Structure of PDB 8jdl Chain N Binding Site BS02

Receptor Information

>8jdl Chain N (length=190) Species: 9606 (Homo sapiens)

MKTILSNQTVDIPENVDITLKGRTVIVKGPRGTLRRDFNHINVELSLLGK
KKKRLRVDKWWGNRKELATVRTICSHVQNMIKGVTLGFRYKMRSVYAHFP
INVVIQENGSLVEIRNFLGEKYIRRVRMRPGVACSVSQAQKDELILEGND
IELVSNSAALIQQATTVKNKDIRKFLDGIYVSEKGTVQQA

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: 8jdl Chain N Residue 201

Receptor-Ligand Complex Structure

Structure summary

• PDB: 8jdl Glycosylated queuosines in tRNAs optimize translational rate and post-embryonic growth.
• Resolution: 2.42 Å
• Binding residue (original residue number in PDB): T165 D177 Y180
• Binding residue (residue number reindexed from 1): T165 D177 Y180
• Annotation score: 4

Gene Ontology

Molecular Function

• GO:0003723 RNA binding
• GO:0003735 structural constituent of ribosome
• GO:0005515 protein binding
• GO:0019843 rRNA binding

Biological Process

• GO:0002181 cytoplasmic translation
• GO:0006412 translation

Cellular Component

• GO:0005634 nucleus
• GO:0005737 cytoplasm
• GO:0005829 cytosol
• GO:0005840 ribosome
• GO:0005925 focal adhesion
• GO:0016020 membrane
• GO:0022625 cytosolic large ribosomal subunit
• GO:0022626 cytosolic ribosome
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:8jdl, PDBe:8jdl, PDBj:8jdl
• PDBsum: 8jdl
• PubMed: 37992713
• UniProt: P32969|RL9_HUMAN Large ribosomal subunit protein uL6 (Gene Name=RPL9)