Structure of PDB 3c5g Chain B

Receptor sequence

>3c5gB (length=329) Species: 9606 (Homo sapiens)

SSQKATNHNLHITEKLEVLAKAYSVQGDKWRALGYAKAINALKSFHKPVT
SYQEACSIPGIGKRMAEKIIEILESGHLRKLDHISESVPVLELFSNIWGA
GTKTAQMWYQQGFRSLEDIRSQASLTTQQAIGLKHYSDFLERMPREEATE
IEQTVQKAAQAFNSGLLCVACGSYRRGKATCGDVDVLITHPDGRSHRGIF
SRLLDSLRQEGFLTDDLVSQEENGQQQKYLGVCRLPGPGRRHRRLDIIVV
PYSEFACALLYFTGSAHFNRSMKALAKTKGMSLSEHALSTAVVRHGCKVG
PGRVLPTPTEKDVFRLLGLPYREPAERDW

3D structure

• PDB: 3c5g Substrate-induced DNA strand misalignment during catalytic cycling by DNA polymerase lambda.
• Chain: B
• Resolution: 2.2 Å

Enzymatic activity

• Catalytic site (original residue number in PDB): D427 D429 D490
• Catalytic site (residue number reindexed from 1): D183 D185 D246
• 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	V537 G548 R549	V293 G302 R303
BS02	dna	B	W274 V462 Q464 R514 K517 K521 L527 E529 H530	W30 V218 Q220 R270 K273 K277 L283 E285 H286
BS03	dna	B	W342 G343 A344 G345 K347 T348 Y505	W98 G99 A100 G101 K103 T104 Y261
BS04	dna	B	Y267 W274 R275 G278 Y279 G304 G306 R308 M309 K312	Y23 W30 R31 G34 Y35 G60 G62 R64 M65 K68
BS05	D3T	B	R386 G416 S417 R420 G426 D427 D429 Y505 F506 A510 N513	R142 G172 S173 R176 G182 D183 D185 Y261 F262 A266 N269
BS06	MG	B	D427 D429	D183 D185

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:3c5g, PDBe:3c5g, PDBj:3c5g
• PDBsum: 3c5g
• PubMed: 18369368
• UniProt: Q9UGP5|DPOLL_HUMAN DNA polymerase lambda (Gene Name=POLL)