SII-SWORD/CoKE huggingface dataset:
Pfam PF20315: Family of unknown function (DUF6611) (family)
This family of proteins is functionally uncharacterised. This family of proteins is found in bacteria. Proteins in this family are typically between 165 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 PF12329: TATA element modulatory factor 1 DNA binding (coiled_coil)
This is the middle region of a family of TATA element modulatory factor 1 proteins conserved in eukaryotes that contains at its N-terminal section a number of leucine zippers that could potentially form coiled coil structures.. The whole proteins bind to the TATA element of some RNA polymerase II promoters and repress their activity. by competing with the binding of TATA binding protein. TMFs are evolutionarily conserved golgins that bind Rab6, a ubiquitous ras-like GTP-binding Golgi protein, and contribute to Golgi organisation in animal and plant cells.
Pfam PF17083: Nucleolar protein Swm2 (family)
The nucleolar protein SWM2 (Synthetic With MUD-2-delta protein2) constitutes a yeast protein family. SWM2 is a nonessential gene whose function is unknown, but it encodes a protein that binds Tgs1, an enzyme responsible for 2,2,7-trimethylguanosine (TMG) capping of small nuclear (sn) RNAs implicated in pre-mRNA splicing.
Pfam PF17276: Family of unknown function (DUF5341) (family)
This is a family of unknown function, which can be found mostly in Ascomycota.
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 PF23020: Peroxisomal membrane protein PEX14-like, central (domain)
This domain is centrally located in Peroxisomal membrane protein PEX14 from Arabidopsis thaliana and similar plant sequences. PEX14 is a component of the PEX13-PEX14 docking complex, a translocon channel that specifically mediates the import of peroxisomal cargo proteins bound to PEX5 receptor. It is often found between [pfam:PF04695] and [pfam:PF17733] and is predicted to adopt an all-alpha helical configuration.
Pfam PF04059: RNA recognition motif 2 (family)
This RNA recognition motif 2 is found in meiosis protein mei2 and mei2-like proteins . It is found C-terminal to the RNA-binding region RNP-1 (IPR000504).
Pfam PF03605: Anaerobic c4-dicarboxylate membrane transporter (family)
These proteins are members of the C4-Dicarboxylate Uptake (Dcu) family. Most proteins in this family are predicted to have 12 GES predicted transmembrane regions; however the one member whose membrane topology has been experimentally determined has 10 transmembrane regions, with both the N- and C-termini localized to the periplasm . The DcuA and DcuB proteins are involved in the transport of aspartate, malate, fumarate and succinate in many species , and are thought to function as antiporters with any two of these substrates. Since DcuA is encoded in an operon with the gene for aspartase, and DcuB is encoded in an operon with the gene for fumarase, their physiological functions may be to catalyze aspartate:fumarate and fumarate:malate exchange during the anaerobic utilization of aspartate and fumarate, respectively . The Escherichia coli DcuA and DcuB proteins have very different expression patterns . DcuA is constitutively expressed; DcuB is strongly induced anaerobically by FNR and C4-dicarboxylates, while it is repressed by nitrate and subject to CRP-mediated catabolite repression.
Wikipedia: The C4-dicarboxylate uptake family or Dcu family is a family of transmembrane ion transporters found in bacteria. Their function is to exchange dicarboxylates such as aspartate, malate, fumarate and succinate.
Pfam PF05418: Apovitellenin I (Apo-VLDL-II) (family)
This family consists of several avian apovitellenin I sequences. As part of the avian reproductive effort, large quantities of triglyceride-rich very-low-density lipoprotein (VLDL) particles are transported by receptor-mediated endocytosis into the female germ cells. Although the oocytes are surrounded by a layer of granulosa cells harbouring high levels of active lipoprotein lipase, non-lipolysed VLDL is transported into the yolk. This is because VLDL particles from laying chickens are protected from lipolysis by apolipoprotein (apo)-VLDL-II, a potent dimeric lipoprotein lipase inhibitor. Apo-VLDL-II is produced in the liver and secreted into the blood stream when induced by estrogen production in female birds.
Wikipedia: In molecular biology, apovitellenin-1 is a family of proteins found in birds. As part of the avian reproductive effort, large quantities of triglyceride-rich very-low-density lipoprotein (VLDL) particles are transported by receptor-mediated endocytosis into the female germ cells, apovitellenin-1 is a protein component of this VLDL. Although the oocytes are surrounded by a layer of granulosa cells harbouring high levels of active lipoprotein lipase, non-lipolysed VLDL is transported into the yolk. This is because the VLDL particles are protected from lipolysis by apovitellenin-1a, which acts as a potent dimeric lipoprotein lipase inhibitor. Apo-VLDL-II is produced in the liver and secreted into the blood stream when induced by estrogen production in female birds.
Pfam PF18650: Immunomodulating metalloprotease N-terminal domain (domain)
PA0572 of P. aeruginosa is an inhibitor of PSGL-1, also known as an immunomodulating metalloprotease of P. aeruginosa (IMPa). IMPa prevents neutrophil extravasation and thereby protects P. aeruginosa from neutrophil attack. It belongs to the peptidase M60 family [pfam:PF13402]. This entry represents the N-terminal alpha/beta-fold domain.
Pfam PF24668: Vigilin KH domain (domain)
This entry represents KH domains found in vigilin, a protein that it though to play a role in cell sterol metabolism. It may function to protect cells from over-accumulation of cholesterol. It has also been associated with other diverse biological processes like RNA transport and metabolism, chromosome segregation, and carcinogenesis. In humans, vigilin plays a critical role in efficient repair of DNA double-stranded breaks and functions in homology-directed DNA repair.
Pfam PF06896: Phage tail assembly chaperone proteins, TAC (family)
This is a family of phage tail tube assembly chaperone proteins from some Siphoviridae viruses.
Pfam PF07039: SGF29 tudor-like domain (domain)
SAGA-associated factor 29 (SGF29) is involved in transcriptional regulation as a chromatin reader component of some histone acetyltransferase (HAT) SAGA-type complexes like the TFTC-HAT, ATAC or STAGA complexes. It specifically recognises and binds methylated 'Lys-4' of histone H3 (H3K4me), with a preference for the trimethylated form (H3K4me3). It also may be involved in MYC-mediated oncogenic transformation. This entry represents the two tandem tudor-like domains found at the C-terminal of yeast and human SGF29 proteins and the plant homologues.  Each of them has a negatively-charged pocket capable of binding H3A1  and an aromatic cage for the recognition of H3K4me2/3 residues.
Pfam PF08294: TIM21 (domain)
TIM21 interacts with the outer mitochondrial TOM complex and promotes the insertion of proteins into the inner mitochondrial membrane.
Pfam PF10459: Peptidase S46 (family)
Dipeptidyl-peptidase 7 (DPP-7) is the best characterised member of this family.  It is a serine peptidase that is located on the cell surface and is predicted to have two N-terminal transmembrane domains.
Pfam PF10617: Protein of unknown function (DUF2474) (family)
This family of short proteins has no known function.
Wikipedia: A domain of unknown function (DUF) is a protein domain that has no characterised function. These families have been collected together in the Pfam database using the prefix DUF followed by a number, with examples being DUF2992 and DUF1220. As of 2019, there are almost 4,000 DUF families within the Pfam database representing over 22% of known families. Some DUFs are not named using the nomenclature due to popular usage but are nevertheless DUFs.
Pfam PF14225: Cell morphogenesis C-terminal (family)
This family is the conserved C-terminal region of proteins that are involved in cell morphogenesis.
Pfam PF00963: Cohesin domain (domain)
Cohesin domains interact with a complementary domain, termed the dockerin domain.  The cohesin-dockerin interaction is the crucial interaction for complex formation in the cellulosome.
Wikipedia: In molecular biology, the cohesin domain is a protein domain. It interacts with a complementary domain, termed the dockerin domain. The cohesin-dockerin interaction is the crucial interaction for complex formation in the cellulosome.
Pfam PF14244: gag-polypeptide of LTR copia-type (family)
This family is found in Plants and fungi, and contains pol polyprotein-like retroelements or retrotransposons of the copia-type. It is a short domain at the very start of these polypeptides.
Pfam PF09425: Jas motif (conserved_site)
This entry represents the Jas motif. The Jas motif can bind to jasmonate as a partially unwound helix. It can also bind to Myc proteins which are key mediators of josmonate signalling in plants.
Pfam PF22120: T6SS, Peptidoglycan muramidase Tse3, N-terminal domain (repeat)
This domain is found in Peptidoglycan muramidase Tse3 from Pseudomonas aeruginosa and similar sequences from bacteria. Tse3 is a toxin secreted by the H1 type VI (H1-T6SS) secretion system into the periplasm of recipient cells. This protein degrades peptidoglycan via muramidase activity. It is organised into a small N-terminal domain (this entry), which contains seven alpha-helices packed in a rod-like helical repeat motif, and a C-terminal catalytic domain ([pfam:PF22115]).
Pfam PF23268: RIN1-like domain (domain)
This domain is found in human Ras and Rab interactor 1 (RIN1) and similar animal proteins. RIN1 is a Ras effector protein, which may serve as an inhibitory modulator of neuronal plasticity in aversive memory formation. This domain is predicted to adopt an all-alpha configuration. It is often found associated with [pfam:PF02204].
Pfam PF03350: Uncharacterized protein family, UPF0114 (family)
This conserved hypothetical protein family with four predicted transmembrane regions is found in Escherichia coli, Haemophilus influenzae, and Helicobacter pylori 26695, among completed genomes.
Pfam PF06253: Trimethylamine methyltransferase (MTTB) (family)
This family consists of several trimethylamine methyltransferase (MTTB) ([ec:2.1.1.-]) proteins from numerous Rhizobium and Methanosarcina species.
Pfam PF21924: XRCC4 coiled-coil (coiled_coil)
This entry represents the dimeric coiled-coil region from the XRCC4 protein.  The complex of two proteins, XRCC4 and DNA ligase IV, plays a fundamental role in DNA non-homologous end joining (NHEJ), a cellular function required for double-strand break repair and V(D)J recombination. The BRCT domains of DNA ligase IV bind to this region.
Pfam PF06108: Protein of unknown function (DUF952) (family)
This family consists of several hypothetical bacterial and plant 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 PF07127: Late nodulin domain (domain)
This domain is found in a group of plant specific late nodulin sequences homologous to the Pisum sativum (Garden pea) ENOD3 protein.  ENOD3 is expressed in the late stages of root nodule formation and contains two pairs of cysteine residues towards the C-terminus which may be involved in metal-binding.
Pfam PF00049: Insulin/IGF/Relaxin family (domain)
Superfamily includes insulins; relaxins; insulin-like growth factor; and bombyxin. All are secreted regulatory hormones. Disulfide rich, all-alpha fold. Alignment includes B chain, linker (which is processed out of the final product), and A chain.
Wikipedia: The insulin/IGF/relaxin family is a group of evolutionary related proteins which possess a variety of hormonal activities. Family members in human include two subfamilies:
Pfam PF09073: BUD22 (family)
BUD22 has been shown in yeast to be a nuclear protein involved in bud-site selection.  It plays a role in positioning the proximal bud pole signal. More recently it has been shown to be involved in ribosome biogenesis.
Pfam PF20241: Domain of unknown function (DUF6598) (domain)
This putative domain is found in one or more copies in several plant proteins. The function of the domain 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 PF00650: CRAL/TRIO domain (domain)
The CRAL-TRIO domain is a protein structural domain that binds small lipophilic molecules . The domain is named after cellular retinaldehyde-binding protein (CRALBP) and TRIO guanine exchange factor.

The CRAL-TRIO domain is found in GTPase-activating proteins (GAPs), guanine nucleotide exchange factors (GEFs) and a family of hydrophobic ligand binding proteins, including the yeast SEC14 protein and mammalian retinaldehyde- and alpha-tocopherol-binding proteins. The domain may either constitute all of the protein or only part of it .

The structure of the domain in SEC14 proteins has been determined . The structure contains several Î± helices as well as a Î² sheet composed of 6 strands. Strands 2,3,4 and 5 form a parallel Î² sheet with strands 1 and 6 being anti-parallel. The structure also identified a hydrophobic binding pocket for lipid binding.
Wikipedia: CRAL-TRIO domain is a protein structural domain that binds small lipophilic molecules. This domain is named after cellular retinaldehyde-binding protein (CRALBP) and TRIO guanine exchange factor.
Pfam PF21733: Death domain (domain)
This entry represents a death domain found in proteins containing tandem [pfam:PF00020] domains. This domain is largely found in fish proteins.
Wikipedia: The death domain (DD) is a protein interaction module composed of a bundle of six alpha-helices. DD is a subclass of protein motif known as the death fold and is related in sequence and structure to the death effector domain (DED) and the caspase recruitment domain (CARD), which work in similar pathways and show similar interaction properties. DD bind each other forming oligomers. Mammals have numerous and diverse DD-containing proteins. Within these proteins, the DD domains can be found in combination with other domains, including: CARDs, DEDs, ankyrin repeats, caspase-like folds, kinase domains, leucine zippers, leucine-rich repeats (LRR), TIR domains, and ZU5 domains.
Pfam PF08426: ICE2 (family)
ICE2 is a fungal ER protein which has been shown to play an important role in forming/maintaining the cortical ER.  It has also bee identified as a protein which is necessary for nuclear inner membrane targeting.
Pfam PF24371: Domain of unknown function (DUF7527) (domain)
This domain of unknown function is found at the C-terminal end of a group of archaeal proteins. It is predicted to adopt an alpha-beta 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 PF19501: PcRGLX-like N-terminal RIFT barrel domain (domain)
This family of proteins includes Exo-rhamnogalacturonan lyase from Penicillium chrysogenum 31B (PcRGLX). The family also includes YetA from B. subtilis is functionally uncharacterised. This family of proteins is found in Actinobacteria, Firmicutes, Proteobacteria and fungi. Proteins in this family are typically between 863 and 928 amino acids in length.  This entry represents the N-terminal RIFT barrel like domain. Members of this family share a 3 domain architecture.
Pfam PF07302: AroM protein (family)
This family consists of several bacterial and archaeal AroM proteins. In Escherichia coli the aroM gene is cotranscribed with aroL. The function of this family is unknown.
Pfam PF15090: Domain of unknown function (DUF4553) (family)
This family of proteins is functionally uncharacterised. This family of proteins is found in vertebrates. This family includes the human protein C10orf12.
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 PF21554: Prokaryotic cation-chloride cotransporter, C-terminal domain, 2nd (domain)
This domain is found at the C-terminal end of a group of prokaryotic cation-chloride cotransporters (CCCs), including Na-K-Cl cotransporter from Methanosarcina acetivorans ([swissprot:Q8THK8]). These proteins consist of an N-terminal transmembrane transport region ([pfam:PF00324] and [pfam:PF13520]) followed by a cytoplasmic regulatory domain. The C-terminal domain adopts a compact trapezoid-shaped elongated structure with a mixed alpha-beta fold and can be divided in two structurally related subdomains. This entry represents second subdomain, which shows a central five-stranded parallel beta-sheet and three alpha-helices that pack on either face of the sheet.
Pfam PF18730: Cthe_2314-like HEPN (domain)
Cthe_2314-like HEPN.
Pfam PF17412: Family of unknown function (family)
This domain family is found in VraX proteins from Staphylococcus aureus. The vraX gene belongs to the vra operon together with the vraA gene encoding for a long chain fatty acid-CoA ligase, which is up-regulated in the VISA (vancomycin-intermediate S. aureus). The gene product, a 55-amino acids protein,is upregulated in the stress response to cell wall-active antibiotics and other surface-interactive molecules. VraX harbors a putative phosphorylation site, and could therefore be involved in regulatory processes within the cell. However, no exact function has been demonstrated.
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 PF03002: Somatostatin/Cortistatin family (family)
Members of this family are hormones. Somatostatin inhibits the release of somatotropin. Cortistatin is a peptide that is related to the Somatostatins that is found to depresses neuronal electrical activity but, unlike somatostatin, induces low-frequency waves in the cerebral cortex and antagonises the effects of acetylcholine on hippocampal and cortical measures of excitability.
Wikipedia: The somatostatin family is a protein family with somatostatin as titular member, a hormone which inhibits the release of the pituitary somatotropin and inhibits the release of glucagon and insulin from the pancreas of fasted animals. Cortistatin is a cortical neuropeptide with neuronal depressant and sleep-modulating properties.
Pfam PF09053: CagZ (domain)
CagZ is a 23 kDa protein consisting of a single compact L-shaped domain, composed of seven alpha-helices that run antiparallel to each other. 70% of the residues are in alpha-helix conformation and no beta-sheet is present. CagZ is essential for the translocation of the pathogenic protein CagA into host cells.
Wikipedia: In molecular biology, CagZ is a protein produced by Helicobacter pylori. It is a 23 kDa protein consisting of a single compact L-shaped domain, composed of seven alpha-helices that run antiparallel to each other. 70% of the amino acids are in alpha-helix conformation and no beta-sheet is present. CagZ is essential for the translocation of the pathogenic protein CagA into host cells.
Pfam PF08024: Ant antimicrobial peptide (family)
This family consists of the ponericin family of antimicrobial peptides isolated from predatory ant Pachycondyla goeldii. The ponericin peptides may adopt amphipathic alpha-helical structure in polar environments. In the ant colony, these peptides exhibit a defensive role against microbial pathogens  arising from prey introduction and/or ingestion.
Pfam PF13897: Golgi-dynamics membrane-trafficking (domain)
Sec14-like Golgi-trafficking  domain The GOLD domain is always found combined with lipid- or membrane-association domains.
Pfam PF07411: Domain of unknown function (DUF1508) (domain)
This family represents a series of bacterial domains of unknown function of around 50 residues in length. Members of this family are often found as tandem repeats and in some cases represent the whole protein. All member proteins are described as being hypothetical.
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 PF05968: Bacillus PapR protein (family)
This family consists of the Bacillus species specific PapR protein. The papR gene belongs to the PlcR regulon and is located 70 bp downstream from plcR. It encodes a 48-amino-acid peptide. Disruption of the papR gene abolishes expression of the PlcR regulon, resulting in a large decrease in haemolysis and virulence in insect larvae. A processed form of PapR activates the PlcR regulon by allowing PlcR to bind to its DNA target. This activating mechanism is strain specific.
Pfam PF03410: Metallopeptidase from vaccinia pox (family)
This is a family of Poxviridae metalloendopeptidases. The members were often originally named as G1 proteins. The family carries three zinc-binding ligands and a catalytic glutamate. The first two zinc ligands are histidine residues, found together with the catalytic glutamate in a HXXEH motif, an inverse of the classical metallopeptidase motif, HEXXH. The third zinc ligand is a glutamate C-terminal to the HXXEH motif within a motif ELENEY (see MEROPS).