Structure of PDB 8aaf Chain a

Receptor sequence

>8aafa (length=848) Species: 4932 (Saccharomyces cerevisiae)

MKQRISALDLLLLARELKQDLEGYRLSNIYNIADSSKQFLLKFNKPDSKL
NVVVDCGLRIYLTEFSRPIPPTPSGFVVKLRKHLKAKRLTALKQVDQDRI
LVLQFADGHFYLVLEFFSAGNVILLDENRRIMALQRVVLEHENKVGQIYE
MFDESLFTTNNESADESIEKNRKAEYTSELVNEWIKAVQAKYESDITVIK
QLNIQGKEGAKKKKVKVPSIHKLLLSKVPHLSSDLLSKNLKVFNIDPSES
CLNLLEETDSLAELLNSTQLEYNQLLTTTDRKGYILAKRNENYISEKDTA
DLEFIYDTFHPFKPYINGGDTDSSCIIEVEGPYNRTLDKFFSTIESSKYA
LRIQNQESQAQKKIDDARAENDRKIQALLDVQELNERKGHLIIENAPLIE
EVKLAVQGLIDQQMDWNTIEKLIKSEQKKGNRIAQLLNLPLNLKQNKISV
KLDLSSNEKINVTIDLGLSAYANATEYFNIKKTSAQKQKKVEKNVGKAMK
NIEVKIDQQLKKKLKDSHSVLKKIRTPYFFEKYSWFISSEGFLVMMGKSP
AETDQIYSKYIEDDDIYMSNSFNSHVWIKNPEKTEVPPNTLMQAGILCMS
SSEAWSKKISSSPWWCFAKNVSKFDGSDNSILPEGAFRLKNENDQNHLPP
AQLVMGFGFLWKVKSNVRGKRGKLKKIQKKYADQDETERLLRLEALGTLK
GIEKQQQRKKEEIMKREVREDRKNKREKQRRLQALKFTKKEKARVNYDKH
KSELKPSLDKGDVVDDIIPVFAPWPALLKYKYKVKIQPGSAKKTKTLTEI
LHYFKSRPLDGSSTDNEMDWPQEHEMIKGLKEQDLVLLLCVDKLKVTI

3D structure

• PDB: 8aaf Molecular basis of eIF5A-dependent CAT tailing in eukaryotic ribosome-associated quality control.
• Chain: a
• Resolution: 2.5 Å

Interaction with ligand

Site #	Ligand	Ligand chain	Binding residues on receptor (original residue number in PDB)	Binding residues on receptor (residue number reindexed from 1)	Binding affinity
BS01	rna	a	Q413 D415 W416 S513 Y515 T519 F522 K526 K652 R838 K840 K843 Q848 Y851 Q854 L863 G867 T868 K870 I872 R878	Q413 D415 W416 S469 Y471 T475 F478 K482 K608 R668 K670 K673 Q678 Y681 Q684 L693 G697 T698 K700 I702 R708
BS02	rna	a	Q3 R4 D98 R99 F117 A119 E140 N538 N545 I546 K549	Q3 R4 D98 R99 F117 A119 E140 N494 N501 I502 K505
BS03	rna	a	R25 Y30 R81 R88 A106 D107 H109 K576 S593 Q599 K963 T964 V1006	R25 Y30 R81 R88 A106 D107 H109 K532 S549 Q555 K793 T794 V836

Gene Ontology

Molecular Function

• GO:0000049 tRNA binding
• GO:0003729 mRNA binding
• GO:0043023 ribosomal large subunit binding
• GO:1904678 alpha-aminoacyl-tRNA binding

Biological Process

• GO:0006412 translation
• GO:0043043 peptide biosynthetic process
• GO:0072344 rescue of stalled ribosome
• GO:0140708 CAT tailing
• GO:1990116 ribosome-associated ubiquitin-dependent protein catabolic process

Cellular Component

• GO:0005737 cytoplasm
• GO:0010494 cytoplasmic stress granule
• GO:0022626 cytosolic ribosome
• GO:1990112 RQC complex

External links

• PDB: RCSB:8aaf, PDBe:8aaf, PDBj:8aaf
• PDBsum: 8aaf
• PubMed: 36804914
• UniProt: Q12532|RQC2_YEAST Ribosome quality control complex subunit 2 (Gene Name=RQC2)