0.008294 0.000000 0.000000 0.000000 0.015743 0.000000 0.000000 0.000000 0.026168 0.00000 0.00000 0.00000 GLY 274 - SER 275 OMEGA =359.35 PEPTIDE BOND DEVIATES SIGNIFICANTLY FROM TRANS CONFORMATION Sawaya, M.R. Pelletier, H. Kumar, A. Wilson, S.H. Kraut, J. http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 4 90.00 90.00 90.00 120.576 63.520 38.215 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 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 N N 305 S C N 306 N C N 307 N O N 308 R C N 309 N O N 310 N C N 311 N O N 312 N H N 313 N H N 314 N H 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 N N 322 S C N 323 N C N 324 N O N 325 N C Y 326 N C Y 327 N C Y 328 N C Y 329 N N Y 330 N C Y 331 N C Y 332 N C Y 333 N C Y 334 N C N 335 N O 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 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 N C Y 353 N C Y 354 N C Y 355 N C Y 356 N C Y 357 N C Y 358 N C N 359 N O N 360 N O 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 H N 372 N N N 373 S C N 374 N C N 375 N O N 376 N C N 377 N C N 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 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 sing N 291 N sing N 292 N sing N 293 N sing N 294 N sing N 295 N sing N 296 N doub 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 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 doub N 313 N sing N 314 N sing N 315 N sing N 316 N sing Y 317 N doub Y 318 N sing Y 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 sing Y 326 N doub N 327 N sing Y 328 N doub N 329 N sing Y 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 doub N 341 N sing N 342 N sing N 343 N sing N 344 N sing Y 345 N doub Y 346 N sing Y 347 N sing N 348 N sing Y 349 N doub N 350 N sing Y 351 N doub N 352 N sing Y 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 sing N 363 N sing N 364 N doub 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 sing N 374 N sing N 375 N sing US Science SCIEAS 0038 0036-8075 264 1930 1935 7516581 Crystal structure of rat DNA polymerase beta: evidence for a common polymerase mechanism. 1994 US Science SCIEAS 0038 0036-8075 264 1891 Structures of Ternary Complexes of Rat DNA Polymerase Beta, a DNA Template-Primer, and ddCTP 1994 US J.Biol.Chem. JBCHA3 0071 0021-9258 265 2124 Studies of the Domain Structure of Mammalian DNA Polymerase Beta. Identification of a Discrete Template Binding Domain 1990 10.2210/pdb1bpb/pdb pdb_00001bpb 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 1 x-ray 1 1.0 28774.527 DNA POLYMERASE BETA 2.7.7.7 1 man polymer 18.015 water 90 nat water no no IRQDDTSSSINFLTRVTGIGPSAARKLVDEGIKTLEDLRKNEDKLNHHQRIGLKYFEDFEKRIPREEMLQMQDIVLNEVK KLDPEYIATVCGSFRRGAESSGDMDVLLTHPNFTSESSKQPKLLHRVVEQLQKVRFITDTLSKGETKFMGVCQLPSENDE NEYPHRRIDIRLIPKDQYYCGVLYFTGSDIFNKNMRAHALEKGFTINEYTIRPLGVTGVAGEPLPVDSEQDIFDYIQWRY REPKDRSE IRQDDTSSSINFLTRVTGIGPSAARKLVDEGIKTLEDLRKNEDKLNHHQRIGLKYFEDFEKRIPREEMLQMQDIVLNEVK KLDPEYIATVCGSFRRGAESSGDMDVLLTHPNFTSESSKQPKLLHRVVEQLQKVRFITDTLSKGETKFMGVCQLPSENDE NEYPHRRIDIRLIPKDQYYCGVLYFTGSDIFNKNMRAHALEKGFTINEYTIRPLGVTGVAGEPLPVDSEQDIFDYIQWRY REPKDRSE 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 n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n Norway rat Rattus sample 10116 Rattus norvegicus BACTERIAL 2.54 51.61 atom_site chem_comp_atom chem_comp_bond database_2 pdbx_database_status repository Initial release Version format compliance Version format compliance Atomic model Atomic model Data collection Database references Other 1 0 1994-06-22 1 1 2008-03-24 1 2 2011-07-13 1 3 2011-11-16 2 0 2024-02-07 _atom_site.occupancy _database_2.pdbx_DOI _database_2.pdbx_database_accession _pdbx_database_status.process_site Y BNL 1994-04-12 REL HOH water DNA POLYMERASE BETA POSSESSES A PROTEOLYTICALLY SENSITIVE REGION IN ITS AMINO ACID SEQUENCE (RESIDUES 80 - 90), AND THE PRECISE CLEAVAGE SITE VARIES DEPENDING ON THE PROTEASE OR THE CHEMICAL REAGENT USED IN THE CLEAVAGE REACTION (SEE A. KUMAR ET AL., J. BIOL. CHEM. 265, 2124 (1990)). THE AUTHORS SUSPECT THAT A BACTERIAL PROTEASE OF UNKNOWN ORIGIN UNEXPECTEDLY CLEAVED THEIR INTACT ENZYME DURING THE CRYSTALLIZATION PROCESS, RESULTING IN CRYSTALS OF THE PROTEIN STRUCTURE REPORTED IN THIS ENTRY - THE 31-KD COOH-TERMINAL DOMAIN (RESIDUES 88 - 335) OF DNA POLYMERASE BETA. BECAUSE THE AUTHORS HAVE NOT DONE AN N-TERMINAL ANALYSIS ON THE PROTEIN IN THEIR CRYSTALS, THEIR CHOICE OF THE CLEAVAGE SITE (BETWEEN RESIDUES 87 AND 88) IS RATHER ARBITRARY, AND IN FACT, THERE MAY EVEN BE VARIABLE N-TERMINAL RESIDUES WITHIN ANY GIVEN CRYSTAL OF THIS CLEAVED PROTEIN. PLEASE NOTE THAT THIS ENTRY IS ONLY THE 31 KD DOMAIN AND THE FIRST 8 KD DOMAIN IS NOT PRESENT IN THIS STRUCTURE. PDB ADVISORY NOTICE: WATER MOLECULES 441, 468, AND 477 ARE VERY CLOSE TO SPECIAL POSITIONS. SEQUENCE ADVISORY NOTICE DIFFERENCE BETWEEN SWISS-PROT AND PDB SEQUENCE. SWISS-PROT ENTRY NAME: DPOB_RAT SWISS-PROT RESIDUE PDB SEQRES NAME NUMBER NAME CHAIN SEQ/INSERT CODE ARG 227 LEU 228 THE PAPER BY KUMAR, ET AL., J.BIOL.CHEM., 265, 2124, (1990) REPORTS A CORRECTION TO THE SEQUENCE GIVEN IN SWISS-PROT (SEE REFERENCE 3 ABOVE). HOH 401 2 HOH HOH 401 A HOH 402 2 HOH HOH 402 A HOH 403 2 HOH HOH 403 A HOH 404 2 HOH HOH 404 A HOH 405 2 HOH HOH 405 A HOH 406 2 HOH HOH 406 A HOH 407 2 HOH HOH 407 A HOH 408 2 HOH HOH 408 A HOH 409 2 HOH HOH 409 A HOH 410 2 HOH HOH 410 A HOH 411 2 HOH HOH 411 A HOH 412 2 HOH HOH 412 A HOH 413 2 HOH HOH 413 A HOH 414 2 HOH HOH 414 A HOH 415 2 HOH HOH 415 A HOH 416 2 HOH HOH 416 A HOH 417 2 HOH HOH 417 A HOH 418 2 HOH HOH 418 A HOH 419 2 HOH HOH 419 A HOH 420 2 HOH HOH 420 A HOH 421 2 HOH HOH 421 A HOH 422 2 HOH HOH 422 A HOH 423 2 HOH HOH 423 A HOH 424 2 HOH HOH 424 A HOH 425 2 HOH HOH 425 A HOH 426 2 HOH HOH 426 A HOH 427 2 HOH HOH 427 A HOH 428 2 HOH HOH 428 A HOH 429 2 HOH HOH 429 A HOH 430 2 HOH HOH 430 A HOH 433 2 HOH HOH 433 A HOH 434 2 HOH HOH 434 A HOH 435 2 HOH HOH 435 A HOH 436 2 HOH HOH 436 A HOH 437 2 HOH HOH 437 A HOH 438 2 HOH HOH 438 A HOH 439 2 HOH HOH 439 A HOH 440 2 HOH HOH 440 A HOH 441 2 HOH HOH 441 A HOH 442 2 HOH HOH 442 A HOH 443 2 HOH HOH 443 A HOH 444 2 HOH HOH 444 A HOH 445 2 HOH HOH 445 A HOH 447 2 HOH HOH 447 A HOH 448 2 HOH HOH 448 A HOH 449 2 HOH HOH 449 A HOH 450 2 HOH HOH 450 A HOH 451 2 HOH HOH 451 A HOH 454 2 HOH HOH 454 A HOH 455 2 HOH HOH 455 A HOH 456 2 HOH HOH 456 A HOH 457 2 HOH HOH 457 A HOH 458 2 HOH HOH 458 A HOH 459 2 HOH HOH 459 A HOH 460 2 HOH HOH 460 A HOH 461 2 HOH HOH 461 A HOH 462 2 HOH HOH 462 A HOH 463 2 HOH HOH 463 A HOH 464 2 HOH HOH 464 A HOH 465 2 HOH HOH 465 A HOH 466 2 HOH HOH 466 A HOH 467 2 HOH HOH 467 A HOH 468 2 HOH HOH 468 A HOH 469 2 HOH HOH 469 A HOH 470 2 HOH HOH 470 A HOH 471 2 HOH HOH 471 A HOH 472 2 HOH HOH 472 A HOH 473 2 HOH HOH 473 A HOH 474 2 HOH HOH 474 A HOH 476 2 HOH HOH 476 A HOH 477 2 HOH HOH 477 A HOH 478 2 HOH HOH 478 A HOH 479 2 HOH HOH 479 A HOH 481 2 HOH HOH 481 A HOH 482 2 HOH HOH 482 A HOH 483 2 HOH HOH 483 A HOH 484 2 HOH HOH 484 A HOH 485 2 HOH HOH 485 A HOH 486 2 HOH HOH 486 A HOH 487 2 HOH HOH 487 A HOH 488 2 HOH HOH 488 A HOH 489 2 HOH HOH 489 A HOH 490 2 HOH HOH 490 A HOH 491 2 HOH HOH 491 A HOH 492 2 HOH HOH 492 A HOH 494 2 HOH HOH 494 A HOH 496 2 HOH HOH 496 A HOH 497 2 HOH HOH 497 A HOH 498 2 HOH HOH 498 A HOH 499 2 HOH HOH 499 A n 1 88 A n 2 89 A n 3 90 A ASP 91 n 4 ASP 91 A ASP 92 n 5 ASP 92 A THR 93 n 6 THR 93 A SER 94 n 7 SER 94 A SER 95 n 8 SER 95 A SER 96 n 9 SER 96 A ILE 97 n 10 ILE 97 A ASN 98 n 11 ASN 98 A PHE 99 n 12 PHE 99 A LEU 100 n 13 LEU 100 A THR 101 n 14 THR 101 A ARG 102 n 15 ARG 102 A VAL 103 n 16 VAL 103 A THR 104 n 17 THR 104 A GLY 105 n 18 GLY 105 A ILE 106 n 19 ILE 106 A GLY 107 n 20 GLY 107 A PRO 108 n 21 PRO 108 A SER 109 n 22 SER 109 A ALA 110 n 23 ALA 110 A ALA 111 n 24 ALA 111 A ARG 112 n 25 ARG 112 A LYS 113 n 26 LYS 113 A LEU 114 n 27 LEU 114 A VAL 115 n 28 VAL 115 A ASP 116 n 29 ASP 116 A GLU 117 n 30 GLU 117 A GLY 118 n 31 GLY 118 A ILE 119 n 32 ILE 119 A LYS 120 n 33 LYS 120 A THR 121 n 34 THR 121 A LEU 122 n 35 LEU 122 A GLU 123 n 36 GLU 123 A ASP 124 n 37 ASP 124 A LEU 125 n 38 LEU 125 A ARG 126 n 39 ARG 126 A LYS 127 n 40 LYS 127 A ASN 128 n 41 ASN 128 A GLU 129 n 42 GLU 129 A ASP 130 n 43 ASP 130 A LYS 131 n 44 LYS 131 A LEU 132 n 45 LEU 132 A ASN 133 n 46 ASN 133 A HIS 134 n 47 HIS 134 A HIS 135 n 48 HIS 135 A GLN 136 n 49 GLN 136 A ARG 137 n 50 ARG 137 A ILE 138 n 51 ILE 138 A GLY 139 n 52 GLY 139 A LEU 140 n 53 LEU 140 A LYS 141 n 54 LYS 141 A TYR 142 n 55 TYR 142 A PHE 143 n 56 PHE 143 A GLU 144 n 57 GLU 144 A ASP 145 n 58 ASP 145 A PHE 146 n 59 PHE 146 A GLU 147 n 60 GLU 147 A LYS 148 n 61 LYS 148 A ARG 149 n 62 ARG 149 A ILE 150 n 63 ILE 150 A PRO 151 n 64 PRO 151 A ARG 152 n 65 ARG 152 A GLU 153 n 66 GLU 153 A GLU 154 n 67 GLU 154 A MET 155 n 68 MET 155 A LEU 156 n 69 LEU 156 A GLN 157 n 70 GLN 157 A MET 158 n 71 MET 158 A GLN 159 n 72 GLN 159 A ASP 160 n 73 ASP 160 A ILE 161 n 74 ILE 161 A VAL 162 n 75 VAL 162 A LEU 163 n 76 LEU 163 A ASN 164 n 77 ASN 164 A GLU 165 n 78 GLU 165 A VAL 166 n 79 VAL 166 A LYS 167 n 80 LYS 167 A LYS 168 n 81 LYS 168 A LEU 169 n 82 LEU 169 A ASP 170 n 83 ASP 170 A PRO 171 n 84 PRO 171 A GLU 172 n 85 GLU 172 A TYR 173 n 86 TYR 173 A ILE 174 n 87 ILE 174 A ALA 175 n 88 ALA 175 A THR 176 n 89 THR 176 A VAL 177 n 90 VAL 177 A CYS 178 n 91 CYS 178 A GLY 179 n 92 GLY 179 A SER 180 n 93 SER 180 A PHE 181 n 94 PHE 181 A ARG 182 n 95 ARG 182 A ARG 183 n 96 ARG 183 A GLY 184 n 97 GLY 184 A ALA 185 n 98 ALA 185 A GLU 186 n 99 GLU 186 A SER 187 n 100 SER 187 A SER 188 n 101 SER 188 A GLY 189 n 102 GLY 189 A ASP 190 n 103 ASP 190 A MET 191 n 104 MET 191 A ASP 192 n 105 ASP 192 A VAL 193 n 106 VAL 193 A LEU 194 n 107 LEU 194 A LEU 195 n 108 LEU 195 A THR 196 n 109 THR 196 A HIS 197 n 110 HIS 197 A PRO 198 n 111 PRO 198 A ASN 199 n 112 ASN 199 A PHE 200 n 113 PHE 200 A THR 201 n 114 THR 201 A SER 202 n 115 SER 202 A GLU 203 n 116 GLU 203 A SER 204 n 117 SER 204 A SER 205 n 118 SER 205 A LYS 206 n 119 LYS 206 A GLN 207 n 120 GLN 207 A PRO 208 n 121 PRO 208 A LYS 209 n 122 LYS 209 A LEU 210 n 123 LEU 210 A LEU 211 n 124 LEU 211 A HIS 212 n 125 HIS 212 A ARG 213 n 126 ARG 213 A VAL 214 n 127 VAL 214 A VAL 215 n 128 VAL 215 A GLU 216 n 129 GLU 216 A GLN 217 n 130 GLN 217 A LEU 218 n 131 LEU 218 A GLN 219 n 132 GLN 219 A LYS 220 n 133 LYS 220 A VAL 221 n 134 VAL 221 A ARG 222 n 135 ARG 222 A PHE 223 n 136 PHE 223 A ILE 224 n 137 ILE 224 A THR 225 n 138 THR 225 A ASP 226 n 139 ASP 226 A THR 227 n 140 THR 227 A LEU 228 n 141 LEU 228 A SER 229 n 142 SER 229 A LYS 230 n 143 LYS 230 A GLY 231 n 144 GLY 231 A GLU 232 n 145 GLU 232 A THR 233 n 146 THR 233 A LYS 234 n 147 LYS 234 A PHE 235 n 148 PHE 235 A MET 236 n 149 MET 236 A GLY 237 n 150 GLY 237 A VAL 238 n 151 VAL 238 A CYS 239 n 152 CYS 239 A GLN 240 n 153 GLN 240 A LEU 241 n 154 LEU 241 A PRO 242 n 155 PRO 242 A SER 243 n 156 SER 243 A GLU 244 n 157 GLU 244 A ASN 245 n 158 ASN 245 A n 159 246 A n 160 247 A n 161 248 A GLU 249 n 162 GLU 249 A TYR 250 n 163 TYR 250 A PRO 251 n 164 PRO 251 A HIS 252 n 165 HIS 252 A ARG 253 n 166 ARG 253 A ARG 254 n 167 ARG 254 A ILE 255 n 168 ILE 255 A ASP 256 n 169 ASP 256 A ILE 257 n 170 ILE 257 A ARG 258 n 171 ARG 258 A LEU 259 n 172 LEU 259 A ILE 260 n 173 ILE 260 A PRO 261 n 174 PRO 261 A LYS 262 n 175 LYS 262 A ASP 263 n 176 ASP 263 A GLN 264 n 177 GLN 264 A TYR 265 n 178 TYR 265 A TYR 266 n 179 TYR 266 A CYS 267 n 180 CYS 267 A GLY 268 n 181 GLY 268 A VAL 269 n 182 VAL 269 A LEU 270 n 183 LEU 270 A TYR 271 n 184 TYR 271 A PHE 272 n 185 PHE 272 A THR 273 n 186 THR 273 A GLY 274 n 187 GLY 274 A SER 275 n 188 SER 275 A ASP 276 n 189 ASP 276 A ILE 277 n 190 ILE 277 A PHE 278 n 191 PHE 278 A ASN 279 n 192 ASN 279 A LYS 280 n 193 LYS 280 A ASN 281 n 194 ASN 281 A MET 282 n 195 MET 282 A ARG 283 n 196 ARG 283 A ALA 284 n 197 ALA 284 A HIS 285 n 198 HIS 285 A ALA 286 n 199 ALA 286 A LEU 287 n 200 LEU 287 A GLU 288 n 201 GLU 288 A LYS 289 n 202 LYS 289 A GLY 290 n 203 GLY 290 A PHE 291 n 204 PHE 291 A THR 292 n 205 THR 292 A ILE 293 n 206 ILE 293 A ASN 294 n 207 ASN 294 A GLU 295 n 208 GLU 295 A TYR 296 n 209 TYR 296 A THR 297 n 210 THR 297 A ILE 298 n 211 ILE 298 A ARG 299 n 212 ARG 299 A PRO 300 n 213 PRO 300 A LEU 301 n 214 LEU 301 A GLY 302 n 215 GLY 302 A VAL 303 n 216 VAL 303 A THR 304 n 217 THR 304 A GLY 305 n 218 GLY 305 A VAL 306 n 219 VAL 306 A ALA 307 n 220 ALA 307 A GLY 308 n 221 GLY 308 A GLU 309 n 222 GLU 309 A PRO 310 n 223 PRO 310 A LEU 311 n 224 LEU 311 A PRO 312 n 225 PRO 312 A VAL 313 n 226 VAL 313 A ASP 314 n 227 ASP 314 A SER 315 n 228 SER 315 A GLU 316 n 229 GLU 316 A GLN 317 n 230 GLN 317 A ASP 318 n 231 ASP 318 A ILE 319 n 232 ILE 319 A PHE 320 n 233 PHE 320 A ASP 321 n 234 ASP 321 A TYR 322 n 235 TYR 322 A ILE 323 n 236 ILE 323 A GLN 324 n 237 GLN 324 A TRP 325 n 238 TRP 325 A ARG 326 n 239 ARG 326 A TYR 327 n 240 TYR 327 A ARG 328 n 241 ARG 328 A GLU 329 n 242 GLU 329 A PRO 330 n 243 PRO 330 A LYS 331 n 244 LYS 331 A ASP 332 n 245 ASP 332 A ARG 333 n 246 ARG 333 A SER 334 n 247 SER 334 A GLU 335 n 248 GLU 335 A author_defined_assembly 1 monomeric 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 ILE 150 A N ILE 63 A O SER 188 A O SER 101 A N THR 176 A N THR 89 A O LEU 194 A O LEU 107 A N MET 191 A N MET 104 A O ARG 254 A O ARG 167 A O ILE 257 A O ILE 170 A N PHE 235 A N PHE 148 A O VAL 238 A O VAL 151 A N THR 225 A N THR 138 A O THR 292 A O THR 205 A N ARG 299 A N ARG 212 1 A HOH 441 B HOH 1 A HOH 477 B HOH 1 A CG ASP 91 A CG ASP 4 1 Y 1 A OD1 ASP 91 A OD1 ASP 4 1 Y 1 A OD2 ASP 91 A OD2 ASP 4 1 Y 1 A CG ASP 92 A CG ASP 5 1 Y 1 A OD1 ASP 92 A OD1 ASP 5 1 Y 1 A OD2 ASP 92 A OD2 ASP 5 1 Y 1 A OG SER 109 A OG SER 22 1 Y 1 A CG1 ILE 119 A CG1 ILE 32 1 Y 1 A CG2 ILE 119 A CG2 ILE 32 1 Y 1 A CD1 ILE 119 A CD1 ILE 32 1 Y 1 A CG GLU 123 A CG GLU 36 1 Y 1 A CD GLU 123 A CD GLU 36 1 Y 1 A OE1 GLU 123 A OE1 GLU 36 1 Y 1 A OE2 GLU 123 A OE2 GLU 36 1 Y 1 A CG LYS 131 A CG LYS 44 1 Y 1 A CD LYS 131 A CD LYS 44 1 Y 1 A CE LYS 131 A CE LYS 44 1 Y 1 A NZ LYS 131 A NZ LYS 44 1 Y 1 A NZ LYS 206 A NZ LYS 119 1 Y 1 A CD LYS 220 A CD LYS 133 1 Y 1 A CE LYS 220 A CE LYS 133 1 Y 1 A NZ LYS 220 A NZ LYS 133 1 Y 1 A OG SER 243 A OG SER 156 1 Y 1 A CG GLU 244 A CG GLU 157 1 Y 1 A CD GLU 244 A CD GLU 157 1 Y 1 A OE1 GLU 244 A OE1 GLU 157 1 Y 1 A OE2 GLU 244 A OE2 GLU 157 1 Y 1 A CG ASN 245 A CG ASN 158 1 Y 1 A OD1 ASN 245 A OD1 ASN 158 1 Y 1 A ND2 ASN 245 A ND2 ASN 158 1 Y 1 A CG LYS 280 A CG LYS 193 1 Y 1 A CD LYS 280 A CD LYS 193 1 Y 1 A CE LYS 280 A CE LYS 193 1 Y 1 A NZ LYS 280 A NZ LYS 193 1 Y 1 A CG1 VAL 303 A CG1 VAL 216 1 Y 1 A CG2 VAL 303 A CG2 VAL 216 1 Y 1 A OG1 THR 304 A OG1 THR 217 1 Y 1 A CG2 THR 304 A CG2 THR 217 1 Y 1 A CG1 VAL 306 A CG1 VAL 219 1 Y 1 A CG2 VAL 306 A CG2 VAL 219 1 Y 1 A CG ARG 326 A CG ARG 239 1 Y 1 A CD ARG 326 A CD ARG 239 1 Y 1 A NE ARG 326 A NE ARG 239 1 Y 1 A CZ ARG 326 A CZ ARG 239 1 Y 1 A NH1 ARG 326 A NH1 ARG 239 1 Y 1 A NH2 ARG 326 A NH2 ARG 239 1 Y 1 A ILE 88 A ILE 1 1 Y 1 A ARG 89 A ARG 2 1 Y 1 A GLN 90 A GLN 3 1 Y 1 A ASP 246 A ASP 159 1 Y 1 A GLU 247 A GLU 160 1 Y 1 A ASN 248 A ASN 161 1 Y 1 A HOH 499 B HOH 0 N 1 A CA GLU 249 PLANAR 1 A LYS 120 15.07 1 A THR 297 -15.43 1 -3.10 0.50 120.30 117.20 A A A NE CZ NH2 ARG ARG ARG 102 102 102 N 1 4.83 0.50 120.30 125.13 A A A NE CZ NH1 ARG ARG ARG 112 112 112 N 1 -3.37 0.50 120.30 116.93 A A A NE CZ NH2 ARG ARG ARG 112 112 112 N 1 -17.33 1.60 122.70 105.37 A A A O C N LYS LYS THR 120 120 121 Y 1 -17.96 2.20 117.20 99.24 A A A CA C N ARG ARG LYS 126 126 127 Y 1 15.59 1.60 122.70 138.29 A A A O C N ARG ARG LYS 126 126 127 Y 1 -28.15 2.50 121.70 93.55 A A A C N CA ARG LYS LYS 126 127 127 Y 1 -5.79 0.90 118.30 112.51 A A A CB CG OD1 ASP ASP ASP 130 130 130 N 1 3.35 0.50 120.30 123.65 A A A NE CZ NH1 ARG ARG ARG 137 137 137 N 1 -3.46 0.50 120.30 116.84 A A A NE CZ NH2 ARG ARG ARG 137 137 137 N 1 -5.74 0.90 118.30 112.56 A A A CB CG OD1 ASP ASP ASP 145 145 145 N 1 3.12 0.50 120.30 123.42 A A A NE CZ NH2 ARG ARG ARG 149 149 149 N 1 -12.82 2.10 111.70 98.88 A A A CB CA C PRO PRO PRO 151 151 151 N 1 12.05 1.80 110.60 122.65 A A A N CA CB ARG ARG ARG 152 152 152 N 1 9.11 1.50 110.90 120.01 A A A CA CB CG1 VAL VAL VAL 166 166 166 N 1 -6.25 0.90 118.30 112.05 A A A CB CG OD1 ASP ASP ASP 170 170 170 N 1 4.42 0.50 120.30 124.72 A A A NE CZ NH1 ARG ARG ARG 182 182 182 N 1 -3.26 0.50 120.30 117.04 A A A NE CZ NH2 ARG ARG ARG 182 182 182 N 1 3.16 0.50 120.30 123.46 A A A NE CZ NH1 ARG ARG ARG 183 183 183 N 1 7.59 0.90 118.30 125.89 A A A CB CG OD1 ASP ASP ASP 190 190 190 N 1 -7.63 0.90 118.30 110.67 A A A CB CG OD2 ASP ASP ASP 190 190 190 N 1 -7.19 0.90 118.30 111.11 A A A CB CG OD1 ASP ASP ASP 192 192 192 N 1 5.47 0.90 118.30 123.77 A A A CB CG OD2 ASP ASP ASP 192 192 192 N 1 3.28 0.50 120.30 123.58 A A A NE CZ NH1 ARG ARG ARG 213 213 213 N 1 6.78 0.50 120.30 127.08 A A A NE CZ NH1 ARG ARG ARG 253 253 253 N 1 -5.67 0.50 120.30 114.63 A A A NE CZ NH2 ARG ARG ARG 253 253 253 N 1 -4.10 0.60 121.00 116.90 A A A CB CG CD1 TYR TYR TYR 266 266 266 N 1 -6.37 0.90 118.30 111.93 A A A CB CG OD1 ASP ASP ASP 276 276 276 N 1 3.74 0.50 120.30 124.04 A A A NE CZ NH1 ARG ARG ARG 283 283 283 N 1 8.84 1.40 123.60 132.44 A A A CD NE CZ ARG ARG ARG 299 299 299 A A A N 1 4.82 0.50 120.30 125.12 A A A NE CZ NH1 ARG ARG ARG 299 299 299 A A A N 1 -3.32 0.50 120.30 116.98 A A A NE CZ NH2 ARG ARG ARG 299 299 299 A A A N 1 -8.28 0.90 118.30 110.02 A A A CB CG OD1 ASP ASP ASP 314 314 314 N 1 5.84 0.90 118.30 124.14 A A A CB CG OD2 ASP ASP ASP 314 314 314 N 1 -7.18 0.90 118.30 111.12 A A A CB CG OD1 ASP ASP ASP 321 321 321 N 1 A A CD OE1 GLU GLU 154 154 0.072 0.011 1.252 1.324 N 1 A A CD OE1 GLU GLU 203 203 0.067 0.011 1.252 1.319 N 1 A A CD OE1 GLU GLU 216 216 0.072 0.011 1.252 1.324 N 1 A A CD OE1 GLU GLU 232 232 0.069 0.011 1.252 1.321 N 1 A A CD OE1 GLU GLU 309 309 0.070 0.011 1.252 1.322 N 1 A A O O HOH HOH 468 468 0.30 1_555 2_565 1 A A OG CE SER LYS 204 206 2.17 1_555 2_555 1 A THR 101 -54.91 -7.08 1 A PRO 108 -59.01 -70.99 1 A LYS 120 -116.83 -90.86 1 A THR 121 -28.00 166.58 1 A ASN 128 -95.14 49.87 1 A GLU 144 -53.19 -73.33 1 A ASP 145 -36.39 -35.47 1 A ASP 170 176.31 106.10 1 A CYS 178 -88.08 -145.52 1 A SER 204 -48.35 -72.30 1 A SER 205 42.29 85.68 1 A LYS 206 163.65 41.43 1 A ARG 222 80.29 32.44 1 A GLU 244 -141.40 -1.17 1 A THR 304 83.65 -15.80 1 A VAL 306 -36.29 75.40 1 A GLU 309 125.22 94.30 1 A GLN 324 42.17 78.92 0.1930000 2.3 13634 1 0.0 2.3 90 2024 0 0 1934 0.023 3.0 refinement TNT CRYSTAL STRUCTURE OF RAT DNA POLYMERASE BETA: EVIDENCE FOR A COMMON POLYMERASE MECHANISM 1 N N 2 N N A THR 93 A THR 6 HELX_P A THR 101 A THR 14 1 1 9 A GLY 107 A GLY 20 HELX_P A VAL 115 A VAL 28 1 2 9 A THR 121 A THR 34 HELX_P A ASN 128 A ASN 41 1 3 8 A GLU 129 A GLU 42 HELX_P A LEU 132 A LEU 45 5 4 4 A ASN 133 A ASN 46 HELX_P A TYR 142 A TYR 55 1 5 10 A GLU 144 A GLU 57 HELX_P A LYS 148 A LYS 61 5 6 5 A ARG 152 A ARG 65 HELX_P A ASP 170 A ASP 83 1 7 19 A CYS 178 A CYS 91 HELX_P A ARG 183 A ARG 96 1 8 6 A GLN 207 A GLN 120 HELX_P A VAL 221 A VAL 134 1 9 15 A PRO 261 A PRO 174 HELX_P A ASP 263 A ASP 176 5 10 3 A GLN 264 A GLN 177 HELX_P A GLY 274 A GLY 187 1 11 11 A SER 275 A SER 188 HELX_P A LYS 289 A LYS 202 1 12 15 A SER 315 A SER 228 HELX_P A ILE 323 A ILE 236 1 13 9 A GLU 329 A GLU 242 HELX_P A ARG 333 A ARG 246 5 14 5 NUCLEOTIDYLTRANSFERASE NUCLEOTIDYLTRANSFERASE A GLY 274 A GLY 187 1 A SER 275 A SER 188 -0.65 DPOB_RAT UNP 1 1 P06766 SKRKAPQETLNGGITDMLVELANFEKNVSQAIHKYNAYRKAASVIAKYPHKIKSGAEAKKLPGVGTKIAEKIDEFLATGK LRKLEKIRQDDTSSSINFLTRVTGIGPSAARKLVDEGIKTLEDLRKNEDKLNHHQRIGLKYFEDFEKRIPREEMLQMQDI VLNEVKKLDPEYIATVCGSFRRGAESSGDMDVLLTHPNFTSESSKQPKLLHRVVEQLQKVRFITDTLSKGETKFMGVCQL PSENDENEYPHRRIDIRLIPKDQYYCGVLYFTGSDIFNKNMRAHALEKGFTINEYTIRPLGVTGVAGEPLPVDSEQDIFD YIQWRYREPKDRSE 87 334 1BPB 88 335 P06766 A 1 1 248 2 5 2 anti-parallel anti-parallel parallel anti-parallel anti-parallel anti-parallel A ILE 150 A ILE 63 A PRO 151 A PRO 64 A SER 187 A SER 100 A SER 188 A SER 101 A ILE 174 A ILE 87 A VAL 177 A VAL 90 A MET 191 A MET 104 A THR 196 A THR 109 A ARG 253 A ARG 166 A LEU 259 A LEU 172 A LYS 234 A LYS 147 A CYS 239 A CYS 152 A ILE 224 A ILE 137 A LYS 230 A LYS 143 A PHE 291 A PHE 204 A ILE 293 A ILE 206 A ILE 298 A ILE 211 A PRO 300 A PRO 213 18 P 21 21 2