0.025068 0.000000 0.000000 0.000000 0.025068 0.000000 0.000000 0.000000 0.012177 0.000000 0.000000 0.000000 Guo, F. Senturia, R. Laganowsky, A. Barr, I. Scheidemantle, B.D. http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 8 90.000 90.000 90.000 39.891 39.891 82.125 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 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 N 1 N N N 2 S C N 3 N C N 4 N O N 5 N C N 6 N C N 7 N C N 8 N N N 9 N C N 10 N N N 11 N N N 12 N O N 13 N H N 14 N H N 15 N H N 16 N H N 17 N H N 18 N H N 19 N H N 20 N H N 21 N H 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 N N 29 S C N 30 N C N 31 N O N 32 N C N 33 N C N 34 N O N 35 N N N 36 N O N 37 N H N 38 N H N 39 N H N 40 N H N 41 N H N 42 N H N 43 N H N 44 N H N 45 N N N 46 S C N 47 N C N 48 N O N 49 N C N 50 N C N 51 N O N 52 N O N 53 N O N 54 N H N 55 N H N 56 N H N 57 N H N 58 N H N 59 N H N 60 N H N 61 N N N 62 R C N 63 N C N 64 N O N 65 N C N 66 N S N 67 N O 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 N N 76 S C N 77 N C N 78 N O N 79 N C N 80 N C N 81 N C N 82 N O N 83 N O N 84 N O N 85 N H N 86 N H 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 N N 95 N C N 96 N C N 97 N O N 98 N O N 99 N H N 100 N H N 101 N H N 102 N H N 103 N H N 104 N N N 105 S C N 106 N C N 107 N O N 108 N C Y 109 N C Y 110 N N Y 111 N C Y 112 N C Y 113 N N N 114 N O 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 H N 125 N O N 126 N H N 127 N H N 128 N N N 129 S C N 130 N C N 131 N O N 132 S C N 133 N C N 134 N C N 135 N C N 136 N O 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 H N 146 N H N 147 N H N 148 N H N 149 N H N 150 N N N 151 S C N 152 N C N 153 N O N 154 N C N 155 N C N 156 N C N 157 N C N 158 N O N 159 N H N 160 N H N 161 N H N 162 N H N 163 N H N 164 N H 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 N N 173 S C N 174 N C N 175 N O N 176 N C N 177 N C N 178 N C N 179 N C N 180 N N N 181 N O 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 H N 196 N H N 197 N N N 198 S C N 199 N C N 200 N O N 201 N C N 202 N C N 203 N S N 204 N C N 205 N O N 206 N H N 207 N H N 208 N H N 209 N H N 210 N H N 211 N H N 212 N H N 213 N H N 214 N H N 215 N H N 216 N H N 217 N N N 218 S C N 219 N C N 220 N O N 221 N C Y 222 N C Y 223 N C Y 224 N C Y 225 N C Y 226 N C Y 227 N C N 228 N O N 229 N H N 230 N H N 231 N H N 232 N H N 233 N H N 234 N H N 235 N H N 236 N H N 237 N H N 238 N H N 239 N H N 240 N N N 241 S C N 242 N C N 243 N O N 244 N C N 245 N C N 246 N C N 247 N O N 248 N H N 249 N H N 250 N H N 251 N H N 252 N H N 253 N H N 254 N H N 255 N H N 256 N H N 257 N N N 258 S C N 259 N C N 260 N O N 261 N C N 262 N O N 263 N O 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 N N 272 S C N 273 N C N 274 N O N 275 R C N 276 N O N 277 N C N 278 N O N 279 N H N 280 N H N 281 N H N 282 N H N 283 N H N 284 N H N 285 N H N 286 N H N 287 N H N 288 N N N 289 S C N 290 N C N 291 N O N 292 N C Y 293 N C Y 294 N C Y 295 N C Y 296 N N Y 297 N C Y 298 N C Y 299 N C Y 300 N C Y 301 N C N 302 N O N 303 N H N 304 N H N 305 N H N 306 N H N 307 N H N 308 N H N 309 N H N 310 N H N 311 N H N 312 N H N 313 N H N 314 N H N 315 N N N 316 S C N 317 N C N 318 N O N 319 N C Y 320 N C Y 321 N C Y 322 N C Y 323 N C Y 324 N C Y 325 N C N 326 N O N 327 N O N 328 N H N 329 N H N 330 N H N 331 N H N 332 N H N 333 N H N 334 N H N 335 N H N 336 N H N 337 N H N 338 N H N 339 N N N 340 S C N 341 N C N 342 N O N 343 N C N 344 N C N 345 N C N 346 N O N 347 N H N 348 N H N 349 N H N 350 N H N 351 N H N 352 N H N 353 N H N 354 N H N 355 N H N 356 N H N 357 N H N 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 sing N 20 N sing N 21 N doub 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 doub 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 sing N 46 N sing N 47 N sing N 48 N sing N 49 N doub N 50 N sing N 51 N sing N 52 N sing N 53 N sing N 54 N doub 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 sing N 62 N sing N 63 N sing N 64 N doub 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 sing N 72 N sing N 73 N sing N 74 N sing N 75 N sing N 76 N sing N 77 N doub 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 doub 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 doub N 105 N sing N 106 N sing N 107 N sing N 108 N sing Y 109 N sing Y 110 N doub Y 111 N doub N 112 N sing Y 113 N sing N 114 N sing Y 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 doub 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 sing 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 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 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 sing 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 doub N 194 N sing N 195 N sing N 196 N sing N 197 N sing N 198 N sing N 199 N sing N 200 N sing N 201 N sing N 202 N sing N 203 N sing N 204 N sing N 205 N sing N 206 N sing N 207 N sing N 208 N sing N 209 N sing N 210 N sing N 211 N sing N 212 N doub N 213 N sing N 214 N sing N 215 N sing N 216 N sing Y 217 N doub Y 218 N sing Y 219 N sing N 220 N sing Y 221 N doub N 222 N sing Y 223 N doub N 224 N sing Y 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 doub N 236 N sing N 237 N sing N 238 N sing N 239 N sing N 240 N sing N 241 N sing N 242 N sing N 243 N sing N 244 N sing N 245 N sing N 246 N sing N 247 N sing N 248 N sing N 249 N sing N 250 N sing N 251 N sing N 252 N doub N 253 N sing N 254 N sing N 255 N sing N 256 N sing N 257 N sing N 258 N sing N 259 N sing N 260 N sing N 261 N sing N 262 N 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 sing N 276 N sing N 277 N sing N 278 N sing N 279 N sing N 280 N sing N 281 N doub N 282 N sing N 283 N sing N 284 N sing N 285 N sing Y 286 N doub Y 287 N sing Y 288 N sing N 289 N sing Y 290 N doub Y 291 N sing Y 292 N sing N 293 N sing Y 294 N sing Y 295 N doub N 296 N sing Y 297 N doub N 298 N sing Y 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 doub N 310 N sing N 311 N sing N 312 N sing N 313 N sing Y 314 N doub Y 315 N sing Y 316 N sing N 317 N sing Y 318 N doub N 319 N sing Y 320 N doub N 321 N sing Y 322 N sing N 323 N sing N 324 N sing N 325 N sing N 326 N sing N 327 N sing N 328 N sing N 329 N sing N 330 N sing N 331 N sing N 332 N sing N 333 N doub 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 US Plos One 1932-6203 7 e39688 e39688 10.1371/journal.pone.0039688 22768307 Dimerization and heme binding are conserved in amphibian and starfish homologues of the microRNA processing protein DGCR8. 2012 10.2210/pdb4e5r/pdb pdb_00004e5r 100 1 IMAGE PLATE 2010-11-01 RIGAKU RAXIS HTC CONFOCAL MIRRORS Varimax HF SINGLE WAVELENGTH M x-ray 1 1.5418 1.0 1.5418 ROTATING ANODE RIGAKU FR-E+ SUPERBRIGHT 6379.329 MGC78846 protein Dimerization Domain (UNP residues 300-355) 1 man polymer 18.015 water 27 nat water no no PPTEPLPDGWIMTFHNSGLPVYLHRETRVVTWSRPYFLGTGSIRKHDPPISSIPCL PPTEPLPDGWIMTFHNSGLPVYLHRETRVVTWSRPYFLGTGSIRKHDPPISSIPCL A 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 clawed frog,common platanna,platanna sample dgcr8, MGC78846 8355 Xenopus laevis 562 Escherichia coli BL21(DE3) plasmid pET24a+ 1 2.56 51.97 VAPOR DIFFUSION, HANGING DROP 8.0 20% (w/v) PEG-1000, 0.1 M imidazole pH 8.0, 0.2 M calcium acetate, 100 mM tribasic sodium citrate, vapor diffusion, hanging drop, temperature 277K 277 chem_comp_atom chem_comp_bond database_2 repository Initial release Data collection Database references 1 0 2013-02-27 1 1 2024-02-28 _database_2.pdbx_DOI _database_2.pdbx_database_accession RCSB Y RCSB 2012-03-14 REL REL HOH water HOH 1 2 HOH HOH 401 A HOH 2 2 HOH HOH 402 A HOH 3 2 HOH HOH 403 A HOH 4 2 HOH HOH 404 A HOH 5 2 HOH HOH 405 A HOH 6 2 HOH HOH 406 A HOH 7 2 HOH HOH 407 A HOH 8 2 HOH HOH 408 A HOH 9 2 HOH HOH 409 A HOH 10 2 HOH HOH 410 A HOH 11 2 HOH HOH 411 A HOH 12 2 HOH HOH 412 A HOH 13 2 HOH HOH 413 A HOH 14 2 HOH HOH 414 A HOH 15 2 HOH HOH 415 A HOH 16 2 HOH HOH 416 A HOH 17 2 HOH HOH 417 A HOH 18 2 HOH HOH 418 A HOH 19 2 HOH HOH 419 A HOH 20 2 HOH HOH 420 A HOH 21 2 HOH HOH 421 A HOH 22 2 HOH HOH 422 A HOH 23 2 HOH HOH 423 A HOH 24 2 HOH HOH 424 A HOH 25 2 HOH HOH 425 A HOH 26 2 HOH HOH 426 A HOH 27 2 HOH HOH 427 A PRO 300 n 1 PRO 300 A PRO 301 n 2 PRO 301 A THR 302 n 3 THR 302 A GLU 303 n 4 GLU 303 A PRO 304 n 5 PRO 304 A LEU 305 n 6 LEU 305 A PRO 306 n 7 PRO 306 A ASP 307 n 8 ASP 307 A GLY 308 n 9 GLY 308 A TRP 309 n 10 TRP 309 A ILE 310 n 11 ILE 310 A MET 311 n 12 MET 311 A THR 312 n 13 THR 312 A PHE 313 n 14 PHE 313 A HIS 314 n 15 HIS 314 A ASN 315 n 16 ASN 315 A SER 316 n 17 SER 316 A GLY 317 n 18 GLY 317 A LEU 318 n 19 LEU 318 A PRO 319 n 20 PRO 319 A VAL 320 n 21 VAL 320 A TYR 321 n 22 TYR 321 A LEU 322 n 23 LEU 322 A HIS 323 n 24 HIS 323 A ARG 324 n 25 ARG 324 A GLU 325 n 26 GLU 325 A THR 326 n 27 THR 326 A ARG 327 n 28 ARG 327 A VAL 328 n 29 VAL 328 A VAL 329 n 30 VAL 329 A THR 330 n 31 THR 330 A TRP 331 n 32 TRP 331 A SER 332 n 33 SER 332 A ARG 333 n 34 ARG 333 A PRO 334 n 35 PRO 334 A TYR 335 n 36 TYR 335 A PHE 336 n 37 PHE 336 A LEU 337 n 38 LEU 337 A GLY 338 n 39 GLY 338 A THR 339 n 40 THR 339 A GLY 340 n 41 GLY 340 A SER 341 n 42 SER 341 A ILE 342 n 43 ILE 342 A ARG 343 n 44 ARG 343 A LYS 344 n 45 LYS 344 A HIS 345 n 46 HIS 345 A ASP 346 n 47 ASP 346 A PRO 347 n 48 PRO 347 A PRO 348 n 49 PRO 348 A ILE 349 n 50 ILE 349 A SER 350 n 51 SER 350 A SER 351 n 52 SER 351 A ILE 352 n 53 ILE 352 A PRO 353 n 54 PRO 353 A CYS 354 n 55 CYS 354 A LEU 355 n 56 LEU 355 A author_and_software_defined_assembly PISA 2 dimeric 2860 -19 6690 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 0.0000000000 1.0000000000 0.0000000000 1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 -1.0000000000 7_645 y+1,x-1,-z crystal symmetry operation 39.8910000000 -39.8910000000 0.0000000000 A N ILE 310 A N ILE 11 A O LEU 322 A O LEU 23 A N HIS 323 A N HIS 24 A O VAL 328 A O VAL 29 1 A HOH 417 B HOH 1 A HOH 427 B HOH 81.820 34.9949 22.720 6.2576 0.0000 -0.0000 6.2576 -0.0000 -12.5151 0.2280 0.2068 0.2088 1.9000 35.8820 560 5593 10.0100 98.9900 1.000 0.460 0.8483 0.2400 1 0.000 MOLECULAR REPLACEMENT 20.4100 0.9000 1.1100 ML FLAT BULK SOLVENT MODEL 45.0040 0.3870 1.9000 35.8820 27 477 0 0 450 0.007 469 1.109 644 0.069 69 0.005 81 11.561 173 0.2650 0.2427 2.0914 136 1223 1359 4 100.0000 0.2502 0.1852 2.3940 137 1231 1368 4 100.0000 0.2311 0.2045 3.0160 141 1259 1400 4 100.0000 0.2169 0.2075 35.8884 146 1320 1466 4 97.0000 33.210 1.9 80 4E5R 5691 5640 0.100 1 1.23 11.5 98.99 1.90 1.97 3.38 0.459 1 6.6 99.6 data reduction Zbyszek Otwinowski hkl@hkl-xray.com http://www.hkl-xray.com/ DENZO program refinement Paul D. Adams PDAdams@lbl.gov C++ http://www.phenix-online.org/ PHENIX package 1.7.3_928 data extraction PDB deposit@deposit.rcsb.org June 10, 2010 C++ http://sw-tools.pdb.org/apps/PDB_EXTRACT/ PDB_EXTRACT package 3.10 Crystal Structure of Frog DGCR8 Dimerization Domain 1 N N 2 N N A PRO 348 A PRO 49 HELX_P A ILE 352 A ILE 53 5 1 5 RNA BINDING PROTEIN Dimerization, WW motif, domain swapping, RNA BINDING PROTEIN Q6IRB5_XENLA UNP 1 300 Q6IRB5 PPTEPLPDGWIMTFHNSGLPVYLHRETRVVTWSRPYFLGTGSIRKHDPPISSIPCL 300 355 4E5R 300 355 Q6IRB5 A 1 1 56 3 anti-parallel anti-parallel A TRP 309 A TRP 10 A PHE 313 A PHE 14 A PRO 319 A PRO 20 A HIS 323 A HIS 24 A VAL 328 A VAL 29 A THR 330 A THR 31 96 P 43 21 2