 N sing Y 371 N doub N 372 N sing Y 373 N doub N 374 N sing Y 375 N sing N 376 N sing 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 doub N 386 N sing N 387 N sing N 388 N sing N 389 N sing Y 390 N doub Y 391 N sing Y 392 N sing N 393 N sing Y 394 N doub N 395 N sing Y 396 N doub N 397 N sing Y 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 N 409 N doub N 410 N sing N 411 N sing N 412 N sing N 413 N sing N 414 N sing N 415 N sing N 416 N sing N 417 N sing N 418 N sing N 419 N sing N 420 N sing UK Structure STRUE6 2005 0969-2126 10 569 579 10.1016/S0969-2126(02)00737-2 11937061 Rab-subfamily-specific regions of Ypt7p are structurally different from other RabGTPases. 2002 10.2210/pdb1ky3/pdb pdb_00001ky3 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 100 1 MIRROR CCD 2000-11-10 MARRESEARCH MIRROR SINGLE WAVELENGTH M x-ray 1 0.934 1.0 ID14-1 ESRF 0.934 0.934 SYNCHROTRON ESRF BEAMLINE ID14-1 20159.760 GTP-BINDING PROTEIN YPT7P GTPASE DOMAIN 1 man polymer 24.305 MAGNESIUM ION 1 syn non-polymer 443.201 GUANOSINE-5'-DIPHOSPHATE 1 syn non-polymer 18.015 water 172 nat water GTP-BINDING PROTEIN YPT7 no no MSSRKKNILKVIILGDSGVGKTSLMHRYVNDKYSQQYKATIGADFLTKEVTVDGDKVATMQVWDTAGQERFQSLGVAFYR GADCCVLVYDVTNASSFENIKSWRDEFLVHANVNSPETFPFVILGNKIDAEESKKIVSEKSAQELAKSLGDIPLFLTSAK NAINVDTAFEEIARSALQQNQA MSSRKKNILKVIILGDSGVGKTSLMHRYVNDKYSQQYKATIGADFLTKEVTVDGDKVATMQVWDTAGQERFQSLGVAFYR GADCCVLVYDVTNASSFENIKSWRDEFLVHANVNSPETFPFVILGNKIDAEESKKIVSEKSAQELAKSLGDIPLFLTSAK NAINVDTAFEEIARSALQQNQA 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 baker's yeast Saccharomyces Escherichia Escherichia coli sample ypt7 4932 Saccharomyces cerevisiae 469008 Escherichia coli BL21(DE3) BL21/DE3 plasmid PET11 1 1.98 39.96 VAPOR DIFFUSION, HANGING DROP 7.0 PEG, HEPES, GDP, pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 298K 298 pdbx_unobs_or_zero_occ_atoms software chem_comp_atom chem_comp_bond database_2 pdbx_struct_conn_angle pdbx_unobs_or_zero_occ_atoms struct_conn struct_site pdbx_initial_refinement_model repository Initial release Version format compliance Version format compliance Advisory Refinement description Advisory Data collection Database references Derived calculations Refinement description 1 0 2002-06-05 1 1 2008-04-28 1 2 2011-07-13 1 3 2017-10-11 1 4 2024-02-14 1 5 2024-04-03 _software.classification _software.name _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.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_conn.ptnr2_label_seq_id _struct_site.pdbx_auth_asym_id _struct_site.pdbx_auth_comp_id _struct_site.pdbx_auth_seq_id 1ky2 is GPPNHP-bound Ypt7p. RCSB Y RCSB 2002-02-02 REL REL MG MAGNESIUM ION GDP GUANOSINE-5'-DIPHOSPHATE HOH water YPT7-GPPNHP Other experimental model MG 401 2 MG MG 401 A GDP 400 3 GDP GDP 400 A HOH 500 4 HOH HOH 500 A HOH 501 4 HOH HOH 501 A HOH 502 4 HOH HOH 502 A HOH 503 4 HOH HOH 503 A HOH 504 4 HOH HOH 504 A HOH 505 4 HOH HOH 505 A HOH 506 4 HOH HOH 506 A HOH 507 4 HOH HOH 507 A HOH 508 4 HOH HOH 508 A HOH 509 4 HOH HOH 509 A HOH 510 4 HOH HOH 510 A HOH 511 4 HOH HOH 511 A HOH 512 4 HOH HOH 512 A HOH 513 4 HOH HOH 513 A HOH 514 4 HOH HOH 514 A HOH 515 4 HOH HOH 515 A HOH 516 4 HOH HOH 516 A HOH 517 4 HOH HOH 517 A HOH 518 4 HOH HOH 518 A HOH 519 4 HOH HOH 519 A HOH 520 4 HOH HOH 520 A HOH 521 4 HOH HOH 521 A HOH 522 4 HOH HOH 522 A HOH 523 4 HOH HOH 523 A HOH 524 4 HOH HOH 524 A HOH 525 4 HOH HOH 525 A HOH 526 4 HOH HOH 526 A HOH 527 4 HOH HOH 527 A HOH 528 4 HOH HOH 528 A HOH 529 4 HOH HOH 529 A HOH 530 4 HOH HOH 530 A HOH 531 4 HOH HOH 531 A HOH 532 4 HOH HOH 532 A HOH 533 4 HOH HOH 533 A HOH 534 4 HOH HOH 534 A HOH 535 4 HOH HOH 535 A HOH 536 4 HOH HOH 536 A HOH 537 4 HOH HOH 537 A HOH 538 4 HOH HOH 538 A HOH 539 4 HOH HOH 539 A HOH 540 4 HOH HOH 540 A HOH 541 4 HOH HOH 541 A HOH 542 4 HOH HOH 542 A HOH 543 4 HOH HOH 543 A HOH 544 4 HOH HOH 544 A HOH 545 4 HOH HOH 545 A HOH 546 4 HOH HOH 546 A HOH 547 4 HOH HOH 547 A HOH 548 4 HOH HOH 548 A HOH 549 4 HOH HOH 549 A HOH 550 4 HOH HOH 550 A HOH 551 4 HOH HOH 551 A HOH 552 4 HOH HOH 552 A HOH 553 4 HOH HOH 553 A HOH 554 4 HOH HOH 554 A HOH 555 4 HOH HOH 555 A HOH 556 4 HOH HOH 556 A HOH 557 4 HOH HOH 557 A HOH 558 4 HOH HOH 558 A HOH 559 4 HOH HOH 559 A HOH 560 4 HOH HOH 560 A HOH 561 4 HOH HOH 561 A HOH 562 4 HOH HOH 562 A HOH 563 4 HOH HOH 563 A HOH 564 4 HOH HOH 564 A HOH 565 4 HOH HOH 565 A HOH 566 4 HOH HOH 566 A HOH 567 4 HOH HOH 567 A HOH 568 4 HOH HOH 568 A HOH 569 4 HOH HOH 569 A HOH 570 4 HOH HOH 570 A HOH 571 4 HOH HOH 571 A HOH 572 4 HOH HOH 572 A HOH 573 4 HOH HOH 573 A HOH 574 4 HOH HOH 574 A HOH 575 4 HOH HOH 575 A HOH 576 4 HOH HOH 576 A HOH 577 4 HOH HOH 577 A HOH 578 4 HOH HOH 578 A HOH 579 4 HOH HOH 579 A HOH 580 4 HOH HOH 580 A HOH 581 4 HOH HOH 581 A HOH 582 4 HOH HOH 582 A HOH 583 4 HOH HOH 583 A HOH 584 4 HOH HOH 584 A HOH 585 4 HOH HOH 585 A HOH 586 4 HOH HOH 586 A HOH 587 4 HOH HOH 587 A HOH 588 4 HOH HOH 588 A HOH 589 4 HOH HOH 589 A HOH 590 4 HOH HOH 590 A HOH 591 4 HOH HOH 591 A HOH 592 4 HOH HOH 592 A HOH 593 4 HOH HOH 593 A HOH 594 4 HOH HOH 594 A HOH 595 4 HOH HOH 595 A HOH 596 4 HOH HOH 596 A HOH 597 4 HOH HOH 597 A HOH 598 4 HOH HOH 598 A HOH 599 4 HOH HOH 599 A HOH 600 4 HOH HOH 600 A HOH 601 4 HOH HOH 601 A HOH 602 4 HOH HOH 602 A HOH 603 4 HOH HOH 603 A HOH 604 4 HOH HOH 604 A HOH 605 4 HOH HOH 605 A HOH 606 4 HOH HOH 606 A HOH 607 4 HOH HOH 607 A HOH 608 4 HOH HOH 608 A HOH 609 4 HOH HOH 609 A HOH 610 4 HOH HOH 610 A HOH 611 4 HOH HOH 611 A HOH 612 4 HOH HOH 612 A HOH 613 4 HOH HOH 613 A HOH 614 4 HOH HOH 614 A HOH 615 4 HOH HOH 615 A HOH 616 4 HOH HOH 616 A HOH 617 4 HOH HOH 617 A HOH 618 4 HOH HOH 618 A HOH 619 4 HOH HOH 619 A HOH 620 4 HOH HOH 620 A HOH 621 4 HOH HOH 621 A HOH 622 4 HOH HOH 622 A HOH 623 4 HOH HOH 623 A HOH 624 4 HOH HOH 624 A HOH 625 4 HOH HOH 625 A HOH 626 4 HOH HOH 626 A HOH 627 4 HOH HOH 627 A HOH 628 4 HOH HOH 628 A HOH 629 4 HOH HOH 629 A HOH 630 4 HOH HOH 630 A HOH 631 4 HOH HOH 631 A HOH 632 4 HOH HOH 632 A HOH 633 4 HOH HOH 633 A HOH 634 4 HOH HOH 634 A HOH 635 4 HOH HOH 635 A HOH 636 4 HOH HOH 636 A HOH 637 4 HOH HOH 637 A HOH 638 4 HOH HOH 638 A HOH 639 4 HOH HOH 639 A HOH 640 4 HOH HOH 640 A HOH 641 4 HOH HOH 641 A HOH 642 4 HOH HOH 642 A HOH 643 4 HOH HOH 643 A HOH 644 4 HOH HOH 644 A HOH 645 4 HOH HOH 645 A HOH 646 4 HOH HOH 646 A HOH 647 4 HOH HOH 647 A HOH 648 4 HOH HOH 648 A HOH 649 4 HOH HOH 649 A HOH 650 4 HOH HOH 650 A HOH 651 4 HOH HOH 651 A HOH 652 4 HOH HOH 652 A HOH 653 4 HOH HOH 653 A HOH 654 4 HOH HOH 654 A HOH 655 4 HOH HOH 655 A HOH 656 4 HOH HOH 656 A HOH 657 4 HOH HOH 657 A HOH 658 4 HOH HOH 658 A HOH 659 4 HOH HOH 659 A HOH 660 4 HOH HOH 660 A HOH 661 4 HOH HOH 661 A HOH 662 4 HOH HOH 662 A HOH 663 4 HOH HOH 663 A HOH 664 4 HOH HOH 664 A HOH 665 4 HOH HOH 665 A HOH 666 4 HOH HOH 666 A HOH 667 4 HOH HOH 667 A HOH 668 4 HOH HOH 668 A HOH 669 4 HOH HOH 669 A HOH 670 4 HOH HOH 670 A HOH 671 4 HOH HOH 671 A n 1 1 A n 2 2 A n 3 3 A n 4 4 A n 5 5 A n 6 6 A ASN 7 n 7 ASN 7 A ILE 8 n 8 ILE 8 A LEU 9 n 9 LEU 9 A LYS 10 n 10 LYS 10 A VAL 11 n 11 VAL 11 A ILE 12 n 12 ILE 12 A ILE 13 n 13 ILE 13 A LEU 14 n 14 LEU 14 A GLY 15 n 15 GLY 15 A ASP 16 n 16 ASP 16 A SER 17 n 17 SER 17 A GLY 18 n 18 GLY 18 A VAL 19 n 19 VAL 19 A GLY 20 n 20 GLY 20 A LYS 21 n 21 LYS 21 A THR 22 n 22 THR 22 A SER 23 n 23 SER 23 A LEU 24 n 24 LEU 24 A MET 25 n 25 MET 25 A HIS 26 n 26 HIS 26 A ARG 27 n 27 ARG 27 A TYR 28 n 28 TYR 28 A VAL 29 n 29 VAL 29 A ASN 30 n 30 ASN 30 A ASP 31 n 31 ASP 31 A LYS 32 n 32 LYS 32 A TYR 33 n 33 TYR 33 A SER 34 n 34 SER 34 A GLN 35 n 35 GLN 35 A GLN 36 n 36 GLN 36 A TYR 37 n 37 TYR 37 A n 38 38 A n 39 39 A n 40 40 A ILE 41 n 41 ILE 41 A GLY 42 n 42 GLY 42 A ALA 43 n 43 ALA 43 A ASP 44 n 44 ASP 44 A PHE 45 n 45 PHE 45 A LEU 46 n 46 LEU 46 A THR 47 n 47 THR 47 A LYS 48 n 48 LYS 48 A GLU 49 n 49 GLU 49 A VAL 50 n 50 VAL 50 A THR 51 n 51 THR 51 A VAL 52 n 52 VAL 52 A ASP 53 n 53 ASP 53 A GLY 54 n 54 GLY 54 A ASP 55 n 55 ASP 55 A LYS 56 n 56 LYS 56 A VAL 57 n 57 VAL 57 A ALA 58 n 58 ALA 58 A THR 59 n 59 THR 59 A MET 60 n 60 MET 60 A GLN 61 n 61 GLN 61 A VAL 62 n 62 VAL 62 A TRP 63 n 63 TRP 63 A ASP 64 n 64 ASP 64 A THR 65 n 65 THR 65 A ALA 66 n 66 ALA 66 A n 67 67 A n 68 68 A n 69 69 A n 70 70 A n 71 71 A n 72 72 A n 73 73 A n 74 74 A n 75 75 A n 76 76 A ALA 77 n 77 ALA 77 A PHE 78 n 78 PHE 78 A TYR 79 n 79 TYR 79 A ARG 80 n 80 ARG 80 A GLY 81 n 81 GLY 81 A ALA 82 n 82 ALA 82 A ASP 83 n 83 ASP 83 A CYS 84 n 84 CYS 84 A CYS 85 n 85 CYS 85 A VAL 86 n 86 VAL 86 A LEU 87 n 87 LEU 87 A VAL 88 n 88 VAL 88 A TYR 89 n 89 TYR 89 A ASP 90 n 90 ASP 90 A VAL 91 n 91 VAL 91 A THR 92 n 92 THR 92 A ASN 93 n 93 ASN 93 A ALA 94 n 94 ALA 94 A SER 95 n 95 SER 95 A SER 96 n 96 SER 96 A PHE 97 n 97 PHE 97 A GLU 98 n 98 GLU 98 A ASN 99 n 99 ASN 99 A ILE 100 n 100 ILE 100 A LYS 101 n 101 LYS 101 A SER 102 n 102 SER 102 A TRP 103 n 103 TRP 103 A ARG 104 n 104 ARG 104 A ASP 105 n 105 ASP 105 A GLU 106 n 106 GLU 106 A PHE 107 n 107 PHE 107 A LEU 108 n 108 LEU 108 A VAL 109 n 109 VAL 109 A HIS 110 n 110 HIS 110 A ALA 111 n 111 ALA 111 A ASN 112 n 112 ASN 112 A VAL 113 n 113 VAL 113 A ASN 114 n 114 ASN 114 A SER 115 n 115 SER 115 A PRO 116 n 116 PRO 116 A GLU 117 n 117 GLU 117 A THR 118 n 118 THR 118 A PHE 119 n 119 PHE 119 A PRO 120 n 120 PRO 120 A PHE 121 n 121 PHE 121 A VAL 122 n 122 VAL 122 A ILE 123 n 123 ILE 123 A LEU 124 n 124 LEU 124 A GLY 125 n 125 GLY 125 A ASN 126 n 126 ASN 126 A LYS 127 n 127 LYS 127 A ILE 128 n 128 ILE 128 A ASP 129 n 129 ASP 129 A ALA 130 n 130 ALA 130 A GLU 131 n 131 GLU 131 A GLU 132 n 132 GLU 132 A SER 133 n 133 SER 133 A LYS 134 n 134 LYS 134 A LYS 135 n 135 LYS 135 A ILE 136 n 136 ILE 136 A VAL 137 n 137 VAL 137 A SER 138 n 138 SER 138 A GLU 139 n 139 GLU 139 A LYS 140 n 140 LYS 140 A SER 141 n 141 SER 141 A ALA 142 n 142 ALA 142 A GLN 143 n 143 GLN 143 A GLU 144 n 144 GLU 144 A LEU 145 n 145 LEU 145 A ALA 146 n 146 ALA 146 A LYS 147 n 147 LYS 147 A SER 148 n 148 SER 148 A LEU 149 n 149 LEU 149 A GLY 150 n 150 GLY 150 A ASP 151 n 151 ASP 151 A ILE 152 n 152 ILE 152 A PRO 153 n 153 PRO 153 A LEU 154 n 154 LEU 154 A PHE 155 n 155 PHE 155 A LEU 156 n 156 LEU 156 A THR 157 n 157 THR 157 A SER 158 n 158 SER 158 A ALA 159 n 159 ALA 159 A LYS 160 n 160 LYS 160 A ASN 161 n 161 ASN 161 A ALA 162 n 162 ALA 162 A ILE 163 n 163 ILE 163 A ASN 164 n 164 ASN 164 A VAL 165 n 165 VAL 165 A ASP 166 n 166 ASP 166 A THR 167 n 167 THR 167 A ALA 168 n 168 ALA 168 A PHE 169 n 169 PHE 169 A GLU 170 n 170 GLU 170 A GLU 171 n 171 GLU 171 A ILE 172 n 172 ILE 172 A ALA 173 n 173 ALA 173 A ARG 174 n 174 ARG 174 A SER 175 n 175 SER 175 A ALA 176 n 176 ALA 176 A LEU 177 n 177 LEU 177 A GLN 178 n 178 GLN 178 A GLN 179 n 179 GLN 179 A ASN 180 n 180 ASN 180 A GLN 181 n 181 GLN 181 A n 182 182 A 0.1660000 0.1630000 0.2340000 2413 6.6 author_defined_assembly 1 monomeric A THR 22 A OG1 THR 22 1_555 A MG 401 B MG MG 1_555 A GDP 400 C O3B GDP 1_555 89.3 A THR 22 A OG1 THR 22 1_555 A MG 401 B MG MG 1_555 A HOH 583 D O HOH 1_555 90.1 A GDP 400 C O3B GDP 1_555 A MG 401 B MG MG 1_555 A HOH 583 D O HOH 1_555 175.1 A THR 22 A OG1 THR 22 1_555 A MG 401 B MG MG 1_555 A HOH 584 D O HOH 1_555 91.8 A GDP 400 C O3B GDP 1_555 A MG 401 B MG MG 1_555 A HOH 584 D O HOH 1_555 87.0 A HOH 583 D O HOH 1_555 A MG 401 B MG MG 1_555 A HOH 584 D O HOH 1_555 88.2 A THR 22 A OG1 THR 22 1_555 A MG 401 B MG MG 1_555 A HOH 585 D O HOH 1_555 175.8 A GDP 400 C O3B GDP 1_555 A MG 401 B MG MG 1_555 A HOH 585 D O HOH 1_555 94.9 A HOH 583 D O HOH 1_555 A MG 401 B MG MG 1_555 A HOH 585 D O HOH 1_555 85.7 A HOH 584 D O HOH 1_555 A MG 401 B MG MG 1_555 A HOH 585 D O HOH 1_555 88.5 A THR 22 A OG1 THR 22 1_555 A MG 401 B MG MG 1_555 A HOH 586 D O HOH 1_555 90.4 A GDP 400 C O3B GDP 1_555 A MG 401 B MG MG 1_555 A HOH 586 D O HOH 1_555 96.9 A HOH 583 D O HOH 1_555 A MG 401 B MG MG 1_555 A HOH 586 D O HOH 1_555 88.0 A HOH 584 D O HOH 1_555 A MG 401 B MG MG 1_555 A HOH 586 D O HOH 1_555 175.6 A HOH 585 D O HOH 1_555 A MG 401 B MG MG 1_555 A HOH 586 D O HOH 1_555 89.0 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 50 A N VAL 50 A O ALA 58 A O ALA 58 A O GLN 61 A O GLN 61 A N LEU 9 A N LEU 9 A N LEU 14 A N LEU 14 A O VAL 86 A O VAL 86 A N TYR 89 A N TYR 89 A O ASN 126 A O ASN 126 A N GLY 125 A N GLY 125 A O THR 157 A O THR 157 1 A CB ASN 7 A CB ASN 7 0 Y 1 A CG ASN 7 A CG ASN 7 0 Y 1 A OD1 ASN 7 A OD1 ASN 7 0 Y 1 A ND2 ASN 7 A ND2 ASN 7 0 Y 1 A CB GLN 35 A CB GLN 35 0 Y 1 A CG GLN 35 A CG GLN 35 0 Y 1 A CD GLN 35 A CD GLN 35 0 Y 1 A OE1 GLN 35 A OE1 GLN 35 0 Y 1 A NE2 GLN 35 A NE2 GLN 35 0 Y 1 A CG GLN 36 A CG GLN 36 0 Y 1 A CD GLN 36 A CD GLN 36 0 Y 1 A OE1 GLN 36 A OE1 GLN 36 0 Y 1 A NE2 GLN 36 A NE2 GLN 36 0 Y 1 A MET 1 A MET 1 1 Y 1 A SER 2 A SER 2 1 Y 1 A SER 3 A SER 3 1 Y 1 A ARG 4 A ARG 4 1 Y 1 A LYS 5 A LYS 5 1 Y 1 A LYS 6 A LYS 6 1 Y 1 A LYS 38 A LYS 38 1 Y 1 A ALA 39 A ALA 39 1 Y 1 A THR 40 A THR 40 1 Y 1 A GLY 67 A GLY 67 1 Y 1 A GLN 68 A GLN 68 1 Y 1 A GLU 69 A GLU 69 1 Y 1 A ARG 70 A ARG 70 1 Y 1 A PHE 71 A PHE 71 1 Y 1 A GLN 72 A GLN 72 1 Y 1 A SER 73 A SER 73 1 Y 1 A LEU 74 A LEU 74 1 Y 1 A GLY 75 A GLY 75 1 Y 1 A VAL 76 A VAL 76 1 Y 1 A ALA 182 A ALA 182 1 Y 1 4.02 0.50 120.30 124.32 A A A NE CZ NH1 ARG ARG ARG 27 27 27 N 1 5.84 0.90 118.30 124.14 A A A CB CG OD2 ASP ASP ASP 64 64 64 N 1 A ASP 53 -33.61 56.69 1 A ASP 55 56.69 -113.76 1 A LYS 127 73.64 34.61 20.1 -0.10 0.00 0.00 2.01 0.00 -1.92 0.2270000 0.1610000 0.1910000 0.1910000 1.35 22.61 2413 36545 36545 6.6 98.4 RANDOM 1065395.08 0.000000 1 RESTRAINED THROUGHOUT 0.0 0.0 MOLECULAR REPLACEMENT YPT7-GPPNHP ENGH AND HUBER 0.19 0.17 5.00 0.14 0.15 1.35 22.61 172 1472 29 0 1271 0.012 0.029 0.000 0.0282 0.053 0.069 0.014 0.005 0.062 0.083 0.3650000 0.020 0.3230000 1.45 342 5543 6 5.8 97.1 14.7 1.35 25.0 1KY3 36543 36543 0.0 0.0 0.0810000 1 15.77 5.4 98.6 0.3080000 1.35 1.45 4.33 6841 4.2 97.3 phasing AMoRE refinement SHELXL-97 data collection MAR345 data scaling XDS GDP-BOUND YPT7P AT 1.35 A RESOLUTION 1 N N 2 N N 3 N N 4 N N A GLY 20 A GLY 20 HELX_P A ASP 31 A ASP 31 1 1 12 A ASN 93 A ASN 93 HELX_P A ASN 99 A ASN 99 1 2 7 A ASN 99 A ASN 99 HELX_P A ASN 112 A ASN 112 1 3 14 A GLU 131 A GLU 131 HELX_P A LYS 135 A LYS 135 5 4 5 A SER 138 A SER 138 HELX_P A LEU 149 A LEU 149 1 5 12 A ASN 164 A ASN 164 HELX_P A GLN 181 A GLN 181 1 6 18 metalc 2.083 A THR 22 A OG1 THR 22 1_555 A MG 401 B MG MG 1_555 metalc 2.012 A GDP 400 C O3B GDP 1_555 A MG 401 B MG MG 1_555 metalc 2.059 A MG 401 B MG MG 1_555 A HOH 583 D O HOH 1_555 metalc 2.175 A MG 401 B MG MG 1_555 A HOH 584 D O HOH 1_555 metalc 2.157 A MG 401 B MG MG 1_555 A HOH 585 D O HOH 1_555 metalc 2.034 A MG 401 B MG MG 1_555 A HOH 586 D O HOH 1_555 ENDOCYTOSIS/EXOCYTOSIS G PROTEIN, VESICULAR TRAFFIC, GTP HYDROLYSIS, YPT/RAB PROTEIN, ENDOCYTOSIS, HYDROLASE, ENDOCYTOSIS-EXOCYTOSIS COMPLEX YPT7_YEAST UNP 1 1 P32939 MSSRKKNILKVIILGDSGVGKTSLMHRYVNDKYSQQYKATIGADFLTKEVTVDGDKVATMQVWDTAGQERFQSLGVAFYR GADCCVLVYDVTNASSFENIKSWRDEFLVHANVNSPETFPFVILGNKIDAEESKKIVSEKSAQELAKSLGDIPLFLTSAK NAINVDTAFEEIARSALQQNQA 1 182 1KY3 1 182 P32939 A 1 1 182 6 anti-parallel parallel parallel parallel parallel A LEU 46 A LEU 46 A VAL 50 A VAL 50 A ALA 58 A ALA 58 A TRP 63 A TRP 63 A ILE 8 A ILE 8 A LEU 14 A LEU 14 A CYS 84 A CYS 84 A ASP 90 A ASP 90 A PHE 121 A PHE 121 A ASN 126 A ASN 126 A LEU 154 A LEU 154 A THR 157 A THR 157 BINDING SITE FOR RESIDUE MG A 401 A MG 401 Software 6 BINDING SITE FOR RESIDUE GDP A 400 A GDP 400 Software 20 A THR 22 A THR 22 6 1_555 A GDP 400 C GDP 6 1_555 A HOH 583 D HOH 6 1_555 A HOH 584 D HOH 6 1_555 A HOH 585 D HOH 6 1_555 A HOH 586 D HOH 6 1_555 A GLY 18 A GLY 18 20 1_555 A VAL 19 A VAL 19 20 1_555 A GLY 20 A GLY 20 20 1_555 A LYS 21 A LYS 21 20 1_555 A THR 22 A THR 22 20 1_555 A SER 23 A SER 23 20 1_555 A TYR 33 A TYR 33 20 1_555 A ASN 126 A ASN 126 20 1_555 A LYS 127 A LYS 127 20 1_555 A ASP 129 A ASP 129 20 1_555 A SER 158 A SER 158 20 1_555 A ALA 159 A ALA 159 20 1_555 A LYS 160 A LYS 160 20 1_555 A MG 401 B MG 20 1_555 A HOH 553 D HOH 20 1_555 A HOH 584 D HOH 20 1_555 A HOH 585 D HOH 20 1_555 A HOH 586 D HOH 20 1_555 A HOH 587 D HOH 20 1_555 A HOH 649 D HOH 20 1_555 19 P 21 21 21