Structure of PDB 8ife Chain 2D

Receptor sequence

>8ife2D (length=213) Species: 9606 (Homo sapiens)

GRRPARCYRYCKNKPYPKSRFCRGVPDAKIRIFDLGRKKAKVDEFPLGGH
MVSDEYEQLSSEALEAARICANKYMVKSCGRDGFHMRVRLHPFHVIRINK
MLSCAGADRLQTGMRGAFGKPQGTVARVHIGQVIMSIRTKLQNEEHVIEA
LRRAKFKFPGRQKIHISKKWGFTKFNADEFEDMVAKKCLIPDGCGVKYVP
SHGPLDKWRVLHS

3D structure

• PDB: 8ife Direct visualization of ribosomes in the cell-free system revealed the functional evolution of aminoglycoside.
• Chain: 2D
• Resolution: 2.57 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	2D	R3 R4 A6 R7 Y9 K13 K15 Y17 F22 F34 D35 K39 S61 E63 A64 K74 R90 H92 F94 R98 N100 M102 L103 L111 M115 R116 G117 F119 G120 R154 F157 K158 P160 G194 K198	R2 R3 A5 R6 Y8 K12 K14 Y16 F21 F33 D34 K38 S60 E62 A63 K73 R89 H91 F93 R97 N99 M101 L102 L110 M114 R115 G116 F118 G119 R153 F156 K157 P159 G193 K197
BS02	rna	2D	E56 Y57 Y199 S202 H203 G204 L206	E55 Y56 Y198 S201 H202 G203 L205
BS03	84G	2D	Y57 H130 I131	Y56 H129 I130

Gene Ontology

Molecular Function

• GO:0003735 structural constituent of ribosome

Biological Process

• GO:0000027 ribosomal large subunit assembly
• GO:0006412 translation
• GO:0007141 male meiosis I
• GO:0007283 spermatogenesis
• GO:0030154 cell differentiation
• GO:0051321 meiotic cell cycle

Cellular Component

• GO:0005634 nucleus
• GO:0005737 cytoplasm
• GO:0005783 endoplasmic reticulum
• GO:0005829 cytosol
• GO:0005840 ribosome
• GO:0016020 membrane
• GO:0022625 cytosolic large ribosomal subunit
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:8ife, PDBe:8ife, PDBj:8ife
• PDBsum: 8ife
• PubMed: 38227611
• UniProt: Q96L21|RL10L_HUMAN Ribosomal protein uL16-like (Gene Name=RPL10L)