Structure of PDB 3khh Chain B Binding Site BS02

Receptor Information

>3khh Chain B (length=341) Species: 273057 (Saccharolobus solfataricus P2)

GIVLFVDFDYFYAQVEEVLNPSLKGKPVVVCVFSGRFEDSGAVATANYEA
RKFGVKAGIPIVEAKKILPNAVYLPMRKEVYQQVSSRIMNLLREYSEKIE
IASIDEAYLDISDKVRDYREAYNLGLEIKNKILEKEKITVTVGISKNKVF
AKIAADMAKPNGIKVIDDEEVKRLIRELDIADVPGIGNITAEKLKKLGIN
KLVDTLSIEFDKLKGMIGEAKAKYLISLARDEYNEPIRTRVRKSIGRIVT
MKRNSRNLEEIKPYLFRAIEESYYKLDKRIPKAIHVVAVTEDLDIVSRGR
TFPHGISKETAYSESVKLLQKILEEDERKIRRIGVRFSKFI

Ligand information

>3khh Chain J (length=17)

aacgctaccatccaacc

Receptor-Ligand Complex Structure

Structure summary

• PDB: 3khh Mechanism of error-free and semitargeted mutagenic bypass of an aromatic amine lesion by Y-family polymerase Dpo4.
• Resolution: 2.7 Å
• Binding residue (original residue number in PDB): V1032 S1034 F1037 G1041 A1042 R1242 K1243 S1244 G1246 R1247 I1248 T1250 R1331 R1332 R1336
• Binding residue (residue number reindexed from 1): V32 S34 F37 G41 A42 R242 K243 S244 G246 R247 I248 T250 R331 R332 R336

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