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Sequence, Chains, Asymmetric and Biological Units

Title CRYSTAL STRUCTURES OF E.COLI ARGINYL-TRNA SYNTHETASE (ARGRS) COMPLEX WITH SUBSTRATE TRNA(ARG)
Keywords BACTERIAL AMINOACYL-TRNA SYNTHETASES, TRNA ARGINYLATION, DEG CLASS I SIGNATURE SEQUENCES, TRNA(ARG) IDENTITY ELEMENTS, CONFORMATIONAL ADAPTATION, LIGASE
Experiment X-ray diffraction
Number of Models  1

   Database       ID code    StatusCoordinate files
        Header     Asymmetric unit     Biological unit  
PDB   5B63     released     available     available     Quaternary Structure Server  
Asymmetric unit from PDB
 Unit     Type     Name   Chain ID   Residues   Atoms   Hetatoms 
1  Protein   ARGININE--TRNA LIGASE  A 563 4441 0
2  RNA    B 63 1349 0
3  Protein   ARGININE--TRNA LIGASE  C 553 4330 0
4  RNA    D 64 1369 0
5 Water     32 0 32
total       1275 11489 32
Proteins
Unit 1 MET1 ASN2 ILE3 GLN4 ALA5 LEU6 LEU7 SER8 GLU9 LYS10 VAL11 ARG12 GLN13 ALA14 MET15 ILE16 ALA17 ALA18 GLY19 ALA20 PRO21 ALA22 ASP23 CYS24 GLU25 PRO26 GLN27 VAL28 ARG29 GLN30 SER31 ALA32 LYS33 VAL34 GLN35 PHE36 GLY37 ASP38 TYR39 GLN40 ALA41 ASN42 GLY43 MET44 MET45 ALA46 VAL47 ALA48 LYS49 LYS50 LEU51 GLY52 MET53 ALA54 PRO55 ARG56 GLN57 LEU58 ALA59 GLU60 GLN61 VAL62 LEU63 THR64 HIS65 LEU66 ASP67 LEU68 ASN69 GLY70 ILE71 ALA72 SER73 LYS74 VAL75 GLU76 ILE77 ALA78 GLY79 PRO80 GLY81 PHE82 ILE83 ASN84 ILE85 PHE86 LEU87 ASP88 PRO89 ALA90 PHE91 LEU92 ALA93 GLU94 HIS95 VAL96 GLN97 GLN98 ALA99 LEU100 ALA101 SER102 ASP103 ARG104 LEU105 GLY106 VAL107 ALA108 THR109 PRO110 GLU111 LYS112 GLN113 THR114 ILE115 VAL116 VAL117 ASP118 TYR119 SER120 ALA121 PRO122 ASN123 VAL124 ALA125 LYS126 GLU127 MET128 HIS129 VAL130 GLY131 HIS132 LEU133 ARG134 SER135 THR136 ILE137 ILE138 GLY139 ASP140 ALA141 ALA142 VAL143 ARG144 THR145 LEU146 GLU147 PHE148 LEU149 GLY150 HIS151 LYS152 VAL153 ILE154 ARG155 ALA156 ASN157 HIS158 VAL159 GLY160 ASP161 TRP162 GLY163 THR164 GLN165 PHE166 GLY167 MET168 LEU169 ILE170 ALA171 TRP172 LEU173 GLU174 LYS175 GLN176 GLN177 GLN178 GLU179 ASN180 ASP188 LEU189 GLU190 GLY191 PHE192 TYR193 ARG194 ASP195 ALA196 LYS197 LYS198 HIS199 TYR200 ASP201 GLU202 ASP203 GLU204 GLU205 PHE206 ALA207 GLU208 ARG209 ALA210 ARG211 ASN212 TYR213 VAL214 VAL215 LYS216 LEU217 GLN218 SER219 GLY220 ASP221 GLU222 TYR223 PHE224 ARG225 GLU226 MET227 TRP228 ARG229 LYS230 LEU231 VAL232 ASP233 ILE234 THR235 MET236 THR237 GLN238 ASN239 GLN240 ILE241 THR242 TYR243 ASP244 ARG245 LEU246 ASN247 VAL248 THR249 LEU250 THR251 ARG252 ASP253 ASP254 VAL255 MET256 GLY257 GLU258 SER259 LEU260 TYR261 ASN262 PRO263 MET264 LEU265 PRO266 GLY267 ILE268 VAL269 ALA270 ASP271 LEU272 LYS273 ALA274 LYS275 GLY276 LEU277 ALA278 VAL279 GLU280 SER281 GLU282 GLY283 ALA284 THR285 VAL286 VAL287 PHE288 LEU289 ASP290 GLU291 PHE292 LYS293 ASN294 LYS295 GLU296 GLY297 GLU298 PRO299 MET300 GLY301 VAL302 ILE303 ILE304 LEU312 TYR313 THR314 THR315 THR316 ASP317 ILE318 ALA319 CYS320 ALA321 LYS322 TYR323 ARG324 TYR325 GLU326 THR327 LEU328 HIS329 ALA330 ASP331 ARG332 VAL333 LEU334 TYR335 TYR336 ILE337 ASP338 SER339 ARG340 GLN341 HIS342 GLN343 HIS344 LEU345 MET346 GLN347 ALA348 TRP349 ALA350 ILE351 VAL352 ARG353 LYS354 ALA355 GLY356 TYR357 VAL358 PRO359 GLU360 SER361 VAL362 PRO363 LEU364 GLU365 HIS366 HIS367 MET368 PHE369 GLY370 MET371 MET372 LEU373 GLY374 LYS375 ASP376 GLY377 LYS378 PRO379 PHE380 LYS381 THR382 ARG383 ALA384 GLY385 GLY386 THR387 VAL388 LYS389 LEU390 ALA391 ASP392 LEU393 LEU394 ASP395 GLU396 ALA397 LEU398 GLU399 ARG400 ALA401 ARG402 ARG403 LEU404 VAL405 ALA406 GLU407 LYS408 ASN409 PRO410 ASP411 MET412 PRO413 ALA414 ASP415 GLU416 LEU417 GLU418 LYS419 LEU420 ALA421 ASN422 ALA423 VAL424 GLY425 ILE426 GLY427 ALA428 VAL429 LYS430 TYR431 ALA432 ASP433 LEU434 SER435 LYS436 ASN437 ARG438 THR439 THR440 ASP441 TYR442 ILE443 PHE444 ASP445 TRP446 ASP447 ASN448 MET449 LEU450 ALA451 PHE452 GLU453 GLY454 ASN455 THR456 ALA457 PRO458 TYR459 MET460 GLN461 TYR462 ALA463 TYR464 THR465 ARG466 VAL467 LEU468 SER469 VAL470 PHE471 ARG472 LYS473 ALA474 GLU475 ILE476 ASP477 GLU478 GLU479 GLN480 LEU481 ALA482 ALA483 ALA484 PRO485 VAL486 ILE487 ILE488 ARG489 GLU490 ASP491 ARG492 GLU493 ALA494 GLN495 LEU496 ALA497 ALA498 ARG499 LEU500 LEU501 GLN502 PHE503 GLU504 GLU505 THR506 LEU507 THR508 VAL509 VAL510 ALA511 ARG512 GLU513 GLY514 THR515 PRO516 HIS517 VAL518 MET519 CYS520 ALA521 TYR522 LEU523 TYR524 ASP525 LEU526 ALA527 GLY528 LEU529 PHE530 SER531 GLY532 PHE533 TYR534 GLU535 HIS536 CYS537 PRO538 ILE539 LEU540 SER541 ALA542 GLU543 ASN544 GLU545 GLU546 VAL547 ARG548 ASN549 SER550 ARG551 LEU552 LYS553 LEU554 ALA555 GLN556 LEU557 THR558 ALA559 LYS560 THR561 LEU562 LYS563 LEU564 GLY565 LEU566 ASP567 THR568 LEU569 GLY570 ILE571 GLU572 THR573 VAL574 GLU575 ARG576 MET577
Unit 3 MET1 ASN2 ILE3 GLN4 ALA5 LEU6 LEU7 SER8 GLU9 LYS10 VAL11 ARG12 GLN13 ALA14 MET15 ILE16 ALA17 ALA18 GLY19 ALA20 PRO21 ALA22 ASP23 CYS24 GLU25 PRO26 GLN27 VAL28 ARG29 GLN30 SER31 ALA32 LYS33 VAL34 GLN35 PHE36 GLY37 ASP38 TYR39 GLN40 ALA41 ASN42 GLY43 MET44 MET45 ALA46 VAL47 ALA48 LYS49 LYS50 LEU51 GLY52 MET53 ALA54 PRO55 ARG56 GLN57 LEU58 ALA59 GLU60 GLN61 VAL62 LEU63 THR64 HIS65 LEU66 ASP67 LEU68 ASN69 GLY70 ILE71 ALA72 SER73 LYS74 VAL75 GLU76 ILE77 ALA78 GLY79 PRO80 GLY81 PHE82 ILE83 ASN84 ILE85 PHE86 LEU87 ASP88 PRO89 ALA90 PHE91 LEU92 ALA93 GLU94 HIS95 VAL96 GLN97 GLN98 ALA99 LEU100 ALA101 SER102 ASP103 ARG104 LEU105 GLY106 VAL107 ALA108 THR109 PRO110 GLU111 LYS112 GLN113 THR114 ILE115 VAL116 VAL117 ASP118 TYR119 SER120 ALA121 PRO122 ASN123 VAL124 ALA125 LYS126 GLU127 MET128 HIS129 VAL130 GLY131 HIS132 LEU133 ARG134 SER135 THR136 ILE137 ILE138 GLY139 ASP140 ALA141 ALA142 VAL143 ARG144 THR145 LEU146 GLU147 PHE148 LEU149 GLY150 HIS151 LYS152 VAL153 ILE154 ARG155 ALA156 ASN157 HIS158 VAL159 GLY160 ASP161 TRP162 GLY163 THR164 GLN165 PHE166 GLY167 MET168 LEU169 ILE170 ALA171 TRP172 LEU173 GLU174 LYS175 GLN176 GLN177 GLN178 GLU179 ASN180 ALA181 GLY182 GLU183 MET184 GLU185 LEU186 ALA187 ASP188 LEU189 GLU190 GLY191 PHE192 ALA207 GLU208 ARG209 ALA210 ARG211 ASN212 TYR213 VAL214 VAL215 LYS216 LEU217 GLN218 SER219 GLY220 ASP221 GLU222 TYR223 PHE224 ARG225 GLU226 MET227 TRP228 ARG229 LYS230 LEU231 VAL232 ASP233 ILE234 THR235 MET236 THR237 GLN238 ASN239 GLN240 ILE241 THR242 TYR243 ASP244 ARG245 LEU246 ASN247 VAL248 THR249 LEU250 THR251 ARG252 ASP253 ASP254 VAL255 MET256 GLY257 GLU258 SER259 LEU260 TYR261 ASN262 PRO263 MET264 LEU265 PRO266 GLY267 ILE268 VAL269 ALA270 ASP271 LEU272 LYS273 ALA274 LYS275 GLY276 LEU277 ALA278 VAL279 GLU280 SER281 GLU282 GLY283 ALA284 THR285 VAL286 VAL287 PHE288 LEU289 ASP290 GLU291 PRO299 MET300 GLY301 VAL302 ILE303 ILE304 GLN305 LYS306 LYS307 ASP308 GLY309 GLY310 TYR311 LEU312 TYR313 THR314 THR315 THR316 ASP317 ILE318 ALA319 CYS320 ALA321 LYS322 TYR323 ARG324 TYR325 GLU326 THR327 LEU328 HIS329 ALA330 ASP331 ARG332 VAL333 LEU334 TYR335 TYR336 ILE337 ASP338 SER339 ARG340 GLN341 HIS342 GLN343 HIS344 LEU345 MET346 GLN347 ALA348 TRP349 ALA350 ILE351 VAL352 ARG353 LYS354 ALA355 GLY356 TYR357 VAL358 PRO359 GLU360 SER361 VAL362 PRO363 LEU364 GLU365 HIS366 HIS367 MET368 PHE369 GLY370 MET371 MET372 LEU373 GLY374 LYS375 ASP376 GLY377 LYS378 PRO379 PHE380 LYS381 THR382 ARG383 ALA384 GLY385 GLY386 THR387 VAL388 LYS389 LEU390 ALA391 ASP392 LEU393 LEU394 ASP395 GLU396 ALA397 LEU398 GLU399 ARG400 ALA401 ARG402 ARG403 LEU404 VAL405 ALA406 GLU407 LYS408 ASN409 PRO410 ASP411 MET412 PRO413 ALA414 ASP415 GLU416 LEU417 GLU418 LYS419 LEU420 ALA421 ASN422 ALA423 VAL424 GLY425 ILE426 GLY427 ALA428 VAL429 LYS430 TYR431 ALA432 ASP433 LEU434 SER435 LYS436 ASN437 ASP441 TYR442 ILE443 PHE444 ASP445 TRP446 ASP447 ASN448 MET449 LEU450 ALA451 PHE452 GLU453 GLY454 ASN455 THR456 ALA457 PRO458 TYR459 MET460 GLN461 TYR462 ALA463 TYR464 THR465 ARG466 VAL467 LEU468 SER469 VAL470 PHE471 ARG472 LYS473 ALA474 GLU475 ILE476 ASP477 GLU478 GLU479 GLN480 LEU481 ALA482 ALA483 ALA484 PRO485 VAL486 ILE487 ILE488 ARG489 GLU490 ASP491 ARG492 GLU493 ALA494 GLN495 LEU496 ALA497 ALA498 ARG499 LEU500 LEU501 GLN502 PHE503 GLU504 GLU505 THR506 LEU507 THR508 VAL509 VAL510 ALA511 ARG512 GLU513 GLY514 THR515 PRO516 HIS517 VAL518 MET519 CYS520 ALA521 TYR522 LEU523 TYR524 ASP525 LEU526 ALA527 GLY528 LEU529 PHE530 SER531 GLY532 PHE533 TYR534 GLU535 HIS536 CYS537 PRO538 ILE539 LEU540 SER541 ALA542 GLU543 ASN544 GLU545 GLU546 VAL547 ARG548 ASN549 SER550 ARG551 LEU552 LYS553 LEU554 ALA555 GLN556 LEU557 THR558 ALA559 LYS560 THR561 LEU562 LYS563 LEU564 GLY565 LEU566 ASP567 THR568 LEU569 GLY570 ILE571 GLU572 THR573 VAL574 GLU575 ARG576 MET577
Nucleic acids
Unit 2 G901 C902 G903 C904 U905 C906 G907 U908 A909 G910 C911 U912 C913 A914 A915 U916 U917 G918 G919 A920 U921 A922 G923 A924 G925 C926 A927 U928 C929 A942 G943 A944 A945 G946 G947 U948 U949 A950 G951 G952 G953 G954 U955 U956 C957 G958 A959 A960 U961 C962 C963 U964 C965 U966 C967 G968 A969 G970 C971 G972 C973 G974 C975
Unit 4 G901 C902 G903 C904 U905 C906 G907 U908 A909 G910 C911 U912 C913 A914 A915 U916 U917 G918 G919 A920 U921 A922 G923 A924 G925 C926 A927 U928 U940 C941 A942 G943 A944 A945 G946 G947 U948 U949 A950 G951 G952 G953 G954 U955 U956 C957 G958 A959 A960 U961 C962 C963 U964 C965 U966 C967 G968 A969 G970 C971 G972 C973 G974 C975
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