Structure of PDB 3c5f Chain B

Receptor sequence

>3c5fB (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: B
• 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	B	H541 R549	H292 R300
BS02	dna	B	V537 G548	V288 G299
BS03	dna	B	W274 V462 Q464 E465 E466 N467 G468 Y505 R514 A517 K521 L527 S528 E529 H530	W25 V213 Q215 E216 E217 N218 G219 Y256 R265 A268 K272 L278 S279 E280 H281
BS04	dna	B	W342 G343 A344 G345 K347 T348	W93 G94 A95 G96 K98 T99
BS05	dna	B	Y267 W274 R275 Y279 P303 G304 G306 R308 M309 K312	Y18 W25 R26 Y30 P54 G55 G57 R59 M60 K63

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)