SII-SWORD/CoKE huggingface dataset:
Pfam PF10597: U5-snRNA binding site 2 of PrP8 (domain)
The essential spliceosomal protein Prp8 interacts with U5 and U6 snRNAs and with specific pre-mRNA sequences that participate in catalysis. This close association with crucial RNA sequences, together with extensive genetic evidence, suggests that Prp8 could directly affect the function of the catalytic core, perhaps acting as a splicing cofactor.
Pfam PF20065: Family of unknown function (DUF6464) (family)
This family of proteins is functionally uncharacterised. This family of proteins is found in bacteria. Proteins in this family are typically between 101 and 122 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 PF13560: Helix-turn-helix domain (domain)
This domain is a helix-turn-helix domain that probably binds to DNA.
Wikipedia: Helix-turn-helix is a DNA-binding domain (DBD). The helix-turn-helix (HTH) is a major structural motif capable of binding DNA. Each monomer incorporates two α helices, joined by a short strand of amino acids, that bind to the major groove of DNA. The HTH motif occurs in many proteins that regulate gene expression. It should not be confused with the helix–loop–helix motif.
Pfam PF07217: Heterokaryon incompatibility protein Het-C (family)
In filamentous fungi, het loci (for heterokaryon incompatibility) are believed to regulate self/nonself-recognition during vegetative growth. As filamentous fungi grow, hyphal fusion occurs within an individual colony to form a network. Hyphal fusion can occur also between different individuals to form a heterokaryon, in which genetically distinct nuclei occupy a common cytoplasm. However, heterokaryotic cells are viable only if the individuals involved have identical alleles at all het loci.
Pfam PF03147: Ferredoxin-fold anticodon binding domain (domain)
This is the anticodon binding domain found in some phenylalanyl tRNA synthetases.  The domain has a ferredoxin fold.
Wikipedia: In enzymology, a phenylalanine—tRNA ligase is an enzyme that catalyzes the chemical reactionATP + L-phenylalanine + tRNAPhe  AMP + diphosphate + L-phenylalanyl-tRNAPhe
Pfam PF21175: RecR, C-terminal (domain)
The bacterial protein RecR is an important regulator in the RecFOR homologous recombination pathway during DNA repair. It acts with RecF and RecO forming a complex that facilitates the loading of RecA onto ssDNA. RecR is a zinc metalloprotein consisting of a N-terminal helix-hairpin-helix (HhH) motif, a middle region containing a zinc finger motif ([pfam:PF02132]) and a Toprim domain ([pfam:PF13662]), and a C-terminal domain comprising a Walker B motif and a C-terminal helix. This is the C-terminal domain of RecR, which has a divergent Walker B motif, suggesting a nucleotide binding site.
Pfam PF06151: Trehalose receptor (family)
In Drosophila, taste is perceived by gustatory neurons located in sensilla distributed on several different appendages throughout the  body of the animal.  This family represents the taste receptor sensitive to trehalose.
Pfam PF23554: Dedicator of cytokinesis (DOCK) TPR region (repeat)
This entry corresponds to a TPR-like alpha solenoid region in DOCK family proteins.  The DOCK family proteins function as guanine nucleotide exchange factors (GEFs) that activate small GTPases by exchanging bound GDP for free GTP, thus converting them into their active GTP-bound form. These proteins are involved in various cellular processes, including cytoskeletal rearrangements, cell migration, phagocytosis of apoptotic cells, and regulation of adherens junctions between cells. Some family members may also play a role in disease processes such as Alzheimer's disease by interacting with presenilin proteins and affecting Tau phosphorylation. The DOCK family is characterized by the presence of a conserved DOCKER domain, which is necessary for their GEF activity and interaction with small GTPases like RAC1 and RAC2.
Pfam PF04471: Restriction endonuclease (family)
Prokaryotic family found in type II restriction enzymes containing the hallmark (D/E)-(D/E)XK active site. Presence of catalytic residues implicates this region in the enzymatic cleavage of DNA.
Pfam PF03619: Organic solute transporter Ostalpha (family)
This family is a transmembrane organic solute transport protein. In vertebrates these proteins form a complex with Ostbeta, and function as bile transporters. In plants they may transport brassinosteroid-like compounds and act as regulators of cell death.
Pfam PF00917: MATH domain (domain)
This motif has been called the Meprin And TRAF-Homology (MATH) domain. This domain is hugely expanded in the nematode C. elegans.
Wikipedia: The MATH domain, in molecular biology, is a binding domain that was defined originally by a region of homology between otherwise functionally unrelated domains, the intracellular TRAF-C domains of TRAF proteins and a C-terminal region of extracellular meprins A and B.
Pfam PF14464: Prokaryotic homologs of the JAB domain (family)
These are metalloenzymes that function as the ubiquitin isopeptidase/ deubiquitinase in the ubiquitin-based signaling and protein turnover pathways in eukaryotes. Prokaryotic JAB domains are predicted to  have a similar role in their cognates of the  ubiquitin modification pathway. The domain is widely found in bacteria,  archaea and phages where they are present in several gene contexts  in addition to those that correspond to the prokaryotic cognates of the eukaryotic Ub pathway. Other contexts in which JAB domains are present include gene neighbor associations with ubiquitin fold  domains in cysteine and siderophore biosynthesis, and phage tail  morphogenesis, where they are shown or predicted to process the  associated ubiquitin. A distinct family, the RadC-like JAB domains are widespread in bacteria and are predicted to function as nucleases. In halophilic archaea the JAB domain shows strong gene-neighborhood associations with a nucleotidyltransferase suggesting a role in nucleotide metabolism.
Pfam PF16263: Domain of unknown function (DUF4917) (family)
This family consists of uncharacterized proteins around 340 residues in length and is mainly found in various Burkholderia and Brucella  species. The function of this family is unknown.
Pfam PF13793: N-terminal domain of ribose phosphate pyrophosphokinase (domain)
This family is frequently found N-terminal to the Pribosyltran, [pfam:PF00156].
Pfam PF01653: NAD-dependent DNA ligase adenylation domain (domain)
DNA ligases catalyse the crucial step of joining the breaks in duplex DNA during DNA replication, repair and recombination, utilising either ATP or NAD(+) as a cofactor. This domain is the catalytic adenylation domain.  The NAD+ group is covalently attached to this domain at the lysine in the KXDG motif of this domain. This enzyme- adenylate intermediate is an important feature of the proposed catalytic mechanism.
Pfam PF09421: Frequency clock protein (family)
The frequency clock protein, is the central component of the frq-based circadian negative feedback loop, regulates various aspects of the circadian clock in Neurospora crassa. This protein has been shown to interact with itself via a coiled-coil.
Wikipedia: The frequency (frq) gene encodes the protein frequency (FRQ) that functions in the Neurospora crassa circadian clock. The FRQ protein plays a key role in circadian oscillator, serving to nucleate the negative element complex in the auto regulatory transcription-translation negative feedback-loop (TTFL) that is responsible for circadian rhythms in N. crassa. Similar rhythms are found in mammals, Drosophila and cyanobacteria. Recently, FRQ homologs have been identified in several other species of fungi. Expression of frq is controlled by the two transcription factors white collar-1 (WC-1) and white collar-2 (WC-2) that act together as the White Collar Complex (WCC) and serve as the positive element in the TTFL. Expression of frq can also be induced through light exposure in a WCC dependent manner. Forward genetics has generated many alleles of frq resulting in strains whose circadian clocks vary in period length.
Pfam PF14051: DPF1-3, N-terminal (family)
This putative domain has been detected on requiem/DPF family proteins. It was identified as an adaptor molecule that links nuclear factor kappa-light-chain-enhancer of activated B cells (NF-kappa-B) dimer RelB/p52 and switch/sucrose-nonfermentable (SWI/SNF) chromatin remodelling factor.
Pfam PF19757: Family of unknown function (DUF6244) (family)
This entry represents a member of a biosynthetic gene cluster (BGC). This BGC (BGC0000267) is described by MIBiG as an example of the following biosynthetic classes, polyketide and saccharide. This entry includes a member from the saquayamycin Z biosynthetic gene  cluster from Micromonospora sp. Tu 6368. This family appears to be predominantly found in Actinobacteria.
Wikipedia: A domain of unknown function (DUF) is a protein domain that has no characterised function. These families have been collected together in the Pfam database using the prefix DUF followed by a number, with examples being DUF2992 and DUF1220. As of 2019, there are almost 4,000 DUF families within the Pfam database representing over 22% of known families. Some DUFs are not named using the nomenclature due to popular usage but are nevertheless DUFs.
Pfam PF02127: Aminopeptidase I zinc metalloprotease (M18) (family)
This group of metallopeptidases belong to the MEROPS peptidase family M18, (clan MH). The proteins have two catalytic zinc ions at the active site, bound by His/Asp, Asp, Glu, Asp/Glu and His. The catalysed reaction involves the release of an N-terminal aminoacid, usually neutral or hydrophobic, from a polypeptide .

The type example is aminopeptidase I from Saccharomyces cerevisiae (Baker's yeast), the sequence of which has been deduced, and the mature protein shown to consist of 469 amino acids . A 45-residue presequence contains both positively- and negatively-charged and hydrophobic residues, which could be arranged in an N-terminal amphiphilic Î±-helix . The presequence differs from signal sequences that direct proteins across bacterial plasma membranes and endoplasmic reticulum or into mitochondria. It is unclear how this unique presequence targets aminopeptidase I to yeast vacuoles, and how this sorting utilises classical protein secretory pathways .
Pfam PF21604: Cytokine receptor-like factor 2-like, D1 domain (domain)
CRLF2 is a receptor for thymic stromal lymphopoietin (TSLP). It forms a functional complex with TSLP and IL7R which is capable of stimulating cell proliferation through activation of STAT3 and STAT5. CRFL2 is implicated in the development of the hematopoietic system. It consists of two FnIII-like domains, D1 and D2. This entry represents the membrane-distal D1 domain, characterised by a ABED/C'CFG topology stabilized by a disulfide bridge. This domain contains the three regions that grasp TSLP.
Pfam PF14087: Domain of unknown function (DUF4267) (family)
This family of integral membrane proteins is functionally uncharacterised. This family of proteins is found in bacteria and eukaryotes. Proteins in this family are typically between 126 and 142 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 PF04424: MINDY deubiquitinase (family)
This entry represents a group of deubiquitinating (DUB) enzymes known as the MINDY family (MIU-containing novel DUB). Ubiquitin (Ub) is released one molecule at a time from the distal end of proteins with Lys48-linked polyubiquitin chains. Long polyubiquitin chains are preferred. The catalytic Cys and His residues have been identified by site-directed mutagenesis, as has the Gln that participates in formation of the oxyanion hole during catalysis. Despite the structural similarity to papain-like cysteine peptidases, a residue corresponding to the Asn that orientates the imidazolium ring of the catalytic His has not been identified. Members of the MINDY family of DUBs contain an MIU (motif interacting with Ub) motif, which is a helical motif that binds mono-Ub.
Pfam PF12220: U1 small nuclear ribonucleoprotein of 70kDa MW N terminal (family)
This domain is found in eukaryotes. This domain is about 90 amino acids in length. This domain is found associated with [pfam:PF00076]. This domain is part of U1 snRNP, which is the pre-mRNA binding protein of the penta-snRNP spliceosome complex. It extends over a distance of 180 A from its RNA binding domain, wraps around the core domain of U1 snRNP consisting of the seven Sm proteins and finally contacts U1-C, which is crucial for 5'-splice-site recognition.
Pfam PF01272: Transcription elongation factor, GreA/GreB, C-term (domain)
This domain has an FKBP-like fold.
Pfam PF17889: NLRC4 helical domain (domain)
This is a helical domain found in NLRC4 , Nucleotide-binding and oligomerization domain-like receptor (NLR) proteins. Structural and functional studies indicate that the helical domain HD2 repressively contacted a conserved and functionally important alpha-helix of the NBD (nucleotide binding domain) in [swissprot:Q3UP24]. Furthermore, the HD2 domain was shown to cap the N-terminal side of the LRR (leucine-rich repeat) domain via extensive interactions. Other family members carrying this domain include baculoviral IAP repeat-containing protein 1 (Birc1) also known as neuronal apoptosis inhibitory protein (Naip).
Pfam PF17926: Tetracyclin repressor-like, C-terminal domain (domain)
TetR family regulators are involved in the transcriptional control of multidrug efflux pumps, pathways for the biosynthesis of antibiotics, response to osmotic stress and toxic chemicals, control of catabolic pathways, differentiation processes, and pathogenicity. The TetR proteins identified in overm ultiple genera of bacteria and archaea share a common helix-turn-helix (HTH) structure in their DNA-binding domain. However, TetR proteins can work in different ways: they can bind a target operator directly to exert their effect (e.g. TetR binds Tet(A) gene to repress it in the absence of tetracycline), or they can be involved in complex regulatory cascades in which the TetR protein can either be modulated by another regulator or TetR can trigger the cellular response. TetR regulates the expression of the membrane-associated tetracycline resistance protein, TetA, which exports the tetracycline antibiotic out of the cell before it can attach to the ribosomes and inhibit protein synthesis. TetR blocks transcription from the genes encoding both TetA and TetR in the absence of antibiotic. The C-terminal domain is multi-helical and is interlocked in the homodimer with the helix-turn-helix (HTH) DNA-binding domain. This entry represents the C-terminal domain present the TetR Transcriptional Repressor found in Streptomyces coelicolor A3. Family members include HTH-type transcriptional repressor sco4008, which is suggested to be a transcriptional repressor of sco4007 responsible for the multidrug resistance system in S. coelicolor A3.
Pfam PF02665: Nitrate reductase gamma subunit (family)
This family is the gamma subunit of the nitrate reductase enzyme, the gamma subunit is a b-type cytochrome that receives electrons from the quinone pool.        It then transfers these via the iron-sulfur clusters of the beta subunit to the molybdenum cofactor found in the alpha subunit.  The nitrate reductase enzyme, [ec:1.7.99.4] catalyses the conversion of nitrite to nitrate via the reduction of an acceptor.  The nitrate reductase enzyme is composed of three subunits. Nitrate is the most widely used alternative electron acceptor after oxygen.
Wikipedia: Nitrate reductases are molybdoenzymes that reduce nitrate to nitrite. This reaction is critical for the production of protein in most crop plants, as nitrate is the predominant source of nitrogen in fertilized soils.
Pfam PF21320: Rv2258c-like winged HTH domain (domain)
The Mycobacterium tuberculosis Rv2258c protein is an S-adenosyl-L-methionine (SAM)-dependent methyltransferase (MTase). The monomer structure of Rv2258c consists of two domains which are linked by a long alpha-helix. The N-terminal domain, found in this entry, is essential for dimerization and the C-terminal domain has the Class I MTase fold. This domain has a winged Helix-Turn-Helix fold.
Pfam PF16721: Zinc-finger like, probable DNA-binding (domain)
This is a family of probably DNA-binding zinc-fingers found on Gag-Pol polyproteins from mouse retroviruses. Added to clan to resolve overlaps with zf-H2C2, but neither are true members.
Pfam PF12445: Flagellin protein (family)
This domain family is found in bacteria, and is typically between 125 and 147 amino acids in length. The family is found in association with [pfam:PF00669], [pfam:PF00700]. There are two completely conserved G residues that may be functionally important. This family is the flagellin motor protein which confers motility to bacterial cells.
Pfam PF17639: Family of unknown function (DUF5517) (family)
This is a family of unknown function found in Fuselloviridae. Structure analysis suggest a role in viral assembly.
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 PF18511: F-box (domain)
Jasmonates are a family of plant hormones that regulate plant growth, development and responses to stress. COI1 is an F-box protein that functions as the substrate-recruiting module of the Skp1-Cul1-F-box protein (SCF) ubiquitin E3 ligase complex. The role of COI1-mediated JAZ degradation in jasmonate (JA) signaling is analogous to auxin signaling through the receptor F-box protein transport inhibitor response 1 (TIR1) , which promotes hormone-dependent turnover of the AUX/IAA transcriptional repressors. The crystal structure of COI1 reveals a TIR1-like overall architecture, with an N-terminal tri-helical F-box motif bound to ASK1 and a C-terminal horseshoe-shaped solenoid domain formed by 18 tandem leucine-rich repeats. This entry represents the N-terminal F-box domain which is also found in other auxin signaling f-box proteins such as AFB1, AFB2 and AFB3.
Wikipedia: F-box proteins are proteins containing at least one F-box domain. The first identified F-box protein is one of three components of the SCF complex, which mediates ubiquitination of proteins targeted for degradation by the 26S proteasome.
Pfam PF16284: Domain of unknown function (DUF4930) (family)
A small family of uncharacterized proteins around 150 residues in length and found in various Staphylococcus aureus species. The function of this family is unknown.
Pfam PF13439: Glycosyltransferase Family 4 (domain)
MshA belongs to the GT-B structural family of glycosyltransferases whose members have a two-domain structure with both domains exhibiting a Rossman-type fold . This entry represents the N-terminal domain found in MshA and the subfamily 4 of glycosyltransferases family 1.
Pfam PF09768: Peptidase M76 family (family)
This is a family of metalloproteases.  Proteins in this family are also annotated as Ku70-binding proteins.
Pfam PF11582: Protein of unknown function (DUF3240) (domain)
This family of proteins with unknown function appears to be restricted to 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 PF08515: Transforming growth factor beta type I GS-motif (family)
This motif is found in the transforming growth factor beta (TGF-beta) type I which regulates cell growth and differentiation.  The name of the GS motif comes from its highly conserved GSGSGLP signature in the cytoplasmic juxtamembrane region immediately preceding the protein's kinase domain.  Point mutations in the GS motif modify the signaling ability of the type I receptor.
Wikipedia: The transforming growth factor beta (TGFβ) receptors are a family of serine/threonine kinase receptors involved in TGF beta signaling pathway. These receptors bind growth factor and cytokine signaling proteins in the TGF-beta family such as TGFβs, bone morphogenetic proteins (BMPs), growth differentiation factors (GDFs), activin and inhibin, myostatin, anti-Müllerian hormone (AMH), and NODAL.
Pfam PF09365: Conserved hypothetical protein (DUF2461) (domain)
Members of this family are widely (though sparsely) distributed bacterial proteins, about 230 residues in length. All members have a motif RxxRDxRFxxx[DN]KxxY. The function of this protein 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.