Structure of PDB 2pfo Chain A

Receptor sequence

>2pfoA (length=323) Species: 9606 (Homo sapiens)

NLHITEKLEVLAKAYSVQGDKWRALGYAKAINALKSFHKPVTSYQEACSI
PGIGKRMAEKIIEILESGHLRKLDHISESVPVLELFSNIWGAGTKTAQMW
YQQGFRSLEDIRSQASLTTQQAIGLKHYSDFLERMPREEATEIEQTVQKA
AQAFNSGLLCVACGSYRRGKATCGDVDVLITHPDGRSHRGIFSRLLDSLR
QEGFLTDDLVSQEENGQQQKYLGVCRLPGPGRRHRRLDIIVVPYSEFACA
LLYFTGSAHFNRSMRALAKTKGMSLSEHALSTAVVRNTHGAKVGPGRVLP
TPTEKDVFRLLGLPYREPAERDW

3D structure

• PDB: 2pfo Role of the catalytic metal during polymerization by DNA polymerase lambda.
• Chain: A
• Resolution: 2.0 Å

Enzymatic activity

• Catalytic site (original residue number in PDB): D427 D429 D490
• Catalytic site (residue number reindexed from 1): D175 D177 D238
• 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 S463 Q464 Q471 K472 R514 R517 K521 L527 S528 E529 H530 H541	W22 V210 S211 Q212 Q219 K220 R262 R265 K269 L275 S276 E277 H278 H289
BS02	dna	A	W342 G343 A344 G345 K347 T348 R488 D490 Y505	W90 G91 A92 G93 K95 T96 R236 D238 Y253
BS03	dna	A	W274 R275 G278 Y279 P303 G304 G306 R308 M309 K312	W22 R23 G26 Y27 P51 G52 G54 R56 M57 K60
BS04	MG	A	D427 D429	D175 D177
BS05	MN	A	D427 D429 D490	D175 D177 D238
BS06	DUP	A	R386 G416 S417 R420 G426 D427 D429 Y505 T507 G508 N513	R134 G164 S165 R168 G174 D175 D177 Y253 T255 G256 N261

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:2pfo, PDBe:2pfo, PDBj:2pfo
• PDBsum: 2pfo
• PubMed: 17475573
• UniProt: Q9UGP5|DPOLL_HUMAN DNA polymerase lambda (Gene Name=POLL)