Structure of PDB 7mjx Chain B Binding Site BS01

Receptor Information

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

NKKLFIETYGCQMNVADSEVIASVMQMAGYSVADTLEEADAVFMNTCSIR
DNAEQKILNRLEFFHSLKKKKRGLIVGVLGCMAERVKDDLITNHHVDLVV
GPDAYLTLPELIASVEAGEKAMNVELSTTETYRDVIPSRICGNHISGFVS
IMRGCNNFCTYCIVPYTRGRERSRDVESILNEVADLVAKGYKEVTLLGQN
VNSYRFEKPDGETITFPMLLRTVAEAAPGVRIRFTTSHPKDMSDETLQVI
ADMPNVCKHIHLPVQSGSSRILKLMNRKYDREWYMDRVAAIRRIIPDCGL
STDIFSGFHSETEEDHQLSLSLMEECGYDSAFMFKYSERPGTHASKHLPD
DVPEEVKIRRLNEIIALQNRLSAEANARCVGKTYEVLVEGVSKRSRDQLF
GRTEQNRVVVFDRGTHRVGDFVMVKVTESSSATLKGEEVAG

Ligand information

>7mjx Chain D (length=13)

ggacugaaaaucc

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 7mjx Structural basis for tRNA methylthiolation by the radical SAM enzyme MiaB.
• Resolution: 1.5 Å
• Binding residue (original residue number in PDB): Y25 G26 C27 Q28 M29 C63 R66 N68 K72 T252 D319 F348 M349 F350 I381 K409 R410 R418 V424 S447 A448 T449
• Binding residue (residue number reindexed from 1): Y9 G10 C11 Q12 M13 C47 R50 N52 K56 T236 D303 F332 M333 F334 I365 K393 R394 R402 V408 S431 A432 T433

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