Structure of PDB 3gim Chain A Binding Site BS01

Receptor Information

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

GIVLFVDFDYFYAQVEEVLNPSLKGKPVVVCVFSGRFEDSGAVATANYEA
RKFGVKAGIPIVEAKKILPNAVYLPMRKEVYQQVSSRIMNLLREYSEKIE
IASIDEAYLDISDKVRDYREAYNLGLEIKNKILEKEKITVTVGISKNKVF
AKIAADMAKPNGIKVIDDEEVKRLIRELDIADVPGIGNITAEKLKKLGIN
KLVDTLSIEFDKLKGMIGEAKAKYLISLARDEYNEPIRTRVRKSIGRIVT
MKRNSRNLEEIKPYLFRAIEESYYKLDKRIPKAIHVVAVTEDLDIVSRGR
TFPHGISKETAYSESVKLLQKILEEDERKIRRIGVRFSKFI

Ligand information

>3gim Chain D (length=13)

gttggatggtagg

Receptor-Ligand Complex Structure

Structure summary

• PDB: 3gim Impact of conformational heterogeneity of OxoG lesions and their pairing partners on bypass fidelity by Y family polymerases.
• Resolution: 2.7 Å
• Binding residue (original residue number in PDB): S103 E106 K152 P184 G185 G187 I189 T190 V296 S297 R298 G299 R300 T301
• Binding residue (residue number reindexed from 1): S103 E106 K152 P184 G185 G187 I189 T190 V296 S297 R298 G299 R300 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:3gim, PDBe:3gim, PDBj:3gim
• PDBsum: 3gim
• PubMed: 19446528
• UniProt: Q97W02|DPO4_SACS2 DNA polymerase IV (Gene Name=dbh)