SII-SWORD/CoKE huggingface dataset:
Pfam PF14713: Domain of unknown function (DUF4464) (family)
This family of proteins is found in eukaryotes. Proteins in this family are typically between 224 and 241 amino acids in length. There is a conserved YID sequence 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 PF13934: Nuclear pore complex assembly (repeat)
ELYS (embryonic large molecule derived from yolk sac) is conserved from fungi such Aspergillus nidulans and Schizosaccharomyces pombe to human. It is important for the assembly of the nuclear pore complex.
Pfam PF17424: Family of unknown function (DUF5411) (family)
This is a family of unknown function found in Bacteria.
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 PF06201: PITH domain (domain)
This family was formerly known as DUF1000. The full-length, Txnl1, protein which is a probable component of the 26S proteasome, uses its C-terminal, PITH, domain to associate specifically with the 26S proteasome. PITH derives from proteasome-interacting thioredoxin domain.
Pfam PF18352: Phage protein Gp138 N-terminal domain (domain)
This domain is found in the N-terminal domain of gene product 138 (gp138) in an unidentified bacteriophage. Gp138 is thought to be involved in the process of opening the host cell membrane during infection. The domain has an OB-fold with an intramolecular disulfide bond between C114 and C120.
Pfam PF09387: Mitochondrial RNA binding protein MRP (domain)
MRP1 and MRP2 are mitochondrial RNA binding proteins that form a heteromeric complex.  The MRP1/MRP2 heterotetrameric complex binds to guide RNAs and stabilises them in an unfolded conformation suitable for RNA-RNA hybridisation.  Each MRP subunit adopts a 'whirly' transcription factor fold.
Pfam PF20882: Kinetochore protein Sos7 (family)
Attachment of sister chromatids to microtubules in the fission yeast Schizosaccharomyces pombe is mediated by the kinetochore complex NMS (Ndc80-MIND-Spc7). Sos7 is a component of the MIND complex and is required for kinetochore targeting of Spc7. This fungal kinetochore family represented by Sos7 is not present in yeasts belonging to the Saccharomyces complex. Instead, these organisms have proteins homologous to the S. cerevisiae Spc105 interaction partner Kre28.
Pfam PF03927: NapD protein (domain)
Uncharacterized protein involved in formation of periplasmic nitrate reductase.
Pfam PF04351: Pilus assembly protein, PilP (family)
The PilP family are periplasmic proteins involved in the biogenesis of type IV pili.
Pfam PF06919: Phage Gp30.7 protein (family)
This family consists of several phage Gp30.7 proteins of 121 residues in length. Family members seem to be exclusively from the T4-like viruses. The function of this family is unknown.
Pfam PF17188: MucB/RseB C-terminal domain (domain)
Members of this family are regulators of the anti-sigma E protein  RseD.
Pfam PF17962: Bacterial macroglobulin domain 6 (domain)
This macroglobulin domain is found in bacterial alpha 2 macroglobulin proteins.  It adopts an Ig-like beta sandwich fold.
Pfam PF08910: Aida N-terminus (family)
This is the N-terminal domain of the axin interactor, dorsalization-associated protein family.
Pfam PF07004: Sperm-tail PG-rich repeat (repeat)
This family represents a short conserved region carrying a PGP motif that is repeated in eukaryotic proteins of sperm-tails. Shippo orthologues from some species may include up to 40 Pro-Gly-Pro repeats.
Pfam PF09316: C-myb, C-terminal (family)
Members of this family are predominantly found in the proto-oncogene c-myb and the viral transforming protein myb. Truncation of the domain results in 'activation' of c-myb and subsequent tumourigenesis.
Pfam PF23628: Putative E3 ubiquitin-protein ligase LIN, ARM-like domain (repeat)
This entry represents a domain found in E3 ubiquitin-protein ligase LIN, a putative E3 ubiquitin ligase involved in the rhizobial infection process. It plays an important role in the early steps of bacterial symbiont thread formation in roots, and in growth, differentiation and maintenance of nodules. This domain may adopt an ARM-repeat fold.
Pfam PF08449: UAA transporter family (family)
This family includes transporters with a specificity for UDP-N-acetylglucosamine.
Pfam PF12173: Bacteriocin class IIc cyclic gassericin A-like (family)
This class of bacteriocins was previously described as class V. The members include gassericin A, acidocin B and butyrovibriocin AR10, all of which are hydrophobic cyclical structures. The N- and C-termini are covalently linked, and the circular molecule is resistant to several proteases and peptidases. The immunity protein that protects Lactobacillus gasseri from the toxic effects of its bacteriocin, gassericin A, has been identified. It is found to be a small positively-charged hydrophobic peptide of 53 amino acids containing a putative transmembrane segment - a structure unlike that of the more common immunity proteins as found in [pfam:PF08951].
Pfam PF12582: Protein of unknown function (DUF3757) (family)
This family of proteins is found in bacteria. Proteins in this family are typically between 94 and 154 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 PF24730: Zinc-binding Domain of unknown function (DUF7682) (domain)
This entry represents a small zinc-binding domain found to the N-terminus of proteins that belong to the ParE toxin superfamily. The exact function of this domain is unknown.  The zinc ligands are composed of the cys and his in the N-terminal CGH motif and the cys residues in the C-terminal CHXC 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 PF11844: Domain of unknown function (DUF3364) (family)
This domain is functionally uncharacterised. This domain is found in bacteria. This presumed domain is about 60 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 PF09263: Peroxisome biogenesis factor 1, N-terminal (domain)
Members of this family adopt a Cdc48 domain 2-like fold, with a beta-alpha-beta(3) arrangement. It has been suggested that this domain may be involved in interactions with ubiquitin, ubiquitin-like protein modifiers, or ubiquitin-like domains, such as Ubx. Furthermore, the domain may possess a putative adaptor or substrate binding site, allowing for peroxisomal biogenesis, membrane fusion and protein translocation.
Pfam PF23902: PRS2 AAA+ lid C-terminal domain (domain)
This entry represents the C-terminal AAA+ lid domain of bacterial Putative 26S proteasome regulatory subunit homologues (PRS2). This alpha-helical bundle is found in association with a core AAA-ATPase domain ([pfam:PF00004]). The 26S proteasome is a large multiprotein complex involved in the regulated degradation of ubiquitinated proteins. This complex can be divided in two sub-complexes, the core particle (CP, 20S) and the regulatory particle (RP, 19S). The RP consists of 19 subunits organised in two sub-structures, the base and lid complexes. The base consists of a ring of six AAA-ATPases. The C-termini of these ATPases dock into pockets present between the alpha-subunits of the CP, mediating the protein complex interactions.
Pfam PF22382: Endo-beta-N-acetylglucosaminidase, helical bundle (domain)
This entry represents a three-helix bundle domain of EndoS from Streptococcus pyogenes and similar bacterial proteins. EndoS is involved in immune evasion mechanisms and possesses a specific endoglycosidase activity that targets IgG antibodies.
Pfam PF08289: Influenza Matrix protein (M1) C-terminal domain (domain)
This region is thought to be a second domain of the M1 matrix protein.
Pfam PF19159: Family of unknown function (DUF5841) (family)
This family of unknown function is associated with  the biosynthetic gene cluster for enterocin A.
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 PF21627: Uncharacterized protein BTH_I2711-like (family)
This protein family represents a group of sequences mainly from Burkholderia, including the BTH_I2711 from Burkholderia thailandensis. This protein may adopt a fold consisting of two alpha-helices and two or three beta-sheets.
Pfam PF05212: Protein of unknown function (DUF707) (family)
This family consists of several uncharacterised proteins from Arabidopsis thaliana.
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 PF08511: COQ9 (domain)
COQ9 is an enzyme that is required for the biosynthesis of coenzyme Q.  It may either catalyse a reaction in the coenzyme Q biosynthetic pathway or have a regulatory role.
Pfam PF24028: Domain of unknown function (DUF7339) (domain)
This entry represents an uncharacterized protein domain found in bacteriophage proteins, particularly those infecting Lactococcus species.  The domain is approximately 115 amino acids in length. It is found in a small number of bacterial proteins as well.
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 PF06110: Thioredoxin domain-containing protein 17-like, thioredoxin domain (domain)
This is the thioredoxin domain from in Thioredoxin domain-containing protein 17, also known as TRP14, which is a highly conserved and ubiquitously expressed oxidoreductase involved in controlling of cellular redox signalling pathways. This domain is also found at the C-terminal of Acireductone dioxygenase (ARD) from Leishmania.
Pfam PF20589: Family of unknown function (DUF6790) (family)
This family of proteins is functionally uncharacterised. This family of proteins is found in bacteria and archaea. Proteins in this family are typically between 159 and 176 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 PF00726: Interleukin 10 (domain)
This entry represents the interleukin-10, interleukin-19, interleukin-20, interleukin-24 and interleukin-26 family.
Interleukin-10 (IL-10) is a protein that inhibits the synthesis of a number of cytokines, including IFN-gamma, IL-2, IL-3, TNF and GM-CSF produced by activated macrophages and by helper T cells. Structurally, IL-10 is a protein of about 160 amino acids that contains four conserved cysteines involved in disulphide bonds . IL-10 is highly similar to the Epstein-Barr virus (strain GD1) (HHV-4) (Human herpesvirus 4) BCRF1 protein which inhibits the synthesis of gamma-interferon and to Equid herpesvirus 2 (Equine herpesvirus 2) protein E7. It is also similar, but to a lesser degree, with human protein mda-7 , a protein which has antiproliferative properties in human melanoma cells. Mda-7 only contains two of the four cysteines of IL-10.
Wikipedia: Interleukins (ILs) are a group of cytokines that are expressed and secreted by white blood cells (leukocytes) as well as some other body cells. The human genome encodes more than 50 interleukins and related proteins.
Pfam PF18136: DNA mitochondrial polymerase exonuclease domain (domain)
This domain belongs to human mitochondrial DNA polymerase (Pol-gamma). Pol-gamma has a catalytic subunit, Pol gamma-A, which possesses both polymerase and proofreading exonuclease activities and an accessory subunit, Pol gamma-B, which accelerates polymerization rate and suppresses exonuclease activity. This domain is the exonuclease domain of the catalytic subunit, Pol gamma-A.
Pfam PF11564: Restriction endonuclease BpuJI - N terminal (family)
BpuJI is a restriction endonuclease which recognises the asymmetric sequence 5'-CCCGT and cuts at multiple sites in the surrounding area of the target sequence. This family of proteins is the N terminal domain of BpuJI which has DNA recognition functions. The recognition domain has two subdomains D1 and D2. The recognition of the target sequence occurs through major groove contacts of amino acids on the helix-turn-helix region and the N-terminal arm.
Wikipedia: In molecular biology, BpuJI is a type II restriction endonuclease which recognises the asymmetric sequence 5'-CCCGT and cuts at multiple sites in the surrounding area of the target sequence. The BpuJI protein consists of two distinct modules; an N-terminal DNA recognition domain, and a C-terminal dimerisation and catalysis domain. The N-terminal domain is composed of two winged-helix subdomains and a disrupted linker subdomain. Target sequence recognition occurs through major groove contacts of amino acids in the winged-helix subdomains.
Pfam PF14768: Replication protein A interacting C-terminal (family)
This family of proteins represents the C-terminal domain of replication protein A (RPA) interacting protein.  RPA interacting protein is involved in the import of RPA into the nucleus. The C-terminal domain is a putative zinc finger [].
Pfam PF22696: Pyridoxamine 5'-phosphate oxidase-like (domain)
This domain is found in bacterial Pyridoxamine 5'-phosphate oxidase-like proteins. It folds into a beta-barrel capped at the top and bottom with alpha-helices.
Pfam PF23708: Cartilage intermediate layer protein 1-like domain (domain)
This domain is found in human Cartilage intermediate layer protein 1 (CILP) and similar sequences mainly found in vertebrates. CILP-1 is thought to play a role in cartilage scaffolding. This domain, which is predicted to adopt an all-beta structure, is often found immediately C-terminal to [pfam:PF13927].
Pfam PF22092: T26-6p, immunoglobulin-like domain (domain)
This domain is found in T26-6p from Thermococcus ([swissprot:D6MY29]) and similar archaeal sequences. It is predicted to fold as a beta- sandwich with two sheets made of four antiparallel beta-strands.
Pfam PF12040: Domain of unknown function (DUF3526) (family)
This presumed domain is functionally uncharacterised. This domain is found in bacteria. This domain is typically between 149 to 170 amino acids in length. This domain has a single completely conserved residue P 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 PF00687: Ribosomal protein L1p/L10e family (domain)
This family includes prokaryotic L1 and eukaryotic L10.
Pfam PF23204: KIF21A-like domain (domain)
This domain is found in human Kinesin-like protein KIF21A and similar eukaryotic sequences. KIF21A is a microtubule-binding motor protein probably involved in neuronal axonal transport. Mutations in this protein are associated with ocular abnormalities. This domain, which is found associated to [pfam:PF00225], [pfam:PF23203] and several [pfam:PF00400] repeats, is predicted to fold into two long alpha-helices.
Pfam PF01697: Glycosyltransferase family 92 (domain)
Members of this family act as galactosyltransferases, belonging to glycosyltransferase family 92. The aligned region contains several conserved cysteine residues and several charged residues that may be catalytic residues. This is supported by the inclusion of this family in the GT-A glycosyl transferase superfamily.
Pfam PF01090: Ribosomal protein S19e (family)
This family includes a number of eukaryotic and archaebacterial ribosomal proteins known as small ribosomal subunit protein eS19, which were previously known as S19.
Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites . About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits.

Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome .
Pfam PF10947: Protein of unknown function (DUF2628) (family)
Some members in this family of proteins are annotated as yigF however currently no function is known.
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 PF11038: Dispersed gene family protein 1, region 4 (domain)
This entry represents a presumed domain present in DFG-1 from Trypanosoma species, whose exact function is not known. It is one of the most abundant proteins in T. cruzi genome and it seems to have a preferential expression in amastigotes (intracellular replicative forms that develop in the mammalian host). It is likely to play a role in cell-to-cell interactions or signal transduction. This domain precedes the transmembrane segment at the C-terminal and based on structure predictions, it may adopt a Ig-like fold.
Pfam PF22608: DNA polymerase III clamp loader subunit, ATPase lid domain (domain)
This entry represents the AAA+ ATPase lid domain of DNA polymerase III clamp loader subunit.
Pfam PF15328: Putative GRINL1B complex locus protein 2 (family)
This protein family is named Putative GRINL1B complex locus protein 2. GRINL1B is short for: glutamate receptor, ionotropic, N-methyl D-aspartate-like 1B. The name indicates what sort of receptor it is thought to be, a ligand gated ion channel specific to the neurotransmitter Glutamate. This family of proteins is found in eukaryotes. Proteins in this family are typically between 325 and 463 amino acids in length. The protein is thought to be the product of a pseudogene with a role in helping assemble a gene transcription unit.
Pfam PF08925: Domain of Unknown Function (DUF1907) (domain)
The structure of this domain displays an alpha-beta-beta-alpha four layer topology, with an HxHxxxxxxxxxH motif that coordinates a zinc ion, and an acetate anion at a site that likely supports the enzymatic activity of an ester hydrolase.
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 PF06219: Protein of unknown function (DUF1005) (family)
Family of plant proteins with undetermined 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.