0.012294 0.000000 0.000000 0.000000 0.024137 0.000000 0.000000 0.000000 0.017126 0.00000 0.00000 0.00000 Schumacher, M.A. Lau, A.O.T. Johnson, P.J. http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 4 90.00 90.00 90.00 81.340 41.430 58.390 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 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 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 Zn 2 65.409 ZINC ION non-polymer 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 O N 75 N P N 76 N O N 77 N O N 78 N O N 79 N C N 80 R C N 81 N O N 82 S C N 83 N O N 84 N C N 85 R C Y 86 N N Y 87 N C Y 88 N N Y 89 N C Y 90 N C N 91 N N Y 92 N N Y 93 N C Y 94 N N Y 95 N C N 96 N H N 97 N H 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 H N 109 N H N 110 N O N 111 N P N 112 N O N 113 N O N 114 N O N 115 N C N 116 R C N 117 N O N 118 S C N 119 N O N 120 N C N 121 R C N 122 N N N 123 N C N 124 N O N 125 N N N 126 N C N 127 N N N 128 N C N 129 N C N 130 N H N 131 N H N 132 N H N 133 N H N 134 N H N 135 N H 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 O N 145 N P N 146 N O N 147 N O N 148 N O N 149 N C N 150 R C N 151 N O N 152 S C N 153 N O N 154 N C N 155 R C Y 156 N N Y 157 N C Y 158 N N Y 159 N C N 160 N C N 161 N O N 162 N N N 163 N C N 164 N N N 165 N N Y 166 N C 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 H N 177 N H N 178 N H N 179 N H N 180 N H N 181 N O N 182 N P N 183 N O N 184 N O N 185 N O N 186 N C N 187 R C N 188 N O N 189 S C N 190 N O N 191 N C N 192 R C N 193 N N N 194 N C N 195 N O N 196 N N N 197 N C N 198 N O N 199 N C N 200 N C N 201 N C N 202 N H N 203 N H N 204 N H N 205 N H N 206 N H N 207 N H N 208 N H N 209 N H 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 N N 218 S C N 219 N C N 220 N O N 221 N C N 222 N C N 223 N C N 224 N O N 225 N N N 226 N O N 227 N H N 228 N H N 229 N H N 230 N H N 231 N H N 232 N H N 233 N H N 234 N H N 235 N H N 236 N H N 237 N N N 238 S C N 239 N C N 240 N O N 241 N C N 242 N C N 243 N C N 244 N O N 245 N O N 246 N O N 247 N H N 248 N H N 249 N H N 250 N H N 251 N H N 252 N H N 253 N H N 254 N H N 255 N H N 256 N N N 257 N C N 258 N C 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 N N 267 S C N 268 N C N 269 N O N 270 N C Y 271 N C Y 272 N N Y 273 N C Y 274 N C Y 275 N N N 276 N O N 277 N H N 278 N H N 279 N H 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 O 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 S C 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 H N 309 N H N 310 N H N 311 N H N 312 N N N 313 S C N 314 N C N 315 N O N 316 N C N 317 N C N 318 N C N 319 N C N 320 N O N 321 N H N 322 N H N 323 N H N 324 N H N 325 N H N 326 N H N 327 N H N 328 N H N 329 N H N 330 N H N 331 N H N 332 N H N 333 N H N 334 N N N 335 S C N 336 N C N 337 N O N 338 N C N 339 N C N 340 N C N 341 N C N 342 N N N 343 N O 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 H N 354 N H N 355 N H N 356 N H N 357 N H N 358 N H N 359 N N N 360 S C N 361 N C N 362 N O N 363 N C N 364 N C N 365 N S N 366 N C N 367 N O 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 H N 378 N H N 379 N N N 380 S C N 381 N C N 382 N O N 383 N C Y 384 N C Y 385 N C Y 386 N C Y 387 N C Y 388 N C Y 389 N C N 390 N O N 391 N H N 392 N H N 393 N H N 394 N H N 395 N H N 396 N H N 397 N H N 398 N H N 399 N H N 400 N H N 401 N H N 402 N N N 403 S C N 404 N C N 405 N O N 406 N C N 407 N C N 408 N C N 409 N O N 410 N H N 411 N H N 412 N H N 413 N H N 414 N H N 415 N H N 416 N H N 417 N H N 418 N H N 419 N N N 420 S C N 421 N C N 422 N O N 423 N C N 424 N O N 425 N O 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 N N 434 S C N 435 N C N 436 N O N 437 R C N 438 N O N 439 N C N 440 N O N 441 N H N 442 N H N 443 N H 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 N N 451 S C N 452 N C N 453 N O N 454 N C Y 455 N C Y 456 N C Y 457 N C Y 458 N N Y 459 N C Y 460 N C Y 461 N C Y 462 N C Y 463 N C N 464 N O N 465 N H N 466 N H N 467 N H N 468 N H N 469 N H N 470 N H N 471 N H N 472 N H N 473 N H N 474 N H N 475 N H N 476 N H N 477 N N N 478 S C N 479 N C N 480 N O N 481 N C Y 482 N C Y 483 N C Y 484 N C Y 485 N C Y 486 N C Y 487 N C N 488 N O N 489 N O N 490 N H N 491 N H N 492 N H N 493 N H N 494 N H N 495 N H N 496 N H N 497 N H N 498 N H N 499 N H N 500 N H N 501 N N N 502 S C N 503 N C N 504 N O N 505 N C N 506 N C N 507 N C N 508 N O N 509 N H N 510 N H N 511 N H N 512 N H N 513 N H N 514 N H N 515 N H N 516 N H N 517 N H N 518 N H N 519 N H N 520 N ZN 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 doub N 73 N sing N 74 N sing N 75 N sing N 76 N sing 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 sing N 90 N sing N 91 N sing N 92 N sing Y 93 N sing Y 94 N sing Y 95 N doub N 96 N sing Y 97 N sing Y 98 N sing Y 99 N doub N 100 N sing Y 101 N doub N 102 N sing N 103 N sing Y 104 N sing Y 105 N doub N 106 N sing Y 107 N sing N 108 N sing N 109 N sing N 110 N doub N 111 N sing N 112 N sing N 113 N sing N 114 N sing N 115 N sing 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 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 doub N 134 N sing N 135 N doub N 136 N sing N 137 N sing N 138 N sing N 139 N sing N 140 N doub N 141 N sing N 142 N sing N 143 N sing N 144 N sing N 145 N doub 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 sing N 154 N sing N 155 N sing N 156 N sing N 157 N sing N 158 N sing N 159 N sing N 160 N sing N 161 N sing N 162 N sing N 163 N sing N 164 N sing N 165 N sing Y 166 N sing Y 167 N sing Y 168 N doub N 169 N sing Y 170 N sing N 171 N sing Y 172 N doub N 173 N doub N 174 N sing N 175 N sing N 176 N sing N 177 N sing N 178 N doub N 179 N sing N 180 N sing N 181 N sing N 182 N sing N 183 N sing N 184 N doub 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 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 doub N 208 N sing N 209 N sing N 210 N sing N 211 N doub N 212 N sing N 213 N sing N 214 N doub 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 sing N 225 N doub 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 doub N 234 N sing N 235 N sing N 236 N sing N 237 N sing N 238 N sing N 239 N sing N 240 N sing N 241 N sing N 242 N sing N 243 N sing N 244 N doub 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 doub N 253 N sing N 254 N sing N 255 N sing N 256 N sing N 257 N sing N 258 N sing N 259 N sing N 260 N sing N 261 N sing N 262 N doub N 263 N sing N 264 N sing N 265 N sing N 266 N sing N 267 N sing N 268 N sing N 269 N sing N 270 N sing N 271 N doub N 272 N sing N 273 N sing N 274 N sing N 275 N sing Y 276 N sing Y 277 N doub Y 278 N doub N 279 N sing Y 280 N sing N 281 N sing Y 282 N sing N 283 N sing N 284 N sing N 285 N sing N 286 N sing N 287 N sing N 288 N sing N 289 N sing N 290 N sing N 291 N sing N 292 N sing N 293 N sing N 294 N doub 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 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 doub 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 sing 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 doub 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 sing N 350 N sing N 351 N sing N 352 N sing N 353 N sing N 354 N sing N 355 N sing N 356 N sing N 357 N sing N 358 N sing N 359 N sing N 360 N doub 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 sing N 374 N sing N 375 N sing N 376 N sing N 377 N sing N 378 N sing N 379 N doub N 380 N sing N 381 N sing N 382 N sing N 383 N sing Y 384 N doub Y 385 N sing Y 386 N sing N 387 N sing Y 388 N doub N 389 N sing Y 390 N doub N 391 N sing Y 392 N sing 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 doub 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 sing N 412 N sing N 413 N sing N 414 N sing N 415 N sing N 416 N sing N 417 N sing N 418 N sing N 419 N doub N 420 N sing N 421 N sing N 422 N sing N 423 N sing N 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 doub N 433 N sing N 434 N sing 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 doub N 449 N sing N 450 N sing N 451 N sing N 452 N sing Y 453 N doub Y 454 N sing Y 455 N sing N 456 N sing Y 457 N doub Y 458 N sing Y 459 N sing N 460 N sing Y 461 N sing Y 462 N doub N 463 N sing Y 464 N doub N 465 N sing Y 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 doub N 477 N sing N 478 N sing N 479 N sing N 480 N sing Y 481 N doub Y 482 N sing Y 483 N sing N 484 N sing Y 485 N doub N 486 N sing Y 487 N doub N 488 N sing Y 489 N sing N 490 N sing N 491 N sing N 492 N sing N 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 doub N 501 N sing N 502 N sing N 503 N sing N 504 N sing 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 US Cell(Cambridge,Mass.) CELLB5 0998 0092-8674 115 413 424 10.1016/S0092-8674(03)00887-0 14622596 Structural Basis of Core Promoter Recognition in a Primitive Eukaryote 2003 10.2210/pdb1pp7/pdb pdb_00001pp7 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 100.0 1 mirrors CCD 2003-02-12 ADSC QUANTUM 4 graphite SINGLE WAVELENGTH M x-ray 1 1.06 1.0 BL11-1 SSRL 1.06 SYNCHROTRON SSRL BEAMLINE BL11-1 DNA site 3932.570 FERREDOXIN INR 1 syn polymer 4008.650 FERREDOXIN INR 1 syn polymer 15206.243 39 kDa initiator binding protein residues 1-126 1 man polymer 65.409 ZINC ION 7 syn non-polymer 18.015 water 65 nat water no no (DG)(DG)(DT)(DT)(DA)(DC)(DT)(DT)(DC)(DA)(DC)(DT)(DT) GGTTACTTCACTT E polydeoxyribonucleotide no no (DC)(DA)(DA)(DG)(DT)(DG)(DA)(DA)(DG)(DT)(DA)(DA)(DC) CAAGTGAAGTAAC F polydeoxyribonucleotide no no MDSNDLEASFTSRLPPEIVAALKRKSSRDPNSRFPRKLHMLLTYLASNPQLEEEIGLSWISDTEFKMKKKNVALVMGIKL NTLNVNLRDLAFEQLQHDKGGWTQWKRSGFTRNSVFEDPTQNDSPMHHHHH MDSNDLEASFTSRLPPEIVAALKRKSSRDPNSRFPRKLHMLLTYLASNPQLEEEIGLSWISDTEFKMKKKNVALVMGIKL NTLNVNLRDLAFEQLQHDKGGWTQWKRSGFTRNSVFEDPTQNDSPMHHHHH U 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 Trichomonas Escherichia Escherichia coli sample Trichomonas vaginalis:IBP39 5722 Trichomonas vaginalis 469008 Escherichia coli BL21(DE3) BL21(DE3) plasmid pQE60 1 2.10 41.38 VAPOR DIFFUSION, HANGING DROP 6.0 PEG 8000, MES pH 6.0, 0.1 M Zinc acetate, VAPOR DIFFUSION, HANGING DROP, temperature 298.0K 298.0 PEG 8000 1 MES 1 Zinc acetate 1 H2O 1 PEG 8000 2 Zinc acetate 2 -8.619 1 19 E 26 F 15 -2.973 E_DG26:DC15_F 1 -7.702 -0.281 -0.344 -0.315 -10.312 1 20 E 27 F 14 6.099 E_DT27:DA14_F 2 -16.725 -0.350 0.114 0.088 -16.584 1 20 E 28 F 13 0.748 E_DT28:DA13_F 3 -10.032 -0.112 -0.035 -0.356 3.281 1 20 E 29 F 12 -0.111 E_DA29:DT12_F 4 -8.116 0.280 -0.148 0.064 1.749 1 19 E 30 F 11 -1.603 E_DC30:DG11_F 5 -10.207 0.145 0.000 -0.241 4.997 1 20 E 31 F 10 -2.973 E_DT31:DA10_F 6 -15.985 -0.118 0.040 -0.216 3.330 1 20 E 32 F 9 0.527 E_DT32:DA9_F 7 -15.920 -0.186 -0.309 0.057 -0.667 1 19 E 33 F 8 3.180 E_DC33:DG8_F 8 -10.677 -0.091 -0.296 -0.168 14.487 1 20 E 34 F 7 2.135 E_DA34:DT7_F 9 -14.429 0.400 0.016 -0.050 2.703 1 19 E 35 F 6 -1.070 E_DC35:DG6_F 10 -10.817 0.156 0.177 -0.146 9.145 1 20 E 36 F 5 1.221 E_DT36:DA5_F 11 -10.854 0.259 -0.262 -0.076 11.164 1 20 E 37 F 4 8.532 E_DT37:DA4_F 12 -21.265 0.036 -0.495 -0.130 3.278 36.302 E E 26 27 -0.345 F F 15 14 3.267 -0.215 -0.296 -0.582 EE_DG26DT27:DA14DC15_FF 1 -1.260 2.022 36.281 -0.905 0.299 3.457 40.399 E E 27 28 2.433 F F 14 13 3.412 1.678 0.297 0.903 EE_DT27DT28:DA13DA14_FF 2 3.097 -4.491 40.252 1.110 -0.064 3.112 30.770 E E 28 29 9.242 F F 13 12 2.989 4.883 0.162 1.075 EE_DT28DA29:DT12DA13_FF 3 -1.115 2.111 30.369 1.129 -0.511 3.102 27.758 E E 29 30 10.334 F F 12 11 3.347 4.930 0.987 -0.799 EE_DA29DC30:DG11DT12_FF 4 -1.432 3.002 27.288 -2.847 -2.400 3.217 33.852 E E 30 31 2.124 F F 11 10 3.254 1.236 -0.379 -1.292 EE_DC30DT31:DA10DG11_FF 5 -1.187 2.040 33.810 -2.417 0.462 3.054 30.022 E E 31 32 10.367 F F 10 9 3.248 5.340 -0.073 -0.769 EE_DT31DT32:DA9DA10_FF 6 1.855 -3.601 29.498 -2.552 0.511 3.340 33.671 E E 32 33 10.217 F F 9 8 3.349 5.890 -0.091 0.240 EE_DT32DC33:DG8DA9_FF 7 0.314 -0.545 33.165 -0.575 0.210 3.315 36.870 E E 33 34 8.956 F F 8 7 3.135 5.644 -0.012 1.448 EE_DC33DA34:DT7DG8_FF 8 0.364 -0.577 36.449 1.531 0.068 3.458 32.044 E E 34 35 3.502 F F 7 6 3.557 1.931 0.656 -0.711 EE_DA34DC35:DG6DT7_FF 9 -2.208 4.005 31.913 -1.661 -1.616 3.083 39.773 E E 35 36 3.123 F F 6 5 3.126 2.111 0.233 -0.513 EE_DC35DT36:DA5DG6_FF 10 7.875 -11.651 38.962 -0.989 0.534 3.065 30.105 E E 36 37 7.529 F F 5 4 3.105 3.889 0.092 0.000 EE_DT36DT37:DA4DA5_FF 11 4.055 -7.850 29.588 -0.756 0.611 chem_comp_atom chem_comp_bond database_2 pdbx_struct_conn_angle struct_conn struct_ref_seq_dif struct_site pdbx_initial_refinement_model repository Initial release Version format compliance Version format compliance Data collection Database references Derived calculations Refinement description 1 0 2003-11-18 1 1 2008-04-29 1 2 2011-07-13 1 3 2024-02-14 1 4 2024-04-03 _database_2.pdbx_DOI _database_2.pdbx_database_accession _pdbx_struct_conn_angle.ptnr1_auth_comp_id _pdbx_struct_conn_angle.ptnr1_auth_seq_id _pdbx_struct_conn_angle.ptnr1_label_asym_id _pdbx_struct_conn_angle.ptnr1_label_atom_id _pdbx_struct_conn_angle.ptnr1_label_comp_id _pdbx_struct_conn_angle.ptnr1_label_seq_id _pdbx_struct_conn_angle.ptnr1_symmetry _pdbx_struct_conn_angle.ptnr3_auth_comp_id _pdbx_struct_conn_angle.ptnr3_auth_seq_id _pdbx_struct_conn_angle.ptnr3_label_asym_id _pdbx_struct_conn_angle.ptnr3_label_atom_id _pdbx_struct_conn_angle.ptnr3_label_comp_id _pdbx_struct_conn_angle.ptnr3_label_seq_id _pdbx_struct_conn_angle.ptnr3_symmetry _pdbx_struct_conn_angle.value _struct_conn.pdbx_dist_value _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_atom_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_atom_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_symmetry _struct_ref_seq_dif.details _struct_site.pdbx_auth_asym_id _struct_site.pdbx_auth_comp_id _struct_site.pdbx_auth_seq_id crystal structure of the T. vaginalis IBP39 Initiator binding domain (IBD) bound to the alpha-SCS Inr element RCSB Y RCSB 2003-06-16 REL REL ZN ZINC ION HOH water 1PP8 one of the IBD-alphaSCS complexes that is being deposited simultaneous with this deposition PDB experimental model ZN 74 4 ZN ZN 74 E ZN 72 4 ZN ZN 72 F ZN 73 4 ZN ZN 73 F ZN 76 4 ZN ZN 76 F ZN 77 4 ZN ZN 77 F ZN 71 4 ZN ZN 132 U ZN 75 4 ZN ZN 133 U HOH 1 5 HOH HOH 75 E HOH 15 5 HOH HOH 76 E HOH 17 5 HOH HOH 77 E HOH 19 5 HOH HOH 78 E HOH 20 5 HOH HOH 79 E HOH 22 5 HOH HOH 80 E HOH 35 5 HOH HOH 81 E HOH 40 5 HOH HOH 82 E HOH 51 5 HOH HOH 83 E HOH 52 5 HOH HOH 84 E HOH 64 5 HOH HOH 85 E HOH 7 5 HOH HOH 78 F HOH 8 5 HOH HOH 79 F HOH 18 5 HOH HOH 80 F HOH 30 5 HOH HOH 81 F HOH 43 5 HOH HOH 82 F HOH 49 5 HOH HOH 83 F HOH 56 5 HOH HOH 84 F HOH 59 5 HOH HOH 85 F HOH 62 5 HOH HOH 86 F HOH 63 5 HOH HOH 87 F HOH 2 5 HOH HOH 134 U HOH 3 5 HOH HOH 135 U HOH 4 5 HOH HOH 136 U HOH 5 5 HOH HOH 137 U HOH 6 5 HOH HOH 138 U HOH 9 5 HOH HOH 139 U HOH 10 5 HOH HOH 140 U HOH 11 5 HOH HOH 141 U HOH 12 5 HOH HOH 142 U HOH 13 5 HOH HOH 143 U HOH 14 5 HOH HOH 144 U HOH 16 5 HOH HOH 145 U HOH 21 5 HOH HOH 146 U HOH 23 5 HOH HOH 147 U HOH 24 5 HOH HOH 148 U HOH 25 5 HOH HOH 149 U HOH 26 5 HOH HOH 150 U HOH 27 5 HOH HOH 151 U HOH 28 5 HOH HOH 152 U HOH 29 5 HOH HOH 153 U HOH 31 5 HOH HOH 154 U HOH 32 5 HOH HOH 155 U HOH 33 5 HOH HOH 156 U HOH 34 5 HOH HOH 157 U HOH 36 5 HOH HOH 158 U HOH 37 5 HOH HOH 159 U HOH 38 5 HOH HOH 160 U HOH 39 5 HOH HOH 161 U HOH 41 5 HOH HOH 162 U HOH 42 5 HOH HOH 163 U HOH 44 5 HOH HOH 164 U HOH 45 5 HOH HOH 165 U HOH 46 5 HOH HOH 166 U HOH 47 5 HOH HOH 167 U HOH 48 5 HOH HOH 168 U HOH 50 5 HOH HOH 169 U HOH 53 5 HOH HOH 170 U HOH 54 5 HOH HOH 171 U HOH 55 5 HOH HOH 172 U HOH 57 5 HOH HOH 173 U HOH 60 5 HOH HOH 174 U HOH 61 5 HOH HOH 175 U HOH 65 5 HOH HOH 176 U HOH 66 5 HOH HOH 177 U n 1 25 E G 26 n 2 DG 26 E T 27 n 3 DT 27 E T 28 n 4 DT 28 E A 29 n 5 DA 29 E C 30 n 6 DC 30 E T 31 n 7 DT 31 E T 32 n 8 DT 32 E C 33 n 9 DC 33 E A 34 n 10 DA 34 E C 35 n 11 DC 35 E T 36 n 12 DT 36 E T 37 n 13 DT 37 E C 3 n 1 DC 3 F A 4 n 2 DA 4 F A 5 n 3 DA 5 F G 6 n 4 DG 6 F T 7 n 5 DT 7 F G 8 n 6 DG 8 F A 9 n 7 DA 9 F A 10 n 8 DA 10 F G 11 n 9 DG 11 F T 12 n 10 DT 12 F A 13 n 11 DA 13 F A 14 n 12 DA 14 F C 15 n 13 DC 15 F n 1 1 U n 2 2 U n 3 3 U n 4 4 U ASP 5 n 5 ASP 5 U LEU 6 n 6 LEU 6 U GLU 7 n 7 GLU 7 U ALA 8 n 8 ALA 8 U SER 9 n 9 SER 9 U PHE 10 n 10 PHE 10 U THR 11 n 11 THR 11 U SER 12 n 12 SER 12 U ARG 13 n 13 ARG 13 U LEU 14 n 14 LEU 14 U PRO 15 n 15 PRO 15 U PRO 16 n 16 PRO 16 U GLU 17 n 17 GLU 17 U ILE 18 n 18 ILE 18 U VAL 19 n 19 VAL 19 U ALA 20 n 20 ALA 20 U ALA 21 n 21 ALA 21 U LEU 22 n 22 LEU 22 U LYS 23 n 23 LYS 23 U ARG 24 n 24 ARG 24 U LYS 25 n 25 LYS 25 U SER 26 n 26 SER 26 U SER 27 n 27 SER 27 U ARG 28 n 28 ARG 28 U ASP 29 n 29 ASP 29 U PRO 30 n 30 PRO 30 U ASN 31 n 31 ASN 31 U SER 32 n 32 SER 32 U ARG 33 n 33 ARG 33 U PHE 34 n 34 PHE 34 U PRO 35 n 35 PRO 35 U ARG 36 n 36 ARG 36 U LYS 37 n 37 LYS 37 U LEU 38 n 38 LEU 38 U HIS 39 n 39 HIS 39 U MET 40 n 40 MET 40 U LEU 41 n 41 LEU 41 U LEU 42 n 42 LEU 42 U THR 43 n 43 THR 43 U TYR 44 n 44 TYR 44 U LEU 45 n 45 LEU 45 U ALA 46 n 46 ALA 46 U SER 47 n 47 SER 47 U ASN 48 n 48 ASN 48 U PRO 49 n 49 PRO 49 U GLN 50 n 50 GLN 50 U LEU 51 n 51 LEU 51 U GLU 52 n 52 GLU 52 U GLU 53 n 53 GLU 53 U GLU 54 n 54 GLU 54 U ILE 55 n 55 ILE 55 U GLY 56 n 56 GLY 56 U LEU 57 n 57 LEU 57 U SER 58 n 58 SER 58 U TRP 59 n 59 TRP 59 U ILE 60 n 60 ILE 60 U SER 61 n 61 SER 61 U ASP 62 n 62 ASP 62 U THR 63 n 63 THR 63 U GLU 64 n 64 GLU 64 U PHE 65 n 65 PHE 65 U LYS 66 n 66 LYS 66 U MET 67 n 67 MET 67 U LYS 68 n 68 LYS 68 U LYS 69 n 69 LYS 69 U LYS 70 n 70 LYS 70 U ASN 71 n 71 ASN 71 U VAL 72 n 72 VAL 72 U ALA 73 n 73 ALA 73 U LEU 74 n 74 LEU 74 U VAL 75 n 75 VAL 75 U MET 76 n 76 MET 76 U GLY 77 n 77 GLY 77 U ILE 78 n 78 ILE 78 U LYS 79 n 79 LYS 79 U LEU 80 n 80 LEU 80 U ASN 81 n 81 ASN 81 U THR 82 n 82 THR 82 U LEU 83 n 83 LEU 83 U ASN 84 n 84 ASN 84 U VAL 85 n 85 VAL 85 U ASN 86 n 86 ASN 86 U LEU 87 n 87 LEU 87 U ARG 88 n 88 ARG 88 U ASP 89 n 89 ASP 89 U LEU 90 n 90 LEU 90 U ALA 91 n 91 ALA 91 U PHE 92 n 92 PHE 92 U GLU 93 n 93 GLU 93 U GLN 94 n 94 GLN 94 U LEU 95 n 95 LEU 95 U GLN 96 n 96 GLN 96 U HIS 97 n 97 HIS 97 U ASP 98 n 98 ASP 98 U LYS 99 n 99 LYS 99 U GLY 100 n 100 GLY 100 U GLY 101 n 101 GLY 101 U TRP 102 n 102 TRP 102 U THR 103 n 103 THR 103 U GLN 104 n 104 GLN 104 U TRP 105 n 105 TRP 105 U LYS 106 n 106 LYS 106 U ARG 107 n 107 ARG 107 U SER 108 n 108 SER 108 U GLY 109 n 109 GLY 109 U PHE 110 n 110 PHE 110 U THR 111 n 111 THR 111 U ARG 112 n 112 ARG 112 U ASN 113 n 113 ASN 113 U SER 114 n 114 SER 114 U VAL 115 n 115 VAL 115 U PHE 116 n 116 PHE 116 U GLU 117 n 117 GLU 117 U ASP 118 n 118 ASP 118 U n 119 119 U n 120 120 U n 121 121 U n 122 122 U n 123 123 U n 124 124 U n 125 125 U n 126 126 U n 127 127 U n 128 128 U n 129 129 U n 130 130 U n 131 131 U author_defined_assembly 3 trimeric U HIS 39 C ND1 HIS 39 1_555 U ZN 132 I ZN ZN 1_555 U GLU 93 C OE2 GLU 93 3_556 89.3 U HIS 39 C ND1 HIS 39 1_555 U ZN 132 I ZN ZN 1_555 U HOH 143 M O HOH 3_556 115.4 U GLU 93 C OE2 GLU 93 3_556 U ZN 132 I ZN ZN 1_555 U HOH 143 M O HOH 3_556 103.7 U HIS 39 C ND1 HIS 39 1_555 U ZN 132 I ZN ZN 1_555 U HOH 144 M O HOH 1_555 113.1 U GLU 93 C OE2 GLU 93 3_556 U ZN 132 I ZN ZN 1_555 U HOH 144 M O HOH 1_555 125.3 U HOH 143 M O HOH 3_556 U ZN 132 I ZN ZN 1_555 U HOH 144 M O HOH 1_555 109.1 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 U N SER 58 C N SER 58 U O LYS 66 C O LYS 66 U N PHE 65 C N PHE 65 U O TRP 105 C O TRP 105 U O LYS 106 C O LYS 106 U N GLU 93 C N GLU 93 U N THR 111 C N THR 111 U O SER 114 C O SER 114 1 F HOH 84 L HOH 1 E P DG 26 A P DG 2 1 Y 1 E OP1 DG 26 A OP1 DG 2 1 Y 1 E OP2 DG 26 A OP2 DG 2 1 Y 1 E DG 25 A DG 1 1 Y 1 U MET 1 C MET 1 1 Y 1 U ASP 2 C ASP 2 1 Y 1 U SER 3 C SER 3 1 Y 1 U ASN 4 C ASN 4 1 Y 1 U PRO 119 C PRO 119 1 Y 1 U THR 120 C THR 120 1 Y 1 U GLN 121 C GLN 121 1 Y 1 U ASN 122 C ASN 122 1 Y 1 U ASP 123 C ASP 123 1 Y 1 U SER 124 C SER 124 1 Y 1 U PRO 125 C PRO 125 1 Y 1 U MET 126 C MET 126 1 Y 1 U HIS 127 C HIS 127 1 Y 1 U HIS 128 C HIS 128 1 Y 1 U HIS 129 C HIS 129 1 Y 1 U HIS 130 C HIS 130 1 Y 1 U HIS 131 C HIS 131 1 Y 1 F DA 4 0.090 SIDE CHAIN 1 F DA 9 0.061 SIDE CHAIN 1 F DA 10 0.098 SIDE CHAIN 1 -7.40 0.80 109.40 102.00 F F F O5' C5' C4' DC DC DC 3 3 3 N 1 -11.59 1.90 111.40 99.81 U U U CB CA C VAL VAL VAL 115 115 115 N 1 U SER 27 -123.02 -150.79 1 U LEU 57 -166.32 99.75 1 U GLU 117 48.98 -131.14 PROTEIN_REP.PARAM PROTEIN.TOP DNA-RNA_REP.PARAM DNA-RNA.TOP WATER_REP.PARAM WATER.TOP ION.PARAM ION.TOP 44.2 -6.70 0.00 0.00 -12.10 0.00 18.80 0.246 0.014 0.197 0.197 2.45 47.43 328 18917 7145 4.6 92.9 RANDOM 1 RESTRAINED THROUGHOUT 0.0 MOLECULAR REPLACEMENT one of the IBD-alphaSCS complexes that is being deposited simultaneous with this deposition Engh & Huber FLAT MODEL 37.385 0.329312 0.37 0.28 5.00 0.47 0.40 2.45 47.43 65 1505 7 505 928 0.017 1.9 21.8 1.64 2.84 1.50 4.28 2.00 4.52 2.00 6.41 2.50 0.362 0.045 0.305 2.60 65 1118 6 5.5 95.3 43.1 2.45 47.43 1PP7 18917 7158 0.0 0.0 0.089 1 5.7 2.6 94.5 2.45 2.51 526 0.438 2.7 98.4 refinement CNS 1.0 data reduction MOSFLM data scaling CCP4 (SCALA) phasing MOLREP Crystal structure of the T. vaginalis Initiator binding protein bound to the ferredoxin Inr 1 N N 2 N N 3 N N 4 N N 4 N N 4 N N 4 N N 4 N N 4 N N 4 N N 5 N N 5 N N 5 N N there is one IBD-FD Inr complex in the crystallographic asymmetric unit- the IBD binds DNA as a monomer U ASP 5 C ASP 5 HELX_P U SER 12 C SER 12 1 1 8 U PRO 15 C PRO 15 HELX_P U ARG 24 C ARG 24 1 2 10 U ARG 33 C ARG 33 HELX_P U ALA 46 C ALA 46 1 3 14 U ASN 48 C ASN 48 HELX_P U GLY 56 C GLY 56 1 4 9 U LYS 68 C LYS 68 HELX_P U GLY 77 C GLY 77 1 5 10 U LYS 79 C LYS 79 HELX_P U LEU 90 C LEU 90 1 6 12 metalc 2.160 E DG 26 A N7 DG 2 1_555 E ZN 74 D ZN ZN 1_555 metalc 2.087 F DG 8 B N7 DG 6 1_555 F ZN 72 E ZN ZN 1_555 metalc 2.612 F DA 10 B N7 DA 8 1_555 F ZN 77 H ZN ZN 1_555 metalc 2.307 F DG 11 B N7 DG 9 1_555 F ZN 73 F ZN ZN 1_555 metalc 2.514 U GLU 7 C OE2 GLU 7 1_555 U ZN 133 J ZN ZN 1_555 metalc 2.057 U HIS 39 C ND1 HIS 39 1_555 U ZN 132 I ZN ZN 1_555 metalc 2.052 U GLU 93 C OE2 GLU 93 3_556 U ZN 132 I ZN ZN 1_555 metalc 2.290 U ZN 132 I ZN ZN 1_555 U HOH 143 M O HOH 3_556 metalc 2.314 U ZN 132 I ZN ZN 1_555 U HOH 144 M O HOH 1_555 hydrog WATSON-CRICK E DG 26 A N1 DG 2 1_555 F DC 15 B N3 DC 13 1_555 hydrog WATSON-CRICK E DG 26 A N2 DG 2 1_555 F DC 15 B O2 DC 13 1_555 hydrog WATSON-CRICK E DG 26 A O6 DG 2 1_555 F DC 15 B N4 DC 13 1_555 hydrog WATSON-CRICK E DT 27 A N3 DT 3 1_555 F DA 14 B N1 DA 12 1_555 hydrog WATSON-CRICK E DT 27 A O4 DT 3 1_555 F DA 14 B N6 DA 12 1_555 hydrog WATSON-CRICK E DT 28 A N3 DT 4 1_555 F DA 13 B N1 DA 11 1_555 hydrog WATSON-CRICK E DT 28 A O4 DT 4 1_555 F DA 13 B N6 DA 11 1_555 hydrog WATSON-CRICK E DA 29 A N1 DA 5 1_555 F DT 12 B N3 DT 10 1_555 hydrog WATSON-CRICK E DA 29 A N6 DA 5 1_555 F DT 12 B O4 DT 10 1_555 hydrog WATSON-CRICK E DC 30 A N3 DC 6 1_555 F DG 11 B N1 DG 9 1_555 hydrog WATSON-CRICK E DC 30 A N4 DC 6 1_555 F DG 11 B O6 DG 9 1_555 hydrog WATSON-CRICK E DC 30 A O2 DC 6 1_555 F DG 11 B N2 DG 9 1_555 hydrog WATSON-CRICK E DT 31 A N3 DT 7 1_555 F DA 10 B N1 DA 8 1_555 hydrog WATSON-CRICK E DT 31 A O4 DT 7 1_555 F DA 10 B N6 DA 8 1_555 hydrog WATSON-CRICK E DT 32 A N3 DT 8 1_555 F DA 9 B N1 DA 7 1_555 hydrog WATSON-CRICK E DT 32 A O4 DT 8 1_555 F DA 9 B N6 DA 7 1_555 hydrog WATSON-CRICK E DC 33 A N3 DC 9 1_555 F DG 8 B N1 DG 6 1_555 hydrog WATSON-CRICK E DC 33 A N4 DC 9 1_555 F DG 8 B O6 DG 6 1_555 hydrog WATSON-CRICK E DC 33 A O2 DC 9 1_555 F DG 8 B N2 DG 6 1_555 hydrog WATSON-CRICK E DA 34 A N1 DA 10 1_555 F DT 7 B N3 DT 5 1_555 hydrog WATSON-CRICK E DA 34 A N6 DA 10 1_555 F DT 7 B O4 DT 5 1_555 hydrog WATSON-CRICK E DC 35 A N3 DC 11 1_555 F DG 6 B N1 DG 4 1_555 hydrog WATSON-CRICK E DC 35 A N4 DC 11 1_555 F DG 6 B O6 DG 4 1_555 hydrog WATSON-CRICK E DC 35 A O2 DC 11 1_555 F DG 6 B N2 DG 4 1_555 hydrog WATSON-CRICK E DT 36 A N3 DT 12 1_555 F DA 5 B N1 DA 3 1_555 hydrog WATSON-CRICK E DT 36 A O4 DT 12 1_555 F DA 5 B N6 DA 3 1_555 hydrog WATSON-CRICK E DT 37 A N3 DT 13 1_555 F DA 4 B N1 DA 2 1_555 hydrog WATSON-CRICK E DT 37 A O4 DT 13 1_555 F DA 4 B N6 DA 2 1_555 Transcription/DNA Initiator, core promoter, transcription initation, IBP39, T. vaginalis, Transcription-DNA COMPLEX Q95VR4_TRIVA UNP 3 1 Q95VR4 MDSNDLEASFTSRLPPEIVAALKRKSSRDPNSRFPRKLHMLLTYLASNPQLEEEIGLSWISDTEFKMKKKNVALVMGIKL NTLNVNLRDLAFEQLQHDKGGWTQWKRSGFTRNSVFEDPTQNDSPM 1PP7 PDB 1 1PP7 1PP7 PDB 2 1PP7 1 126 1PP7 1 126 Q95VR4 U 1 1 126 25 37 1PP7 25 37 1PP7 E 2 1 13 3 15 1PP7 3 15 1PP7 F 3 1 13 1 expression tag HIS 127 1PP7 U Q95VR4 UNP 127 1 expression tag HIS 128 1PP7 U Q95VR4 UNP 128 1 expression tag HIS 129 1PP7 U Q95VR4 UNP 129 1 expression tag HIS 130 1PP7 U Q95VR4 UNP 130 1 expression tag HIS 131 1PP7 U Q95VR4 UNP 131 4 2 anti-parallel anti-parallel anti-parallel anti-parallel U LEU 57 C LEU 57 U TRP 59 C TRP 59 U PHE 65 C PHE 65 U MET 67 C MET 67 U TRP 102 C TRP 102 U LYS 106 C LYS 106 U GLU 93 C GLU 93 U LYS 99 C LYS 99 U PHE 110 C PHE 110 U THR 111 C THR 111 U SER 114 C SER 114 U VAL 115 C VAL 115 BINDING SITE FOR RESIDUE ZN U 132 U ZN 132 Software 5 BINDING SITE FOR RESIDUE ZN F 72 F ZN 72 Software 1 BINDING SITE FOR RESIDUE ZN F 73 F ZN 73 Software 1 BINDING SITE FOR RESIDUE ZN E 74 E ZN 74 Software 1 BINDING SITE FOR RESIDUE ZN U 133 U ZN 133 Software 1 BINDING SITE FOR RESIDUE ZN F 76 F ZN 76 Software 1 BINDING SITE FOR RESIDUE ZN F 77 F ZN 77 Software 1 U HIS 39 C HIS 39 5 1_555 U GLU 93 C GLU 93 5 3_556 U LYS 106 C LYS 106 5 3_556 U HOH 143 M HOH 5 3_556 U HOH 144 M HOH 5 1_555 F DG 8 B DG 6 1 1_555 F DG 11 B DG 9 1 1_555 E DG 26 A DG 2 1 1_555 U GLU 7 C GLU 7 1 1_555 F DC 3 B DC 1 1 1_555 F DA 10 B DA 8 1 1_555 18 P 21 21 2