Structure of PDB 8cvm Chain c Binding Site BS02

Receptor Information

>8cvm Chain c (length=274) Species: 1747 (Cutibacterium acnes)

GIRKYKPTTPGRRGSSVSDFVELTRSTPEKSLLVAKPKTGGRNNTGRITT
RHIGGGHKQAYRIIDFKRYDKDGVPAKVAHIEYDPNRTARIALLHYADGE
KRYIIAPDGVGQGTVVVSGPEADIKPGNNLPLRNIPVGTTVHAVELRPGG
GAKMGRSAGASVQLVAREGKYATVRLPSGEMRMVDIRCRATIGEVGNAEQ
ININWGKAGRNRWKGIRPTVRGVVMNPIDHPHGGGEGRTSGGRHPVSPWG
KPEGRTRNKKKASSRLIVRRRKSG

Ligand information

• Ligand ID: MG
• InChI: InChI=1S/Mg/q+2
• InChIKey: JLVVSXFLKOJNIY-UHFFFAOYSA-N
• SMILES:
  ACDLabs 10.04
  OpenEye OEToolkits 1.5.0: [Mg+2]
  CACTVS 3.341: [Mg++]
• Formula: Mg
• Name: MAGNESIUM ION
• DrugBank: DB01378
• PDB chain: 8cvm Chain c Residue 303

Receptor-Ligand Complex Structure

Structure summary

• PDB: 8cvm Sarecycline inhibits protein translation in Cutibacterium acnes 70S ribosome using a two-site mechanism.
• Resolution: 2.66 Å
• Binding residue (original residue number in PDB): H233 G234 G242
• Binding residue (residue number reindexed from 1): H232 G233 G241
• Annotation score: 4

Gene Ontology

Molecular Function

• GO:0003723 RNA binding
• GO:0003735 structural constituent of ribosome
• GO:0016740 transferase activity
• GO:0019843 rRNA binding

Biological Process

• GO:0002181 cytoplasmic translation
• GO:0006412 translation

Cellular Component

• GO:0005840 ribosome
• GO:0015934 large ribosomal subunit
• GO:0022625 cytosolic large ribosomal subunit
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:8cvm, PDBe:8cvm, PDBj:8cvm
• PDBsum: 8cvm
• PubMed: 36864821
• UniProt: Q6A6M9|RL2_CUTAK Large ribosomal subunit protein uL2 (Gene Name=rplB)