Structure of PDB 8yop Chain LX

Receptor sequence

>8yopLX (length=120) Species: 9606 (Homo sapiens) [Search protein sequence]

KKKIRTSPTFRRPKTLRLRRQPKYPRKSAPRRNKLDHYAIIKFPLTTESA
MKKIEDNNTLVFIVDVKANKHQIKQAVKKLYDIDVAKVNTLIRPDGEKKA
YVRLAPDYDALDVANKIGII

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	LX	P44 T45 F46 R47 R48 K50 T51 L52 R53 L54 R56 Q57 P58 K59 Y60 R62 T83 S85 K89 N93 N105 K106 H107 K123 N125 T126 L127 I128 P130 K134 K135 Y137 R139	P8 T9 F10 R11 R12 K14 T15 L16 R17 L18 R20 Q21 P22 K23 Y24 R26 T47 S49 K53 N57 N69 K70 H71 K87 N89 T90 L91 I92 P94 K98 K99 Y101 R103
BS02	rna	LX	K39 P49 T51 L52 R56 K63 P66 R67 K70 H107 Q108	K3 P13 T15 L16 R20 K27 P30 R31 K34 H71 Q72

Gene Ontology

	Molecular Function
GO:0003723	RNA binding
GO:0003735	structural constituent of ribosome
GO:0005515	protein binding
GO:0019843	rRNA binding
GO:0045296	cadherin binding
GO:1904841	TORC2 complex binding

	Biological Process
GO:0000027	ribosomal large subunit assembly
GO:0002181	cytoplasmic translation
GO:0006412	translation

	Cellular Component
GO:0005634	nucleus
GO:0005730	nucleolus
GO:0005737	cytoplasm
GO:0005829	cytosol
GO:0005840	ribosome
GO:0022625	cytosolic large ribosomal subunit
GO:0022626	cytosolic ribosome
GO:0070062	extracellular exosome
GO:1990904	ribonucleoprotein complex

External links

PDB	RCSB:8yop, PDBe:8yop, PDBj:8yop
PDBsum	8yop
PubMed	38942792
UniProt	P62750\|RL23A_HUMAN Large ribosomal subunit protein uL23 (Gene Name=RPL23A)