Structure of PDB 8yop Chain Ll

Receptor sequence

>8yopLl (length=50) Species: 9606 (Homo sapiens) [Search protein sequence]

SSHKTFRIKRFLAKKQKQNRPIPQWIRMKTGNKIRYNSKRRHWRRTKLGL

3D structure

PDB

8yop Structural basis for differential inhibition of eukaryotic ribosomes by tigecycline.

Chain

Resolution

2.2 Å

3D
structure

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	Ll	S2 S3 H4 K5 K10 L13 K34 I35 R36 Y37 N38 S39 R41 R42 H43 W44 R45 K48 L49 L51	S1 S2 H3 K4 K9 L12 K33 I34 R35 Y36 N37 S38 R40 R41 H42 W43 R44 K47 L48 L50
BS02	rna	Ll	T6 F7 R11 K15 K18 Q19 R21 I23 W26 I27 M29 K30 T31 I35 K40	T5 F6 R10 K14 K17 Q18 R20 I22 W25 I26 M28 K29 T30 I34 K39

Gene Ontology

	Molecular Function
GO:0003723	RNA binding
GO:0003735	structural constituent of ribosome

	Biological Process
GO:0002181	cytoplasmic translation
GO:0002227	innate immune response in mucosa
GO:0006412	translation
GO:0019731	antibacterial humoral response
GO:0050830	defense response to Gram-positive bacterium
GO:0061844	antimicrobial humoral immune response mediated by antimicrobial peptide

	Cellular Component
GO:0005615	extracellular space
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:8yop, PDBe:8yop, PDBj:8yop
PDBsum	8yop
PubMed	38942792
UniProt	P62891\|RL39_HUMAN Large ribosomal subunit protein eL39 (Gene Name=RPL39)