Structure of PDB 7mjv Chain A Binding Site BS01

Receptor Information

>7mjv Chain A (length=444) Species: 820 (Bacteroides uniformis)

ADDNKKLFIETYGCQMNVADSEVIASVMQMAGYSVADTLEEADAVFMNTC
SIRDNAEQKILNRLEFFHSLKKKKRGLIVGVLGCMAERVKDDLITNHHVD
LVVGPDAYLTLPELIASVEAGEKAMNVELSTTETYRDVIPSRICGNHISG
FVSIMRGCNNFCTYCIVPYTRGRERSRDVESILNEVADLVAKGYKEVTLL
GQNVNSYRFEKPDGETITFPMLLRTVAEAAPGVRIRFTTSHPKDMSDETL
QVIADMPNVCKHIHLPVQSGSSRILKLMNRKYDREWYMDRVAAIRRIIPD
CGLSTDIFSGFHSETEEDHQLSLSLMEECGYDSAFMFKYSERPGTHASKH
LPDDVPEEVKIRRLNEIIALQNRLSAEANARCVGKTYEVLVEGVSKRSRD
QLFGRTEQNRVVVFDRGTHRVGDFVMVKVTESSSATLKGEEVAG

Ligand information

>7mjv Chain E (length=15)

aggacugaaaauccu

.<<<.......>>>.

Receptor-Ligand Complex Structure

Structure summary

• PDB: 7mjv Structural basis for tRNA methylthiolation by the radical SAM enzyme MiaB.
• Resolution: 2.24 Å
• Binding residue (original residue number in PDB): Y25 G26 C27 Q28 R66 Q215 T252 F348 M349 L377 N385 K409 R410 V424 V426 S446 A448 T449
• Binding residue (residue number reindexed from 1): Y12 G13 C14 Q15 R53 Q202 T239 F335 M336 L364 N372 K396 R397 V411 V413 S433 A435 T436

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:7mjv, PDBe:7mjv, PDBj:7mjv
• PDBsum: 7mjv
• PubMed: 34526715
• UniProt: A0A174NUT3