Structure of PDB 8ef9 Chain A

Receptor sequence

>8ef9A (length=599) Species: 8187 (Lates calcarifer)

TFSIIDVASDRRLFNTFIKEWKTKERYSLALACEKREHDSDGLVLIGLSV
CWGARDSYYISLQQVSERLGQVRSCLSRPGGVVVTYDIIQVYKTLVLSCG
ISLAGNCEDPKVACWLLDPGSEERTLPNMVTVYCPEELPLLDGLGSAHAH
CPRVRAATKSVLVHAVMNHLTGLLEKDSMLDLFRSIEMPSQVCLALLELN
GVGFSVEECERQKHVMQAKLTALESQAYNLAGHSFSLTSIDDIAQVLFLE
LHLPQFSTTKDILEKLRPLHPLPGVILEWRRITNALTKVVFPLQREKQYH
PTLAMDRIYPIAQTHTATGRVSFTEPNIQNVPKDFEICMAFSVSMRHAFV
PFSGGMILAADYSQLELRVLAHLSKDQRLLQVLNGGADVFRCIAAEWKGV
DPETVNDSLRQQAKQICYGIIYGMGAKSLGEQMGVEENDAACYIESFKAR
YKGINAFLKETVKNCIKNGYVQTLMGRRRYLPGISNTNTHIKAHAERQAV
NTTVQGSAADIVKLATVNIQKRLRKTYPTAPLSHQHTLRGAFFVLQLHDE
LIYETREEDLIQVAQIVKREMESAVKLYVKLKAKVKVGPSWGNLQDLDL

3D structure

• PDB: 8ef9 Structural basis of DNA polymerase theta mediated DNA end joining.
• Chain: A
• Resolution: 2.4 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	T2272 I2274 D2275 K2350 Q2375 T2378 A2379 S2384 T2386 N2389 G2521 Y2524 M2526 G2527 S2530 R2581 A2595 H2596 R2599 Q2600 N2603 Q2607	T238 I240 D241 K288 Q313 T316 A317 S322 T324 N327 G419 Y422 M424 G425 S428 R479 A493 H494 R497 Q498 N501 Q505
BS02	dna	A	T2321 K2322 N2392 K2395 H2663	T259 K260 N330 K333 H548
BS03	DGT	A	R2382 Y2464 Q2466 L2467 E2468 F2492 R2512 K2516 Y2520 Y2524 D2664 K2699	R320 Y362 Q364 L365 E366 F390 R410 K414 Y418 Y422 D549 K584
BS04	MG	A	D2463 Y2464 D2664	D361 Y362 D549

Gene Ontology

Molecular Function

• 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

External links

• PDB: RCSB:8ef9, PDBe:8ef9, PDBj:8ef9
• PDBsum: 8ef9
• PubMed: 36583344
• UniProt: A0A4W6BKE5