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Sequence, Chains, Asymmetric and Biological Units

Title THE CRYSTAL STRUCTURE OF THE EXON JUNCTION COMPLEX AT 3.2 A RESOLUTION
Keywords HYDROLASE, MRNA PROCESSING, MRNA SPLICING, MRNA TRANSPORT, N PROTEIN, DEAD-BOX HELICASE, RNA-BINDING
Experiment X-ray diffraction
Number of Models  1

   Database       ID code    StatusCoordinate files
        Header     Asymmetric unit     Biological unit  
PDB   2J0Q     released     available     available     Quaternary Structure Server  
Asymmetric unit from PDB
 Unit     Type     Name   Chain ID   Residues   Atoms   Hetatoms 
1  Protein   ATP-DEPENDENT RNA HELICASE DDX48  A 390 3073 0
2  Protein   ATP-DEPENDENT RNA HELICASE DDX48  B 390 3081 0
3  Protein   PROTEIN MAGO NASHI HOMOLOG  C 143 1178 0
4  Protein   RNA-BINDING PROTEIN 8A  D 89 688 0
5  RNA    E 6 121 0
6  Protein   PROTEIN MAGO NASHI HOMOLOG  F 143 1178 0
7  Protein   RNA-BINDING PROTEIN 8A  G 89 688 0
8  RNA    H 6 121 0
9  Protein   PROTEIN CASC3  I 63 495 0
10  Protein   PROTEIN CASC3  T 65 538 0
11  Ligand   ATP-DEPENDENT RNA HELICASE DDX48  A 2 0 32
12  Ligand   ATP-DEPENDENT RNA HELICASE DDX48  B 2 0 32
13 Water     1 0 1
total       1389 11161 65
Proteins
Unit 1 ASP22 MET23 THR24 LYS25 VAL26 GLU27 PHE28 GLU29 THR30 SER31 GLU32 GLU33 VAL34 ASP35 VAL36 THR37 PRO38 THR39 PHE40 ASP41 THR42 MET43 GLY44 LEU45 ARG46 GLU47 ASP48 LEU49 LEU50 ARG51 GLY52 ILE53 TYR54 ALA55 TYR56 GLY57 PHE58 GLU59 LYS60 PRO61 SER62 ALA63 ILE64 GLN65 GLN66 ARG67 ALA68 ILE69 LYS70 GLN71 ILE72 ILE73 LYS74 GLY75 ARG76 ASP77 VAL78 ILE79 ALA80 GLN81 SER82 GLN83 SER84 GLY85 THR86 GLY87 LYS88 THR89 ALA90 THR91 PHE92 SER93 ILE94 SER95 VAL96 LEU97 GLN98 CYS99 LEU100 ASP101 ILE102 GLN103 VAL104 ARG105 GLU106 THR107 GLN108 ALA109 LEU110 ILE111 LEU112 ALA113 PRO114 THR115 ARG116 GLU117 LEU118 ALA119 VAL120 GLN121 ILE122 GLN123 LYS124 GLY125 LEU126 LEU127 ALA128 LEU129 GLY130 ASP131 TYR132 MET133 ASN134 VAL135 GLN136 CYS137 HIS138 ALA139 CYS140 ILE141 GLY142 GLY143 THR144 ASN145 VAL146 GLY147 GLU148 ASP149 ILE150 ARG151 LYS152 LEU153 ASP154 TYR155 GLY156 GLN157 HIS158 VAL159 VAL160 ALA161 GLY162 THR163 PRO164 GLY165 ARG166 VAL167 PHE168 ASP169 MET170 ILE171 ARG172 ARG173 ARG174 SER175 LEU176 ARG177 THR178 ARG179 ALA180 ILE181 LYS182 MET183 LEU184 VAL185 LEU186 ASP187 GLU188 ALA189 ASP190 GLU191 MET192 LEU193 ASN194 LYS195 GLY196 PHE197 LYS198 GLU199 GLN200 ILE201 TYR202 ASP203 VAL204 TYR205 ARG206 TYR207 LEU208 PRO209 PRO210 ALA211 THR212 GLN213 VAL214 VAL215 LEU216 ILE217 SER218 ALA219 THR220 LEU221 PRO222 HIS223 GLU224 ILE225 LEU226 GLU227 MET228 THR229 ASN230 LYS231 PHE232 MET233 THR234 ASP235 PRO236 ILE237 ARG238 ILE239 LEU240 VAL241 LYS242 ARG243 ASP244 GLU245 LEU246 THR247 LEU248 GLU249 GLY250 ILE251 LYS252 GLN253 PHE254 PHE255 VAL256 ALA257 VAL258 GLU259 ARG260 GLU261 GLU262 TRP263 LYS264 PHE265 ASP266 THR267 LEU268 CYS269 ASP270 LEU271 TYR272 ASP273 THR274 LEU275 THR276 ILE277 THR278 GLN279 ALA280 VAL281 ILE282 PHE283 CYS284 ASN285 THR286 LYS287 ARG288 LYS289 VAL290 ASP291 TRP292 LEU293 THR294 GLU295 LYS296 MET297 ARG298 GLU299 ALA300 ASN301 PHE302 THR303 VAL304 SER305 SER306 MET307 HIS308 GLY309 ASP310 MET311 PRO312 GLN313 LYS314 GLU315 ARG316 GLU317 SER318 ILE319 MET320 LYS321 GLU322 PHE323 ARG324 SER325 GLY326 ALA327 SER328 ARG329 VAL330 LEU331 ILE332 SER333 THR334 ASP335 VAL336 TRP337 ALA338 ARG339 GLY340 LEU341 ASP342 VAL343 PRO344 GLN345 VAL346 SER347 LEU348 ILE349 ILE350 ASN351 TYR352 ASP353 LEU354 PRO355 ASN356 ASN357 ARG358 GLU359 LEU360 TYR361 ILE362 HIS363 ARG364 ILE365 GLY366 ARG367 SER368 GLY369 ARG370 TYR371 GLY372 ARG373 LYS374 GLY375 VAL376 ALA377 ILE378 ASN379 PHE380 VAL381 LYS382 ASN383 ASP384 ASP385 ILE386 ARG387 ILE388 LEU389 ARG390 ASP391 ILE392 GLU393 GLN394 TYR395 TYR396 SER397 THR398 GLN399 ILE400 ASP401 GLU402 MET403 PRO404 MET405 ASN406 VAL407 ALA408 ASP409 LEU410 ILE411
Unit 2 ASP22 MET23 THR24 LYS25 VAL26 GLU27 PHE28 GLU29 THR30 SER31 GLU32 GLU33 VAL34 ASP35 VAL36 THR37 PRO38 THR39 PHE40 ASP41 THR42 MET43 GLY44 LEU45 ARG46 GLU47 ASP48 LEU49 LEU50 ARG51 GLY52 ILE53 TYR54 ALA55 TYR56 GLY57 PHE58 GLU59 LYS60 PRO61 SER62 ALA63 ILE64 GLN65 GLN66 ARG67 ALA68 ILE69 LYS70 GLN71 ILE72 ILE73 LYS74 GLY75 ARG76 ASP77 VAL78 ILE79 ALA80 GLN81 SER82 GLN83 SER84 GLY85 THR86 GLY87 LYS88 THR89 ALA90 THR91 PHE92 SER93 ILE94 SER95 VAL96 LEU97 GLN98 CYS99 LEU100 ASP101 ILE102 GLN103 VAL104 ARG105 GLU106 THR107 GLN108 ALA109 LEU110 ILE111 LEU112 ALA113 PRO114 THR115 ARG116 GLU117 LEU118 ALA119 VAL120 GLN121 ILE122 GLN123 LYS124 GLY125 LEU126 LEU127 ALA128 LEU129 GLY130 ASP131 TYR132 MET133 ASN134 VAL135 GLN136 CYS137 HIS138 ALA139 CYS140 ILE141 GLY142 GLY143 THR144 ASN145 VAL146 GLY147 GLU148 ASP149 ILE150 ARG151 LYS152 LEU153 ASP154 TYR155 GLY156 GLN157 HIS158 VAL159 VAL160 ALA161 GLY162 THR163 PRO164 GLY165 ARG166 VAL167 PHE168 ASP169 MET170 ILE171 ARG172 ARG173 ARG174 SER175 LEU176 ARG177 THR178 ARG179 ALA180 ILE181 LYS182 MET183 LEU184 VAL185 LEU186 ASP187 GLU188 ALA189 ASP190 GLU191 MET192 LEU193 ASN194 LYS195 GLY196 PHE197 LYS198 GLU199 GLN200 ILE201 TYR202 ASP203 VAL204 TYR205 ARG206 TYR207 LEU208 PRO209 PRO210 ALA211 THR212 GLN213 VAL214 VAL215 LEU216 ILE217 SER218 ALA219 THR220 LEU221 PRO222 HIS223 GLU224 ILE225 LEU226 GLU227 MET228 THR229 ASN230 LYS231 PHE232 MET233 THR234 ASP235 PRO236 ILE237 ARG238 ILE239 LEU240 VAL241 LYS242 ARG243 ASP244 GLU245 LEU246 THR247 LEU248 GLU249 GLY250 ILE251 LYS252 GLN253 PHE254 PHE255 VAL256 ALA257 VAL258 GLU259 ARG260 GLU261 GLU262 TRP263 LYS264 PHE265 ASP266 THR267 LEU268 CYS269 ASP270 LEU271 TYR272 ASP273 THR274 LEU275 THR276 ILE277 THR278 GLN279 ALA280 VAL281 ILE282 PHE283 CYS284 ASN285 THR286 LYS287 ARG288 LYS289 VAL290 ASP291 TRP292 LEU293 THR294 GLU295 LYS296 MET297 ARG298 GLU299 ALA300 ASN301 PHE302 THR303 VAL304 SER305 SER306 MET307 HIS308 GLY309 ASP310 MET311 PRO312 GLN313 LYS314 GLU315 ARG316 GLU317 SER318 ILE319 MET320 LYS321 GLU322 PHE323 ARG324 SER325 GLY326 ALA327 SER328 ARG329 VAL330 LEU331 ILE332 SER333 THR334 ASP335 VAL336 TRP337 ALA338 ARG339 GLY340 LEU341 ASP342 VAL343 PRO344 GLN345 VAL346 SER347 LEU348 ILE349 ILE350 ASN351 TYR352 ASP353 LEU354 PRO355 ASN356 ASN357 ARG358 GLU359 LEU360 TYR361 ILE362 HIS363 ARG364 ILE365 GLY366 ARG367 SER368 GLY369 ARG370 TYR371 GLY372 ARG373 LYS374 GLY375 VAL376 ALA377 ILE378 ASN379 PHE380 VAL381 LYS382 ASN383 ASP384 ASP385 ILE386 ARG387 ILE388 LEU389 ARG390 ASP391 ILE392 GLU393 GLN394 TYR395 TYR396 SER397 THR398 GLN399 ILE400 ASP401 GLU402 MET403 PRO404 MET405 ASN406 VAL407 ALA408 ASP409 LEU410 ILE411
Unit 3 ASP4 PHE5 TYR6 LEU7 ARG8 TYR9 TYR10 VAL11 GLY12 HIS13 LYS14 GLY15 LYS16 PHE17 GLY18 HIS19 GLU20 PHE21 LEU22 GLU23 PHE24 GLU25 PHE26 ARG27 PRO28 ASP29 GLY30 LYS31 LEU32 ARG33 TYR34 ALA35 ASN36 ASN37 SER38 ASN39 TYR40 LYS41 ASN42 ASP43 VAL44 MET45 ILE46 ARG47 LYS48 GLU49 ALA50 TYR51 VAL52 HIS53 LYS54 SER55 VAL56 MET57 GLU58 GLU59 LEU60 LYS61 ARG62 ILE63 ILE64 ASP65 ASP66 SER67 GLU68 ILE69 THR70 LYS71 GLU72 ASP73 ASP74 ALA75 LEU76 TRP77 PRO78 PRO79 PRO80 ASP81 ARG82 VAL83 GLY84 ARG85 GLN86 GLU87 LEU88 GLU89 ILE90 VAL91 ILE92 GLY93 ASP94 GLU95 HIS96 ILE97 SER98 PHE99 THR100 THR101 SER102 LYS103 ILE104 GLY105 SER106 LEU107 ILE108 ASP109 VAL110 ASN111 GLN112 SER113 LYS114 ASP115 PRO116 GLU117 GLY118 LEU119 ARG120 VAL121 PHE122 TYR123 TYR124 LEU125 VAL126 GLN127 ASP128 LEU129 LYS130 CYS131 LEU132 VAL133 PHE134 SER135 LEU136 ILE137 GLY138 LEU139 HIS140 PHE141 LYS142 ILE143 LYS144 PRO145 ILE146
Unit 4 PRO66 GLN67 ARG68 SER69 VAL70 GLU71 GLY72 TRP73 ILE74 LEU75 PHE76 VAL77 THR78 GLY79 VAL80 HIS81 GLU82 GLU83 ALA84 THR85 GLU86 GLU87 ASP88 ILE89 HIS90 ASP91 LYS92 PHE93 ALA94 GLU95 TYR96 GLY97 GLU98 ILE99 LYS100 ASN101 ILE102 HIS103 LEU104 ASN105 LEU106 ASP107 ARG108 ARG109 THR110 GLY111 TYR112 LEU113 LYS114 GLY115 TYR116 THR117 LEU118 VAL119 GLU120 TYR121 GLU122 THR123 TYR124 LYS125 GLU126 ALA127 GLN128 ALA129 ALA130 MET131 GLU132 GLY133 LEU134 ASN135 GLY136 GLN137 ASP138 LEU139 MET140 GLY141 GLN142 PRO143 ILE144 SER145 VAL146 ASP147 TRP148 CYS149 PHE150 VAL151 ARG152 GLY153 PRO154
Unit 6 ASP4 PHE5 TYR6 LEU7 ARG8 TYR9 TYR10 VAL11 GLY12 HIS13 LYS14 GLY15 LYS16 PHE17 GLY18 HIS19 GLU20 PHE21 LEU22 GLU23 PHE24 GLU25 PHE26 ARG27 PRO28 ASP29 GLY30 LYS31 LEU32 ARG33 TYR34 ALA35 ASN36 ASN37 SER38 ASN39 TYR40 LYS41 ASN42 ASP43 VAL44 MET45 ILE46 ARG47 LYS48 GLU49 ALA50 TYR51 VAL52 HIS53 LYS54 SER55 VAL56 MET57 GLU58 GLU59 LEU60 LYS61 ARG62 ILE63 ILE64 ASP65 ASP66 SER67 GLU68 ILE69 THR70 LYS71 GLU72 ASP73 ASP74 ALA75 LEU76 TRP77 PRO78 PRO79 PRO80 ASP81 ARG82 VAL83 GLY84 ARG85 GLN86 GLU87 LEU88 GLU89 ILE90 VAL91 ILE92 GLY93 ASP94 GLU95 HIS96 ILE97 SER98 PHE99 THR100 THR101 SER102 LYS103 ILE104 GLY105 SER106 LEU107 ILE108 ASP109 VAL110 ASN111 GLN112 SER113 LYS114 ASP115 PRO116 GLU117 GLY118 LEU119 ARG120 VAL121 PHE122 TYR123 TYR124 LEU125 VAL126 GLN127 ASP128 LEU129 LYS130 CYS131 LEU132 VAL133 PHE134 SER135 LEU136 ILE137 GLY138 LEU139 HIS140 PHE141 LYS142 ILE143 LYS144 PRO145 ILE146
Unit 7 PRO66 GLN67 ARG68 SER69 VAL70 GLU71 GLY72 TRP73 ILE74 LEU75 PHE76 VAL77 THR78 GLY79 VAL80 HIS81 GLU82 GLU83 ALA84 THR85 GLU86 GLU87 ASP88 ILE89 HIS90 ASP91 LYS92 PHE93 ALA94 GLU95 TYR96 GLY97 GLU98 ILE99 LYS100 ASN101 ILE102 HIS103 LEU104 ASN105 LEU106 ASP107 ARG108 ARG109 THR110 GLY111 TYR112 LEU113 LYS114 GLY115 TYR116 THR117 LEU118 VAL119 GLU120 TYR121 GLU122 THR123 TYR124 LYS125 GLU126 ALA127 GLN128 ALA129 ALA130 MET131 GLU132 GLY133 LEU134 ASN135 GLY136 GLN137 ASP138 LEU139 MET140 GLY141 GLN142 PRO143 ILE144 SER145 VAL146 ASP147 TRP148 CYS149 PHE150 VAL151 ARG152 GLY153 PRO154
Unit 9 LYS168 HIS169 LEU170 ASP171 ASP172 ASP173 GLU174 ASP175 ARG176 LYS177 ASN178 PRO179 ALA180 TYR181 ILE182 PRO183 ARG184 LYS185 GLY186 LEU187 PHE188 PHE189 GLU190 HIS191 ASP192 LEU193 ARG194 GLY195 GLN196 GLU215 GLY216 ARG217 TRP218 GLU219 HIS220 ASP221 LYS222 PHE223 ARG224 GLU225 ASP226 GLU227 GLN228 ALA229 PRO230 LYS231 SER232 ARG233 GLN234 GLU235 LEU236 ILE237 ALA238 LEU239 TYR240 GLY241 TYR242 ASP243 ILE244 ARG245 SER246 ALA247 HIS248
Unit 10 LYS168 HIS169 LEU170 ASP171 ASP172 ASP173 GLU174 ASP175 ARG176 LYS177 ASN178 PRO179 ALA180 TYR181 ILE182 PRO183 ARG184 LYS185 GLY186 LEU187 PHE188 PHE189 GLU190 HIS191 ASP192 LEU193 ARG194 GLY195 GLN196 THR197 ASP214 GLU215 GLY216 ARG217 TRP218 GLU219 HIS220 ASP221 LYS222 PHE223 ARG224 GLU225 ASP226 GLU227 GLN228 ALA229 PRO230 LYS231 SER232 ARG233 GLN234 GLU235 LEU236 ILE237 ALA238 LEU239 TYR240 GLY241 TYR242 ASP243 ILE244 ARG245 SER246 ALA247 HIS248
Nucleic acids
Unit 5 U1 U2 U3 U4 U5 U6
Unit 8 U1 U2 U3 U4 U5 U6
Ligands
Unit 11 MG1412 ANP1413
Unit 12 MG1412 ANP1413
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