Structure of PDB 3syz Chain A

Receptor sequence

>3syzA (length=540) Species: 271 (Thermus aquaticus)

ALEEAPWPPPEGAFVGFVLSRKEPMWADLLALAAARGGRVHRAPEPYKAL
RDLKEARGLLAKDLSVLALREGLGLPPGDDPMLLAYLLDPSNTTPEGVAR
RYGGEWTEEAGERAALSERLFANLWGRLEGEERLLWLYREVERPLSAVLA
HMEATGVRLDVAYLRALSLEVAEEIARLEAEVFRLAGHPFNLNSRDQLER
VLFDELGLPAIGKTEKTGKRSTSAAVLEALREAHPIVEKILQYRELTKLK
STYIDPLPDLIHPRTGRLHTRFNQTATATGRLSSSDPNLQNIPVRTPLGQ
RIRRAFIAEEGWLLVALDYSQIELRVLAHLSGDENLIRVFQEGRDIHTET
ASWMFGVPREAVDPLMRRAAKTINFGVLYGMSAHRLSQELAIPYEEAQAF
IERYFQSFPKVRAWIEKTLEEGRRRGYVETLFGRRRYVPDLEARVKSVRE
AAERMAFNMPVQGTAADLMKLAMVKLFPRLEEMGARMLLQVHDELVLEAP
KERAEAVARLAKEVMEGVYPLAVPLEVEVGIGEDWLSAKE

3D structure

• PDB: 3syz KlenTaq polymerase replicates unnatural base pairs by inducing a Watson-Crick geometry.
• Chain: A
• Resolution: 1.952 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 K508 T509 S513 T514 S515 A516 R536 K540 Y545 R573 Q582 N583 I584 P585 R587 H784 D785	R195 T214 K216 T217 S221 T222 S223 A224 R244 K248 Y253 R281 Q290 N291 I292 P293 R295 H492 D493
BS02	dna	A	N483 N485 S486 S543 T544 T569 A570 R573 S575 S576 S577 D578 N580 R587 E615 R660 K663 T664 F667 G668 Y671 M673 E681 R728 R746 M747 N750 Q754	N191 N193 S194 S251 T252 T277 A278 R281 S283 S284 S285 D286 N288 R295 E323 R368 K371 T372 F375 G376 Y379 M381 E389 R436 R454 M455 N458 Q462

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:3syz, PDBe:3syz, PDBj:3syz
• PDBsum: 3syz
• PubMed: 22660438
• UniProt: P19821|DPO1_THEAQ DNA polymerase I, thermostable (Gene Name=polA)