Structure of PDB 5nkl Chain A

Receptor sequence

>5nklA (length=540) Species: 271 (Thermus aquaticus) [Search protein sequence]

ALEEAPWPPPEGAFVGFVLSRKEPMWADLLALAAARGGRVHRAPEPYKAL
RDLKEARGLLAKDLSVLALREGLGLPPGDDPMLLAYLLDPSNTTPEGVAR
RYGGEWTEEAGERAALSERLFANLWGRLEGEERLLWLYREVERPLSAVLA
HMEATGVRLDVAYLRALSLEVAEEIARLEAEVFRLAGHPFNLNSRDQLER
VLFDELGLPAIGKTEKTGKRSTSAAVLEALREAHPIVEKILQYRELTKLK
STYIDPLPDLIHPRTGRLHTRFNQTATATGRLSSSDPNLQNIPVRTPLGQ
RIRRAFIAEEGWLLVALDYSQIELRVLAHLSGDENLIRVFQEGRDIHTET
ASWMFGVPREAVDPLMRRAAKTINFGVLYGMSAHRLSQELAIPYEEAQAF
IERYFQSFPKVRAWIEKTLEEGRRRGYVETLFGRRRYVPDLEARVKSVRE
AAERMAFNMPVQGTAADLMKLAMVKLFPRLEEMGARMLLQVHDELVLEAP
KERAEAVARLAKEVMEGVYPLAVPLEVEVGIGEDWLSAKE

3D structure

PDB

5nkl Structural Basis for Expansion of the Genetic Alphabet with an Artificial Nucleobase Pair.

Chain

Resolution

1.7 Å

3D
structure

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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)
BS01	dna	A	R487 T506 K508 T509 S513 T514 S515 A516 R536 K540 Y545 R573 Q582 N583 I584 P585 R587 V783 H784	R195 T214 K216 T217 S221 T222 S223 A224 R244 K248 Y253 R281 Q290 N291 I292 P293 R295 V491 H492
BS02	dna	A	N483 N485 S486 I503 S513 S515 A517 V518 S543 T544 T569 A570 T571 R573 S575 S576 S577 D578 N580 T664 F667 G668 Y671 G672 M673 S674 H676 R677 R728 R746 M747 N750 Q754	N191 N193 S194 I211 S221 S223 A225 V226 S251 T252 T277 A278 T279 R281 S283 S284 S285 D286 N288 T372 F375 G376 Y379 G380 M381 S382 H384 R385 R436 R454 M455 N458 Q462
BS03	MG	A	D610 D785	D318 D493
BS04	MG	A	D610 Y611 D785	D318 Y319 D493
BS05	91T	A	D610 Y611 Q613 I614 E615 H639 R659 R660 K663 F667 D785	D318 Y319 Q321 I322 E323 H347 R367 R368 K371 F375 D493
BS06	91R	A	D610 Y611 Q613 I614 E615 H639 R659 R660 K663 F667 D785	D318 Y319 Q321 I322 E323 H347 R367 R368 K371 F375 D493

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

View graph for
Molecular Function

View graph for
Biological Process

External links

PDB	RCSB:5nkl, PDBe:5nkl, PDBj:5nkl
PDBsum	5nkl
PubMed	28594080
UniProt	P19821\|DPO1_THEAQ DNA polymerase I, thermostable (Gene Name=polA)

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