Structure of PDB 8xsy Chain Lo

Receptor sequence

>8xsyLo (length=105) Species: 9606 (Homo sapiens)

VNVPKTRRTFCKKCGKHQPHKVTQYKKGKDSLYAQGKRRYDRKQSGYGGQ
TKPIFRKKAKTTKKIVLRLECVEPNCRSKRMLAIKRCKHFELGGDKKRKG
QVIQF

3D structure

• PDB: 8xsy Structural basis for differential inhibition of eukaryotic ribosomes by tigecycline.
• Chain: Lo
• Resolution: 3.0 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	Lo	V2 N3 P5 R8 R9 T10 F11 K13 K17 H18 Y26 K28 G29 D31 S32 Y34 A35 Q36 G37 R39 R40 R43 K44 G47 Y48 G50 Q51 K53 P54 I55 F56 R57 A60 K61 T63 K64 K65 V67 K80 R81 M82 A84 K86 C88 K89 K97 K98 K100	V1 N2 P4 R7 R8 T9 F10 K12 K16 H17 Y25 K27 G28 D30 S31 Y33 A34 Q35 G36 R38 R39 R42 K43 G46 Y47 G49 Q50 K52 P53 I54 F55 R56 A59 K60 T62 K63 K64 V66 K79 R80 M81 A83 K85 C87 K88 K96 K97 K99
BS02	rna	Lo	K27 K30 K38 Y41 K53 P54 F56	K26 K29 K37 Y40 K52 P53 F55
BS03	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:8xsy, PDBe:8xsy, PDBj:8xsy
• PDBsum: 8xsy
• PubMed: 38942792
• UniProt: P83881|RL36A_HUMAN Large ribosomal subunit protein eL42 (Gene Name=RPL36A)