Structure of PDB 8vs9 Chain L16

Receptor sequence

>8vs9L16 (length=136) Species: 562 (Escherichia coli)

MLQPKRTKFRKMHKGRNRGLAQGTDVSFGSFGLKAVGRGRLTARQIEAAR
RAMTRAVKRQGKIWIRVFPDKPITEKPLAVRMGKGKGNVEYWVALIQPGK
VLYEMDGVPEELAREAFKLAAAKLPIKTTFVTKTVM

3D structure

• PDB: 8vs9 Endogenous trans-translation structure visualizes the decoding of the first tmRNA alanine codon.
• Chain: L16
• Resolution: 3.9 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	L16	K5 R6 K8 F9 K11 M12 H13 K14 G15 R16 N17 Q22 G23 T24 F28 R40 R44 Q45 A48 R55 K62 W64 R66 F68 E75 K76 L78 A79 R81 M82 G83 K84 G85 K86 L119 A122 K123 P125 K127	K5 R6 K8 F9 K11 M12 H13 K14 G15 R16 N17 Q22 G23 T24 F28 R40 R44 Q45 A48 R55 K62 W64 R66 F68 E75 K76 L78 A79 R81 M82 G83 K84 G85 K86 L119 A122 K123 P125 K127
BS02	rna	L16	N17 R18 G19 R38	N17 R18 G19 R38
BS03	rna	L16	R50 R51 R55 R59	R50 R51 R55 R59

Gene Ontology

Molecular Function

• GO:0000049 tRNA binding
• GO:0003735 structural constituent of ribosome
• GO:0019843 rRNA binding

Biological Process

• GO:0000027 ribosomal large subunit assembly
• GO:0002181 cytoplasmic translation
• 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:8vs9, PDBe:8vs9, PDBj:8vs9
• PDBsum: 8vs9
• PubMed: 38500588
• UniProt: P0ADY7|RL16_ECOLI Large ribosomal subunit protein uL16 (Gene Name=rplP)