0.014269 0.008238 0.000000 0.000000 0.016476 0.000000 0.000000 0.000000 0.010505 0.00000 0.00000 0.00000 Thomas, S.R. LaRonde-LeBlanc, N. http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 6 90.00 90.00 120.00 70.083 70.083 95.190 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 C14 H20 N6 O5 S 384.411 n S-ADENOSYL-L-HOMOCYSTEINE 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 UK Nucleic Acids Res. NARHAD 0389 0305-1048 39 2445 2457 10.1093/nar/gkq1131 21087996 Structural insight into the functional mechanism of Nep1/Emg1 N1-specific pseudouridine methyltransferase in ribosome biogenesis. 2011 100 1 CCD 2007-02-15 ADSC QUANTUM 315 KOHZU HLD8-24 SINGLE WAVELENGTH x-ray 1 .99998 1.0 24-ID-C APS .99998 SYNCHROTRON APS BEAMLINE 24-ID-C 28382.510 Ribosome biogenesis Nep1 RNA methyltransferase 1 man polymer 181.189 TYROSINE 1 syn non-polymer 384.411 S-ADENOSYL-L-HOMOCYSTEINE 1 syn non-polymer 18.015 water 240 nat water no no HHHHHHRSDITSLYKKVGENLYFQGMGSAFVFLEASLELIPQKIRGHPAVRADAIRRGKRPEKILLDDSKHHTAMKSLEF REKRGRPDIVHQCLLLLLDSPLRDFEVYVHTLNGEIIWVNRETRLPRNYNRFVGLMEKLFEERRITAGDTTLIEFKDVGL RDIVRGRDVLLFREKGGRFEFSELLDGDVAVCIGAFPHGDFFEETLRELGEFKEVSLGTESYTSLYVTSRVLCEYERVRA HKVG HHHHHHRSDITSLYKKVGENLYFQGMGSAFVFLEASLELIPQKIRGHPAVRADAIRRGKRPEKILLDDSKHHTAMKSLEF REKRGRPDIVHQCLLLLLDSPLRDFEVYVHTLNGEIIWVNRETRLPRNYNRFVGLMEKLFEERRITAGDTTLIEFKDVGL RDIVRGRDVLLFREKGGRFEFSELLDGDVAVCIGAFPHGDFFEETLRELGEFKEVSLGTESYTSLYVTSRVLCEYERVRA HKVG 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 n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n sample AF_0734 2234 Archaeoglobus fulgidus 511693 Escherichia coli BL21 plasmid pdest527 1 2.38 48.27 3-4M NaCl, 0.1M HEPES, pH 7.0-8.0, VAPOR DIFFUSION, HANGING DROP, temperature 293K 7.0-8.0 293 pdbx_unobs_or_zero_occ_atoms software repository Initial release Version format compliance Advisory Refinement description 1 0 2011-01-19 1 1 2011-07-13 1 2 2017-11-08 RCSB Y RCSB 2010-07-30 REL REL TYR TYROSINE SAH S-ADENOSYL-L-HOMOCYSTEINE HOH water TYR 220 2 TYR TYR 220 A SAH 301 3 SAH SAH 301 A HOH 221 4 HOH HOH 221 A HOH 222 4 HOH HOH 222 A HOH 223 4 HOH HOH 223 A HOH 224 4 HOH HOH 224 A HOH 225 4 HOH HOH 225 A HOH 226 4 HOH HOH 226 A HOH 227 4 HOH HOH 227 A HOH 228 4 HOH HOH 228 A HOH 229 4 HOH HOH 229 A HOH 230 4 HOH HOH 230 A HOH 231 4 HOH HOH 231 A HOH 232 4 HOH HOH 232 A HOH 233 4 HOH HOH 233 A HOH 234 4 HOH HOH 234 A HOH 235 4 HOH HOH 235 A HOH 236 4 HOH HOH 236 A HOH 237 4 HOH HOH 237 A HOH 238 4 HOH HOH 238 A HOH 239 4 HOH HOH 239 A HOH 240 4 HOH HOH 240 A HOH 241 4 HOH HOH 241 A HOH 242 4 HOH HOH 242 A HOH 243 4 HOH HOH 243 A HOH 244 4 HOH HOH 244 A HOH 245 4 HOH HOH 245 A HOH 246 4 HOH HOH 246 A HOH 247 4 HOH HOH 247 A HOH 248 4 HOH HOH 248 A HOH 249 4 HOH HOH 249 A HOH 250 4 HOH HOH 250 A HOH 251 4 HOH HOH 251 A HOH 252 4 HOH HOH 252 A HOH 253 4 HOH HOH 253 A HOH 254 4 HOH HOH 254 A HOH 255 4 HOH HOH 255 A HOH 256 4 HOH HOH 256 A HOH 257 4 HOH HOH 257 A HOH 258 4 HOH HOH 258 A HOH 259 4 HOH HOH 259 A HOH 260 4 HOH HOH 260 A HOH 261 4 HOH HOH 261 A HOH 262 4 HOH HOH 262 A HOH 263 4 HOH HOH 263 A HOH 264 4 HOH HOH 264 A HOH 265 4 HOH HOH 265 A HOH 266 4 HOH HOH 266 A HOH 267 4 HOH HOH 267 A HOH 268 4 HOH HOH 268 A HOH 269 4 HOH HOH 269 A HOH 270 4 HOH HOH 270 A HOH 271 4 HOH HOH 271 A HOH 272 4 HOH HOH 272 A HOH 273 4 HOH HOH 273 A HOH 274 4 HOH HOH 274 A HOH 275 4 HOH HOH 275 A HOH 276 4 HOH HOH 276 A HOH 277 4 HOH HOH 277 A HOH 278 4 HOH HOH 278 A HOH 279 4 HOH HOH 279 A HOH 280 4 HOH HOH 280 A HOH 281 4 HOH HOH 281 A HOH 282 4 HOH HOH 282 A HOH 283 4 HOH HOH 283 A HOH 284 4 HOH HOH 284 A HOH 285 4 HOH HOH 285 A HOH 286 4 HOH HOH 286 A HOH 287 4 HOH HOH 287 A HOH 288 4 HOH HOH 288 A HOH 289 4 HOH HOH 289 A HOH 290 4 HOH HOH 290 A HOH 291 4 HOH HOH 291 A HOH 292 4 HOH HOH 292 A HOH 293 4 HOH HOH 293 A HOH 294 4 HOH HOH 294 A HOH 295 4 HOH HOH 295 A HOH 296 4 HOH HOH 296 A HOH 297 4 HOH HOH 297 A HOH 298 4 HOH HOH 298 A HOH 299 4 HOH HOH 299 A HOH 300 4 HOH HOH 300 A HOH 302 4 HOH HOH 302 A HOH 303 4 HOH HOH 303 A HOH 304 4 HOH HOH 304 A HOH 305 4 HOH HOH 305 A HOH 306 4 HOH HOH 306 A HOH 307 4 HOH HOH 307 A HOH 308 4 HOH HOH 308 A HOH 309 4 HOH HOH 309 A HOH 310 4 HOH HOH 310 A HOH 311 4 HOH HOH 311 A HOH 312 4 HOH HOH 312 A HOH 313 4 HOH HOH 313 A HOH 314 4 HOH HOH 314 A HOH 315 4 HOH HOH 315 A HOH 316 4 HOH HOH 316 A HOH 317 4 HOH HOH 317 A HOH 318 4 HOH HOH 318 A HOH 319 4 HOH HOH 319 A HOH 320 4 HOH HOH 320 A HOH 321 4 HOH HOH 321 A HOH 322 4 HOH HOH 322 A HOH 323 4 HOH HOH 323 A HOH 324 4 HOH HOH 324 A HOH 325 4 HOH HOH 325 A HOH 326 4 HOH HOH 326 A HOH 327 4 HOH HOH 327 A HOH 328 4 HOH HOH 328 A HOH 329 4 HOH HOH 329 A HOH 330 4 HOH HOH 330 A HOH 331 4 HOH HOH 331 A HOH 332 4 HOH HOH 332 A HOH 333 4 HOH HOH 333 A HOH 334 4 HOH HOH 334 A HOH 335 4 HOH HOH 335 A HOH 336 4 HOH HOH 336 A HOH 337 4 HOH HOH 337 A HOH 338 4 HOH HOH 338 A HOH 339 4 HOH HOH 339 A HOH 340 4 HOH HOH 340 A HOH 341 4 HOH HOH 341 A HOH 342 4 HOH HOH 342 A HOH 343 4 HOH HOH 343 A HOH 344 4 HOH HOH 344 A HOH 345 4 HOH HOH 345 A HOH 346 4 HOH HOH 346 A HOH 347 4 HOH HOH 347 A HOH 348 4 HOH HOH 348 A HOH 349 4 HOH HOH 349 A HOH 350 4 HOH HOH 350 A HOH 351 4 HOH HOH 351 A HOH 352 4 HOH HOH 352 A HOH 353 4 HOH HOH 353 A HOH 354 4 HOH HOH 354 A HOH 355 4 HOH HOH 355 A HOH 356 4 HOH HOH 356 A HOH 357 4 HOH HOH 357 A HOH 358 4 HOH HOH 358 A HOH 359 4 HOH HOH 359 A HOH 360 4 HOH HOH 360 A HOH 361 4 HOH HOH 361 A HOH 362 4 HOH HOH 362 A HOH 363 4 HOH HOH 363 A HOH 364 4 HOH HOH 364 A HOH 365 4 HOH HOH 365 A HOH 366 4 HOH HOH 366 A HOH 367 4 HOH HOH 367 A HOH 368 4 HOH HOH 368 A HOH 369 4 HOH HOH 369 A HOH 370 4 HOH HOH 370 A HOH 371 4 HOH HOH 371 A HOH 372 4 HOH HOH 372 A HOH 373 4 HOH HOH 373 A HOH 374 4 HOH HOH 374 A HOH 375 4 HOH HOH 375 A HOH 376 4 HOH HOH 376 A HOH 377 4 HOH HOH 377 A HOH 378 4 HOH HOH 378 A HOH 379 4 HOH HOH 379 A HOH 380 4 HOH HOH 380 A HOH 381 4 HOH HOH 381 A HOH 382 4 HOH HOH 382 A HOH 383 4 HOH HOH 383 A HOH 384 4 HOH HOH 384 A HOH 385 4 HOH HOH 385 A HOH 386 4 HOH HOH 386 A HOH 387 4 HOH HOH 387 A HOH 388 4 HOH HOH 388 A HOH 389 4 HOH HOH 389 A HOH 390 4 HOH HOH 390 A HOH 391 4 HOH HOH 391 A HOH 392 4 HOH HOH 392 A HOH 393 4 HOH HOH 393 A HOH 394 4 HOH HOH 394 A HOH 395 4 HOH HOH 395 A HOH 396 4 HOH HOH 396 A HOH 397 4 HOH HOH 397 A HOH 398 4 HOH HOH 398 A HOH 399 4 HOH HOH 399 A HOH 400 4 HOH HOH 400 A HOH 401 4 HOH HOH 401 A HOH 402 4 HOH HOH 402 A HOH 403 4 HOH HOH 403 A HOH 404 4 HOH HOH 404 A HOH 405 4 HOH HOH 405 A HOH 406 4 HOH HOH 406 A HOH 407 4 HOH HOH 407 A HOH 408 4 HOH HOH 408 A HOH 409 4 HOH HOH 409 A HOH 410 4 HOH HOH 410 A HOH 411 4 HOH HOH 411 A HOH 412 4 HOH HOH 412 A HOH 413 4 HOH HOH 413 A HOH 414 4 HOH HOH 414 A HOH 415 4 HOH HOH 415 A HOH 416 4 HOH HOH 416 A HOH 417 4 HOH HOH 417 A HOH 418 4 HOH HOH 418 A HOH 419 4 HOH HOH 419 A HOH 420 4 HOH HOH 420 A HOH 421 4 HOH HOH 421 A HOH 422 4 HOH HOH 422 A HOH 423 4 HOH HOH 423 A HOH 424 4 HOH HOH 424 A HOH 425 4 HOH HOH 425 A HOH 426 4 HOH HOH 426 A HOH 427 4 HOH HOH 427 A HOH 428 4 HOH HOH 428 A HOH 429 4 HOH HOH 429 A HOH 430 4 HOH HOH 430 A HOH 431 4 HOH HOH 431 A HOH 432 4 HOH HOH 432 A HOH 433 4 HOH HOH 433 A HOH 434 4 HOH HOH 434 A HOH 435 4 HOH HOH 435 A HOH 436 4 HOH HOH 436 A HOH 437 4 HOH HOH 437 A HOH 438 4 HOH HOH 438 A HOH 439 4 HOH HOH 439 A HOH 440 4 HOH HOH 440 A HOH 441 4 HOH HOH 441 A HOH 442 4 HOH HOH 442 A HOH 443 4 HOH HOH 443 A HOH 444 4 HOH HOH 444 A HOH 445 4 HOH HOH 445 A HOH 446 4 HOH HOH 446 A HOH 447 4 HOH HOH 447 A HOH 448 4 HOH HOH 448 A HOH 449 4 HOH HOH 449 A HOH 450 4 HOH HOH 450 A HOH 451 4 HOH HOH 451 A HOH 452 4 HOH HOH 452 A HOH 453 4 HOH HOH 453 A HOH 454 4 HOH HOH 454 A HOH 455 4 HOH HOH 455 A HOH 456 4 HOH HOH 456 A HOH 457 4 HOH HOH 457 A HOH 458 4 HOH HOH 458 A HOH 459 4 HOH HOH 459 A HOH 460 4 HOH HOH 460 A HOH 461 4 HOH HOH 461 A n 1 -24 A n 2 -23 A n 3 -22 A n 4 -21 A n 5 -20 A n 6 -19 A n 7 -18 A n 8 -17 A n 9 -16 A n 10 -15 A n 11 -14 A n 12 -13 A n 13 -12 A n 14 -11 A n 15 -10 A n 16 -9 A n 17 -8 A n 18 -7 A n 19 -6 A n 20 -5 A n 21 -4 A n 22 -3 A n 23 -2 A n 24 -1 A n 25 0 A MET 1 n 26 MET 1 A GLY 2 n 27 GLY 2 A SER 3 n 28 SER 3 A ALA 4 n 29 ALA 4 A PHE 5 n 30 PHE 5 A VAL 6 n 31 VAL 6 A PHE 7 n 32 PHE 7 A LEU 8 n 33 LEU 8 A GLU 9 n 34 GLU 9 A ALA 10 n 35 ALA 10 A SER 11 n 36 SER 11 A LEU 12 n 37 LEU 12 A GLU 13 n 38 GLU 13 A LEU 14 n 39 LEU 14 A ILE 15 n 40 ILE 15 A PRO 16 n 41 PRO 16 A GLN 17 n 42 GLN 17 A LYS 18 n 43 LYS 18 A ILE 19 n 44 ILE 19 A ARG 20 n 45 ARG 20 A GLY 21 n 46 GLY 21 A HIS 22 n 47 HIS 22 A PRO 23 n 48 PRO 23 A ALA 24 n 49 ALA 24 A VAL 25 n 50 VAL 25 A ARG 26 n 51 ARG 26 A ALA 27 n 52 ALA 27 A ASP 28 n 53 ASP 28 A ALA 29 n 54 ALA 29 A ILE 30 n 55 ILE 30 A ARG 31 n 56 ARG 31 A ARG 32 n 57 ARG 32 A GLY 33 n 58 GLY 33 A LYS 34 n 59 LYS 34 A ARG 35 n 60 ARG 35 A PRO 36 n 61 PRO 36 A GLU 37 n 62 GLU 37 A LYS 38 n 63 LYS 38 A ILE 39 n 64 ILE 39 A LEU 40 n 65 LEU 40 A LEU 41 n 66 LEU 41 A ASP 42 n 67 ASP 42 A ASP 43 n 68 ASP 43 A SER 44 n 69 SER 44 A LYS 45 n 70 LYS 45 A HIS 46 n 71 HIS 46 A HIS 47 n 72 HIS 47 A THR 48 n 73 THR 48 A ALA 49 n 74 ALA 49 A MET 50 n 75 MET 50 A LYS 51 n 76 LYS 51 A SER 52 n 77 SER 52 A LEU 53 n 78 LEU 53 A GLU 54 n 79 GLU 54 A PHE 55 n 80 PHE 55 A ARG 56 n 81 ARG 56 A GLU 57 n 82 GLU 57 A LYS 58 n 83 LYS 58 A ARG 59 n 84 ARG 59 A GLY 60 n 85 GLY 60 A ARG 61 n 86 ARG 61 A PRO 62 n 87 PRO 62 A ASP 63 n 88 ASP 63 A ILE 64 n 89 ILE 64 A VAL 65 n 90 VAL 65 A HIS 66 n 91 HIS 66 A GLN 67 n 92 GLN 67 A CYS 68 n 93 CYS 68 A LEU 69 n 94 LEU 69 A LEU 70 n 95 LEU 70 A LEU 71 n 96 LEU 71 A LEU 72 n 97 LEU 72 A LEU 73 n 98 LEU 73 A ASP 74 n 99 ASP 74 A SER 75 n 100 SER 75 A PRO 76 n 101 PRO 76 A LEU 77 n 102 LEU 77 A ARG 78 n 103 ARG 78 A ASP 79 n 104 ASP 79 A PHE 80 n 105 PHE 80 A GLU 81 n 106 GLU 81 A VAL 82 n 107 VAL 82 A TYR 83 n 108 TYR 83 A VAL 84 n 109 VAL 84 A HIS 85 n 110 HIS 85 A THR 86 n 111 THR 86 A LEU 87 n 112 LEU 87 A ASN 88 n 113 ASN 88 A GLY 89 n 114 GLY 89 A GLU 90 n 115 GLU 90 A ILE 91 n 116 ILE 91 A ILE 92 n 117 ILE 92 A TRP 93 n 118 TRP 93 A VAL 94 n 119 VAL 94 A ASN 95 n 120 ASN 95 A ARG 96 n 121 ARG 96 A GLU 97 n 122 GLU 97 A THR 98 n 123 THR 98 A ARG 99 n 124 ARG 99 A LEU 100 n 125 LEU 100 A PRO 101 n 126 PRO 101 A ARG 102 n 127 ARG 102 A ASN 103 n 128 ASN 103 A TYR 104 n 129 TYR 104 A ASN 105 n 130 ASN 105 A ARG 106 n 131 ARG 106 A PHE 107 n 132 PHE 107 A VAL 108 n 133 VAL 108 A GLY 109 n 134 GLY 109 A LEU 110 n 135 LEU 110 A MET 111 n 136 MET 111 A GLU 112 n 137 GLU 112 A LYS 113 n 138 LYS 113 A LEU 114 n 139 LEU 114 A PHE 115 n 140 PHE 115 A GLU 116 n 141 GLU 116 A GLU 117 n 142 GLU 117 A ARG 118 n 143 ARG 118 A ARG 119 n 144 ARG 119 A ILE 120 n 145 ILE 120 A THR 121 n 146 THR 121 A ALA 122 n 147 ALA 122 A GLY 123 n 148 GLY 123 A ASP 124 n 149 ASP 124 A THR 125 n 150 THR 125 A THR 126 n 151 THR 126 A LEU 127 n 152 LEU 127 A ILE 128 n 153 ILE 128 A GLU 129 n 154 GLU 129 A PHE 130 n 155 PHE 130 A LYS 131 n 156 LYS 131 A ASP 132 n 157 ASP 132 A VAL 133 n 158 VAL 133 A GLY 134 n 159 GLY 134 A LEU 135 n 160 LEU 135 A ARG 136 n 161 ARG 136 A ASP 137 n 162 ASP 137 A ILE 138 n 163 ILE 138 A VAL 139 n 164 VAL 139 A ARG 140 n 165 ARG 140 A GLY 141 n 166 GLY 141 A ARG 142 n 167 ARG 142 A ASP 143 n 168 ASP 143 A VAL 144 n 169 VAL 144 A LEU 145 n 170 LEU 145 A LEU 146 n 171 LEU 146 A PHE 147 n 172 PHE 147 A ARG 148 n 173 ARG 148 A GLU 149 n 174 GLU 149 A LYS 150 n 175 LYS 150 A GLY 151 n 176 GLY 151 A GLY 152 n 177 GLY 152 A ARG 153 n 178 ARG 153 A PHE 154 n 179 PHE 154 A GLU 155 n 180 GLU 155 A PHE 156 n 181 PHE 156 A SER 157 n 182 SER 157 A GLU 158 n 183 GLU 158 A LEU 159 n 184 LEU 159 A LEU 160 n 185 LEU 160 A ASP 161 n 186 ASP 161 A GLY 162 n 187 GLY 162 A ASP 163 n 188 ASP 163 A VAL 164 n 189 VAL 164 A ALA 165 n 190 ALA 165 A VAL 166 n 191 VAL 166 A CYS 167 n 192 CYS 167 A ILE 168 n 193 ILE 168 A GLY 169 n 194 GLY 169 A ALA 170 n 195 ALA 170 A PHE 171 n 196 PHE 171 A PRO 172 n 197 PRO 172 A HIS 173 n 198 HIS 173 A GLY 174 n 199 GLY 174 A ASP 175 n 200 ASP 175 A PHE 176 n 201 PHE 176 A PHE 177 n 202 PHE 177 A GLU 178 n 203 GLU 178 A GLU 179 n 204 GLU 179 A THR 180 n 205 THR 180 A LEU 181 n 206 LEU 181 A ARG 182 n 207 ARG 182 A GLU 183 n 208 GLU 183 A LEU 184 n 209 LEU 184 A GLY 185 n 210 GLY 185 A GLU 186 n 211 GLU 186 A PHE 187 n 212 PHE 187 A LYS 188 n 213 LYS 188 A GLU 189 n 214 GLU 189 A VAL 190 n 215 VAL 190 A SER 191 n 216 SER 191 A LEU 192 n 217 LEU 192 A GLY 193 n 218 GLY 193 A THR 194 n 219 THR 194 A GLU 195 n 220 GLU 195 A SER 196 n 221 SER 196 A TYR 197 n 222 TYR 197 A THR 198 n 223 THR 198 A SER 199 n 224 SER 199 A LEU 200 n 225 LEU 200 A TYR 201 n 226 TYR 201 A VAL 202 n 227 VAL 202 A THR 203 n 228 THR 203 A SER 204 n 229 SER 204 A ARG 205 n 230 ARG 205 A VAL 206 n 231 VAL 206 A LEU 207 n 232 LEU 207 A CYS 208 n 233 CYS 208 A GLU 209 n 234 GLU 209 A TYR 210 n 235 TYR 210 A GLU 211 n 236 GLU 211 A ARG 212 n 237 ARG 212 A VAL 213 n 238 VAL 213 A ARG 214 n 239 ARG 214 A ALA 215 n 240 ALA 215 A HIS 216 n 241 HIS 216 A n 242 217 A n 243 218 A n 244 219 A author_and_software_defined_assembly PISA 2 dimeric 2420 -9 18830 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 -0.5000000000 -0.8660254038 0.0000000000 -0.8660254038 0.5000000000 0.0000000000 0.0000000000 0.0000000000 -1.0000000000 6_555 -x,-x+y,-z+1/3 crystal symmetry operation 0.0000000000 0.0000000000 31.7300000000 A N ALA 122 A N ALA 147 A O THR 125 A O THR 150 A O GLU 129 A O GLU 154 A N TRP 93 A N TRP 118 A O ILE 92 A O ILE 117 A N VAL 84 A N VAL 109 A O HIS 85 A O HIS 110 A N PHE 7 A N PHE 32 A N VAL 6 A N VAL 31 A O VAL 166 A O VAL 191 A O ALA 165 A O ALA 190 A N LEU 145 A N LEU 170 A N LEU 146 A N LEU 171 A O VAL 190 A O VAL 215 1 A CG ARG 31 A CG ARG 56 1 Y 1 A CD ARG 31 A CD ARG 56 1 Y 1 A NE ARG 31 A NE ARG 56 1 Y 1 A CZ ARG 31 A CZ ARG 56 1 Y 1 A NH1 ARG 31 A NH1 ARG 56 1 Y 1 A NH2 ARG 31 A NH2 ARG 56 1 Y 1 A CG HIS 216 A CG HIS 241 1 Y 1 A ND1 HIS 216 A ND1 HIS 241 1 Y 1 A CD2 HIS 216 A CD2 HIS 241 1 Y 1 A CE1 HIS 216 A CE1 HIS 241 1 Y 1 A NE2 HIS 216 A NE2 HIS 241 1 Y 1 A OXT SAH 301 C OXT SAH 1 1 N 1 A HIS -24 A HIS 1 1 Y 1 A HIS -23 A HIS 2 1 Y 1 A HIS -22 A HIS 3 1 Y 1 A HIS -21 A HIS 4 1 Y 1 A HIS -20 A HIS 5 1 Y 1 A HIS -19 A HIS 6 1 Y 1 A ARG -18 A ARG 7 1 Y 1 A SER -17 A SER 8 1 Y 1 A ASP -16 A ASP 9 1 Y 1 A ILE -15 A ILE 10 1 Y 1 A THR -14 A THR 11 1 Y 1 A SER -13 A SER 12 1 Y 1 A LEU -12 A LEU 13 1 Y 1 A TYR -11 A TYR 14 1 Y 1 A LYS -10 A LYS 15 1 Y 1 A LYS -9 A LYS 16 1 Y 1 A VAL -8 A VAL 17 1 Y 1 A GLY -7 A GLY 18 1 Y 1 A GLU -6 A GLU 19 1 Y 1 A ASN -5 A ASN 20 1 Y 1 A LEU -4 A LEU 21 1 Y 1 A TYR -3 A TYR 22 1 Y 1 A PHE -2 A PHE 23 1 Y 1 A GLN -1 A GLN 24 1 Y 1 A GLY 0 A GLY 25 1 Y 1 A LYS 217 A LYS 242 1 Y 1 A VAL 218 A VAL 243 1 Y 1 A GLY 219 A GLY 244 1 Y 1 A A O O HOH HOH 318 320 2.15 1 A PHE 55 38.26 44.89 1 A ARG 118 76.75 -11.57 1 A ARG 118 76.75 -9.97 1 A LEU 160 -98.99 47.05 1 A ASP 161 -77.99 -99.81 23.45 0.00000 0.00000 0.00000 0.00000 0.00000 0.00000 0.9630 0.9580 HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS 0.211 0.198 0.199 1.45 28.90 2437 48192 48192 5.100 99.8 1.000 0.000 1.150 0.045 RANDOM 1 THROUGHOUT 0.000 SAD 0.066 0.8000 0.8000 1.2000 MAXIMUM LIKELIHOOD MASK 1.45 28.90 240 2031 38 0 1753 0.2880 0.2650 1.4900 173 3315 3488 20 98.8100 1.450 28.900 3O7B 48192 0.000 0.07500 1 32.9000 14.300 99.8 1.45 1.50 5.800 0.51700 10.00 100.0 data reduction Zbyszek Otwinowski hkl@hkl-xray.com http://www.hkl-xray.com/ DENZO package data scaling Zbyszek Otwinowski hkl@hkl-xray.com http://www.hkl-xray.com/ SCALEPACK package refinement Garib N. Murshudov garib@ysbl.york.ac.uk Fortran_77 http://www.ccp4.ac.uk/dist/html/refmac5.html REFMAC program 5.2.0019 data extraction PDB deposit@deposit.rcsb.org June 10, 2010 C++ http://sw-tools.pdb.org/apps/PDB_EXTRACT/ PDB_EXTRACT package 3.10 phasing SHARP Ribosome biogenesis Nep1 RNA methyltransferase Crystal structure of Archaeoglobus Fulgidus Nep1 bound to S-adenosylhomocysteine 1 N N 2 N N 3 N N 4 N N AfNep1 is a biological dimer by symmetry operation x,y,z. A PRO 16 A PRO 41 HELX_P A ARG 20 A ARG 45 5 1 5 A HIS 22 A HIS 47 HELX_P A GLY 33 A GLY 58 1 2 12 A ARG 35 A ARG 60 HELX_P A ILE 39 A ILE 64 5 3 5 A ASP 42 A ASP 67 HELX_P A HIS 47 A HIS 72 1 4 6 A THR 48 A THR 73 HELX_P A MET 50 A MET 75 5 5 3 A PHE 55 A PHE 80 HELX_P A ARG 59 A ARG 84 5 6 5 A PRO 62 A PRO 87 HELX_P A ASP 74 A ASP 99 1 7 13 A ASN 103 A ASN 128 HELX_P A ARG 118 A ARG 143 1 8 16 A GLY 134 A GLY 159 HELX_P A VAL 139 A VAL 164 1 9 6 A GLU 155 A GLU 180 HELX_P A LEU 160 A LEU 185 1 10 6 A PHE 177 A PHE 202 HELX_P A GLY 185 A GLY 210 1 11 9 A THR 198 A THR 223 HELX_P A ALA 215 A ALA 240 1 12 18 disulf 2.643 A CYS 208 A SG CYS 233 1_555 A CYS 208 A SG CYS 233 6_555 TRANSFERASE SPOUT, ribosome biogenesis, methyltransferase, rRNA processing, TRANSFERASE A ALA 215 A ALA 240 1 A HIS 216 A HIS 241 0.14 NEP1_ARCFU UNP 1 1 O29524 MGSAFVFLEASLELIPQKIRGHPAVRADAIRRGKRPEKILLDDSKHHTAMKSLEFREKRGRPDIVHQCLLLLLDSPLRDF EVYVHTLNGEIIWVNRETRLPRNYNRFVGLMEKLFEERRITAGDTTLIEFKDVGLRDIVRGRDVLLFREKGGRFEFSELL DGDVAVCIGAFPHGDFFEETLRELGEFKEVSLGTESYTSLYVTSRVLCEYERVRAHKVG 1 219 3O7B 1 219 O29524 A 1 26 244 1 EXPRESSION TAG HIS -24 3O7B A O29524 UNP 1 1 EXPRESSION TAG HIS -23 3O7B A O29524 UNP 2 1 EXPRESSION TAG HIS -22 3O7B A O29524 UNP 3 1 EXPRESSION TAG HIS -21 3O7B A O29524 UNP 4 1 EXPRESSION TAG HIS -20 3O7B A O29524 UNP 5 1 EXPRESSION TAG HIS -19 3O7B A O29524 UNP 6 1 EXPRESSION TAG ARG -18 3O7B A O29524 UNP 7 1 EXPRESSION TAG SER -17 3O7B A O29524 UNP 8 1 EXPRESSION TAG ASP -16 3O7B A O29524 UNP 9 1 EXPRESSION TAG ILE -15 3O7B A O29524 UNP 10 1 EXPRESSION TAG THR -14 3O7B A O29524 UNP 11 1 EXPRESSION TAG SER -13 3O7B A O29524 UNP 12 1 EXPRESSION TAG LEU -12 3O7B A O29524 UNP 13 1 EXPRESSION TAG TYR -11 3O7B A O29524 UNP 14 1 EXPRESSION TAG LYS -10 3O7B A O29524 UNP 15 1 EXPRESSION TAG LYS -9 3O7B A O29524 UNP 16 1 EXPRESSION TAG VAL -8 3O7B A O29524 UNP 17 1 EXPRESSION TAG GLY -7 3O7B A O29524 UNP 18 1 EXPRESSION TAG GLU -6 3O7B A O29524 UNP 19 1 EXPRESSION TAG ASN -5 3O7B A O29524 UNP 20 1 EXPRESSION TAG LEU -4 3O7B A O29524 UNP 21 1 EXPRESSION TAG TYR -3 3O7B A O29524 UNP 22 1 EXPRESSION TAG PHE -2 3O7B A O29524 UNP 23 1 EXPRESSION TAG GLN -1 3O7B A O29524 UNP 24 1 EXPRESSION TAG GLY 0 3O7B A O29524 UNP 25 8 anti-parallel anti-parallel anti-parallel parallel parallel parallel parallel A ARG 119 A ARG 144 A ALA 122 A ALA 147 A THR 125 A THR 150 A LYS 131 A LYS 156 A ILE 91 A ILE 116 A VAL 94 A VAL 119 A PHE 80 A PHE 105 A THR 86 A THR 111 A SER 3 A SER 28 A ALA 10 A ALA 35 A VAL 164 A VAL 189 A GLY 169 A GLY 194 A ASP 143 A ASP 168 A PHE 147 A PHE 172 A PHE 187 A PHE 212 A VAL 190 A VAL 215 BINDING SITE FOR RESIDUE TYR A 220 Software 5 BINDING SITE FOR RESIDUE SAH A 301 Software 20 A ARG 153 A ARG 178 5 1_555 A SER 191 A SER 216 5 1_555 A LEU 192 A LEU 217 5 1_555 A GLY 193 A GLY 218 5 1_555 A ARG 205 A ARG 230 5 1_555 A PHE 147 A PHE 172 20 1_555 A ARG 148 A ARG 173 20 1_555 A GLU 149 A GLU 174 20 1_555 A ILE 168 A ILE 193 20 1_555 A GLY 169 A GLY 194 20 1_555 A PHE 171 A PHE 196 20 1_555 A GLY 174 A GLY 199 20 1_555 A PHE 176 A PHE 201 20 1_555 A VAL 190 A VAL 215 20 1_555 A SER 191 A SER 216 20 1_555 A LEU 192 A LEU 217 20 1_555 A GLY 193 A GLY 218 20 1_555 A GLU 195 A GLU 220 20 1_555 A SER 196 A SER 221 20 1_555 A TYR 197 A TYR 222 20 1_555 A SER 199 A SER 224 20 1_555 A VAL 202 A VAL 227 20 1_555 A HOH 238 D HOH 20 1_555 A HOH 320 D HOH 20 1_555 A HOH 383 D HOH 20 1_555 152 P 31 2 1