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Sequence, Chains, Asymmetric and Biological Units

Title STRUCTURE OF YTH-YTHDF2 IN THE FREE STATE
Keywords RNA BINDING, ATYPICAL BETA-PROPELLER, M6A METHYLATED RNA, RN PROTEIN
Experiment X-ray diffraction
Number of Models  1


   Database       ID code    StatusCoordinate files
        Header     Asymmetric unit     Biological unit  

PDB   4RDO     released     available     available     Quaternary Structure Server  


Asymmetric unit from PDB
 Unit     Type     Name   Chain ID   Residues   Atoms   Hetatoms 
1  Protein   YTH DOMAIN-CONTAINING FAMILY PROTEIN 2  A 149 1217 0
2  Protein   YTH DOMAIN-CONTAINING FAMILY PROTEIN 2  B 146 1192 0
3  Protein   YTH DOMAIN-CONTAINING FAMILY PROTEIN 2  C 148 1212 0
4  Protein   YTH DOMAIN-CONTAINING FAMILY PROTEIN 2  D 146 1195 0
5  Protein   YTH DOMAIN-CONTAINING FAMILY PROTEIN 2  E 141 1141 0
6  Protein   YTH DOMAIN-CONTAINING FAMILY PROTEIN 2  F 140 1133 0
7  Ligand   YTH DOMAIN-CONTAINING FAMILY PROTEIN 2  A 1 0 5
8  Ligand   YTH DOMAIN-CONTAINING FAMILY PROTEIN 2  B 1 0 5
9  Ligand   YTH DOMAIN-CONTAINING FAMILY PROTEIN 2  C 1 0 5
10  Ligand   YTH DOMAIN-CONTAINING FAMILY PROTEIN 2  D 1 0 5
11  Ligand   YTH DOMAIN-CONTAINING FAMILY PROTEIN 2  E 1 0 5
12  Ligand   YTH DOMAIN-CONTAINING FAMILY PROTEIN 2  F 1 0 5
13 Water     422 0 422
total       1298 7090 452

Proteins
Unit 1 GLU400 ASN401 LEU402 TYR403 PHE404 GLN405 HIS406 MET407 LYS408 HIS409 GLY410 ARG411 VAL412 PHE413 ILE414 ILE415 LYS416 SER417 TYR418 SER419 GLU420 ASP421 ASP422 ILE423 HIS424 ARG425 SER426 ILE427 LYS428 TYR429 ASN430 ILE431 TRP432 CYS433 SER434 THR435 GLU436 HIS437 GLY438 ASN439 LYS440 ARG441 LEU442 ASP443 ALA444 ALA445 TYR446 ARG447 SER448 MET449 ASN450 GLY451 LYS452 GLY453 PRO454 VAL455 TYR456 LEU457 LEU458 PHE459 SER460 VAL461 ASN462 GLY463 SER464 GLY465 HIS466 PHE467 CYS468 GLY469 VAL470 ALA471 GLU472 MET473 LYS474 SER475 ALA476 VAL477 ASP478 TYR479 ASN480 THR481 CYS482 ALA483 GLY484 VAL485 TRP486 SER487 GLN488 ASP489 LYS490 TRP491 LYS492 GLY493 ARG494 PHE495 ASP496 VAL497 ARG498 TRP499 ILE500 PHE501 VAL502 LYS503 ASP504 VAL505 PRO506 ASN507 SER508 GLN509 LEU510 ARG511 HIS512 ILE513 ARG514 LEU515 GLU516 ASN517 ASN518 GLU519 ASN520 LYS521 PRO522 VAL523 THR524 ASN525 SER526 ARG527 ASP528 THR529 GLN530 GLU531 VAL532 PRO533 LEU534 GLU535 LYS536 ALA537 LYS538 GLN539 VAL540 LEU541 LYS542 ILE543 ILE544 ALA545 SER546 TYR547 LYS548
Unit 2 TYR403 PHE404 GLN405 HIS406 MET407 LYS408 HIS409 GLY410 ARG411 VAL412 PHE413 ILE414 ILE415 LYS416 SER417 TYR418 SER419 GLU420 ASP421 ASP422 ILE423 HIS424 ARG425 SER426 ILE427 LYS428 TYR429 ASN430 ILE431 TRP432 CYS433 SER434 THR435 GLU436 HIS437 GLY438 ASN439 LYS440 ARG441 LEU442 ASP443 ALA444 ALA445 TYR446 ARG447 SER448 MET449 ASN450 GLY451 LYS452 GLY453 PRO454 VAL455 TYR456 LEU457 LEU458 PHE459 SER460 VAL461 ASN462 GLY463 SER464 GLY465 HIS466 PHE467 CYS468 GLY469 VAL470 ALA471 GLU472 MET473 LYS474 SER475 ALA476 VAL477 ASP478 TYR479 ASN480 THR481 CYS482 ALA483 GLY484 VAL485 TRP486 SER487 GLN488 ASP489 LYS490 TRP491 LYS492 GLY493 ARG494 PHE495 ASP496 VAL497 ARG498 TRP499 ILE500 PHE501 VAL502 LYS503 ASP504 VAL505 PRO506 ASN507 SER508 GLN509 LEU510 ARG511 HIS512 ILE513 ARG514 LEU515 GLU516 ASN517 ASN518 GLU519 ASN520 LYS521 PRO522 VAL523 THR524 ASN525 SER526 ARG527 ASP528 THR529 GLN530 GLU531 VAL532 PRO533 LEU534 GLU535 LYS536 ALA537 LYS538 GLN539 VAL540 LEU541 LYS542 ILE543 ILE544 ALA545 SER546 TYR547 LYS548
Unit 3 GLU400 ASN401 LEU402 TYR403 PHE404 GLN405 HIS406 MET407 LYS408 HIS409 GLY410 ARG411 VAL412 PHE413 ILE414 ILE415 LYS416 SER417 TYR418 SER419 GLU420 ASP421 ASP422 ILE423 HIS424 ARG425 SER426 ILE427 LYS428 TYR429 ASN430 ILE431 TRP432 CYS433 SER434 THR435 GLU436 HIS437 GLY438 ASN439 LYS440 ARG441 LEU442 ASP443 ALA444 ALA445 TYR446 ARG447 SER448 MET449 ASN450 GLY451 LYS452 GLY453 PRO454 VAL455 TYR456 LEU457 LEU458 PHE459 SER460 VAL461 ASN462 GLY463 SER464 GLY465 HIS466 PHE467 CYS468 GLY469 VAL470 ALA471 GLU472 MET473 LYS474 SER475 ALA476 VAL477 ASP478 TYR479 ASN480 THR481 CYS482 ALA483 GLY484 VAL485 TRP486 SER487 GLN488 ASP489 LYS490 TRP491 LYS492 GLY493 ARG494 PHE495 ASP496 VAL497 ARG498 TRP499 ILE500 PHE501 VAL502 LYS503 ASP504 VAL505 PRO506 ASN507 SER508 GLN509 LEU510 ARG511 HIS512 ILE513 ARG514 LEU515 GLU516 ASN517 ASN518 GLU519 ASN520 LYS521 PRO522 VAL523 THR524 ASN525 SER526 ARG527 ASP528 THR529 GLN530 GLU531 VAL532 PRO533 LEU534 GLU535 LYS536 ALA537 LYS538 GLN539 VAL540 LEU541 LYS542 ILE543 ILE544 ALA545 SER546 TYR547
Unit 4 LEU402 TYR403 PHE404 GLN405 HIS406 MET407 LYS408 HIS409 GLY410 ARG411 VAL412 PHE413 ILE414 ILE415 LYS416 SER417 TYR418 SER419 GLU420 ASP421 ASP422 ILE423 HIS424 ARG425 SER426 ILE427 LYS428 TYR429 ASN430 ILE431 TRP432 CYS433 SER434 THR435 GLU436 HIS437 GLY438 ASN439 LYS440 ARG441 LEU442 ASP443 ALA444 ALA445 TYR446 ARG447 SER448 MET449 ASN450 GLY451 LYS452 GLY453 PRO454 VAL455 TYR456 LEU457 LEU458 PHE459 SER460 VAL461 ASN462 GLY463 SER464 GLY465 HIS466 PHE467 CYS468 GLY469 VAL470 ALA471 GLU472 MET473 LYS474 SER475 ALA476 VAL477 ASP478 TYR479 ASN480 THR481 CYS482 ALA483 GLY484 VAL485 TRP486 SER487 GLN488 ASP489 LYS490 TRP491 LYS492 GLY493 ARG494 PHE495 ASP496 VAL497 ARG498 TRP499 ILE500 PHE501 VAL502 LYS503 ASP504 VAL505 PRO506 ASN507 SER508 GLN509 LEU510 ARG511 HIS512 ILE513 ARG514 LEU515 GLU516 ASN517 ASN518 GLU519 ASN520 LYS521 PRO522 VAL523 THR524 ASN525 SER526 ARG527 ASP528 THR529 GLN530 GLU531 VAL532 PRO533 LEU534 GLU535 LYS536 ALA537 LYS538 GLN539 VAL540 LEU541 LYS542 ILE543 ILE544 ALA545 SER546 TYR547
Unit 5 MET407 LYS408 HIS409 GLY410 ARG411 VAL412 PHE413 ILE414 ILE415 LYS416 SER417 TYR418 SER419 GLU420 ASP421 ASP422 ILE423 HIS424 ARG425 SER426 ILE427 LYS428 TYR429 ASN430 ILE431 TRP432 CYS433 SER434 THR435 GLU436 HIS437 GLY438 ASN439 LYS440 ARG441 LEU442 ASP443 ALA444 ALA445 TYR446 ARG447 SER448 MET449 ASN450 GLY451 LYS452 GLY453 PRO454 VAL455 TYR456 LEU457 LEU458 PHE459 SER460 VAL461 ASN462 GLY463 SER464 GLY465 HIS466 PHE467 CYS468 GLY469 VAL470 ALA471 GLU472 MET473 LYS474 SER475 ALA476 VAL477 ASP478 TYR479 ASN480 THR481 CYS482 ALA483 GLY484 VAL485 TRP486 SER487 GLN488 ASP489 LYS490 TRP491 LYS492 GLY493 ARG494 PHE495 ASP496 VAL497 ARG498 TRP499 ILE500 PHE501 VAL502 LYS503 ASP504 VAL505 PRO506 ASN507 SER508 GLN509 LEU510 ARG511 HIS512 ILE513 ARG514 LEU515 GLU516 ASN517 ASN518 GLU519 ASN520 LYS521 PRO522 VAL523 THR524 ASN525 SER526 ARG527 ASP528 THR529 GLN530 GLU531 VAL532 PRO533 LEU534 GLU535 LYS536 ALA537 LYS538 GLN539 VAL540 LEU541 LYS542 ILE543 ILE544 ALA545 SER546 TYR547
Unit 6 HIS409 GLY410 ARG411 VAL412 PHE413 ILE414 ILE415 LYS416 SER417 TYR418 SER419 GLU420 ASP421 ASP422 ILE423 HIS424 ARG425 SER426 ILE427 LYS428 TYR429 ASN430 ILE431 TRP432 CYS433 SER434 THR435 GLU436 HIS437 GLY438 ASN439 LYS440 ARG441 LEU442 ASP443 ALA444 ALA445 TYR446 ARG447 SER448 MET449 ASN450 GLY451 LYS452 GLY453 PRO454 VAL455 TYR456 LEU457 LEU458 PHE459 SER460 VAL461 ASN462 GLY463 SER464 GLY465 HIS466 PHE467 CYS468 GLY469 VAL470 ALA471 GLU472 MET473 LYS474 SER475 ALA476 VAL477 ASP478 TYR479 ASN480 THR481 CYS482 ALA483 GLY484 VAL485 TRP486 SER487 GLN488 ASP489 LYS490 TRP491 LYS492 GLY493 ARG494 PHE495 ASP496 VAL497 ARG498 TRP499 ILE500 PHE501 VAL502 LYS503 ASP504 VAL505 PRO506 ASN507 SER508 GLN509 LEU510 ARG511 HIS512 ILE513 ARG514 LEU515 GLU516 ASN517 ASN518 GLU519 ASN520 LYS521 PRO522 VAL523 THR524 ASN525 SER526 ARG527 ASP528 THR529 GLN530 GLU531 VAL532 PRO533 LEU534 GLU535 LYS536 ALA537 LYS538 GLN539 VAL540 LEU541 LYS542 ILE543 ILE544 ALA545 SER546 TYR547 LYS548

Ligands
Unit 7 SO4601
Unit 8 SO4601
Unit 9 SO4601
Unit 10 SO4601
Unit 11 SO4601
Unit 12 SO4601

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Perl script:    PDBscan.pl  (15 Sep 2016)
Author:    Peter Slickers  (slickers@leibniz-fli.de),  IMB Jena,  Germany