SII-SWORD/CoKE huggingface dataset:
Pfam PF12995: Domain of unknown function, E. rectale Gene description (DUF3879) (family)
Based on Eubacterium rectale gene EUBREC_1343.  As seen in gene expression experiments (http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE14737), it appears to be upregulated in the presence of Bacteroides thetaiotaomicron vs when isolated in culture.
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 PF22395: Crb2-like, BRCT-like domain (domain)
This entry represents a BRCT-like domain present in Crb2 from Schizosaccharomyces pombe. Crb2 relies on the BRCT-like domain for its dimerization. Crb2 is a checkpoint mediator required for the cellular response to DNA damage.
Pfam PF00211: Adenylate and Guanylate cyclase catalytic domain (domain)
Guanylate cyclases (4.6.1.2) catalyse the formation of cyclic GMP (cGMP) from GTP. cGMP acts as an intracellular messenger, activating cGMP-dependent kinases and regulating cGMP-sensitive ion channels. The role of cGMP as a second messenger in vascular smooth muscle relaxation and retinal photo-transduction is well established. Guanylate cyclase is found both in the soluble and particulate fractions of eukaryotic cells. The soluble and plasma membrane-bound forms differ in structure, regulation and other properties . Most currently known plasma membrane-bound forms are receptors for small polypeptides. The soluble forms of guanylate cyclase are cytoplasmic heterodimers having alpha and beta subunits.

This domain is also found in bacterial pyrimidine cyclases, which synthesize cyclic nucleotides in response to bacteriophage infection, providing immunity. These cyclic nucleotides serve as specific second messenger signals that activate the adjacent effector, leading to bacterial cell death and abortive phage infection .

In all characterised eukaryote guanylyl- and adenylyl cyclases, cyclic nucleotide synthesis is carried out by the conserved class III cyclase domain.
Wikipedia: Adenylate cyclase is an enzyme with systematic name ATP diphosphate-lyase . It catalyzes the following reaction:ATP = 3′,5′-cyclic AMP + diphosphate
Pfam PF18579: Rubisco accumulation factor 1 helix turn helix domain (domain)
This is helix turn helix domain found in alpha helical region of Rubisco accumulation factor1 (Raf1). Raf1 from Arabidopsis thaliana consists of an N-terminal alpha-domain, a flexible linker segment and a C-terminal beta-sheet domain that mediates dimerization. The alpha-domains mediate the majority of functionally important contacts with RbcL (Rubisco large subunits) by bracketing each RbcL dimer at the top and bottom. The alpha-domain alone is essentially inactive.
Pfam PF19895: Family of unknown function (DUF6368) (family)
This BGC (BGC0001740) is described by MIBiG as an example of the following biosynthetic classes, NRP (non-ribosomal peptide) and polyketide, in particular the phthoxazolin biosynthetic gene cluster from Streptomyces avermitilis.
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 PF25151: Trm732, C-terminal TPR repeats (repeat)
This region of predicted of tetratricopeptide-like repeats is found in tRNA (32-2'-O)-methyltransferase regulator trm732 from Schizosaccharomyces pombe, which together with methyltransferase trm7, methylates the 2'-O-ribose of nucleotides at position 32 of the anticodon loop of substrate tRNAs. This entry is often found associated with [pfam:PF10350].
Pfam PF23383: IFT140 first beta-propeller (repeat)
IFT140 is one of the core components (together with WDR19/IFT144 and IFT122) of the IFT-A complex which is required for retrograde ciliary transport and entry into cilia of G protein-coupled receptors (GPCRs), being involved in cilia function and/or assembly. IFT-A polymerises interacts with IFT-B, and uses an array of beta-propeller and TPR domains to create 'carriages' of the IFT train that engage TULP adaptor proteins. The beta-propeller domains of IFT140 contact the beta-propeller domains of IFT121 from the adjacent complex. This entry represents the first beta-propeller of IFT140.
Pfam PF19157: Family of unknown function (DUF5839) (family)
This family of unknown function is associated with  the biosynthetic gene cluster for glycocin F. The  family appears to be restricted to Firmicutes.
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 PF04990: RNA polymerase Rpb1, domain 7 (domain)
RNA polymerases catalyse the DNA dependent polymerisation of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases).  This domain, domain 7, represents a mobile module of the RNA polymerase. Domain 7 forms a substantial interaction with the lobe domain of Rpb2 ([pfam:PF04561]).
Pfam PF12150: Cytosolic motility protein (domain)
This domain family is found in eukaryotes, and is approximately 50 amino acids in length. These proteins are found in nematodes. They complex with MSP (major sperm protein) to allow motility. Their action is quite similar to the action of bacterial actin molecules.
Pfam PF07739: TipAS antibiotic-recognition domain (domain)
This domain is found at the C-terminus of some MerR family transcription factors. The domain has an alpha-helical globin-like fold. The family includes Mta a central regulator of multidrug resistance in Bacillus subtilis.
Pfam PF18604: Pre ATP-grasp domain (domain)
This is a preATP grasp domain region found inon the N-terminal of [pfam:PF02222] in Pheganomycin (PGM1).
Pfam PF19145: Family of unknown function (DUF5827) (family)
This is a family of proteins of unknown function predominantly found in Halobacteria.
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 PF14341: PilX N-terminal (family)
This domain is found at the N-terminus of the PilX prepilin-like proteins which are involved in type 4 fimbrial biogenesis.
Pfam PF10001: Uncharacterized protein conserved in bacteria (DUF2242) (family)
This domain is found in various hypothetical bacterial proteins, and 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 PF04242: Protein of unknown function (DUF424) (family)
This is a 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 PF01573: Bromovirus movement protein (family)
Members of this family are found in the bromoviridae, assembling into long tubular structures at the surface of the infected protoplast. These proteins aid the infection of the virus .
Pfam PF24104: F-box protein At5g52880 ARM repeat (repeat)
This domain is found N-terminal in Arabidopsis thaliana F-box protein At5g52880 and related proteins. It usually precedes F-box [pfam:PF12937].
Pfam PF21488: YqbF, HeH motif (domain)
This entry represents the HeH domain of the uncharacterised protein YqbF from Bacillus subtilis.
Pfam PF20552: Recombinase-like helix-turn-helix domain (family)
This family of proteins is functionally uncharacterised. This family of proteins is found in bacteria and eukaryotes. Proteins in this family are typically between 73 and 103 amino acids in length. This family of proteins show similarity to the HTH domain of recombinases [pfam:PF07508].
Pfam PF06725: 3D domain (domain)
This short presumed domain contains three conserved aspartate residues, hence the name 3D. It has been shown to be part of the catalytic double psi beta barrel domain of MltA.
Pfam PF06620: Protein of unknown function (DUF1150) (family)
This family consists of several hypothetical 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 PF08507: COPI associated protein (family)
Proteins in this family colocalise with COPI vesicle coat proteins.
Pfam PF05878: Phytoreovirus nonstructural protein Pns9/Pns10 (family)
This family consists of the Phytoreovirus nonstructural proteins Pns9 and Pns10. The function of this family is unknown.
Pfam PF07619: Protein of unknown function (DUF1581) (family)
Several Rhodopirellula baltica proteins share this probable domain. Most of these proteins are predicted to be secreted or membrane-associated.
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 PF07337: DC-EC Repeat (repeat)
This repeat is found in the CagY proteins - part of the CAG pathogenicity island - and involved in delivery of the protein CagA into host cells (). It forms part of a surface needle structure, and this repeat may form an alpha-helical rod structure (). A conserved -DC- and -EC- can be seen in regularly spaced in the alignment.
Pfam PF01638: HxlR-like helix-turn-helix (domain)
HxlR, a member of this family, is a DNA-binding protein that acts as a positive regulator of the formaldehyde-inducible hxlAB operon in Bacillus subtilis.
Pfam PF04483: Protein of unknown function (DUF565) (family)
Predicted transmembrane protein found in plants, chloroplasts and cyanobacteria.  This family is also known as YCF20.
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 PF09077: Mu B transposition protein, C terminal (domain)
The C terminal domain of the B transposition protein from Bacteriophage Mu comprises four alpha-helices arranged in a loosely packed bundle, where helix alpha1 runs parallel to alpha3, and anti-parallel to helices alpha2 and alpha4. The domain allows for non-specific binding of Mu to double-stranded DNA, allowing for integration into the bacterial genome, and mediates dimerisation of the protein.
Pfam PF10736: Protein of unknown function (DUF2627) (family)
This family of proteins with unknown function appears to be restricted to a family of Enterobacterial proteins. It has a highly conserved sequence.
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 PF04714: BCL7, N-terminal conserver region (family)
Members of the BCL family have significant sequence similarity at their N-terminus, represented in this family. The function of BCL7 proteins is unknown. They may be involved in early development. In addition, BCL7B is commonly hemizygously deleted in patients with Williams syndrome.
Pfam PF18329: Surface glycan-binding protein B xyloglucan binding domain (domain)
This is the C-terminal domain found in the surface glycan-binding protein-B (SGBP-B) protein found in Bacteroides ovatus. SGBP-B is a cell-surface-localized, xyloglucan-specific binding protein. The C-terminal domain mediates xyloglucan binding. The domain display similarity to the C-terminal beta-sandwich domain of many GH13 enzyme.
Pfam PF16938: Putative phage holin Dp-1 (family)
Phage_holin_Dp1 is a family of putative phage-holins from Gram-positive bacteria, largely Firmicutes, with two probable TMSs.  The family shows lytic activity.
Pfam PF07088: GvpD gas vesicle protein, P-loop domain (domain)
This family consists of several archaeal GvpD gas vesicle regulatory proteins. GvpD is involved in the regulation of gas vesicle formation and functions as a repressor through the interaction and the breakdown induction of the transcriptional activator GvpE. This domain includes the P-loop and the basic region 1 (bR1, an arginine-rich region) which are essential for GvpD repressive function.
Pfam PF23272: Domain of unknown function (DUF7075) (domain)
This domain is found in a group of uncharacterised plant proteins. It shares a significant sequence similarity with members of the GDP-fucose protein O-fucosyltransferase family ([pfam:PF10250]) and it is predicted to adopt similar 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 PF18700: Cytosolic arginine sensor for mTORC1 subunit 1 N-terminal domain (domain)
CASTOR1 (Cytosolic arginine sensor for mTORC1 subunit 1) has been identified as the cytosolic arginine sensor for the mTORC1 pathway. In the absence of arginine, CASTOR1 binds to GATOR2 and inhibits mTORC1 signaling; whereas in the presence of arginine, CASTOR1 interacts with arginine and no longer associates with GATOR2. The arginine sits in a pocket between the N-terminal domain (NTD) and the C-terminal domain (CTD) of CASTOR1. The CASTOR1-NTD on the opposite side of the arginine-binding site was identified to mediate direct physical interaction with its downstream effector GATOR2, via GATOR2 subunit Mios.
Pfam PF23030: SCAF11-like, C-terminal domain (domain)
This domain is found at the C-terminal end of human Protein SCAF11, which plays a role in pre-mRNA alternative splicing by regulating spliceosome assembly. This domain is predicted to adopt an all-alpha configuration.
Pfam PF14071: Putative coat protein (family)
This is a family of putative bacterial coat proteins. Proteins in this family are approximately 140 amino acids in length.
Pfam PF06673: Lactococcus lactis bacteriophage major capsid protein (family)
This family consists of several Lactococcus lactis bacteriophage major capsid proteins.
Pfam PF05301: GNAT acetyltransferase, Mec-17 (family)
Mec-17 is the protein product of one of the 18 genes required for the development and function of the touch receptor neuron for gentle touch. Mec-17 is specifically required for maintaining the differentiation of the touch receptor. The family shares all the residue-motifs characteristic of Gcn5-related acetyl-transferases, though the exact unction is still unknown.
Pfam PF08343: Ribonucleotide reductase N-terminal (family)
This domain is found at the N-terminus of bacterial ribonucleoside-diphosphate reductases (ribonucleotide reductases, RNRs) which catalyse the formation of deoxyribonucleotides. It occurs together with the RNR all-alpha domain ([pfam:PF00317]) and the RNR barrel domain ([pfam:PF02867]).
Wikipedia: Ribonucleotide reductase (RNR), also known as ribonucleoside diphosphate reductase, is an enzyme that catalyzes the formation of deoxyribonucleotides from ribonucleotides. It catalyzes this formation by removing the 2'-hydroxyl group of the ribose ring of nucleoside diphosphates. This reduction produces deoxyribonucleotides. Deoxyribonucleotides in turn are used in the synthesis of DNA. The reaction catalyzed by RNR is strictly conserved in all living organisms. Furthermore, RNR plays a critical role in regulating the total rate of DNA synthesis so that DNA to cell mass is maintained at a constant ratio during cell division and DNA repair. A somewhat unusual feature of the RNR enzyme is that it catalyzes a reaction that proceeds via a free radical mechanism of action. The substrates for RNR are ADP, GDP, CDP and UDP. dTDP is synthesized by another enzyme from dTMP.
Pfam PF14823: Sirohaem biosynthesis protein C-terminal (domain)
This domain is the C-terminus of a multifunctional enzyme which catalyses the biosynthesis of sirohaem. Both of the catalytic activities of this enzyme (precorrin-2 dehydrogenase [ec:1.3.1.76]) and sirohydrochlorin ferrochelatase ([ec:4.99.1.4]) are located in the N-terminal domain of this enzyme, [pfam:PF13241].
Pfam PF21866: Domain of unknown function (DUF6915) (domain)
This family of proteins is primarily found in proteobacteria. Proteins in this family are typically between 124 and 153 amino acids in length. Proteins in this family has several conserved histidine residues that may form zinc binding sites.
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 PF03421: YopJ Serine/Threonine acetyltransferase (family)
The Yersinia effector YopJ inhibits the innate immune response by blocking MAP kinase and NFkappaB signaling pathways.  YopJ is a serine/threonine acetyltransferase which regulates signalling pathways by blocking phosphorylation.  Specifically, YopJ has been shown to block phosphorylation of active site residues.  It has also been shown that YopJ acetyltransferase is activated by eukaryotic host cell inositol hexakisphosphate. This family was previously incorrectly annotated in Pfam as being a peptidase family.
Pfam PF11975: Family 4 glycosyl hydrolase C-terminal domain (domain)
Glycoside hydrolase family 4 (GH4) is a protein family that comprises enzymes with several known activities; 6-phospho-beta-glucosidase (3.2.1.86); 6-phospho-alpha-glucosidase (3.2.1.122); alpha-galactosidase (3.2.1.22). These enzymes require both NAD(H) and divalent metal (such asMn2+, Fe2+, Co2+, or Ni2+) for its activity .
This domain is found primarily in bacterial family 4 glycosyl hydrolases. It is found in the C terminus.
Wikipedia: In molecular biology, glycoside hydrolase family 4 is a family of glycoside hydrolases EC 3.2.1., which 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 glycoside hydrolases, based on sequence similarity, has led to the definition of &gt;100 different families. This classification is available on the CAZy web site, and also discussed at CAZypedia, an online encyclopedia of carbohydrate active enzymes.
Pfam PF19652: Family of unknown function (DUF6155) (family)
This family of proteins is functionally uncharacterised. This family of proteins is found in bacteria and archaea. Proteins in this family are typically between 169 and 185 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 PF00134: Cyclin, N-terminal domain (domain)
Cyclins regulate cyclin dependent kinases (CDKs). [swissprot:P22674] is a Uracil-DNA glycosylase that is related to other cyclins. Cyclins contain two domains of similar all-alpha fold, of which this family corresponds with the N-terminal domain.
Wikipedia: Cyclins are proteins that control the progression of a cell through the cell cycle by activating cyclin-dependent kinases (CDK).