SII-SWORD/CoKE huggingface dataset:
Pfam PF11318: Protein of unknown function (DUF3120) (domain)
This family of proteins with unknown function appears to be restricted to Cyanobacteria.
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 PF08300: Hepatitis C virus non-structural 5a zinc finger domain (domain)
The molecular function of the non-structural 5a protein is uncertain.  The NS5a protein is phosphorylated when expressed in mammalian cells.  It is thought to interact with the ds RNA dependent (interferon inducible) kinase PKR, [swissprot:P19525]. This domain corresponds to the N-terminal zinc binding domain.
Pfam PF21934: YscD/CdsD-like Bon-like domain 3 (domain)
Yop-YscD-ppl is the periplasmic domain of Yop proteins like YscD from Proteobacteria. YscD forms part of the inner membrane component of the bacterial type III secretion injectosome apparatus. This entry represents the third of three periplasmic BON domains.
Pfam PF03033: Glycosyltransferase family 28 N-terminal domain (family)
The glycosyltransferase family 28 includes monogalactosyldiacylglycerol synthase ([swissprot:P93115], EC 2.4.1.46) and UDP-N-acetylglucosamine transferase ([swissprot:P74657], EC 2.4.1.-). This N-terminal domain contains the acceptor binding site and likely membrane association site. This family also contains a large number of proteins that probably have quite distinct activities.
Pfam PF06419: Conserved oligomeric complex COG6, N-terminal (repeat)
COG6 is a component of the conserved oligomeric Golgi (COG) complex, which is composed of eight different subunits organised in two tetramers (COG1-4 and COG5-8). COG is required for normal Golgi morphology and localisation and it is involved in intra-Golgi protein trafficking. COG subunits belong to the CATCHR (complexes associated with tethering containing helical rods) family which includes subunits of the GARP/EARP, exocyst, and Dsl1 complexes, all evolutionary related and have a conserved structural fold consisting of alpha-helical bundles in tandem at the C-terminal and a coiled-coil region at the N-terminal. This entry represents the N-terminal coiled-coil region of COG6.
Pfam PF13420: Acetyltransferase (GNAT) domain (domain)
Wikipedia: An acetyltransferase is any of a class of transferase enzymes that transfers an acetyl group in a reaction called acetylation. In biological organisms, post-translational modification of a protein via acetylation can profoundly transform its functionality by altering various properties like hydrophobicity, solubility, and surface attributes. These alterations have the potential to influence the protein's conformation and its interactions with substrates, cofactors, and other macromolecules.
Pfam PF18801: response regulator aspartate phosphatase H, N terminal (family)
Rap proteins consist of a N-terminal 3-helix bundle and a tetratricopeptide domain. This entry represents the conserved region of the C-terminal bundle.
Pfam PF14274: BT_3044-like, C-terminal (domain)
This entry represents a domain found at the C-terminal end of a group of proteins from bacteroidetes, including BT_3044 from Bacteroides thetaiotaomicron, a glycan binding enzyme that could degrade oligosaccharides or even large molecular size glycans.
Pfam PF14662: Coiled-coil region of CCDC155 or KASH (coiled_coil)
This coiled-coil region is found in the central part of KASH or Klarsicht/ANC-1/Syne/homology proteins. KASH are a meiosis-specific proteins that localise at telomeres and interact with SUN1, thus being implicated in meiotic chromosome dynamics and homologue pairing.
Pfam PF06014: YqgQ-like (family)
This family consists of several short bacterial proteins, including Uncharacterized protein YqgQ from Bacillus subtilis. YqgQ folds into a three-helical bundle, with the helix order being left-handed and with the third helix flanked by a loop. Based on sequence and structural homology, this protein is thought to be involved in single-stranded nucleic acid binding.
Pfam PF08155: NOGCT (NUC087) domain (domain)
This C terminal domain is found in the NOG subfamily of nucleolar GTP-binding proteins.
Pfam PF23178: ADAMTS C-terminal helical domain (domain)
This domain is found C-terminal in some members of ADAMTS family (ADAMTS - A Disintegrin And Metalloproteinase domain, with ThromboSpondin type-1 modules) such as human ADAMTS17 and ADAMTS19. ADAMTS family of zinc-dependent proteases plays important roles in a variety of normal and pathological conditions, including arthritis and cancer. This domain contains conserved cysteine residues that may be involved in disulfide bridge formation. It is predicted to adopt a globular structure consisting of four alpha-helices.
Pfam PF24927: Domain of unknown function (DUF7747) (domain)
This domain is found in uncharacterised protein ZK892.6 from Caenorhabditis elegans and related proteins. It is found either standalone or in combination with other domains. Some proteins contain multiple copies of this domain. It is predicted to adopt a globular structure consisting of an antiparallel six-stranded beta-sheet and alpha-helices packed on both sides of it. This domain contains a highly conserved PxxPP motif.
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 PF03370: Carbohydrate/starch-binding module (family 21) (domain)
This family consists of several eukaryotic proteins that are thought to be involved in the regulation of glycogen metabolism. For instance, the mouse PTG protein [swissprot:O08541] has been shown to interact with glycogen synthase, phosphorylase kinase, phosphorylase a: these three enzymes have key roles in the regulation of glycogen metabolism. PTG also binds the catalytic subunit of protein phosphatase 1 (PP1C) and localises it to glycogen.  Subsets of similar interactions have been observed with several other members of this family, such as the yeast PIG1, PIG2, GAC1 and GIP2 proteins. While the precise function of these proteins is not known, they may serve a scaffold function, bringing together the key enzymes in glycogen metabolism. This family is a carbohydrate binding domain.
Wikipedia: In molecular biology, a carbohydrate-binding module (CBM) is a protein domain found in carbohydrate-active enzymes. The majority of these domains have carbohydrate-binding activity. Some of these domains are found on cellulosomal scaffoldin proteins. CBMs were previously known as cellulose-binding domains. CBMs are classified into numerous families, based on amino acid sequence similarity. There are currently 64 families of CBM in the CAZy database.
Pfam PF20151: Family of unknown function (DUF6533) (family)
This entry represents a short conserved region found in a large family of fungal integral membrane 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 PF05889: O-phosphoseryl-tRNA(Sec) selenium transferase, SepSecS (domain)
Early annotation suggested this family, SepSecS, of several eukaryotic and archaeal proteins, was involved in antigen-antibodies responses in the liver and pancreas. Structural studies show that the family is O-phosphoseryl-tRNA(Sec) selenium transferase, an enzyme involved in the synthesis of the amino acid selenocysteine (Sec). Sec is the only amino acid whose biosynthesis occurs on its cognate transfer RNA (tRNA). SepSecS catalyses the final step in the formation of the amino acid.  The early observation that autoantibodies isolated from patients with type I autoimmune hepatitis targeted a ribonucleoprotein complex containing tRNASec led to the identification and characterisation of the archaeal and the human SepSecS. SepSecS forms its own branch in the family of fold-type I pyridoxal phosphate (PLP) enzymes that goes back to the last universal common ancestor which explains why the archaeal sequences [swissprot:Q8TXK0] and [swissprot:Q8TYR3] are annotated as being pyridoxal phosphate-dependent enzymes.
Pfam PF17844: Bacterial SCP ortholog (domain)
This domain is found in MSMEG_5817 gene product from M. smegmatis. It has been shown to be vital for mycobacterial survival within host macrophages. Crystal structure revealed a Rossmann-like fold alpha/beta two-layer sandwich forming a highly hydrophobic interface cavity and with high structural homology to the SCP family. Hence, it has been suggested that this domain may be involved in the interaction of apolar ligands through its hydrophobic cavity. Alanine-scanning mutagenesis of the hydrophobic cavity of MSMEG_5817 protein demonstrated that the conserved Val82 residue plays an important role in ligand binding.
Wikipedia: Sterol carrier proteins is a family of proteins that transfer steroids and probably also phospholipids and gangliosides between cellular membranes.
Pfam PF04603: Ran-interacting Mog1 protein (domain)
Segregation of nuclear and cytoplasmic processes facilitates regulation of many eukaryotic cellular functions such as gene expression and cell cycle progression. Trafficking through the nuclear pore requires a number of highly conserved soluble factors that escort macromolecular substrates into and out of the nucleus. The Mog1 protein has been shown to interact with RanGTP which stimulates guanine nucleotide release, suggesting Mog1 regulates the nuclear transport functions of Ran. The human homologue of Mog1 is thought to be alternatively spliced.
Pfam PF10231: Cytochrome c oxidase assembly factor 8 (family)
Apoptogenic protein 1 (Apop1, also known as cytochrome c oxidase assembly factor 8), previously thought to induce apoptosis through the Cyclophilin-D-dependent pathway, is required for cytochrome c oxidase (COX) assembly and function. Apop1 is controlled by the ubiquitination-proteasome system (UPS). In Drosophila melanogaster, Apop1 is also involved in neurological impairment, COX enzymatic activity, and resistance to oxidative stress conditions.
Pfam PF06831: Formamidopyrimidine-DNA glycosylase H2TH domain (domain)
Formamidopyrimidine-DNA glycosylase (Fpg) is a DNA repair enzyme that excises oxidised purines from damaged DNA. This family is the central domain containing the DNA-binding helix-two turn-helix domain.
Wikipedia: In molecular biology, the H2TH domain is a DNA-binding domain found in DNA glycosylase/AP lyase enzymes, which are involved in base excision repair of DNA damaged by oxidation or by mutagenic agents. Most damage to bases in DNA is repaired by the base excision repair pathway. These enzymes are primarily from bacteria, and have both DNA glycosylase activity EC 3.2.2.- and AP lyase activity EC 4.2.99.18. Examples include formamidopyrimidine-DNA glycosylases and endonuclease VIII (Nei).
Pfam PF18681: Family of unknown function (DUF5634) (domain)
This is a domain of unknown function mostly found in bacilli.
Wikipedia: A domain of unknown function (DUF) is a protein domain that has no characterised function. These families have been collected together in the Pfam database using the prefix DUF followed by a number, with examples being DUF2992 and DUF1220. As of 2019, there are almost 4,000 DUF families within the Pfam database representing over 22% of known families. Some DUFs are not named using the nomenclature due to popular usage but are nevertheless DUFs.
Pfam PF01885: RNA 2'-phosphotransferase, Tpt1 / KptA family (family)
Tpt1 catalyses the last step of tRNA splicing in yeast.  It transfers the splice junction 2'-phosphate from ligated tRNA to NAD, to produce ADP-ribose 1"-2"-cyclic phosphate.  This is presumed to be followed by a transesterification step to release the RNA.                     The first step of this reaction is similar to that catalysed by some bacterial toxins. E. coli KptA and mouse Tpt1 are likely to use the same reaction mechanism.
Pfam PF09989: CoA enzyme activase uncharacterised domain (DUF2229) (family)
Members of this family include various bacterial hypothetical proteins, as well as CoA enzyme activases. The exact function of this domain has not, as yet, been defined.
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 PF05634: APO RNA-binding (family)
This domain contains conserved cysteine and histidine residues. It resembles zinc fingers, and binds to zinc. This domain functions as an RNA-binding domain.
Pfam PF16002: Headcase protein (family)
This domain is found in Drosophila Headcase protein and the human Headcase protein homolog. In humans, it may have a role in some cancers.
Pfam PF18741: REase_MTES_1575 (domain)
Vsr REase Fold. Fused to HEPN (SWT1/Abi2 family), along with Transglutaminase and wHTH.
Pfam PF00236: Glycoprotein hormone (domain)
Glycoprotein hormones  (or gonadotropins) are a family of proteins, which include the mammalian hormones follitropin (FSH), lutropin (LSH), thyrotropin(TSH) placental chorionic gonadotropins hCG and eCG  and chorionic gonadotropin (CG), as well as at least two forms of fish gonadotropins. These hormones are central to the complex endocrine system that regulates normal growth, sexual development, and reproductive function . The hormones LH, FSH and TSH are secreted by the anterior pituitary gland, while hCG and eCG are secreted by the placenta . All these hormones consist of two glycosylated chains (alpha and beta). The alpha subunit is common to each protein dimer (well conserved within species, but differing between them ), and a unique beta subunit, which confers biological specificity . The alpha chains are highly conserved proteins of about 100 amino acid residues which contain ten conserved cysteines all involved in disulphide bonds , as shown in the following schematic representation.

                        +---------------------------+
            +----------+|             +-------------|--+
            |          ||             |             |  |
        xxxxCxCxxxxxxCxCCxxxxxxxxxxxxxCCxxxxxxxxxxCxCxxCx
              |      |                 |          |
              +------|-----------------+          |
                     |                            |
                     +----------------------------+


'C': conserved cysteine involved in a disulphide bond.

Intracellular levels of free alpha subunits are greater than those of the mature glycoprotein, implying that hormone assembly is limited by the appearance of the specific beta subunits, and hence that synthesis of alpha and beta is independently regulated .
Wikipedia: Gonadotropins are glycoprotein hormones secreted by gonadotropic cells of the anterior pituitary of vertebrates. This family includes the mammalian hormones follicle-stimulating hormone (FSH) and luteinizing hormone (LH), the placental/chorionic gonadotropins, human chorionic gonadotropin (hCG) and equine chorionic gonadotropin (eCG), as well as at least two forms of fish gonadotropins. These hormones are central to the complex endocrine system that regulates normal growth, sexual development, and reproductive function. LH and FSH are secreted by the anterior pituitary gland, while hCG and eCG are secreted by the placenta in pregnant women and mares, respectively. The gonadotropins act on the gonads, controlling gamete and sex hormone production.
Pfam PF22418: EhRGS-RhoGEF PH domain-like (domain)
This entry represents the PH-like domain of a RGS-RhoGEF from Entamoeba histolytica (EhRGS-RhoGEF) which, like its mammalian homologues, serves as an EhGalpha1 effector and signals through Rho family GTPases playing important roles in its pathogenesis. This domain mediates activation of Rho family GTPases.
Pfam PF23066: C-Maf-inducing protein PH domain (domain)
This entry represents the PH domain found in C-Maf-inducing protein. The C-Maf-inducing protein family is involved in T-cell signaling pathways. Members of this family are implicated in the regulation of immune responses, particularly in the differentiation and function of T-helper cells. The human isoform 2 of the family has a specific role in the T-helper 2 (Th2) signaling pathway, linking T-cell receptor-mediated signals to the activation of the c-Maf transcription factor, which is a key regulator of Th2-specific responses.
Pfam PF16220: Domain of unknown function (DUF4880) (domain)
This domain can be found on the N-terminal of uncharacterized proteins from various Rhodopseudomonas and Pseudomonas species, often, but not always followed by the ron siderophore sensor protein family (FecR, PF04773). The function of this domain is unknown.
Pfam PF15578: Domain of unknown function (DUF4662) (family)
This family of proteins is found in eukaryotes. Proteins in this family are approximately 290 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 PF21403: OTU1, UBXL domain (domain)
OTU1 is a deubiquitinating enzyme that may play an important regulatory role at the level of protein turnover by preventing degradation. This entry represents the ubiquitin regulatory X-like (UBXL) which interacts with the N-terminal domain of VCP and removes ubiquitin chains using the OTU domain. This domain is also found in VCIP1, a known UBXL-containing protein that functions in p97/p47-mediated Golgi reassembly.
Pfam PF18505: Domain of unknown function (DUF5619) (domain)
This is a domain of unknown function found in bacteria and 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 PF09674: Protein of unknown function (DUF2400) (family)
Members of this uncharacterised protein family are found sporadically, so far only among spirochetes, epsilon and delta proteobacteria, and Bacteroides. The function is unknown and its gene neighbourhoods show little conservation.
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 PF00163: Ribosomal protein S4/S9 N-terminal domain (family)
This family includes small ribosomal subunit S9 from prokaryotes and S16 from metazoans.  This domain is predicted to bind to ribosomal RNA.  This domain is composed of four helices in the known structure.  However the domain is discontinuous in sequence and the alignment for this family contains only the first three helices.
Pfam PF22214: Mechanosensory ion channel subunit mec-4/10 cytosolic domain (domain)
This entry represents the cytosolic domain of Mec-4 and Mec-10 of C. elegans, the pore-forming subunits of the sensory mechanotransduction complex that mediates touch sensation.
Pfam PF04178: Got1/Sft2-like family (family)
Traffic through the yeast Golgi complex depends on a member of the syntaxin family of SNARE proteins, Sed5, present in early Golgi cisternae.  Got1 is thought to facilitate Sed5-dependent fusion events.  This is a family of sequences derived from eukaryotic proteins. They are similar to a region of a SNARE-like protein required for traffic through the Golgi complex, SFT2 protein ([swissprot:P38166]). This is a conserved protein with four putative transmembrane helices, thought to be involved in vesicular transport in later Golgi compartments.
Pfam PF24979: EDAR death domain (domain)
This entry represents a death domain found in the EDAR proteins. The Tumor necrosis factor receptor superfamily member EDAR is a receptor for ectodysplasin A (EDA) isoforms, specifically binding to isoform A1 in humans and isoform TAA in mice, but not to isoform A2 or TA-2. This protein family is involved in mediating the activation of key signaling pathways, including NF-kappa-B and JNK, which are crucial for various cellular processes. Additionally, members of this family may promote caspase-independent cell death, highlighting their potential role in apoptosis regulation. These functions suggest that the EDAR family plays a significant role in developmental processes and possibly in immune responses.
Pfam PF02970: Tubulin binding cofactor A (domain)
The tubulin heterodimer consists of one alpha- and one beta-tubulin polypeptide. In humans, five tubulin-specific chaperones termed TBCA/B/C/D/E are essential for bring the alpha- and beta-tubulin subunits together into a tightly associated heterodimer. Following the generation of quasi-native beta- and alpha-tubulin polypeptides (via multiple rounds of ATP-dependent interaction with the cytosolic chaperonin), TBCA and TBCB bind to and stabilise newly synthesised beta- and alpha-tubulin, respectively. The exchange of beta-tubulin between TBCA and TBCD, and of alpha-tubulin between TBCB and TBCE, resulting in the formation of TBCD/beta and TBCE/alpha. These two complexes then interact with each other and form a supercomplex (TBCE/alpha/TBCD/beta). Interaction of the supercomplex with TBCC causes the disassembly of the supercomplex and the release of E-site GDP-bound alpha/beta tubulin heterodimer, which becomes polymerization competent following spontaneous exchange with GTP .
This entry represents tubulin binding cofactor A (TBCA) from animal, plants and fungi. Human TBCA functions as a molecular chaperone for beta-tubulin . Budding yeast TBCA, also known as Rbl2, may bind transiently to free beta-tubulin, which then passes into an aggregated form that is not toxic . The sequence identity of Rbl2 and human TBCA is only 32%, they appear to be structurally distinct and may interact with beta-tubulin by different mechanisms .
Pfam PF21225: C2H2-type zinc finger (domain)
This is a Cys2-His2 zinc finger, the most common type of DNA-binding domain. Members of this group of proteins are usually found in vertebrates.