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3mu6

Inhibiting the Binding of Class IIa Histone Deacetylases to Myocyte Enhancer Factor-2 by Small Molecules

Method: X-RAY DIFFRACTION
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1. Protein Identity and Related Structures Protein Identity & Related Structures

Myocyte-specific enhancer factor 2A

Homo sapiens

UniProt Q02078

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein–DNA Homooligomer Protein 2 DNA 2 ;DNA (5'-D(*AP*AP*AP*GP*CP*TP*AP*TP*TP*AP*TP*TP*AP*GP*CP*TP*T)-3') ; × 1 ;DNA (5'-D(*TP*AP*AP*GP*CP*TP*AP*AP*TP*AP*AP*TP*AP*GP*CP*TP*T)-3') ; × 1 (3E)-N~8~-(2-aminophenyl)-N~1~-phenyloct-3-enediamide × 1 Consistent with all polymers
2 Protein–DNA Homooligomer Protein 2 DNA 2 ;DNA (5'-D(*AP*AP*AP*GP*CP*TP*AP*TP*TP*AP*TP*TP*AP*GP*CP*TP*T)-3') ; × 1 ;DNA (5'-D(*TP*AP*AP*GP*CP*TP*AP*AP*TP*AP*AP*TP*AP*GP*CP*TP*T)-3') ; × 1 Consistent with all polymers

Other States of the Same Protein in the Database

Monomer

None

Homodimer

None

Homotetramer

None

Other homooligomers

None

Heteromeric or nucleic-acid complex
1c7u 1egw 1egw 1lew 3kov 3kov 3mu6 3mu6 3p57 6byy 6byy 6bz1

16 assemblies; showing the first 12

View Construct and Data Evidence
UniProt name MEF2A_HUMAN
Isoform —
PDB entities 1
Chains and sequence ranges Author chain A； PDBConstruct 1–71； UniProt 2–72 Author chain B； PDBConstruct 1–71； UniProt 2–72 Author chain C； PDBConstruct 1–71； UniProt 2–72 Author chain D； PDBConstruct 1–71； UniProt 2–72

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_id3mu6
Deposition date deposition_date2010-05-01
Structure title titleInhibiting the Binding of Class IIa Histone Deacetylases to Myocyte Enhancer Factor-2 by Small Molecules
Keywords keywordsMADS-box/MEF2 domain, transcription co-factors, protein-DNA complex, protein-protein docking, DNA BINDING PROTEIN-DNA complex; DNA BINDING PROTEIN/DNA
Experimental Method methodX-RAY DIFFRACTION
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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.

3mu6__assembly_2__model_1

Assembly 2 · Model 1 · CRYSOL 4.1.3-1-20251215 (887e7ef)

Download this curve (.dat)

3mu6__assembly_2__model_1 | I(q)

10-2 10-1 105 106 107 q (1/Angstrom) I(q)
100 plotted points; both axes use logarithmic scales.

3mu6__assembly_2__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）20.00 Å
Rg (electron density)18.97 Å
Total Rg19.76 Å
Atom count1863
Residues176
Excluded volume31529 ų
Maximum q0.500 Å⁻¹
Assembly Model Structure unit Oligomeric description Status CRYSOL Actions
1 1 3mu6__assembly_1__model_1 tetrameric （4） Success 4.1.3-1-20251215 (887e7ef) View Download
2 1 3mu6__assembly_2__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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6. Fold Classification (SCOP + CATH) 8 domains

SCOP 2.08 (4 domains)

Domain ID domain_idd3mu6a_
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.88 — SRF-like
Superfamily Superfamily superfamilyd.88.1 — SRF-like
Family Family familyd.88.1.1 — SRF-like
Domain ID domain_idd3mu6b_
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.88 — SRF-like
Superfamily Superfamily superfamilyd.88.1 — SRF-like
Family Family familyd.88.1.1 — SRF-like
Domain ID domain_idd3mu6c_
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.88 — SRF-like
Superfamily Superfamily superfamilyd.88.1 — SRF-like
Family Family familyd.88.1.1 — SRF-like
Domain ID domain_idd3mu6d_
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.88 — SRF-like
Superfamily Superfamily superfamilyd.88.1 — SRF-like
Family Family familyd.88.1.1 — SRF-like

CATH v4.4 (4 domains)

Domain ID domain_id3mu6A01
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology1810 — SRF-like
Homologous superfamily homologous superfamily10 — Transcription factor, MADS-box
Domain ID domain_id3mu6B01
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology1810 — SRF-like
Homologous superfamily homologous superfamily10 — Transcription factor, MADS-box
Domain ID domain_id3mu6C01
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology1810 — SRF-like
Homologous superfamily homologous superfamily10 — Transcription factor, MADS-box
Domain ID domain_id3mu6D01
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology1810 — SRF-like
Homologous superfamily homologous superfamily10 — Transcription factor, MADS-box
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7. Citations (1)