SII-SWORD/CoKE huggingface dataset:
Pfam PF06465: CHD subfamily II, DUF1087 (domain)
This domain is found in chromatin remodelling factors (CHDs) from subfamily II including CHD3/4/5 from animals and PICKLE. from Arabidopsis. The exact function is, as yet, 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 PF08405: Viral polyprotein N-terminal (family)
This domain is found at the N-terminus of non-structural viral polyproteins of the Caliciviridae subfamily.
Pfam PF18573: BclA C-terminal domain (domain)
This is the C-terminal domain of BclA (Bacillus collagen-like protein of anthracis) which is expressed on spores of Bacillus species. Trimers of the C-terminal domain (CTD) form the tips of the spore's hair-like nap and are the immunodominant target of vertebrate antibodies and drive trimerization. Structure analysis indicate the C-terminal region of the peptide folding into an all-beta structure with a jelly-fold topology, similar to the first human complement C1q, a member of the tumor necrosis factor (TNF)-like family. The C-terminal globular domain has been shown to be located on the exterior of the exosporium, and therefore is critical in determining the immunogenicity of the spore in a mammalian host.
Pfam PF02786: Carbamoyl-phosphate synthase L chain, ATP binding domain (domain)
Carbamoyl-phosphate synthase catalyses the ATP-dependent synthesis of carbamyl-phosphate from  glutamine or ammonia and bicarbonate.  This  important enzyme initiates both the urea cycle and the biosynthesis  of arginine and/or pyrimidines. The carbamoyl-phosphate synthase (CPS) enzyme in prokaryotes is a  heterodimer of a small and large chain.  The small chain promotes the hydrolysis of glutamine to ammonia, which is used by the large chain to synthesise carbamoyl phosphate. See [pfam:PF00988]. The small chain has a GATase domain in the carboxyl terminus. See [pfam:PF00117]. The ATP binding domain (this one) has an ATP-grasp fold.
Wikipedia: Carbamoyl phosphate synthetase catalyzes the ATP-dependent synthesis
of carbamoyl phosphate from glutamine or ammonia and bicarbonate. This ATP-grasp enzyme catalyzes the reaction of ATP and bicarbonate to produce carboxy phosphate and ADP. Carboxy phosphate reacts with ammonia to give carbamic acid. In turn, carbamic acid reacts with a second ATP to give carbamoyl phosphate plus ADP.
Pfam PF08934: Rb C-terminal domain (domain)
The Rb C-terminal domain is required for high-affinity binding to E2F-DP complexes and for maximal repression of E2F-responsive promoters, thereby acting as a growth suppressor by blocking the G1-S transition of the cell cycle. This domain has a strand-loop-helix structure, which directly interacts with both E2F1 and DP1, followed by a tail segment that lacks regular secondary structure.
Pfam PF06469: Neurobeachin-like, DUF1088 (domain)
This domain is found in the neurobeachins (NBEAs) and BEACH domain containing proteins (BDCPs). NBEAS are localised near Golgi apparatus and is involved in vesicular trafficking, intracellular transport, membrane dynamics, endosomal recycling, and receptor signalling. BDCPs are associated with lysosome size, apoptosis, autophagy, granule size, or synapse formation. Mutations in this domain have been related to autosomal recessively inherited lipopolysaccharide-responsive beige-like anchor (LRBA) protein deficiency, responsible for common variable immunodeficiency (CVID) and autoimmune lymphoproliferative syndrome (ALPS). NBEAs deficiency may induce spine loss with defects in synaptic efficacy and plasticity, being associated with autism spectrum disorder (ASD) and ASD-related syndromes.
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 PF18526: Thymine dioxygenase JBP1 DNA-binding domain (domain)
The J-binding protein 1 (JBP1) is essential for biosynthesis and maintenance of DNA base-J (beta-d-glucosyl-hydroxymethyluracil). Base-J and JBP1 are confined to some pathogenic protozoa and are absent from higher eukaryotes, prokaryotes and viruses. JBP1 recognizes J-containing DNA (J-DNA) through the DNA-Binding JBP1 domain (DB-JBP1), which binds to J-DNA with approximately the same affinity and specificity as full-length JBP1. Structure analysis of DB-JBP1 revealed a helix-turn-helix variant fold, a 'helical bouquet' with a 'ribbon' helix encompassing the amino acids responsible for DNA binding. Mutation of a single residue (Asp525) in the ribbon helix abrogates specificity toward J-DNA.
Pfam PF13829: Domain of unknown function (DUF4191) (family)
This protein family is functionally uncharacterised.
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 PF24758: FBD-associated F-box protein At5g56370, LRR repeats (repeat)
This entry represents the leucine-rich repeats (LRR) found in FBD-associated F-box protein At5g56370 from Arabidopsis thaliana and similar plant proteins.
Pfam PF01791: DeoC/LacD family aldolase (domain)
This family includes diverse aldolase enzymes.  This family includes the enzyme deoxyribose-phosphate aldolase [ec:4.1.2.4], which is involved in nucleotide metabolism. The family also includes a group of related bacterial proteins of unknown function, see examples [swissprot:Q57843] and [swissprot:P76143].  The family also includes tagatose 1,6-diphosphate aldolase ([ec:4.1.2.40]) is part of the tagatose-6-phosphate pathway of galactose-6-phosphate degradation.
Pfam PF10879: Protein of unknown function (DUF2674) (family)
This family of proteins with unknown function appears to be conserved to Rickettsia spp.
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 PF03805: Cytoadherence-linked asexual protein (family)
Clag (cytoadherence linked asexual gene) is a malaria surface protein which has been shown to be involved in the binding of Plasmodium falciparum infected erythrocytes to host endothelial cells, a process termed cytoadherence. The cytoadherence phenomenon is associated with the sequestration of infected erythrocytes in the blood vessels of the brain, cerebral malaria. Clag is a multi-gene family in Plasmodium falciparum with at least 9 members identified to date.  Orthologous proteins in the rodent malaria species Plasmodium chabaudi (Lawson D Unpubl. obs.) suggest that the gene family is found in other malaria species and may play a more generic role in cytoadherence.
Pfam PF16439: Domain of unknown function (DUF5036) (family)
This family consists of several uncharacterized proteins around 240 residues in length and is mainly found in various Bacteroides and Parabacteroides species. The function of this family is unknown.
Wikipedia: A domain of unknown function (DUF) is a protein domain that has no characterised function. These families have been collected together in the Pfam database using the prefix DUF followed by a number, with examples being DUF2992 and DUF1220. As of 2019, there are almost 4,000 DUF families within the Pfam database representing over 22% of known families. Some DUFs are not named using the nomenclature due to popular usage but are nevertheless DUFs.
Pfam PF22909: Caulimovirus coat protein, conserved domain (domain)
This is a conserved domain found in Cauliflower mosaic virus coat protein. Caulimoviruses are encapsidated plant viruses that contain circular double-stranded DNA. The viral coat proteins contain a fairly hydrophilic N-terminal region and a highly-basic C-terminal domain, which may be involved in DNA-binding. This domain may adopt an all-helical structure.
Pfam PF14196: L-2-amino-thiazoline-4-carboxylic acid hydrolase (family)
This family of enzymes catalyses the conversion of L-2-amino-delta2-thiazoline-4-carboxylic acid (L-ATC) to N-carbamoyl-L-cysteine. It cleaves the carbon-sulphur bond in the ring structure of L-ATC to produce N-carbamoyl-L-cysteine.
Pfam PF15374: Coiled-coil domain-containing protein 71L (coiled_coil)
The protein family, Coiled-coil domain-containing protein 71L, is a domain of unknown function, which is found in eukaryotes.
Pfam PF17403: Nrap protein PAP/OAS-like domain (domain)
Members of this family are nucleolar RNA-associated proteins (Nrap) which are highly conserved from yeast (Saccharomyces cerevisiae) to human. In the mouse, Nrap is ubiquitously expressed and is specifically localised in the nucleolus. Nrap is a large nucleolar protein (of more than 1000 amino acids). Nrap appears to be associated with ribosome biogenesis by interacting with pre-rRNA primary transcript.
Pfam PF12125: D domain of beta-TrCP (domain)
This domain is found in eukaryotes, and is approximately 40 amino acids in length. It is found associated with [pfam:PF00646], [pfam:PF00400]. The protein that contains this domain functions as a ubiquitin ligase. Ubiquitination is required to direct proteins towards the proteasome for degradation. This protein is part of the WD40 class of F box proteins. The D domain of these F box proteins is involved in mediating the dimerisation of the protein.  Dimerisation is necessary to polyubiquitinate substrates so this D domain is vital in directing substrates towards the proteasome for degradation.
Pfam PF06394: Pepsin inhibitor-3-like repeated domain (domain)
Pepsin inhibitor-3 consisting of two domains, each comprising an antiparallel beta-sheet flanked by  an alpha-helix. In the enzyme-inhibitor complex, the  N-terminal beta-strand of PI-3 pairs with one strand  of the active site flap region of pepsin. The two domains are tandem repeats of sequence, and has therefore been termed repeated domain.
Pfam PF14613: HAM1-like, C-terminal domain (domain)
This is a domain found at the C-terminal end of the putative cell signalling protein HAM1 from Cryptococcus neoformans and similar fungal sequences. HAM1 may act as a negative regulator of mating during vegetative growth. Proteins with this domain often also contain an N-terminal domain [pfam:PF19343]. The member [swissprot:Q7SB48], named HAM-13, is thought to associate with MAPKs and to be required for proper cell communication but it is also possible to be involved in other processes such as cell signalling or trafficking.
Pfam PF06011: Transient receptor potential (TRP) ion channel (family)
This family of proteins are transient receptor potential (TRP) ion channels.              They are essential for cellular viability and are involved in cell growth and cell wall synthesis.  The genes for these proteins are homologous to polycystic kidney disease related ion channel genes.
Wikipedia: TRPV is a family of transient receptor potential cation channels in animals. All TRPVs are highly calcium selective.
Pfam PF18725: SAV2148-like HEPN (domain)
SAV2148-like HEPN nuclease domain.
Pfam PF08388: Group II intron, maturase-specific domain (family)
This region is found mainly in various bacterial and archaeal species, but a few members of this family are expressed by fungal and chlamydomonal species. It has been implicated in the binding of intron RNA during reverse transcription and splicing.
Wikipedia: Group II introns are a large class of self-catalytic ribozymes and mobile genetic elements found within the genes of all three domains of life. Ribozyme activity can occur under high-salt conditions in vitro. However, assistance from proteins is required for in vivo splicing. In contrast to group I introns, intron excision occurs in the absence of GTP and involves the formation of a lariat, with an A-residue branchpoint strongly resembling that found in lariats formed during splicing of nuclear pre-mRNA. It is hypothesized that pre-mRNA splicing may have evolved from group II introns, due to the similar catalytic mechanism as well as the structural similarity of the Group II Domain V substructure to the U6/U2 extended snRNA. Finally, their ability to site-specifically insert into DNA sites has been exploited as a tool for biotechnology. For example, group II introns can be modified to make site-specific genome insertions and deliver cargo DNA such as reporter genes or lox sites
Pfam PF08325: WLM domain (domain)
This is a predicted metallopeptidase domain called WLM (Wss1p-like metalloproteases).  These are linked to the Ub-system by virtue of fusions with the UB-binding PUG (PUB), Ub-like, and Little Finger domains. More specifically, genetic evidence implicates the WLM family in de-SUMOylation.
Pfam PF02826: D-isomer specific 2-hydroxyacid dehydrogenase, NAD binding domain (domain)
This domain is inserted into the catalytic domain, the large dehydrogenase and D-lactate dehydrogenase families in SCOP. N-terminal portion of which is represented by family [pfam:PF00389].
Pfam PF24110: Family of unknown function (DUF7385) (family)
This entry represents a small group of archaeal sequences whose 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 PF06873: Cell surface immobilisation antigen SerH (family)
This family consists of several cell surface immobilisation antigen SerH proteins which seem to be specific to Tetrahymena thermophila. The SerH locus of Tetrahymena thermophila is one of several paralogous loci with genes encoding variants of the major cell surface protein known as the immobilisation antigen (i-ag).
Pfam PF04988: A-kinase anchoring protein 95 (AKAP95) (family)
A-kinase (or PKA)-anchoring protein AKAP95 is implicated in mitotic  chromosome condensation by acting as a targeting molecule for the  condensin complex. The protein contains two zinc fingers which are thought to mediate the binding of AKAP95 to DNA.
Pfam PF25092: KIN17 C-terminal SH3 domain (domain)
This entry represents the SH3 domain of KIN17, found at the very C-terminal of these proteins. KIN17 is an essential nuclear protein that functions in DNA replication, DNA repair and cell cycle control. This domain contains the KOW motif, involved in RNA binding.
Pfam PF20816: Picobirnavirus, Capsid protein (family)
Picobirnaviruses have a unique layer with icosahedral architecture consisting of 60 quasi-symmetric dimers of a its Capsid protein (CP). This protein is organized into two domains, a shell (S) domain that contains all of the alpha-helices and two beta-sheets, and a projecting (P) domain that includes the remaining beta-sheets. The dimer is stabilised by domain swapping.
Pfam PF19482: Family of unknown function (DUF6018) (family)
This entry represents a member of a biosynthetic gene cluster (BGC). This BGC (BGC0000320) is described by MIBiG as an example of the following biosynthetic class, NRP (non-ribosomal peptide). This  family includes a protein from the cereulide biosynthetic gene  cluster from Bacillus cereus and appears to be predominantly found  in Bacilli.
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 PF08693: SKG6 family (family)
SKG6/Axl2 are membrane proteins that show polarised intracellular localisation. SKG6_Tmem is the highly conserved transmembrane alpha-helical domain of SKG6 and Axl2 proteins,. The full-length fungal protein has a negative regulatory function in cytokinesis.
Pfam PF22966: Integrator complex subunit 7, C-terminal domain in plants (domain)
This entry represents a C-terminal domain found in the putative Integrator complex subunit 7 (INTS7) from plants. INTS7 is a component of the integrator complex, a complex that is recruited to the U1 and U2 snRNA genes and mediates the snRNAs' 3' end processing. The integrator complex interacts with the C-terminal tail of the largest subunit of RNA-polymerase II to promote 3'-snRNA processing.
Pfam PF06513: Repeat of unknown function (DUF1103) (disordered)
This family consists of several repeats of around 30 residues in length which are found specifically in mature-parasite-infected erythrocyte surface antigen proteins from Plasmodium falciparum. This family often found in conjunction with [pfam:PF00226].
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 PF08890: Phage XkdN-like tail assembly chaperone protein, TAC (family)
This is a family of phage tail assembly chaperone proteins, TACs, from Gram-positive bacteriophages, in particular PBSX from Firmicutes.
Pfam PF21480: PlyCA, N-terminal domain (domain)
This domain is found at the N-terminal end of PlyCA from Streptococcus virus C1, the catalytic subunit of the potent lysin PlyC that is specific for streptococcal species. PlyCA contains three distinct domains. This domain, which folds into a loose bundle of alpha- helices, is considered as a putative glycosyl hydrolase (GyH) domain, as it has similarity to class IV family 19 chitinases.
Pfam PF08377: MAP2/Tau projection domain (family)
This domain is found in the MAP2/Tau family of proteins which includes MAP2, MAP4, Tau, and their homologs.  All isoforms contain a conserved C-terminal domain containing tubulin-binding repeats ([pfam:PF00418]), and a N-terminal projection domain of varying size.  This domain has a net negative charge and exerts a long-range repulsive force.  This provides a mechanism that can regulate microtubule spacing which might facilitate efficient organelle transport.
Pfam PF13287: Fn3 associated (domain)
The entry represents a Fn3 (fibronectin type III) associated repeat. This repeat is found in several glycosyl hydrolase families of proteins such as a glycoside hydrolase T2KM09 that may be involved in ulvan degradation  or endoglucanase, which is responsible for the endohydrolysis of (1->4)-beta-D-glucosidic linkages in cellulose, lichenin and cereal beta-D-glucans .
Pfam PF12568: Acetyltransferase (GNAT) domain, PanZ (domain)
This domain family is found in bacteria, and is approximately 40 amino acids in length. The proteins in this family are members of the acetyltransferases of the GNAT family. Family members such as PanZ has been shown to be involved in the biosynthesis of Coenzyme A (CoA). CoA is a ubiquitous and essential cofactor, synthesized from the precursor pantothenate. In all organisms, the final step in pantothenate biosynthesis relies on the presence of beta-alanine, which comes from different sources in bacteria, yeast, and plants. In bacteria, beta-alanine is derived by the action of alpha-decarboxylase (ADC) enzyme. PanZ promotes the activation of the zymogen, PanD, to form aspartate alpha-decarboxylase (ADC) in a CoA-dependent manner. Thereby, playing an essential role in the biosynthetic pathway to pantothenate and the regulation of CoA biosynthesis. Structure and function studies show that direct interaction of PanD with the PanZ Arg43-Leu46 loop promotes PanD to adopt a reactive conformation, which leads to activation.
Pfam PF18987: Family of unknown function (DUF5720) (family)
This is a family of unknown function, mostly found in bacteria.
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 PF14820: Small proline-rich 2 (family)
This family of small proteins is rich in proline, cysteine and glutamate. They contain a tandemly repeated nonamer, PKCPEPCPP. They are components of the cornified envelope of keratinocytes.
Pfam PF25020: Teneurin TTR-like domain (domain)
This entry represents the transthyretin-like (TTR-like) domain found in teneurins, ancient cell-cell adhesion receptors that are vital for brain development and synapse organisation.
Pfam PF11558: Het-s 218-289 (conserved_site)
This family of proteins is residues 218-289 of Het-s, a protein of Podospora anserina. Het-s plays a role in heterokaryon incompatibility which prevents different forms of parasitism. This region of the protein is the C-terminal end and is unstructured in solution but forms infectious fibrils in vitro which has a structure consisting of a left-handed beta solenoid which contains two windings per molecule.
Pfam PF16678: HOIP UBA domain pair (family)
HOIP-UB is a binding domain on E3 ubiquitin-protein ligase RNF31 like proteins.  E3 ubiquitin-protein ligase RNF31 is often referred to as HOIL-1L binding partner. The interaction of HOIL-1L and HOIP is thus via the UBL-UBA interaction. this interaction is important in E3 complex formation and the subsequent activation of NF-kappaB. This family contains two UBA-like domains.
Pfam PF12394: Protein FAM135 (family)
This domain family is found in eukaryotes, and is approximately 60 amino acids in length. The family is found in association with [pfam:PF05057].
Pfam PF08027: Albumin I chain b (domain)
The albumin I protein, a hormone-like peptide, stimulates kinase activity upon binding a membrane bound 43 kDa receptor. The structure of this domain (chain b) reveals a knottin like fold, comprise of three beta strands.
Wikipedia: Albumin I (PA1b) is a hormone-like peptide found in the seeds of legumes such as the pea plant or soya bean which have been shown to have insecticidal properties. 
It stimulates kinase activity upon binding a membrane bound 43 kDa receptor within the plant which affects cell proliferation.
The structure reveals an inhibitor cystine knot (knottin)-like fold, comprising three beta strands.