Structure of PDB 6wdd Chain v Binding Site BS01

Receptor Information

>6wdd Chain v (length=94) Species: 562 (Escherichia coli)

MFTINAEVRKEQGKGASRRLRAANKFPAIIYGGKEAPLAIELDHDKVMNM
QAKAEFYSEVLTIVVDGKEIKVKAQDVQRHPYKPKLQHIDFVRA

Ligand information

>6wdd Chain 2 (length=120)

ugccuggcggccguagcgcgguggucccaccugaccccaugccgaacuca
gaagugaaacgccguagcgccgaugguaguguggggucuccccaugcgag
aguagggaacugccaggcaa

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 6wdd Cryo-EM of elongating ribosome with EF-Tu•GTP elucidates tRNA proofreading.
• Resolution: 3.2 Å
• Binding residue (original residue number in PDB): R9 Q12 G13 K14 S17 R18 R19 R21 I29 Y31 P37 Q78 H88
• Binding residue (residue number reindexed from 1): R9 Q12 G13 K14 S17 R18 R19 R21 I29 Y31 P37 Q78 H88

Gene Ontology

Molecular Function

• GO:0003723 RNA binding
• GO:0003735 structural constituent of ribosome
• GO:0008097 5S rRNA binding
• GO:0019843 rRNA binding

Biological Process

• GO:0000027 ribosomal large subunit assembly
• GO:0002181 cytoplasmic translation
• GO:0006412 translation
• GO:0009314 response to radiation
• GO:0017148 negative regulation of 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:6wdd, PDBe:6wdd, PDBj:6wdd
• PDBsum: 6wdd
• PubMed: 32612237
• UniProt: P68919|RL25_ECOLI Large ribosomal subunit protein bL25 (Gene Name=rplY)