Structure of PDB 5j4d Chain V

Receptor sequence

>5j4dV (length=107) Species: 262724 (Thermus thermophilus HB27)

MRVKMHVKKGDTVLVASGKYKGRVGKVKEVLPKKYAVIVEGVNIVKKAVR
VSPKYPQGGFIEKEAPLHASKVRPICPACGKPTRVRKKFLENGKKIRVCA
KCGGALD

3D structure

• PDB: 5j4d Structural Basis for Translation Termination on a Pseudouridylated Stop Codon.
• Chain: V
• Resolution: 3.1 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	V	M1 K4 K8 G18 K19 K21 P32 K33 Y35 K46 K47 A48 V49 R50 V51 G58 G59 F60 K63 H68 S70 K71 R73 R84 R86 K87 K95 K101	M1 K4 K8 G18 K19 K21 P32 K33 Y35 K46 K47 A48 V49 R50 V51 G58 G59 F60 K63 H68 S70 K71 R73 R84 R86 K87 K95 K101
BS02	ZN	V	C76 C79 C99 C102	C76 C79 C99 C102

Gene Ontology

Molecular Function

• GO:0003723 RNA binding
• GO:0003735 structural constituent of ribosome
• GO:0019843 rRNA binding

Biological Process

• GO:0006412 translation

Cellular Component

• GO:0005840 ribosome
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:5j4d, PDBe:5j4d, PDBj:5j4d
• PDBsum: 5j4d
• PubMed: 27107638
• UniProt: Q72I15|RL24_THET2 Large ribosomal subunit protein uL24 (Gene Name=rplX)