TCDB is operated by the Saier Lab Bioinformatics Group
TCIDNameDomainKingdom/PhylumProtein(s)
1.C.123.1.1









Pore-forming Gasdermin D (Gasdermin-A3, GSDMD, DFNA5L, GSDMDC1, FKSG10) of 484 aas (Ding et al. 2016). GSDMD is activated by inflammasome-activated caspases-1/-4/-5/-11 as well as a caspase-8-mediated pathway during Yersinia infection. These caspases cleave GSDMD to release its functional N-terminal fragment (GSDMD-NT) from its auto-inhibitory C-terminal fragment (GSDMD-CT). GSDMD-NTs bind to acid lipids in mammalian cell membranes and bacterial membranes, oligomerize, and insert into the membranes to form large transmembrane pores. Consequently, cellular contents including inflammatory cytokines are released (e.g., IL-1β), and cells can undergo pyroptosis, a highly inflammatory form of cell death (Xia et al. 2019; Muendlein et al. 2020). As organelles of the innate immune system, inflammasomes activate caspase-1 and other inflammatory caspases that cleave gasdermin D. Caspase-1 also cleaves inactive precursors of the interleukin (IL)-1 family to generate mature cytokines such as IL-1beta and IL-18. Cleaved GSDMD forms transmembrane pores to enable the release of IL-1 and to drive cell lysis through pyroptosis. Cryo-EM structures of the pore and the prepore reveal the different conformations of the two states, as well as membrane-binding elements including a hydrophobic anchor and three positively charged patches. The pore conduit is predominantly negatively charged, but IL-1 precursors have an acidic domain that is proteolytically removed by caspase-1. When permeabilized, unlysed liposomes release positively charged and neutral cargoes faster than negatively charged cargoes of similar sizes, and the pores favor the passage of IL-1beta and IL-18 over that of their precursors (Xia et al. 2021). Gasdermin-A3 oligomers assemble on the membrane surface where they remain attached and mobile. Once inserted into the membrane it grows variable oligomeric stoichiometries and shapes, each able to open transmembrane pores. Molecular dynamics simulations resolved how the membrane-inserted amphiphilic beta-hairpins and the structurally adapting hydrophilic head domains stabilize variable oligomeric conformations and open the pore. Without a vertical collapse, gasdermin pore formation propagates along a set of multiple parallel but connected reaction pathways to ensure a robust cellular response (Mari et al. 2022). Gasdermin D (GSDMD) is the common effector for cytokine secretion and pyroptosis downstream of inflammasome activation by forming large transmembrane pores upon cleavage by inflammatory caspases. Du et al. 2023 reported that GSDMD cleavage is not sufficient for its pore formation; GSDMD must be lipidated by S-palmitoylation at Cys191 upon inflammasome activation, and only palmitoylated GSDMD N-terminal domain (GSDMD-NT) is capable of membrane translocation and pore formation. Thus, GSDMD palmitoylation is induced by ROS and required for pore formation (Du et al. 2023).

Eukaryota
Metazoa, Chordata
Gasdermin D or A3 of Homo sapiens
1.C.123.1.2









Gasdermin A of 445 aas.  Gasdermins A and B may be involved in asthma (Zihlif et al. 2016). Induction in the epidermis leads to skin inflammation (Lin et al. 2015). Roles of multiple charged residues in membrane insertion of gasdermin-A3 have been identified (Korn and Pluhackova 2022).

Eukaryota
Metazoa, Chordata
Gasdermin A of Homo sapiens
1.C.123.1.3









Gasdermin B of 411 aas.  Promotes invasioin and metastasis in breast cancer (Hergueta-Redondo et al. 2014).

Eukaryota
Metazoa, Chordata
Gaseremin B of Homo sapiens
1.C.123.1.4









Gasdermin C of 508 aas.  The N-terminal moiety promotes pyroptosis. It may be acting by homooligomerizing within the membrane and forming pores (Ding et al. 2016). Pyroptosis and its role in central nervous system diseases have been reviewed (Hu et al. 2021).

 

Eukaryota
Metazoa, Chordata
Gasdermin C of Homo sapiens
1.C.123.1.5









Non-syndromic hearing impairment protein 5, DFNA5, (Gasdermin E precursor; GSDME, ICERE1) of 496 aas.  After cleavage by CASP3, it moves to the plasma membrane, homooligomerizes within the membrane and forms pores of 10-15 nanometers (nm) of inner diameter, triggering pyroptosis (Wang et al. 2017, Zhang et al. 2020). It plays a role in hearing loss and the TP53-regulated cellular response to DNA damage, probably by cooperating with TP53 (Masuda et al. 2006; Kim et al. 2008; Op de Beeck et al. 2011). The N-terminal moiety promotes pyroptosis (inflamatory cell death) and exhibits bactericidal activity (Ding et al. 2016).

Eukaryota
Metazoa, Chordata
DFNA5 of Homo sapiens
1.C.123.1.6









DNFB59 protein of 361 aas.

Eukaryota
Metazoa, Chordata
DNFB59 protein of Danio rerio (Zebrafish) (Brachydanio rerio)
1.C.123.1.7









Pejvakin (DFNB59; PJVK) of 357 aas. It is a constituent of the afferent auditory pathway, causing DFNB59 auditory neuropathy (Delmaghani et al. 2006), autosomal recessive nosyndromic hearing impairment (Collin et al. 2007). It is also called the diaphanous homologue 3 (DIAPH3).

Eukaryota
Metazoa, Chordata
Pejvakin of Homo sapiens
1.C.123.1.8









Gasdermin family protein of 252 aas and 1 or 2 central TMSs. The 3-D structure is known (7N52_A-D). Bacterial gasdermins are activated by caspase-like proteases, oligomerize into large membrane pores, and defend against pathogenic bacteriophage (Johnson et al. 2022). They mediate an ancient mechanism of prokaryotic cell death (Johnson et al. 2022).

Bacteria
Pseudomonadota
Gasdermin protein of Salmonella enterica subsp. enterica serovar Typhi (Salmonella typhi)
1.C.123.1.9









Gasdermin Eb of 472 aas and 1 or 2 TMSs.

Eukaryota
Metazoa, Chordata
Gasdermin Eb of Danio rerio (zebrafish)
1.C.123.1.10









Pajvakin (Gasdermin homologue) of 247 aas with 8 or 9 short peaks of hydrophobicity.

Eukaryota
Metazoa, Cnidaria
Pejvakin (Gasdermin homolog) of Exaiptasia diaphana
1.C.123.1.11









Uncharacterized protein of 472 aas

Eukaryota
Metazoa, Cnidaria
UP of Nematostella vectensis (starlet sea anemone)
1.C.123.2.1









Uncharacterized protein of 285 aas with one TMS between residues 70 and 90.

Eukaryota
Fungi, Ascomycota
UP of Fusarium solani-melongenae
1.C.123.2.2









Uncharacterized protein of 336 aas and 1 TMS between residues 70 and 90.

Eukaryota
Fungi, Ascomycota
UP of Lasiodiplodia theobromae
1.C.123.2.3









Uncharacterized protein of 267 aas and probably 0 TMSs.

Eukaryota
Fungi, Ascomycota
UP of Trichoderma atroviride
1.C.123.2.4









Uncharacterized protein of 261 aas and possibly 4 TMSs, one N-terminal, one at residue 70, one at residue 130, and one at residue 170.

Eukaryota
Fungi, Ascomycota
UP of Acephala macrosclerotiorum
1.C.123.3.1









Uncharacterized protein of 323 aas and 4 regions of hydrophobicity that might be TMSs.

Eukaryota
Viridiplantae, Streptophyta
UP of Ceratodon purpureus
1.C.123.3.2









Uncharacterized protein of 319 aas and 1 N-terminal TMS.

Eukaryota
Viridiplantae, Streptophyta
UP of Sphagnum fallax
1.C.123.3.3









Uncharacterized protein of 314 aas and an N-terminal TMS plus several possible TMSs.

Eukaryota
Viridiplantae, Streptophyta
UP of Ceratodon purpureus