Structure of PDB 8vs9 Chain L04

Receptor sequence

>8vs9L04 (length=201) Species: 562 (Escherichia coli)

MELVLKDAQSALTVSETTFGRDFNEALVHQVVVAYAAGARQGTRAQKTRA
EVTGSGKKPWRQKGTGRARSGSIKSPIWRSGGVTFAARPQDHSQKVNKKM
YRGALKSILSELVRQDRLIVVEKFSVEAPKTKLLAQKLKDMALEDVLIIT
GELDENLFLAARNLHKVDVRDATGIDPVSLIAFDKVVMTADAVKQVEEML
A

3D structure

• PDB: 8vs9 Endogenous trans-translation structure visualizes the decoding of the first tmRNA alanine codon.
• Chain: L04
• 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	L04	A26 H29 Q30 Y35 A36 A37 R40 Q41 T43 R44 A45 Q46 K47 T48 R49 A50 T53 S55 K57 K58 Q62 K63 G64 T65 G66 R67 A68 R69 G71 P76 I77 W78 R79 S80 F85 P89 Q90 Q94 K95 N97 K98 K99 Y101 R102 K130 T131 K132 L159 R162 N163 L164 H165	A26 H29 Q30 Y35 A36 A37 R40 Q41 T43 R44 A45 Q46 K47 T48 R49 A50 T53 S55 K57 K58 Q62 K63 G64 T65 G66 R67 A68 R69 G71 P76 I77 W78 R79 S80 F85 P89 Q90 Q94 K95 N97 K98 K99 Y101 R102 K130 T131 K132 L159 R162 N163 L164 H165

Gene Ontology

Molecular Function

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

Biological Process

• GO:0006412 translation

Cellular Component

• GO:0005840 ribosome
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:8vs9, PDBe:8vs9, PDBj:8vs9
• PDBsum: 8vs9
• PubMed: 38500588
• UniProt: A1AGK6|RL4_ECOK1 Large ribosomal subunit protein uL4 (Gene Name=rplD)