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Sequence, Chains, Asymmetric and Biological Units

Title HUMAN APRATAXIN (APTX) BOUND TO RNA-DNA AND ZN - ADENOSINE V TRANSITION STATE MIMIC COMPLEX
Keywords PROTEIN-DNA COMPLEX, DNA REPAIR, 5'-DNA END PROCESSING, HIST TRIAD DOMAIN, HIT DOMAIN, ZINC FINGER, 5'-DNA END RECOGNITI BINDING PROTEIN-RNA-DNA COMPLEX
Experiment X-ray diffraction
Number of Models  1

   Database       ID code    StatusCoordinate files
        Header     Asymmetric unit     Biological unit  
PDB   4NDG     released     available     available     Quaternary Structure Server  
Asymmetric unit from PDB
 Unit     Type     Name   Chain ID   Residues   Atoms   Hetatoms 
1  Protein   APRATAXIN  A 178 1464 0
2  Protein   APRATAXIN  B 177 1457 0
3  RNA    D 10 207 0
4  Other macromolecule   5'-D(*GP*AP*AP*TP*CP*AP*TP*AP*AP*C)-3'  E 10 202 0
5  RNA    G 10 207 0
6  Other macromolecule   5'-D(*GP*AP*AP*TP*CP*AP*TP*AP*AP*C)-3'  H 10 202 0
7  Ligand   APRATAXIN  A 2 0 23
8  Ligand   APRATAXIN  B 2 0 23
9 Water     24 0 25
total       423 3739 71
Proteins
Unit 1 MET164 GLY165 HIS166 TRP167 SER168 GLN169 GLY170 LEU171 LYS172 ILE173 SER174 MET175 GLN176 ASP177 PRO178 LYS179 MET180 GLN181 VAL182 TYR183 LYS184 ASP185 GLU186 GLN187 VAL188 VAL189 VAL190 ILE191 LYS192 ASP193 LYS194 TYR195 PRO196 LYS197 ALA198 ARG199 TYR200 HIS201 TRP202 LEU203 VAL204 LEU205 PRO206 TRP207 THR208 SER209 ILE210 SER211 SER212 LEU213 LYS214 ALA215 VAL216 ALA217 ARG218 GLU219 HIS220 LEU221 GLU222 LEU223 LEU224 LYS225 HIS226 MET227 HIS228 THR229 VAL230 GLY231 GLU232 LYS233 VAL234 ILE235 VAL236 ASP237 PHE238 ALA239 GLY240 SER241 SER242 LYS243 LEU244 ARG245 PHE246 ARG247 LEU248 GLY249 TYR250 HIS251 ALA252 ILE253 PRO254 SER255 MET256 SER257 HIS258 VAL259 HIS260 LEU261 HIS262 VAL263 ILE264 SER265 GLN266 ASP267 PHE268 ASP269 SER270 PRO271 CYS272 LEU273 LYS274 ASN275 LYS276 LYS277 HIS278 TRP279 ASN280 SER281 PHE282 ASN283 THR284 GLU285 TYR286 PHE287 LEU288 GLU289 SER290 GLN291 ALA292 VAL293 ILE294 GLU295 MET296 VAL297 GLN298 GLU299 ALA300 GLY301 ARG302 VAL303 THR304 VAL305 ARG306 ASP307 GLY308 MET309 PRO310 GLU311 LEU312 LEU313 LYS314 LEU315 PRO316 LEU317 ARG318 CYS319 HIS320 GLU321 CYS322 GLN323 GLN324 LEU325 LEU326 PRO327 SER328 ILE329 PRO330 GLN331 LEU332 LYS333 GLU334 HIS335 LEU336 ARG337 LYS338 HIS339 TRP340 THR341
Unit 2 MET164 GLY165 HIS166 TRP167 SER168 GLN169 GLY170 LEU171 LYS172 ILE173 SER174 MET175 GLN176 ASP177 PRO178 LYS179 MET180 GLN181 VAL182 TYR183 LYS184 ASP185 GLU186 GLN187 VAL188 VAL189 VAL190 ILE191 LYS192 ASP193 LYS194 TYR195 PRO196 LYS197 ALA198 ARG199 TYR200 HIS201 TRP202 LEU203 VAL204 LEU205 PRO206 TRP207 THR208 SER209 ILE210 SER211 SER212 LEU213 LYS214 ALA215 VAL216 ALA217 ARG218 GLU219 HIS220 LEU221 GLU222 LEU223 LEU224 LYS225 HIS226 MET227 HIS228 THR229 VAL230 GLY231 GLU232 LYS233 VAL234 ILE235 VAL236 ASP237 PHE238 ALA239 GLY240 SER241 SER242 LYS243 LEU244 ARG245 PHE246 ARG247 LEU248 GLY249 TYR250 HIS251 ALA252 ILE253 PRO254 SER255 MET256 SER257 HIS258 VAL259 HIS260 LEU261 HIS262 VAL263 ILE264 SER265 GLN266 ASP267 PHE268 ASP269 SER270 PRO271 CYS272 LEU273 LYS274 ASN275 LYS276 LYS277 HIS278 TRP279 ASN280 SER281 PHE282 ASN283 THR284 GLU285 TYR286 PHE287 LEU288 GLU289 SER290 GLN291 ALA292 VAL293 ILE294 GLU295 MET296 VAL297 GLN298 GLU299 ALA300 GLY301 ARG302 VAL303 THR304 VAL305 ARG306 ASP307 GLY308 MET309 PRO310 GLU311 LEU312 LEU313 LYS314 LEU315 PRO316 LEU317 ARG318 CYS319 HIS320 GLU321 CYS322 GLN323 GLN324 LEU325 LEU326 PRO327 SER328 ILE329 PRO330 GLN331 LEU332 LYS333 GLU334 HIS335 LEU336 ARG337 LYS338 HIS339 TRP340
Nucleic acids
Unit 3 G1 DT2 DT3 DA4 DT5 DG6 DA7 DT8 DT9 DC10
Unit 5 G1 DT2 DT3 DA4 DT5 DG6 DA7 DT8 DT9 DC10
Other macromolecules
Unit 4 DG1 DA2 DA3 DT4 DC5 DA6 DT7 DA8 DA9 DC10
Unit 6 DG1 DA2 DA3 DT4 DC5 DA6 DT7 DA8 DA9 DC10
Ligands
Unit 7 V5A401 ZN402
Unit 8 V5A401 ZN402
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