0.014079 0.000000 0.000253 0.000000 0.025306 0.000000 0.000000 0.000000 0.017354 0.000000 0.000000 0.000000 Chao, X. Tempel, W. Bian, C. Bountra, C. Arrowsmith, C.H. Edwards, A.M. Min, J. Structural Genomics Consortium (SGC) http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 8 90.000 91.030 90.000 71.027 39.517 57.634 C10 H16 N3 O7 P 321.224 n 5-METHYL-2'-DEOXY-CYTIDINE-5'-MONOPHOSPHATE DNA linking 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 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 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 Zn 2 65.409 ZINC ION non-polymer N 1 N N N 2 N C N 3 N N N 4 N C N 5 N C N 6 N C N 7 N C N 8 N O N 9 N N N 10 R C N 11 N C N 12 S C N 13 R C N 14 N O N 15 N O N 16 N C N 17 N O N 18 N P N 19 N O N 20 N O N 21 N O 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 H N 34 N H N 35 N H N 36 N H N 37 N H N 38 N N N 39 S C N 40 N C N 41 N O N 42 N C N 43 N O N 44 N H N 45 N H N 46 N H N 47 N H N 48 N H N 49 N H N 50 N H N 51 N N N 52 S C N 53 N C N 54 N O N 55 N C N 56 N C N 57 N C N 58 N N N 59 N C N 60 N N N 61 N N N 62 N O 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 H N 74 N H N 75 N H N 76 N H N 77 N H N 78 N N N 79 S C N 80 N C N 81 N O N 82 N C N 83 N C N 84 N O N 85 N N N 86 N O N 87 N H N 88 N H N 89 N H N 90 N H N 91 N H N 92 N H N 93 N H N 94 N H N 95 N N N 96 R C N 97 N C N 98 N O N 99 N C N 100 N S N 101 N O 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 O N 110 N P N 111 N O N 112 N O N 113 N O N 114 N C N 115 R C N 116 N O N 117 S C N 118 N O N 119 N C N 120 R C Y 121 N N Y 122 N C Y 123 N N Y 124 N C Y 125 N C N 126 N N Y 127 N N Y 128 N C Y 129 N N Y 130 N C 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 H N 145 N O N 146 N P N 147 N O N 148 N O N 149 N O N 150 N C N 151 R C N 152 N O N 153 S C N 154 N O N 155 N C N 156 R C N 157 N N N 158 N C N 159 N O N 160 N N N 161 N C N 162 N N N 163 N C N 164 N C N 165 N H 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 H N 177 N H N 178 N H N 179 N O N 180 N P N 181 N O N 182 N O N 183 N O N 184 N C N 185 R C N 186 N O N 187 S C N 188 N O N 189 N C N 190 R C Y 191 N N Y 192 N C Y 193 N N Y 194 N C N 195 N C N 196 N O N 197 N N N 198 N C N 199 N N N 200 N N Y 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 O N 217 N P N 218 N O N 219 N O N 220 N O N 221 N C N 222 R C N 223 N O N 224 S C N 225 N O N 226 N C N 227 R C N 228 N N N 229 N C N 230 N O N 231 N N N 232 N C N 233 N O N 234 N C N 235 N C N 236 N C 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 H N 249 N H N 250 N H N 251 N H N 252 N N N 253 S C N 254 N C N 255 N O N 256 N C N 257 N C N 258 N C N 259 N O N 260 N N 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 N N 273 S C N 274 N C N 275 N O N 276 N C N 277 N C N 278 N C N 279 N O N 280 N O N 281 N O 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 N C N 293 N C N 294 N O N 295 N O N 296 N H N 297 N H N 298 N H N 299 N H N 300 N H N 301 N N N 302 S C N 303 N C N 304 N O N 305 N C Y 306 N C Y 307 N N Y 308 N C Y 309 N C Y 310 N N 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 H N 322 N O N 323 N H N 324 N H N 325 N N N 326 S C N 327 N C N 328 N O N 329 S C N 330 N C N 331 N C N 332 N C N 333 N O N 334 N H 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 N N 348 S C N 349 N C N 350 N O N 351 N C N 352 N C N 353 N C N 354 N C N 355 N O N 356 N H N 357 N H 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 N N 370 S C N 371 N C N 372 N O N 373 N C N 374 N C N 375 N C N 376 N C N 377 N N N 378 N O N 379 N H 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 391 N H N 392 N H N 393 N H N 394 N N N 395 S C N 396 N C N 397 N O N 398 N C N 399 N C N 400 N S 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 414 N N N 415 S C N 416 N C N 417 N O N 418 N C Y 419 N C Y 420 N C Y 421 N C Y 422 N C Y 423 N C Y 424 N C 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 H N 434 N H N 435 N H N 436 N H N 437 N N N 438 S C N 439 N C N 440 N O N 441 N C N 442 N C N 443 N C N 444 N O 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 H N 454 N N N 455 S C N 456 N C N 457 N O N 458 N C N 459 N O N 460 N O 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 H N 468 N N N 469 S C N 470 N C N 471 N O N 472 R C N 473 N O N 474 N C N 475 N O 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 H N 485 N N N 486 S C N 487 N C N 488 N O N 489 N C Y 490 N C Y 491 N C Y 492 N C Y 493 N C Y 494 N C Y 495 N C N 496 N O N 497 N O 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 H N 509 N N N 510 S C N 511 N C N 512 N O N 513 N C N 514 N C N 515 N C N 516 N O 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 527 N H N 528 N ZN N 1 N sing N 2 N sing N 3 N sing N 4 N sing N 5 N doub N 6 N doub N 7 N sing N 8 N sing N 9 N sing N 10 N doub 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 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 doub 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 sing 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 doub 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 sing 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 doub N 72 N sing 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 doub N 84 N sing N 85 N sing N 86 N sing N 87 N sing N 88 N doub 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 doub 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 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 Y 129 N sing Y 130 N sing Y 131 N doub N 132 N sing Y 133 N sing Y 134 N sing Y 135 N doub N 136 N sing Y 137 N doub N 138 N sing N 139 N sing Y 140 N sing Y 141 N doub N 142 N sing Y 143 N sing N 144 N sing N 145 N sing N 146 N doub 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 N 166 N sing N 167 N sing N 168 N sing N 169 N doub N 170 N sing N 171 N doub 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 doub 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 sing N 201 N sing Y 202 N sing Y 203 N sing Y 204 N doub N 205 N sing Y 206 N sing N 207 N sing Y 208 N doub N 209 N doub N 210 N sing N 211 N sing 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 doub 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 sing N 243 N doub N 244 N sing N 245 N sing N 246 N sing N 247 N doub N 248 N sing N 249 N sing N 250 N doub 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 N 266 N sing N 267 N sing N 268 N sing N 269 N doub 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 doub N 281 N sing N 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 doub 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 doub 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 Y 312 N sing Y 313 N doub Y 314 N doub N 315 N sing Y 316 N sing N 317 N sing Y 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 doub 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 sing N 350 N sing N 351 N doub 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 doub N 373 N sing N 374 N sing N 375 N sing N 376 N sing N 377 N sing N 378 N sing N 379 N sing 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 sing N 393 N sing N 394 N sing N 395 N sing N 396 N doub 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 sing N 412 N sing N 413 N sing N 414 N sing N 415 N doub N 416 N sing N 417 N sing N 418 N sing N 419 N sing Y 420 N doub Y 421 N sing Y 422 N sing N 423 N sing Y 424 N doub N 425 N sing Y 426 N doub N 427 N sing Y 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 sing N 435 N sing N 436 N sing N 437 N sing N 438 N doub 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 sing N 452 N sing N 453 N sing N 454 N sing N 455 N doub 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 sing N 465 N sing N 466 N sing N 467 N sing N 468 N doub 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 sing N 481 N sing N 482 N sing N 483 N sing N 484 N doub N 485 N sing N 486 N sing N 487 N sing N 488 N sing Y 489 N doub Y 490 N sing Y 491 N sing N 492 N sing Y 493 N doub N 494 N sing Y 495 N doub N 496 N sing Y 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 sing N 505 N sing N 506 N sing N 507 N sing N 508 N doub 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 N 516 N sing N 517 N sing N 518 N sing N 519 N sing US Cell(Cambridge,Mass.) CELLB5 0998 0092-8674 151 1200 1213 10.1016/j.cell.2012.11.014 23217707 Tet3 CXXC Domain and Dioxygenase Activity Cooperatively Regulate Key Genes for Xenopus Eye and Neural Development. 2012 10.2210/pdb4hp1/pdb pdb_00004hp1 100 1 CCD 2012-01-26 MARMOSAIC 300 mm CCD SINGLE WAVELENGTH M x-ray 1 0.97949 1.0 08ID-1 CLSI 0.97949 SYNCHROTRON CLSI BEAMLINE 08ID-1 3678.407 DNA (5'-D(*GP*CP*CP*AP*CP*(5CM)P*GP*GP*TP*GP*GP*C)-3') 2 syn polymer 8430.049 LOC100036628 protein 1 man polymer 65.409 ZINC ION 2 syn non-polymer 18.015 water 10 nat water no yes (DG)(DC)(DC)(DA)(DC)(5CM)(DG)(DG)(DT)(DG)(DG)(DC) GCCACCGGTGGC A,B polydeoxyribonucleotide no no MHHHHHHSSGRENLYFQGSNKKRKRCGVCVPCLRKEPCGACYNCVNRSTSHQICKMRKCEQLKKKRVVPMKG MHHHHHHSSGRENLYFQGSNKKRKRCGVCVPCLRKEPCGACYNCVNRSTSHQICKMRKCEQLKKKRVVPMKG C 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 Western clawed frog sample tet3, LOC100036628 8364 Xenopus (Silurana) tropicalis 511693 Escherichia coli BL21-V2R-pRARE2 plasmid pET28-MHL 1 2.56 51.98 VAPOR DIFFUSION, SITTING DROP 7.5 30% PEG-1500, 0.2M sodium chloride, 0.1M HEPES, 5% MPD, pH 7.5, vapor diffusion, sitting drop, temperature 291K 291 -2.922 1 19 A 1 B 12 -1.509 A_DG1:DC12_B 1 -1.993 0.085 -0.140 0.096 -4.703 1 19 A 2 B 11 -2.923 A_DC2:DG11_B 2 -4.976 -0.078 0.480 -0.145 -3.631 1 19 A 3 B 10 -0.019 A_DC3:DG10_B 3 -14.389 0.033 0.385 -0.144 -0.845 1 20 A 4 B 9 1.432 A_DA4:DT9_B 4 -0.108 0.226 -0.072 -0.217 1.465 1 19 A 5 B 8 -5.281 A_DC5:DG8_B 5 -7.826 -0.202 0.246 -0.143 0.147 1 19 A 6 B 7 -1.187 A_5CM6:DG7_B 6 -2.279 0.537 0.101 -0.350 5.792 1 19 A 7 B 6 -3.946 A_DG7:5CM6_B 7 -11.009 -0.168 0.274 -0.219 3.390 1 19 A 8 B 5 3.506 A_DG8:DC5_B 8 -11.023 0.158 0.290 0.081 0.659 1 20 A 9 B 4 -3.065 A_DT9:DA4_B 9 -13.893 0.210 0.147 -0.129 -0.950 1 19 A 10 B 3 -2.010 A_DG10:DC3_B 10 -7.185 -0.627 0.124 -0.412 10.141 1 19 A 11 B 2 -4.082 A_DG11:DC2_B 11 -5.949 0.183 0.455 -0.002 2.967 1 19 A 12 B 1 3.684 A_DC12:DG1_B 12 -1.418 0.759 0.046 0.033 3.427 33.876 A A 1 2 -3.023 B B 12 11 3.347 -1.753 -0.698 -0.316 AA_DG1DC2:DG11DC12_BB 1 -5.677 9.790 33.366 -0.249 0.244 3.222 34.661 A A 2 3 5.313 B B 11 10 3.242 3.160 -0.239 0.114 AA_DC2DC3:DG10DG11_BB 2 1.863 -3.133 34.473 -0.290 0.685 3.558 37.669 A A 3 4 3.547 B B 10 9 3.322 2.282 1.519 1.120 AA_DC3DA4:DT9DG10_BB 3 5.304 -8.245 37.239 1.422 -1.625 3.573 35.015 A A 4 5 -3.727 B B 9 8 3.386 -2.233 -1.790 0.501 AA_DA4DC5:DG8DT9_BB 4 -5.270 8.796 34.558 1.192 2.125 3.590 39.402 A A 5 6 2.628 B B 8 7 3.450 1.768 1.191 0.749 AA_DC55CM6:DG7DG8_BB 5 4.556 -6.774 39.109 0.885 -1.184 3.339 33.922 A A 6 7 -0.394 B B 7 6 3.278 -0.230 -0.919 1.483 AA_5CM6DG7:5CM6DG7_BB 6 -3.213 5.514 33.773 2.579 1.053 3.362 34.681 A A 7 8 7.804 B B 6 5 3.431 4.638 0.234 -0.249 AA_DG7DG8:DC55CM6_BB 7 -0.935 1.573 34.366 -1.160 -0.543 3.230 31.885 A A 8 9 10.164 B B 5 4 3.372 5.552 -0.171 -0.442 AA_DG8DT9:DA4DC5_BB 8 2.129 -3.898 31.340 -1.833 0.706 2.953 44.565 A A 9 10 -9.198 B B 4 3 3.309 -6.949 -0.189 2.126 AA_DT9DG10:DC3DA4_BB 9 0.984 -1.302 44.037 3.419 0.336 3.191 34.163 A A 10 11 2.462 B B 3 2 3.173 1.444 -0.198 0.442 AA_DG10DG11:DC2DC3_BB 10 -3.691 6.297 33.939 0.530 -0.233 3.562 39.377 A A 11 12 -3.555 B B 2 1 3.470 -2.391 1.072 -0.308 AA_DG11DC12:DG1DC2_BB 11 3.552 -5.281 39.152 -0.153 -1.137 Structural Genomics Consortium SGC 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 Database references Data collection Database references Derived calculations Refinement description 1 0 2012-12-05 1 1 2012-12-19 1 2 2024-02-28 1 3 2024-04-03 _database_2.pdbx_DOI _database_2.pdbx_database_accession _pdbx_struct_conn_angle.ptnr1_auth_seq_id _pdbx_struct_conn_angle.ptnr1_label_seq_id _pdbx_struct_conn_angle.ptnr3_auth_seq_id _pdbx_struct_conn_angle.ptnr3_label_seq_id _pdbx_struct_conn_angle.value _struct_conn.pdbx_dist_value _struct_conn.pdbx_leaving_atom_flag _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_label_asym_id _struct_ref_seq_dif.details _struct_site.pdbx_auth_asym_id _struct_site.pdbx_auth_comp_id _struct_site.pdbx_auth_seq_id Y RCSB Y RCSB 2012-10-23 REL REL ZN ZINC ION HOH water unpublished model of complex between same protein and DNA fragment. That structure was solved by a combination of zinc-SAD (SHELXD/E) and molecular replacement in ""density"" mode (MOLREP), using ideal DNA (COOT) and human MLL2 (currently unpublished) as search models. Other experimental model ZN 1 3 ZN ZN 201 C ZN 2 3 ZN ZN 202 C HOH 5 4 HOH HOH 101 A HOH 10 4 HOH HOH 102 A HOH 2 4 HOH HOH 101 B HOH 1 4 HOH HOH 301 C HOH 3 4 HOH HOH 302 C HOH 4 4 HOH HOH 303 C HOH 6 4 HOH HOH 304 C HOH 7 4 HOH HOH 305 C HOH 8 4 HOH HOH 306 C HOH 9 4 HOH HOH 307 C DG 1 n 1 DG 1 A DC 2 n 2 DC 2 A DC 3 n 3 DC 3 A DA 4 n 4 DA 4 A DC 5 n 5 DC 5 A 5CM 6 n 6 5CM 6 A DG 7 n 7 DG 7 A DG 8 n 8 DG 8 A DT 9 n 9 DT 9 A DG 10 n 10 DG 10 A DG 11 n 11 DG 11 A DC 12 n 12 DC 12 A DG 1 n 1 DG 1 B DC 2 n 2 DC 2 B DC 3 n 3 DC 3 B DA 4 n 4 DA 4 B DC 5 n 5 DC 5 B 5CM 6 n 6 5CM 6 B DG 7 n 7 DG 7 B DG 8 n 8 DG 8 B DT 9 n 9 DT 9 B DG 10 n 10 DG 10 B DG 11 n 11 DG 11 B DC 12 n 12 DC 12 B n 1 40 C n 2 41 C n 3 42 C n 4 43 C n 5 44 C n 6 45 C n 7 46 C n 8 47 C n 9 48 C n 10 49 C n 11 50 C n 12 51 C n 13 52 C n 14 53 C n 15 54 C n 16 55 C n 17 56 C n 18 57 C n 19 58 C ASN 59 n 20 ASN 59 C LYS 60 n 21 LYS 60 C LYS 61 n 22 LYS 61 C ARG 62 n 23 ARG 62 C LYS 63 n 24 LYS 63 C ARG 64 n 25 ARG 64 C CYS 65 n 26 CYS 65 C GLY 66 n 27 GLY 66 C VAL 67 n 28 VAL 67 C CYS 68 n 29 CYS 68 C VAL 69 n 30 VAL 69 C PRO 70 n 31 PRO 70 C CYS 71 n 32 CYS 71 C LEU 72 n 33 LEU 72 C ARG 73 n 34 ARG 73 C LYS 74 n 35 LYS 74 C GLU 75 n 36 GLU 75 C PRO 76 n 37 PRO 76 C CYS 77 n 38 CYS 77 C GLY 78 n 39 GLY 78 C ALA 79 n 40 ALA 79 C CYS 80 n 41 CYS 80 C TYR 81 n 42 TYR 81 C ASN 82 n 43 ASN 82 C CYS 83 n 44 CYS 83 C VAL 84 n 45 VAL 84 C ASN 85 n 46 ASN 85 C ARG 86 n 47 ARG 86 C SER 87 n 48 SER 87 C THR 88 n 49 THR 88 C SER 89 n 50 SER 89 C HIS 90 n 51 HIS 90 C GLN 91 n 52 GLN 91 C ILE 92 n 53 ILE 92 C CYS 93 n 54 CYS 93 C LYS 94 n 55 LYS 94 C MET 95 n 56 MET 95 C ARG 96 n 57 ARG 96 C LYS 97 n 58 LYS 97 C CYS 98 n 59 CYS 98 C GLU 99 n 60 GLU 99 C GLN 100 n 61 GLN 100 C LEU 101 n 62 LEU 101 C LYS 102 n 63 LYS 102 C LYS 103 n 64 LYS 103 C LYS 104 n 65 LYS 104 C ARG 105 n 66 ARG 105 C VAL 106 n 67 VAL 106 C VAL 107 n 68 VAL 107 C PRO 108 n 69 PRO 108 C MET 109 n 70 MET 109 C n 71 110 C n 72 111 C 9.2194 4.6015 -0.7036 10.0492 -1.7156 5.9178 -0.4552 1.3601 0.0956 -0.5914 0.2957 -0.4826 -0.1728 0.4087 0.1595 0.4839 -0.2503 -0.0562 0.5631 -0.0483 0.3110 refined 21.2959 0.3332 9.2652 X-RAY DIFFRACTION 15.9835 7.2740 0.6816 8.4588 -0.0316 4.3401 -0.0407 -0.0128 0.1235 -0.0092 -0.0616 -0.4126 -0.3767 0.4751 0.1023 0.4996 -0.2011 0.0040 0.5766 -0.0722 0.3125 refined 22.0503 -1.0194 9.7846 X-RAY DIFFRACTION 4.5889 -0.4331 1.7374 7.6649 -0.3340 9.7911 -0.2312 0.5210 -0.1007 -0.0583 0.1989 -0.2583 0.0994 0.2059 0.0324 0.5320 -0.1071 -0.0218 0.1555 -0.0365 0.2993 refined 17.0095 -2.4406 21.3559 X-RAY DIFFRACTION A 1 A 12 X-RAY DIFFRACTION 1 B 1 B 12 X-RAY DIFFRACTION 2 C 59 C 109 X-RAY DIFFRACTION 3 software_defined_assembly PISA 3 trimeric 4080 -11 7020 C CYS 65 C SG CYS 26 1_555 C ZN 201 D ZN ZN 1_555 C CYS 68 C SG CYS 29 1_555 109.9 C CYS 65 C SG CYS 26 1_555 C ZN 201 D ZN ZN 1_555 C CYS 71 C SG CYS 32 1_555 116.1 C CYS 68 C SG CYS 29 1_555 C ZN 201 D ZN ZN 1_555 C CYS 71 C SG CYS 32 1_555 98.9 C CYS 65 C SG CYS 26 1_555 C ZN 201 D ZN ZN 1_555 C CYS 98 C SG CYS 59 1_555 108.8 C CYS 68 C SG CYS 29 1_555 C ZN 201 D ZN ZN 1_555 C CYS 98 C SG CYS 59 1_555 122.6 C CYS 71 C SG CYS 32 1_555 C ZN 201 D ZN ZN 1_555 C CYS 98 C SG CYS 59 1_555 100.4 C CYS 77 C SG CYS 38 1_555 C ZN 202 E ZN ZN 1_555 C CYS 80 C SG CYS 41 1_555 111.5 C CYS 77 C SG CYS 38 1_555 C ZN 202 E ZN ZN 1_555 C CYS 83 C SG CYS 44 1_555 114.4 C CYS 80 C SG CYS 41 1_555 C ZN 202 E ZN ZN 1_555 C CYS 83 C SG CYS 44 1_555 104.2 C CYS 77 C SG CYS 38 1_555 C ZN 202 E ZN ZN 1_555 C CYS 93 C SG CYS 54 1_555 107.0 C CYS 80 C SG CYS 41 1_555 C ZN 202 E ZN ZN 1_555 C CYS 93 C SG CYS 54 1_555 117.2 C CYS 83 C SG CYS 44 1_555 C ZN 202 E ZN ZN 1_555 C CYS 93 C SG CYS 54 1_555 102.4 A 5CM 6 A 5CM 6 DC B 5CM 6 B 5CM 6 DC 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 O5' DG 1 A O5' DG 1 1 Y 1 C CG LYS 60 C CG LYS 21 1 Y 1 C CD LYS 60 C CD LYS 21 1 Y 1 C CE LYS 60 C CE LYS 21 1 Y 1 C NZ LYS 60 C NZ LYS 21 1 Y 1 C NZ LYS 63 C NZ LYS 24 1 Y 1 C CD LYS 74 C CD LYS 35 1 Y 1 C CE LYS 74 C CE LYS 35 1 Y 1 C NZ LYS 74 C NZ LYS 35 1 Y 1 C CG ARG 86 C CG ARG 47 1 Y 1 C CD ARG 86 C CD ARG 47 1 Y 1 C NE ARG 86 C NE ARG 47 1 Y 1 C CZ ARG 86 C CZ ARG 47 1 Y 1 C NH1 ARG 86 C NH1 ARG 47 1 Y 1 C NH2 ARG 86 C NH2 ARG 47 1 Y 1 C NZ LYS 94 C NZ LYS 55 1 Y 1 C CD LYS 104 C CD LYS 65 1 Y 1 C CE LYS 104 C CE LYS 65 1 Y 1 C NZ LYS 104 C NZ LYS 65 1 Y 1 C CG1 VAL 106 C CG1 VAL 67 1 Y 1 C CG2 VAL 106 C CG2 VAL 67 1 Y 1 C CG1 VAL 107 C CG1 VAL 68 1 Y 1 C CG2 VAL 107 C CG2 VAL 68 1 Y 1 C MET 40 C MET 1 1 Y 1 C HIS 41 C HIS 2 1 Y 1 C HIS 42 C HIS 3 1 Y 1 C HIS 43 C HIS 4 1 Y 1 C HIS 44 C HIS 5 1 Y 1 C HIS 45 C HIS 6 1 Y 1 C HIS 46 C HIS 7 1 Y 1 C SER 47 C SER 8 1 Y 1 C SER 48 C SER 9 1 Y 1 C GLY 49 C GLY 10 1 Y 1 C ARG 50 C ARG 11 1 Y 1 C GLU 51 C GLU 12 1 Y 1 C ASN 52 C ASN 13 1 Y 1 C LEU 53 C LEU 14 1 Y 1 C TYR 54 C TYR 15 1 Y 1 C PHE 55 C PHE 16 1 Y 1 C GLN 56 C GLN 17 1 Y 1 C GLY 57 C GLY 18 1 Y 1 C SER 58 C SER 19 1 Y 1 C LYS 110 C LYS 71 1 Y 1 C GLY 111 C GLY 72 1 Y 128.140 70.5470 41.420 -2.0920 0.0000 -1.3750 -3.4060 0.0000 5.4480 0.9640 0.9540 HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS. U VALUES WITH TLS ADDED. COOT and the MOLPROBITY server were also used during refinement. 0.2502 0.2196 0.2210 2.2500 35.0000 351 7736 4.5370 99.7810 0.2760 0.2410 1.000 0.500 14.1950 0.1890 RANDOM 1 THROUGHOUT 0.000 MOLECULAR REPLACEMENT 0.2410 0.1980 0.8000 0.8000 1.2000 unpublished model of complex between same protein and DNA fragment. That structure was solved by a combination of zinc-SAD (SHELXD/E) and molecular replacement in "density" mode (MOLREP), using ideal DNA (COOT) and human MLL2 (currently unpublished) as search models. MAXIMUM LIKELIHOOD MASK BULK SOLVENT 2.2500 35.0000 10 882 2 487 383 0.012 0.015 944 0.003 0.020 657 1.377 1.673 1367 1.155 3.011 1518 5.478 5.000 50 33.295 22.000 15 15.397 15.000 80 17.228 15.000 5 0.061 0.200 128 0.008 0.020 730 0.001 0.020 217 0.466 0.467 2.308 26 539 565 20 100.000 0.575 0.442 2.371 23 515 538 20 100.000 0.528 0.380 2.440 24 512 537 20 99.814 0.405 0.364 2.514 23 498 522 20 99.808 0.459 0.339 2.596 19 488 507 20 100.000 0.371 0.324 2.687 28 458 486 20 100.000 0.327 0.315 2.788 18 455 473 20 100.000 0.359 0.292 2.901 23 445 469 20 99.787 0.347 0.262 3.029 23 404 427 20 100.000 0.258 0.257 3.175 21 395 417 20 99.760 0.217 0.198 3.346 12 393 406 20 99.754 0.252 0.198 3.547 15 350 367 20 99.455 0.173 0.214 3.789 10 346 357 20 99.720 0.249 0.183 4.088 20 321 341 20 100.000 0.211 0.157 4.472 17 293 310 20 100.000 0.176 0.167 4.990 12 273 285 20 100.000 0.167 0.172 5.743 11 237 249 20 99.598 0.221 0.192 6.986 10 202 212 20 100.000 0.279 0.172 9.689 10 160 171 20 99.415 0.161 0.178 35.000 6 100 106 20 100.000 2.25 35.51 4HP1 7738 0.046 1 14.6771 4.12 99.90 0.49 2.25 2.37 4628 1110 1 4.17 100.00 0.23 2.37 2.52 4434 1058 1 4.19 99.90 0.16 2.52 2.69 4147 994 1 4.17 100.00 0.09 2.69 2.90 3971 947 1 4.19 99.89 0.06 2.90 3.18 3509 840 1 4.18 99.94 0.03 3.18 3.56 3233 781 1 4.14 99.80 0.04 3.56 4.11 2848 700 1 4.07 99.93 0.04 4.11 5.03 2318 586 1 3.96 100.00 0.04 5.03 7.12 1806 462 1 3.91 99.77 0.04 7.12 35.51 956 260 1 3.68 99.24 data scaling Phil R. Evans pre@mrc-lmb.cam.ac.uk 2011/05/18 Fortran_77 http://www.ccp4.ac.uk/dist/html/scala.html SCALA other CCP4_3.3.20 phasing Randy J. Read cimr-phaser@lists.cam.ac.uk http://www-structmed.cimr.cam.ac.uk/phaser/ PHASER program refinement Garib N. Murshudov garib@ysbl.york.ac.uk Fortran_77 http://www.ccp4.ac.uk/dist/html/refmac5.html REFMAC program 5.7.0027 data extraction PDB deposit@deposit.rcsb.org August 3, 2011 C++ http://sw-tools.pdb.org/apps/PDB_EXTRACT/ PDB_EXTRACT package 3.11 data reduction XDS Crystal structure of Tet3 in complex with a non-CpG dsDNA 1 N N 1 N N 2 N N 3 N N 3 N N 4 N N 4 N N 4 N N AUTHORS STATE THAT THE BIOLOGICAL ASSEMBLY IS UNKNOWN. C CYS 68 C CYS 29 HELX_P C ARG 73 C ARG 34 1 1 6 C CYS 80 C CYS 41 HELX_P C ASN 85 C ASN 46 1 2 6 covale 1.611 both A DC 5 A O3' DC 5 1_555 A 5CM 6 A P 5CM 6 1_555 covale 1.612 both A 5CM 6 A O3' 5CM 6 1_555 A DG 7 A P DG 7 1_555 covale 1.590 both B DC 5 B O3' DC 5 1_555 B 5CM 6 B P 5CM 6 1_555 covale 1.577 both B 5CM 6 B O3' 5CM 6 1_555 B DG 7 B P DG 7 1_555 metalc 2.331 C CYS 65 C SG CYS 26 1_555 C ZN 201 D ZN ZN 1_555 metalc 2.339 C CYS 68 C SG CYS 29 1_555 C ZN 201 D ZN ZN 1_555 metalc 2.303 C CYS 71 C SG CYS 32 1_555 C ZN 201 D ZN ZN 1_555 metalc 2.329 C CYS 77 C SG CYS 38 1_555 C ZN 202 E ZN ZN 1_555 metalc 2.324 C CYS 80 C SG CYS 41 1_555 C ZN 202 E ZN ZN 1_555 metalc 2.357 C CYS 83 C SG CYS 44 1_555 C ZN 202 E ZN ZN 1_555 metalc 2.357 C CYS 93 C SG CYS 54 1_555 C ZN 202 E ZN ZN 1_555 metalc 2.285 C CYS 98 C SG CYS 59 1_555 C ZN 201 D ZN ZN 1_555 hydrog WATSON-CRICK A DG 1 A N1 DG 1 1_555 B DC 12 B N3 DC 12 1_555 hydrog WATSON-CRICK A DG 1 A N2 DG 1 1_555 B DC 12 B O2 DC 12 1_555 hydrog WATSON-CRICK A DG 1 A O6 DG 1 1_555 B DC 12 B N4 DC 12 1_555 hydrog WATSON-CRICK A DC 2 A N3 DC 2 1_555 B DG 11 B N1 DG 11 1_555 hydrog WATSON-CRICK A DC 2 A N4 DC 2 1_555 B DG 11 B O6 DG 11 1_555 hydrog WATSON-CRICK A DC 2 A O2 DC 2 1_555 B DG 11 B N2 DG 11 1_555 hydrog WATSON-CRICK A DC 3 A N3 DC 3 1_555 B DG 10 B N1 DG 10 1_555 hydrog WATSON-CRICK A DC 3 A N4 DC 3 1_555 B DG 10 B O6 DG 10 1_555 hydrog WATSON-CRICK A DC 3 A O2 DC 3 1_555 B DG 10 B N2 DG 10 1_555 hydrog WATSON-CRICK A DA 4 A N1 DA 4 1_555 B DT 9 B N3 DT 9 1_555 hydrog WATSON-CRICK A DA 4 A N6 DA 4 1_555 B DT 9 B O4 DT 9 1_555 hydrog WATSON-CRICK A DC 5 A N3 DC 5 1_555 B DG 8 B N1 DG 8 1_555 hydrog WATSON-CRICK A DC 5 A N4 DC 5 1_555 B DG 8 B O6 DG 8 1_555 hydrog WATSON-CRICK A DC 5 A O2 DC 5 1_555 B DG 8 B N2 DG 8 1_555 hydrog WATSON-CRICK A 5CM 6 A N3 5CM 6 1_555 B DG 7 B N1 DG 7 1_555 hydrog WATSON-CRICK A 5CM 6 A N4 5CM 6 1_555 B DG 7 B O6 DG 7 1_555 hydrog WATSON-CRICK A 5CM 6 A O2 5CM 6 1_555 B DG 7 B N2 DG 7 1_555 hydrog WATSON-CRICK A DG 7 A N1 DG 7 1_555 B 5CM 6 B N3 5CM 6 1_555 hydrog WATSON-CRICK A DG 7 A N2 DG 7 1_555 B 5CM 6 B O2 5CM 6 1_555 hydrog WATSON-CRICK A DG 7 A O6 DG 7 1_555 B 5CM 6 B N4 5CM 6 1_555 hydrog WATSON-CRICK A DG 8 A N1 DG 8 1_555 B DC 5 B N3 DC 5 1_555 hydrog WATSON-CRICK A DG 8 A N2 DG 8 1_555 B DC 5 B O2 DC 5 1_555 hydrog WATSON-CRICK A DG 8 A O6 DG 8 1_555 B DC 5 B N4 DC 5 1_555 hydrog WATSON-CRICK A DT 9 A N3 DT 9 1_555 B DA 4 B N1 DA 4 1_555 hydrog WATSON-CRICK A DT 9 A O4 DT 9 1_555 B DA 4 B N6 DA 4 1_555 hydrog WATSON-CRICK A DG 10 A N1 DG 10 1_555 B DC 3 B N3 DC 3 1_555 hydrog WATSON-CRICK A DG 10 A N2 DG 10 1_555 B DC 3 B O2 DC 3 1_555 hydrog WATSON-CRICK A DG 10 A O6 DG 10 1_555 B DC 3 B N4 DC 3 1_555 hydrog WATSON-CRICK A DG 11 A N1 DG 11 1_555 B DC 2 B N3 DC 2 1_555 hydrog WATSON-CRICK A DG 11 A N2 DG 11 1_555 B DC 2 B O2 DC 2 1_555 hydrog WATSON-CRICK A DG 11 A O6 DG 11 1_555 B DC 2 B N4 DC 2 1_555 hydrog WATSON-CRICK A DC 12 A N3 DC 12 1_555 B DG 1 B N1 DG 1 1_555 hydrog WATSON-CRICK A DC 12 A N4 DC 12 1_555 B DG 1 B O6 DG 1 1_555 hydrog WATSON-CRICK A DC 12 A O2 DC 12 1_555 B DG 1 B N2 DG 1 1_555 DNA BINDING PROTEIN/DNA CXXC, DNA methylation, Structural Genomics, Structural Genomics Consortium, SGC, DNA BINDING PROTEIN-DNA complex A0JP82_XENTR UNP 2 58 A0JP82 SNKKRKRCGVCVPCLRKEPCGACYNCVNRSTSHQICKMRKCEQLKKKRVVPMKG 4HP1 PDB 1 4HP1 58 111 4HP1 58 111 A0JP82 C 1 19 72 1 12 4HP1 1 12 4HP1 A 2 1 12 1 12 4HP1 1 12 4HP1 B 2 1 12 1 expression tag MET 40 4HP1 C A0JP82 UNP 1 1 expression tag HIS 41 4HP1 C A0JP82 UNP 2 1 expression tag HIS 42 4HP1 C A0JP82 UNP 3 1 expression tag HIS 43 4HP1 C A0JP82 UNP 4 1 expression tag HIS 44 4HP1 C A0JP82 UNP 5 1 expression tag HIS 45 4HP1 C A0JP82 UNP 6 1 expression tag HIS 46 4HP1 C A0JP82 UNP 7 1 expression tag SER 47 4HP1 C A0JP82 UNP 8 1 expression tag SER 48 4HP1 C A0JP82 UNP 9 1 expression tag GLY 49 4HP1 C A0JP82 UNP 10 1 expression tag ARG 50 4HP1 C A0JP82 UNP 11 1 expression tag GLU 51 4HP1 C A0JP82 UNP 12 1 expression tag ASN 52 4HP1 C A0JP82 UNP 13 1 expression tag LEU 53 4HP1 C A0JP82 UNP 14 1 expression tag TYR 54 4HP1 C A0JP82 UNP 15 1 expression tag PHE 55 4HP1 C A0JP82 UNP 16 1 expression tag GLN 56 4HP1 C A0JP82 UNP 17 1 expression tag GLY 57 4HP1 C A0JP82 UNP 18 BINDING SITE FOR RESIDUE ZN C 201 C ZN 201 Software 4 BINDING SITE FOR RESIDUE ZN C 202 C ZN 202 Software 4 C CYS 65 C CYS 26 4 1_555 C CYS 68 C CYS 29 4 1_555 C CYS 71 C CYS 32 4 1_555 C CYS 98 C CYS 59 4 1_555 C CYS 77 C CYS 38 4 1_555 C CYS 80 C CYS 41 4 1_555 C CYS 83 C CYS 44 4 1_555 C CYS 93 C CYS 54 4 1_555 5 C 1 2 1