Structure of PDB 8yop Chain Lo

Receptor sequence

>8yopLo (length=105) Species: 9606 (Homo sapiens) [Search protein sequence]

VNVPKTRRTFCKKCGKHQPHKVTQYKKGKDSLYAQGKRRYDRKQSGYGGQ
TKPIFRKKAKTTKKIVLRLECVEPNCRSKRMLAIKRCKHFELGGDKKRKG
QVIQF

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	Lo	V2 N3 P5 R8 R9 T10 F11 K13 G16 K17 H18 Y26 K28 G29 D31 S32 Y34 A35 Q36 G37 R39 R40 R43 K44 G47 Y48 G50 Q51 T52 K53 P54 I55 F56 R57 A60 K61 T63 K64 K65 V67 K80 R81 M82 K86 C88 K89 K97 K98	V1 N2 P4 R7 R8 T9 F10 K12 G15 K16 H17 Y25 K27 G28 D30 S31 Y33 A34 Q35 G36 R38 R39 R42 K43 G46 Y47 G49 Q50 T51 K52 P53 I54 F55 R56 A59 K60 T62 K63 K64 V66 K79 R80 M81 K85 C87 K88 K96 K97
BS02	ZN	Lo	C12 C15 C72 C77	C11 C14 C71 C76

Gene Ontology

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

	Biological Process
GO:0002181	cytoplasmic translation
GO:0006412	translation

	Cellular Component
GO:0005737	cytoplasm
GO:0005783	endoplasmic reticulum
GO:0005829	cytosol
GO:0005840	ribosome
GO:0005886	plasma membrane
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	P83881\|RL36A_HUMAN Large ribosomal subunit protein eL42 (Gene Name=RPL36A)