0.013466 0.007775 0.000000 0.000000 0.015549 0.000000 0.000000 0.000000 0.006285 0.000000 0.000000 0.000000 0000-0002-6471-872X Rondelet, G. 0000-0002-4920-6857 Wouters, J. http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 12 90.000 90.000 120.000 74.260 74.260 159.100 C10 H20 N2 168.279 4-(dipropylamino)butanenitrile non-polymer C3 H7 N O2 89.093 y ALANINE L-peptide linking C6 H15 N4 O2 1 175.209 y ARGININE L-peptide linking C4 H8 N2 O3 132.118 y ASPARAGINE L-peptide linking C4 H7 N O4 133.103 y ASPARTIC ACID L-peptide linking C5 H10 N2 O3 146.144 y GLUTAMINE L-peptide linking C5 H9 N O4 147.129 y GLUTAMIC ACID L-peptide linking C2 H5 N O2 75.067 y GLYCINE peptide linking C6 H10 N3 O2 1 156.162 y HISTIDINE L-peptide linking H2 O 18.015 WATER non-polymer C6 H13 N O2 131.173 y ISOLEUCINE L-peptide linking C6 H13 N O2 131.173 y LEUCINE L-peptide linking C6 H15 N2 O2 1 147.195 y LYSINE L-peptide linking C5 H11 N O2 S 149.211 y METHIONINE L-peptide linking 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 N C N 3 N C N 4 N C N 5 N C N 6 N C N 7 N C N 8 N C N 9 N N N 10 N C N 11 N C N 12 N C N 13 N H N 14 N H N 15 N H N 16 N H N 17 N H N 18 N H N 19 N H N 20 N H N 21 N H N 22 N H N 23 N H N 24 N H N 25 N H 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 N N 34 S C N 35 N C N 36 N O N 37 N C N 38 N O N 39 N H N 40 N H N 41 N H N 42 N H N 43 N H N 44 N H N 45 N H N 46 N N N 47 S C N 48 N C N 49 N O N 50 N C N 51 N C N 52 N C N 53 N N N 54 N C N 55 N N N 56 N N N 57 N O N 58 N H N 59 N H N 60 N H N 61 N H N 62 N H N 63 N H N 64 N H N 65 N H N 66 N H 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 N N 74 S C N 75 N C N 76 N O N 77 N C N 78 N C N 79 N O N 80 N N N 81 N O 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 H N 89 N H N 90 N N N 91 S C N 92 N C N 93 N O N 94 N C N 95 N C N 96 N O N 97 N O N 98 N O 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 N N 107 S C N 108 N C N 109 N O N 110 N C N 111 N C N 112 N C N 113 N O N 114 N N N 115 N O 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 N N 127 S C N 128 N C N 129 N O N 130 N C N 131 N C N 132 N C N 133 N O N 134 N O N 135 N O 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 N N 146 N C N 147 N C N 148 N O N 149 N O N 150 N H N 151 N H N 152 N H N 153 N H N 154 N H N 155 N N N 156 S C N 157 N C N 158 N O N 159 N C Y 160 N C Y 161 N N Y 162 N C Y 163 N C Y 164 N N N 165 N O N 166 N H N 167 N H N 168 N H N 169 N H 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 O N 177 N H N 178 N H N 179 N N N 180 S C N 181 N C N 182 N O N 183 S C N 184 N C N 185 N C N 186 N C N 187 N O N 188 N H N 189 N H N 190 N H 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 N N 202 S C N 203 N C N 204 N O N 205 N C N 206 N C N 207 N C N 208 N C N 209 N O 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 H N 219 N H N 220 N H N 221 N H N 222 N H N 223 N N N 224 S C N 225 N C N 226 N O N 227 N C N 228 N C N 229 N C N 230 N C N 231 N N N 232 N O 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 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 S N 255 N C N 256 N O 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 H N 266 N H N 267 N H N 268 N N N 269 S C N 270 N C N 271 N O N 272 N C Y 273 N C Y 274 N C Y 275 N C Y 276 N C Y 277 N C Y 278 N C 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 H N 288 N H N 289 N H N 290 N H N 291 N N N 292 S C N 293 N C N 294 N O N 295 N C N 296 N C 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 N N 309 S C N 310 N C N 311 N O N 312 N C N 313 N O N 314 N O N 315 N H N 316 N H N 317 N H N 318 N H N 319 N H N 320 N H N 321 N H N 322 N S N 323 N O N 324 N O N 325 N O N 326 N O N 327 N N N 328 S C N 329 N C N 330 N O N 331 R C N 332 N O N 333 N C N 334 N O N 335 N H N 336 N H N 337 N H N 338 N H N 339 N H N 340 N H N 341 N H N 342 N H N 343 N H N 344 N N N 345 S C N 346 N C N 347 N O N 348 N C Y 349 N C Y 350 N C Y 351 N C Y 352 N N Y 353 N C Y 354 N C Y 355 N C Y 356 N C Y 357 N C N 358 N O 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 H N 366 N H N 367 N H N 368 N H N 369 N H N 370 N H N 371 N N N 372 S C N 373 N C N 374 N O N 375 N C Y 376 N C Y 377 N C Y 378 N C Y 379 N C Y 380 N C Y 381 N C N 382 N O N 383 N O 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 H N 393 N H N 394 N H N 395 N N N 396 S C N 397 N C N 398 N O N 399 N C N 400 N C N 401 N C N 402 N O N 403 N H N 404 N H 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 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 sing N 8 N sing N 9 N sing N 10 N sing N 11 N trip 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 sing 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 sing N 34 N sing N 35 N sing N 36 N sing N 37 N sing N 38 N doub 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 sing 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 sing N 62 N sing N 63 N sing N 64 N doub N 65 N sing N 66 N sing 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 doub 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 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 doub 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 doub 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 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 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 sing N 143 N sing N 144 N doub 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 Y 158 N sing Y 159 N doub Y 160 N doub N 161 N sing Y 162 N sing N 163 N sing Y 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 doub N 177 N sing N 178 N sing N 179 N sing N 180 N sing N 181 N sing N 182 N sing N 183 N sing N 184 N sing N 185 N sing N 186 N sing N 187 N 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 doub N 198 N sing N 199 N sing N 200 N sing N 201 N sing N 202 N sing N 203 N sing N 204 N sing N 205 N sing N 206 N sing N 207 N sing N 208 N sing N 209 N sing N 210 N sing N 211 N 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 doub N 219 N sing N 220 N sing N 221 N sing N 222 N sing N 223 N sing N 224 N sing N 225 N sing N 226 N sing N 227 N sing N 228 N sing N 229 N sing N 230 N sing N 231 N sing N 232 N sing N 233 N sing N 234 N sing N 235 N sing N 236 N sing N 237 N sing N 238 N sing N 239 N sing N 240 N sing N 241 N sing N 242 N doub 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 Y 266 N doub Y 267 N sing Y 268 N sing N 269 N sing Y 270 N doub N 271 N sing Y 272 N doub N 273 N sing Y 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 doub 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 sing N 298 N sing N 299 N sing N 300 N sing N 301 N doub N 302 N sing N 303 N sing N 304 N sing N 305 N sing N 306 N sing N 307 N sing N 308 N doub N 309 N doub N 310 N sing N 311 N sing N 312 N sing N 313 N sing N 314 N sing N 315 N sing N 316 N sing N 317 N sing N 318 N doub 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 sing N 329 N sing N 330 N sing N 331 N sing N 332 N sing N 333 N sing N 334 N doub N 335 N sing N 336 N sing N 337 N sing N 338 N sing Y 339 N doub Y 340 N sing Y 341 N sing N 342 N sing Y 343 N doub Y 344 N sing Y 345 N sing N 346 N sing Y 347 N sing Y 348 N doub N 349 N sing Y 350 N doub N 351 N sing Y 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 N 361 N sing N 362 N doub N 363 N sing N 364 N sing N 365 N sing N 366 N sing Y 367 N doub Y 368 N sing Y 369 N sing N 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 sing N 386 N doub 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 sing To Be Published 0353 Targeting PWWP domain of DNA methyltransferase 3B for epigenetic cancer therapy: Identification and structural characterization of new potential protein-protein interaction inhibitors 10.2210/pdb5nv0/pdb pdb_00005nv0 100 1 PIXEL 2015-12-06 DECTRIS PILATUS 6M channel cut monochromator crystal (Si(111)) SINGLE WAVELENGTH M x-ray 1 0.978570 1.0 PROXIMA 1 SOLEIL 0.978570 SYNCHROTRON SOLEIL BEAMLINE PROXIMA 1 16698.844 DNA (cytosine-5)-methyltransferase 3B 2.1.1.37 2 man polymer 168.279 4-(dipropylamino)butanenitrile 2 syn non-polymer 96.063 SULFATE ION 9 syn non-polymer 18.015 water 73 nat water Dnmt3b,DNA methyltransferase HsaIIIB,M.HsaIIIB no no EADSGDGDSSEYQDGKEFGIGDLVWGKIKGFSWWPAMVVSWKATSKRQAMSGMRWVQWFGDGKFSEVSADKLVALGLFSQ HFNLATFNKLVSYRKAMYHALEKARVRAGKTFPSSPGDSLEDQLKPMLEWAHGGFKPTGIEGLKPNNTQP EADSGDGDSSEYQDGKEFGIGDLVWGKIKGFSWWPAMVVSWKATSKRQAMSGMRWVQWFGDGKFSEVSADKLVALGLFSQ HFNLATFNKLVSYRKAMYHALEKARVRAGKTFPSSPGDSLEDQLKPMLEWAHGGFKPTGIEGLKPNNTQP A,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 Human sample 1 150 DNMT3B 9606 Homo sapiens 469008 Escherichia coli BL21(DE3) PLASMID Biological sequence pET28-MHL 1 3.79 67.56 VAPOR DIFFUSION, SITTING DROP 0.1 M MES,0.2 M Li2SO4, 23-33% PEG 3350 5.7-6.7 298 citation citation_author pdbx_database_proc reflns_shell chem_comp_atom chem_comp_bond database_2 pdbx_initial_refinement_model repository Initial release Data collection Database references Data collection Data collection Database references Refinement description 1 0 2018-05-30 1 1 2019-03-27 1 2 2019-10-16 1 3 2024-01-17 _citation.journal_abbrev _citation_author.name _database_2.pdbx_DOI _database_2.pdbx_database_accession Belgium F.R.S._FNRS_Televie 7.4.532.15.F. N PDBE Y PDBE 2017-05-03 REL REL 9AH 4-(dipropylamino)butanenitrile SO4 SULFATE ION HOH water 3QKJ PDB experimental model 154 2 2 9AH 9AH 401 A SO4 2 3 SO4 SO4 402 A SO4 3 3 SO4 SO4 403 A SO4 6 3 SO4 SO4 404 A SO4 8 3 SO4 SO4 405 A SO4 9 3 SO4 SO4 406 A 154 1 2 9AH 9AH 401 B SO4 1 3 SO4 SO4 402 B SO4 4 3 SO4 SO4 403 B SO4 5 3 SO4 SO4 404 B SO4 7 3 SO4 SO4 405 B HOH 30 4 HOH HOH 501 A HOH 58 4 HOH HOH 502 A HOH 4 4 HOH HOH 503 A HOH 17 4 HOH HOH 504 A HOH 23 4 HOH HOH 505 A HOH 45 4 HOH HOH 506 A HOH 11 4 HOH HOH 507 A HOH 14 4 HOH HOH 508 A HOH 79 4 HOH HOH 509 A HOH 13 4 HOH HOH 510 A HOH 71 4 HOH HOH 511 A HOH 69 4 HOH HOH 512 A HOH 59 4 HOH HOH 513 A HOH 35 4 HOH HOH 514 A HOH 5 4 HOH HOH 515 A HOH 47 4 HOH HOH 516 A HOH 6 4 HOH HOH 517 A HOH 33 4 HOH HOH 518 A HOH 36 4 HOH HOH 519 A HOH 7 4 HOH HOH 520 A HOH 68 4 HOH HOH 521 A HOH 16 4 HOH HOH 522 A HOH 9 4 HOH HOH 523 A HOH 70 4 HOH HOH 524 A HOH 32 4 HOH HOH 525 A HOH 40 4 HOH HOH 526 A HOH 41 4 HOH HOH 527 A HOH 62 4 HOH HOH 528 A HOH 26 4 HOH HOH 529 A HOH 25 4 HOH HOH 530 A HOH 10 4 HOH HOH 531 A HOH 76 4 HOH HOH 532 A HOH 22 4 HOH HOH 533 A HOH 64 4 HOH HOH 534 A HOH 65 4 HOH HOH 535 A HOH 52 4 HOH HOH 536 A HOH 56 4 HOH HOH 537 A HOH 51 4 HOH HOH 538 A HOH 63 4 HOH HOH 539 A HOH 55 4 HOH HOH 540 A HOH 78 4 HOH HOH 541 A HOH 77 4 HOH HOH 542 A HOH 49 4 HOH HOH 543 A HOH 44 4 HOH HOH 544 A HOH 53 4 HOH HOH 545 A HOH 46 4 HOH HOH 501 B HOH 15 4 HOH HOH 502 B HOH 8 4 HOH HOH 503 B HOH 24 4 HOH HOH 504 B HOH 12 4 HOH HOH 505 B HOH 50 4 HOH HOH 506 B HOH 67 4 HOH HOH 507 B HOH 27 4 HOH HOH 508 B HOH 42 4 HOH HOH 509 B HOH 54 4 HOH HOH 510 B HOH 21 4 HOH HOH 511 B HOH 19 4 HOH HOH 512 B HOH 43 4 HOH HOH 513 B HOH 38 4 HOH HOH 514 B HOH 61 4 HOH HOH 515 B HOH 28 4 HOH HOH 516 B HOH 60 4 HOH HOH 517 B HOH 72 4 HOH HOH 518 B HOH 34 4 HOH HOH 519 B HOH 29 4 HOH HOH 520 B HOH 74 4 HOH HOH 521 B HOH 18 4 HOH HOH 522 B HOH 31 4 HOH HOH 523 B HOH 81 4 HOH HOH 524 B HOH 73 4 HOH HOH 525 B HOH 66 4 HOH HOH 526 B HOH 75 4 HOH HOH 527 B HOH 80 4 HOH HOH 528 B n 1 206 A n 2 207 A n 3 208 A n 4 209 A n 5 210 A n 6 211 A n 7 212 A n 8 213 A n 9 214 A SER 215 n 10 SER 215 A GLU 216 n 11 GLU 216 A TYR 217 n 12 TYR 217 A GLN 218 n 13 GLN 218 A ASP 219 n 14 ASP 219 A GLY 220 n 15 GLY 220 A LYS 221 n 16 LYS 221 A GLU 222 n 17 GLU 222 A PHE 223 n 18 PHE 223 A GLY 224 n 19 GLY 224 A ILE 225 n 20 ILE 225 A GLY 226 n 21 GLY 226 A ASP 227 n 22 ASP 227 A LEU 228 n 23 LEU 228 A VAL 229 n 24 VAL 229 A TRP 230 n 25 TRP 230 A GLY 231 n 26 GLY 231 A LYS 232 n 27 LYS 232 A ILE 233 n 28 ILE 233 A LYS 234 n 29 LYS 234 A GLY 235 n 30 GLY 235 A PHE 236 n 31 PHE 236 A SER 237 n 32 SER 237 A TRP 238 n 33 TRP 238 A TRP 239 n 34 TRP 239 A PRO 240 n 35 PRO 240 A ALA 241 n 36 ALA 241 A MET 242 n 37 MET 242 A VAL 243 n 38 VAL 243 A VAL 244 n 39 VAL 244 A SER 245 n 40 SER 245 A TRP 246 n 41 TRP 246 A LYS 247 n 42 LYS 247 A ALA 248 n 43 ALA 248 A THR 249 n 44 THR 249 A SER 250 n 45 SER 250 A LYS 251 n 46 LYS 251 A ARG 252 n 47 ARG 252 A GLN 253 n 48 GLN 253 A ALA 254 n 49 ALA 254 A MET 255 n 50 MET 255 A SER 256 n 51 SER 256 A GLY 257 n 52 GLY 257 A MET 258 n 53 MET 258 A ARG 259 n 54 ARG 259 A TRP 260 n 55 TRP 260 A VAL 261 n 56 VAL 261 A GLN 262 n 57 GLN 262 A TRP 263 n 58 TRP 263 A PHE 264 n 59 PHE 264 A GLY 265 n 60 GLY 265 A ASP 266 n 61 ASP 266 A GLY 267 n 62 GLY 267 A LYS 268 n 63 LYS 268 A PHE 269 n 64 PHE 269 A SER 270 n 65 SER 270 A GLU 271 n 66 GLU 271 A VAL 272 n 67 VAL 272 A SER 273 n 68 SER 273 A ALA 274 n 69 ALA 274 A ASP 275 n 70 ASP 275 A LYS 276 n 71 LYS 276 A LEU 277 n 72 LEU 277 A VAL 278 n 73 VAL 278 A ALA 279 n 74 ALA 279 A LEU 280 n 75 LEU 280 A GLY 281 n 76 GLY 281 A LEU 282 n 77 LEU 282 A PHE 283 n 78 PHE 283 A SER 284 n 79 SER 284 A GLN 285 n 80 GLN 285 A HIS 286 n 81 HIS 286 A PHE 287 n 82 PHE 287 A ASN 288 n 83 ASN 288 A LEU 289 n 84 LEU 289 A ALA 290 n 85 ALA 290 A THR 291 n 86 THR 291 A PHE 292 n 87 PHE 292 A ASN 293 n 88 ASN 293 A LYS 294 n 89 LYS 294 A LEU 295 n 90 LEU 295 A VAL 296 n 91 VAL 296 A SER 297 n 92 SER 297 A TYR 298 n 93 TYR 298 A ARG 299 n 94 ARG 299 A LYS 300 n 95 LYS 300 A ALA 301 n 96 ALA 301 A MET 302 n 97 MET 302 A TYR 303 n 98 TYR 303 A HIS 304 n 99 HIS 304 A ALA 305 n 100 ALA 305 A LEU 306 n 101 LEU 306 A GLU 307 n 102 GLU 307 A LYS 308 n 103 LYS 308 A ALA 309 n 104 ALA 309 A ARG 310 n 105 ARG 310 A VAL 311 n 106 VAL 311 A ARG 312 n 107 ARG 312 A ALA 313 n 108 ALA 313 A GLY 314 n 109 GLY 314 A LYS 315 n 110 LYS 315 A THR 316 n 111 THR 316 A PHE 317 n 112 PHE 317 A PRO 318 n 113 PRO 318 A SER 319 n 114 SER 319 A n 115 320 A n 116 321 A n 117 322 A n 118 323 A SER 324 n 119 SER 324 A LEU 325 n 120 LEU 325 A GLU 326 n 121 GLU 326 A ASP 327 n 122 ASP 327 A GLN 328 n 123 GLN 328 A LEU 329 n 124 LEU 329 A LYS 330 n 125 LYS 330 A PRO 331 n 126 PRO 331 A MET 332 n 127 MET 332 A LEU 333 n 128 LEU 333 A GLU 334 n 129 GLU 334 A TRP 335 n 130 TRP 335 A ALA 336 n 131 ALA 336 A HIS 337 n 132 HIS 337 A GLY 338 n 133 GLY 338 A GLY 339 n 134 GLY 339 A PHE 340 n 135 PHE 340 A LYS 341 n 136 LYS 341 A PRO 342 n 137 PRO 342 A THR 343 n 138 THR 343 A GLY 344 n 139 GLY 344 A ILE 345 n 140 ILE 345 A GLU 346 n 141 GLU 346 A GLY 347 n 142 GLY 347 A LEU 348 n 143 LEU 348 A LYS 349 n 144 LYS 349 A PRO 350 n 145 PRO 350 A ASN 351 n 146 ASN 351 A n 147 352 A n 148 353 A n 149 354 A n 150 355 A n 1 206 B n 2 207 B n 3 208 B n 4 209 B n 5 210 B n 6 211 B n 7 212 B n 8 213 B n 9 214 B SER 215 n 10 SER 215 B GLU 216 n 11 GLU 216 B TYR 217 n 12 TYR 217 B GLN 218 n 13 GLN 218 B ASP 219 n 14 ASP 219 B GLY 220 n 15 GLY 220 B LYS 221 n 16 LYS 221 B GLU 222 n 17 GLU 222 B PHE 223 n 18 PHE 223 B GLY 224 n 19 GLY 224 B ILE 225 n 20 ILE 225 B GLY 226 n 21 GLY 226 B ASP 227 n 22 ASP 227 B LEU 228 n 23 LEU 228 B VAL 229 n 24 VAL 229 B TRP 230 n 25 TRP 230 B GLY 231 n 26 GLY 231 B LYS 232 n 27 LYS 232 B ILE 233 n 28 ILE 233 B LYS 234 n 29 LYS 234 B GLY 235 n 30 GLY 235 B PHE 236 n 31 PHE 236 B SER 237 n 32 SER 237 B TRP 238 n 33 TRP 238 B TRP 239 n 34 TRP 239 B PRO 240 n 35 PRO 240 B ALA 241 n 36 ALA 241 B MET 242 n 37 MET 242 B VAL 243 n 38 VAL 243 B VAL 244 n 39 VAL 244 B SER 245 n 40 SER 245 B TRP 246 n 41 TRP 246 B LYS 247 n 42 LYS 247 B ALA 248 n 43 ALA 248 B THR 249 n 44 THR 249 B SER 250 n 45 SER 250 B LYS 251 n 46 LYS 251 B ARG 252 n 47 ARG 252 B GLN 253 n 48 GLN 253 B ALA 254 n 49 ALA 254 B MET 255 n 50 MET 255 B SER 256 n 51 SER 256 B GLY 257 n 52 GLY 257 B MET 258 n 53 MET 258 B ARG 259 n 54 ARG 259 B TRP 260 n 55 TRP 260 B VAL 261 n 56 VAL 261 B GLN 262 n 57 GLN 262 B TRP 263 n 58 TRP 263 B PHE 264 n 59 PHE 264 B GLY 265 n 60 GLY 265 B ASP 266 n 61 ASP 266 B GLY 267 n 62 GLY 267 B LYS 268 n 63 LYS 268 B PHE 269 n 64 PHE 269 B SER 270 n 65 SER 270 B GLU 271 n 66 GLU 271 B VAL 272 n 67 VAL 272 B SER 273 n 68 SER 273 B ALA 274 n 69 ALA 274 B ASP 275 n 70 ASP 275 B LYS 276 n 71 LYS 276 B LEU 277 n 72 LEU 277 B VAL 278 n 73 VAL 278 B ALA 279 n 74 ALA 279 B LEU 280 n 75 LEU 280 B GLY 281 n 76 GLY 281 B LEU 282 n 77 LEU 282 B PHE 283 n 78 PHE 283 B SER 284 n 79 SER 284 B GLN 285 n 80 GLN 285 B HIS 286 n 81 HIS 286 B PHE 287 n 82 PHE 287 B ASN 288 n 83 ASN 288 B LEU 289 n 84 LEU 289 B ALA 290 n 85 ALA 290 B THR 291 n 86 THR 291 B PHE 292 n 87 PHE 292 B ASN 293 n 88 ASN 293 B LYS 294 n 89 LYS 294 B LEU 295 n 90 LEU 295 B VAL 296 n 91 VAL 296 B SER 297 n 92 SER 297 B TYR 298 n 93 TYR 298 B ARG 299 n 94 ARG 299 B LYS 300 n 95 LYS 300 B ALA 301 n 96 ALA 301 B MET 302 n 97 MET 302 B TYR 303 n 98 TYR 303 B HIS 304 n 99 HIS 304 B ALA 305 n 100 ALA 305 B LEU 306 n 101 LEU 306 B GLU 307 n 102 GLU 307 B LYS 308 n 103 LYS 308 B ALA 309 n 104 ALA 309 B ARG 310 n 105 ARG 310 B VAL 311 n 106 VAL 311 B ARG 312 n 107 ARG 312 B ALA 313 n 108 ALA 313 B GLY 314 n 109 GLY 314 B LYS 315 n 110 LYS 315 B THR 316 n 111 THR 316 B PHE 317 n 112 PHE 317 B PRO 318 n 113 PRO 318 B SER 319 n 114 SER 319 B n 115 320 B n 116 321 B n 117 322 B n 118 323 B SER 324 n 119 SER 324 B LEU 325 n 120 LEU 325 B GLU 326 n 121 GLU 326 B ASP 327 n 122 ASP 327 B GLN 328 n 123 GLN 328 B LEU 329 n 124 LEU 329 B LYS 330 n 125 LYS 330 B PRO 331 n 126 PRO 331 B MET 332 n 127 MET 332 B LEU 333 n 128 LEU 333 B GLU 334 n 129 GLU 334 B TRP 335 n 130 TRP 335 B ALA 336 n 131 ALA 336 B HIS 337 n 132 HIS 337 B GLY 338 n 133 GLY 338 B GLY 339 n 134 GLY 339 B PHE 340 n 135 PHE 340 B LYS 341 n 136 LYS 341 B PRO 342 n 137 PRO 342 B THR 343 n 138 THR 343 B GLY 344 n 139 GLY 344 B ILE 345 n 140 ILE 345 B GLU 346 n 141 GLU 346 B GLY 347 n 142 GLY 347 B LEU 348 n 143 LEU 348 B LYS 349 n 144 LYS 349 B PRO 350 n 145 PRO 350 B ASN 351 n 146 ASN 351 B n 147 352 B n 148 353 B n 149 354 B n 150 355 B author_and_software_defined_assembly PISA 2 dimeric none 2650 -107 14190 1.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 1_555 x,y,z identity operation 0.0000000000 0.0000000000 0.0000000000 A O VAL 272 A O VAL 67 A N ARG 259 A N ARG 54 A O GLN 262 A O GLN 57 A N MET 242 A N MET 37 A O TRP 239 A O TRP 34 A N GLY 231 A N GLY 26 A N TRP 230 A N TRP 25 A O VAL 278 A O VAL 73 B O VAL 272 B O VAL 67 B N ARG 259 B N ARG 54 B O GLN 262 B O GLN 57 B N MET 242 B N MET 37 B O ALA 241 B O ALA 36 B N VAL 229 B N VAL 24 B N TRP 230 B N TRP 25 B O VAL 278 B O VAL 73 1 B SO4 405 M SO4 1 A GLU 206 A GLU 1 1 Y 1 A ALA 207 A ALA 2 1 Y 1 A ASP 208 A ASP 3 1 Y 1 A SER 209 A SER 4 1 Y 1 A GLY 210 A GLY 5 1 Y 1 A ASP 211 A ASP 6 1 Y 1 A GLY 212 A GLY 7 1 Y 1 A ASP 213 A ASP 8 1 Y 1 A SER 214 A SER 9 1 Y 1 A SER 320 A SER 115 1 Y 1 A PRO 321 A PRO 116 1 Y 1 A GLY 322 A GLY 117 1 Y 1 A ASP 323 A ASP 118 1 Y 1 A ASN 352 A ASN 147 1 Y 1 A THR 353 A THR 148 1 Y 1 A GLN 354 A GLN 149 1 Y 1 A PRO 355 A PRO 150 1 Y 1 B GLU 206 B GLU 1 1 Y 1 B ALA 207 B ALA 2 1 Y 1 B ASP 208 B ASP 3 1 Y 1 B SER 209 B SER 4 1 Y 1 B GLY 210 B GLY 5 1 Y 1 B ASP 211 B ASP 6 1 Y 1 B GLY 212 B GLY 7 1 Y 1 B ASP 213 B ASP 8 1 Y 1 B SER 214 B SER 9 1 Y 1 B SER 320 B SER 115 1 Y 1 B PRO 321 B PRO 116 1 Y 1 B GLY 322 B GLY 117 1 Y 1 B ASP 323 B ASP 118 1 Y 1 B ASN 352 B ASN 147 1 Y 1 B THR 353 B THR 148 1 Y 1 B GLN 354 B GLN 149 1 Y 1 B PRO 355 B PRO 150 1 Y 1 A A O O ALA HOH 248 501 2.15 1 A PHE 223 75.98 123.02 1 A LYS 251 -113.97 -94.92 1 A LEU 325 -99.07 -61.37 1 B LYS 221 -63.31 -170.14 1 B PHE 223 75.44 119.50 1 B LYS 251 -131.92 -127.11 1 B LEU 325 -85.25 -77.20 98.860 51.3900 25.520 0.2435 0.1944 0.1968 2.3990 40.9160 1027 20539 5.0000 99.8200 0.3100 1 FREE R-VALUE 1.360 MOLECULAR REPLACEMENT 26.5300 0.9000 1.1100 3QKJ 2.3990 40.9160 73 2270 61.69 48.73 69 0 2128 266 0.008 2250 1.211 3022 0.079 292 0.006 366 14.909 800 0.3320 0.0000 0.2882 2.5253 142 2694 2836 7 99.0000 0.3355 0.0000 0.2599 2.6835 145 2760 2905 7 100.0000 0.2945 0.0000 0.2558 2.8906 144 2731 2875 7 100.0000 0.3017 0.0000 0.2507 3.1814 146 2766 2912 7 100.0000 0.3195 0.0000 0.2119 3.6415 145 2781 2926 7 100.0000 0.2403 0.0000 0.1714 4.5870 149 2829 2978 7 100.0000 0.1783 0.0000 0.1651 40.9217 156 2951 3107 7 100.0000 66.450 2.399 40.916 5NV0 20558 1.0 0.041 1 31.99 9.7 99.9 0.88 2.40 2.54 2.68 3229 0.9 1 9.8 99.5 data scaling XSCALE refinement PHENIX 1.8.1_1168 data extraction PDB_EXTRACT 3.22 data reduction XDS phasing PHASER N Human DNMT3B PWWP domain in complex with 4-(dipropylamino)butyronitrile 1 N N 1 N N 2 N N 3 N N 3 N N 3 N N 3 N N 3 N N 2 N N 3 N N 3 N N 3 N N 3 N N 4 N N 4 N N A SER 245 A SER 40 HELX_P A THR 249 A THR 44 5 AA1 5 A ASN 288 A ASN 83 HELX_P A LEU 295 A LEU 90 1 AA2 8 A LEU 295 A LEU 90 HELX_P A GLY 314 A GLY 109 1 AA3 20 A LEU 325 A LEU 120 HELX_P A GLY 338 A GLY 133 1 AA4 14 A GLY 344 A GLY 139 HELX_P A LYS 349 A LYS 144 5 AA5 6 B SER 245 B SER 40 HELX_P B THR 249 B THR 44 5 AA6 5 B LEU 282 B LEU 77 HELX_P B PHE 287 B PHE 82 1 AA7 6 B ASN 288 B ASN 83 HELX_P B LEU 295 B LEU 90 1 AA8 8 B LEU 295 B LEU 90 HELX_P B GLY 314 B GLY 109 1 AA9 20 B LEU 325 B LEU 120 HELX_P B GLY 338 B GLY 133 1 AB1 14 B THR 343 B THR 138 HELX_P B LYS 349 B LYS 144 5 AB2 7 TRANSFERASE DNMT3B PWWP DOMAIN, HISTONE BINDING, BETA BARREL, LIGAND, TRANSFERASE A LYS 341 A LYS 136 1 A PRO 342 A PRO 137 9.64 B LYS 341 B LYS 136 1 B PRO 342 B PRO 137 9.30 DNM3B_HUMAN UNP 1 206 Q9UBC3 EADSGDGDSSEYQDGKEFGIGDLVWGKIKGFSWWPAMVVSWKATSKRQAMSGMRWVQWFGDGKFSEVSADKLVALGLFSQ HFNLATFNKLVSYRKAMYHALEKARVRAGKTFPSSPGDSLEDQLKPMLEWAHGGFKPTGIEGLKPNNTQP 206 355 5NV0 206 355 Q9UBC3 A 1 1 150 206 355 5NV0 206 355 Q9UBC3 B 1 1 150 5 5 anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel A PHE 269 A PHE 64 A SER 273 A SER 68 A MET 258 A MET 53 A TRP 263 A TRP 58 A TRP 239 A TRP 34 A VAL 244 A VAL 39 A LEU 228 A LEU 23 A GLY 231 A GLY 26 A LEU 277 A LEU 72 A ALA 279 A ALA 74 B PHE 269 B PHE 64 B SER 273 B SER 68 B MET 258 B MET 53 B TRP 263 B TRP 58 B TRP 239 B TRP 34 B VAL 244 B VAL 39 B LEU 228 B LEU 23 B GLY 231 B GLY 26 B LEU 277 B LEU 72 B ALA 279 B ALA 74 binding site for residue 9AH A 401 A 9AH 401 Software 7 binding site for residue SO4 A 402 A SO4 402 Software 5 binding site for residue SO4 A 403 A SO4 403 Software 3 binding site for residue SO4 A 404 A SO4 404 Software 3 binding site for residue SO4 A 405 A SO4 405 Software 3 binding site for residue SO4 A 406 A SO4 406 Software 2 binding site for residue 9AH B 401 B 9AH 401 Software 5 binding site for residue SO4 B 402 B SO4 402 Software 2 binding site for residue SO4 B 403 B SO4 403 Software 2 binding site for residue SO4 B 404 B SO4 404 Software 3 binding site for residue SO4 B 405 B SO4 405 Software 2 A ILE 233 A ILE 28 7 1_555 A PHE 236 A PHE 31 7 1_555 A TRP 239 A TRP 34 7 1_555 A TRP 263 A TRP 58 7 1_555 A ASP 266 A ASP 61 7 1_555 A SER 297 A SER 92 7 1_555 A HOH 532 N HOH 7 1_555 A LYS 251 A LYS 46 5 1_555 A ARG 252 A ARG 47 5 1_555 A SO4 405 G SO4 5 1_555 A HOH 530 N HOH 5 1_555 B HIS 304 B HIS 99 5 1_555 A LYS 308 A LYS 103 3 1_555 A ARG 312 A ARG 107 3 1_555 A ASN 351 A ASN 146 3 1_555 A LYS 232 A LYS 27 3 1_555 A LYS 234 A LYS 29 3 1_555 A GLY 235 A GLY 30 3 1_555 A LYS 251 A LYS 46 3 1_555 A ARG 252 A ARG 47 3 1_555 A SO4 402 D SO4 3 1_555 A LYS 276 A LYS 71 2 1_555 B ARG 310 B ARG 105 2 1_555 B ILE 233 B ILE 28 5 1_555 B TRP 239 B TRP 34 5 1_555 B TRP 263 B TRP 58 5 1_555 B ASP 266 B ASP 61 5 1_555 B SER 297 B SER 92 5 1_555 A ARG 310 A ARG 105 2 4_655 B LYS 276 B LYS 71 2 1_555 B LYS 251 B LYS 46 2 1_555 B ARG 252 B ARG 47 2 1_555 B LYS 308 B LYS 103 3 1_555 B ARG 312 B ARG 107 3 1_555 B ASN 351 B ASN 146 3 1_555 B TRP 238 B TRP 33 2 1_555 B TRP 238 B TRP 33 2 5_555 154 P 32 2 1