0.016092 0.000000 0.000000 0.000000 0.016092 0.000000 0.000000 0.000000 0.004136 0.00000 0.00000 0.00000 Shaffer, P.L. Gewirth, D.T. http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 16 90.00 90.00 90.00 62.14 62.14 241.75 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 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 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 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 C Y 398 N C Y 399 N C Y 400 N C Y 401 N C Y 402 N C Y 403 N C N 404 N O 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 H N 415 N H N 416 N N N 417 S C N 418 N C N 419 N O N 420 N C N 421 N C N 422 N C N 423 N O N 424 N H 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 N N 434 S C N 435 N C N 436 N O N 437 N C N 438 N O N 439 N O N 440 N H 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 N N 448 S C N 449 N C N 450 N O N 451 R C N 452 N O N 453 N C N 454 N O N 455 N H N 456 N H N 457 N H N 458 N H N 459 N H N 460 N H N 461 N H N 462 N H N 463 N H N 464 N N N 465 S C N 466 N C N 467 N O N 468 N C N 469 N C N 470 N C N 471 N O N 472 N H N 473 N H N 474 N H 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 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 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 Y 397 N doub Y 398 N sing Y 399 N sing N 400 N sing Y 401 N doub N 402 N sing Y 403 N doub N 404 N sing Y 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 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 doub 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 sing N 456 N sing N 457 N sing N 458 N sing N 459 N sing N 460 N sing N 461 N doub 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 sing N 469 N sing N 470 N sing N 471 N sing N 472 N sing UK EMBO J. EMJODG 0897 0261-4189 21 2242 2252 10.1093/emboj/21.9.2242 11980721 Structural basis of VDR-DNA interactions on direct repeat response elements. 2002 10.2210/pdb1kb2/pdb pdb_00001kb2 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 2001-03-15 ADSC QUANTUM 4 SINGLE WAVELENGTH M x-ray 1 1.0000 1.0 14-BM-C APS 1.0000 SYNCHROTRON APS BEAMLINE 14-BM-C MOUSE OSTEOPONTIN (SPP) RESPONSE ELEMENT 5516.579 5'-D(*CP*AP*CP*GP*GP*TP*TP*CP*AP*CP*GP*AP*GP*GP*TP*TP*CP*A)-3' 1 syn polymer MOUSE OSTEOPONTIN (SPP) RESPONSE ELEMENT 5516.579 5'-D(*TP*GP*AP*AP*CP*CP*TP*CP*GP*TP*GP*AP*AP*CP*CP*GP*TP*G)-3' 1 syn polymer 12953.305 Vitamin D3 Receptor DNA-binding Domain (Residues 16-125) 2 man polymer 65.409 ZINC ION 4 syn non-polymer 18.015 water 35 nat water VDR, 1,25-dihydroxyvitamin D3 receptor no no (DC)(DA)(DC)(DG)(DG)(DT)(DT)(DC)(DA)(DC)(DG)(DA)(DG)(DG)(DT)(DT)(DC)(DA) CACGGTTCACGAGGTTCA C polydeoxyribonucleotide no no (DT)(DG)(DA)(DA)(DC)(DC)(DT)(DC)(DG)(DT)(DG)(DA)(DA)(DC)(DC)(DG)(DT)(DG) TGAACCTCGTGAACCGTG D polydeoxyribonucleotide no no FDRNVPRICGVCGDRATGFHFNAMTCEGCKGFFRRSMKRKALFTCPFNGDCRITKDNRRHCQACRLKRCVDIGMMKEFIL TDEEVQRKREMILKRKEEEALKDSLRPKLS FDRNVPRICGVCGDRATGFHFNAMTCEGCKGFFRRSMKRKALFTCPFNGDCRITKDNRRHCQACRLKRCVDIGMMKEFIL TDEEVQRKREMILKRKEEEALKDSLRPKLS A,B polypeptide(L) n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n human Homo Escherichia Escherichia coli sample VDR 9606 Homo sapiens 469008 Escherichia coli BL21(DE3) BL21(DE3) plasmid PET11A-VDR-N1-RPLKS 1 3.12 60.58 VAPOR DIFFUSION, HANGING DROP 5.6 PEG 8000, magnesium chloride, MES, glycerol, DTT, pH 5.6, VAPOR DIFFUSION, HANGING DROP, temperature 291K 291 PEG 8000 1 MgCl2 1 MES 1 glycerol 1 DTT 1 3.947 1 19 C 401 D 436 -3.965 C_DC401:DG436_D 1 -17.453 0.088 -0.295 -0.099 -3.821 1 20 C 402 D 435 -2.053 C_DA402:DT435_D 2 -9.341 0.237 0.398 -0.189 7.809 1 19 C 403 D 434 -3.456 C_DC403:DG434_D 3 0.129 0.247 -0.103 -0.270 -11.634 1 19 C 404 D 433 -4.047 C_DG404:DC433_D 4 -12.771 -0.122 0.037 0.044 -14.359 1 19 C 405 D 432 4.983 C_DG405:DC432_D 5 -11.945 -0.436 -0.057 0.002 -1.241 1 20 C 406 D 431 3.948 C_DT406:DA431_D 6 -16.223 -0.253 -0.529 -0.204 -8.195 1 20 C 407 D 430 4.161 C_DT407:DA430_D 7 -11.707 0.267 -0.054 0.002 -9.070 1 19 C 408 D 429 -5.306 C_DC408:DG429_D 8 -1.526 -0.366 0.071 -0.139 8.059 1 20 C 409 D 428 1.901 C_DA409:DT428_D 9 -13.855 -0.005 0.304 -0.043 5.313 1 19 C 410 D 427 0.949 C_DC410:DG427_D 10 -12.520 0.415 0.356 -0.085 -12.874 1 19 C 411 D 426 2.915 C_DG411:DC426_D 11 -9.922 -0.079 -0.146 0.000 -0.788 1 20 C 412 D 425 2.775 C_DA412:DT425_D 12 -4.198 0.112 0.101 -0.146 -1.586 1 19 C 413 D 424 -1.056 C_DG413:DC424_D 13 -8.525 0.120 0.185 0.005 -10.084 1 19 C 414 D 423 -1.782 C_DG414:DC423_D 14 -12.614 -0.221 -0.423 -0.118 -6.925 1 20 C 415 D 422 5.037 C_DT415:DA422_D 15 -11.575 0.251 -0.137 -0.086 -2.936 1 20 C 416 D 421 5.224 C_DT416:DA421_D 16 -12.976 0.271 -0.261 -0.145 -3.763 1 19 C 417 D 420 -5.230 C_DC417:DG420_D 17 -4.942 -0.196 -0.092 -0.226 11.242 1 20 C 418 D 419 -0.749 C_DA418:DT419_D 18 -13.956 0.279 0.253 0.020 3.593 41.044 C C 401 402 9.374 D D 436 435 3.630 6.543 -0.058 0.062 CC_DC401DA402:DT435DG436_DD 1 -2.679 3.838 40.456 -0.704 -0.241 3.241 31.332 C C 402 403 -7.433 D D 435 434 3.248 -3.994 0.571 0.217 CC_DA402DC403:DG434DT435_DD 2 3.826 -7.119 30.852 1.155 -0.336 3.675 38.081 C C 403 404 12.107 D D 434 433 3.726 7.825 -0.483 -0.039 CC_DC403DG404:DC433DG434_DD 3 -5.084 7.866 36.962 -1.201 -0.001 3.128 34.446 C C 404 405 13.889 D D 433 432 3.443 8.143 0.890 -1.220 CC_DG404DG405:DC432DC433_DD 4 2.662 -4.539 33.394 -3.353 -1.080 2.844 31.525 C C 405 406 -1.782 D D 432 431 3.047 -0.964 -1.174 -0.793 CC_DG405DT406:DA431DC432_DD 5 5.126 -9.477 31.101 -1.298 3.026 3.464 38.409 C C 406 407 0.914 D D 431 430 3.459 0.601 -0.244 -0.192 CC_DT406DT407:DA430DA431_DD 6 -3.098 4.714 38.284 -0.371 -0.038 3.556 32.066 C C 407 408 11.927 D D 430 429 3.443 6.535 0.880 0.587 CC_DT407DC408:DG429DA430_DD 7 2.988 -5.453 31.271 -0.211 -1.011 3.039 36.244 C C 408 409 4.292 D D 429 428 2.960 2.666 -0.301 1.018 CC_DC408DA409:DT428DG429_DD 8 -2.523 4.062 36.064 1.293 0.159 3.564 34.970 C C 409 410 -4.938 D D 428 427 3.508 -2.962 0.401 -0.603 CC_DA409DC410:DG427DT428_DD 9 2.301 -3.837 34.774 -0.520 -0.291 3.826 43.921 C C 410 411 3.323 D D 427 426 3.801 2.469 0.300 0.787 CC_DC410DG411:DC426DG427_DD 10 8.758 -11.787 43.014 0.776 0.577 3.075 29.201 C C 411 412 16.924 D D 426 425 3.035 8.407 0.052 0.630 CC_DG411DA412:DT425DC426_DD 11 -2.459 4.950 27.883 -0.499 -0.615 3.299 37.550 C C 412 413 3.390 D D 425 424 3.192 2.165 -1.009 -0.509 CC_DA412DG413:DC424DT425_DD 12 -8.124 12.720 36.630 -1.074 0.501 3.446 34.376 C C 413 414 12.501 D D 424 423 3.687 7.318 0.224 -0.782 CC_DG413DG414:DC423DC424_DD 13 4.152 -7.093 33.361 -2.589 0.340 3.339 35.300 C C 414 415 -4.494 D D 423 422 3.287 -2.723 -0.462 -0.746 CC_DG414DT415:DA422DC423_DD 14 -0.419 0.691 35.196 -0.822 0.699 3.255 35.654 C C 415 416 4.457 D D 422 421 3.274 2.726 -0.522 -0.036 CC_DT415DT416:DA421DA422_DD 15 0.506 -0.827 35.549 -0.454 0.926 3.550 34.744 C C 416 417 0.980 D D 421 420 3.473 0.585 0.792 1.062 CC_DT416DC417:DG420DA421_DD 16 3.500 -5.870 34.568 1.682 -0.751 3.209 35.524 C C 417 418 10.607 D D 420 419 3.121 6.433 -0.196 0.742 CC_DC417DA418:DT419DG420_DD 17 -2.573 4.243 34.863 0.297 -0.046 chem_comp_atom chem_comp_bond database_2 pdbx_initial_refinement_model pdbx_struct_conn_angle struct_conn struct_site repository Initial release Version format compliance Version format compliance Data collection Database references Derived calculations Refinement description 1 0 2002-05-03 1 1 2008-04-27 1 2 2011-07-13 1 3 2023-08-16 _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.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.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_site.pdbx_auth_asym_id _struct_site.pdbx_auth_comp_id _struct_site.pdbx_auth_seq_id Crystal Structure of VDR DNA-binding Domain Bound to a Canonical Direct Repeat with Three Base Pair Spacer (DR3) Response Element Crystal Structure of VDR DNA-binding Domain Bound to Rat Osteocalcin (OC) Response Element RCSB Y RCSB 2001-11-05 REL REL ZN ZINC ION HOH water 1KB4 PDB ENTRY 1KB4 PDB experimental model ZN 150 4 ZN ZN 150 A ZN 151 4 ZN ZN 151 A ZN 350 4 ZN ZN 350 B ZN 351 4 ZN ZN 351 B WAT 608 5 HOH HOH 608 C WAT 610 5 HOH HOH 610 C WAT 611 5 HOH HOH 611 C WAT 619 5 HOH HOH 619 C WAT 623 5 HOH HOH 623 C WAT 609 5 HOH HOH 609 D WAT 614 5 HOH HOH 614 D WAT 618 5 HOH HOH 618 D WAT 626 5 HOH HOH 626 D WAT 627 5 HOH HOH 627 D WAT 601 5 HOH HOH 601 A WAT 603 5 HOH HOH 603 A WAT 604 5 HOH HOH 604 A WAT 605 5 HOH HOH 605 A WAT 606 5 HOH HOH 606 A WAT 607 5 HOH HOH 607 A WAT 617 5 HOH HOH 617 A WAT 621 5 HOH HOH 621 A WAT 622 5 HOH HOH 622 A WAT 624 5 HOH HOH 624 A WAT 625 5 HOH HOH 625 A WAT 628 5 HOH HOH 628 A WAT 629 5 HOH HOH 629 A WAT 630 5 HOH HOH 630 A WAT 631 5 HOH HOH 631 A WAT 633 5 HOH HOH 633 A WAT 634 5 HOH HOH 634 A WAT 602 5 HOH HOH 602 B WAT 612 5 HOH HOH 612 B WAT 613 5 HOH HOH 613 B WAT 615 5 HOH HOH 615 B WAT 616 5 HOH HOH 616 B WAT 620 5 HOH HOH 620 B WAT 632 5 HOH HOH 632 B WAT 635 5 HOH HOH 635 B C 401 n 1 DC 401 C A 402 n 2 DA 402 C C 403 n 3 DC 403 C G 404 n 4 DG 404 C G 405 n 5 DG 405 C T 406 n 6 DT 406 C T 407 n 7 DT 407 C C 408 n 8 DC 408 C A 409 n 9 DA 409 C C 410 n 10 DC 410 C G 411 n 11 DG 411 C A 412 n 12 DA 412 C G 413 n 13 DG 413 C G 414 n 14 DG 414 C T 415 n 15 DT 415 C T 416 n 16 DT 416 C C 417 n 17 DC 417 C A 418 n 18 DA 418 C T 419 n 1 DT 419 D G 420 n 2 DG 420 D A 421 n 3 DA 421 D A 422 n 4 DA 422 D C 423 n 5 DC 423 D C 424 n 6 DC 424 D T 425 n 7 DT 425 D C 426 n 8 DC 426 D G 427 n 9 DG 427 D T 428 n 10 DT 428 D G 429 n 11 DG 429 D A 430 n 12 DA 430 D A 431 n 13 DA 431 D C 432 n 14 DC 432 D C 433 n 15 DC 433 D G 434 n 16 DG 434 D T 435 n 17 DT 435 D G 436 n 18 DG 436 D n 1 16 A n 2 17 A n 3 18 A n 4 19 A n 5 20 A n 6 21 A ARG 22 n 7 ARG 22 A ILE 23 n 8 ILE 23 A CYS 24 n 9 CYS 24 A GLY 25 n 10 GLY 25 A VAL 26 n 11 VAL 26 A CYS 27 n 12 CYS 27 A GLY 28 n 13 GLY 28 A ASP 29 n 14 ASP 29 A ARG 30 n 15 ARG 30 A ALA 31 n 16 ALA 31 A THR 32 n 17 THR 32 A GLY 33 n 18 GLY 33 A PHE 34 n 19 PHE 34 A HIS 35 n 20 HIS 35 A PHE 36 n 21 PHE 36 A ASN 37 n 22 ASN 37 A ALA 38 n 23 ALA 38 A MET 39 n 24 MET 39 A THR 40 n 25 THR 40 A CYS 41 n 26 CYS 41 A GLU 42 n 27 GLU 42 A GLY 43 n 28 GLY 43 A CYS 44 n 29 CYS 44 A LYS 45 n 30 LYS 45 A GLY 46 n 31 GLY 46 A PHE 47 n 32 PHE 47 A PHE 48 n 33 PHE 48 A ARG 49 n 34 ARG 49 A ARG 50 n 35 ARG 50 A SER 51 n 36 SER 51 A MET 52 n 37 MET 52 A LYS 53 n 38 LYS 53 A ARG 54 n 39 ARG 54 A LYS 55 n 40 LYS 55 A ALA 56 n 41 ALA 56 A LEU 57 n 42 LEU 57 A PHE 58 n 43 PHE 58 A THR 59 n 44 THR 59 A CYS 60 n 45 CYS 60 A PRO 61 n 46 PRO 61 A PHE 62 n 47 PHE 62 A ASN 63 n 48 ASN 63 A GLY 64 n 49 GLY 64 A ASP 65 n 50 ASP 65 A CYS 66 n 51 CYS 66 A ARG 67 n 52 ARG 67 A ILE 68 n 53 ILE 68 A THR 69 n 54 THR 69 A LYS 70 n 55 LYS 70 A ASP 71 n 56 ASP 71 A ASN 72 n 57 ASN 72 A ARG 73 n 58 ARG 73 A ARG 74 n 59 ARG 74 A HIS 75 n 60 HIS 75 A CYS 76 n 61 CYS 76 A GLN 77 n 62 GLN 77 A ALA 78 n 63 ALA 78 A CYS 79 n 64 CYS 79 A ARG 80 n 65 ARG 80 A LEU 81 n 66 LEU 81 A LYS 82 n 67 LYS 82 A ARG 83 n 68 ARG 83 A CYS 84 n 69 CYS 84 A VAL 85 n 70 VAL 85 A ASP 86 n 71 ASP 86 A ILE 87 n 72 ILE 87 A GLY 88 n 73 GLY 88 A MET 89 n 74 MET 89 A MET 90 n 75 MET 90 A LYS 91 n 76 LYS 91 A GLU 92 n 77 GLU 92 A PHE 93 n 78 PHE 93 A ILE 94 n 79 ILE 94 A LEU 95 n 80 LEU 95 A THR 96 n 81 THR 96 A ASP 97 n 82 ASP 97 A GLU 98 n 83 GLU 98 A GLU 99 n 84 GLU 99 A VAL 100 n 85 VAL 100 A GLN 101 n 86 GLN 101 A ARG 102 n 87 ARG 102 A LYS 103 n 88 LYS 103 A ARG 104 n 89 ARG 104 A GLU 105 n 90 GLU 105 A MET 106 n 91 MET 106 A ILE 107 n 92 ILE 107 A LEU 108 n 93 LEU 108 A LYS 109 n 94 LYS 109 A ARG 110 n 95 ARG 110 A n 96 111 A n 97 112 A n 98 113 A n 99 114 A n 100 115 A n 101 116 A n 102 117 A n 103 118 A n 104 119 A n 105 120 A n 106 121 A n 107 122 A n 108 123 A n 109 124 A n 110 125 A n 1 216 B n 2 217 B n 3 218 B n 4 219 B n 5 220 B n 6 221 B ARG 222 n 7 ARG 222 B ILE 223 n 8 ILE 223 B CYS 224 n 9 CYS 224 B GLY 225 n 10 GLY 225 B VAL 226 n 11 VAL 226 B CYS 227 n 12 CYS 227 B GLY 228 n 13 GLY 228 B ASP 229 n 14 ASP 229 B ARG 230 n 15 ARG 230 B ALA 231 n 16 ALA 231 B THR 232 n 17 THR 232 B GLY 233 n 18 GLY 233 B PHE 234 n 19 PHE 234 B HIS 235 n 20 HIS 235 B PHE 236 n 21 PHE 236 B ASN 237 n 22 ASN 237 B ALA 238 n 23 ALA 238 B MET 239 n 24 MET 239 B THR 240 n 25 THR 240 B CYS 241 n 26 CYS 241 B GLU 242 n 27 GLU 242 B GLY 243 n 28 GLY 243 B CYS 244 n 29 CYS 244 B LYS 245 n 30 LYS 245 B GLY 246 n 31 GLY 246 B PHE 247 n 32 PHE 247 B PHE 248 n 33 PHE 248 B ARG 249 n 34 ARG 249 B ARG 250 n 35 ARG 250 B SER 251 n 36 SER 251 B MET 252 n 37 MET 252 B LYS 253 n 38 LYS 253 B ARG 254 n 39 ARG 254 B LYS 255 n 40 LYS 255 B ALA 256 n 41 ALA 256 B LEU 257 n 42 LEU 257 B PHE 258 n 43 PHE 258 B THR 259 n 44 THR 259 B CYS 260 n 45 CYS 260 B PRO 261 n 46 PRO 261 B PHE 262 n 47 PHE 262 B ASN 263 n 48 ASN 263 B GLY 264 n 49 GLY 264 B ASP 265 n 50 ASP 265 B CYS 266 n 51 CYS 266 B ARG 267 n 52 ARG 267 B ILE 268 n 53 ILE 268 B THR 269 n 54 THR 269 B LYS 270 n 55 LYS 270 B ASP 271 n 56 ASP 271 B ASN 272 n 57 ASN 272 B ARG 273 n 58 ARG 273 B ARG 274 n 59 ARG 274 B HIS 275 n 60 HIS 275 B CYS 276 n 61 CYS 276 B GLN 277 n 62 GLN 277 B ALA 278 n 63 ALA 278 B CYS 279 n 64 CYS 279 B ARG 280 n 65 ARG 280 B LEU 281 n 66 LEU 281 B LYS 282 n 67 LYS 282 B ARG 283 n 68 ARG 283 B CYS 284 n 69 CYS 284 B VAL 285 n 70 VAL 285 B ASP 286 n 71 ASP 286 B ILE 287 n 72 ILE 287 B GLY 288 n 73 GLY 288 B MET 289 n 74 MET 289 B MET 290 n 75 MET 290 B LYS 291 n 76 LYS 291 B GLU 292 n 77 GLU 292 B PHE 293 n 78 PHE 293 B ILE 294 n 79 ILE 294 B LEU 295 n 80 LEU 295 B THR 296 n 81 THR 296 B ASP 297 n 82 ASP 297 B GLU 298 n 83 GLU 298 B GLU 299 n 84 GLU 299 B VAL 300 n 85 VAL 300 B GLN 301 n 86 GLN 301 B ARG 302 n 87 ARG 302 B LYS 303 n 88 LYS 303 B ARG 304 n 89 ARG 304 B GLU 305 n 90 GLU 305 B MET 306 n 91 MET 306 B n 92 307 B n 93 308 B n 94 309 B n 95 310 B n 96 311 B n 97 312 B n 98 313 B n 99 314 B n 100 315 B n 101 316 B n 102 317 B n 103 318 B n 104 319 B n 105 320 B n 106 321 B n 107 322 B n 108 323 B n 109 324 B n 110 325 B author_defined_assembly 4 tetrameric A CYS 24 C SG CYS 9 1_555 A ZN 150 E ZN ZN 1_555 A CYS 27 C SG CYS 12 1_555 109.7 A CYS 24 C SG CYS 9 1_555 A ZN 150 E ZN ZN 1_555 A CYS 41 C SG CYS 26 1_555 109.1 A CYS 27 C SG CYS 12 1_555 A ZN 150 E ZN ZN 1_555 A CYS 41 C SG CYS 26 1_555 101.6 A CYS 24 C SG CYS 9 1_555 A ZN 150 E ZN ZN 1_555 A CYS 44 C SG CYS 29 1_555 117.9 A CYS 27 C SG CYS 12 1_555 A ZN 150 E ZN ZN 1_555 A CYS 44 C SG CYS 29 1_555 114.9 A CYS 41 C SG CYS 26 1_555 A ZN 150 E ZN ZN 1_555 A CYS 44 C SG CYS 29 1_555 101.9 A CYS 60 C SG CYS 45 1_555 A ZN 151 F ZN ZN 1_555 A CYS 66 C SG CYS 51 1_555 107.7 A CYS 60 C SG CYS 45 1_555 A ZN 151 F ZN ZN 1_555 A CYS 76 C SG CYS 61 1_555 105.6 A CYS 66 C SG CYS 51 1_555 A ZN 151 F ZN ZN 1_555 A CYS 76 C SG CYS 61 1_555 116.3 A CYS 60 C SG CYS 45 1_555 A ZN 151 F ZN ZN 1_555 A CYS 79 C SG CYS 64 1_555 109.8 A CYS 66 C SG CYS 51 1_555 A ZN 151 F ZN ZN 1_555 A CYS 79 C SG CYS 64 1_555 107.7 A CYS 76 C SG CYS 61 1_555 A ZN 151 F ZN ZN 1_555 A CYS 79 C SG CYS 64 1_555 109.7 B CYS 224 D SG CYS 9 1_555 B ZN 350 G ZN ZN 1_555 B CYS 227 D SG CYS 12 1_555 108.0 B CYS 224 D SG CYS 9 1_555 B ZN 350 G ZN ZN 1_555 B CYS 241 D SG CYS 26 1_555 115.3 B CYS 227 D SG CYS 12 1_555 B ZN 350 G ZN ZN 1_555 B CYS 241 D SG CYS 26 1_555 101.5 B CYS 224 D SG CYS 9 1_555 B ZN 350 G ZN ZN 1_555 B CYS 244 D SG CYS 29 1_555 119.9 B CYS 227 D SG CYS 12 1_555 B ZN 350 G ZN ZN 1_555 B CYS 244 D SG CYS 29 1_555 111.9 B CYS 241 D SG CYS 26 1_555 B ZN 350 G ZN ZN 1_555 B CYS 244 D SG CYS 29 1_555 98.7 B CYS 260 D SG CYS 45 1_555 B ZN 351 H ZN ZN 1_555 B CYS 266 D SG CYS 51 1_555 125.1 B CYS 260 D SG CYS 45 1_555 B ZN 351 H ZN ZN 1_555 B CYS 276 D SG CYS 61 1_555 107.1 B CYS 266 D SG CYS 51 1_555 B ZN 351 H ZN ZN 1_555 B CYS 276 D SG CYS 61 1_555 95.9 B CYS 260 D SG CYS 45 1_555 B ZN 351 H ZN ZN 1_555 B CYS 279 D SG CYS 64 1_555 123.2 B CYS 266 D SG CYS 51 1_555 B ZN 351 H ZN ZN 1_555 B CYS 279 D SG CYS 64 1_555 97.2 B CYS 276 D SG CYS 61 1_555 B ZN 351 H ZN ZN 1_555 B CYS 279 D SG CYS 64 1_555 103.6 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 HIS 35 C N HIS 20 A O ALA 38 C O ALA 23 B N HIS 235 D N HIS 20 B O ALA 238 D O ALA 23 1 A CG ARG 102 C CG ARG 87 1 Y 1 A CD ARG 102 C CD ARG 87 1 Y 1 A NE ARG 102 C NE ARG 87 1 Y 1 A CZ ARG 102 C CZ ARG 87 1 Y 1 A NH1 ARG 102 C NH1 ARG 87 1 Y 1 A NH2 ARG 102 C NH2 ARG 87 1 Y 1 A CG1 ILE 107 C CG1 ILE 92 1 Y 1 A CG2 ILE 107 C CG2 ILE 92 1 Y 1 A CD1 ILE 107 C CD1 ILE 92 1 Y 1 A CG LEU 108 C CG LEU 93 1 Y 1 A CD1 LEU 108 C CD1 LEU 93 1 Y 1 A CD2 LEU 108 C CD2 LEU 93 1 Y 1 A CG ARG 110 C CG ARG 95 1 Y 1 A CD ARG 110 C CD ARG 95 1 Y 1 A NE ARG 110 C NE ARG 95 1 Y 1 A CZ ARG 110 C CZ ARG 95 1 Y 1 A NH1 ARG 110 C NH1 ARG 95 1 Y 1 A NH2 ARG 110 C NH2 ARG 95 1 Y 1 B CG ARG 267 D CG ARG 52 1 Y 1 B CD ARG 267 D CD ARG 52 1 Y 1 B NE ARG 267 D NE ARG 52 1 Y 1 B CZ ARG 267 D CZ ARG 52 1 Y 1 B NH1 ARG 267 D NH1 ARG 52 1 Y 1 B NH2 ARG 267 D NH2 ARG 52 1 Y 1 B CG GLU 298 D CG GLU 83 1 Y 1 B CD GLU 298 D CD GLU 83 1 Y 1 B OE1 GLU 298 D OE1 GLU 83 1 Y 1 B OE2 GLU 298 D OE2 GLU 83 1 Y 1 B CG ARG 302 D CG ARG 87 1 Y 1 B CD ARG 302 D CD ARG 87 1 Y 1 B NE ARG 302 D NE ARG 87 1 Y 1 B CZ ARG 302 D CZ ARG 87 1 Y 1 B NH1 ARG 302 D NH1 ARG 87 1 Y 1 B NH2 ARG 302 D NH2 ARG 87 1 Y 1 B CG ARG 304 D CG ARG 89 1 Y 1 B CD ARG 304 D CD ARG 89 1 Y 1 B NE ARG 304 D NE ARG 89 1 Y 1 B CZ ARG 304 D CZ ARG 89 1 Y 1 B NH1 ARG 304 D NH1 ARG 89 1 Y 1 B NH2 ARG 304 D NH2 ARG 89 1 Y 1 B CG GLU 305 D CG GLU 90 1 Y 1 B CD GLU 305 D CD GLU 90 1 Y 1 B OE1 GLU 305 D OE1 GLU 90 1 Y 1 B OE2 GLU 305 D OE2 GLU 90 1 Y 1 A PHE 16 C PHE 1 1 Y 1 A ASP 17 C ASP 2 1 Y 1 A ARG 18 C ARG 3 1 Y 1 A ASN 19 C ASN 4 1 Y 1 A VAL 20 C VAL 5 1 Y 1 A PRO 21 C PRO 6 1 Y 1 A LYS 111 C LYS 96 1 Y 1 A GLU 112 C GLU 97 1 Y 1 A GLU 113 C GLU 98 1 Y 1 A GLU 114 C GLU 99 1 Y 1 A ALA 115 C ALA 100 1 Y 1 A LEU 116 C LEU 101 1 Y 1 A LYS 117 C LYS 102 1 Y 1 A ASP 118 C ASP 103 1 Y 1 A SER 119 C SER 104 1 Y 1 A LEU 120 C LEU 105 1 Y 1 A ARG 121 C ARG 106 1 Y 1 A PRO 122 C PRO 107 1 Y 1 A LYS 123 C LYS 108 1 Y 1 A LEU 124 C LEU 109 1 Y 1 A SER 125 C SER 110 1 Y 1 B PHE 216 D PHE 1 1 Y 1 B ASP 217 D ASP 2 1 Y 1 B ARG 218 D ARG 3 1 Y 1 B ASN 219 D ASN 4 1 Y 1 B VAL 220 D VAL 5 1 Y 1 B PRO 221 D PRO 6 1 Y 1 B ILE 307 D ILE 92 1 Y 1 B LEU 308 D LEU 93 1 Y 1 B LYS 309 D LYS 94 1 Y 1 B ARG 310 D ARG 95 1 Y 1 B LYS 311 D LYS 96 1 Y 1 B GLU 312 D GLU 97 1 Y 1 B GLU 313 D GLU 98 1 Y 1 B GLU 314 D GLU 99 1 Y 1 B ALA 315 D ALA 100 1 Y 1 B LEU 316 D LEU 101 1 Y 1 B LYS 317 D LYS 102 1 Y 1 B ASP 318 D ASP 103 1 Y 1 B SER 319 D SER 104 1 Y 1 B LEU 320 D LEU 105 1 Y 1 B ARG 321 D ARG 106 1 Y 1 B PRO 322 D PRO 107 1 Y 1 B LYS 323 D LYS 108 1 Y 1 B LEU 324 D LEU 109 1 Y 1 B SER 325 D SER 110 1 Y 1 A A NE O ARG HOH 50 633 2.07 1 B B O N ASN ARG 272 274 2.07 1 C DG 404 0.061 SIDE CHAIN 1 C DG 405 0.055 SIDE CHAIN 1 C DG 413 0.075 SIDE CHAIN 1 C DG 414 0.066 SIDE CHAIN 1 D DC 432 0.063 SIDE CHAIN 1 -5.05 0.80 102.40 97.35 C C C C3' C2' C1' DC DC DC 408 408 408 N 1 C C O3' C3' DG DG 404 404 -0.043 0.006 1.419 1.376 N 1 B B CB SG CYS CYS 260 260 -0.100 0.016 1.812 1.712 N 1 A ASN 37 84.11 24.94 1 A PHE 62 -113.44 -108.72 1 A LEU 108 -92.33 41.43 1 A LYS 109 -154.05 16.56 1 B ASP 229 -59.89 174.01 1 B LYS 255 61.39 -11.97 1 B ALA 256 -18.90 118.01 1 B PHE 262 -119.36 -124.60 1 B ASP 265 -165.01 56.01 1 B ARG 273 26.01 -52.07 1 B GLN 301 -91.24 -69.37 1 B ARG 304 -55.77 -7.14 1 B GLU 305 -70.45 -82.57 PROTEIN_REP.PARAM PROTEIN.TOP DNA-RNA_REP.PARAM DNA-RNA.TOP WATER_REP.PARAM WATER.TOP ION.PARAM ION.TOP PARAM_ZN 72.3 16.66 0.00 0.00 16.66 0.00 -33.33 0.2890000 0.008 0.2260000 2.70 50 1277 12490 12490 10.2 90.2 RANDOM 511147.29 0.000000 1 RESTRAINED THROUGHOUT 0.0 MOLECULAR REPLACEMENT PDB ENTRY 1KB4 MAXIMUM LIKELIHOOD FUNCTION FLAT MODEL 34.0135 0.29281 0.52 0.41 5.00 0.72 0.61 2.70 50 35 2135 4 732 1364 0.015 1.7 21.2 1.39 1.08 1.50 1.91 2.00 1.42 2.00 2.27 2.50 0.4670000 0.044 0.4200000 2.80 113 969 10 10.4 81.4 60.4 2.7 50 1KB2 13744 -3 0.0810000 1 22.9 5.9 98.2 0.7600000 2.7 2.8 2.3 1342 99.9 refinement CNS data reduction HKL-2000 data scaling HKL-2000 phasing CNS Crystal Structure of VDR DNA-binding Domain Bound to Mouse Osteopontin (SPP) Response Element 1 N N 2 N N 3 N N 3 N N 4 N N 4 N N 4 N N 4 N N 5 N N 5 N N 5 N N 5 N N A CYS 41 C CYS 26 HELX_P A ARG 54 C ARG 39 1 1 14 A CYS 76 C CYS 61 HELX_P A ILE 87 C ILE 72 1 2 12 A MET 90 C MET 75 HELX_P A ILE 94 C ILE 79 5 3 5 A THR 96 C THR 81 HELX_P A LEU 108 C LEU 93 1 4 13 B CYS 241 D CYS 26 HELX_P B LYS 253 D LYS 38 1 5 13 B ASP 271 D ASP 56 HELX_P B HIS 275 D HIS 60 5 6 5 B CYS 276 D CYS 61 HELX_P B ILE 287 D ILE 72 1 7 12 B MET 290 D MET 75 HELX_P B ILE 294 D ILE 79 5 8 5 B THR 296 D THR 81 HELX_P B GLU 305 D GLU 90 1 9 10 metalc 2.253 A CYS 24 C SG CYS 9 1_555 A ZN 150 E ZN ZN 1_555 metalc 2.327 A CYS 27 C SG CYS 12 1_555 A ZN 150 E ZN ZN 1_555 metalc 2.411 A CYS 41 C SG CYS 26 1_555 A ZN 150 E ZN ZN 1_555 metalc 2.409 A CYS 44 C SG CYS 29 1_555 A ZN 150 E ZN ZN 1_555 metalc 2.235 A CYS 60 C SG CYS 45 1_555 A ZN 151 F ZN ZN 1_555 metalc 2.162 A CYS 66 C SG CYS 51 1_555 A ZN 151 F ZN ZN 1_555 metalc 2.178 A CYS 76 C SG CYS 61 1_555 A ZN 151 F ZN ZN 1_555 metalc 2.280 A CYS 79 C SG CYS 64 1_555 A ZN 151 F ZN ZN 1_555 metalc 2.328 B CYS 224 D SG CYS 9 1_555 B ZN 350 G ZN ZN 1_555 metalc 2.379 B CYS 227 D SG CYS 12 1_555 B ZN 350 G ZN ZN 1_555 metalc 2.512 B CYS 241 D SG CYS 26 1_555 B ZN 350 G ZN ZN 1_555 metalc 2.268 B CYS 244 D SG CYS 29 1_555 B ZN 350 G ZN ZN 1_555 metalc 2.273 B CYS 260 D SG CYS 45 1_555 B ZN 351 H ZN ZN 1_555 metalc 2.347 B CYS 266 D SG CYS 51 1_555 B ZN 351 H ZN ZN 1_555 metalc 2.461 B CYS 276 D SG CYS 61 1_555 B ZN 351 H ZN ZN 1_555 metalc 2.444 B CYS 279 D SG CYS 64 1_555 B ZN 351 H ZN ZN 1_555 hydrog WATSON-CRICK C DC 401 A N3 DC 1 1_555 D DG 436 B N1 DG 18 1_555 hydrog WATSON-CRICK C DC 401 A N4 DC 1 1_555 D DG 436 B O6 DG 18 1_555 hydrog WATSON-CRICK C DC 401 A O2 DC 1 1_555 D DG 436 B N2 DG 18 1_555 hydrog WATSON-CRICK C DA 402 A N1 DA 2 1_555 D DT 435 B N3 DT 17 1_555 hydrog WATSON-CRICK C DA 402 A N6 DA 2 1_555 D DT 435 B O4 DT 17 1_555 hydrog WATSON-CRICK C DC 403 A N3 DC 3 1_555 D DG 434 B N1 DG 16 1_555 hydrog WATSON-CRICK C DC 403 A N4 DC 3 1_555 D DG 434 B O6 DG 16 1_555 hydrog WATSON-CRICK C DC 403 A O2 DC 3 1_555 D DG 434 B N2 DG 16 1_555 hydrog WATSON-CRICK C DG 404 A N1 DG 4 1_555 D DC 433 B N3 DC 15 1_555 hydrog WATSON-CRICK C DG 404 A N2 DG 4 1_555 D DC 433 B O2 DC 15 1_555 hydrog WATSON-CRICK C DG 404 A O6 DG 4 1_555 D DC 433 B N4 DC 15 1_555 hydrog WATSON-CRICK C DG 405 A N1 DG 5 1_555 D DC 432 B N3 DC 14 1_555 hydrog WATSON-CRICK C DG 405 A N2 DG 5 1_555 D DC 432 B O2 DC 14 1_555 hydrog WATSON-CRICK C DG 405 A O6 DG 5 1_555 D DC 432 B N4 DC 14 1_555 hydrog WATSON-CRICK C DT 406 A N3 DT 6 1_555 D DA 431 B N1 DA 13 1_555 hydrog WATSON-CRICK C DT 406 A O4 DT 6 1_555 D DA 431 B N6 DA 13 1_555 hydrog WATSON-CRICK C DT 407 A N3 DT 7 1_555 D DA 430 B N1 DA 12 1_555 hydrog WATSON-CRICK C DT 407 A O4 DT 7 1_555 D DA 430 B N6 DA 12 1_555 hydrog WATSON-CRICK C DC 408 A N3 DC 8 1_555 D DG 429 B N1 DG 11 1_555 hydrog WATSON-CRICK C DC 408 A N4 DC 8 1_555 D DG 429 B O6 DG 11 1_555 hydrog WATSON-CRICK C DC 408 A O2 DC 8 1_555 D DG 429 B N2 DG 11 1_555 hydrog WATSON-CRICK C DA 409 A N1 DA 9 1_555 D DT 428 B N3 DT 10 1_555 hydrog WATSON-CRICK C DA 409 A N6 DA 9 1_555 D DT 428 B O4 DT 10 1_555 hydrog WATSON-CRICK C DC 410 A N3 DC 10 1_555 D DG 427 B N1 DG 9 1_555 hydrog WATSON-CRICK C DC 410 A N4 DC 10 1_555 D DG 427 B O6 DG 9 1_555 hydrog WATSON-CRICK C DC 410 A O2 DC 10 1_555 D DG 427 B N2 DG 9 1_555 hydrog WATSON-CRICK C DG 411 A N1 DG 11 1_555 D DC 426 B N3 DC 8 1_555 hydrog WATSON-CRICK C DG 411 A N2 DG 11 1_555 D DC 426 B O2 DC 8 1_555 hydrog WATSON-CRICK C DG 411 A O6 DG 11 1_555 D DC 426 B N4 DC 8 1_555 hydrog WATSON-CRICK C DA 412 A N1 DA 12 1_555 D DT 425 B N3 DT 7 1_555 hydrog WATSON-CRICK C DA 412 A N6 DA 12 1_555 D DT 425 B O4 DT 7 1_555 hydrog WATSON-CRICK C DG 413 A N1 DG 13 1_555 D DC 424 B N3 DC 6 1_555 hydrog WATSON-CRICK C DG 413 A N2 DG 13 1_555 D DC 424 B O2 DC 6 1_555 hydrog WATSON-CRICK C DG 413 A O6 DG 13 1_555 D DC 424 B N4 DC 6 1_555 hydrog WATSON-CRICK C DG 414 A N1 DG 14 1_555 D DC 423 B N3 DC 5 1_555 hydrog WATSON-CRICK C DG 414 A N2 DG 14 1_555 D DC 423 B O2 DC 5 1_555 hydrog WATSON-CRICK C DG 414 A O6 DG 14 1_555 D DC 423 B N4 DC 5 1_555 hydrog WATSON-CRICK C DT 415 A N3 DT 15 1_555 D DA 422 B N1 DA 4 1_555 hydrog WATSON-CRICK C DT 415 A O4 DT 15 1_555 D DA 422 B N6 DA 4 1_555 hydrog WATSON-CRICK C DT 416 A N3 DT 16 1_555 D DA 421 B N1 DA 3 1_555 hydrog WATSON-CRICK C DT 416 A O4 DT 16 1_555 D DA 421 B N6 DA 3 1_555 hydrog WATSON-CRICK C DC 417 A N3 DC 17 1_555 D DG 420 B N1 DG 2 1_555 hydrog WATSON-CRICK C DC 417 A N4 DC 17 1_555 D DG 420 B O6 DG 2 1_555 hydrog WATSON-CRICK C DC 417 A O2 DC 17 1_555 D DG 420 B N2 DG 2 1_555 hydrog WATSON-CRICK C DA 418 A N1 DA 18 1_555 D DT 419 B N3 DT 1 1_555 hydrog WATSON-CRICK C DA 418 A N6 DA 18 1_555 D DT 419 B O4 DT 1 1_555 TRANSCRIPTION/DNA VDR, NUCLEAR RECEPTOR, PROTEIN-DNA COMPLEX, VITAMIN D, TRANSCRIPTION-DNA COMPLEX VDR_HUMAN UNP 3 16 P11473 FDRNVPRICGVCGDRATGFHFNAMTCEGCKGFFRRSMKRKALFTCPFNGDCRITKDNRRHCQACRLKRCVDIGMMKEFIL TDEEVQRKREMILKRKEEEALKDSLRPKLS 1KB2 PDB 1 1KB2 1KB2 PDB 2 1KB2 16 125 1KB2 16 125 P11473 A 1 1 110 16 125 1KB2 216 325 P11473 B 1 1 110 401 418 1KB2 401 418 1KB2 C 2 1 18 419 436 1KB2 419 436 1KB2 D 3 1 18 2 2 anti-parallel anti-parallel A PHE 34 C PHE 19 A HIS 35 C HIS 20 A ALA 38 C ALA 23 A MET 39 C MET 24 B PHE 234 D PHE 19 B HIS 235 D HIS 20 B ALA 238 D ALA 23 B MET 239 D MET 24 BINDING SITE FOR RESIDUE ZN A 150 A ZN 150 Software 4 BINDING SITE FOR RESIDUE ZN A 151 A ZN 151 Software 4 BINDING SITE FOR RESIDUE ZN B 350 B ZN 350 Software 4 BINDING SITE FOR RESIDUE ZN B 351 B ZN 351 Software 4 A CYS 24 C CYS 9 4 1_555 A CYS 27 C CYS 12 4 1_555 A CYS 41 C CYS 26 4 1_555 A CYS 44 C CYS 29 4 1_555 A CYS 60 C CYS 45 4 1_555 A CYS 66 C CYS 51 4 1_555 A CYS 76 C CYS 61 4 1_555 A CYS 79 C CYS 64 4 1_555 B CYS 224 D CYS 9 4 1_555 B CYS 227 D CYS 12 4 1_555 B CYS 241 D CYS 26 4 1_555 B CYS 244 D CYS 29 4 1_555 B CYS 260 D CYS 45 4 1_555 B CYS 266 D CYS 51 4 1_555 B CYS 276 D CYS 61 4 1_555 B CYS 279 D CYS 64 4 1_555 96 P 43 21 2