Structure of PDB 4ebd Chain A

Receptor sequence

>4ebdA (length=376) Species: 9606 (Homo sapiens)

SSRVIVHVDLDCFYAQVEMISNPELKDKPLGVQQKYLVVTCNYEARKLGV
KKLMNVRDAKEKCPQLVLVNGEDLTRYREMSYKVTELLEEFSPVVERLGF
DENFVDLTEMVEKRLQQLQSDELSAVTVSGHVYNNQSINLLDVLHIRLLV
GSQIAAEMREAMYNQLGLTGCAGVASNKLLAKLVSGVFKPNQQTVLLPES
CQHLIHSLNHIKEIPGIGYKTAKCLEALGINSVRDLQTFSPKILEKELGI
SVAQRIQKLSFGEDNSPVILSGPPQSFSEEDSFKKCSSEVEAKNKIEELL
ASLLNRVCQDRKPHTVRLIIRRYGRESRQCPIPSHVIQKDVMTPMVDILM
KLFRNMVNVKMPFHLTLLSVCFCNLK

3D structure

• PDB: 4ebd A Nucleotide-Analogue-Induced Gain of Function Corrects the Error-Prone Nature of Human DNA Polymerase iota.
• Chain: A
• Resolution: 2.571 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	E127 K207 P240 G241 G243 K245 T246 E358 S359 Q361	E102 K182 P215 G216 G218 K220 T221 E326 S327 Q329
BS02	dna	A	Q59 K60 Y61 E97 L99 Q300 S301 F302 S303 E305 S307 F308 K309 R347	Q34 K35 Y36 E72 L74 Q275 S276 F277 S278 E280 S282 F283 K284 R321
BS03	0OJ	A	C37 Y39 V64 T65 Y68 R71 K77 L78 D126 K214	C12 Y14 V39 T40 Y43 R46 K52 L53 D101 K189
BS04	CA	A	D34 E127	D9 E102
BS05	CA	A	D34 L35 D126	D9 L10 D101
BS06	CA	A	K237 I239 I242	K212 I214 I217

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:4ebd, PDBe:4ebd, PDBj:4ebd
• PDBsum: 4ebd
• PubMed: 22632140
• UniProt: Q9UNA4|POLI_HUMAN DNA polymerase iota (Gene Name=POLI)