Structure of PDB 3ngd Chain A

Receptor sequence

>3ngdA (length=370) Species: 9606 (Homo sapiens)

SSRVIVHVDLDCFYAQVEMISNPELKDKPLGVQQKYLVVTCNYEARKLGV
KKLMNVRDAKEKCPQLVLVNGEDLTRYREMSYKVTELLEEFSPVVERLGF
DENFVDLTEMVEKRLQQLQSDELSAVTVSGHVYNNQSINLLDVLHIRLLV
GSQIAAEMREAMYNQLGLTGCAGVASNKLLAKLVSGVFKPNQQTVLLPES
CQHLIHSLNHIKEIPGIGYKTAKCLEALGINSVRDLQTFSPKILEKELGI
SVAQRIQKLSFGEDNSPVILSGPPQSFSEEDSFKKCSSEVEAKNKIEELL
ASLLNRVCQDGRKPHTVRLIIRRYSSGRESRQCPIPSHVIQKDVMTPMVD
ILMKLFRNMTLLSVCFCNLK

3D structure

• PDB: 3ngd Structural Basis for Proficient Incorporation of dTTP Opposite O6-Methylguanine by Human DNA Polymerase {iota}.
• Chain: A
• Resolution: 2.8 Å

Enzymatic activity

• Enzyme Commision number: 2.7.7.7: DNA-directed DNA polymerase.

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	L123 E127 K207 G241 G243 K245 T246 E358 S359 R360 Q361	L98 E102 K182 G216 G218 K220 T221 E329 S330 R331 Q332
BS02	dna	A	Q59 K60 Y61 E97 L99 P299 Q300 S303 E305 S307 R331 R347	Q34 K35 Y36 E72 L74 P274 Q275 S278 E280 S282 R306 R322
BS03	DCP	A	L35 C37 F38 Y39 V64 T65 Y68 R71 K77 D126 K214	L10 C12 F13 Y14 V39 T40 Y43 R46 K52 D101 K189

Gene Ontology

Molecular Function

• GO:0003684 damaged DNA binding
• GO:0003887 DNA-directed DNA polymerase activity

Biological Process

• GO:0006281 DNA repair

External links

• PDB: RCSB:3ngd, PDBe:3ngd, PDBj:3ngd
• PDBsum: 3ngd
• PubMed: 20961860
• UniProt: Q9UNA4|POLI_HUMAN DNA polymerase iota (Gene Name=POLI)