0.006516 0.000000 0.001212 -0.000000 0.023017 0.000000 0.000000 -0.000000 0.024036 0.00000 0.00000 0.00000 Anami, Y. Itoh, T. Inaba, Y. Nakabayashi, M. Ikura, T. Ito, N. Yamamoto, K. http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 4 90.00 100.53 90.00 153.477 43.447 42.317 C3 H7 N O2 89.093 y ALANINE L-peptide linking C6 H15 N4 O2 1 175.209 y ARGININE L-peptide linking C4 H8 N2 O3 132.118 y ASPARAGINE L-peptide linking C4 H7 N O4 133.103 y ASPARTIC ACID L-peptide linking C3 H7 N O2 S 121.158 y CYSTEINE L-peptide linking C5 H10 N2 O3 146.144 y GLUTAMINE L-peptide linking C5 H9 N O4 147.129 y GLUTAMIC ACID L-peptide linking C2 H5 N O2 75.067 y GLYCINE peptide linking C6 H10 N3 O2 1 156.162 y HISTIDINE L-peptide linking H2 O 18.015 WATER non-polymer C6 H13 N O2 131.173 y ISOLEUCINE L-peptide linking C6 H13 N O2 131.173 y LEUCINE L-peptide linking C6 H15 N2 O2 1 147.195 y LYSINE L-peptide linking C5 H11 N O2 S 149.211 y METHIONINE L-peptide linking C9 H11 N O2 165.189 y PHENYLALANINE L-peptide linking C5 H9 N O2 115.130 y PROLINE L-peptide linking C3 H7 N O3 105.093 y SERINE L-peptide linking C4 H9 N O3 119.119 y THREONINE L-peptide linking C11 H12 N2 O2 204.225 y TRYPTOPHAN L-peptide linking C9 H11 N O3 181.189 y TYROSINE L-peptide linking C5 H11 N O2 117.146 y VALINE L-peptide linking C30 H50 O3 458.716 (1R,3R)-5-[(2E)-2-[(1R,3aS,7aR)-1-[(2R,3S)-3-(2-hydroxyethyl)nonan-2-yl]-7a-methyl-2,3,3a,5,6,7-hexahydro-1H-inden-4-ylidene]ethylidene]-2-methylidene-cyclohexane-1,3-diol 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 N N 89 S C N 90 N C N 91 N O N 92 N C N 93 N C N 94 N C N 95 N O N 96 N N N 97 N O N 98 N H N 99 N H N 100 N H N 101 N H N 102 N H N 103 N H N 104 N H N 105 N H N 106 N H N 107 N H N 108 N N N 109 S C N 110 N C N 111 N O N 112 N C N 113 N C N 114 N C N 115 N O N 116 N O N 117 N O N 118 N H N 119 N H N 120 N H N 121 N H N 122 N H N 123 N H N 124 N H N 125 N H N 126 N H N 127 N N N 128 N C N 129 N C N 130 N O N 131 N O N 132 N H N 133 N H N 134 N H N 135 N H N 136 N H N 137 N N N 138 S C N 139 N C N 140 N O N 141 N C Y 142 N C Y 143 N N Y 144 N C Y 145 N C Y 146 N N N 147 N O N 148 N H N 149 N H N 150 N H N 151 N H N 152 N H N 153 N H N 154 N H N 155 N H N 156 N H N 157 N H N 158 N O N 159 N H N 160 N H N 161 N N N 162 S C N 163 N C N 164 N O N 165 S C N 166 N C N 167 N C N 168 N C N 169 N O N 170 N H N 171 N H N 172 N H N 173 N H N 174 N H N 175 N H N 176 N H N 177 N H N 178 N H N 179 N H N 180 N H N 181 N H N 182 N H N 183 N N N 184 S C N 185 N C N 186 N O N 187 N C N 188 N C N 189 N C N 190 N C N 191 N O N 192 N H N 193 N H N 194 N H N 195 N H N 196 N H N 197 N H N 198 N H N 199 N H N 200 N H N 201 N H N 202 N H N 203 N H N 204 N H N 205 N N N 206 S C N 207 N C N 208 N O N 209 N C N 210 N C N 211 N C N 212 N C N 213 N N N 214 N O N 215 N H N 216 N H N 217 N H N 218 N H N 219 N H N 220 N H N 221 N H N 222 N H N 223 N H N 224 N H N 225 N H N 226 N H N 227 N H N 228 N H N 229 N H N 230 N N N 231 S C N 232 N C N 233 N O N 234 N C N 235 N C N 236 N S N 237 N C N 238 N O N 239 N H N 240 N H N 241 N H N 242 N H N 243 N H N 244 N H N 245 N H N 246 N H N 247 N H N 248 N H N 249 N H N 250 N N N 251 S C N 252 N C N 253 N O N 254 N C Y 255 N C Y 256 N C Y 257 N C Y 258 N C Y 259 N C Y 260 N C N 261 N O N 262 N H N 263 N H N 264 N H N 265 N H N 266 N H N 267 N H N 268 N H N 269 N H N 270 N H N 271 N H N 272 N H N 273 N N N 274 S C N 275 N C N 276 N O N 277 N C N 278 N C N 279 N C N 280 N O N 281 N H N 282 N H N 283 N H N 284 N H N 285 N H N 286 N H N 287 N H N 288 N H N 289 N H N 290 N N N 291 S C N 292 N C N 293 N O N 294 N C N 295 N O N 296 N O N 297 N H N 298 N H N 299 N H N 300 N H N 301 N H N 302 N H N 303 N H N 304 N N N 305 S C N 306 N C N 307 N O N 308 R C N 309 N O N 310 N C N 311 N O N 312 N H N 313 N H N 314 N H N 315 N H N 316 N H N 317 N H N 318 N H N 319 N H N 320 N H N 321 N N N 322 S C N 323 N C N 324 N O N 325 N C Y 326 N C Y 327 N C Y 328 N C Y 329 N N Y 330 N C Y 331 N C Y 332 N C Y 333 N C Y 334 N C N 335 N O N 336 N H N 337 N H N 338 N H N 339 N H N 340 N H N 341 N H N 342 N H N 343 N H N 344 N H N 345 N H N 346 N H N 347 N H N 348 N N N 349 S C N 350 N C N 351 N O N 352 N C Y 353 N C Y 354 N C Y 355 N C Y 356 N C Y 357 N C Y 358 N C N 359 N O N 360 N O N 361 N H N 362 N H N 363 N H N 364 N H N 365 N H N 366 N H N 367 N H N 368 N H N 369 N H N 370 N H N 371 N H N 372 N N N 373 S C N 374 N C N 375 N O N 376 N C N 377 N C N 378 N C N 379 N O N 380 N H N 381 N H N 382 N H N 383 N H N 384 N H N 385 N H N 386 N H N 387 N H N 388 N H N 389 N H N 390 N H N 391 N O N 392 N C N 393 N C N 394 S C N 395 N C N 396 N C N 397 N C N 398 N C N 399 N C N 400 N C N 401 R C N 402 N C N 403 R C N 404 R C N 405 N C N 406 N C N 407 N C N 408 N C N 409 N C N 410 S C N 411 N C N 412 N C N 413 N C N 414 N C N 415 N C N 416 N C N 417 R C N 418 N O N 419 N C N 420 N C N 421 R C N 422 N O N 423 N C 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 H N 434 N H N 435 N H N 436 N H N 437 N H N 438 N H N 439 N H 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 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 H 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 H 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 1 N sing N 2 N sing N 3 N sing N 4 N sing N 5 N sing N 6 N sing N 7 N doub N 8 N sing N 9 N sing N 10 N sing N 11 N sing N 12 N sing N 13 N sing N 14 N sing N 15 N sing N 16 N sing N 17 N sing N 18 N sing N 19 N doub N 20 N sing N 21 N sing N 22 N sing N 23 N sing N 24 N sing N 25 N sing N 26 N sing N 27 N sing N 28 N sing N 29 N sing N 30 N sing N 31 N sing N 32 N sing N 33 N doub N 34 N sing N 35 N sing N 36 N sing N 37 N sing N 38 N sing N 39 N sing N 40 N sing N 41 N sing N 42 N sing N 43 N sing N 44 N sing N 45 N doub N 46 N sing N 47 N sing N 48 N sing N 49 N sing N 50 N doub N 51 N sing N 52 N sing N 53 N sing N 54 N sing N 55 N sing N 56 N sing N 57 N sing N 58 N sing N 59 N sing N 60 N sing N 61 N doub N 62 N sing N 63 N sing N 64 N sing N 65 N sing N 66 N doub N 67 N sing N 68 N sing N 69 N sing N 70 N sing N 71 N sing N 72 N sing N 73 N sing N 74 N sing N 75 N sing N 76 N doub N 77 N sing N 78 N sing N 79 N sing N 80 N sing N 81 N sing N 82 N sing N 83 N sing N 84 N sing N 85 N sing N 86 N sing N 87 N sing N 88 N sing N 89 N doub N 90 N sing N 91 N sing N 92 N sing N 93 N sing N 94 N sing N 95 N sing N 96 N sing N 97 N doub N 98 N sing N 99 N sing N 100 N sing N 101 N sing N 102 N sing N 103 N sing N 104 N sing N 105 N sing N 106 N sing N 107 N sing N 108 N doub N 109 N sing N 110 N sing N 111 N sing N 112 N sing N 113 N sing N 114 N sing N 115 N sing N 116 N doub N 117 N sing N 118 N sing N 119 N sing N 120 N sing N 121 N sing N 122 N sing N 123 N sing N 124 N sing N 125 N sing N 126 N doub N 127 N sing N 128 N sing N 129 N sing N 130 N sing N 131 N sing N 132 N sing N 133 N sing N 134 N sing N 135 N doub N 136 N sing N 137 N sing N 138 N sing N 139 N sing Y 140 N sing Y 141 N doub Y 142 N doub N 143 N sing Y 144 N sing N 145 N sing Y 146 N sing N 147 N sing N 148 N sing N 149 N sing N 150 N sing N 151 N sing N 152 N sing N 153 N sing N 154 N sing N 155 N sing N 156 N sing N 157 N sing N 158 N doub N 159 N sing N 160 N sing N 161 N sing N 162 N sing N 163 N sing N 164 N sing N 165 N sing N 166 N sing N 167 N sing N 168 N sing N 169 N sing N 170 N sing N 171 N sing N 172 N sing N 173 N sing N 174 N sing N 175 N sing N 176 N sing N 177 N sing N 178 N sing N 179 N doub N 180 N sing N 181 N sing N 182 N sing N 183 N sing N 184 N sing N 185 N sing N 186 N sing N 187 N sing N 188 N sing N 189 N sing N 190 N sing N 191 N sing N 192 N sing N 193 N sing N 194 N sing N 195 N sing N 196 N sing N 197 N sing N 198 N sing N 199 N sing N 200 N doub N 201 N sing N 202 N sing N 203 N sing N 204 N sing N 205 N sing N 206 N sing N 207 N sing N 208 N sing N 209 N sing N 210 N sing N 211 N sing N 212 N sing N 213 N sing N 214 N sing N 215 N sing N 216 N sing N 217 N sing N 218 N sing N 219 N sing N 220 N sing N 221 N sing N 222 N sing N 223 N sing N 224 N doub N 225 N sing N 226 N sing N 227 N sing N 228 N sing N 229 N sing N 230 N sing N 231 N sing N 232 N sing N 233 N sing N 234 N sing N 235 N sing N 236 N sing N 237 N sing N 238 N sing N 239 N sing N 240 N sing N 241 N sing N 242 N sing N 243 N doub N 244 N sing N 245 N sing N 246 N sing N 247 N sing Y 248 N doub Y 249 N sing Y 250 N sing N 251 N sing Y 252 N doub N 253 N sing Y 254 N doub N 255 N sing Y 256 N sing N 257 N sing N 258 N sing N 259 N sing N 260 N sing N 261 N sing N 262 N sing N 263 N sing N 264 N sing N 265 N sing N 266 N doub N 267 N sing N 268 N sing N 269 N sing N 270 N sing N 271 N sing N 272 N sing N 273 N sing N 274 N sing N 275 N sing N 276 N sing N 277 N sing N 278 N sing N 279 N sing N 280 N sing N 281 N sing N 282 N sing N 283 N doub N 284 N sing N 285 N sing N 286 N sing N 287 N sing N 288 N sing N 289 N sing N 290 N sing N 291 N sing N 292 N sing N 293 N sing N 294 N sing N 295 N sing N 296 N doub N 297 N sing N 298 N sing N 299 N sing N 300 N sing N 301 N sing N 302 N sing N 303 N sing N 304 N sing N 305 N sing N 306 N sing N 307 N sing N 308 N sing N 309 N sing N 310 N sing N 311 N sing N 312 N doub N 313 N sing N 314 N sing N 315 N sing N 316 N sing Y 317 N doub Y 318 N sing Y 319 N sing N 320 N sing Y 321 N doub Y 322 N sing Y 323 N sing N 324 N sing Y 325 N sing Y 326 N doub N 327 N sing Y 328 N doub N 329 N sing Y 330 N sing N 331 N sing N 332 N sing N 333 N sing N 334 N sing N 335 N sing N 336 N sing N 337 N sing N 338 N sing N 339 N sing N 340 N doub N 341 N sing N 342 N sing N 343 N sing N 344 N sing Y 345 N doub Y 346 N sing Y 347 N sing N 348 N sing Y 349 N doub N 350 N sing Y 351 N doub N 352 N sing Y 353 N sing N 354 N sing N 355 N sing N 356 N sing N 357 N sing N 358 N sing N 359 N sing N 360 N sing N 361 N sing N 362 N sing N 363 N sing N 364 N doub N 365 N sing N 366 N sing N 367 N sing N 368 N sing N 369 N sing N 370 N sing N 371 N sing N 372 N sing N 373 N sing N 374 N sing N 375 N sing 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 sing N 397 N sing N 398 N sing N 399 E doub N 400 N sing N 401 N doub 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 doub 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 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 sing 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 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 UK Bioorg.Med.Chem. BMECEP 1200 1464-3391 23 7274 7281 10.1016/j.bmc.2015.10.026 26515040 Fine tuning of agonistic/antagonistic activity for vitamin D receptor by 22-alkyl chain length of ligands: 22S-Hexyl compound unexpectedly restored agonistic activity. 2015 10.2210/pdb5awj/pdb pdb_00005awj 100 1 CCD 2009-03-04 RIGAKU JUPITER 210 SINGLE WAVELENGTH M x-ray 1 1.0 1.0 BL38B1 SPring-8 1.0 SYNCHROTRON SPRING-8 BEAMLINE BL38B1 deletion mutant, residues 165-211 30595.037 Vitamin D3 receptor,Vitamin D3 receptor UNP RESIDUES 116-164, 212-423 1 man polymer 1570.898 Mediator of RNA polymerase II transcription subunit 1 UNP RESIDUES 640-652 1 syn polymer 458.716 (1R,3R)-5-[(2E)-2-[(1R,3aS,7aR)-1-[(2R,3S)-3-(2-hydroxyethyl)nonan-2-yl]-7a-methyl-2,3,3a,5,6,7-hexahydro-1H-inden-4-ylidene]ethylidene]-2-methylidene-cyclohexane-1,3-diol 1 syn non-polymer 18.015 water 35 nat water VDR,1,25-dihydroxyvitamin D3 receptor,Nuclear receptor subfamily 1 group I member 1,VDR,1,25-dihydroxyvitamin D3 receptor,Nuclear receptor subfamily 1 group I member 1 no no GSHMGSPNSPLKDSLRPKLSEEQQHIIAILLDAHHKTYDPTYADFRDFRPPVRMDGSTGSVTLDLSPLSMLPHLADLVSY SIQKVIGFAKMIPGFRDLTSDDQIVLLKSSAIEVIMLRSNQSFTMDDMSWDCGSQDYKYDVTDVSKAGHTLELIEPLIKF QVGLKKLNLHEEEHVLLMAICIVSPDRPGVQDAKLVEAIQDRLSNTLQTYIRCRHPPPGSHQLYAKMIQKLADLRSLNEE HSKQYRSLSFQPENSMKLTPLVLEVFGNEIS GSHMGSPNSPLKDSLRPKLSEEQQHIIAILLDAHHKTYDPTYADFRDFRPPVRMDGSTGSVTLDLSPLSMLPHLADLVSY SIQKVIGFAKMIPGFRDLTSDDQIVLLKSSAIEVIMLRSNQSFTMDDMSWDCGSQDYKYDVTDVSKAGHTLELIEPLIKF QVGLKKLNLHEEEHVLLMAICIVSPDRPGVQDAKLVEAIQDRLSNTLQTYIRCRHPPPGSHQLYAKMIQKLADLRSLNEE HSKQYRSLSFQPENSMKLTPLVLEVFGNEIS A polypeptide(L) no no KNHPMLMNLLKDN KNHPMLMNLLKDN 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 n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n Rat sample 1 59 Vdr, Nr1i1 10116 Rattus norvegicus 562 Escherichia coli Biological sequence 2.16 42.95 VAPOR DIFFUSION, HANGING DROP 7.0 MOPS-Na, Na-Formate, PEG 4000, Ethyleneglycol 293 citation diffrn_source pdbx_struct_oper_list chem_comp_atom chem_comp_bond database_2 repository Initial release Data collection Database references Derived calculations Data collection Database references 1 0 2015-11-18 1 1 2020-02-26 1 2 2024-03-20 _citation.journal_id_CSD _diffrn_source.pdbx_synchrotron_site _pdbx_struct_oper_list.symmetry_operation _database_2.pdbx_DOI _database_2.pdbx_database_accession N PDBJ Y PDBJ 2015-07-04 REL REL YSL (1R,3R)-5-[(2E)-2-[(1R,3aS,7aR)-1-[(2R,3S)-3-(2-hydroxyethyl)nonan-2-yl]-7a-methyl-2,3,3a,5,6,7-hexahydro-1H-inden-4-ylidene]ethylidene]-2-methylidene-cyclohexane-1,3-diol HOH water 9606 Human Homo sapiens sample 1 13 YSh 1 3 YSL YSL 501 A HOH 32 4 HOH HOH 601 A HOH 10 4 HOH HOH 602 A HOH 12 4 HOH HOH 603 A HOH 13 4 HOH HOH 604 A HOH 34 4 HOH HOH 605 A HOH 33 4 HOH HOH 606 A HOH 28 4 HOH HOH 607 A HOH 23 4 HOH HOH 608 A HOH 29 4 HOH HOH 609 A HOH 26 4 HOH HOH 610 A HOH 1 4 HOH HOH 611 A HOH 37 4 HOH HOH 612 A HOH 4 4 HOH HOH 613 A HOH 6 4 HOH HOH 614 A HOH 3 4 HOH HOH 615 A HOH 8 4 HOH HOH 616 A HOH 30 4 HOH HOH 617 A HOH 15 4 HOH HOH 618 A HOH 19 4 HOH HOH 619 A HOH 16 4 HOH HOH 620 A HOH 22 4 HOH HOH 621 A HOH 5 4 HOH HOH 622 A HOH 36 4 HOH HOH 623 A HOH 25 4 HOH HOH 624 A HOH 38 4 HOH HOH 625 A HOH 24 4 HOH HOH 626 A HOH 11 4 HOH HOH 627 A HOH 31 4 HOH HOH 628 A HOH 9 4 HOH HOH 629 A HOH 20 4 HOH HOH 630 A HOH 17 4 HOH HOH 631 A HOH 2 4 HOH HOH 632 A HOH 14 4 HOH HOH 633 A HOH 27 4 HOH HOH 634 A HOH 35 4 HOH HOH 701 C n 1 106 A n 2 107 A n 3 108 A n 4 109 A n 5 110 A n 6 111 A n 7 112 A n 8 113 A n 9 114 A n 10 115 A n 11 116 A n 12 117 A n 13 118 A n 14 119 A n 15 120 A n 16 121 A n 17 122 A LYS 123 n 18 LYS 123 A LEU 124 n 19 LEU 124 A SER 125 n 20 SER 125 A GLU 126 n 21 GLU 126 A GLU 127 n 22 GLU 127 A GLN 128 n 23 GLN 128 A GLN 129 n 24 GLN 129 A HIS 130 n 25 HIS 130 A ILE 131 n 26 ILE 131 A ILE 132 n 27 ILE 132 A ALA 133 n 28 ALA 133 A ILE 134 n 29 ILE 134 A LEU 135 n 30 LEU 135 A LEU 136 n 31 LEU 136 A ASP 137 n 32 ASP 137 A ALA 138 n 33 ALA 138 A HIS 139 n 34 HIS 139 A HIS 140 n 35 HIS 140 A LYS 141 n 36 LYS 141 A THR 142 n 37 THR 142 A TYR 143 n 38 TYR 143 A ASP 144 n 39 ASP 144 A PRO 145 n 40 PRO 145 A THR 146 n 41 THR 146 A TYR 147 n 42 TYR 147 A ALA 148 n 43 ALA 148 A ASP 149 n 44 ASP 149 A PHE 150 n 45 PHE 150 A ARG 151 n 46 ARG 151 A ASP 152 n 47 ASP 152 A PHE 153 n 48 PHE 153 A ARG 154 n 49 ARG 154 A PRO 155 n 50 PRO 155 A PRO 156 n 51 PRO 156 A VAL 157 n 52 VAL 157 A ARG 158 n 53 ARG 158 A MET 159 n 54 MET 159 A n 55 207 A n 56 208 A n 57 209 A n 58 210 A n 59 211 A n 60 212 A n 61 213 A n 62 214 A n 63 215 A n 64 216 A n 65 217 A SER 218 n 66 SER 218 A PRO 219 n 67 PRO 219 A LEU 220 n 68 LEU 220 A SER 221 n 69 SER 221 A MET 222 n 70 MET 222 A LEU 223 n 71 LEU 223 A PRO 224 n 72 PRO 224 A HIS 225 n 73 HIS 225 A LEU 226 n 74 LEU 226 A ALA 227 n 75 ALA 227 A ASP 228 n 76 ASP 228 A LEU 229 n 77 LEU 229 A VAL 230 n 78 VAL 230 A SER 231 n 79 SER 231 A TYR 232 n 80 TYR 232 A SER 233 n 81 SER 233 A ILE 234 n 82 ILE 234 A GLN 235 n 83 GLN 235 A LYS 236 n 84 LYS 236 A VAL 237 n 85 VAL 237 A ILE 238 n 86 ILE 238 A GLY 239 n 87 GLY 239 A PHE 240 n 88 PHE 240 A ALA 241 n 89 ALA 241 A LYS 242 n 90 LYS 242 A MET 243 n 91 MET 243 A ILE 244 n 92 ILE 244 A PRO 245 n 93 PRO 245 A GLY 246 n 94 GLY 246 A PHE 247 n 95 PHE 247 A ARG 248 n 96 ARG 248 A ASP 249 n 97 ASP 249 A LEU 250 n 98 LEU 250 A THR 251 n 99 THR 251 A SER 252 n 100 SER 252 A ASP 253 n 101 ASP 253 A ASP 254 n 102 ASP 254 A GLN 255 n 103 GLN 255 A ILE 256 n 104 ILE 256 A VAL 257 n 105 VAL 257 A LEU 258 n 106 LEU 258 A LEU 259 n 107 LEU 259 A LYS 260 n 108 LYS 260 A SER 261 n 109 SER 261 A SER 262 n 110 SER 262 A ALA 263 n 111 ALA 263 A ILE 264 n 112 ILE 264 A GLU 265 n 113 GLU 265 A VAL 266 n 114 VAL 266 A ILE 267 n 115 ILE 267 A MET 268 n 116 MET 268 A LEU 269 n 117 LEU 269 A ARG 270 n 118 ARG 270 A SER 271 n 119 SER 271 A ASN 272 n 120 ASN 272 A GLN 273 n 121 GLN 273 A SER 274 n 122 SER 274 A PHE 275 n 123 PHE 275 A THR 276 n 124 THR 276 A MET 277 n 125 MET 277 A ASP 278 n 126 ASP 278 A ASP 279 n 127 ASP 279 A MET 280 n 128 MET 280 A SER 281 n 129 SER 281 A TRP 282 n 130 TRP 282 A ASP 283 n 131 ASP 283 A CYS 284 n 132 CYS 284 A GLY 285 n 133 GLY 285 A SER 286 n 134 SER 286 A GLN 287 n 135 GLN 287 A ASP 288 n 136 ASP 288 A TYR 289 n 137 TYR 289 A LYS 290 n 138 LYS 290 A TYR 291 n 139 TYR 291 A ASP 292 n 140 ASP 292 A VAL 293 n 141 VAL 293 A THR 294 n 142 THR 294 A ASP 295 n 143 ASP 295 A VAL 296 n 144 VAL 296 A SER 297 n 145 SER 297 A LYS 298 n 146 LYS 298 A ALA 299 n 147 ALA 299 A GLY 300 n 148 GLY 300 A HIS 301 n 149 HIS 301 A THR 302 n 150 THR 302 A LEU 303 n 151 LEU 303 A GLU 304 n 152 GLU 304 A LEU 305 n 153 LEU 305 A ILE 306 n 154 ILE 306 A GLU 307 n 155 GLU 307 A PRO 308 n 156 PRO 308 A LEU 309 n 157 LEU 309 A ILE 310 n 158 ILE 310 A LYS 311 n 159 LYS 311 A PHE 312 n 160 PHE 312 A GLN 313 n 161 GLN 313 A VAL 314 n 162 VAL 314 A GLY 315 n 163 GLY 315 A LEU 316 n 164 LEU 316 A LYS 317 n 165 LYS 317 A LYS 318 n 166 LYS 318 A LEU 319 n 167 LEU 319 A ASN 320 n 168 ASN 320 A LEU 321 n 169 LEU 321 A HIS 322 n 170 HIS 322 A GLU 323 n 171 GLU 323 A GLU 324 n 172 GLU 324 A GLU 325 n 173 GLU 325 A HIS 326 n 174 HIS 326 A VAL 327 n 175 VAL 327 A LEU 328 n 176 LEU 328 A LEU 329 n 177 LEU 329 A MET 330 n 178 MET 330 A ALA 331 n 179 ALA 331 A ILE 332 n 180 ILE 332 A CYS 333 n 181 CYS 333 A ILE 334 n 182 ILE 334 A VAL 335 n 183 VAL 335 A SER 336 n 184 SER 336 A PRO 337 n 185 PRO 337 A ASP 338 n 186 ASP 338 A ARG 339 n 187 ARG 339 A PRO 340 n 188 PRO 340 A GLY 341 n 189 GLY 341 A VAL 342 n 190 VAL 342 A GLN 343 n 191 GLN 343 A ASP 344 n 192 ASP 344 A ALA 345 n 193 ALA 345 A LYS 346 n 194 LYS 346 A LEU 347 n 195 LEU 347 A VAL 348 n 196 VAL 348 A GLU 349 n 197 GLU 349 A ALA 350 n 198 ALA 350 A ILE 351 n 199 ILE 351 A GLN 352 n 200 GLN 352 A ASP 353 n 201 ASP 353 A ARG 354 n 202 ARG 354 A LEU 355 n 203 LEU 355 A SER 356 n 204 SER 356 A ASN 357 n 205 ASN 357 A THR 358 n 206 THR 358 A LEU 359 n 207 LEU 359 A GLN 360 n 208 GLN 360 A THR 361 n 209 THR 361 A TYR 362 n 210 TYR 362 A ILE 363 n 211 ILE 363 A ARG 364 n 212 ARG 364 A CYS 365 n 213 CYS 365 A ARG 366 n 214 ARG 366 A HIS 367 n 215 HIS 367 A PRO 368 n 216 PRO 368 A PRO 369 n 217 PRO 369 A PRO 370 n 218 PRO 370 A GLY 371 n 219 GLY 371 A SER 372 n 220 SER 372 A HIS 373 n 221 HIS 373 A GLN 374 n 222 GLN 374 A LEU 375 n 223 LEU 375 A TYR 376 n 224 TYR 376 A ALA 377 n 225 ALA 377 A LYS 378 n 226 LYS 378 A MET 379 n 227 MET 379 A ILE 380 n 228 ILE 380 A GLN 381 n 229 GLN 381 A LYS 382 n 230 LYS 382 A LEU 383 n 231 LEU 383 A ALA 384 n 232 ALA 384 A ASP 385 n 233 ASP 385 A LEU 386 n 234 LEU 386 A ARG 387 n 235 ARG 387 A SER 388 n 236 SER 388 A LEU 389 n 237 LEU 389 A ASN 390 n 238 ASN 390 A GLU 391 n 239 GLU 391 A GLU 392 n 240 GLU 392 A HIS 393 n 241 HIS 393 A SER 394 n 242 SER 394 A LYS 395 n 243 LYS 395 A GLN 396 n 244 GLN 396 A TYR 397 n 245 TYR 397 A ARG 398 n 246 ARG 398 A SER 399 n 247 SER 399 A LEU 400 n 248 LEU 400 A SER 401 n 249 SER 401 A PHE 402 n 250 PHE 402 A GLN 403 n 251 GLN 403 A PRO 404 n 252 PRO 404 A GLU 405 n 253 GLU 405 A ASN 406 n 254 ASN 406 A SER 407 n 255 SER 407 A MET 408 n 256 MET 408 A LYS 409 n 257 LYS 409 A LEU 410 n 258 LEU 410 A THR 411 n 259 THR 411 A PRO 412 n 260 PRO 412 A LEU 413 n 261 LEU 413 A VAL 414 n 262 VAL 414 A LEU 415 n 263 LEU 415 A GLU 416 n 264 GLU 416 A VAL 417 n 265 VAL 417 A PHE 418 n 266 PHE 418 A GLY 419 n 267 GLY 419 A ASN 420 n 268 ASN 420 A n 269 421 A n 270 422 A n 271 423 A LYS 625 n 1 LYS 625 C ASN 626 n 2 ASN 626 C HIS 627 n 3 HIS 627 C PRO 628 n 4 PRO 628 C MET 629 n 5 MET 629 C LEU 630 n 6 LEU 630 C MET 631 n 7 MET 631 C ASN 632 n 8 ASN 632 C LEU 633 n 9 LEU 633 C LEU 634 n 10 LEU 634 C LYS 635 n 11 LYS 635 C n 12 636 C n 13 637 C 0.7096 0.0028 -0.2387 0.0061 0.0120 0.1210 -0.0625 -0.0260 0.0388 0.0004 0.0139 0.0213 0.0523 0.0235 0.0487 0.0725 0.0115 0.0199 0.0726 0.0146 0.0885 refined 25.1784 -21.9492 -18.9908 X-RAY DIFFRACTION 3.7355 -1.2236 1.4319 1.0492 -2.1694 5.0183 0.0287 -0.0327 0.1427 0.1502 -0.0414 -0.0297 -0.4103 0.0483 0.0127 0.0802 -0.0078 0.0011 0.1191 -0.0631 0.0798 refined 11.7148 -10.8374 -11.3892 X-RAY DIFFRACTION 0.3481 -0.1510 -0.0318 0.1903 0.1108 0.1016 -0.0285 -0.0762 0.0670 0.0060 -0.0076 -0.0196 0.0360 -0.0209 0.0361 0.0716 0.0051 0.0362 0.0521 0.0156 0.0987 refined 25.1691 -22.6002 -17.0173 X-RAY DIFFRACTION 2.0320 -1.8851 -2.0967 1.7607 1.9565 2.1746 0.1294 0.3832 -0.1736 -0.0633 -0.3408 0.1739 -0.0778 -0.3951 0.2114 0.1453 0.0006 0.0260 0.1098 -0.0083 0.0494 refined 19.6389 -25.7429 -25.3050 X-RAY DIFFRACTION A 123 A 420 X-RAY DIFFRACTION 1 C 625 C 635 X-RAY DIFFRACTION 2 A 601 A 634 X-RAY DIFFRACTION 3 C 701 C 701 X-RAY DIFFRACTION 3 A 501 A 501 X-RAY DIFFRACTION 4 author_and_software_defined_assembly PISA 2 dimeric 1070 -8 11930 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 THR 276 A N THR 124 A O SER 281 A O SER 129 A N TRP 282 A N TRP 130 A O TYR 291 A O TYR 139 1 A CG ARG 151 A CG ARG 46 1 Y 1 A CD ARG 151 A CD ARG 46 1 Y 1 A NE ARG 151 A NE ARG 46 1 Y 1 A CZ ARG 151 A CZ ARG 46 1 Y 1 A NH1 ARG 151 A NH1 ARG 46 1 Y 1 A NH2 ARG 151 A NH2 ARG 46 1 Y 1 A CG LYS 311 A CG LYS 159 1 Y 1 A CD LYS 311 A CD LYS 159 1 Y 1 A CE LYS 311 A CE LYS 159 1 Y 1 A NZ LYS 311 A NZ LYS 159 1 Y 1 A GLY 106 A GLY 1 1 Y 1 A SER 107 A SER 2 1 Y 1 A HIS 108 A HIS 3 1 Y 1 A MET 109 A MET 4 1 Y 1 A GLY 110 A GLY 5 1 Y 1 A SER 111 A SER 6 1 Y 1 A PRO 112 A PRO 7 1 Y 1 A ASN 113 A ASN 8 1 Y 1 A SER 114 A SER 9 1 Y 1 A PRO 115 A PRO 10 1 Y 1 A LEU 116 A LEU 11 1 Y 1 A LYS 117 A LYS 12 1 Y 1 A ASP 118 A ASP 13 1 Y 1 A SER 119 A SER 14 1 Y 1 A LEU 120 A LEU 15 1 Y 1 A ARG 121 A ARG 16 1 Y 1 A PRO 122 A PRO 17 1 Y 1 A ASP 207 A ASP 55 1 Y 1 A GLY 208 A GLY 56 1 Y 1 A SER 209 A SER 57 1 Y 1 A THR 210 A THR 58 1 Y 1 A GLY 211 A GLY 59 1 Y 1 A SER 212 A SER 60 1 Y 1 A VAL 213 A VAL 61 1 Y 1 A THR 214 A THR 62 1 Y 1 A LEU 215 A LEU 63 1 Y 1 A ASP 216 A ASP 64 1 Y 1 A LEU 217 A LEU 65 1 Y 1 A GLU 421 A GLU 269 1 Y 1 A ILE 422 A ILE 270 1 Y 1 A SER 423 A SER 271 1 Y 1 C ASP 636 B ASP 12 1 Y 1 C ASN 637 B ASN 13 1 Y 1 A A O OG VAL SER 157 221 2.03 1 A LEU 124 -67.86 78.15 1 A ASP 279 -145.20 26.38 1 A CYS 284 -105.53 61.26 1 A GLN 343 -86.68 -73.30 81.947 -4.50 -0.00 1.70 3.65 -0.00 0.21 0.953 0.934 HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS 0.25993 0.21394 0.21623 2.20 50.00 694 13166 5.0 98.10 19.037 0.205 RANDOM 1 THROUGHOUT 0.331 0.237 0.80 0.80 1.20 MAXIMUM LIKELIHOOD MASK 2.20 50.00 35 2073 33 0 2005 0.013 0.019 2166 0.000 0.020 2159 1.672 2.032 2935 3.366 3.000 4999 4.761 5.000 252 37.533 24.565 92 20.086 15.000 386 19.592 15.000 11 0.083 0.200 338 0.013 0.021 2314 0.027 0.020 463 4.083 7.251 1005 4.075 7.250 1004 6.197 10.850 1252 6.195 10.851 1253 4.567 7.656 1161 4.565 7.654 1162 7.225 11.301 1682 9.316 57.511 2450 9.314 57.512 2451 0.320 0.306 2.259 43 826 20 83.40 2.2 50 5AWJ 14125 1 35.3 3.6 98.1 refinement REFMAC 5.8.0049 data reduction HKL-2000 data scaling HKL-2000 Crystal structure of VDR-LBD/partial agonist complex: 22S-hexyl analogue 1 N N 2 N N 3 N N 4 N N 4 N N A SER 125 A SER 20 HELX_P A TYR 143 A TYR 38 1 AA1 19 A TYR 147 A TYR 42 HELX_P A PHE 153 A PHE 48 5 AA2 7 A MET 222 A MET 70 HELX_P A MET 243 A MET 91 1 AA3 22 A GLY 246 A GLY 94 HELX_P A LEU 250 A LEU 98 5 AA4 5 A THR 251 A THR 99 HELX_P A ASN 272 A ASN 120 1 AA5 22 A SER 286 A SER 134 HELX_P A ASP 288 A ASP 136 5 AA6 3 A ASP 292 A ASP 140 HELX_P A LYS 298 A LYS 146 1 AA7 7 A THR 302 A THR 150 HELX_P A LEU 319 A LEU 167 1 AA8 18 A HIS 322 A HIS 170 HELX_P A VAL 335 A VAL 183 1 AA9 14 A ASP 344 A ASP 192 HELX_P A HIS 367 A HIS 215 1 AB1 24 A GLN 374 A GLN 222 HELX_P A GLN 403 A GLN 251 1 AB2 30 A GLN 403 A GLN 251 HELX_P A MET 408 A MET 256 1 AB3 6 A THR 411 A THR 259 HELX_P A GLY 419 A GLY 267 1 AB4 9 C HIS 627 B HIS 3 HELX_P C LYS 635 B LYS 11 1 AB5 9 TRANSCRIPTION transcription, Vitamin D3, VDRE, RXR, co-factors A PRO 369 A PRO 217 1 A PRO 370 A PRO 218 -2.89 C LYS 625 B LYS 1 1 C ASN 626 B ASN 2 -0.52 VDR_RAT UNP 1 116 P13053 LKDSLRPKLSEEQQHIIAILLDAHHKTYDPTYADFRDFRPPVRMDGSTG VDR_RAT UNP 1 212 P13053 SVTLDLSPLSMLPHLADLVSYSIQKVIGFAKMIPGFRDLTSDDQIVLLKSSAIEVIMLRSNQSFTMDDMSWDCGSQDYKY DVTDVSKAGHTLELIEPLIKFQVGLKKLNLHEEEHVLLMAICIVSPDRPGVQDAKLVEAIQDRLSNTLQTYIRCRHPPPG SHQLYAKMIQKLADLRSLNEEHSKQYRSLSFQPENSMKLTPLVLEVFGNEIS MED1_HUMAN UNP 2 640 Q15648 KNHPMLMNLLKDN 116 164 5AWJ 116 211 P13053 A 1 11 59 212 423 5AWJ 212 423 P13053 A 2 60 271 640 652 5AWJ 625 637 Q15648 C 3 1 13 1 expression tag GLY 106 5AWJ A P13053 UNP 1 1 expression tag SER 107 5AWJ A P13053 UNP 2 1 expression tag HIS 108 5AWJ A P13053 UNP 3 1 expression tag MET 109 5AWJ A P13053 UNP 4 1 expression tag GLY 110 5AWJ A P13053 UNP 5 1 expression tag SER 111 5AWJ A P13053 UNP 6 1 expression tag PRO 112 5AWJ A P13053 UNP 7 1 expression tag ASN 113 5AWJ A P13053 UNP 8 1 expression tag SER 114 5AWJ A P13053 UNP 9 1 expression tag PRO 115 5AWJ A P13053 UNP 10 3 anti-parallel anti-parallel A PHE 275 A PHE 123 A THR 276 A THR 124 A SER 281 A SER 129 A ASP 283 A ASP 131 A LYS 290 A LYS 138 A TYR 291 A TYR 139 binding site for residue YSL A 501 A YSL 501 Software 15 A TYR 143 A TYR 38 15 1_555 A LEU 223 A LEU 71 15 1_555 A VAL 230 A VAL 78 15 1_555 A SER 233 A SER 81 15 1_555 A ARG 270 A ARG 118 15 1_555 A SER 271 A SER 119 15 1_555 A SER 274 A SER 122 15 1_555 A TRP 282 A TRP 130 15 1_555 A CYS 284 A CYS 132 15 1_555 A VAL 296 A VAL 144 15 1_555 A HIS 301 A HIS 149 15 1_555 A LEU 305 A LEU 153 15 1_555 A LEU 389 A LEU 237 15 1_555 A HIS 393 A HIS 241 15 1_555 A PHE 418 A PHE 266 15 1_555 5 C 1 2 1