Structure of PDB 5w6q Chain C

Receptor sequence

>5w6qC (length=521) Species: 271 (Thermus aquaticus)

APWPPPEGAFVGFVLSRKEPMWADLLALAAARGGRVHRAPEPYKALRDLK
EARGLLAKDLSVLALREGLGLPPGDDPMLLAYLLDPSNTTPEGVARRYGG
EWTEEAGERAALSERLFANLWGRLEGEERLLWLYREVERPLSAVLAHVEA
TGVRLDVAYLRALSLEVAEEIARLEAEVFRLAGHPFNLNSRDQLERVLFD
ELGLPAIGKTEKTGKRSTSAAVLEALREAHAIVEKILQYRELTKLKSTYI
DPLPELIHPRTGRLHTRFNQTATATGRLSSSDPNLQNIPVRTPLGQRIRR
AFIAEEGWLLVALDYSQIELRVLAHLSGDENLIRVFQEGRDIHTETASRR
AAKTINFGVLYGMSAHRLSQELAIPYEEAQAFIERYFQSFPKVRAWIEKT
LEEGRRRGYVETLFGRRRYVPDLEARVKSVREAAERMAFNMPVQGTAADL
MKLAMVKLFPRLEEMGARMLLQVHDELVLEAPKERAEAVARLAKEVMEGV
YPLAVPLEVEVGIGEDWLSAK

3D structure

• PDB: 5w6q Snapshots of an evolved DNA polymerase pre- and post-incorporation of an unnatural nucleotide.
• Chain: C
• 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	C	R487 T506 K508 T509 S513 T514 S515 A516 R536 K540 Y545 R573 Q582 N583 I584 P585 R587 V783 H784 D785	R191 T210 K212 T213 S217 T218 S219 A220 R240 K244 Y249 R277 Q286 N287 I288 P289 R291 V473 H474 D475
BS02	dna	C	N483 N485 S486 S543 T544 T569 T571 R573 S575 S576 S577 D578 N580 F667 Y671 M673 S674 R677 R728 M747 N750 Q754	N187 N189 S190 S247 T248 T273 T275 R277 S279 S280 S281 D282 N284 F357 Y361 M363 S364 R367 R418 M437 N440 Q444

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)