ISDA: 9E09

Deposition Date 2024-10-17

Release Date 2026-02-18

Last Version Date 2026-02-18

Entry Detail

PDB ID:

9E09

Keywords:

DNA BINDING PROTEIN

Title:

Cryo-EM structure a single nucleosome (2) focus of human DNMT3A2-DNMT3B3 complex bound to di-nucleosome

Biological Source:

Source Organism(s):

Homo sapiens (Taxon ID: 9606)

Expression System(s):

Escherichia coli, Spodoptera

Method Details:

Experimental Method:

ELECTRON MICROSCOPY

Resolution:

3.72 Å

Aggregation State:

PARTICLE

Reconstruction Method:

SINGLE PARTICLE

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Macromolecular Entities

Polymer Type:polydeoxyribonucleotide
Molecule:DNA (156-MER)
Chain IDs:I
Chain Length:156
Number of Molecules:1
Biological Source:Homo sapiens

Polymer Type:polydeoxyribonucleotide
Molecule:DNA (156-MER)
Chain IDs:J
Chain Length:156
Number of Molecules:1
Biological Source:Homo sapiens

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Histone H3.2
Gene (Uniprot):H3C15, H3C14, H3C13
Chain IDs:A (auth: M), E (auth: Q)
Chain Length:135
Number of Molecules:2
Biological Source:Homo sapiens

UniProt ID:Q71DI3 Pfam ID:PF00125

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Histone H4
Gene (Uniprot):H4C1, H4C2, H4C3, H4C4, H4C5, H4C6, H4C8, H4C9, H4C11, H4C12, H4C13, H4C14, H4C15, H4C16
Chain IDs:B (auth: N), F (auth: R)
Chain Length:103
Number of Molecules:2
Biological Source:Homo sapiens

UniProt ID:P62805 Pfam ID:PF15511

Polymer Type:polypeptide(L)
Molecule:Histone H2A
Chain IDs:C (auth: O), G (auth: S)
Chain Length:129
Number of Molecules:2
Biological Source:Homo sapiens

Polymer Type:polypeptide(L)
Molecule:Histone H2B
Chain IDs:D (auth: P), H (auth: T)
Chain Length:123
Number of Molecules:2
Biological Source:Homo sapiens

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:DNA (cytosine-5)-methyltransf
Gene (Uniprot):DNMT3B
Chain IDs:L (auth: V)
Chain Length:11
Number of Molecules:1
Biological Source:Homo sapiens

UniProt ID:Q9UBC3 EC:2.1.1.37

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:DNA (cytosine-5)-methyltransf
Gene (Uniprot):DNMT3B
Chain IDs:K (auth: X)
Chain Length:12
Number of Molecules:1
Biological Source:Homo sapiens

UniProt ID:Q9UBC3 EC:2.1.1.37

Ligand Molecules

Primary Citation

The structure basis for de novo DNA methylation in chromatin

Xie, X, Liu, M, Zhou, X.E, Worden, E.J, Jones, P.A.Show

To Be Published ? ? ? (?)

Primary Citation of related structures

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