SII-SWORD/CoKE huggingface dataset:
Pfam PF14356: Domain of unknown function (DUF4403) (family)
This family of proteins is functionally uncharacterised. This family of proteins is found in bacteria. Proteins in this family are typically between 455 and 518 amino acids in length. There is a single completely conserved residue W 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 PF18930: Domain of unknown function (DUF5679) (domain)
This family of domains is found in bacteria, archaea, eukaryotes and viruses. Proteins in this family are typically between 48 and 68 amino acids in length. These domains contain four conserved cysteines suggesting that this domain is zinc binding
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 PF19551: Family of unknown function (DUF6074) (family)
This entry represents a member of a biosynthetic gene cluster (BGC). This BGC (BGC0001765) is described by MIBiG as an example of the following biosynthetic class, saccharide. This family includes a  protein from the salecan biosynthetic gene cluster from  Agrobacterium tumefaciens and appears to be predominantly found in  Rhizobiales.
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 PF20625: USP8 WW domain (domain)
This divergent WW domain is found in the USP8 protein where it has been shown to be involved in auto-inhibition. Release of autoinhibition may underlie Cushing's disease caused by USP8 mutations.
Pfam PF17901: EF-hand fold domain (domain)
This domain is found in Dd-STATa, a STAT protein (Signal transducer and activator of transcription A) which transcriptionally regulates cellular differentiation in Dictyostelium discoideum. The EF-hand domains predicted to contain several basic residues that lie close to the DNA backbone.
Pfam PF13009: Putative integrase (family)
This family represents putative integrases found in association with IS elements.
Pfam PF03529: Otx1 transcription factor (family)
Otx proteins constitute a class of vertebrate homeodomain-containing transcription factors that have been shown to be essential for anterior head formation, including brain morphogenesis. They are orthologous to the product of the Drosophila head gap gene, orthodenticle (Otd), and appear to play similar roles in both, since the developmental abnormalities caused by disruption of these transcription factors in one, can be recovered by substitution of the factor(s) from the other. Such studies have provided strong evidence that there exists a conserved genetic programme for insect and mammalian brain development, which presumably arose in a more primitive common ancestor .

Two vertebrate orthodenticle-related transcription factors have been indentified, Otx1 and Otx2, which have sizes of 355 and 289 residues respectively. They contain a bicoid-like homeodomain, which features a conserved lysine residue at position 9 of the DNA recognition helix, which is thought to confer high-affinity binding to TAATCC/T elements on DNA . Otd-like transcription factors have also been found in zebrafish and certain lamprey species.
Pfam PF20178: Dermonecrotic toxin, N-terminal domain (domain)
This entry represents the N-terminal domain of bacterial proteins, such as the dermonecreotic toxin (ToxA) from Pasteurella multocida, an osteolytic toxin that induces bone resorption. It is a potent mitogen. This toxin is associated with the severe progressive form of the atrophic rhinitis a major respiratory disease in pigs. This domain contributes to the membrane localisation of its C-terminal domains.
Pfam PF01742: Clostridial neurotoxin zinc protease (family)
These toxins are zinc proteases that block neurotransmitter release by proteolytic cleavage of synaptic proteins such as synaptobrevins, syntaxin and SNAP-25.
Pfam PF10079: Bacillithiol biosynthesis BshC, N-terminal Rossmann-like domain (domain)
This entry represents the N-terminal Rossmann-like domain of the bacillithiol biosynthesis protein BshC from Bacillus subtilis, which has been described as a cysteine-adding enzyme.
Pfam PF23239: Domain of unknown function (DUF7069) (domain)
This domain of unknown function is found in a fro up of fungal proteins. It is often N-terminal to several copies of ankyrin repeats. It is predicted to adopt an alpha-helical configuration.
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 PF20991: Nuclear cap binding complex subunit CBP66 N-terminal domain (domain)
This entry represents the N-terminal domain of the CBP66 component of the trypanasome nuclear cap binding complex. Trypanosomes have a different cap 4 structure for mRNAs. CBP66 is part of the complex that recognises this cap. This domain adopts an RRM-like structure.
Pfam PF05557: Mitotic checkpoint protein (coiled_coil)
This family consists of several eukaryotic mitotic checkpoint (Mitotic arrest deficient or MAD) proteins. The mitotic spindle checkpoint monitors proper attachment of the bipolar spindle to the kinetochores of aligned sister chromatids and causes a cell cycle arrest in prometaphase when failures occur. Multiple components of the mitotic spindle checkpoint have been identified in yeast and higher eukaryotes. In S.cerevisiae, the existence of a Mad1-dependent complex containing Mad2, Mad3, Bub3 and Cdc20 has been demonstrated.
Pfam PF04343: Domain of unknown function DUF488 (domain)
This entry has been described to include subclades of DUF488 domains (namely DUF488-s, for DUF488-short subclade, DUF488-l for long subclade and DUF488-u for DUF488-standalone subclade) which all which contain the ancestral core of the domain. DUF488-s commonly pairs with the DUF488-l subclade on the genome. In the case of DUF488-l and DUF488-u, the core domain is followed by a single beta-strand that stacks at the C-terminus of the core beta-sheet and a multi-helical 'cap'. Unlike the DUF488-s and DUF488-l subclades, DUF488-u is not found adjacent to other DUF488 subclades on the genome.
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 PF10294: Lysine methyltransferase (family)
Methyltrans_16 is a lysine methyltransferase. Characterised members of this family are protein methyltransferases targetting Lys residues in specific proteins, including calmodulin, VCP, Kin17 and Hsp70 proteins.
Pfam PF18940: Family of unknown function (DUF5687) (family)
This is a family of unknown function mainly 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 PF23141: NOMO Ig-like domain (domain)
This entry represents an immunoglobulin-like domain found in the centre of the Nodal Modulator proteins (NOMO), which play a role in the network of proteins responsible for establishing and maintaining the morphology of the ER. These proteins have multiple copies of Ig-like domains, which form a rod-like structure featuring a beads on a string arrangement.
Pfam PF07462: Merozoite surface protein 1 (MSP1) C-terminus (family)
This family represents the C-terminal region of merozoite surface protein 1 (MSP1) which are found in a number of Plasmodium species. MSP-1 is a 200-kDa protein expressed on the surface of the P. vivax merozoite. MSP-1 of Plasmodium species is synthesised as a high-molecular-weight precursor and then processed into several fragments. At the time of red cell invasion by the merozoite, only the 19-kDa C-terminal fragment (MSP-119), which contains two epidermal growth factor-like domains, remains on the surface. Antibodies against MSP-119 inhibit merozoite entry into red cells, and immunisation with MSP-119 protects monkeys from challenging infections. Hence, MSP-119 is considered a promising vaccine candidate.
Pfam PF08843: Nucleotidyl transferase AbiEii toxin, Type IV TA system (domain)
This family was recently identified as belonging to the nucleotidyltransferase superfamily.  AbiEii is the cognate toxin of the type IV toxin-antitoxin 'innate immunity' bacterial abortive infection (Abi) system that protects bacteria from the spread of a phage infection. The Abi system is activated upon infection with phage to abort the cell thus preventing the spread of phage through viral replication. There are some 20 or more Abis, and they are predominantly plasmid-encoded lactococcal systems. TA, toxin-antitoxin, systems on plasmids function by killing cells that lose the plasmid upon division. AbiE phage resistance systems function as novel Type IV TAs and are widespread in bacteria and archaea. The cognate antitoxin is [pfam:PF13338].
Pfam PF23694: YmiC-like (family)
This protein family includes Protein YmiC from Escherichia coli, a 31-residue long sequence predicted to adopt an alpha-helical configuration.
Pfam PF20888: Scytovirin (family)
Scytovirin is a protein from the cyanobacteria Scytonema varium with anticytopathic activity against some strains of HIV. The protein, which adopts a monomeric assembly, has two repeats that form similarly structured domains. Remarkably, it has a high percentage of cysteine residues, all participating in disulfide bonds. This family also includes proteins from Proteobacteria and plants.
Pfam PF03449: Transcription elongation factor, N-terminal (domain)
This domain adopts a long alpha-hairpin structure.
Pfam PF09087: Cyclomaltodextrinase, N-terminal (domain)
Members of this family assume a beta-sandwich structure composed of the eight antiparallel beta-strands. A ten residue linker is also present at the C-terminal end, which connects the N terminal domain to a distal domain in the protein. This domain participates in oligomerisation of the protein, wherein the N-terminal domain of one subunit contacts the active centre of the other subunit, and is also required for binding of cyclodextrin to substrate.
Pfam PF18545: Halobacterial output domain 1 (domain)
HalOD1 (Halobacterial output domain 1) is a protein domain that is specific for haloarchaea and their viruses. It is found in a stand-alone version and also in combination with Response_reg [pfam:PF00072] and other domains. This domain is found in DdfA (HVO_2176, such as SwissProt:L5N5I9) from Haloferax sp., which has been associated with signal transduction pathways, suggesting a potential role in signal cascades that regulate cell-shape determination.
Pfam PF05284: Protein of unknown function (DUF736) (family)
This family consists of several uncharacterised bacterial 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 PF18049: DNA polymerase nu pseudo-exo (domain)
This domain, known as the Pseudo-exo domain, is found DNA polymerase Nu protein in species such as Homo sapiens. Residues 192-416 of Pol nu formed a degenerate 3'-5'-exonuclease domain, which deviates from the equivalent.
Pfam PF04332: Protein of unknown function (DUF475) (family)
Predicted to be an integral membrane protein with multiple membrane spans.
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 PF11616: WD repeat binding protein EZH2 (family)
This family of proteins represents Enhancer of zest homolog 2, (EZH2) a 30 residue peptide which binds to a WD-repeat domain of EED by residues 39-68. EED is a component of PRC2 complex which is involved in gene expression. This interaction is required for the HMTase activity of PCR2.
Pfam PF18770: Armadillo tether-repeat of vescicular transport factor (repeat)
Armadillo-like tether-repeat of general vescicular transport factor. This entry contains a single copy of the repeat unit.
Pfam PF16140: Domain of unknown function (DUF4848) (family)
A small family of uncharacterized proteins around 310 residues in length and found in various Bacteroides species.  The function of this family is unknown.
Pfam PF05307: Bundlin (domain)
This family consists of several bundlin proteins from E. coli. Bundlin is a type IV pilin protein that is the only known structural component of  enteropathogenic Escherichia coli bundle-forming pili (BFP). BFP play a role in virulence, antigenicity, autoaggregation, and localised adherence  to epithelial cells. These proteins contain an N-terminal methylation motif.
Pfam PF06730: FAM92 protein (family)
This family of proteins has a role in embryogenesis. During embryogenesis it is essential for ectoderm and axial mesoderm development. It may regulate cell proliferation and apoptosis.
Pfam PF11709: Mitochondrial ribosomal protein subunit (family)
This family is the mitochondrial ribosomal small-subunit protein Mrp51. Its function is not entirely clear, but deletion of the MRP51 gene completely blocked mitochondrial gene expression.
Pfam PF16318: Domain of unknown function (DUF4957) (repeat)
This family consists of uncharacterised proteins around 150 residues in length and is mainly found in various Bacteroides and Prevotella species. The function of this protein is unknown.
Pfam PF19821: Phage capsid protein (family)
This entry represents a family of phage capsid protein. This family of proteins is found in bacteria and phage. Proteins in this family are approximately 280 amino acids in length.
Pfam PF05551: Zinc-binding loop region of homing endonuclease (domain)
This domain is the short zinc-binding loops region of a number of much longer chain homing endonucleases. Such loops are probably stabilised by the zinc and may be viewed as small but separate domains. The common structural feature of these domains is that at least three zinc ligands lie very close to each other in the sequence and are not incorporated into regular secondary structural elements. The biological roles played by these small zinc-binding domains are presently unknown.
Pfam PF09116: gp45 sliding clamp, C terminal (domain)
Members of this family are essential for the interaction of the gp45 sliding clamp with the corresponding polymerase. They adopt a DNA clamp fold, consisting of two alpha helices and two beta sheets - the fold is duplicated and has internal pseudo two-fold symmetry.
Wikipedia: A DNA clamp, also known as a sliding clamp, is a protein complex that serves as a processivity-promoting factor in DNA replication. As a critical component of the DNA polymerase III holoenzyme, the clamp protein binds DNA polymerase and prevents this enzyme from dissociating from the template DNA strand. The clamp-polymerase protein–protein interactions are stronger and more specific than the direct interactions between the polymerase and the template DNA strand; because one of the rate-limiting steps in the DNA synthesis reaction is the association of the polymerase with the DNA template, the presence of the sliding clamp dramatically increases the number of nucleotides that the polymerase can add to the growing strand per association event. The presence of the DNA clamp can increase the rate of DNA synthesis up to 1,000-fold compared with a nonprocessive polymerase.
Pfam PF03584: Herpesvirus ICP4-like protein N-terminal region (family)
The immediate-early protein ICP4 (infected-cell polypeptide 4) is required for efficient transcription of early and late viral genes and is thus essential for productive infection.  ICP4 is a large phosphoprotein that binds DNA in a sequence specific manner as a homodimer.  ICP4 represses transcription from LAT, ICP4 and ORF-P that have high-affinity a ICP4 binding site that spans the transcription initiation site. ICP4 proteins have two highly conserved regions, this family contains the N-terminal region that contains sites for DNA binding and homodimerisation.
Pfam PF00054: Laminin G domain (domain)
Laminins are large heterotrimeric glycoproteins involved in basement membrane function . The Laminin G or LNS domain (for Laminin-alpha, Neurexin and Sex hormone-binding globulin) is an around 180 amino acid long domain found in a large and diverse set of extracellular proteins . The laminin globular (G) domain can be found in one to several copies in various laminin family members, including a large number of extracellular proteins. The C terminus of the laminin alpha chain contains a tandem repeat of five laminin G domains, which are critical for heparin-binding and cell attachment activity . Laminin alpha4 is distributed in a variety of tissues including peripheral nerves, dorsal root ganglion, skeletal muscle and capillaries; in the neuromuscular junction, it is required for synaptic specialisation . The structure of the laminin-G domain has been predicted to resemble that of pentraxin .

Laminin G domains can vary in their function, and a variety of binding functions have been ascribed to different LamG modules. For example, the laminin alpha1 and alpha2 chains each have five C-teminal laminin G domains, where only domains LG4 and LG5 contain binding sites for heparin, sulphatides and the cell surface receptor dystroglycan . Laminin G-containing proteins appear to have a wide variety of roles in cell adhesion, signalling, migration, assembly and differentiation. Proteins with laminin-G domains include:
 * Laminin.
 * Merosin.
 * Agrin.
 * Neurexins.
 * Vitamin K dependent protein S.
 * Sex steroid binding protein SBP/SHBG.
 * Drosophila proteins Slit, Crumbs, Fat.
 * several proteoglycan precursors.
Wikipedia: Laminins are a family of glycoproteins of the extracellular matrix of all animals. They are major constituents of the basement membrane, namely the basal lamina. Laminins are vital to biological activity, influencing cell differentiation, migration, and adhesion.
Pfam PF10801: Protein of unknown function (DUF2537) (family)
This bacterial family of proteins has no known function.
Wikipedia: A domain of unknown function (DUF) is a protein domain that has no characterised function. These families have been collected together in the Pfam database using the prefix DUF followed by a number, with examples being DUF2992 and DUF1220. As of 2019, there are almost 4,000 DUF families within the Pfam database representing over 22% of known families. Some DUFs are not named using the nomenclature due to popular usage but are nevertheless DUFs.
Pfam PF23421: Family of unknown function (DUF7109) (family)
This family represents a group of proteins from halobacteria. It has several conserved motifs LAGV/IVDLFG, DxPHI and LxDVxYD/ExExW and five highly conserved R residues. Members are predicted to show a mainly alpha-helical structure with a small beta-sheet.
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 PF14135: Domain of unknown function (DUF4302) (family)
This family of proteins is functionally uncharacterised. This family of proteins is found in bacteria. Proteins in this family are typically between 344 and 443 amino acids in length. There are two completely conserved residues (R and L) 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 PF11113: Head assembly gene product (family)
This head assembly protein is also refereed to as gene product 40 (Gp40). A specific gp20-gp40 membrane insertion structure constitutes the T4 prohead assembly initiation complex. This protein in T4 stimulates head formation.
Pfam PF16966: Porin-like glycoporin RafY (family)
This is a family of Gram-negative Gammaproteobacteria putative raffinose-like porins.
Pfam PF15513: Domain of unknown function (DUF4651) (family)
family of short, secreted proteins specific to the Streptococcus genus, with distant homologs, not recognized by this HMM, found in other cocci. In all sequenced genomes, proteins from  this family appear in a conserved genomic context with an thioredoxin, tRNA synthase and tRNA binding protein, but the functional implication of this is unclear
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.