Structure of PDB 8pkl Chain r Binding Site BS02

Receptor Information

>8pkl Chain r (length=116) Species: 562 (Escherichia coli)

DKKSARIRRATRARRKLQELGATRLVVHRTPRHIYAQVIAPNGSEVLVAA
STVEKAIAEQLKYTGNKDAAAAVGKAVAERALEKGIKDVSFDRSGFQYHG
RVQALADAAREAGLQF

Ligand information

>8pkl Chain 8 (length=120)

ugccuggcggccguagcgcgguggucccaccugaccccaugccgaacuca
gaagugaaacgccguagcgccgaugguaguguggggucuccccaugcgag
aguagggaacugccaggcaa

<<<<<<<<<<.....<<<<<<<<....<<<<<<<.............>>>
>..>>>...>>>>>>.>>.<<.......<<<<<<<<...>>>>>>>>...
....>>...>>>>>>>>>>.

Receptor-Ligand Complex Structure

Structure summary

• PDB: 8pkl Transient disome complex formation in native polysomes during ongoing protein synthesis captured by cryo-EM.
• Resolution: 3.09 Å
• Binding residue (original residue number in PDB): K3 R15 R25 R30 T31 R33 H34 Y36 Q38 G44 S45 E46 V47 V54 K56 Y64 N67 K68 Q98 H100 G101 R102
• Binding residue (residue number reindexed from 1): K2 R14 R24 R29 T30 R32 H33 Y35 Q37 G43 S44 E45 V46 V53 K55 Y63 N66 K67 Q97 H99 G100 R101

Gene Ontology

Molecular Function

• GO:0003735 structural constituent of ribosome
• GO:0008097 5S rRNA binding
• GO:0019843 rRNA binding

Biological Process

• GO:0002181 cytoplasmic translation
• GO:0006412 translation

Cellular Component

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

External links

• PDB: RCSB:8pkl, PDBe:8pkl, PDBj:8pkl
• PDBsum: 8pkl
• PubMed: 38409277
• UniProt: P0C018|RL18_ECOLI Large ribosomal subunit protein uL18 (Gene Name=rplR)