Structure of PDB 5mmm Chain C Binding Site BS02

Receptor Information

>5mmm Chain C (length=253) Species: 3562 (Spinacia oleracea)

QVKSNPRNNLISGQRRCGKGRNARGIITARHRGGGHKRLYRKIDFRRNEK
DIYGKIVTIEYDPNRNAYICLIHYGDGEKRYILHPRGAIIGDTIVSGTEV
PIKMGNALPLTDMPLGTAIHNIEITLGRGGQLARAAGAVAKLIAKEGKSA
TLKLPSGEVRLISKNCSATVGQVGNVGVNQKRLGRAGSKRWLGKRPVVRG
VVMNPVDHPHGGGEGRAPIGRKSPTTPWGYPALGRRSRKRNKYSDNFIIR
RRS

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: 5mmm Chain A Residue 2968

Receptor-Ligand Complex Structure

Structure summary

• PDB: 5mmm The complete structure of the chloroplast 70S ribosome in complex with translation factor pY.
• Resolution: 3.4 Å
• Binding residue (original residue number in PDB): V215 R217
• Binding residue (residue number reindexed from 1): V197 R199
• 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:0009507 chloroplast
• GO:0015934 large ribosomal subunit
• GO:0022625 cytosolic large ribosomal subunit
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:5mmm, PDBe:5mmm, PDBj:5mmm
• PDBsum: 5mmm
• PubMed: 28007896
• UniProt: P06509|RK2_SPIOL Large ribosomal subunit protein uL2cz/uL2cy (Gene Name=rpl2-A)