0.019847 0.000000 0.000000 0.000000 0.019847 0.000000 0.000000 0.000000 0.006296 0.00000 0.00000 0.00000 Fujikawa, N. Kurumizaka, H. Nureki, O. Terada, T. Shirouzu, M. Katayama, T. Yokoyama, S. RIKEN Structural Genomics/Proteomics Initiative (RSGI) http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 8 90 90 90 50.385 50.385 158.830 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 H14 N5 O6 P 331.222 y 2'-DEOXYADENOSINE-5'-MONOPHOSPHATE DNA linking C9 H14 N3 O7 P 307.197 y 2'-DEOXYCYTIDINE-5'-MONOPHOSPHATE DNA linking C10 H14 N5 O7 P 347.221 y 2'-DEOXYGUANOSINE-5'-MONOPHOSPHATE DNA linking C10 H15 N2 O8 P 322.208 y THYMIDINE-5'-MONOPHOSPHATE DNA 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 C5 H11 N O2 Se 196.106 n SELENOMETHIONINE 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 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 O N 89 N P N 90 N O N 91 N O N 92 N O N 93 N C N 94 R C N 95 N O N 96 S C N 97 N O N 98 N C N 99 R C Y 100 N N Y 101 N C Y 102 N N Y 103 N C Y 104 N C N 105 N N Y 106 N N Y 107 N C Y 108 N N Y 109 N C N 110 N H N 111 N H N 112 N H N 113 N H N 114 N H N 115 N H 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 O N 125 N P N 126 N O N 127 N O N 128 N O N 129 N C N 130 R C N 131 N O N 132 S C N 133 N O N 134 N C N 135 R C N 136 N N N 137 N C N 138 N O N 139 N N N 140 N C N 141 N N N 142 N C N 143 N C 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 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 P N 160 N O N 161 N O N 162 N O N 163 N C N 164 R C N 165 N O N 166 S C N 167 N O N 168 N C N 169 R C Y 170 N N Y 171 N C Y 172 N N Y 173 N C N 174 N C N 175 N O N 176 N N N 177 N C N 178 N N N 179 N N Y 180 N C N 181 N H N 182 N H N 183 N H N 184 N H N 185 N H N 186 N H N 187 N H 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 O N 196 N P N 197 N O N 198 N O N 199 N O N 200 N C N 201 R C N 202 N O N 203 S C N 204 N O N 205 N C N 206 R C N 207 N N N 208 N C N 209 N O N 210 N N N 211 N C N 212 N O N 213 N C N 214 N C N 215 N C 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 H N 231 N N N 232 S C N 233 N C N 234 N O N 235 N C N 236 N C N 237 N C N 238 N O N 239 N N N 240 N O 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 H N 251 N N N 252 S C N 253 N C N 254 N O N 255 N C N 256 N C N 257 N C N 258 N O N 259 N O N 260 N O 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 N N 271 N C N 272 N C N 273 N O N 274 N O N 275 N H N 276 N H N 277 N H N 278 N H N 279 N H N 280 N N N 281 S C N 282 N C N 283 N O N 284 N C Y 285 N C Y 286 N N Y 287 N C Y 288 N C Y 289 N N N 290 N O N 291 N H N 292 N H N 293 N H N 294 N H N 295 N H N 296 N H N 297 N H N 298 N H N 299 N H N 300 N H N 301 N O 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 S C N 309 N C N 310 N C N 311 N C N 312 N O 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 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 N 331 N C N 332 N C 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 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 N 353 N C N 354 N C N 355 N C N 356 N N N 357 N O N 358 N H N 359 N H N 360 N H N 361 N H N 362 N H N 363 N H N 364 N H N 365 N 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 H N 373 N N N 374 S C N 375 N C N 376 N O N 377 N C N 378 N C N 379 N S N 380 N C N 381 N O 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 H N 393 N N N 394 S C N 395 N C N 396 N O N 397 N O N 398 N C N 399 N C N 400 N SE N 401 N C N 402 N H 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 N N 414 S C N 415 N C N 416 N O N 417 N C Y 418 N C Y 419 N C Y 420 N C Y 421 N C Y 422 N C Y 423 N C N 424 N O 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 435 N H N 436 N N N 437 S C N 438 N C N 439 N O N 440 N C N 441 N C N 442 N C N 443 N O N 444 N H N 445 N H N 446 N H N 447 N H N 448 N H N 449 N H N 450 N H N 451 N H N 452 N H N 453 N N N 454 S C N 455 N C N 456 N O N 457 N C N 458 N O N 459 N O N 460 N H N 461 N H N 462 N H N 463 N H N 464 N H N 465 N H N 466 N H N 467 N N N 468 S C N 469 N C N 470 N O N 471 R C N 472 N O N 473 N C N 474 N O N 475 N H N 476 N H N 477 N H N 478 N H N 479 N H N 480 N H N 481 N H N 482 N H N 483 N H N 484 N N N 485 S C N 486 N C N 487 N O N 488 N C Y 489 N C Y 490 N C Y 491 N C Y 492 N C Y 493 N C Y 494 N C N 495 N O N 496 N O N 497 N H N 498 N H N 499 N H N 500 N H N 501 N H N 502 N H N 503 N H N 504 N H N 505 N H N 506 N H N 507 N H N 508 N N N 509 S C N 510 N C N 511 N O N 512 N C N 513 N C N 514 N C N 515 N O N 516 N H N 517 N H N 518 N H N 519 N H N 520 N H N 521 N H N 522 N H N 523 N H N 524 N H N 525 N H N 526 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 doub 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 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 Y 106 N sing Y 107 N sing Y 108 N doub N 109 N sing Y 110 N sing Y 111 N sing Y 112 N doub N 113 N sing Y 114 N doub N 115 N sing N 116 N sing Y 117 N sing Y 118 N doub N 119 N sing Y 120 N sing N 121 N sing N 122 N sing N 123 N doub N 124 N sing 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 sing 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 sing N 145 N sing N 146 N doub N 147 N sing N 148 N doub 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 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 Y 179 N sing Y 180 N sing Y 181 N doub N 182 N sing Y 183 N sing N 184 N sing Y 185 N doub N 186 N doub N 187 N sing N 188 N sing N 189 N sing N 190 N sing N 191 N doub 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 sing N 219 N sing N 220 N doub 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 doub 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 doub 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 sing N 246 N doub 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 doub 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 doub N 266 N sing N 267 N sing N 268 N sing N 269 N sing N 270 N sing N 271 N sing N 272 N sing N 273 N sing N 274 N sing N 275 N doub 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 Y 289 N sing Y 290 N doub Y 291 N doub N 292 N sing Y 293 N sing N 294 N sing Y 295 N sing N 296 N sing N 297 N sing N 298 N sing N 299 N sing N 300 N sing N 301 N sing N 302 N sing N 303 N sing N 304 N sing N 305 N sing N 306 N sing N 307 N doub 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 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 sing 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 doub 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 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 sing N 369 N sing N 370 N sing N 371 N sing N 372 N sing N 373 N doub N 374 N sing N 375 N sing N 376 N sing N 377 N sing 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 sing N 387 N sing N 388 N sing N 389 N sing N 390 N sing N 391 N sing N 392 N doub N 393 N sing N 394 N sing N 395 N sing N 396 N sing N 397 N sing N 398 N sing N 399 N sing N 400 N sing N 401 N sing N 402 N sing N 403 N sing N 404 N sing N 405 N sing N 406 N sing N 407 N sing N 408 N sing N 409 N sing N 410 N sing N 411 N doub N 412 N sing N 413 N sing N 414 N sing N 415 N sing Y 416 N doub Y 417 N sing Y 418 N sing N 419 N sing Y 420 N doub N 421 N sing Y 422 N doub N 423 N sing Y 424 N sing N 425 N sing N 426 N sing N 427 N sing N 428 N sing N 429 N sing N 430 N sing N 431 N sing N 432 N sing N 433 N sing N 434 N doub N 435 N sing N 436 N sing N 437 N sing N 438 N sing N 439 N sing N 440 N sing N 441 N sing N 442 N sing N 443 N sing N 444 N sing N 445 N sing N 446 N sing N 447 N sing N 448 N sing N 449 N sing N 450 N sing N 451 N doub N 452 N sing N 453 N sing N 454 N sing N 455 N sing N 456 N sing N 457 N sing N 458 N sing N 459 N sing N 460 N sing N 461 N sing N 462 N sing N 463 N sing N 464 N doub N 465 N sing N 466 N sing N 467 N sing N 468 N sing N 469 N sing N 470 N sing N 471 N sing N 472 N sing N 473 N sing N 474 N sing N 475 N sing N 476 N sing N 477 N sing N 478 N sing N 479 N sing N 480 N doub N 481 N sing N 482 N sing N 483 N sing N 484 N sing Y 485 N doub Y 486 N sing Y 487 N sing N 488 N sing Y 489 N doub N 490 N sing Y 491 N doub N 492 N sing Y 493 N sing N 494 N sing N 495 N sing N 496 N sing N 497 N sing N 498 N sing N 499 N sing N 500 N sing N 501 N sing N 502 N sing N 503 N sing N 504 N doub N 505 N sing N 506 N sing N 507 N sing N 508 N sing N 509 N sing N 510 N sing N 511 N sing N 512 N sing N 513 N sing N 514 N sing N 515 N sing UK NUCLEIC ACIDS RES. NARHAD 0389 0305-1048 31 2077 2086 10.1093/nar/gkg309 12682358 Structural basis of replication origin recognition by the DnaA protein 2003 10.2210/pdb1j1v/pdb pdb_00001j1v 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 2002-10-26 MARRESEARCH MAD M x-ray 1 0.9792 1.0 0.9795 1.0 0.9840 1.0 0.9736 1.0 BL41XU SPring-8 0.9792, 0.9795, 0.9840, 0.9736 SYNCHROTRON SPRING-8 BEAMLINE BL41XU 3966.597 5'-D(*TP*GP*TP*TP*AP*TP*CP*CP*AP*CP*AP*GP*G)-3' 1 syn polymer 3975.611 5'-D(*CP*CP*TP*GP*TP*GP*GP*AP*TP*AP*AP*CP*A)-3' 1 syn polymer 10834.071 Chromosomal replication initiator protein dnaA DNA binding domain, DnaA domainIV 1 man polymer 18.015 water 143 nat water DnaAbox DNA DnaAbox DNA no no (DT)(DG)(DT)(DT)(DA)(DT)(DC)(DC)(DA)(DC)(DA)(DG)(DG) TGTTATCCACAGG B polydeoxyribonucleotide no no (DC)(DC)(DT)(DG)(DT)(DG)(DG)(DA)(DT)(DA)(DA)(DC)(DA) CCTGTGGATAACA C polydeoxyribonucleotide no yes VTIDNIQKTVAEYYKIKVADLLSKRRSRSVARPRQ(MSE)A(MSE)ALAKELTNHSLPEIGDAFGGRDHTTVLHACRKIE QLREESHDIKEDFSNLIRTLSS VTIDNIQKTVAEYYKIKVADLLSKRRSRSVARPRQMAMALAKELTNHSLPEIGDAFGGRDHTTVLHACRKIEQLREESHD IKEDFSNLIRTLSS A trt001000145.1 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 Escherichia sample cell-free protein synthesis system DnaA 562 Escherichia coli plasmid pET15b 1 2.53 51.04 VAPOR DIFFUSION, HANGING DROP 8.4 Tris-HCl, magnesium formate, polyethylene glycol 8000, pH 8.4, VAPOR DIFFUSION, HANGING DROP, temperature 293K 293 Tris-HCl 1 magnesium formate 1 polyethylene glycol 8000 1 Tris-HCl 2 magnesium formate 2 polyethylene glycol 8000 2 -6.008 1 20 B 101 C 213 0.071 B_DT101:DA213_C 1 -11.222 0.124 0.003 -0.105 -0.869 1 19 B 102 C 212 4.350 B_DG102:DC212_C 2 -18.203 -0.367 -0.221 -0.078 -11.481 1 20 B 103 C 211 8.141 B_DT103:DA211_C 3 -17.777 -0.175 0.260 -0.159 -5.921 1 20 B 104 C 210 6.496 B_DT104:DA210_C 4 -12.489 0.106 0.030 -0.148 -10.089 1 20 B 105 C 209 2.259 B_DA105:DT209_C 5 -11.496 -0.135 -0.278 -0.018 -6.296 1 20 B 106 C 208 6.944 B_DT106:DA208_C 6 -7.887 -0.148 -0.062 -0.031 1.270 1 19 B 107 C 207 -0.353 B_DC107:DG207_C 7 -3.734 0.118 -0.135 -0.108 -0.416 1 19 B 108 C 206 1.119 B_DC108:DG206_C 8 -2.260 0.004 -0.023 -0.078 3.241 1 20 B 109 C 205 -2.696 B_DA109:DT205_C 9 -4.871 0.142 -0.112 -0.049 6.409 1 19 B 110 C 204 4.302 B_DC110:DG204_C 10 -2.684 0.442 -0.377 -0.353 2.977 1 20 B 111 C 203 0.568 B_DA111:DT203_C 11 2.834 0.257 -0.201 -0.141 14.686 1 19 B 112 C 202 -0.795 B_DG112:DC202_C 12 -4.618 -0.228 0.200 -0.187 -6.106 1 19 B 113 C 201 -0.397 B_DG113:DC201_C 13 -15.743 -0.295 -0.132 -0.215 3.285 37.856 B B 101 102 16.398 C C 213 212 3.370 10.508 0.417 0.118 BB_DT101DG102:DC212DA213_CC 1 0.645 -1.007 36.415 -1.219 -0.557 3.548 36.762 B B 102 103 -8.587 C C 212 211 3.504 -5.391 -0.231 -0.510 BB_DG102DT103:DA211DC212_CC 2 -3.196 5.091 36.242 -0.011 -0.106 3.042 36.055 B B 103 104 3.256 C C 211 210 3.069 2.014 -0.270 -0.166 BB_DT103DT104:DA210DA211_CC 3 1.507 -2.436 35.970 -0.534 0.635 3.055 47.648 B B 104 105 -10.664 C C 210 209 3.422 -8.565 -0.632 2.101 BB_DT104DA105:DT209DA210_CC 4 -3.953 4.922 46.758 3.287 0.466 3.091 27.752 B B 105 106 2.811 C C 209 208 3.146 1.345 0.112 -0.434 BB_DA105DT106:DA208DT209_CC 5 -3.120 6.520 27.547 -1.215 -0.952 3.073 35.741 B B 106 107 10.665 C C 208 207 3.168 6.511 -0.010 -0.254 BB_DT106DC107:DG207DA208_CC 6 0.770 -1.261 35.154 -1.317 0.123 3.292 30.229 B B 107 108 8.544 C C 207 206 3.437 4.440 -0.215 -0.770 BB_DC107DC108:DG206DG207_CC 7 -0.167 0.321 29.908 -2.407 0.377 3.179 35.620 B B 108 109 10.349 C C 206 205 3.237 6.299 -0.178 -0.051 BB_DC108DA109:DT205DG206_CC 8 0.352 -0.579 35.075 -0.989 0.341 3.122 32.099 B B 109 110 8.368 C C 205 204 3.216 4.609 1.102 -0.825 BB_DA109DC110:DG204DT205_CC 9 1.702 -3.090 31.730 -2.298 -1.695 3.135 29.705 B B 110 111 15.317 C C 204 203 3.464 7.765 -0.265 -0.837 BB_DC110DA111:DT203DG204_CC 10 -0.096 0.190 28.694 -3.309 0.495 3.315 32.493 B B 111 112 4.856 C C 203 202 3.260 2.710 -0.383 0.555 BB_DA111DG112:DC202DT203_CC 11 -2.973 5.326 32.250 0.514 0.160 3.509 41.493 B B 112 113 11.864 C C 202 201 3.708 8.350 -0.521 -0.769 BB_DG112DG113:DC201DC202_CC 12 -1.830 2.600 40.641 -2.077 0.518 RIKEN Structural Genomics/Proteomics Initiative RSGI chem_comp_atom chem_comp_bond database_2 struct_conn struct_ref_seq_dif repository Initial release Version format compliance Version format compliance Data collection Database references Derived calculations 1 0 2003-04-22 1 1 2008-04-27 1 2 2011-07-13 1 3 2023-12-27 _database_2.pdbx_DOI _database_2.pdbx_database_accession _struct_conn.pdbx_leaving_atom_flag _struct_ref_seq_dif.details Y PDBJ Y PDBJ 2002-12-18 REL REL HOH water TIP 1 4 HOH HOH 114 B TIP 4 4 HOH HOH 115 B TIP 8 4 HOH HOH 116 B TIP 18 4 HOH HOH 117 B TIP 19 4 HOH HOH 118 B TIP 21 4 HOH HOH 119 B TIP 23 4 HOH HOH 120 B TIP 28 4 HOH HOH 121 B TIP 35 4 HOH HOH 122 B TIP 37 4 HOH HOH 123 B TIP 42 4 HOH HOH 124 B TIP 44 4 HOH HOH 125 B TIP 46 4 HOH HOH 126 B TIP 49 4 HOH HOH 127 B TIP 51 4 HOH HOH 128 B TIP 52 4 HOH HOH 129 B TIP 53 4 HOH HOH 130 B TIP 57 4 HOH HOH 131 B TIP 59 4 HOH HOH 132 B TIP 63 4 HOH HOH 133 B TIP 65 4 HOH HOH 134 B TIP 66 4 HOH HOH 135 B TIP 72 4 HOH HOH 136 B TIP 74 4 HOH HOH 137 B TIP 75 4 HOH HOH 138 B TIP 76 4 HOH HOH 139 B TIP 77 4 HOH HOH 140 B TIP 80 4 HOH HOH 141 B TIP 85 4 HOH HOH 142 B TIP 91 4 HOH HOH 143 B TIP 93 4 HOH HOH 144 B TIP 95 4 HOH HOH 145 B TIP 96 4 HOH HOH 146 B TIP 99 4 HOH HOH 147 B TIP 112 4 HOH HOH 148 B TIP 118 4 HOH HOH 149 B TIP 119 4 HOH HOH 150 B TIP 120 4 HOH HOH 151 B TIP 127 4 HOH HOH 152 B TIP 135 4 HOH HOH 153 B TIP 137 4 HOH HOH 154 B TIP 139 4 HOH HOH 155 B TIP 140 4 HOH HOH 156 B TIP 5 4 HOH HOH 5 C TIP 7 4 HOH HOH 7 C TIP 13 4 HOH HOH 13 C TIP 14 4 HOH HOH 14 C TIP 20 4 HOH HOH 20 C TIP 27 4 HOH HOH 27 C TIP 30 4 HOH HOH 30 C TIP 33 4 HOH HOH 33 C TIP 34 4 HOH HOH 34 C TIP 38 4 HOH HOH 38 C TIP 43 4 HOH HOH 43 C TIP 45 4 HOH HOH 45 C TIP 50 4 HOH HOH 50 C TIP 56 4 HOH HOH 56 C TIP 58 4 HOH HOH 58 C TIP 60 4 HOH HOH 60 C TIP 61 4 HOH HOH 61 C TIP 62 4 HOH HOH 62 C TIP 64 4 HOH HOH 64 C TIP 68 4 HOH HOH 68 C TIP 69 4 HOH HOH 69 C TIP 70 4 HOH HOH 70 C TIP 78 4 HOH HOH 78 C TIP 81 4 HOH HOH 81 C TIP 82 4 HOH HOH 82 C TIP 86 4 HOH HOH 86 C TIP 88 4 HOH HOH 88 C TIP 97 4 HOH HOH 97 C TIP 100 4 HOH HOH 100 C TIP 101 4 HOH HOH 101 C TIP 102 4 HOH HOH 102 C TIP 110 4 HOH HOH 110 C TIP 113 4 HOH HOH 113 C TIP 114 4 HOH HOH 114 C TIP 121 4 HOH HOH 121 C TIP 123 4 HOH HOH 123 C TIP 131 4 HOH HOH 131 C TIP 134 4 HOH HOH 134 C TIP 138 4 HOH HOH 138 C TIP 2 4 HOH HOH 2 A TIP 3 4 HOH HOH 3 A TIP 6 4 HOH HOH 6 A TIP 9 4 HOH HOH 9 A TIP 10 4 HOH HOH 10 A TIP 11 4 HOH HOH 11 A TIP 12 4 HOH HOH 12 A TIP 15 4 HOH HOH 15 A TIP 16 4 HOH HOH 16 A TIP 17 4 HOH HOH 17 A TIP 22 4 HOH HOH 22 A TIP 24 4 HOH HOH 24 A TIP 25 4 HOH HOH 25 A TIP 26 4 HOH HOH 26 A TIP 29 4 HOH HOH 29 A TIP 31 4 HOH HOH 31 A TIP 32 4 HOH HOH 32 A TIP 36 4 HOH HOH 36 A TIP 39 4 HOH HOH 39 A TIP 40 4 HOH HOH 40 A TIP 41 4 HOH HOH 41 A TIP 47 4 HOH HOH 47 A TIP 48 4 HOH HOH 48 A TIP 54 4 HOH HOH 54 A TIP 55 4 HOH HOH 55 A TIP 67 4 HOH HOH 67 A TIP 71 4 HOH HOH 71 A TIP 73 4 HOH HOH 73 A TIP 79 4 HOH HOH 79 A TIP 83 4 HOH HOH 83 A TIP 84 4 HOH HOH 84 A TIP 87 4 HOH HOH 87 A TIP 89 4 HOH HOH 89 A TIP 90 4 HOH HOH 90 A TIP 92 4 HOH HOH 92 A TIP 94 4 HOH HOH 94 A TIP 98 4 HOH HOH 98 A TIP 103 4 HOH HOH 103 A TIP 104 4 HOH HOH 104 A TIP 105 4 HOH HOH 105 A TIP 106 4 HOH HOH 106 A TIP 107 4 HOH HOH 107 A TIP 108 4 HOH HOH 108 A TIP 109 4 HOH HOH 109 A TIP 111 4 HOH HOH 111 A TIP 115 4 HOH HOH 115 A TIP 116 4 HOH HOH 116 A TIP 117 4 HOH HOH 117 A TIP 122 4 HOH HOH 122 A TIP 124 4 HOH HOH 124 A TIP 125 4 HOH HOH 125 A TIP 126 4 HOH HOH 126 A TIP 128 4 HOH HOH 128 A TIP 129 4 HOH HOH 129 A TIP 130 4 HOH HOH 130 A TIP 132 4 HOH HOH 132 A TIP 133 4 HOH HOH 133 A TIP 136 4 HOH HOH 136 A TIP 141 4 HOH HOH 141 A TIP 142 4 HOH HOH 142 A TIP 143 4 HOH HOH 143 A THY 101 n 1 DT 101 B GUA 102 n 2 DG 102 B THY 103 n 3 DT 103 B THY 104 n 4 DT 104 B ADE 105 n 5 DA 105 B THY 106 n 6 DT 106 B CYT 107 n 7 DC 107 B CYT 108 n 8 DC 108 B ADE 109 n 9 DA 109 B CYT 110 n 10 DC 110 B ADE 111 n 11 DA 111 B GUA 112 n 12 DG 112 B GUA 113 n 13 DG 113 B CYT 201 n 1 DC 201 C CYT 202 n 2 DC 202 C THY 203 n 3 DT 203 C GUA 204 n 4 DG 204 C THY 205 n 5 DT 205 C GUA 206 n 6 DG 206 C GUA 207 n 7 DG 207 C ADE 208 n 8 DA 208 C THY 209 n 9 DT 209 C ADE 210 n 10 DA 210 C ADE 211 n 11 DA 211 C CYT 212 n 12 DC 212 C ADE 213 n 13 DA 213 C VAL 374 n 1 VAL 374 A THR 375 n 2 THR 375 A ILE 376 n 3 ILE 376 A ASP 377 n 4 ASP 377 A ASN 378 n 5 ASN 378 A ILE 379 n 6 ILE 379 A GLN 380 n 7 GLN 380 A LYS 381 n 8 LYS 381 A THR 382 n 9 THR 382 A VAL 383 n 10 VAL 383 A ALA 384 n 11 ALA 384 A GLU 385 n 12 GLU 385 A TYR 386 n 13 TYR 386 A TYR 387 n 14 TYR 387 A LYS 388 n 15 LYS 388 A ILE 389 n 16 ILE 389 A LYS 390 n 17 LYS 390 A VAL 391 n 18 VAL 391 A ALA 392 n 19 ALA 392 A ASP 393 n 20 ASP 393 A LEU 394 n 21 LEU 394 A LEU 395 n 22 LEU 395 A SER 396 n 23 SER 396 A LYS 397 n 24 LYS 397 A ARG 398 n 25 ARG 398 A ARG 399 n 26 ARG 399 A SER 400 n 27 SER 400 A ARG 401 n 28 ARG 401 A SER 402 n 29 SER 402 A VAL 403 n 30 VAL 403 A ALA 404 n 31 ALA 404 A ARG 405 n 32 ARG 405 A PRO 406 n 33 PRO 406 A ARG 407 n 34 ARG 407 A GLN 408 n 35 GLN 408 A MSE 409 n 36 MSE 409 A ALA 410 n 37 ALA 410 A MSE 411 n 38 MSE 411 A ALA 412 n 39 ALA 412 A LEU 413 n 40 LEU 413 A ALA 414 n 41 ALA 414 A LYS 415 n 42 LYS 415 A GLU 416 n 43 GLU 416 A LEU 417 n 44 LEU 417 A THR 418 n 45 THR 418 A ASN 419 n 46 ASN 419 A HIS 420 n 47 HIS 420 A SER 421 n 48 SER 421 A LEU 422 n 49 LEU 422 A PRO 423 n 50 PRO 423 A GLU 424 n 51 GLU 424 A ILE 425 n 52 ILE 425 A GLY 426 n 53 GLY 426 A ASP 427 n 54 ASP 427 A ALA 428 n 55 ALA 428 A PHE 429 n 56 PHE 429 A GLY 430 n 57 GLY 430 A GLY 431 n 58 GLY 431 A ARG 432 n 59 ARG 432 A ASP 433 n 60 ASP 433 A HIS 434 n 61 HIS 434 A THR 435 n 62 THR 435 A THR 436 n 63 THR 436 A VAL 437 n 64 VAL 437 A LEU 438 n 65 LEU 438 A HIS 439 n 66 HIS 439 A ALA 440 n 67 ALA 440 A CYS 441 n 68 CYS 441 A ARG 442 n 69 ARG 442 A LYS 443 n 70 LYS 443 A ILE 444 n 71 ILE 444 A GLU 445 n 72 GLU 445 A GLN 446 n 73 GLN 446 A LEU 447 n 74 LEU 447 A ARG 448 n 75 ARG 448 A GLU 449 n 76 GLU 449 A GLU 450 n 77 GLU 450 A SER 451 n 78 SER 451 A HIS 452 n 79 HIS 452 A ASP 453 n 80 ASP 453 A ILE 454 n 81 ILE 454 A LYS 455 n 82 LYS 455 A GLU 456 n 83 GLU 456 A ASP 457 n 84 ASP 457 A PHE 458 n 85 PHE 458 A SER 459 n 86 SER 459 A ASN 460 n 87 ASN 460 A LEU 461 n 88 LEU 461 A ILE 462 n 89 ILE 462 A ARG 463 n 90 ARG 463 A THR 464 n 91 THR 464 A LEU 465 n 92 LEU 465 A SER 466 n 93 SER 466 A SER 467 n 94 SER 467 A author_defined_assembly 3 trimeric A MSE 409 SELENOMETHIONINE C MSE 36 MET A MSE 411 SELENOMETHIONINE C MSE 38 MET 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 1 A A CA CB HIS HIS 434 434 -0.249 0.022 1.535 1.286 N 1 A PHE 429 -118.86 62.87 0.2489 0.2292 0.2292 0.2292 2.1 50 1303 12685 12599 RANDOM 1 0 MAD Engh & Huber 0.29 0.27 5 0.19 0.18 2.1 50 143 1422 0 527 752 1.15348 0.009139 17.40347 1.23851 0.2493 0.2466 2.18 6 0.2463 0.235 2.26 6 0.2789 0.2482 2.37 6 0.2754 0.2566 2.49 6 0.2651 0.2425 2.65 6 0.2597 0.2496 2.85 6 2.1 50 1J1V 12618 0 0 1 99.3 2.1 2.18 87.6 data reduction DENZO data scaling SCALEPACK phasing SHARP refinement CNS 1.0 Crystal structure of DnaA domainIV complexed with DnaAbox DNA 1 N N 2 N N 3 N N 4 N N 4 N N 4 N N A THR 375 C THR 2 HELX_P A TYR 387 C TYR 14 1 1 13 A LYS 390 C LYS 17 HELX_P A SER 396 C SER 23 1 2 7 A SER 400 C SER 27 HELX_P A THR 418 C THR 45 1 3 19 A SER 421 C SER 48 HELX_P A PHE 429 C PHE 56 1 4 9 A ASP 433 C ASP 60 HELX_P A SER 451 C SER 78 1 5 19 A SER 451 C SER 78 HELX_P A SER 466 C SER 93 1 6 16 covale 1.333 both A GLN 408 C C GLN 35 1_555 A MSE 409 C N MSE 36 1_555 covale 1.326 both A MSE 409 C C MSE 36 1_555 A ALA 410 C N ALA 37 1_555 covale 1.331 both A ALA 410 C C ALA 37 1_555 A MSE 411 C N MSE 38 1_555 covale 1.328 both A MSE 411 C C MSE 38 1_555 A ALA 412 C N ALA 39 1_555 hydrog WATSON-CRICK B DT 101 A N3 DT 1 1_555 C DA 213 B N1 DA 13 1_555 hydrog WATSON-CRICK B DT 101 A O4 DT 1 1_555 C DA 213 B N6 DA 13 1_555 hydrog WATSON-CRICK B DG 102 A N1 DG 2 1_555 C DC 212 B N3 DC 12 1_555 hydrog WATSON-CRICK B DG 102 A N2 DG 2 1_555 C DC 212 B O2 DC 12 1_555 hydrog WATSON-CRICK B DG 102 A O6 DG 2 1_555 C DC 212 B N4 DC 12 1_555 hydrog WATSON-CRICK B DT 103 A N3 DT 3 1_555 C DA 211 B N1 DA 11 1_555 hydrog WATSON-CRICK B DT 103 A O4 DT 3 1_555 C DA 211 B N6 DA 11 1_555 hydrog WATSON-CRICK B DT 104 A N3 DT 4 1_555 C DA 210 B N1 DA 10 1_555 hydrog WATSON-CRICK B DT 104 A O4 DT 4 1_555 C DA 210 B N6 DA 10 1_555 hydrog WATSON-CRICK B DA 105 A N1 DA 5 1_555 C DT 209 B N3 DT 9 1_555 hydrog WATSON-CRICK B DA 105 A N6 DA 5 1_555 C DT 209 B O4 DT 9 1_555 hydrog WATSON-CRICK B DT 106 A N3 DT 6 1_555 C DA 208 B N1 DA 8 1_555 hydrog WATSON-CRICK B DT 106 A O4 DT 6 1_555 C DA 208 B N6 DA 8 1_555 hydrog WATSON-CRICK B DC 107 A N3 DC 7 1_555 C DG 207 B N1 DG 7 1_555 hydrog WATSON-CRICK B DC 107 A N4 DC 7 1_555 C DG 207 B O6 DG 7 1_555 hydrog WATSON-CRICK B DC 107 A O2 DC 7 1_555 C DG 207 B N2 DG 7 1_555 hydrog WATSON-CRICK B DC 108 A N3 DC 8 1_555 C DG 206 B N1 DG 6 1_555 hydrog WATSON-CRICK B DC 108 A N4 DC 8 1_555 C DG 206 B O6 DG 6 1_555 hydrog WATSON-CRICK B DC 108 A O2 DC 8 1_555 C DG 206 B N2 DG 6 1_555 hydrog WATSON-CRICK B DA 109 A N1 DA 9 1_555 C DT 205 B N3 DT 5 1_555 hydrog WATSON-CRICK B DA 109 A N6 DA 9 1_555 C DT 205 B O4 DT 5 1_555 hydrog WATSON-CRICK B DC 110 A N3 DC 10 1_555 C DG 204 B N1 DG 4 1_555 hydrog WATSON-CRICK B DC 110 A N4 DC 10 1_555 C DG 204 B O6 DG 4 1_555 hydrog WATSON-CRICK B DC 110 A O2 DC 10 1_555 C DG 204 B N2 DG 4 1_555 hydrog WATSON-CRICK B DA 111 A N1 DA 11 1_555 C DT 203 B N3 DT 3 1_555 hydrog WATSON-CRICK B DA 111 A N6 DA 11 1_555 C DT 203 B O4 DT 3 1_555 hydrog WATSON-CRICK B DG 112 A N1 DG 12 1_555 C DC 202 B N3 DC 2 1_555 hydrog WATSON-CRICK B DG 112 A N2 DG 12 1_555 C DC 202 B O2 DC 2 1_555 hydrog WATSON-CRICK B DG 112 A O6 DG 12 1_555 C DC 202 B N4 DC 2 1_555 hydrog WATSON-CRICK B DG 113 A N1 DG 13 1_555 C DC 201 B N3 DC 1 1_555 hydrog WATSON-CRICK B DG 113 A N2 DG 13 1_555 C DC 201 B O2 DC 1 1_555 hydrog WATSON-CRICK B DG 113 A O6 DG 13 1_555 C DC 201 B N4 DC 1 1_555 replication/DNA Protein-DNA complex, Replication, RIKEN Structural Genomics/Proteomics Initiative, RSGI, Structural Genomics, replication-DNA COMPLEX DNAA_ECOLI UNP 3 374 P03004 VTIDNIQKTVAEYYKIKVADLLSKRRSRSVARPRQMAMALAKELTNHSLPEIGDAFGGRDHTTVLHACRKIEQLREESHD IKEDFSNLIRTLSS 1J1V PDB 1 1J1V 1J1V PDB 2 1J1V 374 467 1J1V 374 467 P03004 A 1 1 94 101 113 1J1V 101 113 1J1V B 2 1 13 201 213 1J1V 201 213 1J1V C 3 1 13 1 MET modified residue MSE 409 1J1V A P03004 UNP 409 36 1 MET modified residue MSE 411 1J1V A P03004 UNP 411 38 92 P 41 21 2