› 6kmz

X-ray diffraction
3.61Å resolution

caspase-4 P22/P10 C258A in complex with human GSDMD-C domain

Released:
DOI: 10.2210/pdb6kmz/pdb
PDB entry 6kmz coloured by chain, front view.
PDB entry 6kmz coloured by chain, side view.
PDB entry 6kmz coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Structural Mechanism for GSDMD Targeting by Autoprocessed Caspases in Pyroptosis.
Wang K, Sun Q, Zhong X, Zeng M, Zeng H, Shi X, Li Z, Wang Y, Zhao Q, Shao F, Ding J
Cell 180 941-955.e20 (2020)
PMID: 32109412

Function and Biology Details

Reaction catalysed: 
Strict requirement for Asp at the P1 position. It has a preferred cleavage sequence of Tyr-Val-Ala-Asp-|- but also cleaves at Asp-Glu-Val-Asp-|-
Biochemical function:
Biological process:
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
hetero pentamer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-219383 (preferred)
Entry contents:
4 distinct polypeptide molecules
Macromolecules (4 distinct):
Caspase-4 subunit p20 Chains: A, B, C, D
Molecule details ›
Chains: A, B, C, D
Length: 185 amino acids
Theoretical weight: 20.99 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P49662 (Residues: 105-289; Coverage: 49%)
Gene names: CASP4, ICH2
Sequence domains: Caspase domain
Gasdermin-D, C-terminal Chain: E
Molecule details ›
Chain: E
Length: 194 amino acids
Theoretical weight: 20.76 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P57764 (Residues: 287-480; Coverage: 40%)
Gene names: DFNA5L, FKSG10, GSDMD, GSDMDC1
Sequence domains: Gasdermin PUB domain
Gasdermin-D, C-terminal Chain: H
Molecule details ›
Chain: H
Length: 195 amino acids
Theoretical weight: 20.87 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P57764 (Residues: 286-480; Coverage: 40%)
Gene names: DFNA5L, FKSG10, GSDMD, GSDMDC1
Sequence domains: Gasdermin PUB domain
Caspase-4 subunit p10 Chains: a, b, c, d
Molecule details ›
Chains: a, b, c, d
Length: 88 amino acids
Theoretical weight: 10.42 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P49662 (Residues: 290-377; Coverage: 23%)
Gene names: CASP4, ICH2
Sequence domains: Caspase domain

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: NFPSS BEAMLINE BL19U1
Spacegroup: P4322
Unit cell:
a: 140.568Å b: 140.568Å c: 329.355Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.312 0.311 0.319
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

88 review citations

Necroptosis, pyroptosis and apoptosis: an intricate game of cell death.
Bertheloot et al. (2021)
87 more