Structure of PDB 6p5k Chain Ag

Receptor sequence

>6p5kAg (length=114) Species: 9986 (Oryctolagus cuniculus)

VQRLTYRRRLSYNTASNKTRLSRTPGNRIVYLYTKKVGKAPKSACGVCPG
RLRGVRAVRPKVLMRLSKTKKHVSRAYGGSMCAKCVRDRIKRAFLIEEQK
IVVKVLKAQAQSQK

3D structure

• PDB: 6p5k The Israeli acute paralysis virus IRES captures host ribosomes by mimicking a ribosomal state with hybrid tRNAs.
• Chain: Ag
• 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	Ag	V2 R4 L5 T6 Y7 R8 R9 R10 L11 S12 Y13 N14 T15 S17 R21 R24 T25 P26 G27 N28 R29 Y32 L33 Y34 K36 K37 V38 K40 P42 K43 A45 V48 G51 R52 R54 G55 V56 R57 A58 R60 P61 K62 L64 M65 R66 S68 K69 T70 K72 H73 V74 S75 R76 Y78 G79 G80 A84 R90 R93 A94 L96 I97 K101	V1 R3 L4 T5 Y6 R7 R8 R9 L10 S11 Y12 N13 T14 S16 R20 R23 T24 P25 G26 N27 R28 Y31 L32 Y33 K35 K36 V37 K39 P41 K42 A44 V47 G50 R51 R53 G54 V55 R56 A57 R59 P60 K61 L63 M64 R65 S67 K68 T69 K71 H72 V73 S74 R75 Y77 G78 G79 A83 R89 R92 A93 L95 I96 K100

Gene Ontology

Molecular Function

• GO:0003735 structural constituent of ribosome

Biological Process

• GO:0006412 translation

Cellular Component

• GO:0005737 cytoplasm
• GO:0005783 endoplasmic reticulum
• GO:0005829 cytosol
• GO:0005840 ribosome
• GO:0022625 cytosolic large ribosomal subunit
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:6p5k, PDBe:6p5k, PDBj:6p5k
• PDBsum: 6p5k
• PubMed: 31609474
• UniProt: G1TXG5|RL34_RABIT Large ribosomal subunit protein eL34 (Gene Name=RPL34)