SII-SWORD/CoKE huggingface dataset:
Pfam PF19841: Gliding motility associated protein GldN (family)
Members of this protein family are exclusive to the Bacteroidetes phylum (previously Cytophaga-Flavobacteria-Bacteroides). GldN is a protein linked to a type of rapid surface gliding motility found in certain Bacteroidetes, such as Cytophaga johnsonae (Flavobacterium johnsoniae) and Cytophaga hutchinsonii. Knockouts of GldN abolish the gliding phenotype . Gliding motility appears closely linked to chitin utilization in the model species C. johnsonae. Bacteroidetes with members of this protein also include those which are not believed to express the gliding phenotype, such as Prevotella intermedia and Porphyromonas gingivalis (Bacteroides gingivalis).
Pfam PF22076: Cep192 domain 6 (domain)
Cep192 is a centrosomal protein with key roles in centriole duplication and pericentriolar material recruitment, organisation and regulation. Most of the metazoan Cep192 homologs consist of eight ASH/PapD-like domains. These are located at the C-terminal part of the proteins and are likely arranged in a beads-on-string fashion. This entry represents the sixth domain of the metazoan Cep192 homologs.
Pfam PF12097: Protein of unknown function (DUF3573) (family)
This family of proteins is functionally uncharacterised. This protein is found in bacteria. Proteins in this family are typically between 372 to 530 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 PF01223: DNA/RNA non-specific endonuclease (domain)
This entry represents a domain found in a group of DNA/RNA non-specific endonucleases (3.1.30) and nucleotide pyrophosphatase/phosphodiesterases from eukaryotes and bacteria, including human Endonuclease G, mitochondrial  and Ectonucleotide pyrophosphatase/phosphodiesterase family member 1 .
A family of bacterial and eukaryotic endonucleases 3.1.30 share the following characteristics: they act on both DNA and RNA, cleave double-stranded and single-stranded nucleic acids and require a divalent ion such as magnesium for their activity. A histidine has been shown  to be essential for the activity of the Serratia marcescens nuclease. This residue is located in a conserved region which also contains an aspartic acid residue that could be implicated in the binding of the divalent ion.
This entry also includes Salivary proteins Tsal1 and Tsal2A, both high affinity nucleic acid binding proteins with residual nuclease activity and with a preference for dsDNA in a broad pH range.
Wikipedia: In molecular biology, enzymes in the DNA/RNA non-specific endonuclease family of bacterial and eukaryotic endonucleases EC 3.1.30.- share the following characteristics: they act on both DNA and RNA, cleave double-stranded and single-stranded nucleic acids and require a divalent ion such as magnesium for their activity. A histidine has been shown to be essential for the activity of the Serratia marcescens nuclease. This residue is located in a conserved region which also contains an aspartic acid residue that could be implicated in the binding of the divalent ion.
Pfam PF10794: Protein of unknown function (DUF2606) (family)
Family of bacterial proteins with unknown function. These proteins have been classified as membrane 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 PF22630: Tail protein NMB1110-like, third domain (domain)
This domain is found in Tail protein, 43 kDa from Neisseria meningitidis (NMB1110) and similar sequences which are related to baseplate hub protein gp44 from Mu bacteriophage. This domain is located C-terminal to [pfam:PF22255] and N-terminal to [pfam:PF22174].
Pfam PF03429: Major surface protein 1B (family)
The major surface protein (MSP1) of the cattle pathogen Anaplasma is a heterodimer comprised of MSP1a and MSP1b.  This family is the MSP1b chain.  There MSP1 proteins are putative adhesins for bovine erythrocytes.
Pfam PF11890: Domain of unknown function (DUF3410) (family)
This domain is functionally uncharacterised. This domain is found in bacteria. This presumed domain is about 90 amino acids in length. This domain is found associated with [pfam:PF02826], [pfam:PF00389]. This domain has a conserved RRE 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 PF20401: Rhomboid-like protein (domain)
This family of proteins is related to the Rhomboid proteins and thus is likely to be an intramembrane proteomes. This family of proteins is found primarily in actinobacteria. Proteins in this family are typically between 221 and 283 amino acids in length.
Pfam PF08783: DWNN domain (domain)
DWNN is a ubiquitin like domain found at the N terminus of the RBBP6 family of splicing-associated proteins.  The DWNN domain is independently expressed in higher vertebrates so it may function as a novel ubiquitin-like modifier of other proteins.
Pfam PF09302: XLF N-terminal domain (domain)
XLF (also called Cernunnos) is Xrcc4-like-factor, and interacts with the XRCC4-DNA ligase IV complex to promote DNA non-homologous end-joining.  It directly interacts with the XRCC4-Ligase IV complex and siRNA-mediated down-regulation of XLF in human cell lines leads to radio-sensitivity and impaired DNA non-homologous end-joining.  This family contains Nej1 (non-homologous end-joining factor), and Lif1, ligase-interacting factor. XLF forms one of the components of the NHEJ machinery for DNA non-homologous end-joining. This entry represents the N-terminal beta sandwich domain of XLF.
Pfam PF22571: PspC transmembrane region (domain)
This entry represents the transmembrane region found in LiaI-LiaF, found fused to some PspC, an integral membrane protein first identified in the proteobacterial PSP system. PspC is critical in sensing the membrane stress response and restoring envelope integrity (Preprint https://doi.org/10.1101/2020.09.24.301986).
Pfam PF19603: Family of unknown function (DUF6108) (family)
This family of proteins is functionally uncharacterised. This family of proteins is found in Bacteroidetes. Proteins in this family are typically between 148 and 173 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 PF05493: ATP synthase subunit H (family)
ATP synthase subunit H is an extremely hydrophobic  of approximately 9 kDa.  This subunit may be required for assembly of vacuolar  ATPase.
Pfam PF10197: N-terminal domain of CBF1 interacting co-repressor CIR (domain)
This is a 45 residue conserved region at the N-terminal end of a family of proteins referred to as CIRs (CBF1-interacting co-repressors). CBF1 (centromere-binding factor 1) acts as a transcription factor that causes repression by binding specifically to GTGGGAA motifs in responsive promoters, and it requires CIR as a co-repressor. CIR binds to histone deacetylase and to SAP30 and serves as a linker between CBF1 and the histone deacetylase complex.
Pfam PF10434: Monopolin complex protein MAM1 (family)
Monopolin is a protein complex, originally identified in Saccharomyces cerevisiae, that is required for the segregation of homologous centromeres to opposite poles of a dividing cell during meiosis I. MAM1 is required in S. cerevisiae for monopolar attachment.
Pfam PF22349: Fervidolysin, second beta-sandwich domain (domain)
This entry represents the second beta-sandwich domain (SD2) present in fervidolysin (keratinolytic enzyme).
Pfam PF09183: Domain of unknown function (DUF1947) (domain)
Members of this family are found in a set of hypothetical Archaeal proteins. Their exact function has not, as yet, been defined.
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 PF17435: CT_584-like (family)
This protein family, specific to Chlamydiales, includes CT_584 from Chlamydia trachomatis, a type III secretion system (T3SS)-associated protein. This protein shows a four alpha-helix bundle at the N terminus, a three-stranded antiparallel beta-sheet, and two alpha- helices arranged in a kinked antiparallel manner at the C terminus.
Pfam PF09697: Protein of unknown function (Porph_ging) (family)
This family of proteins of unknown function is found in Porphyromonas gingivalis (Bacteroides gingivalis).
Pfam PF07020: Orthopoxvirus C10L protein (family)
This family consists of several Orthopoxvirus C10L proteins. C10L viral protein can play an important role in vaccinia virus evasion of the host immune system. It may consist in the blockade of IL-1 receptors by the C10L protein, a homologue of the IL-1 Ra.
Pfam PF21414: Salt-mediated killer protoxin 1, beta subunit (domain)
The killer toxin SMK (salt-mediated killer) from the halotolerant yeast Pichia farinosa acts to kill sensitive strains of yeast. SMK exhibits maximum activity under conditions of acidic pH and high salt concentration. It is composed of two distinct subunits, alpha and beta, which tightly interact with each other under acidic conditions, jointly folding into an ellipsoidal single domain structure belonging to the alpha/beta-sandwich family. SMK assumes a similar folding topology to the fungal killer toxin KP4, forming two left-handed split beta/alpha/beta motifs which is rarely found in other toxins; hence, these toxins may be evolutionarily or functionally related. SMK appears to function by associating with the membranes of sensitive cells. This entry represents SMK beta subunit.
Pfam PF03104: DNA polymerase family B, exonuclease domain (family)
This domain has 3' to 5' exonuclease activity and adopts a ribonuclease H type fold.
Pfam PF18181: SMODS and SLOG-associating 2TM effector domain 1 (domain)
The SLATT domain contains two transmembrane helices. SLATT domains are generally predicted to function as pore-forming effectors in a class of conflict systems which are reliant on the production of second messenger nucleotide or nucleotide derivatives. SLATT domains are predicted to initiate cell suicide responses upon their activation. This SLATT family is often C-terminally fused to the SLATT_3 family, and is typically operonically linked to either inactive TIR domains or SLOG domains which could act as regulators of the SLATT channels. In relatively rare instances, it is genomically linked as a standalone domain to the RelA/SpoT nucleotide synthetase and the predicted NA37/YejK sensor domain.
Pfam PF21433: Mevalonate-3-kinase, C-terminal domain (domain)
Mevalonate-3-kinase (M3K) is a mevalonate diphosphate decarboxylase (MDD) homologue from Thermoplasma acidophilum, which catalyses phosphorylation of (R)-mevalonate without concomitant decarboxylation. This entry represents the C-terminal domain of M3K.
Pfam PF07134: Autographa californica nuclear polyhedrosis virus (AcMNPV), Orf18 (family)
This family is represented by Autographa californica nuclear polyhedrosis virus (AcMNPV), Orf18 (ac18); it is a family of uncharacterised viral proteins.
Pfam PF07766: LETM1-like, RBD (domain)
Members of this entry are inner mitochondrial membrane proteins which play a role in potassium and hydrogen  ion exchange. Deletion of LETM1 is thought to be involved in the development of Wolf-Hirschhorn syndrome in humans. This entry represents the ribosome-binding domain (RBD) of LETM1/MDM38 proteins.
Wikipedia: LETM1-like is a family of evolutionarily related proteins. This is a group of mainly hypothetical eukaryotic proteins. Putative features found in LETM1, such as a transmembrane domain and a CK2 and PKC phosphorylation site, are relatively conserved throughout the family. Deletion of LETM1 is thought to be involved in the development of Wolf-Hirschhorn syndrome in humans. A member of this family, SWISSPROT, is known to be expressed in the mitochondria of Drosophila melanogaster, suggesting that this may be a group of mitochondrial proteins.
Pfam PF00568: WH1 domain (domain)
WASp Homology domain 1 (WH1) domain. WASP is the protein that is defective in Wiskott-Aldrich syndrome (WAS). The majority of point mutations occur within the amino- terminal WH1 domain. The metabotropic glutamate receptors mGluR1alpha  and mGluR5 bind a protein called homer, which is a WH1 domain homologue. A subset of WH1 domains has been termed a "EVH1" domain and appear to bind a polyproline motif.
Wikipedia: WH1 domains, also known as EVH1 domains, are evolutionary conserved protein domains found on WASP (VASP) proteins, which are often involved in actin polymerization.
Pfam PF24073: Coiled-coil region of unknown function (DUF7365) (coiled_coil)
This entry represents a family of uncharacterised phage proteins that have a predicted N-terminal transmembrane helix and a coiled-coil region.  Structure prediction suggests that these proteins may adopt a trimeric coiled-coil structure. Many of these proteins are annotated as holins, however the origin of that annotation is unclear.
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 PF10100: Staphylopine dehydrogenase (family)
A member of this family has been identified in Staphylococcus aureus as a dehydrogenase involved in the synthesis of a new metallophore,named staphylopine. It is encoded as part of an operon that also includes an histidine racemase and an enzyme distantly related to nicotianamine synthase. Staphylopine is involved in metal acquisition, chelating nickel, cobalt, zinc, copper or iron, depending on the growing conditions. Metal acquisition is vital for bacteria growing in metal-scarce environments, such as inside a host in the case of pathogens.
Pfam PF01797: Transposase IS200 like (family)
Transposases are needed for efficient transposition of the insertion sequence or transposon DNA. This family includes transposases for IS200 from E. coli.
Pfam PF08633: Rox3 mediator complex subunit (family)
The mediator complex is part of the RNA polymerase II holoenzyme. Rox3 is a subunit of the mediator complex.
Pfam PF19039: ASK kinase PH domain (domain)
This PH-like domain is found in the regulatory region of ASK1 and related kinase proteins. This domain is found adjacent to the kinase domain.
Pfam PF01856: Helicobacter outer membrane protein (family)
This family seems confined to Helicobacter. It is predicted to be an outer membrane protein based on its pattern of alternating hydrophobic amino acids similar to porins.
Pfam PF10237: Probable N6-adenine methyltransferase (family)
This is a protein of approximately 200 residues which is conserved from plants to humans.  It contains a highly conserved QFW motif close to the N-terminus and a DPPF motif in the centre. The DPPF motif is characteristic of N-6 adenine-specific DNA methylases, and this family is found in eukaryotes.
Pfam PF00556: Antenna complex alpha/beta subunit (domain)
The antenna complexes of photosynthetic bacteria function as light-harvesting systems that absorb light and transfer the excitation energy to the reaction centres. The antenna complexes usually comprise 2 polypeptides (alpha- and beta-chains), 2-3 bacteriochlorophyll molecules and some carotenoids . The alpha- and beta-chains are small proteins of 40-70 residues. Each has an N-terminal hydrophilic cytoplasmic domain, a single transmembrane (TM) region, and a small C-terminal hydrophilic periplasmic domain. In both chains, the TM domain houses a conserved His residue, presumed to be involved in binding the magnesium atom of a bacteriochlorophyll group. The beta-chains are characterised by a further histidine at the C-terminal extremity of the cytoplasmic domain, which is also thought to be involved in bacteriochlorophyll binding.
Wikipedia: The antenna complex in purple photosynthetic bacteria are protein complexes responsible for the transfer of solar energy to the photosynthetic reaction centre. Purple bacteria, particularly Rhodopseudomonas acidophila of purple non-sulfur bacteria, have been one of the main groups of organisms used to study bacterial antenna complexes so much is known about this group's photosynthetic components. It is one of the many independent types of light-harvesting complex used by various photosynthetic organisms.
Pfam PF02596: Uncharacterised ArCR, COG2043 (family)
This entry describes proteins of unknown function.
Wikipedia: A domain of unknown function (DUF) is a protein domain that has no characterised function. These families have been collected together in the Pfam database using the prefix DUF followed by a number, with examples being DUF2992 and DUF1220. As of 2019, there are almost 4,000 DUF families within the Pfam database representing over 22% of known families. Some DUFs are not named using the nomenclature due to popular usage but are nevertheless DUFs.
Pfam PF17896: Non-structural protein 2, gammacoronavirus (domain)
Avian infectious bronchitis virus (IBV) is a gammacoronavirus that belongs to Group III of coronaviruses. They have a large genome containing the replicase gene consisting of two large ORFs, ORF1a and 1b that encode two replicase polyproteins ppa1a/1ab, which are then auto-proteolytically processed into 15 or 16 matured nonstructural proteins to achieve viral genomic replication, assembly and maturation. This group contains avian viruses and differs from the other groups in that they do not encode the essential pathogenic factor non-structural protein 1 (NSP1) and instead start with NSP2. IBV NSP2 is one of the first replicase proteins to be translated and processed in the viral life cycle. NSP2 is a weak protein kinase R (PKR) antagonist, which may suggest that it plays a role in interfering with intracellular immunity.
Pfam PF18922: Protein of unknown function (DUF5672) (family)
This family of proteins is functionally uncharacterised. This family of proteins is found in bacteria, archaea, eukaryotes and viruses.  Proteins in this family are typically between 260 and 408 amino acids in length. This entry corresponds to a region of about 200 amino acids in length with multiple conserved motifs. There are two conserved sequence motifs: GAP and NGG.  In some proteins this domain is found associated with various glycosyl transferase enzyme domains, suggesting this domain has a related role in glycan biosynthesis.
Pfam PF23352: IFT52 central domain (domain)
This entry represents the central domain of IFT52 homolog from human and related proteins. IFT52 is a core component of the IFT-B complex which is involved in intraflagellar transport (IFT), the bidirectional movement of particles required for the assembly, maintenance and functioning of primary cilia. IFT52 interacts with IFT88 and IFT70 through the central domain, while its C-terminal domain ([pfam:PF21178]) interacts with IFT46 and IFT74.
Pfam PF19301: LigXa C-terminal domain like (domain)
This entry represents the C-terminal domain of a Rieske oxygenase enzyme. This entry includes the 5,5'-dehydrodivanillate O-demethylase three-component monooxygenase which is composed of an oxygenase (LigXa) in this entry, a ferredoxin (LigXc) and a ferredoxin reductase (LigXd).
Pfam PF00539: Transactivating regulatory protein (Tat) (family)
The retroviral Tat protein binds to the Tar RNA.  This activates  transcriptional initiation and elongation from the LTR promoter. Binding is mediated by an arginine rich region.
Wikipedia: In molecular biology, Tat is a protein that is encoded for by the tat gene in HIV-1. Tat is a regulatory protein that drastically enhances the efficiency of viral transcription.
Tat stands for "Trans-Activator of Transcription". The protein consists of between 86 and 101 amino acids depending on the subtype. Tat vastly increases the level of transcription of the HIV dsDNA. Before Tat is present, a small number of RNA transcripts will be made, which allow the Tat protein to be produced. Tat then binds to cellular factors and mediates their phosphorylation, resulting in increased transcription of all HIV genes, providing a positive feedback cycle. This in turn allows HIV to have an explosive response once a threshold amount of Tat is produced, a useful tool for defeating the body's response.
Pfam PF21580: Elongation factor SelB, third winged-helix domain (domain)
This domain is found in Elongation factor SelB from Aquifex aeolicus and similar bacterial proteins. SelB is a selenocysteine(Sec)-specific elongation factor that brings the selenocysteinyl-tRNA(Sec) to the ribosome. It consists of three EF-Tu-like domains (D1-3, where [pfam:PF00009] is the first one), followed by four winged-helix domains (WHD1-4). This entry represents the third winged-helix domains (WHD3).
Pfam PF01066: CDP-alcohol phosphatidyltransferase (family)
All of these members have the ability to catalyse the displacement of CMP from a CDP-alcohol by a second alcohol with formation of a phosphodiester bond and concomitant breaking of a phosphoride anhydride bond.
Pfam PF09075: Heat-stable enterotoxin B, secretory (domain)
Members of this family assume a helical secondary structure, with two alpha helices forming a disulphide crosslinked alpha-helical hairpin. The disulphide bonds are crucial for the toxic activity of the protein, and are required for maintenance of the tertiary structure, and subsequent interaction with the particulate form of guanylate cyclase, increasing cyclic GMP levels within the host intestinal epithelial cells.
Wikipedia: Heat-stable enterotoxins (STs) are secretory peptides produced by some bacterial strains, such as enterotoxigenic Escherichia coli which are in general toxic to animals.