SII-SWORD/CoKE huggingface dataset:
Pfam PF11297: Protein of unknown function (DUF3098) (family)
This bacterial family of proteins has no known function.
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 PF04913: Baculovirus Y142 protein (family)
This domain family is found in Baculovirus proteins including protein AC142, which is expressed in the cytoplasm and nucleus throughout infection. It is required for nucleocapsid envelopment in the budding virus to form the occlusion-derived virus and subsequent embedding of virions into polyhedra.
Pfam PF13245: AAA domain (domain)
Wikipedia: AAA proteins are a large group of protein family sharing a common conserved module of approximately 230 amino acid residues. This is a large, functionally diverse protein family belonging to the AAA+ protein superfamily of ring-shaped P-loop NTPases, which exert their activity through the energy-dependent remodeling or translocation of macromolecules.
Pfam PF01097: Arthropod defensin (domain)
Arthropod defensins are a family of insect and scorpion cysteine-rich antibacterial peptides, primarily active against Gram-positive bacteria . All these peptides range in length from 38 to 51 amino acids. There are six conserved cysteines all involved in intrachain disulphide bonds.

A schematic representation of peptides from the arthropod defensin family is shown below.

        +----------------------------+
        |                   | 
       xxCxxxxxxxxxxxxxxCxxxCxxxxxxxxxCxxxxxCxCxx
                  |  |          | |
                  +---|---------------+ |
                     +-----------------+

'C': conserved cysteine involved in a disulphide bond.
 

Although low level sequence similarities have been reported  between the arthropod defensins and mammalian defensins, the topological arrangement of the disulphide bonds as well as the tertiary structure  are completely different in the two families.
Wikipedia: Arthropod defensins are a family defensin proteins found in mollusks, insects, and arachnids. These cysteine-rich antibacterial peptides are primarily active against Gram-positive bacteria and fungi in vitro. However Drosophila fruit flies mutant for the fly defensin were more susceptible to infection by the Gram-negative bacteria Providencia burhodogranariea, and resisted infection against Gram-positive bacteria like wild-type flies. It remains to be seen how in vitro activity relates to in vivo function. Mutants for the defensin-like antimicrobial peptide Drosomycin were more susceptible to fungi, validating a role for defensin-like peptides in anti-fungal defence.
Pfam PF06028: Alpha/beta hydrolase of unknown function (DUF915) (domain)
This family consists of several bacterial proteins of unknown function. Members of this family have an alpha/beta hydrolase 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 PF02910: Fumarate reductase flavoprotein C-term (domain)
This family contains fumarate reductases, succinate dehydrogenases and L-aspartate oxidases.
Pfam PF07780: Spb1 C-terminal domain (domain)
This domain is found at the C-terminus of a family of FtsJ-like methyltransferases. Members of this family are involved in 60S ribosomal biogenesis, for example [swissprot:P25582]. This domain interacts with the meandering tail of Erb1 and its removal is required to form the pre-mature inter-subunit surface of the Arx1/Nog2 particle.
Pfam PF08083: PROCN (NUC071) domain (domain)
The PROCN domain is the central domain in pre-mRNA splicing factors of PRO8 family.
Pfam PF08266: Cadherin-like (domain)
This cadherin domain is usually the most N-terminal copy of the domain.
Wikipedia: Cadherins (named for "calcium-dependent adhesion") are cell adhesion molecules important in forming adherens junctions that let cells adhere to each other. Cadherins are a class of type-1 transmembrane proteins, and they depend on calcium (Ca2+) ions to function, hence their name. Cell-cell adhesion is mediated by extracellular cadherin domains, whereas the intracellular cytoplasmic tail associates with numerous adaptors and signaling proteins, collectively referred to as the cadherin adhesome.
Pfam PF24097: Nucleoporin POM152, N-terminal transmembrane domain (domain)
This domain is found at the N-terminal end of Nucleoporin POM152 from Saccharomyces cerevisiae and similar fungal proteins. POM152, a component of the nuclear pore complex (NPC), is important for the de novo assembly of NPCs. This protein consists of an N-terminal transmembrane domain (TMD, this entry) and an extended C-terminal domain (CTD) with tandem repeats of Ig-like domains.
Pfam PF08914: Rap1 Myb domain (domain)
This entry represents the Myb domain found in telomeric repeat-binding factor 2-interacting protein 1 (TERF2IP) from animals and DNA-binding proteins RAP1 from yeast. These proteins are involved in the regulation of telomere length, clustering and have a specific role in telomere position effect (TPE). This domain binds DNA in Saccharomyces cerevisiae, but not in animals and Schizosaccharomyces pombe where it may either interact with DNA via an adaptor protein or it may be only involved in protein-protein interactions.
Pfam PF11477: Sialyltransferase PMO188 (family)
PMO188 is a sialyltransferase from P.multocida. It transfers sialic acid from cytidine 5'-monophosphonuraminic acid to an acceptor sugar. It has important catalytic residues such as Asp141, His311, Glu338, Ser355 and Ser356.
Pfam PF21549: PR domain zinc finger protein 2, PR domain (domain)
This domain is found in PR domain zinc protein 2 from humans (PRDM2) and similar proteins from animals. PRDM2 is a histone methyltransferase that functions as a DNA-binding transcription factor. It contains a PR (PRDI-BF1 and RIZ1 homology) domain, which is a distinct SET domain, that is responsible for its catalytic activity (this entry). This domain displays a typical SET fold consisting mainly of short beta-strands and intervening loops including a pseudo-knot at the C terminus.
Pfam PF21828: Domain of unknown function (DUF6888) (domain)
This family of proteins is found in bacteria. Proteins in this family are approximately 60 amino acids in length. There is a conserved N-terminal MPT sequence motif. AlphaFold predicts that this protein is composed of an N-terminal alpha helix followed by a four stranded beta sheet. AlphaFold also predicts the protein forms a strong dimer interface. It shows some weak structural similarity to the N-terminal domain of RnlA toxin.
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 PF19327: Ap4A phosphorylase N-terminal domain (domain)
This entry represents the N-terminal HIT-like domain from the Ap4A phosphorylase enzyme.
Pfam PF07891: Protein of unknown function (DUF1666) (family)
These sequences are derived from hypothetical plant proteins of unknown function. The region in question  is approximately 250 residues long.
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 PF01391: Collagen triple helix repeat (20 copies) (repeat)
Members of this family belong to the collagen superfamily. Collagens are generally extracellular structural proteins involved in formation of connective tissue structure. The alignment contains 20 copies of the G-X-Y repeat that forms a triple helix.  The first position of the repeat is glycine, the second and third positions can be any residue but are frequently proline and hydroxy-proline.  Collagens are post translationally modified by proline hydroxylase to form the hydroxy-proline residues. Defective hydroxylation is the cause of scurvy. Some members of the collagen superfamily are not involved in connective tissue structure but share the same triple helical structure. The family includes bacterial collagen-like triple-helix repeat proteins.
Wikipedia: In molecular biology, the collagen triple helix or type-2 helix is the main secondary structure of various types of fibrous collagen, including type I collagen. In 1954, Ramachandran &amp; Kartha advanced a structure for the collagen triple helix on the basis of fiber diffraction data. It consists of a triple helix made of the repetitious amino acid sequence glycine-X-Y, where X and Y are frequently proline or hydroxyproline. Collagen folded into a triple helix is known as tropocollagen. Collagen triple helices are often bundled into fibrils which themselves form larger fibres, as in tendons.
Pfam PF15393: Domain of unknown function (DUF4615) (family)
This protein family is a domain of unknown function, which is found in eukaryotes. Proteins in this family are typically between 161 and 229 amino acids in length. There is a single completely conserved residue F that may be functionally important.
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 PF12307: Protein of unknown function (DUF3631) (family)
This protein is found in bacteria. Proteins in this family are typically between 180 to 701 amino acids in length.
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 PF16339: Domain of unknown function (DUF4969) (family)
This small family consists of several uncharacterised proteins around 540 residues in length and is mainly found in various Bacteroides species. The function of this protein is unknown.
Pfam PF10447: Exosome component EXOSC1/CSL4 (domain)
This family of proteins are components of the exosome 3'->5' exoribonuclease complex.  The exosome mediates degradation of unstable mRNAs that contain AU-rich elements (AREs) within their 3' untranslated regions.
Pfam PF01996: F420-0:Gamma-glutamyl ligase (family)
F420-0:Gamma-glutamyl ligase ([ec:6.3.2.-]) is an enzyme involved in F420 biosynthesis pathway.  It catalyses the GTP-dependent successive addition of multiple gamma-linked L-glutamates to the L-lactyl phosphodiester of 7,8-didemethyl-8-hydroxy-5-deazariboflavin (F420-0). This reaction produces polyglutamated F420 derivatives.  GTP + F420-0 + n L-glutamate -> GDP + phosphate + F420-n
Pfam PF02187: Growth-Arrest-Specific Protein 2 Domain (domain)
The GAR2 domain is common in plakin family members and Gas2 family members. The GAR domain comprises around 57 amino acids and has been shown to bind to microtubules.
Pfam PF08207: Elongation factor P (EF-P) KOW-like domain (domain)
This entry represents the N-terminal domain of homologues of elongation factor P, which probably are translation initiation factors.
Wikipedia: EF-P is an essential protein that in bacteria stimulates the formation of the first peptide bonds in protein synthesis. Studies show that EF-P prevents ribosomes from stalling during the synthesis of proteins containing consecutive prolines. EF-P binds to a site located between the binding site for the peptidyl tRNA and the exiting tRNA. It spans both ribosomal subunits with its amino-terminal domain positioned adjacent to the aminoacyl acceptor stem and its carboxyl-terminal domain positioned next to the anticodon stem-loop of the P site-bound initiator tRNA. The EF-P protein shape and size is very similar to a tRNA and interacts with the ribosome via the exit “E” site on the 30S subunit and the peptidyl-transferase center (PTC) of the 50S subunit. EF-P is a translation aspect of an unknown function, therefore It probably functions indirectly by altering the affinity of the ribosome for aminoacyl-tRNA, thus increasing their reactivity as acceptors for peptidyl transferase.
Pfam PF01131: DNA topoisomerase (family)
This subfamily of topoisomerase is divided on the basis that these enzymes preferentially relax  negatively supercoiled DNA, from a 5' phospho- tyrosine linkage in the enzyme-DNA covalent intermediate and has high affinity for single stranded DNA.
Pfam PF07747: MTH865-like family (family)
This domain has an EF-hand like fold.
Pfam PF08920: Splicing factor 3B subunit 1 (domain)
This family consists of several eukaryotic splicing factor 3B subunit 1 proteins, which associate with p14 through a C-terminus beta-strand that interacts with beta-3 of the p14 RNA recognition motif (RRM) beta-sheet, which is in turn connected to an alpha-helix by a loop that makes extensive contacts with both the shorter C-terminal helix and RRM of p14. This subunit is required for 'A' splicing complex assembly (formed by the stable binding of U2 snRNP to the branchpoint sequence in pre-mRNA) and 'E' splicing complex assembly.
Pfam PF16091: Domain of unknown function (DUF4820) (family)
This family of proteins is functionally uncharacterised. This family of proteins is found in eukaryotes. Proteins in this family are typically between 320 and 483 amino acids in length. There are two conserved sequence motifs: WSLP and RPLPW.
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 PF16653: Saccharopine dehydrogenase C-terminal domain (domain)
This family comprises the C-terminal domain of saccharopine dehydrogenase. In some organisms this enzyme is found as a bifunctional polypeptide with lysine ketoglutarate reductase. The saccharopine dehydrogenase can also function as a saccharopine reductase.
Wikipedia: In molecular biology, the protein domain Saccharopine dehydrogenase (SDH), also named Saccharopine reductase, is an enzyme involved in the metabolism of the amino acid lysine, via an intermediate substance called saccharopine. The Saccharopine dehydrogenase enzyme can be classified under EC 1.5.1.7, EC 1.5.1.8, EC 1.5.1.9, and EC 1.5.1.10. It has an important function in lysine metabolism and catalyses a reaction in the alpha-Aminoadipic acid pathway. This pathway is unique to fungal organisms therefore, this molecule could be useful in the search for new antibiotics. This protein family also includes saccharopine dehydrogenase and homospermidine synthase. It is found in prokaryotes, eukaryotes and archaea.
Pfam PF25116: Agd3 CBM87 (domain)
This entry represents the carbohydrate binding module (CBM) domain found at the N-terminal of the exopolysaccharide deacetylase Agd3 from Aspergillus fumigatus, a protein required for biofilm formation. This is the founding member of CBM family 87.
Pfam PF22596: Scabin-like (domain)
This entry represents a group of mono-ADP-ribosyltransferase toxins, including scabin ([swissprot:C9Z6T8]), a novel DNA-targeting enzyme from the plant pathogen Streptomyces scabiei.
Pfam PF05608: RTE1-like (domain)
This entry, previously known as DUF778, represents  RTE1 (REVERSION-TO-ETHYLENE SENSITIVITY1) from Arabidopsis thaliana. RTE1 is positive regulator of the ETR1 ethylene receptor, leading to negative regulation of ethylene responses.. This entry also includes Arabidopsis RTE1 homologue, RTH, which acts via RTE1 in regulating ethylene responses and signaling. This domain is also present in TMEM222 from animals which in humans plays a role in brain development and function and mutations result in autosomal recessive neurodevelopmental disorder. This domain has been identified as structurally similar to peptidase C97 domain ([pfam:PF05903]).
Pfam PF13682: Chemoreceptor zinc-binding domain (domain)
The chemoreceptor zinc-binding domain (CZB) is found in bacterial signal transduction proteins - most frequently receptors involved in chemotaxis and motility, but also in c-di-GMP signalling and nitrate/nitrite-sensing. Originally discovered in the cytoplasmic chemoreceptor TlpD from Helicobacter pylori, it is often found C-terminal to the MCPsignal domain in cytoplasmic chemoreceptor proteins. The CZB domain contains a core sequence motif, Hxx[WFYL]x21-28Cx[LFMVI]Gx[WFLVI]x18-27HxxxH. The highly-conserved H-C-H-H residues of this motif are believed to coordinate zinc; mutating the latter two histidines of the motif to alanines abolishes Zn binding. This domain binds zinc with high affinity, with a Kd in the femtomolar range. This domain has been shown in E. coli to be a  zinc sensor that regulates the catalytic activity of [pfam:PF00990]. This domain also binds the chemoattractant HOCl at a site very close to that of zinc. It has been shown that zinc participates in HOCl sensing by forming a redox 'Cys-Zn switch' that reacts towards HOCl (Matilla et. al.,FEMS Microbiology Reviews, fuab043, 45, 2021, 1. https://doi.org/10.1093/femsre/fuab043).
Pfam PF18744: Secreted Novel AID/APOBEC-like Deaminase 1 (family)
A family of secreted AID/APOBEC like deaminases found sporadically across vertebrates.
Pfam PF03061: Thioesterase superfamily (domain)
This family contains a wide variety of enzymes, principally thioesterases. This family includes 4HBT (EC 3.1.2.23) which catalyses the final step in the  biosynthesis of 4-hydroxybenzoate from 4-chlorobenzoate in the soil dwelling microbe Pseudomonas CBS-3. This family includes various cytosolic long-chain acyl-CoA  thioester hydrolases. Long-chain acyl-CoA hydrolases hydrolyse palmitoyl-CoA to CoA and palmitate, they also catalyse the hydrolysis of other  long chain fatty acyl-CoA thioesters.
Pfam PF15807: Membrane-associated protein 117 kDa, PDZK1-interacting protein 1 (family)
MAP17 is a family of proteins found in eukaryotes. It is a small non-glycosylated two-pass membrane protein, that is overexpressed in many tumours of different origins, including carcinomas.
Pfam PF03178: CPSF A subunit region (repeat)
This family includes a region that lies towards the C-terminus of the cleavage and polyadenylation specificity factor (CPSF) A (160 kDa) subunit. CPSF is involved in mRNA polyadenylation and binds the AAUAAA conserved sequence in pre-mRNA. CPSF has also been found to be necessary for splicing of single-intron pre-mRNAs. The function of the aligned region is unknown but may be involved in RNA/DNA binding.
Pfam PF21612: YchJ family protein, N-terminal zinc binding domain (domain)
This domain is found at the N-terminal end of the functionally uncharacterised YchJ family protein from Psychrobacter arcticus ([swissprot:Q4FPZ7]) and related proteins from Psychrobacter species. The structure of YchJ shows that this domain folds mainly into an alpha-helical structure. This domain contains the same type of C4 zinc finger as seen in SEC-C motif ([pfam:PF02810]) located at the C terminus of YchJ which suggests a possible internal duplication in the YchJ family.
Pfam PF13261: Protein of unknown function (DUF4052) (family)
This family of proteins is functionally uncharacterised. This family of proteins is found in bacteria. Proteins in this family are approximately 220 amino acids in length.
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 PF20058: Domain of unknown function (DUF6457) (domain)
This presumed domain is functionally uncharacterised. This family of proteins is found in bacteria. This domain is found C-terminal to an MobA-like guanyltransferase domain.
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 PF09011: HMG-box domain (domain)
This short 71 residue domain is an HMG-box domain. HMG-box domains mediate re-modelling of chromatin-structure. Mammalian HMG-box proteins are of two types: those that are non-sequence-specific DNA-binding proteins with two HMG-box domains and a long highly acidic C-tail; and a diverse group of sequence-specific transcription factor-proteins with either a single HMG-box or up to six copies, and no acidic C-tail.
Wikipedia: In molecular biology, the HMG-box is a protein domain which is involved in DNA binding. The domain is composed of approximately 75 amino acid residues that collectively mediate the DNA-binding of chromatin-associated high-mobility group proteins. HMG-boxes are present in many transcription factors and chromatin-remodeling complexes, where they can mediate non-sequence or sequence-specific DNA binding.
Pfam PF10666: Phage tail assembly chaperone protein Gp14 ()A118 (family)
This phage protein family is expressed from within a cluster of tail- and base plate-producing genes. It is a family of tail assembly chaperone proteins.
Pfam PF11342: Protein of unknown function (DUF3144) (family)
This family of proteins with unknown function appears to be restricted to Proteobacteria.
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.