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9e0f

A focus of DNMT tetramer (1) of the cryo-EM structure of human DNMT3A2-DNMT3B3 complex bound to di-nucleosome

Method: ELECTRON MICROSCOPY
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1. Protein Identity and Related Structures Protein Identity & Related Structures

Isoform 3 of DNA (cytosine-5)-methyltransferase 3B

Homo sapiens

UniProt Q9UBC3

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein heterocomplex Heteromer Protein 4 DNA (cytosine-5)-methyltransferase 3A × 2 （Q9Y6K1） ZINC ION × 9 S-ADENOSYL-L-HOMOCYSTEINE × 2 Consistent with protein count

Other States of the Same Protein in the Database

Monomer
3flg 5nr3 5nr3 5nv7 5nv7 5nvo 5nvo 6r3e 6r3e 7o45 8zlk 8zlk

12 assemblies

Homodimer
5nrr 5nrs 5nrv 5nv0 5nv2

5 assemblies

Homotetramer
7v0e 7v0e 8eii

3 assemblies

Other homooligomers
7o45 8eih 8eij 8eik

4 assemblies

Heteromeric or nucleic-acid complex
5ciu 5ciu 6kda 6kdb 6kdl 6kdp 6kdt 6kdt 6kdt 6pa7 6u8p 6u8v

32 assemblies; showing the first 12

View Construct and Data Evidence
UniProt name DNM3B_HUMAN
Isoform Q9UBC3-3
PDB entities 1
Chains and sequence ranges Author chain V； PDBConstruct 1–773； UniProt 1–770 Author chain Z； PDBConstruct 1–773； UniProt 1–770

DNA (cytosine-5)-methyltransferase 3A

Homo sapiens

UniProt Q9Y6K1

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein heterocomplex Heteromer Protein 4 Isoform 3 of DNA (cytosine-5)-methyltransferase 3B × 2 （Q9UBC3） ZINC ION × 9 S-ADENOSYL-L-HOMOCYSTEINE × 2 Consistent with protein count

Other States of the Same Protein in the Database

Monomer
3a1a 3llr 3llr 3llr 3llr 3llr 8ba5

7 assemblies

Homodimer

None

Homotetramer
8tdr 8tdr 8te1 8te1 8te3 8te3 8te4 8te4

8 assemblies

Other homooligomers
9mpo

1 assemblies

Heteromeric or nucleic-acid complex
2qrv 2qrv 3a1b 3svm 3svm 4qbq 4qbr 4qbr 4qbs 4u7p 4u7t 5yx2

41 assemblies; showing the first 12

View Construct and Data Evidence
UniProt name DNM3A_HUMAN
Isoform —
PDB entities 2
Chains and sequence ranges Author chain U； PDBConstruct 1–689； UniProt 224–912 Author chain Y； PDBConstruct 1–689； UniProt 224–912

The page prioritizes protein identity, the current assembly, associated components, oligomeric state and cross-PDB links. Chain mapping and sequence ranges are retained as data evidence. Internal IDs, import timestamps and assembly operation expressions are maintenance fields and are not shown here.

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2. Structure Basics 2. Structure Basics

Entry ID entry_id9e0f
Deposition date deposition_date2024-10-17
Structure title titleA focus of DNMT tetramer (1) of the cryo-EM structure of human DNMT3A2-DNMT3B3 complex bound to di-nucleosome
Keywords keywordsDNMT3A2, DNMT3B3, DNA methylation, di-nucleosome, DNA BINDING PROTEIN; DNA BINDING PROTEIN
Experimental Method methodELECTRON MICROSCOPY
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3. Official assembly/model SAXS Official SAXS Profiles

This page reads only the latest assembly calculations. Every curve maps to an explicit PDB entry, official biological assembly and coordinate model.

9e0f__assembly_1__model_1

Assembly 1 · Model 1 · CRYSOL 4.1.3-1-20251215 (887e7ef)

Download this curve (.dat)

9e0f__assembly_1__model_1 | I(q)

10-2 10-1 106 107 108 q (1/Angstrom) I(q)
100 plotted points; both axes use logarithmic scales.

9e0f__assembly_1__model_1 | P(r) · Pending

The new assembly/model P(r) has not been calculated yet This placeholder does not display legacy data r (Angstrom) P(r)
P(r) will be calculated and displayed separately for the same assembly/model.
Rg（Guinier）45.59 Å
Rg (electron density)45.59 Å
Total Rg45.75 Å
Atom count12187
Residues1510
Excluded volume216810 ų
Maximum q0.500 Å⁻¹
Assembly Model Structure unit Oligomeric description Status CRYSOL Actions
1 1 9e0f__assembly_1__model_1 tetrameric （4） Success 4.1.3-1-20251215 (887e7ef) View Download
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4. Crystallography and Experiment 4. Crystallography & Experiment

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5. Entities and Polymers Entities & Polymers (4)

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7. Citations (1)