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Sequence, Chains, Asymmetric and Biological Units

Title STRUCTURAL BASIS FOR 5'-END-SPECIFIC RECOGNITION OF THE GUID STRAND BY THE A. FULGIDUS PIWI PROTEIN
Keywords PROTEIN-RNA COMPLEX, RNA DUPLEX, RNA BINDING PROTEIN-RNA COM
Experiment X-ray diffraction
Number of Models  1

   Database       ID code    StatusCoordinate files
        Header     Asymmetric unit     Biological unit  
PDB   1YTU     released     available     available     Quaternary Structure Server  
Asymmetric unit from PDB
 Unit     Type     Name   Chain ID   Residues   Atoms   Hetatoms 
1  RNA    C 5 110 0
2  RNA    D 4 83 0
3  RNA    E 6 133 0
4  RNA    F 4 83 0
5  Protein   HYPOTHETICAL PROTEIN AF1318  A 410 3264 72
6  Protein   HYPOTHETICAL PROTEIN AF1318  B 427 3390 88
7  Ligand   HYPOTHETICAL PROTEIN AF1318  A 1 0 1
8  Ligand   HYPOTHETICAL PROTEIN AF1318  B 1 0 1
9 Water     57 0 57
total       915 7063 219
Proteins
Unit 5 MSE2 GLU3 TYR4 LYS5 ILE6 VAL7 GLU8 ASN9 GLY10 LEU11 THR12 TYR13 ARG14 ILE15 GLY16 ASN17 GLY18 ALA19 SER20 VAL21 PRO22 ILE23 SER24 ASN25 THR26 GLY27 GLU28 LEU29 ILE30 LYS31 GLY32 LEU33 ARG34 ASN35 TYR36 GLY37 PRO38 TYR39 GLU40 VAL41 PRO42 SER43 LEU44 LYS45 TYR46 ASN47 GLN48 ILE49 ALA50 LEU51 ILE52 HIS53 ASN54 ASN55 GLN56 PHE57 SER58 SER59 LEU60 ILE61 ASN62 GLN63 LEU64 LYS65 SER66 GLN67 ILE68 SER69 SER70 LYS71 ILE72 ASP73 GLU74 VAL75 TRP76 HIS77 ILE78 HIS79 ASN80 ILE81 ASN82 ILE83 SER84 GLU85 PHE86 ILE87 TYR88 ASP89 SER90 PRO91 HIS92 PHE93 ASP94 SER95 ILE96 LYS97 SER98 GLN99 VAL100 ASP101 ASN102 ALA103 ILE104 ASP105 THR106 GLY107 VAL108 ASP109 GLY110 ILE111 MSE112 LEU113 VAL114 LEU115 PRO116 GLU117 TYR118 ASN119 THR120 PRO121 LEU122 TYR123 TYR124 LYS125 LEU126 LYS127 SER128 TYR129 LEU130 ILE131 ASN132 SER133 ILE134 PRO135 SER136 GLN137 PHE138 MSE139 ARG140 TYR141 ASP142 ILE143 LEU144 SER145 ASN146 ARG147 ASN148 LEU149 THR150 PHE151 TYR152 VAL153 ASP154 ASN155 LEU156 LEU157 VAL158 GLN159 PHE160 VAL161 SER162 LYS163 LEU164 GLY165 GLY166 LYS167 PRO168 TRP169 ILE170 LEU171 ASN172 VAL173 ASP174 PRO175 GLU176 LYS177 GLY178 SER179 ASP180 ILE181 ILE182 ILE183 GLY184 THR185 GLY186 ALA187 THR188 ARG189 ILE190 ASP191 ASN192 VAL193 ASN194 LEU195 PHE196 CYS197 PHE198 ALA199 MSE200 VAL201 PHE202 LYS203 LYS204 ASP205 GLY206 THR207 MSE208 LEU209 TRP210 ASN211 GLU212 ILE213 SER214 PRO215 ILE216 VAL217 THR218 SER219 SER220 GLU221 TYR222 LEU223 THR224 TYR225 LEU226 LYS227 SER228 THR229 ILE230 LYS231 LYS232 VAL233 VAL234 TYR235 GLY236 PHE237 LYS238 LYS239 SER240 ASN241 PRO242 ASP243 TRP244 ASP245 VAL246 GLU247 LYS248 LEU249 THR250 LEU251 HIS252 VAL253 SER254 GLY255 LYS256 ARG257 PRO258 LYS259 MSE260 LYS261 ASP262 GLY263 GLU264 THR265 LYS266 ILE267 LEU268 LYS269 GLU270 THR271 VAL272 GLU273 GLU274 LEU275 LYS276 LYS277 GLN278 GLU279 MSE280 VAL281 SER282 ARG283 ASP284 VAL285 LYS286 TYR287 ALA288 ILE289 LEU290 HIS291 LEU292 ASN293 GLU294 THR295 HIS296 PRO297 PHE298 TRP299 VAL300 MSE301 GLY302 ASP303 PRO310 TYR311 GLU312 GLY313 THR314 LYS315 VAL316 LYS317 LEU318 SER319 SER320 LYS321 ARG322 TYR323 LEU324 LEU325 THR326 LEU327 LEU328 GLN329 PRO330 TYR331 PRO342 ILE343 LYS344 PRO345 LEU346 SER347 VAL348 GLU349 ILE350 VAL351 SER352 ASP353 ASN354 TRP355 THR356 SER357 GLU358 GLU359 TYR360 TYR361 HIS362 ASN363 VAL364 HIS365 GLU366 ILE367 LEU368 ASP369 GLU370 ILE371 TYR372 TYR373 LEU374 SER375 LYS376 MSE377 ASN378 TRP379 ARG380 GLY381 PHE382 ARG383 SER384 ARG385 ASN386 LEU387 PRO388 VAL389 THR390 VAL391 ASN392 TYR393 PRO394 LYS395 LEU396 VAL397 ALA398 GLY399 ILE400 ILE401 ALA402 ASN403 VAL404 ASN405 ARG406 TYR407 GLY408 GLY409 TYR410 PRO411 ILE412 ASN413 PRO414 GLU415 GLY416 ASN417 ARG418 SER419 LEU420 GLN421 THR422 ASN423 PRO424 TRP425 PHE426 LEU427
Unit 6 MSE1 MSE2 GLU3 TYR4 LYS5 ILE6 VAL7 GLU8 ASN9 GLY10 LEU11 THR12 TYR13 ARG14 ILE15 GLY16 ASN17 GLY18 ALA19 SER20 VAL21 PRO22 ILE23 SER24 ASN25 THR26 GLY27 GLU28 LEU29 ILE30 LYS31 GLY32 LEU33 ARG34 ASN35 TYR36 GLY37 PRO38 TYR39 GLU40 VAL41 PRO42 SER43 LEU44 LYS45 TYR46 ASN47 GLN48 ILE49 ALA50 LEU51 ILE52 HIS53 ASN54 ASN55 GLN56 PHE57 SER58 SER59 LEU60 ILE61 ASN62 GLN63 LEU64 LYS65 SER66 GLN67 ILE68 SER69 SER70 LYS71 ILE72 ASP73 GLU74 VAL75 TRP76 HIS77 ILE78 HIS79 ASN80 ILE81 ASN82 ILE83 SER84 GLU85 PHE86 ILE87 TYR88 ASP89 SER90 PRO91 HIS92 PHE93 ASP94 SER95 ILE96 LYS97 SER98 GLN99 VAL100 ASP101 ASN102 ALA103 ILE104 ASP105 THR106 GLY107 VAL108 ASP109 GLY110 ILE111 MSE112 LEU113 VAL114 LEU115 PRO116 GLU117 TYR118 ASN119 THR120 PRO121 LEU122 TYR123 TYR124 LYS125 LEU126 LYS127 SER128 TYR129 LEU130 ILE131 ASN132 SER133 ILE134 PRO135 SER136 GLN137 PHE138 MSE139 ARG140 TYR141 ASP142 ILE143 LEU144 SER145 ASN146 ARG147 ASN148 LEU149 THR150 PHE151 TYR152 VAL153 ASP154 ASN155 LEU156 LEU157 VAL158 GLN159 PHE160 VAL161 SER162 LYS163 LEU164 GLY165 GLY166 LYS167 PRO168 TRP169 ILE170 LEU171 ASN172 VAL173 ASP174 PRO175 GLU176 LYS177 GLY178 SER179 ASP180 ILE181 ILE182 ILE183 GLY184 THR185 GLY186 ALA187 THR188 ARG189 ILE190 ASP191 ASN192 VAL193 ASN194 LEU195 PHE196 CYS197 PHE198 ALA199 MSE200 VAL201 PHE202 LYS203 LYS204 ASP205 GLY206 THR207 MSE208 LEU209 TRP210 ASN211 GLU212 ILE213 SER214 PRO215 ILE216 VAL217 THR218 SER219 SER220 GLU221 TYR222 LEU223 THR224 TYR225 LEU226 LYS227 SER228 THR229 ILE230 LYS231 LYS232 VAL233 VAL234 TYR235 GLY236 PHE237 LYS238 LYS239 SER240 ASN241 PRO242 ASP243 TRP244 ASP245 VAL246 GLU247 LYS248 LEU249 THR250 LEU251 HIS252 VAL253 SER254 GLY255 LYS256 ARG257 PRO258 LYS259 MSE260 LYS261 ASP262 GLY263 GLU264 THR265 LYS266 ILE267 LEU268 LYS269 GLU270 THR271 VAL272 GLU273 GLU274 LEU275 LYS276 LYS277 GLN278 GLU279 MSE280 VAL281 SER282 ARG283 ASP284 VAL285 LYS286 TYR287 ALA288 ILE289 LEU290 HIS291 LEU292 ASN293 GLU294 THR295 HIS296 PRO297 PHE298 TRP299 VAL300 MSE301 GLY302 ASP303 PRO304 ASN305 ASN306 ARG307 PHE308 HIS309 PRO310 TYR311 GLU312 GLY313 THR314 LYS315 VAL316 LYS317 LEU318 SER319 SER320 LYS321 ARG322 TYR323 LEU324 LEU325 THR326 LEU327 LEU328 GLN329 PRO330 TYR331 LEU332 LYS333 ARG334 ASN335 GLY336 LEU337 GLU338 MSE339 VAL340 THR341 PRO342 ILE343 LYS344 PRO345 LEU346 SER347 VAL348 GLU349 ILE350 VAL351 SER352 ASP353 ASN354 TRP355 THR356 SER357 GLU358 GLU359 TYR360 TYR361 HIS362 ASN363 VAL364 HIS365 GLU366 ILE367 LEU368 ASP369 GLU370 ILE371 TYR372 TYR373 LEU374 SER375 LYS376 MSE377 ASN378 TRP379 ARG380 GLY381 PHE382 ARG383 SER384 ARG385 ASN386 LEU387 PRO388 VAL389 THR390 VAL391 ASN392 TYR393 PRO394 LYS395 LEU396 VAL397 ALA398 GLY399 ILE400 ILE401 ALA402 ASN403 VAL404 ASN405 ARG406 TYR407 GLY408 GLY409 TYR410 PRO411 ILE412 ASN413 PRO414 GLU415 GLY416 ASN417 ARG418 SER419 LEU420 GLN421 THR422 ASN423 PRO424 TRP425 PHE426 LEU427
Nucleic acids
Unit 1 A1 G2 A3 C4 A5
Unit 2 U15 G16 U17 C18
Unit 3 A1 G2 A3 C4 A5 G6
Unit 4 U15 G16 U17 C18
Ligands
Unit 7 MG428
Unit 8 MG428
Chirality of ribose and phosphate atoms

Check the naming of phosphate and ribose substituents. Recommended for phosphate oxygens and for ribose hydrogens in NMR structures.

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Perl script:    PDBscan.pl  (15 Sep 2016)
Author:    Peter Slickers  (slickers@leibniz-fli.de),  IMB Jena,  Germany