Structure of PDB 4ktq Chain A

Receptor sequence

>4ktqA (length=539) Species: 271 (Thermus aquaticus)

LEEAPWPPPEGAFVGFVLSRKEPMWADLLALAAARGGRVHRAPEPYKALR
DLKEARGLLAKDLSVLALREGLGLPPGDDPMLLAYLLDPSNTTPEGVARR
YGGEWTEEAGERAALSERLFANLWGRLEGEERLLWLYREVERPLSAVLAH
MEATGVRLDVAYLRALSLEVAEEIARLEAEVFRLAGHPFNLNSRDQLERV
LFDELGLPAIGKTEKTGKRSTSAAVLEALREAHPIVEKILQYRELTKLKS
TYIDPLPDLIHPRTGRLHTRFNQTATATGRLSSSDPNLQNIPVRTPLGQR
IRRAFIAEEGWLLVALDYSQIELRVLAHLSGDENLIRVFQEGRDIHTETA
SWMFGVPREAVDPLMRRAAKTINFGVLYGMSAHRLSQELAIPYEEAQAFI
ERYFQSFPKVRAWIEKTLEEGRRRGYVETLFGRRRYVPDLEARVKSVREA
AERMAFNMPVQGTAADLMKLAMVKLFPRLEEMGARMLLQVHDELVLEAPK
ERAEAVARLAKEVMEGVYPLAVPLEVEVGIGEDWLSAKE

3D structure

• PDB: 4ktq Crystal structures of open and closed forms of binary and ternary complexes of the large fragment of Thermus aquaticus DNA polymerase I: structural basis for nucleotide incorporation.
• Chain: A
• Resolution: 2.5 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 A516 R536 K540 Y545 R573 Q582 N583 I584 P585 R587 V783 H784	R194 T213 K215 T216 S220 T221 A223 R243 K247 Y252 R280 Q289 N290 I291 P292 R294 V490 H491
BS02	dna	A	N483 N485 S486 S543 T544 A570 R573 S575 S576 S577 D578 N580 Y671 R677 R728 R746 M747 N750 Q754	N190 N192 S193 S250 T251 A277 R280 S282 S283 S284 D285 N287 Y378 R384 R435 R453 M454 N457 Q461

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:4ktq, PDBe:4ktq, PDBj:4ktq
• PDBsum: 4ktq
• PubMed: 9857206
• UniProt: P19821|DPO1_THEAQ DNA polymerase I, thermostable (Gene Name=polA)