Structure of PDB 5oxj Chain A Binding Site BS02

Receptor Information

>5oxj Chain A (length=532) Species: 271 (Thermus aquaticus)

ALEEAPWPPPEGAFVGFVLSRKEPMWADLLALAAARGGRVHRAPEPYKAL
RDLKEARGLLAKDLSVLALREGLGLPPGDDPMLLAYLLDPSNTTPEGVAR
RYGGEWTEEAGERAALSERLFANLWGRLEGEERLLWLYREVERPLSAVLA
HMEATGVRLDVAYLRALSLEVAEEIARLEAEVFRLAGHPFNLNSRDQLER
VLFDELGLPAIGKTEKTGKRSTSAAVLEALREAHPIVEKILQYRELTKLK
STYIDPLPDLIHPRTGRLHTRFNQTATATGRLSSSDPNLQNIPVRTPLGQ
RIRRAFIAEEGWLLVALDYSQIELRVLAHLSGDENLIRVFQEGRDIHTET
ASWMDPLMRRAAKTINFGVLYGMSAHRLSQELAIPYEEAQAFIERYFQSF
PKVRAWIEKTLEEGRRRGYVETLFGRRRYVPDLEARVKSVREAAERKAFN
MPVQGTAADLMKLAMVKLFPRLEEMGARMLLQVHDELVLEAPKERAEAVA
RLAKEVMEGVYPLAVPLEVEVGIGEDWLSAKE

Ligand information

>5oxj Chain C (length=16)

aaagcgcgccgtggtc

Receptor-Ligand Complex Structure

Structure summary

• PDB: 5oxj Structural basis for the selective incorporation of an artificial nucleotide opposite a DNA adduct by a DNA polymerase.
• Resolution: 2.0 Å
• Binding residue (original residue number in PDB): N483 N485 S486 I503 S513 S515 A517 V518 S543 T544 T569 A570 T571 S575 S576 S577 D578 N580 G668 Y671 M673 S674 H676 R677 Q680 R728 R746 N750 Q754
• Binding residue (residue number reindexed from 1): N191 N193 S194 I211 S221 S223 A225 V226 S251 T252 T277 A278 T279 S283 S284 S285 D286 N288 G368 Y371 M373 S374 H376 R377 Q380 R428 R446 N450 Q454

Enzymatic activity

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

Gene Ontology

Molecular Function

• GO:0001882 nucleoside binding
• GO:0003676 nucleic acid binding
• GO:0003677 DNA binding
• GO:0003887 DNA-directed DNA polymerase activity

Biological Process

• GO:0006260 DNA replication
• GO:0006261 DNA-templated DNA replication
• GO:0006281 DNA repair

External links

• PDB: RCSB:5oxj, PDBe:5oxj, PDBj:5oxj
• PDBsum: 5oxj
• PubMed: 29136072
• UniProt: P19821|DPO1_THEAQ DNA polymerase I, thermostable (Gene Name=polA)