Structure of PDB 3zvn Chain A

Receptor sequence

>3zvnA (length=377) Species: 10090 (Mus musculus)

WESLKKLLVFTASGVKPQGKVAAFNLDGTLITTRSGKVFPTSPSDWRILY
PEIPKKLQELAAEGYKLVIFTNQMGIGRGKLPAEVFKGKVEAVLEKLGVP
FQVLVATHAGLNRKPVSGMWDHLQEQANEGIPISVEDSVFVGDAAGRLAN
WAPGRKKKDFSCADRLFALNVGLPFATPEEFFLKWPAARFELPAFDPRTI
SSAGPLYLPESSSLLSPNPEVVVAVGFPGAGKSTFIQEHLVSAGYVHVNR
DTLGSWQRCVSSCQAALRQGKRVVIDNTNPDVPSRARYIQCAKDAGVPCR
CFNFCATIEQARHNNRFREMTDPSHAPVSDMVMFSYRKQFEPPTLAEGFL
EILEIPFRLQEHLDPALQRLYRQFSEG

3D structure

• PDB: 3zvn The structural basis for substrate recognition by mammalian polynucleotide kinase 3' phosphatase.
• Chain: A
• Resolution: 2.15 Å

Enzymatic activity

• Enzyme Commision number: 2.7.1.78: polynucleotide 5'-hydroxyl-kinase.
  3.1.3.32: polynucleotide 3'-phosphatase.

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	R395 D396 W401 T423 R432 H470 V477	R250 D251 W256 T278 R287 H325 V332
BS02	dna	A	V183 F184 N217 M219 G220 R223 A254 R258 F305	V38 F39 N72 M74 G75 R78 A109 R113 F160
BS03	dna	A	G399 S400 Q402 R403	G254 S255 Q257 R258
BS04	dna	A	M476 F479 R482 K483	M331 F334 R337 K338
BS05	ADP	A	G374 G376 K377 S378 T379 N459 R463 F502 R503 L504 Q505	G229 G231 K232 S233 T234 N314 R318 F357 R358 L359 Q360

Gene Ontology

Molecular Function

• GO:0046403 polynucleotide 3'-phosphatase activity
• GO:0046404 ATP-dependent polydeoxyribonucleotide 5'-hydroxyl-kinase activity

Biological Process

• GO:0006281 DNA repair

External links

• PDB: RCSB:3zvn, PDBe:3zvn, PDBj:3zvn
• PDBsum: 3zvn
• PubMed: 22055185
• UniProt: Q9JLV6|PNKP_MOUSE Bifunctional polynucleotide phosphatase/kinase (Gene Name=Pnkp)