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Sequence, Chains, Asymmetric and Biological Units

Title CRYSTAL STRUCTURE OF C. CRESCENTUS PNPASE BOUND TO RNA
Keywords TRANSFERASE-RNA COMPLEX, KH DOMAIN, RNASE E
Experiment X-ray diffraction
Number of Models  1

   Database       ID code    StatusCoordinate files
        Header     Asymmetric unit     Biological unit  
PDB   4AM3     released     available     available     Quaternary Structure Server  
Asymmetric unit from PDB
 Unit     Type     Name   Chain ID   Residues   Atoms   Hetatoms 
1  Protein   POLYRIBONUCLEOTIDE NUCLEOTIDYLTRANSFERASE  A 622 4632 0
2  Protein   POLYRIBONUCLEOTIDE NUCLEOTIDYLTRANSFERASE  B 621 4534 0
3  Protein   POLYRIBONUCLEOTIDE NUCLEOTIDYLTRANSFERASE  C 621 4554 0
4  DNA    D 1 9 0
5  RNA    E 9 182 0
6  DNA    H 1 11 0
7  DNA    I 1 9 0
8  Ligand   POLYRIBONUCLEOTIDE NUCLEOTIDYLTRANSFERASE  A 2 0 10
9  Ligand   POLYRIBONUCLEOTIDE NUCLEOTIDYLTRANSFERASE  B 2 0 10
10  Ligand   POLYRIBONUCLEOTIDE NUCLEOTIDYLTRANSFERASE  C 2 0 10
11 Water     54 0 54
total       1936 13931 84
Proteins
Unit 1 GLY-1 SER0 MET1 PHE2 ASP3 ILE4 LYS5 ARG6 LYS7 THR8 ILE9 GLU10 TRP11 GLY12 GLY13 LYS14 THR15 LEU16 VAL17 LEU18 GLU19 THR20 GLY21 ARG22 ILE23 ALA24 ARG25 GLN26 ALA27 ASP28 GLY29 ALA30 VAL31 LEU32 ALA33 THR34 MET35 GLY36 GLU37 THR38 VAL39 VAL40 LEU41 ALA42 THR43 ALA44 VAL45 PHE46 ALA47 LYS48 SER49 GLN50 LYS51 PRO52 GLY53 GLN54 ASP55 PHE56 PHE57 PRO58 LEU59 THR60 VAL61 ASN62 TYR63 GLN64 GLU65 LYS66 THR67 PHE68 ALA69 ALA70 GLY71 LYS72 ILE73 PRO74 GLY75 GLY76 PHE77 PHE78 LYS79 ARG80 GLU81 GLY82 ARG83 PRO84 SER85 GLU86 LYS87 GLU88 THR89 LEU90 VAL91 SER92 ARG93 LEU94 ILE95 ASP96 ARG97 PRO98 ILE99 ARG100 PRO101 LEU102 PHE103 VAL104 LYS105 GLY106 PHE107 LYS108 ASN109 GLU110 VAL111 GLN112 VAL113 VAL114 VAL115 THR116 VAL117 LEU118 GLN119 HIS120 ASP121 LEU122 GLU123 ASN124 ASP125 PRO126 ASP127 ILE128 LEU129 GLY130 MET131 VAL132 ALA133 ALA134 SER135 ALA136 ALA137 LEU138 CYS139 LEU140 SER141 GLY142 ALA143 PRO144 PHE145 MET146 GLY147 PRO148 ILE149 GLY150 ALA151 ALA152 ARG153 VAL154 GLY155 TRP156 VAL157 ASP158 GLY159 ALA160 TYR161 VAL162 LEU163 ASN164 PRO165 THR166 LEU167 ASP168 GLU169 MET170 LYS171 GLU172 SER173 LYS174 MET175 ASP176 LEU177 VAL178 VAL179 ALA180 GLY181 THR182 ALA183 ASP184 ALA185 VAL186 MET187 MET188 VAL189 GLU190 SER191 GLU192 ILE193 GLN194 GLU195 LEU196 SER197 GLU198 GLU199 ILE200 VAL201 LEU202 GLY203 GLY204 VAL205 ASN206 PHE207 ALA208 HIS209 GLN210 GLN211 MET212 GLN213 ALA214 VAL215 ILE216 ASP217 ALA218 ILE219 ILE220 ASP221 LEU222 ALA223 GLU224 HIS225 ALA226 ALA227 LYS228 GLU229 PRO230 PHE231 ALA232 PHE233 GLU234 PRO235 GLU236 ASP237 THR238 ASP239 ALA240 ILE241 LYS242 ALA243 LYS244 MET245 LYS246 ASP247 LEU248 VAL249 GLY250 ALA251 ASP252 ILE253 ALA254 ALA255 ALA256 TYR257 LYS258 ILE259 GLN260 LYS261 LYS262 GLN263 ASP264 ARG265 TYR266 GLU267 ALA268 VAL269 GLY270 ALA271 ALA272 LYS273 LYS274 LYS275 ALA276 ILE277 ALA278 ALA279 LEU280 GLY281 LEU282 SER283 ASP284 GLU285 ASN286 PRO287 THR288 GLY289 TYR290 ASP291 PRO292 LEU293 LYS294 LEU295 GLY296 ALA297 ILE298 PHE299 LYS300 GLU301 LEU302 GLU303 ALA304 ASP305 VAL306 VAL307 ARG308 ARG309 GLY310 ILE311 LEU312 ASP313 THR314 GLY315 LEU316 ARG317 ILE318 ASP319 GLY320 ARG321 ASP322 VAL323 LYS324 THR325 VAL326 ARG327 PRO328 ILE329 LEU330 GLY331 GLU332 VAL333 GLY334 ILE335 LEU336 PRO337 ARG338 THR339 HIS340 GLY341 SER342 ALA343 LEU344 PHE345 THR346 ARG347 GLY348 GLU349 THR350 GLN351 ALA352 ILE353 VAL354 VAL355 ALA356 THR357 LEU358 GLY359 THR360 GLY361 ASP362 ASP363 GLU364 GLN365 PHE366 ILE367 ASP368 ALA369 LEU370 GLU371 GLY372 THR373 TYR374 LYS375 GLU376 SER377 PHE378 LEU379 LEU380 HIS381 TYR382 ASN383 PHE384 PRO385 PRO386 TYR387 SER388 VAL389 GLY390 GLU391 THR392 GLY393 ARG394 MET395 GLY396 SER397 PRO398 GLY399 ARG400 ARG401 GLU402 ILE403 GLY404 HIS405 GLY406 LYS407 LEU408 ALA409 TRP410 ARG411 ALA412 LEU413 ARG414 PRO415 MET416 LEU417 PRO418 THR419 LYS420 GLU421 ASP422 PHE423 PRO424 TYR425 THR426 ILE427 ARG428 LEU429 VAL430 SER431 GLU432 ILE433 THR434 GLU435 SER436 ASN437 GLY438 SER439 SER440 SER441 MET442 ALA443 THR444 VAL445 CYS446 GLY447 SER448 SER449 LEU450 ALA451 MET452 MET453 ASP454 ALA455 GLY456 VAL457 PRO458 LEU459 VAL460 ARG461 PRO462 VAL463 SER464 GLY465 ILE466 ALA467 MET468 GLY469 LEU470 ILE471 LEU472 GLU473 GLN474 ASP475 GLY476 PHE477 ALA478 VAL479 LEU480 SER481 ASP482 ILE483 LEU484 GLY485 ASP486 GLU487 ASP488 HIS489 LEU490 GLY491 ASP492 MET493 ASP494 PHE495 LYS496 VAL497 ALA498 GLY499 THR500 SER501 GLU502 GLY503 LEU504 THR505 SER506 LEU507 GLN508 MET509 ASP510 ILE511 LYS512 ILE513 ALA514 GLY515 ILE516 THR517 PRO518 ALA519 ILE520 MET521 GLU522 GLN523 ALA524 LEU525 ALA526 GLN527 ALA528 LYS529 GLU530 GLY531 ARG532 ALA533 HIS534 ILE535 LEU536 GLY537 GLU538 MET539 ASN540 LYS541 ALA542 MET543 ASP544 ALA545 PRO546 ARG547 ALA548 ASP549 VAL550 GLY551 ASP552 PHE553 ALA554 PRO555 LYS556 ILE557 GLU558 THR559 ILE560 ASN561 ILE562 PRO563 THR564 ASP565 LYS566 ILE567 ARG568 GLU569 VAL570 ILE571 GLY572 SER573 GLY574 GLY575 LYS576 VAL577 ILE578 ARG579 GLU580 ILE581 VAL582 ALA583 THR584 THR585 GLY586 ALA587 LYS588 VAL589 ASP590 ILE591 ASN592 ASP593 ASP594 GLY595 VAL596 VAL597 LYS598 VAL599 SER600 ALA601 SER602 ASP603 GLY604 ALA605 LYS606 ILE607 LYS608 ALA609 ALA610 ILE611 ASP612 TRP613 ILE614 LYS615 SER616 ILE617 THR618 ASP619 GLU620
Unit 2 GLY-1 SER0 MET1 PHE2 ASP3 ILE4 LYS5 ARG6 LYS7 THR8 ILE9 GLU10 TRP11 GLY12 GLY13 LYS14 THR15 LEU16 VAL17 LEU18 GLU19 THR20 GLY21 ARG22 ILE23 ALA24 ARG25 GLN26 ALA27 ASP28 GLY29 ALA30 VAL31 LEU32 ALA33 THR34 MET35 GLY36 GLU37 THR38 VAL39 VAL40 LEU41 ALA42 THR43 ALA44 VAL45 PHE46 ALA47 LYS48 SER49 GLN50 LYS51 PRO52 GLY53 GLN54 ASP55 PHE56 PHE57 PRO58 LEU59 THR60 VAL61 ASN62 TYR63 GLN64 GLU65 LYS66 THR67 PHE68 ALA69 ALA70 GLY71 LYS72 ILE73 PRO74 GLY75 GLY76 PHE77 PHE78 LYS79 ARG80 GLU81 GLY82 ARG83 PRO84 SER85 GLU86 LYS87 GLU88 THR89 LEU90 VAL91 SER92 ARG93 LEU94 ILE95 ASP96 ARG97 PRO98 ILE99 ARG100 PRO101 LEU102 PHE103 VAL104 LYS105 GLY106 PHE107 LYS108 ASN109 GLU110 VAL111 GLN112 VAL113 VAL114 VAL115 THR116 VAL117 LEU118 GLN119 HIS120 ASP121 LEU122 GLU123 ASN124 ASP125 PRO126 ASP127 ILE128 LEU129 GLY130 MET131 VAL132 ALA133 ALA134 SER135 ALA136 ALA137 LEU138 CYS139 LEU140 SER141 GLY142 ALA143 PRO144 PHE145 MET146 GLY147 PRO148 ILE149 GLY150 ALA151 ALA152 ARG153 VAL154 GLY155 TRP156 VAL157 ASP158 GLY159 ALA160 TYR161 VAL162 LEU163 ASN164 PRO165 THR166 LEU167 ASP168 GLU169 MET170 LYS171 GLU172 SER173 LYS174 MET175 ASP176 LEU177 VAL178 VAL179 ALA180 GLY181 THR182 ALA183 ASP184 ALA185 VAL186 MET187 MET188 VAL189 GLU190 SER191 GLU192 ILE193 GLN194 GLU195 LEU196 SER197 GLU198 GLU199 ILE200 VAL201 LEU202 GLY203 GLY204 VAL205 ASN206 PHE207 ALA208 HIS209 GLN210 GLN211 MET212 GLN213 ALA214 VAL215 ILE216 ASP217 ALA218 ILE219 ILE220 ASP221 LEU222 ALA223 GLU224 HIS225 ALA226 ALA227 LYS228 GLU229 PRO230 PHE231 ALA232 PHE233 GLU234 PRO235 GLU236 ASP237 THR238 ASP239 ALA240 ILE241 LYS242 ALA243 LYS244 MET245 LYS246 ASP247 LEU248 VAL249 GLY250 ALA251 ASP252 ILE253 ALA254 ALA255 ALA256 TYR257 LYS258 ILE259 GLN260 LYS261 LYS262 GLN263 ASP264 ARG265 TYR266 GLU267 ALA268 VAL269 GLY270 ALA271 ALA272 LYS273 LYS274 LYS275 ALA276 ILE277 ALA278 ALA279 LEU280 GLY281 LEU282 SER283 ASP284 GLU285 ASN286 PRO287 THR288 GLY289 TYR290 ASP291 PRO292 LEU293 LYS294 LEU295 GLY296 ALA297 ILE298 PHE299 LYS300 GLU301 LEU302 GLU303 ALA304 ASP305 VAL306 VAL307 ARG308 ARG309 GLY310 ILE311 LEU312 ASP313 THR314 GLY315 LEU316 ARG317 ILE318 ASP319 GLY320 ARG321 ASP322 VAL323 LYS324 THR325 VAL326 ARG327 PRO328 ILE329 LEU330 GLY331 GLU332 VAL333 GLY334 ILE335 LEU336 PRO337 ARG338 THR339 HIS340 GLY341 SER342 ALA343 LEU344 PHE345 THR346 ARG347 GLY348 GLU349 THR350 GLN351 ALA352 ILE353 VAL354 VAL355 ALA356 THR357 LEU358 GLY359 THR360 GLY361 ASP362 ASP363 GLU364 GLN365 PHE366 ILE367 ASP368 ALA369 LEU370 GLU371 GLY372 THR373 TYR374 LYS375 GLU376 SER377 PHE378 LEU379 LEU380 HIS381 TYR382 ASN383 PHE384 PRO385 PRO386 TYR387 SER388 VAL389 GLY390 GLU391 THR392 GLY393 ARG394 MET395 GLY396 SER397 PRO398 GLY399 ARG400 ARG401 GLU402 ILE403 GLY404 HIS405 GLY406 LYS407 LEU408 ALA409 TRP410 ARG411 ALA412 LEU413 ARG414 PRO415 MET416 LEU417 PRO418 THR419 LYS420 GLU421 ASP422 PHE423 PRO424 TYR425 THR426 ILE427 ARG428 LEU429 VAL430 SER431 GLU432 ILE433 THR434 GLU435 SER436 ASN437 GLY438 SER439 SER440 SER441 MET442 ALA443 THR444 VAL445 CYS446 GLY447 SER448 SER449 LEU450 ALA451 MET452 MET453 ASP454 ALA455 GLY456 VAL457 PRO458 LEU459 VAL460 ARG461 PRO462 VAL463 SER464 GLY465 ILE466 ALA467 MET468 GLY469 LEU470 ILE471 LEU472 GLU473 GLN474 ASP475 GLY476 PHE477 ALA478 VAL479 LEU480 SER481 ASP482 ILE483 LEU484 GLY485 ASP486 GLU487 ASP488 HIS489 LEU490 GLY491 ASP492 MET493 ASP494 PHE495 LYS496 VAL497 ALA498 GLY499 THR500 SER501 GLU502 GLY503 LEU504 THR505 SER506 LEU507 GLN508 MET509 ASP510 ILE511 LYS512 ILE513 ALA514 GLY515 ILE516 THR517 PRO518 ALA519 ILE520 MET521 GLU522 GLN523 ALA524 LEU525 ALA526 GLN527 ALA528 LYS529 GLU530 GLY531 ARG532 ALA533 HIS534 ILE535 LEU536 GLY537 GLU538 MET539 ASN540 LYS541 ALA542 MET543 ASP544 ALA545 PRO546 ARG547 ALA548 ASP549 VAL550 GLY551 ASP552 PHE553 ALA554 PRO555 LYS556 ILE557 GLU558 THR559 ILE560 ASN561 ILE562 PRO563 THR564 ASP565 LYS566 ILE567 ARG568 GLU569 VAL570 ILE571 GLY572 SER573 GLY574 GLY575 LYS576 VAL577 ILE578 ARG579 GLU580 ILE581 VAL582 ALA583 THR584 THR585 GLY586 ALA587 LYS588 VAL589 ASP590 ILE591 ASN592 ASP593 ASP594 GLY595 VAL596 VAL597 LYS598 VAL599 SER600 ALA601 SER602 ASP603 GLY604 ALA605 LYS606 ILE607 LYS608 ALA609 ALA610 ILE611 ASP612 TRP613 ILE614 LYS615 SER616 ILE617 THR618 ASP619
Unit 3 GLY-1 SER0 MET1 PHE2 ASP3 ILE4 LYS5 ARG6 LYS7 THR8 ILE9 GLU10 TRP11 GLY12 GLY13 LYS14 THR15 LEU16 VAL17 LEU18 GLU19 THR20 GLY21 ARG22 ILE23 ALA24 ARG25 GLN26 ALA27 ASP28 GLY29 ALA30 VAL31 LEU32 ALA33 THR34 MET35 GLY36 GLU37 THR38 VAL39 VAL40 LEU41 ALA42 THR43 ALA44 VAL45 PHE46 ALA47 LYS48 SER49 GLN50 LYS51 PRO52 GLY53 GLN54 ASP55 PHE56 PHE57 PRO58 LEU59 THR60 VAL61 ASN62 TYR63 GLN64 GLU65 LYS66 THR67 PHE68 ALA69 ALA70 GLY71 LYS72 ILE73 PRO74 GLY75 GLY76 PHE77 PHE78 LYS79 ARG80 GLU81 GLY82 ARG83 PRO84 SER85 GLU86 LYS87 GLU88 THR89 LEU90 VAL91 SER92 ARG93 LEU94 ILE95 ASP96 ARG97 PRO98 ILE99 ARG100 PRO101 LEU102 PHE103 VAL104 LYS105 GLY106 PHE107 LYS108 ASN109 GLU110 VAL111 GLN112 VAL113 VAL114 VAL115 THR116 VAL117 LEU118 GLN119 HIS120 ASP121 LEU122 GLU123 ASN124 ASP125 PRO126 ASP127 ILE128 LEU129 GLY130 MET131 VAL132 ALA133 ALA134 SER135 ALA136 ALA137 LEU138 CYS139 LEU140 SER141 GLY142 ALA143 PRO144 PHE145 MET146 GLY147 PRO148 ILE149 GLY150 ALA151 ALA152 ARG153 VAL154 GLY155 TRP156 VAL157 ASP158 GLY159 ALA160 TYR161 VAL162 LEU163 ASN164 PRO165 THR166 LEU167 ASP168 GLU169 MET170 LYS171 GLU172 SER173 LYS174 MET175 ASP176 LEU177 VAL178 VAL179 ALA180 GLY181 THR182 ALA183 ASP184 ALA185 VAL186 MET187 MET188 VAL189 GLU190 SER191 GLU192 ILE193 GLN194 GLU195 LEU196 SER197 GLU198 GLU199 ILE200 VAL201 LEU202 GLY203 GLY204 VAL205 ASN206 PHE207 ALA208 HIS209 GLN210 GLN211 MET212 GLN213 ALA214 VAL215 ILE216 ASP217 ALA218 ILE219 ILE220 ASP221 LEU222 ALA223 GLU224 HIS225 ALA226 ALA227 LYS228 GLU229 PRO230 PHE231 ALA232 PHE233 GLU234 PRO235 GLU236 ASP237 THR238 ASP239 ALA240 ILE241 LYS242 ALA243 LYS244 MET245 LYS246 ASP247 LEU248 VAL249 GLY250 ALA251 ASP252 ILE253 ALA254 ALA255 ALA256 TYR257 LYS258 ILE259 GLN260 LYS261 LYS262 GLN263 ASP264 ARG265 TYR266 GLU267 ALA268 VAL269 GLY270 ALA271 ALA272 LYS273 LYS274 LYS275 ALA276 ILE277 ALA278 ALA279 LEU280 GLY281 LEU282 SER283 ASP284 GLU285 ASN286 PRO287 THR288 GLY289 TYR290 ASP291 PRO292 LEU293 LYS294 LEU295 GLY296 ALA297 ILE298 PHE299 LYS300 GLU301 LEU302 GLU303 ALA304 ASP305 VAL306 VAL307 ARG308 ARG309 GLY310 ILE311 LEU312 ASP313 THR314 GLY315 LEU316 ARG317 ILE318 ASP319 GLY320 ARG321 ASP322 VAL323 LYS324 THR325 VAL326 ARG327 PRO328 ILE329 LEU330 GLY331 GLU332 VAL333 GLY334 ILE335 LEU336 PRO337 ARG338 THR339 HIS340 GLY341 SER342 ALA343 LEU344 PHE345 THR346 ARG347 GLY348 GLU349 THR350 GLN351 ALA352 ILE353 VAL354 VAL355 ALA356 THR357 LEU358 GLY359 THR360 GLY361 ASP362 ASP363 GLU364 GLN365 PHE366 ILE367 ASP368 ALA369 LEU370 GLU371 GLY372 THR373 TYR374 LYS375 GLU376 SER377 PHE378 LEU379 LEU380 HIS381 TYR382 ASN383 PHE384 PRO385 PRO386 TYR387 SER388 VAL389 GLY390 GLU391 THR392 GLY393 ARG394 MET395 GLY396 SER397 PRO398 GLY399 ARG400 ARG401 GLU402 ILE403 GLY404 HIS405 GLY406 LYS407 LEU408 ALA409 TRP410 ARG411 ALA412 LEU413 ARG414 PRO415 MET416 LEU417 PRO418 THR419 LYS420 GLU421 ASP422 PHE423 PRO424 TYR425 THR426 ILE427 ARG428 LEU429 VAL430 SER431 GLU432 ILE433 THR434 GLU435 SER436 ASN437 GLY438 SER439 SER440 SER441 MET442 ALA443 THR444 VAL445 CYS446 GLY447 SER448 SER449 LEU450 ALA451 MET452 MET453 ASP454 ALA455 GLY456 VAL457 PRO458 LEU459 VAL460 ARG461 PRO462 VAL463 SER464 GLY465 ILE466 ALA467 MET468 GLY469 LEU470 ILE471 LEU472 GLU473 GLN474 ASP475 GLY476 PHE477 ALA478 VAL479 LEU480 SER481 ASP482 ILE483 LEU484 GLY485 ASP486 GLU487 ASP488 HIS489 LEU490 GLY491 ASP492 MET493 ASP494 PHE495 LYS496 VAL497 ALA498 GLY499 THR500 SER501 GLU502 GLY503 LEU504 THR505 SER506 LEU507 GLN508 MET509 ASP510 ILE511 LYS512 ILE513 ALA514 GLY515 ILE516 THR517 PRO518 ALA519 ILE520 MET521 GLU522 GLN523 ALA524 LEU525 ALA526 GLN527 ALA528 LYS529 GLU530 GLY531 ARG532 ALA533 HIS534 ILE535 LEU536 GLY537 GLU538 MET539 ASN540 LYS541 ALA542 MET543 ASP544 ALA545 PRO546 ARG547 ALA548 ASP549 VAL550 GLY551 ASP552 PHE553 ALA554 PRO555 LYS556 ILE557 GLU558 THR559 ILE560 ASN561 ILE562 PRO563 THR564 ASP565 LYS566 ILE567 ARG568 GLU569 VAL570 ILE571 GLY572 SER573 GLY574 GLY575 LYS576 VAL577 ILE578 ARG579 GLU580 ILE581 VAL582 ALA583 THR584 THR585 GLY586 ALA587 LYS588 VAL589 ASP590 ILE591 ASN592 ASP593 ASP594 GLY595 VAL596 VAL597 LYS598 VAL599 SER600 ALA601 SER602 ASP603 GLY604 ALA605 LYS606 ILE607 LYS608 ALA609 ALA610 ILE611 ASP612 TRP613 ILE614 LYS615 SER616 ILE617 THR618 ASP619
Nucleic acids
Unit 4 U1
Unit 5 U1 A2 A3 C4 U5 U6 U7 G8 G9
Unit 6 A2
Unit 7 U1
Ligands
Unit 8 PO41621 PO41622
Unit 9 PO41620 PO41621
Unit 10 PO41620 PO41621
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