Structure of PDB 8yop Chain Lg

Receptor sequence

>8yopLg (length=114) Species: 9606 (Homo sapiens) [Search protein sequence]

VQRLTYRRRLSYNTASNKTRLSRTPGNRIVYLYTKKVGKAPKSACGVCPG
RLRGVRAVRPKVLMRLSKTKKHVSRAYGGSMCAKCVRDRIKRAFLIEEQK
IVVKVLKAQAQSQK

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)
BS01	rna	Lg	V2 R4 L5 T6 Y7 R8 R9 R10 L11 S12 Y13 N14 T15 S17 R21 L22 R24 T25 P26 G27 N28 R29 Y32 L33 Y34 K36 K37 K40 P42 K43 A45 V48 P50 R54 G55 R57 R60 P61 K62 M65 R66 S68 K69 T70 K72 H73 V74 S75 R76 Y78 G79 G80 S81 R90 R93 A94 I97 E98 Q100 K101 K115	V1 R3 L4 T5 Y6 R7 R8 R9 L10 S11 Y12 N13 T14 S16 R20 L21 R23 T24 P25 G26 N27 R28 Y31 L32 Y33 K35 K36 K39 P41 K42 A44 V47 P49 R53 G54 R56 R59 P60 K61 M64 R65 S67 K68 T69 K71 H72 V73 S74 R75 Y77 G78 G79 S80 R89 R92 A93 I96 E97 Q99 K100 K114
BS02	MG	Lg	G55 T70	G54 T69
BS03	ZN	Lg	C46 C49 C86	C45 C48 C85

Gene Ontology

	Molecular Function
GO:0003723	RNA binding
GO:0003735	structural constituent of ribosome
GO:0005515	protein binding
GO:0045296	cadherin binding

	Biological Process
GO:0002181	cytoplasmic translation
GO:0006412	translation

	Cellular Component
GO:0005730	nucleolus
GO:0005737	cytoplasm
GO:0005783	endoplasmic reticulum
GO:0005829	cytosol
GO:0005840	ribosome
GO:0022625	cytosolic large ribosomal subunit
GO:0022626	cytosolic ribosome
GO:0045202	synapse
GO:0070062	extracellular exosome
GO:1990904	ribonucleoprotein complex

External links

PDB	RCSB:8yop, PDBe:8yop, PDBj:8yop
PDBsum	8yop
PubMed	38942792
UniProt	P49207\|RL34_HUMAN Large ribosomal subunit protein eL34 (Gene Name=RPL34)