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Sequence, Chains, Asymmetric and Biological Units

Title CRYSTAL STRUCTURE ANALYSIS OF THE YEAST TYROSYL-DNA PHOSPHOD H432N_GLU MUTANT
Keywords PHOSPHODIESTERASE, DNA BINDING, NUCLEAR, HYDROLASE
Experiment X-ray diffraction
Number of Models  1

   Database       ID code    StatusCoordinate files
        Header     Asymmetric unit     Biological unit  
PDB   3SQ7     released     available     available     Quaternary Structure Server  
Asymmetric unit from PDB
 Unit     Type     Name   Chain ID   Residues   Atoms   Hetatoms 
1  Protein   TYROSYL-DNA PHOSPHODIESTERASE 1  A 432 3492 0
2  Protein   TYROSYL-DNA PHOSPHODIESTERASE 1  B 426 3454 0
3  Protein   TYROSYL-DNA PHOSPHODIESTERASE 1  C 430 3487 0
4  Protein   TYROSYL-DNA PHOSPHODIESTERASE 1  D 425 3451 0
5  Ligand   TYROSYL-DNA PHOSPHODIESTERASE 1  A 4 0 20
6  Ligand   TYROSYL-DNA PHOSPHODIESTERASE 1  B 1 0 5
7  Ligand   TYROSYL-DNA PHOSPHODIESTERASE 1  D 2 0 10
8 Water     744 0 744
total       2464 13884 779
Proteins
Unit 1 GLY79 ALA80 VAL81 PHE82 LYS83 LEU84 MET85 LYS86 SER87 ASP88 PHE89 TYR90 GLU91 ARG92 GLU93 ASP101 MET102 ILE103 THR104 LEU105 LYS106 ASP107 ILE108 PHE109 GLY110 THR111 GLU112 THR113 LEU114 LYS115 ARG116 SER117 ILE118 LEU119 PHE120 SER121 PHE122 GLN123 TYR124 GLU125 LEU126 ASP127 PHE128 LEU129 LEU130 ARG131 GLN132 PHE133 HIS134 GLN135 ASN136 VAL137 GLU138 ASN139 ILE140 THR141 ILE142 VAL143 GLY144 GLN145 LYS146 GLY147 THR148 ILE149 MET150 PRO151 ILE152 GLU153 ALA154 ARG155 ALA156 MET157 ASP158 ALA159 THR160 LEU161 ALA162 VAL163 ILE164 LEU165 LYS166 LYS167 VAL168 LYS169 LEU170 ILE171 GLU172 ILE173 THR174 MET175 PRO176 PRO177 PHE178 ALA179 SER180 HIS181 HIS182 THR183 LYS184 LEU185 ILE186 ILE187 ASN188 PHE189 TYR190 ASP191 ASN192 GLY193 GLU194 CYS195 LYS196 ILE197 PHE198 LEU199 PRO200 SER201 ASN202 ASN203 PHE204 THR205 SER206 MET207 GLU208 THR209 ASN210 LEU211 PRO212 GLN213 GLN214 VAL215 CYS216 TRP217 CYS218 SER219 PRO220 LEU221 LEU222 LYS223 ILE224 GLY225 LYS226 GLU227 GLY228 LEU229 PRO230 VAL231 PRO232 PHE233 LYS234 ARG235 SER236 LEU237 ILE238 GLU239 TYR240 LEU241 ASN242 SER243 TYR244 HIS245 LEU246 LYS247 ASP248 ILE249 ASP250 GLU251 LEU252 ILE253 THR254 LYS255 SER256 VAL257 GLU258 GLU259 VAL260 ASN261 PHE262 ALA263 PRO264 LEU265 SER266 GLU267 LEU268 GLU269 PHE270 VAL271 TYR272 SER273 THR274 PRO275 SER276 LYS277 PHE278 GLN279 SER280 SER281 GLY282 LEU283 LEU284 SER285 PHE286 TYR287 ASN288 LYS289 LEU290 GLU291 LYS292 LEU293 SER294 ALA295 GLY296 THR297 SER298 ALA299 SER300 ASP301 THR302 ALA303 LYS304 HIS305 TYR306 LEU307 CYS308 GLN309 THR310 SER311 SER312 ILE313 GLY314 THR315 SER316 LEU317 SER318 ARG319 ALA320 ARG321 ASP322 GLU323 ASN324 LEU325 TRP326 THR327 HIS328 LEU329 MET330 ILE331 PRO332 LEU333 PHE334 THR335 GLY336 ILE337 MET338 SER339 PRO340 PRO341 ILE353 LEU354 PRO355 THR356 ASN357 SER358 LEU359 ILE360 ASN361 GLU362 TYR363 SER364 GLN365 ARG366 LYS367 ILE368 LYS369 PRO370 TYR371 ILE372 ILE373 PHE374 PRO375 THR376 GLU377 GLN378 GLU379 PHE380 VAL381 THR382 SER383 PRO384 LEU385 LYS386 TRP387 SER388 SER389 SER390 GLY391 TRP392 PHE393 HIS394 PHE395 GLN396 TYR397 LEU398 GLN399 LYS400 LYS401 SER402 TYR403 TYR404 GLU405 MET406 LEU407 ARG408 ASN409 LYS410 PHE411 LYS412 VAL413 PHE414 TYR415 LYS416 GLN417 ASP418 PRO419 ALA420 MET421 VAL422 THR423 ARG424 ARG425 ARG426 GLY427 THR428 THR429 PRO430 ALA431 ASN432 SER433 LYS434 PHE435 TYR436 MET437 HIS438 CYS439 ALA440 THR441 SER450 GLN451 VAL452 PHE453 LYS454 GLU455 LEU456 GLU457 TRP458 CYS459 LEU460 TYR461 THR462 SER463 ALA464 ASN465 LEU466 SER467 GLN468 THR469 ALA470 TRP471 GLY472 THR473 VAL474 SER475 ARG476 LYS477 PRO478 ARG479 ASN480 TYR481 GLU482 ALA483 GLY484 VAL485 LEU486 TYR487 HIS488 SER489 ARG490 ARG491 LEU492 ALA493 ASN494 THR495 ARG496 LYS497 VAL498 THR499 CYS500 ARG501 THR502 PHE503 THR504 ARG505 ASP506 PRO514 THR515 HIS516 VAL517 ALA518 VAL519 PRO520 PHE521 THR522 LEU523 PRO524 VAL525 ILE526 PRO527 TYR528 ASP529 LEU530 ALA531 GLU532 ASP533 GLU534 CYS535 PHE536 CYS537 LEU538 ALA539 LEU540 GLU541 HIS542 HIS543
Unit 2 GLY79 ALA80 VAL81 PHE82 LYS83 LEU84 MET85 LYS86 SER87 ASP88 PHE89 TYR90 GLU91 ASP101 MET102 ILE103 THR104 LEU105 LYS106 ASP107 ILE108 PHE109 GLY110 THR111 GLU112 THR113 LEU114 LYS115 ARG116 SER117 ILE118 LEU119 PHE120 SER121 PHE122 GLN123 TYR124 GLU125 LEU126 ASP127 PHE128 LEU129 LEU130 ARG131 GLN132 PHE133 HIS134 GLN135 ASN136 VAL137 GLU138 ASN139 ILE140 THR141 ILE142 VAL143 GLY144 GLN145 LYS146 GLY147 THR148 ILE149 MET150 PRO151 ILE152 GLU153 ALA154 ARG155 ALA156 MET157 ASP158 ALA159 THR160 LEU161 ALA162 VAL163 ILE164 LEU165 LYS166 LYS167 VAL168 LYS169 LEU170 ILE171 GLU172 ILE173 THR174 MET175 PRO176 ALA179 SER180 HIS181 HIS182 THR183 LYS184 LEU185 ILE186 ILE187 ASN188 PHE189 TYR190 ASP191 ASN192 GLY193 GLU194 CYS195 LYS196 ILE197 PHE198 LEU199 PRO200 SER201 ASN202 ASN203 PHE204 THR205 SER206 MET207 GLU208 THR209 ASN210 LEU211 PRO212 GLN213 GLN214 VAL215 CYS216 TRP217 CYS218 SER219 PRO220 LEU221 LEU222 LYS223 ILE224 GLY225 LYS226 GLU227 GLY228 LEU229 PRO230 VAL231 PRO232 PHE233 LYS234 ARG235 SER236 LEU237 ILE238 GLU239 TYR240 LEU241 ASN242 SER243 TYR244 HIS245 LEU246 LYS247 ASP248 ILE249 ASP250 GLU251 LEU252 ILE253 THR254 LYS255 SER256 VAL257 GLU258 GLU259 VAL260 ASN261 PHE262 ALA263 PRO264 LEU265 SER266 GLU267 LEU268 GLU269 PHE270 VAL271 TYR272 SER273 THR274 PRO275 SER276 LYS277 PHE278 GLN279 SER280 SER281 GLY282 LEU283 LEU284 SER285 PHE286 TYR287 ASN288 LYS289 LEU290 GLU291 LYS292 LEU293 SER294 ASP301 THR302 ALA303 LYS304 HIS305 TYR306 LEU307 CYS308 GLN309 THR310 SER311 SER312 ILE313 GLY314 THR315 SER316 LEU317 SER318 ARG319 ALA320 ARG321 ASP322 GLU323 ASN324 LEU325 TRP326 THR327 HIS328 LEU329 MET330 ILE331 PRO332 LEU333 PHE334 THR335 GLY336 ILE337 MET338 SER339 PRO340 PRO341 ILE353 LEU354 PRO355 THR356 ASN357 SER358 LEU359 ILE360 ASN361 GLU362 TYR363 SER364 GLN365 ARG366 LYS367 ILE368 LYS369 PRO370 TYR371 ILE372 ILE373 PHE374 PRO375 THR376 GLU377 GLN378 GLU379 PHE380 VAL381 THR382 SER383 PRO384 LEU385 LYS386 TRP387 SER388 SER389 SER390 GLY391 TRP392 PHE393 HIS394 PHE395 GLN396 TYR397 LEU398 GLN399 LYS400 LYS401 SER402 TYR403 TYR404 GLU405 MET406 LEU407 ARG408 ASN409 LYS410 PHE411 LYS412 VAL413 PHE414 TYR415 LYS416 GLN417 ASP418 PRO419 ALA420 MET421 VAL422 THR423 ARG424 ARG425 ARG426 GLY427 THR428 THR429 PRO430 ALA431 ASN432 SER433 LYS434 PHE435 TYR436 MET437 HIS438 CYS439 ALA440 THR441 ASN442 SER450 GLN451 VAL452 PHE453 LYS454 GLU455 LEU456 GLU457 TRP458 CYS459 LEU460 TYR461 THR462 SER463 ALA464 ASN465 LEU466 SER467 GLN468 THR469 ALA470 TRP471 GLY472 THR473 VAL474 SER475 ARG476 LYS477 PRO478 ARG479 ASN480 TYR481 GLU482 ALA483 GLY484 VAL485 LEU486 TYR487 HIS488 SER489 ARG490 ARG491 LEU492 ALA493 ASN494 THR495 ARG496 LYS497 VAL498 THR499 CYS500 ARG501 THR502 PHE503 THR504 ARG505 ASP506 ASN513 PRO514 THR515 HIS516 VAL517 ALA518 VAL519 PRO520 PHE521 THR522 LEU523 PRO524 VAL525 ILE526 PRO527 TYR528 ASP529 LEU530 ALA531 GLU532 ASP533 GLU534 CYS535 PHE536 CYS537 LEU538 ALA539 LEU540 GLU541 HIS542 HIS543 HIS544 HIS545
Unit 3 GLY79 ALA80 VAL81 PHE82 LYS83 LEU84 MET85 LYS86 SER87 ASP88 PHE89 TYR90 GLU91 ARG92 GLU93 ASP101 MET102 ILE103 THR104 LEU105 LYS106 ASP107 ILE108 PHE109 GLY110 THR111 GLU112 THR113 LEU114 LYS115 ARG116 SER117 ILE118 LEU119 PHE120 SER121 PHE122 GLN123 TYR124 GLU125 LEU126 ASP127 PHE128 LEU129 LEU130 ARG131 GLN132 PHE133 HIS134 GLN135 ASN136 VAL137 GLU138 ASN139 ILE140 THR141 ILE142 VAL143 GLY144 GLN145 LYS146 GLY147 THR148 ILE149 MET150 PRO151 ILE152 GLU153 ALA154 ARG155 ALA156 MET157 ASP158 ALA159 THR160 LEU161 ALA162 VAL163 ILE164 LEU165 LYS166 LYS167 VAL168 LYS169 LEU170 ILE171 GLU172 ILE173 THR174 MET175 PRO176 PRO177 PHE178 ALA179 SER180 HIS181 HIS182 THR183 LYS184 LEU185 ILE186 ILE187 ASN188 PHE189 TYR190 ASP191 ASN192 GLY193 GLU194 CYS195 LYS196 ILE197 PHE198 LEU199 PRO200 SER201 ASN202 ASN203 PHE204 THR205 SER206 MET207 GLU208 THR209 ASN210 LEU211 PRO212 GLN213 GLN214 VAL215 CYS216 TRP217 CYS218 SER219 PRO220 LEU221 LEU222 LYS223 ILE224 GLY225 LYS226 GLU227 GLY228 LEU229 PRO230 VAL231 PRO232 PHE233 LYS234 ARG235 SER236 LEU237 ILE238 GLU239 TYR240 LEU241 ASN242 SER243 TYR244 HIS245 LEU246 LYS247 ASP248 ILE249 ASP250 GLU251 LEU252 ILE253 THR254 LYS255 SER256 VAL257 GLU258 GLU259 VAL260 ASN261 PHE262 ALA263 PRO264 LEU265 SER266 GLU267 LEU268 GLU269 PHE270 VAL271 TYR272 SER273 THR274 PRO275 SER276 LYS277 PHE278 GLN279 SER280 SER281 GLY282 LEU283 LEU284 SER285 PHE286 TYR287 ASN288 LYS289 LEU290 GLU291 LYS292 LEU293 SER294 ALA295 SER300 ASP301 THR302 ALA303 LYS304 HIS305 TYR306 LEU307 CYS308 GLN309 THR310 SER311 SER312 ILE313 GLY314 THR315 SER316 LEU317 SER318 ARG319 ALA320 ARG321 ASP322 GLU323 ASN324 LEU325 TRP326 THR327 HIS328 LEU329 MET330 ILE331 PRO332 LEU333 PHE334 THR335 GLY336 ILE337 MET338 SER339 PRO340 PRO341 ILE353 LEU354 PRO355 THR356 ASN357 SER358 LEU359 ILE360 ASN361 GLU362 TYR363 SER364 GLN365 ARG366 LYS367 ILE368 LYS369 PRO370 TYR371 ILE372 ILE373 PHE374 PRO375 THR376 GLU377 GLN378 GLU379 PHE380 VAL381 THR382 SER383 PRO384 LEU385 LYS386 TRP387 SER388 SER389 SER390 GLY391 TRP392 PHE393 HIS394 PHE395 GLN396 TYR397 LEU398 GLN399 LYS400 LYS401 SER402 TYR403 TYR404 GLU405 MET406 LEU407 ARG408 ASN409 LYS410 PHE411 LYS412 VAL413 PHE414 TYR415 LYS416 GLN417 ASP418 PRO419 ALA420 MET421 VAL422 THR423 ARG424 ARG425 ARG426 GLY427 THR428 THR429 PRO430 ALA431 ASN432 SER433 LYS434 PHE435 TYR436 MET437 HIS438 CYS439 ALA440 THR441 ASN442 SER450 GLN451 VAL452 PHE453 LYS454 GLU455 LEU456 GLU457 TRP458 CYS459 LEU460 TYR461 THR462 SER463 ALA464 ASN465 LEU466 SER467 GLN468 THR469 ALA470 TRP471 GLY472 THR473 VAL474 SER475 ARG476 LYS477 PRO478 ARG479 ASN480 TYR481 GLU482 ALA483 GLY484 VAL485 LEU486 TYR487 HIS488 SER489 ARG490 ARG491 LEU492 ALA493 ASN494 THR495 ARG496 LYS497 VAL498 THR499 CYS500 ARG501 THR502 PHE503 THR504 ARG505 ASP506 PRO514 THR515 HIS516 VAL517 ALA518 VAL519 PRO520 PHE521 THR522 LEU523 PRO524 VAL525 ILE526 PRO527 TYR528 ASP529 LEU530 ALA531 GLU532 ASP533 GLU534 CYS535 PHE536 CYS537 LEU538 ALA539 LEU540 GLU541 HIS542 HIS543 HIS544
Unit 4 GLY79 ALA80 VAL81 PHE82 LYS83 LEU84 MET85 LYS86 SER87 ASP88 PHE89 TYR90 GLU91 ARG92 ASP101 MET102 ILE103 THR104 LEU105 LYS106 ASP107 ILE108 PHE109 GLY110 THR111 GLU112 THR113 LEU114 LYS115 ARG116 SER117 ILE118 LEU119 PHE120 SER121 PHE122 GLN123 TYR124 GLU125 LEU126 ASP127 PHE128 LEU129 LEU130 ARG131 GLN132 PHE133 HIS134 GLN135 ASN136 VAL137 GLU138 ASN139 ILE140 THR141 ILE142 VAL143 GLY144 GLN145 LYS146 GLY147 THR148 ILE149 MET150 PRO151 ILE152 GLU153 ALA154 ARG155 ALA156 MET157 ASP158 ALA159 THR160 LEU161 ALA162 VAL163 ILE164 LEU165 LYS166 LYS167 VAL168 LYS169 LEU170 ILE171 GLU172 ILE173 THR174 MET175 PRO176 PRO177 ALA179 SER180 HIS181 HIS182 THR183 LYS184 LEU185 ILE186 ILE187 ASN188 PHE189 TYR190 ASP191 ASN192 GLY193 GLU194 CYS195 LYS196 ILE197 PHE198 LEU199 PRO200 SER201 ASN202 ASN203 PHE204 THR205 SER206 MET207 GLU208 THR209 ASN210 LEU211 PRO212 GLN213 GLN214 VAL215 CYS216 TRP217 CYS218 SER219 PRO220 LEU221 LEU222 LYS223 ILE224 GLY225 LYS226 GLU227 GLY228 LEU229 PRO230 VAL231 PRO232 PHE233 LYS234 ARG235 SER236 LEU237 ILE238 GLU239 TYR240 LEU241 ASN242 SER243 TYR244 HIS245 LEU246 LYS247 ASP248 ILE249 ASP250 GLU251 LEU252 ILE253 THR254 LYS255 SER256 VAL257 GLU258 GLU259 VAL260 ASN261 PHE262 ALA263 PRO264 LEU265 SER266 GLU267 LEU268 GLU269 PHE270 VAL271 TYR272 SER273 THR274 PRO275 SER276 LYS277 PHE278 GLN279 SER280 SER281 GLY282 LEU283 LEU284 SER285 PHE286 TYR287 ASN288 LYS289 LEU290 GLU291 LYS292 LEU293 SER294 THR302 ALA303 LYS304 HIS305 TYR306 LEU307 CYS308 GLN309 THR310 SER311 SER312 ILE313 GLY314 THR315 SER316 LEU317 SER318 ARG319 ALA320 ARG321 ASP322 GLU323 ASN324 LEU325 TRP326 THR327 HIS328 LEU329 MET330 ILE331 PRO332 LEU333 PHE334 THR335 GLY336 ILE337 MET338 SER339 PRO340 PRO341 ILE353 LEU354 PRO355 THR356 ASN357 SER358 LEU359 ILE360 ASN361 GLU362 TYR363 SER364 GLN365 ARG366 LYS367 ILE368 LYS369 PRO370 TYR371 ILE372 ILE373 PHE374 PRO375 THR376 GLU377 GLN378 GLU379 PHE380 VAL381 THR382 SER383 PRO384 LEU385 LYS386 TRP387 SER388 SER389 SER390 GLY391 TRP392 PHE393 HIS394 PHE395 GLN396 TYR397 LEU398 GLN399 LYS400 LYS401 SER402 TYR403 TYR404 GLU405 MET406 LEU407 ARG408 ASN409 LYS410 PHE411 LYS412 VAL413 PHE414 TYR415 LYS416 GLN417 ASP418 PRO419 ALA420 MET421 VAL422 THR423 ARG424 ARG425 ARG426 GLY427 THR428 THR429 PRO430 ALA431 ASN432 SER433 LYS434 PHE435 TYR436 MET437 HIS438 CYS439 ALA440 THR441 SER450 GLN451 VAL452 PHE453 LYS454 GLU455 LEU456 GLU457 TRP458 CYS459 LEU460 TYR461 THR462 SER463 ALA464 ASN465 LEU466 SER467 GLN468 THR469 ALA470 TRP471 GLY472 THR473 VAL474 SER475 ARG476 LYS477 PRO478 ARG479 ASN480 TYR481 GLU482 ALA483 GLY484 VAL485 LEU486 TYR487 HIS488 SER489 ARG490 ARG491 LEU492 ALA493 ASN494 THR495 ARG496 LYS497 VAL498 THR499 CYS500 ARG501 THR502 PHE503 THR504 ARG505 ASP506 PRO514 THR515 HIS516 VAL517 ALA518 VAL519 PRO520 PHE521 THR522 LEU523 PRO524 VAL525 ILE526 PRO527 TYR528 ASP529 LEU530 ALA531 GLU532 ASP533 GLU534 CYS535 PHE536 CYS537 LEU538 ALA539 LEU540 GLU541 HIS542 HIS543 HIS544 HIS545
Ligands
Unit 5 SO42 SO44 SO46 SO47
Unit 6 SO45
Unit 7 SO41 SO43
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Perl script:    PDBscan.pl  (15 Sep 2016)
Author:    Peter Slickers  (slickers@leibniz-fli.de),  IMB Jena,  Germany