SII-SWORD/CoKE huggingface dataset:
Pfam PF11371: Protein of unknown function (DUF3172) (family)
This 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 PF18418: Ankyrin ubiquitin-binding domain (repeat)
This is an Ankyrin repeat domain found in TRABID (also known as Ubiquitin thioesterase ZRANB1) ([ec:3.4.19.12]). In TRABID, the first ankyrin repeat spans residues 260-290 and is connected to the second repeat residues 313-340 by a long linker that packs against what would correspond to the concave surface in an extended ankyrin-repeat structure. Ankyrin-repeat domains mediate protein interactions through a variety of surfaces. The ankyrin domain of TRABID interacts with ubiquitin, hence it is referred to as the ankyrin ubiquitin-binding domain, or AnkUBD.
Pfam PF08274: PhnA Zinc-Ribbon (domain)
This entry represents the N-terminal domain of YjdM, which is predicted to form a zinc-ribbon. YjdM is not involved in phosphonate metabolism .
Pfam PF24358: ABCC10 N-terminal domain (domain)
This domain is found N-terminal in the ABC transporter C family member 10 (ABCC10) from Arabidopsis thaliana and related proteins. This is a transmembrane domain whose function is unknown.
Pfam PF23573: PRDM15 C2H2 zinc finger domain (domain)
This C2H2 zinc finger domain is found in the human PR domain zinc finger protein 15 (PRDM15) and related proteins. PRDM15 is a sequence-specific DNA-binding transcriptional regulator that have essential roles in embryonic development and cell fate decisions. PRDM15 modulates the transcription of upstream regulators of WNT and MAPK-ERK signaling to safeguard naive pluripotency.
Pfam PF08424: NRDE-2, necessary for RNA interference (family)
This is a family of eukaryotic proteins.  Eukaryotic cells express a wide variety of endogenous small regulatory RNAs that regulate heterochromatin formation, developmental timing, defence against parasitic nucleic acids, and genome rearrangement. Many small regulatory RNAs are thought to function in nuclei, and in plants and fungi small interfering (si)RNAs associate with nascent transcripts and direct chromatin and/or DNA modifications. This family protein, NRDE-2, is required for small interfering (si)RNA-mediated silencing in nuclei. NRDE-2 associates with the Argonaute protein NRDE-3 within nuclei and is recruited by NRDE-3/siRNA complexes to nascent transcripts that have been targeted by RNA interference, RNAi, the process whereby double-stranded RNA (dsRNA) directs the sequence-specific degradation of mRNA.
Pfam PF04967: HTH DNA binding domain (domain)
Numerous bacterial transcription regulatory proteins bind DNA via a helix-turn-helix (HTH) motif. This entry represents the HTH DNA binding domain found in bacterioopsin transcriptional activator from Halobacterium salinarium (Halobacterium halobium)  and other proteins, mainly from Halobacteria.
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.
Pfam PF22814: Carrier-protein-independent halogenase WelO5 (family)
This entry represents the homologues of the carrier-protein-independent halogenase WelO5. This enzyme chlorinates C13 of 12-epi-fischerindole U to yield 12-epi-fischerindole G. This enzymatic transformation constitutes the first step in the oxidative maturation to welwitindolinones. WelO5 adopts a cupin-like fold that is also characteristic of Fe/2OG enzymes.
Pfam PF14528: LAGLIDADG-like domain (domain)
This domain is part of the LAGLIDADG superfamily.
Pfam PF20290: ABC-three component (ABC-3C) system Middle Component 4 (family)
Middle Components (MCs) of the ABC-3C biological conflict systems occupy the central position between the catalytic effector and ABC ATPases of the systems. MCs are defined by distinctive patterns of conserved charged residues. As some MCs are HTH domains, they are predicted to function akin to kleisins as DNA-binding partners for the ABC ATPases, assisting in recognition and responding to invasive elements such as DNA viruses.
Pfam PF20353: Family of unknown function (DUF6648) (family)
This family of proteins is functionally uncharacterised. This family of proteins is found in bacteria. Proteins in this family are approximately 180 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 PF21976: Small integral membrane protein 43 (family)
This protein family includes human Small integral membrane protein 43 (SMIM43) and similar sequences from vertebrates. This uncharacterised protein has been associated with HIV and hepatitis C infection as well as with brain tumours and probably with essential tremor, cerebellar atrophy and other disorders.
Pfam PF22576: Transcriptional cofactor Bfc (domain)
This domain is found in sequences from Drosophila sp., including the transcriptional cofactor Bfc ([[swissprot:Q9W0I5]], which adopts a C2-like fold. Bfc is a transcriptional cofactor involved in efferocytosis. Together with Srp mediates expression of the phagocytic receptor crq/croquemort in response to apoptotic cells, and is up-regulated by crq/croquemort in a positive feedback mechanism. Bfc is also involved in macrophage engulfment and clearance of apoptotic cells during embryogenesis.
Pfam PF13499: EF-hand domain pair (domain)
Many calcium-binding proteins belong to the same evolutionary family and share a type of calcium-binding domain known as the EF-hand. This type of domain consists of a twelve residue loop flanked on both sides by a twelve residue Î±-helical domain. In an EF-hand loop the calcium ion is coordinated in a pentagonal bipyramidal configuration. The six residues involved in the binding are in positions 1, 3, 5, 7, 9 and 12; these residues are denoted by X, Y, Z, -Y, -X and -Z. The invariant Glu or Asp at position 12 provides two oxygens for liganding Ca (bidentate ligand). Ca2 binding induces a conformational change in the EF-hand motif, leading to the activation or inactivation of target proteins. EF-hands tend to occur in pairs or higher copy numbers .
Wikipedia: The EF hand is a helix–loop–helix structural domain or motif found in a large family of calcium-binding proteins.
Pfam PF19621: Family of unknown function (DUF6126) (family)
This entry represents a member of a biosynthetic gene cluster (BGC). This BGC (BGC0000663) is described by MIBiG as an example of the following biosynthetic class, terpene. It includes a member from the hopene biosynthetic gene cluster from Streptomyces coelicolor A3(2) and 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 PF09402: Man1-Src1p-C-terminal domain (domain)
MAN1 is an integral protein of the inner nuclear membrane which binds to chromatin associated proteins and plays a role in nuclear organisation.  The C terminal nucleoplasmic region forms a DNA binding winged helix and binds to Smad. This C-terminal tail is also found in S. cerevisiae and is thought to consist of three conserved helices followed by two downstream strands.
Pfam PF21972: Nuclear-export cofactor Arc1p (domain)
This is the N-terminal domain of nuclear-export cofactor Arc1p (Arc1p-N). Arc1p-N and GluRS-N are known to be necessary and sufficient for formation of the yeast aaRS complex in vivo and in vitro. They are likely to form a stable complex with each other. Arc1p-N adopts a fold similar to the C-terminal domain of glutathione S-transferase (GST-C).
Pfam PF07700: Haem-NO-binding (domain)
The HNOB (Haem NO Binding) domain, is a predominantly alpha-helical domain and binds heme via a covalent linkage to histidine. It is a haem protein sensor (SONO) that displays femtomolar affinity for nitrous oxide, NO. It is predicted to function as a haem-dependent sensor for gaseous ligands and to transduce diverse downstream signals in both bacteria and animals.
Pfam PF13567: Domain of unknown function (DUF4131) (domain)
This domain is frequently found to the N-terminus of the Competence domain, [pfam:PF03772].
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 PF23481: TMEM132 second Ig-like domain (domain)
This entry represents the second Ig-like domain found in 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 (ARC) to finely modulate actin nucleation, cellular cytoskeletal and morphological changes. TMEM132D member has been associated with panic disorders, anxiety and major depressive disorders.
Pfam PF05677: Chlamydia CHLPS protein (DUF818) (family)
This family consists of several Chlamydia CHLPS proteins, the function of which are 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 PF14391: Domain of unknown function (DUF4421) (family)
This family of proteins is functionally uncharacterised. This family of proteins is found in bacteria. Proteins in this family are typically between 336 and 370 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 PF24379: Family of unknown function (DUF7535) (family)
This family includes a group of proteins from archaea. Members are predicted to adopt an alpha structure.
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 PF09438: Domain of unknown function (DUF2017) (domain)
This is an alpha-helical domain found in gene neighborhoods that contain genes encoding ubiquitin, cysteine synthases and JAB peptidases.
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 PF14633: SH2 domain (domain)
This entry represents the SH2 domain found in Spt6.
Spt6 is an essential transcription elongation factor and histone chaperone that binds the C-terminal repeat domain (CTD) of RNA polymerase II . Spt6 contains a tandem SH2 domain with a novel structure and CTD-binding mode. The tandem SH2 domain binds to a serine 2-phosphorylated CTD peptide in vitro, whereas its N-terminal SH2 subdomain does not. CTD binding requires a positively charged crevice in the C-terminal SH2 subdomain, which lacks the canonical phospho-binding pocket of SH2 domains. The tandem SH2 domain is apparently required for transcription elongation in vivo as its deletion in cells is lethal in the presence of 6-azauracil. In general SH2 domains are involved in signal transduction. They typically bind pTyr-containing ligands via two surface pockets, a pTyr and hydrophobic binding pocket, allowing proteins with SH2 domains to localize to tyrosine phosphorylated sites .
Wikipedia: The SH2 domain is a structurally conserved protein domain contained within the Src oncoprotein and in many other intracellular signal-transducing proteins. SH2 domains bind to phosphorylated tyrosine residues on other proteins, modifying the function or activity of the SH2-containing protein. The SH2 domain may be considered the prototypical modular protein-protein interaction domain, allowing the transmission of signals controlling a variety of cellular functions. SH2 domains are especially common in adaptor proteins that aid in the signal transduction of receptor tyrosine kinase pathways.
Pfam PF11446: Protein of unknown function (DUF2897) (family)
This is a bacterial family of uncharacterised 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 PF15608: PELOTA RNA binding domain (domain)
This RNA binding Pelota domain is at the C-terminus of a PRTase family. These PRTase+Pelota genes are found in the biosynthetic  operon associated with the Ter stress-response operon and are  predicted to be involved in the biosynthesis of a ribo-nucleoside  involved in stress response.
Pfam PF22907: Alpha-mannosidase, jelly roll domain (domain)
This domain is found at the N-terminal end of Alpha-mannosidase 2C1 from Schizosaccharomyces pombe (Ams1) and similar sequences mainly from eukaryota and some species from actinomycetes. Ams1 hydrolyse terminal alpha-linked mannoses in free oligosaccharides released from misfolded glycoproteins or lipid-linked oligosaccharide donors. This entry represents the jelly-roll domain.
Pfam PF00870: P53 DNA-binding domain (domain)
This family contains one anomalous member, viz: Zea mays (Q6JAD8). This sequence is identical to human P53 and would appear to be a a human contaminant within the Zea mays sampling effort.
Wikipedia: 
p53, also known as Tumor protein P53, cellular tumor antigen p53, or transformation-related protein 53 (TRP53) is a regulatory protein that is often mutated in human cancers. The p53 proteins are crucial in vertebrates, where they prevent cancer formation. As such, p53 has been described as "the guardian of the genome" because of its role in conserving stability by preventing genome mutation. Hence TP53 is classified as a tumor suppressor gene.
Pfam PF18912: Double zinc ribbon domain (domain)
This domain family is found in bacteria, archaea and eukaryotes, and is approximately 60 amino acids in length. The family is found in association with [pfam:PF00156]. This entry corresponds to two zinc ribbon motifs. This domain is found at the N-terminus of the ComF operon protein 3.
Pfam PF24918: NET2A, C-terminal domain (domain)
This domain is found at the C-terminal end of Protein NETWORKED 2A from Arabidopsis thaliana (NET2A) and similar plant proteins. NET2A is an actin binding protein that associates with F-actin at the plasma membrane in growing pollen tubes. This domain is predicted to have an all-alpha helical configuration.
Pfam PF00180: Isocitrate/isopropylmalate dehydrogenase (domain)
The isocitrate and isopropylmalate dehydrogenases family includes isocitrate dehydrogenase (IDH), 3-isopropylmalate dehydrogenase (IMDH) and tartrate dehydrogenase.

IDH is an important enzyme of carbohydrate metabolism which catalyses the oxidative decarboxylation of isocitrate into alpha-ketoglutarate . IDH is either dependent on NAD+ (1.1.1.41) or on NADP+ (1.1.1.42). In eukaryotes there are at least three isozymes of IDH: two are located in the mitochondrial matrix (one NAD+-dependent, the other NADP+-dependent), while the third one (also NADP+-dependent) is cytoplasmic. In Escherichia coli, the activity of a NADP+-dependent form of the enzyme is controlled by the phosphorylation of a serine residue; the phosphorylated form of IDH is completely inactivated.

IMDH (1.1.1.85) catalyses the third step in the biosynthesis of leucine in bacteria and fungi, the oxidative decarboxylation of 3-isopropylmalate into 2-oxo-4-methylvalerate .
This entry represents a structural domain found in all types of isocitrate dehydrogenase, and in isopropylmalate dehydrogenase and tartrate dehydrogenase. The crystal structure of Escherichia coli isopropylmalate dehydrogenase has been described .
Wikipedia: In molecular biology, the isocitrate/isopropylmalate dehydrogenase family is a protein family consisting of the evolutionary related enzymes isocitrate dehydrogenase, 3-isopropylmalate dehydrogenase and tartrate dehydrogenase.
Pfam PF14039: YusW-like protein (family)
The YusW-like protein family includes the B. subtilis YusW protein [swissprot:O32189], which is functionally uncharacterised. This family of proteins is found in bacteria, and is approximately 90 amino acids in length.
Pfam PF04115: Ureidoglycolate lyase (domain)
Ureidoglycolate lyase ([ec:4.3.2.3]) is one of the enzymes that acts upon ureidoglycolate, an intermediate of purine catabolism, releasing urea. The enzyme has in the past been wrongly assigned to [ec:3.5.3.19], enzymes which release ammonia from ureidoglycolate.
Pfam PF11782: Protein of unknown function (DUF3319) (family)
This is a family of short bacterial proteins, a few of which are annotated as being minor tail protein. Otherwise 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 PF17415: NigD-like C-terminal beta sandwich domain (domain)
This family of proteins is functionally uncharacterised. This family of proteins is found in Bacteroides species. Proteins in this family are typically between 234 and 260 amino acids in length. These proteins possess an N-terminal lipoprotein attachment site. The family includes NigD a protein found in the Nig operon that encodes a bacteriocin called nigrescin. It has been suggested that NigD may be the immunity protein for nigrescin (NigC) because it is directly downstream. This entry represents the C-terminal beta-sandwich domain of NigD.
Pfam PF19470: Family of unknown function (DUF6007) (family)
This entry represents a member of a biosynthetic gene cluster (BGC). This BGC (BGC0000758) is described by MIBiG as an example of the following biosynthetic class, saccharide. This family includes a  protein from the capsular polysaccharide biosynthetic gene cluster  from Staphylococcus aureus
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 PF05946: Toxin-coregulated pilus subunit TcpA (family)
This family consists of toxin-coregulated pilus subunit (TcpA) proteins from Vibrio cholerae and related sequences. The major virulence factors of toxigenic Vibrio cholerae are cholera toxin (CT), which is encoded by a lysogenic bacteriophage (CTXPhi), and toxin-coregulated pilus (TCP), an essential colonisation factor which is also the receptor for CTXPhi. The genes for the biosynthesis of TCP are part of a larger genetic element known as the TCP pathogenicity island.
Pfam PF14915: CCDC144C protein coiled-coil region (coiled_coil)
This family includes the human protein CCDC144C and the ankyrin repeat domain-containing protein 26-like 1 found in eukaryotes. Its function remains unknown, however, it is known to contain a coiled-coil domain which corresponds to this region. The ankyrin repeat which features in the ANKRD26 protein is a common amino acid motif.
Pfam PF22472: Argonaute, N-terminal domain (domain)
This domain is found at the N-terminal end of Protein argonaute from Thermus thermophilus (Ago), a site-specific DNA-guided endoRNase organised into four domain: N (this entry), PAZ ([pfam:PF18309]), Mid and PIWI ([pfam:PF02171]). This domain shows a mixed alpha-beta structure.
Pfam PF08715: Coronavirus papain-like peptidase (family)
This entry contains coronavirus cysteine endopeptidases that belong to MEROPS peptidase family C16 and are required for proteolytic processing of the replicase polyprotein. All coronaviruses encode between one and two accessory cysteine proteinases that recognise and process one or two sites in the amino-terminal half of the replicase polyprotein during assembly of the viral replication complex. HCoV and TGEV encode two accessory proteinases, called coronavirus papain-like proteinase 1 and 2 (PL1-PRO and PL2-PRO). IBV and SARS encodes only one called PL-PRO. They also function as deubiquitinating and deISG15ylating (interferon-induced gene 15) enzymes, disrupting host viral immune response to facilitate viral proliferation and replication. Therefore, this is an important target to develop antiviral treatments. The peptidase family C16 domain is about 260 amino acids in length and structures revealed that it adopts a fold similar that of de-ubiquitinating enzymes. Structures from SARS-CoV-2 determined that it consists of thumb, palm, and fingers subdomains. The thumb is comprised of six alpha-helices and a small beta-hairpin; the fingers subdomain is made of six beta-strands and two alpha-helices and includes a zinc binding site, in which the zinc ion is coordinated by four cysteine residues. Zinc binding is essential for structural integrity and protease activity, with a conformation that varies most between different PL-PRO structures. The palm subdomain is comprised of six beta-strands and includes the catalytic residues Cys-His-Asp, located at the interface between the thumb and palm subdomains.