Structure of PDB 8y0u Chain LN

Receptor sequence

>8y0uLN (length=203) Species: 4932 (Saccharomyces cerevisiae)

GAYKYLEELQRKKQSDVLRFLQRVRVWEYRQKNVIHRAARPTRPDKARRL
GYKAKQGFVIYRVRVRRGNRKRPVPKGATYGKPTNQGVNELKYQRSLRAT
AEERVGRRAANLRVLNSYWVNQDSTYKYFEVILVDPQHKAIRRDARYNWI
CDPVHKHREARGLTATGKKSRGINKGHKFNNTKAGRRKTWKRQNTLSLWR
YRK

3D structure

• PDB: 8y0u dormant ribosome with STM1
• Chain: LN
• Resolution: 3.59 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	LN	G2 Y4 K5 E8 R12 K14 Q15 R20 R24 R31 V35 R41 R44 R49 R50 K54 K56 Q57 R67 R68 N70 R71 K72 R73 K77 Y81 K83 P84 T85 Q87 N90 E91 K93 Y94 Q95 R96 L98 R105 R108 N112 W120 S125 Q138 K140 R147 W150 A161 R162 L164 A166 K170 S171 R172 I174 K176 H178 K179 F180 N181 N182 R187 R188 K189 W191 R193 Q194 W200 R201 Y202 R203 K204	G1 Y3 K4 E7 R11 K13 Q14 R19 R23 R30 V34 R40 R43 R48 R49 K53 K55 Q56 R66 R67 N69 R70 K71 R72 K76 Y80 K82 P83 T84 Q86 N89 E90 K92 Y93 Q94 R95 L97 R104 R107 N111 W119 S124 Q137 K139 R146 W149 A160 R161 L163 A165 K169 S170 R171 I173 K175 H177 K178 F179 N180 N181 R186 R187 K188 W190 R192 Q193 W199 R200 Y201 R202 K203
BS02	rna	LN	R38 Q57 Y62 R109 N112 D136	R37 Q56 Y61 R108 N111 D135
BS03	MG	LN	T80 Y81	T79 Y80

Gene Ontology

Molecular Function

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

Biological Process

• GO:0002181 cytoplasmic translation
• GO:0006412 translation

Cellular Component

• GO:0005737 cytoplasm
• GO:0005829 cytosol
• GO:0005840 ribosome
• GO:0022625 cytosolic large ribosomal subunit
• GO:0022626 cytosolic ribosome
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:8y0u, PDBe:8y0u, PDBj:8y0u
• PDBsum: 8y0u
• PubMed: 38698775
• UniProt: P05748|RL15A_YEAST Large ribosomal subunit protein eL15A (Gene Name=RPL15A)