SII-SWORD/CoKE huggingface dataset:
Pfam PF00197: Trypsin and protease inhibitor (domain)
The Kunitz-type soybean trypsin inhibitor (STI) family consists mainly of proteinase inhibitors from Leguminosae seeds . They belong to MEROPS inhibitor family I3, clan IC. They exhibit proteinase inhibitory activity against serine proteinases; trypsin (MEROPS peptidase family S1, IPR001254) and subtilisin (MEROPS peptidase family S8, IPR000209), thiol proteinases (MEROPS peptidase family C1, IPR000668) and aspartic proteinases (MEROPS peptidase family A1, IPR001461) .

Inhibitors from cereals are active against subtilisin and endogenous alpha-amylases, while some also inhibit tissue plasminogen activator. The inhibitors are usually specific for either trypsin or chymotrypsin, and some are effective against both. They are thought to protect the seeds against consumption by animal predators, while at the same time existing as seed storage proteins themselves - all the actively inhibitory members contain 2 disulphide bridges. The existence of a member with no inhibitory activity, winged bean albumin 1, suggests that the inhibitors may have evolved from seed storage proteins.

Proteins from the Kunitz family contain from 170 to 200 amino acid residues and one or two intra-chain disulphide bonds. The best conserved region is found in their N-terminal section. The crystal structures of soybean trypsin inhibitor (STI), trypsin inhibitor DE-3 from the Kaffir tree Erythrina caffra (ETI)  and the bifunctional proteinase K/alpha-amylase inhibitor from wheat (PK13) have been solved, showing them to share the same 12-stranded Î²-sheet structure as those of interleukin-1 and heparin-binding growth factors . The Î²-sheets are arranged in 3 similar lobes around a central axis, 6 strands forming an anti-parallel Î²-barrel. Despite the structural similarity, STI shows no interleukin-1 bioactivity, presumably as a result of their primary sequence disparities. The active inhibitory site containing the scissile bond is located in the loop between Î²-strands 4 and 5 in STI and ETI.

The STIs belong to a superfamily that also contains the interleukin-1 proteins, heparin binding growth factors (HBGF) and histactophilin, all of which have very similar structures, but share no sequence similarity with the STI family.
Wikipedia: Kunitz soybean trypsin inhibitor is a type of protein contained in legume seeds which functions as a protease inhibitor. Kunitz-type Soybean Trypsin Inhibitors are usually specific for either trypsin or chymotrypsin. They are thought to protect seeds against consumption by animal predators.
Pfam PF15962: Domain of unknown function (DUF4765) (family)
This domain family is found in bacteria, and is approximately 90 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 PF00472: RF-1 domain (domain)
This domain is found in peptide chain release factors such as RF-1 ([swissprot:P07011]) and RF-2 ([swissprot:P07012]), and a number of smaller proteins of unknown function such as [swissprot:P40711]. This domain contains the peptidyl-tRNA hydrolase activity. The domain contains a highly conserved motif GGQ, where the glutamine is thought to coordinate the water that mediates the hydrolysis.
Wikipedia: A release factor is a protein that allows for the termination of translation by recognizing the termination codon or stop codon in an mRNA sequence. They are named so because they release new peptides from the ribosome.
Pfam PF08184: Cuticle protein 7 isoform family (family)
This family consists of cuticle protein 7 isoforms that are isolated from the carapace cuticle of a juvenile horseshoe crab, Limulus polyphemus. There are 3 isoforms of cuticle  protein 7. The 3 isoforms are N-terminally blocked but could  be deblocked by treatment with pyroglutaminase, showing that  the N-terminal residue is a pyroglutamine residue.
Pfam PF22490: tRNA-splicing endonuclease, linker domain (domain)
This domain is found in tRNA-splicing endonuclease from the archaea Thermoplasma acidophilum (EndA), which is organised into two major domains, the N-terminal domain and the catalytic domain ([pfam:PF01974]), with a linker region between them (this entry). This domain consists of an alpha-helix and three consecutive beta-strands.
Pfam PF03603: DNA polymerase III psi subunit (family)
DNA-directed DNA polymerase (2.7.7.7) catalyzes DNA-template-directed extension of the 3'-end of an RNA strand by one nucleotide at a time. DNA polymerase III is a complex, multichain enzyme responsible for most of the replicative synthesis in bacteria. The enzyme also has 3' to 5' exonuclease activity. It has a core composed of alpha, epsilon and theta chains, that associate with a tau subunit which allows the core dimerization to form the PolIII' complex. PolIII' associates with the gamma complex (gamma, delta, delta', psi and chi chains) and with the beta chain. This family is the psi subunit, the small subunit of the DNA polymerase III holoenzyme in Escherichia coli and related species, whose exact function is not known. It appears to have a narrow taxonomic distribution, being restricted to the gammaproteobacteria.
Pfam PF16486: N-terminal domain of argonaute (domain)
ArgoN is the N-terminal domain of argonaute proteins in eukaryotes. ArgoN is composed of an antiparallel four-stranded beta sheet core that has two alpha helices positioned along one face of the sheet and an extended beta strand towards its N-terminus. The core fold of the N domain most closely resembles the catalytic domain of replication-initiator protein Rep. The N domain is linked to the PAZ domain via linker 1 region, and together these three regions are designated the PAZ-containing lobe of argonaute.
Pfam PF16551: Putative nuclear localisation signal of quaking (domain)
Quaking_NLS is the very C-terminal region of quaking proteins that is purported to be the nuclear localisation signal.
Pfam PF02762: CBL proto-oncogene N-terminus, SH2-like domain (domain)
Cbl is an adaptor protein that binds EGF receptors (or other tyrosine kinases) and SH3 domains, functioning as a negative regulator of many signaling pathways. The N-terminal domain is evolutionarily conserved, and is known to bind to phosphorylated tyrosine residues. The so called N-terminal domain is actually 3 structural domains, of which this is the C-terminal SH2 domain.
Wikipedia: In molecular biology, the Cbl TKB domain, also known as the phosphotyrosine binding (PTB) domain is a conserved region found at the N-terminus of Cbl adaptor proteins. This N-terminal region is composed of three evolutionarily conserved domains: an N-terminal four-helix bundle domain, an EF hand-like domain and a SH2-like domain, which together are known to bind to phosphorylated tyrosine residues.
Pfam PF23582: RGF3 winged helix domain (domain)
This entry represents a winged helix domain found in Rho1 guanine nucleotide exchange factors RGF3 and TUS1 from fission and baker's yeast and related proteins. Both RGF3 and TUS1 stimulate the exchange of Rho1 GDP-bound form into GTP-bound form. RGF3 was found to regulate the beta-1,3-glucan biosynthesis and cell wall integrity during septation whereas TUS1 contributes to cell wall integrity-mediated modulation of RHO1 activity. The domain represented by this entry has a weak sequence similarity to known winged helix domains and it is predicted to adopt similar structure.
Pfam PF05626: Protein of unknown function (DUF790) (family)
This family consists of several hypothetical archaeal proteins of unknown 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 PF08126: Propeptide_C25 (family)
This is found at the N terminal end of some of the members of the C25 peptidase family (PF01364).  Little is known about the function of this motif.
Pfam PF18510: Nuclease domain (domain)
This is a nuclease (NUC) domain found in Cpf1, an RNA-guided endonuclease of a type V CRISPR-Cas system. Structural and functional analysis indicate that this domain is involved in DNA cleavage.
Pfam PF24799: Partner of xrn-2 protein 1-like, C-terminal domain (domain)
This domain is found at the C-terminal end of Partner of xrn-2 protein 1 from Caenorhabditis elegans (Paxt-1) and similar sequences from worms. Paxt-1 plays a role in maintenance of steady-state concentration and turnover of microRNAs (miRNA) by degradation of mature miRNA in complex with the exoribonuclease xrn-2. This domain is found associated to [pfam:PF11952] and is predicted to be organised into two similar alpha-beta structures.
Pfam PF12115: Salivary protein of 15kDa inhibits CD4+ T cell activation (family)
This is a family of 15kDa salivary proteins from Acari Arachnids that is induced on feeding and assists the parasite to remain attached to its arthropod host. By repressing calcium fluxes triggered by TCR engagement, Salp15 inhibits CD4+ T cell activation. Salp15 shows weak similarity to Inhibin A, a member of the TGF-beta superfamily that inhibits the production of cytokines and the proliferation of T cells.
Pfam PF24345: EVH1 domain-like (domain)
This domain is found in uncharacterised fungal proteins. It shares significant sequence similarity to known Pleckstrin homology domains (PH-domains), particularly to the EVH1 domain of the regulatory subunit 3 of Phosphoprotein phosphatase 4 PP4 (known as Falafel), and it is predicted to adopt similar structure.
Pfam PF13339: Apoptosis antagonizing transcription factor (family)
The N-terminal and leucine-zipper region of the apoptosis antagonizing transcription factor-Che1.
Pfam PF15236: Coiled-coil domain-containing protein 66 (coiled_coil)
This protein family, named Coiled-coil domain-containing protein 66 (CCDC) refers to a protein domain found in eukaryotes, and is approximately 160 amino acids in length. CCDC66 protein is detected mainly in the inner segments of photoreceptors in many vertebrates including mice and humans. It has been found in dogs, that a mutation in the CCDC66 gene causes generalized progressive retinal atrophy (gPRA). This shows that the protein encoded for by this gene is vital for healthy vision and guards against photoreceptor cell degeneration. The structure of CCDC66 proteins includes a heptad repeat pattern which contains at least one coiled-coil domain. There are at least two or more alpha-helices which form a cable-like structure.
Pfam PF17040: Cellulose-complementing protein A (family)
This is a family of bacterial cellulose-complementing protein A proteins necessary for cellulose biosynthesis.  Cellulose is necessary for biofilm formation in bacteria. (Roemling U.  and Galperin M.Y. "Bacterial cellulose biosynthesis. Diversity of operons and subunits" (manuscript in preparation)).
Pfam PF19847: Family of unknown function (DUF6322) (family)
This family of proteins, predominantly found in Caudovirales, is functionally uncharacterised. Proteins in this family are approximately 150 amino acids in length. There are conserved sequences: ETINSMDYNTGY at the N-terminal, WTG in the centre and TDTTS at the C-terminal.
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 PF05282: AAR2 C-terminal repeat region (repeat)
This family consists of several eukaryotic AAR2-like proteins. The yeast protein AAR2 is involved in splicing pre-mRNA of the a1 cistron and other genes that are important for cell growth.
Pfam PF08539: HbrB-like (domain)
HbrB is involved hyphal growth and polarity.
Pfam PF11913: Protein of unknown function (DUF3431) (family)
This family of proteins are functionally uncharacterised. This protein is found in eukaryotes. Proteins in this family are typically between 291 to 390 amino acids in length. This protein has a conserved NLRC sequence motif.
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 PF10926: Protein of unknown function (DUF2800) (family)
This is a family of uncharacterised proteins found in bacteria and viruses. Some members of this family are annotated as being Phi APSE P51-like proteins.
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 PF04195: Putative gypsy type transposon (family)
This family of plant genes are thought to be related to gypsy type transposons.
Pfam PF23848: Family of unknown function (DUF7212) (family)
This entry represents a small phage protein that is composed of two alpha helices. According to AlphaFold prediction this protein forms a confident head to tail oriented dimer, forming a four helix bundle. The function of these proteins 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 PF13160: Protein of unknown function (DUF3995) (family)
This family of proteins is functionally uncharacterised. This family of proteins is found in bacteria and eukaryotes. Proteins in this family are typically between 138 and 149 amino acids in length. There are two completely conserved residues (W and P) 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 PF10867: Protein of unknown function (DUF2664) (family)
This family of proteins is a viral family, annotated as UL96. Currently no function is known.
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 PF24198: Domain of unknown function (DUF7423) (domain)
This entry represents a family of uncharacterised mycobacterial phage proteins. The proteins have a domain that contains a four 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 PF04208: Tetrahydromethanopterin S-methyltransferase, subunit A (family)
The N5-methyltetrahydromethanopterin: coenzyme M ([ec:2.1.1.86]) of Methanosarcina mazei Go1 is a membrane-associated, corrinoid-containing protein that uses a transmethylation reaction to drive an energy-conserving sodium ion pump.
Pfam PF13590: Domain of unknown function (DUF4136) (domain)
This domain is found in bacterial lipoproteins. The function is not known.
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 PF05460: Origin recognition complex subunit 6 (ORC6) (family)
This family consists of several eukaryotic origin recognition complex subunit 6 (ORC6) proteins.  Despite differences in their structure and sequences among eukaryotic replicators, ORC is a conserved feature of replication initiation in all eukaryotes. ORC-related genes have been identified in organisms ranging from S. pombe to plants to humans. All DNA replication initiation is driven by a single conserved eukaryotic initiator complex termed he origin recognition complex (ORC). The ORC is a six protein complex. The function of ORC is reviewed in. This entry represents the N-terminal cyclin-like domain found in these proteins.
Wikipedia: Origin recognition complex subunit 6 is a protein that in humans is encoded by the ORC6 (ORC6L) gene.
Pfam PF12639: DNase/tRNase domain of colicin-like bacteriocin (domain)
Colicin-like bacteriocins are complex structures with an N-terminal beta-barrel translocation domain ([pfam:PF09000]), a long double-alpha-helical receptor-binding domain ([pfam:PF11570]) and this C-terminal RNAse/DNase domain with endonuclease activity. Their competitor bacteriocidal action is by a process that involves binding to a surface receptor, entering the cell, and, finally, killing it. The lethal action of colicin E3 is a specific cleavage in the ribosomal decoding A site. The crystal structure of colicin E3 reveals a Y-shaped molecule with the receptor binding domain forming a 100 Angstrom long stalk and the two globular heads of the translocation domain and this catalytic domain comprising the two arms.
Pfam PF11540: Cytoplasmic dynein 1 intermediate chain 2 (family)
Intermediate chain IC 2 forms part of the complex cytoplasmic dynein 1 along with a heavy chain (HC), two light intermediate chains (LICs) and three light chains (LCs). The complex is responsible for hydrolysing ATP to generate force toward the minus end of microtubules. IC binds to the HC via the N terminal binding domain on the HC and ICs contain binding sites for the LCs. The ICs are responsible for binding to kinetochores and the Golgi apparatus through an interaction with the p150Glued subunit of dynactin which is another complex.
Pfam PF16156: Domain of unknown function (DUF4864) (domain)
This family consists of uncharacterized proteins around 120 residues in length and is mainly found in various Anabaena and Nostoc species. Distant homology analysis suggests this family is related to NTF2-like proteins and specifically to proteins that bind small molecules.
Pfam PF00075: RNase H (domain)
RNase H digests the RNA strand of an RNA/DNA hybrid. Important enzyme in retroviral replication cycle, and often found as a domain associated with reverse transcriptases. Structure is a mixed alpha+beta fold with three a/b/a layers.
Wikipedia: Ribonuclease H is a family of non-sequence-specific endonuclease enzymes that catalyze the cleavage of RNA in an RNA/DNA substrate via a hydrolytic mechanism. Members of the RNase H family can be found in nearly all organisms, from bacteria to archaea to eukaryotes.
Pfam PF24237: INO80 complex subunit E (domain)
INO80 complex subunit E (INO80E) is specific to metazoa. is a putative regulatory component of the chromatin remodeling INO80 complex, which is involved in transcriptional regulation, DNA replication and probably DNA repair. Human INO80E is the orthologue of INO80 complex subunit 3 (Iec3) from S.pombe, however, they are represented in different models ([pfam:PF14612]).
Pfam PF09537: Domain of unknown function (DUF2383) (domain)
This domain is found in found in uncharacterised proteins predominantly from bacteria. The uncharacterised [swissprot:Q9I1U6] from Pseudomonas aeruginosa shows a ferritin-like topology with a four-helix-bundle fold that lacks metal-ion-binding site typical of the ferritin family ([pfam:PF00210]) but has a potential metal-binding site. The function 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 PF25120: Domain of unknown function (DUF7814) (domain)
This domain is found in uncharacterised bacterial proteins. It is predicted to fold into array of helices. It has similarity to helical domain found in MmeI restriction-modification enzymes.
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 PF11025: Glycoprotein GP40 of Cryptosporidium (domain)
This family is highly conserved in Cryptosporidium spp.  Many members are annotated as being a 60 kDa glycoprotein.
Pfam PF15835: Domain of unknown function (DUF4715) (family)
This family of proteins is found in eukaryotes. Proteins in this family are approximately 150 amino acids in length. The proteins are described as coiled-coil domain-containing protein ENSP00000299415-like.
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.