Structure of PDB 5dm7 Chain L Binding Site BS02

Receptor Information

>5dm7 Chain L (length=104) Species: 1299 (Deinococcus radiodurans)

RRKLRTRRKVRTTTAASGKLRLSVYRSSKHIYAQIIDDSRGQTLAAASSA
ALKSGNKTDTAAAVGKALAAAAAEKGIKQVVFDRGSYKYHGRVKALADAA
REGG

Ligand information

>5dm7 Chain Y (length=122)

cacccccgugcccauagcacuguggaaccaccccaccccaugccgaacug
ggucgugaaacacagcagcgccaaugauacucggaccgcagggucccgga
aaagucggucagcgcggggguu

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 5dm7 Crystallographic characterization of the ribosomal binding site and molecular mechanism of action of Hygromycin A.
• Resolution: 3.0 Å
• Binding residue (original residue number in PDB): K16 R28 Y32 S34 S35 H37 Y39 Q41 G48 Q49 T50 A53 S55 A57 A58 K64 T65 K95 H97 R99
• Binding residue (residue number reindexed from 1): K9 R21 Y25 S27 S28 H30 Y32 Q34 G41 Q42 T43 A46 S48 A50 A51 K57 T58 K88 H90 R92

Gene Ontology

Molecular Function

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

Biological Process

• 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:5dm7, PDBe:5dm7, PDBj:5dm7
• PDBsum: 5dm7
• PubMed: 26464437
• UniProt: Q9RSL2|RL18_DEIRA Large ribosomal subunit protein uL18 (Gene Name=rplR)