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1le9

Crystal structure of a NF-kB heterodimer bound to the Ig/HIV-kB siti

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

NUCLEAR FACTOR NF-KAPPA-B P65 SUBUNIT

Mus musculus

UniProt Q04207

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 5'-D(*TP*GP*GP*GP*AP*CP*TP*TP*TP*CP*CP*T)-3' × 1 5'-D(*AP*AP*GP*GP*AP*AP*AP*GP*TP*CP*CP*C)-3' × 1 NUCLEAR FACTOR NF-KAPPA-B P50 SUBUNIT × 1 （P25799） Consistent with all polymers
2 Protein–DNA Heteromer Protein 2 DNA 2 5'-D(*TP*GP*GP*GP*AP*CP*TP*TP*TP*CP*CP*T)-3' × 1 5'-D(*AP*AP*GP*GP*AP*AP*AP*GP*TP*CP*CP*C)-3' × 1 NUCLEAR FACTOR NF-KAPPA-B P50 SUBUNIT × 1 （P25799） Consistent with all polymers

Other States of the Same Protein in the Database

Monomer

None

Homodimer
1bft 1my5 1my7

3 assemblies

Homotetramer

None

Other homooligomers

None

Heteromeric or nucleic-acid complex
1ikn 1k3z 1le5 1le5 1le9 1le9 1lei 1oy3 1ram 1vkx 2i9t 2ram

23 assemblies; showing the first 12

View Construct and Data Evidence
UniProt name TF65_MOUSE
Isoform —
PDB entities 3
Chains and sequence ranges Author chain A； PDBConstruct 3–274； UniProt 20–291 Author chain E； PDBConstruct 3–274； UniProt 20–291

NUCLEAR FACTOR NF-KAPPA-B P50 SUBUNIT

Mus musculus

UniProt P25799

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 5'-D(*TP*GP*GP*GP*AP*CP*TP*TP*TP*CP*CP*T)-3' × 1 5'-D(*AP*AP*GP*GP*AP*AP*AP*GP*TP*CP*CP*C)-3' × 1 NUCLEAR FACTOR NF-KAPPA-B P65 SUBUNIT × 1 （Q04207） Consistent with all polymers
2 Protein–DNA Heteromer Protein 2 DNA 2 5'-D(*TP*GP*GP*GP*AP*CP*TP*TP*TP*CP*CP*T)-3' × 1 5'-D(*AP*AP*GP*GP*AP*AP*AP*GP*TP*CP*CP*C)-3' × 1 NUCLEAR FACTOR NF-KAPPA-B P65 SUBUNIT × 1 （Q04207） Consistent with all polymers

Other States of the Same Protein in the Database

Monomer

None

Homodimer
1bfs 1u36 1u3j 1u3y 1u3z 1u41 1u41 1u42

8 assemblies

Homotetramer

None

Other homooligomers

None

Heteromeric or nucleic-acid complex
1ikn 1le5 1le5 1le9 1le9 1lei 1nfk 1ooa 1ooa 1vkx 2i9t 2v2t

19 assemblies; showing the first 12

View Construct and Data Evidence
UniProt name NFKB1_MOUSE
Isoform —
PDB entities 4
Chains and sequence ranges Author chain B； PDBConstruct 2–313； UniProt 39–350 Author chain F； PDBConstruct 2–313； UniProt 39–350

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_id1le9
Deposition date deposition_date2002-04-09
Structure title titleCrystal structure of a NF-kB heterodimer bound to the Ig/HIV-kB siti
Keywords keywordstranscription factor, NF-kB-DNA complex, 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.

1le9__assembly_1__model_1

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

Download this curve (.dat)

1le9__assembly_1__model_1 | I(q)

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

1le9__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）30.67 Å
Rg (electron density)31.15 Å
Total Rg31.44 Å
Atom count5116
Residues609
Excluded volume89091 ų
Maximum q0.500 Å⁻¹
Assembly Model Structure unit Oligomeric description Status CRYSOL Actions
1 1 1le9__assembly_1__model_1 tetrameric （4） Success 4.1.3-1-20251215 (887e7ef) View Download
2 1 1le9__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) 18 domains

SCOP 2.08 (10 domains)

Domain ID domain_idd1le9a1
Class classb — All beta proteins
Fold Fold foldb.1 — Immunoglobulin-like beta-sandwich
Superfamily Superfamily superfamilyb.1.18 — E set domains
Family Family familyb.1.18.1 — NF-kappa-B/REL/DORSAL transcription factors, C-terminal domain
Domain ID domain_idd1le9a2
Class classb — All beta proteins
Fold Fold foldb.2 — Common fold of diphtheria toxin/transcription factors/cytochrome f
Superfamily Superfamily superfamilyb.2.5 — p53-like transcription factors
Family Family familyb.2.5.3 — Rel/Dorsal transcription factors, DNA-binding domain
Domain ID domain_idd1le9a3
Class classl — Artifacts
Fold Fold foldl.1 — Tags
Superfamily Superfamily superfamilyl.1.1 — Tags
Family Family familyl.1.1.1 — Tags
Domain ID domain_idd1le9b1
Class classb — All beta proteins
Fold Fold foldb.1 — Immunoglobulin-like beta-sandwich
Superfamily Superfamily superfamilyb.1.18 — E set domains
Family Family familyb.1.18.1 — NF-kappa-B/REL/DORSAL transcription factors, C-terminal domain
Domain ID domain_idd1le9b2
Class classb — All beta proteins
Fold Fold foldb.2 — Common fold of diphtheria toxin/transcription factors/cytochrome f
Superfamily Superfamily superfamilyb.2.5 — p53-like transcription factors
Family Family familyb.2.5.3 — Rel/Dorsal transcription factors, DNA-binding domain
Domain ID domain_idd1le9e1
Class classb — All beta proteins
Fold Fold foldb.1 — Immunoglobulin-like beta-sandwich
Superfamily Superfamily superfamilyb.1.18 — E set domains
Family Family familyb.1.18.1 — NF-kappa-B/REL/DORSAL transcription factors, C-terminal domain
Domain ID domain_idd1le9e2
Class classb — All beta proteins
Fold Fold foldb.2 — Common fold of diphtheria toxin/transcription factors/cytochrome f
Superfamily Superfamily superfamilyb.2.5 — p53-like transcription factors
Family Family familyb.2.5.3 — Rel/Dorsal transcription factors, DNA-binding domain
Domain ID domain_idd1le9e3
Class classl — Artifacts
Fold Fold foldl.1 — Tags
Superfamily Superfamily superfamilyl.1.1 — Tags
Family Family familyl.1.1.1 — Tags
Domain ID domain_idd1le9f1
Class classb — All beta proteins
Fold Fold foldb.1 — Immunoglobulin-like beta-sandwich
Superfamily Superfamily superfamilyb.1.18 — E set domains
Family Family familyb.1.18.1 — NF-kappa-B/REL/DORSAL transcription factors, C-terminal domain
Domain ID domain_idd1le9f2
Class classb — All beta proteins
Fold Fold foldb.2 — Common fold of diphtheria toxin/transcription factors/cytochrome f
Superfamily Superfamily superfamilyb.2.5 — p53-like transcription factors
Family Family familyb.2.5.3 — Rel/Dorsal transcription factors, DNA-binding domain

CATH v4.4 (8 domains)

Domain ID domain_id1le9A01
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology40 — Immunoglobulin-like
Homologous superfamily homologous superfamily340 — Rel homology domain (RHD), DNA-binding domain
Domain ID domain_id1le9A02
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology40 — Immunoglobulin-like
Homologous superfamily homologous superfamily10 — Immunoglobulins
Domain ID domain_id1le9B01
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology40 — Immunoglobulin-like
Homologous superfamily homologous superfamily340 — Rel homology domain (RHD), DNA-binding domain
Domain ID domain_id1le9B02
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology40 — Immunoglobulin-like
Homologous superfamily homologous superfamily10 — Immunoglobulins
Domain ID domain_id1le9E01
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology40 — Immunoglobulin-like
Homologous superfamily homologous superfamily340 — Rel homology domain (RHD), DNA-binding domain
Domain ID domain_id1le9E02
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology40 — Immunoglobulin-like
Homologous superfamily homologous superfamily10 — Immunoglobulins
Domain ID domain_id1le9F01
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology40 — Immunoglobulin-like
Homologous superfamily homologous superfamily340 — Rel homology domain (RHD), DNA-binding domain
Domain ID domain_id1le9F02
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology40 — Immunoglobulin-like
Homologous superfamily homologous superfamily10 — Immunoglobulins
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7. Citations (1)