SII-SWORD/CoKE huggingface dataset:
Pfam PF16037: Domain of unknown function (DUF4790) (family)
This family of proteins is functionally uncharacterised. This family of proteins is found in eukaryotes. Proteins in this family are typically between 134 and 191 amino acids in length. There is a single completely conserved residue C that may be functionally important.
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 PF00174: Oxidoreductase molybdopterin binding domain (domain)
This domain is found in a variety of oxidoreductases. This domain binds to a molybdopterin cofactor. Xanthine dehydrogenases, that also bind molybdopterin, have essentially no similarity.
Pfam PF24827: Succinylglutamate desuccinylase/Aspartoacylase catalytic domain (domain)
This entry represents the catalytic domain found in Succinylglutamate desuccinylase (AstE), aspartoacylase (AspA) and related enzymes. AstE catalyses the fifth and last step in arginine catabolism by the arginine succinyltransferase pathway whereas AspA cleaves acylaspartate into a fatty acid and aspartate. Mutations in human AspA lead to Canavan disease disease. The domain represented by this entry contains the residues which are essential for catalysis and has structural similarity to catalytic domains of enzymes that are members of the Zn-dependent exopeptidases clan.
Pfam PF18706: D-ribitol-5-phosphate cytidylyltransferase C-terminal domain (domain)
This domain is located at the C-terminal region of ISPD (isoprenoid synthase domain containing protein, [ec:2.7.7.40]), [pfam:PF01128]. Structural homologs can be found in two distinct alpha/beta protein families including the seven-stranded NAD(P) (H)-dependent short-chain dehydrogenases/reductases and five-stranded response regulator proteins involved in bacterial sensing systems.
Wikipedia: In enzymology, a 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase is an enzyme that catalyzes the chemical reaction:2-C-methyl-D-erythritol 4-phosphate + CTP  diphosphate + 4-(cytidine 5'-diphospho)-2-C-methyl-D-erythritol
Pfam PF02306: Major spike protein (G protein) (domain)
This is a family of proteins from single-stranded DNA bacteriophages. Five G proteins, each a tight beta barrel, from twelve surface spikes.
Pfam PF22852: Sulfocyanin, N-terminal (domain)
This domain is found at the N-terminal end of Sulfocyanin from Sulfolobus acidocaldarius (SoxE) and similar archaeal sequences. SoxE is a blue copper protein involved in in electron transfer reactions. This region is predicted to fold into an alpha-helix.
Pfam PF10456: WASP-binding domain of Sorting nexin protein (domain)
The C-terminal region of the Sorting nexin group of proteins appears to carry a BAR-like (Bin/amphiphysin/Rvs) domain. This domain is very diverse and the similarities with other BAR domains are few. In the Sorting nexins it is associated with family PX, [pfam:PF00787].13, and in combination with PX appears to be necessary to bind WASP along with p85 to form a multimeric signalling complex.
Pfam PF02639: Uncharacterized BCR, YaiI/YqxD family COG1671 (family)
This entry describes 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 PF05006: Per os infectivity factor 3 (family)
This family contains viral proteins and includes Baculovirus Per os infectivity factor 3 (PIF3). PIF3 forms a complex on the occlusion-derived virus surface with PIF1, PIF2, and P74 which has an essential function in the initial stages of baculovirus oral infection.
Pfam PF14720: NiFe/NiFeSe hydrogenase small subunit C-terminal (family)
This domain is found at the C-terminus of hydrogenase small subunits including periplasmic [NiFeSe] hydrogenase small subunit, uptake hydrogenase small subunit and periplasmic [NiFe] hydrogenase small subunit. This C-terminal domain binds two of the three iron-sulfur clusters in this enzyme.
Pfam PF11161: Protein of unknown function (DUF2946) (family)
This family of proteins with unknown function appear 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 PF08922: Domain of unknown function (DUF1905) (domain)
This domain is found in a set of hypothetical bacterial 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 PF11097: Protein of unknown function (DUF2883) (family)
This family of proteins have no known function but appear to be restricted to phage.
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 PF03837: RecT family (family)
The DNA single-strand annealing proteins (SSAPs), such as RecT, Red-beta, ERF and Rad52, function in RecA-dependent and RecA-independent DNA recombination pathways. This family includes proteins related to RecT.
Pfam PF06432: Phosphatidylinositol N-acetylglucosaminyltransferase (family)
Glycosylphosphatidylinositol (GPI) represents an important anchoring molecule for cell surface proteins. The first step in its synthesis is the transfer of N-acetylglucosamine (GlcNAc) from UDP-N-acetylglucosamine to phosphatidylinositol (PI). This step involves products of three or four genes in both yeast (GPI1, GPI2 and GPI3) and mammals (GPI1, PIG A, PIG H and PIG C), respectively.
Pfam PF24706: Domain of unknown function (DUF7669) (domain)
This domain is found in a group of uncharacterised proteins primarily found in Bacteria. It has a detectable similarity to winged helix HTH domain and it is predicted to adopt similar structure. This domain is frequently found in combination with [pfam:PF21818] and [pfam:PF20815].
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 PF01657: Salt stress response/antifungal (family)
This domain is often found in association with the kinase domains [pfam:PF00069] or [pfam:PF07714]. In many proteins it is duplicated. It contains six conserved cysteines which are involved in disulphide bridges. It has a role in salt stress response and has antifungal activity.
Pfam PF15679: Domain of unknown function (DUF4665) (family)
This family of proteins is found in eukaryotes. Proteins in this family are typically between 45 and 100 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 PF08848: Domain of unknown function (DUF1818) (domain)
This presumed domain is found in a small family of cyanobacterial protein. These proteins are functionally uncharacterised.
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 PF14968: Coiled coil protein 84 (coiled_coil)
The function of this coiled-coil domain-containing family is not known. It is found in eukaryotes.
Pfam PF20543: N2-fixation sustaining protein CowN (family)
N2-fixation sustaining protein CowN is required to maintain N2-dependent growth in the presence of low  levels of carbon monoxide. It is thought to act by protecting the  N2 fixation ability of the nitrogenase complex.
Pfam PF03095: Phosphotyrosyl phosphate activator (PTPA) protein (family)
Phosphotyrosyl phosphatase activator (PTPA) proteins stimulate the phosphotyrosyl phosphatase (PTPase) activity of the dimeric form of protein phosphatase 2A (PP2A). PTPase activity in PP2A (in vitro) is relatively low when compared to the better recognised phosphoserine/ threonine protein phosphorylase activity. The specific biological role of PTPA is unknown, Basal expression of PTPA depends on the activity of a ubiquitous transcription factor, Yin Yang 1 (YY1). The tumour suppressor protein p53 can inhibit PTPA expression through an unknown mechanism that negatively controls YY1.
Pfam PF06357: Omega-atracotoxin (family)
This family consists of several Hadronyche versuta (Blue mountains funnel-web spider) specific omega-atracotoxin proteins. Omega-Atracotoxin-Hv1a is an insect-specific neurotoxin whose phylogenetic specificity derives from its ability to antagonise insect, but not vertebrate, voltage-gated calcium channels. Two spatially proximal residues, Asn(27) and Arg(35), form a contiguous molecular surface that is essential for toxin activity. It has been proposed that this surface of the beta-hairpin is a key site for interaction of the toxin with insect calcium channels.
Wikipedia: omega-Atracotoxin (ω-atracotoxin) is an insect-specific neurotoxin produced by the Blue Mountains funnel-web spider. Its phylogenetic specificity derives from its ability to antagonise insect, but not vertebrate, voltage-gated calcium channels. Two spatially proximal amino acid residues, Asn(27) and Arg(35), form a contiguous molecular surface that is essential for toxin activity. It has been proposed that this surface of the beta-hairpin is a key site for interaction of the toxin with insect calcium channels.
Pfam PF22172: CRISPR-associated endonuclease C2c1 second helical domain (domain)
This entry represents the second helical domain (REC2) from CRISPR-associated endonuclease C2c1, also known as Cas12b. C2c1 is a guide RNA-mediated type V-B CRISPR-Cas endonuclease that site-specifically targets and cleaves dsDNA. This domain, together with the first helical domain (helical-I or REC1) forms the alpha-recognition (REC) lobe, which recognises a 20bp guide:target heteroduplex in RNAs.
Pfam PF07227: PHD - plant homeodomain finger protein (family)
PHD_oberon is a plant homeodomain finger domain of Oberon proteins from plants. Oberon is necessary for maintenance and/or establishment of both the shoot and root apical meristems in Arabidopsis. Oberon proteins are made up of a PHD finger domain and a coiled-coil domain.  The PHD-finger domain is found in a wide variety of proteins involved in the regulation of chromatin structure. Oberon proteins mediate the TMO7 (the direct target of MP) expression through modification of, or binding to, chromatin at the TMO7 locus. TMO7 stands for the target of Monopteros 7 (MP) (or Auxin response factor 7).
Wikipedia: The PHD finger was discovered in 1993 as a Cys4-His-Cys3 motif in the plant homeodomain proteins HAT3.1 in Arabidopsis and maize ZmHox1a. 
The PHD zinc finger motif resembles the metal binding RING domain (Cys3-His-Cys4) and FYVE domain. It occurs as a single finger, but often in clusters of two or three, and it also occurs together with other domains, such as the chromodomain and the bromodomain.
Pfam PF23347: Nup160 C-terminal TPR (repeat)
This entry represents the tetratricopeptide-like repeat found in the C-terminal region of nucleoporin Nup160 from human, mouse, Drosophila and Arabidopsis thaliana. NUP160 depletion could restore autophagy and inhibit fibrosis and inflammatory response in high glucose-treated. The Arabidopsis Nup160, a scaffold Nup, is important for regulating the floral transition, a key developmental phase change in flowering plants, through modulating the subcellular localization of HOS1 at NPCs.
Pfam PF12843: Putative quorum-sensing-regulated virulence factor (family)
QSregVF_b is a family of short Pseudomonas proteins that are potential virulence factors. The structure of UniProtKB:Q9HY15 a secreted protein has been solved and deposited as PDB:3npd, from [pfam:PF13652]. It is predicted that these two adjacent proteins form a single transcriptional unit based on the prediction that together they interact with their adjacent protein PotD, which is the putrescine-binding periplasmic protein in the polyamine uptake system comprising PotABCD. These two adjacent proteins are predicted to be quroum-sensing-regulated virulence factors.
Pfam PF03248: Rer1 family (family)
RER1 family protein are involved in involved in the retrieval of some endoplasmic reticulum membrane proteins from the early golgi compartment. The C terminus of yeast Rer1p interacts with a coatomer complex.
Pfam PF18236: Argonaute N domain (domain)
This is the N domain often found in the N-terminal region of Argonaute (AGO) present in Kluyveromyces polyspora. AGO forms part of the RNA-induced silencing complex that mediates the gene silencing pathway, RNA interference. The N domain blocks the nucleic acid-binding channel and prevents propagation of guide-target pairing beyond position 16.
Pfam PF07152: YaeQ protein (family)
This family consists of several hypothetical bacterial proteins of around 180 residues in length which are often known as YaeQ. YaeQ is homologous to RfaH, a specialised transcription elongation protein. YaeQ is known to compensate for loss of RfaH function.
Pfam PF17109: fungal STAND N-terminal Goodbye domain (family)
The Goodbye domain is an N-terminal domain on certain fungal STAND proteins. The exact function is not known.
Pfam PF07496: CW-type Zinc Finger (domain)
This domain appears to be a zinc finger. The alignment shows four conserved cysteine residues and a conserved tryptophan. It was first identified by, and is predicted to be a "highly specialised mononuclear four-cysteine zinc finger...that plays a role in DNA binding and/or promoting protein-protein interactions in complicated eukaryotic processes including ...chromatin methylation status and early embryonic development." Weak homology to [pfam:PF00628] further evidences these predictions (personal obs: C Yeats). Twelve different CW-domain-containing protein subfamilies are described, with different subfamilies being characteristic of vertebrates, higher plants and other animals in which these domain is found.
Pfam PF09436: Domain of unknown function (DUF2016) (domain)
A predicted alpha+beta domain that is usually fused N-terminal to the JAB metallopeptidase. This protein in turn is found in conserved gene neighborhoods that include genes encoding the bacterial homologs of the ubiquitin modification system such as the E1, E2 and Ub proteins. The domain is also known as the JAB-N domain.
Wikipedia: A domain of unknown function (DUF) is a protein domain that has no characterised function. These families have been collected together in the Pfam database using the prefix DUF followed by a number, with examples being DUF2992 and DUF1220. As of 2019, there are almost 4,000 DUF families within the Pfam database representing over 22% of known families. Some DUFs are not named using the nomenclature due to popular usage but are nevertheless DUFs.
Pfam PF23658: CPAF-like PDZ domain (domain)
This domain is found in fungal proteins that share global similarity to chlamydial protease/proteasome-like activity factor (CPAF). This domain is predicted to adopt PDZ-like fold and shares sequence similarity with CPAF PDZ domain.
Pfam PF14371: Domain of unknown function (DUF4412) (domain)
This presumed domain is functionally uncharacterised. This domain family is found in bacteria, archaea and eukaryotes, and is typically between 75 and 104 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 PF00338: Ribosomal protein S10p/S20e (domain)
This family includes small ribosomal subunit S10 from prokaryotes and S20 from eukaryotes.
Pfam PF23022: PGAP2IP, first transmembrane domain (domain)
This domain is found in the human PGAP2-interacting protein (PGAP2IP) and its homologues in yeast CWH43. PGAP2IP is composed of three domains. Two of these domains are predicted to adopt very similar structure consisting of six transmembrane helices, which suggests a possible duplication event in these proteins. These two domains have significant similarity to domains belonging to major facilitator superfamily (MFS). The PGAP2IP yeast homologue, CWH43, is involved in the remodeling of the lipid moiety of GPI anchors to ceramides.
Pfam PF13675: Type IV pili methyl-accepting chemotaxis transducer N-term (domain)
This domain is found on many type IV pili methyl-accepting chemotaxis transducer proteins where there is also a HAMP signature towards the C-terminus. It is a monomodular four-helix bundle and recognises nitrate and nitrite (Matilla et al. FEMS Microbiology Reviews, fuab043, 45, 2021, 1. https://doi.org/10.1093/femsre/fuab043).
Pfam PF03361: Herpes virus intermediate/early protein 2/3 (family)
These viral sequences are similar to UL117 protein of human  and chimpanzee cytomegalovirus, and to intermediate/early  proteins 2 and 3 of certain herpes viruses. UL117 is thought  to be a glycoprotein that is expressed at early and late times after infection. This region is close to the C-terminus of the protein and may be a transmembrane region.
Pfam PF21657: Nucleotidyl transferase L544, helical domain (domain)
This is the helical domain found at the C-terminal of the nucleotidyltransferase L544 from Acanthamoeba polyphaga mimivirus.
Pfam PF07690: Major Facilitator Superfamily (family)
This family represents a number of transmembrane transporters that are members of the major facilitator superfamily (MFS) of transporters.
The major facilitator superfamily (MFS) of membrane proteins represents the largest family of secondary transporters with members from Archaea to Homo sapiens. MFS proteins target a wide spectrum of substrates, including ions, carbohydrates, lipids, amino acids and peptides, nucleosides and other small molecules in both directions across the membrane, in many instances catalysing active transport by transducing the energy stored in an proton electrochemical gradient into a concentration gradient of substrate . One remarkable characteristic of the MFS is the high sequence variety within the superfamily. The sequences identity ranges around 12-18% but regions of functional similarity (e.g., substrate- or H-binding sites) align for only very closely related MFS transporters. A hydrophobic amino acid content of 60-70% of most MFS members, high alfa-helix content and an inherent symmetry of the proteins with regard to helix kinks and bends provides nonspecific overlapping of residues and probably accounts for the reported similarities. Structure from representative members show 12 transmembrane sections (TMSs) surrounding a central cavity, forming a semi-symmetrical structure. MFS includes 105 families based on phylogenetic analysis, sequence alignments, overlap of hydropathy plots, compatibility of repeat units, similarity of complexity profiles of transmembrane segments, shared protein domains and 3D structural similarities between transport proteins .
Among the different families of transporter, only two occur ubiquitously in all classifications of organisms. These are the ATP-Binding Cassette (ABC) superfamily and the Major Facilitator Superfamily (MFS). The MFS transporters are single-polypeptide secondary carriers capable only of transporting small solutes in response to chemiosmotic ion gradients .
Wikipedia: The major facilitator superfamily (MFS) is a superfamily of membrane transport proteins that facilitate movement of small solutes across cell membranes in response to chemiosmotic gradients.
Pfam PF10008: Uncharacterized protein conserved in bacteria (DUF2251) (family)
Members of this family of hypothetical bacterial proteins have 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 PF03357: Snf7 (family)
This family of proteins are involved in protein sorting and transport from the endosome to the vacuole/lysosome in eukaryotic cells. Vacuoles/lysosomes play an important role in the degradation of both lipids and cellular proteins. In order to perform this degradative function, vacuoles/lysosomes contain numerous hydrolases which have been transported in the form of inactive precursors via the biosynthetic pathway and are proteolytically activated upon delivery to the vacuole/lysosome. The delivery of transmembrane proteins, such as activated cell surface receptors to the lumen of the vacuole/lysosome, either for degradation/downregulation, or in the case of hydrolases, for proper localisation, requires the formation of multivesicular bodies (MVBs).  These late endosomal structures are formed by invaginating and budding of the limiting membrane into the lumen of the compartment. During this process, a subset of the endosomal membrane proteins is sorted into the forming vesicles. Mature MVBs fuse with the vacuole/lysosome, thereby releasing cargo containing vesicles into its hydrolytic lumen for degradation. Endosomal proteins that are not sorted into the intralumenal MVB vesicles are either recycled back to the plasma membrane or Golgi complex, or remain in the limiting membrane of the MVB and are thereby transported to the limiting membrane of the vacuole/lysosome as a consequence of fusion. Therefore, the MVB sorting pathway plays a critical role in the decision between recycling and degradation of membrane proteins. A few archaeal sequences are also present within this family.