Structure of PDB 5w6q Chain A

Receptor sequence

>5w6qA (length=515) Species: 271 (Thermus aquaticus)

EAPWPPPEGAFVGFVLSRKEPMWADLLALAAARGGRVHRAPEPYKALRDL
KEARGLLAKDLSVLALREGLGLPPGDDPMLLAYLLDPSNTTPEGVARRYG
GEWTEEAGERAALSERLFANLWGRLEGEERLLWLYREVERPLSAVLAHVE
ATGVRLDVAYLRALSLEVAEEIARLEAEVFRLAGHPFNLNSRDQLERVLF
DELGLPAIGKTEKTGKRSTSAAVLEALREAHAIVEKILQYRELTKLKSTY
IDPLPELIHPRTGRLHTRFNQTATATGRLSSSDPNLQNIPVRTPLGQRIR
RAFIAEEGWLLVALDYSQIELRVLAHLSGDENLIRVFQEGRDIHTETASR
AAKTINFGVLYGMSAHRLSQELAIPYIERYFQSFPKVRAWIEKTLEEGRR
RGYVETLFGRRRYVPDLEARVKSVREAAERMAFNMPVQGTAADLMKLAMV
KLFPRLEEMGARMLLQVHDELVLEAPKERAEAVARLAKEVMEGVYPLAVP
LEVEVGIGEDWLSAK

3D structure

• PDB: 5w6q Snapshots of an evolved DNA polymerase pre- and post-incorporation of an unnatural nucleotide.
• Chain: A
• Resolution: 2.66 Å

Enzymatic activity

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

Interaction with ligand

Site #	Ligand	Ligand chain	Binding residues on receptor (original residue number in PDB)	Binding residues on receptor (residue number reindexed from 1)	Binding affinity
BS01	dna	A	R487 T506 E507 K508 T509 S513 T514 S515 A516 R536 K540 Y545 R573 Q582 N583 I584 P585 R587 H784 D785 E786	R192 T211 E212 K213 T214 S218 T219 S220 A221 R241 K245 Y250 R278 Q287 N288 I289 P290 R292 H468 D469 E470
BS02	dna	A	N483 N485 S486 S543 T569 A570 T571 S575 S576 S577 D578 Y671 M673 S674 R728 R746 M747 N750 Q754	N188 N190 S191 S248 T274 A275 T276 S280 S281 S282 D283 Y361 M363 S364 R412 R430 M431 N434 Q438

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:5w6q, PDBe:5w6q, PDBj:5w6q
• PDBsum: 5w6q
• PubMed: 29986111
• UniProt: P19821|DPO1_THEAQ DNA polymerase I, thermostable (Gene Name=polA)