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Structure of the IL-1b signaling complex

X-ray diffraction
3.1Å resolution
PDB entry 4dep coloured by chain, front view.
PDB entry 4dep coloured by chain, side view.
PDB entry 4dep coloured by chain, top view.
Source organism: Homo sapiens
Assembly composition:
hetero trimer (preferred)
Entry contents: 3 distinct polypeptide molecules

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Assemblies

Assembly 1 (preferred)
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Multimeric state: hetero trimer
Accessible surface area: 35141.88 Å2
Buried surface area: 8396.96 Å2
Dissociation area: 3,311.57 Å2
Dissociation energy (ΔGdiss): 6.62 kcal/mol
Dissociation entropy (TΔSdiss): 26.71 kcal/mol
Symmetry number: 1
PDBe Complex ID: PDB-CPX-134411
Assembly 2
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Multimeric state: hetero trimer
Accessible surface area: 34987.61 Å2
Buried surface area: 9176.14 Å2
Dissociation area: 3,742.45 Å2
Dissociation energy (ΔGdiss): 9.68 kcal/mol
Dissociation entropy (TΔSdiss): 27.04 kcal/mol
Symmetry number: 1
PDBe Complex ID: PDB-CPX-134411

Macromolecules

Interleukin-1 beta
Chains: A, D
Length: 158 amino acids
Theoretical weight: 17.81 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: P01584 (Residues: 117-269; Coverage: 57%)
Gene names: IL1B, IL1F2
Pfam: Interleukin-1 / 18
InterPro:
CATH: Trefoil (Acidic Fibroblast Growth Factor, subunit A)
Interleukin-1 beta in PDB entry 4dep, assembly 1, front view.
Interleukin-1 beta in PDB entry 4dep, assembly 1, side view.
Interleukin-1 beta in PDB entry 4dep, assembly 1, top view.
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Interleukin-1 receptor type 1, soluble form
Chains: B, E
Length: 321 amino acids
Theoretical weight: 36.97 KDa
Source organism: Homo sapiens
Expression system: Homo sapiens
UniProt:
  • Canonical: P14778 (Residues: 18-336; Coverage: 58%)
Gene names: IL1R, IL1R1, IL1RA, IL1RT1
Pfam:
InterPro:
CATH: Immunoglobulins
Interleukin-1 receptor type 1, soluble form in PDB entry 4dep, assembly 1, front view.
Interleukin-1 receptor type 1, soluble form in PDB entry 4dep, assembly 1, side view.
Interleukin-1 receptor type 1, soluble form in PDB entry 4dep, assembly 1, top view.
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Interleukin-1 receptor accessory protein
Chains: C, F
Length: 349 amino acids
Theoretical weight: 40.11 KDa
Source organism: Homo sapiens
Expression system: Homo sapiens
UniProt:
  • Canonical: Q9NPH3 (Residues: 21-367; Coverage: 63%)
Gene names: C3orf13, IL1R3, IL1RAP
Pfam: Immunoglobulin domain
InterPro:
CATH: Immunoglobulins
Interleukin-1 receptor accessory protein in PDB entry 4dep, assembly 1, front view.
Interleukin-1 receptor accessory protein in PDB entry 4dep, assembly 1, side view.
Interleukin-1 receptor accessory protein in PDB entry 4dep, assembly 1, top view.
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