Structure of PDB 8u0p Chain A

Receptor sequence

>8u0pA (length=322) Species: 9606 (Homo sapiens)

DKWVCAQPSSQKATNHNLHITEKLEVLAKAYSVQGDKWRALGYAKAINAL
KSFHKPVTSYQEACSIPGIGKRMAEKIIEILESGHLRKLDHISESVPVLE
LFSNIWGAGTKTAQMWYQQGFRSLEDIRSQASLTTQQAIGLKHYSDFLER
MPREEATEIEQTVQKAAQAFNSGLLCVACGSYRRGKATCGDVDVLITHPD
GRSHRGIFSRLLDSLRQEGFLTDDLVSQGKYLGVCRLPGPGRRHRRLDII
VVPYSEFACALLYFTGSAHFNRSMRALAKTKGMSLSEHALSTAVGRVLPT
PTEKDVFRLLGLPYREPAERDW

3D structure

• PDB: 8u0p DNA polymerase lambda Loop1 variant yields unexpected gain-of-function capabilities in nonhomologous end-joining.
• Chain: A
• Resolution: 1.9 Å

Enzymatic activity

• Enzyme Commision number: 2.7.7.7: DNA-directed DNA polymerase.
  4.2.99.-

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	W274 V462 Q464 K472 R514 R517 K521 L527 S528 E529 H530	W38 V226 Q228 K230 R272 R275 K279 L285 S286 E287 H288
BS02	dna	A	W342 G343 A344 G345 K347 T348 D490 Y505	W106 G107 A108 G109 K111 T112 D248 Y263
BS03	dna	A	Y267 W274 R275 Y279 P303 G304 G306 M309 K312	Y31 W38 R39 Y43 P67 G68 G70 M73 K76
BS04	MG	A	D427 D429	D191 D193
BS05	MG	A	D427 D429 D490	D191 D193 D248
BS06	DUP	A	R386 G416 S417 R420 G426 D427 D429 Y505 T507 G508 A510 N513	R150 G180 S181 R184 G190 D191 D193 Y263 T265 G266 A268 N271

Gene Ontology

Molecular Function

• GO:0003677 DNA binding
• GO:0003887 DNA-directed DNA polymerase activity
• GO:0016779 nucleotidyltransferase activity
• GO:0034061 DNA polymerase activity

Biological Process

• GO:0006281 DNA repair

External links

• PDB: RCSB:8u0p, PDBe:8u0p, PDBj:8u0p
• PDBsum: 8u0p
• PubMed: 38428373
• UniProt: Q9UGP5|DPOLL_HUMAN DNA polymerase lambda (Gene Name=POLL)