Structure of PDB 9b00 Chain 2Y

Receptor sequence

>9b002Y (length=107) Species: 300852 (Thermus thermophilus HB8)

MRVKMHVKKGDTVLVASGKYKGRVGKVKEVLPKKYAVIVEGVNIVKKAVR
VSPKYPQGGFIEKEAPLHASKVRPICPACGKPTRVRKKFLENGKKIRVCA
KCGGALD

3D structure

• PDB: 9b00 Berberine analog of chloramphenicol exhibits a distinct mode of action and unveils ribosome plasticity.
• Chain: 2Y
• Resolution: 2.8 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	2Y	M1 R2 K4 H6 K8 S17 G18 K19 K21 V30 P32 Y35 V45 K46 K47 A48 V49 V51 G59 F60 H68 S70 K71 R73 R84 R86 K87 K95 K101	M1 R2 K4 H6 K8 S17 G18 K19 K21 V30 P32 Y35 V45 K46 K47 A48 V49 V51 G59 F60 H68 S70 K71 R73 R84 R86 K87 K95 K101
BS02	ZN	2Y	C76 C79 C99 C102	C76 C79 C99 C102

External links

• PDB: RCSB:9b00, PDBe:9b00, PDBj:9b00
• PDBsum: 9b00
• PubMed: 39019034
• UniProt: Q5SHP9|RL24_THET8 Large ribosomal subunit protein uL24 (Gene Name=rplX)