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Sequence, Chains, Asymmetric and Biological Units

Title CRYSTAL STRUCTURE OF BIFUNCTIONAL METHYLTRANSFERASE YCBY (RL ESCHERICHIA COLI, SAH BINDING
Keywords YCBY, RNA METHYLTRANSFERASE, RIBOSOME RNA, SAH, TRANSFERASE, RLML
Experiment X-ray diffraction
Number of Models  1

   Database       ID code    StatusCoordinate files
        Header     Asymmetric unit     Biological unit  
PDB   3V97     released     available     available     Quaternary Structure Server  
Asymmetric unit from PDB
 Unit     Type     Name   Chain ID   Residues   Atoms   Hetatoms 
1  Protein   RIBOSOMAL RNA LARGE SUBUNIT METHYLTRANSFERASE L  A 667 5139 0
2  Protein   RIBOSOMAL RNA LARGE SUBUNIT METHYLTRANSFERASE L  B 641 4898 0
3  Ligand    C 2 0 31
4  Ligand    D 2 0 30
5  Ligand   RIBOSOMAL RNA LARGE SUBUNIT METHYLTRANSFERASE L  A 4 0 64
6  Ligand   RIBOSOMAL RNA LARGE SUBUNIT METHYLTRANSFERASE L  B 4 0 64
7 Water     471 0 471
total       1791 10037 660
Proteins
Unit 1 ALA0 MET1 ASN2 SER3 LEU4 PHE5 ALA6 SER7 THR8 ALA9 ARG10 GLY11 LEU12 GLU13 GLU14 LEU15 LEU16 LYS17 THR18 GLU19 LEU20 GLU21 ASN22 LEU23 GLY24 ALA25 VAL26 GLU27 CYS28 GLN29 VAL30 VAL31 GLN32 GLY33 GLY34 VAL35 HIS36 PHE37 LYS38 GLY39 ASP40 THR41 ARG42 LEU43 VAL44 TYR45 GLN46 SER47 LEU48 MET49 TRP50 SER51 ARG52 LEU53 ALA54 SER55 ARG56 ILE57 MET58 LEU59 PRO60 LEU61 GLY62 GLU63 CYS64 LYS65 VAL66 TYR67 SER68 ASP69 LEU70 ASP71 LEU72 TYR73 LEU74 GLY75 VAL76 GLN77 ALA78 ILE79 ASN80 TRP81 THR82 GLU83 MET84 PHE85 ASN86 PRO87 GLY88 ALA89 THR90 PHE91 ALA92 VAL93 HIS94 PHE95 SER96 GLY97 LEU98 ASN99 ASP100 THR101 ILE102 ARG103 ASN104 SER105 GLN106 TYR107 GLY108 ALA109 MET110 LYS111 VAL112 LYS113 ASP114 ALA115 ILE116 VAL117 ASP118 ALA119 PHE120 THR121 ARG122 LYS123 ASN124 LEU125 PRO126 ARG127 PRO128 ASN129 VAL130 ASP131 ARG132 ASP133 ALA134 PRO135 ASP136 ILE137 ARG138 VAL139 ASN140 VAL141 TRP142 LEU143 HIS144 LYS145 GLU146 THR147 ALA148 SER149 ILE150 ALA151 LEU152 ASP153 LEU154 SER155 GLY156 ASP157 GLY158 LEU159 HIS160 LEU161 ARG162 GLY163 TYR164 ARG165 ASP166 ARG167 ALA168 GLY169 ILE170 ALA171 PRO172 ILE173 LYS174 GLU175 THR176 LEU177 ALA178 ALA179 ALA180 ILE181 VAL182 MET183 ARG184 SER185 GLY186 TRP187 GLN188 PRO189 GLY190 THR191 PRO192 LEU193 LEU194 ASP195 PRO196 MET197 CYS198 GLY199 SER200 GLY201 THR202 LEU203 LEU204 ILE205 GLU206 ALA207 ALA208 MET209 LEU210 ALA211 THR212 ASP213 ARG214 ALA215 PRO216 GLY217 LEU218 HIS219 ARG220 GLY221 ARG222 TRP223 GLY224 PHE225 SER226 GLY227 TRP228 ALA229 GLN230 HIS231 ASP232 GLU233 ALA234 ILE235 TRP236 GLN237 GLU238 VAL239 LYS240 ALA241 GLU242 ALA243 GLN244 THR245 ARG246 ALA247 ARG248 LYS249 GLY250 LEU251 ALA252 GLU253 TYR254 SER255 SER256 HIS257 PHE258 TYR259 GLY260 SER261 ASP262 SER263 ASP264 ALA265 ARG266 VAL267 ILE268 GLN269 ARG270 ALA271 ARG272 THR273 ASN274 ALA275 ARG276 LEU277 ALA278 GLY279 ILE280 GLY281 GLU282 LEU283 ILE284 THR285 PHE286 GLU287 VAL288 LYS289 ASP290 VAL291 ALA292 GLN293 LEU294 THR295 ASN296 PRO297 LEU298 PRO299 LYS300 GLY301 PRO302 TYR303 GLY304 THR305 VAL306 LEU307 SER308 ASN309 PRO310 PRO311 TYR312 GLY313 GLU314 SER318 GLU319 PRO320 ALA321 LEU322 ILE323 ALA324 LEU325 HIS326 SER327 LEU328 LEU329 GLY330 ARG331 ILE332 MET333 LYS334 ASN335 GLN336 PHE337 GLY338 GLY339 TRP340 ASN341 LEU342 SER343 LEU344 PHE345 SER346 ALA347 SER348 PRO349 ASP350 LEU351 LEU352 SER353 CYS354 LEU355 GLN356 LEU357 ARG358 ALA359 ASP360 LYS361 GLN362 TYR363 LYS364 ALA365 LYS366 ASN367 GLY368 PRO369 LEU370 ASP371 CYS372 VAL373 GLN374 LYS375 ASN376 TYR377 HIS378 VAL379 ALA380 GLU381 SER382 MET390 VAL391 ALA392 GLU393 ASP394 TYR395 THR396 ASN397 ARG398 LEU399 ARG400 LYS401 ASN402 LEU403 LYS404 LYS405 PHE406 GLU407 LYS408 TRP409 ALA410 ARG411 GLN412 GLU413 GLY414 ILE415 GLU416 CYS417 TYR418 ARG419 LEU420 TYR421 ASP422 ALA423 ASP424 LEU425 PRO426 GLU427 TYR428 ASN429 VAL430 ALA431 VAL432 ASP433 ARG434 TYR435 ALA436 ASP437 TRP438 VAL439 VAL440 VAL441 GLN442 GLU443 TYR444 ALA445 HIS453 LYS454 ALA455 ARG456 GLN457 ARG458 LEU459 PHE460 ASP461 ILE462 ILE463 ALA464 ALA465 THR466 ILE467 SER468 VAL469 LEU470 GLY471 ILE472 ALA473 PRO474 ASN475 LYS476 LEU477 VAL478 LEU479 LYS480 THR481 ARG482 GLU483 GLU496 LYS497 GLY498 GLU499 PHE500 LEU501 GLU502 VAL503 THR504 GLU505 TYR506 ASN507 ALA508 HIS509 LEU510 TRP511 VAL512 ASN513 LEU514 THR515 ASP516 TYR517 LEU518 ASP519 THR520 GLY521 LEU522 PHE523 LEU524 ASP525 HIS526 ARG527 ILE528 ALA529 ARG530 ARG531 MET532 LEU533 GLY534 GLN535 MET536 SER537 LYS538 GLY539 LYS540 ASP541 PHE542 LEU543 ASN544 LEU545 PHE546 SER547 TYR548 THR549 GLY550 SER551 ALA552 THR553 VAL554 HIS555 ALA556 GLY557 LEU558 GLY559 GLY560 ALA561 ARG562 SER563 THR564 THR565 THR566 VAL567 ASP568 MET569 SER570 ARG571 THR572 TYR573 LEU574 GLU575 TRP576 ALA577 GLU578 ARG579 ASN580 LEU581 ARG582 LEU583 ASN584 GLY585 LEU586 THR587 GLY588 ARG589 ALA590 HIS591 ARG592 LEU593 ILE594 GLN595 ALA596 ASP597 CYS598 LEU599 ALA600 TRP601 LEU602 ARG603 GLU604 ALA605 ASN606 GLU607 GLN608 PHE609 ASP610 LEU611 ILE612 PHE613 ILE614 ASP615 PRO616 PRO617 THR618 PHE619 SER620 ALA628 PHE629 ASP630 VAL631 GLN632 ARG633 ASP634 HIS635 LEU636 ALA637 LEU638 MET639 LYS640 ASP641 LEU642 LYS643 ARG644 LEU645 LEU646 ARG647 ALA648 GLY649 GLY650 THR651 ILE652 MET653 PHE654 SER655 ASN656 ASN657 LYS658 ARG659 GLY660 PHE661 ARG662 MET663 ASP664 LEU665 ASP666 GLY667 LEU668 ALA669 LYS670 LEU671 GLY672 LEU673 LYS674 ALA675 GLN676 GLU677 ILE678 THR679 GLN680 LYS681 THR682 LEU683 SER684 GLN685 ASP686 PHE687 ALA688 ARG689 ASN690 ARG691 GLN692 ILE693 HIS694 ASN695 CYS696 TRP697 LEU698 ILE699 THR700 ALA701 ALA702
Unit 2 MET1 ASN2 SER3 LEU4 PHE5 ALA6 SER7 THR8 ALA9 ARG10 GLY11 LEU12 GLU13 GLU14 LEU15 LEU16 LYS17 THR18 GLU19 LEU20 GLU21 ASN22 LEU23 GLY24 ALA25 VAL26 GLU27 CYS28 GLN29 VAL30 VAL31 GLN32 GLY33 GLY34 VAL35 HIS36 PHE37 LYS38 GLY39 ASP40 THR41 ARG42 LEU43 VAL44 TYR45 GLN46 SER47 LEU48 MET49 TRP50 SER51 ARG52 LEU53 ALA54 SER55 ARG56 ILE57 MET58 LEU59 PRO60 LEU61 GLY62 GLU63 CYS64 LYS65 VAL66 TYR67 SER68 ASP69 LEU70 ASP71 LEU72 TYR73 LEU74 GLY75 VAL76 GLN77 ALA78 ILE79 ASN80 TRP81 THR82 GLU83 MET84 PHE85 ASN86 PRO87 GLY88 ALA89 THR90 PHE91 ALA92 VAL93 HIS94 ARG103 ASN104 SER105 GLN106 TYR107 GLY108 ALA109 MET110 LYS111 VAL112 LYS113 ASP114 ALA115 ILE116 VAL117 ASP118 ALA119 PHE120 THR121 ARG122 PRO126 ARG127 PRO128 ASN129 VAL130 ASP131 ARG132 ASP133 ALA134 PRO135 ASP136 ILE137 ARG138 VAL139 ASN140 VAL141 TRP142 SER149 ILE150 ALA151 LEU152 ASP153 LEU154 SER155 GLY156 ASP157 GLY158 LEU159 HIS160 LEU161 ARG162 GLY163 TYR164 ARG165 ASP166 ILE170 ALA171 PRO172 ILE173 LYS174 GLU175 THR176 LEU177 ALA178 ALA179 ALA180 ILE181 VAL182 MET183 ARG184 SER185 GLY186 TRP187 GLN188 PRO189 GLY190 THR191 PRO192 LEU193 LEU194 ASP195 PRO196 MET197 CYS198 GLY199 SER200 GLY201 THR202 LEU203 LEU204 ILE205 GLU206 ALA207 ALA208 MET209 LEU210 ALA211 THR212 ASP213 ARG214 ALA215 PRO216 GLY217 LEU218 HIS219 ARG220 GLY221 ARG222 TRP223 GLY224 PHE225 SER226 GLY227 TRP228 ALA229 GLN230 HIS231 ASP232 GLU233 ALA234 ILE235 TRP236 GLN237 GLU238 VAL239 LYS240 ALA241 GLU242 ALA243 GLN244 THR245 ARG246 ALA247 ARG248 LYS249 GLY250 LEU251 ALA252 GLU253 TYR254 SER255 SER256 HIS257 PHE258 TYR259 GLY260 SER261 ASP262 SER263 ASP264 ALA265 ARG266 VAL267 ILE268 GLN269 ARG270 ALA271 ARG272 THR273 ASN274 ALA275 ARG276 LEU277 ALA278 GLY279 ILE280 GLY281 GLU282 LEU283 ILE284 THR285 PHE286 GLU287 VAL288 LYS289 ASP290 VAL291 ALA292 GLN293 LEU294 THR295 ASN296 PRO297 LEU298 PRO299 LYS300 GLY301 PRO302 TYR303 GLY304 THR305 VAL306 LEU307 SER308 ASN309 PRO310 PRO311 TYR312 SER318 GLU319 PRO320 ALA321 LEU322 ILE323 ALA324 LEU325 HIS326 SER327 LEU328 LEU329 GLY330 ARG331 ILE332 MET333 LYS334 ASN335 GLN336 PHE337 GLY338 GLY339 TRP340 ASN341 LEU342 SER343 LEU344 PHE345 SER346 ALA347 SER348 PRO349 ASP350 LEU351 LEU352 SER353 CYS354 LEU355 GLN356 LEU357 ARG358 ALA359 ASP360 LYS361 GLN362 TYR363 LYS364 ALA365 LYS366 ASN367 GLY368 PRO369 LEU370 ASP371 CYS372 VAL373 GLN374 LYS375 ASN376 TYR377 HIS378 VAL379 ALA380 GLU381 SER382 GLU393 ASP394 TYR395 THR396 ASN397 ARG398 LEU399 ARG400 LYS401 ASN402 LEU403 LYS404 LYS405 PHE406 GLU407 LYS408 TRP409 ALA410 ARG411 GLN412 GLU413 GLY414 ILE415 GLU416 CYS417 TYR418 ARG419 LEU420 TYR421 ASP422 ALA423 ASP424 LEU425 PRO426 GLU427 TYR428 ASN429 VAL430 ALA431 VAL432 ASP433 ARG434 TYR435 ALA436 ASP437 TRP438 VAL439 VAL440 VAL441 GLN442 GLU443 TYR444 ALA445 HIS453 LYS454 ALA455 ARG456 GLN457 ARG458 LEU459 PHE460 ASP461 ILE462 ILE463 ALA464 ALA465 THR466 ILE467 SER468 VAL469 LEU470 GLY471 ILE472 ALA473 PRO474 ASN475 LYS476 LEU477 VAL478 LEU479 LYS480 THR481 ARG482 GLU496 LYS497 GLY498 GLU499 PHE500 LEU501 GLU502 VAL503 THR504 GLU505 TYR506 ASN507 ALA508 HIS509 LEU510 TRP511 VAL512 ASN513 LEU514 THR515 ASP516 TYR517 LEU518 ASP519 THR520 GLY521 LEU522 PHE523 LEU524 ASP525 HIS526 ARG527 ILE528 ALA529 ARG530 ARG531 MET532 LEU533 GLY534 GLN535 MET536 SER537 LYS538 GLY539 LYS540 ASP541 PHE542 LEU543 ASN544 LEU545 PHE546 SER547 TYR548 THR549 GLY550 SER551 ALA552 THR553 VAL554 HIS555 ALA556 GLY557 LEU558 GLY559 GLY560 ALA561 ARG562 SER563 THR564 THR565 THR566 VAL567 ASP568 MET569 SER570 ARG571 THR572 TYR573 LEU574 GLU575 TRP576 ALA577 GLU578 ARG579 ASN580 LEU581 ARG582 LEU583 ASN584 GLY585 LEU586 THR587 GLY588 ARG589 ALA590 HIS591 ARG592 LEU593 ILE594 GLN595 ALA596 ASP597 CYS598 LEU599 ALA600 TRP601 LEU602 ARG603 GLU604 ALA605 ASN606 GLU607 GLN608 PHE609 ASP610 LEU611 ILE612 PHE613 ILE614 ASP615 PRO616 PRO617 THR618 PHE619 SER620 ASN621 ALA628 PHE629 ASP630 VAL631 GLN632 ARG633 ASP634 HIS635 LEU636 ALA637 LEU638 MET639 LYS640 ASP641 LEU642 LYS643 ARG644 LEU645 LEU646 ARG647 ALA648 GLY649 GLY650 THR651 ILE652 MET653 PHE654 SER655 ASN656 ASN657 LYS658 ARG659 GLY660 PHE661 ARG662 MET663 ASP664 LEU665 ASP666 GLY667 LEU668 ALA669 LYS670 LEU671 GLY672 LEU673 LYS674 ALA675 GLN676 GLU677 ILE678 THR679 GLN680 LYS681 THR682 LEU683 SER684 GLN685 ASP686 PHE687 ALA688 ARG689 ASN690 ARG691 GLN692 ILE693 HIS694 ASN695 CYS696 TRP697 LEU698 ILE699 THR700 ALA701 ALA702
Ligands
Unit 3 GLC1 TRV2
Unit 4 GLC1 TRV2
Unit 5 SAH801 SAH802 GOL803 GOL804
Unit 6 SAH801 SAH802 GOL803 GOL804
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Perl script:    PDBscan.pl  (15 Sep 2016)
Author:    Peter Slickers  (slickers@leibniz-fli.de),  IMB Jena,  Germany