0.016401 0.000000 0.000000 0.000000 0.016401 0.000000 0.000000 0.000000 0.006593 0.00000 0.00000 0.00000 Chrencik, J.E. Kuhn, P. Accelerated Technologies Center for Gene to 3D Structure (ATCG3D) http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 8 90.00 90.00 90.00 60.972 60.972 151.681 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 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 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 O4 S -2 96.063 SULFATE ION non-polymer 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 N N 89 S C N 90 N C N 91 N O N 92 N C N 93 N C N 94 N C N 95 N O N 96 N N N 97 N O N 98 N H N 99 N H N 100 N H N 101 N H N 102 N H N 103 N H N 104 N H N 105 N H N 106 N H N 107 N H N 108 N N N 109 S C N 110 N C N 111 N O N 112 N C N 113 N C N 114 N C N 115 N O 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 H N 124 N H N 125 N H N 126 N H N 127 N N N 128 N C N 129 N C N 130 N O N 131 N O N 132 N H N 133 N H N 134 N H N 135 N H N 136 N H N 137 N N N 138 S C N 139 N C N 140 N O N 141 N C Y 142 N C Y 143 N N Y 144 N C Y 145 N C Y 146 N N N 147 N O N 148 N H N 149 N H N 150 N H N 151 N H N 152 N H N 153 N H N 154 N H N 155 N H N 156 N H N 157 N H N 158 N O N 159 N H N 160 N H N 161 N N N 162 S C N 163 N C N 164 N O N 165 S C N 166 N C N 167 N C N 168 N C N 169 N O N 170 N H N 171 N H N 172 N H N 173 N H N 174 N H N 175 N H N 176 N H N 177 N H N 178 N H N 179 N H N 180 N H N 181 N H N 182 N H N 183 N N N 184 S C N 185 N C N 186 N O N 187 N C N 188 N C N 189 N C N 190 N C 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 H N 198 N H N 199 N H N 200 N H N 201 N H N 202 N H N 203 N H N 204 N H N 205 N N N 206 S C N 207 N C N 208 N O N 209 N C N 210 N C N 211 N C N 212 N C N 213 N N N 214 N O 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 H N 227 N H N 228 N H N 229 N H N 230 N N N 231 S C N 232 N C N 233 N O N 234 N C N 235 N C N 236 N S N 237 N C N 238 N O 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 H N 249 N H N 250 N N N 251 S C N 252 N C N 253 N O N 254 N C Y 255 N C Y 256 N C Y 257 N C Y 258 N C Y 259 N C Y 260 N C N 261 N O 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 C N 280 N O 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 O N 296 N O 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 S N 305 N O N 306 N O N 307 N O N 308 N O N 309 N N N 310 S C N 311 N C N 312 N O N 313 R C N 314 N O N 315 N C N 316 N O N 317 N H N 318 N H N 319 N H N 320 N H N 321 N H N 322 N H N 323 N H N 324 N H N 325 N H N 326 N N N 327 S C N 328 N C N 329 N O N 330 N C Y 331 N C Y 332 N C Y 333 N C Y 334 N N Y 335 N C Y 336 N C Y 337 N C Y 338 N C Y 339 N C 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 H N 349 N H N 350 N H N 351 N H N 352 N H N 353 N N N 354 S C N 355 N C N 356 N O N 357 N C Y 358 N C Y 359 N C Y 360 N C Y 361 N C Y 362 N C Y 363 N C N 364 N O N 365 N O 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 374 N H N 375 N H N 376 N H N 377 N N N 378 S C N 379 N C N 380 N O N 381 N C N 382 N C N 383 N C N 384 N O 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 H N 393 N H N 394 N H N 395 N H N 1 N sing N 2 N sing N 3 N sing N 4 N sing N 5 N sing N 6 N sing N 7 N doub N 8 N sing N 9 N sing N 10 N sing N 11 N sing N 12 N sing N 13 N sing N 14 N sing N 15 N sing N 16 N sing N 17 N sing N 18 N sing N 19 N doub N 20 N sing N 21 N sing N 22 N sing N 23 N sing N 24 N sing N 25 N sing N 26 N sing N 27 N sing N 28 N sing N 29 N sing N 30 N sing N 31 N sing N 32 N sing N 33 N doub N 34 N sing N 35 N sing N 36 N sing N 37 N sing N 38 N sing N 39 N sing N 40 N sing N 41 N sing N 42 N sing N 43 N sing N 44 N sing N 45 N doub N 46 N sing N 47 N sing N 48 N sing N 49 N sing N 50 N doub N 51 N sing N 52 N sing N 53 N sing N 54 N sing N 55 N sing N 56 N sing N 57 N sing N 58 N sing N 59 N sing N 60 N sing N 61 N doub N 62 N sing N 63 N sing N 64 N sing N 65 N sing N 66 N doub N 67 N sing N 68 N sing N 69 N sing N 70 N sing N 71 N sing N 72 N sing N 73 N sing N 74 N sing N 75 N sing N 76 N doub N 77 N sing N 78 N sing N 79 N sing N 80 N sing N 81 N sing N 82 N sing N 83 N sing N 84 N sing N 85 N sing N 86 N sing N 87 N sing N 88 N sing N 89 N doub N 90 N sing N 91 N sing N 92 N sing N 93 N sing N 94 N sing N 95 N sing N 96 N sing N 97 N doub N 98 N sing N 99 N sing N 100 N sing N 101 N sing N 102 N sing N 103 N sing N 104 N sing N 105 N sing N 106 N sing N 107 N sing N 108 N doub N 109 N sing N 110 N sing N 111 N sing N 112 N sing N 113 N sing N 114 N sing N 115 N sing N 116 N doub N 117 N sing N 118 N sing N 119 N sing N 120 N sing N 121 N sing N 122 N sing N 123 N sing N 124 N sing N 125 N sing N 126 N doub N 127 N sing N 128 N sing N 129 N sing N 130 N sing N 131 N sing N 132 N sing N 133 N sing N 134 N sing N 135 N doub N 136 N sing N 137 N sing N 138 N sing N 139 N sing Y 140 N sing Y 141 N doub Y 142 N doub N 143 N sing Y 144 N sing N 145 N sing Y 146 N sing N 147 N sing N 148 N sing N 149 N sing N 150 N sing N 151 N sing N 152 N sing N 153 N sing N 154 N sing N 155 N sing N 156 N sing N 157 N sing N 158 N doub N 159 N sing N 160 N sing N 161 N sing N 162 N sing N 163 N sing N 164 N sing N 165 N sing N 166 N sing N 167 N sing N 168 N sing N 169 N sing N 170 N sing N 171 N sing N 172 N sing N 173 N sing N 174 N sing N 175 N sing N 176 N sing N 177 N sing N 178 N sing N 179 N doub N 180 N sing N 181 N sing N 182 N sing N 183 N sing N 184 N sing N 185 N sing N 186 N sing N 187 N sing N 188 N sing N 189 N sing N 190 N sing N 191 N sing N 192 N sing N 193 N sing N 194 N sing N 195 N sing N 196 N sing N 197 N sing N 198 N sing N 199 N sing N 200 N doub 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 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 doub N 244 N sing N 245 N sing N 246 N sing N 247 N sing Y 248 N doub Y 249 N sing Y 250 N sing N 251 N sing Y 252 N doub N 253 N sing Y 254 N doub N 255 N sing Y 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 doub 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 doub 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 doub N 291 N doub 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 doub 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 sing 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 doub N 317 N sing N 318 N sing N 319 N sing N 320 N sing Y 321 N doub Y 322 N sing Y 323 N sing N 324 N sing Y 325 N doub Y 326 N sing Y 327 N sing N 328 N sing Y 329 N sing Y 330 N doub N 331 N sing Y 332 N doub N 333 N sing Y 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 Y 349 N doub Y 350 N sing Y 351 N sing N 352 N sing Y 353 N doub N 354 N sing Y 355 N doub N 356 N sing Y 357 N sing 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 doub 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 sing N 377 N sing N 378 N sing N 379 N sing UK Structure STRUE6 2005 0969-2126 14 321 330 10.1016/j.str.2005.11.011 16472751 Structure and thermodynamic characterization of the EphB4/Ephrin-B2 antagonist peptide complex reveals the determinants for receptor specificity. 2006 10.2210/pdb2bba/pdb pdb_00002bba 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 100 1 CCD 2005-05-25 ADSC QUANTUM 4 Si(220) SINGLE WAVELENGTH M x-ray 1 1.0 1.0 5.0.1 ALS 1.0 SYNCHROTRON ALS BEAMLINE 5.0.1 21087.953 Ephrin type-B receptor 4 2.7.1.112 Ligand Binding Domain 1 man polymer 1707.906 Agonist peptide 1 syn polymer 96.063 SULFATE ION 2 syn non-polymer 18.015 water 223 nat water Tyrosine-protein kinase receptor HTK no no HHHHHEETLLNTKLETADLKWVTFPQVDGQWEELSGLDEEQHSVRTYEVCDVQRAPGQAHWLRTGWVPRRGAVHVYATLR FTMLECLSLPRAGRSCKETFTVFYYESDADTATALTPAWMENPYIKVDTVAAEHLTRKRPGAEATGKVNVKTLRLGPLSK AGFYLAFQDQGACMALLSLHLFYKK HHHHHEETLLNTKLETADLKWVTFPQVDGQWEELSGLDEEQHSVRTYEVCDVQRAPGQAHWLRTGWVPRRGAVHVYATLR FTMLECLSLPRAGRSCKETFTVFYYESDADTATALTPAWMENPYIKVDTVAAEHLTRKRPGAEATGKVNVKTLRLGPLSK AGFYLAFQDQGACMALLSLHLFYKK A ATCG3D_13 polypeptide(L) no no TNYLFSPNGPIARAW TNYLFSPNGPIARAW P 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 n n n n n n n n n n n human Homo fall armyworm Spodoptera sample EPHB4, HTK 9606 Homo sapiens 7108 Spodoptera frugiperda HIi-5 plasmid pBac6 1 3.09 60.20 VAPOR DIFFUSION, SITTING DROP 7.8 2.2 M Ammonium Sulfate, 200 mM NaCl, pH 7.8, VAPOR DIFFUSION, SITTING DROP, temperature 293K 293 Accelerated Technologies Center for Gene to 3D Structure ATCG3D PSI, Protein Structure Initiative chem_comp_atom chem_comp_bond database_2 pdbx_initial_refinement_model struct_ref_seq_dif struct_site repository Initial release Version format compliance Advisory Version format compliance Data collection Database references Derived calculations Refinement description 1 0 2006-07-18 1 1 2008-05-01 1 2 2011-07-13 1 3 2023-08-23 _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 Y RCSB Y RCSB 2005-10-17 REL REL SO4 SULFATE ION HOH water Synthetic peptide sample 1NUK PDB entry 1NUK PDB experimental model SO4 1 3 SO4 SO4 1 A SO4 2 3 SO4 SO4 2 A HOH 301 4 HOH HOH 301 A HOH 302 4 HOH HOH 302 A HOH 304 4 HOH HOH 304 A HOH 306 4 HOH HOH 306 A HOH 307 4 HOH HOH 307 A HOH 308 4 HOH HOH 308 A HOH 309 4 HOH HOH 309 A HOH 310 4 HOH HOH 310 A HOH 311 4 HOH HOH 311 A HOH 312 4 HOH HOH 312 A HOH 313 4 HOH HOH 313 A HOH 314 4 HOH HOH 314 A HOH 315 4 HOH HOH 315 A HOH 316 4 HOH HOH 316 A HOH 317 4 HOH HOH 317 A HOH 318 4 HOH HOH 318 A HOH 319 4 HOH HOH 319 A HOH 320 4 HOH HOH 320 A HOH 323 4 HOH HOH 323 A HOH 324 4 HOH HOH 324 A HOH 325 4 HOH HOH 325 A HOH 328 4 HOH HOH 328 A HOH 329 4 HOH HOH 329 A HOH 330 4 HOH HOH 330 A HOH 331 4 HOH HOH 331 A HOH 333 4 HOH HOH 333 A HOH 334 4 HOH HOH 334 A HOH 335 4 HOH HOH 335 A HOH 336 4 HOH HOH 336 A HOH 337 4 HOH HOH 337 A HOH 338 4 HOH HOH 338 A HOH 339 4 HOH HOH 339 A HOH 340 4 HOH HOH 340 A HOH 341 4 HOH HOH 341 A HOH 342 4 HOH HOH 342 A HOH 343 4 HOH HOH 343 A HOH 344 4 HOH HOH 344 A HOH 345 4 HOH HOH 345 A HOH 346 4 HOH HOH 346 A HOH 348 4 HOH HOH 348 A HOH 349 4 HOH HOH 349 A HOH 350 4 HOH HOH 350 A HOH 351 4 HOH HOH 351 A HOH 352 4 HOH HOH 352 A HOH 353 4 HOH HOH 353 A HOH 354 4 HOH HOH 354 A HOH 356 4 HOH HOH 356 A HOH 357 4 HOH HOH 357 A HOH 358 4 HOH HOH 358 A HOH 359 4 HOH HOH 359 A HOH 360 4 HOH HOH 360 A HOH 361 4 HOH HOH 361 A HOH 362 4 HOH HOH 362 A HOH 363 4 HOH HOH 363 A HOH 364 4 HOH HOH 364 A HOH 366 4 HOH HOH 366 A HOH 367 4 HOH HOH 367 A HOH 368 4 HOH HOH 368 A HOH 369 4 HOH HOH 369 A HOH 370 4 HOH HOH 370 A HOH 371 4 HOH HOH 371 A HOH 372 4 HOH HOH 372 A HOH 373 4 HOH HOH 373 A HOH 374 4 HOH HOH 374 A HOH 375 4 HOH HOH 375 A HOH 377 4 HOH HOH 377 A HOH 378 4 HOH HOH 378 A HOH 379 4 HOH HOH 379 A HOH 380 4 HOH HOH 380 A HOH 381 4 HOH HOH 381 A HOH 382 4 HOH HOH 382 A HOH 383 4 HOH HOH 383 A HOH 384 4 HOH HOH 384 A HOH 385 4 HOH HOH 385 A HOH 386 4 HOH HOH 386 A HOH 387 4 HOH HOH 387 A HOH 388 4 HOH HOH 388 A HOH 389 4 HOH HOH 389 A HOH 401 4 HOH HOH 401 A HOH 402 4 HOH HOH 402 A HOH 403 4 HOH HOH 403 A HOH 404 4 HOH HOH 404 A HOH 405 4 HOH HOH 405 A HOH 407 4 HOH HOH 407 A HOH 410 4 HOH HOH 410 A HOH 411 4 HOH HOH 411 A HOH 412 4 HOH HOH 412 A HOH 413 4 HOH HOH 413 A HOH 415 4 HOH HOH 415 A HOH 416 4 HOH HOH 416 A HOH 417 4 HOH HOH 417 A HOH 419 4 HOH HOH 419 A HOH 420 4 HOH HOH 420 A HOH 421 4 HOH HOH 421 A HOH 422 4 HOH HOH 422 A HOH 423 4 HOH HOH 423 A HOH 424 4 HOH HOH 424 A HOH 426 4 HOH HOH 426 A HOH 427 4 HOH HOH 427 A HOH 428 4 HOH HOH 428 A HOH 429 4 HOH HOH 429 A HOH 430 4 HOH HOH 430 A HOH 432 4 HOH HOH 432 A HOH 433 4 HOH HOH 433 A HOH 434 4 HOH HOH 434 A HOH 435 4 HOH HOH 435 A HOH 437 4 HOH HOH 437 A HOH 438 4 HOH HOH 438 A HOH 439 4 HOH HOH 439 A HOH 440 4 HOH HOH 440 A HOH 441 4 HOH HOH 441 A HOH 442 4 HOH HOH 442 A HOH 443 4 HOH HOH 443 A HOH 444 4 HOH HOH 444 A HOH 445 4 HOH HOH 445 A HOH 446 4 HOH HOH 446 A HOH 447 4 HOH HOH 447 A HOH 448 4 HOH HOH 448 A HOH 449 4 HOH HOH 449 A HOH 450 4 HOH HOH 450 A HOH 451 4 HOH HOH 451 A HOH 452 4 HOH HOH 452 A HOH 453 4 HOH HOH 453 A HOH 454 4 HOH HOH 454 A HOH 457 4 HOH HOH 457 A HOH 458 4 HOH HOH 458 A HOH 459 4 HOH HOH 459 A HOH 460 4 HOH HOH 460 A HOH 461 4 HOH HOH 461 A HOH 465 4 HOH HOH 465 A HOH 466 4 HOH HOH 466 A HOH 468 4 HOH HOH 468 A HOH 469 4 HOH HOH 469 A HOH 471 4 HOH HOH 471 A HOH 472 4 HOH HOH 472 A HOH 473 4 HOH HOH 473 A HOH 474 4 HOH HOH 474 A HOH 475 4 HOH HOH 475 A HOH 476 4 HOH HOH 476 A HOH 478 4 HOH HOH 478 A HOH 479 4 HOH HOH 479 A HOH 480 4 HOH HOH 480 A HOH 483 4 HOH HOH 483 A HOH 484 4 HOH HOH 484 A HOH 485 4 HOH HOH 485 A HOH 486 4 HOH HOH 486 A HOH 487 4 HOH HOH 487 A HOH 489 4 HOH HOH 489 A HOH 491 4 HOH HOH 491 A HOH 492 4 HOH HOH 492 A HOH 494 4 HOH HOH 494 A HOH 495 4 HOH HOH 495 A HOH 496 4 HOH HOH 496 A HOH 497 4 HOH HOH 497 A HOH 498 4 HOH HOH 498 A HOH 499 4 HOH HOH 499 A HOH 500 4 HOH HOH 500 A HOH 501 4 HOH HOH 501 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 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 522 4 HOH HOH 522 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 530 4 HOH HOH 530 A HOH 531 4 HOH HOH 531 A HOH 533 4 HOH HOH 533 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 544 4 HOH HOH 544 A HOH 545 4 HOH HOH 545 A HOH 546 4 HOH HOH 546 A HOH 548 4 HOH HOH 548 A HOH 549 4 HOH HOH 549 A HOH 550 4 HOH HOH 550 A HOH 552 4 HOH HOH 552 A HOH 553 4 HOH HOH 553 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 305 4 HOH HOH 305 P HOH 322 4 HOH HOH 322 P HOH 355 4 HOH HOH 355 P HOH 365 4 HOH HOH 365 P HOH 376 4 HOH HOH 376 P HOH 400 4 HOH HOH 400 P HOH 414 4 HOH HOH 414 P HOH 456 4 HOH HOH 456 P HOH 463 4 HOH HOH 463 P HOH 467 4 HOH HOH 467 P HOH 470 4 HOH HOH 470 P HOH 488 4 HOH HOH 488 P HOH 511 4 HOH HOH 511 P HOH 523 4 HOH HOH 523 P HOH 528 4 HOH HOH 528 P HOH 532 4 HOH HOH 532 P HOH 551 4 HOH HOH 551 P HOH 555 4 HOH HOH 555 P HIS 12 n 1 HIS 12 A HIS 13 n 2 HIS 13 A HIS 14 n 3 HIS 14 A HIS 15 n 4 HIS 15 A HIS 16 n 5 HIS 16 A GLU 17 n 6 GLU 17 A GLU 18 n 7 GLU 18 A THR 19 n 8 THR 19 A LEU 20 n 9 LEU 20 A LEU 21 n 10 LEU 21 A ASN 22 n 11 ASN 22 A THR 23 n 12 THR 23 A LYS 24 n 13 LYS 24 A LEU 25 n 14 LEU 25 A GLU 26 n 15 GLU 26 A THR 27 n 16 THR 27 A ALA 28 n 17 ALA 28 A ASP 29 n 18 ASP 29 A LEU 30 n 19 LEU 30 A LYS 31 n 20 LYS 31 A TRP 32 n 21 TRP 32 A VAL 33 n 22 VAL 33 A THR 34 n 23 THR 34 A PHE 35 n 24 PHE 35 A PRO 36 n 25 PRO 36 A GLN 37 n 26 GLN 37 A VAL 38 n 27 VAL 38 A ASP 39 n 28 ASP 39 A GLY 40 n 29 GLY 40 A GLN 41 n 30 GLN 41 A TRP 42 n 31 TRP 42 A GLU 43 n 32 GLU 43 A GLU 44 n 33 GLU 44 A LEU 45 n 34 LEU 45 A SER 46 n 35 SER 46 A GLY 47 n 36 GLY 47 A LEU 48 n 37 LEU 48 A ASP 49 n 38 ASP 49 A GLU 50 n 39 GLU 50 A GLU 51 n 40 GLU 51 A GLN 52 n 41 GLN 52 A HIS 53 n 42 HIS 53 A SER 54 n 43 SER 54 A VAL 55 n 44 VAL 55 A ARG 56 n 45 ARG 56 A THR 57 n 46 THR 57 A TYR 58 n 47 TYR 58 A GLU 59 n 48 GLU 59 A VAL 60 n 49 VAL 60 A CYS 61 n 50 CYS 61 A ASP 62 n 51 ASP 62 A VAL 63 n 52 VAL 63 A GLN 64 n 53 GLN 64 A ARG 65 n 54 ARG 65 A ALA 66 n 55 ALA 66 A PRO 67 n 56 PRO 67 A GLY 68 n 57 GLY 68 A GLN 69 n 58 GLN 69 A ALA 70 n 59 ALA 70 A HIS 71 n 60 HIS 71 A TRP 72 n 61 TRP 72 A LEU 73 n 62 LEU 73 A ARG 74 n 63 ARG 74 A THR 75 n 64 THR 75 A GLY 76 n 65 GLY 76 A TRP 77 n 66 TRP 77 A VAL 78 n 67 VAL 78 A PRO 79 n 68 PRO 79 A ARG 80 n 69 ARG 80 A ARG 81 n 70 ARG 81 A GLY 82 n 71 GLY 82 A ALA 83 n 72 ALA 83 A VAL 84 n 73 VAL 84 A HIS 85 n 74 HIS 85 A VAL 86 n 75 VAL 86 A TYR 87 n 76 TYR 87 A ALA 88 n 77 ALA 88 A THR 89 n 78 THR 89 A LEU 90 n 79 LEU 90 A ARG 91 n 80 ARG 91 A PHE 92 n 81 PHE 92 A THR 93 n 82 THR 93 A MET 94 n 83 MET 94 A LEU 95 n 84 LEU 95 A GLU 96 n 85 GLU 96 A CYS 97 n 86 CYS 97 A LEU 98 n 87 LEU 98 A SER 99 n 88 SER 99 A LEU 100 n 89 LEU 100 A PRO 101 n 90 PRO 101 A ARG 102 n 91 ARG 102 A ALA 103 n 92 ALA 103 A GLY 104 n 93 GLY 104 A ARG 105 n 94 ARG 105 A SER 106 n 95 SER 106 A CYS 107 n 96 CYS 107 A LYS 108 n 97 LYS 108 A GLU 109 n 98 GLU 109 A THR 110 n 99 THR 110 A PHE 111 n 100 PHE 111 A THR 112 n 101 THR 112 A VAL 113 n 102 VAL 113 A PHE 114 n 103 PHE 114 A TYR 115 n 104 TYR 115 A TYR 116 n 105 TYR 116 A GLU 117 n 106 GLU 117 A SER 118 n 107 SER 118 A ASP 119 n 108 ASP 119 A ALA 120 n 109 ALA 120 A ASP 121 n 110 ASP 121 A THR 122 n 111 THR 122 A ALA 123 n 112 ALA 123 A THR 124 n 113 THR 124 A ALA 125 n 114 ALA 125 A LEU 126 n 115 LEU 126 A THR 127 n 116 THR 127 A PRO 128 n 117 PRO 128 A ALA 129 n 118 ALA 129 A TRP 130 n 119 TRP 130 A MET 131 n 120 MET 131 A GLU 132 n 121 GLU 132 A ASN 133 n 122 ASN 133 A PRO 134 n 123 PRO 134 A TYR 135 n 124 TYR 135 A ILE 136 n 125 ILE 136 A LYS 137 n 126 LYS 137 A VAL 138 n 127 VAL 138 A ASP 139 n 128 ASP 139 A THR 140 n 129 THR 140 A VAL 141 n 130 VAL 141 A ALA 142 n 131 ALA 142 A ALA 143 n 132 ALA 143 A GLU 144 n 133 GLU 144 A HIS 145 n 134 HIS 145 A LEU 146 n 135 LEU 146 A THR 147 n 136 THR 147 A ARG 148 n 137 ARG 148 A LYS 149 n 138 LYS 149 A ARG 150 n 139 ARG 150 A PRO 151 n 140 PRO 151 A GLY 152 n 141 GLY 152 A ALA 153 n 142 ALA 153 A GLU 154 n 143 GLU 154 A ALA 155 n 144 ALA 155 A THR 156 n 145 THR 156 A GLY 157 n 146 GLY 157 A LYS 158 n 147 LYS 158 A VAL 159 n 148 VAL 159 A ASN 160 n 149 ASN 160 A VAL 161 n 150 VAL 161 A LYS 162 n 151 LYS 162 A THR 163 n 152 THR 163 A LEU 164 n 153 LEU 164 A ARG 165 n 154 ARG 165 A LEU 166 n 155 LEU 166 A GLY 167 n 156 GLY 167 A PRO 168 n 157 PRO 168 A LEU 169 n 158 LEU 169 A SER 170 n 159 SER 170 A LYS 171 n 160 LYS 171 A ALA 172 n 161 ALA 172 A GLY 173 n 162 GLY 173 A PHE 174 n 163 PHE 174 A TYR 175 n 164 TYR 175 A LEU 176 n 165 LEU 176 A ALA 177 n 166 ALA 177 A PHE 178 n 167 PHE 178 A GLN 179 n 168 GLN 179 A ASP 180 n 169 ASP 180 A GLN 181 n 170 GLN 181 A GLY 182 n 171 GLY 182 A ALA 183 n 172 ALA 183 A CYS 184 n 173 CYS 184 A MET 185 n 174 MET 185 A ALA 186 n 175 ALA 186 A LEU 187 n 176 LEU 187 A LEU 188 n 177 LEU 188 A SER 189 n 178 SER 189 A LEU 190 n 179 LEU 190 A HIS 191 n 180 HIS 191 A LEU 192 n 181 LEU 192 A PHE 193 n 182 PHE 193 A TYR 194 n 183 TYR 194 A LYS 195 n 184 LYS 195 A LYS 196 n 185 LYS 196 A n 1 250 P ASN 251 n 2 ASN 251 P TYR 252 n 3 TYR 252 P LEU 253 n 4 LEU 253 P PHE 254 n 5 PHE 254 P SER 255 n 6 SER 255 P PRO 256 n 7 PRO 256 P ASN 257 n 8 ASN 257 P GLY 258 n 9 GLY 258 P PRO 259 n 10 PRO 259 P ILE 260 n 11 ILE 260 P ALA 261 n 12 ALA 261 P ARG 262 n 13 ARG 262 P ALA 263 n 14 ALA 263 P TRP 264 n 15 TRP 264 P 1.2085 -0.1014 -0.3499 0.2622 0.0787 0.4731 0.0000 0.0222 -0.0298 -0.0073 0.0028 -0.0081 -0.0146 -0.0283 -0.0028 -0.0478 -0.0009 0.0027 -0.0117 -0.0023 -0.0318 refined 24.6075 11.8278 51.1996 X-RAY DIFFRACTION 3.8875 0.9516 2.7544 1.6018 -0.3425 6.1088 -0.1978 0.1246 -0.2250 -0.1392 0.1081 -0.1418 0.2043 0.1535 0.0897 -0.0382 0.0060 0.0478 -0.0203 -0.0490 -0.0254 refined 31.4128 0.9273 39.8155 X-RAY DIFFRACTION A 12 A 1 A 196 A 185 X-RAY DIFFRACTION 1 P 251 B 2 P 264 B 15 X-RAY DIFFRACTION 2 author_and_software_defined_assembly PISA 2 dimeric 1750 -36 9990 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 HIS 16 A N HIS 5 A O LYS 196 A O LYS 185 A O LEU 187 A O LEU 176 A N TYR 58 A N TYR 47 A O VAL 55 A O VAL 44 A N GLY 47 A N GLY 36 A N HIS 16 A N HIS 5 A O LYS 196 A O LYS 185 A O PHE 193 A O PHE 182 A N TYR 87 A N TYR 76 A N VAL 86 A N VAL 75 A O LEU 166 A O LEU 155 A N PHE 35 A N PHE 24 A O TRP 72 A O TRP 61 A N LEU 73 A N LEU 62 A O PHE 178 A O PHE 167 A O PHE 174 A O PHE 163 A N VAL 78 A N VAL 67 A N PHE 35 A N PHE 24 A O TRP 72 A O TRP 61 A N LEU 73 A N LEU 62 A O PHE 178 A O PHE 167 A O ALA 177 A O ALA 166 A N PHE 114 A N PHE 103 A N TYR 115 A N TYR 104 A O ILE 136 A O ILE 125 1 A CG LYS 31 A CG LYS 20 1 Y 1 A CD LYS 31 A CD LYS 20 1 Y 1 A CE LYS 31 A CE LYS 20 1 Y 1 A NZ LYS 31 A NZ LYS 20 1 Y 1 A CG GLN 52 A CG GLN 41 1 Y 1 A CD GLN 52 A CD GLN 41 1 Y 1 A OE1 GLN 52 A OE1 GLN 41 1 Y 1 A NE2 GLN 52 A NE2 GLN 41 1 Y 1 A CG GLN 64 A CG GLN 53 1 Y 1 A CD GLN 64 A CD GLN 53 1 Y 1 A OE1 GLN 64 A OE1 GLN 53 1 Y 1 A NE2 GLN 64 A NE2 GLN 53 1 Y 1 A CG ARG 65 A CG ARG 54 1 Y 1 A CD ARG 65 A CD ARG 54 1 Y 1 A NE ARG 65 A NE ARG 54 1 Y 1 A CZ ARG 65 A CZ ARG 54 1 Y 1 A NH1 ARG 65 A NH1 ARG 54 1 Y 1 A NH2 ARG 65 A NH2 ARG 54 1 Y 1 A CG ARG 102 A CG ARG 91 1 Y 1 A CD ARG 102 A CD ARG 91 1 Y 1 A NE ARG 102 A NE ARG 91 1 Y 1 A CZ ARG 102 A CZ ARG 91 1 Y 1 A NH1 ARG 102 A NH1 ARG 91 1 Y 1 A NH2 ARG 102 A NH2 ARG 91 1 Y 1 A CG ARG 105 A CG ARG 94 1 Y 1 A CD ARG 105 A CD ARG 94 1 Y 1 A NE ARG 105 A NE ARG 94 1 Y 1 A CZ ARG 105 A CZ ARG 94 1 Y 1 A NH1 ARG 105 A NH1 ARG 94 1 Y 1 A NH2 ARG 105 A NH2 ARG 94 1 Y 1 A CG GLU 144 A CG GLU 133 1 Y 1 A CD GLU 144 A CD GLU 133 1 Y 1 A OE1 GLU 144 A OE1 GLU 133 1 Y 1 A OE2 GLU 144 A OE2 GLU 133 1 Y 1 A CG GLU 154 A CG GLU 143 1 Y 1 A CD GLU 154 A CD GLU 143 1 Y 1 A OE1 GLU 154 A OE1 GLU 143 1 Y 1 A OE2 GLU 154 A OE2 GLU 143 1 Y 1 A CG LYS 195 A CG LYS 184 1 Y 1 A CD LYS 195 A CD LYS 184 1 Y 1 A CE LYS 195 A CE LYS 184 1 Y 1 A NZ LYS 195 A NZ LYS 184 1 Y 1 P THR 250 B THR 1 1 Y 1 A A ND1 C HIS LYS 12 196 1.64 1 A A CD2 ND1 HIS HIS 12 15 1.94 1 A A ND1 O HIS LYS 12 196 2.17 1 A A HIS HIS 12 13 147.04 1 A A ARG ALA 102 103 144.55 1 A HIS 12 0.094 SIDE CHAIN 1 -8.83 1.30 121.40 112.57 A A A CB CG ND1 HIS HIS HIS 12 12 12 N 1 -3.27 0.50 120.30 117.03 A A A NE CZ NH2 ARG ARG ARG 148 148 148 N 1 -5.50 0.50 120.30 114.80 A A A NE CZ NH1 ARG ARG ARG 150 150 150 N 1 4.06 0.50 120.30 124.36 A A A NE CZ NH2 ARG ARG ARG 150 150 150 N 1 A A CG CD2 HIS HIS 12 12 -0.106 0.017 1.353 1.247 N 1 A ALA 28 -118.36 -139.21 1 A CYS 61 -155.45 59.71 1 A ARG 81 57.29 -135.74 1 A ARG 102 52.93 16.28 1 A ASN 133 64.84 86.70 11.498 0.21 0.00 0.00 0.21 0.00 -0.42 0.953 0.949 HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS 0.19135 0.17436 0.19 0.1761 1.65 40.0 3533 31786 10.0 99.92 2.352 0.042 RANDOM LIKELY RESIDUAL 1 THROUGHOUT 2.0 MOLECULAR REPLACEMENT 0.081 0.078 0.80 0.80 1.20 PDB entry 1NUK MAXIMUM LIKELIHOOD MASK 1.65 40.0 223 1791 10 0 1558 0.018 0.021 1628 0.002 0.020 1422 1.731 1.938 2229 0.888 3.000 3288 7.475 5.000 201 32.303 22.958 71 10.131 15.000 240 16.174 15.000 9 0.117 0.200 245 0.010 0.020 1819 0.001 0.020 348 0.272 0.200 240 0.202 0.200 1331 0.182 0.200 741 0.087 0.200 893 0.162 0.200 146 0.001 0.200 1 0.342 0.200 12 0.294 0.200 62 0.513 0.200 13 1.276 1.500 1076 0.350 1.500 407 1.730 2.000 1606 2.790 3.000 710 3.968 4.500 622 0.202 0.159 1.693 243 2286 20 98.94 1.65 40 2BBA 32786 1.0 1.0 0.039 1 42.7 3.7 1.65 1.71 7.2 0.208 1 3.2 refinement REFMAC 5.2.0005 data reduction HKL-2000 data scaling SCALEPACK phasing AMoRE Crystal Structure and Thermodynamic Characterization of the EphB4 Receptor in Complex with an ephrin-B2 Antagonist Peptide Reveals the Determinants for Receptor Specificity. 1 N N 2 N N 3 N N 3 N N 4 N N 4 N N A LYS 24 A LYS 13 HELX_P A GLU 26 A GLU 15 5 1 3 A GLU 96 A GLU 85 HELX_P A LEU 100 A LEU 89 5 2 5 P ILE 260 B ILE 11 HELX_P P TRP 264 B TRP 15 5 3 5 disulf 2.068 A CYS 61 A SG CYS 50 1_555 A CYS 184 A SG CYS 173 1_555 disulf 2.073 A CYS 97 A SG CYS 86 1_555 A CYS 107 A SG CYS 96 1_555 SIGNALING PROTEIN EphB4, tumorigenesis, angiogenesis, peptide mimetics, SIGNALING PROTEIN, Structural Genomics, PSI-2, Protein Structure Initiative, Accelerated Technologies Center for Gene to 3D Structure, ATCG3D A PHE 35 A PHE 24 1 A PRO 36 A PRO 25 -1.49 A THR 127 A THR 116 1 A PRO 128 A PRO 117 -8.05 A ASN 133 A ASN 122 1 A PRO 134 A PRO 123 20.98 A GLY 167 A GLY 156 1 A PRO 168 A PRO 157 3.52 EPHB4_HUMAN UNP 1 17 P54760 2BBA PDB 2 2BBA 17 196 2BBA 17 196 P54760 A 1 6 185 250 264 2BBA 250 264 2BBA P 2 1 15 1 expression tag HIS 12 2BBA A P54760 UNP 1 1 expression tag HIS 13 2BBA A P54760 UNP 2 1 expression tag HIS 14 2BBA A P54760 UNP 3 1 expression tag HIS 15 2BBA A P54760 UNP 4 1 expression tag HIS 16 2BBA A P54760 UNP 5 4 4 4 5 anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel A HIS 16 A HIS 5 A ASN 22 A ASN 11 A CYS 184 A CYS 173 A LYS 196 A LYS 185 A SER 54 A SER 43 A CYS 61 A CYS 50 A GLU 43 A GLU 32 A LEU 48 A LEU 37 A HIS 16 A HIS 5 A ASN 22 A ASN 11 A CYS 184 A CYS 173 A LYS 196 A LYS 185 A VAL 86 A VAL 75 A MET 94 A MET 83 A ASN 160 A ASN 149 A LEU 166 A LEU 155 A VAL 33 A VAL 22 A PHE 35 A PHE 24 A ALA 70 A ALA 59 A ARG 74 A ARG 63 A GLY 173 A GLY 162 A GLN 181 A GLN 170 A VAL 78 A VAL 67 A PRO 79 A PRO 68 A VAL 33 A VAL 22 A PHE 35 A PHE 24 A ALA 70 A ALA 59 A ARG 74 A ARG 63 A GLY 173 A GLY 162 A GLN 181 A GLN 170 A THR 110 A THR 99 A SER 118 A SER 107 A ILE 136 A ILE 125 A ALA 142 A ALA 131 BINDING SITE FOR RESIDUE SO4 A 1 A SO4 1 Software 7 BINDING SITE FOR RESIDUE SO4 A 2 A SO4 2 Software 6 A LYS 24 A LYS 13 7 1_555 A THR 89 A THR 78 7 1_555 A ARG 91 A ARG 80 7 1_555 A PRO 134 A PRO 123 7 6_555 A HIS 191 A HIS 180 7 1_555 A HOH 309 E HOH 7 6_555 A HOH 318 E HOH 7 1_555 A HIS 145 A HIS 134 6 1_555 A LYS 158 A LYS 147 6 8_665 A LYS 158 A LYS 147 6 1_555 A HOH 330 E HOH 6 1_555 A HOH 349 E HOH 6 1_555 A HOH 544 E HOH 6 4_554 92 P 41 21 2