Structure of PDB 3pzp Chain A

Receptor sequence

>3pzpA (length=440) Species: 9606 (Homo sapiens)

KAGMEGLDKEKINKIIMEATKGSRFYGNELKKEKQVNQRIENMMQQKAQI
TSQQLRKAQLQVDRFAMELEQSRNLSNTIVHIDMDAFYAAVEMRDNPELK
DKPIAVGSMSMLSTSNYHARRFGVRAAMPGFIAKRLCPQLIIVPPNFDKY
RAVSKEVKEILADYDPNFMAMSLDEAYLNITKHLEERQNWPEDKRRYFIK
QNSVVFGTSAQEVVKEIRFRIEQKTTLTASAGIAPNTMLAKVCSDKNKPN
GQYQILPNRQAVMDFIKDLPIRKVSGIGKVTEKMLKALGIITCTELYQQR
ALLSLLFSETSWHYFLHISLGLGSTHLTRDGERKSMSVERTFSEINKAEE
QYSLCQELCSELAQDLQKERLKGRTVTIKLKNVNFEVKTRASTVSSVVST
AEEIFAIAKELLKTEIDADFPHPLRLRLMGVRISSFPNEE

3D structure

• PDB: 3pzp Role of human DNA polymerase kappa in extension opposite from a cis-syn thymine dimer.
• Chain: A
• Resolution: 3.336 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	S196 E199 G356 I357 G358 V360 T361 T469 R470 A471 S472 T473	S172 E175 G276 I277 G278 V280 T281 T389 R390 A391 S392 T393
BS02	dna	A	T44 S47 F49 M135 P153 F155 S388 T390 R413 K414 S415 S417 R420 T421 R507	T20 S23 F25 M111 P129 F131 S308 T310 R333 K334 S335 S337 R340 T341 R427
BS03	DTP	A	D107 M108 D109 A110 F111 Y112 S137 T138 Y141 R144 D198 K328	D83 M84 D85 A86 F87 Y88 S113 T114 Y117 R120 D174 K248
BS04	MG	A	D107 M108 D198	D83 M84 D174
BS05	MG	A	V354 I357	V274 I277

Gene Ontology

Molecular Function

• GO:0003684 damaged DNA binding
• GO:0003887 DNA-directed DNA polymerase activity

Biological Process

• GO:0006281 DNA repair

External links

• PDB: RCSB:3pzp, PDBe:3pzp, PDBj:3pzp
• PDBsum: 3pzp
• PubMed: 21354175
• UniProt: Q9UBT6|POLK_HUMAN DNA polymerase kappa (Gene Name=POLK)