Structure of PDB 6p5j Chain T

Receptor sequence

>6p5jT (length=144) Species: 9986 (Oryctolagus cuniculus)

SLVIPEKFQHILRVLNTNIDGRRKIAFAITAIKGVGRRYAHVVLRKADID
LTKRAGELTEDEVERVITIMQNPRQYKIPDWFLNRQKDVKDGKYSQVLAN
GLDNKLREDLERLKKIRAHRGLRHFWGLRVRGQHTKTTGRRGRT

3D structure

• PDB: 6p5j The Israeli acute paralysis virus IRES captures host ribosomes by mimicking a ribosomal state with hybrid tRNAs.
• Chain: T
• 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	T	R24 K25 F28 G35 V36 R38 R39 Y40 R55 W82 F83 N85 Q87 K88 Q97 R113 H120 R121 H125 R130 V131 R132 G133 Q134 H135 T136 K137 T139 G140 R141 R142 R144	R23 K24 F27 G34 V35 R37 R38 Y39 R54 W81 F82 N84 Q86 K87 Q96 R112 H119 R120 H124 R129 V130 R131 G132 Q133 H134 T135 K136 T138 G139 R140 R141 R143

Gene Ontology

Molecular Function

• GO:0003676 nucleic acid binding
• GO:0003723 RNA binding
• GO:0003735 structural constituent of ribosome
• GO:0019843 rRNA binding

Biological Process

• GO:0006412 translation

Cellular Component

• GO:0005737 cytoplasm
• GO:0005829 cytosol
• GO:0005840 ribosome
• GO:0015935 small ribosomal subunit
• GO:0022626 cytosolic ribosome
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:6p5j, PDBe:6p5j, PDBj:6p5j
• PDBsum: 6p5j
• PubMed: 31609474
• UniProt: G1TPG3|RS18_RABIT Small ribosomal subunit protein uS13 (Gene Name=RPS18)