SII-SWORD/CoKE huggingface dataset:
Pfam PF23173: Transcription factor SAC51 bHLH domain (domain)
The founding member of this family is the bHLH domain found in the transcription factor SAC51 from Arabidopsis thaliana. This domain is also found in a number of plant transcription factors such as BH143, BH145, HEC1 and HEC2.
Pfam PF06405: Red chlorophyll catabolite reductase (RCC reductase) (family)
This family consists of several red chlorophyll catabolite reductase (RCC reductase) proteins. Red chlorophyll catabolite (RCC) reductase (RCCR) and pheophorbide (Pheide) a oxygenase (PaO) catalyse the key reaction of chlorophyll catabolism, porphyrin macrocycle cleavage of Pheide a to a primary fluorescent catabolite (pFCC).
Wikipedia: In molecular biology, the red chlorophyll catabolite reductase family of proteins consists of several red chlorophyll catabolite reductase proteins. Red chlorophyll catabolite (RCC) reductase (RCCR) and pheophorbide (Pheide) a oxygenase (PaO) catalyse the key reaction of chlorophyll catabolism, porphyrin macrocycle cleavage of Pheide a to a primary fluorescent catabolite (pFCC).
Pfam PF00206: Lyase (domain)
A number of enzymes, belonging to the lyase class, for which fumarate is a substrate, have been shown to share a short conserved sequence around a methionine which is probably involved in the catalytic activity of this type of enzymes . This entry represents the N-terminal region of fumarate lyase family.
Wikipedia: Fumarate lyase belongs to the lyase class of enzymes. These proteins use fumarate as a substrate. They have been shown to share a short conserved sequence around a methionine which is probably involved in the catalytic activity of this type of enzymes.
Pfam PF04776: Protein MS5 (family)
Proteins are known only from species of Brassicaceae. Protein MS5 is essential for pairing of homologues during early prophase stage of meiosis but not necessary for the initiation of DNA double-strand breaks.
Pfam PF00214: Calcitonin / CGRP / IAPP family (family)
Calcitonin  is a 32 amino acid polypeptide hormone that causes a rapid but short-lived drop in the level of calcium and phosphate in the blood, by promoting the incorporation of these ions in the bones. This is the alpha type. Alternative splicing of the gene coding for calcitonin produces a distantly related peptide of 37 amino acids, called calcitonin gene-related peptide (CGRP), beta type. CGRP induces vasodilatation in a variety of vessels, including the coronary, cerebral and systemic vasculature. Its abundance in the CNS also points toward a neurotransmitter or neuromodulator role.

Islet amyloid polypeptide (IAPP)  (also known as diabetes-associated peptide (DAP), or amylin) is a peptide of 37 amino acids that selectively inhibits insulin-stimulated glucose utilisation and glycogen deposition in muscle, while not affecting adipocyte glucose metabolism. Structurally, IAPP is closely related to CGRP.

Calcitonin receptor-stimulating peptide 1 stimulates cAMP production via the calcitonin receptor.

Two conserved cysteines in the N-terminal of these peptides are known to be involved in a disulphide bond. The C-terminal residue of all three peptides is amidated.

                xCxxxxxCxxxxxxxxxxxxxxxxxxxxxxxxxxxx-NH(2)
                 |     |                             Amide group
                 +-----+

'C': conserved cysteine involved in a disulphide bond.
This entry represents procalcitonin (before cleavage into the calcitonin peptide) and adrenomedullin.
Wikipedia: In molecular biology, the amylin protein family or calcitonin/CGRP/IAPP protein family is a family of proteins, which includes the precursors of calcitonin/calcitonin gene-related peptide (CGRP), islet amyloid polypeptide (IAPP) and adrenomedullin.
Pfam PF15647: Restriction endonuclease fold toxin 3 (family)
A predicted toxin of the restriction endonuclease fold present in bacterial polymorphic toxin systems. In bacterial polymorphic toxin systems, the toxin is exported by the type 2, type 6, type 7 or PrsW-peptidase dependent secretion system.
Pfam PF14643: Domain of unknown function (DUF4455) (family)
This domain family is found in bacteria and eukaryotes, and is approximately 480 amino acids in length. There are two completely conserved residues (W and 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 PF22928: Integrator complex subunit 1, R4 domain (repeat)
Integrator (INT) complex is involved in the small nuclear RNAs (snRNA) U1 and U2 transcription and in their 3'-box-dependent processing. It binds the C-terminal domain (CTD) of RNA polymerase II (Pol II) and functions as an RNA endonuclease to cleave different classes of RNAs, regulating the transcription of both protein-coding genes and noncoding elements. Integrator also associates with protein phosphatase 2A (PP2A) core enzyme to form the INTAC complex which regulates transcription through dephosphorylation of Pol II CTD. This entry includes the Integrator complex subunit 1 (INTS1) which forms the backbone module of the complex (it consists of four modules: backbone, shoulder, phosphatase and endonuclease) through the association with INTS2 and INTS7 to form a rigid scaffold. The backbone and shoulder modules form a central cruciform scaffold. INTS1 contains four repetitive helix hairpin domains towards the C-terminal (R1-R4); this entry represents R4 domain.
Pfam PF07226: Protein of unknown function (DUF1422) (family)
This family consists of several hypothetical bacterial proteins of around 120 residues in length. The function of this family 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 PF02948: Amelogenin (family)
Amelogenins play a role in biomineralisation. They seem to regulate the  formation of crystallites during the secretory stage of tooth enamel development. thought to play a major role in the structural organisation and mineralisation of developing enamel. They are found in the extracellular matrix. Mutations in X-chromosomal amelogenin can cause Amelogenesis imperfecta.
Pfam PF19938: Family of unknown function (DUF6400) (family)
This entry represents a member of a biosynthetic gene cluster (BGC). This BGC (BGC0000144) is described by MIBiG as an example of the following biosynthetic class, polyketide, in particular the  salinomycin biosynthetic gene cluster from Streptomyces albus. This family appears to be predominantly found in Actinobacteria.
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 PF14715: N-terminal domain of cytochrome oxidase-cbb3, FixP (domain)
This is the N-terminal domain of FixP, the cytochrome oxidase type-cbb3. the exact function is not known.
Pfam PF01313: Bacterial export proteins, family 3 (family)
This family includes the following members;     FliQ, MopD, HrcS, Hrp, YopS and SpaQ All of these members export proteins, that do not possess signal  peptides, through the membrane. Although the proteins that these exporters move may be different, the exporters are thought to function in similar ways.
Pfam PF16970: Type-1 fimbrial protein, A (family)
FimA is a family of Gram-negative fimbrial component A proteins that form part of the pili. There are usually up to 1000 copies of this subunit in one pilus that form a helically wound rod onto which the tip fibrillum (FimF.FimG, FimH) is attached. Pilus subunits are translocated from the cytoplasm to the periplasm via the general secretory pathway SecYEG.
Pfam PF10828: Protein of unknown function (DUF2570) (family)
This is a family of proteins with 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 PF17868: AAA lid domain (domain)
This entry represents the alpha helical AAA+ lid domain that is found to the C-terminus of AAA domains.
Pfam PF21730: Vma22/CCDC115 (family)
This entry includes Vma22 from yeasts and CCDC115, the orthologue from mammals. Vma22 is an endoplasmic reticulum-associated protein required for V-ATPase activity. CCDC115 is an accessory component of the proton-transporting vacuolar (V)- ATPase protein pump involved in intracellular iron homeostasis. Mutations of CCDC115 have been found in patients affected by congenital disorders of glycosylation.
Pfam PF05952: Bacillus competence pheromone ComX (family)
Natural genetic competence in Bacillus subtilis is controlled by quorum-sensing (QS). The ComP- ComA two-component system detects the signalling molecule ComX, and this signal is transduced by a conserved phosphotransfer mechanism. ComX is synthesised as an inactive precursor and is then cleaved and modified by ComQ before export to the extracellular environment. This family includes ComX phermones involved in quorum sensing. Amino acid sequence alignments between the two ComX precursor proteins in B. licheniformis, showed that their conservation is only restricted to the N-terminal ends. Moreover, high diversity in the amino acid sequence in C-terminus marked the pheromone-forming region, where, interestingly, the tryptophan residue is located.
Pfam PF04689: DNA binding protein S1FA (family)
S1FA is a DNA-binding protein found in plants that specifically recognises the negative promoter element S1F.
Pfam PF00367: phosphotransferase system, EIIB (domain)
The phosphoenolpyruvate-dependent sugar phosphotransferase system (PTS)  is a major carbohydrate transport system in bacteria. The PTS catalyzes the phosphorylation of incoming sugar substrates concomitant with their translocation across the cell membrane. The general mechanism of the PTS is the following: a phosphoryl group from phosphoenolpyruvate (PEP) is transferred to enzyme-I (EI) of PTS which in turn transfers it to a phosphoryl carrier protein (HPr). Phospho-HPr then transfers the phosphoryl group to a sugar-specific permease which consists of at least three structurally distinct domains (IIA, IIB, and IIC)  which can either be fused together in a single polypeptide chain or exist as two or three interactive chains, formerly called enzymes II (EII) and III (EIII).

The first domain (IIA) carries the first permease-specific phoshorylation site, a histidine, which is phosphorylated by phospho-HPr. The second domain (IIB) is phosphorylated by phospho-IIA on a cysteinyl or histidyl residue, depending on the permease. Finally, the phosphoryl group is transferred from the IIB domain to the sugar substrate in a process catalyzed by the IIC domain; this process is coupled to the transmembrane transport of the sugar.
This entry covers the phosphorylation site of EIIB domains.
Pfam PF08963: Protein of unknown function (DUF1878) (family)
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 PF08031: Berberine and berberine like (domain)
This domain is found in the berberine bridge and berberine bridge- like enzymes which are involved in the biosynthesis of numerous isoquinoline alkaloids.  They catalyse the transformation of the N-methyl group of (S)-reticuline into the C-8 berberine bridge carbon of (S)-scoulerine.
Pfam PF00521: DNA gyrase/topoisomerase IV, subunit A (domain)
This entry represents a domain found in type IIA topoisomerases, such as bacterial DNA topoisomerase IV (C subunit, ParC), bacterial  DNA gyrases (A subunit, GyrA), and mammalian DNA toposiomerases II.  DNA topoisomerases are essential enzymes that regulate the  conformational changes in DNA topology by catalysing the concerted  breakage and rejoining of DNA strands during normal cellular growth.
Pfam PF06583: Neogenin C-terminus (family)
This family represents the C-terminus of eukaryotic neogenin precursor proteins, which contains several potential phosphorylation sites. Neogenin is a member of the N-CAM family of cell adhesion molecules (and therefore contains multiple copies of [pfam:PF00047] and [pfam:PF00041]) and is closely related to the DCC tumour suppressor gene product - these proteins may play an integral role in regulating differentiation programmes and/or cell migration events within many adult and embryonic tissues.
Pfam PF14398: YheC/D like ATP-grasp (family)
A member of the ATP-grasp fold predicted to be involved in the modification/biosynthesis of spore-wall and capsular proteins.
Pfam PF20340: Family of unknown function (DUF6635) (family)
This family of proteins is functionally uncharacterised. This family of proteins is found in bacteria. Proteins in this family are typically between 273 and 325 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 PF25147: Ribophorin_II, C-terminal domain (domain)
This domain is found at the C-terminal of human Ribophorin II, a subunit of the oligosaccharyl transferase (OST) complex that catalyses the first step in protein N-glycosylation. This domain shows an all-alpha configuration and is often found associated to [pfam:PF05817], [pfam:PF23861] and [pfam:PF23860].
Pfam PF09793: Anticodon-binding domain (domain)
This domain of approximately 100 residues is conserved from plants to humans. It is frequently found in association with Lsm domain-containing proteins. It is an anticodon-binding domain of a prolyl-tRNA synthetase, whose PDB structure is available under the identifier 1h4q.
Pfam PF13376: Bacteriocin-protection, YdeI or OmpD-Associated (family)
This is a family of archaeal and bacterial proteins predicted to be periplasmic. YdeI is important for resistance to polymyxin B in broth and for bacterial survival in mice upon oral, but not intraperitoneal inoculation, suggesting a role for YdeI in the gastrointestinal tract of mice. Production of the ydeI gene is regulated by the Rcs (regulator of capsule synthesis) phospho-relay system pathway independently of RcsA, and additionally transcription of the protein is regulated by the stationary-phase sigma factor, RpoS (sigma-S). YdeI confers protection against cationic AMPs (Antimicrobial peptides) or bacteriocins in conjunction with the general porin Omp, thus justifying its name of OmdA, for OmpD-Associated protein.
Pfam PF16173: Domain of unknown function (DUF4874) (family)
This presumed domain is functionally uncharacterised. This domain family is found in bacteria and eukaryotes, and is typically between 161 and 175 amino acids in length. There is a conserved WGE sequence motif.
Pfam PF03129: Anticodon binding domain (domain)
This domain is found in histidyl, glycyl, threonyl and prolyl tRNA synthetases it is probably the anticodon binding domain.
Pfam PF24545: TPPC8 second Ig-like domain (domain)
This entry represents the second Ig-like domain found in the middle region of TPPC8 from human and related sequences from vertebrates. TPPC8 plays a role in endoplasmic reticulum to Golgi apparatus trafficking at a very early stage. Together with TBC1D14, it maintains the cycling pool of ATG9 required for initiation of autophagy. It is one of the TRAPPIII complex specific subunits.
Pfam PF13378: Enolase C-terminal domain-like (domain)
This domain appears at the C-terminus of many of the proteins that carry the MR_MLE_N [pfam:PF02746] domain.  [ec:4.2.1.40].
Pfam PF00964: Elicitin (domain)
Elicitins form a novel class of plant necrotic proteins which are secreted by Phytophthora and Pythium fungi, parasites of many economically important crops. These proteins induce leaf necrosis in infected plants and elicit an incompatible hypersensitive-like reaction, leading to the development of a systemic acquired resistance against a range of fungal and bacterial plant pathogens.
Wikipedia: In molecular biology, elicitins are a family of small, highly conserved proteins secreted by phytopathogenic microorganisms belonging to the Phytophthora and Pythium species. They are toxic proteins responsible for inducing a necrotic and systemic hypersensitive response in plants from the Solanaceae and Cruciferae families. Leaf necrosis provides immediate control of fungal invasion and induces systemic acquired resistance; both responses mediate basic protection against subsequent pathogen inoculation.
Pfam PF06386: Gas vesicle synthesis protein GvpL/GvpF (family)
This family consists of several bacterial and archaeal gas vesicle synthesis protein (GvpL/GvpF) sequences. The exact function of this family is unknown. GvpL/GvpF qualify as possible candidates for nucleation proteins. Two hypothesized roles for these proteins are in initiation of gas vesicle synthesis and in determination of the curvature of the vesicle membrane.
Pfam PF20947: Influenza RNA polymerase PB2 N-terminal region (family)
Influenza virus encodes a large, multidomain RNA-dependent RNA polymerase that can both transcribe and replicate the viral RNA genome. In influenza virus, the polymerase is composed of three polypeptides: PB1, PB2 and PA/P3. PB1 houses the polymerase active site, whereas PB2 and PA/P3 contain, respectively, cap-binding and endonuclease domains required for transcription initiation by cap-snatching. This entry represents the N-terminal extended region of Flu PB2 protein, which is the N-terminal PB1 interaction domain.
Pfam PF21843: Domain of unknown function (DUF6902) (repeat)
This entry represents a family of bacterial proteins that have an alpha/alpha(6) toroid structure. This suggests that these proteins are likely to be an as yet uncharacterised family of glycosyl hydrolases.
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 PF08876: Domain of unknown function (DUF1836) (domain)
This family of 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 PF24515: KNTC1 third ARM-repeats domain (repeat)
This entry represents the third segment of ARM repeats present in KNTC1 (also known as ROD), following the beta-propeller domain. KNTC1 is a crucial component of the mitotic checkpoint, ensuring cells do not exit mitosis prematurely. KNTC1 is required for the assembly of essential complexes onto kinetochores, such as dynein-dynactin and MAD1-MAD2. KNTC1 is the major subunit of the RZZ (ROD-Zwilch-ZW10) complex, which plays a significant role in spindle assembly, kinetochore-microtubule attachment, and spindle pole separation.
Pfam PF06627: Protein of unknown function (DUF1153) (family)
This family consists of several short, hypothetical bacterial 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 PF20640: Rrn6, helical bundle domain (domain)
This is the helical bundle domain (also referred to as the headlock domain) from RNA polymerase I-specific transcription initiation factor Rrn6, a component of a multisubunit transcription factor essential for the  initiation of rDNA transcription by Pol I. This is a helical domain found towards the C-terminal, adjacent the beta-propeller, that wraps around Rrn7 and is part of module II of the core factor (CF). The DNA-bound CF resembles a right hand in which the N-terminal regions of both Rrn11 and Rrn6 (the beta-propeller domain) constitutes the palm, the thumb is composed of the C-terminal of Rrn11 and the fingers and knuckles correspond to Rrn7 and the C-terminal half of Rrn6 (this domain), respectively.
Pfam PF18284: DNA methylase N-terminal domain (domain)
This is the N-terminal domain of DNA methylase ([pfam:PF00145]). Family members include Modification methylase EcoRII ([ec:2.1.1.37]) and DNA-cytosine methyltransferase.
Pfam PF01805: Surp module (family)
This domain is also known as the SWAP domain. SWAP stands for Suppressor-of-White-APricot. It has been suggested that these domains may be RNA binding.
Wikipedia: In molecular biology, the protein domain SWAP is derived from the term Suppressor-of-White-APricot, a splicing regulator from the model organism Drosophila melanogaster. The protein domain is found in regulators that control splicing. It is found in splicing regulatory proteins.
When a gene is expressed the DNA must be transcribed into messenger RNA (mRNA). However, it sometimes contains intervening or interrupting sequences named introns. mRNA splicing helps to remove these sequences, leaving a more favourable sequence. mRNA splicing is an essential event in the post-transcriptional modification process of gene expression. SWAP helps to control this process in all cells except gametes.