Structure of PDB 5nsf Chain A Binding Site BS02

Receptor Information

>5nsf Chain A (length=305) Species: 243232 (Methanocaldococcus jannaschii DSM 2661)

DEFEMIKRNTSEIISEEELREVLKKDEKSAGIGFEPSGKIHLGHYLQIKK
MIDLQNAGFDIIIWLADLGAYLNQKGELDEIRKIGDYNKKVFEAMGLKAK
YVYGSEHNLDKDYTLNVYRLALKTTLKRARRSMELIAREDENPKVAEVIY
PIMQVNAIHYNGVDVAVGGMEQRKIHMLARELLPKKVVCIHNPVLTGLDG
EGKMSSSKGNFIAVDDSPEEIRAKIKKAYCPAGVVEGNPIMEIAKYFLEY
PLTIKRPEKFGGDLTVNSYEELESLFKNKELHPMRLKNAVAEELIKILEP
IRKRL

Ligand information

• Ligand ID: CA
• InChI: InChI=1S/Ca/q+2
• InChIKey: BHPQYMZQTOCNFJ-UHFFFAOYSA-N
• SMILES:
  CACTVS 3.341: [Ca++]
  ACDLabs 10.04
  OpenEye OEToolkits 1.5.0: [Ca+2]
• Formula: Ca
• Name: CALCIUM ION
• DrugBank: DB14577
• PDB chain: 5nsf Chain A Residue 403

Receptor-Ligand Complex Structure

Structure summary

• PDB: 5nsf Site-Resolved Observation of Vibrational Energy Transfer Using a Genetically Encoded Ultrafast Heater.
• Resolution: 2.426 Å
• Binding residue (original residue number in PDB): E135 E140
• Binding residue (residue number reindexed from 1): E134 E139
• Annotation score: 1

Enzymatic activity

• Enzyme Commision number: 6.1.1.1: tyrosine--tRNA ligase.

Gene Ontology

Molecular Function

• GO:0000166 nucleotide binding
• GO:0004812 aminoacyl-tRNA ligase activity
• GO:0004831 tyrosine-tRNA ligase activity
• GO:0005524 ATP binding

Biological Process

• GO:0006412 translation
• GO:0006418 tRNA aminoacylation for protein translation
• GO:0006437 tyrosyl-tRNA aminoacylation

Cellular Component

• GO:0005737 cytoplasm

External links

• PDB: RCSB:5nsf, PDBe:5nsf, PDBj:5nsf
• PDBsum: 5nsf
• PubMed: 30589180
• UniProt: Q57834|SYY_METJA Tyrosine--tRNA ligase (Gene Name=tyrS)