Structure of PDB 6u8x Chain D

Receptor sequence

>6u8xD (length=291) Species: 9606 (Homo sapiens) [Search protein sequence]

LYPAIPAARRRPIRVLSLFDGIATGYLVLKELGIKVGKYVASEVCEESIA
VGTVKHEGNIKYVNDVRNITKKNIEEWGPFDLVIGGSPCNDLSNVNPARK
GLYEGTGRLFFEFYHLLNYSRPKEGDDRPFFWMFENVVAMKVGDKRDISR
FLECNPVMIDAIKVSAAHRARYFWGNLPGMNRPVIASKNDKLELQDCLEY
NRIAKLKKVQTITTKSNSIKQGKNQLFPVVMNGKEDVLWCTELERIFGFP
VHYTDVSNMGRGARQKLLGRSWSVPVIRHLFAPLKDYFACE

3D structure

PDB

6u8x Comprehensive structure-function characterization of DNMT3B and DNMT3A reveals distinctive de novo DNA methylation mechanisms.

Chain

Resolution

2.95064 Å

3D
structure

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Enzymatic activity

Enzyme Commision number

2.1.1.37: DNA (cytosine-5-)-methyltransferase.

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	D	S649 C651 N652 S655 V657 N658 E697 V699 R733 Q772 T773 T776 K777 G784 G831 R832	S87 C89 N90 S93 V95 N96 E135 V137 R171 Q210 T211 T214 K215 G222 G269 R270
BS02	dna	D	V657 P659 R823 G824	V95 P97 R261 G262
BS03	SAH	D	F581 D582 G583 I584 T586 S604 E605 V606 D627 V628 G648 R832 S833 W834	F19 D20 G21 I22 T24 S42 E43 V44 D65 V66 G86 R270 S271 W272	BindingDB: IC50=300nM

Gene Ontology

	Molecular Function
GO:0008168	methyltransferase activity

View graph for
Molecular Function

External links

PDB	RCSB:6u8x, PDBe:6u8x, PDBj:6u8x
PDBsum	6u8x
PubMed	32620778
UniProt	Q9UBC3\|DNM3B_HUMAN DNA (cytosine-5)-methyltransferase 3B (Gene Name=DNMT3B)

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