Structure of PDB 5iii Chain A

Receptor sequence

>5iiiA (length=314) Species: 9606 (Homo sapiens)

HNLHITEKLEVLAKAYSVQGDKWRALGYAKAINALKSFHKPVTSYQEACS
IPGIGKRMAEKIIEILESGHLRKLDHISESVPVLELFSNIWGAGTKTAQM
WYQQGFRSLEDIRSQASLTTQQAIGLKHYSDFLERMPREEATEIEQTVQK
AAQAFNSGLLCVACGSYRRGKATCGDVDVLITHPDGRSHRGIFSRLLDSL
RQEGFLTDDLVSQEENGQQQKYLGVCRLPGPGRRHRRLDIIVVPYSEFAC
ALLYFTGSAHFNRSMRALAKTKGMSLSEHALSTAVPGRVLPTPTEKDVFR
LLGLPYREPAERDW

3D structure

• PDB: 5iii A fidelity mechanism in DNA polymerase lambda promotes error-free bypass of 8-oxo-dG.
• Chain: A
• Resolution: 1.8 Å

Enzymatic activity

• Catalytic site (original residue number in PDB): D427 D429 D490
• Catalytic site (residue number reindexed from 1): D176 D178 D239
• 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	Y267 W274 R275 G278 Y279 P303 G304 I305 G306 R308 M309 K312	Y16 W23 R24 G27 Y28 P52 G53 I54 G55 R57 M58 K61
BS02	dna	A	W342 G343 G345 K347 T348 Y505	W91 G92 G94 K96 T97 Y254
BS03	dna	A	W274 V462 S463 Q464 Q471 K472 R514 R517 A518 K521 L527 S528 E529 H530	W23 V211 S212 Q213 Q220 K221 R263 R266 A267 K270 L276 S277 E278 H279
BS04	DTP	A	R386 G416 S417 R420 G426 D427 D429 Y505 T507 G508 A510 N513	R135 G165 S166 R169 G175 D176 D178 Y254 T256 G257 A259 N262
BS05	MG	A	D427 D429	D176 D178

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:5iii, PDBe:5iii, PDBj:5iii
• PDBsum: 5iii
• PubMed: 27481934
• UniProt: Q9UGP5|DPOLL_HUMAN DNA polymerase lambda (Gene Name=POLL)