Structure of PDB 3c5f Chain A

Receptor sequence

>3c5fA (length=326) Species: 9606 (Homo sapiens)

TNHNLHITEKLEVLAKAYSVQGDKWRALGYAKAINALKSFHKPVTSYQEA
CSIPGIGKRMAEKIIEILESGHLRKLDHISESVPVLELFSNIWGAGTKTA
QMWYQQGFRSLEDIRSQASLTTQQAIGLKHYSDFLERMPREEATEIEQTV
QKAAQAFNSGLLCVACGSYRRGKATCGDVDVLITHPDGRSHRGIFSRLLD
SLRQEGFLTDDLVSQEENGQQQKYLGVCRLPGPGRRHRRLDIIVVPYSEF
ACALLYFTGSAHFNRSMAALAKTKGMSLSEHALSTAVVRNTHGCKVGPGR
VLPTPTEKDVFRLLGLPYREPAERDW

3D structure

• PDB: 3c5f Substrate-induced DNA strand misalignment during catalytic cycling by DNA polymerase lambda.
• Chain: A
• Resolution: 2.25 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 Y505 R514 A517 K521 L527 S528 E529 H530	W25 V213 S214 Q215 Y256 R265 A268 K272 L278 S279 E280 H281
BS02	dna	A	W342 G343 G345 K347 T348 K472 D490	W93 G94 G96 K98 T99 K223 D241
BS03	dna	A	Y267 W274 R275 G278 Y279 P303 G304 G306 R308 M309 K312	Y18 W25 R26 G29 Y30 P54 G55 G57 R59 M60 K63
BS04	dna	A	V537 G548 R549	V288 G299 R300

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:3c5f, PDBe:3c5f, PDBj:3c5f
• PDBsum: 3c5f
• PubMed: 18369368
• UniProt: Q9UGP5|DPOLL_HUMAN DNA polymerase lambda (Gene Name=POLL)