Structure of PDB 2pfp Chain A

Receptor sequence

>2pfpA (length=326) Species: 9606 (Homo sapiens)

TNHNLHITEKLEVLAKAYSVQGDKWRALGYAKAINALKSFHKPVTSYQEA
CSIPGIGKRMAEKIIEILESGHLRKLDHISESVPVLELFSNIWGAGTKTA
QMWYQQGFRSLEDIRSQASLTTQQAIGLKHYSDFLERMPREEATEIEQTV
QKAAQAFNSGLLCVACGSYRRGKATCGDVDVLITHPDGRSHRGIFSRLLD
SLRQEGFLTDDLVSQEENGQQQKYLGVCRLPGPGRRHRRLDIIVVPYSEF
ACALLYFTGSAHFNRSMRALAKTKGMSLSEHALSTAVVRNTHGAKVGPGR
VLPTPTEKDVFRLLGLPYREPAERDW

3D structure

• PDB: 2pfp Role of the catalytic metal during polymerization by DNA polymerase lambda.
• Chain: A
• Resolution: 2.1 Å

Enzymatic activity

• Catalytic site (original residue number in PDB): D427 D429 D490
• Catalytic site (residue number reindexed from 1): D178 D180 D241
• 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 E529 H530 H541	W25 V213 S214 Q215 Q222 K223 R265 R268 K272 L278 E280 H281 H292
BS02	dna	A	W342 G343 A344 G345 K347 T348 D490 Y505	W93 G94 A95 G96 K98 T99 D241 Y256
BS03	dna	A	W274 R275 G278 Y279 P303 G304 G306 R308 M309	W25 R26 G29 Y30 P54 G55 G57 R59 M60
BS04	MG	A	D427 D429	D178 D180
BS05	DCP	A	R386 G416 S417 R420 G426 D427 D429 Y505 F506 T507 G508 A510 N513	R137 G167 S168 R171 G177 D178 D180 Y256 F257 T258 G259 A261 N264

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