SII-SWORD/CoKE huggingface dataset:
Pfam PF13665: Toxin PAAR-like domain (domain)
This domain is found at the N-terminal of bacterial toxin systems, including Tse7 (type IV secretion exported 7) from Pseudomonas aeruginosa, a type VI secretion exported toxin with DNase activity that induces growth arrest and ultimately DNA degradation within target cell. The structure of this domain has a PAAR-like organisation necessary for interaction with T6SS VgrG tip and correct toxin delivery.
Pfam PF03879: Cgr1 family (coiled_coil)
Members of this family are coiled-coil proteins that are involved in pre-rRNA processing.
Pfam PF01905: CRISPR-associated negative auto-regulator DevR/Csa2 (family)
This group of families is one of several protein families that are always found associated with prokaryotic CRISPRs, themselves a family of clustered regularly interspaced short palindromic repeats, DNA repeats found in nearly half of all bacterial and archaeal genomes. These DNA repeat regions have a remarkably regular structure: unique sequences of constant size, called spacers, sit between each pair of repeats. It has been shown that the CRISPRs are virus-derived sequences acquired by the host to enable them to resist viral infection. The Cas proteins from the host use the CRISPRs to mediate an antiviral response. After transcription of the CRISPR, a complex of Cas proteins termed Cascade cleaves a CRISPR RNA precursor in each repeat and retains the cleavage products containing the virus-derived sequence. Assisted by the helicase Cas3, these mature CRISPR RNAs then serve as small guide RNAs that enable Cascade to interfere with virus proliferation. Cas5 contains an endonuclease motif, whose inactivation leads to loss of resistance, even in the presence of phage-derived spacers. This family used to be known as DUF73. DevR appears to be negative auto-regulator within the system.
Pfam PF05886: Orthopoxvirus F8 protein (family)
This family consists of several Orthopoxvirus F8 proteins. The function of this family is unknown.
Pfam PF13939: Toxin TisB, type I toxin-antitoxin system (family)
TisB (toxicity-induced by SOS B) is an SOS-induced toxic peptide. It is a hydrophobic membrane-spanning protein which inhibits cell growth. Its expression is inhibited by the antisense RNA IstR-1, which acts as an antitoxin.
Wikipedia: The TisB-IstR toxin-antitoxin system is the first known toxin-antitoxin system which is induced by the SOS response in response to DNA damage.
Pfam PF04086: Signal recognition particle, alpha subunit, N-terminal (family)
SRP is a complex of six distinct polypeptides and a 7S  RNA that is essential for transferring nascent polypeptide  chains that are destined for export from the cell to the  translocation apparatus of the endoplasmic reticulum (ER)  membrane. SRP binds hydrophobic signal sequences as  they emerge from the ribosome, and arrests translation.
Pfam PF13952: Domain of unknown function (DUF4216) (domain)
This DUF is sometimes found at the C-terminal end of proteins carrying a Transposase_21 domain, [pfam:PF02992].
Wikipedia: A domain of unknown function (DUF) is a protein domain that has no characterised function. These families have been collected together in the Pfam database using the prefix DUF followed by a number, with examples being DUF2992 and DUF1220. As of 2019, there are almost 4,000 DUF families within the Pfam database representing over 22% of known families. Some DUFs are not named using the nomenclature due to popular usage but are nevertheless DUFs.
Pfam PF24778: CFAP74 third Ig-like domain (domain)
This entry represents the third Ig-like domain of CFAP74, a protein that is part of the central apparatus of the cilium axoneme and may play a role in cilium movement. It may play an important role in sperm architecture and function.
Pfam PF13244: MBH, subunit D (domain)
Hydrogen gas-evolving membrane-bound hydrogenase (MBH) is a respiratory complex homologous to the quinone-reducing Complex I. Like Complex I, MBH has peripheral and membrane arms. MBH is made of 14 subunits (MbhA-N). MbhJ, K, L, N and M form the Membrane-anchored hydrogenase module. MbhJ, K, L, N are predicted to  be exposed to the cytoplasm and form the peripheral arm. The remaining 10 subunits are predicted to be integral membrane proteins forming the membrane arm, made of 44 transmembrane helices  (TMH). MbhA, B, C and F form the Sodium translocation module. MbhD, E, G and H form the Proton translocation module. MbhI is the linker between the hydrogenase module and the proton-translocating membrane module. It anchors the discontinuous TMH7 of MbhH via its middle lateral helix and the C-terminal  of TMH2, found in MbhE. MbhD and MbhE together are equivalent to Nqo10 of Complex I. MbhD has three TM helices.
Pfam PF18367: Rv2175c C-terminal domain of unknown function (domain)
This is the C-terminal domain of unknown function found in actinomycetes such as M. tuberculosis Rv2175c. Rv2175c has a DNA binding activity and possesses a winged helix-turn-helix fold, furthermore it is identified as a substrate of the PknL kinase.
Pfam PF06643: Protein of unknown function (DUF1158) (family)
This family consists of several enterobacterial YbdJ proteins. The function of this family is unknown
Wikipedia: A domain of unknown function (DUF) is a protein domain that has no characterised function. These families have been collected together in the Pfam database using the prefix DUF followed by a number, with examples being DUF2992 and DUF1220. As of 2019, there are almost 4,000 DUF families within the Pfam database representing over 22% of known families. Some DUFs are not named using the nomenclature due to popular usage but are nevertheless DUFs.
Pfam PF19720: Family of unknown function (DUF6214) (family)
This entry represents a member of a biosynthetic gene cluster (BGC). This BGC (BGC0001782) is described by MIBiG as an example of the following biosynthetic class, other (unspecified). It includes a  member from the spiroindimicin A biosynthetic gene cluster from  Streptomyces sp. SCSIO 03032. This family appears to be  predominantly found in Actinobacteria.
Wikipedia: A domain of unknown function (DUF) is a protein domain that has no characterised function. These families have been collected together in the Pfam database using the prefix DUF followed by a number, with examples being DUF2992 and DUF1220. As of 2019, there are almost 4,000 DUF families within the Pfam database representing over 22% of known families. Some DUFs are not named using the nomenclature due to popular usage but are nevertheless DUFs.
Pfam PF14434: Immunity protein Imm6 (family)
A predicted immunity protein, with an alpha+beta fold (mostly alpha  helices). The protein is present in polymorphic toxin systems as an  immediate gene neighbor of the toxin gene.
Pfam PF19217: Coronavirus replicase NSP4, N-terminal (family)
This is the N-terminal domain of the coronavirus nonstructural protein 4 (NSP4). NSP4 is encoded by ORF1a/1ab and proteolytically released from the pp1a/1ab polyprotein. NSP4 is a membrane-spanning protein which is thought to anchor the viral replication-transcription complex to modified endoplasmic reticulum membranes. This N-terminal region represents the membrane spanning region, covering four transmembrane regions.
Pfam PF22775: GA-like domain (domain)
This entry represents a small domain found in bacterial cell surface proteins. It adopts a three helical bundle structure and is often found in several tandem copies. This domain was identified in potential periscope proteins.
Pfam PF16838: Caudoviral major tail protein N-terminus (domain)
This is the N-terminal domain of the major tail protein, or knob protein, from Caudovirales.
Pfam PF12968: Domain of Unknown Function (DUF3856) (repeat)
TPR-like protein. The 2hr2 structure belongs to the SCOP all alpha class, TPR-like superfamily, CT2138-like family. A DALI search gives hits with the putative peptidyl-prolyl isomerase 2fbn (Z=16), the SGTA protein (Z=16), the PLCR protein 2qfc (Z=16), a putative FK506-binding protein (PDB:1qz2-A; DALI Z-score 15.3; RMSD 2.9; 16% sequence identity within 132 superimposed residues), and with the tetratricopeptide repeats of the protein phosphatase 5 (PDB:2bug; DALI Z-score 15.1; RMSD 2.5; 19% sequence identity within 117 superimposed residues).
Wikipedia: A domain of unknown function (DUF) is a protein domain that has no characterised function. These families have been collected together in the Pfam database using the prefix DUF followed by a number, with examples being DUF2992 and DUF1220. As of 2019, there are almost 4,000 DUF families within the Pfam database representing over 22% of known families. Some DUFs are not named using the nomenclature due to popular usage but are nevertheless DUFs.
Pfam PF06436: Pneumovirus matrix protein 2 (M2) (family)
This family consists of several Pneumovirus matrix glycoprotein M2 sequences. This family functions as a transcription processivity factor that is essential for virus replication.
Pfam PF12403: Paired-box protein 2 C terminal (family)
This domain family is found in eukaryotes, and is approximately 110 amino acids in length. The family is found in association with [pfam:PF00292]. This family is the C terminal of the paired-box protein 2 which is a transcription factor involved in embryonic development and organogenesis.
Pfam PF22720: Short NACHT-associated C-Terminal domain, family 14 (domain)
The SNaCT domains are a rapidly evolving, monophyletic assemblage of domains found C-terminal to the NACHT module in several bacterial NACHT conflict systems. They contain a well-conserved aspartate near the N-terminus of the domain. SNaCT domains are thought to occlude the NTP-binding region, potentially until they interact with phage-encoded bNACHT inhibitors.
Pfam PF14997: CECR6/TMEM121 family (family)
This family includes Cat eye syndrome critical region protein 6, a protein which has been identified in a screen for candidate genes for the developmental disorder Cat Eye Syndrome (CES). It also includes the TMEM121 transmembrane proteins. The function of this family is unknown.
Pfam PF23417: STING transmembrane domain (domain)
Transmembrane protein 173, also known as stimulator of interferon genes protein (STING), is a transmembrane adaptor protein which is involved in innate immune signalling processes. It induces expression of type I interferons (IFN-alpha and IFN-beta) via the NF-kappa-B and IRF3, pathways in response to non-self cytosolic RNA and dsDNA. It consists of an N-terminal transmembrane (TM) and a C-terminal ligand-binding (LBD, [pfam:PF15009]) domains. This entry represents the TM domain which contains a cryptic pocket involved in inter-dimer interactions that mediate the formation of the high-order oligomer.
Pfam PF21800: KRR1 small subunit processome component, second KH domain (domain)
This is the second K homology domain (KH2) found in KRR1 small subunit processome component from the fungus Chaetomium thermophilum and similar eukaryotic sequences.
Pfam PF20765: Phage tail terminator protein (domain)
This entry represents a family of likely phage tail terminator proteins which form a hexameric complex that joins the phage neck to the tail.
Pfam PF07092: TM106 protein C-terminal domain (domain)
This family includes Transmembrane protein 106A/B/C, type II transmembrane proteins which have homology to the late embryogenesis abundant-2 (LEA-2) domain. TMEM106A has been identified as a key factor to regulate macrophage activation and a tumour suppressor in gastric, renal cancer and non small-cell lung carcinoma (NSCLC). TMEM106B localises to late endosomes and lysosomes, and it is involved in dendrite morphogenesis and maintenance by regulating lysosomal trafficking via its interaction with MAP6. Its overexpression is associated with familial frontotemporal lobar degeneration. It has also been identified as a protein required for productive SARS-CoV-2. Structural analysis of LEA-2 domains revealed that they have a long, conserved lipid-binding groove, implying that TMEM106B and its homologues Vac7 and Tag1 from yeast, may all be lipid transfer  proteins in the lumen of late endocytic organelles.
Pfam PF07874: Prophage protein (DUF1660) (family)
This protein is found in Lactobacillae prophages.
Wikipedia: A domain of unknown function (DUF) is a protein domain that has no characterised function. These families have been collected together in the Pfam database using the prefix DUF followed by a number, with examples being DUF2992 and DUF1220. As of 2019, there are almost 4,000 DUF families within the Pfam database representing over 22% of known families. Some DUFs are not named using the nomenclature due to popular usage but are nevertheless DUFs.
Pfam PF20674: Prealbumin-like fold domain (domain)
This entry represents a stalk domain found in bacterial cell surface proteins. It is likely to contain an isopeptide bond.
Pfam PF16480: Domain of unknown function (DUF5057) (family)
This family consists of C-terminal of uncharacterized proteins and F5/8 type C domain proteins around 360 residues in length and is mainly found in various Firmicutes species. The function of this family is unknown.
Wikipedia: A domain of unknown function (DUF) is a protein domain that has no characterised function. These families have been collected together in the Pfam database using the prefix DUF followed by a number, with examples being DUF2992 and DUF1220. As of 2019, there are almost 4,000 DUF families within the Pfam database representing over 22% of known families. Some DUFs are not named using the nomenclature due to popular usage but are nevertheless DUFs.
Pfam PF18596: Sld7 C-terminal domain (domain)
This is an alpha helical domain found at the C-terminal region of Sld7 proteins. Yeast Sld3 and its metazoan counterpart treslin are the hub proteins mediating protein associations critical for formation of the replicative helicase at the replication origins of chromosomes. Sld7 forms a complex with Sld3 throughout the cell cycle, and associates with and dissociates from origins in an Sld3- dependent manner and is thought to regulate the function of Sld3. Structural analysis of S. cerevisiae Sld7 indicates that two Sld7 molecules form a homodimer using their C-terminal domains.
Pfam PF17854: FtsK alpha domain (domain)
FtsK is a DNA translocase that coordinates chromosome segregation and cell division in bacteria. In addition to its role as activator of XerCD site-specific recombination, FtsK can translocate double-stranded DNA (dsDNA) rapidly and directionally and reverse direction. FtsK can be split into three domains called alpha (this entry), beta and gamma. The alpha and beta domains contain the core ATPase machinery of the DNA translocase.
Pfam PF08028: Acyl-CoA dehydrogenase, C-terminal domain (domain)
Acyl Co-A dehydrogenases (1.3.8.7) are enzymes that catalyse the first step in each cycle of beta-oxidation in mitochondion. Acyl-CoA dehydrogenases  catalyse the alpha,beta-dehydrogenation of acyl-CoA thioesters to the corresponding trans 2,3-enoyl CoA-products with concomitant reduction of enzyme-bound FAD. Reoxidation of the flavin involves transfer of electrons to ETF (electron transferring flavoprotein). These enzymes are homodimers containing one molecule of FAD.

The monomeric enzyme is folded into three domains of approximately equal size. The N-terminal and the C-terminal are mainly Î±-helices packed together, and the middle domain consists of two orthogonal Î²-sheets. The flavin ring is buried in the crevice between two Î±-helical domains and the Î²-sheet of one subunit, and the adenosine pyrophosphate moiety is stretched into the subunit junction with one formed by two C-terminal domains . The C-terminal domain of Acyl-CoA dehydrogenase is an all-Î±, four helical up-and-down bundle.

This entry represents the C-terminal domain found in a group of related oxidoreductases, including HsaA, Indole-3-acetate monooxygenase and pigment production hydroxylases.
Pfam PF01296: Galanin (family)
Galanin is a peptide hormone that controls various biological activities . Galanin-like immuno-reactivity has been found in the central and peripheral nervous systems of mammals, with high concentrations demonstrated in discrete regions of the central nervous system, including the median eminence, hypothalamus, arcuate nucleus, septum, neuro-intermediate lobe of the pituitary, and the spinal cord. Its localisation within neurosecretory granules suggests that galanin may function as a neurotransmitter, and it has been shown to coexist with a variety of other peptide and amine neurotransmitters within individual neurons .

Although the precise physiological role of galanin is uncertain, it has a number of pharmacological properties: it stimulates food intake, when injected into the third ventricle of rats; it increases levels of plasma growth hormone and prolactin, and decreases dopamine levels in the median eminence ; and infusion into humans results in hyperglycemia and glucose intolerance, and inhibits pancreatic release of insulin, somatostatin and pancreatic peptide. Galanin also modulates smooth muscle contractility within the gastro-intestinal and genito-urinary tracts, all such activities suggesting that the hormone may play an important role in the nervous modulation of endocrine and smooth muscle function .

Galanin is a 29 amino acid peptide processed from a larger precursor protein. Except in human, galanin is C-terminally amidated. Its sequence is highly conserved and the first 14 residues are identical in all currently known sequences.
Wikipedia: Galanin is a neuropeptide encoded by the GAL gene, that is widely expressed in the brain, spinal cord, and gut of humans as well as other mammals. Galanin signaling occurs through three G protein-coupled receptors.
Pfam PF12834: Phage integrase, N-terminal (domain)
This is a family of DNA-binding prophage integrases. It is found largely in Proteobacteria.
Pfam PF02116: Fungal pheromone mating factor STE2 GPCR (family)
G protein-coupled receptors (GPCRs) constitute a vast protein family that encompasses a wide range of functions, including various autocrine, paracrine and endocrine processes. They show considerable diversity at the sequence level, on the basis of which they can be separated into distinct groups . The term clan can be used to describe the GPCRs, as they embrace a group of families for which there are indications of evolutionary relationship, but between which there is no statistically significant similarity in sequence . The currently known clan members include rhodopsin-like GPCRs (Class A, GPCRA), secretin-like GPCRs (Class B, GPCRB), metabotropic glutamate receptor family (Class C, GPCRC), fungal mating pheromone receptors (Class D, GPCRD), cAMP receptors (Class E, GPCRE) and frizzled/smoothened (Class F, GPCRF) . GPCRs are major drug targets, and are consequently the subject of considerable research interest. It has been reported that the repertoire of GPCRs for endogenous ligands consists of approximately 400 receptors in humans and mice . Most GPCRs are identified on the basis of their DNA sequences, rather than the ligand they bind, those that are unmatched to known natural ligands are designated by as orphan GPCRs, or unclassified GPCRs .
GPCR Fungal pheromone mating factor receptors form a distinct family of G-protein-coupled receptors, and are also known as Class D GPCRs.

The Fungal pheromone mating factor receptors STE2 and STE3 are integral membrane proteins that may be involved in the response to mating factors on the cell membrane . The amino acid sequences of both receptors contain high proportions of hydrophobic residues grouped into 7 domains,in a manner reminiscent of the rhodopsins and other receptors believed tointeract with G-proteins. However, while a similar 3D framework has been proposed to account for this, there is no significant sequence similarity either between STE2 and STE3, or between these and the rhodopsin-type family: the receptors thereofore bear their own unique '7TM' signatures which is why they have been given their own GPCR group: Class D Fungal mating pheromone receptors.
This entry represents the STE2-type family of GPCR. The STE2 gene of Saccharomyces cerevisiae (Baker's yeast) is the cell-surface receptor that binds the 13-residue lipopeptide a-factor.
Wikipedia: Fungal pheromone mating factor receptors form a distinct family of G-protein-coupled receptors.
Pfam PF13700: Domain of unknown function (DUF4158) (domain)
The exact function of this domain is not clear, but it frequently occurs as an N-terminal region of transposase 3 or IS3 family of insertion elements.
Wikipedia: A domain of unknown function (DUF) is a protein domain that has no characterised function. These families have been collected together in the Pfam database using the prefix DUF followed by a number, with examples being DUF2992 and DUF1220. As of 2019, there are almost 4,000 DUF families within the Pfam database representing over 22% of known families. Some DUFs are not named using the nomenclature due to popular usage but are nevertheless DUFs.
Pfam PF23486: TMEM132 fifth domain (domain)
This is the fifth domain of TMEM132 family of proteins which includes TMEM132A-E, transmembrane proteins that regulate neuronal structure and function. In mammalian cells, they may regulate NAP1 in the WAVE regulatory complex (WRC) to finely modulate actin nucleation, cellular cytoskeletal and morphological changes. TMEM132D member has been associated with panic disorders, anxiety and major depressive disorders. These proteins consist of six domains: N-terminal [pfam:PF15705], 2nd [pfam:PF23481], 3rd [pfam:PF23039], forth [pfam:PF16070], a fifth and a sixth one. The latter three are a tandem of Ig-like domains. [pfam:PF15706] represents the C-terminal region which includes the single transmembrane helix.
Pfam PF07798: Coiled-coil domain-containing protein 90-like (family)
This entry includes coiled-coil domain-containing proteins 90 (CCDC90) and related proteins. CCDC90A is a key regulator of the mitochondrial calcium uniporter (MCU) and hence was renamed MCUR1. A study in mammals and in yeast homologue fmp32 has reported that MCUR1 is a cytochrome c oxidase assembly factor and that it has an indirect role as a regulator of MCU, however, subsequent publications confirmed the function of MCUR1 as a regulator of MCU. The role of CCDC90B proteins is still not known.
Pfam PF14591: AF0941-like (domain)
Members of this family are of unknown function.
Pfam PF21898: Sarcolamban protein (family)
This entry represents the Sarcolamban A and B peptides.
Pfam PF20598: Domain of unknown function (DUF6795) (domain)
This domain, mainly found in bacteria and eukaryotes, is functionally uncharacterised. This domain is approximately 100 amino acids in length and, based on structure prediction and overlaps with other families, belongs to the transthyretin superfamily. It is likely to have a seven stranded beta sandwich fold.
Wikipedia: A domain of unknown function (DUF) is a protein domain that has no characterised function. These families have been collected together in the Pfam database using the prefix DUF followed by a number, with examples being DUF2992 and DUF1220. As of 2019, there are almost 4,000 DUF families within the Pfam database representing over 22% of known families. Some DUFs are not named using the nomenclature due to popular usage but are nevertheless DUFs.
Pfam PF01498: Transposase (family)
Transposase proteins are necessary for efficient DNA transposition.  This family includes the amino-terminal region of Tc1, Tc1A, Tc1B and Tc2B transposases of C.elegans.  The region encompasses the specific DNA binding and second DNA recognition domains as well as an amino-terminal region of the catalytic domain of Tc3 as described in. Tc3 is a member of the Tc1/mariner family of transposable elements.
Wikipedia: Helix-turn-helix is a DNA-binding domain (DBD). The helix-turn-helix (HTH) is a major structural motif capable of binding DNA. Each monomer incorporates two α helices, joined by a short strand of amino acids, that bind to the major groove of DNA. The HTH motif occurs in many proteins that regulate gene expression. It should not be confused with the helix–loop–helix motif.