SII-SWORD/CoKE huggingface dataset:
Pfam PF24583: Domain of unknown function (DUF7610) (domain)
This domain is found in uncharacterised proteins mainly from plants. It is predicted to adopt three-helical bundle.
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 PF17509: Family of unknown function (DUF5440) (family)
This is a family of unknown function found in bacteria.
Pfam PF15673: Circadian-associated transcriptional repressor (family)
Circadian-associated transcriptional repressor (Ciart or Chrono) is a negative regulatory component of the circadian clock. It functions as a transcriptional repressor, modulating BMAL1-CLOCK activity. It also regulates metabolic pathways such as the glucocorticoid response triggered by behavioral  stress.
Pfam PF03498: Cytolethal distending toxin A/C domain (domain)
Escherichia coli, Haemophilus spp and Campylobacter spp. all produce a toxin that is seen to cause distension in certain cell lines , which eventually disintegrate and die. This novel toxin, termed cytolethal distending toxin (cdt), has three subunits: A, B and C. Their sizes are approx. 27.7, 29.5 and 19.9kDa respectively , and they appear to be entirely novel .

Further research on the complete toxin has revealed that it blocks the cell cycle at stage G2, through inactivation of the cyclin-dependent kinase Cdk1, and without induction of DNA breaks. This leads to multipolar abortive mitosis and micronucleation, associated with centrosomal amplification . The roles of each subunit are unclear, but it is believed that they have separate roles in pathogenicity.

This entry represents the A and C subunits.
Wikipedia: Cytolethal distending toxins are a class of heterotrimeric toxins produced by certain gram-negative bacteria that display DNase activity. These toxins trigger G2/M cell cycle arrest in specific mammalian cell lines, leading to the enlarged or distended cells for which these toxins are named. Affected cells die by apoptosis.
Pfam PF22407: Cmr1, C-terminal domain (domain)
This entry represents the C-terminal RRM domain of CRISPR system Cmr subunit Cmr1 from Archaeoglobus fulgidus.
Pfam PF00240: Ubiquitin family (domain)
This family contains a number of ubiquitin-like proteins: SUMO (smt3 homologue) (see [swissprot:Q02724]), Nedd8 (see [swissprot:P29595]), Elongin B (see [swissprot:Q15370]), Rub1 (see [swissprot:Q9SHE7]), and Parkin (see [swissprot:O60260]). A number of them are thought to carry a distinctive five-residue motif termed the proteasome-interacting motif (PIM), which may have a biologically significant role in protein delivery to proteasomes and recruitment of proteasomes to transcription sites.
Wikipedia: Ubiquitin is a small (8.6 kDa) regulatory protein found in most tissues of eukaryotic organisms, i.e., it is found ubiquitously. It was discovered in 1975 by Gideon Goldstein and further characterized throughout the late 1970s and 1980s. Four genes in the human genome code for ubiquitin: UBB, UBC, UBA52 and RPS27A.
Pfam PF04579: Keratin, high-sulphur matrix protein (family)
Family of Keratin, high-sulfur matrix proteins.  The keratin products of mammalian epidermal derivatives such as wool and hair consist of microfibrils embedded in a rigid matrix of other proteins. The matrix proteins include the high-sulphur and high-tyrosine keratins, having molecular weights of 6-20 kDa, whereas microfibrils contain the larger, low-sulphur keratins (40-56 kDa).
Pfam PF17363: Family of unknown function (DUF5388) (family)
This is a family of unknown function found in Lactobacillales.
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 PF02436: Conserved carboxylase domain (domain)
This domain represents a conserved region in pyruvate carboxylase  (PYC), oxaloacetate decarboxylase alpha chain (OADA), and  transcarboxylase 5s subunit. The domain is found adjacent to the  HMGL-like domain ([pfam:PF00682]) and often close to the biotin_lipoyl domain ([pfam:PF00364]) of biotin requiring enzymes.
Pfam PF20786: Family of unknown function (DUF6840) (family)
This uncharacterised protein family is predominantly found in Leptospirillum sp. Its function is unknown. There are some conserved motifs: SRD, AGGL and some highly conserved Y, H and W 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 PF06671: Repeat of unknown function (DUF1174) (repeat)
This family consists of a number of Caenorhabditis elegans specific repeats of around 36 residues in length which are found in two hypothetical proteins. This family is found in conjunction with [pfam:PF00024].
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 PF05514: HR-like lesion-inducing (family)
Family of plant proteins that are associated with the hypersensitive response (HR) pathway of defence against  plant pathogens.
Pfam PF07689: KaiB domain (domain)
The cyanobacterial clock proteins KaiA and KaiB are proposed as regulators of the circadian rhythm in cyanobacteria. Mutations in both proteins have been reported to alter or abolish circadian rhythmicity. KaiB adopts an alpha-beta meander motif and is found to be a dimer.
Wikipedia: In molecular biology, the cyanobacterial clock proteins are the main circadian regulator in cyanobacteria. The cyanobacterial clock proteins comprise three proteins: KaiA, KaiB and KaiC. The kaiABC complex may act as a promoter-nonspecific transcription regulator that represses transcription, possibly by acting on the state of chromosome compaction. This complex is expressed from a KaiABC operon.
Pfam PF16918: Protein kinase G tetratricopeptide repeat (repeat)
This domain is found at the C-terminus of protein kinase G and contains a tetratricopeptide repeat (TPR).
Pfam PF22657: Another single-strand binding protein family (domain)
This family includes single stranded binding proteins. They play an important role in DNA replication, recombination and repair.
Pfam PF06590: PerB protein (family)
This family consists of several PerB or BfpV proteins found specifically in Escherichia coli. PerB is thought to play a role in regulating the expression of BfpA.
Pfam PF04053: COPA/B second beta-propeller (repeat)
This entry represents the second beta-propeller found in Coatomer subunits alpha and beta (COPA1-3, COPB2 and COB21-3), from eukaryotes. Coatomer complexes function in the sorting and trafficking of proteins between subcellular organelles.Coat protein I (COPI)-coated vesicles mediate retrograde transport from the Golgi to the endoplasmic reticulum (ER), as well as transport within the Golgi. The Coatomer protein complex subunit beta 2 (COPB2) is involved in the formation of the COPI coatomer protein complex. COPB2 is a vital oncogene in many cancer types that regulates multiple biological behaviours of tumor cells, including proliferation, survival, tumourigenesis, invasion, and metastasis. COPA constitutes part of COPI, playing a role in the retrograde transport of cargo proteins between the Golgi and the ER and the movement of vesicles within the Golgi.
Pfam PF22703: Cdc6 AAA+ ATPase-type lid domain (domain)
This domain is found in Cdc6 and related proteins. Cdc6 is a key protein involved in the pre-replication complex assembly. It contains AAA+ ATPase domain that is capped by a lid domain, represented by this entry.
Pfam PF08356: EF hand associated (family)
This region predominantly appears near EF-hands ([pfam:PF00036]) in GTP-binding proteins. It is found in all three eukaryotic kingdoms.
Pfam PF18350: Restriction endonuclease SH3 domain (domain)
This is an N-terminal beta-barrel domain found in the Hpy99I protomer region. Hpy99I is a type II restriction endonuclease (REase) found in the gastric pathogen Helicobacter pylori. The beta-barrel domain has the SH3-domain fold. Deletion of the beta-barrel domain drastically reduced the activity of Hpy99I.
Pfam PF10784: Plasmid stability protein (family)
This family is conserved in the Enterobacteriales. It is a putative plasmid stability protein in that it is expressed from the operon involved in stability, but its actual function has not yet been characterised.
Pfam PF24156: Domain of unknown function (DUF7407) (domain)
This is a domain of unknown function found in a group of uncharacterised sequences from archaea. This domain may have a 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 PF01294: Ribosomal protein L13e (family)
This entry represents the ribosomal protein eL13 found in vertebrates , fruit fly, plants, yeast, amongst other eukaryotes and archaea.
Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites . About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits.

Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome .
Pfam PF04782: Protein of unknown function (DUF632) (family)
This plant protein may be a leucine zipper, but there is no experimental evidence for this.
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 PF20426: Neurobeachin beta propeller domain (repeat)
This entry represents the beta propeller domain found at the C-terminus of neurobeachin-like proteins.
Pfam PF18404: Glucosyltransferase 24 (domain)
This is the catalytic domain found in UDP-glucose:glycoprotein glucosyltransferase (UGGT). This domain belongs to glucosyltransferase 24 family (GT24) A-type domain. The GT domain displays the expected glycosyltransferase type A (GT-A) fold.
Pfam PF12476: Protein of unknown function (DUF3696) (family)
This domain family is found in bacteria and archaea, and is approximately 50 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 PF01525: Rotavirus NS26 (family)
Gene 11 product is a non-structural phosphoprotein designated as NS26.
Wikipedia: In virology, a nonstructural protein is a protein encoded by a virus but that is not part of the viral particle. They typically include the various enzymes and transcription factors the virus uses to replicate itself, such as a viral protease, an RNA replicase or other template-directed polymerases, and some means to control the host.
Pfam PF06088: Nucleopolyhedrovirus telokin-like protein-20 (TLP20) (family)
This family consists of several Nucleopolyhedrovirus telokin-like protein-20 (TLP20) sequences. The function of this family is unknown but TLP20 is known to shares some antigenic similarities to the smooth muscle protein telokin although the amino acid sequence shows no homologies to telokin.
Pfam PF08731: Transcription factor AFT (family)
AFT (activator of iron transcription) is an iron regulated transcriptional activator that regulates the expression of genes involved in iron homeostasis. This family includes the paralogous pair of transcription factors AFT1 and AFT2.
Pfam PF05032: Spo12 family (family)
This family of proteins includes Spo12 from S. cerevisiae [swissprot:P17123]. The Spo12 protein plays a regulatory role in two of the most fundamental processes of biology, mitosis and meiosis, and yet its biochemical function remains elusive. Spo12 is a nuclear protein. Spo12 is a component of the FEAR (Cdc fourteen early anaphase release) regulatory network, that promotes Cdc14 release from the nucleolus during early anaphase. The FEAR network is comprised of the polo kinase Cdc5, the separase Esp1, the kinetochore-associated protein Slk19, and Spo12.
Pfam PF13747: Domain of unknown function (DUF4164) (coiled_coil)
This is a family of short, approx 100 residue-long, bacterial proteins of unknown function. There is several conserved LE/LD sequence pairs.
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 PF00790: VHS domain (repeat)
Domain present in VPS-27, Hrs and STAM.
Wikipedia: In molecular biology, the VHS protein domain is approximately 140 residues long. Its name is an acronym derived from its occurrence in VPS-27, Hrs and STAM. It is a domain commonly found in the N-terminus of many proteins.
Pfam PF16088: BLOC-1-related complex sub-unit 7 (family)
This is a family of unknown function found in eukaryotes. Family members include BORCS7 (BLOC-1-related complex sub-unit 7) also known as Diaskedin (from the Ancient Greek 'diaskedazo', meaning 'to disperse') or C10orf32. It constitutes sub-unit 7 of the BORC complex (BLOC-one-related complex). BORC is a multisubunit complex that regulates the positioning of lysosomes at the cell periphery, and consequently affects cell migration. BORC associates with the lysosomal membrane, where it functions to recruit the small GTPase Arl8. This initiates a series of interactions that promote the microtubule-guided transport of lysosomes toward the cell periphery.
Pfam PF02154: Flagellar motor switch protein FliM (family)
The flagellar motor switch in Escherichia coli and Salmonella typhimurium regulates the direction of flagellar rotation and hence controls swimming behaviour . The switch is a complex apparatus that responds to signals transduced by the chemotaxis sensory signalling system during chemotactic behaviour . CheY, the chemotaxis response regulator, is believed to act directly on the switch to induce tumbles in the swimming pattern, but no physical interactions of CheY and switch proteins have yet been demonstrated.

The switch complex comprises at least three proteins - FliG, FliM and FliN. It has been shown that FliG interacts with FliM, FliM interacts with itself, and FliM interacts with FliN . Several residues within the middle third of FliG appear to be strongly involved in the FliG-FliM interaction, with residues near the N or C termini being less important . Such clustering suggests that FliG-FliM interaction plays a central role in switching.

Analysis of the FliG, FliM and FliN sequences shows that none are especially hydrophobic or appear to be integral membrane proteins . This result is consistent with other evidence suggesting that the proteins may be peripheral to the membrane, possibly mounted on the basal body M ring .
Wikipedia: In molecular biology, the flagellar motor switch protein (Flig) is one of three proteins in certain bacteria coded for by the gene fliG. The other two proteins are FliN coded for by fliN, and FliM coded for by fliM. The protein complex regulates the direction of flagellar rotation and hence controls swimming behaviour. The switch is a complex apparatus that responds to signals transduced by the chemotaxis sensory signalling system during chemotactic behaviour. CheY, the chemotaxis response regulator, is believed to act directly on the switch to induce a switch in the flagellar motor direction of rotation.
Pfam PF05454: Dystroglycan (Dystrophin-associated glycoprotein 1) (family)
Dystroglycan is one of the dystrophin-associated glycoproteins, which is encoded by a 5.5 kb transcript in human. The protein product is cleaved into two non-covalently associated subunits, [alpha] (N-terminal) and  [beta] (C-terminal). In skeletal muscle the dystroglycan complex works as a transmembrane linkage between the extracellular matrix and the cytoskeleton. [alpha]-dystroglycan is extracellular and binds to merosin ([alpha]-2 laminin) in the basement membrane, while [beta]-dystroglycan is a transmembrane protein and binds to dystrophin, which is a large rod-like cytoskeletal protein, absent in Duchenne muscular dystrophy patients. Dystrophin binds to intracellular actin cables. In this way, the dystroglycan complex, which links the extracellular matrix to the intracellular actin cables, is thought to provide structural integrity in muscle tissues. The dystroglycan complex is also known to serve as an agrin receptor in muscle, where it may regulate agrin-induced acetylcholine receptor clustering at the neuromuscular junction. There is also evidence which suggests the function of dystroglycan as a part of the signal transduction pathway because it is shown that Grb2, a mediator of the Ras-related signal pathway, can interact with the cytoplasmic domain of dystroglycan. In general, aberrant expression of dystrophin-associated protein complex underlies the pathogenesis of Duchenne muscular dystrophy, Becker muscular dystrophy and severe childhood autosomal recessive muscular dystrophy. Interestingly, no genetic disease has been described for either [alpha]- or [beta]-dystroglycan. Dystroglycan is widely distributed in non-muscle tissues as well as in muscle tissues. During epithelial morphogenesis of kidney, the dystroglycan complex is shown to act as a receptor for the basement membrane. Dystroglycan expression in mouse brain and neural retina has also been reported. However, the physiological role of dystroglycan in non-muscle tissues has remained unclear.
Pfam PF06066: SepZ (family)
SepZ is a component of the type III secretion system use in bacteria. SepZ is a gene within the enterocyte effacement locus. SepZ mutants exhibit reduced invasion efficiency and lack of tyrosine phosphorylation  of Hp90.
Pfam PF14678: FANCI solenoid 4 (repeat)
This is the solenoid 4 (S4) domain of the Fanconi anemia group I protein.
Pfam PF21711: Dynactin subunit 5 (repeat)
This entry includes dynactin 5 (DCTN5, also known as subunit p25). Dynactin is a major component of the activator complex that stimulates dynein-mediated vesicle transport. DCTN5 is part of the pointed-end subcomplex in dynactin that also includes p26, p27 (also known as dynactin 6), and Arp11. This subcomplex interacts with membranous cargoes. DCTN5 plays a dual role in cargo binding and dynactin regulation, being critical for this process. DCTN5 contains imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X).
Pfam PF21268: Bacteriophage T7 DNA helicase/primase, N-terminal a+b fold (domain)
Bacteriophage T7 DNA helicase/primase (also known as Gp4) is an ATP-dependent DNA helicase and primase that is essential for viral DNA replication and recombination. Primase activity synthesises short RNA primers at the sequence 5'-GTC-3' on the lagging strand that the polymerase elongates using dNTPs and providing the primase is still present. It consists of an N-terminal zinc ribbon ([pfam:PF08273]) followed by a RNA Polymerase Domain that can be subdivided in an N-terminal alpha+beta structure, represented in this entry and a C-terminal TOPRIM fold ([pfam:PF13155]). At the C-terminal end of the protein there is a DNA helicase domain ([pfam:PF03796]).
Pfam PF06184: Potexvirus coat protein (family)
This family consists of several Potexvirus coat proteins.
Pfam PF23674: RYYR-CCHC domain (domain)
This domain is found in uncharacterised proteins from nematodes. It is named after its conserved sequence motifs. It contains a semi-conserved RxY(x)nYR motif and two invariant CxxC and HxxxC motifs. This domain is predicted to adopt a globular structure with significant similarity to FLYWCH-type zinc finger, in particular [pfam:PF04500]. It is quite likely that this domain is a zinc-finger given the strict conservation of the cysteine and histidine residues. However, this potential zinc-finger has a distinct pattern of the zinc coordinating residues compared to the FLYWCH-type zinc fingers.
Pfam PF15670: Spermatid maturation protein 1 (family)
Spem1 is a family of mammalian proteins. Proteins are exclusively expressed in the cytoplasm of the last three steps of spermiogenesis in the mouse testis, and male mice deficient in Spem1 are completely infertile because of deformed sperm.