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Sequence, Chains, Units

Title COCRYSTAL STRUCTURE OF AN RNA SULFURATION ENZYME MNMA AND TRNA-GLU IN THE ADENYLATED INTERMEDIATE STATE
Keywords PROTEIN-RNA COMPLEX, ADENYLATED INTERMEDIATE OF RNA, TRANSFERASE/RNA COMPLEX
Experiment X-ray diffraction
Number of Models  1

   Database       ID code    StatusCoordinate files
        Header     Asymmetric unit     Biological unit  
PDB   2DEU     released     available     available     Quaternary Structure Server  
Asymmetric unit from PDB
 Unit     Type     Name   Chain ID   Residues   Atoms   Hetatoms 
1  RNA    C 74 1573 0
2  RNA    D 74 1573 0
3  Protein   TRNA-SPECIFIC 2-THIOURIDYLASE MNMA  A 364 2854 0
4  Protein   TRNA-SPECIFIC 2-THIOURIDYLASE MNMA  B 364 2854 0
5  Ligand   TRNA-SPECIFIC 2-THIOURIDYLASE MNMA  A 1 0 5
6  Ligand   TRNA-SPECIFIC 2-THIOURIDYLASE MNMA  B 1 0 5
7  Ligand   TRNA  C 1 0 22
8  Ligand   TRNA  D 1 0 22
total       880 8854 54
Proteins
Unit 3   ALA5 LYS6 LYS7 VAL8 ILE9 VAL10 GLY11 MET12 SER13 GLY14 GLY15 VAL16 ASP17 SER18 SER19 VAL20 SER21 ALA22 TRP23 LEU24 LEU25 GLN26 GLN27 GLN28 GLY29 TYR30 GLN31 VAL32 GLU33 GLY34 LEU35 PHE36 MET37 LYS38 ASN39 TRP40 GLU41 GLU42 ASP43 ASP44 GLY45 GLU46 GLU47 TYR48 CYS49 THR50 ALA51 ALA52 ALA53 ASP54 LEU55 ALA56 ASP57 ALA58 GLN59 ALA60 VAL61 CYS62 ASP63 LYS64 LEU65 GLY66 ILE67 GLU68 LEU69 HIS70 THR71 VAL72 ASN73 PHE74 ALA75 ALA76 GLU77 TYR78 TRP79 ASP80 ASN81 VAL82 PHE83 GLU84 LEU85 PHE86 LEU87 ALA88 GLU89 TYR90 LYS91 ALA92 GLY93 ARG94 THR95 PRO96 ASN97 PRO98 ASP99 ILE100 LEU101 CYS102 ASN103 LYS104 GLU105 ILE106 LYS107 PHE108 LYS109 ALA110 PHE111 LEU112 GLU113 PHE114 ALA115 ALA116 GLU117 ASP118 LEU119 GLY120 ALA121 ASP122 TYR123 ILE124 ALA125 THR126 GLY127 HIS128 TYR129 VAL130 ARG131 ARG132 ALA133 ASP134 VAL135 ASP136 GLY137 LYS138 SER139 ARG140 LEU141 LEU142 ARG143 GLY144 LEU145 ASP146 SER147 ASN148 LYS149 ASP150 GLN151 SER152 TYR153 PHE154 LEU155 TYR156 THR157 LEU158 SER159 HIS160 GLU161 GLN162 ILE163 ALA164 GLN165 SER166 LEU167 PHE168 PRO169 VAL170 GLY171 GLU172 LEU173 GLU174 LYS175 PRO176 GLN177 VAL178 ARG179 LYS180 ILE181 ALA182 GLU183 ASP184 LEU185 GLY186 LEU187 VAL188 THR189 ALA190 LYS191 LYS192 LYS193 ASP194 SER195 THR196 GLY197 ILE198 CYS199 PHE200 ILE201 GLY202 GLU203 ARG204 LYS205 PHE206 ARG207 GLU208 PHE209 LEU210 GLY211 ARG212 TYR213 LEU214 PRO215 ALA216 GLN217 PRO218 GLY219 LYS220 ILE221 ILE222 THR223 VAL224 ASP225 GLY226 ASP227 GLU228 ILE229 GLY230 GLU231 HIS232 GLN233 GLY234 LEU235 MET236 TYR237 HIS238 THR239 LEU240 GLY241 GLN242 ARG243 LYS244 GLY245 LEU246 GLY247 ILE248 GLY249 GLY250 THR251 LYS252 GLU253 GLY254 THR255 GLU256 GLU257 PRO258 TRP259 TYR260 VAL261 VAL262 ASP263 LYS264 ASP265 VAL266 GLU267 ASN268 ASN269 ILE270 LEU271 VAL272 VAL273 ALA274 GLN275 GLY276 HIS277 GLU278 HIS279 PRO280 ARG281 LEU282 MET283 SER284 VAL285 GLY286 LEU287 ILE288 ALA289 GLN290 GLN291 LEU292 HIS293 TRP294 VAL295 ASP296 ARG297 GLU298 PRO299 PHE300 THR301 GLY302 THR303 MET304 ARG305 CYS306 THR307 VAL308 LYS309 THR310 ARG311 TYR312 ARG313 GLN314 THR315 ASP316 ILE317 PRO318 CYS319 THR320 VAL321 LYS322 ALA323 LEU324 ASP325 ASP326 ASP327 ARG328 ILE329 GLU330 VAL331 ILE332 PHE333 ASP334 GLU335 PRO336 VAL337 ALA338 ALA339 VAL340 THR341 PRO342 GLY343 GLN344 SER345 ALA346 VAL347 PHE348 TYR349 ASN350 GLY351 GLU352 VAL353 CYS354 LEU355 GLY356 GLY357 GLY358 ILE359 ILE360 GLU361 GLN362 ARG363 LEU364 PRO365 LEU366 PRO367 VAL368
Unit 4   ALA5 LYS6 LYS7 VAL8 ILE9 VAL10 GLY11 MET12 SER13 GLY14 GLY15 VAL16 ASP17 SER18 SER19 VAL20 SER21 ALA22 TRP23 LEU24 LEU25 GLN26 GLN27 GLN28 GLY29 TYR30 GLN31 VAL32 GLU33 GLY34 LEU35 PHE36 MET37 LYS38 ASN39 TRP40 GLU41 GLU42 ASP43 ASP44 GLY45 GLU46 GLU47 TYR48 CYS49 THR50 ALA51 ALA52 ALA53 ASP54 LEU55 ALA56 ASP57 ALA58 GLN59 ALA60 VAL61 CYS62 ASP63 LYS64 LEU65 GLY66 ILE67 GLU68 LEU69 HIS70 THR71 VAL72 ASN73 PHE74 ALA75 ALA76 GLU77 TYR78 TRP79 ASP80 ASN81 VAL82 PHE83 GLU84 LEU85 PHE86 LEU87 ALA88 GLU89 TYR90 LYS91 ALA92 GLY93 ARG94 THR95 PRO96 ASN97 PRO98 ASP99 ILE100 LEU101 CYS102 ASN103 LYS104 GLU105 ILE106 LYS107 PHE108 LYS109 ALA110 PHE111 LEU112 GLU113 PHE114 ALA115 ALA116 GLU117 ASP118 LEU119 GLY120 ALA121 ASP122 TYR123 ILE124 ALA125 THR126 GLY127 HIS128 TYR129 VAL130 ARG131 ARG132 ALA133 ASP134 VAL135 ASP136 GLY137 LYS138 SER139 ARG140 LEU141 LEU142 ARG143 GLY144 LEU145 ASP146 SER147 ASN148 LYS149 ASP150 GLN151 SER152 TYR153 PHE154 LEU155 TYR156 THR157 LEU158 SER159 HIS160 GLU161 GLN162 ILE163 ALA164 GLN165 SER166 LEU167 PHE168 PRO169 VAL170 GLY171 GLU172 LEU173 GLU174 LYS175 PRO176 GLN177 VAL178 ARG179 LYS180 ILE181 ALA182 GLU183 ASP184 LEU185 GLY186 LEU187 VAL188 THR189 ALA190 LYS191 LYS192 LYS193 ASP194 SER195 THR196 GLY197 ILE198 CYS199 PHE200 ILE201 GLY202 GLU203 ARG204 LYS205 PHE206 ARG207 GLU208 PHE209 LEU210 GLY211 ARG212 TYR213 LEU214 PRO215 ALA216 GLN217 PRO218 GLY219 LYS220 ILE221 ILE222 THR223 VAL224 ASP225 GLY226 ASP227 GLU228 ILE229 GLY230 GLU231 HIS232 GLN233 GLY234 LEU235 MET236 TYR237 HIS238 THR239 LEU240 GLY241 GLN242 ARG243 LYS244 GLY245 LEU246 GLY247 ILE248 GLY249 GLY250 THR251 LYS252 GLU253 GLY254 THR255 GLU256 GLU257 PRO258 TRP259 TYR260 VAL261 VAL262 ASP263 LYS264 ASP265 VAL266 GLU267 ASN268 ASN269 ILE270 LEU271 VAL272 VAL273 ALA274 GLN275 GLY276 HIS277 GLU278 HIS279 PRO280 ARG281 LEU282 MET283 SER284 VAL285 GLY286 LEU287 ILE288 ALA289 GLN290 GLN291 LEU292 HIS293 TRP294 VAL295 ASP296 ARG297 GLU298 PRO299 PHE300 THR301 GLY302 THR303 MET304 ARG305 CYS306 THR307 VAL308 LYS309 THR310 ARG311 TYR312 ARG313 GLN314 THR315 ASP316 ILE317 PRO318 CYS319 THR320 VAL321 LYS322 ALA323 LEU324 ASP325 ASP326 ASP327 ARG328 ILE329 GLU330 VAL331 ILE332 PHE333 ASP334 GLU335 PRO336 VAL337 ALA338 ALA339 VAL340 THR341 PRO342 GLY343 GLN344 SER345 ALA346 VAL347 PHE348 TYR349 ASN350 GLY351 GLU352 VAL353 CYS354 LEU355 GLY356 GLY357 GLY358 ILE359 ILE360 GLU361 GLN362 ARG363 LEU364 PRO365 LEU366 PRO367 VAL368
Nucleic acids
Unit 1   G1 U2 C3 C4 C5 C6 U7 U8 C9 G10 U11 C12 U13 A14 G15 A16 G17 G18 C19 C20 C20A A21 G22 G23 A24 C25 A26 C27 C28 G29 C30 C31 C32 U33 U34 U35 C36 A37 C38 G39 G40 C41 G42 G43 U44 A45 A46 C47 A49 G50 G51 G52 G53 U54 U55 C56 G57 A58 A59 U60 C61 C62 C63 C64 U65 A66 G67 G68 G69 G70 A71 C72 G73 C74
Unit 2   G1 U2 C3 C4 C5 C6 U7 U8 C9 G10 U11 C12 U13 A14 G15 A16 G17 G18 C19 C20 C20A A21 G22 G23 A24 C25 A26 C27 C28 G29 C30 C31 C32 U33 U34 U35 C36 A37 C38 G39 G40 C41 G42 G43 U44 A45 A46 C47 A49 G50 G51 G52 G53 U54 U55 C56 G57 A58 A59 U60 C61 C62 C63 C64 U65 A66 G67 G68 G69 G70 A71 C72 G73 C74
Ligands
Unit 5   SO45001
Unit 6   SO45002
Unit 7   AMP134
Unit 8   AMP134
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