Structure of PDB 5iim Chain A

Receptor sequence

>5iimA (length=326) Species: 9606 (Homo sapiens)

TNHNLHITEKLEVLAKAYSVQGDKWRALGYAKAINALKSFHKPVTSYQEA
CSIPGIGKRMAEKIIEILESGHLRKLDHISESVPVLELFSNIWGAGTKTA
QMWYQQGFRSLEDIRSQASLTTQQAIGLKHYSDFLERMPREEATEIEQTV
QKAAQAFNSGLLCVACGSYRRGKATCGDVDVLITHPDGRSHRGIFSRLLD
SLRQEGFLTDDLVSQEENGQQQKYLGVCRLPGPGRRHRRLDIIVVPYSEF
ACALLYFTGSAHFNRSMRALAKTKGMSLSEHALSTAVVRNTHGCKVGPGR
VLPTPTEKDVFRLLGLPYREPAERDW

3D structure

• PDB: 5iim A fidelity mechanism in DNA polymerase lambda promotes error-free bypass of 8-oxo-dG.
• Chain: A
• Resolution: 1.941 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 R275 Y279 P303 G304 G306 R308 M309 K312	W25 R26 Y30 P54 G55 G57 R59 M60 K63
BS02	dna	A	W342 G343 A344 G345 K347 T348 D490 Y505	W93 G94 A95 G96 K98 T99 D241 Y256
BS03	dna	A	W274 V462 S463 Q464 Q471 K472 R514 R517 K521 L527 S528 H530 H541	W25 V213 S214 Q215 Q222 K223 R265 R268 K272 L278 S279 H281 H292
BS04	DUP	A	R386 G416 S417 R420 G426 D427 D429 Y505 T507 G508 A510 N513	R137 G167 S168 R171 G177 D178 D180 Y256 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:5iim, PDBe:5iim, PDBj:5iim
• PDBsum: 5iim
• PubMed: 27481934
• UniProt: Q9UGP5|DPOLL_HUMAN DNA polymerase lambda (Gene Name=POLL)