SII-SWORD/CoKE huggingface dataset:
Pfam PF11749: Protein of unknown function (DUF3305) (family)
Several members of this family are annotated as being molybdopterin-guanine dinucleotide biosynthesis protein A; however, this could not be confirmed. The family is found in proteobacteria.
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 PF06029: AlkA N-terminal domain (domain)
AlkA (DNA-3-methyladenine glycosylase II) is a base excision repair glycosylase from Escherichia coli. It removes a variety of alkylated bases from DNA, primarily by removing alkylation damage from duplex and single stranded DNA. AlkA is similar in fold and active site location to the bifunctional glycosylase/lyase endonuclease III. This suggests that the two may use similar mechanisms for base excision . The structural analysis of the AlkA and AlkA-hypoxanthine structures indicate that free hypoxanthine binding in the active site may inhibit glycosylase activity .

The AlkA protein consists of three domains: an N-terminal mixed Î±-Î² structure, a central seven-helix bundle, and a C-terminal domain of four a helices . This entry represents the N-terminal domain.
Pfam PF08533: Beta-galactosidase C-terminal domain (domain)
This domain is found at the C-terminus of beta-galactosidase enzymes that belong to the glycosyl hydrolase 42 family.
Wikipedia: In molecular biology, glycoside hydrolase family 42 is a family of glycoside hydrolases.
Pfam PF25122: Domain of unknown function (DUF7815) (domain)
This domain is found in uncharacterised plant proteins. It contains two pairs of conserved cysteines that may be involved in metal coordination. It is predicted to adopt a structure typical for zinc ribbon domains.
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 PF11583: P-aminobenzoate N-oxygenase AurF (domain)
This family is a metalloenzyme which is involved in the biosynthesis of antibiotic aureothin by catalysing the formation of p-nitrobenzoic acid from p-aminobenzoic acid. AurF is a non-heme di-iron monooxygenase which creates nitroarenes via the sequential oxidation of aminoarenes.
Pfam PF07206: Baculovirus late expression factor 10 (LEF-10) (family)
This family consists of several Baculovirus specific late expression factor 10 (LEF-10) sequences. LEF-10 is thought to be a late expressed structural protein although its exact function is unknown.
Pfam PF10565: N-methyl D-aspartate receptor 2B3 C-terminus (family)
This domain is found at the C-terminus of many NMDA-receptor proteins, many of which also carry the Ligated ion-channel family [pfam:PF00060] further upstream as well as the ANF_receptor family [pfam:PF01094]. This region is predicted to be a large extra-cellular domain of the NMDA receptor proteins, being highly hydrophilic, and is thought to be integrally involved in the function of the receptor. The region also carries a number of potential N-glycosylation sites.
Pfam PF19309: Frem protein N-terminal domain (domain)
This entry represents a presumed domain found at the N-terminus of Frem related proteins.
Pfam PF04842: Plant protein of unknown function (DUF639) (family)
Plant protein 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 PF22079: Type III effector protein HopBA1 (domain)
HopBA1 is a type III effector protein that triggers an RBA1-dependent cell-death response. It folds into an alpha/beta structure that consists of a central mixed beta-sheet packed on both sides with alpha helices. HopBA1 is structurally similar to proteins members of EreA/ChaN-like superfamily. It contains a psi-loop between strands 5 and 6.
Pfam PF01120: Alpha-L-fucosidase (domain)
O-Glycosyl hydrolases family 29 (GH29) encompasses alpha-L-fucosidases (3.2.1.51) , which is a lysosomal enzyme responsible for hydrolysing the alpha-1,6-linked fucose joined to the reducing-end N-acetylglucosamine of the carbohydrate moieties of glycoproteins. Alpha-L-fucosidase is responsible for hydrolysing the alpha-1,6-linked fucose joined to the reducing-end N-acetylglucosamine of the carbohydrate moieties of glycoproteins.

Fucosylated glycoconjugates are involved in numerous biological events, making alpha-l-fucosidases, the enzymes responsible for their processing, critically important. Deficiency in alpha-l-fucosidase activity is associated with fucosidosis, a lysosomal storage disorder characterised by rapid neurodegeneration, resulting in severe mental and motor deterioration . The enzyme is a hexamer and displays a two-domain fold, composed of a catalytic (Î²/Î±)(8)-like domain and a C-terminal Î²-sandwich domain .

Drosophila melanogaster spermatozoa contains an alpha-l-fucosidase that might be involved in fertilisation by interacting with alpha-l-fucose residues on the micropyle of the eggshell . In human sperm, membrane-associated alpha-l-fucosidase is stable for extended periods of time, which is made possible by membrane domains and compartmentalisation. These help preserve protein integrity .
O-Glycosyl hydrolases (3.2.1.) are a widespread group of enzymes that hydrolyse the glycosidic bond between two or more carbohydrates, or between a carbohydrate and a non-carbohydrate moiety. A classification system for glycosyl hydrolases, based on sequence similarity, has led to the definition of 85 different families . This classification is available on the CAZy (CArbohydrate-Active EnZymes) website.
Wikipedia: The enzyme α-L-fucosidase (EC 3.2.1.51) catalyzes the following chemical reaction: an α-L-fucoside + H2O  L-fucose + an alcohol
Pfam PF06849: Protein of unknown function (DUF1246) (family)
This family represents the N-terminus of a number of hypothetical archaeal proteins of unknown function. This family is structurally related to the PreATP-grasp domain.
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 PF22840: CATSPERG N-terminal domain (domain)
This entry includes CATSPERG, an auxiliary subunit of the CatSper complex, a complex involved in sperm cell hyperactivation. This process is needed for sperm motility, which is essential late in the preparation of sperm for fertilisation. This is a multi-domain protein; this entry represents the N-terminal domain.
Pfam PF07214: Protein of unknown function (DUF1418) (family)
This family consists of several hypothetical Enterobacterial proteins of around 100 residues in length. Members of this family are often described as YbjC. In E. coli the ybjC gene is located downstream of nfsA (which encodes the major oxygen-insensitive nitroreductase). It is thought that nfsA and ybjC form an operon an its promoter is  a class I SoxS-dependent promoter. 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 PF04310: MukB N-terminal (domain)
This family represents the N-terminal region of MukB, one of a group of bacterial proteins essential for the movement of nucleoids from mid-cell towards the cell quarters (i.e. chromosome partitioning).  The structure of the N-terminal domain consists of an antiparallel six-stranded beta sheet surrounded by one helix on one side and by five helices on the other side. It contains an exposed Walker A loop in an unexpected helix-loop-helix motif (in other proteins, Walker A motifs generally adopt a P loop conformation as part of a strand-loop-helix motif embedded in a conserved topology of alternating helices and (parallel) beta strands).
Pfam PF18644: Phage integrase SAM-like domain (domain)
Xer recombinases are members of the tyrosine site-specific recombinase superfamily, a large group of enzymes that catalyze DNA breakage and rejoining using a conserved tyrosine nucleophile. Tyrosine recombinases promote various programmed DNA rearrangements including the monomerization of phage, plasmid and chromosome multimers, resolution of hairpin telomeres, and the movement of virulence and antibiotic resistance carrying integrative mobile genetic elements. Structural analysis of Helicobacter pylori XerH indicates that this N-terminal domain consisting of six alpha-helices contacts the DNA using a four-helix bundle.
Pfam PF07778: Mis6 (family)
Mis6 is an essential centromere connector protein acting during G1-S phase of the cell cycle. Mis6 is thought to be required for recruiting CENP-A, the centromere- specific histone H3 variant, an important event for centromere function and chromosome segregation during mitosis.
Pfam PF17423: Swarming motility protein (family)
This domain family is found in Bacillus. Members of this family are Swra proteins involved in swarming motility (a multicellular movement of hyper-flagellated cells on a surface). SwrA is a key transcription factor facilitating this cascade. It acts synergistically with DegU to drive the fla/che operon encoding flagella components, chemotaxis constituents and the alternative sigma factor sigmaD, which is regarded as the primary event in the development of motility. LonA protease of Bacillus subtilis inhibits SwrA by proteolytically restricting its accumulation. SwrA does not contain any known DNA binding domain, and it has been shown to interact with the N-terminal domain of DegU. Anecdotally, in most laboratory strains, e.g. 168, the swrA coding sequence contains a nucleotide insertion that prematurely interrupts its reading frame, causing a non-swarming phenotype strain.
Pfam PF03984: Repeat of unknown function (DUF346) (repeat)
This repeat is found as seven tandem copies in carbohydrate-binding proteins, including Fucose-binding Lectin from Photorhabdus laumondii ([swissprot:Q7N8J0]) and similar fungal and bacterial proteins. It is composed of beta-strands and forms a seven-bladed beta-propeller structure. It is found in association with BNR repeats, which also form a beta-propeller.
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 PF07098: Protein of unknown function (DUF1360) (family)
This family consists of several bacterial proteins of around 115 residues in length. Members of this family are found in Bacillus species and Streptomyces coelicolor, the function of the 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 PF20143: ATP-NAD kinase C-terminal domain (domain)
Members of this family include ATP-NAD kinases [ec:2.7.1.23], which catalyses the phosphorylation of NAD to NADP utilising ATP and other nucleoside triphosphates as well as inorganic polyphosphate as a source of phosphorus. Also includes NADH kinases [ec:2.7.1.86].  This entry represents the C-terminal beta sandwich domain.
Pfam PF02357: Transcription termination factor nusG (domain)
This is the N-terminal domain of transcription termination/antitermination protein NusG, which is involved in transcription elongation, termination and antitermination. It also occurs at the N-terminal of transcription antitermination protein RfaH and in the transcription elongation factor Spt5 .
Pfam PF23297: Domain of unknown function (DUF7080) (domain)
This domain is found in Polyketide synthase HetM from Nostoc sp. This domain is predicted to adopt an all alpha-helical structure. Its specific 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 PF09818: P-loop domain (domain)
This is the C-terminal ATPase domain from bacterial ABC class ATPases. This entry also includes MRB1590 ([swissprot:Q57ZF2]) from Trypanosoma brucei brucei has a central ATPase domain homologous to this domain.
Pfam PF15685: Gametogenetin (family)
GGN is a family of proteins largely found in mammals. It reacts with POG in the maturation of sperm and is expressed virtually only in the testis. It is found to be associated with the intracellular membrane, binds with GGNBP1 and may be involved in vesicular trafficking.
Pfam PF15286: Apoptosis regulator M11, B cell 2 leukaemia/lymphoma like (family)
[pfam:PF02180].  Bcl-2_3 is a small family of eukaryotic proteins associated with autophagy. The family is found in association with [pfam:PF00452].
Wikipedia: The Bcl-2 family consists of a number of evolutionarily-conserved proteins that share Bcl-2 homology (BH) domains. The Bcl-2 family is most notable for their regulation of apoptosis, a form of programmed cell death, at the mitochondrion. The Bcl-2 family proteins consists of members that either promote or inhibit apoptosis, and control apoptosis by governing mitochondrial outer membrane permeabilization (MOMP), which is a key step in the intrinsic pathway of apoptosis. A total of 25 genes in the Bcl-2 family were identified by 2008.
Pfam PF04022: Staphylocoagulase repeat (repeat)
Staphylocoagulase is an extracellular protein produced by several strains of Staphylococcus aureus and which specifically forms a complex with prothrombin . This complex named staphylothrombin can clot fibrinogen without any proteolytic cleavage of prothrombin. The C terminus of staphylocoagulase contains the tandem repeat which does not seem to be required for the procoagulant activity.
Pfam PF19405: Family of unknown function (DUF5978) (domain)
This presumed domain is found as highly identical tandem repeats in bacterial cell surface proteins associated with Bact_lectin.
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 PF19743: ASTN1/2 Fn3 domain (domain)
Astrotactin-1 and 2 (ASTN1/2) are integral membrane proteins with a large C-terminal domain, extracellular for ASTN1 and endosome luminal for ASTN-2. They play critical roles in neurodevelopment, and ASTN-2 is also involved in the planar cell polarity pathway in hair cells. This is a domain found in the middle of the C-terminal of ASTN-1 and 2, which comprises a fibronectin type III (Fn(III)) domain. This domain located between the MACPF and annexin domains. The structure of Fn(III) from ASTN2 revealed an unexpected feature which has two additional beta strands folded across the core. The junction between EGF-4 and Fn(III) domains in ASTN2 (but not in ASTN1) is thought to be an inositol triphosphate binding site.
Pfam PF16581: Cytidyltransferase-related C-terminal region (domain)
This domain is found as the C-terminal portion of some HIGH_NTase1 proteins. The exact function is not known.
Pfam PF10144: Bacterial virulence factor haemolysin (family)
Members of this family of bacterial proteins are membrane proteins that effect the expression of haemolysin under anaerobic conditions.
Pfam PF23998: BTBDG BTB/POZ domain (domain)
This entry represents the BTB/POZ domain found at the N-terminal of BTB/POZ domain-containing protein 16 (BTBDG) from animals. The function of BTBDG is not clear.
Pfam PF02988: Phospholipase A2 inhibitor (domain)
This entry represents a domain located at the N-terminal end of a group of proteins predominantly found in vertebrates that inhibit basic phospholipase A2 isozymes in snake's venom .
Pfam PF21374: WsaF, N-terminal domain (domain)
WsaF from Geobacillus stearothermophilus catalyses the formation of beta-1-2-linkage of rhamnose sugars in the carbohydrate polymer. It consists of two domains the N-terminal domain (represented in this entry), which binds the acceptor (the growing rhamnan chain), and a C-terminal domain which binds the substrate (dTDP-beta-l-rhamnose).
Pfam PF01146: Caveolin (family)
All three known Caveolin forms have the FEDVIAEP caveolin 'signature motif' within their hydrophilic N-terminal domain. Caveolin 2 (Cav-2) is co-localised and co-expressed with Cav-1/VIP21, forms heterodimers with it and needs Cav-1 for proper membrane localisation. Cav-3 has greater protein sequence similarity to Cav-1 than to Cav-2. Cellular processes caveolins are involved in include vesicular transport, cholesterol homeostasis, signal transduction, and tumour suppression.
Wikipedia: In molecular biology, caveolins are a family of integral membrane proteins that are the principal components of caveolae membranes and involved in receptor-independent endocytosis. Caveolins may act as scaffolding proteins within caveolar membranes by compartmentalizing and concentrating signaling molecules. They also induce positive (inward) membrane curvature by way of oligomerization, and hairpin insertion. Various classes of signaling molecules, including G-protein subunits, receptor and non-receptor tyrosine kinases, endothelial nitric oxide synthase (eNOS), and small GTPases, bind Cav-1 through its 'caveolin-scaffolding domain'.
Pfam PF21617: Uncharacterized protein CV_2116-like (family)
This protein family includes Peptidase_M28 domain-containing protein from Chromobacterium violaceum (CV_2116), a functionally uncharacterised protein with an alpha-beta structure.
Pfam PF13723: Beta-ketoacyl synthase, N-terminal domain (domain)
Beta-ketoacyl-ACP synthase 2.3.1.41 (KAS)  is the enzyme that catalyses the condensation of malonyl-ACP with the growing fatty acid chain. It is found as a component of a number of enzymatic systems, including fatty acid synthetase (FAS), which catalyses the formation of long-chain fatty acids from acetyl-CoA, malonyl-CoA and NADPH; the multi-functional 6-methysalicylic acid synthase (MSAS) from Penicillium patulum , which is involved in the biosynthesis of a polyketide antibiotic; polyketide antibiotic synthase enzyme systems; Emericella nidulans multifunctional protein Wa, which is involved in the biosynthesis of conidial green pigment; Rhizobium nodulation protein nodE, which probably acts as a beta-ketoacyl synthase in the synthesis of the nodulation Nod factor fatty acyl chain; and yeast mitochondrial protein CEM1. The condensation reaction is a two step process, first the acyl component of an activated acyl primer is transferred to a cysteine residue of the enzyme and is then condensed with an activated malonyl donor with the concomitant release of carbon dioxide.

This entry represents the N-terminal domain of beta-ketoacyl-ACP synthases and polyketide synthases.
Pfam PF00803: 3A/RNA2 movement protein family (family)
This family includes movement proteins from various viruses. The 3A protein is found in bromoviruses and Cucumoviruses. The genome of these viruses contain 3 RNA segments.  The third segment (RNA 3) contains two proteins, the coat protein and the 3A protein. The function of the 3A protein is uncertain but has been shown to be involved in cell-to- cell movement of the virus. The family also includes movement proteins from Dianthoviruses.
Pfam PF24283: Family of unknown function (DUF7471) (family)
This family includes a group of short proteins from archaea.
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 PF21304: SPI-1 type 3 secretion system secretin, N0 domain (domain)
SPI-1 type 3 secretion system secretin forms a ring-shaped multimeric structure  which is used to inject bacterial effector proteins into eukaryotic host cells. It consists of several N-terminal short domains and a C-terminal secretin domain ([pfam:PF00263]). This entry represents the N-terminal N0 domain.
Pfam PF04531: Bacteriophage holin (family)
This family of holins is found in several staphylococcal and streptococcal bacteriophages. Holins are a diverse family of proteins that cause bacterial membrane lysis during late-protein synthesis. It is thought that the temporal precision of holin-mediated lysis may occur through the buildup of a holin oligomer which causes the lysis.
Pfam PF16359: RcsD-ABL domain (domain)
This domain is part of the RcsD histidine kinase. It recognises the effector domain of RcsB.
Pfam PF07713: Protein of unknown function (DUF1604) (family)
This family is found at the N-terminus of several eukaryotic RNA processing proteins (e.g [swissprot:Q8N3B7]).
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 PF06601: Orthopoxvirus F6 protein (family)
This family consists of several Orthopoxvirus F6L proteins the function of which are unknown.