Structure of PDB 8ka5 Chain A

Receptor sequence
>8ka5A (length=297) Species: 3702 (Arabidopsis thaliana) [Search protein sequence]
QSEPWTVLAHKKPQKDWKAYNPKTMRPPPLPEGTKCVKVMTWNVNGLRGL
LKFESFSALQLAQRENFDILCLQETKLQVKDVEEIKKTLIDGYDHSFWSC
SVSKLGYSGTAIISRIKPLSVRYGTGLSGHDTEGRIVTAEFDSFYLINTY
VPNSGDGLKRLSYRIEEWDRTLSNHIKELEKSKPVVLTGDLNCAHEEIDI
FNPAGNKRSAGFTIEERQSFGANLLDKGFVDTFRKQHPGVVGYTYWGYRH
GGRKTNKGWRLDYFLVSQSIAANVHDSYILPDINGSDHCPIGLILKL
3D structure
PDB8ka5 Arabidopsis AP endonuclease APR complex with 20bp THF-containing DNA
ChainA
Resolution2.8 Å
3D
structure
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Enzymatic activity
Enzyme Commision number 3.1.11.2: exodeoxyribonuclease III.
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 N445 Y484 K496 W498 N206 Y245 K257 W259
BS02 dna A E313 Y346 Y389 E74 Y107 Y150
BS03 dna A N284 G285 R287 G288 K315 Q317 L344 G345 Y487 R488 N45 G46 R48 G49 K76 Q78 L105 G106 Y248 R249
BS04 3DR A Y389 N392 D429 N431 Y484 W498 L500 H527 Y150 N153 D190 N192 Y245 W259 L261 H288
Gene Ontology
Molecular Function
GO:0003677 DNA binding
GO:0003824 catalytic activity
GO:0004518 nuclease activity
GO:0004519 endonuclease activity
Biological Process
GO:0006281 DNA repair

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Molecular Function
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Biological Process
External links
PDB RCSB:8ka5, PDBe:8ka5, PDBj:8ka5
PDBsum8ka5
PubMed38503293
UniProtP45951|ARP_ARATH DNA-(apurinic or apyrimidinic site) endonuclease, chloroplastic (Gene Name=ARP)

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