Structure of PDB 6sv4 Chain AA

Receptor sequence

>6sv4AA (length=231) Species: 4932 (Saccharomyces cerevisiae)

NPLTHSTPKNFGIGQAVQPKRNLSRYVKWPEYVRVQRQKKILSIRLKVPP
TIAQFQYTLDRNTAAETFKLFNKYRPETAAEKKERLTKEAAAVAEGKSKQ
DASPKPYAVKYGLNHVVALIENKKAKLVLIANDVDPIELVVFLPALCKKM
GVPYAIVKGKARLGTLVNQKTSAVAALTEVRAEDEAALAKLVSTIDANFA
DKYDEVKKHWGGGILGNKAQAKMDKRAKNSD

3D structure

• PDB: 6sv4 RQT complex dissociates ribosomes collided on endogenous RQC substrate SDD1.
• Chain: AA
• Resolution: 3.3 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	AA	S29 T30 P31 K32 N33 F34 I36 G37 Q38 Q41 P42 R44 L46 S47 R48 Y49 K51 P53 Y55 R57 R60 R68 L69 K70 E100 K105 K106 R108 Q123 S126 P127 K128 P129 K133 Y134 G135 L136 N137 H138 A141 N145 K147 D158 L162 K183 Q192 K193 S195 L238 N240 K241 A242 K245	S6 T7 P8 K9 N10 F11 I13 G14 Q15 Q18 P19 R21 L23 S24 R25 Y26 K28 P30 Y32 R34 R37 R45 L46 K47 E77 K82 K83 R85 Q100 S103 P104 K105 P106 K110 Y111 G112 L113 N114 H115 A118 N122 K124 D135 L139 K160 Q169 K170 S172 L215 N217 K218 A219 K222
BS02	rna	AA	V56 Q59 R60 K63 R84 K181	V33 Q36 R37 K40 R61 K158

Gene Ontology

Molecular Function

• GO:0003723 RNA binding
• GO:0003735 structural constituent of ribosome

Biological Process

• GO:0000470 maturation of LSU-rRNA
• GO:0002181 cytoplasmic translation
• GO:0006364 rRNA processing
• GO:0042254 ribosome biogenesis

Cellular Component

• GO:0005737 cytoplasm
• GO:0005829 cytosol
• GO:0005840 ribosome
• GO:0022625 cytosolic large ribosomal subunit
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:6sv4, PDBe:6sv4, PDBj:6sv4
• PDBsum: 6sv4
• PubMed: 32203490
• UniProt: P17076|RL8A_YEAST Large ribosomal subunit protein eL8A (Gene Name=RPL8A)