Structure of PDB 3w1k Chain B Binding Site BS01

Receptor Information

>3w1k Chain B (length=452) Species: 224324 (Aquifex aeolicus VF5)

MKSLLRQIPQISKVVEIFAKAYPEIYVVKAAREVAEKYRKEIIEGARADL
NGFLEDVERKIKSLMKPNIKRVINATGVVINTNLGRAPLSKDVINFISEI
ANGYSNLEYNLEEGKRGSRIAHIEKYLNELTGAESSFVVNNNAGAVFLVL
NTLAEGKEVIISRGELVEIGGSFRIPDIMKKSGAILREVGTTNKTKVSDY
EGAINQNTALLMKVHKSNFYMEGFVEEVKLEDLVKLGHKYGIPTYYDAGS
GLLINLKEFGISVDEPNFRDCISLGIDLVSGSGDKLLGGPQAGIIVGKKN
LIEKIKKNPIARALRIDKLTLSGLEMTLKLYFEKRYEDIPVIRMLTQDEK
ALRQKAKRLEKLLKDIPGLKISVIKDKAKPGGGSLPELELPTYCVAIRHD
RLSSQELSRRLRLAEPPIVCRIREDQLLFDMRTVFHEDLKTIKKTLQELL
SI

Ligand information

>3w1k Chain F (length=92)

gggaguagauaggcgcuggugugccuccuagacuucaaaucuacggucuc
gcuauuuaagcgagagguggguucgauucccacauacucccg

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 3w1k Decameric SelA-tRNA(Sec) ring structure reveals mechanism of bacterial selenocysteine formation
• Resolution: 7.5 Å
• Binding residue (original residue number in PDB): R6 I8 P9 Q10 I11 S12 K13 E16 R32 R39
• Binding residue (residue number reindexed from 1): R6 I8 P9 Q10 I11 S12 K13 E16 R32 R39
• Binding affinity: PDBbind-CN: Kd=75nM

Enzymatic activity

• Enzyme Commision number: 2.9.1.1: L-seryl-tRNA(Sec) selenium transferase.

Gene Ontology

Molecular Function

• GO:0004125 L-seryl-tRNA(Sec) selenium transferase activity
• GO:0016740 transferase activity
• GO:0042802 identical protein binding

Biological Process

• GO:0001514 selenocysteine incorporation
• GO:0006412 translation

Cellular Component

• GO:0005737 cytoplasm

External links

• PDB: RCSB:3w1k, PDBe:3w1k, PDBj:3w1k
• PDBsum: 3w1k
• PubMed: 23559248
• UniProt: O67140|SELA_AQUAE L-seryl-tRNA(Sec) selenium transferase (Gene Name=selA)