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2ql2

Crystal Structure of the basic-helix-loop-helix domains of the heterodimer E47/NeuroD1 bound to DNA

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

Neurogenic differentiation factor 1

Mus musculus

UniProt Q60867

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein–DNA Heteromer Protein 2 DNA 2 Transcription factor E2-alpha × 1 ;DNA (5'-D(*DTP*DAP*DGP*DGP*DCP*DCP*DAP*DTP*DCP*DTP*DGP*DGP*DTP*DCP*DCP*DT)-3') ; × 1 ;DNA (5'-D(*DAP*DGP*DGP*DAP*DCP*DCP*DAP*DGP*DAP*DTP*DGP*DGP*DCP*DCP*DTP*DA)-3') ; × 1 water × 4 Consistent with all polymers
2 Protein–DNA Heteromer Protein 2 DNA 2 Transcription factor E2-alpha × 1 ;DNA (5'-D(*DTP*DAP*DGP*DGP*DCP*DCP*DAP*DTP*DCP*DTP*DGP*DGP*DTP*DCP*DCP*DT)-3') ; × 1 ;DNA (5'-D(*DAP*DGP*DGP*DAP*DCP*DCP*DAP*DGP*DAP*DTP*DGP*DGP*DCP*DCP*DTP*DA)-3') ; × 1 water × 2 Consistent with all polymers
3 Protein–DNA Heteromer Protein 4 DNA 4 Transcription factor E2-alpha × 2 ;DNA (5'-D(*DTP*DAP*DGP*DGP*DCP*DCP*DAP*DTP*DCP*DTP*DGP*DGP*DTP*DCP*DCP*DT)-3') ; × 2 ;DNA (5'-D(*DAP*DGP*DGP*DAP*DCP*DCP*DAP*DGP*DAP*DTP*DGP*DGP*DCP*DCP*DTP*DA)-3') ; × 2 water × 6 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
2ql2 2ql2 2ql2

3 assemblies

View Construct and Data Evidence
UniProt name NDF1_MOUSE
Isoform —
PDB entities 2
Chains and sequence ranges Author chain B； PDBConstruct 2–60； UniProt 102–160 Author chain D； PDBConstruct 2–60； UniProt 102–160

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_id2ql2
Deposition date deposition_date2007-07-12
Structure title titleCrystal Structure of the basic-helix-loop-helix domains of the heterodimer E47/NeuroD1 bound to DNA
Keywords keywords;basic-helix-loop-helix, protein-DNA complex, heterodimer, DNA-binding, Activator, Developmental protein, Differentiation, Neurogenesis, Nucleus, Phosphorylation, Transcription, Transcription regulation, Cytoplasm, Phosphoprotein, transcription-DNA COMPLEX ;; transcription/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.

2ql2__assembly_1__model_1

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

Download this curve (.dat)

2ql2__assembly_1__model_1 | I(q)

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

2ql2__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）18.94 Å
Rg (electron density)18.28 Å
Total Rg18.99 Å
Atom count1532
Residues147
Excluded volume25145 ų
Maximum q0.500 Å⁻¹
Assembly Model Structure unit Oligomeric description Status CRYSOL Actions
1 1 2ql2__assembly_1__model_1 tetrameric （4） Success 4.1.3-1-20251215 (887e7ef) View Download
2 1 2ql2__assembly_2__model_1 tetrameric （4） Success 4.1.3-1-20251215 (887e7ef) View Download
3 1 2ql2__assembly_3__model_1 octameric （8） 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 (5)

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6. Fold Classification (SCOP + CATH) 4 domains

CATH v4.4 (4 domains)

Domain ID domain_id2ql2A00
Class class4 — Few Secondary Structures
Architecture architecture10 — Irregular
Topology topology280 — MYOD Basic-Helix-Loop-Helix Domain, subunit B
Homologous superfamily homologous superfamily10 — Helix-loop-helix DNA-binding domain
Domain ID domain_id2ql2B00
Class class4 — Few Secondary Structures
Architecture architecture10 — Irregular
Topology topology280 — MYOD Basic-Helix-Loop-Helix Domain, subunit B
Homologous superfamily homologous superfamily10 — Helix-loop-helix DNA-binding domain
Domain ID domain_id2ql2C00
Class class4 — Few Secondary Structures
Architecture architecture10 — Irregular
Topology topology280 — MYOD Basic-Helix-Loop-Helix Domain, subunit B
Homologous superfamily homologous superfamily10 — Helix-loop-helix DNA-binding domain
Domain ID domain_id2ql2D00
Class class4 — Few Secondary Structures
Architecture architecture10 — Irregular
Topology topology280 — MYOD Basic-Helix-Loop-Helix Domain, subunit B
Homologous superfamily homologous superfamily10 — Helix-loop-helix DNA-binding domain
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7. Citations (1)