Structure of PDB 5dge Chain SM Binding Site BS03

Receptor Information

>5dge Chain SM (length=159) Species: 559292 (Saccharomyces cerevisiae S288C)

GNDVEDADVVVLPPKEIVKSNTSSKKADVPPPSADPSKARKNRPRPSGNE
GAIRDKTAGRRNNRSKDVTDSATTKKSNTRRATDRHSRTGKTDTKKKVNQ
GWGDDKKELSAEKEAQADAAAEIAEDAAEAEDALQDYLNQQANNQFNKVP
EAKKVELDA

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: 5dge Chain SM Residue 301

Receptor-Ligand Complex Structure

Structure summary

• PDB: 5dge Coping with proline stalling: structural basis of hypusine-induced protein synthesis by the eukaryotic ribosome
• Resolution: 3.45 Å
• Binding residue (original residue number in PDB): N29 S31
• Binding residue (residue number reindexed from 1): N21 S23
• Annotation score: 4

Gene Ontology

Molecular Function

• GO:0003676 nucleic acid binding
• GO:0003677 DNA binding
• GO:0003723 RNA binding
• GO:0005515 protein binding
• GO:0030371 translation repressor activity
• GO:0042162 telomeric DNA binding
• GO:0043022 ribosome binding
• GO:0045142 triplex DNA binding
• GO:0061770 translation elongation factor binding

Biological Process

• GO:0000723 telomere maintenance
• GO:0006414 translational elongation
• GO:0006417 regulation of translation
• GO:0031929 TOR signaling
• GO:0043066 negative regulation of apoptotic process
• GO:0043558 regulation of translational initiation in response to stress
• GO:0141014 ribosome hibernation

Cellular Component

• GO:0005634 nucleus
• GO:0005737 cytoplasm
• GO:0048471 perinuclear region of cytoplasm

External links

• PDB: RCSB:5dge, PDBe:5dge, PDBj:5dge
• PDBsum: 5dge
• UniProt: P39015|STM1_YEAST Suppressor protein STM1 (Gene Name=STM1)