Structure of PDB 3gpl Chain B

Receptor sequence

>3gplB (length=516) Species: 243230 (Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539)

ALDRLEKDLFTLTEVEGIGFLTADKLWQARGGALDDPRRLTAAAVYALQL
AGTQAGHSFLPRSRAEKGVVHYTRVTPGQARLAVETAVELGRLSEDEGRI
YLPHVLRAEKKLASLIRTLLATPPADGNDDWAVPKKARKGLSEEQASVLD
QLAGHRLVVLTGGPGTGKSTTTKAVADLAESLGLEVGLCAPTGKAARRLG
EVTGRTASTVHRLLGYGPQGFRHNHLEPAPYDLLIVDEVSMMGDALMLSL
LAAVPPGARVLLVGDTDQLPPVDAGLPLLALAQAAPTIKLTQVYRQAAKN
PIIQAAHGLLHGEAPAWGDKRLNLTEIEPDGGARRVALMVRELGGPGAVQ
VLTPMRKGPLGMDHLNYHLQALFNPGEGGVRIAEGEARPGDTVVQTKNDY
NNEIFNGTLGMVLKAEGARLTVDFDGNVVELTGAELFNLQLGYALTVHRA
QGSEWGTVLGVLHEAHMPMLSRNLVYTALTRARDRFFSAGSASAWQIAAA
RQREARNTALLERIRA

3D structure

• PDB: 3gpl Mechanistic basis of 5'-3' translocation in SF1B helicases.
• Chain: B
• Resolution: 2.5 Å

Enzymatic activity

• Enzyme Commision number: 5.6.2.3: DNA 5'-3' helicase.

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	Q237 P389 T390 G391 T407 H409 Y414 V470 M553 R554 N596 Y598 N604 H646 R647 M667	Q54 P191 T192 G193 T209 H211 Y216 V272 M355 R356 N398 Y400 N406 H448 R449 M469
BS02	ANP	B	Q343 P362 G363 G365 K366 S367 T368 Y492 R493 E652 R679	Q145 P164 G165 G167 K168 S169 T170 Y294 R295 E454 R481

Gene Ontology

Molecular Function

• GO:0003677 DNA binding
• GO:0016887 ATP hydrolysis activity
• GO:0043139 5'-3' DNA helicase activity

Biological Process

• GO:0032508 DNA duplex unwinding

External links

• PDB: RCSB:3gpl, PDBe:3gpl, PDBj:3gpl
• PDBsum: 3gpl
• PubMed: 19490894
• UniProt: Q9RT63|RECD2_DEIRA ATP-dependent RecD2 DNA helicase (Gene Name=recD2)