Structure of PDB 4u6p Chain B

Receptor sequence

>4u6pB (length=431) Species: 9606 (Homo sapiens)

LDKEKINKIIMEATKGSRFYGNELKKEKQVNQRIENMMQQKAQITSQQLR
KAQLQVDRFAMELEQSRNLSNTIVHIDMDAFYAAVEMRDNPELKDKPIAV
GSMSMLSTSNYHARRFGVRAAMPGFIAKRLCPQLIIVPPNFDKYRAVSKE
VKEILADYDPNFMAMSLDEAYLNITKHLEERQNWPEDKRRYFIKNSVVFG
TSAQEVVKEIRFRIEQKTTLTASAGIAPNTMLAKVCSDKNKPNGQYQILP
NRQAVMDFIKDLPIRKVSGIGKVTEKMLKALGIITCTELYQQRALLSLLF
SETSWHYFLHISLGLGSTHLTRDGERKSMSVERTFSEINKAEEQYSLCQE
LCSELAQDLQKERLKGRTVTIKLKNVNFEVKTRASTVSSVVSTAEEIFAI
AKELLKTEIDADFPHPLRLRLMGVRISSFPN

3D structure

• PDB: 4u6p Structure and mechanism of error-free replication past the major benzo[a]pyrene adduct by human DNA polymerase kappa.
• Chain: B
• Resolution: 2.593 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	B	L123 I165 I166	L93 I135 I136
BS02	dna	B	R63 E199 K321 S355 G356 G358 V360 T361 R454 K468 T469 R470 A471 S472 T473	R33 E169 K234 S268 G269 G271 V273 T274 R367 K381 T382 R383 A384 S385 T386
BS03	dna	B	T44 S47 F49 M133 M135 P153 F155 I156 S388 T390 R413 K414 S415 M416 S417 V418 E419 T421 R507	T14 S17 F19 M103 M105 P123 F125 I126 S301 T303 R326 K327 S328 M329 S330 V331 E332 T334 R420
BS04	MG	B	R352 V354 I357	R265 V267 I270
BS05	MG	B	D107 E199	D77 E169
BS06	DCT	B	A110 T138 Y141 R144 K328	A80 T108 Y111 R114 K241

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:4u6p, PDBe:4u6p, PDBj:4u6p
• PDBsum: 4u6p
• PubMed: 27034468
• UniProt: Q9UBT6|POLK_HUMAN DNA polymerase kappa (Gene Name=POLK)