Structure of PDB 3khl Chain A Binding Site BS01

Receptor Information

>3khl Chain A (length=341) Species: 273057 (Saccharolobus solfataricus P2)

GIVLFVDFDYFYAQVEEVLNPSLKGKPVVVCVFSGRFEDSGAVATANYEA
RKFGVKAGIPIVEAKKILPNAVYLPMRKEVYQQVSSRIMNLLREYSEKIE
IASIDEAYLDISDKVRDYREAYNLGLEIKNKILEKEKITVTVGISKNKVF
AKIAADMAKPNGIKVIDDEEVKRLIRELDIADVPGIGNITAEKLKKLGIN
KLVDTLSIEFDKLKGMIGEAKAKYLISLARDEYNEPIRTRVRKSIGRIVT
MKRNSRNLEEIKPYLFRAIEESYYKLDKRIPKAIHVVAVTEDLDIVSRGR
TFPHGISKETAYSESVKLLQKILEEDERKIRRIGVRFSKFI

Ligand information

>3khl Chain D (length=13)

ttggatggtagag

Receptor-Ligand Complex Structure

Structure summary

• PDB: 3khl Mechanism of error-free and semitargeted mutagenic bypass of an aromatic amine lesion by Y-family polymerase Dpo4.
• Resolution: 2.1 Å
• Binding residue (original residue number in PDB): S103 E106 K152 P184 G185 I186 G187 I189 T190 V296 S297 R298 G299 T301
• Binding residue (residue number reindexed from 1): S103 E106 K152 P184 G185 I186 G187 I189 T190 V296 S297 R298 G299 T301

Enzymatic activity

• Enzyme Commision number: 2.7.7.7: DNA-directed DNA polymerase.

Gene Ontology

Molecular Function

• GO:0000287 magnesium ion binding
• GO:0003677 DNA binding
• GO:0003684 damaged DNA binding
• GO:0003887 DNA-directed DNA polymerase activity
• GO:0046872 metal ion binding

Biological Process

• GO:0006260 DNA replication
• GO:0006261 DNA-templated DNA replication
• GO:0006281 DNA repair
• GO:0006974 DNA damage response
• GO:0042276 error-prone translesion synthesis

Cellular Component

• GO:0005737 cytoplasm

External links

• PDB: RCSB:3khl, PDBe:3khl, PDBj:3khl
• PDBsum: 3khl
• PubMed: 20154704
• UniProt: Q97W02|DPO4_SACS2 DNA polymerase IV (Gene Name=dbh)