SII-SWORD/CoKE huggingface dataset:
Pfam PF24969: Leucine-rich repeat domain (repeat)
This domain is found in uncharacterised fungal proteins. It is composed of leucine-rich repeats.
Wikipedia: A leucine-rich repeat (LRR) is a protein structural motif that forms an α/β horseshoe fold. It is composed of repeating 20–30 amino acid stretches that are unusually rich in the hydrophobic amino acid leucine. These tandem repeats commonly fold together to form a solenoid protein domain, termed leucine-rich repeat domain. Typically, each repeat unit has beta strand-turn-alpha helix structure, and the assembled domain, composed of many such repeats, has a horseshoe shape with an interior parallel beta sheet and an exterior array of helices. One face of the beta sheet and one side of the helix array are exposed to solvent and are therefore dominated by hydrophilic residues. The region between the helices and sheets is the protein's hydrophobic core and is tightly sterically packed with leucine residues.
Pfam PF03847: Transcription initiation factor TFIID subunit A (domain)
TBP-associated factor 12 (TAF12) is one of several TAFs that bind TBP and are involved in forming the TFIID complex. TAF12 interacts with TAF4 and makes a novel histone-like heterodimer that binds DNA and has a core promoter function of a subset of genes .

This entry represents a domain found in TAF12.
TFIID is one of several General Transcription Factors (GTFs), which also include TFIIA, TFIIB, TFIIE, TFIIF and TFIIH, that are involved in the accurate initiation of transcription by RNA polymerase II in eukaryotes. TFIID plays an important role in the recognition of promoter DNA and assembly of the pre-initiation complex. Human transcription initiation factor TFIID is composed of the TATA-binding protein (TBP) and at least 13 TBP-associated factors (TAFs) that collectively or individually are involved in activator-dependent transcription .
Wikipedia: The TBP-associated factors (TAF) are proteins that associate with the TATA-binding protein in transcription initiation. It is a part of the transcription initiation factor TFIID multimeric protein complex. It also makes up many other factors, including SL1. They mediate the formation of the transcription preinitiation complex, a step preceding transcription of DNA to RNA by RNA polymerase II.
Pfam PF19408: PKD-like domain (domain)
Presumed PKD-like domain found as tandem repeats in bacterial cell surface proteins, commonly associated with PA14 and DUF11 domains.
Pfam PF02966: Mitosis protein DIM1 (domain)
This entry represents fission yeast Dim1 and its homologues, including Dib1 from budding yeasts, YLS8 from plants and TXNL4 from animals. Dim1 was originally identified as a mitosis protein . Later, it was found to interact with spliceosome component Prp6, which is involved in pre-mRNA splicing . Dim1 may act at the level of mRNA, which impacts the functioning of the APC/C, a critical complex in controlling mitotic progression .

It's worth noting that although the Dim proteins exhibit a thioredoxin-like fold, they lack the disulfide bond required for the thioredoxin redox activity .
Pfam PF08823: Putative peptidoglycan binding domain (domain)
This family may be a peptidoglycan binding domain.
Pfam PF09543: Protein of unknown function (DUF2379) (family)
This family consists of at least 7 paralogs in Myxococcus xanthus and 6 in Stigmatella aurantiaca, both members of the Deltaproteobacteria. The function 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 PF14824: Sirohaem biosynthesis protein central (domain)
This is the central domain of a multifunctional enzyme which catalyses the biosynthesis of sirohaem. Both of the catalytic activities of this enzyme (precorrin-2 dehydrogenase [ec:1.3.1.76]) and sirohydrochlorin ferrochelatase ([ec:4.99.1.4]) are located in the N-terminal domain of this enzyme, [pfam:PF13241].
Pfam PF24505: TMEM131 homolog sixth Ig-like domain (domain)
This entry represents the sixth Ig-like domain of TMEM131 from Drosophila and related sequences from flies, which is the orthologue of human TMEM131. This is a collagen binding transmembrane protein involved in collagen secretion, probably by recruiting the ER-to-Golgi transport complex TRAPPIII.
Pfam PF15709: Domain of unknown function (DUF4670) (family)
This family of proteins is found in eukaryotes. Proteins in this family are typically between 373 and 763 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 PF16375: Domain of unknown function (domain)
This domain is found in Rhamnogalacturonan lyase from Bacteroides thetaiotaomicron ([swissprot:Q8AAW3]) and other bacterial proteins. It shows an alpha/beta structure and locates C-terminal to [pfam:PF07944]. The specific function of this domain is still unknown.
Pfam PF20002: FtsH ternary system domain X3-analog (family)
Uncharacterized domain found in the FtsH ternary system, a class of NTP-dependent biological conflict systems. This domain is positionally-equivalent and mutually-exclusive to the fvmX3 domain in gene neighborhoods.
Pfam PF23959: Family of unknown function (DUF7288) (family)
This entry represents a group of uncharacterised archaeal 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 PF24421: Tip attachment protein J, Ig-like domain (domain)
This domain is found in Tip attachment protein J from Bacteriophage lambda and similar sequences from tailed bacteriophages and prophages from proteobacteria. J plays a role inducing viral DNA ejection. This domain is predicted to adopt an immunoglobulin-like structure.
Pfam PF07946: PAT complex subunit CCDC47 (family)
This family represents CCDC47 proteins which are a component of the PAT complex, an endoplasmic reticulum (ER)-resident membrane multiprotein complex that facilitates multi-pass membrane proteins insertion into membranes. The PAT complex, formed by CCDC47 and Asterix proteins, acts as an intramembrane chaperone by directly interacting with nascent transmembrane domains (TMDs), releasing its substrates upon correct folding, and is needed for optimal biogenesis of multi-pass membrane proteins. CCDC47 ([swissprot:Q96A33]) is required to maintain the stability of Asterix. CCDC47 is associated with various membrane-associated processes and is component of a ribosome-associated ER translocon complex involved in multi-pass membrane protein transport into the ER membrane and biogenesis. It is also involved in the regulation of calcium ion homeostasis in the ER, being also required for proper protein degradation via the ERAD (ER-associated degradation) pathway.
Pfam PF03936: Terpene synthase family, metal binding domain (domain)
It has been suggested that this gene family be designated tps (for terpene synthase).  It has been split into six subgroups on the basis of phylogeny, called tpsa-tpsf. tpsa includes vetispiridiene synthase [swissprot:Q39979], 5-epi- aristolochene synthase, [swissprot:Q40577] and (+)-delta-cadinene synthase [swissprot:P93665]. tpsb includes (-)-limonene synthase, [swissprot:Q40322]. tpsc includes kaurene synthase A, [swissprot:O04408]. tpsd includes taxadiene synthase, [swissprot:Q41594], pinene synthase, [swissprot:O24475] and myrcene synthase, [swissprot:O24474]. tpse includes kaurene synthase B. tpsf includes linalool synthase.
Wikipedia: In molecular biology, this protein domain belongs to the terpene synthase family (TPS). Its role is to synthesize terpenes, which are part of primary metabolism, such as sterols and
carotene, and also part of the secondary metabolism. This entry will focus on the C terminal domain of the TPS protein.
Pfam PF08725: Integrin beta cytoplasmic domain (domain)
Integrins are a group of transmembrane proteins which function as extracellular matrix receptors and in cell adhesion. Integrins are ubiquitously expressed and are heterodimeric, each composed of an alpha and beta subunit.  Several variations of the the alpha and beta subunits exist, and association of different alpha and beta subunits can have different a different binding specificity.  This domain corresponds to the cytoplasmic domain of the beta subunit.
Wikipedia: Integrins are transmembrane receptors that help cell–cell and cell–extracellular matrix (ECM) adhesion. Upon ligand binding, integrins activate signal transduction pathways that mediate cellular signals such as regulation of the cell cycle, organization of the intracellular cytoskeleton, and movement of new receptors to the cell membrane. The presence of integrins allows rapid and flexible responses to events at the cell surface.
Pfam PF07607: Protein of unknown function (DUF1570) (family)
A family of hypothetical proteins in Rhodopirellula baltica. This family carries a highly conserved HExxH sequence motif characteristic of members of the Peptidase clan MA.
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 PF11170: Protein of unknown function (DUF2957) (family)
Some members annotate the proteins to be putative lipoproteins however this cannot be confirmed. Currently no function is known for this family of 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 PF14223: gag-polypeptide of LTR copia-type (family)
This family is found in Plants and fungi, and contains LTR-polyproteins, or retrotransposons of the copia-type.
Pfam PF22003: MrkD-like receptor binding domain (domain)
This entry represents the receptor binding domain of MrkD from Klebsiella pneumoniae and similar sequences. MkrD is an adhesin protein that specifically interacts with type IV and/or V collagen.
Pfam PF08310: LGFP repeat (repeat)
This 54 amino acid repeat is found in many hypothetical proteins. Several hypothetical proteins from C.glutamicum and C.efficiens along with PS1 protein contain this repeat region. The N-terminus region of PS1 contains an esterase domain which transfers corynomycolic acid. The C-terminus region consists of 4 tandem LGFP repeats. It is hypothesised that the PS1 proteins in Corynebacterium, when associated with the cell wall, may be anchored via the LGFP tandem repeats that may be important for maintaining cell wall integrity [Adindla et al. Comparative and Functional Genomics 2004; 5:2-16].  Deletion of [swissprot:Q01377] protein results in a 10-fold increase in the cell volume of the organism and infers the corresponding proteins involvement in the cell shape formation. The secondary structure of each repeat is predicted to comprise two beta-strands and one alpha-helix [Adindla et al. 2004].
Pfam PF00313: 'Cold-shock' DNA-binding domain (domain)
When Escherichia coli is exposed to a temperature drop from 37 to 10 degrees centigrade, a 4-5 hour lag phase occurs, after which growth is resumed at a reduced rate . During the lag phase, the expression of around 13 proteins, which contain specific DNA-binding regions , is increased 2-10 fold. These so-called 'cold shock' proteins (CSPs) are thought to help the cell to survive in temperatures lower than optimum growth temperature, by contrast with heat shock proteins, which help the cell to survive in temperatures greater than the optimum, possibly by condensation of the chromosome and organisation of the prokaryotic nucleoid . A conserved domain of about 70 amino acids has been found in prokaryotic and eukaryotic DNA-binding proteins . This domain is known as the 'cold-shock domain' (CSD), part of which is highly similar  to the RNP-1 RNA-binding motif.

CSPs include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein. CSP expression is up-regulated by an abrupt drop in growth temperature. CSPs are also expressed under normal condition at lower level. The function of cold-shock proteins is not fully understood. They preferentially bind poly-pyrimidine region of single-stranded RNA and DNA . CSPs are thought to bind mRNA and regulate ribosomal translation, mRNA degradation, and the rate of transcription termination. The human Y-box protein, which contains a CSD , regulates transcription and translation of genes that contain the Y-box sequence in their promoters. This specific ssDNA-binding properties of CSD are required for the binding of Y-box protein to the promoter's Y-box sequence, thereby regulating transcription.
Wikipedia: In molecular biology, the cold-shock domain (CSD) is a protein domain of about 70 amino acids which has been found in prokaryotic and eukaryotic DNA-binding proteins. Part of this domain is highly similar to the RNP-1 RNA-binding motif.
Pfam PF23051: Domain of unknown function (DUF7040) (domain)
This entry represents a C-terminal domain found in a family of uncharacterised proteins in nematodes.
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 PF22698: Semialdehyde dehydrogenase, dimerisation domain (domain)
This entry represents the dimerisation domain found in N-acetyl-glutamine semialdehyde dehydrogenase (AgrC) and related sequences not included in [pfam:PF02774].
Pfam PF17479: Protein of unknown function (DUF3048) C-terminal domain (domain)
Some members in this bacterial family of proteins are annotated as YerB. However currently no function is known. This entry represents the C-terminal 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 PF02507: Photosystem I reaction centre subunit III (family)
Photosystem I (PSI) is an integral membrane protein complex that uses light energy to mediate electron transfer from plastocyanin to ferredoxin. Subunit III (or PSI-F) is one of at least 14 different subunits that compose the PSI complex.
Pfam PF16461: Lambda phage tail tube protein, TTP (domain)
This family represents the phage-tail-tube protein from a set of Siphoviridae from Gammaproteobacteria. Tail tube proteins polymerise with the assistance of the Tail-tip complex, a tape measure protein and two chaperones. Infectivity of host is delivered through the tube. Members of this family from hexameric ring arrangement.
Pfam PF13119: Domain of unknown function (DUF3973) (family)
This presumed domain is functionally uncharacterised. This domain family is found in bacteria, and is approximately 40 amino acids in length. There is a conserved YCI sequence motif.
Pfam PF18502: 54S ribosomal protein L8 C-terminal domain (domain)
This is the C-terminal domain of mitochondrial 54S ribosomal protein L8.
Pfam PF19110: Family of unknown function (DUF5797) (family)
This is a family of proteins of unknown function predominantly found 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 PF09656: Putative transmembrane protein (PGPGW) (family)
Proteins in this entry are putative Actinobacterial proteins of about 150 amino acids in length, with three predicted transmembrane helices and an unusual motif with consensus sequence PGPGW.
Pfam PF18694: TAR DNA-binding protein 43, N-terminal domain (domain)
This is the N-terminal domain of transactive response DNA-binding protein 43 kDa (TDP-43), an RNA transporting and processing protein whose aberrant aggregates are implicated in neurodegenerative diseases. TDP-43 N-terminal domain has been shown to play an important role in the aggregation of TDP-43 monomers and its loss of function affects the RNA metabolic levels. Secondary structure of the N-terminal domain consists of six beta-strands and it resembles axin 1. This domain is known to mediate TDP-43 dimerization. This region is followed by a nuclear localization sequence (NLS) which links the N-terminal domain with the RNA recognition motif 1 (RRM1).
Pfam PF05494: MlaC protein (family)
MlaC is a component of the Mla pathway, an ABC transport system that functions to maintain the asymmetry of the outer membrane.  This family of proteins is involved in toluene tolerance, which is mediated by increased cell membrane rigidity resulting from changes in fatty acid and phospholipid compositions, exclusion of toluene from the cell membrane, and removal of intracellular toluene by degradation. Many proteins are involved in these processes.
Pfam PF17300: Filaments in between nuclei protein-1 (family)
Fin1 is a kinetochore protein, predicted to contain two putative coiled-coil regions at its C terminus. It is present in a filamentous structure associated with the spindle and spindle pole in dividing cells during anaphase. Fin1 is a substrate of S-phase cyclin-dependent kinase (CDK). It binds to PP1 creating the Fin1- PPI complex which is recruited onto kinetochores promoting spindle assembly checkpoint (SAC) dis-assembly during anaphase. This is an important step in cell division since the kinetochore is the docking site for the spindle assembly checkpoint that monitors the defects in chromosome attachment and blocks anaphase onset. Fin1 has two RXXS/T sequences: S377 (RVTS), S526 (RKVS) that can be phosphorylated. Upon phosphorylation, interactions with other proteins such as Bmh1 and Bmh2 is promoted. However, de-phosphorylation during anaphase promotes the kinetochore recruitment of Fin1-PP1.
Pfam PF05210: Sprouty protein (Spry) (family)
This family consists of eukaryotic Sprouty protein homologues. Sprouty proteins have been revealed as inhibitors of the Ras/mitogen-activated protein kinase (MAPK) cascade, a pathway crucial for developmental processes initiated by activation of various receptor tyrosine kinases. The sprouty gene has found to be expressed in the the brain, cochlea, nasal organs, teeth, salivary gland, lungs, digestive tract, kidneys and limb buds in mice.
Wikipedia: In molecular biology the SPR domain is a protein domain found in the Sprouty (Spry) and Spred proteins. These have been identified as inhibitors of the Ras/mitogen-activated protein kinase (MAPK) cascade, a pathway crucial for developmental processes initiated by activation of various receptor tyrosine kinases. These proteins share a conserved, C-terminal cysteine-rich region, the SPR domain. This domain has been defined as a novel cytosol to membrane translocation domain. It has been found to be a PtdIns(4,5)P2-binding domain that targets the proteins to a cellular localization that maximizes their inhibitory potential. It also mediates homodimer formation of these proteins.
Pfam PF14756: Peptidase_C33-associated domain (domain)
The nsps or non-structural protein subunits of the arteriviral polyproteins such as porcine arterivirus PRRSV and equine arterivirus EAV are auto-cleaved into functional units. the function of this particular domain is not known.
Pfam PF21506: Kinetochore null protein 2-like domain (domain)
This domain is found towards the C-terminal of Kinetochore null protein 2 from Caenorhabditis elegans (Knl-2). It shows an all- helical structure. It is normally found associated with [pfam:PF09133].
Pfam PF14497: Glutathione S-transferase, C-terminal domain (domain)
This domain is closely related to [pfam:PF00043].
Wikipedia: Glutathione S-transferase, C-terminal domain  is a structural domain of glutathione S-transferase (GST).
Pfam PF23698: ORF29-like (family)
This protein family includes ORF29 from Fowl aviadenovirus 4, a 63-residues long protein sequence.
Pfam PF10740: Domain of unknown function (DUF2529) (domain)
This domain is conserved in the Bacillales. The function is not known, but given this domains relationship to the SIS domain it may carry out a sugar isomerase reaction. Several members are annotated as being YWJG, a protein expressed downstream of pyrG, a gene encoding for cytidine triphosphate synthetase.
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 PF23832: Domain of unknown function (DUF7202) (domain)
This entry describes a domain of unknown function (DUF). It is found in phage proteins, generally around 70 amino acids in length. The domain is found in a variety of phages infecting hosts such as Escherichia, Shigella, Yersinia, Erwinia, Providencia, and Pectobacterium. No functional information is known. An AlphaFold model shows this protein adopts a three stranded beta sheet 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.