SII-SWORD/CoKE huggingface dataset:
Pfam PF10861: Protein of Unknown function (DUF2784) (family)
This is a family of uncharacterised protein. The function is not known however it is conserved in Bacteria.
Wikipedia: A domain of unknown function (DUF) is a protein domain that has no characterised function. These families have been collected together in the Pfam database using the prefix DUF followed by a number, with examples being DUF2992 and DUF1220. As of 2019, there are almost 4,000 DUF families within the Pfam database representing over 22% of known families. Some DUFs are not named using the nomenclature due to popular usage but are nevertheless DUFs.
Pfam PF00100: ZP-C domain (domain)
This entry represents the ZP-C domain that is the C-terminal structural domain that composes the zona pellucida domain that was originally defined by sequence.
Wikipedia: The zona pellucida-like domain is a large protein region of about 260 amino acids. It has been recognised in a variety of receptor-like eukaryotic glycoproteins. All of these molecules are mosaic proteins with a large extracellular region composed of various domains, often followed by either a transmembrane domain and a short cytoplasmic region or by a GPI-anchor.
Pfam PF00619: Caspase recruitment domain (domain)
Motif contained in proteins involved in apoptotic signaling. Predicted to possess a DEATH ([pfam:PF00531]) domain-like fold .
Wikipedia: Caspase recruitment domains, or caspase activation and recruitment domains (CARDs), are interaction motifs found in a wide array of proteins, typically those involved in processes relating to inflammation and apoptosis. These domains mediate the formation of larger protein complexes via direct interactions between individual CARDs. CARDs are found on a strikingly wide range of proteins, including helicases, kinases, mitochondrial proteins, caspases, and other cytoplasmic factors.
Pfam PF21963: TcdA1, receptor binding domain (domain)
This domain is found in TcdA1 from Photorhabdus luminescens and similar sequences from gammaproteobacteria. TcdA1 is one of the three subunits of the Tc toxins. TcdA1 acts as an injecting device responsible for translocating the actual toxic component into host cells. TcA has four receptor-binding domains. This domain is one of 4 receptor binding domains found in TcA. All four domains have an immunoglobulin (Ig)-like beta-sandwich fold of two sheets with antiparallel beta-strands.
Pfam PF01734: Patatin-like phospholipase (domain)
This family consists of various patatin glycoproteins from plants. The patatin protein accounts for up to 40% of  the total soluble protein in potato tubers. Patatin is a storage protein but it also has the enzymatic activity of lipid acyl hydrolase, catalysing the cleavage of fatty acids from membrane lipids. Members of this family have been found also in vertebrates.
Wikipedia: Family of patatin-like phospholipases consists of various patatin glycoproteins from the total soluble protein from potato tubers, and also some proteins found in vertebrates. Patatin is a storage protein but it also has the enzymatic activity of phospholipase, catalysing the cleavage of fatty acids from membrane lipids.
Pfam PF11882: Domain of unknown function (DUF3402) (family)
This domain is functionally uncharacterised. This domain is found in eukaryotes. This presumed domain is typically between 350 to 473 amino acids in length. This domain is found associated with [pfam:PF07923].
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 PF07201: HrpJ-like domain (domain)
This family represents a conserved region approximately 200 residues long within a number of bacterial hypersensitivity response secretion protein HrpJ and similar proteins. HrpJ forms part of a type III secretion system through which, in phytopathogenic bacterial species, virulence factors are thought to be delivered to plant cells.  This family also includes the InvE invasion protein from Salmonella.  This protein is involved in host parasite interactions and mutations in the InvE gene render Salmonella typhimurium non-invasive.  InvE S. typhimurium mutants fail to elicit a rapid Ca2+ increase in cultured cells, an important event in the infection procedure and internalisation of S. typhimurium into epithelial cells. This family includes bacterial SepL and SsaL proteins. SepL plays an essential role in the infection process of enterohemorrhagic Escherichia coli and is thought to be responsible for the secretion of EspA, EspD, and EspB. SsaL of Salmonella typhimurium is thought to be a component of the type III secretion system.
Pfam PF15796: KELK-motif containing domain of MRCK Ser/Thr protein kinase (coiled_coil)
KELK is a domain of eukaryotic proteins found in serine/threonine-protein kinase MRCK-type proteins. The region is low-complexity, but it is not a predicted disordered-binding domain. The name comes from a highly conserved sequence motif within the domain.  The function is not known.
Pfam PF02365: No apical meristem (NAM) protein (family)
This is a family of no apical meristem (NAM) proteins these are plant development proteins.  Mutations in NAM result in the failure to develop a shoot apical meristem in petunia embryos.  NAM is indicated as having a role in determining positions of meristems and primordial. One member of this family NAP (NAC-like, activated by AP3/PI) is encoded by the target genes of the AP3/PI transcriptional activators and functions in the transition between growth by cell division and cell expansion in stamens and petals.
Pfam PF21772: Ciliogenesis-associated TTC17-interacting protein, N-terminal domain (domain)
This domain is found at the N-terminal end of Ciliogenesis-associated TTC17-interacting protein from humans (CATIP) and similar sequences predominantly found in vertebrates. CATIP plays a role in primary ciliogenesis by modulating actin polymerisation. According to structure predictions, this domain folds into a structure mainly consisting of beta-sheets.
Pfam PF18593: CdiI immunity protein (domain)
Contact-dependent growth inhibition (CDI) is an important mechanism of inter-bacterial competition found in many Gram-negative pathogens. CDI+ cells express cell-surface CdiA proteins that bind neighboring bacteria and deliver C-terminal toxin domains (CdiA-CT) to inhibit target-cell growth. CDI+ bacteria also produce CdiI immunity proteins, which specifically neutralize cognate CdiA-CT toxins to prevent self-inhibition. Structure analysis of CdiI immunity protein from Yersinia kristensenii shows that it is composed of eight alpha-helices packed together to form a nearly spherical structure with weak structural homology to a putative TetR family transcriptional repressor. The CdiI protein fits into the curved cavity of the CdiA-CTYkris toxin domain where it most likely neutralizes toxin activity by blocking access to RNA substrates. This domain is mostly found in gammaproteobacteria.
Pfam PF01148: Cytidylyltransferase family (family)
The members of this family are integral membrane protein cytidylyltransferases. The family includes phosphatidate cytidylyltransferase [ec:2.7.7.41] as well as Sec59 from yeast. Sec59 is a dolichol kinase [ec:2.7.1.108].
Wikipedia: Phosphatidate cytidylyltransferase (CDS) is the enzyme that catalyzes the synthesis of CDP-diacylglycerol from cytidine triphosphate and phosphatidate.CTP + phosphatidate  diphosphate + CDP-diacylglycerol
Pfam PF05693: Glycogen synthase (family)
This family consists of the eukaryotic glycogen synthase proteins GYS1, GYS2 and GYS3. Glycogen synthase (GS) is the enzyme responsible for the synthesis of -1,4-linked glucose chains in glycogen. It is the rate limiting enzyme in the synthesis of the polysaccharide, and its activity is highly regulated through phosphorylation at multiple sites and also by allosteric effectors, mainly glucose 6-phosphate (G6P).
Pfam PF15161: Neuropeptide-like (family)
This family contains putative neuropeptides.
Pfam PF05810: NinF protein (family)
This family consists of several bacteriophage NinF proteins as well as related sequences from E. coli.
Pfam PF19428: Semaphorin 4F C-terminal (domain)
Semaphorins are a large and diverse family of proteins, widely expressed across divergent animal phyla. They are secreted and membrane-associated proteins, conserved both structurally and functionally, and they are divided in eight classes (1-7 and V). They are involved in axon guidance and influence the migration of neurons and glial cells. This entry represents the C-terminal domain of Semaphorin 4F (also known as Semaphorin-W) which plays a role in visual system development and in oligodendrocyte precursor migration and differentiation. Like other Semaphorin 4 members, it includes a Ig-like domain, adjacent the PSI domain (plexin-semaphorin-integrin domain, conserved across all semaphorins), a transmembrane region and a short intracellular tail. The latter is rich in proline residues similar to other transmembrane semaphorins suggesting that it may interact with cytoskeletal or signalling proteins. It also contains a cyclic nucleotide-dependent protein kinase phosphorylation site, involved in signal transduction into the cell. Sema4F is found in glutamatergic synapses, preferentially in postsynaptic dendrites, attached to SAP90/PSD-95-scaffolding protein. Sema4F interacts with SAP90/PSD-95 PDZ domains through the critical last last three C-terminal amino acids.
Pfam PF13274: Antitoxin SocA-like, Panacea domain (domain)
This domain is found in Antitoxin SocA from Caulobacter vibrioides and in similar proteins widespread across bacteria, archaea and tailed bacteriophages. SocA is the antitoxin component of an atypical type II toxin-antitoxin (TA) system which neutralises the toxic activity of toxin SocB by acting as an adapter to promote its degradation by the protease ClpXP.
Pfam PF12864: Protein of unknown function (DUF3822) (family)
This is a family of uncharacterised bacterial proteins. However, structural-similarity searches indicate the family takes on an actin-like ATPase fold.
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 PF12507: Human Cytomegalovirus UL139 protein (family)
This family of proteins is found in eukaryotes and viruses. Proteins in this family are approximately 140 amino acids in length. UL139 product shared sequence homology with human CD24, a signal transducer modulating B-cell activation responses, and the sequences in the G1c variant of UL139 contained a specific attachment site of prokaryotic membrane lipoprotein lipid.
Pfam PF17138: Domain of unknown function (DUF5111) (family)
This family is found immediately downstream of SusE, a putative starch-processing family, [pfam:PF14292]. It is possible that this domain represents a substrate-binding site.
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 PF13867: Sin3 binding region of histone deacetylase complex subunit SAP30 (family)
This C-terminal domain of the SAP30 proteins appears to be the binding region for Sin3.
Pfam PF05364: Salmonella type III secretion SopE effector N-terminus (domain)
Salmonella typhimurium employs a type III secretion system to inject bacterial toxins into the host cell cytosol. These toxins transiently activate Rho family GTP-binding protein-dependent signaling cascades to induce cytoskeletal rearrangements. SopE, one of these toxins, can activate Cdc42 in a Dbl-like fashion via its C-terminal GEP domain [pfam:PF07487]. This family represents the N-terminal region of SopE. The function of this domain is unknown.
Pfam PF23271: Stalled ribosome sensor GCN1-like, HEAT repeats (repeat)
This HEAT repeats are found several times found in human Stalled ribosome sensor GCN1 and similar eukaryotic proteins. GCN1 is a ribosome collision sensor that plays a key role in the RNF14 -RNF25 translation quality control pathway, which occurs when a ribosome has stalled during translation, promoting ubiquitination and degradation of translation factors on stalled ribosomes. The structure of this protein is predicted to be entirely formed by HEAT repeats.
Pfam PF06570: Protein of unknown function (DUF1129) (family)
This family consists of several 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 PF22151: NADH-ubiquinone oxidoreductase NDSU1/NuoG-like, 4Fe-4S domain (domain)
This entry represents the 4Fe-4S domain of NADH-ubiquinone oxidoreductase NDUFS1 from mammals and NuoG from bacteria, which are part of respiratory chain complex I.
Pfam PF06146: Phosphate-starvation-inducible E family (family)
This entry represents an integral membrane protein with 4 transmembrane helices. The second alpha helix contains a conserved glutamic acid residue and the third helix contains a conserved arginine residue. These two buried charged residues may interact. The type example for this family is the Phosphate-starvation-inducible E (PsiE) expression protein, which is under direct positive and negative control by PhoB and cAMP-CRP, respectively.  The function of PsiE remains to be determined. This entry is sometimes found in proteins that contain other domains such as [pfam:PF11563].
Pfam PF18149: N-terminal helicase PWI domain (domain)
This domain is found in spliceosomal RNA helicase Brr2. Brr2 is required for the assembly of a catalytically active spliceosome on a messenger RNA precursor. The domain is found in the N-terminal region and is non-canonically PWI-like. The PWI-like domain is thought to be involved in protein-protein interactions.
Pfam PF18223: Pili PilJ C-terminal domain (domain)
This is the C-terminal domain of PilJ, a Type IV pilin found in gram-positive Clostridium difficile. Incorporation of PilJ into pili exposes the C-terminal domain of PilJ to create a novel interaction surface. This C-terminal domain is not observed in other Type IV pilin proteins.
Pfam PF11483: Protein of unknown function (DUF3209) (family)
This 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 PF00061: Lipocalin / cytosolic fatty-acid binding protein family (domain)
Lipocalins are transporters for small hydrophobic molecules, such as lipids, steroid hormones, bilins, and retinoids. The family also encompasses the enzyme prostaglandin D synthase ([ec:5.3.99.2]). Alignment subsumes both the lipocalin and fatty acid binding protein signatures from PROSITE. This is supported on structural and functional grounds. The structure is an eight-stranded beta barrel.
Wikipedia: The lipocalins are a family of proteins which transport small hydrophobic molecules such as steroids, bilins, retinoids, and lipids, and most lipocalins are also able to bind to complexed iron as well as heme. They share limited regions of sequence homology and a common tertiary structure architecture. This is an eight stranded antiparallel beta barrel with a repeated + 1 topology enclosing an internal ligand binding site.
Pfam PF15840: ADP-ribosylation factor-like protein 17 (family)
ARL17 is a family of proteins found in primates. Proteins in this family are typically between 82 and 130 amino acids in length. Members of this family are also referred to as NBR2 or Neighbour of BRAC1 gene 2.
Pfam PF07063: 2-oxoadipate dioxygenase/decarboxylase (domain)
This entry represents a group of bacterial, fungal and plant sequences, including 2-oxoadipate dioxygenase/decarboxylase (referred to as HGLS and YdcJ) from Escherichia coli. YdcJ, which is involved in D-lysine metabolism, catalyses a successive decarboxylation and intramolecular hydroxylation of 2-oxoadipate forming  2-hydroxyglutarate in a Fe(II) and oxygen-dependent manner. Members of this protein family are thought to belong to the the vicinal oxygen chelate (VOC) superfamily. The structure has been solved (PDB:3iuz, PDB:6w1g).
Pfam PF07573: Nitrogen regulatory protein AreA N terminus (family)
The AreA nitrogen regulatory protein proteins (which are  GATA type transcription factors) share a highly conserved N terminus and [pfam:PF00320] at the C terminus.
Pfam PF22817: ApeP dehydratase (domain)
This entry represents the homologues of ApeP dehydratase. This enzyme forms a heterodimer with ApeI that carries out dehydratation in APE biosynthesis. Both subunits in this complex adopt a typical hotdog fold comprising six antiparallel beta-strands and a central alpha-helix.
Pfam PF04338: Protein of unknown function, DUF481 (family)
This family includes several proteins of uncharacterised 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 PF11675: Protein of unknown function (DUF3271) (family)
This family of proteins with unknown function appears to be restricted to Plasmodium.
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 PF14697: 4Fe-4S dicluster domain (domain)
Superfamily includes proteins containing domains which bind to iron-sulfur clusters. Members include bacterial ferredoxins, various dehydrogenases, and various reductases.  Structure of the domain is an alpha-antiparallel beta sandwich. Domain contains two 4Fe4S clusters.
Pfam PF05556: Calcineurin-binding protein (Calsarcin) (family)
This family consists of several mammalian calcineurin-binding proteins. The calcium- and calmodulin-dependent protein phosphatase calcineurin has been implicated in the transduction of signals that control the hypertrophy of cardiac muscle and slow fibre gene expression in skeletal muscle. Calsarcin-1 and calsarcin-2 are expressed in developing cardiac and skeletal muscle during embryogenesis, but calsarcin-1 is expressed specifically in adult cardiac and slow-twitch skeletal muscle, whereas calsarcin-2 is restricted to fast skeletal muscle. Calsarcins represent a novel family of sarcomeric proteins that link calcineurin with the contractile apparatus, thereby potentially coupling muscle activity to calcineurin activation. Calsarcin-3, is expressed specifically in skeletal muscle and is enriched in fast-twitch muscle fibres. Like calsarcin-1 and calsarcin-2, calsarcin-3 interacts with calcineurin, and the Z-disc proteins alpha-actinin, gamma-filamin, and telethonin.
Pfam PF08646: Replication factor-A C terminal domain (family)
This domain is found at the C terminal of replication factor A. Replication factor A (RPA) binds single-stranded DNA and is involved in replication, repair, and recombination of DNA.
Pfam PF18788: Defence against restriction A N-terminal (family)
This is an alpha and beta fold domain. It has a conserved aspartate, and an asparagine residue followed by a basic residue in a Nx+ motif. This predicted structural domain is mainly found in polyvalent proteins of phages/prophages. The P1 hdf protein, a solo version of the domain, and the Phage P1 DarA protein that contains this domain are components of the phage P1 head. The domain might be involved in a counter-restriction activity.
Pfam PF04544: Herpesvirus egress protein UL20 (family)
UL20 is predicted to be a transmembrane protein with multiple membrane spans.  It is involved in the trans-cellular transport of enveloped virions, and is therefore important for viral egress.  However, UL20 operates in different cellular compartments and different stages of egress in pseudorabies virus and herpes simplex virus.  This is thought to be due to differences in egress pathways between these two viruses.
Pfam PF10968: Protein of unknown function (DUF2770) (family)
Members in this family of proteins are annotated as yceO however currently no function is known.
Wikipedia: A domain of unknown function (DUF) is a protein domain that has no characterised function. These families have been collected together in the Pfam database using the prefix DUF followed by a number, with examples being DUF2992 and DUF1220. As of 2019, there are almost 4,000 DUF families within the Pfam database representing over 22% of known families. Some DUFs are not named using the nomenclature due to popular usage but are nevertheless DUFs.
Pfam PF21233: Ribosomal oxygenase 1, C-terminal winged helix domain (domain)
This domain is found in Ribosomal oxygenase 1 from humans (RIOX1) and similar proteins from animals. RIOX1 catalyse histidine- hydroxylation in ribosomal protein rpL28. The protein shows a JmjC domain followed by an helical dimerization domain and a  C-terminal winged-helix (WH)-domain (this entry).
Pfam PF12533: Neuronal helix-loop-helix transcription factor (family)
This domain family is found in eukaryotes, and is approximately 80 amino acids in length. The family is found C-terminal to [pfam:PF00010]. There is a single completely conserved residue W that may be functionally important. Neuronal basic helix-loop-helix (bHLH) transcription factors such as neuroD and neurogenin have been shown to play important roles in neuronal development.
Pfam PF09669: Phage regulatory protein Rha (Phage_pRha) (family)
Members of this protein family are found in temperate phage and bacterial prophage regions. Members include the product of the rha gene of the lambdoid phage phi-80, a late operon gene. The presence of this gene interferes with infection of bacterial strains that lack integration host factor (IHF), which regulates the rha gene. It is suggested that Rha is a phage regulatory protein.
Pfam PF03202: Putative mycoplasma lipoprotein, C-terminal region (family)
This domain is found along with a central domain (IPR004984) in a group of Mycoplasma lipoproteins of unknown function.