Structure of PDB 7mjw Chain B Binding Site BS05

Receptor Information

>7mjw Chain B (length=441) Species: 820 (Bacteroides uniformis)

NKKLFIETYGCQMNVADSEVIASVMQMAGYSVADTLEEADAVFMNTCSIR
DNAEQKILNRLEFFHSLKKKKRGLIVGVLGCMAERVKDDLITNHHVDLVV
GPDAYLTLPELIASVEAGEKAMNVELSTTETYRDVIPSRICGNHISGFVS
IMRGCNNFCTYCIVPYTRGRERSRDVESILNEVADLVAKGYKEVTLLGQN
VNSYRFEKPDGETITFPMLLRTVAEAAPGVRIRFTTSHPKDMSDETLQVI
ADMPNVCKHIHLPVQSGSSRILKLMNRKYDREWYMDRVAAIRRIIPDCGL
STDIFSGFHSETEEDHQLSLSLMEECGYDSAFMFKYSERPGTHASKHLPD
DVPEEVKIRRLNEIIALQNRLSAEANARCVGKTYEVLVEGVSKRSRDQLF
GRTEQNRVVVFDRGTHRVGDFVMVKVTESSSATLKGEEVAG

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: 7mjw Chain B Residue 505

Receptor-Ligand Complex Structure

Structure summary

• PDB: 7mjw Structural basis for tRNA methylthiolation by the radical SAM enzyme MiaB.
• Resolution: 1.4 Å
• Binding residue (original residue number in PDB): I266 M269 V272
• Binding residue (residue number reindexed from 1): I250 M253 V256
• Annotation score: 1

Enzymatic activity

• Enzyme Commision number: 2.8.4.3: tRNA-2-methylthio-N(6)-dimethylallyladenosine synthase.

Gene Ontology

Molecular Function

• GO:0003824 catalytic activity
• GO:0016740 transferase activity
• GO:0035596 methylthiotransferase activity
• GO:0046872 metal ion binding
• GO:0051536 iron-sulfur cluster binding
• GO:0051538 3 iron, 4 sulfur cluster binding
• GO:0051539 4 iron, 4 sulfur cluster binding

Biological Process

• GO:0006400 tRNA modification
• GO:0008033 tRNA processing
• GO:0035600 tRNA methylthiolation

Cellular Component

• GO:0005737 cytoplasm

External links

• PDB: RCSB:7mjw, PDBe:7mjw, PDBj:7mjw
• PDBsum: 7mjw
• PubMed: 34526715
• UniProt: A0A174NUT3