SII-SWORD/CoKE huggingface dataset:
Pfam PF10077: Uncharacterized protein conserved in bacteria (DUF2314) (family)
This domain is found in various bacterial hypothetical proteins, as well as putative ankyrin repeat proteins. The exact function of the domains comprising this family has not, as yet, been determined.
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 PF03232: Ubiquinone biosynthesis protein COQ7 (domain)
Members of this family contain two repeats of about 90 amino acids, that contains two conserved motifs. One of these DXEXXH may be part of an enzyme active site.
Pfam PF22796: SlpA N-terminal domain (domain)
This entry represents the N-terminal domain of S-layer protein SlpA from Lactobacillus amylovorus and related proteins. This domain adopts unusual topology composed of beta-strands arranged in a barrel-sandwich fold.
Pfam PF05151: Photosystem II reaction centre M protein (PsbM) (family)
This family consists of several Photosystem II reaction centre M proteins (PsbM) from plants and cyanobacteria. During the photosynthetic light reactions in the thylakoid membranes of cyanobacteria, algae, and plants, photosystem II (PSII), a multi-subunit membrane protein complex, catalyses oxidation of water to molecular oxygen and reduction of plastoquinon.
Pfam PF24707: Swc3 (family)
This entry includes Swc3, a component of the SWR1 complex which mediates the ATP-dependent exchange of histone H2A for the H2A variant HZT1 leading to transcriptional regulation of selected genes by chromatin remodeling.
Pfam PF00346: Respiratory-chain NADH dehydrogenase, 49 Kd subunit (family)
This entry represents the subunit D (NuoD) of NADH-quinone oxidoreductase (1.6.99.5) and the subunit H (NdhH) of NAD(P)H-quinone oxidoreductase (1.6.5.-). NADH-quinone (Q) oxidoreductase is a large and complex redox proton pump, which utilises the free energy derived from oxidation of NADH with lipophilic electron/proton carrier Q to translocate protons across the membrane to generate an electrochemical proton gradient . Subunit D (NuoD) is a 49kDa polypeptide that appears to be evolutionarily important in determining the physiological function of complex I/NDH-1 .
Wikipedia: Respiratory complex I, EC 7.1.1.2 is the first large protein complex of the respiratory chains of many organisms from bacteria to humans. It catalyzes the transfer of electrons from NADH to coenzyme Q10 (CoQ10) and translocates protons across the inner mitochondrial membrane in eukaryotes or the plasma membrane of bacteria.
Pfam PF16749: Arterivirus nonstructural protein 7 alpha (domain)
Nonstructural protein 7 alpha is likely to have a role in viral RNA synthesis.
Pfam PF23954: Family of unknown function (DUF7283) (family)
This entry represents uncharacterised proteins found mainly in Halobacteria.
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 PF18240: Photosystem II Psb31 protein (domain)
This domain is Psb31, an extrinsic protein found in photosystem II (PSII) present in Chaetoceros gracilis. Photosystem II (PSII) is a multisubunit, membrane protein complex located in the thylakoid membranes of oxygenic photosynthetic organisms from cyanobacteria to higher plants. The four helices in the N-terminal domain are arranged in an up-down-up-down fold and are similar in structure to PsbQ protein in Spinach, despite low sequence homology.
Pfam PF15258: Protein family of FAM222A (family)
This protein family, FAM222A are a domain of unknown function. This family of proteins is found in eukaryotes and are typically between 411 and 562 amino acids in length. In humans, the gene encoding this protein domain lies in the position, chromosome 12 open reading frame 34.
Pfam PF11278: Protein of unknown function (DUF3079) (family)
This family of proteins with unknown function appears to be restricted to Proteobacteria.
Wikipedia: A domain of unknown function (DUF) is a protein domain that has no characterised function. These families have been collected together in the Pfam database using the prefix DUF followed by a number, with examples being DUF2992 and DUF1220. As of 2019, there are almost 4,000 DUF families within the Pfam database representing over 22% of known families. Some DUFs are not named using the nomenclature due to popular usage but are nevertheless DUFs.
Pfam PF04002: RadC-like JAB domain (family)
A family of proteins present widely across the bacteria. This family was named initially with reference to the E. coli radC102 mutation which suggested that RadC was involved in repair of DNA lesions. However the relevant mutation has subsequently been shown to be in recG, where radC is in fact an allele of recG. In addition, a personal communication from Claverys, J-P, et al, indicates a total failure of all attempts to characterise a radiation-related function for RadC in Streptococcus pneumoniae, suggesting that it is not involved in repair of DNA lesions, in recombination during transformation, in gene conversion, nor in mismatch repair. Computational analysis, however, provides a possible function. The RadC-like family belong to the JAB superfamily  of metalloproteins. The domain shows fusions to an N-terminal  Helix-hairpin-Helix (HhH) domain in most instances. Other domain combinations include fusions to the anti-restriction module ArdC, the DinG/RAD3-like superfamily II helicases and the DNAG-like primase. In some bacteria, closely related DinG/Rad3- like superfamily II helicases are fused to a 3'-5' exonuclease in the  same position as the RadC-like JAB domain. These conserved domain associations lead to the hypothesis that the RadC-like JAB domains  might function as a nuclease.
Pfam PF12796: Ankyrin repeats (3 copies) (repeat)
The ankyrin repeat is one of the most common protein-protein interaction motifs in nature. Ankyrin repeats are tandemly repeated modules of about 33 amino acids. They occur in a large number of functionally diverse proteins mainly from eukaryotes. The few known examples from prokaryotes and viruses may be the result of horizontal gene transfers. The repeat has been found in proteins of diverse function such as transcriptional initiators, cell-cycle regulators , cytoskeletal, ion transporters and signal transducers . The ankyrin fold appears to be defined by its structure rather than its function since there is no specific sequence or structure which is universally recognised by it.

The conserved fold of the ankyrin repeat unit is known from several crystal and solution structures . Each repeat folds into a helix-loop-helix structure with a Î²-hairpin/loop region projecting out from the helices at a 90oangle. The repeats stack together to form an L-shaped structure .
Wikipedia: The ankyrin repeat is a 33-residue motif in proteins consisting of two alpha helices separated by loops, first discovered in signaling proteins in yeast Cdc10 and Drosophila Notch. Domains consisting of ankyrin tandem repeats mediate protein–protein interactions and are among the most common structural motifs in known proteins. They appear in bacterial, archaeal, and eukaryotic proteins, but are far more common in eukaryotes. Ankyrin repeat proteins, though absent in most viruses, are common among poxviruses. Most proteins that contain the motif have four to six repeats, although its namesake ankyrin contains 24, and the largest known number of repeats is 34, predicted in a protein expressed by Giardia lamblia.
Pfam PF18077: Domain of unknown function (DUF5595) (domain)
This domain is found in Nude C 80 (Ndc80) proteins which can be found in species such as Homo sapiens. Ndc80 protein complexes are a core component of the end-on attachment sites for kinetochore microtubules. Ndc80 is also known as Hec1, for highly expressed in cancer 1.
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 PF15658: Latrotoxin C-terminal domain (family)
A toxin domain present in arthropod alphaproteobacterial, gammaproteobacterial endosymbionts and also at the C-termini of the latrotoxins of the black widow spider. The domain is characterised by a conserved, hydrophobic helix and is predicted to associate with the cell membrane.
Pfam PF22063: Pdc1 Ge1 domain (repeat)
This entry represents the Ge1 domain of Pdc1 from S. pombe. Pdc1 is known to be related to metazoan Edc4 (also known asGe-1) family, although the sequence similarity is very low. EDC4 (enhancer of mRNA-decapping protein 4) is a regulator of mRNA decapping in cytoplasmic processing bodies (P-bodies).
Pfam PF04083: Partial alpha/beta-hydrolase lipase region (family)
This family corresponds to a N-terminal part of an alpha/beta hydrolase domain.
Pfam PF12210: Hepatocyte growth factor-regulated tyrosine kinase substrate (domain)
This domain family is found in eukaryotes, and is approximately 100 amino acids in length. The family is found in association with [pfam:PF00790], [pfam:PF01363], [pfam:PF02809]. This domain is the helical region of Hrs which forms the core complex of ESCRT with STAM.
Pfam PF15308: CEP170 C-terminus (family)
This family includes the C-terminus of centrosomal protein of 170 kDa (CEP170).
Wikipedia: Centrosomal protein 170kDa, also known as CEP170, is a protein that in humans is encoded by the CEP170 gene.
Pfam PF19588: Saxitoxin biosynthesis operon protein SxtJ (domain)
This family of integral membrane proteins is functionally uncharacterised. It is found in cyanobacterial Saxitoxin biosynthesis operon. This family of proteins is found in bacteria. Proteins in this family are approximately 140 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 PF07657: N terminus of Notch ligand C2-like domain (domain)
This entry represents a region of conserved sequence at the N terminus of several Notch ligand proteins. The entry has been extended to correspond to the C2-like domain defined by the protein structure.
Pfam PF09197: Rap1, DNA-binding (domain)
Members of this family, which are predominantly found in the yeast protein rap1, assume a secondary structure consisting of a three-helix bundle and an N-terminal arm. They contain an Arg-Asp-Arg-Lys sequence that interacts with an ACACC region in the 3' region of the DNA-binding site.
Pfam PF02468: Photosystem II reaction centre N protein (psbN) (family)
This is a family of small proteins encoded on the chloroplast genome. psbN is involved in photosystem II during photosynthesis, but its exact role is unknown.
Pfam PF11779: Small subunit of serine palmitoyltransferase-like (family)
Serine palmitoyltransferase (SPT) catalyzes the first committed step in sphingolipid biosynthesis. In mammals, two small subunits of serine palmitoyltransferase, ssSPTa and ssSPTb, substantially enhance the activity of SPT, conferring full enzyme activity upon it. The 2 ssSPT isoforms share a conserved hydrophobic central domain, which is predicted to reside in the membrane.
Pfam PF13099: Domain of unknown function (DUF3944) (domain)
This short domain is sometimes found N terminal to [pfam:PF03981].
Pfam PF24966: TR130 second Ig-like domain (domain)
This domain is found in the yeast Trafficking protein particle complex II-specific subunit 130 (TR130) and related proteins. TRS130 plays a role in the YPT GEF activity of TRAPP II in concert with the two other TRAPP II-specific subunits TRS65 and TRS120. This protein contains four Ig-like domains arranged in tandem. This entry represents the second of these domains.
Pfam PF17449: Uncharacterized YrzK-like (family)
This is a family of unknown function found in Bacillus.
Pfam PF14742: N-terminal domain of (some) glycogen debranching enzymes (domain)
This domain is found on the N-terminal of some glycogen debranching  enzymes and is usually followed by the GDE_C (PF06202) and in this  sense it is analogous (but probably not homologous) to the GDE_N  (PF12439). Its exact function is unknown
Pfam PF12578: Myotubularin-associated protein (family)
This domain family is found in eukaryotes, and is typically between 115 and 138 amino acids in length. Myotubularin is a dual-specific phosphatase that dephosphorylates phosphatidylinositol 3-phosphate and phosphatidylinositol (3,5)-bisphosphate. 3-PAP is a catalytically inactive member of the myotubularin gene family, which coprecipitates lipid phosphatidylinositol 3-phosphate-3-phosphatase activity from lysates of human platelets.
Pfam PF11060: Protein of unknown function (DUF2861) (family)
This bacterial family of 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 PF05777: Drosophila accessory gland-specific peptide 26Ab (Acp26Ab) (family)
This family consists of accessory gland-specific 26Ab peptides or male accessory gland secretory protein 355B from different Drosophila species. Drosophila males, like males of most other insects, transfer a group of specific proteins (Acp26Ab and Acp26Aa in Drosophila) to the females during mating. These proteins are produced primarily in the accessory gland and are likely to influence the female's reproduction.
Pfam PF15466: Domain of unknown function (DUF4635) (family)
This family of proteins is found in eukaryotes. Proteins in this family are typically between 120 and 154 amino acids in length. There are two conserved sequence motifs: LEQ and DLE.
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 PF15998: Domain of unknown function (DUF4773) (family)
This presumed domain is functionally uncharacterised. This domain family is found in eukaryotes, and is approximately 120 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 PF02854: MIF4G domain (repeat)
MIF4G is named after Middle domain of eukaryotic initiation factor 4G (eIF4G).  Also occurs in NMD2p and CBP80. The domain is rich in alpha-helices and may contain multiple alpha-helical repeats. In eIF4G, this domain binds eIF4A, eIF3, RNA and DNA.
Pfam PF10598: RNA recognition motif of the spliceosomal PrP8 (domain)
The large RNA-protein complex of the spliceosome catalyses pre-mRNA splicing. One of the most conserved core proteins is PrP8 which occupies a central position in the catalytic core of the spliceosome, and has been implicated in several crucial molecular rearrangements that occur there, and has recently come under the spotlight for its role in the inherited human disease, Retinitis Pigmentosa. The RNA-recognition motif of PrP8 is highly conserved and provides a possible RNA binding centre for the 5-prime SS, BP, or 3-prime SS of pre-mRNA which are known to contact with Prp8. The most conserved regions of an RRM are defined as the RNP1 and RNP2 sequences. Recognition of RNA targets can also be modulated by a number of other factors, most notably the two loops beta1-alpha1, beta2-beta3 and the amino acid residues C-terminal to the RNP2 domain.
Pfam PF15696: RAD51 interacting motif (family)
This motif interacts with RAD51.
Pfam PF01356: Alpha amylase inhibitor (domain)
Alpha-amylase inhibitor inhibits mammalian alpha-amylases specifically, by forming a tight stoichiometric 1:1 complex with alpha-amylase. The inhibitor has no action on plant and microbial alpha amylases.

A crystal structure has been determined for tendamistat, the 74-amino acid inhibitor produced by Streptomyces tendae that targets a wide range of mammalian alpha-amylases . The binding of tendamistat to alpha-amylase leads to the steric blockage of the active site of the enzyme. The crystal structure of tendamistat revealed an immunoglobulin-like fold that could potentially adopt multiple conformations. Such molecular flexibility could enable an induced-fit type of binding that would both optimise binding and allow broad target specificity.
Wikipedia: In molecular biology, alpha-amylase inhibitor is a protein family which inhibits mammalian alpha-amylases specifically, by forming a tight stoichiometric 1:1 complex with alpha-amylase. This family of inhibitors has no action on plant and microbial alpha amylases.
Pfam PF21749: Probable sensor domain DACND (domain)
This entry represents a potential sensor domain found at the N-terminal of bacterial diadenylate cyclases which are typically followed by the DAC ([pfam:PF02457]). It may consist of four alpha-helices and three beta-strands according to structure predictions. This domain is mainly found in deltaproteobacteria.
Pfam PF05122: Mobile element transfer protein (domain)
This proteins are involved in transferring a group of integrating conjugative DNA elements, such as pSAM2 from Streptomyces ambofaciens (). Their precise role is not known.
Pfam PF18333: Non-canonical single-stranded DNA-binding domain (domain)
This domain is found in ThermoDBP, a non-canonical single-stranded DNA-binding protein in Thermoproteales. Single-stranded DNA-binding proteins are needed for DNA metabolism, sequestering and protecting transiently formed ssDNA during DNA replication and recombination, detecting DNA damage and recruiting repair proteins. The outer edge of the ssDNA-binding cleft, formed by this domain, has a strongly positive electrostatic surface potential because of the conserved basic residues R49, K54, R65, R80, R86, R90, K97, and R112.
Pfam PF16594: Putative AtpZ or ATP-synthase-associated (family)
This is a family of short highly conserved plant proteins that might be associated with ATP-synthase atp operon.
Pfam PF09745: Nuclear speckle splicing regulatory protein 1, N-terminal (coiled_coil)
This domain is found at the N-terminal of Nuclear speckle splicing regulatory protein 1 (NRP1, also known as Nuclear speckle-related protein 70 and Coiled-coil domain-containing protein 55) and contains a coiled-coil domain that plays a critical role in NRP1 alternative splicing activity and self-oligomerization. NRP1 is a RNA-binding protein that mediates pre-mRNA alternative splicing regulation.
Pfam PF23817: Family of unknown function (DUF7188) (family)
This entry represents an uncharacterized protein of around 185-188 amino acids found in phages that infect Cutibacterium and Propionibacterium species. The function of this protein is currently 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 PF15566: Immunity protein 32 (family)
A predicted immunity protein with an alpha+beta fold and a conserved histidine residue. Proteins containing this domain are present in bacterial polymorphic toxin systems as an immediate gene neighbour of the toxin gene, usually containing a domain of the Ntox12 or Ntox37 or Notx 7 families. These protein form a highly confident homodimeric conformation.
Pfam PF24558: Domain of unknown function (DUF7604) (domain)
This domain is found in uncharacterised bacterial proteins. It is usually associated with von Willebrand factor type A domain (e.g. [pfam:PF00092]), which is inserted into the domain core. Members of this entry are likely to contain an intramolecular isopeptide bond. The domain represented by this entry is predicted to fold into a beta-sandwich but does not include the two N-terminal strands that precede the von Willebrand factor type A 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 PF01688: Alphaherpesvirus glycoprotein I (domain)
This family consists of glycoprotein I form various members of the  alphaherpesvirinae these include herpesvirus, varicella-zoster virus and pseudorabies virus. Glycoprotein I (gI) is important during natural  infection, mutants lacking gI produce smaller lesions at the site of infection and show reduced neuronal spread. gI forms a heterodimeric complex with gE; this complex displays Fc receptor activity (binds to the Fc region of immunoglobulin). Glycoproteins are also important  in the production of virus-neutralising antibodies and cell mediated  immunity. The alphaherpesvirinae have a dsDNA gnome and have no RNA stage during viral replication.
Pfam PF14749: Acyl-coenzyme A oxidase N-terminal (domain)
Acyl-coenzyme A oxidase consists of three domains. An N-terminal alpha-helical domain, a beta sheet domain ([pfam:PF02770]) and a C-terminal catalytic domain ([pfam:PF01756]). This entry represents the N-terminal alpha-helical domain.
Pfam PF20687: Carboxysome Shell Carbonic Anhydrase, N-terminal (domain)
Carboxysome Shell Carbonic Anhydrase is a bacterial carbonic anhydrase localised in the carboxysome, where it converts bicarbonate ions to carbon dioxide for use in carbon fixation. It contains three domains, these being: (1) an N-terminal domain composed primarily of four alpha-helices; (2) a catalytic domain containing a tightly bound zinc ion and (3) a C-terminal domain with weak structural similarity to the catalytic domain. This entry represents the N-terminal domain.
Pfam PF15790: E1A-binding protein p400, N-terminal (family)
EP400_N is a family of eukaryote proteins. the exact function of this domain is not known. This family is largely low-complexity residues.