Structure of PDB 6p5k Chain Aj

Receptor sequence

>6p5kAj (length=86) Species: 9986 (Oryctolagus cuniculus)

TKGTSSFGKRRNKTHTLCRRCGSKAYHLQKSTCGKCGYPAKRKRKYNWSA
KAKRRNTTGTGRMRHLKIVYRRFRHGFREGTTPKPK

3D structure

• PDB: 6p5k The Israeli acute paralysis virus IRES captures host ribosomes by mimicking a ribosomal state with hybrid tRNAs.
• Chain: Aj
• 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	Aj	T2 K3 G4 T5 S6 S7 F8 G9 K10 R11 R12 N13 T15 H16 K25 A26 H28 Q30 K31 G35 K36 R43 K44 R45 K46 Y47 N48 W49 K52 R55 R56 T58 Y71 R75 E80 G81	T1 K2 G3 T4 S5 S6 F7 G8 K9 R10 R11 N12 T14 H15 K24 A25 H27 Q29 K30 G34 K35 R42 K43 R44 K45 Y46 N47 W48 K51 R54 R55 T57 Y70 R74 E79 G80
BS02	rna	Aj	R20 R21 C22 G23 Y39 K42 N57 T58 T59 T61 G62 R63 M64 R65 H66 L67 K68 V70 Y71 R72 F74 H76 R79 E80 T82 P84 K85 P86 K87	R19 R20 C21 G22 Y38 K41 N56 T57 T58 T60 G61 R62 M63 R64 H65 L66 K67 V69 Y70 R71 F73 H75 R78 E79 T81 P83 K84 P85 K86

Gene Ontology

Molecular Function

• GO:0003723 RNA binding
• GO:0003735 structural constituent of ribosome
• GO:0019843 rRNA binding
• GO:0046872 metal ion binding

Biological Process

• GO:0006412 translation

Cellular Component

• GO:0005737 cytoplasm
• 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: U3KPD5|RL37_RABIT Large ribosomal subunit protein eL37 (Gene Name=RPL37)